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
AGRN	375790	broad.mit.edu	37	1	979737	979737	+	Silent	SNP	C	T	T			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:979737C>T	uc001ack.1	+	12	2222	c.2172C>T	c.(2170-2172)ACC>ACT	p.T724T		NM_198576	NP_940978	O00468	AGRIN_HUMAN	agrin precursor	724	Kazal-like 8.				axon guidance|clustering of voltage-gated sodium channels|muscarinic acetylcholine receptor signaling pathway|receptor clustering	basal lamina	laminin binding|structural constituent of cytoskeleton			central_nervous_system(2)|breast(1)	3	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)		UCEC - Uterine corpus endometrioid carcinoma (11;0.00462)|Epithelial(90;5.98e-38)|OV - Ovarian serous cystadenocarcinoma(86;5.43e-23)|Colorectal(212;5.97e-05)|COAD - Colon adenocarcinoma(227;0.000201)|Kidney(185;0.0024)|BRCA - Breast invasive adenocarcinoma(365;0.00246)|STAD - Stomach adenocarcinoma(132;0.00645)|KIRC - Kidney renal clear cell carcinoma(229;0.0354)|Lung(427;0.201)		ATGGGGTCACCTACAGCACCG	0.687													6	15	---	---	---	---	PASS
DFFB	1677	broad.mit.edu	37	1	3800107	3800107	+	Silent	SNP	G	T	T	rs144155925		TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:3800107G>T	uc001alc.2	+	7	1142	c.819G>T	c.(817-819)GTG>GTT	p.V273V	DFFB_uc001ale.2_RNA|DFFB_uc009vlp.2_RNA|DFFB_uc001alb.2_RNA|DFFB_uc010nzn.1_Silent_p.V297V|DFFB_uc009vlq.2_RNA|DFFB_uc009vlr.2_Silent_p.V224V|DFFB_uc001ald.2_Silent_p.V209V	NM_004402	NP_004393	O76075	DFFB_HUMAN	DNA fragmentation factor, 40 kD, beta	273					apoptotic chromosome condensation|DNA fragmentation involved in apoptotic nuclear change|intracellular signal transduction	cytosol|nucleoplasm	deoxyribonuclease activity|enzyme binding				0	all_cancers(77;0.0395)|Ovarian(185;0.0634)|all_lung(157;0.222)|Lung NSC(156;0.227)	all_cancers(23;2.05e-30)|all_epithelial(116;6.22e-21)|all_lung(118;2.65e-08)|Lung NSC(185;6.25e-06)|Breast(487;0.000659)|Renal(390;0.00121)|all_neural(13;0.0019)|Hepatocellular(190;0.00705)|Colorectal(325;0.0113)|all_hematologic(16;0.0194)|Myeloproliferative disorder(586;0.0255)|Ovarian(437;0.0308)|Lung SC(97;0.0548)|Medulloblastoma(700;0.211)		Epithelial(90;1.18e-39)|OV - Ovarian serous cystadenocarcinoma(86;7.28e-23)|GBM - Glioblastoma multiforme(42;2.95e-17)|Colorectal(212;1.23e-05)|COAD - Colon adenocarcinoma(227;5.94e-05)|Kidney(185;0.000371)|BRCA - Breast invasive adenocarcinoma(365;0.00038)|KIRC - Kidney renal clear cell carcinoma(229;0.00571)|STAD - Stomach adenocarcinoma(132;0.00645)|Lung(427;0.124)		CTACACTGGTGGAAGCAATTA	0.433													6	129	---	---	---	---	PASS
TMEM201	199953	broad.mit.edu	37	1	9661495	9661495	+	Silent	SNP	G	C	C			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:9661495G>C	uc001apz.2	+	5	951	c.939G>C	c.(937-939)CTG>CTC	p.L313L	TMEM201_uc001apy.2_Silent_p.L313L	NM_001130924	NP_001124396	Q5SNT2	TM201_HUMAN	transmembrane protein 201 isoform 1	313	Helical; (Potential).					integral to membrane|nuclear inner membrane					0	all_lung(157;0.222)	all_epithelial(116;2.09e-14)|Renal(390;0.000469)|all_lung(118;0.000521)|Lung NSC(185;0.000744)|Colorectal(325;0.0062)|Breast(348;0.0157)|Hepatocellular(190;0.0228)|Myeloproliferative disorder(586;0.0393)|Ovarian(437;0.104)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0228)|Colorectal(212;5.5e-08)|COAD - Colon adenocarcinoma(227;1.36e-05)|Kidney(185;0.000249)|KIRC - Kidney renal clear cell carcinoma(229;0.000911)|BRCA - Breast invasive adenocarcinoma(304;0.00185)|STAD - Stomach adenocarcinoma(132;0.00345)|READ - Rectum adenocarcinoma(331;0.0419)		TGGCAATGCTGCTGGCTGGCC	0.667													6	25	---	---	---	---	PASS
CASZ1	54897	broad.mit.edu	37	1	10720208	10720208	+	Silent	SNP	G	A	A			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:10720208G>A	uc001aro.2	-	6	1211	c.891C>T	c.(889-891)CAC>CAT	p.H297H	CASZ1_uc001arp.1_Silent_p.H297H|CASZ1_uc009vmx.2_Silent_p.H321H|CASZ1_uc001arq.1_Silent_p.H156H	NM_001079843	NP_001073312	Q86V15	CASZ1_HUMAN	castor homolog 1, zinc finger isoform a	297					regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasm|nucleus	DNA binding|zinc ion binding			skin(1)	1	Ovarian(185;0.203)|all_lung(157;0.204)	Lung NSC(185;4.96e-06)|all_lung(284;1.22e-05)|Renal(390;0.000147)|Breast(348;0.00093)|Colorectal(325;0.00212)|Hepatocellular(190;0.00913)|Ovarian(437;0.0229)|Myeloproliferative disorder(586;0.0255)	STAD - Stomach adenocarcinoma(5;0.0224)	UCEC - Uterine corpus endometrioid carcinoma (279;0.0265)|Colorectal(212;3.54e-08)|COAD - Colon adenocarcinoma(227;9.56e-06)|BRCA - Breast invasive adenocarcinoma(304;0.000219)|Kidney(185;0.00142)|KIRC - Kidney renal clear cell carcinoma(229;0.00381)|READ - Rectum adenocarcinoma(331;0.0419)|STAD - Stomach adenocarcinoma(132;0.0623)		GGACACTGCTGTGCGACGGCA	0.657													37	46	---	---	---	---	PASS
MTOR	2475	broad.mit.edu	37	1	11297904	11297904	+	Missense_Mutation	SNP	A	C	C			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:11297904A>C	uc001asd.2	-	13	2325	c.2204T>G	c.(2203-2205)ATC>AGC	p.I735S		NM_004958	NP_004949	P42345	MTOR_HUMAN	FK506 binding protein 12-rapamycin associated	735					cell growth|cellular response to hypoxia|insulin receptor signaling pathway|nerve growth factor receptor signaling pathway|peptidyl-serine phosphorylation|phosphatidylinositol-mediated signaling|protein autophosphorylation|protein catabolic process|response to amino acid stimulus|response to nutrient|T cell costimulation|TOR signaling cascade	endoplasmic reticulum membrane|Golgi membrane|lysosome|mitochondrial outer membrane|phosphatidylinositol 3-kinase complex|PML body|TORC1 complex|TORC2 complex	ATP binding|phosphoprotein binding|protein serine/threonine kinase activity			central_nervous_system(7)|lung(6)|ovary(6)|skin(3)|kidney(3)|large_intestine(2)|breast(2)	29						GGTTACCTGGATGAGCATCTT	0.577													13	49	---	---	---	---	PASS
PADI3	51702	broad.mit.edu	37	1	17593278	17593278	+	Missense_Mutation	SNP	A	C	C			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:17593278A>C	uc001bai.2	+	5	513	c.473A>C	c.(472-474)GAT>GCT	p.D158A		NM_016233	NP_057317	Q9ULW8	PADI3_HUMAN	peptidyl arginine deiminase, type III	158					peptidyl-citrulline biosynthetic process from peptidyl-arginine	cytoplasm	calcium ion binding|protein-arginine deiminase activity			ovary(1)|breast(1)	2		Colorectal(325;3.46e-05)|Breast(348;0.000162)|all_lung(284;0.000337)|Lung NSC(340;0.000419)|Renal(390;0.000518)|Ovarian(437;0.00409)|Myeloproliferative disorder(586;0.0255)		UCEC - Uterine corpus endometrioid carcinoma (279;0.00488)|BRCA - Breast invasive adenocarcinoma(304;1.17e-05)|COAD - Colon adenocarcinoma(227;1.18e-05)|Kidney(64;0.000186)|KIRC - Kidney renal clear cell carcinoma(64;0.00272)|STAD - Stomach adenocarcinoma(196;0.00656)|READ - Rectum adenocarcinoma(331;0.0655)|Lung(427;0.189)	L-Citrulline(DB00155)	GACCGTGATGATCCGAGCTGT	0.607													12	56	---	---	---	---	PASS
USP48	84196	broad.mit.edu	37	1	22021658	22021658	+	Silent	SNP	T	C	C			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:22021658T>C	uc001bfb.2	-	23	3022	c.2784A>G	c.(2782-2784)CAA>CAG	p.Q928Q	USP48_uc001bfa.2_Intron|USP48_uc010odq.1_Silent_p.Q940Q|USP48_uc009vqc.2_Silent_p.Q862Q|USP48_uc001bfc.2_Intron|USP48_uc001bfd.1_Silent_p.Q53Q	NM_032236	NP_115612	Q86UV5	UBP48_HUMAN	ubiquitin specific protease 48 isoform a	928					ubiquitin-dependent protein catabolic process	mitochondrion|nucleus	cysteine-type peptidase activity|ubiquitin thiolesterase activity			ovary(1)|lung(1)	2		Colorectal(325;3.46e-05)|all_lung(284;4.29e-05)|Lung NSC(340;4.66e-05)|Renal(390;0.000219)|Breast(348;0.00222)|Ovarian(437;0.00308)|Myeloproliferative disorder(586;0.0255)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0182)|OV - Ovarian serous cystadenocarcinoma(117;4.74e-26)|COAD - Colon adenocarcinoma(152;1.3e-05)|GBM - Glioblastoma multiforme(114;1.86e-05)|BRCA - Breast invasive adenocarcinoma(304;0.000614)|STAD - Stomach adenocarcinoma(196;0.00644)|KIRC - Kidney renal clear cell carcinoma(1967;0.00711)|Lung(427;0.0327)|READ - Rectum adenocarcinoma(331;0.0657)|LUSC - Lung squamous cell carcinoma(448;0.0753)		TAACTTGCTTTTGATAGGCTA	0.368													14	57	---	---	---	---	PASS
PUM1	9698	broad.mit.edu	37	1	31418279	31418279	+	Missense_Mutation	SNP	G	C	C			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:31418279G>C	uc001bsi.1	-	18	3015	c.2902C>G	c.(2902-2904)CAG>GAG	p.Q968E	PUM1_uc001bsf.1_Missense_Mutation_p.Q636E|PUM1_uc001bsg.1_Missense_Mutation_p.Q702E|PUM1_uc001bsh.1_Missense_Mutation_p.Q970E|PUM1_uc001bsj.1_Missense_Mutation_p.Q944E|PUM1_uc010oga.1_Missense_Mutation_p.Q826E|PUM1_uc001bsk.1_Missense_Mutation_p.Q1006E|PUM1_uc010ogb.1_Missense_Mutation_p.Q909E|SNORD103A_uc009vts.1_Intron	NM_014676	NP_055491	Q14671	PUM1_HUMAN	pumilio 1 isoform 2	968	PUM-HD.|Pumilio 4.				cellular membrane organization|post-Golgi vesicle-mediated transport|regulation of translation	cytosol	RNA binding			ovary(1)|central_nervous_system(1)|pancreas(1)	3		Colorectal(325;0.0211)|Myeloproliferative disorder(586;0.0255)|Ovarian(437;0.0308)|all_neural(195;0.0381)|Breast(348;0.0848)|Medulloblastoma(700;0.123)		STAD - Stomach adenocarcinoma(196;0.0232)|READ - Rectum adenocarcinoma(331;0.0681)		TTGCCATTCTGATCTTTCACA	0.443													9	47	---	---	---	---	PASS
KHDRBS1	10657	broad.mit.edu	37	1	32502535	32502535	+	Missense_Mutation	SNP	G	C	C			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:32502535G>C	uc001bub.2	+	5	902	c.796G>C	c.(796-798)GAG>CAG	p.E266Q	KHDRBS1_uc001bua.1_Missense_Mutation_p.E227Q|KHDRBS1_uc001buc.1_RNA	NM_006559	NP_006550	Q07666	KHDR1_HUMAN	KH domain containing, RNA binding, signal	266					cell cycle arrest|cell proliferation|cell surface receptor linked signaling pathway|G2/M transition of mitotic cell cycle|mRNA processing|negative regulation of transcription, DNA-dependent|regulation of RNA export from nucleus|transcription, DNA-dependent	membrane|nucleus	DNA binding|RNA binding|SH3 domain binding|SH3/SH2 adaptor activity			ovary(1)	1		Myeloproliferative disorder(586;0.0393)|all_neural(195;0.186)				TATCTGTCAGGAGCAATTTCT	0.512													16	64	---	---	---	---	PASS
CSMD2	114784	broad.mit.edu	37	1	34008457	34008457	+	Missense_Mutation	SNP	C	A	A			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:34008457C>A	uc001bxn.1	-	57	8737	c.8708G>T	c.(8707-8709)CGA>CTA	p.R2903L	CSMD2_uc001bxm.1_Missense_Mutation_p.R3047L	NM_052896	NP_443128	Q7Z408	CSMD2_HUMAN	CUB and Sushi multiple domains 2	2903	Sushi 21.|Extracellular (Potential).					integral to membrane|plasma membrane	protein binding			ovary(6)|skin(5)|pancreas(1)	12		Myeloproliferative disorder(586;0.0294)|all_neural(195;0.249)				GAACACAACTCGGGCATTACT	0.517													4	38	---	---	---	---	PASS
OSCP1	127700	broad.mit.edu	37	1	36886200	36886200	+	Missense_Mutation	SNP	T	A	A			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:36886200T>A	uc001cap.2	-	9	948	c.866A>T	c.(865-867)AAC>ATC	p.N289I	OSCP1_uc001caq.2_Missense_Mutation_p.N279I	NM_145047	NP_659484	Q8WVF1	OSCP1_HUMAN	oxidored-nitro domain-containing protein isoform	289					transport	basal plasma membrane				ovary(2)|central_nervous_system(1)|pancreas(1)	4						AGCAAGAGGGTTTGGAGCAAT	0.468											OREG0013368	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	42	219	---	---	---	---	PASS
MACF1	23499	broad.mit.edu	37	1	39898246	39898246	+	Missense_Mutation	SNP	G	A	A			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:39898246G>A	uc010oiu.1	+	31	12828	c.12697G>A	c.(12697-12699)GAA>AAA	p.E4233K	MACF1_uc010ois.1_Missense_Mutation_p.E3731K|MACF1_uc001cda.1_Missense_Mutation_p.E3618K|MACF1_uc001cdc.1_Missense_Mutation_p.E2688K	NM_033044	NP_149033	Q9UPN3	MACF1_HUMAN	microfilament and actin filament cross-linker	5798	Spectrin 9.				cell cycle arrest|Golgi to plasma membrane protein transport|positive regulation of Wnt receptor signaling pathway|regulation of epithelial cell migration|regulation of focal adhesion assembly|regulation of microtubule-based process|Wnt receptor signaling pathway|wound healing	Golgi apparatus|microtubule|ruffle membrane	actin filament binding|ATPase activity|calcium ion binding|microtubule binding			ovary(8)|breast(3)|central_nervous_system(3)|skin(2)	16	Lung NSC(20;5.57e-06)|Ovarian(52;0.00769)|Acute lymphoblastic leukemia(166;0.074)	Myeloproliferative disorder(586;0.0255)	OV - Ovarian serous cystadenocarcinoma(33;7.78e-19)|Epithelial(16;1.73e-17)|all cancers(16;2.49e-16)|LUSC - Lung squamous cell carcinoma(16;0.00146)|Lung(16;0.00204)			TTGGGTTGCTGAAACAAAACG	0.453													9	25	---	---	---	---	PASS
COL9A2	1298	broad.mit.edu	37	1	40777194	40777194	+	Missense_Mutation	SNP	A	T	T			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:40777194A>T	uc001cfh.1	-	10	567	c.497T>A	c.(496-498)CTG>CAG	p.L166Q	COL9A2_uc001cfi.1_5'UTR	NM_001852	NP_001843	Q14055	CO9A2_HUMAN	alpha 2 type IX collagen precursor	166	Nonhelical region 4 (NC4).				axon guidance|skeletal system development	collagen type IX				ovary(2)	2	Lung NSC(20;4.38e-06)|Ovarian(52;0.00167)|all_hematologic(146;0.0501)|Acute lymphoblastic leukemia(166;0.074)	Myeloproliferative disorder(586;0.0255)	OV - Ovarian serous cystadenocarcinoma(33;2.08e-17)			ACTGCCTTCCAGACCCTGGAT	0.647													15	67	---	---	---	---	PASS
YBX1	4904	broad.mit.edu	37	1	43162554	43162554	+	Missense_Mutation	SNP	G	T	T			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:43162554G>T	uc001chs.2	+	5	767	c.596G>T	c.(595-597)CGG>CTG	p.R199L		NM_004559	NP_004550	P67809	YBOX1_HUMAN	nuclease sensitive element binding protein 1	199					CRD-mediated mRNA stabilization|negative regulation of transcription, DNA-dependent|nuclear mRNA splicing, via spliceosome|positive regulation of cell division|transcription from RNA polymerase II promoter	CRD-mediated mRNA stability complex|extracellular region|histone pre-mRNA 3'end processing complex|nucleoplasm|stress granule|U12-type spliceosomal complex	double-stranded DNA binding|protein binding|RNA binding|sequence-specific DNA binding transcription factor activity|single-stranded DNA binding			ovary(4)|upper_aerodigestive_tract(1)	5	Ovarian(52;0.00744)|all_hematologic(146;0.0977)|Acute lymphoblastic leukemia(166;0.155)	Myeloproliferative disorder(586;0.0333)				TACTACATGCGGAGACCCTAT	0.557													3	14	---	---	---	---	PASS
RNF220	55182	broad.mit.edu	37	1	45101781	45101781	+	Missense_Mutation	SNP	G	T	T			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:45101781G>T	uc001clv.1	+	8	1433	c.1073G>T	c.(1072-1074)TGG>TTG	p.W358L	RNF220_uc001clw.1_Missense_Mutation_p.W358L|RNF220_uc010okx.1_Missense_Mutation_p.W119L|RNF220_uc010oky.1_Missense_Mutation_p.W145L|RNF220_uc010okz.1_Missense_Mutation_p.W100L|RNF220_uc001clx.1_Missense_Mutation_p.W74L|RNF220_uc001cly.1_Missense_Mutation_p.W37L|RNF220_uc001clz.1_Missense_Mutation_p.W37L|RNF220_uc001cma.1_Missense_Mutation_p.W37L|TMEM53_uc001cmb.1_3'UTR	NM_018150	NP_060620	Q5VTB9	RN220_HUMAN	ring finger protein 220	358					protein autoubiquitination	cytoplasm	ubiquitin-protein ligase activity|zinc ion binding			ovary(2)	2						GAGTATGAGTGGTGTGGACAG	0.562													8	160	---	---	---	---	PASS
EIF2B3	8891	broad.mit.edu	37	1	45340357	45340357	+	Missense_Mutation	SNP	C	G	G			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:45340357C>G	uc001cmt.1	-	10	1322	c.1195G>C	c.(1195-1197)GAG>CAG	p.E399Q	EIF2B3_uc001cmu.1_Missense_Mutation_p.E399Q|EIF2B3_uc001cmv.1_Missense_Mutation_p.E373Q|EIF2B3_uc001cmw.2_Missense_Mutation_p.E399Q	NM_020365	NP_065098	Q9NR50	EI2BG_HUMAN	eukaryotic translation initiation factor 2B,	399					negative regulation of translational initiation in response to stress|oligodendrocyte development|response to glucose stimulus|response to heat|response to peptide hormone stimulus	cytosol|eukaryotic translation initiation factor 2B complex	nucleotidyltransferase activity|protein binding|translation initiation factor activity			ovary(1)	1	Acute lymphoblastic leukemia(166;0.155)					TACCCTTCCTCCACAGTGACT	0.284													16	67	---	---	---	---	PASS
PPAP2B	8613	broad.mit.edu	37	1	57044613	57044613	+	Missense_Mutation	SNP	G	T	T			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:57044613G>T	uc001cyj.1	-	2	578	c.77C>A	c.(76-78)CCG>CAG	p.P26Q		NM_177414	NP_803133	O14495	LPP3_HUMAN	phosphatidic acid phosphatase type 2B	26	Cytoplasmic (Potential).				canonical Wnt receptor signaling pathway involved in positive regulation of cell-cell adhesion|canonical Wnt receptor signaling pathway involved in positive regulation of endothelial cell migration|canonical Wnt receptor signaling pathway involved in positive regulation of wound healing|germ cell migration|homotypic cell-cell adhesion|negative regulation of protein phosphorylation|positive regulation of sequence-specific DNA binding transcription factor activity|protein stabilization|sphingolipid metabolic process	adherens junction|Golgi apparatus|integral to membrane	phosphatidate phosphatase activity|phosphoprotein phosphatase activity|protein binding|sphingosine-1-phosphate phosphatase activity				0						GCTCCTCCTCGGGTTGTTGTT	0.667													3	12	---	---	---	---	PASS
C8B	732	broad.mit.edu	37	1	57415411	57415411	+	Silent	SNP	G	A	A	rs138606922	byFrequency	TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:57415411G>A	uc001cyp.2	-	6	748	c.681C>T	c.(679-681)TAC>TAT	p.Y227Y	C8B_uc010oon.1_Silent_p.Y165Y|C8B_uc010ooo.1_Silent_p.Y175Y	NM_000066	NP_000057	P07358	CO8B_HUMAN	complement component 8, beta polypeptide	227	MACPF.				complement activation, alternative pathway|complement activation, classical pathway|cytolysis	membrane attack complex				central_nervous_system(2)|large_intestine(1)|ovary(1)	4						ATATGAATTCGTATTTGCCTT	0.284													9	19	---	---	---	---	PASS
KANK4	163782	broad.mit.edu	37	1	62739162	62739162	+	Silent	SNP	G	T	T			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:62739162G>T	uc001dah.3	-	3	1991	c.1614C>A	c.(1612-1614)ACC>ACA	p.T538T	KANK4_uc001dai.3_Intron|KANK4_uc001dag.3_5'Flank	NM_181712	NP_859063	Q5T7N3	KANK4_HUMAN	ankyrin repeat domain 38	538										ovary(3)|skin(2)|lung(1)	6						GATTGGAACTGGTCTCCTCCC	0.612													22	14	---	---	---	---	PASS
UBE2U	148581	broad.mit.edu	37	1	64669723	64669723	+	5'UTR	SNP	C	T	T			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:64669723C>T	uc001dbn.1	+	1						NM_152489	NP_689702	Q5VVX9	UBE2U_HUMAN	ubiquitin-conjugating enzyme E2U (putative)								ATP binding|protein binding|ubiquitin-protein ligase activity				0						TCAGACCCTCCGCTGCCTATC	0.463													15	24	---	---	---	---	PASS
SGIP1	84251	broad.mit.edu	37	1	67138998	67138998	+	Missense_Mutation	SNP	C	T	T			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:67138998C>T	uc001dcr.2	+	12	812	c.595C>T	c.(595-597)CCT>TCT	p.P199S	SGIP1_uc010opd.1_5'UTR|SGIP1_uc001dcs.2_5'UTR|SGIP1_uc001dct.2_5'UTR|uc010ope.1_Intron|SGIP1_uc009wat.2_5'UTR	NM_032291	NP_115667	Q9BQI5	SGIP1_HUMAN	SH3-domain GRB2-like (endophilin) interacting	199	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						GGCCCTTGCTCCTCTCTTTGG	0.358													32	141	---	---	---	---	PASS
RPE65	6121	broad.mit.edu	37	1	68903988	68903988	+	Missense_Mutation	SNP	A	C	C			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:68903988A>C	uc001dei.1	-	10	1064	c.1010T>G	c.(1009-1011)GTT>GGT	p.V337G		NM_000329	NP_000320	Q16518	RPE65_HUMAN	retinal pigment epithelium-specific protein	337					visual perception	cytoplasm|plasma membrane	all-trans-retinyl-palmitate hydrolase activity|metal ion binding|retinol isomerase activity			ovary(1)	1						GTAATTATAAACAAACTCAAA	0.353													8	13	---	---	---	---	PASS
LRRC7	57554	broad.mit.edu	37	1	70503946	70503946	+	Missense_Mutation	SNP	C	A	A			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:70503946C>A	uc001dep.2	+	19	2355	c.2325C>A	c.(2323-2325)GAC>GAA	p.D775E	LRRC7_uc009wbg.2_Missense_Mutation_p.D59E|LRRC7_uc001deq.2_Missense_Mutation_p.D16E	NM_020794	NP_065845	Q96NW7	LRRC7_HUMAN	leucine rich repeat containing 7	775						centrosome|focal adhesion|nucleolus	protein binding			ovary(9)|breast(2)|central_nervous_system(2)|liver(1)	14						CGCATTATGACAACACAGGGT	0.517													39	50	---	---	---	---	PASS
ANKRD13C	81573	broad.mit.edu	37	1	70766596	70766596	+	Intron	SNP	G	A	A			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:70766596G>A	uc001dex.3	-						ANKRD13C_uc009wbk.2_Intron	NM_030816	NP_110443	Q8N6S4	AN13C_HUMAN	ankyrin repeat domain 13C						protein retention in ER lumen|regulation of anoikis|regulation of receptor biosynthetic process	endoplasmic reticulum membrane|perinuclear region of cytoplasm	receptor binding				0						TCAAGCCTGTGAAACATGGGT	0.368													14	48	---	---	---	---	PASS
TNNI3K	51086	broad.mit.edu	37	1	74836026	74836026	+	Missense_Mutation	SNP	G	T	T			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:74836026G>T	uc001dgf.1	+	17	1773	c.1722G>T	c.(1720-1722)ATG>ATT	p.M574I	TNNI3K_uc001dgc.1_Missense_Mutation_p.M675I|TNNI3K_uc001dgd.2_Missense_Mutation_p.M675I|TNNI3K_uc001dge.1_Missense_Mutation_p.M675I	NM_015978	NP_057062	Q59H18	TNI3K_HUMAN	TNNI3 interacting kinase isoform b	574	Protein kinase.					cytoplasm|nucleus	ATP binding|metal ion binding|protein C-terminus binding|protein serine/threonine kinase activity|troponin I binding			large_intestine(4)|lung(3)|ovary(2)|upper_aerodigestive_tract(1)	10						CCAAAGGCATGGAGTACCTTC	0.348													4	18	---	---	---	---	PASS
LHX8	431707	broad.mit.edu	37	1	75622726	75622726	+	Missense_Mutation	SNP	G	T	T			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:75622726G>T	uc001dgo.2	+	9	1623	c.959G>T	c.(958-960)GGA>GTA	p.G320V	LHX8_uc001dgq.2_Missense_Mutation_p.G259V	NM_001001933	NP_001001933	Q68G74	LHX8_HUMAN	LIM homeobox 8	320						nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(3)	3						CCCCAAGATGGAACGATGTTA	0.478													19	38	---	---	---	---	PASS
ZNF326	284695	broad.mit.edu	37	1	90482967	90482967	+	Missense_Mutation	SNP	T	G	G			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:90482967T>G	uc001dnq.2	+	8	1157	c.1018T>G	c.(1018-1020)TTA>GTA	p.L340V	ZNF326_uc009wda.1_Missense_Mutation_p.L251V|ZNF326_uc001dnr.2_Missense_Mutation_p.L134V	NM_182976	NP_892021	Q5BKZ1	ZN326_HUMAN	zinc finger protein 326 isoform 1	340					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nuclear matrix	DNA binding			ovary(1)	1		all_lung(203;0.0116)|Lung NSC(277;0.0417)		all cancers(265;0.00728)|Epithelial(280;0.0265)		TCAGGAAACATTAGATCATAT	0.299													8	33	---	---	---	---	PASS
SLC44A3	126969	broad.mit.edu	37	1	95294132	95294132	+	Missense_Mutation	SNP	G	T	T			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:95294132G>T	uc001dqv.3	+	5	606	c.499G>T	c.(499-501)GTT>TTT	p.V167F	SLC44A3_uc001dqx.3_Missense_Mutation_p.V167F|SLC44A3_uc010otq.1_Missense_Mutation_p.V99F|SLC44A3_uc010otr.1_Missense_Mutation_p.V131F|SLC44A3_uc001dqw.3_Missense_Mutation_p.V119F|SLC44A3_uc010ots.1_Missense_Mutation_p.V87F|SLC44A3_uc009wds.2_Missense_Mutation_p.V70F|SLC44A3_uc010ott.1_Missense_Mutation_p.V87F|SLC44A3_uc010otu.1_RNA	NM_001114106	NP_001107578	Q8N4M1	CTL3_HUMAN	solute carrier family 44, member 3 isoform 1	167						integral to membrane|plasma membrane	choline transmembrane transporter activity			kidney(1)	1		all_lung(203;0.000712)|Lung NSC(277;0.00316)		all cancers(265;0.039)|Epithelial(280;0.124)	Choline(DB00122)	CAGGCTACCAGTTCCTCCAAG	0.294													4	72	---	---	---	---	PASS
DBT	1629	broad.mit.edu	37	1	100681747	100681747	+	Silent	SNP	C	T	T			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:100681747C>T	uc001dta.2	-	6	597	c.564G>A	c.(562-564)CTG>CTA	p.L188L	DBT_uc010oug.1_Silent_p.L7L	NM_001918	NP_001909	P11182	ODB2_HUMAN	dihydrolipoamide branched chain transacylase	188					branched chain family amino acid catabolic process|fatty-acyl-CoA biosynthetic process	microtubule cytoskeleton|mitochondrial alpha-ketoglutarate dehydrogenase complex|mitochondrial nucleoid	acyltransferase activity|cofactor binding|dihydrolipoyllysine-residue (2-methylpropanoyl)transferase activity|protein binding			pancreas(1)	1		all_epithelial(167;5.4e-06)|all_lung(203;0.00125)|Lung NSC(277;0.00131)		Epithelial(280;0.0739)|all cancers(265;0.123)|COAD - Colon adenocarcinoma(174;0.154)|Lung(183;0.199)		CAACTTCACTCAGCTTAATCT	0.313													10	36	---	---	---	---	PASS
COL11A1	1301	broad.mit.edu	37	1	103380328	103380328	+	Missense_Mutation	SNP	G	A	A			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:103380328G>A	uc001dul.2	-	51	4174	c.3856C>T	c.(3856-3858)CCA>TCA	p.P1286S	COL11A1_uc001duk.2_Missense_Mutation_p.P482S|COL11A1_uc001dum.2_Missense_Mutation_p.P1298S|COL11A1_uc001dun.2_Missense_Mutation_p.P1247S|COL11A1_uc009weh.2_Missense_Mutation_p.P1170S	NM_001854	NP_001845	P12107	COBA1_HUMAN	alpha 1 type XI collagen isoform A	1286	Triple-helical region.				collagen fibril organization|detection of mechanical stimulus involved in sensory perception of sound|visual perception	collagen type XI	extracellular matrix binding|extracellular matrix structural constituent|protein binding, bridging			ovary(6)|breast(3)|upper_aerodigestive_tract(1)|central_nervous_system(1)|pancreas(1)	12		all_epithelial(167;2.52e-07)|all_lung(203;3.11e-05)|Lung NSC(277;6.61e-05)|Breast(1374;0.181)		Lung(183;0.186)|all cancers(265;0.242)|Epithelial(280;0.248)		GCTCCAGGTGGACCAGCTTCC	0.473													4	13	---	---	---	---	PASS
COL11A1	1301	broad.mit.edu	37	1	103471654	103471654	+	Silent	SNP	T	C	C			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:103471654T>C	uc001dul.2	-	17	2079	c.1761A>G	c.(1759-1761)GGA>GGG	p.G587G	COL11A1_uc001duk.2_5'UTR|COL11A1_uc001dum.2_Silent_p.G599G|COL11A1_uc001dun.2_Silent_p.G548G|COL11A1_uc009weh.2_Silent_p.G471G	NM_001854	NP_001845	P12107	COBA1_HUMAN	alpha 1 type XI collagen isoform A	587	Triple-helical region.				collagen fibril organization|detection of mechanical stimulus involved in sensory perception of sound|visual perception	collagen type XI	extracellular matrix binding|extracellular matrix structural constituent|protein binding, bridging			ovary(6)|breast(3)|upper_aerodigestive_tract(1)|central_nervous_system(1)|pancreas(1)	12		all_epithelial(167;2.52e-07)|all_lung(203;3.11e-05)|Lung NSC(277;6.61e-05)|Breast(1374;0.181)		Lung(183;0.186)|all cancers(265;0.242)|Epithelial(280;0.248)		GCATTCCTCTTCCTCCATCTG	0.363													8	32	---	---	---	---	PASS
GSTM5	2949	broad.mit.edu	37	1	110255769	110255769	+	Silent	SNP	G	T	T			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:110255769G>T	uc001dyn.2	+	3	212	c.141G>T	c.(139-141)CTG>CTT	p.L47L	GSTM5_uc010ovu.1_5'UTR	NM_000851	NP_000842	P46439	GSTM5_HUMAN	glutathione S-transferase mu 5	47	Glutathione binding (By similarity).|GST N-terminal.				xenobiotic metabolic process	endoplasmic reticulum membrane	glutathione transferase activity			central_nervous_system(6)	6		all_epithelial(167;2.5e-05)|all_lung(203;0.000135)|Lung NSC(277;0.000269)|Breast(1374;0.244)		Colorectal(144;0.0131)|all cancers(265;0.0252)|Epithelial(280;0.0265)|Lung(183;0.0425)|COAD - Colon adenocarcinoma(174;0.0474)|LUSC - Lung squamous cell carcinoma(189;0.228)	Glutathione(DB00143)	GCCAGTGGCTGAATGAAAAAT	0.567													16	34	---	---	---	---	PASS
ZNF697	90874	broad.mit.edu	37	1	120165764	120165764	+	Missense_Mutation	SNP	C	T	T			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:120165764C>T	uc001ehy.1	-	3	1316	c.1202G>A	c.(1201-1203)CGC>CAC	p.R401H		NM_001080470	NP_001073939	Q5TEC3	ZN697_HUMAN	zinc finger protein 697	401	C2H2-type 6.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(1)	1	all_neural(166;0.219)	all_lung(203;3.66e-05)|Lung NSC(69;0.000202)|all_epithelial(167;0.0266)		Lung(183;0.011)|LUSC - Lung squamous cell carcinoma(189;0.0577)		CGTGTGCACGCGCTGGTGCTT	0.667													6	9	---	---	---	---	PASS
ANKRD34A	284615	broad.mit.edu	37	1	145474241	145474241	+	Missense_Mutation	SNP	G	C	C			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:145474241G>C	uc001enq.1	+	4	2206	c.913G>C	c.(913-915)GTG>CTG	p.V305L	NBPF10_uc001emp.3_Intron|LIX1L_uc001enr.2_5'Flank	NM_001039888	NP_001034977	Q69YU3	AN34A_HUMAN	ankyrin repeat domain 34	305	Pro-rich.										0	all_hematologic(18;0.0187)|Acute lymphoblastic leukemia(18;0.0786)					GGCGGAGAAAGTGACTAGCGG	0.637													6	38	---	---	---	---	PASS
BOLA1	51027	broad.mit.edu	37	1	149871805	149871805	+	Missense_Mutation	SNP	G	A	A			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:149871805G>A	uc001etf.2	+	2	314	c.193G>A	c.(193-195)GAG>AAG	p.E65K		NM_016074	NP_057158	Q9Y3E2	BOLA1_HUMAN	bolA-like 1	65						extracellular region	protein binding			ovary(1)	1	Breast(34;0.0124)|all_hematologic(923;0.127)		STAD - Stomach adenocarcinoma(528;0.133)|LUSC - Lung squamous cell carcinoma(543;0.221)			GCCTGGCAGTGAGACTCACTT	0.677													7	17	---	---	---	---	PASS
FLG	2312	broad.mit.edu	37	1	152281417	152281417	+	Missense_Mutation	SNP	G	T	T			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:152281417G>T	uc001ezu.1	-	3	5981	c.5945C>A	c.(5944-5946)ACA>AAA	p.T1982K		NM_002016	NP_002007	P20930	FILA_HUMAN	filaggrin	1982	Ser-rich.				keratinocyte differentiation	cytoplasmic membrane-bounded vesicle|intermediate filament	calcium ion binding|structural molecule activity			ovary(9)|skin(4)|upper_aerodigestive_tract(3)	16	Hepatocellular(266;0.0877)|Melanoma(130;0.116)|all_hematologic(923;0.127)		LUSC - Lung squamous cell carcinoma(543;0.206)			GGAAGACTCTGTGTGACGAGT	0.572									Ichthyosis				190	209	---	---	---	---	PASS
FLG	2312	broad.mit.edu	37	1	152285257	152285257	+	Nonsense_Mutation	SNP	G	C	C			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:152285257G>C	uc001ezu.1	-	3	2141	c.2105C>G	c.(2104-2106)TCA>TGA	p.S702*	uc001ezv.2_5'Flank	NM_002016	NP_002007	P20930	FILA_HUMAN	filaggrin	702	Filaggrin 4.|Ser-rich.				keratinocyte differentiation	cytoplasmic membrane-bounded vesicle|intermediate filament	calcium ion binding|structural molecule activity			ovary(9)|skin(4)|upper_aerodigestive_tract(3)	16	Hepatocellular(266;0.0877)|Melanoma(130;0.116)|all_hematologic(923;0.127)		LUSC - Lung squamous cell carcinoma(543;0.206)			TCCTGCACTTGATCTTGCCTG	0.552									Ichthyosis				191	247	---	---	---	---	PASS
YY1AP1	55249	broad.mit.edu	37	1	155629621	155629621	+	Missense_Mutation	SNP	C	T	T			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:155629621C>T	uc001fln.2	-	11	2242	c.2218G>A	c.(2218-2220)GAG>AAG	p.E740K	YY1AP1_uc001flg.2_Missense_Mutation_p.E479K|YY1AP1_uc010pgg.1_Missense_Mutation_p.E579K|YY1AP1_uc010pgh.1_Missense_Mutation_p.E683K|YY1AP1_uc010pgi.1_Missense_Mutation_p.E832K|YY1AP1_uc001flh.2_Missense_Mutation_p.E812K|YY1AP1_uc009wqt.2_Missense_Mutation_p.E663K|YY1AP1_uc001flk.2_Missense_Mutation_p.E683K|YY1AP1_uc001fll.2_Missense_Mutation_p.E694K|YY1AP1_uc009wqv.2_Missense_Mutation_p.E411K|YY1AP1_uc001flm.2_Missense_Mutation_p.E683K|YY1AP1_uc001fli.2_Missense_Mutation_p.E694K|YY1AP1_uc009wqu.2_Missense_Mutation_p.E527K|YY1AP1_uc001flj.2_Missense_Mutation_p.E674K|YY1AP1_uc009wqw.2_Missense_Mutation_p.E663K|YY1AP1_uc001flo.2_Missense_Mutation_p.E628K|YY1AP1_uc001flp.2_Missense_Mutation_p.E694K	NM_139118	NP_620829	Q9H869	YYAP1_HUMAN	YY1-associated protein isoform 2	740					regulation of cell cycle|regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasm|nucleus	protein binding			ovary(2)|skin(1)	3	Hepatocellular(266;0.0997)|all_hematologic(923;0.145)					GCACTGTTCTCTGACAATCCT	0.537													18	61	---	---	---	---	PASS
TMEM79	84283	broad.mit.edu	37	1	156256056	156256056	+	Missense_Mutation	SNP	C	A	A			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:156256056C>A	uc010phi.1	+	3	959	c.763C>A	c.(763-765)CTG>ATG	p.L255M	TMEM79_uc001fod.2_Missense_Mutation_p.L96M|TMEM79_uc009wrw.2_Missense_Mutation_p.L255M	NM_032323	NP_115699	Q9BSE2	TMM79_HUMAN	transmembrane protein 79	255	Helical; (Potential).					integral to membrane				central_nervous_system(1)	1	Hepatocellular(266;0.158)					CCCAGGGATCCTGGTGTACGG	0.607													5	53	---	---	---	---	PASS
OR10J5	127385	broad.mit.edu	37	1	159504988	159504988	+	Missense_Mutation	SNP	G	T	T			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:159504988G>T	uc010piw.1	-	1	810	c.810C>A	c.(808-810)GAC>GAA	p.D270E		NM_001004469	NP_001004469	Q8NHC4	O10J5_HUMAN	olfactory receptor, family 10, subfamily J,	270	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			skin(2)|ovary(1)	3	all_hematologic(112;0.0429)					AGAGAACAAGGTCTTTTTCTA	0.483													15	24	---	---	---	---	PASS
ITLN2	142683	broad.mit.edu	37	1	160920480	160920480	+	Missense_Mutation	SNP	G	C	C			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:160920480G>C	uc001fxd.2	-	5	521	c.463C>G	c.(463-465)CAG>GAG	p.Q155E	ITLN2_uc009wts.2_Missense_Mutation_p.Q154E|ITLN2_uc010pju.1_Missense_Mutation_p.Q72E	NM_080878	NP_543154	Q8WWU7	ITLN2_HUMAN	intelectin 2 precursor	155	Fibrinogen C-terminal.				signal transduction	extracellular region	receptor binding|sugar binding			ovary(1)	1	all_cancers(52;2.99e-17)|all_hematologic(112;0.093)		BRCA - Breast invasive adenocarcinoma(70;0.00275)			TCCTTGGCCTGGATGTCGTAG	0.592													7	46	---	---	---	---	PASS
F5	2153	broad.mit.edu	37	1	169519234	169519234	+	Missense_Mutation	SNP	G	C	C			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:169519234G>C	uc001ggg.1	-	10	1561	c.1416C>G	c.(1414-1416)ATC>ATG	p.I472M	F5_uc010plr.1_RNA	NM_000130	NP_000121	P12259	FA5_HUMAN	coagulation factor V precursor	472	F5/8 type A 2.|Plastocyanin-like 3.				cell adhesion|platelet activation|platelet degranulation	plasma membrane|platelet alpha granule lumen	copper ion binding|oxidoreductase activity			ovary(3)|large_intestine(1)|central_nervous_system(1)|skin(1)	6	all_hematologic(923;0.208)				Drotrecogin alfa(DB00055)	GAACTGCTCTGATCATGGTGT	0.343													30	50	---	---	---	---	PASS
TNR	7143	broad.mit.edu	37	1	175306756	175306756	+	Missense_Mutation	SNP	A	C	C			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:175306756A>C	uc001gkp.1	-	17	3523	c.3442T>G	c.(3442-3444)TTG>GTG	p.L1148V	TNR_uc009wwu.1_Missense_Mutation_p.L1148V	NM_003285	NP_003276	Q92752	TENR_HUMAN	tenascin R precursor	1148	Fibrinogen C-terminal.				axon guidance|cell adhesion|signal transduction	proteinaceous extracellular matrix				pancreas(5)|ovary(4)|central_nervous_system(1)|skin(1)	11	Renal(580;0.146)					ACCCCACTCAAAGTGTCTCCA	0.502													13	28	---	---	---	---	PASS
FAM5B	57795	broad.mit.edu	37	1	177249554	177249554	+	Missense_Mutation	SNP	G	T	T			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:177249554G>T	uc001glf.2	+	8	1554	c.1242G>T	c.(1240-1242)TTG>TTT	p.L414F	FAM5B_uc001glg.2_Missense_Mutation_p.L309F	NM_021165	NP_066988	Q9C0B6	FAM5B_HUMAN	family with sequence similarity 5, member B	414						extracellular region				skin(3)|ovary(2)|upper_aerodigestive_tract(1)	6						CAAGGTCCTTGTCCTACTGGT	0.522													5	31	---	---	---	---	PASS
APOBEC4	403314	broad.mit.edu	37	1	183617058	183617058	+	Missense_Mutation	SNP	G	T	T			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:183617058G>T	uc001gqn.2	-	2	1131	c.859C>A	c.(859-861)CTC>ATC	p.L287I	RGL1_uc010pof.1_Intron|RGL1_uc001gqm.2_Intron|RGL1_uc010pog.1_Intron|RGL1_uc010poh.1_Intron	NM_203454	NP_982279	Q8WW27	ABEC4_HUMAN	apolipoprotein B	287					mRNA processing		hydrolase activity, acting on carbon-nitrogen (but not peptide) bonds, in cyclic amidines|zinc ion binding				0						GGAGCCCTGAGGTCTGGAGGT	0.483													5	52	---	---	---	---	PASS
CHIT1	1118	broad.mit.edu	37	1	203192298	203192298	+	Silent	SNP	A	G	G			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:203192298A>G	uc001gzn.2	-	6	666	c.570T>C	c.(568-570)TAT>TAC	p.Y190Y	FMOD_uc010pqi.1_Intron|CHIT1_uc001gzm.1_Intron|CHIT1_uc009xal.1_5'UTR|CHIT1_uc009xam.1_RNA|CHIT1_uc009xan.1_RNA|CHIT1_uc001gzo.2_Silent_p.Y181Y	NM_003465	NP_003456	Q13231	CHIT1_HUMAN	chitotriosidase precursor	190					chitin catabolic process|immune response|response to bacterium	extracellular space|lysosome	cation binding|chitin binding|endochitinase activity				0						CAGCATCCACATAGGTCTGCC	0.582													44	92	---	---	---	---	PASS
ZC3H11A	9877	broad.mit.edu	37	1	203809458	203809458	+	Missense_Mutation	SNP	A	T	T			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:203809458A>T	uc001hac.2	+	14	1614	c.998A>T	c.(997-999)GAG>GTG	p.E333V	ZC3H11A_uc001had.2_Missense_Mutation_p.E333V|ZC3H11A_uc001hae.2_Missense_Mutation_p.E333V|ZC3H11A_uc001haf.2_Missense_Mutation_p.E333V|ZC3H11A_uc010pqm.1_Missense_Mutation_p.E279V|ZC3H11A_uc001hag.1_Missense_Mutation_p.E333V	NM_014827	NP_055642	O75152	ZC11A_HUMAN	zinc finger CCCH-type containing 11A	333							nucleic acid binding|protein binding|zinc ion binding			lung(1)|central_nervous_system(1)	2	all_cancers(21;0.0904)|all_epithelial(62;0.234)		BRCA - Breast invasive adenocarcinoma(75;0.109)			TCTCTTAAGGAGCGATTAGGC	0.333													30	96	---	---	---	---	PASS
PSEN2	5664	broad.mit.edu	37	1	227071548	227071548	+	Missense_Mutation	SNP	T	C	C			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:227071548T>C	uc009xeo.1	+	5	711	c.284T>C	c.(283-285)GTC>GCC	p.V95A	PSEN2_uc009xep.1_Missense_Mutation_p.V95A|PSEN2_uc001hqk.2_RNA	NM_000447	NP_000438	P49810	PSN2_HUMAN	presenilin 2 isoform 1	95	Helical; (Potential).				amyloid precursor protein catabolic process|anti-apoptosis|apoptosis|beta-amyloid metabolic process|calcium ion transport|induction of apoptosis by extracellular signals|intracellular signal transduction|membrane protein ectodomain proteolysis|membrane protein intracellular domain proteolysis|nerve growth factor receptor signaling pathway|Notch receptor processing|Notch signaling pathway|positive regulation of catalytic activity	apical plasma membrane|axon|cell cortex|cell surface|centrosome|ciliary rootlet|dendritic shaft|endoplasmic reticulum membrane|Golgi membrane|growth cone|integral to plasma membrane|kinetochore|lysosomal membrane|membrane raft|mitochondrial inner membrane|neuromuscular junction|neuronal cell body|nuclear inner membrane|perinuclear region of cytoplasm|Z disc	aspartic-type endopeptidase activity|protein binding			lung(2)	2		Prostate(94;0.0771)				TTTGTGCCTGTCACTCTGTGC	0.592													14	114	---	---	---	---	PASS
CDC42BPA	8476	broad.mit.edu	37	1	227203781	227203781	+	Missense_Mutation	SNP	C	A	A			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:227203781C>A	uc001hqr.2	-	33	5695	c.4752G>T	c.(4750-4752)ATG>ATT	p.M1584I	CDC42BPA_uc001hqq.2_Missense_Mutation_p.M883I|CDC42BPA_uc001hqs.2_Missense_Mutation_p.M1503I|CDC42BPA_uc009xes.2_Missense_Mutation_p.M1556I|CDC42BPA_uc010pvs.1_Missense_Mutation_p.M1564I|CDC42BPA_uc001hqp.2_Missense_Mutation_p.M740I|CDC42BPA_uc001hqt.2_Missense_Mutation_p.M462I	NM_003607	NP_003598	Q5VT25	MRCKA_HUMAN	CDC42-binding protein kinase alpha isoform B	1597					actin cytoskeleton reorganization|intracellular signal transduction	cell leading edge|cell-cell junction|cytoplasm	ATP binding|identical protein binding|magnesium ion binding|protein serine/threonine kinase activity|small GTPase regulator activity			lung(6)|breast(2)|stomach(1)|ovary(1)|pancreas(1)	11		all_cancers(173;0.156)|Prostate(94;0.0792)				TTCCTCTTACCATGGGCAGAT	0.378													5	38	---	---	---	---	PASS
TRIM67	440730	broad.mit.edu	37	1	231344869	231344869	+	Missense_Mutation	SNP	C	A	A			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:231344869C>A	uc009xfn.1	+	8	2038	c.1996C>A	c.(1996-1998)CCC>ACC	p.P666T		NM_001004342	NP_001004342	Q6ZTA4	TRI67_HUMAN	tripartite motif-containing 67	666	B30.2/SPRY.					cytoplasm|cytoskeleton	zinc ion binding			ovary(2)|breast(1)|kidney(1)	4	Breast(184;0.0871)	all_cancers(173;0.189)|Prostate(94;0.167)				CCACCCAGACCCCGCCTTCGG	0.632													6	54	---	---	---	---	PASS
RYR2	6262	broad.mit.edu	37	1	237756920	237756920	+	Missense_Mutation	SNP	G	C	C			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:237756920G>C	uc001hyl.1	+	33	4540	c.4420G>C	c.(4420-4422)GGA>CGA	p.G1474R		NM_001035	NP_001026	Q92736	RYR2_HUMAN	cardiac muscle ryanodine receptor	1474	Cytoplasmic (By similarity).|B30.2/SPRY 3.|4 X approximate repeats.				cardiac muscle contraction|detection of calcium ion|induction of apoptosis by ionic changes|regulation of cardiac muscle contraction by regulation of the release of sequestered calcium ion|release of sequestered calcium ion into cytosol by sarcoplasmic reticulum|response to caffeine|response to hypoxia|response to redox state	calcium channel complex|cytosol|plasma membrane|plasma membrane enriched fraction|sarcoplasmic reticulum membrane	calcium ion binding|calmodulin binding|identical protein binding|protein kinase A catalytic subunit binding|protein kinase A regulatory subunit binding|receptor activity|ryanodine-sensitive calcium-release channel activity|suramin binding			ovary(17)|large_intestine(6)|central_nervous_system(6)|pancreas(3)|breast(1)	33	Ovarian(103;0.103)	all_cancers(173;0.000368)|Melanoma(53;0.0179)|all_epithelial(177;0.0225)	OV - Ovarian serous cystadenocarcinoma(106;0.00606)			AGATGAAAAAGGAAAAGTGCA	0.383													4	43	---	---	---	---	PASS
ZP4	57829	broad.mit.edu	37	1	238050715	238050715	+	Missense_Mutation	SNP	G	T	T			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:238050715G>T	uc001hym.2	-	5	700	c.700C>A	c.(700-702)CTG>ATG	p.L234M	LOC100130331_uc010pyc.1_Intron	NM_021186	NP_067009	Q12836	ZP4_HUMAN	zona pellucida glycoprotein 4 preproprotein	234	ZP.|Extracellular (Potential).				acrosomal vesicle exocytosis|negative regulation of binding of sperm to zona pellucida|positive regulation of acrosome reaction|positive regulation of humoral immune response|positive regulation of protein kinase activity|positive regulation of T cell proliferation|protein kinase A signaling cascade|protein kinase C signaling cascade	integral to membrane|intracellular|plasma membrane|proteinaceous extracellular matrix	acrosin binding|receptor activity			ovary(2)|skin(1)	3	Ovarian(103;0.103)	all_cancers(173;0.00175)|all_epithelial(177;0.162)|all_neural(198;0.164)|Melanoma(53;0.211)|Prostate(94;0.214)	OV - Ovarian serous cystadenocarcinoma(106;0.00989)			AACTGGAACAGAACAAAAGCT	0.517													18	104	---	---	---	---	PASS
AHCTF1	25909	broad.mit.edu	37	1	247040362	247040362	+	Nonsense_Mutation	SNP	G	A	A			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:247040362G>A	uc001ibu.1	-	22	2834	c.2827C>T	c.(2827-2829)CAG>TAG	p.Q943*	AHCTF1_uc001ibv.1_Nonsense_Mutation_p.Q952*|AHCTF1_uc009xgs.1_5'UTR|AHCTF1_uc001ibw.1_RNA	NM_015446	NP_056261	Q8WYP5	ELYS_HUMAN	transcription factor ELYS	943	Necessary for cytoplasmic localization (By similarity).				cytokinesis|mitotic prometaphase|mRNA transport|nuclear pore complex assembly|protein transport|transmembrane transport	condensed chromosome kinetochore|cytosol|nuclear matrix|nuclear membrane|nuclear pore|nucleoplasm	DNA binding			ovary(5)|skin(2)	7	all_cancers(71;3.05e-05)|all_epithelial(71;6.72e-06)|Ovarian(71;0.0173)|Breast(184;0.0318)|all_lung(81;0.0458)|Lung NSC(105;0.0518)	all_cancers(173;0.0266)	OV - Ovarian serous cystadenocarcinoma(106;0.00271)			GCACTGGACTGCAAAAATTTC	0.368													6	23	---	---	---	---	PASS
OR6F1	343169	broad.mit.edu	37	1	247875683	247875683	+	Silent	SNP	G	A	A			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:247875683G>A	uc001idj.1	-	1	375	c.375C>T	c.(373-375)GCC>GCT	p.A125A		NM_001005286	NP_001005286	Q8NGZ6	OR6F1_HUMAN	olfactory receptor, family 6, subfamily F,	125	Cytoplasmic (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity				0	all_cancers(71;3.24e-05)|all_epithelial(71;1.3e-05)|Breast(184;0.0149)|Ovarian(71;0.0377)|all_lung(81;0.0662)|Lung NSC(105;0.0724)		OV - Ovarian serous cystadenocarcinoma(106;0.0168)			GATAGCAGATGGCAAGACAGC	0.517													6	30	---	---	---	---	PASS
EHD3	30845	broad.mit.edu	37	2	31483532	31483532	+	Missense_Mutation	SNP	A	C	C			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:31483532A>C	uc002rnu.2	+	4	1267	c.659A>C	c.(658-660)AAA>ACA	p.K220T	EHD3_uc010ymt.1_Intron	NM_014600	NP_055415	Q9NZN3	EHD3_HUMAN	EH-domain containing 3	220	Potential.	ATP (By similarity).			blood coagulation|endocytic recycling|protein homooligomerization	nucleus|plasma membrane|recycling endosome membrane	ATP binding|calcium ion binding|GTP binding|GTPase activity|nucleic acid binding|protein binding			skin(2)	2	Acute lymphoblastic leukemia(172;0.155)					GTGCTGAACAAAGCTGACCAG	0.552													3	45	---	---	---	---	PASS
SOS1	6654	broad.mit.edu	37	2	39240652	39240652	+	Nonsense_Mutation	SNP	T	A	A			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:39240652T>A	uc002rrk.3	-	13	2157	c.2116A>T	c.(2116-2118)AGA>TGA	p.R706*	SOS1_uc002rrj.3_Nonsense_Mutation_p.R320*	NM_005633	NP_005624	Q07889	SOS1_HUMAN	son of sevenless homolog 1	706	N-terminal Ras-GEF.				apoptosis|axon guidance|blood coagulation|epidermal growth factor receptor signaling pathway|fibroblast growth factor receptor signaling pathway|induction of apoptosis by extracellular signals|insulin receptor signaling pathway|leukocyte migration|nerve growth factor receptor signaling pathway|Ras protein signal transduction	cytosol	DNA binding|protein binding|Rho GTPase activator activity|Rho guanyl-nucleotide exchange factor activity			ovary(4)|breast(3)|lung(2)|central_nervous_system(1)	10		all_hematologic(82;0.21)				TATGCATCTCTTTCAAAATCA	0.323									Noonan_syndrome				8	40	---	---	---	---	PASS
LHCGR	3973	broad.mit.edu	37	2	48915114	48915114	+	Silent	SNP	G	A	A			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:48915114G>A	uc002rwu.3	-	11	1892	c.1822C>T	c.(1822-1824)CTG>TTG	p.L608L	GTF2A1L_uc002rwt.2_Intron	NM_000233	NP_000224	P22888	LSHR_HUMAN	luteinizing hormone/choriogonadotropin receptor	608	Helical; Name=7; (Potential).		Missing (in LHR; Leydig cell hypoplasia type 1).		male genitalia development|male gonad development	endosome|integral to plasma membrane	luteinizing hormone receptor activity			ovary(3)|lung(2)|breast(2)|skin(1)	8		all_hematologic(82;0.151)|Acute lymphoblastic leukemia(82;0.176)	Lung(47;0.101)|LUSC - Lung squamous cell carcinoma(58;0.151)		Cetrorelix(DB00050)|Choriogonadotropin alfa(DB00097)|Goserelin(DB00014)|Lutropin alfa(DB00044)|Menotropins(DB00032)	AAAAGAACCAGTAAAACTTTA	0.373									Familial_Male-Limited_Precocious_Puberty				11	64	---	---	---	---	PASS
C2orf86	51057	broad.mit.edu	37	2	63714632	63714632	+	Intron	SNP	T	C	C			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:63714632T>C	uc002sch.2	-						C2orf86_uc002sci.1_Intron|C2orf86_uc010fcr.1_5'Flank	NM_015910	NP_056994	O95876	FRITZ_HUMAN	hypothetical protein LOC51057 isoform 2						cilium morphogenesis|regulation of embryonic cell shape|regulation of protein localization|septin cytoskeleton organization	cilium axoneme|cytoplasm|cytoskeleton|plasma membrane					0						TCTCTATCTATAGAAAGGAAG	0.318													3	7	---	---	---	---	PASS
VPS54	51542	broad.mit.edu	37	2	64169644	64169644	+	Silent	SNP	G	A	A			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:64169644G>A	uc002scq.2	-	11	1516	c.1353C>T	c.(1351-1353)CTC>CTT	p.L451L	VPS54_uc002scp.2_Silent_p.L439L|VPS54_uc010fct.2_Silent_p.L298L	NM_016516	NP_057600	Q9P1Q0	VPS54_HUMAN	vacuolar protein sorting 54 isoform 1	451					protein transport|retrograde transport, endosome to Golgi						0						AAATATCCTTGAGCAGATCAA	0.328													5	11	---	---	---	---	PASS
C2orf3	6936	broad.mit.edu	37	2	75923427	75923427	+	Silent	SNP	A	G	G			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:75923427A>G	uc002sno.2	-	5	862	c.732T>C	c.(730-732)GAT>GAC	p.D244D	C2orf3_uc010ffs.2_5'UTR|C2orf3_uc002snn.2_Silent_p.D75D|C2orf3_uc010fft.2_Intron	NM_003203	NP_003194	P16383	GCF_HUMAN	hypothetical protein LOC6936	244					negative regulation of transcription, DNA-dependent	nucleus	DNA binding|protein binding|sequence-specific DNA binding transcription factor activity			ovary(1)|central_nervous_system(1)	2						CACAGGAAAGATCTATGTCTC	0.249													20	21	---	---	---	---	PASS
Unknown	0	broad.mit.edu	37	2	89247008	89247008	+	RNA	SNP	C	A	A			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:89247008C>A	uc010ytr.1	-	101		c.8051G>T			uc002stl.2_Intron					Parts of antibodies, mostly variable regions.																		ACCAGGCCAACCAGCTACTAA	0.522													44	151	---	---	---	---	PASS
ADRA2B	151	broad.mit.edu	37	2	96780541	96780541	+	3'UTR	SNP	G	T	T			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:96780541G>T	uc002svi.2	-	3						NM_000682	NP_000673	P18089	ADA2B_HUMAN	alpha-2B-adrenergic receptor						activation of MAPK activity by adrenergic receptor signaling pathway|activation of protein kinase B activity|blood coagulation|cell-cell signaling|epidermal growth factor receptor transactivation by G-protein coupled receptor signaling pathway|negative regulation of epinephrine secretion|negative regulation of norepinephrine secretion|positive regulation of neuron differentiation	integral to plasma membrane	alpha2-adrenergic receptor activity|epinephrine binding|protein binding			ovary(2)|lung(1)	3					Bethanidine(DB00217)|Brimonidine(DB00484)|Debrisoquin(DB04840)|Ergotamine(DB00696)|Fenoldopam(DB00800)|Guanadrel Sulfate(DB00226)|Guanethidine(DB01170)|Lofexidine(DB04948)|Norepinephrine(DB00368)|Yohimbine(DB01392)	CAGCGCAGGCGGGCTCACCAG	0.667													3	12	---	---	---	---	PASS
MGAT4A	11320	broad.mit.edu	37	2	99256575	99256575	+	Intron	SNP	G	A	A			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:99256575G>A	uc002sze.2	-						C2orf64_uc002sza.2_Intron|MGAT4A_uc010yvm.1_Intron|MGAT4A_uc010fil.2_Intron	NM_012214	NP_036346	Q9UM21	MGT4A_HUMAN	alpha-1,3-mannosyl-glycoprotein						N-glycan processing|post-translational protein modification|protein N-linked glycosylation via asparagine	extracellular region|Golgi membrane|integral to membrane	alpha-1,3-mannosylglycoprotein 4-beta-N-acetylglucosaminyltransferase activity|metal ion binding			skin(1)	1						ATAAAATTAAGTCACCAACCG	0.313													7	30	---	---	---	---	PASS
MAP4K4	9448	broad.mit.edu	37	2	102499117	102499117	+	Missense_Mutation	SNP	G	A	A			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:102499117G>A	uc002tbg.2	+	25	3110	c.3055G>A	c.(3055-3057)GAT>AAT	p.D1019N	MAP4K4_uc002tbc.2_Missense_Mutation_p.D1100N|MAP4K4_uc002tbd.2_Missense_Mutation_p.D992N|MAP4K4_uc002tbe.2_Missense_Mutation_p.D938N|MAP4K4_uc002tbf.2_Missense_Mutation_p.D1053N|MAP4K4_uc010yvy.1_Missense_Mutation_p.D1015N|MAP4K4_uc002tbh.2_Missense_Mutation_p.D937N|MAP4K4_uc002tbi.2_Missense_Mutation_p.D822N|MAP4K4_uc010yvz.1_Missense_Mutation_p.D1059N|MAP4K4_uc002tbk.2_Missense_Mutation_p.D474N|MAP4K4_uc002tbl.2_Missense_Mutation_p.D205N	NM_145687	NP_663720	O95819	M4K4_HUMAN	mitogen-activated protein kinase kinase kinase	1019	CNH.|Mediates interaction with RAP2A.				intracellular protein kinase cascade|regulation of JNK cascade|response to stress	cytoplasm	ATP binding|protein binding|protein serine/threonine kinase activity|small GTPase regulator activity			stomach(1)|lung(1)|central_nervous_system(1)|skin(1)	4						AACCGTAGGGGATTTGGAAGG	0.333													44	73	---	---	---	---	PASS
CKAP2L	150468	broad.mit.edu	37	2	113503987	113503987	+	Intron	SNP	A	C	C			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:113503987A>C	uc002tie.2	-						CKAP2L_uc002tif.2_Intron|CKAP2L_uc010yxp.1_Intron	NM_152515	NP_689728	Q8IYA6	CKP2L_HUMAN	cytoskeleton associated protein 2-like							centrosome					0						CACCCAAGACAGATACTCACT	0.378													20	87	---	---	---	---	PASS
LYPD1	116372	broad.mit.edu	37	2	133402669	133402669	+	3'UTR	SNP	C	A	A			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:133402669C>A	uc002ttn.2	-	3					GPR39_uc002ttl.2_Intron|LYPD1_uc002ttm.3_3'UTR|LYPD1_uc002tto.2_3'UTR	NM_144586	NP_653187	Q8N2G4	LYPD1_HUMAN	LY6/PLAUR domain containing 1 isoform a							anchored to membrane|plasma membrane					0						CTCGTGTCTGCCCAGGGCTGA	0.498													12	38	---	---	---	---	PASS
GPR39	2863	broad.mit.edu	37	2	133402693	133402693	+	Silent	SNP	G	A	A			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:133402693G>A	uc002ttl.2	+	2	1345	c.876G>A	c.(874-876)TTG>TTA	p.L292L	LYPD1_uc002ttm.3_3'UTR|LYPD1_uc002ttn.2_3'UTR|LYPD1_uc002tto.2_3'UTR	NM_001508	NP_001499	O43194	GPR39_HUMAN	G protein-coupled receptor 39	292	Helical; Name=6; (Potential).					integral to plasma membrane	G-protein coupled receptor activity|metal ion binding				0						TTGTGACATTGGCCGTATGCT	0.512													12	36	---	---	---	---	PASS
LCT	3938	broad.mit.edu	37	2	136575393	136575393	+	Missense_Mutation	SNP	T	G	G			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:136575393T>G	uc002tuu.1	-	6	1236	c.1225A>C	c.(1225-1227)AGC>CGC	p.S409R		NM_002299	NP_002290	P09848	LPH_HUMAN	lactase-phlorizin hydrolase preproprotein	409	Extracellular (Potential).|4 X approximate repeats.|2.				carbohydrate metabolic process|polysaccharide digestion	apical plasma membrane|integral to plasma membrane|membrane fraction	cation binding|glycosylceramidase activity|lactase activity			ovary(7)|central_nervous_system(2)|skin(2)|pancreas(1)|lung(1)	13				BRCA - Breast invasive adenocarcinoma(221;0.169)		TCCCAGATGCTCACCCCTCTC	0.627													17	34	---	---	---	---	PASS
MCM6	4175	broad.mit.edu	37	2	136605765	136605765	+	Intron	SNP	C	A	A			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:136605765C>A	uc002tuw.2	-							NM_005915	NP_005906	Q14566	MCM6_HUMAN	minichromosome maintenance complex component 6						cell cycle checkpoint|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	MCM complex	ATP binding|identical protein binding				0				BRCA - Breast invasive adenocarcinoma(221;0.166)	Atorvastatin(DB01076)	GGACCTAAACCAATAATGATG	0.348													18	21	---	---	---	---	PASS
LRP1B	53353	broad.mit.edu	37	2	141055532	141055532	+	Missense_Mutation	SNP	G	T	T			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:141055532G>T	uc002tvj.1	-	84	13784	c.12812C>A	c.(12811-12813)CCC>CAC	p.P4271H		NM_018557	NP_061027	Q9NZR2	LRP1B_HUMAN	low density lipoprotein-related protein 1B	4271	Extracellular (Potential).|EGF-like 11.				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)		GCTGCAGGTGGGTCTCCCTAT	0.343										TSP Lung(27;0.18)			12	60	---	---	---	---	PASS
ZEB2	9839	broad.mit.edu	37	2	145157348	145157348	+	Missense_Mutation	SNP	T	A	A			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:145157348T>A	uc002tvu.2	-	8	1886	c.1406A>T	c.(1405-1407)AAT>ATT	p.N469I	ZEB2_uc002tvv.2_Missense_Mutation_p.N463I|ZEB2_uc010zbm.1_Missense_Mutation_p.N440I|ZEB2_uc010fnp.2_Intron|ZEB2_uc010fnq.1_Missense_Mutation_p.N498I	NM_014795	NP_055610	O60315	ZEB2_HUMAN	zinc finger homeobox 1b	469	SMAD-MH2 binding domain (By similarity).					cytoplasm|nucleolus	phosphatase regulator activity|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|SMAD binding|zinc ion binding			ovary(5)|pancreas(2)|upper_aerodigestive_tract(1)|large_intestine(1)	9				BRCA - Breast invasive adenocarcinoma(221;0.112)		GGAAACAGTATTGTCCACAAT	0.418													27	36	---	---	---	---	PASS
GALNT13	114805	broad.mit.edu	37	2	155098534	155098534	+	Intron	SNP	C	G	G			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:155098534C>G	uc002tyr.3	+						GALNT13_uc002tyt.3_Intron|GALNT13_uc010foc.1_Intron	NM_052917	NP_443149	Q8IUC8	GLT13_HUMAN	UDP-N-acetyl-alpha-D-galactosamine:polypeptide							Golgi membrane|integral to membrane	polypeptide N-acetylgalactosaminyltransferase activity|sugar binding			ovary(2)|pancreas(2)|central_nervous_system(1)|skin(1)	6						CTTCTTTTCTCTTTTTCAGAT	0.333													5	16	---	---	---	---	PASS
SCN1A	6323	broad.mit.edu	37	2	166895999	166895999	+	Silent	SNP	C	A	A			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:166895999C>A	uc010zcz.1	-	14	2508	c.2490G>T	c.(2488-2490)ACG>ACT	p.T830T	SCN1A_uc002udo.3_Silent_p.T710T|SCN1A_uc010fpk.2_Silent_p.T682T	NM_006920	NP_008851	P35498	SCN1A_HUMAN	sodium channel, voltage-gated, type I, alpha	841	II.|Helical; Name=S3 of repeat II; (By similarity).					voltage-gated sodium channel complex	voltage-gated sodium channel activity			ovary(6)|skin(6)|large_intestine(1)	13					Lamotrigine(DB00555)|Levetiracetam(DB01202)|Phenacemide(DB01121)|Phenytoin(DB00252)|Topiramate(DB00273)|Zonisamide(DB00909)	CCAGGCTAAGCGTCACAATAA	0.363													20	36	---	---	---	---	PASS
LRP2	4036	broad.mit.edu	37	2	170042418	170042418	+	Missense_Mutation	SNP	T	C	C			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:170042418T>C	uc002ues.2	-	50	9653	c.9440A>G	c.(9439-9441)AAG>AGG	p.K3147R		NM_004525	NP_004516	P98164	LRP2_HUMAN	low density lipoprotein-related protein 2	3147	EGF-like 11.|Extracellular (Potential).				hormone biosynthetic process|protein glycosylation|receptor-mediated endocytosis|vitamin D metabolic process	coated pit|integral to membrane|lysosome	calcium ion binding|receptor activity|SH3 domain binding			ovary(13)|skin(6)|central_nervous_system(4)|large_intestine(3)|kidney(2)|pancreas(1)	29				STAD - Stomach adenocarcinoma(1183;0.000766)|COAD - Colon adenocarcinoma(177;0.0101)	Gentamicin(DB00798)|Insulin Glargine recombinant(DB00047)|Insulin Lyspro recombinant(DB00046)|Insulin recombinant(DB00030)|Insulin, porcine(DB00071)|Urokinase(DB00013)	ACAAGTCCGCTTGTCAGACAT	0.463													26	55	---	---	---	---	PASS
TTN	7273	broad.mit.edu	37	2	179406245	179406245	+	Missense_Mutation	SNP	C	G	G			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:179406245C>G	uc010zfg.1	-	299	90079	c.89855G>C	c.(89854-89856)TGG>TCG	p.W29952S	uc002umo.2_Intron|uc002ump.1_Intron|TTN_uc010zfh.1_Missense_Mutation_p.W23647S|TTN_uc010zfi.1_Missense_Mutation_p.W23580S|TTN_uc010zfj.1_Missense_Mutation_p.W23455S	NM_133378	NP_596869	Q8WZ42	TITIN_HUMAN	titin isoform N2-A	30879							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)			TGGTGGGTACCAAGTAAGTGT	0.473													7	28	---	---	---	---	PASS
TTN	7273	broad.mit.edu	37	2	179479401	179479401	+	Silent	SNP	G	T	T			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:179479401G>T	uc010zfg.1	-	210	41360	c.41136C>A	c.(41134-41136)GCC>GCA	p.A13712A	uc002ump.1_RNA|TTN_uc010zfh.1_Silent_p.A7407A|TTN_uc010zfi.1_Silent_p.A7340A|TTN_uc010zfj.1_Silent_p.A7215A	NM_133378	NP_596869	Q8WZ42	TITIN_HUMAN	titin isoform N2-A	14639							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)			CGGTTACGGTGGCAGGAAGTT	0.413													10	23	---	---	---	---	PASS
TTN	7273	broad.mit.edu	37	2	179544074	179544074	+	Missense_Mutation	SNP	G	A	A			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:179544074G>A	uc010zfg.1	-	139	30226	c.30002C>T	c.(30001-30003)CCA>CTA	p.P10001L	TTN_uc010zfh.1_Intron|TTN_uc010zfi.1_Intron|TTN_uc010zfj.1_Intron|TTN_uc002umz.1_Missense_Mutation_p.P6662L|TTN_uc010fre.1_Intron|TTN_uc002una.1_RNA|TTN_uc010frf.1_RNA	NM_133378	NP_596869	Q8WZ42	TITIN_HUMAN	titin isoform N2-A	10928							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)			ACCTTTTGCTGGCGGAGGCTT	0.408													8	19	---	---	---	---	PASS
TTN	7273	broad.mit.edu	37	2	179623783	179623783	+	Missense_Mutation	SNP	C	T	T			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:179623783C>T	uc010zfg.1	-	44	10455	c.10231G>A	c.(10231-10233)GAA>AAA	p.E3411K	TTN_uc010zfh.1_Missense_Mutation_p.E3365K|TTN_uc010zfi.1_Missense_Mutation_p.E3365K|TTN_uc010zfj.1_Missense_Mutation_p.E3365K|TTN_uc002umz.1_Missense_Mutation_p.E72K|TTN_uc002unb.2_Missense_Mutation_p.E3411K	NM_133378	NP_596869	Q8WZ42	TITIN_HUMAN	titin isoform N2-A	Error:AA_residue_mismatch_between_GAF_and_UniProt_prot_seqs_after_alignment							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)			TAAGTTCCTTCATCTTCTGGA	0.408													15	42	---	---	---	---	PASS
ZSWIM2	151112	broad.mit.edu	37	2	187712502	187712502	+	Missense_Mutation	SNP	G	C	C			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:187712502G>C	uc002upu.1	-	2	226	c.186C>G	c.(184-186)CAC>CAG	p.H62Q		NM_182521	NP_872327	Q8NEG5	ZSWM2_HUMAN	zinc finger, SWIM domain containing 2	62	SWIM-type.				apoptosis		zinc ion binding			ovary(2)|skin(1)	3			OV - Ovarian serous cystadenocarcinoma(117;0.0274)|Epithelial(96;0.164)			AGTTACAAACGTGAGGATTTC	0.343													22	31	---	---	---	---	PASS
MAP2	4133	broad.mit.edu	37	2	210558495	210558495	+	Missense_Mutation	SNP	A	C	C			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:210558495A>C	uc002vde.1	+	7	1849	c.1601A>C	c.(1600-1602)CAG>CCG	p.Q534P	MAP2_uc002vdc.1_Missense_Mutation_p.Q534P|MAP2_uc002vdd.1_Intron|MAP2_uc002vdf.1_Intron|MAP2_uc002vdg.1_Intron|MAP2_uc002vdh.1_Intron|MAP2_uc002vdi.1_Missense_Mutation_p.Q530P	NM_002374	NP_002365	P11137	MAP2_HUMAN	microtubule-associated protein 2 isoform 1	534					central nervous system neuron development|dendrite morphogenesis|negative regulation of microtubule depolymerization	cytoplasm|microtubule|microtubule associated complex	beta-dystroglycan binding|calmodulin binding|structural molecule activity			ovary(9)|upper_aerodigestive_tract(2)|large_intestine(2)|pancreas(2)|central_nervous_system(1)|skin(1)	17		Hepatocellular(293;0.137)|Lung NSC(271;0.163)|Renal(323;0.202)		UCEC - Uterine corpus endometrioid carcinoma (47;6.64e-05)|Epithelial(149;3.12e-100)|all cancers(144;6.88e-91)|Lung(261;0.0624)|LUSC - Lung squamous cell carcinoma(261;0.0662)|STAD - Stomach adenocarcinoma(1183;0.18)	Estramustine(DB01196)	AGCTCAATTCAGGAACTTTTT	0.388													16	47	---	---	---	---	PASS
CNTN6	27255	broad.mit.edu	37	3	1363343	1363343	+	Silent	SNP	C	T	T			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:1363343C>T	uc003boz.2	+	8	1038	c.771C>T	c.(769-771)CCC>CCT	p.P257P	CNTN6_uc011asj.1_Silent_p.P185P|CNTN6_uc003bpa.2_Silent_p.P257P	NM_014461	NP_055276	Q9UQ52	CNTN6_HUMAN	contactin 6 precursor	257	Ig-like C2-type 3.				axon guidance|cell adhesion|central nervous system development|Notch signaling pathway	anchored to membrane|plasma membrane				skin(3)|lung(2)|breast(2)|pancreas(1)	8		all_cancers(2;0.000164)|all_epithelial(2;0.107)		Epithelial(13;0.000233)|all cancers(10;0.0013)|OV - Ovarian serous cystadenocarcinoma(96;0.0139)		GTCCAGTCCCCGATATTAGTT	0.418													17	11	---	---	---	---	PASS
SRGAP3	9901	broad.mit.edu	37	3	9027423	9027423	+	Missense_Mutation	SNP	C	A	A			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:9027423C>A	uc003brf.1	-	22	3756	c.3080G>T	c.(3079-3081)CGC>CTC	p.R1027L	SRGAP3_uc003brg.1_Missense_Mutation_p.R1003L	NM_014850	NP_055665	O43295	SRGP2_HUMAN	SLIT-ROBO Rho GTPase activating protein 3	1027					regulation of small GTPase mediated signal transduction|small GTPase mediated signal transduction	cytosol	GTPase activator activity|protein binding		SRGAP3/RAF1(4)	central_nervous_system(4)|skin(3)|urinary_tract(1)|breast(1)	9				OV - Ovarian serous cystadenocarcinoma(96;0.0563)		GCTGCTGCTGCGGCGCATGGC	0.721			T	RAF1	pilocytic astrocytoma								4	25	---	---	---	---	PASS
TMEM40	55287	broad.mit.edu	37	3	12780076	12780076	+	Nonsense_Mutation	SNP	C	A	A			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:12780076C>A	uc003bxg.1	-	6	494	c.367G>T	c.(367-369)GAG>TAG	p.E123*	TMEM40_uc003bxh.1_Nonsense_Mutation_p.E93*|TMEM40_uc003bxi.1_Nonsense_Mutation_p.E47*|TMEM40_uc011auv.1_Nonsense_Mutation_p.E139*	NM_018306	NP_060776	Q8WWA1	TMM40_HUMAN	transmembrane protein 40	123						integral to membrane					0						GGTACCACCTCTCCAGGAGCA	0.547													7	135	---	---	---	---	PASS
CMTM8	152189	broad.mit.edu	37	3	32398855	32398855	+	Intron	SNP	C	A	A			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:32398855C>A	uc003cex.2	+						CMTM8_uc010hfu.2_Intron	NM_178868	NP_849199	Q8IZV2	CKLF8_HUMAN	CKLF-like MARVEL transmembrane domain containing						chemotaxis	extracellular space|integral to membrane	cytokine activity				0						CTGCTTCTACCACTTTACAGG	0.433													5	39	---	---	---	---	PASS
GLB1	2720	broad.mit.edu	37	3	33109729	33109729	+	Silent	SNP	G	A	A	rs140353187	by1000genomes	TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:33109729G>A	uc003cfi.1	-	4	567	c.450C>T	c.(448-450)TCC>TCT	p.S150S	GLB1_uc003cfh.1_Silent_p.S120S|GLB1_uc003cfj.1_Intron|GLB1_uc011axk.1_Silent_p.S198S	NM_000404	NP_000395	P16278	BGAL_HUMAN	galactosidase, beta 1 isoform a preproprotein	150					carbohydrate metabolic process	lysosome|perinuclear region of cytoplasm	beta-galactosidase activity|cation binding|protein binding			large_intestine(1)	1		Melanoma(143;0.104)				TACCTGGGTCGGAGGAGCGGA	0.348													18	75	---	---	---	---	PASS
CTNNB1	1499	broad.mit.edu	37	3	41266094	41266094	+	Missense_Mutation	SNP	C	A	A			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:41266094C>A	uc010hia.1	+	4	247	c.91C>A	c.(91-93)CTG>ATG	p.L31M	CTNNB1_uc003ckp.2_Missense_Mutation_p.L31M|CTNNB1_uc003ckq.2_Missense_Mutation_p.L31M|CTNNB1_uc003ckr.2_Missense_Mutation_p.L31M|CTNNB1_uc011azf.1_Missense_Mutation_p.L24M|CTNNB1_uc011azg.1_Intron|uc010hib.1_RNA	NM_001904	NP_001895	P35222	CTNB1_HUMAN	beta-catenin	31			Missing (in hepatocellular carcinoma).		adherens junction assembly|androgen receptor signaling pathway|branching involved in ureteric bud morphogenesis|canonical Wnt receptor signaling pathway involved in negative regulation of apoptosis|canonical Wnt receptor signaling pathway involved in positive regulation of epithelial to mesenchymal transition|cell-cell adhesion|cell-matrix adhesion|cellular component disassembly involved in apoptosis|cellular response to growth factor stimulus|cellular response to indole-3-methanol|central nervous system vasculogenesis|cytoskeletal anchoring at plasma membrane|determination of dorsal/ventral asymmetry|dorsal/ventral axis specification|ectoderm development|embryonic axis specification|embryonic foregut morphogenesis|embryonic leg joint morphogenesis|endodermal cell fate commitment|endothelial tube morphogenesis|epithelial to mesenchymal transition|gastrulation with mouth forming second|glial cell fate determination|hair follicle morphogenesis|hair follicle placode formation|hindbrain development|liver development|lung cell differentiation|lung induction|lung-associated mesenchyme development|male genitalia development|mesenchymal cell proliferation involved in lung development|mesenchymal to epithelial transition involved in metanephros morphogenesis|negative regulation of cell proliferation|negative regulation of chondrocyte differentiation|negative regulation of heart induction by canonical Wnt receptor signaling pathway|negative regulation of osteoclast differentiation|negative regulation of transcription from RNA polymerase II promoter|nephron tubule formation|odontogenesis of dentine-containing tooth|oocyte development|pancreas development|positive regulation of anti-apoptosis|positive regulation of apoptosis|positive regulation of branching involved in lung morphogenesis|positive regulation of epithelial cell proliferation involved in prostate gland development|positive regulation of fibroblast growth factor receptor signaling pathway|positive regulation of heparan sulfate proteoglycan biosynthetic process|positive regulation of I-kappaB kinase/NF-kappaB cascade|positive regulation of MAPKKK cascade|positive regulation of muscle cell differentiation|positive regulation of osteoblast differentiation|positive regulation of transcription from RNA polymerase II promoter|protein localization at cell surface|proximal/distal pattern formation|regulation of angiogenesis|regulation of calcium ion import|regulation of centriole-centriole cohesion|regulation of centromeric sister chromatid cohesion|regulation of fibroblast proliferation|regulation of nephron tubule epithelial cell differentiation|regulation of protein localization at cell surface|regulation of smooth muscle cell proliferation|regulation of T cell proliferation|renal inner medulla development|renal outer medulla development|renal vesicle formation|response to drug|response to estradiol stimulus|Schwann cell proliferation|smooth muscle cell differentiation|synapse organization|synaptic vesicle transport|T cell differentiation in thymus|thymus development|trachea formation	APC-Axin-1-beta-catenin complex|Axin-APC-beta-catenin-GSK3B complex|beta-catenin-TCF7L2 complex|catenin complex|cell cortex|cell-substrate adherens junction|centrosome|dendritic shaft|desmosome|fascia adherens|internal side of plasma membrane|lamellipodium|lateral plasma membrane|microvillus membrane|perinuclear region of cytoplasm|protein-DNA complex|synapse|transcription factor complex|Z disc|zonula adherens	alpha-catenin binding|androgen receptor binding|cadherin binding|estrogen receptor binding|I-SMAD binding|ion channel binding|protein binding|protein C-terminus binding|protein kinase binding|protein phosphatase binding|R-SMAD binding|RPTP-like protein binding|signal transducer activity|specific RNA polymerase II transcription factor activity|structural molecule activity|transcription coactivator activity|transcription regulatory region DNA binding	p.A5_A80del(63)|p.H24_S47del(9)|p.A5_Q143del(7)|p.A5_A80>D(7)|p.Q28_H134del(5)|p.WQQQSYLD25?(5)|p.L31L(4)|p.W25_D32del(4)|p.W25_I140del(4)|p.S23_S33del(3)|p.V22_G38del(3)|p.T3_A126del(2)|p.V22_S33del(2)|p.A5fs*7(2)|p.W25_H36del(2)|p.V22_L139>V(2)|p.M5_N141>D(2)|p.?(2)|p.L10_N141del(2)|p.A5_Y142>D(2)|p.Y30_S33del(2)|p.A20_Q143del(1)|p.A5_Q143>E(1)|p.A13_R151del(1)|p.A5_Q72del(1)|p.S29_H36del(1)|p.M14_S45del(1)|p.Q28_D32>H(1)|p.E9_S47del(1)|p.A5_G80>(1)|p.A20_N141del(1)|p.M8_G50del(1)|p.M1_A87del(1)|p.L31W(1)|p.D11_Y142>H(1)|p.D6_A43del(1)|p.A5_D144>D(1)|p.A5_T42del(1)|p.H24_G38del(1)|p.S23_I35del(1)|p.V22_G80>NNNNN(1)|p.H24_L31del(1)|p.Y30_A97del(1)|p.W25_S33del(1)|p.V22_T102del(1)|p.A20_A80del(1)|p.V22_S71>A(1)|p.D6_K133del(1)|p.Q28_A43del(1)|p.A5_T59del(1)|p.L31Q(1)|p.A20_I35del(1)|p.M1_V173del(1)|p.E15_I140>V(1)|p.W25_A80del(1)|p.A5_R90del(1)|p.S23_A39del(1)|p.D17_P128del(1)|p.H24_M131del(1)|p.A21_A80del(1)|p.A20_R151del(1)|p.Y30_A80del(1)|p.A5_T40del(1)|p.E9_A80del(1)|p.K19_Y142>V(1)|p.A5_E54del(1)|p.A20_L148del(1)|p.V22_A80del(1)|p.W25_I35del(1)|p.M8_A80del(1)|p.E9_I140del(1)|p.P16_K133del(1)|p.V22_Y64del(1)|p.A20_Q72del(1)|p.D6_I140del(1)|p.Q28_Q61del(1)|p.A20_S111del(1)|p.Y30_T40del(1)|p.Q28_I140del(1)|p.D17_A126del(1)|p.M1_T42del(1)|p.A5_I35del(1)|p.S23_I140del(1)|p.L7_I140del(1)	CTNNB1/PLAG1(60)	liver(806)|soft_tissue(609)|large_intestine(243)|endometrium(222)|kidney(172)|stomach(157)|central_nervous_system(139)|ovary(104)|skin(97)|pancreas(91)|adrenal_gland(85)|pituitary(81)|salivary_gland(62)|haematopoietic_and_lymphoid_tissue(57)|thyroid(55)|biliary_tract(41)|lung(38)|prostate(24)|bone(20)|small_intestine(17)|cervix(9)|parathyroid(9)|urinary_tract(8)|breast(7)|oesophagus(5)|NS(3)|pleura(2)|upper_aerodigestive_tract(2)|eye(1)	3166				KIRC - Kidney renal clear cell carcinoma(284;0.0028)|Kidney(284;0.00294)	Lithium(DB01356)	ACAGTCTTACCTGGACTCTGG	0.478		15	H|Mis|T	PLAG1	colorectal|cvarian| hepatoblastoma|others|pleomorphic salivary adenoma				Pilomatrixoma_Familial_Clustering_of				6	22	---	---	---	---	PASS
ZNF502	91392	broad.mit.edu	37	3	44763768	44763768	+	Missense_Mutation	SNP	G	T	T			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:44763768G>T	uc011baa.1	+	4	1714	c.1459G>T	c.(1459-1461)GGT>TGT	p.G487C	ZNF502_uc003cns.2_Missense_Mutation_p.G487C|ZNF502_uc011bab.1_Missense_Mutation_p.G487C|ZNF502_uc003cnt.2_Missense_Mutation_p.G487C	NM_001134440	NP_001127912	Q8TBZ5	ZN502_HUMAN	zinc finger protein 502	487					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0				BRCA - Breast invasive adenocarcinoma(193;0.00855)|KIRC - Kidney renal clear cell carcinoma(197;0.0471)|Kidney(197;0.0589)		AACTCACACTGGTGAGAAGCT	0.398													5	37	---	---	---	---	PASS
NBEAL2	23218	broad.mit.edu	37	3	47030752	47030752	+	Silent	SNP	G	T	T			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:47030752G>T	uc003cqp.2	+	5	533	c.354G>T	c.(352-354)CTG>CTT	p.L118L	NBEAL2_uc003cqq.1_Silent_p.L111L	NM_015175	NP_055990	Q6ZNJ1	NBEL2_HUMAN	neurobeachin-like 2	118							binding			ovary(1)	1		Acute lymphoblastic leukemia(5;0.0534)		BRCA - Breast invasive adenocarcinoma(193;0.0012)|KIRC - Kidney renal clear cell carcinoma(197;0.00575)|Kidney(197;0.00656)		ACCTACAGCTGAAAGGATGCC	0.622													7	5	---	---	---	---	PASS
CELSR3	1951	broad.mit.edu	37	3	48701428	48701428	+	5'Flank	SNP	G	C	C			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:48701428G>C	uc003cul.2	-						CELSR3_uc003cuf.1_Intron	NM_001407	NP_001398	Q9NYQ7	CELR3_HUMAN	cadherin EGF LAG seven-pass G-type receptor 3						homophilic cell adhesion|multicellular organismal development|neuropeptide signaling pathway	integral to membrane|plasma membrane	calcium ion binding|G-protein coupled receptor activity|protein binding			ovary(5)|upper_aerodigestive_tract(2)|central_nervous_system(2)|skin(2)	11				BRCA - Breast invasive adenocarcinoma(193;0.000292)|KIRC - Kidney renal clear cell carcinoma(197;0.00549)|Kidney(197;0.00619)		CAGAGGACGCGGGCATCCCGA	0.657											OREG0015562	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	3	1	---	---	---	---	PASS
P4HTM	54681	broad.mit.edu	37	3	49044337	49044337	+	Silent	SNP	C	G	G			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:49044337C>G	uc003cvg.2	+	9	1855	c.1506C>G	c.(1504-1506)CTC>CTG	p.L502L	P4HTM_uc003cvh.2_Silent_p.L563L|WDR6_uc011bbx.1_5'Flank|WDR6_uc003cvj.2_5'Flank|WDR6_uc011bby.1_5'Flank|WDR6_uc010hkn.2_5'Flank|WDR6_uc011bbz.1_5'Flank	NM_177939	NP_808808	Q9NXG6	P4HTM_HUMAN	hypoxia-inducible factor prolyl 4-hydroxylase	502	Lumenal (Potential).					endoplasmic reticulum membrane|integral to membrane	calcium ion binding|iron ion binding|L-ascorbic acid binding|oxidoreductase activity, acting on paired donors, with incorporation or reduction of molecular oxygen|oxidoreductase activity, acting on single donors with incorporation of molecular oxygen, incorporation of two atoms of oxygen			skin(1)|pancreas(1)	2					Vitamin C(DB00126)	GCGTGGAACTCTGAGGGAAGA	0.657													5	5	---	---	---	---	PASS
IMPDH2	3615	broad.mit.edu	37	3	49064382	49064382	+	Intron	SNP	C	G	G			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:49064382C>G	uc003cvt.2	-							NM_000884	NP_000875	P12268	IMDH2_HUMAN	inosine monophosphate dehydrogenase 2						GMP biosynthetic process|purine base metabolic process	cytosol|nucleus	IMP dehydrogenase activity|metal ion binding|nucleotide binding|protein binding			lung(1)	1				BRCA - Breast invasive adenocarcinoma(193;8.01e-05)|Kidney(197;0.00216)|KIRC - Kidney renal clear cell carcinoma(197;0.00244)	Mycophenolate mofetil(DB00688)|Mycophenolic acid(DB01024)|NADH(DB00157)	TTTCCCAGCTCTAGGACTTAC	0.498													87	111	---	---	---	---	PASS
IMPDH2	3615	broad.mit.edu	37	3	49065169	49065169	+	Missense_Mutation	SNP	C	T	T			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:49065169C>T	uc003cvt.2	-	5	597	c.505G>A	c.(505-507)GAG>AAG	p.E169K		NM_000884	NP_000875	P12268	IMDH2_HUMAN	inosine monophosphate dehydrogenase 2	169	CBS 1.				GMP biosynthetic process|purine base metabolic process	cytosol|nucleus	IMP dehydrogenase activity|metal ion binding|nucleotide binding|protein binding			lung(1)	1				BRCA - Breast invasive adenocarcinoma(193;8.01e-05)|Kidney(197;0.00216)|KIRC - Kidney renal clear cell carcinoma(197;0.00244)	Mycophenolate mofetil(DB00688)|Mycophenolic acid(DB01024)|NADH(DB00157)	TCATGTTCCTCCTCTTTGAGA	0.537													33	36	---	---	---	---	PASS
GRM2	2912	broad.mit.edu	37	3	51746554	51746554	+	Silent	SNP	G	T	T			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:51746554G>T	uc010hlv.2	+	3	755	c.516G>T	c.(514-516)CTG>CTT	p.L172L	GRM2_uc003dbo.3_Intron|GRM2_uc010hlu.2_RNA	NM_000839	NP_000830	Q14416	GRM2_HUMAN	glutamate receptor, metabotropic 2 isoform a	172	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)	GTGCCAAGCTGAGTGACAAGT	0.542													5	65	---	---	---	---	PASS
IQCF2	389123	broad.mit.edu	37	3	51897351	51897351	+	Missense_Mutation	SNP	C	T	T			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:51897351C>T	uc003dbt.1	+	3	498	c.460C>T	c.(460-462)CAC>TAC	p.H154Y	IQCF1_uc003dbq.3_Intron|IQCF2_uc003dbu.1_RNA	NM_203424	NP_982248	Q8IXL9	IQCF2_HUMAN	IQ motif containing F2	154											0				BRCA - Breast invasive adenocarcinoma(193;8.01e-05)|Kidney(197;0.000537)|KIRC - Kidney renal clear cell carcinoma(197;0.000716)		CACAGCCACTCACCTGCAGTT	0.547													55	59	---	---	---	---	PASS
ITIH1	3697	broad.mit.edu	37	3	52813520	52813520	+	Missense_Mutation	SNP	G	C	C	rs35394357	byFrequency	TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:52813520G>C	uc003dfs.2	+	5	507	c.483G>C	c.(481-483)CAG>CAC	p.Q161H	ITIH1_uc010hmn.1_RNA	NM_002215	NP_002206	P19827	ITIH1_HUMAN	inter-alpha (globulin) inhibitor H1	161	VIT.				hyaluronan metabolic process|leukocyte activation	extracellular region	calcium ion binding|serine-type endopeptidase inhibitor activity			ovary(3)	3				BRCA - Breast invasive adenocarcinoma(193;7.04e-05)|Kidney(197;0.000659)|KIRC - Kidney renal clear cell carcinoma(197;0.000795)|OV - Ovarian serous cystadenocarcinoma(275;0.0498)		TCACGTTTCAGCTGACTTATG	0.498													14	55	---	---	---	---	PASS
PRKCD	5580	broad.mit.edu	37	3	53223900	53223900	+	Missense_Mutation	SNP	G	T	T			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:53223900G>T	uc003dgl.2	+	18	2108	c.1755G>T	c.(1753-1755)AGG>AGT	p.R585S	PRKCD_uc003dgm.2_Missense_Mutation_p.R585S	NM_006254	NP_006245	Q05655	KPCD_HUMAN	protein kinase C, delta	585	Protein kinase.				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)		TCTTTGAAAGGGAACCAACCA	0.547													7	145	---	---	---	---	PASS
TKT	7086	broad.mit.edu	37	3	53275207	53275207	+	Nonsense_Mutation	SNP	C	A	A			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:53275207C>A	uc003dgo.2	-	3	390	c.280G>T	c.(280-282)GAG>TAG	p.E94*	TKT_uc011beo.1_Nonsense_Mutation_p.E47*|TKT_uc003dgq.2_Nonsense_Mutation_p.E94*|TKT_uc011beq.1_Nonsense_Mutation_p.E94*|TKT_uc011ber.1_5'UTR|TKT_uc011bep.1_Intron	NM_001135055	NP_001128527	P29401	TKT_HUMAN	transketolase isoform 1	94					energy reserve metabolic process|xylulose biosynthetic process	cytosol	protein binding|transketolase activity			ovary(2)	2		Prostate(884;0.0959)		BRCA - Breast invasive adenocarcinoma(193;0.000159)|OV - Ovarian serous cystadenocarcinoma(275;0.000314)|Kidney(197;0.00178)|KIRC - Kidney renal clear cell carcinoma(197;0.00201)	Thiamine(DB00152)	AGCTCCGCCTCGGCCAGGAAA	0.657													5	39	---	---	---	---	PASS
SYNPR	132204	broad.mit.edu	37	3	63600977	63600977	+	Silent	SNP	G	T	T			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:63600977G>T	uc003dlq.2	+	5	987	c.618G>T	c.(616-618)TCG>TCT	p.S206S	SYNPR_uc003dlp.2_Silent_p.S226S|SYNPR_uc011bfk.1_RNA|SYNPR_uc011bfl.1_RNA|SYNPR_uc010hnt.2_Silent_p.S215S|SYNPR_uc011bfm.1_RNA	NM_144642	NP_653243	Q8TBG9	SYNPR_HUMAN	synaptoporin isoform 2	206	Cytoplasmic (Potential).					cell junction|integral to membrane|synaptic vesicle membrane|synaptosome	transporter activity				0				BRCA - Breast invasive adenocarcinoma(55;0.000918)|KIRC - Kidney renal clear cell carcinoma(15;0.0658)|Kidney(15;0.0904)		GGCATTCTTCGGGACAGAGAT	0.448													4	19	---	---	---	---	PASS
EPHA3	2042	broad.mit.edu	37	3	89462338	89462338	+	Missense_Mutation	SNP	G	T	T			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:89462338G>T	uc003dqy.2	+	10	2035	c.1810G>T	c.(1810-1812)GAC>TAC	p.D604Y	EPHA3_uc010hon.1_RNA	NM_005233	NP_005224	P29320	EPHA3_HUMAN	ephrin receptor EphA3 isoform a precursor	604	Cytoplasmic (Potential).					extracellular region|integral to plasma membrane	ATP binding			lung(17)|ovary(7)|large_intestine(4)|central_nervous_system(2)|stomach(1)|skin(1)|pancreas(1)	33	all_cancers(8;0.0406)|Melanoma(1;0.00142)|all_epithelial(1;0.0612)	Lung NSC(201;0.0782)		LUSC - Lung squamous cell carcinoma(29;0.00344)|Lung(72;0.00942)		TACATATGAAGACCCTACCCA	0.418										TSP Lung(6;0.00050)			6	17	---	---	---	---	PASS
GPR128	84873	broad.mit.edu	37	3	100373724	100373724	+	Silent	SNP	C	T	T			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:100373724C>T	uc003duc.2	+	12	1693	c.1425C>T	c.(1423-1425)TGC>TGT	p.C475C	GPR128_uc011bhc.1_Silent_p.C176C|GPR128_uc003dud.2_5'UTR	NM_032787	NP_116176	Q96K78	GP128_HUMAN	G protein-coupled receptor 128 precursor	475	Helical; Name=2; (Potential).				neuropeptide signaling pathway	integral to membrane|plasma membrane	G-protein coupled receptor activity			ovary(3)|skin(1)	4						TCAATCTGTGCATATCAATGT	0.313													6	78	---	---	---	---	PASS
FAM55C	91775	broad.mit.edu	37	3	101540798	101540798	+	Nonstop_Mutation	SNP	G	T	T			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:101540798G>T	uc003dvn.2	+	8	2317	c.1680G>T	c.(1678-1680)TAG>TAT	p.*560Y	FAM55C_uc010hpn.2_Nonstop_Mutation_p.*560Y	NM_145037	NP_659474	Q969Y0	FA55C_HUMAN	hypothetical protein LOC91775 precursor	560						extracellular region				ovary(1)|pancreas(1)|skin(1)	3						TGGAAACCTAGCCTGTCTTGG	0.478													26	67	---	---	---	---	PASS
MYH15	22989	broad.mit.edu	37	3	108163569	108163569	+	Missense_Mutation	SNP	G	A	A			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:108163569G>A	uc003dxa.1	-	23	2690	c.2633C>T	c.(2632-2634)TCA>TTA	p.S878L		NM_014981	NP_055796	Q9Y2K3	MYH15_HUMAN	myosin, heavy polypeptide 15	878	Potential.					myofibril|myosin filament	actin binding|ATP binding|calmodulin binding|motor activity			ovary(5)|central_nervous_system(2)	7						CTGAAACTCTGATTTCTCCAA	0.433													7	93	---	---	---	---	PASS
CD96	10225	broad.mit.edu	37	3	111296348	111296348	+	Splice_Site	SNP	G	T	T			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:111296348G>T	uc003dxw.2	+	4	714	c.544_splice	c.e4-1	p.E182_splice	CD96_uc003dxv.2_Intron|CD96_uc003dxx.2_Intron|CD96_uc010hpy.1_Intron	NM_198196	NP_937839	P40200	TACT_HUMAN	CD96 antigen isoform 1 precursor						cell adhesion|immune response|regulation of immune response	integral to plasma membrane				skin(2)|central_nervous_system(1)	3						TTCTTCCTTAGGAAAACAGCA	0.423									Opitz_Trigonocephaly_syndrome				9	203	---	---	---	---	PASS
PLCXD2	257068	broad.mit.edu	37	3	111427219	111427219	+	Missense_Mutation	SNP	G	A	A			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:111427219G>A	uc003dya.2	+	2	1196	c.610G>A	c.(610-612)GAG>AAG	p.E204K	PLCXD2_uc003dyb.2_Missense_Mutation_p.E204K|PLCXD2_uc003dxz.2_Missense_Mutation_p.E204K	NM_001134478	NP_001127950	Q0VAA5	PLCX2_HUMAN	phosphatidylinositol-specific phospholipase C, X	204	PI-PLC X-box.				intracellular signal transduction|lipid catabolic process		phospholipase C activity|signal transducer activity			skin(1)	1						AACTCTGTGGGAGAAGAACTG	0.498													13	86	---	---	---	---	PASS
PHLDB2	90102	broad.mit.edu	37	3	111603433	111603433	+	Missense_Mutation	SNP	G	C	C			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:111603433G>C	uc010hqa.2	+	2	920	c.509G>C	c.(508-510)CGG>CCG	p.R170P	PHLDB2_uc003dyc.2_Missense_Mutation_p.R197P|PHLDB2_uc003dyd.2_Missense_Mutation_p.R170P|PHLDB2_uc003dyg.2_Missense_Mutation_p.R170P|PHLDB2_uc003dyh.2_Missense_Mutation_p.R170P|PHLDB2_uc003dye.3_Missense_Mutation_p.R170P|PHLDB2_uc003dyf.3_Missense_Mutation_p.R170P	NM_001134438	NP_001127910	Q86SQ0	PHLB2_HUMAN	pleckstrin homology-like domain, family B,	170						cytoplasm|intermediate filament cytoskeleton|plasma membrane				ovary(4)|skin(2)	6						CTGGAAGGTCGGAAGGCATCT	0.547													21	121	---	---	---	---	PASS
ADPRH	141	broad.mit.edu	37	3	119306567	119306567	+	Missense_Mutation	SNP	A	G	G			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:119306567A>G	uc003ecs.2	+	5	1214	c.916A>G	c.(916-918)ACA>GCA	p.T306A	ADPRH_uc010hqv.2_Missense_Mutation_p.T306A|ADPRH_uc011bjb.1_Missense_Mutation_p.T199A|ADPRH_uc003ect.2_Missense_Mutation_p.T306A	NM_001125	NP_001116	P54922	ADPRH_HUMAN	ADP-ribosylarginine hydrolase	306					protein de-ADP-ribosylation		ADP-ribosylarginine hydrolase activity|magnesium ion binding			ovary(1)	1		Lung NSC(201;0.0977)		GBM - Glioblastoma multiforme(114;0.23)		CAGTGATTCTACAGCTGCCAT	0.512													38	30	---	---	---	---	PASS
ARGFX	503582	broad.mit.edu	37	3	121305099	121305099	+	Silent	SNP	C	A	A			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:121305099C>A	uc003eef.2	+	5	695	c.600C>A	c.(598-600)ACC>ACA	p.T200T		NM_001012659	NP_001012677	A6NJG6	ARGFX_HUMAN	arginine-fifty homeobox	200						nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity			skin(2)|ovary(1)	3				GBM - Glioblastoma multiforme(114;0.152)		AGAGTTCTACCAGTGACTTCC	0.463													7	168	---	---	---	---	PASS
FBXO40	51725	broad.mit.edu	37	3	121341598	121341598	+	Missense_Mutation	SNP	G	T	T			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:121341598G>T	uc003eeg.2	+	3	1532	c.1322G>T	c.(1321-1323)GGG>GTG	p.G441V		NM_016298	NP_057382	Q9UH90	FBX40_HUMAN	F-box protein 40	441					muscle cell differentiation	centrosome|nucleus	ubiquitin-protein ligase activity|zinc ion binding			ovary(2)|lung(1)|breast(1)|central_nervous_system(1)	5				GBM - Glioblastoma multiforme(114;0.189)		TTTTCCTCTGGGACAGTGCTG	0.532													7	98	---	---	---	---	PASS
GOLGB1	2804	broad.mit.edu	37	3	121414463	121414463	+	Missense_Mutation	SNP	C	A	A			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:121414463C>A	uc003eei.3	-	13	5018	c.4892G>T	c.(4891-4893)AGG>ATG	p.R1631M	GOLGB1_uc010hrc.2_Missense_Mutation_p.R1636M|GOLGB1_uc003eej.3_Missense_Mutation_p.R1597M|GOLGB1_uc011bjm.1_Missense_Mutation_p.R1517M|GOLGB1_uc010hrd.1_Missense_Mutation_p.R1595M	NM_004487	NP_004478	Q14789	GOGB1_HUMAN	golgi autoantigen, golgin subfamily b,	1631	Cytoplasmic (Potential).|Potential.				Golgi organization	ER-Golgi intermediate compartment|Golgi membrane|Golgi stack|integral to membrane	protein binding			ovary(6)|breast(2)|skin(2)	10				GBM - Glioblastoma multiforme(114;0.0989)		ATGCTGAATCCTTTCTGCTTC	0.413													8	143	---	---	---	---	PASS
TMEM108	66000	broad.mit.edu	37	3	133098900	133098900	+	Silent	SNP	A	G	G			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:133098900A>G	uc003eph.2	+	4	619	c.345A>G	c.(343-345)ACA>ACG	p.T115T	TMEM108_uc003epi.2_Silent_p.T115T|TMEM108_uc003epj.1_Silent_p.T115T|TMEM108_uc003epk.2_Intron|TMEM108_uc003epm.2_Silent_p.T66T	NM_023943	NP_076432	Q6UXF1	TM108_HUMAN	transmembrane protein 108 precursor	115	Pro-rich.|Extracellular (Potential).					integral to membrane				ovary(2)|skin(2)	4						CCCTGTCCACAGGGCCCGCTC	0.667													8	40	---	---	---	---	PASS
TF	7018	broad.mit.edu	37	3	133483021	133483021	+	Intron	SNP	T	C	C			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:133483021T>C	uc003epu.1	+						TF_uc011blt.1_Intron|TF_uc003epw.1_Intron|TF_uc003epv.1_Intron	NM_001063	NP_001054	P02787	TRFE_HUMAN	transferrin precursor						cellular iron ion homeostasis|platelet activation|platelet degranulation|transferrin transport|transmembrane transport	apical plasma membrane|basal plasma membrane|coated pit|early endosome|endocytic vesicle|endosome membrane|extracellular region|late endosome|perinuclear region of cytoplasm|recycling endosome|stored secretory granule	ferric iron binding			ovary(1)|skin(1)	2					Aluminium(DB01370)|Bismuth(DB01402)|Iron Dextran(DB00893)	GCTGTGTCTTTGCAGAATGGA	0.488													7	159	---	---	---	---	PASS
PCCB	5096	broad.mit.edu	37	3	136012597	136012597	+	Splice_Site	SNP	G	T	T			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:136012597G>T	uc003eqy.1	+	7	706	c.655_splice	c.e7-1	p.D219_splice	PCCB_uc003eqz.1_Splice_Site_p.D219_splice|PCCB_uc011bmc.1_Splice_Site_p.D239_splice|PCCB_uc011bmd.1_Splice_Site_p.D136_splice	NM_000532	NP_000523	P05166	PCCB_HUMAN	propionyl Coenzyme A carboxylase, beta						fatty acid beta-oxidation	mitochondrial matrix	ATP binding|propionyl-CoA carboxylase activity				0					Biotin(DB00121)|L-Valine(DB00161)	TTTTATTTCAGGACACCTCCT	0.493													7	213	---	---	---	---	PASS
RBP2	5948	broad.mit.edu	37	3	139172003	139172003	+	Silent	SNP	C	A	A			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:139172003C>A	uc003eth.2	-	4	411	c.360G>T	c.(358-360)CTG>CTT	p.L120L		NM_004164	NP_004155	P50120	RET2_HUMAN	retinol binding protein 2, cellular	120					epidermis development|retinoid metabolic process|steroid metabolic process|vitamin A metabolic process	cytosol	retinal binding|retinol binding|transporter activity			skin(1)	1					Vitamin A(DB00162)	CACCACAGGTCAGCTCCTGCA	0.582													10	60	---	---	---	---	PASS
TFDP2	7029	broad.mit.edu	37	3	141682763	141682763	+	Nonsense_Mutation	SNP	C	A	A			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:141682763C>A	uc003eun.3	-	10	1154	c.775G>T	c.(775-777)GAG>TAG	p.E259*	TFDP2_uc003euk.3_Nonsense_Mutation_p.E172*|TFDP2_uc010hur.2_Nonsense_Mutation_p.E199*|TFDP2_uc003eul.3_Nonsense_Mutation_p.E199*|TFDP2_uc011bnf.1_Nonsense_Mutation_p.E162*|TFDP2_uc011bng.1_Nonsense_Mutation_p.E123*|TFDP2_uc003eum.3_Nonsense_Mutation_p.E199*	NM_006286	NP_006277	Q14188	TFDP2_HUMAN	transcription factor Dp-2 (E2F dimerization	259	Dimerization (Potential).|DCB1.				cell cycle	transcription factor complex	DNA binding|protein domain specific binding|sequence-specific DNA binding transcription factor activity|transcription cofactor activity|transcription factor binding			kidney(1)	1						TTTTGCTGCTCATTTTGTCGA	0.393													7	140	---	---	---	---	PASS
SMC4	10051	broad.mit.edu	37	3	160141631	160141631	+	Intron	SNP	C	T	T			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:160141631C>T	uc003fdh.2	+						IFT80_uc003fda.2_Intron|SMC4_uc010hwc.1_Intron|SMC4_uc003fdi.2_Intron|SMC4_uc003fdj.2_Intron|SMC4_uc010hwd.2_Intron|SMC4_uc003fdl.2_Intron	NM_001002800	NP_001002800	Q9NTJ3	SMC4_HUMAN	SMC4 structural maintenance of chromosomes						cell division|mitotic chromosome condensation	condensin complex|cytoplasm|nucleus	ATP binding|protein heterodimerization activity			ovary(1)|breast(1)	2			Lung(72;0.00334)|LUSC - Lung squamous cell carcinoma(72;0.00523)			AAGAAGAGGTCAGCATATCTA	0.353													11	43	---	---	---	---	PASS
TTC14	151613	broad.mit.edu	37	3	180322794	180322794	+	Missense_Mutation	SNP	A	T	T			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:180322794A>T	uc003fkk.2	+	6	988	c.856A>T	c.(856-858)AGC>TGC	p.S286C	TTC14_uc003fkl.2_Missense_Mutation_p.S286C|TTC14_uc003fkm.2_Missense_Mutation_p.S286C	NM_133462	NP_597719	Q96N46	TTC14_HUMAN	tetratricopeptide repeat domain 14 isoform a	286							RNA binding			ovary(1)	1	all_cancers(143;9.31e-15)|Ovarian(172;0.0212)		OV - Ovarian serous cystadenocarcinoma(80;5.62e-23)|GBM - Glioblastoma multiforme(14;0.000558)			AGGCCTACAAAGGTATAGTAC	0.413													10	22	---	---	---	---	PASS
ATP13A3	79572	broad.mit.edu	37	3	194168693	194168693	+	Missense_Mutation	SNP	G	T	T			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:194168693G>T	uc003fty.3	-	12	1598	c.1196C>A	c.(1195-1197)CCC>CAC	p.P399H	ATP13A3_uc003ftz.1_Missense_Mutation_p.P105H	NM_024524	NP_078800	Q9H7F0	AT133_HUMAN	ATPase type 13A3	399					ATP biosynthetic process|cation transport	integral to membrane	ATP binding|ATPase activity, coupled to transmembrane movement of ions, phosphorylative mechanism|metal ion binding			ovary(1)	1	all_cancers(143;6.01e-09)|Ovarian(172;0.0634)	Melanoma(1037;0.211)	OV - Ovarian serous cystadenocarcinoma(49;3.83e-18)|LUSC - Lung squamous cell carcinoma(58;3.55e-06)|Lung(62;4.19e-06)	GBM - Glioblastoma multiforme(46;5.98e-05)		AGTTGGTTTGGGATACAATAT	0.323													9	293	---	---	---	---	PASS
PIGZ	80235	broad.mit.edu	37	3	196675077	196675077	+	Missense_Mutation	SNP	G	C	C			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:196675077G>C	uc003fxh.2	-	3	838	c.691C>G	c.(691-693)CTG>GTG	p.L231V		NM_025163	NP_079439	Q86VD9	PIGZ_HUMAN	phosphatidylinositol glycan anchor biosynthesis,	231	Helical; (Potential).				GPI anchor biosynthetic process	integral to membrane|intrinsic to endoplasmic reticulum membrane	alpha-1,2-mannosyltransferase activity			ovary(3)	3	all_cancers(143;1.05e-08)|Ovarian(172;0.0634)|Breast(254;0.0838)		Epithelial(36;4.29e-24)|all cancers(36;2.79e-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;0.00603)		GCAAAGGCCAGAAAGGTGGGC	0.657													26	18	---	---	---	---	PASS
MFSD7	84179	broad.mit.edu	37	4	677144	677144	+	Missense_Mutation	SNP	G	T	T			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:677144G>T	uc003gay.2	-	8	1066	c.1009C>A	c.(1009-1011)CAG>AAG	p.Q337K	MFSD7_uc003gaw.2_Missense_Mutation_p.Q79K|MFSD7_uc003gax.2_Missense_Mutation_p.Q336K|MFSD7_uc003gaz.2_Missense_Mutation_p.Q218K|MFSD7_uc003gba.2_Missense_Mutation_p.Q240K|MFSD7_uc003gbb.1_Missense_Mutation_p.Q272K	NM_032219	NP_115595	Q6UXD7	MFSD7_HUMAN	major facilitator superfamily domain containing	337	Helical; (Potential).				transmembrane transport	integral to membrane					0						GTCTGTCCCTGCAGCTGGGAC	0.667													9	19	---	---	---	---	PASS
WHSC1	7468	broad.mit.edu	37	4	1936941	1936941	+	Missense_Mutation	SNP	G	T	T			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:1936941G>T	uc003gdz.3	+	7	1802	c.1626G>T	c.(1624-1626)GAG>GAT	p.E542D	WHSC1_uc003geb.3_Missense_Mutation_p.E542D|WHSC1_uc003gec.3_Missense_Mutation_p.E542D|WHSC1_uc003ged.3_Missense_Mutation_p.E542D|WHSC1_uc003gee.3_RNA|WHSC1_uc003gef.3_RNA|WHSC1_uc003gdy.1_Missense_Mutation_p.E542D|WHSC1_uc010icd.1_Missense_Mutation_p.E542D|WHSC1_uc003gea.1_Missense_Mutation_p.E542D|WHSC1_uc010ice.1_Missense_Mutation_p.E542D|WHSC1_uc003geh.1_Missense_Mutation_p.E542D	NM_001042424	NP_001035889	O96028	NSD2_HUMAN	Wolf-Hirschhorn syndrome candidate 1 protein	542					anatomical structure morphogenesis|regulation of transcription, DNA-dependent|transcription, DNA-dependent	chromosome|cytoplasm|nuclear membrane|nucleolus	DNA binding|histone-lysine N-methyltransferase activity|zinc ion binding			ovary(3)|lung(3)|skin(2)|pancreas(1)	9		all_epithelial(65;1.34e-05)	OV - Ovarian serous cystadenocarcinoma(23;0.00606)	STAD - Stomach adenocarcinoma(129;0.232)		CTGAAGCTGAGGACACACCCA	0.458			T	IGH@	MM								6	77	---	---	---	---	PASS
ZBTB49	166793	broad.mit.edu	37	4	4322746	4322746	+	Missense_Mutation	SNP	G	T	T			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:4322746G>T	uc003ghu.2	+	8	2176	c.2001G>T	c.(1999-2001)CAG>CAT	p.Q667H	uc003ghw.2_5'Flank|ZBTB49_uc003ghv.2_Missense_Mutation_p.Q150H|ZBTB49_uc010icy.2_RNA|ZBTB49_uc010icz.2_Missense_Mutation_p.Q245H	NM_145291	NP_660334	Q6ZSB9	ZBT49_HUMAN	zinc finger protein 509	667					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(1)|skin(1)	2						TTAGTGACCAGGAGAAGCTGA	0.527													5	46	---	---	---	---	PASS
KIAA0232	9778	broad.mit.edu	37	4	6882641	6882641	+	Missense_Mutation	SNP	G	T	T			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:6882641G>T	uc003gjr.3	+	10	4599	c.4136G>T	c.(4135-4137)GGC>GTC	p.G1379V	KIAA0232_uc003gjq.3_Missense_Mutation_p.G1379V	NM_014743	NP_055558	Q92628	K0232_HUMAN	hypothetical protein LOC9778	1379							ATP binding			ovary(2)	2						GAAGGCGGAGGCGAGTGGGTG	0.488													8	55	---	---	---	---	PASS
GRXCR1	389207	broad.mit.edu	37	4	42895358	42895358	+	Silent	SNP	T	C	C			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:42895358T>C	uc003gwt.2	+	1	75	c.75T>C	c.(73-75)AGT>AGC	p.S25S		NM_001080476	NP_001073945	A8MXD5	GRCR1_HUMAN	glutaredoxin, cysteine rich 1	25					cell redox homeostasis|inner ear receptor stereocilium organization|sensory perception of sound|vestibular receptor cell development	kinocilium|stereocilium	electron carrier activity|protein disulfide oxidoreductase activity			ovary(1)	1						CCTCTCACAGTGGGCGAGTTC	0.512													33	40	---	---	---	---	PASS
SLAIN2	57606	broad.mit.edu	37	4	48422291	48422291	+	Missense_Mutation	SNP	C	G	G			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:48422291C>G	uc003gya.3	+	7	1654	c.1510C>G	c.(1510-1512)CCT>GCT	p.P504A		NM_020846	NP_065897	Q9P270	SLAI2_HUMAN	SLAIN motif family, member 2	504						centrosome					0						ACCTGGGCCTCCTATGGTTCA	0.507													29	117	---	---	---	---	PASS
LPHN3	23284	broad.mit.edu	37	4	62598664	62598664	+	Missense_Mutation	SNP	C	A	A			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:62598664C>A	uc010ihh.2	+	5	760	c.587C>A	c.(586-588)CCA>CAA	p.P196Q	LPHN3_uc003hcq.3_Missense_Mutation_p.P196Q|LPHN3_uc010ihg.1_Missense_Mutation_p.P264Q|LPHN3_uc003hcs.1_Missense_Mutation_p.P25Q	NM_015236	NP_056051	Q9HAR2	LPHN3_HUMAN	latrophilin 3 precursor	196	Extracellular (Potential).|Olfactomedin-like.				neuropeptide signaling pathway	integral to membrane|plasma membrane	G-protein coupled receptor activity|sugar binding			lung(15)|ovary(1)|central_nervous_system(1)|pancreas(1)	18						GCTGGAAGACCAACTACAACC	0.458													11	22	---	---	---	---	PASS
ANKRD17	26057	broad.mit.edu	37	4	74021826	74021826	+	Silent	SNP	G	T	T			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:74021826G>T	uc003hgp.2	-	4	879	c.762C>A	c.(760-762)CTC>CTA	p.L254L	ANKRD17_uc003hgo.2_Silent_p.L141L|ANKRD17_uc003hgq.2_Silent_p.L254L|ANKRD17_uc003hgr.2_Silent_p.L254L|ANKRD17_uc011cbd.1_5'Flank	NM_032217	NP_115593	O75179	ANR17_HUMAN	ankyrin repeat domain protein 17 isoform a	254	ANK 1.				interspecies interaction between organisms	cytoplasm|nucleus	RNA binding			ovary(5)|skin(3)|upper_aerodigestive_tract(1)|lung(1)	10	Breast(15;0.000295)		Epithelial(6;8.86e-07)|OV - Ovarian serous cystadenocarcinoma(6;6.22e-06)|all cancers(17;1.51e-05)|Lung(101;0.103)|LUSC - Lung squamous cell carcinoma(112;0.154)			GCCCTTCAATGAGTAACTTTC	0.418													4	18	---	---	---	---	PASS
RASGEF1B	153020	broad.mit.edu	37	4	82363503	82363503	+	Missense_Mutation	SNP	C	A	A	rs151288385		TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:82363503C>A	uc003hmi.1	-	9	1100	c.956G>T	c.(955-957)CGA>CTA	p.R319L	RASGEF1B_uc003hmj.1_Missense_Mutation_p.R318L|RASGEF1B_uc010ijq.1_Missense_Mutation_p.R277L	NM_152545	NP_689758	Q0VAM2	RGF1B_HUMAN	RasGEF domain family, member 1B	319	Ras-GEF.				regulation of small GTPase mediated signal transduction|small GTPase mediated signal transduction	intracellular	Ras guanyl-nucleotide exchange factor activity				0						TTTTTTTAGTCGAGAGACTGG	0.368													4	30	---	---	---	---	PASS
ADH1A	124	broad.mit.edu	37	4	100239199	100239199	+	Intron	SNP	G	A	A			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:100239199G>A	uc011ceg.1	-						ADH1B_uc003hus.3_Intron|ADH1B_uc003hut.3_Intron|ADH1B_uc011ceh.1_Intron|ADH1B_uc011cei.1_Intron	NM_000667	NP_000658	P07327	ADH1A_HUMAN	class I alcohol dehydrogenase, alpha subunit						ethanol oxidation|transcription, DNA-dependent|xenobiotic metabolic process	cytosol	alcohol dehydrogenase activity, zinc-dependent|protein binding|zinc ion binding			large_intestine(1)|ovary(1)	2				OV - Ovarian serous cystadenocarcinoma(123;9.56e-08)	Fomepizole(DB01213)|NADH(DB00157)	TGTGAATCCTGTACCTGGTTT	0.532													20	149	---	---	---	---	PASS
MANBA	4126	broad.mit.edu	37	4	103635724	103635724	+	Intron	SNP	A	G	G			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:103635724A>G	uc003hwg.2	-						MANBA_uc011ces.1_Intron	NM_005908	NP_005899	O00462	MANBA_HUMAN	mannosidase, beta A, lysosomal precursor						carbohydrate metabolic process|protein modification process	lysosome	beta-mannosidase activity|cation binding			ovary(1)	1		Hepatocellular(203;0.217)		OV - Ovarian serous cystadenocarcinoma(123;4.44e-08)		TGCTCCTGCAATTTCAAGGAG	0.318													9	36	---	---	---	---	PASS
LEF1	51176	broad.mit.edu	37	4	109088716	109088716	+	Missense_Mutation	SNP	G	C	C			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:109088716G>C	uc003hyt.1	-	1	863	c.208C>G	c.(208-210)CAC>GAC	p.H70D	LEF1_uc011cfj.1_5'Flank|LEF1_uc011cfk.1_5'Flank|LEF1_uc003hyu.1_Missense_Mutation_p.H70D|LEF1_uc003hyv.1_Missense_Mutation_p.H70D|LEF1_uc010imb.1_RNA	NM_016269	NP_057353	Q9UJU2	LEF1_HUMAN	lymphoid enhancer-binding factor 1 isoform 1	70					canonical Wnt receptor signaling pathway|cell chemotaxis|cellular response to interleukin-4|epithelial to mesenchymal transition|histone H3 acetylation|histone H4 acetylation|negative regulation of apoptosis in bone marrow|negative regulation of canonical Wnt receptor signaling pathway|negative regulation of cell-cell adhesion|negative regulation of DNA binding|negative regulation of estrogen receptor binding|negative regulation of interleukin-13 production|negative regulation of interleukin-4 production|negative regulation of interleukin-5 production|negative regulation of transcription, DNA-dependent|neutrophil differentiation|osteoblast differentiation|palate development|positive regulation by host of viral transcription|positive regulation of cell cycle process|positive regulation of cell growth|positive regulation of cell migration|positive regulation of cell migration|positive regulation of cell proliferation|positive regulation of cell proliferation in bone marrow|positive regulation of cell-cell adhesion|positive regulation of epithelial to mesenchymal transition|positive regulation of granulocyte differentiation|positive regulation of transcription from RNA polymerase II promoter|positive regulation of transcription, DNA-dependent|T-helper 1 cell differentiation	cytoplasm|protein-DNA complex|transcription factor complex	armadillo repeat domain binding|beta-catenin binding|C2H2 zinc finger domain binding|caspase inhibitor activity|DNA bending activity|enhancer binding|estrogen receptor activity|estrogen receptor binding|gamma-catenin binding|histone binding|sequence-specific DNA binding|transcription regulatory region DNA binding			large_intestine(1)	1				OV - Ovarian serous cystadenocarcinoma(123;0.000224)		CTCACCTCGTGTCCGTTGCTG	0.622													22	21	---	---	---	---	PASS
COL25A1	84570	broad.mit.edu	37	4	109765719	109765719	+	Missense_Mutation	SNP	C	A	A			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:109765719C>A	uc003hze.1	-	29	2116	c.1585G>T	c.(1585-1587)GGC>TGC	p.G529C	COL25A1_uc003hzg.2_Missense_Mutation_p.G529C|COL25A1_uc003hzd.2_RNA|COL25A1_uc003hzf.2_Missense_Mutation_p.G287C	NM_198721	NP_942014	Q9BXS0	COPA1_HUMAN	collagen, type XXV, alpha 1 isoform 1	529	Extracellular (Potential).					collagen|extracellular space	beta-amyloid binding|heparin binding			ovary(2)	2		Hepatocellular(203;0.217)		OV - Ovarian serous cystadenocarcinoma(123;0.000173)		cctggtgggcctATGATCTGT	0.279													23	21	---	---	---	---	PASS
KIAA1109	84162	broad.mit.edu	37	4	123161457	123161457	+	Silent	SNP	C	A	A			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:123161457C>A	uc003ieh.2	+	27	4665	c.4620C>A	c.(4618-4620)ACC>ACA	p.T1540T	KIAA1109_uc003iei.1_Silent_p.T1293T|KIAA1109_uc010ins.1_Silent_p.T883T|KIAA1109_uc003iek.2_Silent_p.T159T	NM_015312	NP_056127	Q2LD37	K1109_HUMAN	fragile site-associated protein	1540					regulation of cell growth|regulation of epithelial cell differentiation	integral to membrane|nucleus				ovary(8)|skin(2)|pancreas(1)|central_nervous_system(1)	12						ATACACCAACCAGTGAAGAAA	0.363													5	66	---	---	---	---	PASS
SLC25A31	83447	broad.mit.edu	37	4	128688282	128688282	+	Missense_Mutation	SNP	T	A	A			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:128688282T>A	uc003ifl.2	+	4	686	c.540T>A	c.(538-540)GAT>GAA	p.D180E		NM_031291	NP_112581	Q9H0C2	ADT4_HUMAN	solute carrier family 25 (mitochondrial carrier;	180	Helical; Name=4; (Potential).|Solcar 2.				transmembrane transport	cilium|flagellum|integral to membrane|mitochondrial inner membrane	binding|transporter activity				0						CAAAATCAGATGGAATTGCTG	0.368													20	44	---	---	---	---	PASS
DCHS2	54798	broad.mit.edu	37	4	155156162	155156162	+	Silent	SNP	C	T	T			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:155156162C>T	uc003inw.2	-	25	8277	c.8277G>A	c.(8275-8277)AGG>AGA	p.R2759R		NM_017639	NP_060109	Q6V1P9	PCD23_HUMAN	dachsous 2 isoform 1	2759					homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			ovary(3)|pancreas(1)	4	all_hematologic(180;0.208)	Renal(120;0.0854)		LUSC - Lung squamous cell carcinoma(193;0.107)		GAGCTGCACACCTTACTTCCT	0.438													19	30	---	---	---	---	PASS
DCHS2	54798	broad.mit.edu	37	4	155241661	155241661	+	Missense_Mutation	SNP	C	A	A			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:155241661C>A	uc003inw.2	-	14	3525	c.3525G>T	c.(3523-3525)GAG>GAT	p.E1175D		NM_017639	NP_060109	Q6V1P9	PCD23_HUMAN	dachsous 2 isoform 1	1175	Cadherin 10.				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			ovary(3)|pancreas(1)	4	all_hematologic(180;0.208)	Renal(120;0.0854)		LUSC - Lung squamous cell carcinoma(193;0.107)		CTGTGACATCCTCTTTGACAT	0.458													5	52	---	---	---	---	PASS
FGA	2243	broad.mit.edu	37	4	155510624	155510624	+	Missense_Mutation	SNP	C	T	T			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:155510624C>T	uc003iod.1	-	2	203	c.145G>A	c.(145-147)GAT>AAT	p.D49N	FGA_uc003ioe.1_Missense_Mutation_p.D49N|FGA_uc003iof.1_Missense_Mutation_p.D49N	NM_000508	NP_000499	P02671	FIBA_HUMAN	fibrinogen, alpha polypeptide isoform alpha-E	49					platelet activation|platelet degranulation|protein polymerization|response to calcium ion|signal transduction	external side of plasma membrane|fibrinogen complex|platelet alpha granule lumen	eukaryotic cell surface binding|protein binding, bridging|receptor binding			ovary(2)|breast(1)	3	all_hematologic(180;0.215)	Renal(120;0.0458)			Alteplase(DB00009)|Anistreplase(DB00029)|Reteplase(DB00015)|Sucralfate(DB00364)|Tenecteplase(DB00031)	CAGTCTGAATCTTTGCAGGCA	0.527													35	41	---	---	---	---	PASS
ETFDH	2110	broad.mit.edu	37	4	159627943	159627943	+	Missense_Mutation	SNP	T	C	C	rs140184655		TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:159627943T>C	uc003iqb.2	+	12	1963	c.1631T>C	c.(1630-1632)ATA>ACA	p.I544T	ETFDH_uc011cjg.1_Missense_Mutation_p.I497T|ETFDH_uc010iqr.2_Missense_Mutation_p.I141T|ETFDH_uc011cjh.1_Missense_Mutation_p.I483T|ETFDH_uc010iqs.2_Missense_Mutation_p.I466T	NM_004453	NP_004444	Q16134	ETFD_HUMAN	electron-transferring-flavoprotein dehydrogenase	544					fatty acid beta-oxidation using acyl-CoA dehydrogenase|respiratory electron transport chain|response to oxidative stress|transport	integral to mitochondrial inner membrane|mitochondrial matrix	4 iron, 4 sulfur cluster binding|electron carrier activity|electron-transferring-flavoprotein dehydrogenase activity|flavin adenine dinucleotide binding|metal ion binding|oxidoreductase activity, oxidizing metal ions with flavin as acceptor|ubiquinone binding			large_intestine(2)|skin(1)	3	all_hematologic(180;0.24)	Renal(120;0.0458)		COAD - Colon adenocarcinoma(41;0.0172)		GATGACAGTATACCTGTAAAT	0.413													32	51	---	---	---	---	PASS
GALNTL6	442117	broad.mit.edu	37	4	173232904	173232904	+	Splice_Site	SNP	G	A	A			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:173232904G>A	uc003isv.2	+	4	1122	c.386_splice	c.e4+1	p.N129_splice		NM_001034845	NP_001030017	Q49A17	GLTL6_HUMAN	N-acetylgalactosaminyltransferase-like 6							Golgi membrane|integral to membrane	metal ion binding|polypeptide N-acetylgalactosaminyltransferase activity|sugar binding			breast(2)|ovary(1)|skin(1)	4						GTCATGCTAAGTGAGTATCAG	0.363													15	56	---	---	---	---	PASS
SORBS2	8470	broad.mit.edu	37	4	186578704	186578704	+	Silent	SNP	G	T	T			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:186578704G>T	uc003iyl.2	-	6	999	c.141C>A	c.(139-141)ACC>ACA	p.T47T	SORBS2_uc003iyh.2_Silent_p.T226T|SORBS2_uc011ckw.1_Silent_p.T116T|SORBS2_uc003iyi.2_Silent_p.T133T|SORBS2_uc011ckx.1_Silent_p.T93T|SORBS2_uc003iyk.2_Silent_p.T133T|SORBS2_uc003iym.2_Silent_p.T147T|SORBS2_uc003iyn.1_Silent_p.T93T|SORBS2_uc011cky.1_Silent_p.T110T|SORBS2_uc003iyp.2_Silent_p.T147T|SORBS2_uc011cku.1_5'Flank|SORBS2_uc011ckv.1_5'Flank|SORBS2_uc003iyd.2_Silent_p.T226T|SORBS2_uc003iye.2_Silent_p.T47T|SORBS2_uc003iya.2_Silent_p.T47T|SORBS2_uc003iyb.2_Silent_p.T47T|SORBS2_uc003iyc.2_Silent_p.T47T|SORBS2_uc003iyg.2_Silent_p.T133T|SORBS2_uc003iyf.2_Silent_p.T110T|SORBS2_uc003iyo.1_5'Flank	NM_021069	NP_066547	O94875	SRBS2_HUMAN	sorbin and SH3 domain containing 2 isoform 2	47						actin cytoskeleton|nucleus|perinuclear region of cytoplasm|Z disc	cytoskeletal adaptor activity|structural constituent of cytoskeleton|structural constituent of muscle|zinc ion binding			ovary(1)	1		all_cancers(14;4.27e-52)|all_epithelial(14;6.58e-39)|all_lung(41;1.42e-13)|Lung NSC(41;3.73e-13)|Melanoma(20;1.91e-06)|Colorectal(36;0.00692)|Hepatocellular(41;0.00826)|Renal(120;0.00994)|Prostate(90;0.0101)|all_hematologic(60;0.0174)|all_neural(102;0.244)		OV - Ovarian serous cystadenocarcinoma(60;1.54e-09)|BRCA - Breast invasive adenocarcinoma(30;0.000232)|GBM - Glioblastoma multiforme(59;0.000385)|STAD - Stomach adenocarcinoma(60;0.00109)|LUSC - Lung squamous cell carcinoma(40;0.0205)		AGCTGCTGGTGGTGCCATCCA	0.512													5	37	---	---	---	---	PASS
FAM105B	90268	broad.mit.edu	37	5	14690237	14690237	+	Silent	SNP	C	T	T			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:14690237C>T	uc003jfk.2	+	6	836	c.684C>T	c.(682-684)CTC>CTT	p.L228L		NM_138348	NP_612357	Q96BN8	F105B_HUMAN	hypothetical protein LOC90268	228										ovary(2)	2	Lung NSC(4;0.00696)					AATATAGCCTCTATGAAGCTG	0.383													8	69	---	---	---	---	PASS
CDH10	1008	broad.mit.edu	37	5	24492992	24492992	+	Missense_Mutation	SNP	C	T	T			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:24492992C>T	uc003jgr.1	-	10	1890	c.1558G>A	c.(1558-1560)GGT>AGT	p.G520S	CDH10_uc011cnu.1_RNA	NM_006727	NP_006718	Q9Y6N8	CAD10_HUMAN	cadherin 10, type 2 preproprotein	520	Cadherin 5.|Extracellular (Potential).				adherens junction organization|cell junction assembly|homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			ovary(6)|pancreas(4)|breast(2)	12				STAD - Stomach adenocarcinoma(35;0.0556)		TTCTGTCCACCTAAAGGGTCA	0.328										HNSCC(23;0.051)			19	88	---	---	---	---	PASS
RNASEN	29102	broad.mit.edu	37	5	31526339	31526339	+	Missense_Mutation	SNP	C	A	A			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:31526339C>A	uc003jhg.2	-	4	1060	c.701G>T	c.(700-702)CGA>CTA	p.R234L	RNASEN_uc003jhh.2_Missense_Mutation_p.R234L|RNASEN_uc003jhi.2_Missense_Mutation_p.R234L|RNASEN_uc010iui.1_Missense_Mutation_p.R225L	NM_013235	NP_037367	Q9NRR4	RNC_HUMAN	ribonuclease III, nuclear isoform 1	234	Arg-rich.				gene silencing by RNA|ribosome biogenesis|RNA processing	nucleolus|nucleoplasm	double-stranded RNA binding|metal ion binding|protein binding|ribonuclease III activity				0						ACTGTGATCTCGGTGCCTGTG	0.577													4	68	---	---	---	---	PASS
UGT3A2	167127	broad.mit.edu	37	5	36035916	36035916	+	Missense_Mutation	SNP	G	T	T			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:36035916G>T	uc003jjz.1	-	7	1549	c.1456C>A	c.(1456-1458)CTC>ATC	p.L486I	UGT3A2_uc011cos.1_Missense_Mutation_p.L452I|UGT3A2_uc011cot.1_Missense_Mutation_p.L184I	NM_174914	NP_777574	Q3SY77	UD3A2_HUMAN	UDP glycosyltransferase 3 family, polypeptide A2	486	Helical; (Potential).			L -> F (in Ref. 1; AAQ88782).		integral to membrane	glucuronosyltransferase activity			ovary(2)|skin(2)|large_intestine(1)|pancreas(1)	6	all_lung(31;0.000179)		Lung(74;0.111)|Epithelial(62;0.113)|COAD - Colon adenocarcinoma(61;0.14)|Colorectal(62;0.202)			AAAACGTCGAGCAGGTACTGC	0.607													8	47	---	---	---	---	PASS
FYB	2533	broad.mit.edu	37	5	39202153	39202153	+	Missense_Mutation	SNP	A	T	T			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:39202153A>T	uc003jls.2	-	1	977	c.910T>A	c.(910-912)TTG>ATG	p.L304M	FYB_uc003jlt.2_Missense_Mutation_p.L304M|FYB_uc003jlu.2_Missense_Mutation_p.L304M|FYB_uc011cpl.1_Missense_Mutation_p.L314M	NM_199335	NP_955367	O15117	FYB_HUMAN	FYN binding protein (FYB-120/130) isoform 2	304					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)			CCTGAGGCCAACTCTTCCTGA	0.507													10	69	---	---	---	---	PASS
HCN1	348980	broad.mit.edu	37	5	45262236	45262236	+	Silent	SNP	C	G	G			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:45262236C>G	uc003jok.2	-	8	2485	c.2460G>C	c.(2458-2460)ACG>ACC	p.T820T		NM_021072	NP_066550	O60741	HCN1_HUMAN	hyperpolarization activated cyclic	820	Cytoplasmic (Potential).					integral to membrane	cAMP binding|sodium channel activity|voltage-gated potassium channel activity			ovary(1)	1						CGGGGACCGCCGTCACGGGTT	0.682													9	17	---	---	---	---	PASS
PARP8	79668	broad.mit.edu	37	5	50090868	50090868	+	Missense_Mutation	SNP	A	T	T			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:50090868A>T	uc003jon.3	+	13	1227	c.1045A>T	c.(1045-1047)AGG>TGG	p.R349W	PARP8_uc011cpz.1_Missense_Mutation_p.R241W|PARP8_uc003joo.2_Missense_Mutation_p.R349W|PARP8_uc003jop.2_Missense_Mutation_p.R349W	NM_024615	NP_078891	Q8N3A8	PARP8_HUMAN	poly (ADP-ribose) polymerase family, member 8	349						intracellular	NAD+ ADP-ribosyltransferase activity			lung(3)|large_intestine(1)|ovary(1)	5		Lung NSC(810;0.0305)|Breast(144;0.222)				CAGCGATCCCAGGGCGGAGCA	0.512													25	57	---	---	---	---	PASS
ITGA1	3672	broad.mit.edu	37	5	52223413	52223413	+	Splice_Site	SNP	G	A	A			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:52223413G>A	uc003jou.2	+	20	2666	c.2614_splice	c.e20-1	p.A872_splice	ITGA1_uc003jov.2_Splice_Site|ITGA1_uc003jow.2_Splice_Site_p.A403_splice	NM_181501	NP_852478	P56199	ITA1_HUMAN	integrin, alpha 1 precursor						axon guidance|cell-matrix adhesion|integrin-mediated signaling pathway|muscle contraction	integrin complex	collagen binding|receptor activity			ovary(2)|lung(1)	3		Lung NSC(810;5.05e-05)|Breast(144;0.0851)				TCTCTTCCTAGGCTATCCAAA	0.398													7	41	---	---	---	---	PASS
GZMA	3001	broad.mit.edu	37	5	54404139	54404139	+	Nonsense_Mutation	SNP	C	T	T			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:54404139C>T	uc003jpm.2	+	4	581	c.544C>T	c.(544-546)CGA>TGA	p.R182*		NM_006144	NP_006135	P12544	GRAA_HUMAN	granzyme A precursor	182	Peptidase S1.				cleavage of lamin|cytolysis|immune response|negative regulation of DNA binding|negative regulation of endodeoxyribonuclease activity|negative regulation of oxidoreductase activity|positive regulation of apoptosis	extracellular region|immunological synapse|nucleus	protein homodimerization activity|serine-type endopeptidase activity			ovary(2)|pancreas(1)|skin(1)	4		Lung NSC(810;4.08e-05)|Breast(144;0.0433)|Prostate(74;0.183)				CTGCAATGATCGAAATCACTA	0.428													5	41	---	---	---	---	PASS
ANKRD55	79722	broad.mit.edu	37	5	55422770	55422770	+	Missense_Mutation	SNP	T	C	C			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:55422770T>C	uc003jqu.2	-	8	928	c.776A>G	c.(775-777)CAG>CGG	p.Q259R		NM_024669	NP_078945	Q3KP44	ANR55_HUMAN	ankyrin repeat domain 55 isoform 1	258	ANK 7.									skin(1)	1		Lung NSC(810;8.69e-05)|Prostate(74;0.00634)|Breast(144;0.0334)|Ovarian(174;0.223)				ATCCAGAGCCTGCAGGTTACA	0.458													15	124	---	---	---	---	PASS
MCCC2	64087	broad.mit.edu	37	5	70939635	70939635	+	Intron	SNP	T	A	A			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:70939635T>A	uc003kbs.3	+						MCCC2_uc003kbt.3_RNA	NM_022132	NP_071415	Q9HCC0	MCCB_HUMAN	methylcrotonoyl-Coenzyme A carboxylase 2 (beta)						leucine catabolic process	mitochondrial inner membrane|mitochondrial matrix	ATP binding|methylcrotonoyl-CoA carboxylase activity			ovary(1)	1		Lung NSC(167;0.000697)|Prostate(74;0.0107)|Ovarian(174;0.0175)|Breast(144;0.198)		OV - Ovarian serous cystadenocarcinoma(47;2.04e-54)	Biotin(DB00121)	TTCTTTGAACTTTCTTTTGAG	0.353													21	58	---	---	---	---	PASS
TMEM174	134288	broad.mit.edu	37	5	72469360	72469360	+	Missense_Mutation	SNP	C	T	T			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:72469360C>T	uc010izc.2	+	1	338	c.290C>T	c.(289-291)TCC>TTC	p.S97F		NM_153217	NP_694949	Q8WUU8	TM174_HUMAN	transmembrane protein 174	97						integral to membrane				ovary(1)	1		Lung NSC(167;0.0378)|Ovarian(174;0.0908)|Prostate(461;0.165)		OV - Ovarian serous cystadenocarcinoma(47;1.46e-54)		AAAATGCTCTCCTGCCAGTTG	0.527													22	34	---	---	---	---	PASS
SV2C	22987	broad.mit.edu	37	5	75594662	75594662	+	Missense_Mutation	SNP	G	C	C			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:75594662G>C	uc003kei.1	+	10	1680	c.1546G>C	c.(1546-1548)GTT>CTT	p.V516L		NM_014979	NP_055794	Q496J9	SV2C_HUMAN	synaptic vesicle glycoprotein 2C	516	Extracellular (Potential).				neurotransmitter transport	cell junction|integral to membrane|synaptic vesicle membrane	transmembrane transporter activity			skin(1)	1		all_lung(232;0.007)|Lung NSC(167;0.0148)|Ovarian(174;0.0798)|Prostate(461;0.184)		OV - Ovarian serous cystadenocarcinoma(47;1.16e-50)|all cancers(79;7.25e-40)		CAAAGACTCTGTTTTTAAGTC	0.383													11	23	---	---	---	---	PASS
FAM170A	340069	broad.mit.edu	37	5	118970254	118970254	+	Missense_Mutation	SNP	A	G	G			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:118970254A>G	uc003ksm.2	+	3	1021	c.811A>G	c.(811-813)ATG>GTG	p.M271V	FAM170A_uc003ksl.2_Intron|FAM170A_uc003ksn.2_Missense_Mutation_p.M271V|FAM170A_uc003kso.2_Missense_Mutation_p.M224V	NM_182761	NP_877438	A1A519	F170A_HUMAN	family with sequence similarity 170, member A	271						intracellular	zinc ion binding			skin(1)	1						GACAGGCAACATGGAATCAGA	0.353													87	67	---	---	---	---	PASS
SNCAIP	9627	broad.mit.edu	37	5	121761083	121761083	+	Missense_Mutation	SNP	G	C	C			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:121761083G>C	uc003ksw.1	+	5	1245	c.1039G>C	c.(1039-1041)GAC>CAC	p.D347H	SNCAIP_uc011cwl.1_Intron|SNCAIP_uc010jct.2_Missense_Mutation_p.D347H|SNCAIP_uc003ksx.1_Missense_Mutation_p.D394H|SNCAIP_uc003ksy.1_Intron|SNCAIP_uc003ksz.1_Intron|SNCAIP_uc010jcu.2_Intron|SNCAIP_uc011cwm.1_Intron|SNCAIP_uc003kta.1_Intron|SNCAIP_uc010jcv.1_RNA|SNCAIP_uc010jcw.1_Missense_Mutation_p.D41H|SNCAIP_uc010jcx.1_Intron	NM_005460	NP_005451	Q9Y6H5	SNCAP_HUMAN	synuclein alpha interacting protein	347					cell death|dopamine metabolic process|regulation of inclusion body assembly|regulation of neurotransmitter secretion	cytoplasm|neuronal cell body|nucleolus|presynaptic membrane	ubiquitin protein ligase binding			ovary(1)|pancreas(1)	2		all_cancers(142;0.00787)|Prostate(80;0.0327)	KIRC - Kidney renal clear cell carcinoma(527;0.206)	OV - Ovarian serous cystadenocarcinoma(64;0.000625)|Epithelial(69;0.00216)|all cancers(49;0.0232)		CAAAATTCACGACGAAAATGG	0.423													4	107	---	---	---	---	PASS
WNT8A	7478	broad.mit.edu	37	5	137424656	137424656	+	Silent	SNP	G	T	T			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:137424656G>T	uc003lcd.1	+	5	413	c.408G>T	c.(406-408)GTG>GTT	p.V136V	BRD8_uc003lcc.1_Intron|WNT8A_uc011cyj.1_Silent_p.V154V|WNT8A_uc011cyk.1_Silent_p.V154V	NM_058244	NP_490645	Q9H1J5	WNT8A_HUMAN	wingless-type MMTV integration site family,	136					brain segmentation|canonical Wnt receptor signaling pathway involved in neural crest cell differentiation|cell migration involved in gastrulation|dorsal/ventral pattern formation|ectoderm development|endoderm development|eye development|hindbrain development|mesodermal cell fate commitment|negative regulation of Wnt receptor signaling pathway|neural crest cell fate commitment|neural plate pattern specification|notochord development|palate development|polarity specification of anterior/posterior axis|polarity specification of proximal/distal axis|positive regulation of fibroblast growth factor receptor signaling pathway|regulation of transcription involved in anterior/posterior axis specification|response to retinoic acid|somitogenesis|spinal cord anterior/posterior patterning|tail morphogenesis|Wnt receptor signaling pathway, calcium modulating pathway	extracellular space|plasma membrane|proteinaceous extracellular matrix	frizzled binding|signal transducer activity			ovary(1)|lung(1)|breast(1)|skin(1)	4			KIRC - Kidney renal clear cell carcinoma(527;0.0101)|Kidney(363;0.0109)			GCGACAATGTGGAATTTGGGG	0.532													6	95	---	---	---	---	PASS
REEP2	51308	broad.mit.edu	37	5	137781195	137781195	+	Missense_Mutation	SNP	C	T	T			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:137781195C>T	uc003lcz.2	+	7	720	c.598C>T	c.(598-600)CCG>TCG	p.P200S	REEP2_uc003lda.2_Missense_Mutation_p.P202S|REEP2_uc011cyt.1_Missense_Mutation_p.P161S	NM_016606	NP_057690	Q9BRK0	REEP2_HUMAN	receptor accessory protein 2	200						integral to membrane					0			KIRC - Kidney renal clear cell carcinoma(527;0.004)|Kidney(363;0.00592)			CAGCACAAACCCGGCAGATTC	0.577													25	29	---	---	---	---	PASS
ANKHD1	54882	broad.mit.edu	37	5	139851895	139851895	+	Intron	SNP	T	G	G			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:139851895T>G	uc003lfr.2	+						ANKHD1_uc003lfq.1_Intron|ANKHD1-EIF4EBP3_uc003lfs.1_Intron|ANKHD1_uc003lft.1_Intron|ANKHD1_uc003lfu.1_Intron|ANKHD1_uc003lfp.2_Missense_Mutation_p.F607L|ANKHD1_uc003lfo.2_Missense_Mutation_p.F618L|ANKHD1_uc010jfk.2_Nonstop_Mutation_p.*582G	NM_017747	NP_060217	Q8IWZ3	ANKH1_HUMAN	ankyrin repeat and KH domain containing 1							cytoplasm|nucleus	protein binding|RNA binding			ovary(5)|skin(2)|lung(1)|breast(1)	9			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			GGGTGGCCTTTGATGCTTGTA	0.478													21	36	---	---	---	---	PASS
ZMAT2	153527	broad.mit.edu	37	5	140083567	140083567	+	Missense_Mutation	SNP	G	C	C			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:140083567G>C	uc003lgy.1	+	4	315	c.301G>C	c.(301-303)GGA>CGA	p.G101R		NM_144723	NP_653324	Q96NC0	ZMAT2_HUMAN	zinc finger, matrin type 2	101	Matrin-type.					nucleus	DNA binding|zinc ion binding				0			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			TCACATTAATGGAAAGAAACG	0.423													17	80	---	---	---	---	PASS
PCDHA10	56139	broad.mit.edu	37	5	140236732	140236732	+	Missense_Mutation	SNP	G	A	A	rs145115378	byFrequency	TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:140236732G>A	uc003lhx.2	+	1	1099	c.1099G>A	c.(1099-1101)GTC>ATC	p.V367I	PCDHA1_uc003lha.2_Intron|PCDHA1_uc003lhb.2_Intron|PCDHA2_uc003lhd.2_Intron|PCDHA3_uc003lhf.2_Intron|PCDHA4_uc003lhi.2_Intron|PCDHA4_uc003lhh.1_Intron|PCDHA5_uc003lhk.1_Intron|PCDHA5_uc003lhl.2_Intron|PCDHA6_uc003lhn.2_Intron|PCDHA6_uc003lho.2_Intron|PCDHA7_uc003lhq.2_Intron|PCDHA8_uc003lhs.2_Intron|PCDHA9_uc003lhu.2_Intron|PCDHA10_uc003lhw.2_Missense_Mutation_p.V367I|PCDHA10_uc011dad.1_Missense_Mutation_p.V367I	NM_018901	NP_061724	Q9Y5I2	PCDAA_HUMAN	protocadherin alpha 10 isoform 1 precursor	367	Cadherin 4.|Extracellular (Potential).				homophilic cell adhesion|nervous system development	extracellular region|integral to plasma membrane	calcium ion binding|protein binding			ovary(2)|skin(2)|breast(1)	5			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			AGTGGGCACCGTCATTGCCCT	0.507													27	83	---	---	---	---	PASS
PCDHA13	56136	broad.mit.edu	37	5	140263468	140263468	+	Missense_Mutation	SNP	G	T	T			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:140263468G>T	uc003lif.2	+	1	1615	c.1615G>T	c.(1615-1617)GAC>TAC	p.D539Y	PCDHA1_uc003lha.2_Intron|PCDHA1_uc003lhb.2_Intron|PCDHA2_uc003lhd.2_Intron|PCDHA3_uc003lhf.2_Intron|PCDHA4_uc003lhi.2_Intron|PCDHA4_uc003lhh.1_Intron|PCDHA5_uc003lhk.1_Intron|PCDHA5_uc003lhl.2_Intron|PCDHA6_uc003lhn.2_Intron|PCDHA6_uc003lho.2_Intron|PCDHA7_uc003lhq.2_Intron|PCDHA8_uc003lhs.2_Intron|PCDHA9_uc003lhu.2_Intron|PCDHA10_uc003lhw.2_Intron|PCDHA10_uc003lhx.2_Intron|PCDHA11_uc003lia.2_Intron|PCDHA12_uc003lic.2_Intron|PCDHA13_uc003lie.1_Missense_Mutation_p.D539Y|PCDHA13_uc003lid.2_Missense_Mutation_p.D539Y	NM_018904	NP_061727	Q9Y5I0	PCDAD_HUMAN	protocadherin alpha 13 isoform 1 precursor	539	Cadherin 5.|Extracellular (Potential).				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			ovary(3)|skin(2)|central_nervous_system(1)	6			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			GAGCGCGCGCGACTCTGGCGT	0.682													5	96	---	---	---	---	PASS
PCDHGA7	56108	broad.mit.edu	37	5	140762746	140762746	+	Missense_Mutation	SNP	G	C	C			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:140762746G>C	uc003lka.1	+	1	280	c.280G>C	c.(280-282)GAG>CAG	p.E94Q	PCDHGA1_uc003lji.1_Intron|PCDHGA2_uc003ljk.1_Intron|PCDHGA3_uc003ljm.1_Intron|PCDHGA3_uc010jfx.1_Intron|PCDHGB1_uc003ljo.1_Intron|PCDHGA4_uc003ljq.1_Intron|PCDHGB2_uc003ljs.1_Intron|PCDHGA5_uc003lju.1_Intron|PCDHGB3_uc003ljw.1_Intron|PCDHGA6_uc003ljy.1_Intron|PCDHGA7_uc003ljz.1_Missense_Mutation_p.E94Q	NM_018920	NP_061743	Q9Y5G6	PCDG7_HUMAN	protocadherin gamma subfamily A, 7 isoform 1	94	Cadherin 1.|Extracellular (Potential).				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding				0			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			AGACCGGGAAGAGATCTGCGC	0.512													54	37	---	---	---	---	PASS
PCDH1	5097	broad.mit.edu	37	5	141243098	141243098	+	Missense_Mutation	SNP	A	T	T			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:141243098A>T	uc003llq.2	-	3	2915	c.2798T>A	c.(2797-2799)CTG>CAG	p.L933Q	PCDH1_uc003llp.2_Missense_Mutation_p.L933Q|PCDH1_uc011dbf.1_Missense_Mutation_p.L911Q	NM_002587	NP_002578	Q08174	PCDH1_HUMAN	protocadherin 1 isoform 1 precursor	933	Cytoplasmic (Potential).				cell-cell signaling|homophilic cell adhesion|nervous system development	cell-cell junction|integral to plasma membrane	calcium ion binding			ovary(5)	5		Lung NSC(810;0.027)|all_lung(500;0.0321)|all_hematologic(541;0.0433)|Prostate(461;0.0453)|Breast(839;0.128)|Lung SC(612;0.238)	KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)	GBM - Glioblastoma multiforme(465;1.06e-05)		GGACTTCTGCAGCCCGGCCTC	0.612													12	11	---	---	---	---	PASS
SLC6A7	6534	broad.mit.edu	37	5	149583559	149583559	+	Missense_Mutation	SNP	C	G	G			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:149583559C>G	uc003lrr.2	+	10	1661	c.1290C>G	c.(1288-1290)ATC>ATG	p.I430M		NM_014228	NP_055043	Q99884	SC6A7_HUMAN	solute carrier family 6, member 7	430	Helical; Name=9; (Potential).					integral to plasma membrane|membrane fraction	neurotransmitter:sodium symporter activity|proline:sodium symporter activity				0		all_hematologic(541;0.224)	KIRC - Kidney renal clear cell carcinoma(527;0.000785)|Kidney(363;0.00101)		L-Proline(DB00172)	CAGGGCTCATCTGCGTGGCCA	0.577													6	11	---	---	---	---	PASS
KIF4B	285643	broad.mit.edu	37	5	154396080	154396080	+	Missense_Mutation	SNP	C	A	A			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:154396080C>A	uc010jih.1	+	1	2821	c.2661C>A	c.(2659-2661)AGC>AGA	p.S887R		NM_001099293	NP_001092763	Q2VIQ3	KIF4B_HUMAN	kinesin family member 4B	887	Interaction with PRC1 (By similarity).|Potential.				axon guidance|blood coagulation|microtubule-based movement	cytosol|microtubule|nuclear matrix	ATP binding|DNA binding|microtubule motor activity			ovary(1)	1	Renal(175;0.00488)	Medulloblastoma(196;0.0523)	KIRC - Kidney renal clear cell carcinoma(527;0.00112)			TTGAAAACAGCCTGAGACAGA	0.448													55	37	---	---	---	---	PASS
ATP10B	23120	broad.mit.edu	37	5	160097524	160097524	+	Missense_Mutation	SNP	C	G	G			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:160097524C>G	uc003lym.1	-	7	1468	c.621G>C	c.(619-621)TTG>TTC	p.L207F	ATP10B_uc003lyp.2_Missense_Mutation_p.L207F|ATP10B_uc011deg.1_Missense_Mutation_p.L251F|ATP10B_uc003lyo.2_Missense_Mutation_p.L179F	NM_025153	NP_079429	O94823	AT10B_HUMAN	ATPase, class V, type 10B	207	Cytoplasmic (Potential).				ATP biosynthetic process	integral to membrane	ATP binding|ATPase activity, coupled to transmembrane movement of ions, phosphorylative mechanism|magnesium ion binding|phospholipid-translocating ATPase activity			ovary(3)|central_nervous_system(1)|pancreas(1)	5	Renal(175;0.00196)	Medulloblastoma(196;0.0377)|all_neural(177;0.121)	Kidney(164;7.83e-05)|KIRC - Kidney renal clear cell carcinoma(164;0.000525)			TCTCTCCATCCAAGCTGGCAG	0.443													45	59	---	---	---	---	PASS
MAPK9	5601	broad.mit.edu	37	5	179668078	179668078	+	Missense_Mutation	SNP	G	A	A			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:179668078G>A	uc003mls.3	-	9	1220	c.949C>T	c.(949-951)CGT>TGT	p.R317C	MAPK9_uc003mlt.3_Missense_Mutation_p.R317C|MAPK9_uc010jlc.2_Missense_Mutation_p.R317C|MAPK9_uc003mlv.3_Missense_Mutation_p.R317C	NM_002752	NP_002743	P45984	MK09_HUMAN	mitogen-activated protein kinase 9 isoform JNK2	317	Protein kinase.				innate immune response|MyD88-dependent toll-like receptor signaling pathway|MyD88-independent toll-like receptor signaling pathway|positive regulation of gene expression|positive regulation of macrophage derived foam cell differentiation|regulation of sequence-specific DNA binding transcription factor activity|stress-activated MAPK cascade|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|JUN kinase activity|protein binding|protein binding			central_nervous_system(2)|upper_aerodigestive_tract(1)|large_intestine(1)	4	all_cancers(89;6.54e-05)|all_epithelial(37;1.22e-05)|Renal(175;0.000269)|Lung NSC(126;0.00199)|all_lung(126;0.00351)|Breast(19;0.137)	all_cancers(40;0.0236)|Medulloblastoma(196;0.0133)|all_neural(177;0.0199)	Kidney(164;2.23e-05)|KIRC - Kidney renal clear cell carcinoma(164;0.000178)			TATGGGTGACGCAGAGCTTCG	0.423													82	89	---	---	---	---	PASS
GFPT2	9945	broad.mit.edu	37	5	179745898	179745898	+	Missense_Mutation	SNP	C	G	G			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:179745898C>G	uc003mlw.1	-	10	951	c.853G>C	c.(853-855)GTG>CTG	p.V285L		NM_005110	NP_005101	O94808	GFPT2_HUMAN	glutamine-fructose-6-phosphate transaminase 2	285	Glutamine amidotransferase type-2.				dolichol-linked oligosaccharide biosynthetic process|energy reserve metabolic process|fructose 6-phosphate metabolic process|glutamine metabolic process|post-translational protein modification|protein N-linked glycosylation via asparagine|UDP-N-acetylglucosamine biosynthetic process	cytosol	glutamine-fructose-6-phosphate transaminase (isomerizing) activity|sugar binding			ovary(1)|skin(1)	2	all_cancers(89;4.97e-05)|all_epithelial(37;1.22e-05)|Renal(175;0.000269)|Lung NSC(126;0.00199)|all_lung(126;0.00351)|Breast(19;0.137)	Medulloblastoma(196;0.0392)|all_neural(177;0.0529)	Kidney(164;2.23e-05)|KIRC - Kidney renal clear cell carcinoma(164;0.000178)		L-Glutamine(DB00130)	CCATCAGCCACTGCGGCGATG	0.572													3	22	---	---	---	---	PASS
EXOC2	55770	broad.mit.edu	37	6	486758	486758	+	Silent	SNP	C	A	A			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:486758C>A	uc003mtd.2	-	28	2822	c.2688G>T	c.(2686-2688)CTG>CTT	p.L896L	EXOC2_uc003mte.2_Silent_p.L896L|EXOC2_uc011dho.1_Silent_p.L491L	NM_018303	NP_060773	Q96KP1	EXOC2_HUMAN	Sec5 protein	896					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)		GGAGCTCTTCCAGTAACCTGC	0.517													5	59	---	---	---	---	PASS
HIST1H4E	8367	broad.mit.edu	37	6	26205085	26205085	+	Silent	SNP	G	A	A			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:26205085G>A	uc003ngy.2	+	1	213	c.213G>A	c.(211-213)GTG>GTA	p.V71V		NM_003545	NP_003536	P62805	H4_HUMAN	histone cluster 1, H4e	71				V -> A (in Ref. 14; AAH67496).	CenH3-containing nucleosome assembly at centromere|negative regulation of megakaryocyte differentiation|phosphatidylinositol-mediated signaling|telomere maintenance	nucleoplasm|nucleosome	DNA binding|protein binding			ovary(1)	1		all_hematologic(11;0.196)				GTGATGCTGTGACTTACACGG	0.552													12	59	---	---	---	---	PASS
HIST1H3H	8357	broad.mit.edu	37	6	27776248	27776248	+	5'Flank	SNP	C	T	T			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:27776248C>T	uc003njm.2	+						HIST1H2BL_uc003njl.2_5'Flank	NM_003536	NP_003527	P68431	H31_HUMAN	histone cluster 1, H3h						blood coagulation|nucleosome assembly|regulation of gene silencing|S phase	nucleoplasm|nucleosome	DNA binding|protein binding			ovary(1)	1						TCCAGCTGGCCATCCGCAACG	0.622													10	37	---	---	---	---	PASS
C6orf15	29113	broad.mit.edu	37	6	31079766	31079766	+	Nonsense_Mutation	SNP	C	A	A			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:31079766C>A	uc003nsk.1	-	2	370	c.370G>T	c.(370-372)GAG>TAG	p.E124*	PSORS1C1_uc003nsl.1_5'Flank|PSORS1C1_uc010jsj.1_5'Flank	NM_014070	NP_054789	Q6UXA7	CF015_HUMAN	STG protein precursor	124											0						AGGCGGTCCTCAGCCGCAGCA	0.652													6	23	---	---	---	---	PASS
BAT2	7916	broad.mit.edu	37	6	31599382	31599382	+	Missense_Mutation	SNP	C	A	A			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:31599382C>A	uc003nvb.3	+	16	3181	c.2932C>A	c.(2932-2934)CCC>ACC	p.P978T	BAT2_uc011dnv.1_Intron|BAT2_uc003nvc.3_Missense_Mutation_p.P978T	NM_080686	NP_542417	P48634	PRC2A_HUMAN	HLA-B associated transcript-2	978	4 X 57 AA type A repeats.					cytoplasm|nucleus	protein binding				0						AACCCCCAAACCCCCAAAGCC	0.597													3	18	---	---	---	---	PASS
DNAH8	1769	broad.mit.edu	37	6	38854588	38854588	+	Missense_Mutation	SNP	C	A	A			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:38854588C>A	uc003ooe.1	+	55	8230	c.7630C>A	c.(7630-7632)CAG>AAG	p.Q2544K		NM_001371	NP_001362			dynein, axonemal, heavy polypeptide 8											skin(8)|ovary(7)|lung(2)|large_intestine(1)|central_nervous_system(1)|kidney(1)|pancreas(1)	21						GATTGTGCGACAGATGATGGA	0.378													11	57	---	---	---	---	PASS
DNAH8	1769	broad.mit.edu	37	6	38854589	38854589	+	Missense_Mutation	SNP	A	G	G			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:38854589A>G	uc003ooe.1	+	55	8231	c.7631A>G	c.(7630-7632)CAG>CGG	p.Q2544R		NM_001371	NP_001362			dynein, axonemal, heavy polypeptide 8											skin(8)|ovary(7)|lung(2)|large_intestine(1)|central_nervous_system(1)|kidney(1)|pancreas(1)	21						ATTGTGCGACAGATGATGGAA	0.378													11	57	---	---	---	---	PASS
GPR111	222611	broad.mit.edu	37	6	47649184	47649184	+	Missense_Mutation	SNP	A	G	G			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:47649184A>G	uc010jzj.1	+	6	890	c.889A>G	c.(889-891)ATA>GTA	p.I297V	GPR111_uc010jzk.1_Missense_Mutation_p.I229V|GPR111_uc003oyy.2_RNA	NM_153839	NP_722581	Q8IZF7	GP111_HUMAN	G-protein coupled receptor 111	297	Extracellular (Potential).				neuropeptide signaling pathway	integral to membrane|plasma membrane	G-protein coupled receptor activity			skin(1)	1						GGGCACCACCATATCTGGAGA	0.373													29	65	---	---	---	---	PASS
C6orf138	442213	broad.mit.edu	37	6	47847514	47847514	+	Missense_Mutation	SNP	T	A	A			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:47847514T>A	uc011dwm.1	-	3	1100	c.1015A>T	c.(1015-1017)AGC>TGC	p.S339C	C6orf138_uc011dwn.1_Missense_Mutation_p.S103C	NM_001013732	NP_001013754	Q6ZW05	CF138_HUMAN	hypothetical protein LOC442213	356	Helical; (Potential).|SSD.					integral to membrane	hedgehog receptor activity			central_nervous_system(1)	1						GTGAATGGGCTGGCACCCATG	0.453													12	32	---	---	---	---	PASS
CRISP1	167	broad.mit.edu	37	6	49803157	49803157	+	Intron	SNP	C	G	G			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:49803157C>G	uc003ozw.2	-						CRISP1_uc003ozx.2_Intron	NM_001131	NP_001122	P54107	CRIS1_HUMAN	acidic epididymal glycoprotein-like 1 isoform 1						fusion of sperm to egg plasma membrane	extracellular space					0	Lung NSC(77;0.0358)					CAGGGGTTAGCTGAAAGAAAA	0.348													20	29	---	---	---	---	PASS
PKHD1	5314	broad.mit.edu	37	6	51612743	51612743	+	Missense_Mutation	SNP	G	T	T			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:51612743G>T	uc003pah.1	-	58	9947	c.9671C>A	c.(9670-9672)GCC>GAC	p.A3224D	PKHD1_uc010jzn.1_Missense_Mutation_p.A1207D|PKHD1_uc003pai.2_Missense_Mutation_p.A3224D	NM_138694	NP_619639	P08F94	PKHD1_HUMAN	fibrocystin isoform 1	3224	Extracellular (Potential).				cell-cell adhesion|cilium assembly|homeostatic process|kidney development|negative regulation of cellular component movement	anchored to external side of plasma membrane|apical plasma membrane|integral to membrane|microtubule basal body	protein binding|receptor activity			lung(15)|ovary(15)|large_intestine(5)|central_nervous_system(3)|skin(3)|breast(2)|upper_aerodigestive_tract(1)	44	Lung NSC(77;0.0605)					TGTCAAGTTGGCTGAGTGCGG	0.468													27	67	---	---	---	---	PASS
BAI3	577	broad.mit.edu	37	6	70065752	70065752	+	Missense_Mutation	SNP	G	C	C			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:70065752G>C	uc003pev.3	+	28	4043	c.3595G>C	c.(3595-3597)GTT>CTT	p.V1199L	BAI3_uc010kak.2_Missense_Mutation_p.V1199L|BAI3_uc011dxx.1_Missense_Mutation_p.V405L	NM_001704	NP_001695	O60242	BAI3_HUMAN	brain-specific angiogenesis inhibitor 3	1199	Cytoplasmic (Potential).				negative regulation of angiogenesis|neuropeptide signaling pathway	integral to membrane|plasma membrane	G-protein coupled receptor activity			lung(27)|ovary(8)|skin(6)|pancreas(4)|central_nervous_system(3)|urinary_tract(1)|breast(1)	50		all_lung(197;0.212)				CTGTCGATCAGGTAAGAATAT	0.289													11	32	---	---	---	---	PASS
C6orf150	115004	broad.mit.edu	37	6	74161906	74161906	+	5'UTR	SNP	G	C	C			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:74161906G>C	uc003pgx.1	-	1						NM_138441	NP_612450	Q8N884	M21D1_HUMAN	hypothetical protein LOC115004												0						AGGCTGCATGGCTGGCGCTTT	0.617													3	10	---	---	---	---	PASS
TBX18	9096	broad.mit.edu	37	6	85446511	85446511	+	Silent	SNP	C	A	A			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:85446511C>A	uc003pkl.1	-	8	1716	c.1716G>T	c.(1714-1716)GTG>GTT	p.V572V	TBX18_uc010kbq.1_Intron	NM_001080508	NP_001073977	O95935	TBX18_HUMAN	T-box 18	572					multicellular organismal development	nucleus	DNA binding|sequence-specific DNA binding transcription factor activity			ovary(2)|pancreas(2)|lung(1)	5		all_cancers(76;0.000283)|Acute lymphoblastic leukemia(125;3.66e-08)|all_hematologic(105;8.61e-05)|all_epithelial(107;0.0858)		BRCA - Breast invasive adenocarcinoma(108;0.0267)		GCACTCCTTCCACAGGGGGCA	0.512													4	25	---	---	---	---	PASS
SYNCRIP	10492	broad.mit.edu	37	6	86324913	86324913	+	Missense_Mutation	SNP	C	T	T			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:86324913C>T	uc003pla.2	-	11	1974	c.1433G>A	c.(1432-1434)CGT>CAT	p.R478H	SYNCRIP_uc003pku.2_Missense_Mutation_p.R478H|SYNCRIP_uc003pkw.2_Missense_Mutation_p.R443H|SYNCRIP_uc003pky.2_Missense_Mutation_p.R380H|SYNCRIP_uc003pkv.2_Missense_Mutation_p.R478H|SYNCRIP_uc003pkx.2_Missense_Mutation_p.R326H|SYNCRIP_uc003pkz.2_Missense_Mutation_p.R443H	NM_006372	NP_006363	O60506	HNRPQ_HUMAN	synaptotagmin binding, cytoplasmic RNA	478	Interaction with APOBEC1.|3 X 4 AA repeats of Y-Y-G-Y.|8 X 3 AA repeats of R-G-G.|1-3.				CRD-mediated mRNA stabilization|interspecies interaction between organisms	catalytic step 2 spliceosome|CRD-mediated mRNA stability complex|endoplasmic reticulum|histone pre-mRNA 3'end processing complex|microsome|nucleoplasm	nucleotide binding|protein binding			ovary(2)	2		all_cancers(76;0.000137)|Acute lymphoblastic leukemia(125;3.66e-08)|Prostate(29;8.2e-07)|all_hematologic(105;8.61e-05)|all_epithelial(107;0.0297)		BRCA - Breast invasive adenocarcinoma(108;0.0389)		ATATCCACCACGATAGTTATG	0.428													8	17	---	---	---	---	PASS
KLHL32	114792	broad.mit.edu	37	6	97533046	97533046	+	Silent	SNP	C	T	T			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:97533046C>T	uc010kcm.1	+	6	928	c.456C>T	c.(454-456)GAC>GAT	p.D152D	KLHL32_uc003poy.2_Silent_p.D152D|KLHL32_uc011ead.1_Silent_p.D116D|KLHL32_uc003poz.2_Intron|KLHL32_uc011eae.1_Silent_p.D83D|KLHL32_uc003ppa.2_RNA	NM_052904	NP_443136	Q96NJ5	KLH32_HUMAN	kelch-like 32	152								p.D152D(1)		ovary(3)|skin(1)	4		all_cancers(76;1.19e-06)|Acute lymphoblastic leukemia(125;5.83e-10)|all_hematologic(75;3.67e-07)|all_epithelial(107;0.00778)|Colorectal(196;0.122)		BRCA - Breast invasive adenocarcinoma(108;0.0558)		GACTTGCTGACCTCTTTAACC	0.383													13	22	---	---	---	---	PASS
USP45	85015	broad.mit.edu	37	6	99951668	99951668	+	Missense_Mutation	SNP	G	T	T			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:99951668G>T	uc003ppx.2	-	5	984	c.451C>A	c.(451-453)CAG>AAG	p.Q151K	USP45_uc003ppw.2_5'UTR|USP45_uc003ppy.2_RNA|USP45_uc010kcq.1_Missense_Mutation_p.Q151K|USP45_uc003ppz.2_Missense_Mutation_p.Q151K|USP45_uc003pqa.2_Missense_Mutation_p.Q151K	NM_001080481	NP_001073950	Q70EL2	UBP45_HUMAN	ubiquitin specific peptidase 45	151					ubiquitin-dependent protein catabolic process		cysteine-type peptidase activity|ubiquitin thiolesterase activity|zinc ion binding			ovary(1)|breast(1)	2		all_cancers(76;0.000208)|Acute lymphoblastic leukemia(125;8.41e-11)|all_hematologic(75;2.56e-07)|all_epithelial(107;0.122)|Colorectal(196;0.133)		BRCA - Breast invasive adenocarcinoma(108;0.0718)		GCATGTTTCTGGAGAAAATCA	0.279													5	51	---	---	---	---	PASS
SIM1	6492	broad.mit.edu	37	6	100895257	100895257	+	Nonsense_Mutation	SNP	G	T	T			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:100895257G>T	uc003pqj.3	-	8	1092	c.885C>A	c.(883-885)TAC>TAA	p.Y295*	SIM1_uc010kcu.2_Nonsense_Mutation_p.Y295*	NM_005068	NP_005059	P81133	SIM1_HUMAN	single-minded homolog 1	295	PAC.				cell differentiation|nervous system development	nucleus	DNA binding|sequence-specific DNA binding transcription factor activity|signal transducer activity			ovary(4)	4		all_cancers(76;9.88e-06)|Acute lymphoblastic leukemia(125;4.99e-11)|all_hematologic(75;5.82e-08)|all_epithelial(107;0.0248)|Colorectal(196;0.13)		BRCA - Breast invasive adenocarcinoma(108;0.0774)		CCAGGAACCTGTAGTACTTGG	0.597													14	19	---	---	---	---	PASS
L3MBTL3	84456	broad.mit.edu	37	6	130454629	130454629	+	Nonsense_Mutation	SNP	C	T	T			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:130454629C>T	uc003qbt.2	+	21	2169	c.1999C>T	c.(1999-2001)CAG>TAG	p.Q667*	L3MBTL3_uc003qbu.2_Nonsense_Mutation_p.Q642*	NM_032438	NP_115814	Q96JM7	LMBL3_HUMAN	l(3)mbt-like 3 isoform a	667					chromatin modification|regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus				ovary(5)|skin(1)	6				GBM - Glioblastoma multiforme(226;0.0266)|OV - Ovarian serous cystadenocarcinoma(155;0.154)		CCAGCAGGCACAGCGTCGGTC	0.527													11	20	---	---	---	---	PASS
L3MBTL3	84456	broad.mit.edu	37	6	130454633	130454633	+	Missense_Mutation	SNP	G	T	T			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:130454633G>T	uc003qbt.2	+	21	2173	c.2003G>T	c.(2002-2004)CGT>CTT	p.R668L	L3MBTL3_uc003qbu.2_Missense_Mutation_p.R643L	NM_032438	NP_115814	Q96JM7	LMBL3_HUMAN	l(3)mbt-like 3 isoform a	668					chromatin modification|regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus				ovary(5)|skin(1)	6				GBM - Glioblastoma multiforme(226;0.0266)|OV - Ovarian serous cystadenocarcinoma(155;0.154)		CAGGCACAGCGTCGGTCAGCT	0.532													12	19	---	---	---	---	PASS
SAMD3	154075	broad.mit.edu	37	6	130505658	130505658	+	Missense_Mutation	SNP	C	A	A			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:130505658C>A	uc003qbv.2	-	7	820	c.494G>T	c.(493-495)TGC>TTC	p.C165F	SAMD3_uc003qbx.2_Missense_Mutation_p.C165F|SAMD3_uc003qbw.2_Missense_Mutation_p.C165F|SAMD3_uc010kfg.1_Missense_Mutation_p.C165F|SAMD3_uc003qby.2_Missense_Mutation_p.C165F|SAMD3_uc003qbz.1_Missense_Mutation_p.C124F	NM_001017373	NP_001017373	Q8N6K7	SAMD3_HUMAN	sterile alpha motif domain containing 3 isoform	165										ovary(1)	1				GBM - Glioblastoma multiforme(226;0.00594)|OV - Ovarian serous cystadenocarcinoma(155;0.128)		GTGATCCGGGCACTTCTGCTC	0.448													11	17	---	---	---	---	PASS
ZBTB2	57621	broad.mit.edu	37	6	151687860	151687860	+	Missense_Mutation	SNP	G	C	C			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:151687860G>C	uc003qoh.2	-	3	476	c.341C>G	c.(340-342)GCC>GGC	p.A114G		NM_020861	NP_065912	Q8N680	ZBTB2_HUMAN	zinc finger and BTB domain containing 2	114					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			skin(1)	1			BRCA - Breast invasive adenocarcinoma(37;0.175)	OV - Ovarian serous cystadenocarcinoma(155;2.63e-11)		TCCCTGGCTGGCGAGGCTGGC	0.532													13	39	---	---	---	---	PASS
SYNE1	23345	broad.mit.edu	37	6	152804220	152804220	+	Missense_Mutation	SNP	C	A	A			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:152804220C>A	uc010kiw.2	-	14	1952	c.1350G>T	c.(1348-1350)AAG>AAT	p.K450N	SYNE1_uc003qot.3_Missense_Mutation_p.K457N|SYNE1_uc003qou.3_Missense_Mutation_p.K450N|SYNE1_uc010kjb.1_Missense_Mutation_p.K433N|SYNE1_uc003qpa.1_Missense_Mutation_p.K450N|SYNE1_uc003qox.1_Translation_Start_Site	NM_182961	NP_892006	Q8NF91	SYNE1_HUMAN	spectrin repeat containing, nuclear envelope 1	450	Potential.|Cytoplasmic (Potential).				cell death|cytoskeletal anchoring at nuclear membrane|Golgi organization|muscle cell differentiation|nuclear matrix anchoring at nuclear membrane	cytoskeleton|Golgi apparatus|integral to membrane|nuclear outer membrane|postsynaptic membrane|sarcomere|SUN-KASH complex	actin binding|lamin binding			central_nervous_system(15)|upper_aerodigestive_tract(9)|ovary(8)|skin(6)|large_intestine(5)|pancreas(2)	45		Ovarian(120;0.0955)	BRCA - Breast invasive adenocarcinoma(37;0.243)	OV - Ovarian serous cystadenocarcinoma(155;2.24e-10)		GAATTTTTACCTTATGTTGCT	0.502										HNSCC(10;0.0054)			7	187	---	---	---	---	PASS
NOX3	50508	broad.mit.edu	37	6	155761124	155761124	+	Missense_Mutation	SNP	C	G	G	rs143056669	byFrequency	TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:155761124C>G	uc003qqm.2	-	6	737	c.634G>C	c.(634-636)GTC>CTC	p.V212L		NM_015718	NP_056533	Q9HBY0	NOX3_HUMAN	NADPH oxidase 3	212	Ferric oxidoreductase.|Helical; (Potential).						electron carrier activity|flavin adenine dinucleotide binding|iron ion binding			ovary(1)	1		Breast(66;0.0183)		OV - Ovarian serous cystadenocarcinoma(155;2.18e-12)|BRCA - Breast invasive adenocarcinoma(81;0.00815)		AGAAAGAAGACGATGAAAACA	0.468													19	24	---	---	---	---	PASS
SLC22A2	6582	broad.mit.edu	37	6	160670411	160670411	+	Missense_Mutation	SNP	C	T	T			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:160670411C>T	uc003qtf.2	-	4	849	c.679G>A	c.(679-681)GAA>AAA	p.E227K	SLC22A2_uc003qte.1_Missense_Mutation_p.E227K|SLC22A2_uc003qth.1_3'UTR	NM_003058	NP_003049	O15244	S22A2_HUMAN	solute carrier family 22 member 2	227	Helical; (Potential).				body fluid secretion|neurotransmitter biosynthetic process|neurotransmitter secretion	integral to plasma membrane|membrane fraction	neurotransmitter transporter activity|organic cation transmembrane transporter activity			breast(1)|skin(1)	2		Breast(66;0.000776)|Ovarian(120;0.0303)		OV - Ovarian serous cystadenocarcinoma(65;2.28e-17)|BRCA - Breast invasive adenocarcinoma(81;6.29e-06)		CCAACAAATTCTGTAACTGCA	0.433													14	64	---	---	---	---	PASS
CCR6	1235	broad.mit.edu	37	6	167550498	167550498	+	Silent	SNP	G	T	T			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:167550498G>T	uc003qvl.2	+	13	3256	c.780G>T	c.(778-780)GTG>GTT	p.V260V	CCR6_uc010kkm.2_Silent_p.V260V|CCR6_uc003qvn.3_Silent_p.V260V|CCR6_uc003qvm.3_Silent_p.V260V	NM_031409	NP_113597	P51684	CCR6_HUMAN	chemokine (C-C motif) receptor 6	260	Helical; Name=6; (Potential).				cellular defense response|dendritic cell chemotaxis|elevation of cytosolic calcium ion concentration|humoral immune response	integral to plasma membrane	C-C chemokine receptor activity			ovary(1)	1		Breast(66;1.53e-05)|Ovarian(120;0.0606)		OV - Ovarian serous cystadenocarcinoma(33;8.21e-20)|BRCA - Breast invasive adenocarcinoma(81;4.55e-06)|GBM - Glioblastoma multiforme(31;0.00507)		TAGCTGTGGTGCTTGTGTTTC	0.428													34	20	---	---	---	---	PASS
CARD11	84433	broad.mit.edu	37	7	2968256	2968256	+	Missense_Mutation	SNP	T	A	A			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:2968256T>A	uc003smv.2	-	13	2134	c.1730A>T	c.(1729-1731)TAC>TTC	p.Y577F		NM_032415	NP_115791	Q9BXL7	CAR11_HUMAN	caspase recruitment domain family, member 11	577					positive regulation of cytokine production|positive regulation of NF-kappaB transcription factor activity|regulation of apoptosis|T cell costimulation|T cell receptor signaling pathway	cytosol|membrane raft|plasma membrane	CARD domain binding|guanylate kinase activity			haematopoietic_and_lymphoid_tissue(43)|ovary(2)|kidney(2)|skin(2)|central_nervous_system(1)	50		Ovarian(82;0.0115)		OV - Ovarian serous cystadenocarcinoma(56;8.44e-14)		GTCCTCCTTGTAGCGTCTGAC	0.652			Mis		DLBCL								7	58	---	---	---	---	PASS
COL28A1	340267	broad.mit.edu	37	7	7398270	7398270	+	Missense_Mutation	SNP	T	A	A			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:7398270T>A	uc003src.1	-	35	3489	c.3372A>T	c.(3370-3372)CAA>CAT	p.Q1124H	COL28A1_uc011jxe.1_Missense_Mutation_p.Q807H	NM_001037763	NP_001032852	Q2UY09	COSA1_HUMAN	collagen, type XXVIII precursor	1124					cell adhesion	basement membrane|collagen	serine-type endopeptidase inhibitor activity			skin(3)	3		Ovarian(82;0.0789)		UCEC - Uterine corpus endometrioid carcinoma (126;0.228)		TTGCTCATCCTTGAATGCAGG	0.353													30	58	---	---	---	---	PASS
TMEM195	392636	broad.mit.edu	37	7	15584478	15584478	+	Missense_Mutation	SNP	G	C	C			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:15584478G>C	uc003stb.1	-	3	498	c.328C>G	c.(328-330)CCT>GCT	p.P110A		NM_001004320	NP_001004320	Q6ZNB7	ALKMO_HUMAN	transmembrane protein 195	110					ether lipid metabolic process|fatty acid biosynthetic process|membrane lipid metabolic process	endoplasmic reticulum membrane|integral to membrane	glyceryl-ether monooxygenase activity|iron ion binding				0						GAATCCCAAGGCAAATTGAAC	0.408													34	75	---	---	---	---	PASS
MACC1	346389	broad.mit.edu	37	7	20198760	20198760	+	Silent	SNP	A	G	G			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:20198760A>G	uc003sus.3	-	5	1533	c.1224T>C	c.(1222-1224)GGT>GGC	p.G408G	MACC1_uc010kug.2_Silent_p.G408G	NM_182762	NP_877439	Q6ZN28	MACC1_HUMAN	putative binding protein 7a5	408					positive regulation of cell division|regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasm|nucleus|plasma membrane	growth factor activity			ovary(2)|skin(1)	3						TGTTTTTTCCACCCTTCTTAA	0.363													6	22	---	---	---	---	PASS
MACC1	346389	broad.mit.edu	37	7	20199112	20199112	+	Missense_Mutation	SNP	T	C	C			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:20199112T>C	uc003sus.3	-	5	1181	c.872A>G	c.(871-873)AAA>AGA	p.K291R	MACC1_uc010kug.2_Missense_Mutation_p.K291R	NM_182762	NP_877439	Q6ZN28	MACC1_HUMAN	putative binding protein 7a5	291					positive regulation of cell division|regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasm|nucleus|plasma membrane	growth factor activity			ovary(2)|skin(1)	3						AGCCCCAATTTTCATCTCCAG	0.433													8	27	---	---	---	---	PASS
NPVF	64111	broad.mit.edu	37	7	25266476	25266476	+	Missense_Mutation	SNP	C	G	G			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:25266476C>G	uc003sxo.2	-	2	355	c.308G>C	c.(307-309)GGA>GCA	p.G103A		NM_022150	NP_071433	Q9HCQ7	RFRP_HUMAN	neuropeptide VF precursor	103					neuropeptide signaling pathway	extracellular region|membrane	G-protein coupled receptor activity			ovary(1)	1						GGCTGTTGCTCCAGCACTTCT	0.473													24	43	---	---	---	---	PASS
AMPH	273	broad.mit.edu	37	7	38431391	38431391	+	Silent	SNP	T	A	A			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:38431391T>A	uc003tgu.2	-	19	1905	c.1836A>T	c.(1834-1836)GCA>GCT	p.A612A	AMPH_uc003tgv.2_Silent_p.A570A|AMPH_uc003tgt.2_Silent_p.A497A|AMPH_uc003tgw.1_Silent_p.A635A|AMPH_uc010kxl.1_RNA	NM_001635	NP_001626	P49418	AMPH_HUMAN	amphiphysin isoform 1	612					endocytosis|synaptic transmission	actin cytoskeleton|cell junction|synaptic vesicle membrane				ovary(3)|liver(1)|skin(1)	5						AGGCCTCCCTTGCAGATGCTA	0.522													19	47	---	---	---	---	PASS
GCK	2645	broad.mit.edu	37	7	44193036	44193036	+	Missense_Mutation	SNP	C	A	A			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:44193036C>A	uc003tkl.2	-	2	542	c.72G>T	c.(70-72)CAG>CAT	p.Q24H	GCK_uc003tkj.1_Missense_Mutation_p.Q23H|GCK_uc003tkk.1_Missense_Mutation_p.Q25H	NM_000162	NP_000153	P35557	HXK4_HUMAN	glucokinase isoform 1	24					cellular response to insulin stimulus|cellular response to leptin stimulus|detection of glucose|endocrine pancreas development|glucose homeostasis|glucose transport|glycolysis|negative regulation of gluconeogenesis|positive regulation of glycogen biosynthetic process|positive regulation of insulin secretion|regulation of glucose transport|regulation of glycolysis|transmembrane transport	cytosol|nucleoplasm	ATP binding|glucokinase activity|glucose binding|protein binding			skin(3)|lung(1)	4						CCTCCTGCAGCTGGAACTCTG	0.632													90	150	---	---	---	---	PASS
PKD1L1	168507	broad.mit.edu	37	7	47947844	47947844	+	Missense_Mutation	SNP	C	G	G			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:47947844C>G	uc003tny.1	-	9	1232	c.1232G>C	c.(1231-1233)GGA>GCA	p.G411A		NM_138295	NP_612152	Q8TDX9	PK1L1_HUMAN	polycystin-1L1	411	Extracellular (Potential).				cell-cell adhesion	integral to membrane				ovary(8)|upper_aerodigestive_tract(2)|breast(1)	11						CATATAGACTCCTTCTGGAAA	0.393													8	44	---	---	---	---	PASS
FZD9	8326	broad.mit.edu	37	7	72849712	72849712	+	Missense_Mutation	SNP	G	T	T			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:72849712G>T	uc003tyb.2	+	1	1604	c.1375G>T	c.(1375-1377)GCC>TCC	p.A459S		NM_003508	NP_003499	O00144	FZD9_HUMAN	frizzled 9 precursor	459	Helical; Name=6; (Potential).				B cell differentiation|brain development|canonical Wnt receptor signaling pathway|embryo development|gonad development|neuroblast proliferation|vasculature development	cell surface|filopodium membrane|integral to membrane|perinuclear region of cytoplasm	G-protein coupled receptor activity|PDZ domain binding|protein heterodimerization activity|protein homodimerization activity|Wnt receptor activity|Wnt-protein binding			central_nervous_system(1)	1		Lung NSC(55;0.0659)|all_lung(88;0.152)				CACGGTGCCCGCCACCTGCGT	0.617													3	9	---	---	---	---	PASS
AKAP9	10142	broad.mit.edu	37	7	91651540	91651540	+	Intron	SNP	G	T	T			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:91651540G>T	uc003ulg.2	+						AKAP9_uc003ule.2_Intron|AKAP9_uc003ulf.2_Intron|AKAP9_uc003uli.2_Intron	NM_005751	NP_005742	Q99996	AKAP9_HUMAN	A-kinase anchor protein 9 isoform 2						G2/M transition of mitotic cell cycle|signal transduction|synaptic transmission|transport	centrosome|cytosol|Golgi apparatus	receptor binding			breast(7)|ovary(6)|lung(5)|skin(3)|large_intestine(2)|prostate(2)|central_nervous_system(1)	26	all_cancers(62;2.46e-09)|all_epithelial(64;4.42e-08)|Breast(17;0.00206)|all_lung(186;0.185)|all_hematologic(106;0.215)|Lung NSC(181;0.249)		STAD - Stomach adenocarcinoma(171;6.16e-05)|Lung(22;0.123)|LUSC - Lung squamous cell carcinoma(200;0.225)			TTTATTCTGTGGTTTTCAATA	0.333			T	BRAF	papillary thyroid								5	74	---	---	---	---	PASS
AKAP9	10142	broad.mit.edu	37	7	91660895	91660895	+	Missense_Mutation	SNP	C	G	G			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:91660895C>G	uc003ulg.2	+	16	4540	c.4315C>G	c.(4315-4317)CAA>GAA	p.Q1439E	AKAP9_uc003ule.2_Missense_Mutation_p.Q1451E|AKAP9_uc003ulf.2_Missense_Mutation_p.Q1439E|AKAP9_uc003uli.2_Missense_Mutation_p.Q1064E	NM_005751	NP_005742	Q99996	AKAP9_HUMAN	A-kinase anchor protein 9 isoform 2	1451	Potential.				G2/M transition of mitotic cell cycle|signal transduction|synaptic transmission|transport	centrosome|cytosol|Golgi apparatus	receptor binding			breast(7)|ovary(6)|lung(5)|skin(3)|large_intestine(2)|prostate(2)|central_nervous_system(1)	26	all_cancers(62;2.46e-09)|all_epithelial(64;4.42e-08)|Breast(17;0.00206)|all_lung(186;0.185)|all_hematologic(106;0.215)|Lung NSC(181;0.249)		STAD - Stomach adenocarcinoma(171;6.16e-05)|Lung(22;0.123)|LUSC - Lung squamous cell carcinoma(200;0.225)			ATACCAAGAACAATTAGAAGA	0.303			T	BRAF	papillary thyroid								7	78	---	---	---	---	PASS
STAG3	10734	broad.mit.edu	37	7	99783901	99783901	+	Missense_Mutation	SNP	C	A	A			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:99783901C>A	uc003utx.1	+	5	570	c.415C>A	c.(415-417)CAA>AAA	p.Q139K	STAG3_uc010lgs.1_5'UTR|STAG3_uc011kjk.1_Intron	NM_012447	NP_036579	Q9UJ98	STAG3_HUMAN	stromal antigen 3	139					chromosome segregation|synaptonemal complex assembly	chromosome, centromeric region|meiotic cohesin complex|synaptonemal complex	binding			ovary(4)|skin(2)|lung(1)|kidney(1)	8	Lung NSC(181;0.0181)|all_lung(186;0.0284)|Esophageal squamous(72;0.0439)					CTTTTTCATCCAATCTTGCGG	0.398													6	124	---	---	---	---	PASS
STAG3	10734	broad.mit.edu	37	7	99809470	99809470	+	Missense_Mutation	SNP	T	G	G			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:99809470T>G	uc003utx.1	+	32	3723	c.3568T>G	c.(3568-3570)TCA>GCA	p.S1190A	STAG3_uc011kjk.1_Missense_Mutation_p.S1132A|GATS_uc003uty.3_RNA|GATS_uc003utz.3_Intron|GATS_uc003uua.3_Intron|GATS_uc010lgt.2_Intron|STAG3_uc003uub.1_Missense_Mutation_p.S415A|GATS_uc011kjl.1_RNA|GATS_uc010lgu.2_RNA	NM_012447	NP_036579	Q9UJ98	STAG3_HUMAN	stromal antigen 3	1190					chromosome segregation|synaptonemal complex assembly	chromosome, centromeric region|meiotic cohesin complex|synaptonemal complex	binding			ovary(4)|skin(2)|lung(1)|kidney(1)	8	Lung NSC(181;0.0181)|all_lung(186;0.0284)|Esophageal squamous(72;0.0439)					CCAGGATGAGTCAAATGAAGA	0.483													14	83	---	---	---	---	PASS
AGFG2	3268	broad.mit.edu	37	7	100161511	100161511	+	Missense_Mutation	SNP	C	A	A			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:100161511C>A	uc003uvf.2	+	10	1362	c.1226C>A	c.(1225-1227)CCC>CAC	p.P409H	AGFG2_uc010lgy.2_Intron	NM_006076	NP_006067	O95081	AGFG2_HUMAN	ArfGAP with FG repeats 2	409	Pro-rich.				regulation of ARF GTPase activity		ARF GTPase activator activity|zinc ion binding			central_nervous_system(1)	1						GCAGTGCCACCCACTGGGGCC	0.617											OREG0018204	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	5	48	---	---	---	---	PASS
MLL5	55904	broad.mit.edu	37	7	104742347	104742347	+	Silent	SNP	A	G	G			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:104742347A>G	uc003vcm.2	+	17	2436	c.1902A>G	c.(1900-1902)GAA>GAG	p.E634E	MLL5_uc010ljc.2_Silent_p.E634E|MLL5_uc010lje.1_RNA	NM_182931	NP_891847	Q8IZD2	MLL5_HUMAN	myeloid/lymphoid or mixed-lineage leukemia 5	634					cell cycle arrest|cellular response to retinoic acid|DNA methylation|erythrocyte differentiation|neutrophil activation|neutrophil mediated immunity|positive regulation of granulocyte differentiation|positive regulation of transcription, DNA-dependent|retinoic acid receptor signaling pathway|transcription, DNA-dependent	MLL5-L complex|nuclear speck	enzyme binding|histone methyltransferase activity (H3-K4 specific)|transcription coactivator activity|zinc ion binding			ovary(2)|pancreas(1)	3						AAGCAAAAGAAGAAAATGCTA	0.353													36	20	---	---	---	---	PASS
CDHR3	222256	broad.mit.edu	37	7	105641957	105641957	+	Missense_Mutation	SNP	G	T	T			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:105641957G>T	uc003vdl.3	+	7	871	c.763G>T	c.(763-765)GTG>TTG	p.V255L	CDHR3_uc003vdk.2_Intron|CDHR3_uc011kls.1_RNA|CDHR3_uc003vdm.3_Missense_Mutation_p.V242L|CDHR3_uc011klt.1_Missense_Mutation_p.V167L|CDHR3_uc003vdn.2_5'UTR	NM_152750	NP_689963	Q6ZTQ4	CDHR3_HUMAN	hypothetical protein LOC222256 precursor	255	Cadherin 3.|Extracellular (Potential).				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			ovary(1)	1						AGGAACCATCGTGGCCAATAT	0.498													85	53	---	---	---	---	PASS
NRCAM	4897	broad.mit.edu	37	7	107818549	107818549	+	Missense_Mutation	SNP	C	T	T			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:107818549C>T	uc003vfb.2	-	26	3331	c.2860G>A	c.(2860-2862)GCT>ACT	p.A954T	NRCAM_uc003vfc.2_Missense_Mutation_p.A938T|NRCAM_uc011kmk.1_Missense_Mutation_p.A949T|NRCAM_uc003vfd.2_Missense_Mutation_p.A930T|NRCAM_uc003vfe.2_Missense_Mutation_p.A930T|NRCAM_uc011kmj.1_5'Flank	NM_001037132	NP_001032209	Q92823	NRCAM_HUMAN	neuronal cell adhesion molecule isoform A	954	Fibronectin type-III 4.|Extracellular (Potential).			A -> V (in Ref. 8; CAA04507).	angiogenesis|axon guidance|axonal fasciculation|cell-cell adhesion|central nervous system development|clustering of voltage-gated sodium channels|neuron migration|positive regulation of neuron differentiation|regulation of axon extension|synapse assembly	external side of plasma membrane|integral to plasma membrane	ankyrin binding	p.L954L(1)		ovary(3)|breast(2)	5						GACGAGGGAGCACTGGGGACT	0.443													5	37	---	---	---	---	PASS
NRCAM	4897	broad.mit.edu	37	7	107822332	107822332	+	Silent	SNP	G	T	T			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:107822332G>T	uc003vfb.2	-	24	3051	c.2580C>A	c.(2578-2580)ACC>ACA	p.T860T	NRCAM_uc003vfc.2_Silent_p.T844T|NRCAM_uc011kmk.1_Silent_p.T855T|NRCAM_uc003vfd.2_Silent_p.T836T|NRCAM_uc003vfe.2_Silent_p.T836T	NM_001037132	NP_001032209	Q92823	NRCAM_HUMAN	neuronal cell adhesion molecule isoform A	860	Fibronectin type-III 3.|Extracellular (Potential).				angiogenesis|axon guidance|axonal fasciculation|cell-cell adhesion|central nervous system development|clustering of voltage-gated sodium channels|neuron migration|positive regulation of neuron differentiation|regulation of axon extension|synapse assembly	external side of plasma membrane|integral to plasma membrane	ankyrin binding			ovary(3)|breast(2)	5						CCTCGGCTAAGGTACTGTTCA	0.478													5	52	---	---	---	---	PASS
CTTNBP2	83992	broad.mit.edu	37	7	117400707	117400707	+	Missense_Mutation	SNP	C	T	T			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:117400707C>T	uc003vjf.2	-	10	3046	c.2954G>A	c.(2953-2955)GGT>GAT	p.G985D		NM_033427	NP_219499	Q8WZ74	CTTB2_HUMAN	cortactin binding protein 2	985										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)		GTCATCAGAACCATAGTTGCT	0.363													11	48	---	---	---	---	PASS
AASS	10157	broad.mit.edu	37	7	121731799	121731799	+	Missense_Mutation	SNP	C	G	G			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:121731799C>G	uc003vka.2	-	17	2070	c.1974G>C	c.(1972-1974)TTG>TTC	p.L658F	AASS_uc011knu.1_RNA|AASS_uc011knv.1_RNA|AASS_uc003vkb.2_Missense_Mutation_p.L658F|AASS_uc011knw.1_Missense_Mutation_p.L146F	NM_005763	NP_005754	Q9UDR5	AASS_HUMAN	aminoadipate-semialdehyde synthase precursor	658	Saccharopine dehydrogenase.				protein tetramerization	mitochondrial matrix	binding|saccharopine dehydrogenase (NAD+, L-glutamate-forming) activity|saccharopine dehydrogenase (NADP+, L-lysine-forming) activity			upper_aerodigestive_tract(1)|ovary(1)	2					L-Glutamic Acid(DB00142)|NADH(DB00157)	TTACATTCATCAAAACTCCCA	0.423													4	17	---	---	---	---	PASS
METTL2B	55798	broad.mit.edu	37	7	128141838	128141838	+	Silent	SNP	C	A	A			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:128141838C>A	uc003vnf.2	+	9	1042	c.1005C>A	c.(1003-1005)ACC>ACA	p.T335T	METTL2B_uc003vng.2_Silent_p.T270T|METTL2B_uc011kop.1_Silent_p.T199T	NM_018396	NP_060866	Q6P1Q9	MTL2B_HUMAN	methyltransferase like 2B	335							methyltransferase activity			skin(1)	1						CGCTTTTCACCACTGCTGGAC	0.433													6	95	---	---	---	---	PASS
FAM71F2	346653	broad.mit.edu	37	7	128315900	128315900	+	Missense_Mutation	SNP	A	G	G			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:128315900A>G	uc003vnk.3	+	2	458	c.352A>G	c.(352-354)ATC>GTC	p.I118V	FAM71F2_uc010llm.1_Missense_Mutation_p.I109V|FAM71F2_uc003vnl.2_RNA|FAM71F2_uc010lln.1_RNA	NM_001012454	NP_001012457	Q6NXP2	F71F2_HUMAN	hypothetical protein LOC346653 isoform a	118											0						CGCCCCAGTCATCAACCTCAG	0.537													4	27	---	---	---	---	PASS
FLNC	2318	broad.mit.edu	37	7	128493535	128493535	+	Nonsense_Mutation	SNP	T	A	A			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:128493535T>A	uc003vnz.3	+	38	6430	c.6221T>A	c.(6220-6222)TTG>TAG	p.L2074*	FLNC_uc003voa.3_Nonsense_Mutation_p.L2041*	NM_001458	NP_001449	Q14315	FLNC_HUMAN	gamma filamin isoform a	2074	Filamin 19.				cell junction assembly	cytoskeleton|cytosol|plasma membrane|sarcomere	actin binding			breast(5)|large_intestine(3)|ovary(2)|central_nervous_system(1)|skin(1)	12						TATGGGGGCTTGGGGCTGAGT	0.592													25	11	---	---	---	---	PASS
AKR1D1	6718	broad.mit.edu	37	7	137761328	137761328	+	Nonsense_Mutation	SNP	G	T	T			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:137761328G>T	uc003vtz.2	+	1	133	c.64G>T	c.(64-66)GGA>TGA	p.G22*	AKR1D1_uc011kqb.1_Nonsense_Mutation_p.G22*|AKR1D1_uc011kqc.1_Intron|AKR1D1_uc011kqd.1_Intron|AKR1D1_uc011kqe.1_Nonsense_Mutation_p.G22*|AKR1D1_uc011kqf.1_Nonsense_Mutation_p.G22*	NM_005989	NP_005980	P51857	AK1D1_HUMAN	aldo-keto reductase family 1, member D1	22					androgen metabolic process|bile acid biosynthetic process|bile acid catabolic process|C21-steroid hormone metabolic process|cholesterol catabolic process|digestion	cytosol	aldo-keto reductase (NADP) activity|delta4-3-oxosteroid 5beta-reductase activity|steroid binding			skin(1)	1						TCCCATCATCGGACTTGGTAC	0.418													4	19	---	---	---	---	PASS
KIAA1549	57670	broad.mit.edu	37	7	138552813	138552813	+	Missense_Mutation	SNP	C	A	A			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:138552813C>A	uc011kql.1	-	15	4886	c.4837G>T	c.(4837-4839)GAC>TAC	p.D1613Y	KIAA1549_uc011kqi.1_Missense_Mutation_p.D397Y|KIAA1549_uc003vuk.3_Missense_Mutation_p.D1563Y|KIAA1549_uc011kqj.1_Missense_Mutation_p.D1613Y|KIAA1549_uc011kqk.1_Missense_Mutation_p.D397Y	NM_020910	NP_065961	Q9HCM3	K1549_HUMAN	hypothetical protein LOC57670 isoform 1	1613						integral to membrane			KIAA1549/BRAF(229)	central_nervous_system(229)|pancreas(1)	230						TTCTCAGCGTCGGCAGGACAG	0.577			O	BRAF	pilocytic astrocytoma								8	9	---	---	---	---	PASS
RAB19	401409	broad.mit.edu	37	7	140111804	140111804	+	Missense_Mutation	SNP	G	T	T			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:140111804G>T	uc010lni.2	+	3	530	c.332G>T	c.(331-333)TGG>TTG	p.W111L	RAB19_uc011krc.1_Missense_Mutation_p.W111L	NM_001008749	NP_001008749	A4D1S5	RAB19_HUMAN	RAB19, member RAS oncogene family	111					protein transport|small GTPase mediated signal transduction	plasma membrane	GTP binding				0	Melanoma(164;0.0142)					ATCCCTCACTGGATTCATGAG	0.493													6	116	---	---	---	---	PASS
DENND2A	27147	broad.mit.edu	37	7	140218496	140218496	+	3'UTR	SNP	G	T	T			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:140218496G>T	uc010lnj.2	-	18					DENND2A_uc011kre.1_RNA|DENND2A_uc010lnk.2_3'UTR|DENND2A_uc003vvw.2_3'UTR	NM_015689	NP_056504	Q9ULE3	DEN2A_HUMAN	DENN/MADD domain containing 2A											ovary(3)|breast(1)	4	Melanoma(164;0.00956)					GTTTTCCCTTGAGGCTGAGAG	0.433													26	26	---	---	---	---	PASS
TMEM176A	55365	broad.mit.edu	37	7	150501463	150501463	+	Missense_Mutation	SNP	C	G	G			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:150501463C>G	uc003whx.1	+	6	647	c.569C>G	c.(568-570)ACC>AGC	p.T190S		NM_018487	NP_060957	Q96HP8	T176A_HUMAN	hepatocellular carcinoma-associated antigen 112	190						integral to membrane				ovary(2)	2			OV - Ovarian serous cystadenocarcinoma(82;0.0121)	UCEC - Uterine corpus endometrioid carcinoma (81;0.168)		TTGTTCAGAACCCTTCAGGCC	0.557													4	46	---	---	---	---	PASS
ABP1	26	broad.mit.edu	37	7	150558048	150558048	+	Silent	SNP	G	A	A			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:150558048G>A	uc003why.1	+	6	6225	c.2007G>A	c.(2005-2007)GTG>GTA	p.V669V	ABP1_uc003whz.1_Silent_p.V669V|ABP1_uc003wia.1_Silent_p.V688V	NM_001091	NP_001082	P19801	ABP1_HUMAN	amiloride binding protein 1 precursor	669					amine metabolic process	extracellular space|peroxisome	copper ion binding|diamine oxidase activity|heparin binding|histamine oxidase activity|methylputrescine oxidase activity|primary amine oxidase activity|propane-1,3-diamine oxidase activity|quinone binding			ovary(2)|breast(2)|skin(2)	6	all_neural(206;0.219)		OV - Ovarian serous cystadenocarcinoma(82;0.0121)	UCEC - Uterine corpus endometrioid carcinoma (81;0.168)	Amiloride(DB00594)|Spermine(DB00127)	TGGCCTGGGTGACGGTGGGCT	0.597													7	37	---	---	---	---	PASS
ERICH1	157697	broad.mit.edu	37	8	623443	623443	+	Missense_Mutation	SNP	C	A	A			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:623443C>A	uc003wph.2	-	4	974	c.909G>T	c.(907-909)GAG>GAT	p.E303D	ERICH1_uc011kwh.1_Missense_Mutation_p.E303D|ERICH1_uc003wpe.1_Missense_Mutation_p.E209D|ERICH1_uc003wpi.2_Missense_Mutation_p.E115D	NM_207332	NP_997215	Q86X53	ERIC1_HUMAN	glutamate-rich 1	303	Glu-rich.									large_intestine(2)	2		Colorectal(14;0.158)|Ovarian(12;0.17)|Myeloproliferative disorder(644;0.185)|Hepatocellular(245;0.236)		Epithelial(5;3.29e-14)|BRCA - Breast invasive adenocarcinoma(11;1.49e-06)|OV - Ovarian serous cystadenocarcinoma(5;3.65e-06)|READ - Rectum adenocarcinoma(1;0.0325)		TCGGGTCTTCCTCGCTGGCGT	0.617													13	93	---	---	---	---	PASS
MCPH1	79648	broad.mit.edu	37	8	6302384	6302384	+	Missense_Mutation	SNP	A	G	G			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:6302384A>G	uc003wqi.2	+	8	1209	c.1141A>G	c.(1141-1143)ATC>GTC	p.I381V	MCPH1_uc003wqh.2_Missense_Mutation_p.I381V|MCPH1_uc011kwl.1_Missense_Mutation_p.I333V	NM_024596	NP_078872	Q8NEM0	MCPH1_HUMAN	microcephalin	381						microtubule organizing center				central_nervous_system(1)|skin(1)	2		Hepatocellular(245;0.0663)		Colorectal(4;0.0505)		CAGGAGATCTATCATGCCGAG	0.532													11	38	---	---	---	---	PASS
PRSS55	203074	broad.mit.edu	37	8	10390507	10390507	+	Silent	SNP	C	G	G			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:10390507C>G	uc003wta.2	+	4	705	c.690C>G	c.(688-690)ACC>ACG	p.T230T	uc010lru.2_Intron|PRSS55_uc003wtb.2_RNA	NM_198464	NP_940866	Q6UWB4	PRS55_HUMAN	hypothetical protein LOC203074 precursor	230	Extracellular (Potential).|Peptidase S1.				proteolysis	integral to membrane	serine-type endopeptidase activity			ovary(1)	1						CAAAACTTACCAAAAATATGC	0.483													18	33	---	---	---	---	PASS
TUSC3	7991	broad.mit.edu	37	8	15601052	15601052	+	Missense_Mutation	SNP	G	A	A			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:15601052G>A	uc003wwt.2	+	8	1078	c.868G>A	c.(868-870)GCT>ACT	p.A290T	TUSC3_uc003wwu.2_Missense_Mutation_p.A290T|TUSC3_uc003wwv.2_Missense_Mutation_p.A290T|TUSC3_uc003www.2_Missense_Mutation_p.A290T|TUSC3_uc003wwx.2_RNA|TUSC3_uc003wwy.2_Silent_p.P268P	NM_006765	NP_006756	Q13454	TUSC3_HUMAN	tumor suppressor candidate 3 isoform a	290	Helical; (Potential).				cell redox homeostasis|post-translational protein modification|protein N-linked glycosylation via asparagine	integral to membrane|oligosaccharyltransferase complex				ovary(2)|central_nervous_system(1)	3				Colorectal(111;0.113)		TGCAGATGCCGCTATCACCAT	0.393													13	46	---	---	---	---	PASS
MTMR7	9108	broad.mit.edu	37	8	17159652	17159652	+	Intron	SNP	G	A	A			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:17159652G>A	uc003wxm.2	-						MTMR7_uc003wxn.2_Missense_Mutation_p.T323I|MTMR7_uc011kya.1_Intron|MTMR7_uc011kyb.1_Intron	NM_004686	NP_004677	Q9Y216	MTMR7_HUMAN	myotubularin related protein 7								protein tyrosine phosphatase activity			skin(1)	1				Colorectal(111;0.112)		AACAAAGCAAGTATGTCTTAC	0.393													27	51	---	---	---	---	PASS
PPP2R2A	5520	broad.mit.edu	37	8	26218532	26218532	+	Missense_Mutation	SNP	C	T	T			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:26218532C>T	uc003xeu.2	+	6	804	c.502C>T	c.(502-504)CCA>TCA	p.P168S	PPP2R2A_uc003xek.2_Intron|PPP2R2A_uc011laf.1_Missense_Mutation_p.P178S	NM_002717	NP_002708	P63151	2ABA_HUMAN	alpha isoform of regulatory subunit B55, protein	168					protein dephosphorylation|signal transduction	protein phosphatase type 2A complex	protein binding|protein phosphatase type 2A regulator activity|protein serine/threonine phosphatase activity			ovary(1)|kidney(1)	2		all_cancers(63;0.086)|Ovarian(32;2.61e-05)|all_epithelial(46;0.0514)|Prostate(55;0.157)		UCEC - Uterine corpus endometrioid carcinoma (27;0.000754)|Epithelial(17;3.02e-15)|all cancers(2;1.52e-13)|OV - Ovarian serous cystadenocarcinoma(2;1.89e-10)|Colorectal(74;0.155)		TGAGGCCAGTCCACGAAGAAT	0.348													4	24	---	---	---	---	PASS
ZNF395	55893	broad.mit.edu	37	8	28210186	28210186	+	Missense_Mutation	SNP	G	A	A			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:28210186G>A	uc003xgq.2	-	6	912	c.824C>T	c.(823-825)TCT>TTT	p.S275F	ZNF395_uc003xgt.2_Missense_Mutation_p.S275F|ZNF395_uc003xgr.2_Missense_Mutation_p.S275F|ZNF395_uc003xgs.2_Missense_Mutation_p.S275F	NM_018660	NP_061130	Q9H8N7	ZN395_HUMAN	zinc finger protein 395	275					transcription, DNA-dependent	cytoplasm|nucleus	DNA binding|zinc ion binding				0		Ovarian(32;2.06e-05)		KIRC - Kidney renal clear cell carcinoma(542;0.102)|Kidney(114;0.123)|Colorectal(74;0.142)		CACCTTCACAGAGTTCTACAG	0.527													10	50	---	---	---	---	PASS
FBXO16	157574	broad.mit.edu	37	8	28321168	28321168	+	Silent	SNP	A	G	G			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:28321168A>G	uc003xgu.2	-	4	401	c.303T>C	c.(301-303)TTT>TTC	p.F101F	ZNF395_uc003xgt.2_5'UTR|FBXO16_uc003xgv.2_Silent_p.F88F|FBXO16_uc003xgw.2_Silent_p.F88F	NM_172366	NP_758954	Q8IX29	FBX16_HUMAN	F-box only protein 16	101	F-box.									ovary(1)	1		Ovarian(32;2.06e-05)		KIRC - Kidney renal clear cell carcinoma(542;0.121)|Kidney(114;0.144)|Colorectal(74;0.249)		CCAGGAAAGAAAAGATGTATA	0.458													4	29	---	---	---	---	PASS
PRKDC	5591	broad.mit.edu	37	8	48855900	48855900	+	Missense_Mutation	SNP	C	T	T			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:48855900C>T	uc003xqi.2	-	10	892	c.835G>A	c.(835-837)GCA>ACA	p.A279T	PRKDC_uc003xqj.2_Missense_Mutation_p.A279T|PRKDC_uc011ldh.1_Missense_Mutation_p.A279T	NM_006904	NP_008835	P78527	PRKDC_HUMAN	protein kinase, DNA-activated, catalytic	279					cellular response to insulin stimulus|double-strand break repair via nonhomologous end joining|peptidyl-serine phosphorylation|positive regulation of transcription from RNA polymerase II promoter	DNA-dependent protein kinase-DNA ligase 4 complex|transcription factor complex	ATP binding|DNA binding|DNA-dependent protein kinase activity|transcription factor binding			lung(12)|central_nervous_system(9)|ovary(6)|skin(4)|large_intestine(3)	34		all_cancers(86;0.0336)|all_epithelial(80;0.00111)|Lung NSC(129;0.00363)|all_lung(136;0.00391)				AACTGAGATGCATGCAGGGCA	0.428								NHEJ					12	22	---	---	---	---	PASS
PXDNL	137902	broad.mit.edu	37	8	52252215	52252215	+	Missense_Mutation	SNP	A	T	T			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:52252215A>T	uc003xqu.3	-	21	4216	c.4115T>A	c.(4114-4116)ATT>AAT	p.I1372N	PXDNL_uc003xqt.3_Intron	NM_144651	NP_653252	A1KZ92	PXDNL_HUMAN	peroxidasin homolog-like precursor	1372					hydrogen peroxide catabolic process	extracellular space	heme binding|peroxidase activity			ovary(1)|pancreas(1)	2		all_cancers(86;0.107)|Lung NSC(129;0.00641)|all_epithelial(80;0.00716)|all_lung(136;0.015)				GGTTTCCTGAATTTCCGCTGC	0.378													20	63	---	---	---	---	PASS
PCMTD1	115294	broad.mit.edu	37	8	52733117	52733117	+	Missense_Mutation	SNP	A	G	G			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:52733117A>G	uc003xqx.3	-	6	1209	c.868T>C	c.(868-870)TTT>CTT	p.F290L	PCMTD1_uc011ldm.1_Missense_Mutation_p.F160L|PCMTD1_uc003xqw.3_Missense_Mutation_p.F290L|PCMTD1_uc011ldn.1_Missense_Mutation_p.F102L|PCMTD1_uc010lya.2_Missense_Mutation_p.F214L	NM_052937	NP_443169	Q96MG8	PCMD1_HUMAN	protein-L-isoaspartate (D-aspartate)	290						cytoplasm	protein-L-isoaspartate (D-aspartate) O-methyltransferase activity				0		Lung NSC(129;0.0795)|all_lung(136;0.144)				TTACCCACAAATACGTAAGTG	0.303													11	223	---	---	---	---	PASS
ZFHX4	79776	broad.mit.edu	37	8	77767709	77767709	+	Missense_Mutation	SNP	C	G	G			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:77767709C>G	uc003yav.2	+	10	8804	c.8417C>G	c.(8416-8418)CCT>CGT	p.P2806R	ZFHX4_uc003yau.1_Missense_Mutation_p.P2851R|ZFHX4_uc003yaw.1_Missense_Mutation_p.P2806R	NM_024721	NP_078997	Q86UP3	ZFHX4_HUMAN	zinc finger homeodomain 4	2806						nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(8)|large_intestine(4)|breast(2)|lung(1)	15			BRCA - Breast invasive adenocarcinoma(89;0.0895)			CTGCCAAAACCTGCAACCACA	0.483										HNSCC(33;0.089)			24	79	---	---	---	---	PASS
TMEM67	91147	broad.mit.edu	37	8	94807627	94807627	+	Intron	SNP	T	A	A			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:94807627T>A	uc011lgk.1	+						TMEM67_uc010maw.2_Intron|TMEM67_uc003yga.3_Intron|TMEM67_uc011lgl.1_Intron	NM_153704	NP_714915	Q5HYA8	MKS3_HUMAN	meckelin isoform 1						cilium assembly|ER-associated protein catabolic process|negative regulation of centrosome duplication	centrosome|cilium membrane|cytoplasmic vesicle membrane|endoplasmic reticulum membrane|integral to membrane|microtubule basal body	unfolded protein binding			ovary(2)	2	Breast(36;4.14e-07)		BRCA - Breast invasive adenocarcinoma(8;0.00896)			TTCTTTTTTTTAAATTGCAGA	0.363													9	74	---	---	---	---	PASS
POP1	10940	broad.mit.edu	37	8	99148753	99148753	+	Missense_Mutation	SNP	C	A	A			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:99148753C>A	uc003yij.3	+	8	1155	c.1055C>A	c.(1054-1056)CCC>CAC	p.P352H	POP1_uc011lgv.1_Missense_Mutation_p.P352H|POP1_uc003yik.2_Missense_Mutation_p.P352H	NM_001145860	NP_001139332	Q99575	POP1_HUMAN	processing of precursor 1	352					tRNA 5'-leader removal|tRNA catabolic process	nucleolar ribonuclease P complex|ribonuclease MRP complex	identical protein binding|ribonuclease MRP activity|ribonuclease P activity			ovary(1)|breast(1)	2	Breast(36;1.78e-06)		OV - Ovarian serous cystadenocarcinoma(57;0.145)			TGTGTGGAACCCATCAAATCA	0.358													9	248	---	---	---	---	PASS
KLF10	7071	broad.mit.edu	37	8	103664484	103664484	+	Missense_Mutation	SNP	C	G	G			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:103664484C>G	uc011lhk.1	-	2	332	c.178G>C	c.(178-180)GTT>CTT	p.V60L	KLF10_uc011lhj.1_Missense_Mutation_p.V49L	NM_005655	NP_005646	Q13118	KLF10_HUMAN	Kruppel-like factor 10 isoform a	60					cell proliferation|cell-cell signaling|negative regulation of cell proliferation|negative regulation of transcription from RNA polymerase II promoter|skeletal system development|transforming growth factor beta receptor signaling pathway	nucleus	DNA binding|protein binding|sequence-specific DNA binding transcription factor activity|zinc ion binding				0	all_epithelial(15;5.63e-07)|Lung NSC(17;8.18e-05)|all_lung(17;0.000169)		OV - Ovarian serous cystadenocarcinoma(57;0.000112)|STAD - Stomach adenocarcinoma(118;0.0826)			CTGTTTTCAACGTATTTCTTA	0.383											OREG0018913	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	8	82	---	---	---	---	PASS
RAD21	5885	broad.mit.edu	37	8	117869513	117869513	+	Silent	SNP	T	C	C			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:117869513T>C	uc003yod.2	-	6	969	c.681A>G	c.(679-681)GGA>GGG	p.G227G		NM_006265	NP_006256	O60216	RAD21_HUMAN	RAD21 homolog	227					apoptosis|cell division|chromosome segregation|double-strand break repair|mitotic metaphase/anaphase transition|mitotic prometaphase|protein localization to chromatin|reciprocal meiotic recombination|regulation of transcription from RNA polymerase II promoter	chromosome, centromeric region|cohesin complex|nuclear chromosome|nucleoplasm	protein binding			lung(1)|skin(1)	2	all_cancers(13;1.21e-21)|Lung NSC(37;0.000134)|Ovarian(258;0.0172)					TACCTAATATTCCACCATCAT	0.323													30	35	---	---	---	---	PASS
COL14A1	7373	broad.mit.edu	37	8	121279127	121279127	+	Intron	SNP	A	T	T			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:121279127A>T	uc003yox.2	+						COL14A1_uc003yoy.2_Missense_Mutation_p.K704N	NM_021110	NP_066933	Q05707	COEA1_HUMAN	collagen, type XIV, alpha 1 precursor						cell-cell adhesion|collagen fibril organization	collagen type XIV|extracellular space	collagen binding|extracellular matrix structural constituent|protein binding, bridging			ovary(4)|kidney(4)|skin(2)|pancreas(1)|central_nervous_system(1)	12	Lung NSC(37;6.52e-07)|Ovarian(258;0.00769)|Hepatocellular(40;0.161)		OV - Ovarian serous cystadenocarcinoma(1;6.47e-38)|STAD - Stomach adenocarcinoma(47;0.00503)			AAGAAGGTAAAAGAATAATAG	0.348													19	43	---	---	---	---	PASS
ZHX2	22882	broad.mit.edu	37	8	123964361	123964361	+	Missense_Mutation	SNP	A	T	T			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:123964361A>T	uc003ypk.1	+	3	1178	c.611A>T	c.(610-612)GAG>GTG	p.E204V		NM_014943	NP_055758	Q9Y6X8	ZHX2_HUMAN	zinc fingers and homeoboxes 2	204	Required for homodimerization.					cytoplasm|nucleus|plasma membrane	protein binding|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(1)|skin(1)	2	Lung NSC(37;2e-09)|Ovarian(258;0.0205)|Hepatocellular(40;0.105)		STAD - Stomach adenocarcinoma(47;0.00527)			AAGAAGCCCGAGGAGATCACC	0.587													85	86	---	---	---	---	PASS
C8orf76	84933	broad.mit.edu	37	8	124238808	124238808	+	Missense_Mutation	SNP	G	T	T			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:124238808G>T	uc003yqc.1	-	5	911	c.880C>A	c.(880-882)CAG>AAG	p.Q294K	C8orf76_uc003yqd.2_Missense_Mutation_p.Q262K	NM_032847	NP_116236	Q96K31	CH076_HUMAN	hypothetical protein LOC84933	294							binding			ovary(2)	2	Lung NSC(37;1.25e-09)|Ovarian(258;0.0154)		STAD - Stomach adenocarcinoma(47;0.00527)			ATTTCCTGCTGAGTCCTTAAG	0.433													5	78	---	---	---	---	PASS
C8orf76	84933	broad.mit.edu	37	8	124250108	124250108	+	Missense_Mutation	SNP	T	C	C			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:124250108T>C	uc003yqc.1	-	3	318	c.287A>G	c.(286-288)CAG>CGG	p.Q96R	C8orf76_uc003yqd.2_Missense_Mutation_p.Q64R	NM_032847	NP_116236	Q96K31	CH076_HUMAN	hypothetical protein LOC84933	96							binding			ovary(2)	2	Lung NSC(37;1.25e-09)|Ovarian(258;0.0154)		STAD - Stomach adenocarcinoma(47;0.00527)			CTGACCTTCCTGGACATCCCT	0.418													8	49	---	---	---	---	PASS
ASAP1	50807	broad.mit.edu	37	8	131199534	131199534	+	Intron	SNP	T	C	C			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:131199534T>C	uc003yta.1	-						ASAP1_uc011liw.1_Intron	NM_018482	NP_060952	Q9ULH1	ASAP1_HUMAN	development and differentiation enhancing factor						cilium morphogenesis|filopodium assembly|regulation of ARF GTPase activity|signal transduction	cytoplasm|membrane	ARF GTPase activator activity|cytoskeletal adaptor activity|SH3 domain binding|zinc ion binding			ovary(4)	4						TTGAGATCCTTAGAAACGAGA	0.289													7	67	---	---	---	---	PASS
PHF20L1	51105	broad.mit.edu	37	8	133816063	133816063	+	Splice_Site	SNP	G	T	T			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:133816063G>T	uc003ytt.2	+	7	833	c.508_splice	c.e7-1	p.D170_splice	PHF20L1_uc003ytr.2_Splice_Site_p.D144_splice|PHF20L1_uc010mdv.2_Splice_Site_p.D144_splice|PHF20L1_uc003yts.2_Splice_Site_p.D170_splice|PHF20L1_uc011lja.1_Splice_Site_p.D144_splice|PHF20L1_uc003ytu.1_Splice_Site|PHF20L1_uc003ytv.2_Missense_Mutation_p.E8D	NM_016018	NP_057102	A8MW92	P20L1_HUMAN	PHD finger protein 20-like 1 isoform 1								nucleic acid binding|zinc ion binding			ovary(2)	2	all_neural(3;2.72e-06)|Medulloblastoma(3;7.08e-05)|Ovarian(258;0.00438)|Esophageal squamous(12;0.00507)|Acute lymphoblastic leukemia(118;0.155)		BRCA - Breast invasive adenocarcinoma(115;4.46e-05)			TTCCTTTGGAGGATTGGATAG	0.333													3	4	---	---	---	---	PASS
FAM135B	51059	broad.mit.edu	37	8	139164022	139164022	+	Missense_Mutation	SNP	G	A	A			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:139164022G>A	uc003yuy.2	-	13	2867	c.2696C>T	c.(2695-2697)GCA>GTA	p.A899V	FAM135B_uc003yux.2_Missense_Mutation_p.A800V|FAM135B_uc003yuz.2_RNA|FAM135B_uc003yva.2_Missense_Mutation_p.A461V|FAM135B_uc003yvb.2_Missense_Mutation_p.A461V	NM_015912	NP_056996	Q49AJ0	F135B_HUMAN	hypothetical protein LOC51059	899										ovary(7)|skin(2)	9	all_epithelial(106;8.29e-14)|Lung NSC(106;6.88e-06)|all_lung(105;1.44e-05)|Ovarian(258;0.00672)|Acute lymphoblastic leukemia(118;0.155)		BRCA - Breast invasive adenocarcinoma(115;0.0805)			TTCCTCAAGTGCTCTATGAAG	0.463										HNSCC(54;0.14)			95	67	---	---	---	---	PASS
FAM135B	51059	broad.mit.edu	37	8	139277998	139277998	+	Missense_Mutation	SNP	G	C	C			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:139277998G>C	uc003yuy.2	-	4	416	c.245C>G	c.(244-246)CCC>CGC	p.P82R	FAM135B_uc003yux.2_5'UTR|FAM135B_uc003yuz.2_RNA	NM_015912	NP_056996	Q49AJ0	F135B_HUMAN	hypothetical protein LOC51059	82										ovary(7)|skin(2)	9	all_epithelial(106;8.29e-14)|Lung NSC(106;6.88e-06)|all_lung(105;1.44e-05)|Ovarian(258;0.00672)|Acute lymphoblastic leukemia(118;0.155)		BRCA - Breast invasive adenocarcinoma(115;0.0805)			ATCATTTATGGGTACCTCTTC	0.488										HNSCC(54;0.14)			9	50	---	---	---	---	PASS
FAM135B	51059	broad.mit.edu	37	8	139323156	139323156	+	Missense_Mutation	SNP	G	T	T			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:139323156G>T	uc003yuy.2	-	3	256	c.85C>A	c.(85-87)CAG>AAG	p.Q29K	FAM135B_uc003yux.2_5'UTR|FAM135B_uc003yuz.2_RNA	NM_015912	NP_056996	Q49AJ0	F135B_HUMAN	hypothetical protein LOC51059	29										ovary(7)|skin(2)	9	all_epithelial(106;8.29e-14)|Lung NSC(106;6.88e-06)|all_lung(105;1.44e-05)|Ovarian(258;0.00672)|Acute lymphoblastic leukemia(118;0.155)		BRCA - Breast invasive adenocarcinoma(115;0.0805)			ACTCGGATCTGGTAATACCTA	0.473										HNSCC(54;0.14)			6	75	---	---	---	---	PASS
ZNF16	7564	broad.mit.edu	37	8	146156985	146156985	+	Silent	SNP	C	T	T			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:146156985C>T	uc003zet.2	-	4	1375	c.1188G>A	c.(1186-1188)CAG>CAA	p.Q396Q	ZNF16_uc003zeu.2_Silent_p.Q396Q	NM_001029976	NP_001025147	P17020	ZNF16_HUMAN	zinc finger protein 16	396	C2H2-type 7.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(5)	5	all_cancers(97;8.72e-12)|all_epithelial(106;1.07e-10)|Lung NSC(106;7.18e-05)|all_lung(105;0.00021)|Ovarian(258;0.0173)|Acute lymphoblastic leukemia(118;0.155)	Acute lymphoblastic leukemia(644;0.136)	Epithelial(56;3.45e-38)|all cancers(56;3.04e-33)|BRCA - Breast invasive adenocarcinoma(115;0.0424)|Colorectal(110;0.055)	GBM - Glioblastoma multiforme(99;0.02)|KIRC - Kidney renal clear cell carcinoma(644;0.0486)		TGTGGACCCTCTGGTGCTTCC	0.532													24	91	---	---	---	---	PASS
C9orf93	203238	broad.mit.edu	37	9	15744423	15744423	+	Missense_Mutation	SNP	G	T	T			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr9:15744423G>T	uc003zmd.2	+	17	2517	c.2202G>T	c.(2200-2202)ATG>ATT	p.M734I	C9orf93_uc010mih.1_Missense_Mutation_p.M742I|C9orf93_uc003zme.2_Missense_Mutation_p.M649I|C9orf93_uc011lmu.1_Missense_Mutation_p.M742I|C9orf93_uc003zmf.1_Missense_Mutation_p.M42I	NM_173550	NP_775821	Q6TFL3	CI093_HUMAN	hypothetical protein LOC203238	734											0				GBM - Glioblastoma multiforme(50;4.84e-07)		GTGCATTAATGGCTGGTGCCT	0.453													4	33	---	---	---	---	PASS
TAF1L	138474	broad.mit.edu	37	9	32630224	32630224	+	Missense_Mutation	SNP	G	T	T			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr9:32630224G>T	uc003zrg.1	-	1	5444	c.5354C>A	c.(5353-5355)CCT>CAT	p.P1785H		NM_153809	NP_722516	Q8IZX4	TAF1L_HUMAN	TBP-associated factor RNA polymerase 1-like	1785					male meiosis|positive regulation of transcription, DNA-dependent|regulation of transcription from RNA polymerase II promoter|transcription initiation, DNA-dependent	transcription factor TFIID complex	DNA binding|histone acetyltransferase activity|protein serine/threonine kinase activity|TBP-class protein binding			lung(8)|skin(6)|central_nervous_system(4)|large_intestine(3)|ovary(2)|stomach(1)|breast(1)|pancreas(1)	26			LUSC - Lung squamous cell carcinoma(29;0.0181)	GBM - Glioblastoma multiforme(74;0.00301)		AGCAGAGAAAGGATTGTCTCC	0.458													6	82	---	---	---	---	PASS
CCIN	881	broad.mit.edu	37	9	36169849	36169849	+	Missense_Mutation	SNP	G	T	T			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr9:36169849G>T	uc003zzb.3	+	1	461	c.350G>T	c.(349-351)CGA>CTA	p.R117L		NM_005893	NP_005884	Q13939	CALI_HUMAN	calicin	117	BTB.				cell differentiation|multicellular organismal development|spermatogenesis	cytoskeletal calyx	structural constituent of cytoskeleton			ovary(1)|skin(1)	2			STAD - Stomach adenocarcinoma(86;0.228)			CCACGCCTTCGAGTTCACTGT	0.507													4	63	---	---	---	---	PASS
TRPM3	80036	broad.mit.edu	37	9	73151043	73151043	+	Silent	SNP	G	T	T			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr9:73151043G>T	uc004aid.2	-	25	5194	c.4950C>A	c.(4948-4950)ACC>ACA	p.T1650T	TRPM3_uc004ahu.2_Silent_p.T1492T|TRPM3_uc004ahv.2_Silent_p.T1452T|TRPM3_uc004ahw.2_Silent_p.T1522T|TRPM3_uc004ahx.2_Silent_p.T1509T|TRPM3_uc004ahy.2_Silent_p.T1512T|TRPM3_uc004ahz.2_Silent_p.T1499T|TRPM3_uc004aia.2_Silent_p.T1497T|TRPM3_uc004aib.2_Silent_p.T1487T|TRPM3_uc004aic.2_Intron	NM_001007471	NP_001007472	Q9HCF6	TRPM3_HUMAN	transient receptor potential cation channel,	1675	Cytoplasmic (Potential).					integral to membrane	calcium channel activity			ovary(3)|pancreas(2)|central_nervous_system(2)|skin(2)	9						AGCTCTTCCTGGTGTGTGCAT	0.552													9	217	---	---	---	---	PASS
TRPM6	140803	broad.mit.edu	37	9	77377583	77377583	+	Missense_Mutation	SNP	C	A	A	rs147802849		TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr9:77377583C>A	uc004ajl.1	-	26	4242	c.4004G>T	c.(4003-4005)AGG>ATG	p.R1335M	TRPM6_uc004ajk.1_Missense_Mutation_p.R1330M|TRPM6_uc010mpb.1_RNA|TRPM6_uc010mpc.1_Intron|TRPM6_uc010mpd.1_Intron|TRPM6_uc010mpe.1_Intron|TRPM6_uc004ajj.1_Missense_Mutation_p.R291M	NM_017662	NP_060132	Q9BX84	TRPM6_HUMAN	transient receptor potential cation channel,	1335	Cytoplasmic (Potential).				response to toxin	integral to membrane	ATP binding|calcium channel activity|metal ion binding|protein binding|protein serine/threonine kinase activity			lung(3)|stomach(2)|haematopoietic_and_lymphoid_tissue(1)|central_nervous_system(1)|skin(1)	8						GTGTGCTTGCCTGTTAGGAGA	0.438													70	59	---	---	---	---	PASS
FAM22G	441457	broad.mit.edu	37	9	99699593	99699593	+	Silent	SNP	G	A	A			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr9:99699593G>A	uc004awq.1	+	5	1945	c.1230G>A	c.(1228-1230)GTG>GTA	p.V410V	HIATL2_uc004awr.1_Intron	NM_001045477	NP_001038942	Q5VZR2	FA22G_HUMAN	hypothetical protein LOC441457	410										skin(1)	1		Acute lymphoblastic leukemia(62;0.0527)				AGGGCAAAGTGGAGCAGCCGC	0.592													15	20	---	---	---	---	PASS
SLC31A1	1317	broad.mit.edu	37	9	116021055	116021055	+	Missense_Mutation	SNP	G	T	T			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr9:116021055G>T	uc004bgu.2	+	4	470	c.284G>T	c.(283-285)CGT>CTT	p.R95L	FKBP15_uc010muu.1_Intron|SLC31A1_uc004bgv.3_Missense_Mutation_p.R95L	NM_001859	NP_001850	O15431	COPT1_HUMAN	solute carrier family 31 (copper transporters),	95	Cytoplasmic (Potential).					integral to plasma membrane	copper ion transmembrane transporter activity				0						AGCCTGCTGCGTAAGTCACAA	0.448													4	49	---	---	---	---	PASS
TLR4	7099	broad.mit.edu	37	9	120475065	120475065	+	Missense_Mutation	SNP	C	A	A			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr9:120475065C>A	uc004bjz.2	+	3	950	c.659C>A	c.(658-660)CCA>CAA	p.P220Q	TLR4_uc004bka.2_Missense_Mutation_p.P180Q|TLR4_uc004bkb.2_Missense_Mutation_p.P20Q	NM_138554	NP_612564	O00206	TLR4_HUMAN	toll-like receptor 4 precursor	220	LRR 7.|Extracellular (Potential).				activation of MAPK activity|cellular response to mechanical stimulus|detection of fungus|detection of lipopolysaccharide|I-kappaB phosphorylation|innate immune response|intestinal epithelial structure maintenance|MyD88-dependent toll-like receptor signaling pathway|MyD88-independent toll-like receptor signaling pathway|negative regulation of ERK1 and ERK2 cascade|negative regulation of interferon-gamma production|negative regulation of interleukin-17 production|negative regulation of interleukin-23 production|negative regulation of interleukin-6 production|negative regulation of osteoclast differentiation|negative regulation of tumor necrosis factor production|positive regulation of chemokine production|positive regulation of interferon-alpha production|positive regulation of interferon-beta production|positive regulation of interferon-gamma production|positive regulation of interleukin-1 production|positive regulation of interleukin-10 production|positive regulation of interleukin-12 biosynthetic process|positive regulation of interleukin-12 production|positive regulation of interleukin-6 production|positive regulation of interleukin-8 biosynthetic process|positive regulation of interleukin-8 production|positive regulation of NF-kappaB import into nucleus|positive regulation of NF-kappaB transcription factor activity|positive regulation of nitric-oxide synthase biosynthetic process|positive regulation of platelet activation|positive regulation of transcription from RNA polymerase II promoter|positive regulation of tumor necrosis factor biosynthetic process|positive regulation of tumor necrosis factor production|T-helper 1 type immune response|Toll signaling pathway|toll-like receptor 1 signaling pathway|toll-like receptor 2 signaling pathway|toll-like receptor 4 signaling pathway	external side of plasma membrane|integral to plasma membrane|lipopolysaccharide receptor complex|perinuclear region of cytoplasm	lipopolysaccharide receptor activity|transmembrane receptor activity			lung(10)|ovary(4)|breast(1)|skin(1)	16						TTTATCCAACCAGGTGCATTT	0.353													19	19	---	---	---	---	PASS
OR1L3	26735	broad.mit.edu	37	9	125437632	125437632	+	Missense_Mutation	SNP	C	G	G			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr9:125437632C>G	uc011lzb.1	+	1	224	c.224C>G	c.(223-225)ACA>AGA	p.T75R		NM_001005234	NP_001005234	Q8NH93	OR1L3_HUMAN	olfactory receptor, family 1, subfamily L,	75	Helical; Name=2; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			skin(1)	1						TGCTACACAACAGTCATAGTC	0.398													30	79	---	---	---	---	PASS
LCN1	3933	broad.mit.edu	37	9	138416976	138416976	+	Splice_Site	SNP	A	G	G			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr9:138416976A>G	uc004cfz.1	+	6	564	c.506_splice	c.e6-2	p.E169_splice	LCN1_uc004cga.1_Splice_Site_p.E169_splice	NM_002297	NP_002288	P31025	LCN1_HUMAN	lipocalin 1 precursor						proteolysis|response to stimulus|sensory perception of taste	extracellular region	cysteine-type endopeptidase inhibitor activity|transporter activity				0		Myeloproliferative disorder(178;0.0511)		OV - Ovarian serous cystadenocarcinoma(145;1.54e-08)|Epithelial(140;5.25e-08)|all cancers(34;9.27e-07)|READ - Rectum adenocarcinoma(205;0.155)		CTTTTCCTGCAGAAACCTGCT	0.567													22	25	---	---	---	---	PASS
GTPBP4	23560	broad.mit.edu	37	10	1043236	1043236	+	Missense_Mutation	SNP	C	A	A			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:1043236C>A	uc001ift.2	+	5	620	c.549C>A	c.(547-549)AGC>AGA	p.S183R	GTPBP4_uc010qac.1_5'UTR|GTPBP4_uc001ifu.2_RNA|GTPBP4_uc010qad.1_Missense_Mutation_p.S67R|GTPBP4_uc010qae.1_Missense_Mutation_p.S136R	NM_012341	NP_036473	Q9BZE4	NOG1_HUMAN	G protein-binding protein CRFG	183					negative regulation of cell migration|negative regulation of cell proliferation|negative regulation of cell-cell adhesion|negative regulation of collagen binding|negative regulation of DNA replication|negative regulation of protein ubiquitination|protein stabilization|regulation of cyclin-dependent protein kinase activity|ribosome biogenesis	nucleolus|perinuclear region of cytoplasm	GTP binding|GTPase activity|protein binding			ovary(1)|skin(1)	2		all_epithelial(10;0.107)|Colorectal(49;0.14)	OV - Ovarian serous cystadenocarcinoma(33;0.0814)	Epithelial(11;0.0513)|all cancers(11;0.135)|OV - Ovarian serous cystadenocarcinoma(14;0.173)		GGAAGTCCAGCTTCATCAACA	0.458													24	74	---	---	---	---	PASS
SVIL	6840	broad.mit.edu	37	10	29812458	29812458	+	Missense_Mutation	SNP	A	C	C			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:29812458A>C	uc001iut.1	-	15	3838	c.3085T>G	c.(3085-3087)TTG>GTG	p.L1029V	SVIL_uc010qdw.1_5'Flank|SVIL_uc001iuu.1_Missense_Mutation_p.L603V	NM_021738	NP_068506	O95425	SVIL_HUMAN	supervillin isoform 2	1029					cytoskeleton organization|skeletal muscle tissue development	cell junction|costamere|invadopodium|nucleus|podosome	actin filament binding			ovary(5)|upper_aerodigestive_tract(1)	6		Breast(68;0.103)				CTCAAGTCCAAGTTTCCTTGT	0.498													14	19	---	---	---	---	PASS
ZNF239	8187	broad.mit.edu	37	10	44052891	44052891	+	Missense_Mutation	SNP	C	A	A			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:44052891C>A	uc001jaw.3	-	2	1290	c.637G>T	c.(637-639)GGT>TGT	p.G213C	ZNF239_uc001jax.3_Missense_Mutation_p.G213C|ZNF239_uc009xmj.2_Missense_Mutation_p.G213C|ZNF239_uc009xmk.2_Missense_Mutation_p.G213C	NM_005674	NP_005665	Q16600	ZN239_HUMAN	zinc finger protein 239	213	C2H2-type 1.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|RNA binding|zinc ion binding				0						AAGTTCTTACCACACTGACTA	0.423													5	48	---	---	---	---	PASS
LRRC20	55222	broad.mit.edu	37	10	72061170	72061170	+	Silent	SNP	C	T	T	rs149319681		TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:72061170C>T	uc001jqx.1	-	5	717	c.495G>A	c.(493-495)CCG>CCA	p.P165P	LRRC20_uc001jqy.1_Silent_p.P109P|LRRC20_uc001jqz.1_Silent_p.P115P	NM_207119	NP_997002	Q8TCA0	LRC20_HUMAN	leucine rich repeat containing 20 isoform 1	165	LRR 5.										0						TGATGAGCGGCGGGGCGATCA	0.632													34	15	---	---	---	---	PASS
PTEN	5728	broad.mit.edu	37	10	89717678	89717678	+	Nonsense_Mutation	SNP	G	T	T			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:89717678G>T	uc001kfb.2	+	8	1734	c.703G>T	c.(703-705)GAA>TAA	p.E235*		NM_000314	NP_000305	P60484	PTEN_HUMAN	phosphatase and tensin homolog	235	C2 tensin-type.				activation of mitotic anaphase-promoting complex activity|apoptosis|canonical Wnt receptor signaling pathway|cell proliferation|central nervous system development|induction of apoptosis|inositol phosphate dephosphorylation|negative regulation of cell migration|negative regulation of cyclin-dependent protein kinase activity involved in G1/S|negative regulation of focal adhesion assembly|negative regulation of G1/S transition of mitotic cell cycle|negative regulation of protein kinase B signaling cascade|negative regulation of protein phosphorylation|nerve growth factor receptor signaling pathway|phosphatidylinositol dephosphorylation|phosphatidylinositol-mediated signaling|positive regulation of protein ubiquitination involved in ubiquitin-dependent protein catabolic process|positive regulation of sequence-specific DNA binding transcription factor activity|protein stabilization|regulation of neuron projection development|T cell receptor signaling pathway	cytosol|internal side of plasma membrane|PML body	anaphase-promoting complex binding|enzyme binding|inositol-1,3,4,5-tetrakisphosphate 3-phosphatase activity|lipid binding|magnesium ion binding|PDZ domain binding|phosphatidylinositol-3,4,5-trisphosphate 3-phosphatase activity|phosphatidylinositol-3,4-bisphosphate 3-phosphatase activity|phosphatidylinositol-3-phosphatase activity|protein serine/threonine phosphatase activity|protein tyrosine phosphatase activity|protein tyrosine/serine/threonine phosphatase activity	p.E235*(4)|p.R55fs*1(4)|p.N212fs*1(2)|p.Y27fs*1(2)|p.G165_*404del(1)|p.?(1)|p.E235fs*9(1)|p.G165_K342del(1)|p.E235fs*25(1)|p.E235G(1)|p.R234fs*9(1)|p.R233fs*20(1)		endometrium(831)|central_nervous_system(657)|skin(121)|haematopoietic_and_lymphoid_tissue(101)|large_intestine(99)|prostate(97)|breast(73)|lung(65)|ovary(58)|thyroid(29)|stomach(29)|upper_aerodigestive_tract(25)|cervix(24)|liver(20)|vulva(17)|kidney(15)|NS(14)|soft_tissue(13)|urinary_tract(12)|eye(8)|pancreas(6)|salivary_gland(5)|bone(5)|biliary_tract(4)|autonomic_ganglia(2)|meninges(2)|testis(1)|oesophagus(1)	2334		all_cancers(4;3.61e-31)|all_epithelial(4;3.96e-23)|Prostate(4;8.12e-23)|Breast(4;0.000111)|Melanoma(5;0.00146)|all_hematologic(4;0.00227)|Colorectal(252;0.00494)|all_neural(4;0.00513)|Acute lymphoblastic leukemia(4;0.0116)|Glioma(4;0.0274)|all_lung(38;0.132)	KIRC - Kidney renal clear cell carcinoma(1;0.214)	UCEC - Uterine corpus endometrioid carcinoma (6;0.000228)|all cancers(1;4.16e-84)|GBM - Glioblastoma multiforme(1;7.77e-49)|Epithelial(1;7.67e-41)|OV - Ovarian serous cystadenocarcinoma(1;6.22e-15)|BRCA - Breast invasive adenocarcinoma(1;1.1e-06)|Lung(2;3.18e-06)|Colorectal(12;4.88e-06)|LUSC - Lung squamous cell carcinoma(2;4.97e-06)|COAD - Colon adenocarcinoma(12;1.13e-05)|Kidney(1;0.000288)|KIRC - Kidney renal clear cell carcinoma(1;0.00037)|STAD - Stomach adenocarcinoma(243;0.218)		CACACGACGGGAAGACAAGTT	0.418		31	D|Mis|N|F|S		glioma| prostate|endometrial	harmartoma|glioma| prostate|endometrial			Proteus_syndrome|Cowden_syndrome|Juvenile_Polyposis|Hereditary_Mixed_Polyposis_Syndrome_type_1|Bannayan-Riley-Ruvalcaba_syndrome	HNSCC(9;0.0022)|TCGA GBM(2;<1E-08)|TSP Lung(26;0.18)			36	24	---	---	---	---	PASS
IFIT3	3437	broad.mit.edu	37	10	91099511	91099511	+	Missense_Mutation	SNP	C	A	A			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:91099511C>A	uc001kgf.2	+	2	1328	c.1099C>A	c.(1099-1101)CTT>ATT	p.L367I	LIPA_uc001kgb.3_Intron|LIPA_uc001kgc.3_Intron|uc001kgd.2_Intron|IFIT3_uc001kgg.2_Missense_Mutation_p.L367I	NM_001549	NP_001540	O14879	IFIT3_HUMAN	interferon-induced protein with	367					type I interferon-mediated signaling pathway		protein binding			central_nervous_system(1)	1						CTACTGCAACCTTCAGAAATA	0.433													71	31	---	---	---	---	PASS
KIF20B	9585	broad.mit.edu	37	10	91486250	91486250	+	Silent	SNP	C	A	A			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:91486250C>A	uc001kgs.1	+	16	2274	c.2202C>A	c.(2200-2202)ACC>ACA	p.T734T	KIF20B_uc001kgr.1_Silent_p.T694T|KIF20B_uc001kgt.1_5'UTR	NM_016195	NP_057279	Q96Q89	KI20B_HUMAN	M-phase phosphoprotein 1	734	Potential.				cell cycle arrest|cell division|microtubule-based movement|mitosis|regulation of mitosis	centrosome|microtubule|nucleolus|nucleoplasm|spindle	ATP binding|ATPase activity|microtubule motor activity|WW domain binding			ovary(1)|pancreas(1)|skin(1)	3						TAATCAAAACCAAAGAAGAGT	0.303													4	22	---	---	---	---	PASS
SEC31B	25956	broad.mit.edu	37	10	102262016	102262016	+	Missense_Mutation	SNP	G	T	T			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:102262016G>T	uc001krc.1	-	11	1507	c.1405C>A	c.(1405-1407)CTG>ATG	p.L469M	SEC31B_uc010qpo.1_Missense_Mutation_p.L468M|SEC31B_uc001krd.1_Translation_Start_Site|SEC31B_uc001krf.1_Translation_Start_Site|SEC31B_uc001kre.1_Translation_Start_Site|SEC31B_uc001krg.1_Missense_Mutation_p.L38M	NM_015490	NP_056305	Q9NQW1	SC31B_HUMAN	SEC31 homolog B	469					protein transport|vesicle-mediated transport	endoplasmic reticulum membrane|ER to Golgi transport vesicle membrane				ovary(1)	1		Colorectal(252;0.117)		Epithelial(162;2.36e-10)|all cancers(201;2.09e-08)		CCCACCTTCAGGAACTGCCAC	0.512													7	140	---	---	---	---	PASS
SFXN2	118980	broad.mit.edu	37	10	104491932	104491932	+	Silent	SNP	C	A	A	rs139737561	byFrequency	TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:104491932C>A	uc001kwb.2	+	8	844	c.678C>A	c.(676-678)ACC>ACA	p.T226T	SFXN2_uc001kwc.2_Intron|SFXN2_uc001kwd.2_Intron	NM_178858	NP_849189	Q96NB2	SFXN2_HUMAN	sideroflexin 2	226					iron ion homeostasis	integral to membrane	cation transmembrane transporter activity				0		Colorectal(252;0.207)		Epithelial(162;4.53e-09)|all cancers(201;1.2e-07)|BRCA - Breast invasive adenocarcinoma(275;0.218)		TAGGCATCACCCAAGTAGTTA	0.532													6	92	---	---	---	---	PASS
CNNM2	54805	broad.mit.edu	37	10	104679115	104679115	+	Missense_Mutation	SNP	G	T	T			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:104679115G>T	uc001kwm.2	+	1	1002	c.878G>T	c.(877-879)TGC>TTC	p.C293F	CNNM2_uc001kwn.2_Missense_Mutation_p.C293F|CNNM2_uc001kwl.2_Missense_Mutation_p.C293F	NM_017649	NP_060119	Q9H8M5	CNNM2_HUMAN	cyclin M2 isoform 1	293	DUF21.				ion transport	integral to membrane				ovary(1)|central_nervous_system(1)	2		Colorectal(252;0.103)|all_hematologic(284;0.152)|Breast(234;0.198)		Epithelial(162;7.89e-09)|all cancers(201;1.82e-07)|BRCA - Breast invasive adenocarcinoma(275;0.215)		GTGCAGAACTGCGGCACGGAG	0.622													26	17	---	---	---	---	PASS
C10orf79	80217	broad.mit.edu	37	10	105903234	105903234	+	Missense_Mutation	SNP	A	C	C			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:105903234A>C	uc001kxw.2	-	32	4224	c.4108T>G	c.(4108-4110)TGG>GGG	p.W1370G	C10orf79_uc009xxq.2_Missense_Mutation_p.W649G	NM_025145	NP_079421	Q8NDM7	WDR96_HUMAN	hypothetical protein LOC80217	1370											0		Colorectal(252;0.178)		Epithelial(162;4.83e-10)|all cancers(201;2.26e-08)|BRCA - Breast invasive adenocarcinoma(275;0.0194)		AAATGATTCCAGACCAAAGGG	0.343													11	33	---	---	---	---	PASS
CCDC147	159686	broad.mit.edu	37	10	106152087	106152087	+	Missense_Mutation	SNP	C	G	G			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:106152087C>G	uc001kyh.2	+	10	1596	c.1462C>G	c.(1462-1464)CAG>GAG	p.Q488E		NM_001008723	NP_001008723	Q5T655	CC147_HUMAN	coiled-coil domain containing 147	488	Potential.									ovary(2)|central_nervous_system(2)|skin(1)	5		Colorectal(252;0.103)|Breast(234;0.122)		Epithelial(162;7.55e-10)|all cancers(201;3.37e-08)|BRCA - Breast invasive adenocarcinoma(275;0.0189)		AAAACAGCAACAGAACCTATA	0.323													10	82	---	---	---	---	PASS
AFAP1L2	84632	broad.mit.edu	37	10	116075338	116075338	+	Missense_Mutation	SNP	A	G	G			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:116075338A>G	uc001lbn.2	-	6	894	c.593T>C	c.(592-594)ATC>ACC	p.I198T	AFAP1L2_uc001lbo.2_Missense_Mutation_p.I198T|AFAP1L2_uc010qse.1_Missense_Mutation_p.I251T|AFAP1L2_uc001lbp.2_Missense_Mutation_p.I226T|AFAP1L2_uc001lbr.1_Missense_Mutation_p.I198T	NM_001001936	NP_001001936	Q8N4X5	AF1L2_HUMAN	KIAA1914 protein isoform 1	198	PH 1.				inflammatory response|positive regulation of epidermal growth factor receptor signaling pathway|positive regulation of interleukin-8 production|positive regulation of transcription, DNA-dependent|regulation of interleukin-6 production|regulation of mitotic cell cycle	cytoplasm	protein tyrosine kinase activator activity|SH2 domain binding|SH3 domain binding			ovary(1)|breast(1)	2		Colorectal(252;0.175)|Breast(234;0.231)		Epithelial(162;0.0219)|all cancers(201;0.0561)		GTTGTCCTTGATGACACAGAG	0.632													5	31	---	---	---	---	PASS
FOXI2	399823	broad.mit.edu	37	10	129537185	129537185	+	Missense_Mutation	SNP	C	G	G			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:129537185C>G	uc009yas.2	+	2	913	c.913C>G	c.(913-915)CGC>GGC	p.R305G	uc009yar.1_5'Flank	NM_207426	NP_997309	Q6ZQN5	FOXI2_HUMAN	forkhead box I2	305					epidermal cell fate specification|otic placode formation|pattern specification process|regulation of sequence-specific DNA binding transcription factor activity	transcription factor complex	DNA bending activity|double-stranded DNA binding|promoter binding|sequence-specific DNA binding|sequence-specific enhancer binding RNA polymerase II transcription factor activity|specific RNA polymerase II transcription factor activity|specific transcriptional repressor activity|transcription activator activity|transcription factor binding				0		all_epithelial(44;0.0021)|all_lung(145;0.0586)|Lung NSC(174;0.0765)|all_neural(114;0.201)|Glioma(114;0.222)				CGCCGGCTTCCGCCTCAGTCA	0.697													3	1	---	---	---	---	PASS
JAKMIP3	282973	broad.mit.edu	37	10	133976837	133976837	+	Missense_Mutation	SNP	G	T	T			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:133976837G>T	uc001lkx.3	+	19	2339	c.2339G>T	c.(2338-2340)CGC>CTC	p.R780L	JAKMIP3_uc009yba.1_Missense_Mutation_p.R217L	NM_001105521	NP_001098991			Janus kinase and microtubule interacting protein											breast(1)	1		all_cancers(35;5.63e-09)|all_epithelial(44;9.25e-07)|Lung NSC(174;0.0108)|all_lung(145;0.0173)|Colorectal(31;0.0721)|all_neural(114;0.0726)|Breast(234;0.0949)|Glioma(114;0.172)|Melanoma(40;0.175)		OV - Ovarian serous cystadenocarcinoma(35;0.000104)|Epithelial(32;0.000142)|all cancers(32;0.000185)|BRCA - Breast invasive adenocarcinoma(275;0.224)		CAGTGGAAGCGCCAGGTCATG	0.672													3	10	---	---	---	---	PASS
SYT9	143425	broad.mit.edu	37	11	7324382	7324382	+	Silent	SNP	C	T	T			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:7324382C>T	uc001mfe.2	+	2	495	c.258C>T	c.(256-258)GGC>GGT	p.G86G	SYT9_uc001mfd.2_RNA|SYT9_uc009yfi.2_RNA	NM_175733	NP_783860	Q86SS6	SYT9_HUMAN	synaptotagmin IX	86	Cytoplasmic (Potential).					cell junction|integral to membrane|synaptic vesicle membrane	metal ion binding|transporter activity			ovary(2)|large_intestine(1)	3				Epithelial(150;1.34e-07)|LUSC - Lung squamous cell carcinoma(625;0.0949)		GAGAACGAGGCCTGCCCTCTG	0.552													19	65	---	---	---	---	PASS
OR5P2	120065	broad.mit.edu	37	11	7818198	7818198	+	Missense_Mutation	SNP	C	A	A			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:7818198C>A	uc001mfp.1	-	1	292	c.292G>T	c.(292-294)GGT>TGT	p.G98C		NM_153444	NP_703145	Q8WZ92	OR5P2_HUMAN	olfactory receptor, family 5, subfamily P,	98	Helical; Name=3; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(2)|skin(2)|central_nervous_system(1)	5				Epithelial(150;8.62e-08)|BRCA - Breast invasive adenocarcinoma(625;0.189)		GCCGCTGAACCAAGCTGGATG	0.488													18	92	---	---	---	---	PASS
ST5	6764	broad.mit.edu	37	11	8737260	8737260	+	Silent	SNP	G	A	A			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:8737260G>A	uc001mgt.2	-	6	1921	c.1735C>T	c.(1735-1737)CTG>TTG	p.L579L	ST5_uc009yfr.2_Silent_p.L159L|ST5_uc001mgu.2_Silent_p.L159L|ST5_uc001mgv.2_Silent_p.L579L|ST5_uc010rbq.1_RNA|ST5_uc010rbp.1_Silent_p.L92L	NM_213618	NP_998783	P78524	ST5_HUMAN	suppression of tumorigenicity 5 isoform 1	579					positive regulation of ERK1 and ERK2 cascade		protein binding			upper_aerodigestive_tract(1)	1				Epithelial(150;2.63e-07)|BRCA - Breast invasive adenocarcinoma(625;0.0352)		GCCAGCAGCAGCATGTCGTCA	0.637													13	19	---	---	---	---	PASS
MRVI1	10335	broad.mit.edu	37	11	10651189	10651189	+	Missense_Mutation	SNP	T	C	C			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:10651189T>C	uc010rcc.1	-	5	856	c.470A>G	c.(469-471)AAG>AGG	p.K157R	MRVI1_uc001miw.2_Missense_Mutation_p.K148R|MRVI1_uc010rcb.1_Missense_Mutation_p.K148R|MRVI1_uc009ygb.1_5'UTR|MRVI1_uc001mix.2_5'UTR|MRVI1_uc001miz.2_Missense_Mutation_p.K66R|MRVI1_uc009ygc.1_Missense_Mutation_p.K66R|MRVI1_uc010rcd.1_Missense_Mutation_p.K157R|MRVI1_uc009ygd.1_5'UTR|MRVI1_uc010rce.1_RNA	NM_001100167	NP_001093637	Q9Y6F6	MRVI1_HUMAN	JAW1-related protein isoform c	148	Interaction with PRKG1 (By similarity).				platelet activation	endoplasmic reticulum membrane|integral to membrane|perinuclear region of cytoplasm|platelet dense tubular network membrane|sarcoplasmic reticulum				ovary(2)|central_nervous_system(1)	3				all cancers(16;2.68e-07)|Epithelial(150;3.04e-07)|BRCA - Breast invasive adenocarcinoma(625;0.0723)		GTTTTTCTTCTTGTCCTCCTC	0.597													4	13	---	---	---	---	PASS
ABCC8	6833	broad.mit.edu	37	11	17415307	17415307	+	Splice_Site	SNP	C	A	A			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:17415307C>A	uc001mnc.2	-	38	4672	c.4546_splice	c.e38-1	p.E1516_splice		NM_000352	NP_000343	Q09428	ABCC8_HUMAN	ATP-binding cassette, sub-family C, member 8						carbohydrate metabolic process|energy reserve metabolic process	integral to membrane	ATP binding|ATPase activity, coupled to transmembrane movement of substances|potassium ion transmembrane transporter activity|sulfonylurea receptor activity			ovary(1)	1				READ - Rectum adenocarcinoma(2;0.0325)|Colorectal(2;0.1)	Adenosine triphosphate(DB00171)|Glibenclamide(DB01016)|Gliclazide(DB01120)|Mitiglinide(DB01252)|Nateglinide(DB00731)|Repaglinide(DB00912)	GGATGTTTTCCTGCCAAGTGG	0.617													25	48	---	---	---	---	PASS
ABCC8	6833	broad.mit.edu	37	11	17415308	17415308	+	Splice_Site	SNP	T	A	A			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:17415308T>A	uc001mnc.2	-	38	4672	c.4546_splice	c.e38-1	p.E1516_splice		NM_000352	NP_000343	Q09428	ABCC8_HUMAN	ATP-binding cassette, sub-family C, member 8						carbohydrate metabolic process|energy reserve metabolic process	integral to membrane	ATP binding|ATPase activity, coupled to transmembrane movement of substances|potassium ion transmembrane transporter activity|sulfonylurea receptor activity			ovary(1)	1				READ - Rectum adenocarcinoma(2;0.0325)|Colorectal(2;0.1)	Adenosine triphosphate(DB00171)|Glibenclamide(DB01016)|Gliclazide(DB01120)|Mitiglinide(DB01252)|Nateglinide(DB00731)|Repaglinide(DB00912)	GATGTTTTCCTGCCAAGTGGG	0.617													24	48	---	---	---	---	PASS
MYOD1	4654	broad.mit.edu	37	11	17741532	17741532	+	Missense_Mutation	SNP	C	A	A			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:17741532C>A	uc001mni.2	+	1	423	c.203C>A	c.(202-204)GCG>GAG	p.A68E		NM_002478	NP_002469	P15172	MYOD1_HUMAN	myogenic differentiation 1	68					muscle cell fate commitment|positive regulation of muscle cell differentiation|positive regulation of transcription from RNA polymerase II promoter|protein phosphorylation|skeletal muscle tissue development	nuclear chromatin|transcription factor complex	E-box binding|protein heterodimerization activity|sequence-specific enhancer binding RNA polymerase II transcription factor activity|transcription coactivator activity			breast(2)|ovary(1)	3						TTCCCCGCGGCGGTGCACCCG	0.721													3	3	---	---	---	---	PASS
TSG101	7251	broad.mit.edu	37	11	18536390	18536390	+	Splice_Site	SNP	T	G	G			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:18536390T>G	uc001mor.2	-	4	320	c.194_splice	c.e4-1	p.G65_splice	TSG101_uc001mos.1_Splice_Site_p.G13_splice|TSG101_uc009yhs.1_Intron	NM_006292	NP_006283	Q99816	TS101_HUMAN	tumor susceptibility gene 101						cell division|cellular membrane organization|endosome transport|interspecies interaction between organisms|non-lytic virus budding|protein transport|ubiquitin-dependent protein catabolic process via the multivesicular body sorting pathway	early endosome|late endosome membrane|multivesicular body|nucleolus|plasma membrane	calcium-dependent protein binding|DNA binding|transcription corepressor activity|ubiquitin binding|ubiquitin protein ligase binding				0						ATGTATTACCTGAAAAAGAAA	0.294													14	33	---	---	---	---	PASS
C11orf41	25758	broad.mit.edu	37	11	33564293	33564293	+	Missense_Mutation	SNP	G	T	T			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:33564293G>T	uc001mup.3	+	1	417	c.293G>T	c.(292-294)GGA>GTA	p.G98V	C11orf41_uc001mun.1_Missense_Mutation_p.G98V	NM_012194	NP_036326	Q6ZVL6	CK041_HUMAN	hypothetical protein LOC25758	98						integral to membrane				ovary(2)	2						GGGGTGCCTGGAAGAGTGCAC	0.527													12	18	---	---	---	---	PASS
CD44	960	broad.mit.edu	37	11	35227670	35227670	+	Missense_Mutation	SNP	C	T	T			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:35227670C>T	uc001mvu.2	+	11	1728	c.1294C>T	c.(1294-1296)CAT>TAT	p.H432Y	CD44_uc001mvv.2_Missense_Mutation_p.H389Y|CD44_uc001mvw.2_Intron|CD44_uc001mvx.2_Intron|CD44_uc001mvy.2_Intron|CD44_uc001mwc.3_Intron|CD44_uc010rer.1_Intron|CD44_uc009ykh.2_Intron|CD44_uc010res.1_5'UTR|CD44_uc010ret.1_Intron|CD44_uc010reu.1_Intron	NM_000610	NP_000601	P16070	CD44_HUMAN	CD44 antigen isoform 1 precursor	432	Extracellular (Potential).|Stem.				cell-cell adhesion|cell-matrix adhesion|interferon-gamma-mediated signaling pathway|negative regulation of apoptosis|negative regulation of DNA damage response, signal transduction by p53 class mediator|positive regulation of ERK1 and ERK2 cascade|positive regulation of peptidyl-serine phosphorylation|positive regulation of peptidyl-tyrosine phosphorylation	cell surface|Golgi apparatus|integral to plasma membrane	collagen binding|hyaluronic acid binding|receptor activity			pancreas(1)	1	all_cancers(35;0.212)|all_lung(20;0.0874)|all_epithelial(35;0.112)	all_hematologic(20;0.107)	STAD - Stomach adenocarcinoma(6;0.00731)		Hyaluronidase(DB00070)	AGCCTCAGCTCATACCAGCCA	0.458													11	37	---	---	---	---	PASS
LRP4	4038	broad.mit.edu	37	11	46905539	46905539	+	Intron	SNP	G	T	T			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:46905539G>T	uc001ndn.3	-							NM_002334	NP_002325	O75096	LRP4_HUMAN	low density lipoprotein receptor-related protein						endocytosis|negative regulation of canonical Wnt receptor signaling pathway|Wnt receptor signaling pathway	integral to membrane	calcium ion binding|receptor activity			skin(2)|upper_aerodigestive_tract(1)|ovary(1)	4				Lung(87;0.159)		TATCAAGAAGGGATACAGAGA	0.498													5	36	---	---	---	---	PASS
OR4B1	119765	broad.mit.edu	37	11	48238439	48238439	+	Missense_Mutation	SNP	T	A	A			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:48238439T>A	uc010rhs.1	+	1	78	c.78T>A	c.(76-78)TTT>TTA	p.F26L		NM_001005470	NP_001005470	Q8NGF8	OR4B1_HUMAN	olfactory receptor, family 4, subfamily B,	26	Helical; Name=1; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			skin(2)|ovary(1)|pancreas(1)	4						GTGTATGCTTTGTGGTGTTTC	0.498													9	56	---	---	---	---	PASS
OR4C13	283092	broad.mit.edu	37	11	49974618	49974618	+	Missense_Mutation	SNP	C	T	T			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:49974618C>T	uc010rhz.1	+	1	644	c.644C>T	c.(643-645)TCC>TTC	p.S215F		NM_001001955	NP_001001955	Q8NGP0	OR4CD_HUMAN	olfactory receptor, family 4, subfamily C,	215	Helical; Name=5; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			skin(3)|ovary(1)	4						CTCCTGGTCTCCTGCGTGGTC	0.488													21	30	---	---	---	---	PASS
OR4C6	219432	broad.mit.edu	37	11	55433437	55433437	+	Silent	SNP	A	T	T			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:55433437A>T	uc001nht.3	+	3	1060	c.795A>T	c.(793-795)ATA>ATT	p.I265I	OR4C6_uc010rik.1_Silent_p.I265I	NM_001004704	NP_001004704	Q8NH72	OR4C6_HUMAN	olfactory receptor, family 4, subfamily C,	265	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			skin(2)	2						CTCACCCCATAGACAAGGCAA	0.473													11	90	---	---	---	---	PASS
OR5L2	26338	broad.mit.edu	37	11	55595379	55595379	+	Missense_Mutation	SNP	C	T	T			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:55595379C>T	uc001nhy.1	+	1	685	c.685C>T	c.(685-687)CAC>TAC	p.H229Y		NM_001004739	NP_001004739	Q8NGL0	OR5L2_HUMAN	olfactory receptor, family 5, subfamily L,	229	Cytoplasmic (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)	1		all_epithelial(135;0.208)				CCTGAAGATACACTCTGCAGA	0.493										HNSCC(27;0.073)			28	42	---	---	---	---	PASS
OR5I1	10798	broad.mit.edu	37	11	55703717	55703717	+	Missense_Mutation	SNP	C	T	T			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:55703717C>T	uc010ris.1	-	1	160	c.160G>A	c.(160-162)GAT>AAT	p.D54N		NM_006637	NP_006628	Q13606	OR5I1_HUMAN	olfactory receptor, family 5, subfamily I,	54	Cytoplasmic (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)	1						AGGTGAGGATCAATCCTGATC	0.398													5	12	---	---	---	---	PASS
OR8I2	120586	broad.mit.edu	37	11	55861574	55861574	+	Missense_Mutation	SNP	C	T	T			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:55861574C>T	uc010rix.1	+	1	791	c.791C>T	c.(790-792)ACA>ATA	p.T264I		NM_001003750	NP_001003750	Q8N0Y5	OR8I2_HUMAN	olfactory receptor, family 8, subfamily I,	264	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			breast(1)	1	Esophageal squamous(21;0.00693)					CCTGATAACACATCATCGCTG	0.478													9	35	---	---	---	---	PASS
OR9G4	283189	broad.mit.edu	37	11	56510796	56510796	+	Silent	SNP	G	A	A			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:56510796G>A	uc010rjo.1	-	1	492	c.492C>T	c.(490-492)TAC>TAT	p.Y164Y		NM_001005284	NP_001005284	Q8NGQ1	OR9G4_HUMAN	olfactory receptor, family 9, subfamily G,	164	Helical; Name=4; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(2)|skin(1)	3						ATCCTCCTATGTAGGAGCCAG	0.463													37	50	---	---	---	---	PASS
OR5B2	390190	broad.mit.edu	37	11	58190505	58190505	+	Missense_Mutation	SNP	G	T	T			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:58190505G>T	uc010rkg.1	-	1	230	c.230C>A	c.(229-231)CCC>CAC	p.P77H		NM_001005566	NP_001005566	Q96R09	OR5B2_HUMAN	olfactory receptor, family 5, subfamily B,	77	Helical; Name=2; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(3)	3	Esophageal squamous(5;0.0027)	Breast(21;0.0778)				CATGACCTTGGGAGTGACAGC	0.488													6	78	---	---	---	---	PASS
OR4D11	219986	broad.mit.edu	37	11	59271511	59271511	+	Missense_Mutation	SNP	C	T	T			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:59271511C>T	uc001noa.1	+	1	463	c.463C>T	c.(463-465)CAC>TAC	p.H155Y		NM_001004706	NP_001004706	Q8NGI4	OR4DB_HUMAN	olfactory receptor, family 4, subfamily D,	155	Helical; Name=4; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)|skin(1)	2						GGGCTTTGTCCACTCCATCGT	0.547													30	61	---	---	---	---	PASS
MS4A6E	245802	broad.mit.edu	37	11	60102454	60102454	+	Missense_Mutation	SNP	C	A	A			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:60102454C>A	uc001npd.2	+	1	100	c.86C>A	c.(85-87)CCC>CAC	p.P29H		NM_139249	NP_640342	Q96DS6	M4A6E_HUMAN	membrane-spanning 4-domains, subfamily A, member	29	Cytoplasmic (Potential).					integral to membrane	receptor activity				0						AAACCCGAACCCACCAACCAG	0.453													9	86	---	---	---	---	PASS
PRPF19	27339	broad.mit.edu	37	11	60665636	60665636	+	Silent	SNP	G	C	C			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:60665636G>C	uc001nqf.2	-	14	1455	c.1248C>G	c.(1246-1248)GTC>GTG	p.V416V		NM_014502	NP_055317	Q9UMS4	PRP19_HUMAN	PRP19/PSO4 pre-mRNA processing factor 19	416	WD 5.				DNA repair|protein polyubiquitination|spliceosome assembly	catalytic step 2 spliceosome|nuclear speck|spindle|ubiquitin ligase complex	DNA binding|identical protein binding|ubiquitin-ubiquitin ligase activity			ovary(1)	1						CCCAGAGCTTGACAGAGGAGT	0.532													12	43	---	---	---	---	PASS
C11orf10	746	broad.mit.edu	37	11	61557389	61557389	+	Nonsense_Mutation	SNP	C	A	A			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:61557389C>A	uc001nsf.2	-	3	173	c.118G>T	c.(118-120)GAG>TAG	p.E40*	FEN1_uc001nsg.2_5'Flank	NM_014206	NP_055021	P61165	CK010_HUMAN	hypothetical protein LOC746	40						integral to membrane				breast(1)	1						GAGGTGACCTCGTAACTGGGC	0.527													4	36	---	---	---	---	PASS
MTA2	9219	broad.mit.edu	37	11	62361826	62361826	+	Silent	SNP	C	G	G			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:62361826C>G	uc001ntq.1	-	17	2127	c.1746G>C	c.(1744-1746)GGG>GGC	p.G582G	TUT1_uc001nto.2_5'Flank|MTA2_uc010rlx.1_Silent_p.G409G	NM_004739	NP_004730	O94776	MTA2_HUMAN	metastasis-associated protein 2	582					chromatin assembly or disassembly	NuRD complex	protein binding|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(1)|skin(1)	2						TTGAACGAATCCCTGAAGCCA	0.552													5	49	---	---	---	---	PASS
PYGM	5837	broad.mit.edu	37	11	64521495	64521495	+	Silent	SNP	C	A	A			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:64521495C>A	uc001oax.3	-	10	1912	c.1095G>T	c.(1093-1095)GCG>GCT	p.A365A	PYGM_uc001oay.3_Silent_p.A277A	NM_005609	NP_005600	P11217	PYGM_HUMAN	muscle glycogen phosphorylase isoform 1	365					glucose metabolic process|glycogen catabolic process	cytosol	glycogen phosphorylase activity|protein binding			ovary(2)	2					Pyridoxal Phosphate(DB00114)	TCACATCCCACGCCTGGCACA	0.672													4	4	---	---	---	---	PASS
TIGD3	220359	broad.mit.edu	37	11	65123451	65123451	+	Missense_Mutation	SNP	G	T	T			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:65123451G>T	uc001odo.3	+	2	335	c.172G>T	c.(172-174)GAC>TAC	p.D58Y		NM_145719	NP_663771	Q6B0B8	TIGD3_HUMAN	tigger transposable element derived 3	58					regulation of transcription, DNA-dependent	chromosome, centromeric region|nucleus	DNA binding				0						GCTGCTGGCGGACTGGTGCAG	0.627													13	69	---	---	---	---	PASS
MALAT1	378938	broad.mit.edu	37	11	65266496	65266496	+	RNA	SNP	C	T	T			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:65266496C>T	uc010roh.1	+	1		c.1264C>T				NR_002819				Homo sapiens clone alpha1 mRNA sequence.												0						TATAAATACGCCTCGCCCGAG	0.537													32	87	---	---	---	---	PASS
CTSF	8722	broad.mit.edu	37	11	66333159	66333159	+	Nonsense_Mutation	SNP	G	T	T			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:66333159G>T	uc001oip.2	-	8	1118	c.1028C>A	c.(1027-1029)TCG>TAG	p.S343*		NM_003793	NP_003784	Q9UBX1	CATF_HUMAN	cathepsin F precursor	343					proteolysis	lysosome	cysteine-type endopeptidase activity				0						CTTTATGGCCGAGTAGGCATT	0.542													6	118	---	---	---	---	PASS
SYT12	91683	broad.mit.edu	37	11	66807647	66807647	+	Silent	SNP	G	T	T			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:66807647G>T	uc009yrl.2	+	4	824	c.594G>T	c.(592-594)CCG>CCT	p.P198P	SYT12_uc001oju.2_Silent_p.P198P	NM_177963	NP_808878	Q8IV01	SYT12_HUMAN	synaptotagmin XII	198	C2 1.|Cytoplasmic (Potential).					cell junction|integral to membrane|synaptic vesicle membrane				ovary(1)	1						GCCTGCTGCCGGACGAGCAGA	0.662													4	19	---	---	---	---	PASS
LRP5	4041	broad.mit.edu	37	11	68190986	68190986	+	Silent	SNP	C	G	G			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:68190986C>G	uc001ont.2	+	14	3132	c.3057C>G	c.(3055-3057)GGC>GGG	p.G1019G	LRP5_uc009ysg.2_Silent_p.G429G	NM_002335	NP_002326	O75197	LRP5_HUMAN	low density lipoprotein receptor-related protein	1019	Beta-propeller 4.|LDL-receptor class B 16.|Extracellular (Potential).				adipose tissue development|bone marrow development|bone morphogenesis|canonical Wnt receptor signaling pathway|cholesterol homeostasis|endocytosis|glucose catabolic process|negative regulation of osteoblast differentiation|negative regulation of protein serine/threonine kinase activity|positive regulation of fat cell differentiation|positive regulation of mesenchymal cell proliferation|positive regulation of mitosis|positive regulation of transcription from RNA polymerase II promoter|regulation of blood pressure|regulation of canonical Wnt receptor signaling pathway|retina morphogenesis in camera-type eye|retinal blood vessel morphogenesis|Wnt receptor signaling pathway involved in dorsal/ventral axis specification	endoplasmic reticulum|integral to membrane|plasma membrane|receptor complex	protein binding|receptor activity			lung(2)|skin(2)|ovary(1)|pancreas(1)|breast(1)	7						TGAGCCAAGGCCAAAACCCAG	0.587													20	76	---	---	---	---	PASS
C2CD3	26005	broad.mit.edu	37	11	73834143	73834143	+	Missense_Mutation	SNP	C	A	A			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:73834143C>A	uc001ouu.2	-	8	1482	c.1255G>T	c.(1255-1257)GGC>TGC	p.G419C	C2CD3_uc001ouv.2_Missense_Mutation_p.G419C	NM_015531	NP_056346	Q4AC94	C2CD3_HUMAN	C2 calcium-dependent domain containing 3	419						centrosome				ovary(4)|pancreas(2)|skin(1)	7	Breast(11;4.16e-06)					GGAGGAGAGCCTAGCCCATCC	0.423													12	12	---	---	---	---	PASS
ODZ4	26011	broad.mit.edu	37	11	78413354	78413354	+	Missense_Mutation	SNP	T	C	C			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:78413354T>C	uc001ozl.3	-	28	4767	c.4304A>G	c.(4303-4305)AAC>AGC	p.N1435S	ODZ4_uc009yvb.1_Missense_Mutation_p.N19S	NM_001098816	NP_001092286	Q6N022	TEN4_HUMAN	odz, odd Oz/ten-m homolog 4	1435	Extracellular (Potential).|NHL 4.				signal transduction	integral to membrane				ovary(2)|pancreas(2)	4						CACCTGGTGGTTTTCAGAGAT	0.557													25	35	---	---	---	---	PASS
FAT3	120114	broad.mit.edu	37	11	92085865	92085865	+	Missense_Mutation	SNP	A	T	T			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:92085865A>T	uc001pdj.3	+	1	604	c.587A>T	c.(586-588)TAC>TTC	p.Y196F		NM_001008781	NP_001008781	Q8TDW7	FAT3_HUMAN	FAT tumor suppressor homolog 3	196	Cadherin 2.|Extracellular (Potential).				homophilic cell adhesion|multicellular organismal development	integral to membrane|plasma membrane	calcium ion binding			ovary(4)|pancreas(1)	5		Acute lymphoblastic leukemia(157;3.01e-05)|all_hematologic(158;0.00858)				TTCTACTACTACTTTAAAAAT	0.398										TCGA Ovarian(4;0.039)			17	39	---	---	---	---	PASS
NCAM1	4684	broad.mit.edu	37	11	113078556	113078556	+	Missense_Mutation	SNP	G	T	T			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:113078556G>T	uc009yyq.1	+	7	1088	c.394G>T	c.(394-396)GAT>TAT	p.D132Y	NCAM1_uc001pno.2_Missense_Mutation_p.D132Y	NM_001076682	NP_001070150	P13591	NCAM1_HUMAN	neural cell adhesion molecule 1 isoform 3	250	Ig-like C2-type 3.|Extracellular (Potential).				axon guidance|interferon-gamma-mediated signaling pathway	anchored to membrane|extracellular region|Golgi membrane|integral to membrane				ovary(1)	1		all_cancers(61;5.82e-19)|all_epithelial(67;6.87e-12)|Melanoma(852;1.99e-05)|all_hematologic(158;3.66e-05)|Acute lymphoblastic leukemia(157;0.00119)|Breast(348;0.0109)|all_neural(223;0.0299)|Medulloblastoma(222;0.0458)|Renal(330;0.198)|Prostate(24;0.207)		BRCA - Breast invasive adenocarcinoma(274;1.78e-05)|Epithelial(105;0.000114)|all cancers(92;0.000467)|OV - Ovarian serous cystadenocarcinoma(223;0.212)		ATGCTCTAGGGATGGGGAACA	0.428													8	32	---	---	---	---	PASS
OR8B12	219858	broad.mit.edu	37	11	124413497	124413497	+	Missense_Mutation	SNP	G	C	C			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:124413497G>C	uc010sam.1	-	1	54	c.54C>G	c.(52-54)CAC>CAG	p.H18Q		NM_001005195	NP_001005195	Q8NGG6	OR8BC_HUMAN	olfactory receptor, family 8, subfamily B,	18	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)|breast(1)|skin(1)	3		Breast(109;0.0115)|Medulloblastoma(222;0.0523)|Lung NSC(97;0.118)|all_lung(97;0.126)|all_neural(223;0.224)		BRCA - Breast invasive adenocarcinoma(274;1.49e-06)|OV - Ovarian serous cystadenocarcinoma(99;0.0213)		GTCCCGGCTGGTGGGTTAAGC	0.542													3	29	---	---	---	---	PASS
PANX3	116337	broad.mit.edu	37	11	124487218	124487218	+	Missense_Mutation	SNP	G	A	A			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:124487218G>A	uc001qah.2	+	3	373	c.373G>A	c.(373-375)GTG>ATG	p.V125M		NM_052959	NP_443191	Q96QZ0	PANX3_HUMAN	pannexin 3	125	Helical; (Potential).				protein hexamerization	gap junction|integral to membrane	gap junction hemi-channel activity|ion channel activity				0	all_hematologic(175;0.215)	Breast(109;0.00109)|Lung NSC(97;0.0177)|all_lung(97;0.0179)|Medulloblastoma(222;0.0425)|all_neural(223;0.112)		BRCA - Breast invasive adenocarcinoma(274;1.49e-06)|OV - Ovarian serous cystadenocarcinoma(99;0.0219)		GTACCTGCCGGTGCTGCTGTG	0.627													4	7	---	---	---	---	PASS
ST3GAL4	6484	broad.mit.edu	37	11	126279302	126279302	+	Missense_Mutation	SNP	A	C	C			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:126279302A>C	uc001qds.2	+	9	986	c.767A>C	c.(766-768)AAG>ACG	p.K256T	ST3GAL4_uc001qdt.2_Missense_Mutation_p.K252T|ST3GAL4_uc009zcc.2_Missense_Mutation_p.K92T|ST3GAL4_uc009zcd.2_Missense_Mutation_p.K245T|ST3GAL4_uc001qdu.2_Missense_Mutation_p.K252T|ST3GAL4_uc001qdv.2_Missense_Mutation_p.K256T|ST3GAL4_uc009zce.2_Missense_Mutation_p.K252T|ST3GAL4_uc001qdw.2_Missense_Mutation_p.K245T|ST3GAL4_uc001qdx.1_Missense_Mutation_p.K213T|ST3GAL4_uc001qdy.2_Missense_Mutation_p.K92T|ST3GAL4_uc001qdz.2_Missense_Mutation_p.K92T	NM_006278	NP_006269	Q11206	SIA4C_HUMAN	ST3 beta-galactoside alpha-2,3-sialyltransferase	256	Lumenal (Potential).				post-translational protein modification|protein N-linked glycosylation via asparagine	extracellular region|Golgi cisterna membrane|integral to Golgi membrane	beta-galactoside alpha-2,3-sialyltransferase activity				0	all_hematologic(175;0.145)	Breast(109;0.00867)|Medulloblastoma(222;0.0523)|Lung NSC(97;0.0739)|all_lung(97;0.0798)|all_neural(223;0.138)		BRCA - Breast invasive adenocarcinoma(274;1.13e-06)|OV - Ovarian serous cystadenocarcinoma(99;0.0767)		CGGAAGATTAAGCAGGTGATG	0.517													38	51	---	---	---	---	PASS
PARP11	57097	broad.mit.edu	37	12	3921356	3921356	+	Missense_Mutation	SNP	T	A	A			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:3921356T>A	uc001qmk.1	-	7	984	c.929A>T	c.(928-930)AAC>ATC	p.N310I	PARP11_uc001qml.2_Missense_Mutation_p.N317I|PARP11_uc009zef.2_RNA|PARP11_uc001qmm.2_Missense_Mutation_p.N236I|PARP11_uc001qmn.2_Missense_Mutation_p.N236I	NM_020367	NP_065100	Q9NR21	PAR11_HUMAN	poly (ADP-ribose) polymerase family, member 11	310	PARP catalytic.						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)			GATCTTTGGGTTCCAGGTATC	0.413													11	84	---	---	---	---	PASS
AKAP3	10566	broad.mit.edu	37	12	4737745	4737745	+	Missense_Mutation	SNP	C	A	A			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:4737745C>A	uc001qnb.3	-	4	552	c.323G>T	c.(322-324)TGC>TTC	p.C108F		NM_006422	NP_006413	O75969	AKAP3_HUMAN	A-kinase anchor protein 3	108					acrosome reaction|cellular component movement	acrosomal vesicle	protein kinase A binding			skin(3)|large_intestine(1)|ovary(1)|kidney(1)	6						GGGGCCCTGGCAAGGAATCTC	0.498													16	28	---	---	---	---	PASS
VWF	7450	broad.mit.edu	37	12	6125817	6125817	+	Missense_Mutation	SNP	G	T	T			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:6125817G>T	uc001qnn.1	-	30	5426	c.5176C>A	c.(5176-5178)CGT>AGT	p.R1726S	VWF_uc010set.1_Intron	NM_000552	NP_000543	P04275	VWF_HUMAN	von Willebrand factor preproprotein	1726	VWFA 3; main binding site for collagens type I and III.				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)	TGAGTGAGACGAGGCCCTAAA	0.527													4	72	---	---	---	---	PASS
NOP2	4839	broad.mit.edu	37	12	6675952	6675952	+	Missense_Mutation	SNP	G	A	A			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:6675952G>A	uc001qpk.1	-	2	184	c.140C>T	c.(139-141)GCT>GTT	p.A47V	NOP2_uc001qph.1_Missense_Mutation_p.A47V|NOP2_uc001qpi.1_Missense_Mutation_p.A47V|NOP2_uc001qpj.1_Intron|NOP2_uc001qpl.1_Missense_Mutation_p.A47V|NOP2_uc001qpm.1_Missense_Mutation_p.A47V			P46087	NOP2_HUMAN	Homo sapiens cDNA FLJ31646 fis, clone NT2RI2003921, highly similar to PROLIFERATING-CELL NUCLEOLAR ANTIGEN P120.	47					positive regulation of cell proliferation|rRNA processing	nucleolus	protein binding|RNA binding|S-adenosylmethionine-dependent methyltransferase activity			ovary(2)	2						CCTCTTTCGAGCACGACTAGA	0.393													4	10	---	---	---	---	PASS
A2ML1	144568	broad.mit.edu	37	12	8995787	8995787	+	Missense_Mutation	SNP	C	A	A			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:8995787C>A	uc001quz.3	+	12	1404	c.1306C>A	c.(1306-1308)CAA>AAA	p.Q436K	A2ML1_uc001qva.1_Missense_Mutation_p.Q16K|A2ML1_uc010sgm.1_5'Flank	NM_144670	NP_653271	A8K2U0	A2ML1_HUMAN	alpha-2-macroglobulin-like 1 precursor	280						extracellular space	endopeptidase inhibitor activity			ovary(2)|skin(1)	3						ACGTTACTACCAAAATGCCTA	0.488													7	127	---	---	---	---	PASS
TAS2R20	259295	broad.mit.edu	37	12	11149889	11149889	+	Silent	SNP	G	A	A			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:11149889G>A	uc001qzm.2	-	1	586	c.586C>T	c.(586-588)CTG>TTG	p.L196L	PRR4_uc009zhp.2_Intron|PRH1_uc001qzb.3_Intron|PRH1_uc001qzc.2_Intron|PRB4_uc001qzf.1_Intron|PRH1_uc001qzj.2_Intron	NM_176889	NP_795370	P59543	T2R20_HUMAN	taste receptor, type 2, member 20	196	Helical; Name=5; (Potential).				sensory perception of taste	integral to membrane	G-protein coupled receptor activity				0						ATTAACAGCAGAAAAGATATC	0.428													39	86	---	---	---	---	PASS
SLCO1C1	53919	broad.mit.edu	37	12	20858882	20858882	+	Splice_Site	SNP	G	A	A			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:20858882G>A	uc001rej.3	+	5	627	c.272_splice	c.e5-1	p.G91_splice	SLCO1C1_uc010sii.1_Splice_Site_p.G91_splice|SLCO1C1_uc010sij.1_Splice_Site_p.G91_splice|SLCO1C1_uc009zip.2_Intron|SLCO1C1_uc001rei.2_Splice_Site_p.G91_splice|SLCO1C1_uc010sik.1_Splice_Site	NM_017435	NP_059131	Q9NYB5	SO1C1_HUMAN	solute carrier organic anion transporter family,						sodium-independent organic anion transport	integral to membrane|plasma membrane	thyroid hormone transmembrane transporter activity			ovary(5)|pancreas(1)|skin(1)	7	Esophageal squamous(101;0.149)					TTTCCTCAAAGGGAATCTCTT	0.353													13	27	---	---	---	---	PASS
C12orf35	55196	broad.mit.edu	37	12	32135211	32135211	+	Missense_Mutation	SNP	C	T	T			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:32135211C>T	uc001rks.2	+	4	1736	c.1322C>T	c.(1321-1323)TCT>TTT	p.S441F		NM_018169	NP_060639	Q9HCM1	CL035_HUMAN	hypothetical protein LOC55196	441										ovary(1)|skin(1)	2	all_cancers(9;3.36e-11)|all_epithelial(9;2.56e-11)|all_lung(12;5.67e-10)|Acute lymphoblastic leukemia(23;0.0122)|Lung SC(12;0.0336)|all_hematologic(23;0.0429)|Esophageal squamous(101;0.204)		OV - Ovarian serous cystadenocarcinoma(6;0.0114)			GCTCAGAATTCTAAATTGTCT	0.368													22	104	---	---	---	---	PASS
PRPH	5630	broad.mit.edu	37	12	49691303	49691303	+	Missense_Mutation	SNP	T	C	C			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:49691303T>C	uc001rtu.2	+	6	1235	c.1160T>C	c.(1159-1161)ATG>ACG	p.M387T		NM_006262	NP_006253	P41219	PERI_HUMAN	peripherin	387	Coil 2.|Rod.						structural molecule activity				0						AACGTCAAGATGGCCCTGGAC	0.567											OREG0021790	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	27	24	---	---	---	---	PASS
AQP6	363	broad.mit.edu	37	12	50368276	50368276	+	Intron	SNP	G	T	T			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:50368276G>T	uc001rvr.1	+						AQP6_uc001rvp.1_Intron|AQP6_uc001rvq.1_Intron	NM_001652	NP_001643	Q13520	AQP6_HUMAN	aquaporin 6						excretion|odontogenesis	integral to plasma membrane|transport vesicle membrane	anion channel activity|water channel activity				0						GTAAGGAACAGAGGGGACACC	0.637											OREG0021809	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	5	17	---	---	---	---	PASS
RDH16	8608	broad.mit.edu	37	12	57348829	57348829	+	Missense_Mutation	SNP	T	A	A			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:57348829T>A	uc001smi.3	-	2	605	c.433A>T	c.(433-435)ACT>TCT	p.T145S	RDH16_uc009zpa.2_Intron	NM_003708	NP_003699	O75452	RDH16_HUMAN	retinol dehydrogenase 16	145	Cytoplasmic (Potential).				lipid metabolic process	endoplasmic reticulum membrane|integral to membrane|microsome	binding|electron carrier activity|retinol dehydrogenase activity				0						AGGCTCAGAGTCACATCAATC	0.567													10	49	---	---	---	---	PASS
KIF5A	3798	broad.mit.edu	37	12	57974946	57974946	+	Missense_Mutation	SNP	G	T	T			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:57974946G>T	uc001sor.1	+	24	2954	c.2746G>T	c.(2746-2748)GCC>TCC	p.A916S	KIF5A_uc010srr.1_Missense_Mutation_p.A827S	NM_004984	NP_004975	Q12840	KIF5A_HUMAN	kinesin family member 5A	916	Globular.				blood coagulation|cell death|microtubule-based movement|synaptic transmission	cytosol|kinesin complex|membrane fraction|microtubule|perinuclear region of cytoplasm	ATP binding|microtubule motor activity			ovary(2)|skin(1)	3						GGGCCATTCTGCCCAGATTGG	0.527													6	17	---	---	---	---	PASS
ZFC3H1	196441	broad.mit.edu	37	12	72029243	72029243	+	Missense_Mutation	SNP	C	T	T			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:72029243C>T	uc001swo.2	-	10	2577	c.2218G>A	c.(2218-2220)GAA>AAA	p.E740K		NM_144982	NP_659419	O60293	ZC3H1_HUMAN	proline/serine-rich coiled-coil 2	740					RNA processing	intracellular	metal ion binding			ovary(2)|breast(1)|central_nervous_system(1)|skin(1)	5						CGTCTTGCTTCTTTAATCATG	0.348													7	33	---	---	---	---	PASS
TMEM19	55266	broad.mit.edu	37	12	72092834	72092834	+	Silent	SNP	T	C	C			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:72092834T>C	uc001sws.2	+	5	1375	c.792T>C	c.(790-792)GCT>GCC	p.A264A	TMEM19_uc001swr.1_Silent_p.A250A|TMEM19_uc009zru.1_RNA	NM_018279	NP_060749	Q96HH6	TMM19_HUMAN	transmembrane protein 19	264	Helical; (Potential).					integral to membrane					0		Breast(359;0.0889)		GBM - Glioblastoma multiforme(134;0.044)		GTGGTTTAGCTGGATTACTAG	0.403													18	49	---	---	---	---	PASS
OAS1	4938	broad.mit.edu	37	12	113346549	113346549	+	Missense_Mutation	SNP	G	T	T			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:113346549G>T	uc001tud.2	+	2	495	c.389G>T	c.(388-390)CGT>CTT	p.R130L	OAS1_uc010syn.1_Missense_Mutation_p.R129L|OAS1_uc010syo.1_Missense_Mutation_p.R129L|OAS1_uc001tub.2_Missense_Mutation_p.R130L|OAS1_uc001tuc.2_Missense_Mutation_p.R130L|OAS1_uc009zwf.2_Missense_Mutation_p.R129L	NM_016816	NP_058132	P00973	OAS1_HUMAN	2',5'-oligoadenylate synthetase 1 isoform 1	130	Necessary for binding to dsRNA.				interferon-gamma-mediated signaling pathway|nucleobase, nucleoside, nucleotide and nucleic acid metabolic process|type I interferon-mediated signaling pathway	endoplasmic reticulum|microsome|mitochondrion|nucleus	ATP binding|nucleotidyltransferase activity|RNA binding			ovary(2)	2						GGCAACCCCCGTGCGCTCAGC	0.577													21	28	---	---	---	---	PASS
OASL	8638	broad.mit.edu	37	12	121471503	121471503	+	Missense_Mutation	SNP	T	G	G			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:121471503T>G	uc001tzj.1	-	2	248	c.242A>C	c.(241-243)GAG>GCG	p.E81A	OASL_uc001tzk.1_Missense_Mutation_p.E81A	NM_003733	NP_003724	Q15646	OASL_HUMAN	2'-5'-oligoadenylate synthetase-like isoform a	81					interferon-gamma-mediated signaling pathway|type I interferon-mediated signaling pathway	cytoplasm|nucleolus	ATP binding|DNA binding|double-stranded RNA binding|thyroid hormone receptor binding|transferase activity			skin(1)	1	all_neural(191;0.0684)|Medulloblastoma(191;0.0922)					CAGCTCCACCTCTCTGGTGCT	0.478													21	103	---	---	---	---	PASS
SBNO1	55206	broad.mit.edu	37	12	123818603	123818603	+	Silent	SNP	G	T	T			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:123818603G>T	uc010tap.1	-	6	906	c.906C>A	c.(904-906)GCC>GCA	p.A302A	SBNO1_uc010tao.1_Silent_p.A301A|SBNO1_uc010taq.1_Intron|SBNO1_uc001uet.2_Silent_p.A302A|SBNO1_uc001ueu.2_Silent_p.A301A|SBNO1_uc001uev.2_Silent_p.A300A|SBNO1_uc009zxy.1_Silent_p.A267A	NM_018183	NP_060653	A3KN83	SBNO1_HUMAN	sno, strawberry notch homolog 1	302							ATP binding|DNA binding|hydrolase activity			breast(5)|skin(2)|ovary(1)|kidney(1)	9	all_neural(191;0.101)|Medulloblastoma(191;0.163)			OV - Ovarian serous cystadenocarcinoma(86;0.000701)|Epithelial(86;0.00197)		TGCTTACCTGGGCTGCATATG	0.333													4	20	---	---	---	---	PASS
SFRS8	6433	broad.mit.edu	37	12	132262629	132262629	+	Missense_Mutation	SNP	G	T	T			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:132262629G>T	uc001uja.1	+	14	2302	c.2162G>T	c.(2161-2163)TGC>TTC	p.C721F	SFRS8_uc010tbn.1_Missense_Mutation_p.C721F|SFRS8_uc001ujb.1_Missense_Mutation_p.C514F	NM_004592	NP_004583	Q12872	SFSWA_HUMAN	splicing factor, arginine/serine-rich 8	721					mRNA splice site selection|regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	protein binding|RNA binding				0	all_neural(191;0.0982)|Medulloblastoma(191;0.163)			OV - Ovarian serous cystadenocarcinoma(86;3.44e-07)|Epithelial(86;2.94e-06)|all cancers(50;4.82e-05)		ACTACGCCCTGCCCTCTACTG	0.433													7	33	---	---	---	---	PASS
POLE	5426	broad.mit.edu	37	12	133209281	133209281	+	Missense_Mutation	SNP	C	A	A			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:133209281C>A	uc001uks.1	-	44	6149	c.6105G>T	c.(6103-6105)CAG>CAT	p.Q2035H	POLE_uc001ukq.1_Missense_Mutation_p.Q245H|POLE_uc001ukr.1_Missense_Mutation_p.Q839H|POLE_uc010tbq.1_RNA	NM_006231	NP_006222	Q07864	DPOE1_HUMAN	DNA-directed DNA polymerase epsilon	2035					base-excision repair, gap-filling|DNA synthesis involved in DNA repair|DNA-dependent DNA replication initiation|G1/S transition of mitotic cell cycle|M/G1 transition of mitotic cell cycle|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	nucleoplasm	chromatin binding|DNA binding|DNA-directed DNA polymerase activity|nucleotide binding|protein binding|zinc ion binding			ovary(3)|skin(3)|lung(1)|central_nervous_system(1)	8	all_neural(191;0.0982)|Medulloblastoma(191;0.163)	all_epithelial(31;0.0416)		OV - Ovarian serous cystadenocarcinoma(86;5.22e-08)|Epithelial(86;4.03e-07)|all cancers(50;1.18e-05)		CCTCGGCCTCCTGGGAGAGCT	0.652								DNA_polymerases_(catalytic_subunits)|Direct_reversal_of_damage					4	14	---	---	---	---	PASS
IFT88	8100	broad.mit.edu	37	13	21172829	21172829	+	Missense_Mutation	SNP	A	G	G			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr13:21172829A>G	uc001unh.2	+	12	1057	c.661A>G	c.(661-663)ATG>GTG	p.M221V	IFT88_uc001uni.2_Missense_Mutation_p.M212V|IFT88_uc001unj.2_Missense_Mutation_p.M211V|IFT88_uc010tcq.1_Missense_Mutation_p.M192V|IFT88_uc001unk.2_Missense_Mutation_p.M1V	NM_175605	NP_783195	Q13099	IFT88_HUMAN	intraflagellar transport 88 homolog isoform 1	221	TPR 1.				cilium morphogenesis	centriole|intraflagellar transport particle B|microtubule basal body|microtubule-based flagellum	protein binding			ovary(1)	1		all_cancers(29;5.79e-25)|all_epithelial(30;2.57e-20)|all_lung(29;3.13e-16)|Lung SC(185;0.0262)|Ovarian(182;0.0825)|Hepatocellular(188;0.244)		all cancers(112;0.000667)|Epithelial(112;0.00119)|OV - Ovarian serous cystadenocarcinoma(117;0.0141)|Lung(94;0.0183)|LUSC - Lung squamous cell carcinoma(192;0.0528)		AGTTAATGAAATGTATGCCGA	0.323													18	37	---	---	---	---	PASS
SACS	26278	broad.mit.edu	37	13	23909099	23909099	+	Silent	SNP	T	A	A			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr13:23909099T>A	uc001uon.2	-	10	9505	c.8916A>T	c.(8914-8916)CCA>CCT	p.P2972P	SACS_uc001uoo.2_Silent_p.P2825P|SACS_uc001uop.1_Intron|SACS_uc001uoq.1_Intron	NM_014363	NP_055178	Q9NZJ4	SACS_HUMAN	sacsin	2972					cell death|negative regulation of inclusion body assembly|protein folding	axon|cell body fiber|dendrite|mitochondrion|nucleus	ATP binding|chaperone binding|Hsp70 protein binding|proteasome binding			ovary(7)|skin(2)|upper_aerodigestive_tract(1)|large_intestine(1)|pancreas(1)	12		all_cancers(29;1.51e-22)|all_epithelial(30;7.82e-19)|all_lung(29;4.71e-18)|Lung SC(185;0.0225)|Breast(139;0.128)		all cancers(112;0.00197)|Epithelial(112;0.00854)|OV - Ovarian serous cystadenocarcinoma(117;0.0298)|Lung(94;0.189)		AATATAAATCTGGCTGTAGAT	0.378													14	34	---	---	---	---	PASS
C1QTNF9	338872	broad.mit.edu	37	13	24895767	24895767	+	Missense_Mutation	SNP	C	G	G			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr13:24895767C>G	uc001upj.2	+	4	924	c.863C>G	c.(862-864)TCT>TGT	p.S288C	C1QTNF9_uc001upe.2_RNA	NM_178540	NP_848635	P0C862	C1T9A_HUMAN	C1q and tumor necrosis factor related protein 9	288	C1q.					collagen	hormone activity				0		all_cancers(29;3.55e-20)|all_epithelial(30;4.25e-17)|all_lung(29;1.04e-16)|Lung SC(185;0.0225)|Breast(139;0.052)		all cancers(112;0.00565)|Epithelial(112;0.027)|OV - Ovarian serous cystadenocarcinoma(117;0.115)|Lung(94;0.159)		GACCAGGCCTCTGGCGGCATT	0.498													18	103	---	---	---	---	PASS
SLC7A1	6541	broad.mit.edu	37	13	30096468	30096468	+	Nonsense_Mutation	SNP	G	T	T			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr13:30096468G>T	uc001uso.2	-	8	1562	c.1175C>A	c.(1174-1176)TCG>TAG	p.S392*		NM_003045	NP_003036	P30825	CTR1_HUMAN	solute carrier family 7 (cationic amino acid	392	Helical; (Potential).				cellular nitrogen compound metabolic process|ion transport	integral to plasma membrane	receptor activity				0		Lung SC(185;0.0257)|Breast(139;0.238)		all cancers(112;0.0148)|OV - Ovarian serous cystadenocarcinoma(117;0.0554)|Epithelial(112;0.0875)|GBM - Glioblastoma multiforme(144;0.179)	L-Arginine(DB00125)|L-Lysine(DB00123)|L-Ornithine(DB00129)	AACGGCACCCGAGGCTAATGT	0.458													6	174	---	---	---	---	PASS
SLC7A1	6541	broad.mit.edu	37	13	30096527	30096527	+	Missense_Mutation	SNP	A	C	C			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr13:30096527A>C	uc001uso.2	-	8	1503	c.1116T>G	c.(1114-1116)TTT>TTG	p.F372L		NM_003045	NP_003036	P30825	CTR1_HUMAN	solute carrier family 7 (cationic amino acid	372	Cytoplasmic (Potential).				cellular nitrogen compound metabolic process|ion transport	integral to plasma membrane	receptor activity				0		Lung SC(185;0.0257)|Breast(139;0.238)		all cancers(112;0.0148)|OV - Ovarian serous cystadenocarcinoma(117;0.0554)|Epithelial(112;0.0875)|GBM - Glioblastoma multiforme(144;0.179)	L-Arginine(DB00125)|L-Lysine(DB00123)|L-Ornithine(DB00129)	CTAAGAATTTAAATAGCAGTC	0.483													26	110	---	---	---	---	PASS
COL4A2	1284	broad.mit.edu	37	13	111111228	111111228	+	Missense_Mutation	SNP	G	A	A			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr13:111111228G>A	uc001vqx.2	+	22	1832	c.1543G>A	c.(1543-1545)GGG>AGG	p.G515R		NM_001846	NP_001837	P08572	CO4A2_HUMAN	alpha 2 type IV collagen preproprotein	515	Triple-helical region.				angiogenesis|axon guidance|extracellular matrix organization|negative regulation of angiogenesis	collagen type IV	extracellular matrix structural constituent|protein binding			skin(3)|central_nervous_system(2)|ovary(1)	6	all_cancers(4;2.21e-12)|all_epithelial(4;2.63e-07)|all_lung(23;5.81e-06)|Lung NSC(43;0.000274)|Colorectal(4;0.00323)|all_neural(89;0.0565)|Lung SC(71;0.0753)|Medulloblastoma(90;0.0922)	Breast(118;0.212)	BRCA - Breast invasive adenocarcinoma(86;0.11)|all cancers(43;0.151)			GGGGAGGAAAGGGGACAGAGG	0.602													6	16	---	---	---	---	PASS
OR4N2	390429	broad.mit.edu	37	14	20296014	20296014	+	Missense_Mutation	SNP	T	A	A			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr14:20296014T>A	uc010tkv.1	+	1	407	c.407T>A	c.(406-408)ATG>AAG	p.M136K		NM_001004723	NP_001004723	Q8NGD1	OR4N2_HUMAN	olfactory receptor, family 4, subfamily N,	136	Cytoplasmic (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(2)|central_nervous_system(1)|skin(1)	4	all_cancers(95;0.00108)		Epithelial(56;9.96e-07)|all cancers(55;2.95e-06)	GBM - Glioblastoma multiforme(265;0.00327)		CCTACTGTCATGAACCCTAGA	0.522													31	150	---	---	---	---	PASS
EFS	10278	broad.mit.edu	37	14	23828827	23828827	+	Missense_Mutation	SNP	C	A	A			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr14:23828827C>A	uc001wjo.2	-	4	1468	c.860G>T	c.(859-861)AGC>ATC	p.S287I	EFS_uc001wjp.2_Missense_Mutation_p.S194I|EFS_uc010tnm.1_Missense_Mutation_p.S118I	NM_005864	NP_005855	O43281	EFS_HUMAN	embryonal Fyn-associated substrate isoform 1	287	Pro-rich.				cell adhesion|intracellular signal transduction	cytoplasm	SH3 domain binding			large_intestine(1)	1	all_cancers(95;7.12e-06)			GBM - Glioblastoma multiforme(265;0.00649)		GGGTGGGGGGCTTCTGGCCAG	0.721													3	11	---	---	---	---	PASS
MYH6	4624	broad.mit.edu	37	14	23863121	23863121	+	Intron	SNP	G	T	T			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr14:23863121G>T	uc001wjv.2	-							NM_002471	NP_002462	P13533	MYH6_HUMAN	myosin heavy chain 6						adult heart development|atrial cardiac muscle tissue morphogenesis|cardiac muscle fiber development|in utero embryonic development|muscle filament sliding|regulation of ATPase activity|regulation of blood pressure|regulation of heart rate|regulation of the force of heart contraction|sarcomere organization|striated muscle contraction|ventricular cardiac muscle tissue morphogenesis|visceral muscle development	cytosol|focal adhesion|muscle myosin complex|myosin filament|nucleus|sarcomere	actin binding|actin-dependent ATPase activity|ATP binding|calmodulin binding|microfilament motor activity|protein kinase binding|structural constituent of muscle			pancreas(2)|ovary(1)|skin(1)	4	all_cancers(95;2.54e-05)			GBM - Glioblastoma multiforme(265;0.00764)|READ - Rectum adenocarcinoma(4;0.0289)|Colorectal(4;0.0441)		CTTGTTCCTGGGAGAAGAGAA	0.502													5	62	---	---	---	---	PASS
NFATC4	4776	broad.mit.edu	37	14	24842950	24842950	+	Silent	SNP	C	A	A			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr14:24842950C>A	uc001wpc.2	+	5	1930	c.1609C>A	c.(1609-1611)CGG>AGG	p.R537R	NFATC4_uc010tok.1_Silent_p.R600R|NFATC4_uc010tol.1_Silent_p.R600R|NFATC4_uc010alr.2_Silent_p.R600R|NFATC4_uc010als.2_Silent_p.R550R|NFATC4_uc010tom.1_Silent_p.R550R|NFATC4_uc010ton.1_Silent_p.R550R|NFATC4_uc010too.1_Silent_p.R550R|NFATC4_uc010alt.2_Silent_p.R569R|NFATC4_uc010top.1_Silent_p.R569R|NFATC4_uc010toq.1_Silent_p.R569R|NFATC4_uc010alu.2_Silent_p.R229R|NFATC4_uc010tor.1_Silent_p.R537R|NFATC4_uc010tos.1_Silent_p.R467R|NFATC4_uc010tot.1_Silent_p.R525R|NFATC4_uc010tou.1_Silent_p.R467R|NFATC4_uc010tov.1_Silent_p.R525R|NFATC4_uc010tow.1_Silent_p.R467R|NFATC4_uc010alv.2_Silent_p.R525R|NFATC4_uc010tox.1_Silent_p.R467R|NFATC4_uc001wpd.2_Silent_p.R72R|NFATC4_uc010toy.1_Silent_p.R72R|NFATC4_uc010toz.1_Silent_p.R72R|NFATC4_uc010tpa.1_5'UTR|NFATC4_uc010tpb.1_5'UTR	NM_004554	NP_004545	Q14934	NFAC4_HUMAN	nuclear factor of activated T-cells,	537	RHD.				cell differentiation|inflammatory response|transcription from RNA polymerase II promoter	cytoplasm|intermediate filament cytoskeleton|nucleus	DNA binding|sequence-specific DNA binding transcription factor activity|transcription coactivator activity			ovary(1)|central_nervous_system(1)|skin(1)	3				GBM - Glioblastoma multiforme(265;0.018)		CATTGAGCTTCGGAAGGGTGA	0.582													6	159	---	---	---	---	PASS
SCFD1	23256	broad.mit.edu	37	14	31203995	31203995	+	Splice_Site	SNP	G	T	T			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr14:31203995G>T	uc001wqm.1	+	24	1861	c.1837_splice	c.e24-1	p.G613_splice	SCFD1_uc001wqn.1_Splice_Site_p.G546_splice|SCFD1_uc010tpg.1_Splice_Site_p.G554_splice|SCFD1_uc010tph.1_Splice_Site_p.G428_splice|SCFD1_uc010amf.1_Splice_Site_p.G428_splice|SCFD1_uc010tpi.1_Splice_Site_p.G521_splice	NM_016106	NP_057190	Q8WVM8	SCFD1_HUMAN	vesicle transport-related protein isoform a						post-Golgi vesicle-mediated transport|protein transport|regulation of ER to Golgi vesicle-mediated transport|response to toxin|retrograde vesicle-mediated transport, Golgi to ER|vesicle docking involved in exocytosis	cis-Golgi network|endoplasmic reticulum membrane|Golgi cisterna membrane|Golgi-associated vesicle|plasma membrane	syntaxin-5 binding				0	Hepatocellular(127;0.0877)		LUAD - Lung adenocarcinoma(48;0.00192)|Lung(238;0.0119)	GBM - Glioblastoma multiforme(265;0.0181)		GATTTTTACAGGGGAAACAAG	0.299													8	33	---	---	---	---	PASS
AKAP6	9472	broad.mit.edu	37	14	33291678	33291678	+	Missense_Mutation	SNP	G	C	C			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr14:33291678G>C	uc001wrq.2	+	13	4829	c.4659G>C	c.(4657-4659)ATG>ATC	p.M1553I		NM_004274	NP_004265	Q13023	AKAP6_HUMAN	A-kinase anchor protein 6	1553					protein targeting	calcium channel complex|nuclear membrane|sarcoplasmic reticulum	protein kinase A binding|receptor binding			breast(6)|ovary(5)|lung(4)|skin(3)|large_intestine(2)|pancreas(1)	21	Breast(36;0.0388)|Prostate(35;0.15)		LUAD - Lung adenocarcinoma(48;0.00107)|Lung(238;0.00677)|STAD - Stomach adenocarcinoma(7;0.116)	GBM - Glioblastoma multiforme(265;0.019)		TCACTGGCATGCAGAATGCCA	0.403													26	76	---	---	---	---	PASS
EAPP	55837	broad.mit.edu	37	14	35002668	35002668	+	Nonsense_Mutation	SNP	C	A	A			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr14:35002668C>A	uc001wsd.1	-	3	443	c.334G>T	c.(334-336)GAG>TAG	p.E112*		NM_018453	NP_060923	Q56P03	EAPP_HUMAN	E2F-associated phosphoprotein	112					negative regulation of transcription elongation from RNA polymerase II promoter|positive regulation of cell proliferation|positive regulation of transcription elongation from RNA polymerase II promoter	Golgi apparatus|nucleus|plasma membrane				ovary(1)	1	Breast(36;0.0473)|Hepatocellular(127;0.158)		LUAD - Lung adenocarcinoma(48;0.00169)|Lung(238;0.00342)|Epithelial(34;0.18)	GBM - Glioblastoma multiforme(112;0.0196)		TCTTCATCCTCGGAATCAGAA	0.348													5	78	---	---	---	---	PASS
BAZ1A	11177	broad.mit.edu	37	14	35240766	35240766	+	Silent	SNP	G	C	C			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr14:35240766G>C	uc001wsk.2	-	21	3820	c.3252C>G	c.(3250-3252)CTC>CTG	p.L1084L	BAZ1A_uc001wsl.2_Silent_p.L1052L	NM_013448	NP_038476	Q9NRL2	BAZ1A_HUMAN	bromodomain adjacent to zinc finger domain, 1A	1084					chromatin remodeling|regulation of transcription, DNA-dependent|transcription, DNA-dependent	ACF complex	zinc ion binding			lung(2)|central_nervous_system(2)|ovary(1)|breast(1)|skin(1)	7	Breast(36;0.0388)|Hepatocellular(127;0.158)		LUAD - Lung adenocarcinoma(48;7.23e-05)|Lung(238;0.00019)|Epithelial(34;0.0793)|all cancers(34;0.175)	GBM - Glioblastoma multiforme(112;0.0659)		CTATTTGAAAGAGTGCCATTG	0.373													70	110	---	---	---	---	PASS
DLGAP5	9787	broad.mit.edu	37	14	55621479	55621479	+	Missense_Mutation	SNP	G	T	T			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr14:55621479G>T	uc001xbs.2	-	15	2136	c.1919C>A	c.(1918-1920)CCT>CAT	p.P640H	DLGAP5_uc001xbt.2_Missense_Mutation_p.P640H	NM_014750	NP_055565	Q15398	DLGP5_HUMAN	discs large homolog 7 isoform a	640					cell proliferation|cell-cell signaling|mitotic chromosome movement towards spindle pole|positive regulation of mitotic metaphase/anaphase transition	nucleus|spindle pole centrosome	phosphoprotein phosphatase activity|protein binding			ovary(1)|skin(1)	2						GACAGACTTAGGTGTTCCAAG	0.398													6	77	---	---	---	---	PASS
ZBTB1	22890	broad.mit.edu	37	14	64989724	64989724	+	Missense_Mutation	SNP	G	C	C			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr14:64989724G>C	uc001xhh.3	+	4	1933	c.1502G>C	c.(1501-1503)AGA>ACA	p.R501T	ZBTB1_uc010aqg.2_Missense_Mutation_p.R501T|ZBTB1_uc001xhi.2_Missense_Mutation_p.R501T	NM_001123329	NP_001116801	Q9Y2K1	ZBTB1_HUMAN	zinc finger and BTB domain containing 1 isoform	501					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			skin(1)	1		all_lung(585;0.000567)|Myeloproliferative disorder(585;0.0255)|all_neural(303;0.0294)		UCEC - Uterine corpus endometrioid carcinoma (185;0.0182)|all cancers(60;3.78e-43)|OV - Ovarian serous cystadenocarcinoma(108;1.22e-20)|BRCA - Breast invasive adenocarcinoma(234;6.75e-06)|KIRC - Kidney renal clear cell carcinoma(182;0.00269)|STAD - Stomach adenocarcinoma(64;0.012)		TCCGAAATAAGAGATATGTTT	0.398													33	43	---	---	---	---	PASS
FAM71D	161142	broad.mit.edu	37	14	67664902	67664902	+	Silent	SNP	T	C	C			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr14:67664902T>C	uc001xja.1	+	3	278	c.24T>C	c.(22-24)ACT>ACC	p.T8T	FAM71D_uc010tsv.1_RNA|FAM71D_uc001xiz.2_RNA|FAM71D_uc010aqn.1_RNA	NM_173526	NP_775797	Q8N9W8	FA71D_HUMAN	hypothetical protein LOC161142	8										ovary(1)	1		all_hematologic(31;0.0116)		all cancers(60;0.00107)|BRCA - Breast invasive adenocarcinoma(234;0.00993)|OV - Ovarian serous cystadenocarcinoma(108;0.012)		CCAGCAAGACTACCATGAGGA	0.408													91	84	---	---	---	---	PASS
PLEK2	26499	broad.mit.edu	37	14	67859957	67859957	+	Missense_Mutation	SNP	G	A	A			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr14:67859957G>A	uc001xjh.1	-	4	443	c.391C>T	c.(391-393)CGC>TGC	p.R131C		NM_016445	NP_057529	Q9NYT0	PLEK2_HUMAN	pleckstrin 2	131					actin cytoskeleton organization|intracellular signal transduction	cytoplasm|cytoskeleton|lamellipodium membrane				ovary(1)|pancreas(1)	2				all cancers(60;0.000728)|OV - Ovarian serous cystadenocarcinoma(108;0.00593)|BRCA - Breast invasive adenocarcinoma(234;0.00953)		TCCACAATGCGACTACATGGA	0.527													18	104	---	---	---	---	PASS
RDH11	51109	broad.mit.edu	37	14	68151842	68151842	+	Nonsense_Mutation	SNP	C	T	T			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr14:68151842C>T	uc001xjv.3	-	6	834	c.744G>A	c.(742-744)TGG>TGA	p.W248*	RDH11_uc001xjw.3_Nonsense_Mutation_p.W235*|RDH11_uc001xjx.3_Nonsense_Mutation_p.W178*	NM_016026	NP_057110	Q8TC12	RDH11_HUMAN	retinol dehydrogenase 11	248	Cytoplasmic (Potential).				retinol metabolic process|steroid metabolic process	endoplasmic reticulum membrane|integral to membrane	binding|NADP-retinol dehydrogenase activity|retinol dehydrogenase activity			ovary(1)	1				all cancers(60;0.00047)|OV - Ovarian serous cystadenocarcinoma(108;0.00206)|BRCA - Breast invasive adenocarcinoma(234;0.00924)	Vitamin A(DB00162)	GCCACCACATCCATCTCATGA	0.517													37	39	---	---	---	---	PASS
FLRT2	23768	broad.mit.edu	37	14	86089506	86089506	+	Missense_Mutation	SNP	G	T	T			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr14:86089506G>T	uc001xvr.2	+	2	2415	c.1648G>T	c.(1648-1650)GCG>TCG	p.A550S	FLRT2_uc010atd.2_Missense_Mutation_p.A550S	NM_013231	NP_037363	O43155	FLRT2_HUMAN	fibronectin leucine rich transmembrane protein 2	550	Helical; (Potential).				cell adhesion	integral to plasma membrane|proteinaceous extracellular matrix	protein binding, bridging|receptor signaling protein activity			ovary(3)|haematopoietic_and_lymphoid_tissue(1)	4				BRCA - Breast invasive adenocarcinoma(234;0.0319)		GATCGGGGGCGCGGTGATATT	0.587													38	69	---	---	---	---	PASS
TRIP11	9321	broad.mit.edu	37	14	92439105	92439105	+	Missense_Mutation	SNP	G	T	T			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr14:92439105G>T	uc001xzy.2	-	20	6463	c.5675C>A	c.(5674-5676)CCA>CAA	p.P1892Q	TRIP11_uc010auf.1_Missense_Mutation_p.P1628Q	NM_004239	NP_004230	Q15643	TRIPB_HUMAN	thyroid hormone receptor interactor 11	1892					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)		TCTTCTTCCTGGTGAATCCAG	0.299			T	PDGFRB	AML								8	251	---	---	---	---	PASS
FAM181A	90050	broad.mit.edu	37	14	94395040	94395040	+	Missense_Mutation	SNP	G	A	A			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr14:94395040G>A	uc001ybz.1	+	3	902	c.595G>A	c.(595-597)GCT>ACT	p.A199T	C14orf86_uc001yby.2_5'Flank|FAM181A_uc010aus.1_Missense_Mutation_p.A137T|FAM181A_uc001yca.1_Missense_Mutation_p.A137T	NM_138344	NP_612353	Q8N9Y4	F181A_HUMAN	hypothetical protein LOC90050	199											0						ACAGCTGCCCGCTTCCTTCTG	0.612													6	22	---	---	---	---	PASS
CYP46A1	10858	broad.mit.edu	37	14	100157448	100157448	+	Nonsense_Mutation	SNP	G	A	A			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr14:100157448G>A	uc001ygo.2	+	2	150	c.150G>A	c.(148-150)TGG>TGA	p.W50*	CYP46A1_uc001ygn.1_5'UTR	NM_006668	NP_006659	Q9Y6A2	CP46A_HUMAN	cytochrome P450, family 46	50					bile acid biosynthetic process|cholesterol catabolic process|nervous system development|xenobiotic metabolic process	endoplasmic reticulum membrane|integral to membrane|microsome	cholesterol 24-hydroxylase activity|electron carrier activity|heme binding|steroid hydroxylase activity				0		Melanoma(154;0.0866)|all_epithelial(191;0.179)				CCTGCTTTTGGAAAAAGGATG	0.493													16	84	---	---	---	---	PASS
DYNC1H1	1778	broad.mit.edu	37	14	102489101	102489101	+	Nonsense_Mutation	SNP	G	T	T			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr14:102489101G>T	uc001yks.2	+	43	8685	c.8521G>T	c.(8521-8523)GAG>TAG	p.E2841*	DYNC1H1_uc001ykt.1_Nonsense_Mutation_p.E332*	NM_001376	NP_001367	Q14204	DYHC1_HUMAN	cytoplasmic dynein 1 heavy chain 1	2841					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						CGTAGAGGATGAGGAGAGGCG	0.527													6	131	---	---	---	---	PASS
TRAF3	7187	broad.mit.edu	37	14	103336547	103336547	+	Silent	SNP	G	T	T			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr14:103336547G>T	uc001ymc.1	+	3	362	c.9G>T	c.(7-9)TCG>TCT	p.S3S	TRAF3_uc001yme.1_Silent_p.S3S|TRAF3_uc001ymd.1_Silent_p.S3S|TRAF3_uc010txy.1_Silent_p.S3S	NM_145725	NP_663777	Q13114	TRAF3_HUMAN	TNF receptor-associated factor 3 isoform 1	3					apoptosis|induction of apoptosis|negative regulation of NF-kappaB transcription factor activity|negative regulation of type I interferon production|regulation of defense response to virus|regulation of interferon-beta production|regulation of proteolysis|toll-like receptor signaling pathway|tumor necrosis factor-mediated signaling pathway	CD40 receptor complex|cytosol|endosome|internal side of plasma membrane|mitochondrion	signal transducer activity|ubiquitin-protein ligase activity|zinc ion binding			ovary(1)|lung(1)|breast(1)	3		all_cancers(154;7.87e-06)|all_epithelial(191;0.0024)		Epithelial(152;9.92e-24)|all cancers(159;2.23e-21)|OV - Ovarian serous cystadenocarcinoma(161;7.85e-12)|Colorectal(3;0.0971)		AAATGGAGTCGAGTAAAAAGA	0.493													6	150	---	---	---	---	PASS
CKB	1152	broad.mit.edu	37	14	103986829	103986829	+	Missense_Mutation	SNP	G	T	T			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr14:103986829G>T	uc001ynf.1	-	6	834	c.754C>A	c.(754-756)CGC>AGC	p.R252S	CKB_uc001yne.1_Missense_Mutation_p.R74S|CKB_uc010awr.1_Missense_Mutation_p.R183S	NM_001823	NP_001814	P12277	KCRB_HUMAN	brain creatine kinase	252	Phosphagen kinase C-terminal.				creatine metabolic process	cytosol	ATP binding|creatine kinase activity				0		Melanoma(154;0.155)	Epithelial(46;0.14)		Creatine(DB00148)	GTGCAGAAGCGGGTGAACACC	0.657													4	19	---	---	---	---	PASS
AHNAK2	113146	broad.mit.edu	37	14	105414569	105414569	+	Missense_Mutation	SNP	G	A	A			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr14:105414569G>A	uc010axc.1	-	7	7339	c.7219C>T	c.(7219-7221)CCC>TCC	p.P2407S	AHNAK2_uc001ypx.2_Missense_Mutation_p.P2307S	NM_138420	NP_612429	Q8IVF2	AHNK2_HUMAN	AHNAK nucleoprotein 2	2407						nucleus				ovary(1)	1		all_cancers(154;0.115)|Melanoma(154;0.155)|all_epithelial(191;0.183)	all cancers(16;0.000479)|OV - Ovarian serous cystadenocarcinoma(23;0.00659)|Epithelial(46;0.0151)|GBM - Glioblastoma multiforme(11;0.116)			TTGAAACTGGGCATCTGCAGC	0.622													17	286	---	---	---	---	PASS
AHNAK2	113146	broad.mit.edu	37	14	105418571	105418571	+	Nonsense_Mutation	SNP	C	A	A			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr14:105418571C>A	uc010axc.1	-	7	3337	c.3217G>T	c.(3217-3219)GAG>TAG	p.E1073*	AHNAK2_uc001ypx.2_Nonsense_Mutation_p.E973*	NM_138420	NP_612429	Q8IVF2	AHNK2_HUMAN	AHNAK nucleoprotein 2	1073						nucleus				ovary(1)	1		all_cancers(154;0.115)|Melanoma(154;0.155)|all_epithelial(191;0.183)	all cancers(16;0.000479)|OV - Ovarian serous cystadenocarcinoma(23;0.00659)|Epithelial(46;0.0151)|GBM - Glioblastoma multiforme(11;0.116)			CCAGCTCCCTCGGGCAGGTGG	0.617													7	200	---	---	---	---	PASS
ADAM6	8755	broad.mit.edu	37	14	106573252	106573252	+	RNA	SNP	G	A	A			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr14:106573252G>A	uc010tyt.1	-	1362		c.29273C>T								Parts of antibodies, mostly variable regions.												0						GTAATACACGGCCGTGTCCTC	0.587													12	319	---	---	---	---	PASS
Unknown	0	broad.mit.edu	37	15	20649655	20649655	+	Silent	SNP	G	T	T			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr15:20649655G>T	uc001ytg.2	-	18	2563	c.1854C>A	c.(1852-1854)GGC>GGA	p.G618G	uc010tyx.1_RNA|uc001yth.3_Silent_p.G618G|uc010tyy.1_Silent_p.G618G					RecName: Full=Putative HERC2-like protein 3;																		CTCGGCCTAGGCCTGGAGGAG	0.557													21	201	---	---	---	---	PASS
OR4N4	283694	broad.mit.edu	37	15	22382947	22382947	+	Missense_Mutation	SNP	C	A	A			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr15:22382947C>A	uc001yuc.1	+	7	1456	c.475C>A	c.(475-477)CAG>AAG	p.Q159K	LOC727924_uc001yub.1_Intron|OR4N4_uc010tzv.1_Missense_Mutation_p.Q159K	NM_001005241	NP_001005241	Q8N0Y3	OR4N4_HUMAN	olfactory receptor, family 4, subfamily N,	159	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(4)|skin(1)	5		all_cancers(20;1.94e-20)|all_epithelial(15;3.94e-18)|Lung NSC(15;8.53e-15)|all_lung(15;2.87e-14)|Breast(32;0.00519)|Colorectal(260;0.101)	GBM - Glioblastoma multiforme(6;0.124)	all cancers(64;1.64e-11)|Epithelial(43;5.81e-10)|BRCA - Breast invasive adenocarcinoma(123;0.000255)|Kidney(6;0.00736)|KIRC - Kidney renal clear cell carcinoma(6;0.0135)|GBM - Glioblastoma multiforme(186;0.0963)		CTCCATTATCCAGGTGGTCCT	0.532													5	89	---	---	---	---	PASS
MAGEL2	54551	broad.mit.edu	37	15	23889861	23889861	+	Missense_Mutation	SNP	G	T	T			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr15:23889861G>T	uc001ywj.3	-	1	1315	c.1220C>A	c.(1219-1221)TCC>TAC	p.S407Y		NM_019066	NP_061939			MAGE-like protein 2												0		all_cancers(20;1.78e-24)|all_epithelial(15;7.75e-22)|Lung NSC(15;2.96e-18)|all_lung(15;2.8e-17)|Breast(32;0.000625)|Colorectal(260;0.14)		all cancers(64;1.84e-06)|Epithelial(43;1.2e-05)|BRCA - Breast invasive adenocarcinoma(123;0.00177)		CTCCACCTTGGAATTATCCTG	0.587													7	24	---	---	---	---	PASS
GABRB3	2562	broad.mit.edu	37	15	26806138	26806138	+	Missense_Mutation	SNP	T	C	C			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr15:26806138T>C	uc001zaz.2	-	8	1163	c.1021A>G	c.(1021-1023)AAG>GAG	p.K341E	GABRB3_uc010uae.1_Missense_Mutation_p.K256E|GABRB3_uc001zba.2_Missense_Mutation_p.K341E|GABRB3_uc001zbb.2_Missense_Mutation_p.K397E	NM_000814	NP_000805	P28472	GBRB3_HUMAN	gamma-aminobutyric acid (GABA) A receptor, beta	341	Cytoplasmic (Probable).				synaptic transmission	cell junction|chloride channel complex|integral to plasma membrane|postsynaptic membrane	chloride channel activity|extracellular ligand-gated ion channel activity|GABA-A receptor activity			upper_aerodigestive_tract(1)|ovary(1)|lung(1)|liver(1)|central_nervous_system(1)	5		all_cancers(20;1.89e-22)|all_lung(180;6.35e-15)|Breast(32;0.000279)|Colorectal(260;0.232)		all cancers(64;1.46e-07)|Epithelial(43;2.89e-07)|BRCA - Breast invasive adenocarcinoma(123;0.0251)|COAD - Colon adenocarcinoma(236;0.235)|Lung(196;0.243)	Ethchlorvynol(DB00189)|Flurazepam(DB00690)|Lorazepam(DB00186)|Midazolam(DB00683)	TCTGCAAGCTTCTTCTGCCTT	0.517													26	66	---	---	---	---	PASS
HERC2	8924	broad.mit.edu	37	15	28370265	28370265	+	Silent	SNP	G	T	T			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr15:28370265G>T	uc001zbj.2	-	84	12983	c.12877C>A	c.(12877-12879)CGG>AGG	p.R4293R		NM_004667	NP_004658	O95714	HERC2_HUMAN	hect domain and RLD 2	4293	RCC1 19.				DNA repair|intracellular protein transport|protein ubiquitination involved in ubiquitin-dependent protein catabolic process	nucleus	guanyl-nucleotide exchange factor activity|heme binding|protein binding|ubiquitin-protein ligase activity|zinc ion binding			ovary(4)|lung(4)|skin(3)|upper_aerodigestive_tract(1)|central_nervous_system(1)	13		all_lung(180;1.3e-11)|Breast(32;0.000194)|Colorectal(260;0.227)		all cancers(64;3.93e-09)|Epithelial(43;9.99e-08)|BRCA - Breast invasive adenocarcinoma(123;0.0271)|GBM - Glioblastoma multiforme(186;0.0497)|Lung(196;0.199)		GCTACCAACCGAGGCCTCTGG	0.552													5	151	---	---	---	---	PASS
MTMR15	22909	broad.mit.edu	37	15	31214434	31214434	+	Intron	SNP	A	G	G			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr15:31214434A>G	uc001zff.2	+						MTMR15_uc001zfe.2_Intron	NM_014967	NP_055782	Q9Y2M0	FAN1_HUMAN	myotubularin related protein 15 isoform a						double-strand break repair via homologous recombination|nucleotide-excision repair, DNA incision	nucleus	5'-3' exonuclease activity|5'-flap endonuclease activity|DNA binding|magnesium ion binding|phosphodiesterase I activity|ubiquitin binding				0		all_lung(180;2.23e-09)		all cancers(64;4.72e-15)|Epithelial(43;5.4e-11)|GBM - Glioblastoma multiforme(186;0.000136)|BRCA - Breast invasive adenocarcinoma(123;0.00402)|Lung(196;0.168)		TATTGTTGCAATAGGAAGCCG	0.403								Direct_reversal_of_damage|Editing_and_processing_nucleases					27	58	---	---	---	---	PASS
NUSAP1	51203	broad.mit.edu	37	15	41650464	41650464	+	Intron	SNP	G	C	C			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr15:41650464G>C	uc001zns.3	+						NUSAP1_uc001znq.3_Intron|NUSAP1_uc001znr.3_Intron|NUSAP1_uc010bce.2_Intron|NUSAP1_uc001znt.3_Intron|NUSAP1_uc001znv.3_Intron|NUSAP1_uc001znu.3_Intron|NUSAP1_uc010ucw.1_Intron|NUSAP1_uc001znw.3_Intron	NM_016359	NP_057443	Q9BXS6	NUSAP_HUMAN	nucleolar and spindle associated protein 1						cytokinesis after mitosis|establishment of mitotic spindle localization|mitotic chromosome condensation|positive regulation of mitosis	chromosome|cytoplasm|nucleolus	DNA binding				0		all_cancers(109;5.07e-19)|all_epithelial(112;2.43e-16)|Lung NSC(122;1.81e-11)|all_lung(180;4.81e-10)|Melanoma(134;0.0179)|Colorectal(260;0.0946)|Ovarian(310;0.143)		OV - Ovarian serous cystadenocarcinoma(18;9.63e-17)|GBM - Glioblastoma multiforme(113;1.59e-06)|BRCA - Breast invasive adenocarcinoma(123;0.168)		AAGGTATGTAGATAAAATTAT	0.308													8	45	---	---	---	---	PASS
CASC4	113201	broad.mit.edu	37	15	44695177	44695177	+	Missense_Mutation	SNP	T	A	A			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr15:44695177T>A	uc001zto.1	+	9	1464	c.1165T>A	c.(1165-1167)TAT>AAT	p.Y389N	CASC4_uc001ztp.2_Missense_Mutation_p.Y389N|CASC4_uc001ztq.2_Intron	NM_138423	NP_612432	Q6P4E1	CASC4_HUMAN	cancer susceptibility candidate 4 isoform a	389	Lumenal (Potential).					integral to membrane				ovary(1)	1		all_cancers(109;1.69e-13)|all_epithelial(112;3.94e-11)|Lung NSC(122;1.66e-07)|all_lung(180;1.47e-06)|Melanoma(134;0.027)		all cancers(107;2.91e-20)|GBM - Glioblastoma multiforme(94;1.57e-06)|COAD - Colon adenocarcinoma(120;0.217)|Colorectal(105;0.237)		CGTAGGTGAGTATGAGGCAGA	0.517													15	38	---	---	---	---	PASS
GLDN	342035	broad.mit.edu	37	15	51696617	51696617	+	Missense_Mutation	SNP	G	T	T			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr15:51696617G>T	uc002aba.2	+	10	1491	c.1322G>T	c.(1321-1323)AGT>ATT	p.S441I	GLDN_uc002abb.2_Missense_Mutation_p.S317I	NM_181789	NP_861454	Q6ZMI3	GLDN_HUMAN	gliomedin	441	Extracellular (Potential).|Olfactomedin-like.				cell differentiation|nervous system development	collagen|integral to membrane|plasma membrane				ovary(2)	2				all cancers(107;0.00194)|GBM - Glioblastoma multiforme(94;0.00942)		TATGCGTCAAGTGTGGACGGC	0.428													24	108	---	---	---	---	PASS
GCNT3	9245	broad.mit.edu	37	15	59910702	59910702	+	Missense_Mutation	SNP	C	A	A			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr15:59910702C>A	uc002age.2	+	3	714	c.265C>A	c.(265-267)CTG>ATG	p.L89M	GCNT3_uc002agd.2_Missense_Mutation_p.L89M	NM_004751	NP_004742	O95395	GCNT3_HUMAN	glucosaminyl (N-acetyl) transferase 3, mucin	89	Lumenal (Potential).				protein O-linked glycosylation	Golgi membrane|integral to membrane|membrane fraction	beta-1,3-galactosyl-O-glycosyl-glycoprotein beta-1,6-N-acetylglucosaminyltransferase activity|N-acetyllactosaminide beta-1,6-N-acetylglucosaminyltransferase activity			ovary(1)|central_nervous_system(1)	2						TCTGAATAACCTGGAGGTCAA	0.488													22	53	---	---	---	---	PASS
KIAA0101	9768	broad.mit.edu	37	15	64669065	64669065	+	Missense_Mutation	SNP	C	G	G			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr15:64669065C>G	uc002ank.2	-	3	299	c.167G>C	c.(166-168)CGC>CCC	p.R56P	KIAA0101_uc002anl.2_Intron	NM_014736	NP_055551	Q15004	PAF_HUMAN	hypothetical protein LOC9768 isoform 1	56						mitochondrion|nucleus				central_nervous_system(1)	1						GGGAGTTGGGCGCACGCAAAC	0.393													9	26	---	---	---	---	PASS
HEXA	3073	broad.mit.edu	37	15	72668061	72668061	+	Missense_Mutation	SNP	C	T	T			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr15:72668061C>T	uc002aun.3	-	1	460	c.253G>A	c.(253-255)GGG>AGG	p.G85R	CELF6_uc002auk.3_RNA|HEXA_uc010ukn.1_Missense_Mutation_p.G85S|HEXA_uc002auo.3_5'UTR|HEXA_uc010bix.2_Missense_Mutation_p.G85R|HEXA_uc010biy.2_5'UTR|HEXA_uc010uko.1_5'UTR|HEXA_uc010biz.1_RNA|C15orf34_uc010ukp.1_5'Flank	NM_000520	NP_000511	P06865	HEXA_HUMAN	hexosaminidase A preproprotein	85					cell death	lysosome	beta-N-acetylhexosaminidase activity|cation binding|protein heterodimerization activity			ovary(3)|upper_aerodigestive_tract(1)	4						TCCGACTCACCTGTGAGGTAA	0.657													6	103	---	---	---	---	PASS
CYP1A1	1543	broad.mit.edu	37	15	75014644	75014644	+	Missense_Mutation	SNP	C	T	T			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr15:75014644C>T	uc002ayp.3	-	2	917	c.795G>A	c.(793-795)ATG>ATA	p.M265I	CYP1A1_uc010bjv.2_RNA|CYP1A1_uc010bjw.2_RNA|CYP1A1_uc010bju.2_Missense_Mutation_p.M1I|CYP1A1_uc010bjx.2_Missense_Mutation_p.M1I|CYP1A1_uc002ayq.3_Missense_Mutation_p.M265I|CYP1A1_uc010bjy.2_Missense_Mutation_p.M265I|CYP1A1_uc010bjz.1_Missense_Mutation_p.M1I	NM_000499	NP_000490	P04798	CP1A1_HUMAN	cytochrome P450, family 1, subfamily A,	265					cellular lipid metabolic process|drug metabolic process|xenobiotic metabolic process	endoplasmic reticulum membrane|microsome	aromatase activity|electron carrier activity|heme binding|oxygen binding|vitamin D 24-hydroxylase activity			ovary(2)|breast(2)|pancreas(1)	5					Arsenic trioxide(DB01169)|Benzphetamine(DB00865)|Bleomycin(DB00290)|Chlorzoxazone(DB00356)|Dacarbazine(DB00851)|Dactinomycin(DB00970)|Esomeprazole(DB00736)|Estrone(DB00655)|Fluvastatin(DB01095)|Fluvoxamine(DB00176)|Ginseng(DB01404)|Granisetron(DB00889)|Ketoconazole(DB01026)|Menadione(DB00170)|Picrotoxin(DB00466)|Primaquine(DB01087)|Quinidine(DB00908)|Quinine(DB00468)|Thiabendazole(DB00730)	GCTCCTTGACCATCTTCTGCA	0.512									Endometrial_Cancer_Familial_Clustering_of|ACTH-independent_macronodular_adrenal_hyperplasia				16	31	---	---	---	---	PASS
ARNT2	9915	broad.mit.edu	37	15	80806299	80806299	+	Missense_Mutation	SNP	C	G	G			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr15:80806299C>G	uc002bfr.2	+	7	939	c.773C>G	c.(772-774)ACC>AGC	p.T258S	ARNT2_uc010unm.1_Missense_Mutation_p.T247S|ARNT2_uc002bfs.2_Missense_Mutation_p.T247S	NM_014862	NP_055677	Q9HBZ2	ARNT2_HUMAN	aryl hydrocarbon receptor nuclear translocator	258					central nervous system development|in utero embryonic development|response to hypoxia		aryl hydrocarbon receptor binding|DNA binding|protein heterodimerization activity|sequence-specific DNA binding transcription factor activity|signal transducer activity			central_nervous_system(3)|ovary(1)|pancreas(1)	5			BRCA - Breast invasive adenocarcinoma(143;0.134)			AGAATAACCACCATGAGGAAA	0.413													29	25	---	---	---	---	PASS
ZNF774	342132	broad.mit.edu	37	15	90904301	90904301	+	Missense_Mutation	SNP	A	G	G	rs141917260		TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr15:90904301A>G	uc002bpk.3	+	4	1424	c.1238A>G	c.(1237-1239)AAT>AGT	p.N413S		NM_001004309	NP_001004309	Q6NX45	ZN774_HUMAN	zinc finger protein 774	413	C2H2-type 10.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0	Melanoma(11;0.00551)|Lung NSC(78;0.0158)|all_lung(78;0.0331)		BRCA - Breast invasive adenocarcinoma(143;0.0224)|KIRC - Kidney renal clear cell carcinoma(17;0.138)|Kidney(142;0.194)			AAGAGCTTCAATCAGAGCTCC	0.512													9	40	---	---	---	---	PASS
PRC1	9055	broad.mit.edu	37	15	91527314	91527314	+	Missense_Mutation	SNP	T	G	G			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr15:91527314T>G	uc002bqm.2	-	3	358	c.201A>C	c.(199-201)AAA>AAC	p.K67N	PRC1_uc002bqn.2_Missense_Mutation_p.K67N|PRC1_uc002bqo.2_Missense_Mutation_p.K67N|PRC1_uc010uqs.1_Intron|PRC1_uc010uqt.1_Missense_Mutation_p.K15N	NM_003981	NP_003972	O43663	PRC1_HUMAN	protein regulator of cytokinesis 1 isoform 1	67	Dimerization.				cytokinesis|mitotic spindle elongation	cytoplasm|nucleus|spindle microtubule|spindle pole	protein binding			ovary(1)|skin(1)	2	Lung NSC(78;0.0987)|all_lung(78;0.175)					CGGATATGCTTTTGATGAGTC	0.483													22	270	---	---	---	---	PASS
OR4F15	390649	broad.mit.edu	37	15	102358526	102358526	+	Missense_Mutation	SNP	T	A	A			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr15:102358526T>A	uc010uts.1	+	1	137	c.137T>A	c.(136-138)GTA>GAA	p.V46E		NM_001001674	NP_001001674	Q8NGB8	O4F15_HUMAN	olfactory receptor, family 4, subfamily F,	46	Helical; Name=1; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity				0	Lung NSC(78;0.000991)|all_lung(78;0.00128)|Melanoma(26;0.00505)		OV - Ovarian serous cystadenocarcinoma(32;0.00039)|Lung(145;0.17)|LUSC - Lung squamous cell carcinoma(107;0.187)			CTTGTCATTGTATTCACTGTA	0.433													20	86	---	---	---	---	PASS
ZNF434	54925	broad.mit.edu	37	16	3434632	3434632	+	Missense_Mutation	SNP	G	T	T	rs149193108	byFrequency	TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr16:3434632G>T	uc002cuz.2	-	5	1227	c.425C>A	c.(424-426)CCT>CAT	p.P142H	ZNF434_uc002cux.3_Missense_Mutation_p.P353H|ZNF434_uc010uwx.1_Missense_Mutation_p.P65H|ZNF434_uc002cuy.3_Missense_Mutation_p.P65H|ZNF434_uc010uwy.1_Missense_Mutation_p.P65H|ZNF434_uc010uwz.1_Missense_Mutation_p.P353H|ZNF434_uc010uxa.1_Missense_Mutation_p.P142H	NM_017810	NP_060280	Q9NX65	ZN434_HUMAN	zinc finger protein 434	142					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(2)	2						TTCTTGGCCAGGAACAGCATC	0.532													6	92	---	---	---	---	PASS
CIITA	4261	broad.mit.edu	37	16	11009505	11009505	+	Silent	SNP	G	T	T			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr16:11009505G>T	uc002dai.3	+	14	3100	c.2967G>T	c.(2965-2967)CTG>CTT	p.L989L	CIITA_uc002daj.3_Silent_p.L990L|CIITA_uc002dak.3_Silent_p.L405L	NM_000246	NP_000237	P33076	C2TA_HUMAN	class II transactivator	989	LRR 1.		Missing (in BLS2).		interferon-gamma-mediated signaling pathway|negative regulation of transcription from RNA polymerase II promoter|positive regulation of MHC class I biosynthetic process|positive regulation of transcription from RNA polymerase II promoter|response to antibiotic|transcription, DNA-dependent	nucleus	activating transcription factor binding|ATP binding|protein C-terminus binding|protein complex binding|transcription coactivator activity|transcription regulatory region DNA binding			central_nervous_system(1)	1						TGCAGCATCTGGAGTGAGTAT	0.408			T	FLJ27352|CD274|CD273|RALGDS|RUNDC2A|C16orf75	PMBL|Hodgkin Lymphona|								5	36	---	---	---	---	PASS
GSPT1	2935	broad.mit.edu	37	16	11979113	11979113	+	Silent	SNP	T	C	C			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr16:11979113T>C	uc002dbr.2	-	8	885	c.858A>G	c.(856-858)CCA>CCG	p.P286P	GSPT1_uc002dbu.2_Silent_p.P423P|GSPT1_uc002dbt.2_Silent_p.P424P|GSPT1_uc010bux.2_Silent_p.P286P	NM_001130007	NP_001123479	P15170	ERF3A_HUMAN	G1 to S phase transition 1 isoform 3	286					G1/S transition of mitotic cell cycle|nuclear-transcribed mRNA catabolic process, nonsense-mediated decay|protein methylation	intracellular	GTP binding|GTPase activity|protein binding|translation release factor activity			upper_aerodigestive_tract(1)|ovary(1)|skin(1)	3						TATCCAGATATGGAATAAACG	0.343													15	24	---	---	---	---	PASS
SEZ6L2	26470	broad.mit.edu	37	16	29909221	29909221	+	Missense_Mutation	SNP	A	G	G			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr16:29909221A>G	uc002duq.3	-	2	404	c.164T>C	c.(163-165)CTT>CCT	p.L55P	uc002dtf.2_Intron|BOLA2_uc010bzb.1_Intron|SEZ6L2_uc002dup.3_Missense_Mutation_p.L55P|SEZ6L2_uc002dur.3_Missense_Mutation_p.L55P|SEZ6L2_uc002dus.3_Missense_Mutation_p.L55P|SEZ6L2_uc010vec.1_Missense_Mutation_p.L55P|SEZ6L2_uc010ved.1_Intron|ASPHD1_uc002dut.2_5'Flank|ASPHD1_uc002duu.3_5'Flank|ASPHD1_uc010bzi.2_5'Flank	NM_201575	NP_963869	Q6UXD5	SE6L2_HUMAN	seizure related 6 homolog (mouse)-like 2 isoform	55	Extracellular (Potential).					endoplasmic reticulum membrane|integral to membrane|plasma membrane				ovary(1)|skin(1)	2						GGCCCCATGAAGCAGTTCAGC	0.637													13	48	---	---	---	---	PASS
RBL2	5934	broad.mit.edu	37	16	53476745	53476745	+	Missense_Mutation	SNP	C	A	A			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr16:53476745C>A	uc002ehi.3	+	3	665	c.547C>A	c.(547-549)CGT>AGT	p.R183S	RBL2_uc010vgv.1_Missense_Mutation_p.R109S	NM_005611	NP_005602	Q08999	RBL2_HUMAN	retinoblastoma-like 2 (p130)	183					cell cycle|chromatin modification|regulation of cell cycle|regulation of lipid kinase activity|regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasm|nucleolus	DNA binding|protein binding			ovary(2)|lung(2)|upper_aerodigestive_tract(1)	5						GGAGCAACCTCGTCAGCAGCG	0.393													4	35	---	---	---	---	PASS
CCDC102A	92922	broad.mit.edu	37	16	57555030	57555030	+	Missense_Mutation	SNP	T	G	G			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr16:57555030T>G	uc002elw.2	-	4	1084	c.871A>C	c.(871-873)AAG>CAG	p.K291Q		NM_033212	NP_149989	Q96A19	C102A_HUMAN	coiled-coil domain containing 102A	291	Potential.									ovary(1)	1						TACTTGATCTTCCACTGGCTG	0.582													26	102	---	---	---	---	PASS
CNOT1	23019	broad.mit.edu	37	16	58594273	58594273	+	Intron	SNP	T	C	C			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr16:58594273T>C	uc002env.2	-						CNOT1_uc002enw.2_Intron|CNOT1_uc002enu.3_Intron|CNOT1_uc002enx.2_Intron|CNOT1_uc002enz.1_Intron|SNORA50_uc002eoa.1_5'Flank	NM_016284	NP_057368	A5YKK6	CNOT1_HUMAN	CCR4-NOT transcription complex, subunit 1						nuclear-transcribed mRNA poly(A) tail shortening|regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasmic mRNA processing body|cytosol				ovary(4)|central_nervous_system(2)	6				Kidney(780;0.0722)|OV - Ovarian serous cystadenocarcinoma(108;0.173)|Epithelial(162;0.239)		ACTCCTAAAATAGAGGGGAAA	0.338													3	32	---	---	---	---	PASS
NAE1	8883	broad.mit.edu	37	16	66857513	66857513	+	Intron	SNP	A	C	C			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr16:66857513A>C	uc002eqf.2	-						NAE1_uc002eqe.2_Intron|NAE1_uc002eqg.2_Intron|NAE1_uc010cdv.2_Intron|NAE1_uc010cdw.1_Intron	NM_003905	NP_003896	Q13564	ULA1_HUMAN	NEDD8 activating enzyme E1 subunit 1 isoform a						apoptosis|cell cycle|DNA replication|mitotic cell cycle DNA replication checkpoint|protein neddylation|signal transduction	cytoplasm|insoluble fraction|plasma membrane	catalytic activity|protein heterodimerization activity			ovary(1)	1		Ovarian(137;0.0563)		OV - Ovarian serous cystadenocarcinoma(108;0.0914)|Epithelial(162;0.214)	Adenosine triphosphate(DB00171)	TCTTTTTAAAAACAAAGCATT	0.333													6	10	---	---	---	---	PASS
FHOD1	29109	broad.mit.edu	37	16	67266079	67266079	+	Silent	SNP	G	T	T			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr16:67266079G>T	uc002esl.2	-	14	2177	c.2065C>A	c.(2065-2067)CGG>AGG	p.R689R	FHOD1_uc002esk.2_5'Flank|FHOD1_uc010ced.2_Silent_p.R496R	NM_013241	NP_037373	Q9Y613	FHOD1_HUMAN	formin homology 2 domain containing 1	689	Interaction with ROCK1.|FH2.			R -> Q (in Ref. 3; AAO38757).	actin cytoskeleton organization	cytoplasm|cytoskeleton|nucleus	actin binding			breast(2)|ovary(1)	3		Ovarian(137;0.0563)		OV - Ovarian serous cystadenocarcinoma(108;0.000691)|Epithelial(162;0.00462)|all cancers(182;0.0434)		GTCATTGTCCGGCGGCCCTCT	0.463													4	17	---	---	---	---	PASS
TMCO7	79613	broad.mit.edu	37	16	68894080	68894080	+	Missense_Mutation	SNP	C	T	T			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr16:68894080C>T	uc002ewi.3	+	2	400	c.388C>T	c.(388-390)CCT>TCT	p.P130S	TMCO7_uc002ewh.2_Missense_Mutation_p.P130S	NM_024562	NP_078838	Q9C0B7	TMCO7_HUMAN	transmembrane and coiled-coil domains 7	130						integral to membrane	binding				0		Ovarian(137;0.0568)		OV - Ovarian serous cystadenocarcinoma(108;0.0446)|Epithelial(162;0.198)		GGAAGTTGCTCCTGCCCTGAG	0.483													67	123	---	---	---	---	PASS
METT10D	79066	broad.mit.edu	37	17	2381044	2381044	+	Missense_Mutation	SNP	C	A	A			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:2381044C>A	uc002fut.2	-	3	412	c.264G>T	c.(262-264)TGG>TGT	p.W88C	METT10D_uc002fuu.3_RNA|METT10D_uc010cka.2_RNA|METT10D_uc002fuv.2_Missense_Mutation_p.W88C|METT10D_uc010vqx.1_RNA|METT10D_uc010vqy.1_5'UTR	NM_024086	NP_076991	Q86W50	MET16_HUMAN	methyltransferase 10 domain containing	88							methyltransferase activity				0						GATCTTCTACCCAGTGAATAT	0.383													6	76	---	---	---	---	PASS
USP6	9098	broad.mit.edu	37	17	5033921	5033921	+	Missense_Mutation	SNP	G	T	T			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:5033921G>T	uc002gau.1	+	11	2327	c.97G>T	c.(97-99)GAC>TAC	p.D33Y	USP6_uc002gav.1_Missense_Mutation_p.D33Y|USP6_uc010ckz.1_5'UTR|USP6_uc002gaw.2_Missense_Mutation_p.D33Y	NM_004505	NP_004496	P35125	UBP6_HUMAN	ubiquitin specific protease 6	33					protein deubiquitination|regulation of vesicle-mediated transport|ubiquitin-dependent protein catabolic process	lysosome|plasma membrane|recycling endosome	calmodulin binding|cysteine-type endopeptidase activity|nucleic acid binding|protein binding|Rab GTPase activator activity|ubiquitin thiolesterase activity|ubiquitin-specific protease activity			skin(2)|upper_aerodigestive_tract(1)|lung(1)|breast(1)	5						GCTGCCAGAGGACAAGGGGCC	0.587			T	COL1A1|CDH11|ZNF9|OMD	aneurysmal bone cysts								6	57	---	---	---	---	PASS
TP53	7157	broad.mit.edu	37	17	7578415	7578415	+	Missense_Mutation	SNP	A	C	C			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:7578415A>C	uc002gim.2	-	5	709	c.515T>G	c.(514-516)GTT>GGT	p.V172G	TP53_uc002gig.1_Missense_Mutation_p.V172G|TP53_uc002gih.2_Missense_Mutation_p.V172G|TP53_uc010cne.1_5'Flank|TP53_uc010cnf.1_Missense_Mutation_p.V40G|TP53_uc010cng.1_Missense_Mutation_p.V40G|TP53_uc002gii.1_Missense_Mutation_p.V40G|TP53_uc010cnh.1_Missense_Mutation_p.V172G|TP53_uc010cni.1_Missense_Mutation_p.V172G|TP53_uc002gij.2_Missense_Mutation_p.V172G|TP53_uc010cnj.1_RNA|TP53_uc002gin.2_Missense_Mutation_p.V79G|TP53_uc002gio.2_Missense_Mutation_p.V40G|TP53_uc010vug.1_Missense_Mutation_p.V133G	NM_001126112	NP_001119584	P04637	P53_HUMAN	tumor protein p53 isoform a	172	Required for interaction with FBXO42.||Interaction with HIPK1 (By similarity).|Interaction with AXIN1 (By similarity).		V -> A (in sporadic cancers; somatic mutation).|V -> I (in sporadic cancers; somatic mutation).|V -> F (in LFS; germline mutation and in sporadic cancers; somatic mutation).|V -> G (in sporadic cancers; somatic mutation).|V -> D (in sporadic cancers; 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.V172F(10)|p.V172D(8)|p.V172I(7)|p.0?(7)|p.V172V(4)|p.V172A(4)|p.V172fs*2(3)|p.V172G(3)|p.V173fs*59(2)|p.V157_C176del20(1)|p.K164_P219del(1)|p.V172_R174delVVR(1)|p.P151_V173del23(1)|p.S149fs*72(1)|p.E171fs*61(1)|p.V172_E180delVVRRCPHHE(1)|p.E171fs*1(1)|p.T170fs*8(1)|p.V172fs*9(1)|p.H168fs*69(1)|p.E171_H179delEVVRRCPHH(1)|p.E171_V172delEV(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)		GCGCCTCACAACCTCCGTCAT	0.657		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)			12	16	---	---	---	---	PASS
MAPK7	5598	broad.mit.edu	37	17	19284863	19284863	+	Silent	SNP	C	T	T			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:19284863C>T	uc002gvn.2	+	4	1727	c.1341C>T	c.(1339-1341)GAC>GAT	p.D447D	MAPK7_uc002gvo.2_Silent_p.D308D|MAPK7_uc002gvq.2_Silent_p.D447D|MAPK7_uc002gvp.2_Silent_p.D447D	NM_139033	NP_620602	Q13164	MK07_HUMAN	mitogen-activated protein kinase 7 isoform 1	447	May not be required for kinase activity; required to stimulate MEF2C activity (By similarity).|Pro-rich.				cell cycle|cell differentiation|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|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|MAP kinase activity|protein binding			central_nervous_system(4)|lung(3)|stomach(1)|skin(1)	9	all_cancers(12;2.87e-05)|all_epithelial(12;0.00114)|Hepatocellular(7;0.00345)|Breast(13;0.206)					CTGCACCTGACACCATTGATC	0.597													8	17	---	---	---	---	PASS
ERAL1	26284	broad.mit.edu	37	17	27186253	27186253	+	Silent	SNP	G	T	T			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:27186253G>T	uc002hcy.1	+	9	1153	c.1143G>T	c.(1141-1143)GGG>GGT	p.G381G	ERAL1_uc002hcz.1_RNA|ERAL1_uc002hda.1_Silent_p.G188G|ERAL1_uc002hdb.1_Silent_p.G264G	NM_005702	NP_005693	O75616	ERAL1_HUMAN	Era-like 1	381	KH type-2.				ribosomal small subunit assembly	mitochondrial inner membrane|mitochondrial matrix	GTP binding|ribosomal small subunit binding|rRNA binding			skin(1)	1	all_cancers(5;2.12e-15)|all_epithelial(6;3.44e-19)|Lung NSC(42;0.01)		Epithelial(11;1.12e-05)|all cancers(11;5.32e-05)|BRCA - Breast invasive adenocarcinoma(11;0.000272)|OV - Ovarian serous cystadenocarcinoma(11;0.105)			GACCAGGTGGGGAGCTGGTTA	0.493													6	66	---	---	---	---	PASS
ATAD5	79915	broad.mit.edu	37	17	29221045	29221045	+	Missense_Mutation	SNP	C	T	T			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:29221045C>T	uc002hfs.1	+	21	5520	c.5174C>T	c.(5173-5175)TCA>TTA	p.S1725L		NM_024857	NP_079133	Q96QE3	ATAD5_HUMAN	ATPase family, AAA domain containing 5	1725					response to DNA damage stimulus	nucleus	ATP binding|nucleoside-triphosphatase activity			ovary(3)	3		all_hematologic(16;0.0202)|Acute lymphoblastic leukemia(14;0.0238)|Myeloproliferative disorder(56;0.0393)				TCTGCTATTTCAAAAGCATTG	0.358													6	29	---	---	---	---	PASS
PIP4K2B	8396	broad.mit.edu	37	17	36927258	36927258	+	Intron	SNP	C	A	A			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:36927258C>A	uc002hqs.2	-						PIP4K2B_uc010cvp.2_5'Flank	NM_003559	NP_003550	P78356	PI42B_HUMAN	phosphatidylinositol-5-phosphate 4-kinase, type						cell surface receptor linked signaling pathway	endoplasmic reticulum membrane|plasma membrane	1-phosphatidylinositol-4-phosphate 5-kinase activity|1-phosphatidylinositol-5-phosphate 4-kinase activity|ATP binding|receptor signaling protein activity			ovary(1)	1						GGCGCAGGCTCTGACTTACTT	0.547													6	33	---	---	---	---	PASS
KRT222	125113	broad.mit.edu	37	17	38816289	38816289	+	Silent	SNP	C	A	A			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:38816289C>A	uc002hvc.2	-	3	461	c.396G>T	c.(394-396)CTG>CTT	p.L132L	KRT222_uc010wfk.1_RNA|KRT222_uc002hvb.2_Silent_p.L92L|KRT222_uc010cxc.2_Silent_p.L92L	NM_152349	NP_689562	Q8N1A0	KT222_HUMAN	truncated type I keratin KA21	132	Potential.					intermediate filament	structural molecule activity			central_nervous_system(1)|skin(1)	2						TTTCTTGTTCCAGCCTCATCT	0.443													6	106	---	---	---	---	PASS
BRCA1	672	broad.mit.edu	37	17	41256906	41256906	+	Nonsense_Mutation	SNP	G	A	A			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:41256906G>A	uc002icq.2	-	5	512	c.280C>T	c.(280-282)CAG>TAG	p.Q94*	BRCA1_uc010whp.1_Nonsense_Mutation_p.Q47*|BRCA1_uc010whl.1_Nonsense_Mutation_p.Q94*|BRCA1_uc010whm.1_Intron|BRCA1_uc002icp.3_Nonsense_Mutation_p.Q24*|BRCA1_uc002icu.2_Nonsense_Mutation_p.Q94*|BRCA1_uc010cyx.2_Nonsense_Mutation_p.Q47*|BRCA1_uc002ict.2_Nonsense_Mutation_p.Q94*|BRCA1_uc010whn.1_Intron|BRCA1_uc010who.1_Intron|BRCA1_uc010whq.1_5'UTR|BRCA1_uc002idc.1_Nonsense_Mutation_p.Q94*|BRCA1_uc010whr.1_Nonsense_Mutation_p.Q47*|BRCA1_uc002idd.2_Nonsense_Mutation_p.Q94*|BRCA1_uc002ide.1_5'UTR|BRCA1_uc010cyy.1_Nonsense_Mutation_p.Q94*|BRCA1_uc010whs.1_Nonsense_Mutation_p.Q94*|BRCA1_uc010cyz.2_Nonsense_Mutation_p.Q47*|BRCA1_uc010cza.2_Nonsense_Mutation_p.Q68*|BRCA1_uc010wht.1_Intron	NM_007294	NP_009225	P38398	BRCA1_HUMAN	breast cancer 1, early onset isoform 1	94					androgen receptor signaling pathway|apoptosis|cellular response to indole-3-methanol|chromosome segregation|DNA damage response, signal transduction by p53 class mediator resulting in transcription of p21 class mediator|DNA damage response, signal transduction resulting in induction of apoptosis|double-strand break repair via homologous recombination|fatty acid biosynthetic process|G2/M transition DNA damage checkpoint|negative regulation of centriole replication|negative regulation of fatty acid biosynthetic process|negative regulation of histone H3-K9 methylation|negative regulation of transcription, DNA-dependent|positive regulation of cell cycle arrest|positive regulation of DNA repair|positive regulation of histone acetylation|positive regulation of histone H3-K4 methylation|positive regulation of histone H4-K20 methylation|positive regulation of protein ubiquitination|positive regulation of transcription from RNA polymerase II promoter|postreplication repair|protein autoubiquitination|protein K6-linked ubiquitination|regulation of cell motility|regulation of cell proliferation|regulation of transcription from RNA polymerase III promoter|response to estrogen stimulus|response to ionizing radiation|substrate adhesion-dependent cell spreading	BRCA1-A complex|BRCA1-BARD1 complex|gamma-tubulin ring complex|nucleoplasm|plasma membrane|ribonucleoprotein complex|ruffle	androgen receptor binding|identical protein binding|protein binding|RNA binding|transcription coactivator activity|transcription regulatory region DNA binding|tubulin binding|ubiquitin protein ligase binding|ubiquitin-protein ligase activity|zinc ion binding			ovary(24)|breast(21)|lung(4)|central_nervous_system(1)|endometrium(1)|urinary_tract(1)	52		Breast(137;0.000717)		BRCA - Breast invasive adenocarcinoma(366;0.126)		GTGTCAAGCTGAAAAGCACAA	0.373			D|Mis|N|F|S		ovarian	breast|ovarian		Homologous_recombination	Hereditary_Breast-Ovarian_Cancer_BRCA1_type	TCGA Ovarian(2;0.000030)			42	16	---	---	---	---	PASS
TMEM101	84336	broad.mit.edu	37	17	42089419	42089419	+	Silent	SNP	G	C	C			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:42089419G>C	uc002ieu.2	-	4	676	c.651C>G	c.(649-651)CTC>CTG	p.L217L	TMEM101_uc010wis.1_Silent_p.L159L	NM_032376	NP_115752	Q96IK0	TM101_HUMAN	transmembrane protein 101	217	Helical; (Potential).				positive regulation of I-kappaB kinase/NF-kappaB cascade	integral to membrane	signal transducer activity			upper_aerodigestive_tract(1)|central_nervous_system(1)	2		Breast(137;0.0264)|Prostate(33;0.0861)		BRCA - Breast invasive adenocarcinoma(366;0.113)		TGCCATCAATGAGCAGCATGA	0.567													12	54	---	---	---	---	PASS
NFE2L1	4779	broad.mit.edu	37	17	46135878	46135878	+	Silent	SNP	C	T	T			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:46135878C>T	uc002imz.3	+	6	1845	c.1194C>T	c.(1192-1194)CCC>CCT	p.P398P	NFE2L1_uc002ina.3_Silent_p.P368P|NFE2L1_uc002inb.3_Silent_p.P368P|NFE2L1_uc010wle.1_Silent_p.P210P|NFE2L1_uc010wlf.1_Silent_p.P242P	NM_003204	NP_003195	Q14494	NF2L1_HUMAN	nuclear factor erythroid 2-like 1	398					anatomical structure morphogenesis|heme biosynthetic process|inflammatory response|transcription from RNA polymerase II promoter	nucleus	protein dimerization activity|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|transcription cofactor activity			skin(1)	1						CGTTGGCCCCCAGCAATTCTA	0.622													9	76	---	---	---	---	PASS
IGF2BP1	10642	broad.mit.edu	37	17	47122365	47122365	+	Nonsense_Mutation	SNP	G	T	T			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:47122365G>T	uc002iom.2	+	12	1667	c.1333G>T	c.(1333-1335)GAA>TAA	p.E445*	IGF2BP1_uc010dbj.2_Nonsense_Mutation_p.E306*	NM_006546	NP_006537	Q9NZI8	IF2B1_HUMAN	insulin-like growth factor 2 mRNA binding	445	KH 3.|Necessary for interaction with ELAVL4 and binding to TAU mRNA (By similarity).				CRD-mediated mRNA stabilization|negative regulation of translation|regulation of mRNA stability involved in response to stress	CRD-mediated mRNA stability complex|cytosol|dendritic spine|lamellipodium|nucleus|plasma membrane|stress granule	mRNA 3'-UTR binding|mRNA 5'-UTR binding|nucleotide binding|protein binding|translation regulator activity			kidney(1)	1						TGCACCACCCGAAACACCTGA	0.483													64	51	---	---	---	---	PASS
STXBP4	252983	broad.mit.edu	37	17	53108533	53108533	+	Missense_Mutation	SNP	T	C	C			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:53108533T>C	uc002iuf.1	+	9	878	c.671T>C	c.(670-672)CTA>CCA	p.L224P	STXBP4_uc010dcc.1_Missense_Mutation_p.L149P|STXBP4_uc010dcd.1_Missense_Mutation_p.L224P	NM_178509	NP_848604	Q6ZWJ1	STXB4_HUMAN	syntaxin binding protein 4	224						cytoplasm	calcium ion binding			ovary(1)	1						TTCCAGGCTCTAAATTATCTT	0.363													3	22	---	---	---	---	PASS
C17orf71	55181	broad.mit.edu	37	17	57288253	57288253	+	Silent	SNP	C	A	A			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:57288253C>A	uc002ixi.2	+	1	883	c.841C>A	c.(841-843)CGG>AGG	p.R281R		NM_018149	NP_060619	Q8ND04	SMG8_HUMAN	SMG8 protein	281					nuclear-transcribed mRNA catabolic process, nonsense-mediated decay|regulation of protein kinase activity		protein binding				0	all_neural(34;0.0837)|Medulloblastoma(34;0.0922)					AGAACCTCCTCGGAACCAAGA	0.512													4	79	---	---	---	---	PASS
APPBP2	10513	broad.mit.edu	37	17	58538059	58538059	+	Silent	SNP	G	A	A			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:58538059G>A	uc002iys.1	-	9	1314	c.1026C>T	c.(1024-1026)GTC>GTT	p.V342V	APPBP2_uc010ddl.1_Silent_p.V271V	NM_006380	NP_006371	Q92624	APBP2_HUMAN	amyloid beta precursor protein-binding protein	342	TPR 5.				intracellular protein transport	cytoplasmic vesicle membrane|microtubule|microtubule associated complex|nucleus	microtubule motor activity|protein binding				0	all_neural(34;0.0878)|Medulloblastoma(34;0.0922)		Epithelial(12;3.67e-13)|all cancers(12;1.44e-11)|Colorectal(3;0.01)			TATACTGGTGGACATAAGAAG	0.398													21	16	---	---	---	---	PASS
SCN4A	6329	broad.mit.edu	37	17	62050090	62050090	+	Silent	SNP	G	T	T			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:62050090G>T	uc002jds.1	-	1	189	c.112C>A	c.(112-114)CGG>AGG	p.R38R		NM_000334	NP_000325	P35499	SCN4A_HUMAN	voltage-gated sodium channel type 4 alpha	38					muscle contraction	voltage-gated sodium channel complex	voltage-gated sodium channel activity			ovary(1)|pancreas(1)|skin(1)	3					Lamotrigine(DB00555)	CGCTGCAGCCGGGCCTCCTCC	0.622													4	19	---	---	---	---	PASS
ABCA9	10350	broad.mit.edu	37	17	66972116	66972116	+	Missense_Mutation	SNP	A	T	T			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:66972116A>T	uc002jhu.2	-	39	4958	c.4815T>A	c.(4813-4815)GAT>GAA	p.D1605E	ABCA9_uc010dez.2_Missense_Mutation_p.D1567E	NM_080283	NP_525022	Q8IUA7	ABCA9_HUMAN	ATP-binding cassette, sub-family A, member 9	1605					transport	integral to membrane	ATP binding|ATPase activity			ovary(4)|upper_aerodigestive_tract(1)|central_nervous_system(1)	6	Breast(10;1.47e-12)					CCTCTTCAAGATCACCCAGCT	0.473													15	9	---	---	---	---	PASS
ITGB4	3691	broad.mit.edu	37	17	73733629	73733629	+	Silent	SNP	G	T	T			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:73733629G>T	uc002jpg.2	+	18	2311	c.2124G>T	c.(2122-2124)CCG>CCT	p.P708P	ITGB4_uc002jph.2_Silent_p.P708P|ITGB4_uc010dgo.2_Silent_p.P708P|ITGB4_uc002jpi.3_Silent_p.P708P|ITGB4_uc010dgp.1_Silent_p.P708P|ITGB4_uc002jpj.2_Silent_p.P708P	NM_000213	NP_000204	P16144	ITB4_HUMAN	integrin beta 4 isoform 1 precursor	708	Extracellular (Potential).				cell communication|cell motility|cell-matrix adhesion|hemidesmosome assembly|integrin-mediated signaling pathway|multicellular organismal development|response to wounding	cell leading edge|cell surface|hemidesmosome|integrin complex	protein binding|receptor activity			lung(4)	4	all_cancers(13;1.5e-07)		all cancers(21;8.32e-07)|Epithelial(20;1.92e-06)|BRCA - Breast invasive adenocarcinoma(9;0.00194)|Lung(188;0.132)|LUSC - Lung squamous cell carcinoma(166;0.154)			actgccctccgggctccttct	0.378													3	12	---	---	---	---	PASS
TRIM47	91107	broad.mit.edu	37	17	73870746	73870746	+	Missense_Mutation	SNP	G	A	A			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:73870746G>A	uc002jpw.2	-	6	1762	c.1735C>T	c.(1735-1737)CGG>TGG	p.R579W	TRIM47_uc002jpv.2_Missense_Mutation_p.R341W	NM_033452	NP_258411	Q96LD4	TRI47_HUMAN	tripartite motif-containing 47	579	B30.2/SPRY.					cytoplasm|nucleus	zinc ion binding			ovary(2)|prostate(1)|lung(1)|breast(1)	5			Epithelial(20;4.23e-06)|all cancers(21;5.24e-06)|BRCA - Breast invasive adenocarcinoma(9;0.00092)|LUSC - Lung squamous cell carcinoma(166;0.154)			CGGCGGGGCCGGGAGGCCTTC	0.667													8	36	---	---	---	---	PASS
ZNF750	79755	broad.mit.edu	37	17	80790024	80790024	+	Nonsense_Mutation	SNP	G	A	A			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:80790024G>A	uc002kga.2	-	2	618	c.307C>T	c.(307-309)CAG>TAG	p.Q103*	TBCD_uc002kfx.1_Intron|TBCD_uc002kfy.1_Intron|TBCD_uc002kfz.2_Intron	NM_024702	NP_078978	Q32MQ0	ZN750_HUMAN	zinc finger protein 750	103						intracellular	zinc ion binding			central_nervous_system(1)	1	Breast(20;0.000523)|all_neural(118;0.0779)	all_cancers(8;0.0514)|all_epithelial(8;0.0748)	OV - Ovarian serous cystadenocarcinoma(97;0.0868)|BRCA - Breast invasive adenocarcinoma(99;0.149)			GAGCTGTGCTGAAGCTTCGAG	0.597													27	28	---	---	---	---	PASS
LAMA3	3909	broad.mit.edu	37	18	21531685	21531685	+	Nonsense_Mutation	SNP	C	A	A			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr18:21531685C>A	uc002kuq.2	+	73	9766	c.9680C>A	c.(9679-9681)TCA>TAA	p.S3227*	LAMA3_uc002kur.2_Nonsense_Mutation_p.S3171*|LAMA3_uc002kus.3_Nonsense_Mutation_p.S1618*|LAMA3_uc002kut.3_Nonsense_Mutation_p.S1562*	NM_198129	NP_937762	Q16787	LAMA3_HUMAN	laminin alpha 3 subunit isoform 1	3227	Laminin G-like 5.				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)	GGTGGGACCTCAACGTCGGTC	0.552													4	14	---	---	---	---	PASS
ZNF271	10778	broad.mit.edu	37	18	32886865	32886865	+	Missense_Mutation	SNP	G	C	C			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr18:32886865G>C	uc002kyq.3	+	3	1269	c.277G>C	c.(277-279)GGC>CGC	p.G93R	ZNF271_uc002kyp.3_Missense_Mutation_p.G93R|ZNF271_uc002kyr.3_Missense_Mutation_p.G93R	NR_024565				SubName: Full=cDNA FLJ13394 fis, clone PLACE1001304, highly similar to Homo sapiens zinc finger protein 271 (ZNF271), mRNA;												0						ACCTTCAGTAGGCTTTCAGAT	0.383													21	11	---	---	---	---	PASS
MYO5B	4645	broad.mit.edu	37	18	47363917	47363917	+	Missense_Mutation	SNP	A	G	G	rs138128932	by1000genomes	TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr18:47363917A>G	uc002leb.2	-	37	5396	c.5108T>C	c.(5107-5109)GTC>GCC	p.V1703A	MYO5B_uc002ldz.2_Missense_Mutation_p.V273A|MYO5B_uc002lea.2_Missense_Mutation_p.V818A	NM_001080467	NP_001073936	Q9ULV0	MYO5B_HUMAN	myosin VB	1703	Dilute.				protein transport	myosin complex	actin binding|ATP binding|calmodulin binding|motor activity			ovary(2)|skin(2)|central_nervous_system(1)	5				READ - Rectum adenocarcinoma(32;0.103)		CCAAGAGCAGACGTCCTTCCG	0.527													3	37	---	---	---	---	PASS
MYO5B	4645	broad.mit.edu	37	18	47404253	47404253	+	Splice_Site	SNP	C	A	A			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr18:47404253C>A	uc002leb.2	-	25	3565	c.3277_splice	c.e25-1	p.Q1093_splice	MYO5B_uc002lea.2_Splice_Site_p.Q234_splice	NM_001080467	NP_001073936	Q9ULV0	MYO5B_HUMAN	myosin VB						protein transport	myosin complex	actin binding|ATP binding|calmodulin binding|motor activity			ovary(2)|skin(2)|central_nervous_system(1)	5				READ - Rectum adenocarcinoma(32;0.103)		CTGGAGTTTGCTGTTCAACAA	0.453													58	30	---	---	---	---	PASS
WDR7	23335	broad.mit.edu	37	18	54349917	54349917	+	Missense_Mutation	SNP	A	G	G			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr18:54349917A>G	uc002lgk.1	+	5	564	c.353A>G	c.(352-354)CAG>CGG	p.Q118R	WDR7_uc010dpk.1_RNA|WDR7_uc002lgl.1_Missense_Mutation_p.Q118R	NM_015285	NP_056100	Q9Y4E6	WDR7_HUMAN	rabconnectin-3 beta isoform 1	118										ovary(2)|skin(1)	3				Lung(128;0.0238)|Colorectal(16;0.0296)		TAGTTCTACCAGTTCTCTGTT	0.373													26	21	---	---	---	---	PASS
FECH	2235	broad.mit.edu	37	18	55233673	55233673	+	Intron	SNP	C	A	A			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr18:55233673C>A	uc002lgq.3	-						FECH_uc002lgp.3_Intron|FECH_uc002lgr.3_Intron	NM_000140	NP_000131	P22830	HEMH_HUMAN	ferrochelatase isoform b precursor						generation of precursor metabolites and energy|heme biosynthetic process|protoporphyrinogen IX metabolic process|response to light stimulus	mitochondrial inner membrane|mitochondrial matrix	2 iron, 2 sulfur cluster binding|ferrochelatase activity|ferrous iron binding|protein binding			central_nervous_system(1)	1		Colorectal(73;0.227)				AGAGAGATGCCCTTACCTGTG	0.438													5	42	---	---	---	---	PASS
ATP8B1	5205	broad.mit.edu	37	18	55328514	55328514	+	Missense_Mutation	SNP	G	T	T	rs71990882		TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr18:55328514G>T	uc002lgw.2	-	21	2599	c.2599C>A	c.(2599-2601)CGC>AGC	p.R867S	uc002lgu.1_Intron|uc002lgv.1_Intron	NM_005603	NP_005594	O43520	AT8B1_HUMAN	ATPase, class I, type 8B, member 1	867	Cytoplasmic (Potential).		R -> C (in ICP).		ATP biosynthetic process|bile acid and bile salt transport|negative regulation of transcription, DNA-dependent	apical plasma membrane|integral to plasma membrane|membrane fraction	ATP binding|ATPase activity, coupled to transmembrane movement of ions, phosphorylative mechanism|magnesium ion binding|phospholipid-translocating ATPase activity			breast(5)|ovary(2)|central_nervous_system(2)|lung(1)	10		Colorectal(73;0.229)				GGGGTGACGCGGCAGCAGATG	0.562									Byler_disease				4	16	---	---	---	---	PASS
PHLPP1	23239	broad.mit.edu	37	18	60612496	60612496	+	Missense_Mutation	SNP	G	C	C			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr18:60612496G>C	uc002lis.2	+	13	1958	c.1780G>C	c.(1780-1782)GAG>CAG	p.E594Q		NM_194449	NP_919431	O60346	PHLP1_HUMAN	PH domain and leucine rich repeat protein	1106	LRR 20.				apoptosis|nerve growth factor receptor signaling pathway|phosphatidylinositol-mediated signaling	cytosol|membrane|nucleus	metal ion binding|protein serine/threonine phosphatase activity				0						GCAGCTCCCAGAGATCAAGGT	0.458													6	39	---	---	---	---	PASS
C18orf55	29090	broad.mit.edu	37	18	71816207	71816207	+	Missense_Mutation	SNP	G	C	C			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr18:71816207G>C	uc010dqr.1	+	1	462	c.164G>C	c.(163-165)AGA>ACA	p.R55T	FBXO15_uc002lle.2_5'Flank|FBXO15_uc002llf.2_5'Flank	NM_014177	NP_054896	Q9BVV7	TI21L_HUMAN	hypothetical protein LOC29090 precursor	55					protein transport|transmembrane transport	integral to membrane|mitochondrial membrane					0		Esophageal squamous(42;0.0746)|Prostate(75;0.157)|Melanoma(33;0.211)				CTGCGACCTAGATGTATTCTT	0.493													83	105	---	---	---	---	PASS
MKNK2	2872	broad.mit.edu	37	19	2043172	2043172	+	Silent	SNP	G	A	A			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:2043172G>A	uc002lus.2	-	7	689	c.444C>T	c.(442-444)TTC>TTT	p.F148F	MKNK2_uc002luq.1_5'Flank|MKNK2_uc010xgu.1_Intron|MKNK2_uc010xgv.1_Silent_p.F17F|MKNK2_uc002lur.2_Silent_p.F148F|MKNK2_uc002lut.1_5'Flank	NM_199054	NP_951009	Q9HBH9	MKNK2_HUMAN	MAP kinase-interacting serine/threonine kinase 2	148	Protein kinase.				cell surface receptor linked signaling pathway|intracellular protein kinase cascade|regulation of translation		ATP binding|metal ion binding|protein serine/threonine kinase activity			lung(1)|breast(1)	2		Ovarian(11;2.11e-07)|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)		CCTCCTCGAAGAACTCAATCA	0.637													23	144	---	---	---	---	PASS
MUC16	94025	broad.mit.edu	37	19	9047990	9047990	+	Missense_Mutation	SNP	C	G	G			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:9047990C>G	uc002mkp.2	-	5	33845	c.33641G>C	c.(33640-33642)AGT>ACT	p.S11214T		NM_024690	NP_078966	Q8WXI7	MUC16_HUMAN	mucin 16	11216	Thr-rich.|Extracellular (Potential).				cell adhesion	extracellular space|extrinsic to membrane|integral to membrane|plasma membrane	protein binding			lung(30)|ovary(15)|breast(8)|large_intestine(1)|skin(1)|prostate(1)|pancreas(1)	57						TGACCCAGAACTAGTGACCAG	0.483													12	36	---	---	---	---	PASS
MUC16	94025	broad.mit.edu	37	19	9076334	9076334	+	Missense_Mutation	SNP	A	T	T			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:9076334A>T	uc002mkp.2	-	3	11316	c.11112T>A	c.(11110-11112)GAT>GAA	p.D3704E		NM_024690	NP_078966	Q8WXI7	MUC16_HUMAN	mucin 16	3705	Thr-rich.|Extracellular (Potential).				cell adhesion	extracellular space|extrinsic to membrane|integral to membrane|plasma membrane	protein binding			lung(30)|ovary(15)|breast(8)|large_intestine(1)|skin(1)|prostate(1)|pancreas(1)	57						AAACAGGCACATCTTCTGCTT	0.438													39	103	---	---	---	---	PASS
ZNF426	79088	broad.mit.edu	37	19	9639645	9639645	+	Missense_Mutation	SNP	C	A	A			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:9639645C>A	uc002mlq.2	-	8	1340	c.1076G>T	c.(1075-1077)AGT>ATT	p.S359I	ZNF426_uc010dws.2_Missense_Mutation_p.S321I	NM_024106	NP_077011	Q9BUY5	ZN426_HUMAN	zinc finger protein 426	359					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(1)	1						CTTGTCTCCACTGTGAGATCG	0.443													10	49	---	---	---	---	PASS
ICAM5	7087	broad.mit.edu	37	19	10401852	10401852	+	Missense_Mutation	SNP	G	C	C			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:10401852G>C	uc002mnu.3	+	2	252	c.187G>C	c.(187-189)GAG>CAG	p.E63Q	ICAM5_uc002mnv.3_5'Flank	NM_003259	NP_003250	Q9UMF0	ICAM5_HUMAN	intercellular adhesion molecule 5 precursor	63	Extracellular (Potential).|Ig-like C2-type 1.				cell-cell adhesion	integral to plasma membrane				breast(3)	3			OV - Ovarian serous cystadenocarcinoma(20;2.64e-09)|Epithelial(33;4.31e-06)|all cancers(31;9.75e-06)			CCCTCGGCCGGAGCGCGGTGG	0.697													4	13	---	---	---	---	PASS
ICAM3	3385	broad.mit.edu	37	19	10445739	10445739	+	Intron	SNP	T	A	A			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:10445739T>A	uc002mob.2	-						RAVER1_uc002moa.2_5'Flank|ICAM3_uc010dxd.1_Intron	NM_002162	NP_002153	P32942	ICAM3_HUMAN	intercellular adhesion molecule 3 precursor						cell-cell adhesion|regulation of immune response	integral to plasma membrane	integrin binding			upper_aerodigestive_tract(1)|ovary(1)|central_nervous_system(1)	3			OV - Ovarian serous cystadenocarcinoma(20;6.13e-09)|Epithelial(33;9.69e-06)|all cancers(31;2.05e-05)			CGCCTCCTCTTACTAAAGACC	0.682													17	39	---	---	---	---	PASS
TYK2	7297	broad.mit.edu	37	19	10475529	10475529	+	Missense_Mutation	SNP	G	T	T			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:10475529G>T	uc002moc.3	-	8	1585	c.1207C>A	c.(1207-1209)CTG>ATG	p.L403M	TYK2_uc010dxe.2_Missense_Mutation_p.L218M|TYK2_uc002mod.2_Missense_Mutation_p.L403M	NM_003331	NP_003322	P29597	TYK2_HUMAN	tyrosine kinase 2	403	FERM.				intracellular protein kinase cascade|regulation of type I interferon-mediated signaling pathway|type I interferon-mediated signaling pathway	cytoskeleton|cytosol|membrane|nucleus	ATP binding|growth hormone receptor binding|non-membrane spanning protein tyrosine kinase activity			lung(5)|large_intestine(2)|ovary(1)|breast(1)	9			OV - Ovarian serous cystadenocarcinoma(20;1.77e-09)|Epithelial(33;3.92e-06)|all cancers(31;8.95e-06)			GGCCTCACCAGGCACTTGTTG	0.647													6	58	---	---	---	---	PASS
SLC44A2	57153	broad.mit.edu	37	19	10736965	10736965	+	Missense_Mutation	SNP	C	A	A			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:10736965C>A	uc002mpf.2	+	2	213	c.74C>A	c.(73-75)CCC>CAC	p.P25H	SLC44A2_uc002mpe.3_Missense_Mutation_p.P23H	NM_020428	NP_065161	Q8IWA5	CTL2_HUMAN	solute carrier family 44, member 2 isoform 1	25	Cytoplasmic (Potential).				positive regulation of I-kappaB kinase/NF-kappaB cascade	integral to membrane|plasma membrane	choline transmembrane transporter activity|signal transducer activity			ovary(1)	1			Epithelial(33;8.7e-06)|all cancers(31;2.77e-05)		Choline(DB00122)	TTCAAAGGACCCATTTACAAT	0.498													23	66	---	---	---	---	PASS
CCDC151	115948	broad.mit.edu	37	19	11533515	11533515	+	Silent	SNP	C	A	A			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:11533515C>A	uc002mrs.2	-	9	1274	c.1131G>T	c.(1129-1131)CGG>CGT	p.R377R	CCDC151_uc002mrr.2_Silent_p.R312R|CCDC151_uc010dxz.2_Silent_p.R317R	NM_145045	NP_659482	A5D8V7	CC151_HUMAN	coiled-coil domain containing 151	377										ovary(1)	1						GGGCCAGGAACCGCCGCACCA	0.667													5	13	---	---	---	---	PASS
EMR3	84658	broad.mit.edu	37	19	14748926	14748926	+	Missense_Mutation	SNP	G	T	T			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:14748926G>T	uc002mzi.3	-	11	1623	c.1475C>A	c.(1474-1476)ACT>AAT	p.T492N	EMR3_uc010dzp.2_Missense_Mutation_p.T440N|EMR3_uc010xnv.1_Missense_Mutation_p.T366N	NM_032571	NP_115960	Q9BY15	EMR3_HUMAN	egf-like module-containing mucin-like receptor	492	Extracellular (Potential).				neuropeptide signaling pathway	extracellular space|integral to membrane|plasma membrane	calcium ion binding|G-protein coupled receptor activity			ovary(5)|skin(1)	6						CCGATCAGCAGTTCCATAAAG	0.493													15	60	---	---	---	---	PASS
NDUFA13	51079	broad.mit.edu	37	19	19646197	19646197	+	Missense_Mutation	SNP	C	T	T			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:19646197C>T	uc010xqy.1	+	6	986	c.727C>T	c.(727-729)CGG>TGG	p.R243W	YJEFN3_uc002nmt.1_Missense_Mutation_p.R161W|YJEFN3_uc010ecf.1_Missense_Mutation_p.R111W|YJEFN3_uc002nmu.1_RNA|CILP2_uc002nmv.3_5'Flank|CILP2_uc002nmw.3_5'Flank	NM_015965	NP_057049	Q9P0J0	NDUAD_HUMAN	NADH dehydrogenase (ubiquinone) 1 alpha	Error:Variant_position_missing_in_Q9P0J0_after_alignment					apoptotic nuclear change|induction of apoptosis by extracellular signals|negative regulation of cell growth|negative regulation of transcription, DNA-dependent|negative regulation of translation|protein import into nucleus|reactive oxygen species metabolic process|respiratory electron transport chain	integral to membrane|mitochondrial respiratory chain complex I|nucleoplasm	ATP binding|NADH dehydrogenase (ubiquinone) activity|protein binding				0					NADH(DB00157)	CCTGCTGCATCGGGACCTGAC	0.627													6	22	---	---	---	---	PASS
UQCRFS1	7386	broad.mit.edu	37	19	29698533	29698533	+	Missense_Mutation	SNP	G	C	C			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:29698533G>C	uc002nsd.2	-	2	858	c.747C>G	c.(745-747)ATC>ATG	p.I249M		NM_006003	NP_005994	P47985	UCRI_HUMAN	ubiquinol-cytochrome c reductase, Rieske	249	Rieske.				respiratory electron transport chain	integral to membrane|mitochondrial respiratory chain complex III	2 iron, 2 sulfur cluster binding|metal ion binding|ubiquinol-cytochrome-c reductase activity				0	Breast(6;0.0545)|Esophageal squamous(110;0.239)		Lung(7;0.092)			GACCCAATCTGATCCTGCCAG	0.473													7	22	---	---	---	---	PASS
SLC7A9	11136	broad.mit.edu	37	19	33350756	33350756	+	Silent	SNP	C	G	G			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:33350756C>G	uc002ntv.3	-	8	981	c.864G>C	c.(862-864)GCG>GCC	p.A288A	SLC7A9_uc002ntt.3_RNA|SLC7A9_uc002ntu.3_Silent_p.A288A|SLC7A9_uc002ntw.3_Silent_p.A79A	NM_001126335	NP_001119807	P82251	BAT1_HUMAN	solute carrier family 7, member 9	288	Extracellular (Potential).				blood coagulation|cellular amino acid metabolic process|ion transport|leukocyte migration|protein complex assembly	integral to plasma membrane	L-cystine transmembrane transporter activity|neutral amino acid transmembrane transporter activity|peptide antigen binding			skin(1)	1	Esophageal squamous(110;0.137)				L-Cystine(DB00138)	CCACAGCCACCGCCTGGGACT	0.632													6	16	---	---	---	---	PASS
SBSN	374897	broad.mit.edu	37	19	36014407	36014407	+	3'UTR	SNP	C	A	A			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:36014407C>A	uc002oae.1	-	5					SBSN_uc002oad.1_3'UTR	NM_198538	NP_940940	Q6UWP8	SBSN_HUMAN	suprabasin isoform 2 precursor							extracellular region				ovary(1)	1	all_lung(56;1.62e-08)|Lung NSC(56;2.47e-08)|Esophageal squamous(110;0.162)		LUSC - Lung squamous cell carcinoma(66;0.0724)			AGGCCGGATGCCAGTTTAGGG	0.582													23	14	---	---	---	---	PASS
KIRREL2	84063	broad.mit.edu	37	19	36351210	36351210	+	Missense_Mutation	SNP	G	C	C			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:36351210G>C	uc002ocb.3	+	6	897	c.685G>C	c.(685-687)GTG>CTG	p.V229L	KIRREL2_uc002obz.3_Missense_Mutation_p.V229L|KIRREL2_uc002oca.3_Missense_Mutation_p.V179L|KIRREL2_uc002occ.3_Missense_Mutation_p.V176L|KIRREL2_uc002ocd.3_Missense_Mutation_p.V226L	NM_199180	NP_954649	Q6UWL6	KIRR2_HUMAN	kin of IRRE-like 2 isoform c	229	Ig-like C2-type 3.|Extracellular (Potential).				cell adhesion	integral to membrane|plasma membrane				ovary(1)|central_nervous_system(1)|skin(1)	3	all_lung(56;7.14e-07)|Lung NSC(56;1.12e-06)|Esophageal squamous(110;0.162)		LUSC - Lung squamous cell carcinoma(66;0.0515)			CCCCCCAGAGGTGACTCTGTC	0.532													14	52	---	---	---	---	PASS
RYR1	6261	broad.mit.edu	37	19	38948752	38948752	+	Missense_Mutation	SNP	T	C	C			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:38948752T>C	uc002oit.2	+	18	2117	c.1987T>C	c.(1987-1989)TTT>CTT	p.F663L	RYR1_uc002oiu.2_Missense_Mutation_p.F663L	NM_000540	NP_000531	P21817	RYR1_HUMAN	skeletal muscle ryanodine receptor isoform 1	663	Cytoplasmic.|B30.2/SPRY 1.				muscle contraction|release of sequestered calcium ion into cytosol|response to caffeine|response to hypoxia	cell cortex|cytosol|I band|integral to plasma membrane|junctional sarcoplasmic reticulum membrane|smooth endoplasmic reticulum|terminal cisterna	calcium ion binding|calmodulin binding|receptor activity|ryanodine-sensitive calcium-release channel activity			ovary(7)|pancreas(2)|breast(1)|central_nervous_system(1)|skin(1)	12	all_cancers(60;7.91e-06)		Lung(45;0.00172)|LUSC - Lung squamous cell carcinoma(53;0.00272)		Dantrolene(DB01219)	CAAATGGTACTTTGAGGTGAT	0.617													10	40	---	---	---	---	PASS
RYR1	6261	broad.mit.edu	37	19	38994876	38994876	+	Missense_Mutation	SNP	A	G	G			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:38994876A>G	uc002oit.2	+	50	8073	c.7943A>G	c.(7942-7944)TAT>TGT	p.Y2648C	RYR1_uc002oiu.2_Missense_Mutation_p.Y2648C|RYR1_uc002oiv.1_5'UTR	NM_000540	NP_000531	P21817	RYR1_HUMAN	skeletal muscle ryanodine receptor isoform 1	2648	Cytoplasmic.|6 X approximate repeats.				muscle contraction|release of sequestered calcium ion into cytosol|response to caffeine|response to hypoxia	cell cortex|cytosol|I band|integral to plasma membrane|junctional sarcoplasmic reticulum membrane|smooth endoplasmic reticulum|terminal cisterna	calcium ion binding|calmodulin binding|receptor activity|ryanodine-sensitive calcium-release channel activity			ovary(7)|pancreas(2)|breast(1)|central_nervous_system(1)|skin(1)	12	all_cancers(60;7.91e-06)		Lung(45;0.00172)|LUSC - Lung squamous cell carcinoma(53;0.00272)		Dantrolene(DB01219)	ACCAACCACTATGAGCGCTGT	0.607													5	22	---	---	---	---	PASS
IL28B	282617	broad.mit.edu	37	19	39734686	39734686	+	Missense_Mutation	SNP	G	T	T			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:39734686G>T	uc010xut.1	-	3	374	c.370C>A	c.(370-372)CAC>AAC	p.H124N	IL28B_uc010xuu.1_Missense_Mutation_p.H124N	NM_172139	NP_742151	Q8IZI9	IL28B_HUMAN	interleukin 28B	124					response to virus	extracellular space	cytokine activity				0	all_cancers(60;2.81e-07)|all_lung(34;7.81e-08)|Lung NSC(34;9.29e-08)|all_epithelial(25;3.9e-07)|Ovarian(47;0.0315)		Epithelial(26;1.55e-27)|all cancers(26;1.41e-24)|Lung(45;0.000278)|LUSC - Lung squamous cell carcinoma(53;0.000335)			TGCAGGGTGTGAAGGGGCTGG	0.667													16	39	---	---	---	---	PASS
PAF1	54623	broad.mit.edu	37	19	39880797	39880797	+	Nonsense_Mutation	SNP	C	A	A			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:39880797C>A	uc002old.2	-	3	257	c.82G>T	c.(82-84)GGA>TGA	p.G28*	PAF1_uc002ole.1_Nonsense_Mutation_p.G18*|PAF1_uc010xuv.1_RNA|MED29_uc010xuw.1_5'Flank|MED29_uc002olf.2_5'Flank|MED29_uc010xux.1_5'Flank	NM_019088	NP_061961	Q8N7H5	PAF1_HUMAN	Paf1, RNA polymerase II associated factor,	28					histone H2B ubiquitination|histone monoubiquitination|regulation of transcription, DNA-dependent|transcription, DNA-dependent	Cdc73/Paf1 complex	protein binding			pancreas(1)	1	all_cancers(60;9.14e-07)|all_lung(34;4.03e-08)|Lung NSC(34;4.66e-08)|all_epithelial(25;1.88e-06)|Ovarian(47;0.0512)		Epithelial(26;9.6e-28)|all cancers(26;9.14e-25)|Lung(45;0.000168)|LUSC - Lung squamous cell carcinoma(53;0.000199)			CAGACCACTCCAGACCTAGGA	0.597													5	61	---	---	---	---	PASS
SELV	348303	broad.mit.edu	37	19	40006605	40006605	+	Silent	SNP	C	G	G			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:40006605C>G	uc010xvc.1	+	1	853	c.753C>G	c.(751-753)CCC>CCG	p.P251P		NM_182704	NP_874363	P59797	SELV_HUMAN	selenoprotein V	251					cell redox homeostasis		selenium binding				0	all_cancers(60;4.04e-06)|all_lung(34;1.77e-07)|Lung NSC(34;2.09e-07)|all_epithelial(25;1.13e-05)|Ovarian(47;0.159)		Epithelial(26;8.61e-26)|all cancers(26;2.76e-23)|LUSC - Lung squamous cell carcinoma(53;0.000657)			AAACCTTCCCCTCCTCCAGCG	0.627													5	26	---	---	---	---	PASS
B3GNT8	374907	broad.mit.edu	37	19	41931914	41931914	+	Missense_Mutation	SNP	A	C	C			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:41931914A>C	uc002oqs.2	-	3	1224	c.770T>G	c.(769-771)CTG>CGG	p.L257R	CYP2F1_uc010xvw.1_Intron|B3GNT8_uc002oqt.1_Intron	NM_198540	NP_940942	Q7Z7M8	B3GN8_HUMAN	UDP-GlcNAc:betaGal	257	Lumenal (Potential).				poly-N-acetyllactosamine biosynthetic process|protein glycosylation	Golgi membrane|integral to membrane	galactosyltransferase activity|protein N-acetylglucosaminyltransferase activity				0						CAGGTGAGCCAGCAGGGCAGG	0.652													8	22	---	---	---	---	PASS
IRGC	56269	broad.mit.edu	37	19	44223961	44223961	+	Silent	SNP	G	C	C			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:44223961G>C	uc002oxh.2	+	2	1398	c.1251G>C	c.(1249-1251)GTG>GTC	p.V417V		NM_019612	NP_062558	Q6NXR0	IIGP5_HUMAN	immunity-related GTPase family, cinema	417						membrane	GTP binding|hydrolase activity, acting on acid anhydrides			ovary(1)|central_nervous_system(1)|skin(1)	3		Prostate(69;0.0435)				GCTTGGAAGTGGCCAGTGACA	0.637													20	12	---	---	---	---	PASS
RSPH6A	81492	broad.mit.edu	37	19	46308061	46308061	+	Missense_Mutation	SNP	C	T	T			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:46308061C>T	uc002pdm.2	-	3	1245	c.1102G>A	c.(1102-1104)GAG>AAG	p.E368K	RSPH6A_uc002pdl.2_Missense_Mutation_p.E104K	NM_030785	NP_110412	Q9H0K4	RSH6A_HUMAN	radial spokehead-like 1	368	Glu-rich.					intracellular				ovary(1)|central_nervous_system(1)	2						tcctctgcctcctcctcgccc	0.353													21	19	---	---	---	---	PASS
CLEC11A	6320	broad.mit.edu	37	19	51226889	51226889	+	Missense_Mutation	SNP	C	T	T			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:51226889C>T	uc002psy.2	+	1	285	c.107C>T	c.(106-108)GCC>GTC	p.A36V		NM_002975	NP_002966	Q9Y240	CLC11_HUMAN	stem cell growth factor precursor	36					positive regulation of cell proliferation	cytoplasm|extracellular region	growth factor activity|sugar binding			ovary(1)	1		all_neural(266;0.057)		OV - Ovarian serous cystadenocarcinoma(262;0.00641)|GBM - Glioblastoma multiforme(134;0.028)		tggggaggtgcccaggaggag	0.413													8	27	---	---	---	---	PASS
NKG7	4818	broad.mit.edu	37	19	51875756	51875756	+	Missense_Mutation	SNP	C	A	A			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:51875756C>A	uc002pwj.2	-	1	205	c.34G>T	c.(34-36)GGC>TGC	p.G12C	NKG7_uc002pwk.2_Missense_Mutation_p.G12C	NM_005601	NP_005592	Q16617	NKG7_HUMAN	natural killer cell group 7 sequence	12	Helical; (Potential).					integral to plasma membrane				central_nervous_system(1)	1		all_neural(266;0.0199)		GBM - Glioblastoma multiforme(134;0.000211)|OV - Ovarian serous cystadenocarcinoma(262;0.00979)		CCCAGGGAGCCCCCCAGCAGG	0.478													27	16	---	---	---	---	PASS
ZNF615	284370	broad.mit.edu	37	19	52497492	52497492	+	Silent	SNP	C	T	T			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:52497492C>T	uc002pye.1	-	6	1129	c.837G>A	c.(835-837)CAG>CAA	p.Q279Q	ZNF615_uc002pyf.1_Silent_p.Q290Q|ZNF615_uc002pyg.1_Silent_p.Q171Q|ZNF615_uc002pyh.1_Silent_p.Q290Q|ZNF615_uc010epi.1_Silent_p.Q286Q|ZNF615_uc010ydg.1_Silent_p.Q284Q	NM_198480	NP_940882	Q8N8J6	ZN615_HUMAN	zinc finger protein 615	279	C2H2-type 3.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(4)|skin(1)	5		all_neural(266;0.117)		GBM - Glioblastoma multiforme(134;0.00142)|OV - Ovarian serous cystadenocarcinoma(262;0.019)		TATGAGTTTTCTGATGTATAT	0.403													16	78	---	---	---	---	PASS
ZNF331	55422	broad.mit.edu	37	19	54080277	54080277	+	Missense_Mutation	SNP	G	T	T			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:54080277G>T	uc002qbx.1	+	7	1897	c.463G>T	c.(463-465)GGT>TGT	p.G155C	ZNF331_uc002qby.1_Missense_Mutation_p.G155C|ZNF331_uc002qbz.1_Missense_Mutation_p.G155C|ZNF331_uc002qca.1_Missense_Mutation_p.G155C|ZNF331_uc010eqr.1_Missense_Mutation_p.G155C|ZNF331_uc002qcb.1_Missense_Mutation_p.G155C|ZNF331_uc002qcc.1_Missense_Mutation_p.G155C|ZNF331_uc002qcd.1_Missense_Mutation_p.G155C	NM_018555	NP_061025	Q9NQX6	ZN331_HUMAN	zinc finger protein 331	155					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			skin(3)|upper_aerodigestive_tract(1)|ovary(1)|lung(1)	6				GBM - Glioblastoma multiforme(134;0.00555)		AATCCATACTGGTGAGAAACC	0.413			T	?	follicular thyroid adenoma								8	151	---	---	---	---	PASS
CACNG6	59285	broad.mit.edu	37	19	54515268	54515268	+	Missense_Mutation	SNP	T	C	C			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:54515268T>C	uc002qct.2	+	4	1198	c.608T>C	c.(607-609)GTC>GCC	p.V203A	CACNG6_uc002qcu.2_Missense_Mutation_p.V157A|CACNG6_uc002qcv.2_Missense_Mutation_p.V132A	NM_145814	NP_665813	Q9BXT2	CCG6_HUMAN	voltage-dependent calcium channel gamma-6	203						voltage-gated calcium channel complex	voltage-gated calcium channel activity			ovary(2)	2	all_cancers(19;0.0128)|all_epithelial(19;0.00564)|all_lung(19;0.031)|Lung NSC(19;0.0358)|Ovarian(34;0.19)			GBM - Glioblastoma multiforme(134;0.168)		CTGCAGAGAGTCAGCCCGGAG	0.711													5	24	---	---	---	---	PASS
LILRA4	23547	broad.mit.edu	37	19	54848764	54848764	+	Missense_Mutation	SNP	G	A	A			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:54848764G>A	uc002qfj.2	-	5	916	c.859C>T	c.(859-861)CGC>TGC	p.R287C	LILRA4_uc002qfi.2_Missense_Mutation_p.R221C	NM_012276	NP_036408	P59901	LIRA4_HUMAN	leukocyte immunoglobulin-like receptor subfamily	287	Extracellular (Potential).|Ig-like C2-type 3.					integral to membrane	receptor activity			upper_aerodigestive_tract(1)|central_nervous_system(1)	2	Ovarian(34;0.19)			GBM - Glioblastoma multiforme(193;0.0565)		CCGTAGGAGCGGCTCACAGGG	0.682													13	15	---	---	---	---	PASS
LILRB4	11006	broad.mit.edu	37	19	55179359	55179359	+	Silent	SNP	C	T	T			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:55179359C>T	uc002qgp.2	+	12	1598	c.1236C>T	c.(1234-1236)TAC>TAT	p.Y412Y	LILRB4_uc002qgq.2_Silent_p.Y411Y|LILRB4_uc002qgr.2_Silent_p.Y454Y|LILRB4_uc010ert.2_Silent_p.Y453Y|LILRB4_uc010eru.2_Silent_p.Y442Y	NM_006847	NP_006838	Q8NHJ6	LIRB4_HUMAN	leukocyte immunoglobulin-like receptor,	412	Cytoplasmic (Potential).|ITIM motif 2.					integral to membrane|plasma membrane	antigen binding|receptor activity	p.Y412Y(1)		ovary(3)	3				GBM - Glioblastoma multiforme(193;0.035)		ATGTGACCTACGCCCAGCTGC	0.647													10	56	---	---	---	---	PASS
PTPRH	5794	broad.mit.edu	37	19	55708523	55708523	+	Missense_Mutation	SNP	T	A	A			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:55708523T>A	uc002qjq.2	-	9	2025	c.1952A>T	c.(1951-1953)GAC>GTC	p.D651V	PTPRH_uc010esv.2_Missense_Mutation_p.D473V|PTPRH_uc002qjs.2_Missense_Mutation_p.D658V	NM_002842	NP_002833	Q9HD43	PTPRH_HUMAN	protein tyrosine phosphatase, receptor type, H	651	Extracellular (Potential).|Fibronectin type-III 7.				apoptosis	cytoplasm|integral to plasma membrane	protein binding|transmembrane receptor protein tyrosine phosphatase activity			ovary(2)|large_intestine(1)|skin(1)	4		Renal(1328;0.245)	BRCA - Breast invasive adenocarcinoma(297;0.209)	GBM - Glioblastoma multiforme(193;0.0479)		ACTGGCTACGTCATTCCTCTC	0.562													12	13	---	---	---	---	PASS
ZNF586	54807	broad.mit.edu	37	19	58291011	58291011	+	Missense_Mutation	SNP	A	C	C			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:58291011A>C	uc002qqd.2	+	3	1242	c.1056A>C	c.(1054-1056)AAA>AAC	p.K352N	ZNF587_uc002qqb.2_Intron|ZNF586_uc002qqe.2_3'UTR|ZNF586_uc010euh.2_Missense_Mutation_p.K309N|ZNF586_uc002qqf.1_Intron	NM_017652	NP_060122	Q9NXT0	ZN586_HUMAN	zinc finger protein 586	352	C2H2-type 10.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(2)	2		Colorectal(82;5.46e-05)|all_neural(62;0.0218)|Breast(46;0.0389)|Ovarian(87;0.0443)|Renal(1328;0.157)		UCEC - Uterine corpus endometrioid carcinoma (67;0.168)|GBM - Glioblastoma multiforme(193;0.026)		ACTGTGGGAAATCCTTTGCTG	0.433													13	72	---	---	---	---	PASS
ZSCAN1	284312	broad.mit.edu	37	19	58565188	58565188	+	Silent	SNP	C	T	T			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:58565188C>T	uc002qrc.1	+	6	1243	c.996C>T	c.(994-996)AAC>AAT	p.N332N		NM_182572	NP_872378	Q8NBB4	ZSCA1_HUMAN	zinc finger and SCAN domain containing 1	332	C2H2-type 2.				viral reproduction	nucleus	DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(2)	2		Colorectal(82;5.46e-05)|all_neural(62;0.0182)|Breast(46;0.0389)|Ovarian(87;0.0443)|Renal(1328;0.157)		UCEC - Uterine corpus endometrioid carcinoma (67;0.168)|GBM - Glioblastoma multiforme(193;0.0152)		TCCTGCACAACTCCGTCCTCA	0.637													27	31	---	---	---	---	PASS
ANKRD5	63926	broad.mit.edu	37	20	10036305	10036305	+	Silent	SNP	C	G	G			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr20:10036305C>G	uc002wno.2	+	11	2721	c.2328C>G	c.(2326-2328)ACC>ACG	p.T776T	uc002wnn.1_Intron|ANKRD5_uc002wnp.2_Silent_p.T776T|ANKRD5_uc010gbz.2_Silent_p.T587T	NM_022096	NP_071379	Q9NU02	ANKR5_HUMAN	ankyrin repeat domain protein 5	776							calcium ion binding			ovary(1)|breast(1)	2						CCTTGAAGACCTAAGTCATAG	0.433													8	35	---	---	---	---	PASS
SPTLC3	55304	broad.mit.edu	37	20	13055086	13055086	+	Missense_Mutation	SNP	C	A	A			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr20:13055086C>A	uc002wod.1	+	4	837	c.548C>A	c.(547-549)ACA>AAA	p.T183K		NM_018327	NP_060797	Q9NUV7	SPTC3_HUMAN	serine palmitoyltransferase, long chain base	183					sphingoid biosynthetic process	integral to membrane|serine C-palmitoyltransferase complex	pyridoxal phosphate binding|serine C-palmitoyltransferase activity|transferase activity, transferring nitrogenous groups				0					Pyridoxal Phosphate(DB00114)	TCTATGAGGACAATAAAGGAT	0.438													18	69	---	---	---	---	PASS
C20orf26	26074	broad.mit.edu	37	20	20177290	20177290	+	Missense_Mutation	SNP	G	T	T			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr20:20177290G>T	uc002wru.2	+	16	1743	c.1667G>T	c.(1666-1668)GGG>GTG	p.G556V	C20orf26_uc010zse.1_Missense_Mutation_p.G536V	NM_015585	NP_056400	Q8NHU2	CT026_HUMAN	hypothetical protein LOC26074	556										ovary(3)|pancreas(1)	4				READ - Rectum adenocarcinoma(2;0.171)		GAAGAACACGGGCACATGCAT	0.468													20	59	---	---	---	---	PASS
CST11	140880	broad.mit.edu	37	20	23432461	23432461	+	Missense_Mutation	SNP	G	A	A			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr20:23432461G>A	uc002wtf.1	-	2	359	c.325C>T	c.(325-327)CTT>TTT	p.L109F	CST11_uc002wtg.1_Intron	NM_130794	NP_570612	Q9H112	CST11_HUMAN	cystatin 11 isoform 1 precursor	109					defense response to bacterium	cytoplasm|nucleus	cysteine-type endopeptidase inhibitor activity				0	Colorectal(13;0.0431)|Lung NSC(19;0.235)					ACCTTGTGAAGCTCCCTTTCC	0.463													7	22	---	---	---	---	PASS
TMEM90B	79953	broad.mit.edu	37	20	24523810	24523810	+	Missense_Mutation	SNP	T	C	C			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr20:24523810T>C	uc002wtw.1	+	2	710	c.77T>C	c.(76-78)ATT>ACT	p.I26T		NM_024893	NP_079169	Q9H7V2	SYNG1_HUMAN	transmembrane protein 90B	26	Cytoplasmic (Potential).				response to biotic stimulus	early endosome membrane|integral to membrane|plasma membrane					0						AATGGTTTAATTAACACCAGA	0.547													20	77	---	---	---	---	PASS
SPAG4	6676	broad.mit.edu	37	20	34207489	34207489	+	Intron	SNP	G	T	T			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr20:34207489G>T	uc002xdb.1	+						SPAG4_uc010zvi.1_Intron	NM_003116	NP_003107	Q9NPE6	SPAG4_HUMAN	sperm associated antigen 4						spermatogenesis	cilium|flagellar axoneme|integral to membrane	structural molecule activity				0	Lung NSC(9;0.0053)|all_lung(11;0.00785)		BRCA - Breast invasive adenocarcinoma(18;0.0127)			TGGTCCCTCCGCCCGCCTGCA	0.473													3	13	---	---	---	---	PASS
KIAA0406	9675	broad.mit.edu	37	20	36642218	36642218	+	Missense_Mutation	SNP	T	C	C			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr20:36642218T>C	uc002xhl.2	-	3	210	c.1A>G	c.(1-3)ATG>GTG	p.M1V	KIAA0406_uc002xhm.2_Missense_Mutation_p.M1V	NM_014657	NP_055472	O43156	TTI1_HUMAN	hypothetical protein LOC9675	1							binding				0		Myeloproliferative disorder(115;0.00874)				AAAACTGCCATTGTGCAGCAG	0.473													33	84	---	---	---	---	PASS
BPI	671	broad.mit.edu	37	20	36946843	36946843	+	Missense_Mutation	SNP	C	T	T			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr20:36946843C>T	uc002xib.2	+	6	703	c.641C>T	c.(640-642)TCC>TTC	p.S214F		NM_001725	NP_001716	P17213	BPI_HUMAN	bactericidal/permeability-increasing protein	214					defense response to bacterium|negative regulation of interleukin-6 production|negative regulation of interleukin-8 production|negative regulation of macrophage activation|negative regulation of tumor necrosis factor production	extracellular region|integral to plasma membrane	lipid binding|lipopolysaccharide binding			ovary(4)	4		Myeloproliferative disorder(115;0.00878)				AATTCTGTATCCTCCGAGCTG	0.408													18	97	---	---	---	---	PASS
RALGAPB	57148	broad.mit.edu	37	20	37146564	37146564	+	Silent	SNP	C	G	G	rs148846201	by1000genomes	TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr20:37146564C>G	uc002xiw.2	+	9	1595	c.1338C>G	c.(1336-1338)CTC>CTG	p.L446L	RALGAPB_uc010zvz.1_Silent_p.L446L|RALGAPB_uc002xix.2_Silent_p.L446L|RALGAPB_uc002xiy.1_Silent_p.L446L|RALGAPB_uc002xiz.2_Silent_p.L224L|RALGAPB_uc002xja.1_Silent_p.L173L	NM_020336	NP_065069	Q86X10	RLGPB_HUMAN	Ral GTPase activating protein, beta subunit	446					activation of Ral GTPase activity	intracellular	protein heterodimerization activity|Ral GTPase activator activity			pancreas(1)|skin(1)	2						TCTTGAATCTCTTTGGATCAT	0.443													10	42	---	---	---	---	PASS
ADNP	23394	broad.mit.edu	37	20	49509695	49509695	+	Missense_Mutation	SNP	G	A	A			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr20:49509695G>A	uc002xvt.1	-	5	1901	c.1556C>T	c.(1555-1557)TCA>TTA	p.S519L	ADNP_uc002xvu.1_Missense_Mutation_p.S519L	NM_015339	NP_056154	Q9H2P0	ADNP_HUMAN	activity-dependent neuroprotector	519	C2H2-type 7.					nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(2)	2						ATTGAAAGTTGAACGGCAATA	0.393													18	146	---	---	---	---	PASS
PHACTR3	116154	broad.mit.edu	37	20	58330363	58330363	+	Missense_Mutation	SNP	C	T	T	rs145693547		TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr20:58330363C>T	uc002yau.2	+	4	952	c.485C>T	c.(484-486)ACG>ATG	p.T162M	PHACTR3_uc002yat.2_Missense_Mutation_p.T159M|PHACTR3_uc010zzw.1_Missense_Mutation_p.T121M|PHACTR3_uc002yav.2_Missense_Mutation_p.T121M|PHACTR3_uc002yaw.2_Missense_Mutation_p.T121M|PHACTR3_uc002yax.2_Missense_Mutation_p.T121M	NM_080672	NP_542403	Q96KR7	PHAR3_HUMAN	phosphatase and actin regulator 3 isoform 1	162						nuclear matrix	actin binding|protein phosphatase inhibitor activity			ovary(2)|pancreas(1)	3	all_lung(29;0.00344)		BRCA - Breast invasive adenocarcinoma(7;2.76e-09)			GCCACTGGGACGGACCAGGTC	0.607													11	8	---	---	---	---	PASS
TPTE	7179	broad.mit.edu	37	21	10906916	10906916	+	Nonsense_Mutation	SNP	C	A	A			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr21:10906916C>A	uc002yip.1	-	24	2013	c.1645G>T	c.(1645-1647)GGA>TGA	p.G549*	TPTE_uc002yis.1_RNA|TPTE_uc002yiq.1_Nonsense_Mutation_p.G531*|TPTE_uc002yir.1_Nonsense_Mutation_p.G511*|TPTE_uc010gkv.1_Nonsense_Mutation_p.G411*	NM_199261	NP_954870	P56180	TPTE_HUMAN	transmembrane phosphatase with tensin homology	549					signal transduction	integral to membrane	ion channel activity|protein tyrosine phosphatase activity|protein tyrosine/serine/threonine phosphatase activity			ovary(2)|lung(1)|breast(1)|skin(1)	5			Colorectal(6;3.44e-05)|COAD - Colon adenocarcinoma(6;0.00727)|READ - Rectum adenocarcinoma(6;0.0723)	UCEC - Uterine corpus endometrioid carcinoma (6;0.0974)|all cancers(6;2.54e-22)|Epithelial(6;4.21e-19)|OV - Ovarian serous cystadenocarcinoma(6;1.16e-09)|BRCA - Breast invasive adenocarcinoma(6;7.72e-05)|Lung(8;0.000189)|LUSC - Lung squamous cell carcinoma(6;0.00379)|GBM - Glioblastoma multiforme(6;0.00391)|Kidney(17;0.0773)|LUAD - Lung adenocarcinoma(8;0.247)		TAATCGGATCCAGCTACAACA	0.393													4	37	---	---	---	---	PASS
TPTE	7179	broad.mit.edu	37	21	10906937	10906937	+	Missense_Mutation	SNP	T	A	A			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr21:10906937T>A	uc002yip.1	-	24	1992	c.1624A>T	c.(1624-1626)ACT>TCT	p.T542S	TPTE_uc002yis.1_RNA|TPTE_uc002yiq.1_Missense_Mutation_p.T524S|TPTE_uc002yir.1_Missense_Mutation_p.T504S|TPTE_uc010gkv.1_Missense_Mutation_p.T404S	NM_199261	NP_954870	P56180	TPTE_HUMAN	transmembrane phosphatase with tensin homology	542					signal transduction	integral to membrane	ion channel activity|protein tyrosine phosphatase activity|protein tyrosine/serine/threonine phosphatase activity			ovary(2)|lung(1)|breast(1)|skin(1)	5			Colorectal(6;3.44e-05)|COAD - Colon adenocarcinoma(6;0.00727)|READ - Rectum adenocarcinoma(6;0.0723)	UCEC - Uterine corpus endometrioid carcinoma (6;0.0974)|all cancers(6;2.54e-22)|Epithelial(6;4.21e-19)|OV - Ovarian serous cystadenocarcinoma(6;1.16e-09)|BRCA - Breast invasive adenocarcinoma(6;7.72e-05)|Lung(8;0.000189)|LUSC - Lung squamous cell carcinoma(6;0.00379)|GBM - Glioblastoma multiforme(6;0.00391)|Kidney(17;0.0773)|LUAD - Lung adenocarcinoma(8;0.247)		TCACTGGAAGTCATTTTCTCG	0.383													6	44	---	---	---	---	PASS
KRTAP11-1	337880	broad.mit.edu	37	21	32253731	32253731	+	Missense_Mutation	SNP	C	A	A			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr21:32253731C>A	uc002yov.2	-	1	144	c.113G>T	c.(112-114)GGC>GTC	p.G38V		NM_175858	NP_787054	Q8IUC1	KR111_HUMAN	keratin associated protein 11-1	38						keratin filament	structural molecule activity			pancreas(1)	1						ACAGATGCCGCCCAGGCAGTC	0.567													7	47	---	---	---	---	PASS
GART	2618	broad.mit.edu	37	21	34904752	34904752	+	Missense_Mutation	SNP	G	T	T			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr21:34904752G>T	uc002yrx.2	-	5	562	c.427C>A	c.(427-429)CCT>ACT	p.P143T	GART_uc002yrz.2_Missense_Mutation_p.P143T|GART_uc010gmd.2_5'UTR|GART_uc002yry.2_Missense_Mutation_p.P143T|GART_uc002ysa.2_Missense_Mutation_p.P143T	NM_000819	NP_000810	P22102	PUR2_HUMAN	phosphoribosylglycinamide formyltransferase,	143	ATP (By similarity).|ATP-grasp.				'de novo' IMP biosynthetic process|purine base biosynthetic process	cytosol	ATP binding|metal ion binding|methyltransferase activity|phosphoribosylamine-glycine ligase activity|phosphoribosylformylglycinamidine cyclo-ligase activity|phosphoribosylglycinamide formyltransferase activity|protein binding			ovary(1)	1					Pemetrexed(DB00642)	ACCAAAGCAGGGAAGTCTGCA	0.423													9	165	---	---	---	---	PASS
DYRK1A	1859	broad.mit.edu	37	21	38877629	38877629	+	Missense_Mutation	SNP	G	C	C			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr21:38877629G>C	uc002ywk.2	+	9	1358	c.1283G>C	c.(1282-1284)GGA>GCA	p.G428A	DYRK1A_uc002ywi.2_Missense_Mutation_p.G428A|DYRK1A_uc002ywj.2_Missense_Mutation_p.G419A|DYRK1A_uc002ywl.2_Missense_Mutation_p.G428A|DYRK1A_uc002ywm.2_Missense_Mutation_p.G428A|DYRK1A_uc011aei.1_Missense_Mutation_p.G189A	NM_001396	NP_001387	Q13627	DYR1A_HUMAN	dual-specificity tyrosine-(Y)-phosphorylation	428	Protein kinase.				nervous system development|peptidyl-tyrosine phosphorylation|protein autophosphorylation	nuclear speck	ATP binding|non-membrane spanning protein tyrosine kinase activity|protein binding|protein self-association|protein serine/threonine kinase activity			ovary(2)|lung(1)|breast(1)	4						AACATTCTTGGAGTGGAAACA	0.453													10	33	---	---	---	---	PASS
ZNF295	49854	broad.mit.edu	37	21	43412128	43412128	+	Missense_Mutation	SNP	G	A	A			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr21:43412128G>A	uc002zab.3	-	3	2291	c.2077C>T	c.(2077-2079)CCA>TCA	p.P693S	ZNF295_uc002yzz.3_Intron|ZNF295_uc002yzy.3_Missense_Mutation_p.P693S|ZNF295_uc002zaa.3_Missense_Mutation_p.P693S	NM_001098402	NP_001091872	Q9ULJ3	ZN295_HUMAN	zinc finger protein 295 isoform L	693					negative regulation of transcription, DNA-dependent|regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus|nucleus	methyl-CpG binding|protein binding|zinc ion binding			ovary(1)|central_nervous_system(1)|skin(1)	3						TTTTCTCCTGGATGCATTTTT	0.433													26	161	---	---	---	---	PASS
UBASH3A	53347	broad.mit.edu	37	21	43867227	43867227	+	Missense_Mutation	SNP	G	C	C			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr21:43867227G>C	uc002zbe.2	+	15	1945	c.1909G>C	c.(1909-1911)GTG>CTG	p.V637L	UBASH3A_uc002zbf.2_Missense_Mutation_p.V599L|UBASH3A_uc010gpc.2_RNA|UBASH3A_uc010gpd.2_RNA|UBASH3A_uc010gpe.2_Missense_Mutation_p.W526C	NM_018961	NP_061834	P57075	UBS3A_HUMAN	ubiquitin associated and SH3 domain containing,	637	Phosphatase-like.					cytosol|nucleus				ovary(3)	3						ATGGGAGTTGGTGAACCCACC	0.473													31	105	---	---	---	---	PASS
ITGB2	3689	broad.mit.edu	37	21	46309233	46309233	+	Missense_Mutation	SNP	C	A	A			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr21:46309233C>A	uc002zgd.2	-	12	1879	c.1835G>T	c.(1834-1836)TGC>TTC	p.C612F	ITGB2_uc002zge.2_Missense_Mutation_p.C612F|ITGB2_uc002zgf.3_Missense_Mutation_p.C612F|ITGB2_uc011afl.1_Missense_Mutation_p.C534F|ITGB2_uc010gpw.2_Missense_Mutation_p.C555F|ITGB2_uc002zgg.2_Missense_Mutation_p.C612F	NM_001127491	NP_001120963	P05107	ITB2_HUMAN	integrin, beta 2 precursor	612	Extracellular (Potential).|Cysteine-rich tandem repeats.|IV.				apoptosis|blood coagulation|cell-cell signaling|cell-matrix adhesion|inflammatory response|integrin-mediated signaling pathway|leukocyte cell-cell adhesion|multicellular organismal development|neutrophil chemotaxis|regulation of cell shape|regulation of immune response|regulation of peptidyl-tyrosine phosphorylation	integrin complex	glycoprotein binding|protein kinase binding|receptor activity			ovary(4)|central_nervous_system(3)|breast(2)	9				Colorectal(79;0.0669)	Simvastatin(DB00641)	GCACTCCTGGCACAGAGGCAG	0.672													3	13	---	---	---	---	PASS
IL17RA	23765	broad.mit.edu	37	22	17583061	17583061	+	Missense_Mutation	SNP	A	T	T			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr22:17583061A>T	uc002zly.2	+	7	764	c.631A>T	c.(631-633)ACC>TCC	p.T211S	IL17RA_uc010gqt.2_Missense_Mutation_p.T211S	NM_014339	NP_055154	Q96F46	I17RA_HUMAN	interleukin 17A receptor precursor	211	Extracellular (Potential).				fibroblast activation|positive regulation of interleukin-23 production	integral to plasma membrane	interleukin-17 receptor activity			skin(2)	2		all_epithelial(15;0.0181)|Lung NSC(13;0.109)|all_lung(157;0.132)		Colorectal(9;0.241)		CACCGTGGAGACCCTGGAGGC	0.587													5	44	---	---	---	---	PASS
MYO18B	84700	broad.mit.edu	37	22	26270319	26270319	+	Missense_Mutation	SNP	A	G	G			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr22:26270319A>G	uc003abz.1	+	23	4268	c.4018A>G	c.(4018-4020)ATC>GTC	p.I1340V	MYO18B_uc003aca.1_Missense_Mutation_p.I1221V|MYO18B_uc010guy.1_Missense_Mutation_p.I1222V|MYO18B_uc010guz.1_Missense_Mutation_p.I1221V|MYO18B_uc011aka.1_Missense_Mutation_p.I494V|MYO18B_uc011akb.1_Missense_Mutation_p.I853V	NM_032608	NP_115997	Q8IUG5	MY18B_HUMAN	myosin XVIIIB	1340	IQ.					nucleus|sarcomere|unconventional myosin complex	actin binding|ATP binding|motor activity			ovary(5)|central_nervous_system(3)|large_intestine(2)|breast(2)	12						ATCTCAGAGCATCGTTCTCTT	0.537													18	42	---	---	---	---	PASS
SEZ6L	23544	broad.mit.edu	37	22	26707934	26707934	+	Intron	SNP	C	A	A			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr22:26707934C>A	uc003acb.2	+						SEZ6L_uc003acc.2_Intron|SEZ6L_uc011akc.1_Intron|SEZ6L_uc003acd.2_Intron|SEZ6L_uc011akd.1_Intron|SEZ6L_uc003ace.2_Intron|SEZ6L_uc003acf.1_Intron|SEZ6L_uc010gvc.1_Intron	NM_021115	NP_066938	Q9BYH1	SE6L1_HUMAN	seizure related 6 homolog (mouse)-like							endoplasmic reticulum membrane|integral to membrane				ovary(4)|central_nervous_system(1)|pancreas(1)	6						CAGAGGTGAGCGGATCCACAA	0.607													14	35	---	---	---	---	PASS
ASCC2	84164	broad.mit.edu	37	22	30189468	30189468	+	Silent	SNP	C	T	T			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr22:30189468C>T	uc003agr.2	-	17	1905	c.1800G>A	c.(1798-1800)CAG>CAA	p.Q600Q	ASCC2_uc003ags.2_RNA|ASCC2_uc003agt.2_Silent_p.Q600Q|ASCC2_uc011akr.1_Silent_p.Q524Q	NM_032204	NP_115580	Q9H1I8	ASCC2_HUMAN	activating signal cointegrator 1 complex subunit	600					regulation of transcription, DNA-dependent|transcription, DNA-dependent						0			OV - Ovarian serous cystadenocarcinoma(5;0.000103)|Epithelial(10;0.0169)|all cancers(5;0.0259)			TCTCGCCTGGCTGCAGTGGCA	0.607													3	20	---	---	---	---	PASS
SYN3	8224	broad.mit.edu	37	22	33260987	33260987	+	Missense_Mutation	SNP	G	T	T			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr22:33260987G>T	uc003amx.2	-	5	785	c.626C>A	c.(625-627)TCT>TAT	p.S209Y	SYN3_uc003amy.2_Missense_Mutation_p.S209Y|SYN3_uc003amz.2_Missense_Mutation_p.S208Y	NM_003490	NP_003481	O14994	SYN3_HUMAN	synapsin III isoform IIIa	209	C; actin-binding and synaptic-vesicle binding.				neurotransmitter secretion	cell junction|synaptic vesicle membrane	ATP binding|ligase activity			skin(1)	1						AATGAGCTGAGAGAACTAGGA	0.453													7	169	---	---	---	---	PASS
NCF4	4689	broad.mit.edu	37	22	37268475	37268475	+	Intron	SNP	C	T	T			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr22:37268475C>T	uc003apy.3	+						NCF4_uc003apz.3_Intron	NM_000631	NP_000622	Q15080	NCF4_HUMAN	neutrophil cytosolic factor 4 isoform 1						cell communication|immune response|oxidation-reduction process	cytosol|NADPH oxidase complex	phosphatidylinositol binding|protein dimerization activity			ovary(1)	1						gaggtgagttcagaagtgagg	0.184													10	34	---	---	---	---	PASS
TST	7263	broad.mit.edu	37	22	37407247	37407247	+	Missense_Mutation	SNP	C	G	G			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr22:37407247C>G	uc003aqg.2	-	2	1415	c.715G>C	c.(715-717)GAT>CAT	p.D239H	TST_uc003aqh.2_Missense_Mutation_p.D239H	NM_003312	NP_003303	Q16762	THTR_HUMAN	thiosulfate sulfurtransferase	239	Rhodanese 2.				cyanate catabolic process|rRNA transport	mitochondrial matrix|plasma membrane	5S rRNA binding|thiosulfate sulfurtransferase activity				0						TGCGAGAGATCCACCTTCTTG	0.607													6	11	---	---	---	---	PASS
TRIOBP	11078	broad.mit.edu	37	22	38120492	38120492	+	Silent	SNP	C	A	A			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr22:38120492C>A	uc003atr.2	+	7	2200	c.1929C>A	c.(1927-1929)ACC>ACA	p.T643T	TRIOBP_uc003atu.2_Silent_p.T471T|TRIOBP_uc003atq.1_Silent_p.T643T|TRIOBP_uc003ats.1_Silent_p.T471T	NM_001039141	NP_001034230	Q9H2D6	TARA_HUMAN	TRIO and F-actin binding protein isoform 6	643					actin modification|barbed-end actin filament capping	actin cytoskeleton|cytoplasm|nucleus	actin binding|GTP-Rho binding|myosin II binding|protein binding|ubiquitin protein ligase binding			central_nervous_system(1)	1	Melanoma(58;0.0574)					ACAGAACCACCCAACAAGACA	0.572													7	116	---	---	---	---	PASS
PLA2G6	8398	broad.mit.edu	37	22	38524296	38524296	+	Missense_Mutation	SNP	G	A	A			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr22:38524296G>A	uc003auy.1	-	9	1464	c.1328C>T	c.(1327-1329)CCG>CTG	p.P443L	PLA2G6_uc003auz.1_Intron|PLA2G6_uc003ava.1_Missense_Mutation_p.P443L|PLA2G6_uc003avb.2_Intron|PLA2G6_uc010gxk.1_RNA|PLA2G6_uc011ano.1_Missense_Mutation_p.P408L	NM_003560	NP_003551	O60733	PA2G6_HUMAN	phospholipase A2, group VI isoform a	443					cardiolipin biosynthetic process|cell death|lipid catabolic process	centrosome|membrane				ovary(1)	1	Melanoma(58;0.045)				Quinacrine(DB01103)	TAGGCTGATCGGTGGGGGCTG	0.642													21	36	---	---	---	---	PASS
MGAT3	4248	broad.mit.edu	37	22	39884666	39884666	+	Silent	SNP	C	T	T			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr22:39884666C>T	uc003axv.3	+	2	1553	c.1314C>T	c.(1312-1314)GGC>GGT	p.G438G	MGAT3_uc010gxy.2_Silent_p.G438G	NM_002409	NP_002400	Q09327	MGAT3_HUMAN	mannosyl (beta-1,4-)-glycoprotein	438	Lumenal (Potential).				post-translational protein modification|protein N-linked glycosylation via asparagine	Golgi membrane|integral to membrane	beta-1,4-mannosylglycoprotein 4-beta-N-acetylglucosaminyltransferase activity				0	Melanoma(58;0.04)					CCCAGAATGGCGACTTCCCAC	0.662													13	17	---	---	---	---	PASS
XPNPEP3	63929	broad.mit.edu	37	22	41318337	41318337	+	Missense_Mutation	SNP	G	T	T			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr22:41318337G>T	uc003azh.2	+	8	1148	c.1056G>T	c.(1054-1056)AGG>AGT	p.R352S	XPNPEP3_uc003azi.2_Missense_Mutation_p.R273S|XPNPEP3_uc011aoy.1_RNA	NM_022098	NP_071381	Q9NQH7	XPP3_HUMAN	X-prolyl aminopeptidase (aminopeptidase P) 3,	352					cellular process	mitochondrion	aminopeptidase activity|manganese ion binding|metallopeptidase activity				0						CCGTCCCCAGGTTCACCGCAC	0.448													22	105	---	---	---	---	PASS
PPPDE2	27351	broad.mit.edu	37	22	42000161	42000161	+	Intron	SNP	A	G	G			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr22:42000161A>G	uc003ban.1	-						PPPDE2_uc011apb.1_Intron	NM_015704	NP_056519	Q6ICB0	PPDE2_HUMAN	PPPDE peptidase domain containing 2												0						TCCCTCCCTAAAAGAGCCAAC	0.468													19	27	---	---	---	---	PASS
PPARA	5465	broad.mit.edu	37	22	46627709	46627709	+	Missense_Mutation	SNP	G	T	T			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr22:46627709G>T	uc003bgw.1	+	8	998	c.732G>T	c.(730-732)ATG>ATT	p.M244I	PPARA_uc003bgx.1_Missense_Mutation_p.M244I|PPARA_uc010hab.1_Missense_Mutation_p.M244I|PPARA_uc003bhb.1_Missense_Mutation_p.M244I|PPARA_uc010hac.1_Missense_Mutation_p.M41I	NM_005036	NP_005027	Q07869	PPARA_HUMAN	peroxisome proliferative activated receptor,	244					fatty acid metabolic process|fatty acid transport|negative regulation of appetite|negative regulation of cholesterol storage|negative regulation of macrophage derived foam cell differentiation|negative regulation of receptor biosynthetic process|negative regulation of sequestering of triglyceride|negative regulation of transcription from RNA polymerase II promoter|positive regulation of fatty acid beta-oxidation|regulation of cellular ketone metabolic process by positive regulation of transcription from an RNA polymerase II promoter|regulation of glycolysis by positive regulation of transcription from an RNA polymerase II promoter|regulation of lipid transport by positive regulation of transcription from an RNA polymerase II promoter|regulation of transcription from RNA polymerase II promoter by nuclear hormone receptor	nucleoplasm	drug binding|ligand-regulated transcription factor activity|lipid binding|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|steroid hormone receptor activity|ubiquitin conjugating enzyme binding|zinc ion binding			ovary(1)|central_nervous_system(1)	2		Ovarian(80;0.00965)|all_neural(38;0.0416)		UCEC - Uterine corpus endometrioid carcinoma (28;0.00522)	Atorvastatin(DB01076)|Bezafibrate(DB01393)|Clofibrate(DB00636)|Fenofibrate(DB01039)|Gemfibrozil(DB01241)|Simvastatin(DB00641)	TACATGATATGGAGACACTGT	0.527													5	21	---	---	---	---	PASS
CELSR1	9620	broad.mit.edu	37	22	46760592	46760592	+	Nonsense_Mutation	SNP	G	A	A			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr22:46760592G>A	uc003bhw.1	-	33	8596	c.8596C>T	c.(8596-8598)CAG>TAG	p.Q2866*		NM_014246	NP_055061	Q9NYQ6	CELR1_HUMAN	cadherin EGF LAG seven-pass G-type receptor 1	2866	Cytoplasmic (Potential).				central nervous system development|homophilic cell adhesion|neural tube closure|neuropeptide signaling pathway	integral to plasma membrane	calcium ion binding|G-protein coupled receptor activity|protein dimerization activity			lung(4)|breast(4)|pancreas(2)|skin(1)	11		Ovarian(80;0.00142)|Breast(42;0.00296)|all_neural(38;0.0416)|Colorectal(5;0.0766)		UCEC - Uterine corpus endometrioid carcinoma (28;0.00643)|BRCA - Breast invasive adenocarcinoma(115;0.171)		GCCAGGCTCTGGTCGGGCCAG	0.692													6	12	---	---	---	---	PASS
CELSR1	9620	broad.mit.edu	37	22	46832148	46832148	+	Missense_Mutation	SNP	T	C	C	rs75709433		TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr22:46832148T>C	uc003bhw.1	-	4	4445	c.4445A>G	c.(4444-4446)AAC>AGC	p.N1482S		NM_014246	NP_055061	Q9NYQ6	CELR1_HUMAN	cadherin EGF LAG seven-pass G-type receptor 1	1482	Extracellular (Potential).|Laminin G-like 1.				central nervous system development|homophilic cell adhesion|neural tube closure|neuropeptide signaling pathway	integral to plasma membrane	calcium ion binding|G-protein coupled receptor activity|protein dimerization activity			lung(4)|breast(4)|pancreas(2)|skin(1)	11		Ovarian(80;0.00142)|Breast(42;0.00296)|all_neural(38;0.0416)|Colorectal(5;0.0766)		UCEC - Uterine corpus endometrioid carcinoma (28;0.00643)|BRCA - Breast invasive adenocarcinoma(115;0.171)		GAAGCGGCCGTTGTAGAGAAG	0.592													13	23	---	---	---	---	PASS
CSF2RA	1438	broad.mit.edu	37	X	1401640	1401640	+	Missense_Mutation	SNP	A	C	C			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chrX:1401640A>C	uc010nct.2	+	4	366	c.44A>C	c.(43-45)CAC>CCC	p.H15P	CSF2RA_uc011mhb.1_Missense_Mutation_p.H15P|CSF2RA_uc004cpq.2_Missense_Mutation_p.H15P|CSF2RA_uc004cpn.2_Missense_Mutation_p.H15P|CSF2RA_uc004cpo.2_Missense_Mutation_p.H15P|CSF2RA_uc010ncu.2_RNA|CSF2RA_uc011mhc.1_5'UTR|CSF2RA_uc004cpp.2_Missense_Mutation_p.H15P|CSF2RA_uc010ncv.2_Missense_Mutation_p.H15P|CSF2RA_uc004cpr.2_Missense_Mutation_p.H15P	NM_001161529	NP_001155001	P15509	CSF2R_HUMAN	colony stimulating factor 2 receptor alpha chain	15						extracellular region|integral to plasma membrane	cytokine receptor activity			ovary(2)	2		all_cancers(21;4.28e-07)|all_epithelial(21;2.07e-08)|all_lung(23;2.81e-05)|Lung NSC(23;0.000693)|Lung SC(21;0.122)			Sargramostim(DB00020)	GAGTTACCACACCCAGCATTC	0.522													33	199	---	---	---	---	PASS
SFRS17A	8227	broad.mit.edu	37	X	1712489	1712489	+	Missense_Mutation	SNP	C	A	A			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chrX:1712489C>A	uc004cqa.2	+	2	330	c.134C>A	c.(133-135)TCC>TAC	p.S45Y	SFRS17A_uc010ncx.1_Missense_Mutation_p.S45Y|SFRS17A_uc004cqb.2_RNA|ASMT_uc004cqd.2_5'Flank	NM_005088	NP_005079	Q02040	AK17A_HUMAN	DNA segment on chromosome X and Y (unique) 155	45					B cell activation|mRNA processing|regulation of transcription, DNA-dependent|RNA splicing|signal transduction	nuclear speck|spliceosomal complex	nucleotide binding|protein binding|RNA binding				0		all_cancers(21;4.28e-07)|all_epithelial(21;2.07e-08)|all_lung(23;2.81e-05)|Lung NSC(23;0.000693)|Lung SC(21;0.122)				CCGGGGAAGTCCATCTCCAAC	0.592													26	74	---	---	---	---	PASS
FAM47A	158724	broad.mit.edu	37	X	34148818	34148818	+	Silent	SNP	C	G	G			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chrX:34148818C>G	uc004ddg.2	-	1	1611	c.1578G>C	c.(1576-1578)CGG>CGC	p.R526R		NM_203408	NP_981953	Q5JRC9	FA47A_HUMAN	hypothetical protein LOC158724	526										ovary(4)|central_nervous_system(1)	5						GACTGGACGTCCGACGAGTCT	0.667													13	7	---	---	---	---	PASS
FAM47A	158724	broad.mit.edu	37	X	34149076	34149076	+	Silent	SNP	G	A	A			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chrX:34149076G>A	uc004ddg.2	-	1	1353	c.1320C>T	c.(1318-1320)GAC>GAT	p.D440D		NM_203408	NP_981953	Q5JRC9	FA47A_HUMAN	hypothetical protein LOC158724	440										ovary(4)|central_nervous_system(1)	5						GATCCCATACGTCCTTCAGCG	0.557													11	11	---	---	---	---	PASS
GPKOW	27238	broad.mit.edu	37	X	48970788	48970788	+	Intron	SNP	C	A	A			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chrX:48970788C>A	uc004dmr.2	-							NM_015698	NP_056513	Q92917	GPKOW_HUMAN	G patch domain and KOW motifs							nucleus	nucleic acid binding			ovary(2)	2						GTCTGAGACTCACCCTTCCAG	0.582													4	20	---	---	---	---	PASS
DGKK	139189	broad.mit.edu	37	X	50121135	50121135	+	Nonsense_Mutation	SNP	T	A	A			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chrX:50121135T>A	uc010njr.1	-	23	3133	c.3073A>T	c.(3073-3075)AGA>TGA	p.R1025*		NM_001013742	NP_001013764	Q5KSL6	DGKK_HUMAN	diacylglycerol kinase kappa	1025					activation of protein kinase C activity by G-protein coupled receptor protein signaling pathway|diacylglycerol metabolic process|intracellular signal transduction|platelet activation|response to oxidative stress	cytoplasm|plasma membrane	ATP binding|diacylglycerol kinase activity|metal ion binding			ovary(1)|kidney(1)	2	Ovarian(276;0.236)					TTCTTGTATCTAATTTTGATA	0.493													10	34	---	---	---	---	PASS
KIF4A	24137	broad.mit.edu	37	X	69626794	69626794	+	Nonsense_Mutation	SNP	G	T	T			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chrX:69626794G>T	uc004dyg.2	+	28	3251	c.3124G>T	c.(3124-3126)GAG>TAG	p.E1042*	KIF4A_uc010nkw.2_Nonsense_Mutation_p.E1042*	NM_012310	NP_036442	O95239	KIF4A_HUMAN	kinesin family member 4	1042	Globular.|Interaction with PRC1.				anterograde axon cargo transport|axon guidance|blood coagulation|organelle organization	chromosome|cytosol|midbody|nuclear matrix|spindle microtubule	ATP binding|DNA binding|microtubule motor activity|protein binding			ovary(4)	4						CATGGACATCGAGGATCTAAA	0.254													4	41	---	---	---	---	PASS
XIST	7503	broad.mit.edu	37	X	73067615	73067615	+	RNA	SNP	C	T	T			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chrX:73067615C>T	uc004ebm.1	-	1		c.4974G>A				NR_001564				Homo sapiens cDNA: FLJ21545 fis, clone COL06195.												0						CTCTGGGTTTCCAGCATCCCT	0.363													11	5	---	---	---	---	PASS
PCDH11X	27328	broad.mit.edu	37	X	91456402	91456402	+	Missense_Mutation	SNP	C	A	A			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chrX:91456402C>A	uc004efk.1	+	3	3907	c.3062C>A	c.(3061-3063)ACC>AAC	p.T1021N	PCDH11X_uc004efl.1_Missense_Mutation_p.T1021N|PCDH11X_uc004efo.1_Intron|PCDH11X_uc010nmv.1_Missense_Mutation_p.T1021N|PCDH11X_uc004efm.1_Missense_Mutation_p.T1021N|PCDH11X_uc004efn.1_Missense_Mutation_p.T1021N	NM_032968	NP_116750	Q9BZA7	PC11X_HUMAN	protocadherin 11 X-linked isoform c	1021	Cytoplasmic (Potential).				homophilic cell adhesion	integral to plasma membrane	calcium ion binding			large_intestine(2)	2						CGATCTTGCACCCCCATGAAA	0.383													11	11	---	---	---	---	PASS
PCDH11X	27328	broad.mit.edu	37	X	91456403	91456403	+	Silent	SNP	C	A	A			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chrX:91456403C>A	uc004efk.1	+	3	3908	c.3063C>A	c.(3061-3063)ACC>ACA	p.T1021T	PCDH11X_uc004efl.1_Silent_p.T1021T|PCDH11X_uc004efo.1_Intron|PCDH11X_uc010nmv.1_Silent_p.T1021T|PCDH11X_uc004efm.1_Silent_p.T1021T|PCDH11X_uc004efn.1_Silent_p.T1021T	NM_032968	NP_116750	Q9BZA7	PC11X_HUMAN	protocadherin 11 X-linked isoform c	1021	Cytoplasmic (Potential).				homophilic cell adhesion	integral to plasma membrane	calcium ion binding			large_intestine(2)	2						GATCTTGCACCCCCATGAAAG	0.383													11	11	---	---	---	---	PASS
DRP2	1821	broad.mit.edu	37	X	100515622	100515622	+	3'UTR	SNP	C	A	A			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chrX:100515622C>A	uc004egz.2	+	24					DRP2_uc011mrh.1_3'UTR	NM_001939	NP_001930	Q13474	DRP2_HUMAN	dystrophin related protein 2						central nervous system development	cytoplasm|cytoskeleton	zinc ion binding			ovary(2)	2						GGAGCCAGATCCCCATCCTAT	0.537													79	34	---	---	---	---	PASS
NRK	203447	broad.mit.edu	37	X	105149285	105149285	+	Missense_Mutation	SNP	C	G	G			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chrX:105149285C>G	uc004emd.2	+	10	1097	c.794C>G	c.(793-795)GCT>GGT	p.A265G	NRK_uc010npc.1_5'UTR	NM_198465	NP_940867	Q7Z2Y5	NRK_HUMAN	Nik related kinase	265	Protein kinase.						ATP binding|protein serine/threonine kinase activity|small GTPase regulator activity			breast(7)|ovary(3)|lung(2)|large_intestine(1)|central_nervous_system(1)	14						CCCTTGGAAGCTCTCTTCGTT	0.393										HNSCC(51;0.14)			3	10	---	---	---	---	PASS
DOCK11	139818	broad.mit.edu	37	X	117749584	117749584	+	Missense_Mutation	SNP	G	C	C			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chrX:117749584G>C	uc004eqp.2	+	30	3265	c.3202G>C	c.(3202-3204)GAA>CAA	p.E1068Q	DOCK11_uc004eqq.2_Missense_Mutation_p.E834Q	NM_144658	NP_653259	Q5JSL3	DOC11_HUMAN	dedicator of cytokinesis 11	1068					blood coagulation	cytosol	GTP binding			ovary(3)	3						ATACAAGTTTGAATTTCTGCA	0.343													7	8	---	---	---	---	PASS
DOCK11	139818	broad.mit.edu	37	X	117814528	117814528	+	Silent	SNP	A	G	G			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chrX:117814528A>G	uc004eqp.2	+	49	5607	c.5544A>G	c.(5542-5544)ACA>ACG	p.T1848T	DOCK11_uc004eqq.2_Silent_p.T1627T	NM_144658	NP_653259	Q5JSL3	DOC11_HUMAN	dedicator of cytokinesis 11	1848	DHR-2.				blood coagulation	cytosol	GTP binding			ovary(3)	3						AAGAACTCACAGAAAGGAAGA	0.348													66	33	---	---	---	---	PASS
ZCCHC12	170261	broad.mit.edu	37	X	117959765	117959765	+	Missense_Mutation	SNP	G	T	T			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chrX:117959765G>T	uc004equ.2	+	4	1031	c.558G>T	c.(556-558)AGG>AGT	p.R186S		NM_173798	NP_776159	Q6PEW1	ZCH12_HUMAN	zinc finger, CCHC domain containing 12	186					regulation of transcription, DNA-dependent|transcription, DNA-dependent		nucleic acid binding|zinc ion binding			ovary(1)	1						AGCTGAGTAGGGACCTCCGAC	0.308													41	31	---	---	---	---	PASS
OCRL	4952	broad.mit.edu	37	X	128696704	128696704	+	Silent	SNP	G	T	T			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chrX:128696704G>T	uc004euq.2	+	12	1350	c.1185G>T	c.(1183-1185)GCG>GCT	p.A395A	OCRL_uc004eur.2_Silent_p.A395A	NM_000276	NP_000267	Q01968	OCRL_HUMAN	phosphatidylinositol polyphosphate 5-phosphatase	395					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						ACATTTGTGCGAGAATGAGTT	0.438													4	51	---	---	---	---	PASS
AFF2	2334	broad.mit.edu	37	X	148037237	148037237	+	Missense_Mutation	SNP	G	C	C			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chrX:148037237G>C	uc004fcp.2	+	11	2141	c.1662G>C	c.(1660-1662)GAG>GAC	p.E554D	AFF2_uc004fcq.2_Missense_Mutation_p.E544D|AFF2_uc004fcr.2_Missense_Mutation_p.E515D|AFF2_uc011mxb.1_Missense_Mutation_p.E519D|AFF2_uc004fcs.2_Missense_Mutation_p.E521D|AFF2_uc011mxc.1_Missense_Mutation_p.E195D	NM_002025	NP_002016	P51816	AFF2_HUMAN	fragile X mental retardation 2	554					brain development|mRNA processing|regulation of RNA splicing|RNA splicing	nuclear speck	G-quadruplex RNA binding|protein binding			ovary(3)|pancreas(2)	5	Acute lymphoblastic leukemia(192;6.56e-05)					CACCCATGGAGACTATTTCTC	0.463													71	166	---	---	---	---	PASS
VAMP7	6845	broad.mit.edu	37	X	155149476	155149476	+	Splice_Site	SNP	G	T	T			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chrX:155149476G>T	uc004fnr.2	+	6	608	c.434_splice	c.e6-1	p.D145_splice	VAMP7_uc004fnt.2_Splice_Site_p.D104_splice|VAMP7_uc011naa.1_Splice_Site_p.D106_splice|VAMP7_uc011nab.1_Splice_Site_p.D44_splice|VAMP7_uc004fns.2_Intron|VAMP7_uc011nac.1_Splice_Site_p.D78_splice	NM_005638	NP_005629	P51809	VAMP7_HUMAN	vesicle-associated membrane protein 7 isoform 1						calcium ion-dependent exocytosis|endosome to lysosome transport|eosinophil degranulation|ER to Golgi vesicle-mediated transport|neutrophil degranulation|phagocytosis, engulfment|post-Golgi vesicle-mediated transport|protein transport|vesicle fusion	endoplasmic reticulum membrane|Golgi apparatus|integral to membrane|late endosome membrane|lysosomal membrane|phagocytic vesicle membrane|plasma membrane|SNARE complex|transport vesicle membrane	protein binding				0	all_cancers(53;1.86e-17)|all_epithelial(53;2.71e-11)|all_lung(58;1.84e-07)|Lung NSC(58;5.62e-07)|all_hematologic(71;2.45e-06)|Acute lymphoblastic leukemia(192;6.56e-05)|Breast(217;0.176)|Renal(33;0.214)					AATATTTTCAGATCTGGTAGC	0.269													13	41	---	---	---	---	PASS
RBMY1A1	5940	broad.mit.edu	37	Y	23702641	23702641	+	Missense_Mutation	SNP	C	A	A			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chrY:23702641C>A	uc004fuq.3	+	4	483	c.371C>A	c.(370-372)CCC>CAC	p.P124H	RBMY1A1_uc010nxa.2_Missense_Mutation_p.P124H|RBMY1A1_uc004fur.3_Intron|RBMY1A1_uc011nbd.1_Missense_Mutation_p.P89H	NM_001006120	NP_001006120	Q15414	RBY1A_HUMAN	RNA binding motif protein, Y-linked, family 1,	124					mRNA processing|RNA splicing|spermatogenesis	nucleus	nucleotide binding|RNA binding				0						GGGTGGCTTCCCTCACATGAA	0.433													6	83	---	---	---	---	PASS
RER1	11079	broad.mit.edu	37	1	2332691	2332692	+	Intron	INS	-	CC	CC	rs148750749	by1000genomes	TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:2332691_2332692insCC	uc001aje.1	+						RER1_uc001ajf.1_Intron	NM_007033	NP_008964	O15258	RER1_HUMAN	RER1 retention in endoplasmic reticulum 1						retrograde vesicle-mediated transport, Golgi to ER	integral to Golgi membrane					0	all_cancers(77;0.000247)|all_epithelial(69;9.96e-05)|all_lung(157;0.016)|Lung NSC(156;0.0376)|Ovarian(185;0.0634)	all_epithelial(116;5.35e-20)|all_lung(118;2.78e-08)|Lung NSC(185;2.69e-06)|Breast(487;0.00147)|Renal(390;0.00183)|Hepatocellular(190;0.00826)|Myeloproliferative disorder(586;0.0122)|Ovarian(437;0.0308)|Medulloblastoma(700;0.123)|Lung SC(97;0.128)		Epithelial(90;2.28e-37)|OV - Ovarian serous cystadenocarcinoma(86;8.29e-23)|GBM - Glioblastoma multiforme(42;4.71e-08)|Colorectal(212;4.73e-05)|COAD - Colon adenocarcinoma(227;0.00021)|Kidney(185;0.00116)|BRCA - Breast invasive adenocarcinoma(365;0.00459)|STAD - Stomach adenocarcinoma(132;0.00645)|KIRC - Kidney renal clear cell carcinoma(229;0.0182)|Lung(427;0.204)		tcctccctccttcctccctcct	0.178													6	3	---	---	---	---	
PRDM16	63976	broad.mit.edu	37	1	3252909	3252910	+	Intron	DEL	TG	-	-	rs35612143		TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:3252909_3252910delTG	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)		tacatgcacatgtgtgtgtgca	0.045			T	EVI1	MDS|AML								3	6	---	---	---	---	
PRDM16	63976	broad.mit.edu	37	1	3260068	3260069	+	Intron	INS	-	T	T			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:3260068_3260069insT	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)		tttgttcagacttttttttttt	0.000			T	EVI1	MDS|AML								3	3	---	---	---	---	
MEGF6	1953	broad.mit.edu	37	1	3497132	3497132	+	Intron	DEL	G	-	-	rs35452084		TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:3497132delG	uc001akl.2	-							NM_001409	NP_001400	O75095	MEGF6_HUMAN	EGF-like-domain, multiple 3 precursor							extracellular region	calcium ion binding			large_intestine(1)	1	all_cancers(77;0.00681)|all_epithelial(69;0.00301)|Ovarian(185;0.0634)|Lung NSC(156;0.0969)|all_lung(157;0.105)	all_epithelial(116;7.41e-22)|all_lung(118;8.3e-09)|Lung NSC(185;3.55e-06)|Breast(487;0.000659)|Renal(390;0.00121)|Hepatocellular(190;0.00308)|Myeloproliferative disorder(586;0.0255)|Lung SC(97;0.0262)|Ovarian(437;0.0308)|Medulloblastoma(700;0.211)		Epithelial(90;3.78e-37)|OV - Ovarian serous cystadenocarcinoma(86;6.86e-22)|GBM - Glioblastoma multiforme(42;1.96e-12)|Colorectal(212;6.15e-05)|COAD - Colon adenocarcinoma(227;0.000241)|Kidney(185;0.000448)|BRCA - Breast invasive adenocarcinoma(365;0.000779)|KIRC - Kidney renal clear cell carcinoma(229;0.00645)|STAD - Stomach adenocarcinoma(132;0.00669)|Lung(427;0.213)		TGGAGAGAGAGGGGCGCCTTG	0.701													3	4	---	---	---	---	
Unknown	0	broad.mit.edu	37	1	4518323	4518323	+	IGR	DEL	A	-	-			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:4518323delA								LOC284661 (33579 upstream) : AJAP1 (196782 downstream)																							ccgagattataatctcacata	0.055													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	1	5172271	5172271	+	IGR	DEL	A	-	-			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:5172271delA								AJAP1 (328421 upstream) : NPHP4 (750599 downstream)																							TCTGAGATACAAAAGGAATGG	0.264													9	4	---	---	---	---	
CAMTA1	23261	broad.mit.edu	37	1	7086180	7086180	+	Intron	DEL	A	-	-			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:7086180delA	uc001aoi.2	+							NM_015215	NP_056030	Q9Y6Y1	CMTA1_HUMAN	calmodulin-binding transcription activator 1						regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasm|nucleus	calmodulin binding			ovary(5)|central_nervous_system(2)|breast(1)|pancreas(1)	9	Ovarian(185;0.0634)	all_epithelial(116;8.38e-23)|all_lung(118;5.87e-07)|Lung NSC(185;3.43e-06)|Renal(390;0.000219)|Breast(487;0.000307)|Colorectal(325;0.000615)|Hepatocellular(190;0.0088)|Myeloproliferative disorder(586;0.0303)|Ovarian(437;0.0388)		UCEC - Uterine corpus endometrioid carcinoma (279;0.101)|Colorectal(212;1.33e-05)|COAD - Colon adenocarcinoma(227;0.000235)|BRCA - Breast invasive adenocarcinoma(304;0.000864)|Kidney(185;0.00244)|STAD - Stomach adenocarcinoma(132;0.00644)|KIRC - Kidney renal clear cell carcinoma(229;0.0179)|READ - Rectum adenocarcinoma(331;0.133)		accctgccttaaaaaaaaaaa	0.000													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	1	9248075	9248075	+	IGR	DEL	T	-	-			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:9248075delT								MIR34A (36239 upstream) : H6PD (46788 downstream)																							aatttttgtgttttttttttg	0.000													4	2	---	---	---	---	
CLSTN1	22883	broad.mit.edu	37	1	9841504	9841505	+	Intron	INS	-	T	T			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:9841504_9841505insT	uc001aqh.2	-						CLSTN1_uc001aqi.2_Intron|CLSTN1_uc010oag.1_Intron	NM_001009566	NP_001009566	O94985	CSTN1_HUMAN	calsyntenin 1 isoform 1						homophilic cell adhesion	cell junction|cell projection|endoplasmic reticulum membrane|Golgi membrane|integral to membrane|nucleus|postsynaptic membrane	calcium ion binding			skin(1)	1	all_lung(157;0.222)	all_lung(284;4.03e-05)|Lung NSC(185;6.93e-05)|Renal(390;0.000147)|Colorectal(325;0.00205)|Breast(348;0.00314)|Hepatocellular(190;0.00825)|Ovarian(437;0.0228)|Myeloproliferative disorder(586;0.0255)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0234)|Colorectal(212;8.36e-08)|COAD - Colon adenocarcinoma(227;1.93e-05)|Kidney(185;0.000342)|BRCA - Breast invasive adenocarcinoma(304;0.000949)|KIRC - Kidney renal clear cell carcinoma(229;0.00122)|STAD - Stomach adenocarcinoma(132;0.00644)|READ - Rectum adenocarcinoma(331;0.0419)		ACATCTTAttcttttttttttt	0.139													3	3	---	---	---	---	
UBE4B	10277	broad.mit.edu	37	1	10095049	10095050	+	Intron	INS	-	T	T	rs34028637		TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:10095049_10095050insT	uc001aqs.3	+						UBE4B_uc001aqr.3_Intron|UBE4B_uc010oai.1_Intron|UBE4B_uc010oaj.1_Intron	NM_001105562	NP_001099032	O95155	UBE4B_HUMAN	ubiquitination factor E4B isoform 1						apoptosis|protein ubiquitination involved in ubiquitin-dependent protein catabolic process|response to UV	cytoplasm|ubiquitin ligase complex	enzyme binding			ovary(2)|skin(2)	4		all_lung(284;1.13e-05)|Lung NSC(185;1.74e-05)|Renal(390;0.000147)|Breast(348;0.00093)|Colorectal(325;0.00205)|Hepatocellular(190;0.00913)|Ovarian(437;0.0228)|Myeloproliferative disorder(586;0.0255)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0268)|Colorectal(212;1.42e-07)|COAD - Colon adenocarcinoma(227;2.77e-05)|BRCA - Breast invasive adenocarcinoma(304;0.000435)|Kidney(185;0.000482)|KIRC - Kidney renal clear cell carcinoma(229;0.00164)|STAD - Stomach adenocarcinoma(132;0.0117)|READ - Rectum adenocarcinoma(331;0.046)		TTTTATGTGGGtttttttttgt	0.163													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	1	10693796	10693797	+	IGR	DEL	AT	-	-	rs80238479		TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:10693796_10693797delAT								PEX14 (2983 upstream) : CASZ1 (2871 downstream)																							GTGCGTGCACATGTGTGTGGCA	0.634													4	3	---	---	---	---	
C1orf127	148345	broad.mit.edu	37	1	11023733	11023733	+	Intron	DEL	A	-	-			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:11023733delA	uc010oao.1	-						C1orf127_uc001arr.1_Intron|C1orf127_uc001ars.1_Intron	NM_173507	NP_775778	B7ZLG7	B7ZLG7_HUMAN	hypothetical protein LOC148345											ovary(1)	1	Ovarian(185;0.249)	Lung NSC(185;0.000226)|all_lung(284;0.000302)|Renal(390;0.000469)|Colorectal(325;0.0062)|Breast(348;0.0139)|Hepatocellular(190;0.0305)|Myeloproliferative disorder(586;0.0393)|Ovarian(437;0.0731)	STAD - Stomach adenocarcinoma(5;0.0224)	UCEC - Uterine corpus endometrioid carcinoma (279;0.0228)|Colorectal(212;3.71e-07)|COAD - Colon adenocarcinoma(227;7.79e-05)|BRCA - Breast invasive adenocarcinoma(304;0.000305)|Kidney(185;0.000785)|KIRC - Kidney renal clear cell carcinoma(229;0.00262)|READ - Rectum adenocarcinoma(331;0.0509)		CCTGATGTTTAAAATGTAGAC	0.418													4	2	---	---	---	---	
KAZ	23254	broad.mit.edu	37	1	15116507	15116507	+	Intron	DEL	T	-	-			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:15116507delT	uc001avm.3	+						KAZ_uc009vog.1_Intron|KAZ_uc010obj.1_Intron	NM_201628	NP_963922	Q674X7	KAZRN_HUMAN	kazrin isoform E						keratinization	cornified envelope|cytoplasm|desmosome|nucleus					0						ttcttttttctttttttttga	0.139													4	2	---	---	---	---	
MST1P9	11223	broad.mit.edu	37	1	17082647	17082648	+	3'UTR	INS	-	ACC	ACC			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:17082647_17082648insACC	uc010ock.1	-	15					CROCC_uc009voy.1_Intron|MST1P9_uc001azp.3_3'UTR	NR_002729				SubName: Full=Hepatocyte growth factor-like protein homolog;												0						ctgctactatgaccaccaccac	0.114													3	3	---	---	---	---	
IGSF21	84966	broad.mit.edu	37	1	18504429	18504429	+	Intron	DEL	T	-	-			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:18504429delT	uc001bau.1	+							NM_032880	NP_116269	Q96ID5	IGS21_HUMAN	immunoglobin superfamily, member 21 precursor							extracellular region				ovary(2)|large_intestine(1)|skin(1)	4		Colorectal(325;0.000147)|Renal(390;0.00145)|all_lung(284;0.00366)|Lung NSC(340;0.00376)|Breast(348;0.00387)|Myeloproliferative disorder(586;0.0393)|Ovarian(437;0.0439)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0121)|BRCA - Breast invasive adenocarcinoma(304;5.52e-05)|Kidney(64;0.00103)|KIRC - Kidney renal clear cell carcinoma(64;0.0102)|STAD - Stomach adenocarcinoma(196;0.0118)|READ - Rectum adenocarcinoma(331;0.157)		GGGGCAGGGGTGGGATGCAAA	0.478													6	3	---	---	---	---	
VWA5B1	127731	broad.mit.edu	37	1	20618698	20618698	+	Intron	DEL	T	-	-			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:20618698delT	uc009vps.2	+						VWA5B1_uc001bdd.2_Intron|VWA5B1_uc010odc.1_Intron	NM_001039500	NP_001034589	Q5TIE3	VW5B1_HUMAN	von Willebrand factor A domain containing 5B1							extracellular region					0						tccttccttcttttttttttt	0.259													4	2	---	---	---	---	
FAM54B	56181	broad.mit.edu	37	1	26158901	26158902	+	3'UTR	INS	-	TA	TA	rs138224925		TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:26158901_26158902insTA	uc001bkq.3	+	7					FAM54B_uc001bkr.3_3'UTR|FAM54B_uc010oet.1_3'UTR|FAM54B_uc009vrz.2_3'UTR|FAM54B_uc001bks.3_3'UTR|FAM54B_uc001bkt.3_3'UTR|FAM54B_uc001bku.3_3'UTR|FAM54B_uc001bkv.3_3'UTR	NM_001099625	NP_001093095	Q9H019	FA54B_HUMAN	hypothetical protein LOC56181 isoform a											pancreas(1)	1		Colorectal(325;3.46e-05)|Lung NSC(340;0.00038)|all_lung(284;0.00051)|Renal(390;0.0007)|Ovarian(437;0.00473)|Breast(348;0.0155)|Myeloproliferative disorder(586;0.0255)|all_neural(195;0.0505)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0415)|OV - Ovarian serous cystadenocarcinoma(117;1.96e-25)|Colorectal(126;2.96e-08)|COAD - Colon adenocarcinoma(152;1.7e-06)|KIRC - Kidney renal clear cell carcinoma(1967;0.000716)|BRCA - Breast invasive adenocarcinoma(304;0.00095)|STAD - Stomach adenocarcinoma(196;0.00151)|GBM - Glioblastoma multiforme(114;0.0132)|READ - Rectum adenocarcinoma(331;0.0649)		CTGTCACTCACTCAGCAGCTTC	0.490													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	1	26411945	26411945	+	IGR	DEL	C	-	-			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:26411945delC								TRIM63 (17824 upstream) : PDIK1L (25711 downstream)																							GAATTGATTTCCCACTATTTC	0.428													4	2	---	---	---	---	
ZDHHC18	84243	broad.mit.edu	37	1	27152668	27152668	+	5'Flank	DEL	G	-	-			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:27152668delG	uc001bnb.2	+							NM_032283	NP_115659	Q9NUE0	ZDH18_HUMAN	zinc finger, DHHC-type containing 18							integral to membrane	zinc ion binding				0		all_cancers(24;5.82e-22)|all_epithelial(13;9.91e-20)|Colorectal(325;0.000147)|Breast(348;0.000706)|all_lung(284;0.00122)|Lung NSC(340;0.00128)|Renal(390;0.00211)|Myeloproliferative disorder(586;0.0393)|Ovarian(437;0.0707)|all_neural(195;0.0966)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0178)|all cancers(4;5.71e-53)|Epithelial(14;4.73e-52)|OV - Ovarian serous cystadenocarcinoma(117;1.53e-29)|Colorectal(126;1.9e-09)|COAD - Colon adenocarcinoma(152;4.2e-07)|BRCA - Breast invasive adenocarcinoma(304;0.000548)|STAD - Stomach adenocarcinoma(196;0.00065)|KIRC - Kidney renal clear cell carcinoma(1967;0.000779)|GBM - Glioblastoma multiforme(114;0.0265)|READ - Rectum adenocarcinoma(331;0.0455)|Lung(427;0.163)|LUSC - Lung squamous cell carcinoma(448;0.237)		ATCTGGGCCTGGGCCCAGGAC	0.488													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	1	27420278	27420279	+	IGR	INS	-	TT	TT	rs112611731		TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:27420278_27420279insTT								FAM46B (80945 upstream) : SLC9A1 (5022 downstream)																							cctttctttccttttttttttt	0.099													4	2	---	---	---	---	
AHDC1	27245	broad.mit.edu	37	1	27926403	27926404	+	Intron	DEL	TC	-	-			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:27926403_27926404delTC	uc009vsy.2	-						AHDC1_uc009vsz.1_Intron|AHDC1_uc001boh.1_Intron	NM_001029882	NP_001025053	Q5TGY3	AHDC1_HUMAN	AT hook, DNA binding motif, containing 1								DNA binding			central_nervous_system(1)	1		all_lung(284;1.06e-05)|Lung NSC(340;1.86e-05)|Colorectal(325;3.46e-05)|Renal(390;0.0007)|Breast(348;0.0021)|Ovarian(437;0.00503)|Myeloproliferative disorder(586;0.0255)|all_neural(195;0.0381)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0434)|OV - Ovarian serous cystadenocarcinoma(117;8.48e-25)|Colorectal(126;9.17e-09)|COAD - Colon adenocarcinoma(152;1.84e-06)|KIRC - Kidney renal clear cell carcinoma(1967;0.00192)|BRCA - Breast invasive adenocarcinoma(304;0.00259)|STAD - Stomach adenocarcinoma(196;0.00311)|READ - Rectum adenocarcinoma(331;0.0291)		CCTGTGAGAGTCTCTCTCTCTC	0.530													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	1	30205224	30205227	+	IGR	DEL	CACT	-	-	rs9442460		TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:30205224_30205227delCACT								PTPRU (551909 upstream) : MATN1 (978899 downstream)																							ctcacacacacactctctctctct	0.353													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	1	30895819	30895821	+	IGR	DEL	CAA	-	-			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:30895819_30895821delCAA								None (None upstream) : MATN1 (288305 downstream)																							gactccgtctcaacaacaacaac	0.000													7	4	---	---	---	---	
SERINC2	347735	broad.mit.edu	37	1	31887268	31887269	+	Intron	INS	-	TGTG	TGTG	rs4012493		TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:31887268_31887269insTGTG	uc010ogh.1	+						SERINC2_uc010ogg.1_Intron|SERINC2_uc009vtw.1_Intron|SERINC2_uc001bst.2_Intron|SERINC2_uc001bsu.2_5'UTR|SERINC2_uc001bsv.2_5'Flank	NM_178865	NP_849196	Q96SA4	SERC2_HUMAN	tumor differentially expressed 2-like							integral to membrane					0		Myeloproliferative disorder(586;0.0255)|Ovarian(437;0.0308)|all_neural(195;0.0629)|Breast(348;0.0707)|Medulloblastoma(700;0.123)		STAD - Stomach adenocarcinoma(196;0.0541)|READ - Rectum adenocarcinoma(331;0.151)		CCCTGACGGGTtgtgtgtgtgt	0.450													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	1	36795015	36795016	+	IGR	DEL	TT	-	-	rs67741314		TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:36795015_36795016delTT								C1orf113 (4531 upstream) : STK40 (10209 downstream)																							gcatacactctttgtgtttata	0.084													4	5	---	---	---	---	
CSF3R	1441	broad.mit.edu	37	1	36943367	36943368	+	Intron	INS	-	T	T	rs71789752		TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:36943367_36943368insT	uc001caw.1	-						CSF3R_uc001cav.1_Intron|CSF3R_uc001cax.1_Intron|CSF3R_uc001cay.1_Intron	NM_000760	NP_000751	Q99062	CSF3R_HUMAN	colony stimulating factor 3 receptor isoform a						cell adhesion|defense response	extracellular region|integral to plasma membrane	cytokine receptor activity			central_nervous_system(2)|ovary(1)	3		Myeloproliferative disorder(586;0.0255)|all_neural(195;0.164)			Filgrastim(DB00099)|Pegfilgrastim(DB00019)	CTCAGGAtttcttttttttttt	0.104													3	3	---	---	---	---	
GRIK3	2899	broad.mit.edu	37	1	37445470	37445470	+	Intron	DEL	G	-	-			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:37445470delG	uc001caz.2	-						GRIK3_uc001cba.1_Intron	NM_000831	NP_000822	Q13003	GRIK3_HUMAN	glutamate receptor, ionotropic, kainate 3						negative regulation of synaptic transmission, glutamatergic|regulation of membrane potential|synaptic transmission	cell junction|dendrite cytoplasm|integral to plasma membrane|perikaryon|postsynaptic membrane|terminal button	adenylate cyclase inhibiting metabotropic glutamate receptor activity|extracellular-glutamate-gated ion channel activity|G-protein-coupled receptor binding|kainate selective glutamate receptor activity			ovary(3)|skin(2)|large_intestine(1)|breast(1)	7		Myeloproliferative disorder(586;0.0258)|all_neural(195;0.169)			L-Glutamic Acid(DB00142)	CCTGAGATGAGGGTAAGGAGG	0.493													4	2	---	---	---	---	
MTF1	4520	broad.mit.edu	37	1	38315101	38315102	+	Intron	INS	-	A	A			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:38315101_38315102insA	uc001cce.1	-						MTF1_uc009vvj.1_Intron	NM_005955	NP_005946	Q14872	MTF1_HUMAN	metal-regulatory transcription factor 1							nucleus	DNA binding|protein binding|sequence-specific DNA binding transcription factor activity|transcription coactivator activity|zinc ion binding			ovary(1)|pancreas(1)	2	Acute lymphoblastic leukemia(166;0.074)|all_hematologic(146;0.197)	Myeloproliferative disorder(586;0.0255)				tcacctcaattaaaaaaaaaaa	0.149													6	4	---	---	---	---	
Unknown	0	broad.mit.edu	37	1	38760817	38760836	+	IGR	DEL	TGTGTGTGTGTGTGTGTGTG	-	-	rs76447595		TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:38760817_38760836delTGTGTGTGTGTGTGTGTGTG								POU3F1 (248367 upstream) : RRAGC (544179 downstream)																							agtgcgcgcatgtgtgtgtgtgtgtgtgtgtgtgtgtgtg	0.014													4	2	---	---	---	---	
MACF1	23499	broad.mit.edu	37	1	39635446	39635447	+	Intron	DEL	TT	-	-	rs144262738		TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:39635446_39635447delTT	uc010ois.1	+						MACF1_uc001cda.1_Intron	NM_012090	NP_036222	Q9UPN3	MACF1_HUMAN	microfilament and actin filament cross-linker						cell cycle arrest|Golgi to plasma membrane protein transport|positive regulation of Wnt receptor signaling pathway|regulation of epithelial cell migration|regulation of focal adhesion assembly|regulation of microtubule-based process|Wnt receptor signaling pathway|wound healing	Golgi apparatus|microtubule|ruffle membrane	actin filament binding|ATPase activity|calcium ion binding|microtubule binding			ovary(8)|breast(3)|central_nervous_system(3)|skin(2)	16	Lung NSC(20;5.57e-06)|Ovarian(52;0.00769)|Acute lymphoblastic leukemia(166;0.074)	Myeloproliferative disorder(586;0.0255)	OV - Ovarian serous cystadenocarcinoma(33;7.78e-19)|Epithelial(16;1.73e-17)|all cancers(16;2.49e-16)|LUSC - Lung squamous cell carcinoma(16;0.00146)|Lung(16;0.00204)			tctttctttctttttttttttt	0.198													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	1	40060330	40060330	+	IGR	DEL	C	-	-			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:40060330delC								PABPC4 (17809 upstream) : HEYL (28774 downstream)																							aAGGGCCCTTCCCAGAGGAGG	0.398													4	2	---	---	---	---	
ST3GAL3	6487	broad.mit.edu	37	1	44367157	44367158	+	Intron	INS	-	T	T			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:44367157_44367158insT	uc001ckc.2	+						ST3GAL3_uc010okj.1_Intron|ST3GAL3_uc001cjz.2_Intron|ST3GAL3_uc001cka.2_Intron|ST3GAL3_uc001ckb.2_Intron|ST3GAL3_uc001ckd.2_Intron|ST3GAL3_uc001cke.2_Intron|ST3GAL3_uc001ckf.2_Intron|ST3GAL3_uc001ckg.2_Intron|ST3GAL3_uc001ckh.2_Intron|ST3GAL3_uc001cki.2_Intron|ST3GAL3_uc009vwv.2_Intron|ST3GAL3_uc001ckj.2_Intron|ST3GAL3_uc009vww.2_Intron|ST3GAL3_uc001ckk.2_Intron|ST3GAL3_uc009vwy.2_Intron|ST3GAL3_uc009vwx.2_Intron|ST3GAL3_uc001ckm.2_Intron|ST3GAL3_uc001ckl.2_Intron|ST3GAL3_uc009vwz.2_Intron|ST3GAL3_uc001ckn.2_Intron|ST3GAL3_uc001ckp.2_Intron|ST3GAL3_uc001cko.2_Intron|ST3GAL3_uc009vxa.2_Intron|ST3GAL3_uc001ckq.2_Intron|ST3GAL3_uc001ckr.2_Intron|ST3GAL3_uc009vxb.2_Intron	NM_006279	NP_006270	Q11203	SIAT6_HUMAN	sialyltransferase 6 isoform j						protein glycosylation	extracellular region|Golgi cisterna membrane|integral to Golgi membrane	N-acetyllactosaminide alpha-2,3-sialyltransferase activity			ovary(3)	3	Acute lymphoblastic leukemia(166;0.155)	Myeloproliferative disorder(586;0.0518)				AAGAACACCAATGTCAGTTAAT	0.455													4	2	---	---	---	---	
RNF220	55182	broad.mit.edu	37	1	45052757	45052757	+	Intron	DEL	T	-	-	rs11338729		TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:45052757delT	uc001clv.1	+						RNF220_uc001clw.1_Intron|RNF220_uc010okx.1_Intron|RNF220_uc010oky.1_Intron	NM_018150	NP_060620	Q5VTB9	RN220_HUMAN	ring finger protein 220						protein autoubiquitination	cytoplasm	ubiquitin-protein ligase activity|zinc ion binding			ovary(2)	2						GTTCCTTCTGTTTTTTTTAAA	0.343													2	4	---	---	---	---	
FAAH	2166	broad.mit.edu	37	1	46878451	46878451	+	Intron	DEL	C	-	-			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:46878451delC	uc001cpu.2	+						FAAH_uc001cpv.2_Intron	NM_001441	NP_001432	O00519	FAAH1_HUMAN	fatty acid amide hydrolase						fatty acid catabolic process	cytoplasm|cytoskeleton|endomembrane system|integral to membrane|organelle membrane	carbon-nitrogen ligase activity, with glutamine as amido-N-donor|fatty acid amide hydrolase activity			ovary(1)|breast(1)	2	Acute lymphoblastic leukemia(166;0.155)				Propofol(DB00818)|Thiopental(DB00599)	ccactgcactccagcctgggt	0.124													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	1	47646494	47646494	+	IGR	DEL	G	-	-			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:47646494delG								CYP4A22 (31968 upstream) : PDZK1IP1 (2768 downstream)																							CAGCTGGGAAGGGGACAACCA	0.473													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	1	55798413	55798416	+	IGR	DEL	TGTG	-	-	rs139469278		TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:55798413_55798416delTGTG								USP24 (117651 upstream) : None (None downstream)																							GTGATCCCTCtgtgtgtgtgtgtg	0.431													4	4	---	---	---	---	
Unknown	0	broad.mit.edu	37	1	56940787	56940787	+	IGR	DEL	G	-	-			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:56940787delG								None (None upstream) : PPAP2B (19646 downstream)																							ACCCAGCTTTGCCCCTTCAGT	0.438													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	1	60801103	60801103	+	IGR	DEL	A	-	-			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:60801103delA								C1orf87 (261677 upstream) : NFIA (741843 downstream)																							TTGCAAAAGGAACAGAACTGA	0.333													4	2	---	---	---	---	
NFIA	4774	broad.mit.edu	37	1	61548345	61548346	+	5'UTR	DEL	TC	-	-	rs113913435		TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:61548345_61548346delTC	uc001czw.2	+	1					NFIA_uc001czy.2_Intron|NFIA_uc010oos.1_Intron|NFIA_uc001czv.2_5'UTR	NM_001134673	NP_001128145	Q12857	NFIA_HUMAN	nuclear factor I/A isoform 1						DNA replication|viral genome replication	cell junction|nucleus	DNA binding|sequence-specific DNA binding transcription factor activity|transcription factor binding			pancreas(1)|skin(1)	2						tctccccccttctctctctctc	0.386													3	3	---	---	---	---	
Unknown	0	broad.mit.edu	37	1	61977484	61977484	+	IGR	DEL	T	-	-			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:61977484delT								NFIA (49025 upstream) : TM2D1 (169235 downstream)																							CACTATATCATTTTCTAATTC	0.104													4	2	---	---	---	---	
INADL	10207	broad.mit.edu	37	1	62643202	62643207	+	Intron	DEL	AAAACA	-	-	rs113494783		TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:62643202_62643207delAAAACA	uc009wag.2	+							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						actctgtctcaaaacaaaaacaaaaa	0.000													4	4	---	---	---	---	
DNAJC6	9829	broad.mit.edu	37	1	65874626	65874627	+	Intron	INS	-	T	T	rs140651200	by1000genomes	TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:65874626_65874627insT	uc001dcd.1	+						DNAJC6_uc010opc.1_Intron|DNAJC6_uc001dce.1_Intron	NM_014787	NP_055602	O75061	AUXI_HUMAN	DnaJ (Hsp40) homolog, subfamily C, member 6						cellular membrane organization|post-Golgi vesicle-mediated transport	cytosol	heat shock protein binding|protein tyrosine phosphatase activity|SH3 domain binding			large_intestine(1)|lung(1)|ovary(1)	3						aaacaacaggattttttttttc	0.079													4	2	---	---	---	---	
SLC35D1	23169	broad.mit.edu	37	1	67465970	67465970	+	3'UTR	DEL	T	-	-			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:67465970delT	uc001ddk.2	-	12						NM_015139	NP_055954	Q9NTN3	S35D1_HUMAN	solute carrier family 35 (UDP-glucuronic						chondroitin sulfate biosynthetic process|UDP-glucuronate biosynthetic process|xenobiotic metabolic process	integral to endoplasmic reticulum membrane	UDP-glucuronic acid transmembrane transporter activity|UDP-N-acetylgalactosamine transmembrane transporter activity				0					Lorazepam(DB00186)	accttctttcttttttttttt	0.119													4	3	---	---	---	---	
NEGR1	257194	broad.mit.edu	37	1	72231270	72231270	+	Intron	DEL	A	-	-			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:72231270delA	uc001dfw.2	-						NEGR1_uc001dfv.2_Intron|NEGR1_uc010oqs.1_Intron	NM_173808	NP_776169	Q7Z3B1	NEGR1_HUMAN	neuronal growth regulator 1 precursor						cell adhesion	anchored to membrane|plasma membrane				ovary(1)	1		all_cancers(4;1.26e-06)|Renal(4;1.32e-08)|all_epithelial(4;5.39e-07)|Hepatocellular(141;0.117)		KIRC - Kidney renal clear cell carcinoma(4;0.00529)|Kidney(4;0.00609)|all cancers(265;0.022)|GBM - Glioblastoma multiforme(62;0.0382)|Epithelial(280;0.242)		CTCCACATCTAAGTTCTTCAT	0.229													4	2	---	---	---	---	
CRYZ	1429	broad.mit.edu	37	1	75181878	75181879	+	Intron	DEL	GC	-	-	rs74095156		TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:75181878_75181879delGC	uc001dgk.2	-						CRYZ_uc001dgj.2_Intron|CRYZ_uc001dgl.2_Intron|CRYZ_uc001dgm.2_Intron	NM_001130042	NP_001123514	Q08257	QOR_HUMAN	crystallin, zeta isoform a						protein homotetramerization|visual perception|xenobiotic catabolic process	cytosol|Golgi apparatus	mRNA 3'-UTR binding|NADPH binding|NADPH:quinone reductase activity|zinc ion binding				0					Dicumarol(DB00266)	cAATCtgtgtgcgcgtgtgtgt	0.050													2	4	---	---	---	---	
ST6GALNAC3	256435	broad.mit.edu	37	1	76903837	76903838	+	Intron	INS	-	T	T			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:76903837_76903838insT	uc001dhh.2	+						ST6GALNAC3_uc001dhg.3_Intron|ST6GALNAC3_uc010orh.1_Intron	NM_152996	NP_694541	Q8NDV1	SIA7C_HUMAN	sialyltransferase 7C isoform 1						protein glycosylation	integral to Golgi membrane	sialyltransferase activity			ovary(3)|skin(2)	5						CATATTCTGACttttttttttt	0.144													6	3	---	---	---	---	
Unknown	0	broad.mit.edu	37	1	82617152	82617159	+	IGR	DEL	AAGGAAGA	-	-	rs71692719	by1000genomes	TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:82617152_82617159delAAGGAAGA								LPHN2 (159046 upstream) : None (None downstream)																							ggaaggaaggaaggaagaaagaaagaaa	0.000													3	3	---	---	---	---	
Unknown	0	broad.mit.edu	37	1	88116635	88116636	+	IGR	DEL	TG	-	-			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:88116635_88116636delTG								LMO4 (302032 upstream) : None (None downstream)																							TCTGGAAATTTGTGTGTGTGTG	0.426													4	3	---	---	---	---	
SLC44A3	126969	broad.mit.edu	37	1	95286986	95286986	+	Intron	DEL	A	-	-			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:95286986delA	uc001dqv.3	+						uc001dqu.2_5'Flank|SLC44A3_uc001dqx.3_Intron|SLC44A3_uc010otq.1_Intron|SLC44A3_uc010otr.1_Intron|SLC44A3_uc001dqw.3_Intron|SLC44A3_uc010ots.1_Intron	NM_001114106	NP_001107578	Q8N4M1	CTL3_HUMAN	solute carrier family 44, member 3 isoform 1							integral to membrane|plasma membrane	choline transmembrane transporter activity			kidney(1)	1		all_lung(203;0.000712)|Lung NSC(277;0.00316)		all cancers(265;0.039)|Epithelial(280;0.124)	Choline(DB00122)	TTAACAAAGGAAAAGCCAGGG	0.433													4	2	---	---	---	---	
DPYD	1806	broad.mit.edu	37	1	97917680	97917680	+	Intron	DEL	G	-	-	rs115652558	by1000genomes	TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:97917680delG	uc001drv.2	-							NM_000110	NP_000101	Q12882	DPYD_HUMAN	dihydropyrimidine dehydrogenase isoform 1						'de novo' pyrimidine base biosynthetic process|purine base catabolic process|thymidine catabolic process|thymine catabolic process|UMP biosynthetic process|uracil catabolic process	cytosol	4 iron, 4 sulfur cluster binding|dihydroorotate oxidase activity|dihydropyrimidine dehydrogenase (NADP+) activity|electron carrier activity|flavin adenine dinucleotide binding|metal ion binding|NADP binding|protein homodimerization activity			ovary(3)|skin(3)|breast(2)	8		all_epithelial(167;0.000185)|all_lung(203;0.00318)|Lung NSC(277;0.00994)		Colorectal(170;0.0165)|Epithelial(280;0.0526)|all cancers(265;0.104)|READ - Rectum adenocarcinoma(84;0.171)|Lung(183;0.216)	Capecitabine(DB01101)|Enfuvirtide(DB00109)	CCCTactcccgcccattctcc	0.184													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	1	99717617	99717617	+	IGR	DEL	A	-	-			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:99717617delA								LPPR5 (247168 upstream) : LPPR4 (12283 downstream)																							gaacacaaagaagaaacaaca	0.000													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	1	111083219	111083219	+	IGR	DEL	T	-	-			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:111083219delT								KCNA10 (21422 upstream) : KCNA2 (52984 downstream)																							accccataacttttggttagg	0.139													4	2	---	---	---	---	
CD53	963	broad.mit.edu	37	1	111433203	111433204	+	Intron	INS	-	AGAGAA	AGAGAA	rs145610379	by1000genomes	TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:111433203_111433204insAGAGAA	uc001dzw.2	+						CD53_uc001dzx.2_Intron|CD53_uc010owa.1_Intron|CD53_uc001dzy.2_Intron	NM_001040033	NP_001035122	P19397	CD53_HUMAN	CD53 antigen						signal transduction	integral to membrane|plasma membrane					0		all_cancers(81;1.06e-05)|all_epithelial(167;1.95e-05)|all_lung(203;0.000199)|Lung NSC(277;0.000398)		Lung(183;0.0264)|Colorectal(144;0.0375)|all cancers(265;0.11)|Epithelial(280;0.114)|COAD - Colon adenocarcinoma(174;0.141)|LUSC - Lung squamous cell carcinoma(189;0.144)		aagaaagaaagagagaaagaga	0.119													5	3	---	---	---	---	
NOTCH2	4853	broad.mit.edu	37	1	120607696	120607697	+	Intron	DEL	CC	-	-			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:120607696_120607697delCC	uc001eik.2	-						NOTCH2_uc001eil.2_Intron|NOTCH2_uc001eim.3_Intron	NM_024408	NP_077719	Q04721	NOTC2_HUMAN	notch 2 preproprotein						anti-apoptosis|bone remodeling|cell cycle arrest|cell fate determination|cell growth|hemopoiesis|induction of apoptosis|negative regulation of cell proliferation|nervous system development|Notch receptor processing|Notch signaling pathway|organ morphogenesis|positive regulation of Ras protein signal transduction|regulation of transcription, DNA-dependent|stem cell maintenance|transcription, DNA-dependent	cell surface|cytosol|endoplasmic reticulum lumen|extracellular region|Golgi lumen|integral to plasma membrane|nucleoplasm	calcium ion binding|ligand-regulated transcription factor activity|protein binding|receptor activity			lung(8)|haematopoietic_and_lymphoid_tissue(7)|ovary(4)|central_nervous_system(2)|skin(2)|kidney(2)|breast(1)|prostate(1)	27	all_neural(166;0.153)	all_lung(203;1.96e-06)|Lung NSC(69;1.47e-05)|all_epithelial(167;0.000809)		Lung(183;0.0242)|LUSC - Lung squamous cell carcinoma(189;0.133)		GTCAAAGTGACCTTTATAAATT	0.391			N|F|Mis		marginal zone lymphoma|DLBCL				Alagille_Syndrome				4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	1	142603354	142603354	+	IGR	DEL	T	-	-	rs77683664		TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:142603354delT								None (None upstream) : None (None downstream)																							ctaaatcttcttttttttttc	0.000													4	3	---	---	---	---	
Unknown	0	broad.mit.edu	37	1	142668385	142668385	+	Intron	DEL	G	-	-	rs139797618	by1000genomes	TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:142668385delG	uc001eiw.1	+						uc001eix.1_Intron					Homo sapiens PNAS-130 mRNA, complete cds.																		gagaggtaatgtgcaggctgg	0.000													9	4	---	---	---	---	
Unknown	0	broad.mit.edu	37	1	143193286	143193286	+	Intron	DEL	T	-	-			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:143193286delT	uc001eiw.1	+											Homo sapiens PNAS-130 mRNA, complete cds.																		accaggctaattttttttttg	0.000													4	4	---	---	---	---	
Unknown	0	broad.mit.edu	37	1	143454225	143454225	+	Intron	DEL	G	-	-			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:143454225delG	uc001ejn.1	-											Homo sapiens cDNA clone IMAGE:30343207.																		atttgcatgtgggagaaacgt	0.030													4	3	---	---	---	---	
NBPF9	400818	broad.mit.edu	37	1	144847455	144847456	+	Intron	INS	-	AGAG	AGAG			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:144847455_144847456insAGAG	uc010oye.1	+						NBPF10_uc009wir.2_Intron|NBPF9_uc010oyf.1_Intron|NBPF9_uc010oyg.1_Intron|PDE4DIP_uc001elk.1_Intron|PDE4DIP_uc001ell.1_Intron|PDE4DIP_uc001elm.3_Intron|PDE4DIP_uc001eln.3_Intron|PDE4DIP_uc001elo.2_Intron			Q3BBV1	NBPFK_HUMAN	RecName: Full=Neuroblastoma breakpoint family member 8;							cytoplasm					0						gagaaagaaatagtcttttcct	0.000													5	3	---	---	---	---	
NBPF9	400818	broad.mit.edu	37	1	145044043	145044044	+	Intron	INS	-	AAT	AAT	rs2096319		TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:145044043_145044044insAAT	uc010oye.1	+						NBPF10_uc009wir.2_Intron|NBPF9_uc010oyf.1_Intron|NBPF9_uc010oyg.1_Intron|PDE4DIP_uc001elo.2_Intron|PDE4DIP_uc001emh.2_Intron			Q3BBV1	NBPFK_HUMAN	RecName: Full=Neuroblastoma breakpoint family member 8;							cytoplasm					0						ccgtctcaaaaaaaaaaataaa	0.134													6	3	---	---	---	---	
NBPF9	400818	broad.mit.edu	37	1	145048535	145048536	+	Intron	INS	-	T	T			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:145048535_145048536insT	uc010oye.1	+						NBPF10_uc009wir.2_Intron|NBPF9_uc010oyf.1_Intron|NBPF9_uc010oyg.1_Intron|PDE4DIP_uc001elo.2_Intron|PDE4DIP_uc001emh.2_Intron			Q3BBV1	NBPFK_HUMAN	RecName: Full=Neuroblastoma breakpoint family member 8;							cytoplasm					0						gaggcccccccccagtaggggc	0.000													10	5	---	---	---	---	
NBPF9	400818	broad.mit.edu	37	1	145077026	145077027	+	Intron	INS	-	AGA	AGA	rs144410779		TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:145077026_145077027insAGA	uc010oye.1	+						NBPF10_uc009wir.2_Intron|NBPF9_uc010oyf.1_Intron|NBPF9_uc010oyg.1_Intron|PDE4DIP_uc001elo.2_5'Flank|PDE4DIP_uc001emh.2_5'Flank|PDE4DIP_uc001emk.2_5'Flank			Q3BBV1	NBPFK_HUMAN	RecName: Full=Neuroblastoma breakpoint family member 8;							cytoplasm					0						gatagatagatttttttttttg	0.010													5	3	---	---	---	---	
NBPF9	400818	broad.mit.edu	37	1	145099902	145099903	+	Intron	INS	-	A	A	rs139193649		TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:145099902_145099903insA	uc010oye.1	+						NBPF10_uc009wir.2_Intron|NBPF9_uc010oyf.1_Intron|NBPF9_uc010oyg.1_Intron|SEC22B_uc001eml.1_Intron			Q3BBV1	NBPFK_HUMAN	RecName: Full=Neuroblastoma breakpoint family member 8;							cytoplasm					0						ATGAAAATGATAAGAGCTATGA	0.421													6	8	---	---	---	---	
NBPF9	400818	broad.mit.edu	37	1	145205245	145205248	+	Intron	DEL	TTGT	-	-	rs10535812		TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:145205245_145205248delTTGT	uc010oye.1	+						NBPF10_uc009wir.2_Intron|NBPF9_uc010oyf.1_Intron|NBPF9_uc010oyg.1_Intron			Q3BBV1	NBPFK_HUMAN	RecName: Full=Neuroblastoma breakpoint family member 8;							cytoplasm					0						atgtatTCACTTGTTTATGTTTCC	0.235													3	3	---	---	---	---	
NBPF10	100132406	broad.mit.edu	37	1	145289274	145289276	+	Intron	DEL	ACT	-	-	rs142911147		TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:145289274_145289276delACT	uc001emp.3	+						NBPF10_uc009wir.2_Intron|NBPF9_uc010oye.1_Intron|NBPF9_uc010oyf.1_Intron|NBPF9_uc010oyg.1_Intron|NOTCH2NL_uc001emo.2_Intron|NOTCH2NL_uc010oyh.1_Intron	NM_017940	NP_060410	A6NDV3	A6NDV3_HUMAN	hypothetical protein LOC55672												0	all_hematologic(923;0.032)			Colorectal(1306;1.36e-07)|KIRC - Kidney renal clear cell carcinoma(1967;0.00258)		ataCTATAGAACTAATAATAACA	0.128													4	2	---	---	---	---	
LOC728989	728989	broad.mit.edu	37	1	146498312	146498313	+	Intron	INS	-	C	C	rs149477982	by1000genomes	TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:146498312_146498313insC	uc001epd.2	-							NR_024442				SubName: Full=cDNA FLJ59595, highly similar to Homo sapiens phosphodiesterase 4D interacting protein, transcript variant 1, mRNA;												0						GGAGCCACAGATATtatgcaac	0.158													4	2	---	---	---	---	
NBPF15	284565	broad.mit.edu	37	1	148589438	148589439	+	Intron	DEL	TG	-	-			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:148589438_148589439delTG	uc001esc.2	+						NBPF15_uc001esb.1_Intron	NM_173638	NP_775909	Q8N660	NBPFF_HUMAN	hypothetical protein LOC284565							cytoplasm					0	all_hematologic(923;0.032)					GAGCTCGCTCtgtgtgtgtgtg	0.361													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	1	148853741	148853741	+	IGR	DEL	C	-	-			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:148853741delC								NBPF16 (95430 upstream) : LOC645166 (74545 downstream)																							GGTCCTCTGGCTGCCGCATCA	0.672													3	3	---	---	---	---	
Unknown	0	broad.mit.edu	37	1	149032673	149032674	+	IGR	DEL	CA	-	-	rs112278711		TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:149032673_149032674delCA								LOC645166 (79619 upstream) : LOC388692 (246802 downstream)																							TTACCATCTGCACACACACACA	0.376													6	5	---	---	---	---	
CTSS	1520	broad.mit.edu	37	1	150733357	150733357	+	Intron	DEL	A	-	-			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:150733357delA	uc001evn.2	-						CTSS_uc010pcj.1_Intron|CTSS_uc001evo.1_Intron	NM_004079	NP_004070	P25774	CATS_HUMAN	cathepsin S preproprotein						immune response|proteolysis	extracellular region|lysosome	cysteine-type endopeptidase activity				0	all_cancers(9;6.17e-52)|all_epithelial(9;9.7e-43)|all_lung(15;5.74e-35)|Lung NSC(24;2.09e-31)|Breast(34;0.00146)|Lung SC(34;0.00471)|Ovarian(49;0.0167)|all_hematologic(923;0.0395)|Hepatocellular(266;0.108)|Melanoma(130;0.128)|Colorectal(459;0.171)		UCEC - Uterine corpus endometrioid carcinoma (35;0.0485)|Epithelial(6;5.02e-21)|all cancers(9;1.28e-20)|OV - Ovarian serous cystadenocarcinoma(6;1.09e-14)|BRCA - Breast invasive adenocarcinoma(12;0.00501)|LUSC - Lung squamous cell carcinoma(543;0.171)			atctcatctcaaaaaaaaaaa	0.000													3	3	---	---	---	---	
SETDB1	9869	broad.mit.edu	37	1	150921206	150921206	+	Intron	DEL	T	-	-			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:150921206delT	uc001evu.2	+						SETDB1_uc009wmf.2_Intron|SETDB1_uc001evv.2_Intron|SETDB1_uc009wmg.1_Intron	NM_001145415	NP_001138887	Q15047	SETB1_HUMAN	SET domain, bifurcated 1 isoform 1						regulation of transcription, DNA-dependent|transcription, DNA-dependent	chromosome|Golgi apparatus|nucleus|plasma membrane	DNA binding|histone-lysine N-methyltransferase activity|protein binding|zinc ion binding			ovary(2)|upper_aerodigestive_tract(1)	3	all_lung(15;9e-35)|Lung NSC(24;3.45e-31)|Lung SC(34;0.00471)|Ovarian(49;0.0167)|all_hematologic(923;0.0597)|Hepatocellular(266;0.108)|Melanoma(130;0.185)		UCEC - Uterine corpus endometrioid carcinoma (35;0.0486)|BRCA - Breast invasive adenocarcinoma(12;0.0152)|LUSC - Lung squamous cell carcinoma(543;0.211)			CCATTGCTGCttttttttttt	0.199													4	2	---	---	---	---	
ANXA9	8416	broad.mit.edu	37	1	150960204	150960204	+	Intron	DEL	A	-	-			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:150960204delA	uc001ewa.2	+							NM_003568	NP_003559	O76027	ANXA9_HUMAN	annexin A9						cell-cell adhesion	cell surface|cytosol	acetylcholine receptor activity|calcium ion binding|calcium-dependent phospholipid binding|phosphatidylserine binding|protein homodimerization activity				0	all_lung(15;1.09e-34)|Lung NSC(24;1.1e-30)|Lung SC(34;0.00202)|Ovarian(49;0.0167)|all_hematologic(923;0.0597)|Hepatocellular(266;0.0997)|Melanoma(130;0.185)		UCEC - Uterine corpus endometrioid carcinoma (35;0.0486)|LUSC - Lung squamous cell carcinoma(543;0.211)			agtccttctcaaaaaaaaaaa	0.204													4	5	---	---	---	---	
Unknown	0	broad.mit.edu	37	1	152028098	152028098	+	IGR	DEL	T	-	-			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:152028098delT								S100A11 (18587 upstream) : TCHHL1 (28522 downstream)																							taaatctttcttgacatttgt	0.025													4	2	---	---	---	---	
S100A13	6284	broad.mit.edu	37	1	153595565	153595566	+	Intron	INS	-	A	A	rs74880579		TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:153595565_153595566insA	uc001fcf.3	-						S100A13_uc001fcg.2_Intron|S100A13_uc009woh.2_Intron|S100A13_uc001fch.2_Intron|S100A13_uc001fci.2_Intron|S100A13_uc001fcj.2_Intron	NM_001024213	NP_001019384	Q99584	S10AD_HUMAN	S100 calcium binding protein A13						interleukin-1 alpha secretion|mast cell degranulation|positive regulation of I-kappaB kinase/NF-kappaB cascade	cytosol|extracellular space|nucleus|perinuclear region of cytoplasm	calcium ion binding|copper ion binding|fibroblast growth factor 1 binding|lipid binding|protein homodimerization activity|RAGE receptor binding|zinc ion binding				0	all_lung(78;1.84e-32)|Lung NSC(65;6.67e-31)|Hepatocellular(266;0.0877)|Melanoma(130;0.199)		LUSC - Lung squamous cell carcinoma(543;0.171)		Amlexanox(DB01025)	gactctgtctcaaaaaaaaaaa	0.030													4	2	---	---	---	---	
SLC39A1	27173	broad.mit.edu	37	1	153940145	153940145	+	5'UTR	DEL	A	-	-	rs67765759		TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:153940145delA	uc001fdl.2	-	1					CREB3L4_uc001fdn.3_5'Flank|CREB3L4_uc010pef.1_5'Flank|CREB3L4_uc001fdo.3_5'Flank|CREB3L4_uc001fdm.1_5'Flank|CREB3L4_uc001fdp.1_5'Flank|CREB3L4_uc010peg.1_5'Flank|CREB3L4_uc001fdr.2_5'Flank|CREB3L4_uc001fdq.2_5'Flank	NM_014437	NP_055252	Q9NY26	S39A1_HUMAN	solute carrier family 39 (zinc transporter),							endoplasmic reticulum membrane|integral to membrane|membrane fraction|plasma membrane	zinc ion transmembrane transporter activity				0	all_lung(78;3.05e-32)|Lung NSC(65;3.74e-30)|Hepatocellular(266;0.0877)|Melanoma(130;0.199)		LUSC - Lung squamous cell carcinoma(543;0.151)	Colorectal(1306;0.019)		aagaataaagaaaaaaaaaag	0.254													4	3	---	---	---	---	
DAP3	7818	broad.mit.edu	37	1	155702024	155702025	+	Intron	INS	-	T	T			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:155702024_155702025insT	uc001flq.2	+						DAP3_uc001flr.2_Intron|DAP3_uc001fls.2_Intron|DAP3_uc010pgl.1_Intron|DAP3_uc001flt.2_Intron|DAP3_uc001flu.2_Intron|DAP3_uc010pgm.1_Intron	NM_033657	NP_387506	P51398	RT29_HUMAN	death-associated protein 3						induction of apoptosis by extracellular signals	mitochondrial ribosome|nucleolus|small ribosomal subunit	protein binding			ovary(1)	1	Hepatocellular(266;0.0997)|all_hematologic(923;0.145)					agtttcttttcttttttttttt	0.000													4	3	---	---	---	---	
SMG5	23381	broad.mit.edu	37	1	156224354	156224354	+	Intron	DEL	C	-	-			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:156224354delC	uc001foc.3	-						SMG5_uc009wrv.2_Intron	NM_015327	NP_056142	Q9UPR3	SMG5_HUMAN	SMG5 homolog nonsense mediated mRNA decay						mRNA export from nucleus|nuclear-transcribed mRNA catabolic process, nonsense-mediated decay|regulation of dephosphorylation	cytoplasm|nucleus	protein phosphatase 2A binding			ovary(2)|skin(2)|pancreas(1)	5	Hepatocellular(266;0.158)					cctgcctcagccccccaacta	0.000													4	2	---	---	---	---	
IQGAP3	128239	broad.mit.edu	37	1	156517215	156517218	+	Intron	DEL	ACAG	-	-	rs66504649		TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:156517215_156517218delACAG	uc001fpf.2	-							NM_178229	NP_839943	Q86VI3	IQGA3_HUMAN	IQ motif containing GTPase activating protein 3						small GTPase mediated signal transduction	intracellular	calmodulin binding|Ras GTPase activator activity			ovary(5)|skin(1)	6	all_hematologic(923;0.088)|Hepatocellular(266;0.158)					acacacacacacagacacacacac	0.083													4	2	---	---	---	---	
OR6N2	81442	broad.mit.edu	37	1	158747277	158747277	+	Frame_Shift_Del	DEL	C	-	-			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:158747277delC	uc010pir.1	-	1	149	c.149delG	c.(148-150)CGAfs	p.R50fs		NM_001005278	NP_001005278	Q8NGY6	OR6N2_HUMAN	olfactory receptor, family 6, subfamily N,	50	Cytoplasmic (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity				0	all_hematologic(112;0.0378)					TGCATCCAGTCGGATGACTGA	0.478													132	69	---	---	---	---	
CRP	1401	broad.mit.edu	37	1	159686535	159686536	+	5'Flank	DEL	TT	-	-	rs112696467		TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:159686535_159686536delTT	uc001ftw.2	-						CRP_uc001ftx.1_5'Flank|CRP_uc001fty.1_5'Flank	NM_000567	NP_000558	P02741	CRP_HUMAN	C-reactive protein, pentraxin-related precursor						acute-phase response|negative regulation of lipid storage|negative regulation of macrophage derived foam cell differentiation|opsonization		choline binding|Gram-positive bacterial cell surface binding|low-density lipoprotein particle binding|metal ion binding|protein binding			ovary(1)	1	all_hematologic(112;0.0429)				Atorvastatin(DB01076)|Bezafibrate(DB01393)	ttttcttttctttttttttttt	0.015													3	3	---	---	---	---	
F11R	50848	broad.mit.edu	37	1	161001703	161001704	+	Intron	INS	-	A	A			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:161001703_161001704insA	uc010pjw.1	-						F11R_uc001fxf.3_Intron	NM_016946	NP_058642	Q9Y624	JAM1_HUMAN	F11 receptor precursor						blood coagulation|inflammatory response|interspecies interaction between organisms|leukocyte migration|tight junction assembly	integral to membrane|tight junction				ovary(2)	2	all_cancers(52;6.73e-18)|all_hematologic(112;0.093)		BRCA - Breast invasive adenocarcinoma(70;0.00207)			gaccttgtctcaaaaaaaaaaa	0.000													4	2	---	---	---	---	
CD247	919	broad.mit.edu	37	1	167476460	167476460	+	Intron	DEL	T	-	-			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:167476460delT	uc001gei.3	-						CD247_uc001gej.3_Intron|CD247_uc001gek.2_Intron	NM_198053	NP_932170	P20963	CD3Z_HUMAN	T-cell receptor zeta chain isoform 1 precursor						interspecies interaction between organisms|regulation of defense response to virus by virus|T cell costimulation|T cell receptor signaling pathway|viral reproduction	cytoplasm|integral to membrane	protein homodimerization activity|transmembrane receptor activity				0			LUSC - Lung squamous cell carcinoma(543;0.236)			ctggccTGAATTTTTTTTTTT	0.199													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	1	169607702	169607703	+	IGR	INS	-	A	A	rs74944705		TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:169607702_169607703insA								SELP (8325 upstream) : C1orf112 (23542 downstream)																							aactccgtctcaaaaaaaaaaa	0.000													4	3	---	---	---	---	
KIFAP3	22920	broad.mit.edu	37	1	170043312	170043312	+	Intron	DEL	C	-	-			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:170043312delC	uc001ggv.2	-						KIFAP3_uc010ply.1_Intron|KIFAP3_uc001ggw.1_Intron	NM_014970	NP_055785	Q92845	KIFA3_HUMAN	kinesin-associated protein 3						blood coagulation|plus-end-directed vesicle transport along microtubule|protein complex assembly|signal transduction	centrosome|condensed nuclear chromosome|cytosol|endoplasmic reticulum|kinesin II complex|spindle microtubule	kinesin binding			skin(1)	1	all_hematologic(923;0.0922)|Acute lymphoblastic leukemia(37;0.181)					ACCTCCCTCTCCCCCTGGAAT	0.498													4	2	---	---	---	---	
GORAB	92344	broad.mit.edu	37	1	170501847	170501848	+	Intron	INS	-	A	A			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:170501847_170501848insA	uc001gha.2	+						GORAB_uc009wvw.2_Intron|GORAB_uc001ggz.3_Intron|GORAB_uc009wvx.2_Intron|GORAB_uc001ghb.2_Intron	NM_152281	NP_689494	Q5T7V8	GORAB_HUMAN	golgin, RAB6-interacting isoform a							Golgi apparatus|nucleus					0						CAGATGGTTGGAAAAAAGGAGC	0.327													2	4	---	---	---	---	
Unknown	0	broad.mit.edu	37	1	171780718	171780719	+	IGR	DEL	AC	-	-	rs139798271		TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:171780718_171780719delAC								METTL13 (13863 upstream) : DNM3 (29902 downstream)																							TTGTTTGAAAacacacacacac	0.371													3	3	---	---	---	---	
Unknown	0	broad.mit.edu	37	1	171806532	171806533	+	IGR	INS	-	AT	AT	rs139865670	by1000genomes	TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:171806532_171806533insAT								METTL13 (39677 upstream) : DNM3 (4088 downstream)																							GGTTTCATCACGTTTCTTTAAG	0.233													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	1	172656668	172656668	+	IGR	DEL	G	-	-			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:172656668delG								FASLG (20658 upstream) : TNFSF18 (353692 downstream)																							gtgtatttgtggggtcagaga	0.015													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	1	189959773	189959773	+	IGR	DEL	T	-	-			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:189959773delT								None (None upstream) : FAM5C (107024 downstream)																							ATATTCTTGATTTTTTTTGAT	0.338													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	1	197041920	197041921	+	IGR	INS	-	A	A	rs147443529	by1000genomes	TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:197041920_197041921insA								F13B (5523 upstream) : ASPM (11337 downstream)																							gaaattgaaacaaaaaaaattg	0.000													3	3	---	---	---	---	
Unknown	0	broad.mit.edu	37	1	201533253	201533254	+	IGR	INS	-	GGAG	GGAG	rs142560035	by1000genomes	TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:201533253_201533254insGGAG								RPS10P7 (33651 upstream) : NAV1 (84196 downstream)																							aaaggaaagaaGGagggaggga	0.010													3	4	---	---	---	---	
LRRN2	10446	broad.mit.edu	37	1	204610133	204610134	+	Intron	INS	-	A	A	rs58950375		TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:204610133_204610134insA	uc001hbe.1	-						MDM4_uc001hbd.1_Intron|LRRN2_uc001hbf.1_Intron|LRRN2_uc009xbf.1_Intron	NM_006338	NP_006329	O75325	LRRN2_HUMAN	leucine rich repeat neuronal 2 precursor						cell adhesion	integral to membrane	receptor activity			central_nervous_system(2)	2	all_cancers(21;0.0519)|Breast(84;0.112)|Prostate(682;0.19)		KIRC - Kidney renal clear cell carcinoma(13;0.0584)|Kidney(21;0.0934)|BRCA - Breast invasive adenocarcinoma(75;0.143)			GGTTAAAAAAGAAAAAAAAAAA	0.203													4	3	---	---	---	---	
IRF6	3664	broad.mit.edu	37	1	209977226	209977227	+	Intron	INS	-	AC	AC	rs141616169	by1000genomes	TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:209977226_209977227insAC	uc001hhq.1	-						IRF6_uc010psm.1_Intron|IRF6_uc009xct.1_Intron	NM_006147	NP_006138	O14896	IRF6_HUMAN	interferon regulatory factor 6						cell cycle arrest|interferon-gamma-mediated signaling pathway|mammary gland epithelial cell differentiation|negative regulation of cell proliferation|positive regulation of transcription, DNA-dependent|type I interferon-mediated signaling pathway	cytoplasm|nucleus	DNA binding|protein binding|sequence-specific DNA binding transcription factor activity			ovary(2)	2				OV - Ovarian serous cystadenocarcinoma(81;0.0351)		ggcagggggaaacagcatacaa	0.000										HNSCC(57;0.16)			4	3	---	---	---	---	
PPP2R5A	5525	broad.mit.edu	37	1	212516190	212516191	+	Intron	INS	-	T	T	rs138801968	by1000genomes	TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:212516190_212516191insT	uc001hjb.2	+						PPP2R5A_uc010ptd.1_Intron	NM_006243	NP_006234	Q15172	2A5A_HUMAN	protein phosphatase 2, regulatory subunit B						negative regulation of establishment of protein localization in plasma membrane|negative regulation of lipid kinase activity|positive regulation of protein dephosphorylation|signal transduction	chromosome, centromeric region|cytoplasm|nucleus|protein phosphatase type 2A complex	kinase binding|protein phosphatase type 2A regulator activity			ovary(1)	1				OV - Ovarian serous cystadenocarcinoma(81;0.0125)|all cancers(67;0.029)|Epithelial(68;0.154)|GBM - Glioblastoma multiforme(131;0.155)		GTGATGCCTTCTTTTTTTTTTA	0.307													3	4	---	---	---	---	
Unknown	0	broad.mit.edu	37	1	215163362	215163362	+	IGR	DEL	G	-	-			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:215163362delG								CENPF (325450 upstream) : KCNK2 (15523 downstream)																							AAAGATGAATGGAACAGATTA	0.209													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	1	215175522	215175523	+	IGR	INS	-	T	T	rs139632539	by1000genomes	TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:215175522_215175523insT								CENPF (337610 upstream) : KCNK2 (3362 downstream)																							ATTGGAAGAGCTTGTGCAGTTA	0.282													6	5	---	---	---	---	
Unknown	0	broad.mit.edu	37	1	218852095	218852096	+	IGR	INS	-	GT	GT	rs140368665	by1000genomes	TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:218852095_218852096insGT								TGFB2 (234136 upstream) : LYPLAL1 (495096 downstream)																							TATGTGCAAGCgtgtgtgtgtg	0.079													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	1	219199997	219199998	+	IGR	INS	-	A	A	rs141532403	by1000genomes	TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:219199997_219199998insA								TGFB2 (582038 upstream) : LYPLAL1 (147194 downstream)																							tgtggaaagcgaaaaaaaacaa	0.000													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	1	221586640	221586641	+	IGR	INS	-	GT	GT	rs10660423		TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:221586640_221586641insGT								LOC400804 (77002 upstream) : DUSP10 (288125 downstream)																							CACTTCCAGGCgtgtgtgtgtg	0.223													1	5	---	---	---	---	
Unknown	0	broad.mit.edu	37	1	224200562	224200563	+	IGR	INS	-	AGAAC	AGAAC			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:224200562_224200563insAGAAC								TP53BP2 (166888 upstream) : FBXO28 (101228 downstream)																							cggaatggcatggaacggaatg	0.000													7	4	---	---	---	---	
ENAH	55740	broad.mit.edu	37	1	225701704	225701704	+	Intron	DEL	A	-	-			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:225701704delA	uc001hpc.1	-						ENAH_uc001hpd.1_Intron|ENAH_uc001hpb.1_Intron	NM_001008493	NP_001008493	Q8N8S7	ENAH_HUMAN	enabled homolog isoform a						axon guidance|intracellular transport|T cell receptor signaling pathway	cytosol|filopodium|focal adhesion|lamellipodium|synapse	actin binding|SH3 domain binding|WW domain binding			ovary(1)|skin(1)	2	Breast(184;0.206)			GBM - Glioblastoma multiforme(131;0.19)		gagaaaaaacaaaaaaagtgc	0.000													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	1	232858078	232858079	+	IGR	INS	-	T	T			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:232858078_232858079insT								SIPA1L2 (206835 upstream) : KIAA1383 (82559 downstream)																							CTGTCACACTCttttttttttt	0.223													6	3	---	---	---	---	
Unknown	0	broad.mit.edu	37	1	232911329	232911330	+	IGR	INS	-	AG	AG	rs140789345	by1000genomes	TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:232911329_232911330insAG								SIPA1L2 (260086 upstream) : KIAA1383 (29308 downstream)																							TGCCTATATGCAGAGAGAGAGA	0.168													2	5	---	---	---	---	
PCNXL2	80003	broad.mit.edu	37	1	233142042	233142043	+	Intron	INS	-	A	A	rs141841635	by1000genomes	TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:233142042_233142043insA	uc001hvl.2	-						PCNXL2_uc001hvk.1_Intron|PCNXL2_uc001hvm.1_Intron	NM_014801	NP_055616	A6NKB5	PCX2_HUMAN	pecanex-like 2							integral to membrane				central_nervous_system(1)|pancreas(1)	2		all_cancers(173;0.0347)|Prostate(94;0.137)				ACTCGGCACAGAATGAACCCAT	0.500													3	3	---	---	---	---	
EDARADD	128178	broad.mit.edu	37	1	236577755	236577755	+	Intron	DEL	T	-	-	rs34360581		TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:236577755delT	uc001hxu.1	+						EDARADD_uc001hxv.1_Intron	NM_145861	NP_665860	Q8WWZ3	EDAD_HUMAN	EDAR-associated death domain isoform A						cell differentiation|signal transduction	cytoplasm					0	Ovarian(103;0.0634)|Breast(184;0.247)	all_cancers(173;0.0232)|Prostate(94;0.174)	OV - Ovarian serous cystadenocarcinoma(106;0.00117)			CAGAAATTAATTTTTTTCTTT	0.254													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	1	237199220	237199223	+	IGR	DEL	TCCT	-	-	rs66520854		TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:237199220_237199223delTCCT								MTR (131940 upstream) : RYR2 (6479 downstream)																							tcctgcttgctccttccttccttc	0.000													4	2	---	---	---	---	
WDR64	128025	broad.mit.edu	37	1	241863686	241863686	+	Intron	DEL	C	-	-			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:241863686delC	uc001hze.1	+						WDR64_uc001hzf.1_Intron			B1ANS9	WDR64_HUMAN	RecName: Full=WD repeat-containing protein 64;											skin(1)	1	Ovarian(103;0.103)	all_cancers(173;0.0121)	OV - Ovarian serous cystadenocarcinoma(106;0.0116)			caattggtctccctcctttga	0.020													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	1	244235282	244235283	+	IGR	INS	-	T	T			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:244235282_244235283insT								ZNF238 (14506 upstream) : C1orf100 (280654 downstream)																							TACTCCAAttcttttttttttt	0.233													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	1	244300604	244300605	+	IGR	DEL	AA	-	-			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:244300604_244300605delAA								ZNF238 (79828 upstream) : C1orf100 (215332 downstream)																							GACTGGAGTTAACTTACAGCTG	0.342													4	2	---	---	---	---	
OR2T2	401992	broad.mit.edu	37	1	248613599	248613600	+	5'Flank	DEL	AC	-	-			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:248613599_248613600delAC	uc001iek.1	+							NM_001004136	NP_001004136	Q6IF00	OR2T2_HUMAN	olfactory receptor, family 2, subfamily T,						sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			skin(1)	1	all_cancers(71;0.000108)|all_epithelial(71;1.03e-05)|Breast(184;0.00909)|Ovarian(71;0.0377)|all_lung(81;0.127)|Lung NSC(105;0.136)		OV - Ovarian serous cystadenocarcinoma(106;0.0265)			tcacatatgaacacactacaca	0.183													2	4	---	---	---	---	
Unknown	0	broad.mit.edu	37	2	4172240	4172243	+	IGR	DEL	GTGT	-	-	rs140080592		TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:4172240_4172243delGTGT								ALLC (421982 upstream) : None (None downstream)																							TCCtgtgtgcgtgtgtgtgtgtgt	0.309													4	3	---	---	---	---	
Unknown	0	broad.mit.edu	37	2	6263988	6263989	+	IGR	INS	-	TT	TT	rs12993157	by1000genomes	TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:6263988_6263989insTT								LOC400940 (135624 upstream) : CMPK2 (716514 downstream)																							ttctttctttctctttctttct	0.000													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	2	8453569	8453570	+	Intron	INS	-	T	T	rs143944693	by1000genomes	TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:8453569_8453570insT	uc010eww.1	-						uc002qyy.1_Intron					Homo sapiens cDNA FLJ45673 fis, clone D9OST2003989.																		TGGTTTTTTTGTTTTTTTTTTA	0.475													1	5	---	---	---	---	
ATP6V1C2	245973	broad.mit.edu	37	2	10919232	10919232	+	Intron	DEL	T	-	-	rs143148088		TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:10919232delT	uc002ras.2	+						ATP6V1C2_uc002rat.2_Intron	NM_001039362	NP_001034451	Q8NEY4	VATC2_HUMAN	vacuolar H+ ATPase C2 isoform a						ATP hydrolysis coupled proton transport|cellular iron ion homeostasis|insulin receptor signaling pathway|transferrin transport	cytosol|proton-transporting V-type ATPase, V1 domain				ovary(1)	1	Acute lymphoblastic leukemia(172;0.155)|all_hematologic(175;0.191)			Epithelial(75;0.15)|OV - Ovarian serous cystadenocarcinoma(76;0.152)		ttattttgccttttttttttt	0.259													5	3	---	---	---	---	
E2F6	1876	broad.mit.edu	37	2	11604075	11604075	+	Intron	DEL	G	-	-			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:11604075delG	uc002rbh.2	-						E2F6_uc002rbe.2_Intron|E2F6_uc002rbf.2_Intron|E2F6_uc002rbg.2_Intron|E2F6_uc002rbi.2_Intron|E2F6_uc010yjl.1_Intron|E2F6_uc002rbj.1_Intron	NM_198256	NP_937987	O75461	E2F6_HUMAN	E2F transcription factor 6						negative regulation of transcription from RNA polymerase II promoter	MLL1 complex|transcription factor complex	DNA binding|transcription corepressor activity			skin(1)	1	all_hematologic(175;0.127)|Acute lymphoblastic leukemia(172;0.155)			Epithelial(75;0.114)|OV - Ovarian serous cystadenocarcinoma(76;0.168)		atcctgCACCGGGGGGGGGGA	0.244													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	2	12583036	12583036	+	Intron	DEL	T	-	-	rs67069423		TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:12583036delT	uc002rbu.1	+											Homo sapiens cDNA FLJ10696 fis, clone NT2RP3000484.																		TAAGGATAGATTTTTTTTTTT	0.413													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	2	12607546	12607549	+	Intron	DEL	CTAT	-	-	rs7568368		TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:12607546_12607549delCTAT	uc002rbu.1	+											Homo sapiens cDNA FLJ10696 fis, clone NT2RP3000484.																		tccttccttcctatcttccttcct	0.093													5	3	---	---	---	---	
Unknown	0	broad.mit.edu	37	2	16867503	16867503	+	IGR	DEL	A	-	-			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:16867503delA								FAM49A (20407 upstream) : RAD51AP2 (824483 downstream)																							AAGGAAACTTAACCGAGGCGC	0.537													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	2	18566668	18566668	+	IGR	DEL	C	-	-			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:18566668delC								KCNS3 (452444 upstream) : NT5C1B (169323 downstream)																							taatcttaaaccctcagactc	0.020													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	2	20329654	20329655	+	IGR	INS	-	A	A			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:20329654_20329655insA								LAPTM4A (77865 upstream) : SDC1 (70903 downstream)																							GAGGCAGGAAGAAAAAAAACAA	0.446													4	2	---	---	---	---	
DTNB	1838	broad.mit.edu	37	2	25651304	25651305	+	Intron	INS	-	T	T			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:25651304_25651305insT	uc002rgh.2	-						DTNB_uc002rgg.2_Intron|DTNB_uc010yko.1_Intron|DTNB_uc010ykp.1_Intron|DTNB_uc002rgo.2_Intron|DTNB_uc002rgi.2_Intron|DTNB_uc002rgj.2_Intron|DTNB_uc002rgk.2_Intron|DTNB_uc002rgl.2_Intron|DTNB_uc002rgq.2_Intron|DTNB_uc002rgm.2_Intron|DTNB_uc002rgn.2_Intron|DTNB_uc002rgr.1_Intron|DTNB_uc010ykq.1_Intron|DTNB_uc002rgp.1_5'Flank	NM_021907	NP_068707	O60941	DTNB_HUMAN	dystrobrevin, beta isoform 1							cytoplasm	calcium ion binding|zinc ion binding			large_intestine(2)|ovary(2)	4	Acute lymphoblastic leukemia(172;0.155)|all_hematologic(175;0.215)					ATCCTGCtttcttttttttttt	0.183													4	2	---	---	---	---	
KIF3C	3797	broad.mit.edu	37	2	26194308	26194308	+	Intron	DEL	A	-	-			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:26194308delA	uc002rgu.2	-						KIF3C_uc010eyj.1_Intron|KIF3C_uc010ykr.1_Intron	NM_002254	NP_002245	O14782	KIF3C_HUMAN	kinesin family member 3C						blood coagulation|microtubule-based movement	cytosol|kinesin complex|microtubule	ATP binding|microtubule motor activity			ovary(3)|skin(1)	4	Acute lymphoblastic leukemia(172;0.155)|all_hematologic(175;0.215)					actacatctcaaaaaaaaaaa	0.164													3	3	---	---	---	---	
OTOF	9381	broad.mit.edu	37	2	26685481	26685481	+	Intron	DEL	G	-	-			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:26685481delG	uc002rhk.2	-						OTOF_uc010yla.1_Intron|OTOF_uc002rhh.2_Intron|OTOF_uc002rhi.2_Intron|OTOF_uc002rhj.2_Intron	NM_194248	NP_919224	Q9HC10	OTOF_HUMAN	otoferlin isoform a						cellular membrane fusion|sensory perception of sound|synaptic vesicle exocytosis	basolateral plasma membrane|cell junction|cytosol|endoplasmic reticulum membrane|integral to membrane|membrane fraction|synaptic vesicle membrane	calcium ion binding			ovary(3)|breast(2)|central_nervous_system(1)|pancreas(1)	7	Acute lymphoblastic leukemia(172;0.155)|all_hematologic(175;0.215)					ATCTGAGCATGGCTCTCCTGG	0.483													4	2	---	---	---	---	
ALK	238	broad.mit.edu	37	2	29578358	29578359	+	Intron	DEL	AC	-	-			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:29578358_29578359delAC	uc002rmy.2	-							NM_004304	NP_004295	Q9UM73	ALK_HUMAN	anaplastic lymphoma kinase precursor						protein autophosphorylation|transmembrane receptor protein tyrosine kinase signaling pathway	integral to plasma membrane	ATP binding|protein binding|transmembrane receptor protein tyrosine kinase activity		NPM1/ALK(632)|EML4/ALK(246)|CLTC/ALK(44)|TPM3/ALK(33)|ATIC/ALK(24)|RANBP2/ALK(16)|TPM4/ALK(12)|TFG/ALK(7)|MSN/ALK(6)|CARS/ALK(5)|VCL/ALK(4)|KIF5B/ALK(4)|PPFIBP1/ALK(3)|SEC31A/ALK(3)|SQSTM1/ALK(2)	haematopoietic_and_lymphoid_tissue(726)|lung(262)|autonomic_ganglia(148)|soft_tissue(61)|breast(4)|kidney(4)|large_intestine(3)|skin(3)|ovary(3)|thyroid(2)|central_nervous_system(1)|pancreas(1)	1218	Acute lymphoblastic leukemia(172;0.155)				Adenosine triphosphate(DB00171)	ccacacacagacacacacacac	0.386			T|Mis|A	NPM1|TPM3|TFG|TPM4|ATIC|CLTC|MSN|ALO17|CARS|EML4	ALCL|NSCLC|Neuroblastoma	neuroblastoma			Neuroblastoma_Familial_Clustering_of|Congenital_Central_Hypoventilation_Syndrome				4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	2	30168012	30168012	+	IGR	DEL	T	-	-			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:30168012delT								ALK (23580 upstream) : YPEL5 (201738 downstream)																							ttctagaatgttgttgaataa	0.000													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	2	30539271	30539271	+	IGR	DEL	T	-	-	rs71403700		TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:30539271delT								LBH (56372 upstream) : LCLAT1 (130852 downstream)																							cacagtatgattttttttttt	0.030													4	2	---	---	---	---	
GALNT14	79623	broad.mit.edu	37	2	31250753	31250754	+	Intron	DEL	TG	-	-	rs112349476		TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:31250753_31250754delTG	uc002rnr.2	-						GALNT14_uc002rnq.2_Intron|GALNT14_uc002rns.2_Intron|GALNT14_uc010ymr.1_Intron|GALNT14_uc010ezo.1_Intron|GALNT14_uc010ezp.1_Intron	NM_024572	NP_078848	Q96FL9	GLT14_HUMAN	N-acetylgalactosaminyltransferase 14							Golgi membrane|integral to membrane	polypeptide N-acetylgalactosaminyltransferase activity|sugar binding			upper_aerodigestive_tract(2)|skin(1)	3	Acute lymphoblastic leukemia(172;0.155)					AGATGTATTCtgtgtgtgtgtg	0.401													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	2	31528286	31528287	+	IGR	INS	-	A	A			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:31528286_31528287insA								EHD3 (37027 upstream) : XDH (28901 downstream)																							TTTAATCTTTTAAtcttatttc	0.020													4	2	---	---	---	---	
LTBP1	4052	broad.mit.edu	37	2	33317261	33317262	+	Intron	DEL	CG	-	-	rs113961167		TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:33317261_33317262delCG	uc002ros.2	+							NM_206943	NP_996826	Q14766	LTBP1_HUMAN	latent transforming growth factor beta binding						negative regulation of transforming growth factor beta receptor signaling pathway by extracellular sequestering of TGFbeta	proteinaceous extracellular matrix	calcium ion binding|growth factor binding|transforming growth factor beta receptor activity			ovary(3)|skin(2)|upper_aerodigestive_tract(1)|lung(1)|central_nervous_system(1)	8	all_hematologic(175;0.115)	Medulloblastoma(90;0.215)				cacacacacacgcgcacacaca	0.371													4	6	---	---	---	---	
Unknown	0	broad.mit.edu	37	2	38001914	38001915	+	IGR	INS	-	T	T	rs144052306	by1000genomes	TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:38001914_38001915insT								CDC42EP3 (102588 upstream) : FAM82A1 (150547 downstream)																							GAAAGAGCAGATGGGCAAGGAA	0.500													7	5	---	---	---	---	
Unknown	0	broad.mit.edu	37	2	38873460	38873461	+	IGR	INS	-	T	T	rs67323852		TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:38873460_38873461insT								HNRPLL (43282 upstream) : GALM (19591 downstream)																							agaaaaataacttttttttttt	0.000													3	3	---	---	---	---	
MTA3	57504	broad.mit.edu	37	2	42785700	42785700	+	Intron	DEL	T	-	-			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:42785700delT	uc002rso.1	+							NM_020744	NP_065795	Q9BTC8	MTA3_HUMAN	metastasis associated 1 family, member 3							nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(2)	2						TTTAAAAAAAttttttttttt	0.000													4	3	---	---	---	---	
C2orf34	79823	broad.mit.edu	37	2	44896772	44896772	+	Intron	DEL	T	-	-			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:44896772delT	uc002rum.2	+							NM_024766	NP_079042	Q7Z624	CMKMT_HUMAN	hypothetical protein LOC79823							cytoplasm	calmodulin-lysine N-methyltransferase activity				0		all_hematologic(82;0.0892)|Acute lymphoblastic leukemia(82;0.17)				ctcattatggttttttttttc	0.000													5	3	---	---	---	---	
Unknown	0	broad.mit.edu	37	2	45420468	45420469	+	Intron	INS	-	ACCA	ACCA	rs150678278	by1000genomes	TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:45420468_45420469insACCA	uc002ruq.2	-						uc002rur.1_5'Flank					Homo sapiens cDNA FLJ38231 fis, clone FCBBF2004707.																		AGTAACCCTTTACCAATAGATT	0.460													2	4	---	---	---	---	
Unknown	0	broad.mit.edu	37	2	47115380	47115381	+	IGR	INS	-	A	A			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:47115380_47115381insA								LOC100134259 (29235 upstream) : MCFD2 (13636 downstream)																							gaccctgtctcaaaaaaaaaaa	0.153													4	3	---	---	---	---	
Unknown	0	broad.mit.edu	37	2	50139443	50139444	+	IGR	DEL	TG	-	-	rs71401051		TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:50139443_50139444delTG								FSHR (757813 upstream) : NRXN1 (6200 downstream)																							tgcatgactCtgtgtgtgtgtg	0.074													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	2	61061474	61061474	+	IGR	DEL	T	-	-			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:61061474delT								PAPOLG (35378 upstream) : REL (47278 downstream)																							TTGAATCCCCTAGTATGTAGT	0.358													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	2	61105957	61105957	+	Intron	DEL	A	-	-	rs80210949		TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:61105957delA	uc002sal.1	-						REL_uc002sam.1_5'Flank|REL_uc002san.1_5'Flank					Homo sapiens cDNA FLJ16341 fis, clone TESTI2013381.																		ccctgtctccaaaaaaaaaaa	0.000													6	6	---	---	---	---	
RAB1A	5861	broad.mit.edu	37	2	65327898	65327900	+	Intron	DEL	AAA	-	-	rs66630618		TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:65327898_65327900delAAA	uc002sdm.2	-						RAB1A_uc002sdn.2_Intron|RAB1A_uc010yqe.1_Intron|RAB1A_uc002sdo.2_Intron	NM_004161	NP_004152	P62820	RAB1A_HUMAN	RAB1A, member RAS oncogene family isoform 1						protein transport|small GTPase mediated signal transduction|vesicle-mediated transport	endoplasmic reticulum|Golgi apparatus	GTP binding|GTPase activity				0						atctcaaaccaaaaaaaaaaaaa	0.138													3	3	---	---	---	---	
AAK1	22848	broad.mit.edu	37	2	69831829	69831829	+	Intron	DEL	G	-	-			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:69831829delG	uc002sfp.2	-						AAK1_uc010fdk.2_Intron|AAK1_uc010yqm.1_Intron|AAK1_uc010fdm.1_Intron	NM_014911	NP_055726	Q2M2I8	AAK1_HUMAN	AP2 associated kinase 1							coated pit|mitochondrion|plasma membrane	ATP binding|protein serine/threonine kinase activity				0						GAGGATGACTGGGGAAGTGGC	0.572													4	2	---	---	---	---	
ASPRV1	151516	broad.mit.edu	37	2	70302245	70302246	+	Intron	INS	-	T	T			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:70302245_70302246insT	uc002sga.2	-						uc002sgb.1_Intron|uc002sgd.2_Intron|uc002sge.1_Intron			Q53RT3	APRV1_HUMAN	Homo sapiens cDNA FLJ32260 fis, clone PROST1000334.						protein maturation by peptide bond cleavage|skin development		aspartic-type endopeptidase activity			ovary(1)	1						aagaTAACATCttttttttttt	0.010													4	2	---	---	---	---	
DYSF	8291	broad.mit.edu	37	2	71845807	71845808	+	Intron	INS	-	GGT	GGT	rs138860021	by1000genomes	TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:71845807_71845808insGGT	uc002sie.2	+						DYSF_uc010feg.2_Intron|DYSF_uc010feh.2_Intron|DYSF_uc002sig.3_Intron|DYSF_uc010yqx.1_Intron|DYSF_uc010fee.2_Intron|DYSF_uc010fef.2_Intron|DYSF_uc010fei.2_Intron|DYSF_uc010fek.2_Intron|DYSF_uc010fej.2_Intron|DYSF_uc010fel.2_Intron|DYSF_uc010feo.2_Intron|DYSF_uc010fem.2_Intron|DYSF_uc010fen.2_Intron|DYSF_uc002sif.2_Intron|DYSF_uc010yqy.1_Intron|DYSF_uc010yqz.1_Intron	NM_003494	NP_003485	O75923	DYSF_HUMAN	dysferlin isoform 8							cytoplasmic vesicle membrane|integral to membrane|sarcolemma	calcium-dependent phospholipid binding			ovary(3)|breast(2)|pancreas(1)|skin(1)	7						tgtgtggtagagggatgtgagt	0.183													3	3	---	---	---	---	
C2orf3	6936	broad.mit.edu	37	2	75919273	75919276	+	Intron	DEL	ATAT	-	-			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:75919273_75919276delATAT	uc002sno.2	-						C2orf3_uc010ffs.2_Intron|C2orf3_uc002snn.2_Intron|C2orf3_uc010fft.2_Intron	NM_003203	NP_003194	P16383	GCF_HUMAN	hypothetical protein LOC6936						negative regulation of transcription, DNA-dependent	nucleus	DNA binding|protein binding|sequence-specific DNA binding transcription factor activity			ovary(1)|central_nervous_system(1)	2						CGATAATGAAatatatatatatat	0.250													8	4	---	---	---	---	
CTNNA2	1496	broad.mit.edu	37	2	80332291	80332291	+	Intron	DEL	A	-	-			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:80332291delA	uc010ysh.1	+						CTNNA2_uc010yse.1_Intron|CTNNA2_uc010ysf.1_Intron|CTNNA2_uc010ysg.1_Intron	NM_004389	NP_004380	P26232	CTNA2_HUMAN	catenin, alpha 2 isoform 1						axonogenesis|brain morphogenesis|cell-cell adhesion|dendrite morphogenesis|muscle cell differentiation|positive regulation of muscle cell differentiation|prepulse inhibition|radial glia guided migration of Purkinje cell|regulation of synapse structural plasticity	actin cytoskeleton|axon|cytosol	cadherin binding|structural constituent of cytoskeleton			pancreas(4)|lung(3)|breast(1)|skin(1)	9						TCTTTTCAGTAAAATACACCA	0.418													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	2	81432741	81432741	+	IGR	DEL	T	-	-			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:81432741delT								CTNNA2 (556837 upstream) : None (None downstream)																							ATCTGTCAGCTTTGTTCCTGA	0.403													4	2	---	---	---	---	
RMND5A	64795	broad.mit.edu	37	2	87954896	87954896	+	Intron	DEL	A	-	-			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:87954896delA	uc002srs.3	+									Q9H871	RMD5A_HUMAN	SubName: Full=cDNA FLJ10361 fis, clone NT2RM2001256, highly similar to Anaphase-promoting complex subunit 1;											ovary(1)|skin(1)	2						AAGTAAACTGAAAAAAAAAAA	0.458													4	2	---	---	---	---	
EIF2AK3	9451	broad.mit.edu	37	2	88872994	88872994	+	Intron	DEL	A	-	-			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:88872994delA	uc002stc.3	-							NM_004836	NP_004827	Q9NZJ5	E2AK3_HUMAN	eukaryotic translation initiation factor 2-alpha						activation of caspase activity|bone mineralization|calcium-mediated signaling|chondrocyte development|endocrine pancreas development|endoplasmic reticulum organization|endoplasmic reticulum unfolded protein response|ER overload response|insulin secretion|insulin-like growth factor receptor signaling pathway|negative regulation of myelination|negative regulation of translational initiation in response to stress|protein autophosphorylation|protein homooligomerization	endoplasmic reticulum membrane|integral to membrane	ATP binding|eukaryotic translation initiation factor 2alpha kinase activity|identical protein binding			ovary(3)	3						TACTATATTCAAACCTAACTG	0.373													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	2	89853420	89853424	+	IGR	DEL	TTGAG	-	-			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:89853420_89853424delTTGAG								FLJ40330 (747295 upstream) : None (None downstream)																							tccattctatttgagtccattccat	0.000													5	3	---	---	---	---	
Unknown	0	broad.mit.edu	37	2	89873619	89873623	+	IGR	DEL	ATTAG	-	-			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:89873619_89873623delATTAG								FLJ40330 (767494 upstream) : None (None downstream)																							attccattccattagattccattcc	0.000													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	2	90413495	90413495	+	Intron	DEL	C	-	-			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:90413495delC	uc010fhm.2	+											Parts of antibodies, mostly variable regions.																		CGGCTTCTTGCCCCCGCCGCC	0.687													4	4	---	---	---	---	
Unknown	0	broad.mit.edu	37	2	90470953	90470953	+	IGR	DEL	A	-	-			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:90470953delA								None (None upstream) : None (None downstream)																							aaactgtctcaaaaaaaaaaa	0.090													8	4	---	---	---	---	
Unknown	0	broad.mit.edu	37	2	90481909	90481909	+	IGR	DEL	C	-	-			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:90481909delC								None (None upstream) : None (None downstream)																							gcttgtctggcttggctggct	0.000													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	2	91799030	91799031	+	IGR	INS	-	T	T	rs149067363		TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:91799030_91799031insT								None (None upstream) : LOC654342 (6161 downstream)																							TTTTACCTGACtttttttaaat	0.025													5	3	---	---	---	---	
LOC654342	654342	broad.mit.edu	37	2	91822185	91822186	+	Intron	INS	-	T	T			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:91822185_91822186insT	uc002sts.3	-						LOC654342_uc002stt.2_Intron					Homo sapiens cDNA clone IMAGE:4801360.												0						GGATGCTTAGAttttttttttt	0.104													4	2	---	---	---	---	
LOC654342	654342	broad.mit.edu	37	2	91833173	91833174	+	Intron	DEL	GT	-	-	rs141082857	by1000genomes	TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:91833173_91833174delGT	uc002sts.3	-						LOC654342_uc002stt.2_Intron|LOC654342_uc010yub.1_Intron					Homo sapiens cDNA clone IMAGE:4801360.												0						TTAGAATAGCGTGtctctctct	0.050													4	3	---	---	---	---	
LOC654342	654342	broad.mit.edu	37	2	91847514	91847515	+	Intron	INS	-	C	C	rs60502943		TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:91847514_91847515insC	uc002sts.3	-						LOC654342_uc002stt.2_Intron|LOC654342_uc010yub.1_Intron					Homo sapiens cDNA clone IMAGE:4801360.												0						ACCCGGGGGGGTCCCTGCAGGG	0.629													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	2	96525717	96525718	+	RNA	INS	-	T	T	rs150334322	by1000genomes	TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:96525717_96525718insT	uc002sva.1	-	41		c.2149_2150insA			uc002suz.1_Frame_Shift_Ins_p.L290fs|uc002svb.1_Frame_Shift_Ins_p.L290fs					Homo sapiens cDNA FLJ41632 fis, clone FCBBF1000297, highly  similar to Human protein immuno-reactive with anti-PTH polyclonal antibodies mRNA.																		CTTATTTTTCAGTTTTCGAATT	0.282													3	4	---	---	---	---	
STARD7	56910	broad.mit.edu	37	2	96868251	96868252	+	Intron	INS	-	G	G	rs145118331	by1000genomes	TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:96868251_96868252insG	uc002svm.3	-							NM_020151	NP_064536	Q9NQZ5	STAR7_HUMAN	START domain containing 7 precursor							mitochondrion					0						GTTGCAGAAGAAGAGCAAAAGC	0.337													2	4	---	---	---	---	
FAM178B	51252	broad.mit.edu	37	2	97549347	97549348	+	Intron	DEL	TG	-	-			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:97549347_97549348delTG	uc002sxl.3	-						FAM178B_uc002sxi.3_Intron|FAM178B_uc002sxk.3_Intron|FAM178B_uc002sxj.3_Intron	NM_001122646	NP_001116118	Q8IXR5	F178B_HUMAN	hypothetical protein LOC51252 isoform A												0						GGGCAGCTACTGTGTGTGTGTT	0.644													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	2	98271291	98271291	+	IGR	DEL	G	-	-			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:98271291delG								COX5B (6635 upstream) : ACTR1B (1111 downstream)																							AGAGCACTGTGGGAAGAACTG	0.537													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	2	102217108	102217109	+	IGR	INS	-	TG	TG	rs59124555		TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:102217108_102217109insTG								RFX8 (125943 upstream) : MAP4K4 (97379 downstream)																							aaaTATATATAtgtgtgtgtgt	0.000													4	3	---	---	---	---	
IL1RL1	9173	broad.mit.edu	37	2	102940852	102940852	+	Intron	DEL	G	-	-			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:102940852delG	uc002tbu.1	+						IL1RL1_uc010ywa.1_Intron|IL18R1_uc002tbw.3_Intron	NM_016232	NP_057316	Q01638	ILRL1_HUMAN	interleukin 1 receptor-like 1 isoform 1						innate immune response	integral to membrane	interleukin-1 receptor activity|receptor signaling protein activity			skin(2)|ovary(1)|central_nervous_system(1)	4						tggccaaataggaacagctac	0.030													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	2	108768225	108768226	+	IGR	INS	-	T	T	rs147883318	by1000genomes	TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:108768225_108768226insT								SLC5A7 (137786 upstream) : SULT1C3 (95425 downstream)																							TCATTTCAttcttttttttttc	0.193													2	5	---	---	---	---	
SH3RF3	344558	broad.mit.edu	37	2	110104369	110104369	+	Intron	DEL	G	-	-	rs36186537		TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:110104369delG	uc010ywt.1	+							NM_001099289	NP_001092759	Q8TEJ3	SH3R3_HUMAN	SH3 domain containing ring finger 3								zinc ion binding			ovary(1)	1						aaacaaacacgacccctgtac	0.144													4	2	---	---	---	---	
DPP10	57628	broad.mit.edu	37	2	115895525	115895526	+	Intron	INS	-	A	A			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:115895525_115895526insA	uc002tla.1	+						DPP10_uc002tlb.1_Intron|DPP10_uc002tlc.1_Intron	NM_020868	NP_065919	Q8N608	DPP10_HUMAN	dipeptidyl peptidase 10 isoform long						proteolysis	integral to membrane|membrane fraction	serine-type peptidase activity			ovary(5)|large_intestine(2)|skin(2)|breast(1)	10						AAGGTCATCAGCATAAAGACAG	0.401													4	2	---	---	---	---	
TFCP2L1	29842	broad.mit.edu	37	2	122028031	122028031	+	Intron	DEL	C	-	-			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:122028031delC	uc002tmx.2	-						TFCP2L1_uc010flr.2_Intron	NM_014553	NP_055368	Q9NZI6	TF2L1_HUMAN	LBP-9						female pregnancy|steroid biosynthetic process	mitochondrion|nucleolus	DNA binding|sequence-specific DNA binding transcription factor activity|transcription corepressor activity			pancreas(2)|ovary(1)	3	Renal(3;0.01)					gctggcaattctatttctagg	0.015													4	2	---	---	---	---	
TFCP2L1	29842	broad.mit.edu	37	2	122043188	122043189	+	5'Flank	INS	-	T	T	rs35496346		TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:122043188_122043189insT	uc002tmx.2	-						TFCP2L1_uc010flr.2_5'Flank	NM_014553	NP_055368	Q9NZI6	TF2L1_HUMAN	LBP-9						female pregnancy|steroid biosynthetic process	mitochondrion|nucleolus	DNA binding|sequence-specific DNA binding transcription factor activity|transcription corepressor activity			pancreas(2)|ovary(1)	3	Renal(3;0.01)					ttttttgttggttttttttttt	0.074													2	4	---	---	---	---	
Unknown	0	broad.mit.edu	37	2	122596851	122596851	+	IGR	DEL	A	-	-			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:122596851delA								TSN (71425 upstream) : None (None downstream)																							agctccatctaaaaaaaaaaa	0.000													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	2	124536638	124536639	+	IGR	INS	-	T	T	rs78527678		TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:124536638_124536639insT								None (None upstream) : CNTNAP5 (246225 downstream)																							ataaacatctatttttttttcc	0.040													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	2	127204273	127204274	+	IGR	INS	-	A	A	rs142866015	by1000genomes	TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:127204273_127204274insA								None (None upstream) : GYPC (209410 downstream)																							TGAGTGGAAGCAAAAAAATAAC	0.297													4	3	---	---	---	---	
Unknown	0	broad.mit.edu	37	2	129002219	129002219	+	IGR	DEL	C	-	-			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:129002219delC								UGGT1 (48972 upstream) : HS6ST1 (20836 downstream)																							tgtagggcaaccactaaaaaa	0.000													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	2	129098917	129098919	+	IGR	DEL	GTG	-	-			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:129098917_129098919delGTG								HS6ST1 (22746 upstream) : None (None downstream)																							ggtattggtagtggtggtgatgg	0.103													6	3	---	---	---	---	
NCRNA00164	554226	broad.mit.edu	37	2	132982828	132982828	+	Intron	DEL	T	-	-			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:132982828delT	uc002ttj.3	-							NR_027020				Homo sapiens non-protein coding RNA 164, mRNA (cDNA clone IMAGE:5169389), with apparent retained intron.												0						tttgaaacactttttttgtag	0.000													7	5	---	---	---	---	
NCRNA00164	554226	broad.mit.edu	37	2	133009045	133009045	+	Intron	DEL	C	-	-	rs113324698		TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:133009045delC	uc002ttj.3	-							NR_027020				Homo sapiens non-protein coding RNA 164, mRNA (cDNA clone IMAGE:5169389), with apparent retained intron.												0						gacacgttttcctccacccct	0.010													10	6	---	---	---	---	
NCRNA00164	554226	broad.mit.edu	37	2	133012034	133012035	+	Intron	INS	-	G	G	rs111573516		TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:133012034_133012035insG	uc002ttj.3	-							NR_027020				Homo sapiens non-protein coding RNA 164, mRNA (cDNA clone IMAGE:5169389), with apparent retained intron.												0						gctgacccagcgggctgatccg	0.000													4	5	---	---	---	---	
Unknown	0	broad.mit.edu	37	2	133035733	133035735	+	IGR	DEL	CAC	-	-	rs77778605		TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:133035733_133035735delCAC								NCRNA00164 (20191 upstream) : GPR39 (138412 downstream)																							AAAAAAAAAACACACACAAGACA	0.241													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	2	134949030	134949030	+	IGR	DEL	C	-	-			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:134949030delC								NCKAP5 (622999 upstream) : MGAT5 (62800 downstream)																							cctCCCCCTACCCCCCCCACC	0.289													4	2	---	---	---	---	
TMEM163	81615	broad.mit.edu	37	2	135469522	135469522	+	Intron	DEL	C	-	-			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:135469522delC	uc002ttx.2	-						TMEM163_uc002tty.2_Intron	NM_030923	NP_112185	Q8TC26	TM163_HUMAN	transmembrane protein 163							integral to membrane					0				BRCA - Breast invasive adenocarcinoma(221;0.154)		CCACCAGCCACCACAACCAAA	0.398													4	2	---	---	---	---	
ACMSD	130013	broad.mit.edu	37	2	135629530	135629531	+	Intron	INS	-	T	T			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:135629530_135629531insT	uc002ttz.2	+						ACMSD_uc002tua.2_Intron|uc010zbe.1_Intron	NM_138326	NP_612199	Q8TDX5	ACMSD_HUMAN	aminocarboxymuconate semialdehyde decarboxylase						quinolinate metabolic process|tryptophan catabolic process	cytosol	aminocarboxymuconate-semialdehyde decarboxylase activity|metal ion binding			skin(1)	1				BRCA - Breast invasive adenocarcinoma(221;0.115)		tgccttcactcttttttttttt	0.000													3	3	---	---	---	---	
Unknown	0	broad.mit.edu	37	2	145708395	145708395	+	Intron	DEL	T	-	-			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:145708395delT	uc002twc.2	+											Homo sapiens hypothetical gene supported by BC043549; BX648102, mRNA (cDNA clone IMAGE:5172341).																		ttttcttttcttttttttttt	0.124													4	2	---	---	---	---	
CACNB4	785	broad.mit.edu	37	2	152854047	152854048	+	Intron	INS	-	A	A	rs145469161	by1000genomes	TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:152854047_152854048insA	uc002tya.2	-						CACNB4_uc002txz.2_Intron|CACNB4_uc010fnz.2_Intron	NM_000726	NP_000717	O00305	CACB4_HUMAN	calcium channel, voltage-dependent, beta 4						axon guidance|membrane depolarization|synaptic transmission	cytosol|internal side of plasma membrane|plasma membrane|synapse|voltage-gated calcium channel complex	protein binding|voltage-gated calcium channel activity			ovary(2)	2				BRCA - Breast invasive adenocarcinoma(221;0.156)	Verapamil(DB00661)	gactctgtctcaaaaaaaaaga	0.000													5	3	---	---	---	---	
Unknown	0	broad.mit.edu	37	2	153143616	153143616	+	IGR	DEL	A	-	-	rs71731086		TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:153143616delA								STAM2 (111110 upstream) : FMNL2 (48135 downstream)																							GATTAGTTTGAAAAAAAAAAA	0.303													2	5	---	---	---	---	
Unknown	0	broad.mit.edu	37	2	153673272	153673272	+	IGR	DEL	C	-	-			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:153673272delC								ARL6IP6 (55505 upstream) : RPRM (660580 downstream)																							TGGAATCCCTCCCATCTCTAC	0.458													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	2	156207169	156207170	+	IGR	INS	-	T	T			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:156207169_156207170insT								KCNJ3 (494155 upstream) : NR4A2 (973776 downstream)																							atttttctaccttttttttttg	0.000													4	2	---	---	---	---	
TANC1	85461	broad.mit.edu	37	2	159979279	159979279	+	Intron	DEL	T	-	-	rs35478930		TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:159979279delT	uc002uag.2	+						TANC1_uc010fol.1_Intron|TANC1_uc010zcm.1_Intron|TANC1_uc010fom.1_Intron	NM_033394	NP_203752	Q9C0D5	TANC1_HUMAN	tetratricopeptide repeat, ankyrin repeat and							cell junction|postsynaptic density|postsynaptic membrane	binding			ovary(2)|central_nervous_system(1)	3						ttttttcttcttttttttttt	0.000													4	2	---	---	---	---	
ITGB6	3694	broad.mit.edu	37	2	161030976	161030976	+	Intron	DEL	C	-	-			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:161030976delC	uc002ubh.2	-						ITGB6_uc010fow.1_Intron|ITGB6_uc010fou.2_Intron|ITGB6_uc010zcq.1_Intron|ITGB6_uc010fov.1_Intron	NM_000888	NP_000879	P18564	ITB6_HUMAN	integrin, beta 6 precursor						cell-matrix adhesion|integrin-mediated signaling pathway|interspecies interaction between organisms|multicellular organismal development	integrin complex	receptor activity			ovary(1)|lung(1)|skin(1)	3						CCAAAATTCACCACTAAGTTA	0.428													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	2	162137948	162137949	+	IGR	DEL	AA	-	-	rs62196111		TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:162137948_162137949delAA								TANK (45266 upstream) : PSMD14 (26837 downstream)																							ccacacacacaaacacacacac	0.277													5	4	---	---	---	---	
DPP4	1803	broad.mit.edu	37	2	162903784	162903784	+	Intron	DEL	A	-	-			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:162903784delA	uc002ubz.2	-						DPP4_uc010fpb.2_Intron|DPP4_uc002uca.1_Intron|DPP4_uc002ucb.1_Intron	NM_001935	NP_001926	P27487	DPP4_HUMAN	dipeptidylpeptidase IV						cell adhesion|endothelial cell migration|negative regulation of extracellular matrix disassembly|positive regulation of cell proliferation|proteolysis|regulation of cell-cell adhesion mediated by integrin|response to hypoxia|T cell activation|T cell costimulation	apical plasma membrane|cell surface|endocytic vesicle|extracellular region|integral to membrane|invadopodium membrane|lamellipodium membrane|membrane raft	aminopeptidase activity|dipeptidyl-peptidase activity|protease binding|protein homodimerization activity|receptor activity|receptor binding|serine-type endopeptidase activity			ovary(3)	3					Sitagliptin(DB01261)	GTAGAAAAAGAAAAAAAAAAC	0.308													4	2	---	---	---	---	
GRB14	2888	broad.mit.edu	37	2	165405561	165405562	+	Intron	INS	-	T	T	rs140664274	by1000genomes	TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:165405561_165405562insT	uc002ucl.2	-						GRB14_uc010zcv.1_Intron|GRB14_uc002ucm.2_Intron	NM_004490	NP_004481	Q14449	GRB14_HUMAN	growth factor receptor-bound protein 14						blood coagulation|leukocyte migration	cytosol|endosome membrane|Golgi membrane|microsome|plasma membrane	SH3/SH2 adaptor activity			ovary(5)|upper_aerodigestive_tract(1)|lung(1)	7						ctaattttgtatttttttttag	0.000													4	2	---	---	---	---	
LASS6	253782	broad.mit.edu	37	2	169316714	169316714	+	Intron	DEL	T	-	-			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:169316714delT	uc002ueb.1	+						LASS6_uc002uec.1_Intron	NM_203463	NP_982288	Q6ZMG9	CERS6_HUMAN	longevity assurance homolog 6							endoplasmic reticulum membrane|integral to membrane|nuclear membrane	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|sphingosine N-acyltransferase activity			skin(1)	1						ttttcttttctttttttttga	0.149													4	2	---	---	---	---	
LASS6	253782	broad.mit.edu	37	2	169322991	169322991	+	Intron	DEL	A	-	-			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:169322991delA	uc002ueb.1	+						LASS6_uc002uec.1_Intron	NM_203463	NP_982288	Q6ZMG9	CERS6_HUMAN	longevity assurance homolog 6							endoplasmic reticulum membrane|integral to membrane|nuclear membrane	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|sphingosine N-acyltransferase activity			skin(1)	1						TTTTACAAGCAAATGATTCAA	0.343													4	2	---	---	---	---	
G6PC2	57818	broad.mit.edu	37	2	169763147	169763150	+	Intron	DEL	ATGC	-	-	rs560887	by1000genomes	TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:169763147_169763150delATGC	uc002uem.2	+						G6PC2_uc002uen.2_Intron|G6PC2_uc010fpv.2_Intron	NM_021176	NP_066999	Q9NQR9	G6PC2_HUMAN	islet-specific glucose-6-phosphatase-related						gluconeogenesis|glucose homeostasis|glucose transport|regulation of insulin secretion|transmembrane transport	endoplasmic reticulum membrane|integral to membrane	glucose-6-phosphatase activity			pancreas(1)	1						TTTGCTTTTTATGCTTGTATCTAT	0.240													32	18	---	---	---	---	
Unknown	0	broad.mit.edu	37	2	169775697	169775700	+	IGR	DEL	TCAG	-	-	rs138982799		TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:169775697_169775700delTCAG								G6PC2 (9188 upstream) : ABCB11 (3749 downstream)																							ctgctttagatcagtattaagctt	0.000													6	4	---	---	---	---	
LRP2	4036	broad.mit.edu	37	2	170145082	170145082	+	Intron	DEL	T	-	-	rs5836228		TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:170145082delT	uc002ues.2	-						LRP2_uc010zdf.1_Intron	NM_004525	NP_004516	P98164	LRP2_HUMAN	low density lipoprotein-related protein 2						hormone biosynthetic process|protein glycosylation|receptor-mediated endocytosis|vitamin D metabolic process	coated pit|integral to membrane|lysosome	calcium ion binding|receptor activity|SH3 domain binding			ovary(13)|skin(6)|central_nervous_system(4)|large_intestine(3)|kidney(2)|pancreas(1)	29				STAD - Stomach adenocarcinoma(1183;0.000766)|COAD - Colon adenocarcinoma(177;0.0101)	Gentamicin(DB00798)|Insulin Glargine recombinant(DB00047)|Insulin Lyspro recombinant(DB00046)|Insulin recombinant(DB00030)|Insulin, porcine(DB00071)|Urokinase(DB00013)	aggtaacaactctttagttgt	0.164													3	3	---	---	---	---	
HAT1	8520	broad.mit.edu	37	2	172787292	172787293	+	Intron	INS	-	T	T			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:172787292_172787293insT	uc002uhi.2	+						HAT1_uc010fqi.2_Intron|HAT1_uc002uhj.2_Intron	NM_003642	NP_003633	O14929	HAT1_HUMAN	histone acetyltransferase 1						chromatin silencing at telomere|DNA packaging	cytoplasm|nuclear matrix|nucleoplasm	histone acetyltransferase activity|protein binding			large_intestine(1)|ovary(1)	2			OV - Ovarian serous cystadenocarcinoma(117;0.216)			gcttggcaaaattttttttttt	0.000													4	2	---	---	---	---	
MAP1D	254042	broad.mit.edu	37	2	172875048	172875048	+	Intron	DEL	C	-	-			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:172875048delC	uc002uhk.2	+						MAP1D_uc010zdw.1_Intron	NM_199227	NP_954697	Q6UB28	AMP1D_HUMAN	methionine aminopeptidase 1D precursor						N-terminal protein amino acid modification|peptidyl-methionine modification|proteolysis	mitochondrion	aminopeptidase activity|metal ion binding|metalloexopeptidase activity				0			OV - Ovarian serous cystadenocarcinoma(117;0.216)			tttgtcccttctttttttttt	0.204													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	2	174835924	174835924	+	IGR	DEL	A	-	-			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:174835924delA								SP3 (5861 upstream) : OLA1 (101252 downstream)																							ttttttttttaaagacaaaat	0.095													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	2	176086923	176086924	+	IGR	INS	-	T	T			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:176086923_176086924insT								ATP5G3 (40433 upstream) : KIAA1715 (703486 downstream)																							GAATAAGAttcttttttttttt	0.198													4	3	---	---	---	---	
Unknown	0	broad.mit.edu	37	2	177357392	177357392	+	IGR	DEL	G	-	-			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:177357392delG								MTX2 (154641 upstream) : MIR1246 (108316 downstream)																							AAACAAGGATGGGGACACTGC	0.289													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	2	181115662	181115664	+	IGR	DEL	GGA	-	-	rs5836720		TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:181115662_181115664delGGA								CWC22 (243822 upstream) : UBE2E3 (729448 downstream)																							gcaggaaggtggagaattcccag	0.000													3	3	---	---	---	---	
CALCRL	10203	broad.mit.edu	37	2	188224009	188224010	+	Intron	INS	-	A	A			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:188224009_188224010insA	uc002upv.3	-						CALCRL_uc010frt.2_Intron	NM_005795	NP_005786	Q16602	CALRL_HUMAN	calcitonin receptor-like precursor							integral to plasma membrane				lung(3)|ovary(1)	4			OV - Ovarian serous cystadenocarcinoma(117;0.0554)|Epithelial(96;0.227)			CCTGTAATAACAAAAAAAAAAG	0.257													4	2	---	---	---	---	
HECW2	57520	broad.mit.edu	37	2	197111113	197111114	+	Intron	INS	-	T	T	rs113458100		TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:197111113_197111114insT	uc002utm.1	-						HECW2_uc002utl.1_Intron	NM_020760	NP_065811	Q9P2P5	HECW2_HUMAN	HECT, C2 and WW domain containing E3 ubiquitin						protein ubiquitination involved in ubiquitin-dependent protein catabolic process	cytoplasm	ubiquitin-protein ligase activity			skin(5)|ovary(5)|lung(4)|pancreas(2)|central_nervous_system(1)|kidney(1)	18						ACAAAAGAAACttttttttttt	0.158													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	2	217461344	217461345	+	IGR	INS	-	A	A	rs144315328	by1000genomes	TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:217461344_217461345insA								RPL37A (95158 upstream) : IGFBP2 (36782 downstream)																							tcccagcaggcaaacagtatca	0.084													1	6	---	---	---	---	
Unknown	0	broad.mit.edu	37	2	218144810	218144810	+	IGR	DEL	T	-	-			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:218144810delT								TNP1 (420028 upstream) : DIRC3 (3938 downstream)																							ccacacctgcttatgcacaat	0.080													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	2	218955816	218955817	+	IGR	INS	-	T	T			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:218955816_218955817insT								RUFY4 (513 upstream) : CXCR2 (34181 downstream)																							ttatgtttaacttttttttttg	0.000													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	2	227464862	227464863	+	IGR	INS	-	A	A	rs138892966	by1000genomes	TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:227464862_227464863insA								KIAA1486 (869391 upstream) : IRS1 (131171 downstream)																							TCCATTATTTGAAAGGAAGAAA	0.198													6	3	---	---	---	---	
INPP5D	3635	broad.mit.edu	37	2	234108182	234108182	+	Intron	DEL	A	-	-	rs71058532		TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:234108182delA	uc010zmo.1	+						INPP5D_uc010zmp.1_Intron	NM_001017915	NP_001017915	Q92835	SHIP1_HUMAN	SH2 containing inositol phosphatase isoform a						apoptosis|blood coagulation|leukocyte migration|T cell receptor signaling pathway	cytosol	inositol-polyphosphate 5-phosphatase activity|phosphatidylinositol-3,4,5-trisphosphate 3-phosphatase activity|SH3 domain binding			ovary(1)|central_nervous_system(1)	2		Breast(86;0.0013)|Renal(207;0.00339)|all_hematologic(139;0.0116)|all_lung(227;0.0273)|Acute lymphoblastic leukemia(138;0.0328)|Lung NSC(271;0.0843)		Epithelial(121;1.16e-17)|BRCA - Breast invasive adenocarcinoma(100;0.000479)|LUSC - Lung squamous cell carcinoma(224;0.00655)|Lung(119;0.00802)|GBM - Glioblastoma multiforme(43;0.0185)		actccgtctcaaaaaaaaaaa	0.000													6	3	---	---	---	---	
Unknown	0	broad.mit.edu	37	2	236104644	236104644	+	IGR	DEL	A	-	-			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:236104644delA								SH3BP4 (140288 upstream) : AGAP1 (298092 downstream)																							tatctccagcacctagcaagt	0.100													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	2	238101892	238101892	+	IGR	DEL	A	-	-			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:238101892delA								COPS8 (94405 upstream) : COL6A3 (130763 downstream)																							ttttgaggagaaaaatggcat	0.000													4	2	---	---	---	---	
SCLY	51540	broad.mit.edu	37	2	238970159	238970168	+	Intron	DEL	GCCTTATGGG	-	-			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:238970159_238970168delGCCTTATGGG	uc010fyv.2	+						SCLY_uc002vxm.3_Intron|SCLY_uc002vxn.2_Intron|SCLY_uc010znq.1_Intron|SCLY_uc010znr.1_Intron	NM_016510	NP_057594	Q96I15	SCLY_HUMAN	selenocysteine lyase						cellular amino acid metabolic process	cytosol	pyridoxal phosphate binding|selenocysteine lyase activity|transferase activity			ovary(2)	2		Breast(86;7.61e-05)|Renal(207;0.00183)|Ovarian(221;0.0481)|all_hematologic(139;0.158)|all_lung(227;0.198)|Melanoma(123;0.203)|Hepatocellular(293;0.244)		Epithelial(121;1.37e-23)|OV - Ovarian serous cystadenocarcinoma(60;4.6e-12)|Kidney(56;3.21e-09)|KIRC - Kidney renal clear cell carcinoma(57;8.25e-08)|BRCA - Breast invasive adenocarcinoma(100;0.000128)|Lung(119;0.0118)|LUSC - Lung squamous cell carcinoma(224;0.0285)		ttcattcggagccttatggggcctcggaag	0.000													4	2	---	---	---	---	
ILKAP	80895	broad.mit.edu	37	2	239079783	239079784	+	Intron	INS	-	T	T			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:239079783_239079784insT	uc002vxv.2	-						ILKAP_uc010zns.1_Intron|ILKAP_uc002vxw.2_Intron	NM_030768	NP_110395	Q9H0C8	ILKAP_HUMAN	integrin-linked kinase-associated protein							cytoplasm|protein serine/threonine phosphatase complex	metal ion binding|protein binding			ovary(3)	3		Breast(86;7.61e-05)|Renal(207;0.00183)|Ovarian(221;0.0481)|all_lung(227;0.152)|all_hematologic(139;0.158)|Melanoma(123;0.203)|Hepatocellular(293;0.244)		Epithelial(121;5.49e-24)|OV - Ovarian serous cystadenocarcinoma(60;3.93e-12)|Kidney(56;3.04e-09)|KIRC - Kidney renal clear cell carcinoma(57;6.82e-08)|BRCA - Breast invasive adenocarcinoma(100;0.00012)|Lung(119;0.00942)|LUSC - Lung squamous cell carcinoma(224;0.0163)		AAAGGCTAAGGttttttttttc	0.158													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	2	239676423	239676423	+	IGR	DEL	A	-	-			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:239676423delA								ASB1 (315533 upstream) : TWIST2 (80250 downstream)																							CACATTGATTACTCCTCTGTT	0.413													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	2	241044127	241044128	+	IGR	DEL	CA	-	-	rs72427000		TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:241044127_241044128delCA								OR6B3 (58638 upstream) : MYEOV2 (21852 downstream)																							CATGCGCGCGcacacacacaca	0.312													3	3	---	---	---	---	
CNTN4	152330	broad.mit.edu	37	3	2138733	2138733	+	5'Flank	DEL	T	-	-			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:2138733delT	uc003bpb.1	+							NM_175613	NP_783302	Q8IWV2	CNTN4_HUMAN	contactin 4 isoform c precursor						axon guidance|axonal fasciculation|brain development|negative regulation of neuron differentiation|neuron cell-cell adhesion|regulation of synaptic plasticity	anchored to membrane|axon|extracellular region|plasma membrane	protein binding			large_intestine(2)|ovary(2)|lung(1)|central_nervous_system(1)|pancreas(1)	7		Ovarian(110;0.156)		Epithelial(13;0.000695)|all cancers(10;0.0047)|OV - Ovarian serous cystadenocarcinoma(96;0.01)		CTAAAAGTTATATATATGTAC	0.318													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	3	8044674	8044676	+	Intron	DEL	TTG	-	-			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:8044674_8044676delTTG	uc003bqo.1	-											Homo sapiens cDNA FLJ42867 fis, clone BRHIP2021289.																		CACATTTTAtttgttgttgttgt	0.207													4	2	---	---	---	---	
SETD5	55209	broad.mit.edu	37	3	9510481	9510482	+	Intron	DEL	TG	-	-	rs62246318		TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:9510481_9510482delTG	uc003brt.2	+						SETD5_uc003bru.2_Intron|SETD5_uc003brv.2_Intron|SETD5_uc010hck.2_Intron|SETD5_uc003brx.2_Intron	NM_001080517	NP_001073986	Q9C0A6	SETD5_HUMAN	SET domain containing 5											ovary(2)	2	Medulloblastoma(99;0.227)			OV - Ovarian serous cystadenocarcinoma(96;0.112)		Cgtgtgtgtttgtgtgtgtgtg	0.381													5	4	---	---	---	---	
TMEM111	55831	broad.mit.edu	37	3	10023634	10023634	+	Intron	DEL	T	-	-	rs5846650		TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:10023634delT	uc003bun.2	-						CIDEC_uc003bto.2_Intron|TMEM111_uc003buo.2_Intron	NM_018447	NP_060917	Q9P0I2	TM111_HUMAN	transmembrane protein 111							integral to membrane					0						TTAAAAAAAAttttttttttt	0.139													4	2	---	---	---	---	
SLC6A6	6533	broad.mit.edu	37	3	14488723	14488723	+	Intron	DEL	T	-	-			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:14488723delT	uc010heg.2	+						SLC6A6_uc003byp.2_Intron|SLC6A6_uc010hef.1_Intron|SLC6A6_uc003byq.2_Intron|SLC6A6_uc003byr.2_Intron	NM_001134367	NP_001127839	P31641	SC6A6_HUMAN	solute carrier family 6 (neurotransmitter						cellular amino acid metabolic process	integral to plasma membrane	amino acid transmembrane transporter activity|neurotransmitter:sodium symporter activity|taurine:sodium symporter activity			ovary(1)	1						atctcatctattcagctatcc	0.000													4	2	---	---	---	---	
COLQ	8292	broad.mit.edu	37	3	15539976	15539977	+	Intron	INS	-	CACA	CACA	rs141810796	by1000genomes	TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:15539976_15539977insCACA	uc003bzx.2	-						HACL1_uc011avr.1_Intron|COLQ_uc003bzv.2_Intron|COLQ_uc003bzz.2_Intron|COLQ_uc010heo.2_Intron|COLQ_uc003cac.1_Intron|COLQ_uc003cae.1_Intron|COLQ_uc003cad.1_Intron|hsa-mir-4270|MI0015878_5'Flank	NM_005677	NP_005668	Q9Y215	COLQ_HUMAN	acetylcholinesterase collagen-like tail subunit						acetylcholine catabolic process in synaptic cleft|asymmetric protein localization	basal lamina|cell junction|collagen|extracellular space|synaptic cleft					0						GCATGTGCATCcacacacacac	0.342													6	5	---	---	---	---	
ANKRD28	23243	broad.mit.edu	37	3	15756039	15756040	+	Intron	INS	-	A	A	rs34150038		TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:15756039_15756040insA	uc003caj.1	-						ANKRD28_uc003cai.1_Intron|ANKRD28_uc011avz.1_Intron|ANKRD28_uc003cak.1_Intron|ANKRD28_uc011awa.1_Intron|ANKRD28_uc003cal.1_Intron|ANKRD28_uc003cam.2_Intron	NM_015199	NP_056014	O15084	ANR28_HUMAN	ankyrin repeat domain 28							nucleoplasm	protein binding			breast(1)	1						CTACATTTAAGAAAAAAAAAAA	0.317													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	3	17183399	17183400	+	IGR	INS	-	TG	TG	rs140469179	by1000genomes	TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:17183399_17183400insTG								PLCL2 (51302 upstream) : TBC1D5 (15255 downstream)																							atgcatgtgtttgtgtgtgtgc	0.228													4	3	---	---	---	---	
Unknown	0	broad.mit.edu	37	3	22811164	22811165	+	IGR	DEL	GT	-	-			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:22811164_22811165delGT								ZNF385D (397041 upstream) : UBE2E2 (433488 downstream)																							gcatgcgcacgtgtgtgtgtgt	0.000													4	2	---	---	---	---	
UBE2E2	7325	broad.mit.edu	37	3	23243708	23243708	+	5'Flank	DEL	T	-	-	rs113599454		TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:23243708delT	uc003ccg.2	+						UBE2E2_uc010hfc.2_5'Flank	NM_152653	NP_689866	Q96LR5	UB2E2_HUMAN	ubiquitin-conjugating enzyme E2E 2						ISG15-protein conjugation|protein K11-linked ubiquitination|protein K48-linked ubiquitination|protein K63-linked ubiquitination	nucleolus	ATP binding|ISG15 ligase activity|ubiquitin-protein ligase activity				0						AGCAGGTACGTTTTTTTTTTT	0.473													3	4	---	---	---	---	
Unknown	0	broad.mit.edu	37	3	26259058	26259058	+	IGR	DEL	T	-	-			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:26259058delT								OXSM (423034 upstream) : LRRC3B (405242 downstream)																							AATCGTTGAATTTTTTTTTTT	0.328													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	3	26781726	26781726	+	IGR	DEL	C	-	-			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:26781726delC								LRRC3B (29463 upstream) : NEK10 (370669 downstream)																							ACGAGAAGTTCCACTTTTTGG	0.443													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	3	27623504	27623505	+	IGR	INS	-	AG	AG	rs143117936	by1000genomes	TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:27623504_27623505insAG								SLC4A7 (97666 upstream) : EOMES (134383 downstream)																							GTTATGAATAAAGAGAGAGAGA	0.490													1	5	---	---	---	---	
Unknown	0	broad.mit.edu	37	3	34296365	34296380	+	IGR	DEL	GCTGCTGCAAGTGTGG	-	-	rs71070185		TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:34296365_34296380delGCTGCTGCAAGTGTGG								PDCD6IP (385171 upstream) : None (None downstream)																							ccatcccccagctgctgcaagtgtgggctgctgaag	0.065													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	3	35257704	35257704	+	IGR	DEL	G	-	-			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:35257704delG								None (None upstream) : ARPP21 (423377 downstream)																							GGAGCTGGCTGATGTTCTGGT	0.567													7	7	---	---	---	---	
ITGA9	3680	broad.mit.edu	37	3	37617759	37617759	+	Intron	DEL	T	-	-			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:37617759delT	uc003chd.2	+						ITGA9_uc003chc.2_Intron	NM_002207	NP_002198	Q13797	ITA9_HUMAN	integrin, alpha 9 precursor						axon guidance|cell adhesion|integrin-mediated signaling pathway	integrin complex	receptor activity			breast(3)|pancreas(1)|lung(1)|skin(1)	6				KIRC - Kidney renal clear cell carcinoma(284;0.165)|Kidney(284;0.197)		AAAGGATGAATTTGGCCTTGG	0.473													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	3	39294170	39294171	+	IGR	DEL	TG	-	-			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:39294170_39294171delTG								XIRP1 (60093 upstream) : CX3CR1 (10815 downstream)																							tgtgcatgtatgtgtgtgtgtg	0.465													4	2	---	---	---	---	
NKTR	4820	broad.mit.edu	37	3	42681445	42681446	+	Intron	INS	-	CT	CT	rs150466796	by1000genomes	TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:42681445_42681446insCT	uc003clo.2	+						NKTR_uc003clp.2_Intron|NKTR_uc011azp.1_Intron|NKTR_uc003cls.2_Intron	NM_005385	NP_005376	P30414	NKTR_HUMAN	natural killer-tumor recognition sequence						protein folding	membrane	cyclosporin A binding|peptidyl-prolyl cis-trans isomerase activity			ovary(2)|skin(1)	3				KIRC - Kidney renal clear cell carcinoma(284;0.24)		ggtttacaaaactattactatc	0.000													0	6	---	---	---	---	
SLC6A20	54716	broad.mit.edu	37	3	45824114	45824117	+	Intron	DEL	TCCA	-	-			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:45824114_45824117delTCCA	uc011bai.1	-						SLC6A20_uc011baj.1_Intron	NM_020208	NP_064593	Q9NP91	S6A20_HUMAN	solute carrier family 6, member 20 isoform 1						cellular nitrogen compound metabolic process|glycine transport|proline transport	apical plasma membrane|integral to plasma membrane	amino acid transmembrane transporter activity|neurotransmitter:sodium symporter activity			ovary(2)	2				BRCA - Breast invasive adenocarcinoma(193;0.01)|KIRC - Kidney renal clear cell carcinoma(197;0.0225)|Kidney(197;0.0267)		tttccatatttccatccatccatc	0.000													4	4	---	---	---	---	
CCR9	10803	broad.mit.edu	37	3	45928743	45928744	+	Intron	INS	-	TG	TG	rs142787788	by1000genomes	TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:45928743_45928744insTG	uc003coz.1	+						LZTFL1_uc003coy.1_Intron|LZTFL1_uc011bak.1_Intron|CCR9_uc010hiv.1_Intron|CCR9_uc003cpa.1_Intron	NM_031200	NP_112477	P51686	CCR9_HUMAN	chemokine (C-C motif) receptor 9 isoform A						cellular defense response|chemotaxis|elevation of cytosolic calcium ion concentration|immune response	integral to plasma membrane				ovary(2)|breast(1)	3				BRCA - Breast invasive adenocarcinoma(193;0.00118)|KIRC - Kidney renal clear cell carcinoma(197;0.0182)|Kidney(197;0.0214)		gcgtgtgtgtctgtgtgtgtgt	0.144													4	3	---	---	---	---	
GRM2	2912	broad.mit.edu	37	3	51741817	51741818	+	Intron	INS	-	C	C			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:51741817_51741818insC	uc010hlv.2	+						GRM2_uc003dbo.3_Intron|GRM2_uc010hlu.2_Intron	NM_000839	NP_000830	Q14416	GRM2_HUMAN	glutamate receptor, metabotropic 2 isoform a						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)	CAGTTTCCTTTCCTGTTCTGAG	0.545													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	3	51756423	51756423	+	IGR	DEL	T	-	-			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:51756423delT								GRM2 (3800 upstream) : IQCF6 (56155 downstream)																							ttccctttcctttccttcctt	0.015													4	2	---	---	---	---	
ITIH3	3699	broad.mit.edu	37	3	52831910	52831910	+	Frame_Shift_Del	DEL	G	-	-			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:52831910delG	uc003dfv.2	+	6	663	c.627delG	c.(625-627)CTGfs	p.L209fs	ITIH3_uc011bek.1_Frame_Shift_Del_p.L209fs	NM_002217	NP_002208	Q06033	ITIH3_HUMAN	inter-alpha (globulin) inhibitor H3	209					hyaluronan metabolic process	extracellular region	serine-type endopeptidase inhibitor activity			ovary(2)|liver(1)	3				BRCA - Breast invasive adenocarcinoma(193;7e-05)|Kidney(197;0.000656)|KIRC - Kidney renal clear cell carcinoma(197;0.000794)|OV - Ovarian serous cystadenocarcinoma(275;0.0496)		ACGACCTCCTGGGAAGCGCCC	0.527													11	11	---	---	---	---	
CACNA2D3	55799	broad.mit.edu	37	3	54580726	54580743	+	Intron	DEL	CACACACACACGCGCGCA	-	-	rs11268417		TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:54580726_54580743delCACACACACACGCGCGCA	uc003dhf.2	+						CACNA2D3_uc011beu.1_Intron|CACNA2D3_uc003dhg.1_Intron|CACNA2D3_uc003dhh.1_Intron|CACNA2D3_uc010hmv.1_Intron	NM_018398	NP_060868	Q8IZS8	CA2D3_HUMAN	calcium channel, voltage-dependent, alpha							integral to membrane	calcium channel activity|metal ion binding|voltage-gated ion channel activity			large_intestine(3)|ovary(1)|breast(1)|central_nervous_system(1)|skin(1)	7				KIRC - Kidney renal clear cell carcinoma(284;0.00287)|Kidney(284;0.00327)		TCAacacatgcacacacacacgcgcgcacacacacaca	0.115													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	3	63725885	63725885	+	IGR	DEL	A	-	-			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:63725885delA								SNTN (75004 upstream) : C3orf49 (79156 downstream)																							tggccctgccaaaaccttcat	0.000													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	3	72733228	72733228	+	IGR	DEL	T	-	-			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:72733228delT								RYBP (237454 upstream) : SHQ1 (65202 downstream)																							caatgcaccctttttttttca	0.000													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	3	90494594	90494595	+	IGR	INS	-	G	G			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:90494594_90494595insG								EPHA3 (963312 upstream) : None (None downstream)																							aactgctctatcaaagaaaggt	0.000													4	3	---	---	---	---	
Unknown	0	broad.mit.edu	37	3	93994105	93994105	+	IGR	DEL	T	-	-			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:93994105delT								NSUN3 (148475 upstream) : LOC255025 (663002 downstream)																							TATTTAAAACttttttttttt	0.174													3	3	---	---	---	---	
Unknown	0	broad.mit.edu	37	3	97903081	97903082	+	IGR	INS	-	AT	AT			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:97903081_97903082insAT								OR5H15 (14598 upstream) : OR5H6 (80047 downstream)																							cacacacatacacacacacaca	0.257													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	3	99170945	99170945	+	IGR	DEL	G	-	-			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:99170945delG								DCBLD2 (550412 upstream) : COL8A1 (186509 downstream)																							aggctaggaagaaactgcatc	0.000													3	4	---	---	---	---	
Unknown	0	broad.mit.edu	37	3	101318023	101318024	+	IGR	INS	-	T	T	rs148687228	by1000genomes	TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:101318023_101318024insT								PCNP (4744 upstream) : ZBTB11 (50261 downstream)																							GTTTTTTGTTGTTTTTTTTTTT	0.183													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	3	102253874	102253875	+	IGR	INS	-	T	T			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:102253874_102253875insT								ZPLD1 (55189 upstream) : None (None downstream)																							tcttcttcttcttttttttttt	0.183													4	3	---	---	---	---	
Unknown	0	broad.mit.edu	37	3	104891932	104891932	+	IGR	DEL	A	-	-			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:104891932delA								None (None upstream) : ALCAM (193781 downstream)																							TACATCTTTTAAAAATATTCC	0.204													4	2	---	---	---	---	
LOC100302640	100302640	broad.mit.edu	37	3	106720027	106720029	+	Intron	DEL	TTG	-	-	rs71850008		TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:106720027_106720029delTTG	uc003dwf.3	-											Homo sapiens cDNA clone IMAGE:5284861.												0						TACTATAATTttgttgttgttgt	0.158													4	2	---	---	---	---	
LOC100302640	100302640	broad.mit.edu	37	3	106876689	106876689	+	Intron	DEL	T	-	-			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:106876689delT	uc003dwf.3	-						LOC100302640_uc011bhk.1_Intron					Homo sapiens cDNA clone IMAGE:5284861.												0						ttcaacattctttttttttta	0.000													4	3	---	---	---	---	
Unknown	0	broad.mit.edu	37	3	109122555	109122556	+	IGR	INS	-	T	T			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:109122555_109122556insT								DPPA4 (66136 upstream) : FLJ25363 (6281 downstream)																							GTCAGGACTCAttttttttttt	0.178													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	3	109264922	109264922	+	IGR	DEL	T	-	-			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:109264922delT								FLJ25363 (50908 upstream) : None (None downstream)																							gtcgtttgcgtttttttttta	0.000													3	4	---	---	---	---	
CD200	4345	broad.mit.edu	37	3	112072156	112072157	+	Intron	INS	-	TTTGC	TTTGC	rs151262897	by1000genomes	TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:112072156_112072157insTTTGC	uc003dyw.2	+						CD200_uc003dyx.2_Intron|CD200_uc003dyy.2_Intron|CD200_uc003dyz.2_Intron	NM_001004196	NP_001004196	P41217	OX2G_HUMAN	CD200 antigen isoform b						regulation of immune response	integral to plasma membrane					0		Acute lymphoblastic leukemia(4;1.7e-08)|all_hematologic(4;8.82e-05)				gtttggtttggtttgctttgct	0.257													2	5	---	---	---	---	
Unknown	0	broad.mit.edu	37	3	112843087	112843088	+	IGR	INS	-	T	T	rs72585153		TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:112843087_112843088insT								C3orf17 (104532 upstream) : BOC (87324 downstream)																							aatgaggagtatagaaaggaag	0.144													2	4	---	---	---	---	
CCDC52	152185	broad.mit.edu	37	3	113216727	113216727	+	Intron	DEL	T	-	-			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:113216727delT	uc003eag.3	-						CCDC52_uc003eaf.3_Intron|CCDC52_uc011bie.1_3'UTR|CCDC52_uc003eai.1_3'UTR	NM_144718	NP_653319	Q8N0Z3	SPICE_HUMAN	coiled-coil domain containing 52						cell division|mitosis	centriole|spindle	protein binding				0						tctttAGGGCTTTTTTTTTTT	0.065													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	3	115160050	115160053	+	IGR	DEL	CCTT	-	-			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:115160050_115160053delCCTT								ZBTB20 (293923 upstream) : GAP43 (182098 downstream)																							ttcctccctcccttccttccttcc	0.020													4	2	---	---	---	---	
CD80	941	broad.mit.edu	37	3	119246386	119246386	+	Intron	DEL	G	-	-	rs3830649		TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:119246386delG	uc003ecq.2	-							NM_005191	NP_005182	P33681	CD80_HUMAN	CD80 antigen precursor						interspecies interaction between organisms|intracellular signal transduction|positive regulation of granulocyte macrophage colony-stimulating factor biosynthetic process|positive regulation of interleukin-2 biosynthetic process|positive regulation of peptidyl-tyrosine phosphorylation|positive regulation of signal transduction|positive regulation of T-helper 1 cell differentiation|positive regulation of transcription, DNA-dependent|T cell costimulation	intracellular	coreceptor activity|protein binding			upper_aerodigestive_tract(1)|ovary(1)	2					Abatacept(DB01281)	CATGGCAAAAGAAGAGGTTAC	0.368													3	7	---	---	---	---	
GSK3B	2932	broad.mit.edu	37	3	119608475	119608475	+	Intron	DEL	A	-	-			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:119608475delA	uc003edo.2	-						GSK3B_uc003edn.2_Intron	NM_001146156	NP_001139628	P49841	GSK3B_HUMAN	glycogen synthase kinase 3 beta isoform 2						axon guidance|epithelial to mesenchymal transition|ER overload response|glycogen metabolic process|hippocampus development|negative regulation of apoptosis|negative regulation of protein binding|negative regulation of protein complex assembly|nerve growth factor receptor signaling pathway|peptidyl-serine phosphorylation|phosphatidylinositol-mediated signaling|positive regulation of cell-matrix adhesion|positive regulation of protein complex assembly|positive regulation of protein export from nucleus|positive regulation of Rac GTPase activity|regulation of microtubule-based process|superior temporal gyrus development	Axin-APC-beta-catenin-GSK3B complex|beta-catenin destruction complex|centrosome|cytosol|nucleus|plasma membrane	ATP binding|beta-catenin binding|NF-kappaB binding|p53 binding|protein kinase A catalytic subunit binding|protein serine/threonine kinase activity|RNA polymerase II transcription factor binding|tau-protein kinase activity|ubiquitin protein ligase binding			lung(2)	2				GBM - Glioblastoma multiforme(114;0.24)	Lithium(DB01356)	aaagagggggaaaaacagagc	0.000													4	2	---	---	---	---	
SLC15A2	6565	broad.mit.edu	37	3	121620692	121620693	+	Intron	INS	-	TG	TG	rs138389490	by1000genomes	TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:121620692_121620693insTG	uc003eep.2	+						SLC15A2_uc011bjn.1_Intron	NM_021082	NP_066568	Q16348	S15A2_HUMAN	peptide transporter 2 isoform a						protein transport	integral to plasma membrane	peptide:hydrogen symporter activity|protein binding			skin(1)	1				GBM - Glioblastoma multiforme(114;0.0967)	Cefadroxil(DB01140)	GAgtatgtgtttgtgtgtgtgt	0.297													3	3	---	---	---	---	
Unknown	0	broad.mit.edu	37	3	122023611	122023611	+	IGR	DEL	G	-	-			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:122023611delG								CASR (18268 upstream) : CSTA (20400 downstream)																							aggctgaagtgggaggattgc	0.000													2	6	---	---	---	---	
Unknown	0	broad.mit.edu	37	3	122910017	122910017	+	IGR	DEL	A	-	-			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:122910017delA								PDIA5 (29142 upstream) : SEC22A (10757 downstream)																							acagaaaagtaaaaaaaaaag	0.000													4	2	---	---	---	---	
PTPLB	201562	broad.mit.edu	37	3	123241509	123241510	+	Intron	INS	-	T	T	rs10622875		TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:123241509_123241510insT	uc003egj.2	-							NM_198402	NP_940684	Q6Y1H2	HACD2_HUMAN	protein tyrosine phosphatase-like (proline						fatty acid biosynthetic process	endoplasmic reticulum membrane|integral to membrane	lyase activity|protein binding			kidney(1)	1				GBM - Glioblastoma multiforme(114;0.1)		AATAAGGAGACTTTTTTTTTTT	0.317													3	4	---	---	---	---	
Unknown	0	broad.mit.edu	37	3	124658683	124658684	+	IGR	INS	-	G	G	rs139482083	by1000genomes	TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:124658683_124658684insG								MUC13 (5103 upstream) : HEG1 (25871 downstream)																							aggaggagactggggggagatg	0.000													3	9	---	---	---	---	
CHCHD6	84303	broad.mit.edu	37	3	126479106	126479106	+	Intron	DEL	C	-	-			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:126479106delC	uc003ejf.1	+						CHCHD6_uc010hsj.1_Intron	NM_032343	NP_115719	Q9BRQ6	CHCH6_HUMAN	coiled-coil-helix-coiled-coil-helix domain												0						tatcctgtttccagcctttcg	0.015													4	2	---	---	---	---	
CHCHD6	84303	broad.mit.edu	37	3	126557735	126557736	+	Intron	INS	-	T	T			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:126557735_126557736insT	uc003ejf.1	+						CHCHD6_uc010hsj.1_Intron	NM_032343	NP_115719	Q9BRQ6	CHCH6_HUMAN	coiled-coil-helix-coiled-coil-helix domain												0						ttcttttttccttttttttttt	0.079													4	2	---	---	---	---	
PLXNA1	5361	broad.mit.edu	37	3	126728298	126728299	+	Intron	INS	-	T	T			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:126728298_126728299insT	uc003ejg.2	+							NM_032242	NP_115618	Q9UIW2	PLXA1_HUMAN	plexin A1						axon guidance	integral to membrane|intracellular|plasma membrane	semaphorin receptor activity			ovary(1)|pancreas(1)|skin(1)	3				GBM - Glioblastoma multiforme(114;0.155)		AATACTTACTCTTTTTTTTAGC	0.574													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	3	127107214	127107214	+	Intron	DEL	T	-	-	rs11337613		TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:127107214delT	uc003ejj.2	-											Homo sapiens, clone IMAGE:4618125, mRNA.																		gagttgcaaataaaaaggtca	0.254													5	4	---	---	---	---	
Unknown	0	broad.mit.edu	37	3	127628599	127628600	+	IGR	DEL	AC	-	-	rs145178862		TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:127628599_127628600delAC								MGLL (86548 upstream) : KBTBD12 (5718 downstream)																							GCATTGATGTacacacacacac	0.302													4	3	---	---	---	---	
RAB7A	7879	broad.mit.edu	37	3	128475205	128475205	+	Intron	DEL	A	-	-	rs79990219		TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:128475205delA	uc003eks.1	+						RAB7A_uc010hsv.1_Intron	NM_004637	NP_004628	P51149	RAB7A_HUMAN	RAB7, member RAS oncogene family						endocytosis|endosome to lysosome transport|epidermal growth factor catabolic process|protein transport|small GTPase mediated signal transduction	Golgi apparatus|late endosome|lysosome|melanosome|phagocytic vesicle	GDP binding|GTP binding|GTPase activity|protein binding				0				GBM - Glioblastoma multiforme(114;0.231)		actttgtctcaaaaaaaaaaa	0.000													4	3	---	---	---	---	
Unknown	0	broad.mit.edu	37	3	128761605	128761605	+	IGR	DEL	A	-	-			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:128761605delA								CCDC48 (2022 upstream) : GP9 (18040 downstream)																							aaaagaaaagaaaaaaaaaaa	0.000													4	3	---	---	---	---	
ACPP	55	broad.mit.edu	37	3	132044440	132044441	+	Intron	DEL	AC	-	-	rs72284998		TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:132044440_132044441delAC	uc010htp.2	+						ACPP_uc003eon.3_Intron|ACPP_uc003eop.3_Intron	NM_001099	NP_001090	P15309	PPAP_HUMAN	acid phosphatase, prostate short isoform							extracellular region|lysosomal membrane	5'-nucleotidase activity|acid phosphatase activity			ovary(1)	1						CTGATACAAAacacacacacac	0.322													4	2	---	---	---	---	
C3orf36	80111	broad.mit.edu	37	3	133650669	133650669	+	5'Flank	DEL	G	-	-			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:133650669delG	uc003epz.1	-							NM_025041	NP_079317	Q3SXR2	CC036_HUMAN	hypothetical protein LOC80111											ovary(1)	1						aatctcatgagggggccgtta	0.284													5	3	---	---	---	---	
Unknown	0	broad.mit.edu	37	3	133867585	133867586	+	IGR	INS	-	CTCTGCCAC	CTCTGCCAC	rs138440418	by1000genomes	TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:133867585_133867586insCTCTGCCAC								SLCO2A1 (118665 upstream) : RYK (8392 downstream)																							ATCTCTCAGAACTCTGCCACCT	0.500													5	3	---	---	---	---	
EPHB1	2047	broad.mit.edu	37	3	134886845	134886845	+	Intron	DEL	C	-	-			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:134886845delC	uc003eqt.2	+						EPHB1_uc003equ.2_Intron	NM_004441	NP_004432	P54762	EPHB1_HUMAN	ephrin receptor EphB1 precursor							integral to plasma membrane	ATP binding|ephrin receptor activity|protein binding			lung(11)|ovary(6)|stomach(4)|breast(3)|central_nervous_system(2)|skin(2)|large_intestine(1)|pancreas(1)	30						TTCTCATGGACCAGACTGCTT	0.507													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	3	135120733	135120733	+	IGR	DEL	T	-	-			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:135120733delT								EPHB1 (141428 upstream) : PPP2R3A (563834 downstream)																							caatttggcattttttttttt	0.000													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	3	135927540	135927547	+	IGR	DEL	TGTTTGTT	-	-	rs10594530		TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:135927540_135927547delTGTTTGTT								MSL2 (12852 upstream) : PCCB (41620 downstream)																							AGGAATGAGGtgtttgtttgtttgtttg	0.163													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	3	136475556	136475557	+	IGR	INS	-	A	A			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:136475556_136475557insA								STAG1 (4311 upstream) : TMEM22 (62304 downstream)																							agactctgtctaaaaaaaaaaa	0.000													5	3	---	---	---	---	
Unknown	0	broad.mit.edu	37	3	136517317	136517318	+	IGR	DEL	CA	-	-			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:136517317_136517318delCA								STAG1 (46072 upstream) : TMEM22 (20543 downstream)																							cacacgcacgcacacacacaca	0.104													7	4	---	---	---	---	
Unknown	0	broad.mit.edu	37	3	136755971	136755971	+	IGR	DEL	T	-	-	rs68015189		TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:136755971delT								IL20RB (26051 upstream) : SOX14 (727608 downstream)																							CAGCAAAGAATTTACCTGCAC	0.483													5	4	---	---	---	---	
Unknown	0	broad.mit.edu	37	3	136988736	136988736	+	IGR	DEL	T	-	-	rs67404408		TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:136988736delT								IL20RB (258816 upstream) : SOX14 (494843 downstream)																							TGATACTAAATAAAAAAAGCA	0.388													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	3	137335709	137335709	+	IGR	DEL	G	-	-	rs149159345		TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:137335709delG								IL20RB (605789 upstream) : SOX14 (147870 downstream)																							GAAGTATAACGGGGGGGGGAG	0.269													4	8	---	---	---	---	
MRAS	22808	broad.mit.edu	37	3	138080402	138080402	+	Intron	DEL	G	-	-			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:138080402delG	uc003esh.3	+						MRAS_uc011bmi.1_Intron|MRAS_uc003esi.3_Intron|MRAS_uc011bmj.1_Intron	NM_012219	NP_036351	O14807	RASM_HUMAN	muscle RAS oncogene homolog precursor						actin cytoskeleton organization|muscle organ development|Ras protein signal transduction	intracellular|plasma membrane	GTP binding|GTP-dependent protein binding|GTPase activity			lung(2)|upper_aerodigestive_tract(1)|ovary(1)	4						GCCCACCCTTGGGCAGGTGAG	0.602													7	4	---	---	---	---	
BPESC1	60467	broad.mit.edu	37	3	138829778	138829779	+	Intron	INS	-	A	A	rs111772863		TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:138829778_138829779insA	uc003eta.2	+							NR_026783				Homo sapiens blepharophimosis, epicanthus inversus and ptosis, candidate 1 (BPESC1) mRNA, complete cds.												0						ttctttttttcctttttttttt	0.183													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	3	138848630	138848643	+	IGR	DEL	GTGTGTGTGTGTGT	-	-	rs55825093	by1000genomes	TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:138848630_138848643delGTGTGTGTGTGTGT								BPESC1 (4627 upstream) : PISRT1 (103192 downstream)																							TTTGAAGGCAgtgtgtgtgtgtgtgtgtgtgtgt	0.364													5	4	---	---	---	---	
RASA2	5922	broad.mit.edu	37	3	141281496	141281497	+	Intron	INS	-	A	A			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:141281496_141281497insA	uc003etz.1	+						RASA2_uc010huq.1_Intron|RASA2_uc003eua.1_Intron|RASA2_uc011bnc.1_Intron	NM_006506	NP_006497	Q15283	RASA2_HUMAN	RAS p21 protein activator 2						intracellular signal transduction|negative regulation of Ras protein signal transduction	intracellular membrane-bounded organelle|intrinsic to internal side of plasma membrane|perinuclear region of cytoplasm	metal ion binding|Ras GTPase activator activity			ovary(2)|lung(2)|breast(1)|skin(1)	6						CAACAACACACAAAAAAAAACC	0.059													1	6	---	---	---	---	
Unknown	0	broad.mit.edu	37	3	141368199	141368200	+	IGR	INS	-	A	A	rs138093450	by1000genomes	TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:141368199_141368200insA								RASA2 (37002 upstream) : RNF7 (88851 downstream)																							aataaacaaacaaaaaaaaaac	0.153													10	5	---	---	---	---	
Unknown	0	broad.mit.edu	37	3	141373776	141373776	+	IGR	DEL	A	-	-			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:141373776delA								RASA2 (42579 upstream) : RNF7 (83275 downstream)																							TGAACAACACAAATTCACCAA	0.318													4	2	---	---	---	---	
SLC9A9	285195	broad.mit.edu	37	3	143193968	143193968	+	Intron	DEL	T	-	-	rs80278002		TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:143193968delT	uc003evn.2	-							NM_173653	NP_775924	Q8IVB4	SL9A9_HUMAN	solute carrier family 9 (sodium/hydrogen						regulation of pH	integral to membrane|late endosome membrane|recycling endosome	sodium:hydrogen antiporter activity			ovary(2)|skin(1)	3						acctggctcattttttttttt	0.000													5	3	---	---	---	---	
Unknown	0	broad.mit.edu	37	3	147607360	147607361	+	IGR	DEL	TA	-	-			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:147607360_147607361delTA								ZIC1 (472856 upstream) : AGTR1 (808297 downstream)																							aggatttgagtataagtaattt	0.050													3	4	---	---	---	---	
HPS3	84343	broad.mit.edu	37	3	148889063	148889064	+	Intron	INS	-	A	A			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:148889063_148889064insA	uc003ewu.1	+						CP_uc011bnr.1_Intron|HPS3_uc011bnq.1_Intron|HPS3_uc003ewv.1_Intron	NM_032383	NP_115759	Q969F9	HPS3_HUMAN	Hermansky-Pudlak syndrome 3 protein							cytoplasm				ovary(5)|large_intestine(1)	6			LUSC - Lung squamous cell carcinoma(72;0.0473)|Lung(72;0.0607)			gactccgtctcaaaaaaaaaaa	0.149									Hermansky-Pudlak_syndrome				4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	3	156789658	156789659	+	IGR	DEL	AG	-	-	rs138240868		TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:156789658_156789659delAG								LEKR1 (25740 upstream) : CCNL1 (74638 downstream)																							aagagagagtagagagagagag	0.000													5	3	---	---	---	---	
Unknown	0	broad.mit.edu	37	3	159649642	159649642	+	Intron	DEL	T	-	-			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:159649642delT	uc003fcw.1	-											Homo sapiens cDNA FLJ39842 fis, clone SPLEN2014293.																		AACGCCATTCTTTTCCCCCAA	0.443													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	3	160402311	160402312	+	IGR	DEL	TC	-	-			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:160402311_160402312delTC								ARL14 (6078 upstream) : PPM1L (71684 downstream)																							tctTCCTGTTTCTCTCTCTCTC	0.248													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	3	162348156	162348156	+	IGR	DEL	C	-	-			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:162348156delC								None (None upstream) : None (None downstream)																							gcctcagcctccccagtaact	0.000													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	3	163345047	163345047	+	IGR	DEL	G	-	-			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:163345047delG								None (None upstream) : MIR1263 (544212 downstream)																							ggtcttagatgagactttgga	0.000													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	3	163560417	163560418	+	IGR	INS	-	A	A			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:163560417_163560418insA								None (None upstream) : MIR1263 (328841 downstream)																							GAAGATGACACAATCTGAACAC	0.208													6	4	---	---	---	---	
Unknown	0	broad.mit.edu	37	3	165693241	165693242	+	IGR	DEL	GG	-	-			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:165693241_165693242delGG								BCHE (137988 upstream) : None (None downstream)																							caggctggttggagggtctttg	0.000													4	2	---	---	---	---	
TNIK	23043	broad.mit.edu	37	3	171142772	171142773	+	Intron	INS	-	A	A	rs77700372		TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:171142772_171142773insA	uc003fhh.2	-						TNIK_uc003fhi.2_Intron|TNIK_uc003fhj.2_Intron|TNIK_uc003fhk.2_Intron|TNIK_uc003fhl.2_Intron|TNIK_uc003fhm.2_Intron|TNIK_uc003fhn.2_Intron|TNIK_uc003fho.2_Intron|TNIK_uc003fhq.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)			taaagcataataaaaaaaaaaa	0.158													4	4	---	---	---	---	
FNDC3B	64778	broad.mit.edu	37	3	171770037	171770037	+	Intron	DEL	T	-	-	rs72130821		TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:171770037delT	uc003fhy.2	+						FNDC3B_uc003fhz.3_Intron|FNDC3B_uc003fhx.2_Intron	NM_022763	NP_073600	Q53EP0	FND3B_HUMAN	fibronectin type III domain containing 3B							endoplasmic reticulum|integral to membrane				ovary(2)|breast(1)	3	all_cancers(22;1.01e-18)|Ovarian(172;0.00167)|Breast(254;0.165)		LUSC - Lung squamous cell carcinoma(14;3.57e-14)|Lung(28;9.39e-14)	GBM - Glioblastoma multiforme(1;0.0494)		tttttgtgggttttttttttt	0.000													3	3	---	---	---	---	
ECT2	1894	broad.mit.edu	37	3	172469921	172469922	+	Intron	INS	-	T	T			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:172469921_172469922insT	uc003fii.2	+						ECT2_uc010hwv.1_Intron|ECT2_uc003fih.2_Intron|ECT2_uc003fij.1_5'Flank|ECT2_uc003fik.1_5'Flank|ECT2_uc003fil.1_5'Flank	NM_018098	NP_060568	Q9H8V3	ECT2_HUMAN	epithelial cell transforming sequence 2 oncogene						apoptosis|induction of apoptosis by extracellular signals|nerve growth factor receptor signaling pathway|positive regulation of I-kappaB kinase/NF-kappaB cascade|regulation of Rho protein signal transduction|small GTPase mediated signal transduction	cytosol	Rho guanyl-nucleotide exchange factor activity|signal transducer activity			breast(2)|ovary(1)|skin(1)	4	Ovarian(172;0.00197)|Breast(254;0.158)		Lung(28;1.33e-14)|LUSC - Lung squamous cell carcinoma(14;1.48e-14)			TTTTCAAGAAGttttttttttt	0.188													4	2	---	---	---	---	
TBL1XR1	79718	broad.mit.edu	37	3	176796376	176796377	+	Intron	INS	-	A	A	rs143061338		TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:176796376_176796377insA	uc003fiw.3	-						TBL1XR1_uc003fix.3_Intron|TBL1XR1_uc011bpz.1_Intron|TBL1XR1_uc003fiy.2_Intron	NM_024665	NP_078941	Q9BZK7	TBL1R_HUMAN	transducin (beta)-like 1 X-linked receptor 1						canonical Wnt receptor signaling pathway|cellular lipid metabolic process|chromatin modification|negative regulation of transcription from RNA polymerase II promoter|positive regulation of transcription from RNA polymerase II promoter|proteasomal ubiquitin-dependent protein catabolic process|transcription, DNA-dependent	spindle microtubule|transcriptional repressor complex	beta-catenin binding|histone binding|protein N-terminus binding|transcription corepressor activity|transcription regulatory region DNA binding			ovary(1)	1	all_cancers(143;1.44e-17)|Ovarian(172;0.00163)|Breast(254;0.214)	Acute lymphoblastic leukemia(1;0.00599)|all_hematologic(1;0.0632)|Prostate(884;0.215)	OV - Ovarian serous cystadenocarcinoma(80;9.83e-31)			acccccatctcaaaaaaaaaaa	0.069													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	3	177125930	177125931	+	IGR	INS	-	T	T			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:177125930_177125931insT								TBL1XR1 (210882 upstream) : None (None downstream)																							AGTTTTGCTAGTTGCTCTGTTG	0.436													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	3	178124379	178124380	+	IGR	INS	-	C	C	rs140391792	by1000genomes	TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:178124379_178124380insC								None (None upstream) : KCNMB2 (129844 downstream)																							acaaaaaaaaaacacacacaca	0.322													3	3	---	---	---	---	
Unknown	0	broad.mit.edu	37	3	179033748	179033753	+	IGR	DEL	TGTGTG	-	-			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:179033748_179033753delTGTGTG								KCNMB3 (48910 upstream) : ZNF639 (7066 downstream)																							GAGATTGTTTtgtgtgtgtgtgtgtg	0.267													5	3	---	---	---	---	
Unknown	0	broad.mit.edu	37	3	183179690	183179690	+	IGR	DEL	A	-	-	rs112629798		TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:183179690delA								MCF2L2 (33835 upstream) : KLHL6 (25631 downstream)																							actccttctcaaaaaaaaaaa	0.104													6	4	---	---	---	---	
THPO	7066	broad.mit.edu	37	3	184092603	184092603	+	Intron	DEL	T	-	-			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:184092603delT	uc003fol.1	-						THPO_uc003fom.1_Intron|THPO_uc003fon.2_Intron|THPO_uc011bro.1_Intron|THPO_uc003fop.2_Intron|THPO_uc011brp.1_Intron|THPO_uc011brq.1_Intron|THPO_uc003for.1_5'Flank|THPO_uc003fos.1_5'Flank|THPO_uc003fot.1_Intron|THPO_uc003fou.1_Intron	NM_000460	NP_000451	P40225	TPO_HUMAN	thrombopoietin precursor						cell proliferation|platelet activation	extracellular space	cytokine activity|growth factor activity|hormone activity			ovary(1)	1	all_cancers(143;6.33e-11)|Ovarian(172;0.0339)		Epithelial(37;4.96e-33)|OV - Ovarian serous cystadenocarcinoma(80;2.72e-22)			tgagacggagttttgctcttg	0.000													4	2	---	---	---	---	
LPP	4026	broad.mit.edu	37	3	188471368	188471369	+	Intron	INS	-	GT	GT	rs141731350	by1000genomes	TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:188471368_188471369insGT	uc003frs.1	+						LPP_uc011bsg.1_Intron|LPP_uc011bsi.1_Intron|LPP_uc011bsj.1_Intron	NM_005578	NP_005569	Q93052	LPP_HUMAN	LIM domain containing preferred translocation						cell adhesion	cytoplasm|focal adhesion|nucleus	protein binding|zinc ion binding		HMGA2/LPP(161)	soft_tissue(134)|bone(27)|lung(2)|ovary(1)|breast(1)	165	all_cancers(143;1.37e-09)|all_hematologic(3;0.0429)|Ovarian(172;0.088)	all_lung(153;0.00139)|Lung NSC(153;0.00202)		GBM - Glioblastoma multiforme(93;0.00602)		TTGTtgtgtgcgtgtgtgtgtg	0.302			T	HMGA2|MLL|C12orf9	lipoma|leukemia								3	4	---	---	---	---	
LPP	4026	broad.mit.edu	37	3	188513838	188513838	+	Intron	DEL	A	-	-			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:188513838delA	uc003frs.1	+						LPP_uc011bsg.1_Intron|LPP_uc011bsi.1_Intron|LPP_uc011bsj.1_Intron	NM_005578	NP_005569	Q93052	LPP_HUMAN	LIM domain containing preferred translocation						cell adhesion	cytoplasm|focal adhesion|nucleus	protein binding|zinc ion binding		HMGA2/LPP(161)	soft_tissue(134)|bone(27)|lung(2)|ovary(1)|breast(1)	165	all_cancers(143;1.37e-09)|all_hematologic(3;0.0429)|Ovarian(172;0.088)	all_lung(153;0.00139)|Lung NSC(153;0.00202)		GBM - Glioblastoma multiforme(93;0.00602)		cgtggtgagcaaaaacagaca	0.055			T	HMGA2|MLL|C12orf9	lipoma|leukemia								4	2	---	---	---	---	
ATP13A5	344905	broad.mit.edu	37	3	193012026	193012027	+	Intron	INS	-	T	T	rs141923704	by1000genomes	TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:193012026_193012027insT	uc011bsq.1	-							NM_198505	NP_940907	Q4VNC0	AT135_HUMAN	ATPase type 13A5						ATP biosynthetic process|cation transport	integral to membrane	ATP binding|ATPase activity, coupled to transmembrane movement of ions, phosphorylative mechanism|metal ion binding			ovary(5)|skin(4)|large_intestine(2)	11	all_cancers(143;1.08e-08)|Ovarian(172;0.0386)		OV - Ovarian serous cystadenocarcinoma(49;5.56e-18)|LUSC - Lung squamous cell carcinoma(58;6.08e-06)|Lung(62;6.49e-06)	GBM - Glioblastoma multiforme(46;0.000307)		AGTGACCTCCATTTTTATCCTT	0.396													2	7	---	---	---	---	
Unknown	0	broad.mit.edu	37	3	193725824	193725825	+	IGR	DEL	CT	-	-			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:193725824_193725825delCT								LOC100128023 (13797 upstream) : HES1 (128109 downstream)																							acaccagtggctctctctctct	0.000													5	3	---	---	---	---	
Unknown	0	broad.mit.edu	37	3	193861732	193861732	+	IGR	DEL	T	-	-	rs71937241		TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:193861732delT								HES1 (5336 upstream) : LOC100131551 (155692 downstream)																							acccggctaattttttttttt	0.000													3	3	---	---	---	---	
Unknown	0	broad.mit.edu	37	3	193888146	193888146	+	IGR	DEL	A	-	-	rs72214741		TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:193888146delA								HES1 (31750 upstream) : LOC100131551 (129278 downstream)																							AAGCATATTTAAAAAAAAAAA	0.498													4	2	---	---	---	---	
LSG1	55341	broad.mit.edu	37	3	194389649	194389650	+	Intron	DEL	CT	-	-	rs144937509		TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:194389649_194389650delCT	uc003fui.2	-							NM_018385	NP_060855	Q9H089	LSG1_HUMAN	large subunit GTPase 1						nuclear export|protein transport	Cajal body|endoplasmic reticulum	GTP binding|hydrolase activity				0	all_cancers(143;1.68e-08)|Ovarian(172;0.0634)		OV - Ovarian serous cystadenocarcinoma(49;4.34e-18)|LUSC - Lung squamous cell carcinoma(58;3.55e-06)|Lung(62;4.19e-06)	GBM - Glioblastoma multiforme(46;7.55e-06)		gaatgaaccactctgctatgag	0.000													3	3	---	---	---	---	
Unknown	0	broad.mit.edu	37	3	194669197	194669198	+	IGR	INS	-	TA	TA	rs72594385		TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:194669197_194669198insTA								FAM43A (259433 upstream) : C3orf21 (119817 downstream)																							gaatattatgctgttttgcttg	0.000													6	3	---	---	---	---	
Unknown	0	broad.mit.edu	37	3	195428679	195428682	+	Intron	DEL	AAAT	-	-	rs112452749		TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:195428679_195428682delAAAT	uc011btd.1	+						uc003fux.1_Intron					Homo sapiens cDNA FLJ46488 fis, clone THYMU3026869.																		TTCATTAATCAAATAATTCATGTA	0.368													13	6	---	---	---	---	
Unknown	0	broad.mit.edu	37	3	195441200	195441201	+	IGR	DEL	GT	-	-	rs63718862		TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:195441200_195441201delGT								MIR570 (14832 upstream) : MUC20 (6552 downstream)																							CCTGCCCTAAGTCTCCTCCCTG	0.505													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	3	195565092	195565093	+	IGR	DEL	AC	-	-			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:195565092_195565093delAC								MUC4 (25944 upstream) : TNK2 (25143 downstream)																							ATGTTTGTATacacacacacac	0.381													4	2	---	---	---	---	
ZDHHC19	131540	broad.mit.edu	37	3	195937054	195937057	+	Intron	DEL	TCTG	-	-	rs72175258		TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:195937054_195937057delTCTG	uc003fwc.2	-						ZDHHC19_uc010hzz.2_Intron|ZDHHC19_uc010iaa.2_Intron|ZDHHC19_uc010iab.2_Intron	NM_001039617	NP_001034706	Q8WVZ1	ZDH19_HUMAN	zinc finger, DHHC domain containing 19							integral to membrane	acyltransferase activity|zinc ion binding			ovary(3)	3	all_cancers(143;1.68e-08)|Ovarian(172;0.0634)|Breast(254;0.206)		Epithelial(36;1.89e-25)|all cancers(36;1.46e-23)|OV - Ovarian serous cystadenocarcinoma(49;2.1e-19)|LUSC - Lung squamous cell carcinoma(58;1.51e-06)|Lung(62;1.95e-06)	GBM - Glioblastoma multiforme(46;0.0022)		aaagcgagactctgtctcaacaaa	0.005													4	3	---	---	---	---	
TCTEX1D2	255758	broad.mit.edu	37	3	196020497	196020498	+	Intron	INS	-	AAAC	AAAC	rs148897963	by1000genomes	TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:196020497_196020498insAAAC	uc003fwi.2	-							NM_152773	NP_689986	Q8WW35	TC1D2_HUMAN	Tctex1 domain containing 2								protein binding			ovary(1)|breast(1)	2	all_cancers(143;1.19e-08)|Ovarian(172;0.0634)|Breast(254;0.206)		Epithelial(36;3.94e-24)|all cancers(36;2.79e-22)|OV - Ovarian serous cystadenocarcinoma(49;8.53e-19)|LUSC - Lung squamous cell carcinoma(58;1.51e-06)|Lung(62;1.95e-06)	GBM - Glioblastoma multiforme(46;0.00314)		actccgtctcaaaacaaacaaa	0.015													2	4	---	---	---	---	
DLG1	1739	broad.mit.edu	37	3	196776554	196776554	+	Intron	DEL	T	-	-	rs71623328		TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:196776554delT	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)		acccgggaggttgtggtgagc	0.000													3	3	---	---	---	---	
BDH1	622	broad.mit.edu	37	3	197257456	197257457	+	Intron	INS	-	A	A			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:197257456_197257457insA	uc003fxr.2	-						BDH1_uc003fxs.2_Intron|BDH1_uc003fxt.2_Intron|BDH1_uc003fxu.2_Intron	NM_203314	NP_976059	Q02338	BDH_HUMAN	3-hydroxybutyrate dehydrogenase, type 1						cellular lipid metabolic process|ketone body biosynthetic process|ketone body catabolic process	mitochondrial matrix	3-hydroxybutyrate dehydrogenase activity			ovary(1)	1	all_cancers(143;3.35e-10)|Ovarian(172;0.0418)|Breast(254;0.0437)	Lung NSC(153;0.118)	Epithelial(36;3.52e-24)|all cancers(36;1.79e-22)|OV - Ovarian serous cystadenocarcinoma(49;2.32e-19)|LUSC - Lung squamous cell carcinoma(58;1.02e-06)|Lung(62;1.34e-06)	GBM - Glioblastoma multiforme(93;0.0977)	NADH(DB00157)	tcaaaaaaaagaaaaaaaaaaa	0.000													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	4	16767	16768	+	IGR	INS	-	T	T	rs141189818		TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:16767_16768insT								None (None upstream) : ZNF595 (36459 downstream)																							actctgtctcctttgttcggtg	0.000													5	3	---	---	---	---	
CPLX1	10815	broad.mit.edu	37	4	816074	816077	+	Intron	DEL	TGTC	-	-			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:816074_816077delTGTC	uc003gbi.2	-						CPLX1_uc003gbj.2_Intron	NM_006651	NP_006642	O14810	CPLX1_HUMAN	complexin 1						glutamate secretion	cytosol					0				Colorectal(103;0.187)		CCTCTTCCTTTGtctgtctgtctc	0.108													4	6	---	---	---	---	
WHSC2	7469	broad.mit.edu	37	4	1993721	1993722	+	Intron	INS	-	CT	CT	rs138931130	by1000genomes	TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:1993721_1993722insCT	uc003gem.2	-						WHSC2_uc003gel.2_5'UTR|WHSC2_uc003gen.2_Intron	NM_005663	NP_005654	Q9H3P2	NELFA_HUMAN	Wolf-Hirschhorn syndrome candidate 2 protein						multicellular organismal development|positive regulation of viral transcription|regulation of transcription, DNA-dependent|transcription elongation from RNA polymerase II promoter|viral reproduction	nucleoplasm				skin(1)	1			OV - Ovarian serous cystadenocarcinoma(23;0.0155)			CACTGGGCCTACTCTTCCACCG	0.649													4	6	---	---	---	---	
Unknown	0	broad.mit.edu	37	4	3570725	3570739	+	IGR	DEL	AAACTACACACACAT	-	-			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:3570725_3570739delAAACTACACACACAT								LRPAP1 (36501 upstream) : ADRA2C (197336 downstream)																							ccacacacacaaactacacacacataaactacaca	0.042													4	4	---	---	---	---	
Unknown	0	broad.mit.edu	37	4	3609205	3609205	+	IGR	DEL	C	-	-	rs33919702		TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:3609205delC								LRPAP1 (74981 upstream) : ADRA2C (158870 downstream)																							gtggctccctccccggccccc	0.085													8	6	---	---	---	---	
Unknown	0	broad.mit.edu	37	4	4332177	4332178	+	Intron	INS	-	T	T	rs71888643		TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:4332177_4332178insT	uc003ghw.2	+											full-length cDNA clone CS0DI064YH18 of Placenta Cot 25-normalized of Homo sapiens (human).																		cagaaatgtccttttttttttt	0.000													6	3	---	---	---	---	
JAKMIP1	152789	broad.mit.edu	37	4	6127482	6127487	+	Intron	DEL	CACACG	-	-	rs139509734	by1000genomes	TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:6127482_6127487delCACACG	uc003giu.3	-						JAKMIP1_uc010idb.1_Intron|JAKMIP1_uc010idc.1_Intron|JAKMIP1_uc010idd.1_Intron|JAKMIP1_uc011bwc.1_Intron|JAKMIP1_uc003giv.3_Intron|JAKMIP1_uc010ide.2_Intron	NM_144720	NP_653321	Q96N16	JKIP1_HUMAN	janus kinase and microtubule interacting protein						protein transport	cytoplasm|membrane|microtubule|peripheral to membrane of membrane fraction|ribonucleoprotein complex	GABA receptor binding|RNA binding			large_intestine(1)|pancreas(1)|ovary(1)|skin(1)	4						tacagaaacacacacgcacaccatac	0.000													3	3	---	---	---	---	
PPP2R2C	5522	broad.mit.edu	37	4	6511968	6511968	+	Intron	DEL	C	-	-			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:6511968delC	uc011bwd.1	-						PPP2R2C_uc011bwe.1_Intron	NM_181876	NP_870991	Q9Y2T4	2ABG_HUMAN	gamma isoform of regulatory subunit B55, protein						signal transduction	protein phosphatase type 2A complex	protein phosphatase type 2A regulator activity			ovary(1)|kidney(1)|central_nervous_system(1)|skin(1)	4						cctcccaccacccccacccct	0.000													5	4	---	---	---	---	
Unknown	0	broad.mit.edu	37	4	7041317	7041317	+	IGR	DEL	T	-	-	rs143984773		TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:7041317delT								TBC1D14 (6473 upstream) : CCDC96 (1259 downstream)																							AAAATTTCAGttttttttttt	0.194													3	4	---	---	---	---	
HTRA3	94031	broad.mit.edu	37	4	8271798	8271799	+	Frame_Shift_Del	DEL	CC	-	-			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:8271798_8271799delCC	uc003gla.2	+	1	307_308	c.103_104delCC	c.(103-105)CCCfs	p.P35fs	HTRA3_uc003gkz.2_Frame_Shift_Del_p.P35fs	NM_053044	NP_444272	P83110	HTRA3_HUMAN	HtrA serine peptidase 3 precursor	35	IGFBP N-terminal.				proteolysis|regulation of cell growth	extracellular region	insulin-like growth factor binding|serine-type endopeptidase activity			ovary(1)	1						GTCGCGGTGTCCCAGCCCCCGC	0.787													4	2	---	---	---	---	
FGFBP2	83888	broad.mit.edu	37	4	15967354	15967357	+	5'Flank	DEL	TCTT	-	-			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:15967354_15967357delTCTT	uc003gon.2	-							NM_031950	NP_114156	Q9BYJ0	FGFP2_HUMAN	killer-specific secretory protein of 37 kDa							extracellular space	growth factor binding				0						GTGAtttctctctttttttttgag	0.044													4	3	---	---	---	---	
SEL1L3	23231	broad.mit.edu	37	4	25851859	25851860	+	Intron	INS	-	G	G			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:25851859_25851860insG	uc003gru.3	-							NM_015187	NP_056002	Q68CR1	SE1L3_HUMAN	sel-1 suppressor of lin-12-like 3							integral to membrane	binding				0						TTTCTGTACAAGGGGGTGGTGT	0.332													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	4	26456901	26456902	+	IGR	INS	-	GT	GT	rs146311402	by1000genomes	TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:26456901_26456902insGT								RBPJ (23623 upstream) : CCKAR (26116 downstream)																							CTTTGAGGTTAGTGTGTGTGTG	0.525													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	4	49647928	49647928	+	IGR	DEL	G	-	-	rs140881750	by1000genomes	TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:49647928delG								CWH43 (583835 upstream) : None (None downstream)																							gcaatgcaatggtatcaacag	0.000													11	5	---	---	---	---	
PDGFRA	5156	broad.mit.edu	37	4	54723369	54723370	+	Intron	DEL	AC	-	-	rs6148439		TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:54723369_54723370delAC	uc003haa.2	+							NM_006206	NP_006197	P16234	PGFRA_HUMAN	platelet-derived growth factor receptor alpha						cardiac myofibril assembly|cell activation|luteinization|metanephric glomerular capillary formation|peptidyl-tyrosine phosphorylation|positive regulation of cell migration|positive regulation of DNA replication|positive regulation of fibroblast proliferation|protein autophosphorylation|retina vasculature development in camera-type eye	cytoplasm|integral to plasma membrane|nucleus	ATP binding|platelet-derived growth factor alpha-receptor activity|platelet-derived growth factor binding|platelet-derived growth factor receptor binding|protein homodimerization activity|vascular endothelial growth factor receptor activity			soft_tissue(572)|small_intestine(40)|stomach(16)|lung(16)|central_nervous_system(13)|haematopoietic_and_lymphoid_tissue(7)|skin(3)|ovary(3)|gastrointestinal_tract_(site_indeterminate)(1)|autonomic_ganglia(1)|prostate(1)|bone(1)	674	all_cancers(7;0.000425)|all_lung(4;0.000343)|Lung NSC(11;0.000467)|all_epithelial(27;0.0131)|all_neural(26;0.0209)|Glioma(25;0.08)		GBM - Glioblastoma multiforme(1;4.18e-71)|all cancers(1;4.76e-45)|LUSC - Lung squamous cell carcinoma(32;0.00256)		Becaplermin(DB00102)|Imatinib(DB00619)|Sunitinib(DB01268)	aatatcacatacacacacacac	0.000			Mis|O|T	FIP1L1	GIST|idiopathic hypereosinophilic syndrome				Gastrointestinal_Stromal_Tumors_Sporadic_Multiple_Primary|Familial_Intestinal_Neurofibromatosis	TSP Lung(21;0.16)			3	3	---	---	---	---	
Unknown	0	broad.mit.edu	37	4	68072577	68072577	+	IGR	DEL	A	-	-	rs35181687		TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:68072577delA								MIR1269 (929931 upstream) : CENPC1 (265412 downstream)																							aaactccgtcaaaaaaaaaaa	0.000													4	3	---	---	---	---	
Unknown	0	broad.mit.edu	37	4	70248667	70248667	+	IGR	DEL	C	-	-	rs112367788		TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:70248667delC								UGT2B28 (87900 upstream) : UGT2B4 (97217 downstream)																							ttgttggtaactggagcaaag	0.000													5	3	---	---	---	---	
Unknown	0	broad.mit.edu	37	4	82334186	82334186	+	IGR	DEL	G	-	-			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:82334186delG								PRKG2 (197968 upstream) : RASGEF1B (14033 downstream)																							atgaagaagagggaatgagcc	0.015													4	2	---	---	---	---	
SEC31A	22872	broad.mit.edu	37	4	83741997	83741998	+	Intron	DEL	AC	-	-			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:83741997_83741998delAC	uc003hnf.2	-						SEC31A_uc003hnd.2_Intron|SEC31A_uc003hne.2_Intron|SEC31A_uc011ccl.1_Intron|SEC31A_uc003hnl.2_Intron|SEC31A_uc003hng.2_Intron|SEC31A_uc003hnh.2_Intron|SEC31A_uc003hni.2_Intron|SEC31A_uc003hnj.2_Intron|SEC31A_uc011ccm.1_Intron|SEC31A_uc011ccn.1_Intron|SEC31A_uc003hnk.2_Intron|SEC31A_uc003hnm.2_Intron	NM_001077207	NP_001070675	O94979	SC31A_HUMAN	SEC31 homolog A isoform 1						COPII vesicle coating|post-translational protein modification|protein N-linked glycosylation via asparagine|protein transport|response to calcium ion	COPII vesicle coat|cytosol|endoplasmic reticulum membrane|perinuclear region of cytoplasm	calcium-dependent protein binding		SEC31A/JAK2(4)|SEC31A/ALK(3)	haematopoietic_and_lymphoid_tissue(4)|soft_tissue(3)|breast(1)	8		Hepatocellular(203;0.114)				acccacacaaacacacacacac	0.371													5	3	---	---	---	---	
ARHGAP24	83478	broad.mit.edu	37	4	86843025	86843025	+	Intron	DEL	T	-	-			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:86843025delT	uc003hpk.2	+						ARHGAP24_uc003hpj.2_Intron|ARHGAP24_uc003hpl.2_Intron|ARHGAP24_uc010ikf.2_Intron	NM_001025616	NP_001020787	Q8N264	RHG24_HUMAN	Rho GTPase activating protein 24 isoform 1						angiogenesis|cell differentiation|regulation of small GTPase mediated signal transduction|small GTPase mediated signal transduction	cell projection|cytoskeleton|cytosol|focal adhesion	GTPase activator activity|protein binding				0		Hepatocellular(203;0.114)|all_hematologic(202;0.21)|Acute lymphoblastic leukemia(40;0.242)		OV - Ovarian serous cystadenocarcinoma(123;0.000571)		aactaacgcctgatgatctaa	0.000													4	2	---	---	---	---	
FAM190A	401145	broad.mit.edu	37	4	92022784	92022785	+	Intron	INS	-	AA	AA	rs33926247		TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:92022784_92022785insAA	uc003hsv.3	+						FAM190A_uc003hsx.2_Intron	NM_001145065	NP_001138537	Q9C0I3	F190A_HUMAN	KIAA1680 protein isoform 1											large_intestine(1)|ovary(1)	2						gactccgtctcaaaaaaaaaaa	0.188													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	4	95606866	95606867	+	IGR	INS	-	T	T			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:95606866_95606867insT								PDLIM5 (17490 upstream) : BMPR1B (72261 downstream)																							GTTCCTAAGGCTTTTTTTTTTC	0.401													6	3	---	---	---	---	
Unknown	0	broad.mit.edu	37	4	108441764	108441764	+	IGR	DEL	G	-	-			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:108441764delG								DKK2 (236918 upstream) : PAPSS1 (93059 downstream)																							CTTTACCTACGGTACCTCTTG	0.423													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	4	120619393	120619394	+	IGR	INS	-	T	T	rs148756492	by1000genomes	TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:120619393_120619394insT								PDE5A (69412 upstream) : MAD2L1 (361185 downstream)																							AATTTAGAAACTAGAGAAAGAG	0.391													3	3	---	---	---	---	
Unknown	0	broad.mit.edu	37	4	139632756	139632757	+	IGR	DEL	TC	-	-			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:139632756_139632757delTC								SLC7A11 (469253 upstream) : CCRN4L (304186 downstream)																							TGATTTGAGAtctctctctctc	0.297													3	3	---	---	---	---	
Unknown	0	broad.mit.edu	37	4	145314146	145314147	+	IGR	INS	-	A	A			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:145314146_145314147insA								GYPA (252242 upstream) : HHIP (253026 downstream)																							gaagtttagagaaaaaagaata	0.000													3	3	---	---	---	---	
Unknown	0	broad.mit.edu	37	4	148342614	148342617	+	IGR	DEL	AGGA	-	-	rs72491777		TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:148342614_148342617delAGGA								MIR548G (76745 upstream) : EDNRA (59290 downstream)																							gaagacagggaggaaggaaggaag	0.172													3	3	---	---	---	---	
Unknown	0	broad.mit.edu	37	4	152180109	152180109	+	IGR	DEL	C	-	-	rs140649981		TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:152180109delC								SH3D19 (30927 upstream) : PRSS48 (18216 downstream)																							ATGGGGTAAGCCCTAGGTAGG	0.582													4	4	---	---	---	---	
TRIM2	23321	broad.mit.edu	37	4	154143060	154143063	+	Intron	DEL	AGGG	-	-	rs111659087		TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:154143060_154143063delAGGG	uc003ing.2	+						TRIM2_uc003inh.2_Intron	NM_001130067	NP_001123539	Q9C040	TRIM2_HUMAN	tripartite motif-containing 2 isoform 2							cytoplasm	zinc ion binding			central_nervous_system(1)	1	all_hematologic(180;0.093)	Medulloblastoma(177;0.00225)		GBM - Glioblastoma multiforme(119;0.0102)|LUSC - Lung squamous cell carcinoma(193;0.0703)		ggaggaaggaagggagggagggag	0.000													4	3	---	---	---	---	
Unknown	0	broad.mit.edu	37	4	163649498	163649498	+	IGR	DEL	T	-	-			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:163649498delT								FSTL5 (564312 upstream) : NAF1 (398362 downstream)																							CTTACATACATTATGAAATAA	0.323													4	2	---	---	---	---	
PALLD	23022	broad.mit.edu	37	4	169728429	169728430	+	Intron	DEL	CA	-	-			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:169728429_169728430delCA	uc011cjx.1	+						PALLD_uc003iru.2_Intron|PALLD_uc003irv.2_Intron	NM_016081	NP_057165	Q8WX93	PALLD_HUMAN	palladin isoform 2						cytoskeleton organization	actin filament|focal adhesion|lamellipodium|nucleus|ruffle|sarcomere	actin binding|muscle alpha-actinin binding			ovary(1)	1		Prostate(90;0.00996)|Renal(120;0.0203)|Melanoma(52;0.144)		GBM - Glioblastoma multiforme(119;0.204)		cacacacacgcacacacacaca	0.332									Pancreatic_Cancer_Familial_Clustering_of				4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	4	170799012	170799012	+	IGR	DEL	G	-	-	rs5864006		TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:170799012delG								C4orf27 (119919 upstream) : MFAP3L (108738 downstream)																							GAGGTGGAAAGTGTTATAAAC	0.294													4	3	---	---	---	---	
ODZ3	55714	broad.mit.edu	37	4	183364745	183364745	+	Intron	DEL	T	-	-			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:183364745delT	uc003ivd.1	+							NM_001080477	NP_001073946	Q9P273	TEN3_HUMAN	odz, odd Oz/ten-m homolog 3						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)		CACCACCAGGTAGGAATGATG	0.537													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	4	183753776	183753776	+	IGR	DEL	A	-	-			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:183753776delA								ODZ3 (29599 upstream) : DCTD (57469 downstream)																							AGCAGTATCCAGGcagttctt	0.244													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	4	184326204	184326204	+	IGR	DEL	G	-	-			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:184326204delG								WWC2 (84277 upstream) : CDKN2AIP (39585 downstream)																							TTCTAGGATAGTTTGGTTTTT	0.294													4	3	---	---	---	---	
Unknown	0	broad.mit.edu	37	4	185931460	185931461	+	IGR	DEL	TG	-	-	rs112528385		TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:185931460_185931461delTG								ACSL1 (184245 upstream) : HELT (8534 downstream)																							cgtgtgtgcatgtgtgtgtgtg	0.347													2	5	---	---	---	---	
Unknown	0	broad.mit.edu	37	4	185999440	185999441	+	Intron	INS	-	A	A			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:185999440_185999441insA	uc003ixc.1	+											Homo sapiens clone UT2 unknown mRNA.																		AACTGCCATGGAAAAAAAAGTA	0.441													22	20	---	---	---	---	
Unknown	0	broad.mit.edu	37	4	187247759	187247762	+	Intron	DEL	TGTG	-	-	rs56240515		TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:187247759_187247762delTGTG	uc003izb.1	-											Homo sapiens coagulation factor XI (plasma thromboplastin antecedent), mRNA (cDNA clone IMAGE:4831055).																		gtcatatgattgtgtgtgtgtgtg	0.000													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	4	188542919	188542919	+	IGR	DEL	C	-	-			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:188542919delC								FAT1 (895069 upstream) : ZFP42 (374006 downstream)																							CCTCCTTCCTCCCACTCTCCA	0.358													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	4	190599335	190599336	+	IGR	INS	-	CTGT	CTGT			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:190599335_190599336insCTGT								None (None upstream) : FRG1 (262638 downstream)																							cttaagacaTActttgtccatt	0.000													4	3	---	---	---	---	
Unknown	0	broad.mit.edu	37	4	190620783	190620784	+	IGR	DEL	AA	-	-	rs34980259		TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:190620783_190620784delAA								None (None upstream) : FRG1 (241190 downstream)																							TGGCTACTCCAAAAGAGTAGGA	0.411													6	3	---	---	---	---	
Unknown	0	broad.mit.edu	37	4	191030709	191030710	+	IGR	INS	-	T	T			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:191030709_191030710insT								LOC653545 (20533 upstream) : None (None downstream)																							tccattatctgttttaattttt	0.000													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	5	202697	202697	+	IGR	DEL	A	-	-			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:202697delA								LRRC14B (7229 upstream) : CCDC127 (2178 downstream)																							agactgtctcaaaaaaaaaaT	0.234													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	5	1191927	1191928	+	IGR	INS	-	A	A	rs71593137		TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:1191927_1191928insA								SLC12A7 (79755 upstream) : SLC6A19 (9782 downstream)																							GGCCGAGGAGTGGGGGAGACGT	0.366													3	3	---	---	---	---	
Unknown	0	broad.mit.edu	37	5	1870613	1870614	+	IGR	DEL	TG	-	-			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:1870613_1870614delTG								NDUFS6 (54450 upstream) : IRX4 (6927 downstream)																							catgcatgcctgtgtgagtgca	0.089													3	3	---	---	---	---	
Unknown	0	broad.mit.edu	37	5	3323729	3323731	+	IGR	DEL	TGT	-	-			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:3323729_3323731delTGT								C5orf38 (568217 upstream) : IRX1 (272437 downstream)																							gtgtgatgtgtgttgtgtgcgtg	0.143													3	3	---	---	---	---	
Unknown	0	broad.mit.edu	37	5	3680066	3680067	+	IGR	DEL	CC	-	-			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:3680066_3680067delCC								IRX1 (78550 upstream) : None (None downstream)																							ataccccAATCCCTCAGTTTAC	0.153													4	2	---	---	---	---	
ADAMTS16	170690	broad.mit.edu	37	5	5269203	5269203	+	Intron	DEL	G	-	-			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:5269203delG	uc003jdl.2	+						ADAMTS16_uc003jdk.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						GACAGGCCATGCCTCTTGTCA	0.567													6	3	---	---	---	---	
Unknown	0	broad.mit.edu	37	5	5536237	5536240	+	IGR	DEL	CAGT	-	-			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:5536237_5536240delCAGT								KIAA0947 (45900 upstream) : FLJ33360 (774314 downstream)																							GCTCTGTGCACAGTCAGTGTGAGG	0.554													3	3	---	---	---	---	
Unknown	0	broad.mit.edu	37	5	6575561	6575562	+	IGR	INS	-	AAAG	AAAG	rs147518379	by1000genomes	TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:6575561_6575562insAAAG								UBE2QL1 (82856 upstream) : LOC255167 (6725 downstream)																							CGTGTCTTAAAAAAGTAggctg	0.149													6	6	---	---	---	---	
Unknown	0	broad.mit.edu	37	5	6907190	6907190	+	IGR	DEL	A	-	-	rs139724835		TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:6907190delA								PAPD7 (150029 upstream) : ADCY2 (489153 downstream)																							actctgtctcaaaaaaaaaaa	0.159													5	3	---	---	---	---	
Unknown	0	broad.mit.edu	37	5	7303289	7303290	+	Intron	INS	-	TG	TG	rs4616861	by1000genomes	TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:7303289_7303290insTG	uc003jdy.1	-											Homo sapiens cDNA FLJ42124 fis, clone TESTI2009477, weakly  similar to TRICHOHYALIN.																		acacacacacacgtacaTGTGt	0.203													2	4	---	---	---	---	
FASTKD3	79072	broad.mit.edu	37	5	7861784	7861784	+	Intron	DEL	A	-	-			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:7861784delA	uc003jeb.2	-						FASTKD3_uc011cmp.1_Intron|FASTKD3_uc003jec.2_Intron	NM_024091	NP_076996	Q14CZ7	FAKD3_HUMAN	FAST kinase domains 3						apoptosis|cellular respiration	mitochondrion	ATP binding|protein kinase activity			ovary(2)|breast(1)|pancreas(1)	4						AGAAGAAAGGAAAAATTCCTC	0.363													12	9	---	---	---	---	
Unknown	0	broad.mit.edu	37	5	8503710	8503711	+	IGR	INS	-	A	A			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:8503710_8503711insA								MTRR (602477 upstream) : SEMA5A (531427 downstream)																							aactcactcactataaagtgcc	0.000													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	5	8766899	8766900	+	IGR	INS	-	T	T	rs71611375		TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:8766899_8766900insT								MTRR (865666 upstream) : SEMA5A (268238 downstream)																							AGCCTAGGAGGTTTTTTTTTTT	0.426													5	5	---	---	---	---	
SEMA5A	9037	broad.mit.edu	37	5	9291715	9291715	+	Intron	DEL	G	-	-			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:9291715delG	uc003jek.2	-							NM_003966	NP_003957	Q13591	SEM5A_HUMAN	semaphorin 5A precursor						cell adhesion|cell-cell signaling	integral to membrane|plasma membrane				ovary(1)|central_nervous_system(1)	2						gagagagagagaaagagagag	0.284													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	5	10489309	10489320	+	IGR	DEL	AGAGAGAGAGAC	-	-	rs71582424		TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:10489309_10489320delAGAGAGAGAGAC								ROPN1L (24172 upstream) : DAP (190023 downstream)																							AGAAaaagaaagagagagagacagagagagag	0.269													7	7	---	---	---	---	
Unknown	0	broad.mit.edu	37	5	10605646	10605647	+	IGR	INS	-	T	T	rs35551777		TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:10605646_10605647insT								ROPN1L (140509 upstream) : DAP (73696 downstream)																							tttcttcttccttttttttttt	0.173													6	3	---	---	---	---	
Unknown	0	broad.mit.edu	37	5	10650252	10650257	+	IGR	DEL	GGGGCT	-	-	rs61254624		TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:10650252_10650257delGGGGCT								ROPN1L (185115 upstream) : DAP (29086 downstream)																							cgctggggccggggctggggccgggg	0.524													2	4	---	---	---	---	
Unknown	0	broad.mit.edu	37	5	10663139	10663140	+	IGR	INS	-	G	G	rs138051851	by1000genomes	TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:10663139_10663140insG								ROPN1L (198002 upstream) : DAP (16203 downstream)																							TGCGACTGAGTGGGACCATGAG	0.416													4	2	---	---	---	---	
TRIO	7204	broad.mit.edu	37	5	14308828	14308829	+	Intron	INS	-	TCCA	TCCA	rs138136266		TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:14308828_14308829insTCCA	uc003jff.2	+						TRIO_uc003jfg.2_Intron|TRIO_uc011cna.1_Intron|TRIO_uc003jfh.1_Intron	NM_007118	NP_009049	O75962	TRIO_HUMAN	triple functional domain (PTPRF interacting)						apoptosis|axon guidance|induction of apoptosis by extracellular signals|nerve growth factor receptor signaling pathway|regulation of Rho protein signal transduction|small GTPase mediated signal transduction|transmembrane receptor protein tyrosine phosphatase signaling pathway	cytosol	ATP binding|protein serine/threonine kinase activity|Rho guanyl-nucleotide exchange factor activity			skin(4)|central_nervous_system(3)|ovary(3)|large_intestine(2)|stomach(2)|breast(2)|upper_aerodigestive_tract(1)|kidney(1)	18	Lung NSC(4;0.000742)					ccattcatttgtccatccatcc	0.000													7	4	---	---	---	---	
CDH18	1016	broad.mit.edu	37	5	19921002	19921003	+	Intron	INS	-	CACACACA	CACACACA	rs139221464	by1000genomes	TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:19921002_19921003insCACACACA	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)					ACCCACAAGAGcacacacacac	0.213													6	3	---	---	---	---	
Unknown	0	broad.mit.edu	37	5	26232775	26232775	+	IGR	DEL	C	-	-			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:26232775delC								None (None upstream) : CDH9 (647934 downstream)																							GGGAGACGTGCCACTCGCCTC	0.622													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	5	29882410	29882411	+	IGR	INS	-	A	A			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:29882410_29882411insA								None (None upstream) : None (None downstream)																							ATAACCAGTACATTATGCGCAT	0.376													10	5	---	---	---	---	
CDH6	1004	broad.mit.edu	37	5	31267935	31267935	+	Intron	DEL	T	-	-			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:31267935delT	uc003jhe.1	+						CDH6_uc003jhd.1_Intron	NM_004932	NP_004923	P55285	CADH6_HUMAN	cadherin 6, type 2 preproprotein						adherens junction organization|cell junction assembly|homophilic cell adhesion	cytoplasm|integral to membrane|nucleus|plasma membrane	calcium ion binding			ovary(4)|skin(2)|large_intestine(1)	7						CTGGTAAGACTTTTTTTTTTT	0.368													4	2	---	---	---	---	
ZFR	51663	broad.mit.edu	37	5	32426480	32426480	+	Intron	DEL	T	-	-			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:32426480delT	uc003jhr.1	-						ZFR_uc010iun.1_Intron	NM_016107	NP_057191	Q96KR1	ZFR_HUMAN	zinc finger RNA binding protein						multicellular organismal development	chromosome|cytoplasm|nucleus	DNA binding|RNA binding|zinc ion binding				0				STAD - Stomach adenocarcinoma(35;0.19)		agagtcaacatccttttatga	0.025													3	5	---	---	---	---	
SPEF2	79925	broad.mit.edu	37	5	35770132	35770133	+	Intron	INS	-	GTGT	GTGT	rs143871804	by1000genomes	TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:35770132_35770133insGTGT	uc003jjo.2	+						SPEF2_uc003jjp.1_Intron	NM_024867	NP_079143	Q9C093	SPEF2_HUMAN	KPL2 protein isoform 1						nucleobase, nucleoside, nucleotide and nucleic acid metabolic process		ATP binding|nucleobase, nucleoside, nucleotide kinase activity|protein dimerization activity			skin(2)|ovary(1)|central_nervous_system(1)	4	all_lung(31;7.56e-05)		Lung(74;0.111)|COAD - Colon adenocarcinoma(61;0.14)|Colorectal(62;0.202)			tgtgcatgtgcgtgtgtgtgtg	0.302													5	3	---	---	---	---	
EGFLAM	133584	broad.mit.edu	37	5	38379373	38379373	+	Intron	DEL	A	-	-			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:38379373delA	uc003jlc.1	+						EGFLAM_uc003jlb.1_Intron	NM_152403	NP_689616	Q63HQ2	EGFLA_HUMAN	EGF-like, fibronectin type III and laminin G							cell junction|proteinaceous extracellular matrix|synapse				pancreas(3)|skin(3)|ovary(1)	7	all_lung(31;0.000385)					ttaagaggagaaaaggtacac	0.060													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	5	40554080	40554081	+	IGR	INS	-	AC	AC	rs142448138	by1000genomes	TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:40554080_40554081insAC								None (None upstream) : PTGER4 (125951 downstream)																							catacacacaaacacacacaca	0.356													1	7	---	---	---	---	
Unknown	0	broad.mit.edu	37	5	40594728	40594739	+	IGR	DEL	TTTCCCAATCAC	-	-	rs9292782	by1000genomes	TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:40594728_40594739delTTTCCCAATCAC								None (None upstream) : PTGER4 (85293 downstream)																							agtcttacagtttcccaatcactgtgctttGA	0.198													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	5	44404325	44404326	+	IGR	INS	-	A	A			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:44404325_44404326insA								FGF10 (15541 upstream) : MRPS30 (404701 downstream)																							aaaaaaaaccgaaaaaaaactg	0.000													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	5	44448742	44448743	+	IGR	INS	-	G	G			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:44448742_44448743insG								FGF10 (59958 upstream) : MRPS30 (360284 downstream)																							tagttgtttttttttttcagtt	0.000													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	5	49664644	49664644	+	IGR	DEL	T	-	-			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:49664644delT								None (None upstream) : EMB (27389 downstream)																							ttgtaaagacttttgaggcta	0.000													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	5	51853144	51853144	+	IGR	DEL	C	-	-			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:51853144delC								None (None upstream) : ITGA1 (230630 downstream)																							GGAGAAGAGGCAGAAGAAGAT	0.493													4	2	---	---	---	---	
RAB3C	115827	broad.mit.edu	37	5	58092826	58092827	+	Intron	DEL	AC	-	-			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:58092826_58092827delAC	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)		acacacacagacacacacacac	0.213													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	5	60162680	60162680	+	IGR	DEL	T	-	-			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:60162680delT								ELOVL7 (22579 upstream) : ERCC8 (6979 downstream)																							GTCCCCTTCCttttttttttg	0.154													3	3	---	---	---	---	
RGS7BP	401190	broad.mit.edu	37	5	63841004	63841005	+	Intron	INS	-	A	A			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:63841004_63841005insA	uc003jtj.2	+							NM_001029875	NP_001025046	Q6MZT1	R7BP_HUMAN	regulator of G-protein signaling 7 binding						negative regulation of signal transduction	cytoplasm|nucleus|plasma membrane					0		Lung NSC(810;0.000518)|Prostate(74;0.0435)|Ovarian(174;0.186)		Lung(70;0.147)		caatgtctttgaaaaaaaaaaa	0.000													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	5	81902150	81902150	+	IGR	DEL	G	-	-			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:81902150delG								ATP6AP1L (288004 upstream) : TMEM167A (446517 downstream)																							tgccaccactgggcactggcc	0.000													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	5	99568254	99568254	+	IGR	DEL	C	-	-			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:99568254delC								None (None upstream) : LOC100133050 (146955 downstream)																							CACATCCTGACCATAGCACTG	0.234													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	5	100570506	100570507	+	IGR	DEL	GT	-	-			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:100570506_100570507delGT								ST8SIA4 (331519 upstream) : SLCO4C1 (999187 downstream)																							gtgtgtgtgcgtgtgtgtgtgt	0.000													4	2	---	---	---	---	
CCDC112	153733	broad.mit.edu	37	5	114634187	114634188	+	5'Flank	INS	-	AC	AC	rs139047527		TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:114634187_114634188insAC	uc003kqy.2	-						CCDC112_uc003kqz.2_5'Flank|CCDC112_uc003kra.2_5'Flank	NM_152549	NP_689762	Q8NEF3	CC112_HUMAN	coiled-coil domain containing 112 isoform 2												0		all_cancers(142;0.000523)|all_epithelial(76;6.44e-06)|Prostate(80;0.00955)|Ovarian(225;0.0443)|all_lung(232;0.132)|Breast(839;0.195)		OV - Ovarian serous cystadenocarcinoma(64;4.09e-08)|Epithelial(69;5.28e-08)|all cancers(49;7.06e-06)		ggaggaggagaaggaggaggag	0.000													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	5	120224090	120224091	+	IGR	INS	-	TT	TT			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:120224090_120224091insTT								PRR16 (201128 upstream) : FTMT (963559 downstream)																							ctaccccttgcttttttttttt	0.000													3	3	---	---	---	---	
Unknown	0	broad.mit.edu	37	5	120951787	120951788	+	IGR	INS	-	T	T	rs6890291	by1000genomes	TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:120951787_120951788insT								PRR16 (928825 upstream) : FTMT (235862 downstream)																							ATCAACTGTGattttttaaaaa	0.327													4	2	---	---	---	---	
LMNB1	4001	broad.mit.edu	37	5	126169905	126169905	+	Intron	DEL	T	-	-			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:126169905delT	uc003kud.1	+						LMNB1_uc010jdb.1_Intron|LMNB1_uc011cxb.1_Intron	NM_005573	NP_005564	P20700	LMNB1_HUMAN	lamin B1						cellular component disassembly involved in apoptosis	lamin filament|nuclear inner membrane	protein binding|structural molecule activity			kidney(1)|central_nervous_system(1)	2		all_cancers(142;0.103)|Prostate(80;0.081)	KIRC - Kidney renal clear cell carcinoma(527;0.0268)|Kidney(363;0.0488)	Epithelial(69;0.033)|OV - Ovarian serous cystadenocarcinoma(64;0.0398)|all cancers(49;0.0903)		ttcttttttcttttttttttt	0.060													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	5	130589080	130589080	+	IGR	DEL	T	-	-			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:130589080delT								LYRM7 (47961 upstream) : CDC42SE2 (10622 downstream)																							CCCTACTACCTACTATAGCCA	0.368													4	2	---	---	---	---	
PITX1	5307	broad.mit.edu	37	5	134368722	134368722	+	Intron	DEL	A	-	-	rs34163492		TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:134368722delA	uc010jea.2	-						uc003laj.1_5'Flank|PITX1_uc011cxy.1_Intron	NM_002653	NP_002644	P78337	PITX1_HUMAN	paired-like homeodomain transcription factor 1							nucleolus	sequence-specific DNA binding			ovary(1)	1			KIRC - Kidney renal clear cell carcinoma(527;0.0101)|Kidney(363;0.0233)	READ - Rectum adenocarcinoma(2;0.0607)		CAGCTCGGACAAAAAAAGGCA	0.731													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	5	137570428	137570429	+	IGR	INS	-	ACAC	ACAC	rs139321651	by1000genomes	TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:137570428_137570429insACAC								CDC23 (21396 upstream) : GFRA3 (17642 downstream)																							actaaaaaaatacacacacaca	0.000													4	3	---	---	---	---	
Unknown	0	broad.mit.edu	37	5	139160923	139160924	+	IGR	INS	-	T	T	rs113348314		TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:139160923_139160924insT								CXXC5 (98243 upstream) : PSD2 (14482 downstream)																							atatctctctcttttttttttt	0.000													3	3	---	---	---	---	
Unknown	0	broad.mit.edu	37	5	139445465	139445465	+	IGR	DEL	A	-	-			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:139445465delA								NRG2 (22586 upstream) : PURA (48243 downstream)																							ctccagcctcaaaaaaaaaaa	0.040													3	3	---	---	---	---	
DPYSL3	1809	broad.mit.edu	37	5	146807381	146807381	+	Intron	DEL	A	-	-			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:146807381delA	uc003lon.1	-						DPYSL3_uc003loo.2_Intron	NM_001387	NP_001378	Q14195	DPYL3_HUMAN	dihydropyrimidinase-like 3						axon guidance|pyrimidine base catabolic process|signal transduction	cytosol|growth cone	dihydropyrimidinase activity			ovary(1)	1			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			CAATCTTGGTAACTGTAAGAG	0.463													4	2	---	---	---	---	
NDST1	3340	broad.mit.edu	37	5	149906684	149906684	+	Intron	DEL	A	-	-			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:149906684delA	uc003lsk.3	+						NDST1_uc011dcj.1_Intron|NDST1_uc003lsl.2_Intron	NM_001543	NP_001534	P52848	NDST1_HUMAN	N-deacetylase/N-sulfotransferase (heparan						heparan sulfate proteoglycan biosynthetic process|inflammatory response	Golgi membrane|integral to membrane	[heparan sulfate]-glucosamine N-sulfotransferase activity|hydrolase activity			breast(1)|skin(1)	2		all_hematologic(541;0.224)	KIRC - Kidney renal clear cell carcinoma(527;0.000785)|Kidney(363;0.00101)			AACCCCAGGCAACCACGCCTA	0.403													4	2	---	---	---	---	
TIMD4	91937	broad.mit.edu	37	5	156378018	156378019	+	Intron	INS	-	AC	AC	rs140318249	by1000genomes	TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:156378018_156378019insAC	uc003lwh.2	-						TIMD4_uc010jii.2_Intron	NM_138379	NP_612388	Q96H15	TIMD4_HUMAN	T-cell immunoglobulin and mucin domain							integral to membrane				ovary(2)	2	Renal(175;0.00488)	Medulloblastoma(196;0.0523)|all_neural(177;0.21)	Kidney(164;0.000171)|KIRC - Kidney renal clear cell carcinoma(164;0.000785)			CACCTCCTCGTacacacacaca	0.203													4	2	---	---	---	---	
SLIT3	6586	broad.mit.edu	37	5	168211874	168211875	+	Intron	DEL	AC	-	-			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:168211874_168211875delAC	uc003mab.2	-						SLIT3_uc010jjg.2_Intron|SLIT3_uc010jji.2_Intron|SLIT3_uc003mac.1_Intron	NM_003062	NP_003053	O75094	SLIT3_HUMAN	slit homolog 3 precursor						apoptosis involved in luteolysis|axon extension involved in axon guidance|cellular response to hormone stimulus|negative chemotaxis|negative regulation of cell growth|negative regulation of chemokine-mediated signaling pathway|response to cortisol stimulus|Roundabout signaling pathway	extracellular space|mitochondrion	calcium ion binding|Roundabout binding			ovary(3)|skin(1)	4	Renal(175;0.000159)|Lung NSC(126;0.0174)|all_lung(126;0.0392)	Medulloblastoma(196;0.0399)|all_neural(177;0.0966)	Kidney(164;7.53e-05)|KIRC - Kidney renal clear cell carcinoma(164;0.000525)			TTTTAAAAAGacacacacacac	0.436													5	3	---	---	---	---	
Unknown	0	broad.mit.edu	37	5	171439296	171439296	+	IGR	DEL	T	-	-			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:171439296delT								FBXW11 (5419 upstream) : STK10 (29778 downstream)																							cacctaattattttttttttt	0.000													4	3	---	---	---	---	
Unknown	0	broad.mit.edu	37	5	174217809	174217809	+	IGR	DEL	T	-	-			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:174217809delT								MSX2 (59908 upstream) : DRD1 (649867 downstream)																							TGAAgaacaatttctatattc	0.204													4	2	---	---	---	---	
EIF4E1B	253314	broad.mit.edu	37	5	176071206	176071206	+	Intron	DEL	G	-	-	rs67944927		TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:176071206delG	uc010jkf.1	+							NM_001099408	NP_001092878	A6NMX2	I4E1B_HUMAN	eukaryotic translation initiation factor 4E						regulation of translation	cytoplasm|mRNA cap binding complex	translation initiation factor activity				0	all_cancers(89;0.00185)|Renal(175;0.000269)|Lung NSC(126;0.00902)|all_lung(126;0.0142)	Medulloblastoma(196;0.00498)|all_neural(177;0.0212)	Kidney(164;3.85e-05)|KIRC - Kidney renal clear cell carcinoma(164;0.000178)			CTGTGGAAAAGGTGGGTCTTG	0.597													0	6	---	---	---	---	
Unknown	0	broad.mit.edu	37	5	176527040	176527043	+	IGR	DEL	CCTC	-	-			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:176527040_176527043delCCTC								FGFR4 (1916 upstream) : NSD1 (33037 downstream)																							ttctctctctcctccctccctccc	0.000													6	6	---	---	---	---	
COL23A1	91522	broad.mit.edu	37	5	177810882	177810882	+	Intron	DEL	A	-	-	rs112793288		TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:177810882delA	uc003mje.2	-							NM_173465	NP_775736	Q86Y22	CONA1_HUMAN	collagen, type XXIII, alpha 1							collagen|integral to membrane|plasma membrane	protein binding			central_nervous_system(1)|skin(1)	2	all_cancers(89;0.00188)|Renal(175;0.000159)|Lung NSC(126;0.00814)|all_lung(126;0.0129)	all_neural(177;0.00802)|Medulloblastoma(196;0.0145)|all_hematologic(541;0.248)	Kidney(164;2.23e-05)|KIRC - Kidney renal clear cell carcinoma(164;0.000178)	OV - Ovarian serous cystadenocarcinoma(192;0.153)|all cancers(165;0.172)		ACAGAAATAGAAAAAAAAAAA	0.423													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	5	179643093	179643093	+	IGR	DEL	C	-	-	rs34916849		TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:179643093delC								RASGEF1C (6963 upstream) : MAPK9 (17504 downstream)																							taggcccctgcccagacttct	0.149													3	5	---	---	---	---	
BTNL8	79908	broad.mit.edu	37	5	180332940	180332941	+	Intron	INS	-	A	A			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:180332940_180332941insA	uc003mmp.2	+						BTNL8_uc003mmq.2_Intron|BTNL8_uc011dhg.1_Intron|BTNL8_uc010jll.2_Intron|BTNL8_uc010jlm.2_Intron	NM_001040462	NP_001035552	Q6UX41	BTNL8_HUMAN	butyrophilin-like 8 isoform 2 precursor							integral to membrane				upper_aerodigestive_tract(1)|skin(1)	2	all_cancers(89;3.37e-05)|all_epithelial(37;3.77e-06)|Renal(175;0.000159)|Lung NSC(126;0.00211)|all_lung(126;0.00371)|Breast(19;0.114)	all_cancers(40;0.0801)|Medulloblastoma(196;0.0392)|all_neural(177;0.0529)|all_hematologic(541;0.191)	Kidney(164;2.23e-05)|KIRC - Kidney renal clear cell carcinoma(164;0.000178)			gctttacttccagtatgtggtc	0.000													4	2	---	---	---	---	
CDYL	9425	broad.mit.edu	37	6	4744730	4744730	+	Intron	DEL	A	-	-	rs35480109		TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:4744730delA	uc003mwi.2	+							NM_001143971	NP_001137443	Q9Y232	CDYL1_HUMAN	chromodomain protein, Y chromosome-like isoform						regulation of transcription, DNA-dependent|spermatogenesis|transcription, DNA-dependent	nucleus	histone acetyltransferase activity				0	Ovarian(93;0.11)	all_hematologic(90;0.0901)|Lung NSC(90;0.244)		OV - Ovarian serous cystadenocarcinoma(45;0.182)		accctgtctcaaaaaaaaaaa	0.154													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	6	6747365	6747370	+	IGR	DEL	GCACAG	-	-	rs59601969	by1000genomes	TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:6747365_6747370delGCACAG								LY86 (92149 upstream) : RREB1 (360818 downstream)																							acacagacatgcacagacacagacac	0.000													4	3	---	---	---	---	
MBOAT1	154141	broad.mit.edu	37	6	20185112	20185115	+	Intron	DEL	GTGT	-	-			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:20185112_20185115delGTGT	uc003ncx.1	-						MBOAT1_uc011dji.1_Intron	NM_001080480	NP_001073949	Q6ZNC8	MBOA1_HUMAN	membrane bound O-acyltransferase domain						phospholipid biosynthetic process	integral to membrane	acyltransferase activity				0	all_cancers(95;0.244)|Breast(50;0.0379)|Ovarian(93;0.0473)|all_epithelial(95;0.109)		OV - Ovarian serous cystadenocarcinoma(7;0.00392)|all cancers(50;0.0117)|Epithelial(50;0.0454)			TATAACTGCAgtgtgtgtgtgtgt	0.299													4	2	---	---	---	---	
CDKAL1	54901	broad.mit.edu	37	6	20630638	20630638	+	Intron	DEL	T	-	-			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:20630638delT	uc003ndc.1	+						CDKAL1_uc003ndd.1_Intron|CDKAL1_uc003nde.1_Intron	NM_017774	NP_060244	Q5VV42	CDKAL_HUMAN	CDK5 regulatory subunit associated protein						RNA modification	integral to membrane	4 iron, 4 sulfur cluster binding|metal ion binding|transferase activity			ovary(2)	2	all_epithelial(95;0.0708)|Breast(50;0.131)|Ovarian(93;0.227)		OV - Ovarian serous cystadenocarcinoma(7;0.0241)|all cancers(50;0.123)|Epithelial(50;0.248)			ACCTATTGTCTTTATGCTGAA	0.483													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	6	22432554	22432554	+	IGR	DEL	C	-	-	rs11335685		TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:22432554delC								PRL (129472 upstream) : HDGFL1 (137124 downstream)																							aattcttaaaccctctatgct	0.154													3	3	---	---	---	---	
Unknown	0	broad.mit.edu	37	6	26339202	26339202	+	IGR	DEL	G	-	-			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:26339202delG								HIST1H4H (53440 upstream) : BTN3A2 (26196 downstream)																							ACTTGAACTTGGGGTGGCCCC	0.537													4	2	---	---	---	---	
BTN2A1	11120	broad.mit.edu	37	6	26457929	26457930	+	5'Flank	DEL	GA	-	-			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:26457929_26457930delGA	uc003nib.1	+						BTN2A1_uc003nic.1_5'Flank|BTN2A1_uc003nid.1_5'Flank|BTN2A1_uc011dko.1_5'Flank	NM_007049	NP_008980	Q7KYR7	BT2A1_HUMAN	butyrophilin, subfamily 2, member A1 isoform 1						lipid metabolic process	integral to plasma membrane				ovary(1)|skin(1)	2						ATCTCAAAGCgagagagagaga	0.351													5	3	---	---	---	---	
Unknown	0	broad.mit.edu	37	6	27190257	27190258	+	IGR	INS	-	TTGT	TTGT	rs141022587	by1000genomes	TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:27190257_27190258insTTGT								HIST1H2AH (74912 upstream) : PRSS16 (25250 downstream)																							ttttgtttttgttgtttgtttg	0.020													3	3	---	---	---	---	
Unknown	0	broad.mit.edu	37	6	27467946	27467947	+	IGR	INS	-	AGAGAG	AGAGAG	rs147607565	by1000genomes	TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:27467946_27467947insAGAGAG								ZNF184 (27049 upstream) : HIST1H2BL (307311 downstream)																							gaaagaaagaaagagagagaga	0.020													2	4	---	---	---	---	
Unknown	0	broad.mit.edu	37	6	35413727	35413728	+	IGR	INS	-	A	A			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:35413727_35413728insA								PPARD (17774 upstream) : FANCE (6410 downstream)																							AATGGATGCAGTTTTCCCAACA	0.564													4	2	---	---	---	---	
BRPF3	27154	broad.mit.edu	37	6	36186238	36186239	+	Intron	INS	-	TT	TT			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:36186238_36186239insTT	uc003olv.3	+						BRPF3_uc010jwb.2_Intron|BRPF3_uc011dtj.1_Intron|BRPF3_uc010jwc.2_Intron|BRPF3_uc011dtk.1_Intron|BRPF3_uc010jwd.2_Intron	NM_015695	NP_056510	Q9ULD4	BRPF3_HUMAN	bromodomain and PHD finger containing, 3						histone H3 acetylation|platelet activation|platelet degranulation	cytosol|extracellular region|MOZ/MORF histone acetyltransferase complex	protein binding|zinc ion binding			ovary(1)|skin(1)	2						TTGGAATTGCCttttttttttt	0.218													4	2	---	---	---	---	
ZFAND3	60685	broad.mit.edu	37	6	38065025	38065026	+	Intron	INS	-	T	T	rs13437335		TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:38065025_38065026insT	uc003onx.2	+							NM_021943	NP_068762	Q9H8U3	ZFAN3_HUMAN	zinc finger, AN1-type domain 3								DNA binding|zinc ion binding			ovary(1)	1						ttaatttttcattttttttttt	0.000													3	3	---	---	---	---	
BTBD9	114781	broad.mit.edu	37	6	38194354	38194355	+	Intron	DEL	AC	-	-			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:38194354_38194355delAC	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						CCCCAAAACAACACACACAACT	0.455													4	2	---	---	---	---	
DAAM2	23500	broad.mit.edu	37	6	39780923	39780924	+	Intron	DEL	TG	-	-			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:39780923_39780924delTG	uc003oow.2	+						DAAM2_uc010jxc.2_Intron|DAAM2_uc003oox.2_Intron|DAAM2_uc003oov.3_Intron	NM_015345	NP_056160	Q86T65	DAAM2_HUMAN	dishevelled associated activator of						actin cytoskeleton organization		actin binding|Rho GTPase binding			ovary(2)|skin(1)	3	Ovarian(28;0.0355)|Colorectal(47;0.196)					AGAGGCAGATtgtgtgtgtgtg	0.406													2	4	---	---	---	---	
DAAM2	23500	broad.mit.edu	37	6	39835713	39835713	+	Intron	DEL	G	-	-			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:39835713delG	uc003oow.2	+						DAAM2_uc010jxc.2_Intron|DAAM2_uc003oox.2_Intron	NM_015345	NP_056160	Q86T65	DAAM2_HUMAN	dishevelled associated activator of						actin cytoskeleton organization		actin binding|Rho GTPase binding			ovary(2)|skin(1)	3	Ovarian(28;0.0355)|Colorectal(47;0.196)					AGCAGAAACTGGGGGAAAAGG	0.547													8	4	---	---	---	---	
Unknown	0	broad.mit.edu	37	6	43764669	43764670	+	IGR	DEL	GT	-	-			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:43764669_43764670delGT								VEGFA (10448 upstream) : LOC100132354 (94095 downstream)																							cttgtgtggagtgtgtgtgtgt	0.015													8	4	---	---	---	---	
SUPT3H	8464	broad.mit.edu	37	6	44944101	44944102	+	Intron	INS	-	T	T	rs77222429		TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:44944101_44944102insT	uc003oxo.2	-						SUPT3H_uc003oxn.1_Intron|SUPT3H_uc011dvv.1_Intron|SUPT3H_uc003oxp.2_Intron|SUPT3H_uc011dvw.1_Intron	NM_181356	NP_852001	O75486	SUPT3_HUMAN	suppressor of Ty 3 homolog isoform 2						histone deubiquitination|histone H3 acetylation|positive regulation of transcription, DNA-dependent|regulation of transcription from RNA polymerase II promoter|transcription from RNA polymerase II promoter|transcription initiation, DNA-dependent	STAGA complex|transcription factor TFTC complex	DNA binding|transcription coactivator activity			ovary(2)|breast(1)	3						AAATTAATGTCttttttttttt	0.139													4	3	---	---	---	---	
GPR116	221395	broad.mit.edu	37	6	46894494	46894494	+	Intron	DEL	C	-	-			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:46894494delC	uc003oyq.3	-							NM_015234	NP_056049	Q8IZF2	GP116_HUMAN	G-protein coupled receptor 116 precursor						neuropeptide signaling pathway	integral to membrane|plasma membrane	G-protein coupled receptor activity			central_nervous_system(1)|skin(1)	2			Lung(136;0.192)			GACTCTTCCTCCCTCAGTCCC	0.473													4	2	---	---	---	---	
PKHD1	5314	broad.mit.edu	37	6	51872698	51872698	+	Intron	DEL	C	-	-	rs11326903		TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:51872698delC	uc003pah.1	-						PKHD1_uc003pai.2_Intron	NM_138694	NP_619639	P08F94	PKHD1_HUMAN	fibrocystin isoform 1						cell-cell adhesion|cilium assembly|homeostatic process|kidney development|negative regulation of cellular component movement	anchored to external side of plasma membrane|apical plasma membrane|integral to membrane|microtubule basal body	protein binding|receptor activity			lung(15)|ovary(15)|large_intestine(5)|central_nervous_system(3)|skin(3)|breast(2)|upper_aerodigestive_tract(1)	44	Lung NSC(77;0.0605)					TTGTTCTATTCTTTAGGGTCC	0.488													3	3	---	---	---	---	
Unknown	0	broad.mit.edu	37	6	54441694	54441694	+	IGR	DEL	T	-	-	rs66780139		TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:54441694delT								TINAG (186744 upstream) : FAM83B (269875 downstream)																							tttttttttcttttttttttg	0.000													4	3	---	---	---	---	
PRIM2	5558	broad.mit.edu	37	6	57253252	57253254	+	Intron	DEL	ATA	-	-	rs147405680		TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:57253252_57253254delATA	uc003pdx.2	+						hsa-mir-548u|MI0014168_5'Flank	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)		aagaatcaGCATAATGATGATGA	0.059													4	2	---	---	---	---	
PRIM2	5558	broad.mit.edu	37	6	57301956	57301963	+	Intron	DEL	ACACTTAA	-	-	rs146504937		TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:57301956_57301963delACACTTAA	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)		caggcactggacacttaaacaactagat	0.000													4	2	---	---	---	---	
PRIM2	5558	broad.mit.edu	37	6	57323077	57323077	+	Intron	DEL	G	-	-	rs67240761		TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:57323077delG	uc003pdx.2	+							NM_000947	NP_000938	P49643	PRI2_HUMAN	DNA primase polypeptide 2						DNA replication, synthesis of RNA primer|DNA strand elongation involved in DNA replication|DNA-dependent DNA replication initiation|G1/S transition of mitotic cell cycle|M/G1 transition of mitotic cell cycle|S phase of mitotic cell cycle|telomere maintenance via recombination|telomere maintenance via semi-conservative replication	alpha DNA polymerase:primase complex|nucleoplasm	4 iron, 4 sulfur cluster binding|DNA binding|DNA primase activity|metal ion binding				0				Colorectal(6;0.041)|READ - Rectum adenocarcinoma(7;0.193)		aagcattgcaggaaaaaaaca	0.000													3	3	---	---	---	---	
PRIM2	5558	broad.mit.edu	37	6	57391940	57391941	+	Intron	INS	-	T	T	rs139175265		TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:57391940_57391941insT	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)		GGGCGCGTCTCTTCCCTGGCTA	0.411													4	2	---	---	---	---	
PRIM2	5558	broad.mit.edu	37	6	57415349	57415350	+	Intron	INS	-	A	A	rs144666484		TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:57415349_57415350insA	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)		TATTTGTAGGGAAGAATGTGTA	0.307													1	6	---	---	---	---	
PRIM2	5558	broad.mit.edu	37	6	57416838	57416839	+	Intron	INS	-	A	A	rs138010997		TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:57416838_57416839insA	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)		aagcaatggggaaaggactgcc	0.000													3	3	---	---	---	---	
PRIM2	5558	broad.mit.edu	37	6	57438024	57438026	+	Intron	DEL	AAT	-	-	rs67074144		TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:57438024_57438026delAAT	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)		AAAAAAACACAATAACAGTGAAT	0.192													3	3	---	---	---	---	
PRIM2	5558	broad.mit.edu	37	6	57502183	57502186	+	Intron	DEL	GAGA	-	-	rs113607514		TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:57502183_57502186delGAGA	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)		GCAAATGTTTGAGAGAGATTTATT	0.338													2	4	---	---	---	---	
Unknown	0	broad.mit.edu	37	6	57514537	57514538	+	IGR	INS	-	TCA	TCA	rs142174162		TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:57514537_57514538insTCA								PRIM2 (1162 upstream) : GUSBL2 (731621 downstream)																							TGCTACTCCCTTCATCATTTGT	0.342													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	6	57522595	57522595	+	IGR	DEL	C	-	-	rs111414309		TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:57522595delC								PRIM2 (9220 upstream) : GUSBL2 (723564 downstream)																							caacttccttccctttcTCTT	0.005													5	3	---	---	---	---	
BAI3	577	broad.mit.edu	37	6	69834778	69834779	+	Intron	INS	-	T	T	rs149372649	by1000genomes	TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:69834778_69834779insT	uc003pev.3	+						BAI3_uc010kak.2_Intron	NM_001704	NP_001695	O60242	BAI3_HUMAN	brain-specific angiogenesis inhibitor 3						negative regulation of angiogenesis|neuropeptide signaling pathway	integral to membrane|plasma membrane	G-protein coupled receptor activity			lung(27)|ovary(8)|skin(6)|pancreas(4)|central_nervous_system(3)|urinary_tract(1)|breast(1)	50		all_lung(197;0.212)				cagttttgccattttttttttc	0.089													3	3	---	---	---	---	
Unknown	0	broad.mit.edu	37	6	78846644	78846644	+	IGR	DEL	T	-	-			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:78846644delT								HTR1B (673524 upstream) : IRAK1BP1 (730545 downstream)																							taagaattcctttgagtaaaa	0.000													6	3	---	---	---	---	
FHL5	9457	broad.mit.edu	37	6	97052183	97052184	+	Intron	INS	-	TC	TC	rs147251758	by1000genomes	TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:97052183_97052184insTC	uc003pos.1	+						FHL5_uc003pot.1_Intron	NM_020482	NP_065228	Q5TD97	FHL5_HUMAN	activator of cAMP-responsive element modulator							nucleus	zinc ion binding			ovary(2)	2		all_cancers(76;1.57e-07)|Acute lymphoblastic leukemia(125;4.93e-10)|all_hematologic(75;3.55e-07)|all_epithelial(107;0.00266)|Colorectal(196;0.0341)|Lung NSC(302;0.204)		BRCA - Breast invasive adenocarcinoma(108;0.0948)		tcctctctctttctctctctct	0.163													3	4	---	---	---	---	
Unknown	0	broad.mit.edu	37	6	99196514	99196517	+	IGR	DEL	ACAC	-	-	rs71775680		TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:99196514_99196517delACAC								MIR2113 (724017 upstream) : POU3F2 (86063 downstream)																							TTTCTCTTAAacacacacacacac	0.245													4	3	---	---	---	---	
AMD1	262	broad.mit.edu	37	6	111152642	111152642	+	Intron	DEL	A	-	-			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:111152642delA	uc011eay.1	+							NM_001033059	NP_001028231	P17707	DCAM_HUMAN	adenosylmethionine decarboxylase 1 isoform 2						spermidine biosynthetic process|spermine biosynthetic process	cytosol	adenosylmethionine decarboxylase activity			upper_aerodigestive_tract(1)	1		all_cancers(87;3.83e-05)|Acute lymphoblastic leukemia(125;2.13e-07)|all_hematologic(75;5.28e-06)|all_epithelial(87;0.00225)|Colorectal(196;0.0209)		OV - Ovarian serous cystadenocarcinoma(136;0.0522)|Epithelial(106;0.111)|all cancers(137;0.143)	S-Adenosylmethionine(DB00118)	actccgtctcaaaaaaaaaaa	0.005													4	3	---	---	---	---	
KIAA1919	91749	broad.mit.edu	37	6	111589003	111589004	+	3'UTR	DEL	GC	-	-			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:111589003_111589004delGC	uc003puv.3	+	4						NM_153369	NP_699200	Q5TF39	NAGT1_HUMAN	sodium-dependent glucose transporter 1						carbohydrate transport|sodium ion transport	apical plasma membrane|integral to membrane	symporter activity			ovary(3)	3		all_cancers(87;2.35e-05)|Acute lymphoblastic leukemia(125;2.13e-07)|all_hematologic(75;5.28e-06)|all_epithelial(87;0.00138)|Colorectal(196;0.0209)		OV - Ovarian serous cystadenocarcinoma(136;0.055)|all cancers(137;0.0871)|Epithelial(106;0.0884)		tccagcctgggcgacatctaga	0.114													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	6	132238923	132238923	+	IGR	DEL	A	-	-	rs5880090		TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:132238923delA								ENPP1 (22630 upstream) : CTGF (30396 downstream)																							AGCATGCCTGAAAATTTAATT	0.408													0	6	---	---	---	---	
Unknown	0	broad.mit.edu	37	6	132922052	132922055	+	IGR	DEL	GAAG	-	-			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:132922052_132922055delGAAG								TAAR5 (11175 upstream) : TAAR2 (16234 downstream)																							aggagggaaagaaggaaggaagga	0.000													4	2	---	---	---	---	
AIG1	51390	broad.mit.edu	37	6	143438967	143438967	+	Intron	DEL	G	-	-			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:143438967delG	uc003qjh.2	+						AIG1_uc003qjf.2_Intron|AIG1_uc003qji.2_Intron|AIG1_uc011edw.1_Intron|AIG1_uc003qjg.2_Intron	NM_016108	NP_057192	Q9NVV5	AIG1_HUMAN	androgen-induced 1							integral to membrane					0				OV - Ovarian serous cystadenocarcinoma(155;2.34e-05)|GBM - Glioblastoma multiforme(68;0.0246)		GGGAAAATGTGGTACCTCATG	0.264													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	6	148605064	148605065	+	IGR	INS	-	T	T	rs112731805		TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:148605064_148605065insT								SAMD5 (713907 upstream) : SASH1 (58664 downstream)																							TATCTATGTAATTTTTTTTTTT	0.371													3	3	---	---	---	---	
Unknown	0	broad.mit.edu	37	6	148970621	148970622	+	IGR	INS	-	T	T	rs145477063	by1000genomes	TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:148970621_148970622insT								SASH1 (97437 upstream) : UST (97649 downstream)																							ctaggttgcagtttgttcacaa	0.000													2	5	---	---	---	---	
PPP1R14C	81706	broad.mit.edu	37	6	150489100	150489101	+	Intron	DEL	CT	-	-	rs74508153		TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:150489100_150489101delCT	uc003qnt.2	+							NM_030949	NP_112211	Q8TAE6	PP14C_HUMAN	protein phosphatase 1, regulatory (inhibitor)						regulation of phosphorylation	cytoplasm|membrane					0		Ovarian(120;0.0284)	BRCA - Breast invasive adenocarcinoma(37;0.215)	OV - Ovarian serous cystadenocarcinoma(155;9.14e-12)		ctctcctcccctctttctctcc	0.193													4	2	---	---	---	---	
AKAP12	9590	broad.mit.edu	37	6	151560252	151560252	+	5'Flank	DEL	T	-	-	rs35796247		TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:151560252delT	uc011eep.1	+						AKAP12_uc003qoe.2_5'Flank	NM_005100	NP_005091	Q02952	AKA12_HUMAN	A kinase (PRKA) anchor protein 12 isoform 1						G-protein coupled receptor protein signaling pathway|positive regulation of cAMP biosynthetic process|positive regulation of protein kinase A signaling cascade|protein targeting	cell cortex|cytoskeleton|plasma membrane	adenylate cyclase binding|protein kinase A binding			large_intestine(2)|ovary(2)|upper_aerodigestive_tract(1)|lung(1)|skin(1)|pancreas(1)	8		Ovarian(120;0.125)	BRCA - Breast invasive adenocarcinoma(37;0.175)	OV - Ovarian serous cystadenocarcinoma(155;2.98e-11)		tctttctttcttttttttttt	0.134													5	3	---	---	---	---	
TULP4	56995	broad.mit.edu	37	6	158880462	158880463	+	Intron	INS	-	A	A	rs5881265		TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:158880462_158880463insA	uc003qrf.2	+						TULP4_uc011efo.1_Intron|TULP4_uc003qrg.2_Intron	NM_020245	NP_064630	Q9NRJ4	TULP4_HUMAN	tubby like protein 4 isoform 1						intracellular signal transduction|response to nutrient	cytoplasm	protein binding|sequence-specific DNA binding transcription factor activity			ovary(1)	1		Breast(66;0.000781)|Ovarian(120;0.0308)|Lung SC(201;0.164)|Prostate(117;0.171)		OV - Ovarian serous cystadenocarcinoma(65;1.64e-18)|BRCA - Breast invasive adenocarcinoma(81;2.67e-05)		aactctgtctcaaaaaaaaaaa	0.203													4	2	---	---	---	---	
EZR	7430	broad.mit.edu	37	6	159195705	159195706	+	Intron	DEL	AC	-	-	rs72274055		TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:159195705_159195706delAC	uc003qrt.3	-						EZR_uc011efs.1_Intron|EZR_uc003qru.3_Intron	NM_003379	NP_003370	P15311	EZRI_HUMAN	ezrin						actin filament bundle assembly|axon guidance|cytoskeletal anchoring at plasma membrane|leukocyte cell-cell adhesion|membrane to membrane docking|regulation of cell shape	actin filament|apical plasma membrane|basolateral plasma membrane|cortical cytoskeleton|cytosol|extrinsic to membrane|filopodium|microvillus membrane|nucleolus|ruffle membrane	actin filament binding|cell adhesion molecule binding			ovary(1)	1		Breast(66;0.000776)|Ovarian(120;0.0303)		OV - Ovarian serous cystadenocarcinoma(65;2.16e-17)|BRCA - Breast invasive adenocarcinoma(81;6.58e-06)		TTATCATCAAacacacacacac	0.277													4	2	---	---	---	---	
WTAP	9589	broad.mit.edu	37	6	160152336	160152337	+	Intron	INS	-	A	A			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:160152336_160152337insA	uc003qsl.2	+						WTAP_uc010kjx.2_Intron|WTAP_uc003qsk.2_Intron|WTAP_uc003qsm.1_Intron|WTAP_uc003qsn.2_Intron	NM_004906	NP_004897	Q15007	FL2D_HUMAN	Wilms' tumour 1-associating protein isoform 1						cell cycle|mRNA processing|RNA splicing	nuclear membrane|nucleolus					0		Breast(66;0.000776)|Ovarian(120;0.0303)		OV - Ovarian serous cystadenocarcinoma(65;1.75e-18)|BRCA - Breast invasive adenocarcinoma(81;5.93e-06)		ctactaccaagaaaaaaaaaac	0.000													4	2	---	---	---	---	
PARK2	5071	broad.mit.edu	37	6	161855350	161855351	+	Intron	DEL	AA	-	-	rs10577513		TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:161855350_161855351delAA	uc003qtx.3	-						PARK2_uc003qtv.3_Intron|PARK2_uc010kkd.2_Intron|PARK2_uc003qtw.3_Intron|PARK2_uc003qty.3_Intron|PARK2_uc003qtz.3_Intron|PARK2_uc011egf.1_Intron	NM_004562	NP_004553	O60260	PRKN2_HUMAN	parkin isoform 1						aggresome assembly|central nervous system development|mitochondrion degradation|negative regulation of actin filament bundle assembly|negative regulation of cell death|negative regulation of protein phosphorylation|negative regulation of release of cytochrome c from mitochondria|neuron death|positive regulation of I-kappaB kinase/NF-kappaB cascade|protein autoubiquitination|protein K48-linked ubiquitination|protein K63-linked ubiquitination|protein monoubiquitination|protein ubiquitination involved in ubiquitin-dependent protein catabolic process|regulation of autophagy|regulation of reactive oxygen species metabolic process	aggresome|cytosol|endoplasmic reticulum|Golgi apparatus|mitochondrion|nucleus|perinuclear region of cytoplasm	chaperone binding|PDZ domain binding|protein kinase binding|ubiquitin protein ligase binding|ubiquitin-protein ligase activity|zinc ion binding			upper_aerodigestive_tract(1)	1		all_cancers(1;8.13e-65)|all_epithelial(1;5.77e-64)|Colorectal(1;9.65e-15)|all_lung(1;1.66e-13)|Lung NSC(1;7.54e-11)|Melanoma(1;1.75e-09)|Breast(66;7.81e-05)|Ovarian(120;0.000981)|Prostate(117;0.0288)|Esophageal squamous(34;0.102)		UCEC - Uterine corpus endometrioid carcinoma (4;0.0663)|all cancers(1;1.9e-63)|Epithelial(1;1.5e-59)|Colorectal(1;2.16e-23)|OV - Ovarian serous cystadenocarcinoma(65;3.53e-20)|COAD - Colon adenocarcinoma(1;2.11e-15)|STAD - Stomach adenocarcinoma(1;4.64e-07)|BRCA - Breast invasive adenocarcinoma(81;1.49e-06)|READ - Rectum adenocarcinoma(1;2.95e-06)|GBM - Glioblastoma multiforme(2;7.23e-06)|Lung(1;0.00163)|KIRC - Kidney renal clear cell carcinoma(4;0.00371)|LUSC - Lung squamous cell carcinoma(1;0.00442)|Kidney(4;0.0046)		GTGTCTGCTTAAAGTTTTCTGT	0.446													0	6	---	---	---	---	
PARK2	5071	broad.mit.edu	37	6	162082588	162082588	+	Intron	DEL	T	-	-	rs113366119		TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:162082588delT	uc003qtx.3	-						PARK2_uc003qtv.3_Intron|PARK2_uc010kkd.2_Intron|PARK2_uc003qtw.3_Intron|PARK2_uc003qty.3_Intron|PARK2_uc003qtz.3_Intron|PARK2_uc010kke.1_Intron|PARK2_uc011egf.1_Intron	NM_004562	NP_004553	O60260	PRKN2_HUMAN	parkin isoform 1						aggresome assembly|central nervous system development|mitochondrion degradation|negative regulation of actin filament bundle assembly|negative regulation of cell death|negative regulation of protein phosphorylation|negative regulation of release of cytochrome c from mitochondria|neuron death|positive regulation of I-kappaB kinase/NF-kappaB cascade|protein autoubiquitination|protein K48-linked ubiquitination|protein K63-linked ubiquitination|protein monoubiquitination|protein ubiquitination involved in ubiquitin-dependent protein catabolic process|regulation of autophagy|regulation of reactive oxygen species metabolic process	aggresome|cytosol|endoplasmic reticulum|Golgi apparatus|mitochondrion|nucleus|perinuclear region of cytoplasm	chaperone binding|PDZ domain binding|protein kinase binding|ubiquitin protein ligase binding|ubiquitin-protein ligase activity|zinc ion binding			upper_aerodigestive_tract(1)	1		all_cancers(1;8.13e-65)|all_epithelial(1;5.77e-64)|Colorectal(1;9.65e-15)|all_lung(1;1.66e-13)|Lung NSC(1;7.54e-11)|Melanoma(1;1.75e-09)|Breast(66;7.81e-05)|Ovarian(120;0.000981)|Prostate(117;0.0288)|Esophageal squamous(34;0.102)		UCEC - Uterine corpus endometrioid carcinoma (4;0.0663)|all cancers(1;1.9e-63)|Epithelial(1;1.5e-59)|Colorectal(1;2.16e-23)|OV - Ovarian serous cystadenocarcinoma(65;3.53e-20)|COAD - Colon adenocarcinoma(1;2.11e-15)|STAD - Stomach adenocarcinoma(1;4.64e-07)|BRCA - Breast invasive adenocarcinoma(81;1.49e-06)|READ - Rectum adenocarcinoma(1;2.95e-06)|GBM - Glioblastoma multiforme(2;7.23e-06)|Lung(1;0.00163)|KIRC - Kidney renal clear cell carcinoma(4;0.00371)|LUSC - Lung squamous cell carcinoma(1;0.00442)|Kidney(4;0.0046)		cctgcttccattttttttttt	0.000													3	6	---	---	---	---	
PACRG	135138	broad.mit.edu	37	6	163182985	163182985	+	Intron	DEL	G	-	-	rs147001040		TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:163182985delG	uc003qua.2	+						PACRG_uc003qub.2_Intron|PACRG_uc003quc.2_Intron	NM_152410	NP_689623	Q96M98	PACRG_HUMAN	parkin co-regulated gene protein isoform 1												0		Breast(66;2.41e-05)|Ovarian(120;0.0245)|Prostate(117;0.0273)|all_neural(5;0.0416)|Glioma(2;0.203)		OV - Ovarian serous cystadenocarcinoma(33;4.31e-19)|GBM - Glioblastoma multiforme(2;7.42e-11)|BRCA - Breast invasive adenocarcinoma(81;3.19e-05)|KIRC - Kidney renal clear cell carcinoma(3;0.205)|Kidney(3;0.242)		aaaaaaaaaagaaaCCCCCCC	0.154													5	3	---	---	---	---	
Unknown	0	broad.mit.edu	37	6	166709287	166709294	+	IGR	DEL	GTGTGTGT	-	-	rs71829347		TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:166709287_166709294delGTGTGTGT								T (127156 upstream) : PRR18 (9874 downstream)																							AGTAGCAGAAgtgtgtgtgtgtgtgtgt	0.361													4	2	---	---	---	---	
RPS6KA2	6196	broad.mit.edu	37	6	167017461	167017461	+	Intron	DEL	C	-	-			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:167017461delC	uc003qvb.1	-						RPS6KA2_uc003qvc.1_Intron|RPS6KA2_uc003qvd.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)		CCTAACGTGTCCCTCCTAGAA	0.423													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	6	169370725	169370728	+	IGR	DEL	ACAC	-	-	rs72130690		TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:169370725_169370728delACAC								SMOC2 (302054 upstream) : THBS2 (245148 downstream)																							GACATACCCAacacacacacacac	0.201													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	6	170530538	170530538	+	IGR	DEL	C	-	-	rs67985666		TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:170530538delC								C6orf208 (327569 upstream) : LOC154449 (32884 downstream)																							AGACTCCACACCGGGAGTCAG	0.602													4	3	---	---	---	---	
Unknown	0	broad.mit.edu	37	7	1348990	1348992	+	IGR	DEL	TGA	-	-	rs112541434		TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:1348990_1348992delTGA								UNCX (72378 upstream) : MICALL2 (125004 downstream)																							atgatgatggtgatgatggtgat	0.020													3	3	---	---	---	---	
Unknown	0	broad.mit.edu	37	7	1356557	1356557	+	IGR	DEL	T	-	-			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:1356557delT								UNCX (79945 upstream) : MICALL2 (117439 downstream)																							cttttttttcttttttttttt	0.169													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	7	1403154	1403155	+	IGR	INS	-	AA	AA	rs112587011		TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:1403154_1403155insAA								UNCX (126542 upstream) : MICALL2 (70841 downstream)																							aacaaacaaacaaaaaaaaaaC	0.069													4	2	---	---	---	---	
MAD1L1	8379	broad.mit.edu	37	7	2205258	2205259	+	Intron	INS	-	TG	TG	rs150205947	by1000genomes	TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:2205258_2205259insTG	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)		CCGTGTTTCACTAAACCAAGGT	0.589													5	4	---	---	---	---	
EIF3B	8662	broad.mit.edu	37	7	2404479	2404479	+	Intron	DEL	T	-	-			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:2404479delT	uc003slx.2	+						EIF3B_uc003sly.2_Intron|EIF3B_uc003sma.2_Intron	NM_003751	NP_003742	P55884	EIF3B_HUMAN	eukaryotic translation initiation factor 3,						regulation of translational initiation	cytosol|eukaryotic translation initiation factor 3 complex	nucleotide binding|protein complex scaffold|translation initiation factor activity				0		Ovarian(82;0.0253)		UCEC - Uterine corpus endometrioid carcinoma (27;0.0833)|OV - Ovarian serous cystadenocarcinoma(56;7.76e-14)		ggatttaccattcatttaata	0.000													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	7	2658692	2658692	+	IGR	DEL	A	-	-			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:2658692delA								IQCE (4325 upstream) : TTYH3 (12911 downstream)																							actctgtcccaaaaaaaaaaa	0.000													6	3	---	---	---	---	
TTYH3	80727	broad.mit.edu	37	7	2697051	2697056	+	Intron	DEL	TGGTGA	-	-	rs78845578		TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:2697051_2697056delTGGTGA	uc003smp.2	+						TTYH3_uc010ksn.2_Intron|TTYH3_uc003smq.2_Intron	NM_025250	NP_079526	Q9C0H2	TTYH3_HUMAN	tweety 3							chloride channel complex|plasma membrane	chloride channel activity				0		Ovarian(82;0.0112)		OV - Ovarian serous cystadenocarcinoma(56;2.04e-14)		gttgtggtggtggtgatggtgatggt	0.019													4	4	---	---	---	---	
CARD11	84433	broad.mit.edu	37	7	3085650	3085653	+	5'Flank	DEL	CCTC	-	-			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:3085650_3085653delCCTC	uc003smv.2	-							NM_032415	NP_115791	Q9BXL7	CAR11_HUMAN	caspase recruitment domain family, member 11						positive regulation of cytokine production|positive regulation of NF-kappaB transcription factor activity|regulation of apoptosis|T cell costimulation|T cell receptor signaling pathway	cytosol|membrane raft|plasma membrane	CARD domain binding|guanylate kinase activity			haematopoietic_and_lymphoid_tissue(43)|ovary(2)|kidney(2)|skin(2)|central_nervous_system(1)	50		Ovarian(82;0.0115)		OV - Ovarian serous cystadenocarcinoma(56;8.44e-14)		ctcactgcaacctccacctcccgg	0.039			Mis		DLBCL								7	6	---	---	---	---	
DAGLB	221955	broad.mit.edu	37	7	6495454	6495454	+	Intron	DEL	A	-	-			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:6495454delA	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)		actgcatctcaaaaaaaaaga	0.000													4	2	---	---	---	---	
NXPH1	30010	broad.mit.edu	37	7	8765483	8765487	+	Intron	DEL	AAGTT	-	-	rs138082934	by1000genomes	TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:8765483_8765487delAAGTT	uc003srv.2	+						NXPH1_uc011jxh.1_Intron	NM_152745	NP_689958	P58417	NXPH1_HUMAN	neurexophilin 1 precursor							extracellular region				ovary(1)|central_nervous_system(1)	2		Ovarian(82;0.0628)		UCEC - Uterine corpus endometrioid carcinoma (126;0.101)		AGCACCTGGAAAGTTCTGAGCACTG	0.405													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	7	20869604	20869605	+	IGR	DEL	CT	-	-			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:20869604_20869605delCT								RPL23P8 (2165 upstream) : SP4 (598084 downstream)																							acagctttggctctctctctct	0.000													4	2	---	---	---	---	
DNAH11	8701	broad.mit.edu	37	7	21590184	21590185	+	Intron	INS	-	GTTTTT	GTTTTT	rs141437162	by1000genomes	TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:21590184_21590185insGTTTTT	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						aaggcattttaaagattagttt	0.000									Kartagener_syndrome				4	3	---	---	---	---	
RAPGEF5	9771	broad.mit.edu	37	7	22375656	22375656	+	Intron	DEL	T	-	-			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:22375656delT	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						TACTGAATCCTAAGCATCCCT	0.433													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	7	22417652	22417652	+	IGR	DEL	A	-	-			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:22417652delA								RAPGEF5 (21119 upstream) : MGC87042 (41414 downstream)																							AGGGAAGAGGAAAAAATAGCC	0.438													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	7	22841463	22841464	+	IGR	INS	-	A	A			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:22841463_22841464insA								IL6 (69844 upstream) : TOMM7 (10790 downstream)																							gaatgatcaataaaaaaaaaaa	0.084													3	3	---	---	---	---	
SNX10	29887	broad.mit.edu	37	7	26368666	26368666	+	Intron	DEL	C	-	-			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:26368666delC	uc003sxx.2	+						SNX10_uc011jzg.1_Intron|SNX10_uc010kuu.2_Intron	NM_013322	NP_037454	Q9Y5X0	SNX10_HUMAN	sorting nexin 10						cell communication|endosome organization|protein transport	extrinsic to endosome membrane	1-phosphatidylinositol binding				0						tctgctttggccccctacagt	0.015													4	2	---	---	---	---	
C7orf71	285941	broad.mit.edu	37	7	26674695	26674695	+	5'Flank	DEL	A	-	-	rs76988705		TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:26674695delA	uc003syb.2	+							NM_001145531	NP_001139003	A4D174	CG071_HUMAN	hypothetical protein LOC285941												0						ACTTATTTTGAAAAAAAAAAA	0.194													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	7	27314121	27314122	+	IGR	DEL	TG	-	-			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:27314121_27314122delTG								EVX1 (27929 upstream) : HIBADH (250941 downstream)																							CACGCATGCAtgtgtgtgtgtg	0.327													4	2	---	---	---	---	
FAM188B	84182	broad.mit.edu	37	7	30863126	30863126	+	Intron	DEL	T	-	-			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:30863126delT	uc003tbt.2	+						FAM188B_uc010kwe.2_Intron	NM_032222	NP_115598	Q4G0A6	F188B_HUMAN	hypothetical protein LOC84182												0						GACTCATGAATTTTTTTCAAT	0.234													1	5	---	---	---	---	
FAM188B	84182	broad.mit.edu	37	7	30864604	30864605	+	Intron	INS	-	T	T	rs146128067	by1000genomes	TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:30864604_30864605insT	uc003tbt.2	+						FAM188B_uc010kwe.2_Intron	NM_032222	NP_115598	Q4G0A6	F188B_HUMAN	hypothetical protein LOC84182												0						TCTCTGGGGGGCATGAGAGGAC	0.535													4	3	---	---	---	---	
Unknown	0	broad.mit.edu	37	7	31146348	31146348	+	5'Flank	DEL	G	-	-			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:31146348delG	uc003tcg.2	+											Homo sapiens cDNA FLJ39226 fis, clone OCBBF2007232.																		TGGGACCGCAGGCAGGTGCCA	0.657													10	5	---	---	---	---	
Unknown	0	broad.mit.edu	37	7	31242133	31242133	+	IGR	DEL	G	-	-			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:31242133delG								ADCYAP1R1 (95822 upstream) : NEUROD6 (134949 downstream)																							CTCACACGCTGGGAAGCCAGC	0.488													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	7	41165504	41165504	+	IGR	DEL	C	-	-	rs35088244		TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:41165504delC								C7orf10 (265147 upstream) : INHBA (563099 downstream)																							gggacagatgcccaataaggg	0.000													4	3	---	---	---	---	
Unknown	0	broad.mit.edu	37	7	41216900	41216901	+	IGR	DEL	TG	-	-	rs143890458		TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:41216900_41216901delTG								C7orf10 (316543 upstream) : INHBA (511702 downstream)																							ACACCCCATCtgtgtgtgtgtg	0.302													3	3	---	---	---	---	
Unknown	0	broad.mit.edu	37	7	41384749	41384749	+	IGR	DEL	G	-	-			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:41384749delG								C7orf10 (484392 upstream) : INHBA (343854 downstream)																							AGGTGGGAAAGGGGGGCTCAG	0.453													2	4	---	---	---	---	
HECW1	23072	broad.mit.edu	37	7	43382469	43382469	+	Intron	DEL	A	-	-	rs35465449		TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:43382469delA	uc003tid.1	+						HECW1_uc011kbi.1_Intron|HECW1_uc003tie.1_Intron	NM_015052	NP_055867	Q76N89	HECW1_HUMAN	NEDD4-like ubiquitin-protein ligase 1						protein ubiquitination involved in ubiquitin-dependent protein catabolic process	cytoplasm|nucleus	ubiquitin-protein ligase activity			ovary(8)|lung(6)|breast(4)|skin(4)|pancreas(1)	23						ctaaagatacaaaaaaatcag	0.000													5	5	---	---	---	---	
HECW1	23072	broad.mit.edu	37	7	43501982	43501982	+	Intron	DEL	T	-	-			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:43501982delT	uc003tid.1	+						HECW1_uc011kbi.1_Intron	NM_015052	NP_055867	Q76N89	HECW1_HUMAN	NEDD4-like ubiquitin-protein ligase 1						protein ubiquitination involved in ubiquitin-dependent protein catabolic process	cytoplasm|nucleus	ubiquitin-protein ligase activity			ovary(8)|lung(6)|breast(4)|skin(4)|pancreas(1)	23						CCCTGCCTGGTTTTTTTTTAG	0.383													4	2	---	---	---	---	
C7orf44	55744	broad.mit.edu	37	7	43749033	43749034	+	Intron	INS	-	TG	TG	rs141879129	by1000genomes	TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:43749033_43749034insTG	uc003tin.1	-						C7orf44_uc003til.2_Intron|C7orf44_uc003tii.2_Intron|C7orf44_uc003tij.2_Intron|C7orf44_uc010kxu.1_Intron|C7orf44_uc003tik.2_Intron|C7orf44_uc003tim.1_Intron|C7orf44_uc003tio.1_Intron|C7orf44_uc003tiq.1_Intron|C7orf44_uc003tip.1_Intron	NM_018224	NP_060694	Q9GZY4	CG044_HUMAN	hypothetical protein LOC55744							integral to membrane				ovary(1)	1						ctttgttttattgtgtgtgtgt	0.000													6	3	---	---	---	---	
BLVRA	644	broad.mit.edu	37	7	43828636	43828637	+	Intron	DEL	AC	-	-			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:43828636_43828637delAC	uc003tir.2	+						BLVRA_uc010kxv.2_Intron	NM_000712	NP_000703	P53004	BIEA_HUMAN	biliverdin reductase A precursor						heme catabolic process	cytosol	biliverdin reductase activity|zinc ion binding			ovary(1)	1					NADH(DB00157)	TCACCCCTGTACACACACACAC	0.401													3	3	---	---	---	---	
CCM2	83605	broad.mit.edu	37	7	45102426	45102426	+	Intron	DEL	A	-	-	rs11326276		TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:45102426delA	uc003tmo.2	+						CCM2_uc003tmn.2_Intron|CCM2_uc003tmp.2_Intron|CCM2_uc003tmq.2_Intron|CCM2_uc003tmr.2_Intron|CCM2_uc011kcb.1_Intron|CCM2_uc011kcc.1_Intron|CCM2_uc003tms.2_Intron	NM_031443	NP_113631	Q9BSQ5	CCM2_HUMAN	cerebral cavernous malformation 2 isoform 2						endothelial tube morphogenesis|integrin-mediated signaling pathway|stress-activated MAPK cascade|vasculogenesis	cytoplasm	protein binding				0						accctgtctcaaaaaaaaaaa	0.000									Familial_Cerebral_Cavernous_Angioma				3	3	---	---	---	---	
UPP1	7378	broad.mit.edu	37	7	48131645	48131645	+	Intron	DEL	G	-	-			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:48131645delG	uc003toj.2	+						UPP1_uc003tok.2_Intron|UPP1_uc003tol.2_Intron|UPP1_uc011kcg.1_Intron|UPP1_uc011kch.1_Intron|UPP1_uc003ton.2_Intron|UPP1_uc003too.2_Intron	NM_181597	NP_853628	Q16831	UPP1_HUMAN	uridine phosphorylase 1						nucleotide catabolic process|pyrimidine base metabolic process|pyrimidine nucleoside catabolic process|pyrimidine nucleoside salvage	cytosol	uridine phosphorylase activity				0						CTGATTCAGTGGGATGTTCTC	0.562													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	7	49794300	49794300	+	IGR	DEL	A	-	-	rs67127068		TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:49794300delA								CDC14C (827251 upstream) : VWC2 (18957 downstream)																							TGAAGGATGTAAAAAAAAAAA	0.264													4	2	---	---	---	---	
GRB10	2887	broad.mit.edu	37	7	50740166	50740167	+	Intron	INS	-	T	T			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:50740166_50740167insT	uc003tpi.2	-						GRB10_uc003tph.3_Intron|GRB10_uc003tpj.2_Intron|GRB10_uc003tpk.2_Intron|GRB10_uc010kzb.2_Intron|GRB10_uc003tpl.2_Intron|GRB10_uc003tpm.2_Intron|GRB10_uc003tpn.2_Intron	NM_005311	NP_005302	Q13322	GRB10_HUMAN	growth factor receptor-bound protein 10 isoform						insulin receptor signaling pathway|insulin receptor signaling pathway|negative regulation of glucose import|negative regulation of glycogen biosynthetic process|negative regulation of insulin receptor signaling pathway|negative regulation of Wnt receptor signaling pathway|positive regulation of phosphorylation|positive regulation of vascular endothelial growth factor receptor signaling pathway	cytosol|plasma membrane	insulin receptor binding|insulin receptor binding|SH3/SH2 adaptor activity			lung(3)|ovary(2)|upper_aerodigestive_tract(1)	6	Glioma(55;0.08)|all_neural(89;0.245)					TGATCTCCACATTTTTTTTTAA	0.302									Russell-Silver_syndrome				4	2	---	---	---	---	
COBL	23242	broad.mit.edu	37	7	51215451	51215451	+	Intron	DEL	T	-	-			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:51215451delT	uc003tpr.3	-						COBL_uc003tps.2_Intron|COBL_uc011kcl.1_Intron|COBL_uc010kzc.2_Intron|COBL_uc003tpt.2_Intron|COBL_uc003tpp.3_Intron|COBL_uc003tpq.3_Intron	NM_015198	NP_056013	O75128	COBL_HUMAN	cordon-bleu homolog											skin(3)|ovary(2)	5	Glioma(55;0.08)					ttttcttttcttttttttttt	0.000													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	7	51443632	51443635	+	IGR	DEL	TTTG	-	-	rs67692847		TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:51443632_51443635delTTTG								COBL (59117 upstream) : None (None downstream)																							tgggctgttttttgtttgtttgtt	0.000													4	4	---	---	---	---	
Unknown	0	broad.mit.edu	37	7	53468198	53468198	+	IGR	DEL	T	-	-			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:53468198delT								POM121L12 (363581 upstream) : HPVC1 (800719 downstream)																							cCTCCCCAGCTTTTAGCTCCT	0.264													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	7	54770764	54770765	+	IGR	INS	-	T	T	rs150749825	by1000genomes	TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:54770764_54770765insT								VSTM2A (132577 upstream) : SEC61G (49176 downstream)																							gcctgctaaagttttttttaat	0.000													1	5	---	---	---	---	
Unknown	0	broad.mit.edu	37	7	54775176	54775177	+	IGR	DEL	AA	-	-	rs150592607		TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:54775176_54775177delAA								VSTM2A (136989 upstream) : SEC61G (44764 downstream)																							gaaggaaaagaaagaagaaaaa	0.000													3	3	---	---	---	---	
EGFR	1956	broad.mit.edu	37	7	55147282	55147285	+	Intron	DEL	TTTG	-	-	rs34784599		TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:55147282_55147285delTTTG	uc003tqk.2	+						EGFR_uc003tqh.2_Intron|EGFR_uc003tqi.2_Intron|EGFR_uc003tqj.2_Intron|EGFR_uc010kzg.1_Intron	NM_005228	NP_005219	P00533	EGFR_HUMAN	epidermal growth factor receptor isoform a						activation of phospholipase A2 activity by calcium-mediated signaling|activation of phospholipase C activity|axon guidance|cell proliferation|cell-cell adhesion|negative regulation of apoptosis|negative regulation of epidermal growth factor receptor signaling pathway|ossification|positive regulation of catenin import into nucleus|positive regulation of cell migration|positive regulation of cyclin-dependent protein kinase activity involved in G1/S|positive regulation of epithelial cell proliferation|positive regulation of MAP kinase activity|positive regulation of nitric oxide biosynthetic process|positive regulation of phosphorylation|positive regulation of protein kinase B signaling cascade|protein autophosphorylation|protein insertion into membrane|regulation of nitric-oxide synthase activity|regulation of peptidyl-tyrosine phosphorylation|response to stress|response to UV-A	basolateral plasma membrane|endoplasmic reticulum membrane|endosome|extracellular space|Golgi membrane|integral to membrane|nuclear membrane|Shc-EGFR complex	actin filament binding|ATP binding|double-stranded DNA binding|epidermal growth factor receptor activity|identical protein binding|MAP/ERK kinase kinase activity|protein heterodimerization activity|protein phosphatase binding|receptor signaling protein tyrosine kinase activity			lung(9213)|central_nervous_system(103)|stomach(41)|upper_aerodigestive_tract(39)|prostate(32)|ovary(31)|thyroid(24)|breast(11)|peritoneum(9)|oesophagus(9)|salivary_gland(9)|large_intestine(8)|kidney(8)|urinary_tract(6)|skin(5)|adrenal_gland(5)|soft_tissue(4)|bone(3)|NS(2)|pancreas(2)|haematopoietic_and_lymphoid_tissue(2)|thymus(2)|liver(2)|eye(1)	9571	all_cancers(1;1.57e-46)|all_epithelial(1;5.62e-37)|Lung NSC(1;9.29e-25)|all_lung(1;4.39e-23)|Esophageal squamous(2;7.55e-08)|Breast(14;0.0318)		GBM - Glioblastoma multiforme(1;0)|all cancers(1;2.19e-314)|Lung(13;4.65e-05)|LUSC - Lung squamous cell carcinoma(13;0.000168)|STAD - Stomach adenocarcinoma(5;0.00164)|Epithelial(13;0.0607)		Cetuximab(DB00002)|Erlotinib(DB00530)|Gefitinib(DB00317)|Lapatinib(DB01259)|Lidocaine(DB00281)|Panitumumab(DB01269)|Trastuzumab(DB00072)	ATGGCgtttttttgtttgtttgtt	0.142		8	A|O|Mis		glioma|NSCLC	NSCLC			Lung_Cancer_Familial_Clustering_of	TCGA GBM(3;<1E-08)|TSP Lung(4;<1E-08)			4	2	---	---	---	---	
MRPS17	51373	broad.mit.edu	37	7	56015301	56015302	+	Intron	INS	-	T	T	rs111689412		TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:56015301_56015302insT	uc003trb.2	+							NM_015969	NP_057053	Q9Y2R5	RT17_HUMAN	mitochondrial ribosomal protein S17 precursor						translation	mitochondrial small ribosomal subunit	rRNA binding|structural constituent of ribosome				0	Breast(14;0.214)		Lung(13;0.00024)|LUSC - Lung squamous cell carcinoma(13;0.00099)			CTAGGTTTATGttttttttttt	0.149													4	3	---	---	---	---	
Unknown	0	broad.mit.edu	37	7	57936923	57936923	+	IGR	DEL	T	-	-			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:57936923delT								ZNF716 (403658 upstream) : None (None downstream)																							ATAGTTAATATTTTTTCTCTC	0.209													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	7	61792946	61792947	+	IGR	INS	-	ACAT	ACAT			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:61792946_61792947insACAT								None (None upstream) : LOC643955 (958725 downstream)																							atcgaatggtatcactgatttg	0.000													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	7	63728189	63728189	+	IGR	DEL	T	-	-			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:63728189delT								ZNF679 (889 upstream) : ZNF680 (252066 downstream)																							GTTGAGAAACTCCAGAAATGT	0.328													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	7	65285505	65285507	+	IGR	DEL	AGG	-	-			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:65285505_65285507delAGG								CCT6P1 (56844 upstream) : VKORC1L1 (52750 downstream)																							taaaggcgttaggaggaaactcc	0.000													6	4	---	---	---	---	
LOC493754	493754	broad.mit.edu	37	7	66016456	66016456	+	Intron	DEL	T	-	-			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:66016456delT	uc010lac.1	-						LOC493754_uc010lad.2_Intron|LOC493754_uc011kdx.1_Intron					Homo sapiens cDNA FLJ14309 fis, clone PLACE3000221.												0						agaccccatctcctaagaaat	0.005													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	7	72798842	72798842	+	IGR	DEL	A	-	-			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:72798842delA								FKBP6 (26201 upstream) : FZD9 (49267 downstream)																							actctgtcttaaaaaaaaaaa	0.020													3	3	---	---	---	---	
MLXIPL	51085	broad.mit.edu	37	7	73022914	73022915	+	Intron	INS	-	A	A			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:73022914_73022915insA	uc003tyn.1	-						MLXIPL_uc003tyk.1_Intron|MLXIPL_uc003tyl.1_Intron|MLXIPL_uc003tym.1_Intron|MLXIPL_uc003tyo.1_Intron|MLXIPL_uc003typ.1_Intron|MLXIPL_uc003tyq.1_5'Flank	NM_032951	NP_116569	Q9NP71	WBS14_HUMAN	Williams Beuren syndrome chromosome region 14						anatomical structure morphogenesis|energy reserve metabolic process|glucose mediated signaling pathway|intracellular protein kinase cascade|negative regulation of cell cycle arrest|negative regulation of oxidative phosphorylation|negative regulation of peptidyl-serine phosphorylation|positive regulation of cell proliferation|positive regulation of fatty acid biosynthetic process|positive regulation of glycolysis|positive regulation of transcription from RNA polymerase II promoter|triglyceride homeostasis	cytosol|transcription factor complex	carbohydrate response element binding|protein heterodimerization activity|sequence-specific DNA binding transcription factor activity|transcription factor binding			pancreas(1)	1		Lung NSC(55;0.0659)|all_lung(88;0.152)				ccatctcaaagaaaaaaaaaaa	0.233													4	2	---	---	---	---	
RFC2	5982	broad.mit.edu	37	7	73618597	73618598	+	Intron	INS	-	AGG	AGG			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:73618597_73618598insAGG	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						ggaaggaaggagggagggaggg	0.000													5	3	---	---	---	---	
HIP1	3092	broad.mit.edu	37	7	75344769	75344770	+	Intron	DEL	AC	-	-			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:75344769_75344770delAC	uc003uds.1	-							NM_005338	NP_005329	O00291	HIP1_HUMAN	huntingtin interacting protein 1						activation of caspase activity|cell differentiation|clathrin coat assembly|endocytosis|induction of apoptosis|positive regulation of receptor-mediated endocytosis|regulation of transcription, DNA-dependent|transcription, DNA-dependent	clathrin coated vesicle membrane|cytoskeleton|Golgi apparatus|membrane fraction|nucleus	actin binding|clathrin binding|phosphatidylinositol binding|structural constituent of cytoskeleton			lung(3)|pancreas(2)|ovary(1)|breast(1)|central_nervous_system(1)	8						ggagagagagacacacacagag	0.020			T	PDGFRB	CMML								4	2	---	---	---	---	
RSBN1L	222194	broad.mit.edu	37	7	77347557	77347557	+	Intron	DEL	G	-	-			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:77347557delG	uc010ldt.1	+						RSBN1L_uc003ugm.2_Intron	NM_198467	NP_940869	Q6PCB5	RSBNL_HUMAN	round spermatid basic protein 1-like							nucleus				ovary(1)	1						TTATAGCTCTGACATTATATA	0.274													3	3	---	---	---	---	
Unknown	0	broad.mit.edu	37	7	79314307	79314308	+	IGR	INS	-	A	A	rs35562044		TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:79314307_79314308insA								MAGI2 (231417 upstream) : GNAI1 (449832 downstream)																							tatagtcacccgggggaagttt	0.000													4	2	---	---	---	---	
CACNA2D1	781	broad.mit.edu	37	7	81925036	81925036	+	Intron	DEL	A	-	-			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:81925036delA	uc003uhr.1	-							NM_000722	NP_000713	P54289	CA2D1_HUMAN	calcium channel, voltage-dependent, alpha							voltage-gated calcium channel complex	metal ion binding			ovary(5)|pancreas(1)	6					Felodipine(DB01023)|Gabapentin(DB00996)|Ibutilide(DB00308)|Isradipine(DB00270)|Magnesium Sulfate(DB00653)|Nifedipine(DB01115)	AGTTTGTGACAAAAAAAAAAG	0.234													4	2	---	---	---	---	
C7orf23	79161	broad.mit.edu	37	7	86843097	86843098	+	Intron	INS	-	T	T	rs138948203		TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:86843097_86843098insT	uc003uio.2	-							NM_024315	NP_077291	Q9BU79	CG023_HUMAN	chromosome 7 open reading frame 23							integral to membrane					0	Esophageal squamous(14;0.0058)|all_lung(186;0.191)|Lung NSC(181;0.192)					TTGTTTTCTTCTTTTTTTTTTT	0.406										HNSCC(41;0.11)			5	5	---	---	---	---	
Unknown	0	broad.mit.edu	37	7	90081076	90081076	+	IGR	DEL	T	-	-			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:90081076delT								CLDN12 (35810 upstream) : CDK14 (14662 downstream)																							tgtttccatatttttttccat	0.000													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	7	96155986	96155991	+	IGR	DEL	GGCTCT	-	-	rs112159064		TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:96155986_96155991delGGCTCT								SLC25A13 (204527 upstream) : SHFM1 (146246 downstream)																							ATGGTTTGTGGGCTCTGGCTGGTGCC	0.539													3	4	---	---	---	---	
MGC72080	389538	broad.mit.edu	37	7	97532555	97532555	+	Intron	DEL	T	-	-			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:97532555delT	uc010lfp.1	-											Homo sapiens cDNA, FLJ99734.												0						AGATCCAGAGTTTTTTTTTTT	0.284													2	5	---	---	---	---	
Unknown	0	broad.mit.edu	37	7	98177377	98177380	+	IGR	DEL	TACA	-	-	rs62480497		TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:98177377_98177380delTACA								BAIAP2L1 (146950 upstream) : NPTX2 (69217 downstream)																							cctgcctacctacatacctaccta	0.000													3	4	---	---	---	---	
SMURF1	57154	broad.mit.edu	37	7	98705934	98705934	+	Intron	DEL	G	-	-			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:98705934delG	uc003upu.1	-						SMURF1_uc003upv.1_Intron|SMURF1_uc003upt.2_Intron	NM_020429	NP_065162	Q9HCE7	SMUF1_HUMAN	Smad ubiquitination regulatory factor 1 isoform						BMP signaling pathway|cell differentiation|ectoderm development|negative regulation of BMP signaling pathway|negative regulation of transforming growth factor beta receptor signaling pathway|positive regulation of protein ubiquitination|proteasomal ubiquitin-dependent protein catabolic process|protein export from nucleus|protein localization at cell surface|protein polyubiquitination|protein ubiquitination involved in ubiquitin-dependent protein catabolic process|receptor catabolic process|transforming growth factor beta receptor signaling pathway|ubiquitin-dependent SMAD protein catabolic process	cytosol|plasma membrane	activin binding|I-SMAD binding|R-SMAD binding|ubiquitin-protein ligase activity			skin(2)|ovary(1)|lung(1)	4	all_cancers(62;1.05e-08)|all_epithelial(64;4.34e-09)|Lung NSC(181;0.00902)|all_lung(186;0.0145)|Esophageal squamous(72;0.0274)		STAD - Stomach adenocarcinoma(171;0.215)|Lung(104;0.224)			tccgccacctgggttcaagca	0.030													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	7	102067672	102067673	+	IGR	INS	-	A	A	rs142557663	by1000genomes	TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:102067672_102067673insA								PRKRIP1 (543 upstream) : ORAI2 (6323 downstream)																							CTCCCCCCGACAAAAAAAACCA	0.450													0	6	---	---	---	---	
RASA4	10156	broad.mit.edu	37	7	102259886	102259887	+	5'Flank	INS	-	A	A	rs111664704		TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:102259886_102259887insA	uc003vae.2	-						UPK3BL_uc003uzy.2_Intron|RASA4_uc010lig.2_5'Flank|RASA4_uc003vaf.2_5'Flank|RASA4_uc011klb.1_Intron|RASA4_uc010lih.2_5'Flank|RASA4_uc011kld.1_Intron	NM_006989	NP_008920	O43374	RASL2_HUMAN	RAS p21 protein activator 4 isoform 1						intracellular signal transduction|negative regulation of Ras protein signal transduction	cytosol|intrinsic to internal side of plasma membrane	metal ion binding|Ras GTPase activator activity				0						gagacctcgtcaaaaaaaaaaa	0.020													6	4	---	---	---	---	
NRCAM	4897	broad.mit.edu	37	7	107831344	107831346	+	Intron	DEL	ATG	-	-	rs140900186		TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:107831344_107831346delATG	uc003vfb.2	-						NRCAM_uc003vfc.2_Intron|NRCAM_uc011kmk.1_Intron|NRCAM_uc003vfd.2_Intron|NRCAM_uc003vfe.2_Intron	NM_001037132	NP_001032209	Q92823	NRCAM_HUMAN	neuronal cell adhesion molecule isoform A						angiogenesis|axon guidance|axonal fasciculation|cell-cell adhesion|central nervous system development|clustering of voltage-gated sodium channels|neuron migration|positive regulation of neuron differentiation|regulation of axon extension|synapse assembly	external side of plasma membrane|integral to plasma membrane	ankyrin binding			ovary(3)|breast(2)	5						AATTTGTAGAATGATATTAGAAA	0.291													0	6	---	---	---	---	
Unknown	0	broad.mit.edu	37	7	108852917	108852918	+	IGR	INS	-	C	C	rs139566635	by1000genomes	TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:108852917_108852918insC								C7orf66 (328280 upstream) : EIF3IP1 (746366 downstream)																							gtgtctggagactctgttgggt	0.000													1	5	---	---	---	---	
Unknown	0	broad.mit.edu	37	7	114379547	114379547	+	IGR	DEL	T	-	-			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:114379547delT								FOXP2 (48455 upstream) : MDFIC (182662 downstream)																							GACTTTGCTCTTTTTTTTTCA	0.333													1	7	---	---	---	---	
ST7	7982	broad.mit.edu	37	7	116642693	116642694	+	Intron	INS	-	TGTG	TGTG	rs140099821	by1000genomes	TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:116642693_116642694insTGTG	uc003vin.2	+						ST7_uc011knl.1_Intron|ST7_uc003vio.2_Intron	NM_021908	NP_068708	Q9NRC1	ST7_HUMAN	suppression of tumorigenicity 7 isoform b							integral to membrane	binding			central_nervous_system(1)|skin(1)	2	all_cancers(3;3.88e-07)|all_epithelial(6;3.42e-07)|Lung NSC(10;0.00072)|all_lung(10;0.000847)		STAD - Stomach adenocarcinoma(10;0.000512)	LUSC - Lung squamous cell carcinoma(290;0.133)		GTAGTTGAGGCtgtgtgtgtgt	0.252													3	3	---	---	---	---	
Unknown	0	broad.mit.edu	37	7	117859145	117859148	+	IGR	DEL	TGTG	-	-	rs67927625		TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:117859145_117859148delTGTG								NAA38 (26267 upstream) : ANKRD7 (5564 downstream)																							gctgtgcgtctgtgtgtgtgtgtg	0.000													3	3	---	---	---	---	
Unknown	0	broad.mit.edu	37	7	121197319	121197320	+	IGR	DEL	GT	-	-			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:121197319_121197320delGT								FAM3C (160897 upstream) : PTPRZ1 (315839 downstream)																							gagTTGTGAGGTGTGTGTGTGT	0.079													4	2	---	---	---	---	
POT1	25913	broad.mit.edu	37	7	124496700	124496700	+	Intron	DEL	A	-	-			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:124496700delA	uc003vlm.2	-						POT1_uc011koe.1_Intron|POT1_uc003vlk.2_Intron|POT1_uc003vll.2_Intron|POT1_uc003vlo.2_Intron|POT1_uc003vln.2_Intron	NM_015450	NP_056265	Q9NUX5	POTE1_HUMAN	protection of telomeres 1 isoform 1						DNA duplex unwinding|negative regulation of telomere maintenance via telomerase|positive regulation of DNA strand elongation|positive regulation of helicase activity|positive regulation of telomerase activity|positive regulation of telomere maintenance via telomerase|telomere capping|telomere formation via telomerase|telomere maintenance via telomerase	nuclear telomere cap complex|nucleoplasm	DEAD/H-box RNA helicase binding|single-stranded telomeric DNA binding|telomerase inhibitor activity			central_nervous_system(1)	1						GAAAAGCAGGAAAAGCGGAAA	0.438													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	7	127842227	127842229	+	IGR	DEL	CTC	-	-	rs71956033		TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:127842227_127842229delCTC								SND1 (109569 upstream) : MIR129-1 (5696 downstream)																							GCCATTCTCTCTCCTCCTCCTCC	0.527													2	4	---	---	---	---	
Unknown	0	broad.mit.edu	37	7	128825516	128825517	+	IGR	DEL	AC	-	-			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:128825516_128825517delAC								TSPAN33 (16845 upstream) : SMO (3196 downstream)																							acacacacaaacacacacacac	0.376													4	3	---	---	---	---	
NRF1	4899	broad.mit.edu	37	7	129321763	129321763	+	Intron	DEL	A	-	-			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:129321763delA	uc003voz.2	+						NRF1_uc003vpa.2_Intron|NRF1_uc011kpa.1_Intron|NRF1_uc003vpb.2_Intron	NM_005011	NP_005002	Q16656	NRF1_HUMAN	nuclear respiratory factor 1						generation of precursor metabolites and energy|regulation of transcription from RNA polymerase II promoter|transcription, DNA-dependent	nucleus	DNA binding			ovary(1)	1						tcatctctacaaaaaaaaaaa	0.000													3	4	---	---	---	---	
Unknown	0	broad.mit.edu	37	7	130605249	130605250	+	Intron	INS	-	T	T			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:130605249_130605250insT	uc003vql.1	+											full-length cDNA clone CS0DI009YJ20 of Placenta Cot 25-normalized of Homo sapiens (human).																		AAGATCTCCACTTTTTTTTTTT	0.416													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	7	131359980	131359980	+	IGR	DEL	A	-	-			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:131359980delA								PODXL (118604 upstream) : PLXNA4 (448112 downstream)																							GAGGAAACAGAAAGGGCAGTT	0.522													4	2	---	---	---	---	
HIPK2	28996	broad.mit.edu	37	7	139340893	139340894	+	Intron	INS	-	T	T	rs147737021	by1000genomes	TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:139340893_139340894insT	uc003vvf.3	-						HIPK2_uc003vvd.3_Intron	NM_022740	NP_073577	Q9H2X6	HIPK2_HUMAN	homeodomain interacting protein kinase 2 isoform						apoptosis|DNA damage response, signal transduction by p53 class mediator resulting in transcription of p21 class mediator|negative regulation of BMP signaling pathway|positive regulation of JNK cascade|positive regulation of transforming growth factor beta receptor signaling pathway|SMAD protein signal transduction|transcription, DNA-dependent|virus-host interaction	centrosome|nuclear membrane|PML body	ATP binding|protein serine/threonine kinase activity|SMAD binding|transcription corepressor activity|virion binding			ovary(3)|central_nervous_system(3)|skin(1)	7	Melanoma(164;0.205)					GTCCACCTCCATGGTGAACTCA	0.495													1	5	---	---	---	---	
HIPK2	28996	broad.mit.edu	37	7	139350305	139350308	+	Intron	DEL	CATC	-	-	rs72181046		TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:139350305_139350308delCATC	uc003vvf.3	-						HIPK2_uc003vvd.3_Intron	NM_022740	NP_073577	Q9H2X6	HIPK2_HUMAN	homeodomain interacting protein kinase 2 isoform						apoptosis|DNA damage response, signal transduction by p53 class mediator resulting in transcription of p21 class mediator|negative regulation of BMP signaling pathway|positive regulation of JNK cascade|positive regulation of transforming growth factor beta receptor signaling pathway|SMAD protein signal transduction|transcription, DNA-dependent|virus-host interaction	centrosome|nuclear membrane|PML body	ATP binding|protein serine/threonine kinase activity|SMAD binding|transcription corepressor activity|virion binding			ovary(3)|central_nervous_system(3)|skin(1)	7	Melanoma(164;0.205)					CTCCTGGCCAcatccatccatcca	0.343													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	7	142132960	142132960	+	Intron	DEL	C	-	-			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:142132960delC	uc011kro.1	+						uc011krp.1_Intron|uc011krr.1_Intron|uc010lnz.1_5'Flank					SubName: Full=V_segment translation product; Flags: Fragment;																		gcctcactctcaggtaccata	0.010													4	3	---	---	---	---	
Unknown	0	broad.mit.edu	37	7	143312895	143312896	+	IGR	DEL	TG	-	-			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:143312895_143312896delTG								LOC441294 (41652 upstream) : FAM115C (5149 downstream)																							AGGGACAGACTGAAAAAAAAAT	0.381													2	4	---	---	---	---	
Unknown	0	broad.mit.edu	37	7	144085823	144085823	+	IGR	DEL	T	-	-			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:144085823delT								ARHGEF5 (8099 upstream) : NOBOX (10218 downstream)																							TGACTTTCTCTTGACTTGAAC	0.438													4	2	---	---	---	---	
TPK1	27010	broad.mit.edu	37	7	144247255	144247256	+	Intron	INS	-	AG	AG			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:144247255_144247256insAG	uc003weq.2	-						TPK1_uc003weo.2_Intron|TPK1_uc003wep.2_Intron|TPK1_uc003wer.2_Intron|TPK1_uc003wes.2_Intron	NM_022445	NP_071890	Q9H3S4	TPK1_HUMAN	thiamin pyrophosphokinase 1 isoform a						thiamine diphosphate biosynthetic process	cytosol	ATP binding|kinase activity|thiamine diphosphokinase activity			ovary(2)	2					Thiamine(DB00152)	TGGAGGGCTCAAGAGAGCACCA	0.465													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	7	144748813	144748813	+	IGR	DEL	G	-	-			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:144748813delG								TPK1 (215667 upstream) : None (None downstream)																							accaggggatggaggaaggga	0.000													1	5	---	---	---	---	
ATG9B	285973	broad.mit.edu	37	7	150718740	150718740	+	Intron	DEL	T	-	-			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:150718740delT	uc011kvc.1	-						ATG9B_uc003wig.3_Intron	NM_173681	NP_775952	Q674R7	ATG9B_HUMAN	ATG9 autophagy related 9 homolog B						autophagic vacuole assembly	autophagic vacuole membrane|cytoplasmic vesicle|integral to membrane				ovary(1)	1	all_neural(206;0.219)		OV - Ovarian serous cystadenocarcinoma(82;0.0121)	UCEC - Uterine corpus endometrioid carcinoma (81;0.168)		ttgtacactcttttttttttt	0.000													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	7	152144400	152144400	+	IGR	DEL	T	-	-			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:152144400delT								FABP5L3 (4302 upstream) : LOC100128822 (16809 downstream)																							AGTTCTCGAAttttttttttt	0.149													4	4	---	---	---	---	
RBM33	155435	broad.mit.edu	37	7	155499778	155499778	+	Intron	DEL	C	-	-			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:155499778delC	uc010lqk.1	+						RBM33_uc011kvv.1_Intron	NM_053043	NP_444271	Q96EV2	RBM33_HUMAN	RNA binding motif protein 33								nucleotide binding|RNA binding			ovary(1)	1	all_neural(206;0.101)	all_hematologic(28;0.0592)	OV - Ovarian serous cystadenocarcinoma(82;0.011)	UCEC - Uterine corpus endometrioid carcinoma (81;0.2)		TTCAGATTTTCTTGTAGTAGC	0.483													4	2	---	---	---	---	
PTPRN2	5799	broad.mit.edu	37	7	157959304	157959305	+	Intron	INS	-	T	T	rs150648642	by1000genomes	TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:157959304_157959305insT	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)		GGATCACCTCCCCTCCCACTGG	0.663													8	5	---	---	---	---	
VIPR2	7434	broad.mit.edu	37	7	158853066	158853066	+	Intron	DEL	T	-	-			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:158853066delT	uc003woh.2	-						VIPR2_uc010lqx.2_Intron|VIPR2_uc010lqy.2_Intron	NM_003382	NP_003373	P41587	VIPR2_HUMAN	vasoactive intestinal peptide receptor 2						cell-cell signaling	integral to plasma membrane				lung(1)|central_nervous_system(1)	2	Ovarian(565;0.152)	all_cancers(7;1.13e-11)|all_epithelial(9;0.000545)|all_hematologic(28;0.00603)	OV - Ovarian serous cystadenocarcinoma(82;0.00231)	UCEC - Uterine corpus endometrioid carcinoma (81;0.2)|STAD - Stomach adenocarcinoma(7;0.18)		aaccatctccttcacctaacc	0.119													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	7	158962702	158962703	+	IGR	INS	-	A	A	rs148187097		TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:158962702_158962703insA								VIPR2 (25053 upstream) : None (None downstream)																							AGCAGAAACACGATGATCATGG	0.569													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	8	1237017	1237020	+	IGR	DEL	GTGT	-	-	rs72114014		TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:1237017_1237020delGTGT								ERICH1 (555791 upstream) : DLGAP2 (212549 downstream)																							TTTCGGTTGAgtgtgtgtgtgtgt	0.343													5	3	---	---	---	---	
KBTBD11	9920	broad.mit.edu	37	8	1920831	1920832	+	5'Flank	INS	-	A	A	rs140089004		TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:1920831_1920832insA	uc003wpw.3	+							NM_014867	NP_055682	O94819	KBTBB_HUMAN	kelch repeat and BTB (POZ) domain containing 11											pancreas(1)	1		Ovarian(12;0.0563)|Colorectal(14;0.0815)|Hepatocellular(245;0.0831)		BRCA - Breast invasive adenocarcinoma(11;7.72e-05)|READ - Rectum adenocarcinoma(644;0.0929)|COAD - Colon adenocarcinoma(149;0.134)		actccatctctaaaaaaaaaca	0.144													4	4	---	---	---	---	
Unknown	0	broad.mit.edu	37	8	2247503	2247503	+	IGR	DEL	C	-	-			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:2247503delC								MYOM2 (154124 upstream) : CSMD1 (545373 downstream)																							ttacctcccaccacgtcctcc	0.000													4	2	---	---	---	---	
CSMD1	64478	broad.mit.edu	37	8	3015254	3015254	+	Intron	DEL	A	-	-			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:3015254delA	uc011kwk.1	-						CSMD1_uc011kwj.1_Intron|CSMD1_uc003wqe.2_Intron|CSMD1_uc010lrg.2_Intron	NM_033225	NP_150094	Q96PZ7	CSMD1_HUMAN	CUB and Sushi multiple domains 1 precursor							integral to membrane				breast(20)|large_intestine(5)	25		all_cancers(1;5.7e-41)|all_epithelial(1;2.54e-36)|Lung NSC(1;7.54e-11)|all_lung(1;3.2e-10)|Hepatocellular(1;3.78e-05)|Breast(1;0.000196)|Myeloproliferative disorder(4;0.000374)|Esophageal squamous(1;0.0157)|Ovarian(12;0.091)|Renal(68;0.144)|Colorectal(14;0.234)		all cancers(1;5.03e-41)|Epithelial(1;4.78e-31)|Lung(1;1.14e-14)|LUSC - Lung squamous cell carcinoma(1;2.34e-14)|GBM - Glioblastoma multiforme(1;4.49e-10)|Colorectal(4;1.18e-07)|OV - Ovarian serous cystadenocarcinoma(1;3.2e-07)|BRCA - Breast invasive adenocarcinoma(1;6.17e-07)|COAD - Colon adenocarcinoma(4;0.000539)|READ - Rectum adenocarcinoma(4;0.00896)|Kidney(5;0.00957)|KIRC - Kidney renal clear cell carcinoma(5;0.0689)		GGGAAGGTGCAGGTTAAACGC	0.483													4	2	---	---	---	---	
DLC1	10395	broad.mit.edu	37	8	13085802	13085802	+	Intron	DEL	A	-	-			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:13085802delA	uc003wwm.2	-						DLC1_uc003wwl.1_Intron|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						TCCCATTCATAAAAAAAAAAA	0.234													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	8	20479472	20479473	+	IGR	DEL	CA	-	-	rs113769337		TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:20479472_20479473delCA								LZTS1 (366669 upstream) : None (None downstream)																							acacacacaccacacacacacc	0.000													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	8	21878325	21878325	+	IGR	DEL	A	-	-			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:21878325delA								XPO7 (14230 upstream) : NPM2 (3311 downstream)																							catctctaccaaaaaaaaaat	0.000													4	2	---	---	---	---	
ENTPD4	9583	broad.mit.edu	37	8	23273765	23273765	+	Intron	DEL	G	-	-			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:23273765delG	uc011kzu.1	-							NM_001128930	NP_001122402	Q9Y227	ENTP4_HUMAN	ectonucleoside triphosphate diphosphohydrolase 4						UDP catabolic process	autophagic vacuole membrane|cytoplasmic vesicle|integral to Golgi membrane	uridine-diphosphatase activity			ovary(1)|kidney(1)	2		Prostate(55;0.114)		Colorectal(74;0.0161)|COAD - Colon adenocarcinoma(73;0.0649)		AAAGAGGGAAGGGGGAGCACC	0.557													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	8	27562270	27562271	+	IGR	DEL	CA	-	-	rs72191045		TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:27562270_27562271delCA								SCARA3 (27984 upstream) : CCDC25 (28564 downstream)																							AGGATTCCATcacacacacaca	0.401													4	2	---	---	---	---	
DUSP26	78986	broad.mit.edu	37	8	33455400	33455401	+	Intron	INS	-	AC	AC	rs150976098		TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:33455400_33455401insAC	uc003xjp.2	-						DUSP26_uc003xjq.2_Intron	NM_024025	NP_076930	Q9BV47	DUS26_HUMAN	dual specificity phosphatase 26							Golgi apparatus|nucleus	protein binding|protein tyrosine phosphatase activity|protein tyrosine/serine/threonine phosphatase activity				0				KIRC - Kidney renal clear cell carcinoma(67;0.0918)|Kidney(114;0.111)		CCAGcacgcatacacacacaca	0.485													4	4	---	---	---	---	
Unknown	0	broad.mit.edu	37	8	33713857	33713857	+	IGR	DEL	G	-	-			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:33713857delG								DUSP26 (256418 upstream) : None (None downstream)																							AGCCCCAGATGGGGGTTCGGG	0.458													4	4	---	---	---	---	
DDHD2	23259	broad.mit.edu	37	8	38110160	38110160	+	Intron	DEL	A	-	-			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:38110160delA	uc003xlb.2	+						DDHD2_uc003xlc.2_Intron|DDHD2_uc003xld.2_Intron	NM_015214	NP_056029	O94830	DDHD2_HUMAN	DDHD domain containing 2 isoform 1						lipid catabolic process	centrosome	hydrolase activity|metal ion binding			large_intestine(1)|ovary(1)	2	Colorectal(12;0.000442)	all_lung(54;0.0657)|Lung NSC(58;0.175)	BRCA - Breast invasive adenocarcinoma(5;3.76e-25)|COAD - Colon adenocarcinoma(9;0.0977)			acctcatctcaaaaaaaaaaa	0.164													4	4	---	---	---	---	
ADAM9	8754	broad.mit.edu	37	8	38884479	38884479	+	Intron	DEL	T	-	-			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:38884479delT	uc003xmr.2	+						ADAM9_uc011lcf.1_Intron|ADAM9_uc011lcg.1_Intron|ADAM9_uc010lwr.2_Intron	NM_003816	NP_003807	Q13443	ADAM9_HUMAN	ADAM metallopeptidase domain 9 isoform 1						activation of MAPKK activity|cell-cell adhesion mediated by integrin|cell-matrix adhesion|keratinocyte differentiation|monocyte activation|PMA-inducible membrane protein ectodomain proteolysis|PMA-inducible membrane protein ectodomain proteolysis|positive regulation of cell adhesion mediated by integrin|positive regulation of keratinocyte migration|positive regulation of macrophage fusion|positive regulation of membrane protein ectodomain proteolysis|positive regulation of protein secretion|response to calcium ion|response to glucocorticoid stimulus|response to hydrogen peroxide|response to manganese ion|response to tumor necrosis factor|transforming growth factor beta receptor signaling pathway	extracellular space|extracellular space|integral to membrane|intrinsic to external side of plasma membrane	collagen binding|integrin binding|laminin binding|metalloendopeptidase activity|protein kinase C binding|SH3 domain binding|zinc ion binding			ovary(1)|central_nervous_system(1)	2		all_lung(54;0.00292)|Lung NSC(58;0.0115)|Hepatocellular(245;0.0153)	LUSC - Lung squamous cell carcinoma(45;2.74e-07)			ATGAGAAGTCTTTTttttttt	0.219													6	5	---	---	---	---	
Unknown	0	broad.mit.edu	37	8	40987321	40987322	+	IGR	DEL	CA	-	-			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:40987321_40987322delCA								ZMAT4 (231978 upstream) : SFRP1 (132157 downstream)																							gccgctcaggcacacacagaga	0.000													4	2	---	---	---	---	
C8orf40	114926	broad.mit.edu	37	8	42401389	42401392	+	Intron	DEL	AGTT	-	-			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:42401389_42401392delAGTT	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)			ttccattcacagttggttgattat	0.025													3	4	---	---	---	---	
Unknown	0	broad.mit.edu	37	8	47484181	47484181	+	IGR	DEL	A	-	-			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:47484181delA								None (None upstream) : BEYLA (268327 downstream)																							aagaaactccaaacacattgc	0.000													4	2	---	---	---	---	
KIAA0146	23514	broad.mit.edu	37	8	48571505	48571505	+	Intron	DEL	A	-	-			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:48571505delA	uc003xqd.2	+						KIAA0146_uc011ldb.1_Intron|KIAA0146_uc010lxs.2_Intron|KIAA0146_uc011ldc.1_Intron|KIAA0146_uc011ldd.1_Intron|KIAA0146_uc003xqe.2_Intron|KIAA0146_uc003xqf.2_Intron|KIAA0146_uc011lde.1_Intron|KIAA0146_uc010lxt.2_Intron|KIAA0146_uc011ldf.1_Intron	NM_001080394	NP_001073863	Q14159	K0146_HUMAN	hypothetical protein LOC23514												0		Lung NSC(58;0.175)				tctccatctcaaaaaaaaaaa	0.050													4	2	---	---	---	---	
UBE2V2	7336	broad.mit.edu	37	8	48932607	48932607	+	Intron	DEL	T	-	-			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:48932607delT	uc003xqm.2	+							NM_003350	NP_003341	Q15819	UB2V2_HUMAN	ubiquitin-conjugating enzyme E2v2						cell proliferation|DNA double-strand break processing|protein polyubiquitination|regulation of DNA repair	cytoplasm|nucleus|UBC13-MMS2 complex	acid-amino acid ligase activity|protein binding				0		all_cancers(86;0.026)|all_epithelial(80;0.000748)|Lung NSC(129;0.00171)|all_lung(136;0.00196)				TCTGTCTCTCttttttttttt	0.100								Direct_reversal_of_damage|Rad6_pathway					6	3	---	---	---	---	
UBE2V2	7336	broad.mit.edu	37	8	48933465	48933465	+	Intron	DEL	T	-	-			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:48933465delT	uc003xqm.2	+							NM_003350	NP_003341	Q15819	UB2V2_HUMAN	ubiquitin-conjugating enzyme E2v2						cell proliferation|DNA double-strand break processing|protein polyubiquitination|regulation of DNA repair	cytoplasm|nucleus|UBC13-MMS2 complex	acid-amino acid ligase activity|protein binding				0		all_cancers(86;0.026)|all_epithelial(80;0.000748)|Lung NSC(129;0.00171)|all_lung(136;0.00196)				gcccagcTAAttttttttttt	0.000								Direct_reversal_of_damage|Rad6_pathway					4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	8	49153981	49153982	+	IGR	DEL	AG	-	-			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:49153981_49153982delAG								UBE2V2 (179529 upstream) : EFCAB1 (469369 downstream)																							agagacagaaagagagagagag	0.000													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	8	49954412	49954412	+	IGR	DEL	G	-	-			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:49954412delG								SNAI2 (120424 upstream) : C8orf22 (30491 downstream)																							gatgatgggcggccaggcaga	0.000													1	6	---	---	---	---	
Unknown	0	broad.mit.edu	37	8	50338004	50338005	+	IGR	INS	-	A	A			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:50338004_50338005insA								C8orf22 (349363 upstream) : SNTG1 (484344 downstream)																							tactcactgctaaaaaaaatga	0.000													3	4	---	---	---	---	
Unknown	0	broad.mit.edu	37	8	52727310	52727310	+	IGR	DEL	A	-	-			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:52727310delA								PXDNL (5305 upstream) : PCMTD1 (2831 downstream)																							actctgtctcaaaaaaaaaaa	0.010													4	2	---	---	---	---	
XKR4	114786	broad.mit.edu	37	8	56112108	56112108	+	Intron	DEL	G	-	-	rs79007473	by1000genomes	TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:56112108delG	uc003xsf.2	+							NM_052898	NP_443130	Q5GH76	XKR4_HUMAN	XK, Kell blood group complex subunit-related							integral to membrane				pancreas(2)	2			Epithelial(17;0.000117)|all cancers(17;0.000836)			gtgcagatgagggggaacaga	0.000													4	2	---	---	---	---	
CLVS1	157807	broad.mit.edu	37	8	62302100	62302100	+	Intron	DEL	A	-	-			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:62302100delA	uc003xuh.2	+						CLVS1_uc003xui.2_Intron|CLVS1_uc010lyp.2_Intron	NM_173519	NP_775790	Q8IUQ0	CLVS1_HUMAN	retinaldehyde binding protein 1-like 1						lysosome organization	clathrin-coated vesicle|early endosome membrane|trans-Golgi network	phosphatidylinositol-3,5-bisphosphate binding|transporter activity			skin(4)|ovary(1)	5						tcaaaaaaggaaaaaaaaaaa	0.000													4	4	---	---	---	---	
Unknown	0	broad.mit.edu	37	8	66402108	66402108	+	IGR	DEL	A	-	-			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:66402108delA								CYP7B1 (690760 upstream) : ARMC1 (112964 downstream)																							CTGTCATTGTaaaaaaaaaaa	0.303													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	8	66502675	66502676	+	IGR	INS	-	T	T	rs117236500		TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:66502675_66502676insT								CYP7B1 (791327 upstream) : ARMC1 (12396 downstream)																							tgttttttttgttttttttttt	0.124													4	3	---	---	---	---	
ARMC1	55156	broad.mit.edu	37	8	66530086	66530086	+	Intron	DEL	A	-	-	rs10718331		TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:66530086delA	uc003xvl.2	-						ARMC1_uc011leo.1_Intron	NM_018120	NP_060590	Q9NVT9	ARMC1_HUMAN	armadillo repeat-containing protein						metal ion transport		metal ion binding			skin(1)	1			Epithelial(68;0.103)|OV - Ovarian serous cystadenocarcinoma(28;0.235)			tattaaaaagaaaAAAAAAAA	0.164													4	3	---	---	---	---	
ADHFE1	137872	broad.mit.edu	37	8	67369551	67369552	+	Intron	INS	-	A	A	rs148427504		TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:67369551_67369552insA	uc003xwb.3	+						ADHFE1_uc003xwd.3_Intron|ADHFE1_uc003xwc.3_Intron|ADHFE1_uc003xwe.3_Intron|ADHFE1_uc003xwf.3_Intron|ADHFE1_uc011les.1_Intron	NM_144650	NP_653251	Q8IWW8	HOT_HUMAN	alcohol dehydrogenase, iron containing, 1						2-oxoglutarate metabolic process|molecular hydrogen transport	mitochondrial matrix	hydroxyacid-oxoacid transhydrogenase activity|metal ion binding			ovary(1)|lung(1)|breast(1)|skin(1)	4		Lung NSC(129;0.197)	Epithelial(68;0.0321)|all cancers(69;0.0751)|BRCA - Breast invasive adenocarcinoma(89;0.0855)|OV - Ovarian serous cystadenocarcinoma(28;0.226)			ccatctctaccaaaaaaaaaaa	0.000													6	4	---	---	---	---	
MYBL1	4603	broad.mit.edu	37	8	67526739	67526739	+	5'Flank	DEL	T	-	-	rs113392569		TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:67526739delT	uc003xwj.2	-						MYBL1_uc003xwl.2_5'Flank|MYBL1_uc003xwk.2_5'Flank|MYBL1_uc003xwm.2_5'Flank	NM_001080416	NP_001073885	P10243	MYBA_HUMAN	v-myb myeloblastosis viral oncogene homolog						positive regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding			ovary(2)|pancreas(1)	3			Epithelial(68;0.00211)|all cancers(69;0.00726)|OV - Ovarian serous cystadenocarcinoma(28;0.00989)|BRCA - Breast invasive adenocarcinoma(89;0.0938)			ACACACTGGCTTTTTTTTTTT	0.348													4	2	---	---	---	---	
CPA6	57094	broad.mit.edu	37	8	68490854	68490854	+	Intron	DEL	G	-	-	rs34154476		TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:68490854delG	uc003xxq.3	-						CPA6_uc003xxr.3_Intron|CPA6_uc003xxs.2_Intron	NM_020361	NP_065094	Q8N4T0	CBPA6_HUMAN	carboxypeptidase A6 isoform 1 precursor						proteolysis	proteinaceous extracellular matrix	metallocarboxypeptidase activity|zinc ion binding			ovary(2)	2			Epithelial(68;0.04)|OV - Ovarian serous cystadenocarcinoma(28;0.0593)|all cancers(69;0.136)			TGCTCCTTATGGGTCCCTGTT	0.453													1	5	---	---	---	---	
NCOA2	10499	broad.mit.edu	37	8	71203045	71203046	+	Intron	INS	-	A	A	rs149935463	by1000genomes	TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:71203045_71203046insA	uc003xyn.1	-							NM_006540	NP_006531	Q15596	NCOA2_HUMAN	nuclear receptor coactivator 2						cellular lipid metabolic process|transcription, DNA-dependent	nucleoplasm	histone acetyltransferase activity|ligand-dependent nuclear receptor binding|nuclear hormone receptor binding|signal transducer activity		PAX3/NCOA2(4)	lung(6)|soft_tissue(4)|breast(2)|skin(2)|ovary(1)|pancreas(1)	16	Breast(64;0.201)		Epithelial(68;0.0147)|OV - Ovarian serous cystadenocarcinoma(28;0.0455)|all cancers(69;0.0606)			AATTTCAGCTTAAAAAAAAAAC	0.297			T	RUNXBP2	AML								4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	8	71857816	71857816	+	IGR	DEL	A	-	-	rs139794501	by1000genomes	TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:71857816delA								XKR9 (209640 upstream) : EYA1 (251854 downstream)																							ACTAATCGCTATTTTTTTTTT	0.338													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	8	73085677	73085677	+	IGR	DEL	T	-	-			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:73085677delT								TRPA1 (97858 upstream) : KCNB2 (363949 downstream)																							tgagaagcggtttgtagtttt	0.000													4	2	---	---	---	---	
STAU2	27067	broad.mit.edu	37	8	74538310	74538311	+	Intron	DEL	AC	-	-			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:74538310_74538311delAC	uc003xzm.2	-						STAU2_uc011lfg.1_Intron|STAU2_uc003xzn.2_Intron|STAU2_uc011lfh.1_Intron|STAU2_uc003xzo.2_Intron|STAU2_uc003xzp.2_Intron|STAU2_uc011lfi.1_Intron|STAU2_uc003xzq.2_Intron|STAU2_uc010lzk.2_Intron|STAU2_uc010lzl.1_Intron	NM_014393	NP_055208	Q9NUL3	STAU2_HUMAN	staufen homolog 2 isoform e						transport	endoplasmic reticulum|microtubule|nucleolus	double-stranded RNA binding				0	Breast(64;0.0138)		Epithelial(68;0.026)|BRCA - Breast invasive adenocarcinoma(89;0.0483)|all cancers(69;0.0972)			AAGTacacatacacacacacac	0.089													4	2	---	---	---	---	
STAU2	27067	broad.mit.edu	37	8	74657769	74657770	+	Intron	DEL	AG	-	-			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:74657769_74657770delAG	uc003xzm.2	-						STAU2_uc011lfg.1_Intron|STAU2_uc003xzn.2_Intron|STAU2_uc011lfh.1_Intron|STAU2_uc003xzp.2_Intron|STAU2_uc011lfi.1_Intron|STAU2_uc003xzq.2_Intron|STAU2_uc010lzk.2_Intron|STAU2_uc010lzl.1_Intron|STAU2_uc003xzs.2_Intron|STAU2_uc003xzr.2_Intron	NM_014393	NP_055208	Q9NUL3	STAU2_HUMAN	staufen homolog 2 isoform e						transport	endoplasmic reticulum|microtubule|nucleolus	double-stranded RNA binding				0	Breast(64;0.0138)		Epithelial(68;0.026)|BRCA - Breast invasive adenocarcinoma(89;0.0483)|all cancers(69;0.0972)			AGGATGCATCAGAAGCCAAGTA	0.351													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	8	79199340	79199341	+	IGR	INS	-	T	T	rs148639388		TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:79199340_79199341insT								None (None upstream) : PKIA (228995 downstream)																							TAAGTGTTTTGTTTTTTTTTtt	0.054													6	4	---	---	---	---	
Unknown	0	broad.mit.edu	37	8	79200784	79200784	+	IGR	DEL	A	-	-			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:79200784delA								None (None upstream) : PKIA (227552 downstream)																							actctatcttaaaaaaaaaaa	0.005													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	8	81509183	81509184	+	IGR	INS	-	C	C	rs75819632		TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:81509183_81509184insC								ZBTB10 (74575 upstream) : ZNF704 (41585 downstream)																							tccaccacacaaaaaaaaaaaa	0.139													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	8	83976355	83976356	+	IGR	DEL	TT	-	-			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:83976355_83976356delTT								None (None upstream) : None (None downstream)																							ctccttttcctttttttttttt	0.000													3	3	---	---	---	---	
Unknown	0	broad.mit.edu	37	8	90896595	90896595	+	IGR	DEL	T	-	-	rs35636887		TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:90896595delT								RIPK2 (93304 upstream) : OSGIN2 (17501 downstream)																							GTAtttattcttttttttttt	0.134													4	2	---	---	---	---	
LAPTM4B	55353	broad.mit.edu	37	8	98829674	98829675	+	Intron	DEL	TT	-	-			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:98829674_98829675delTT	uc003yia.2	+						LAPTM4B_uc010mbg.2_Intron	NM_018407	NP_060877	Q86VI4	LAP4B_HUMAN	lysosomal associated transmembrane protein 4						transport	endomembrane system|integral to membrane	protein binding			skin(1)	1	Breast(36;1.59e-06)		OV - Ovarian serous cystadenocarcinoma(57;0.149)			ccAACTTTACtttttttttttt	0.010													5	3	---	---	---	---	
LAPTM4B	55353	broad.mit.edu	37	8	98830464	98830464	+	Intron	DEL	G	-	-			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:98830464delG	uc003yia.2	+						LAPTM4B_uc010mbg.2_Intron	NM_018407	NP_060877	Q86VI4	LAP4B_HUMAN	lysosomal associated transmembrane protein 4						transport	endomembrane system|integral to membrane	protein binding			skin(1)	1	Breast(36;1.59e-06)		OV - Ovarian serous cystadenocarcinoma(57;0.149)			TGTTCACCCTGGTGAGCAGGA	0.413													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	8	103795178	103795179	+	IGR	DEL	TG	-	-	rs35867642		TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:103795178_103795179delTG								KLF10 (127195 upstream) : AZIN1 (43358 downstream)																							CAGGGGACTCTGTGCTGGGCTG	0.475													5	5	---	---	---	---	
Unknown	0	broad.mit.edu	37	8	106087280	106087281	+	IGR	INS	-	TCCTCC	TCCTCC	rs141914796	by1000genomes	TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:106087280_106087281insTCCTCC								LRP12 (486060 upstream) : ZFPM2 (243866 downstream)																							ccttctccttttcctcctcctc	0.000													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	8	108540182	108540182	+	IGR	DEL	T	-	-	rs5893869		TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:108540182delT								ANGPT1 (29928 upstream) : RSPO2 (371363 downstream)																							ttttgttttgttttttttttt	0.104													4	3	---	---	---	---	
Unknown	0	broad.mit.edu	37	8	111807211	111807211	+	IGR	DEL	A	-	-	rs78598301		TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:111807211delA								KCNV1 (819135 upstream) : None (None downstream)																							actccttctcaaaaaaaaaaa	0.015													4	3	---	---	---	---	
Unknown	0	broad.mit.edu	37	8	122988117	122988117	+	Intron	DEL	T	-	-	rs112117847		TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:122988117delT	uc003ypj.2	-											Homo sapiens, clone IMAGE:5466006, mRNA.																		GATGATGGCATTTTTTTGTCC	0.433													5	4	---	---	---	---	
ZHX2	22882	broad.mit.edu	37	8	123804106	123804106	+	Intron	DEL	A	-	-	rs149638092		TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:123804106delA	uc003ypk.1	+							NM_014943	NP_055758	Q9Y6X8	ZHX2_HUMAN	zinc fingers and homeoboxes 2							cytoplasm|nucleus|plasma membrane	protein binding|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(1)|skin(1)	2	Lung NSC(37;2e-09)|Ovarian(258;0.0205)|Hepatocellular(40;0.105)		STAD - Stomach adenocarcinoma(47;0.00527)			tccatctcataaaaaaaaaaa	0.134													4	3	---	---	---	---	
MTSS1	9788	broad.mit.edu	37	8	125601273	125601274	+	Intron	INS	-	T	T			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:125601273_125601274insT	uc003yrk.2	-						MTSS1_uc003yrj.2_Intron|MTSS1_uc003yrl.2_Intron	NM_014751	NP_055566	O43312	MTSS1_HUMAN	metastasis suppressor 1						actin cytoskeleton organization|cell adhesion|cellular component movement|filopodium assembly|transmembrane receptor protein tyrosine kinase signaling pathway	actin cytoskeleton|endocytic vesicle|ruffle	actin monomer binding|cytoskeletal adaptor activity|receptor binding|SH3 domain binding			ovary(1)	1	Ovarian(258;0.00438)|all_neural(195;0.00459)|Hepatocellular(40;0.108)		STAD - Stomach adenocarcinoma(47;0.00288)			tcttctttttctttttttttgt	0.005													4	2	---	---	---	---	
MTSS1	9788	broad.mit.edu	37	8	125733539	125733540	+	Intron	INS	-	A	A			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:125733539_125733540insA	uc003yrk.2	-						MTSS1_uc003yrj.2_Intron|MTSS1_uc003yrl.2_Intron	NM_014751	NP_055566	O43312	MTSS1_HUMAN	metastasis suppressor 1						actin cytoskeleton organization|cell adhesion|cellular component movement|filopodium assembly|transmembrane receptor protein tyrosine kinase signaling pathway	actin cytoskeleton|endocytic vesicle|ruffle	actin monomer binding|cytoskeletal adaptor activity|receptor binding|SH3 domain binding			ovary(1)	1	Ovarian(258;0.00438)|all_neural(195;0.00459)|Hepatocellular(40;0.108)		STAD - Stomach adenocarcinoma(47;0.00288)			tccatcatcgcaaaaaAAAAAA	0.124													5	3	---	---	---	---	
Unknown	0	broad.mit.edu	37	8	127536646	127536646	+	IGR	DEL	A	-	-	rs35874399		TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:127536646delA								None (None upstream) : FAM84B (28041 downstream)																							tccatctcagaaaaaaaaaaa	0.030													2	4	---	---	---	---	
Unknown	0	broad.mit.edu	37	8	127629616	127629617	+	IGR	INS	-	T	T			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:127629616_127629617insT								FAM84B (59150 upstream) : LOC727677 (672445 downstream)																							AGTGGTTCTCATTTTTTTTTTT	0.391													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	8	128762282	128762283	+	IGR	INS	-	TTCT	TTCT	rs150484845	by1000genomes	TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:128762282_128762283insTTCT								MYC (8604 upstream) : PVT1 (44496 downstream)																							ttctttctttattctttctttc	0.094													4	3	---	---	---	---	
Unknown	0	broad.mit.edu	37	8	132094700	132094701	+	IGR	DEL	CC	-	-			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:132094700_132094701delCC								ADCY8 (41865 upstream) : EFR3A (821658 downstream)																							taccatttgacccagccatccc	0.000													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	8	132232170	132232171	+	IGR	INS	-	CA	CA	rs71306309		TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:132232170_132232171insCA								ADCY8 (179335 upstream) : EFR3A (684188 downstream)																							ATGTGTGcacgcgcacacacac	0.342													4	2	---	---	---	---	
KCNQ3	3786	broad.mit.edu	37	8	133467531	133467531	+	Intron	DEL	C	-	-			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:133467531delC	uc003ytj.2	-						KCNQ3_uc010mdt.2_Intron	NM_004519	NP_004510	O43525	KCNQ3_HUMAN	potassium voltage-gated channel KQT-like protein						axon guidance|synaptic transmission	voltage-gated potassium channel complex	voltage-gated potassium channel activity			ovary(2)|breast(1)|central_nervous_system(1)|skin(1)	5	Esophageal squamous(12;0.00507)|Ovarian(258;0.00579)|Acute lymphoblastic leukemia(118;0.155)		BRCA - Breast invasive adenocarcinoma(115;0.000311)			tatttgtatacttagtagaga	0.000													4	2	---	---	---	---	
TG	7038	broad.mit.edu	37	8	133951917	133951918	+	Intron	INS	-	TTTG	TTTG	rs75824456	by1000genomes	TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:133951917_133951918insTTTG	uc003ytw.2	+						TG_uc010mdw.2_Intron|TG_uc011ljb.1_Intron	NM_003235	NP_003226	P01266	THYG_HUMAN	thyroglobulin precursor						hormone biosynthetic process|signal transduction|thyroid gland development|thyroid hormone generation	extracellular space	hormone activity			ovary(8)|breast(4)|pancreas(1)|central_nervous_system(1)|skin(1)	15	Ovarian(258;0.00438)|Acute lymphoblastic leukemia(118;0.155)	Myeloproliferative disorder(644;0.00878)|Acute lymphoblastic leukemia(644;0.0559)|Breast(495;0.0735)	BRCA - Breast invasive adenocarcinoma(115;0.000701)	KIRC - Kidney renal clear cell carcinoma(542;0.0546)		GGTtttttttttttgtttgttt	0.188													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	8	134314038	134314040	+	IGR	DEL	CAT	-	-	rs142744493		TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:134314038_134314040delCAT								NDRG1 (4491 upstream) : ST3GAL1 (153051 downstream)																							tcatcatcaccatcatcatcatc	0.020													3	3	---	---	---	---	
Unknown	0	broad.mit.edu	37	8	134429877	134429877	+	IGR	DEL	A	-	-	rs66818076		TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:134429877delA								NDRG1 (120330 upstream) : ST3GAL1 (37214 downstream)																							aaaaaaaaataaaaaaataaa	0.179													2	4	---	---	---	---	
Unknown	0	broad.mit.edu	37	8	135031416	135031417	+	IGR	INS	-	G	G	rs142490445	by1000genomes	TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:135031416_135031417insG								ST3GAL1 (447233 upstream) : ZFAT (458616 downstream)																							AAGACACTGATGGGAAATTACA	0.386													4	6	---	---	---	---	
ZFAT	57623	broad.mit.edu	37	8	135591672	135591672	+	Intron	DEL	A	-	-			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:135591672delA	uc003yup.2	-						ZFAT_uc003yun.2_Intron|ZFAT_uc003yuo.2_Intron|ZFAT_uc010meh.2_Intron|ZFAT_uc010mei.2_Intron|ZFAT_uc003yuq.2_Intron|ZFAT_uc010mej.2_Intron	NM_020863	NP_065914	Q9P243	ZFAT_HUMAN	zinc finger protein 406 isoform ZFAT-1						regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytosol|nucleus	DNA binding|zinc ion binding			central_nervous_system(1)	1	all_epithelial(106;8.26e-19)|Lung NSC(106;3.47e-07)|all_lung(105;1.39e-06)|Ovarian(258;0.0102)|Acute lymphoblastic leukemia(118;0.155)		BRCA - Breast invasive adenocarcinoma(115;0.0432)			gagaaaggggaaaccccttat	0.000													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	8	136010558	136010558	+	IGR	DEL	T	-	-			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:136010558delT								MIR30D (193370 upstream) : LOC286094 (235816 downstream)																							GGTGGTTTGCTTTTGCCTTAA	0.373													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	8	137542019	137542020	+	IGR	INS	-	TT	TT	rs146317701	by1000genomes	TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:137542019_137542020insTT								KHDRBS3 (882173 upstream) : None (None downstream)																							TCCTTAGTGGATTTTTTTTTTG	0.292													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	8	137542051	137542053	+	IGR	DEL	AGA	-	-			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:137542051_137542053delAGA								KHDRBS3 (882205 upstream) : None (None downstream)																							CATGGAAAAGAGAAGGAGGTGAA	0.345													5	4	---	---	---	---	
Unknown	0	broad.mit.edu	37	8	138101918	138101918	+	IGR	DEL	G	-	-			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:138101918delG								None (None upstream) : None (None downstream)																							tcgcaccactgcactccagcc	0.134													2	7	---	---	---	---	
Unknown	0	broad.mit.edu	37	8	138294852	138294863	+	IGR	DEL	CCATCTTCCCCA	-	-	rs4609228	by1000genomes	TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:138294852_138294863delCCATCTTCCCCA								None (None upstream) : FAM135B (847405 downstream)																							atcttccccgccatcttccccaccatcttccc	0.000													3	7	---	---	---	---	
Unknown	0	broad.mit.edu	37	8	138964499	138964499	+	IGR	DEL	T	-	-	rs34854130		TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:138964499delT								None (None upstream) : FAM135B (177769 downstream)																							ttctatcgtcttttttttttt	0.040													4	4	---	---	---	---	
FAM135B	51059	broad.mit.edu	37	8	139207877	139207878	+	Intron	DEL	AC	-	-	rs34987954		TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:139207877_139207878delAC	uc003yuy.2	-						FAM135B_uc003yux.2_Intron|FAM135B_uc003yuz.2_Intron	NM_015912	NP_056996	Q49AJ0	F135B_HUMAN	hypothetical protein LOC51059											ovary(7)|skin(2)	9	all_epithelial(106;8.29e-14)|Lung NSC(106;6.88e-06)|all_lung(105;1.44e-05)|Ovarian(258;0.00672)|Acute lymphoblastic leukemia(118;0.155)		BRCA - Breast invasive adenocarcinoma(115;0.0805)			TTTTGCAGGTacacacacacac	0.312										HNSCC(54;0.14)			4	2	---	---	---	---	
FAM135B	51059	broad.mit.edu	37	8	139359350	139359353	+	Intron	DEL	GAAT	-	-	rs143494888		TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:139359350_139359353delGAAT	uc003yuy.2	-						FAM135B_uc003yux.2_Intron|FAM135B_uc003yuz.2_Intron	NM_015912	NP_056996	Q49AJ0	F135B_HUMAN	hypothetical protein LOC51059											ovary(7)|skin(2)	9	all_epithelial(106;8.29e-14)|Lung NSC(106;6.88e-06)|all_lung(105;1.44e-05)|Ovarian(258;0.00672)|Acute lymphoblastic leukemia(118;0.155)		BRCA - Breast invasive adenocarcinoma(115;0.0805)			acaaaaggaagaatgaatgaatga	0.294										HNSCC(54;0.14)			5	3	---	---	---	---	
TRAPPC9	83696	broad.mit.edu	37	8	141052303	141052306	+	Intron	DEL	TGTG	-	-	rs72178670		TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:141052303_141052306delTGTG	uc003yvj.2	-						TRAPPC9_uc003yvh.2_Intron|TRAPPC9_uc010mel.1_Intron|TRAPPC9_uc003yvi.1_Intron	NM_001160372	NP_001153844	Q96Q05	TPPC9_HUMAN	trafficking protein particle complex 9 isoform						cell differentiation	endoplasmic reticulum|Golgi apparatus				skin(2)	2						aaaaagtgtatgtgtgtgtgtgtg	0.005													2	4	---	---	---	---	
TRAPPC9	83696	broad.mit.edu	37	8	141154979	141154979	+	Intron	DEL	T	-	-			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:141154979delT	uc003yvj.2	-						TRAPPC9_uc003yvh.2_Intron|TRAPPC9_uc010mel.1_Intron|TRAPPC9_uc003yvi.1_Intron	NM_001160372	NP_001153844	Q96Q05	TPPC9_HUMAN	trafficking protein particle complex 9 isoform						cell differentiation	endoplasmic reticulum|Golgi apparatus				skin(2)	2						tttctctgtcttttttttttc	0.000													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	8	143516278	143516279	+	IGR	INS	-	CT	CT	rs148345493	by1000genomes	TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:143516278_143516279insCT								TSNARE1 (31735 upstream) : BAI1 (29098 downstream)																							tcacacatccattcacacacac	0.005													4	5	---	---	---	---	
BAI1	575	broad.mit.edu	37	8	143601067	143601069	+	Intron	DEL	TGG	-	-	rs35152834		TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:143601067_143601069delTGG	uc003ywm.2	+							NM_001702	NP_001693	O14514	BAI1_HUMAN	brain-specific angiogenesis inhibitor 1						axonogenesis|cell adhesion|negative regulation of angiogenesis|negative regulation of cell proliferation|neuropeptide signaling pathway|peripheral nervous system development	cell-cell junction|integral to plasma membrane	G-protein coupled receptor activity|protein binding			lung(3)|ovary(2)|breast(1)|central_nervous_system(1)|pancreas(1)	8	all_cancers(97;2.84e-12)|all_epithelial(106;5.91e-09)|Lung NSC(106;0.000322)|all_lung(105;0.000616)|Medulloblastoma(13;0.00276)|all_neural(13;0.00559)|Ovarian(258;0.0315)|Acute lymphoblastic leukemia(118;0.155)					gtgatggtgttggtggtgctggt	0.000													7	4	---	---	---	---	
Unknown	0	broad.mit.edu	37	8	144712190	144712197	+	IGR	DEL	ACACACAC	-	-	rs138590160		TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:144712190_144712197delACACACAC								TSTA3 (12458 upstream) : ZNF623 (5993 downstream)																							aaacaaaaCAacacacacacacacacac	0.101													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	8	145179838	145179839	+	IGR	DEL	AA	-	-			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:145179838_145179839delAA								KIAA1875 (6620 upstream) : C8orf30A (12833 downstream)																							actctgcctcaaaaaaaaaaga	0.000													4	2	---	---	---	---	
DOCK8	81704	broad.mit.edu	37	9	299507	299507	+	Intron	DEL	C	-	-			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr9:299507delC	uc003zgf.2	+						DOCK8_uc011lls.1_Intron|DOCK8_uc010mgu.2_Intron|DOCK8_uc010mgv.2_Intron|DOCK8_uc010mgt.2_Intron|DOCK8_uc003zgg.2_Intron|DOCK8_uc003zgh.2_Intron	NM_203447	NP_982272	Q8NF50	DOCK8_HUMAN	dedicator of cytokinesis 8						blood coagulation	cytosol	GTP binding|GTPase binding|guanyl-nucleotide exchange factor activity			ovary(3)|central_nervous_system(3)	6		all_cancers(5;2.13e-17)|all_epithelial(5;2.15e-12)|all_lung(10;6.69e-11)|Lung NSC(10;1.08e-10)|Acute lymphoblastic leukemia(5;0.000242)|all_hematologic(5;0.00317)|Breast(48;0.0151)|Prostate(43;0.128)		all cancers(5;9.3e-07)|GBM - Glioblastoma multiforme(5;2.41e-06)|Epithelial(6;0.00557)|Lung(218;0.00942)		aagtggtgctcccgccttggc	0.065													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	9	1326844	1326844	+	IGR	DEL	A	-	-			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr9:1326844delA								DMRT2 (269291 upstream) : SMARCA2 (688498 downstream)																							ctgccaccatacctggctaat	0.000													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	9	1461337	1461338	+	IGR	INS	-	CT	CT			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr9:1461337_1461338insCT								DMRT2 (403784 upstream) : SMARCA2 (554004 downstream)																							TCAAGGTGTGACTCTCTCCTCC	0.520													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	9	1621928	1621928	+	IGR	DEL	T	-	-			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr9:1621928delT								DMRT2 (564375 upstream) : SMARCA2 (393414 downstream)																							AGAGGTCATATTAGACTTGTA	0.100													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	9	2992572	2992573	+	IGR	INS	-	A	A	rs113615381		TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr9:2992572_2992573insA								KIAA0020 (148442 upstream) : RFX3 (232076 downstream)																							GGAAAGAAGACAAAAAAAAAAA	0.317													7	6	---	---	---	---	
MPDZ	8777	broad.mit.edu	37	9	13279882	13279882	+	5'Flank	DEL	A	-	-			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr9:13279882delA	uc003zlb.3	-							NM_003829	NP_003820	O75970	MPDZ_HUMAN	multiple PDZ domain protein						interspecies interaction between organisms	apical plasma membrane|dendrite|postsynaptic density|postsynaptic membrane|synaptosome|tight junction	protein C-terminus binding			ovary(5)|central_nervous_system(1)	6				GBM - Glioblastoma multiforme(50;2.03e-06)		aatttcaaataaaaaaaaaaa	0.154													3	3	---	---	---	---	
MOBKL2B	79817	broad.mit.edu	37	9	27524149	27524151	+	Intron	DEL	AAA	-	-	rs3081119		TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr9:27524149_27524151delAAA	uc003zqn.2	-						IFNK_uc003zqp.2_5'Flank	NM_024761	NP_079037	Q86TA1	MOL2B_HUMAN	MOB1, Mps One Binder kinase activator-like 2B								metal ion binding|protein binding			ovary(1)|pleura(1)	2		all_neural(11;9.12e-11)		Lung(218;6.54e-05)|LUSC - Lung squamous cell carcinoma(38;0.000397)		CACCCGAAGTaaaaaaaaaaaaa	0.379													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	9	32740905	32740905	+	IGR	DEL	T	-	-			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr9:32740905delT								TAF1L (105238 upstream) : TMEM215 (42592 downstream)																							AAAATGCCTCttttttttttt	0.264													4	3	---	---	---	---	
BAG1	573	broad.mit.edu	37	9	33259360	33259360	+	Intron	DEL	A	-	-			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr9:33259360delA	uc003zsj.2	-						SUGT1P1_uc010mjq.1_Intron|BAG1_uc003zsi.2_Intron|BAG1_uc003zsk.2_Intron	NM_004323	NP_004314	Q99933	BAG1_HUMAN	BCL2-associated athanogene isoform 1L						anti-apoptosis|apoptosis|cell surface receptor linked signaling pathway|chaperone cofactor-dependent protein refolding	cytoplasm|intermediate filament cytoskeleton|nucleus	protein binding|receptor signaling protein activity			ovary(1)	1			LUSC - Lung squamous cell carcinoma(29;0.00506)			agactgtctcaaaaaaaaaaa	0.174													4	2	---	---	---	---	
IL11RA	3590	broad.mit.edu	37	9	34654992	34654993	+	Intron	DEL	GT	-	-	rs3840738		TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr9:34654992_34654993delGT	uc003zvi.2	+						IL11RA_uc011loq.1_Intron|IL11RA_uc003zvj.2_Intron|IL11RA_uc003zvk.2_Intron|IL11RA_uc010mke.2_Intron|IL11RA_uc003zvl.2_Intron	NM_004512	NP_004503	Q14626	I11RA_HUMAN	interleukin 11 receptor, alpha isoform 1							integral to plasma membrane	cytokine receptor activity			skin(1)	1	all_epithelial(49;0.102)		STAD - Stomach adenocarcinoma(86;0.178)	GBM - Glioblastoma multiforme(74;0.174)	Oprelvekin(DB00038)	gtgtgtgtccgtgtgtgtgtgt	0.485													3	3	---	---	---	---	
Unknown	0	broad.mit.edu	37	9	37437684	37437684	+	IGR	DEL	T	-	-	rs148167428		TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr9:37437684delT								GRHPR (698 upstream) : ZBTB5 (418 downstream)																							CCCAGGTGGATTTTTTTTTTT	0.478													3	3	---	---	---	---	
Unknown	0	broad.mit.edu	37	9	44109097	44109098	+	IGR	INS	-	A	A			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr9:44109097_44109098insA								FAM75A6 (478367 upstream) : FAM27C (881138 downstream)																							ATAAAGGTCTCAAAAATCCAGA	0.347													3	3	---	---	---	---	
Unknown	0	broad.mit.edu	37	9	45714208	45714212	+	IGR	DEL	TTACT	-	-			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr9:45714208_45714212delTTACT								FAM27C (722717 upstream) : FAM27A (12817 downstream)																							gaataggacattactttattaattc	0.029													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	9	66491787	66491788	+	IGR	INS	-	A	A	rs145157912	by1000genomes	TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr9:66491787_66491788insA								FAM74A4 (997401 upstream) : LOC442421 (4682 downstream)																							aaattagaaataaaaaacagaa	0.000													6	3	---	---	---	---	
Unknown	0	broad.mit.edu	37	9	68344276	68344279	+	IGR	DEL	AAGG	-	-			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr9:68344276_68344279delAAGG								FAM27B (550087 upstream) : MIR1299 (657960 downstream)																							agttacaataaaggaaggaaggaa	0.093													4	3	---	---	---	---	
Unknown	0	broad.mit.edu	37	9	69959332	69959332	+	IGR	DEL	T	-	-	rs141275947		TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr9:69959332delT								LOC100133920 (294383 upstream) : FOXD4L5 (216377 downstream)																							aggaaatatcttcacataaaa	0.000													4	4	---	---	---	---	
Unknown	0	broad.mit.edu	37	9	79664516	79664517	+	IGR	INS	-	A	A			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr9:79664516_79664517insA								FOXB2 (28647 upstream) : VPS13A (127844 downstream)																							gactccatctcaaaaaaaaaaa	0.129													2	4	---	---	---	---	
VPS13A	23230	broad.mit.edu	37	9	79983004	79983004	+	Frame_Shift_Del	DEL	T	-	-			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr9:79983004delT	uc004akr.2	+	62	8765	c.8505delT	c.(8503-8505)CATfs	p.H2835fs	VPS13A_uc004akp.3_Frame_Shift_Del_p.H2835fs|VPS13A_uc004akq.3_Frame_Shift_Del_p.H2835fs|VPS13A_uc004aks.2_Frame_Shift_Del_p.H2796fs	NM_033305	NP_150648	Q96RL7	VP13A_HUMAN	vacuolar protein sorting 13A isoform A	2835					Golgi to endosome transport|protein transport	intracellular	protein binding			pancreas(3)|skin(3)|ovary(2)|large_intestine(1)|central_nervous_system(1)	10						ATCAGTTCCATACAACATCCG	0.323													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	9	86994614	86994614	+	IGR	DEL	T	-	-	rs141008361		TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr9:86994614delT								SLC28A3 (11201 upstream) : NTRK2 (288852 downstream)																							ctttcCTGTATTTTTTGACAT	0.229													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	9	88014472	88014473	+	IGR	DEL	CT	-	-			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr9:88014472_88014473delCT								NTRK2 (375967 upstream) : AGTPBP1 (146982 downstream)																							CTGAATTTTGCTCTCTCACCAA	0.312													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	9	89871940	89871947	+	Intron	DEL	GAATGAAT	-	-	rs111970039		TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr9:89871940_89871947delGAATGAAT	uc004apb.1	-											Homo sapiens cDNA clone IMAGE:30346008.																		atgaatgaaagaatgaatgaatgaatga	0.264													3	6	---	---	---	---	
DAPK1	1612	broad.mit.edu	37	9	90221608	90221611	+	Intron	DEL	TCCT	-	-			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr9:90221608_90221611delTCCT	uc004apc.2	+						DAPK1_uc004ape.2_Intron|DAPK1_uc004apd.2_Intron|DAPK1_uc011ltg.1_Intron|DAPK1_uc011lth.1_Intron	NM_004938	NP_004929	P53355	DAPK1_HUMAN	death-associated protein kinase 1						apoptosis|induction of apoptosis by extracellular signals|intracellular protein kinase cascade	actin cytoskeleton|cytoplasm	ATP binding|calmodulin binding|protein serine/threonine kinase activity			ovary(1)|breast(1)	2						cctccctctctccttccttccttc	0.000									Chronic_Lymphocytic_Leukemia_Familial_Clustering_of				4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	9	90473078	90473078	+	IGR	DEL	T	-	-			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr9:90473078delT								CTSL3 (71279 upstream) : C9orf79 (24663 downstream)																							GTCCTTCCCCTTGGGAAGCCT	0.557													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	9	90571093	90571093	+	IGR	DEL	C	-	-			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr9:90571093delC								FAM75C1 (32522 upstream) : CDK20 (10268 downstream)																							ATATTCCAAACCACAGGAGAA	0.308													3	3	---	---	---	---	
PHF2	5253	broad.mit.edu	37	9	96412423	96412424	+	Intron	INS	-	AG	AG	rs148949458	by1000genomes	TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr9:96412423_96412424insAG	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)		ctcaccaacacggtacactcac	0.000													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	9	101936799	101936800	+	IGR	INS	-	A	A	rs146016335	by1000genomes	TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr9:101936799_101936800insA								TGFBR1 (20328 upstream) : ALG2 (41908 downstream)																							atgatttccagaaaaaaaaaat	0.178													4	2	---	---	---	---	
SUSD1	64420	broad.mit.edu	37	9	114929033	114929033	+	Intron	DEL	C	-	-			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr9:114929033delC	uc004bfu.2	-						SUSD1_uc010mui.2_Intron|SUSD1_uc010muj.2_Intron	NM_022486	NP_071931	Q6UWL2	SUSD1_HUMAN	sushi domain containing 1 precursor							integral to membrane	calcium ion binding				0						CTGTCGTCAGCATACTCAGGG	0.552													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	9	117436864	117436865	+	IGR	INS	-	TCTC	TCTC	rs149976718	by1000genomes	TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr9:117436864_117436865insTCTC								C9orf91 (28168 upstream) : TNFSF15 (114748 downstream)																							ctttctttttttctcttttctc	0.005													2	5	---	---	---	---	
ASTN2	23245	broad.mit.edu	37	9	119297809	119297809	+	Intron	DEL	A	-	-			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr9:119297809delA	uc004bjs.1	-						ASTN2_uc004bjr.1_Intron|ASTN2_uc004bjt.1_Intron|ASTN2_uc004bjp.1_Intron|ASTN2_uc004bjq.1_Intron|ASTN2_uc011lxr.1_Intron|ASTN2_uc011lxs.1_Intron|ASTN2_uc011lxt.1_Intron|uc004bju.1_Intron	NM_198187	NP_937830	O75129	ASTN2_HUMAN	astrotactin 2 isoform c							integral to membrane				skin(4)|ovary(3)|breast(1)|kidney(1)	9						ttccttcaggagctcttgtag	0.000													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	9	122341399	122341400	+	IGR	DEL	TG	-	-			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr9:122341399_122341400delTG								DBC1 (209660 upstream) : MIR147 (665857 downstream)																							TGTATGTGCATGTGTGTGTGTG	0.351													4	2	---	---	---	---	
FAM129B	64855	broad.mit.edu	37	9	130293770	130293770	+	Intron	DEL	A	-	-	rs5900751		TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr9:130293770delA	uc004brh.2	-						FAM129B_uc004bri.2_Intron|FAM129B_uc004brj.3_Intron	NM_022833	NP_073744	Q96TA1	NIBL1_HUMAN	hypothetical protein LOC64855 isoform 1								protein binding				0						ctcaaaaaagaaaaaaataat	0.000													2	4	---	---	---	---	
Unknown	0	broad.mit.edu	37	9	134197196	134197196	+	IGR	DEL	T	-	-			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr9:134197196delT								PPAPDC3 (12547 upstream) : BAT2L1 (72404 downstream)																							AAGTCATTGCTTTTTTTTTTT	0.244													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	9	136479997	136479997	+	IGR	DEL	G	-	-			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr9:136479997delG								FAM163B (34652 upstream) : DBH (21488 downstream)																							AGGAGGAGGAGGGCGTGGGAG	0.557													4	2	---	---	---	---	
KCNT1	57582	broad.mit.edu	37	9	138617035	138617035	+	Intron	DEL	G	-	-	rs66583995		TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr9:138617035delG	uc011mdq.1	+						KCNT1_uc011mdr.1_Intron|KCNT1_uc010nbf.2_Intron	NM_020822	NP_065873	Q5JUK3	KCNT1_HUMAN	potassium channel, subfamily T, member 1							membrane	binding|calcium-activated potassium channel activity			large_intestine(2)|ovary(1)|pancreas(1)	4		Myeloproliferative disorder(178;0.0821)		OV - Ovarian serous cystadenocarcinoma(145;2.11e-07)|Epithelial(140;1.57e-06)|all cancers(34;9.22e-05)		cacagcTGCCGGGGGGGACCT	0.259													1	5	---	---	---	---	
CAMSAP1	157922	broad.mit.edu	37	9	138729959	138729960	+	Intron	DEL	AG	-	-	rs112789894		TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr9:138729959_138729960delAG	uc004cgr.3	-						CAMSAP1_uc004cgq.3_Intron|CAMSAP1_uc010nbg.2_Intron	NM_015447	NP_056262	Q5T5Y3	CAMP1_HUMAN	calmodulin regulated spectrin-associated protein							cytoplasm|microtubule				ovary(1)|central_nervous_system(1)|pancreas(1)	3				OV - Ovarian serous cystadenocarcinoma(145;1.4e-06)|Epithelial(140;1.11e-05)		CCCATTCTACAGACACGTCATC	0.510													3	3	---	---	---	---	
SNAPC4	6621	broad.mit.edu	37	9	139283996	139283997	+	Intron	INS	-	G	G	rs144724539	by1000genomes	TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr9:139283996_139283997insG	uc004chh.2	-							NM_003086	NP_003077	Q5SXM2	SNPC4_HUMAN	small nuclear RNA activating complex,						snRNA transcription from RNA polymerase II promoter|snRNA transcription from RNA polymerase III promoter	snRNA-activating protein complex	DNA binding|sequence-specific DNA binding transcription factor activity				0		Myeloproliferative disorder(178;0.0511)		OV - Ovarian serous cystadenocarcinoma(145;5.31e-06)|Epithelial(140;7.13e-06)		ACCACCACCCCGGGGTGTGCAA	0.554													2	4	---	---	---	---	
ADARB2	105	broad.mit.edu	37	10	1488513	1488513	+	Intron	DEL	C	-	-	rs67447948		TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:1488513delC	uc009xhq.2	-							NM_018702	NP_061172	Q9NS39	RED2_HUMAN	adenosine deaminase, RNA-specific, B2						mRNA processing	mitochondrion|nucleus	adenosine deaminase activity|double-stranded RNA binding|metal ion binding|single-stranded RNA binding			large_intestine(2)|central_nervous_system(1)	3		all_epithelial(10;0.059)|Colorectal(49;0.0815)		all cancers(11;0.0224)|GBM - Glioblastoma multiforme(2;0.0414)|Epithelial(11;0.165)		CCAAATGGTACCCCCAATACA	0.085													3	3	---	---	---	---	
Unknown	0	broad.mit.edu	37	10	5889481	5889481	+	IGR	DEL	T	-	-			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:5889481delT								GDI2 (33969 upstream) : ANKRD16 (14210 downstream)																							gcctggcaaattttttttttt	0.000													3	4	---	---	---	---	
FRMD4A	55691	broad.mit.edu	37	10	14176582	14176585	+	Intron	DEL	GATG	-	-			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:14176582_14176585delGATG	uc001ims.2	-						FRMD4A_uc009xjf.1_Intron|FRMD4A_uc001imv.2_Intron	NM_018027	NP_060497	Q9P2Q2	FRM4A_HUMAN	FERM domain containing 4A							cytoplasm|cytoskeleton	binding			ovary(1)|skin(1)|pancreas(1)	3						taggtgggtagatggatggatggg	0.029													4	2	---	---	---	---	
KIAA1217	56243	broad.mit.edu	37	10	24216254	24216255	+	Intron	INS	-	GTGT	GTGT	rs145721674	by1000genomes	TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:24216254_24216255insGTGT	uc001irs.2	+							NM_001098500	NP_001091970	Q5T5P2	SKT_HUMAN	sickle tail isoform 2						embryonic skeletal system development	cytoplasm				ovary(5)|skin(2)	7						CAAGTCATAGGgtgtgtgtgtg	0.282													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	10	26896140	26896141	+	IGR	INS	-	A	A			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:26896140_26896141insA								C10orf50 (12891 upstream) : LOC731789 (35896 downstream)																							TTGCTCTTTTGAAAAAAAAAAT	0.416													4	2	---	---	---	---	
PARD3	56288	broad.mit.edu	37	10	34964519	34964520	+	Intron	INS	-	T	T	rs112555249		TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:34964519_34964520insT	uc010qej.1	-						PARD3_uc010qek.1_Intron|PARD3_uc010qel.1_Intron|PARD3_uc010qem.1_Intron|PARD3_uc010qen.1_Intron|PARD3_uc010qeo.1_Intron|PARD3_uc010qep.1_Intron|PARD3_uc010qeq.1_Intron|PARD3_uc001ixq.1_Intron|PARD3_uc001ixr.1_Intron|PARD3_uc001ixu.1_Intron	NM_019619	NP_062565	Q8TEW0	PARD3_HUMAN	partitioning-defective protein 3 homolog						activation of protein kinase C activity by G-protein coupled receptor protein signaling pathway|asymmetric cell division|axonogenesis|cell cycle|establishment of epithelial cell polarity|protein complex assembly|protein targeting to membrane|tight junction assembly	cell cortex|cytoskeleton|cytosol|endomembrane system|tight junction	phosphatidylinositol-3,4,5-trisphosphate binding|phosphatidylinositol-3-phosphate binding|phosphatidylinositol-4,5-bisphosphate binding|protein binding			ovary(1)	1		Breast(68;0.0707)				AATACCCCAACTTTTTTTTTTT	0.332													4	2	---	---	---	---	
FZD8	8325	broad.mit.edu	37	10	35930412	35930413	+	5'Flank	INS	-	G	G	rs142623421	by1000genomes	TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:35930412_35930413insG	uc001iyz.1	-							NM_031866	NP_114072	Q9H461	FZD8_HUMAN	frizzled 8 precursor						axonogenesis|brain development|canonical Wnt receptor signaling pathway|embryo development|gonad development|T cell differentiation in thymus|vasculature development	cell projection|Golgi apparatus|integral to membrane|plasma membrane	G-protein coupled receptor activity|PDZ domain binding|Wnt receptor activity|Wnt-protein binding				0						AGAGGGGTGCCGGGGGGGGGGC	0.703													4	5	---	---	---	---	
Unknown	0	broad.mit.edu	37	10	42412768	42412768	+	IGR	DEL	C	-	-	rs142638317	by1000genomes	TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:42412768delC								None (None upstream) : LOC441666 (414547 downstream)																							cagagttgaacctttcttttc	0.000													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	10	42661750	42661752	+	IGR	DEL	ATC	-	-			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:42661750_42661752delATC								None (None upstream) : LOC441666 (165563 downstream)																							atcgaatggaatcatcattgaat	0.000													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	10	42700107	42700108	+	IGR	INS	-	T	T			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:42700107_42700108insT								None (None upstream) : LOC441666 (127207 downstream)																							atgtgcttacgtatcatccatc	0.000													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	10	44162700	44162700	+	Intron	DEL	G	-	-			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:44162700delG	uc001jba.2	+											Homo sapiens chromosome 10 open reading frame 44, mRNA (cDNA clone IMAGE:4837462).																		CTTCAGCTGCGGCCCCTCCTC	0.502													4	2	---	---	---	---	
SYT15	83849	broad.mit.edu	37	10	46964697	46964697	+	Intron	DEL	G	-	-			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:46964697delG	uc001jea.2	-						SYT15_uc001jdz.2_Intron|SYT15_uc001jeb.2_Intron|SYT15_uc010qfp.1_Intron	NM_031912	NP_114118	Q9BQS2	SYT15_HUMAN	synaptotagmin XV isoform a							integral to membrane|plasma membrane					0						ggtggaggcaggcaggacagt	0.184													3	4	---	---	---	---	
ANXA8	653145	broad.mit.edu	37	10	47090315	47090316	+	Intron	INS	-	A	A	rs112966378		TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:47090315_47090316insA	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						ccagaatttgcatgataacatc	0.000													3	3	---	---	---	---	
ASAH2B	653308	broad.mit.edu	37	10	52497155	52497155	+	5'Flank	DEL	C	-	-			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:52497155delC	uc001jjg.2	+						ASAH2B_uc010qhm.1_5'Flank	NM_001079516	NP_001072984	Q9NR71	ASAH2_HUMAN	N-acylsphingosine amidohydrolase (non-lysosomal						apoptosis|ceramide metabolic process|signal transduction	integral to membrane|mitochondrion|plasma membrane	ceramidase activity				0						GAATAATAATCCACTATGAAG	0.313													4	2	---	---	---	---	
PRKG1	5592	broad.mit.edu	37	10	53633678	53633678	+	Intron	DEL	T	-	-			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:53633678delT	uc001jjm.2	+						PRKG1_uc001jjn.2_Intron|PRKG1_uc001jjo.2_Intron	NM_001098512	NP_001091982	Q13976	KGP1_HUMAN	protein kinase, cGMP-dependent, type I isoform						actin cytoskeleton organization|platelet activation|signal transduction	cytosol	ATP binding|cGMP binding|cGMP-dependent protein kinase activity			lung(2)|stomach(1)|ovary(1)|central_nervous_system(1)|skin(1)	6		all_cancers(4;2.13e-08)|all_epithelial(4;2.44e-08)|all_lung(4;0.000173)		all cancers(4;1.18e-05)|GBM - Glioblastoma multiforme(4;0.000359)|Epithelial(53;0.00532)|Lung(62;0.0606)		TTTATTTGCATTTTTTTTAAA	0.239													3	5	---	---	---	---	
RHOBTB1	9886	broad.mit.edu	37	10	62760838	62760839	+	Intron	DEL	GT	-	-			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:62760838_62760839delGT	uc001jlk.2	-						RHOBTB1_uc001jlj.2_5'Flank|RHOBTB1_uc001jlm.2_Intron	NM_014836	NP_055651	O94844	RHBT1_HUMAN	Rho-related BTB domain containing 1						regulation of small GTPase mediated signal transduction|small GTPase mediated signal transduction	cytosol|plasma membrane	GTP binding			upper_aerodigestive_tract(1)	1	Prostate(12;0.0112)					gcgcgcacgcgtgtgtgtgtgt	0.401													4	3	---	---	---	---	
Unknown	0	broad.mit.edu	37	10	66165893	66165894	+	IGR	DEL	TG	-	-	rs34579338		TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:66165893_66165894delTG								REEP3 (783922 upstream) : ANXA2P3 (419391 downstream)																							tgagtatatttgtgtgtgtgtg	0.000													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	10	67116753	67116754	+	IGR	DEL	TG	-	-	rs116863232		TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:67116753_67116754delTG								ANXA2P3 (530119 upstream) : CTNNA3 (562971 downstream)																							TGTTTTTTTTTGTGTGTGTGTG	0.228													4	2	---	---	---	---	
RUFY2	55680	broad.mit.edu	37	10	70135865	70135865	+	Intron	DEL	A	-	-			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:70135865delA	uc001job.2	-						RUFY2_uc001jnz.1_Intron|RUFY2_uc001joa.2_Intron	NM_017987	NP_060457	Q8WXA3	RUFY2_HUMAN	RUN and FYVE domain-containing 2 isoform a							nucleus	metal ion binding			ovary(1)	1						atctcgaaggaaaaaaaaaaa	0.025													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	10	72668560	72668561	+	IGR	INS	-	C	C	rs148370234	by1000genomes	TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:72668560_72668561insC								PCBD1 (20019 upstream) : UNC5B (303737 downstream)																							TCCACCGTCTGCCCCGCCGCCC	0.450													3	6	---	---	---	---	
Unknown	0	broad.mit.edu	37	10	79429063	79429064	+	IGR	DEL	AC	-	-			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:79429063_79429064delAC								KCNMA1 (31486 upstream) : DLG5 (121487 downstream)																							CATGcacacaacacacacacac	0.302													8	5	---	---	---	---	
Unknown	0	broad.mit.edu	37	10	79493686	79493689	+	IGR	DEL	AAGA	-	-			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:79493686_79493689delAAGA								KCNMA1 (96109 upstream) : DLG5 (56862 downstream)																							AGTGGAAACCAAGAAAGTGGCCAG	0.446													48	56	---	---	---	---	
Unknown	0	broad.mit.edu	37	10	80446466	80446467	+	IGR	INS	-	TGT	TGT			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:80446466_80446467insTGT								RPS24 (629896 upstream) : LOC283050 (256617 downstream)																							gagtaagaggatgtggaagggc	0.000													4	3	---	---	---	---	
ZMIZ1	57178	broad.mit.edu	37	10	81055591	81055591	+	Intron	DEL	A	-	-			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:81055591delA	uc001kaf.2	+						ZMIZ1_uc001kag.2_Intron|ZMIZ1_uc001kah.1_3'UTR	NM_020338	NP_065071	Q9ULJ6	ZMIZ1_HUMAN	retinoic acid induced 17						transcription, DNA-dependent	cytoplasm|nuclear speck	zinc ion binding			ovary(2)|breast(1)|skin(1)	4	all_cancers(46;0.0292)|Breast(12;8.52e-05)|all_epithelial(25;0.000854)|Prostate(51;0.00985)		Epithelial(14;0.00256)|all cancers(16;0.00726)|Colorectal(32;0.229)			CTGATTTTCCAGACAGGGAAG	0.368													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	10	81134164	81134165	+	IGR	DEL	AC	-	-			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:81134164_81134165delAC								PPIF (19080 upstream) : ZCCHC24 (7920 downstream)																							acacacacatacacacacacac	0.322													5	3	---	---	---	---	
FAM35A	54537	broad.mit.edu	37	10	88920744	88920745	+	Intron	INS	-	A	A	rs147632356		TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:88920744_88920745insA	uc001kei.3	+						FAM35A_uc001kej.3_Intron	NM_019054	NP_061927	Q86V20	FA35A_HUMAN	hypothetical protein LOC54537											ovary(2)|skin(2)	4						attcggtctccaaaaaaaaaaa	0.000													3	3	---	---	---	---	
FAM22D	728130	broad.mit.edu	37	10	89118409	89118409	+	Intron	DEL	A	-	-			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:89118409delA	uc001kes.2	+						FAM22D_uc009xte.1_Intron	NM_001009610	NP_001009610	Q5VT03	FA22D_HUMAN	hypothetical protein LOC728130												0						TGCCTGGGGGAATACACCGTG	0.532													2	4	---	---	---	---	
LOC100188947	100188947	broad.mit.edu	37	10	93139602	93139602	+	Intron	DEL	T	-	-			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:93139602delT	uc010qnl.1	-							NR_024467				Homo sapiens, clone IMAGE:6063621, mRNA.												0						gcatgagaactcagttgctat	0.000													4	2	---	---	---	---	
MYOF	26509	broad.mit.edu	37	10	95099125	95099126	+	Intron	DEL	TG	-	-	rs72175979		TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:95099125_95099126delTG	uc001kin.2	-						MYOF_uc001kio.2_Intron|MYOF_uc009xue.2_Intron	NM_013451	NP_038479	Q9NZM1	MYOF_HUMAN	myoferlin isoform a						blood circulation|muscle contraction|plasma membrane repair	caveola|cytoplasmic vesicle membrane|integral to membrane|nuclear membrane	phospholipid binding|protein binding			ovary(3)|breast(1)	4						GCTTCTTATTtgtgtgtgtgtg	0.173													5	3	---	---	---	---	
PDE6C	5146	broad.mit.edu	37	10	95415367	95415368	+	Intron	INS	-	A	A			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:95415367_95415368insA	uc001kiu.3	+							NM_006204	NP_006195	P51160	PDE6C_HUMAN	phosphodiesterase 6C						visual perception	plasma membrane	3',5'-cyclic-GMP phosphodiesterase activity|cGMP binding|metal ion binding			ovary(2)|kidney(1)|skin(1)	4		Colorectal(252;0.123)				AAAAGCAAGCCaaaaaaaaaaa	0.213													6	5	---	---	---	---	
PLCE1	51196	broad.mit.edu	37	10	96047225	96047226	+	Intron	DEL	AA	-	-			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:96047225_96047226delAA	uc001kjk.2	+						PLCE1_uc010qnx.1_Intron|PLCE1_uc001kjm.2_Intron|PLCE1_uc001kjp.2_Intron|uc001kjo.1_5'Flank	NM_016341	NP_057425	Q9P212	PLCE1_HUMAN	phospholipase C, epsilon 1 isoform 1						activation of MAPK activity|activation of phospholipase C activity by G-protein coupled receptor protein signaling pathway coupled to IP3 second messenger|activation of protein kinase C activity by G-protein coupled receptor protein signaling pathway|calcium-mediated signaling|cell proliferation|cytoskeleton organization|diacylglycerol biosynthetic process|elevation of cytosolic calcium ion concentration|epidermal growth factor receptor signaling pathway|glomerulus development|heart development|lipid catabolic process|Ras protein signal transduction|regulation of cell growth|regulation of G-protein coupled receptor protein signaling pathway|regulation of Ras protein signal transduction|regulation of smooth muscle contraction	cytosol|Golgi membrane|membrane fraction|plasma membrane	calcium ion binding|guanyl-nucleotide exchange factor activity|phosphatidylinositol phospholipase C activity|Ras GTPase binding|receptor signaling protein activity			ovary(2)|skin(1)	3		Colorectal(252;0.0458)				AGCCATATGCAAAAAAAAAAAA	0.257													4	3	---	---	---	---	
Unknown	0	broad.mit.edu	37	10	99796334	99796337	+	IGR	DEL	TGTG	-	-			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:99796334_99796337delTGTG								CRTAC1 (5749 upstream) : C10orf28 (98044 downstream)																							TAATTGAGCCTGTGTGTGTGTGCA	0.255													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	10	101297894	101297894	+	IGR	DEL	A	-	-			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:101297894delA								NKX2-3 (1616 upstream) : SLC25A28 (72381 downstream)																							gggaacggtgaaaaaaaaagt	0.065													4	2	---	---	---	---	
ABCC2	1244	broad.mit.edu	37	10	101571087	101571087	+	Intron	DEL	A	-	-	rs112044854		TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:101571087delA	uc001kqf.2	+							NM_000392	NP_000383	Q92887	MRP2_HUMAN	ATP-binding cassette, sub-family C (CFTR/MRP),							apical plasma membrane|integral to plasma membrane	ATP binding|ATPase activity, coupled to transmembrane movement of substances|organic anion transmembrane transporter activity			ovary(1)	1		Colorectal(252;0.234)		Epithelial(162;2.77e-10)|all cancers(201;2.47e-08)	Adenosine triphosphate(DB00171)|Norgestimate(DB00957)|Pravastatin(DB00175)|Saquinavir(DB01232)|Sulfinpyrazone(DB01138)	accatgactcaaaaaaaaaaa	0.214													5	3	---	---	---	---	
Unknown	0	broad.mit.edu	37	10	101630290	101630291	+	IGR	DEL	TT	-	-			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:101630290_101630291delTT								ABCC2 (18628 upstream) : DNMBP (5043 downstream)																							gatattgagctttttttttttt	0.000													4	2	---	---	---	---	
CHUK	1147	broad.mit.edu	37	10	101949591	101949592	+	Intron	INS	-	T	T			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:101949591_101949592insT	uc001kqp.2	-							NM_001278	NP_001269	O15111	IKKA_HUMAN	conserved helix-loop-helix ubiquitous kinase						I-kappaB phosphorylation|innate immune response|MyD88-dependent toll-like receptor signaling pathway|MyD88-independent toll-like receptor signaling pathway|nerve growth factor receptor signaling pathway|phosphatidylinositol-mediated signaling|positive regulation of I-kappaB kinase/NF-kappaB cascade|positive regulation of NF-kappaB transcription factor activity|T cell receptor signaling pathway|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	CD40 receptor complex|cytosol|internal side of plasma membrane|nucleus	ATP binding|identical protein binding|IkappaB kinase activity			ovary(2)|central_nervous_system(2)|large_intestine(1)|lung(1)|breast(1)	7		Colorectal(252;0.117)		Epithelial(162;2.05e-10)|all cancers(201;1.91e-08)		CTtttcttttcttttttttttt	0.089													4	2	---	---	---	---	
BLOC1S2	282991	broad.mit.edu	37	10	102034062	102034063	+	3'UTR	INS	-	AA	AA	rs145851817	by1000genomes	TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:102034062_102034063insAA	uc001kqw.1	-	5					BLOC1S2_uc001kqv.1_3'UTR	NM_173809	NP_776170	Q6QNY1	BL1S2_HUMAN	biogenesis of lysosome-related organelles						melanosome organization|microtubule nucleation|platelet dense granule organization|positive regulation of cell proliferation|positive regulation of transcription from RNA polymerase II promoter|positive regulation of transcription, DNA-dependent|regulation of apoptosis	BLOC-1 complex|centrosome|gamma-tubulin complex|nucleus	gamma-tubulin binding|identical protein binding|protein C-terminus binding			ovary(1)	1		Colorectal(252;0.117)		Epithelial(162;2.44e-10)|all cancers(201;1.97e-08)		ctagatttttcagaggccatga	0.010													3	6	---	---	---	---	
Unknown	0	broad.mit.edu	37	10	103583725	103583726	+	IGR	INS	-	T	T	rs4919597	by1000genomes	TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:103583725_103583726insT								MGEA5 (5025 upstream) : KCNIP2 (2006 downstream)																							CAAttctttggttttttttttc	0.129													4	2	---	---	---	---	
C10orf76	79591	broad.mit.edu	37	10	103693976	103693977	+	Intron	DEL	TG	-	-			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:103693976_103693977delTG	uc009xwy.1	-						C10orf76_uc009xwx.1_Intron	NM_024541	NP_078817	Q5T2E6	CJ076_HUMAN	hypothetical protein LOC79591							integral to membrane					0		Colorectal(252;0.123)		Epithelial(162;2.41e-08)|all cancers(201;6.41e-07)		CACTTAACCATGTGTGTGTGTG	0.455													4	2	---	---	---	---	
PSD	5662	broad.mit.edu	37	10	104177982	104177984	+	Intron	DEL	AAC	-	-	rs113779726		TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:104177982_104177984delAAC	uc001kvg.1	-						PSD_uc001kvh.1_Intron|PSD_uc009xxd.1_Intron|PSD_uc001kvi.1_Intron|FBXL15_uc001kvj.1_5'Flank|FBXL15_uc001kvk.2_5'Flank|FBXL15_uc001kvl.1_5'Flank	NM_002779	NP_002770	A5PKW4	PSD1_HUMAN	pleckstrin and Sec7 domain containing						regulation of ARF protein signal transduction	cytoplasm|plasma membrane|ruffle	ARF guanyl-nucleotide exchange factor activity|signal transducer activity			breast(2)|urinary_tract(1)	3				Epithelial(162;1.27e-08)|all cancers(201;2.85e-07)		TCACAGTCATAACAAGTATGTGT	0.355													3	5	---	---	---	---	
Unknown	0	broad.mit.edu	37	10	105687178	105687178	+	IGR	DEL	T	-	-			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:105687178delT								OBFC1 (9133 upstream) : SLK (40292 downstream)																							ATACATACAAttttttttttt	0.119													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	10	107067900	107067900	+	IGR	DEL	T	-	-	rs111559649		TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:107067900delT								SORCS3 (42907 upstream) : None (None downstream)																							ATCACCTGGGttttttttttt	0.129													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	10	111206741	111206742	+	IGR	DEL	CC	-	-			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:111206741_111206742delCC								None (None upstream) : XPNPEP1 (417782 downstream)																							aaaactggtgcccagagacaca	0.045													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	10	113140148	113140149	+	IGR	DEL	GT	-	-	rs112063996		TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:113140148_113140149delGT								ADRA2A (299488 upstream) : GPAM (769473 downstream)																							CACAAATGTCgtgtgtgtgtgt	0.347													4	3	---	---	---	---	
TDRD1	56165	broad.mit.edu	37	10	115960132	115960134	+	Intron	DEL	TTG	-	-			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:115960132_115960134delTTG	uc001lbg.1	+						TDRD1_uc001lbf.2_Intron|TDRD1_uc001lbh.1_Intron|TDRD1_uc001lbi.1_Intron|TDRD1_uc010qsc.1_5'Flank	NM_198795	NP_942090	Q9BXT4	TDRD1_HUMAN	tudor domain containing 1						DNA methylation involved in gamete generation|gene silencing by RNA|germ cell development|meiosis|multicellular organismal development|piRNA metabolic process|spermatogenesis	pi-body	nucleic acid binding|protein binding|zinc ion binding				0		Colorectal(252;0.172)|Breast(234;0.188)		Epithelial(162;0.0343)|all cancers(201;0.0754)		CTTTGTGGGTttgttgttgttgt	0.305													3	3	---	---	---	---	
ABLIM1	3983	broad.mit.edu	37	10	116302348	116302349	+	Intron	INS	-	GAAGGAGGAA	GAAGGAGGAA	rs145911227	by1000genomes	TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:116302348_116302349insGAAGGAGGAA	uc010qsg.1	-						ABLIM1_uc010qsh.1_Intron|ABLIM1_uc010qsi.1_Intron|ABLIM1_uc010qsk.1_Intron|ABLIM1_uc009xyp.2_Intron|ABLIM1_uc009xyo.2_Intron	NM_002313	NP_002304	O14639	ABLM1_HUMAN	actin-binding LIM protein 1 isoform a						axon guidance|cytoskeleton organization|organ morphogenesis|visual perception	actin cytoskeleton|cytoplasm	actin binding|zinc ion binding			breast(1)	1		Colorectal(252;0.0373)|Breast(234;0.231)		Epithelial(162;0.0132)|all cancers(201;0.0383)		aggaggaggaggaaggaggaag	0.099													2	9	---	---	---	---	
ATRNL1	26033	broad.mit.edu	37	10	117652863	117652865	+	Intron	DEL	AGT	-	-			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:117652863_117652865delAGT	uc001lcg.2	+						ATRNL1_uc010qsm.1_Intron|ATRNL1_uc010qsn.1_Intron	NM_207303	NP_997186	Q5VV63	ATRN1_HUMAN	attractin-like 1 precursor							integral to membrane	sugar binding			ovary(5)|lung(1)|central_nervous_system(1)	7		all_lung(145;0.0686)|Breast(234;0.0969)|Lung NSC(174;0.17)|Colorectal(252;0.234)		Epithelial(162;0.00031)|all cancers(201;0.000753)|LUSC - Lung squamous cell carcinoma(1;0.0515)|Lung(30;0.0827)		ACTTTAAAAGAGTAAGGTGTTTA	0.305													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	10	119357286	119357286	+	IGR	DEL	T	-	-			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:119357286delT								EMX2 (48230 upstream) : RAB11FIP2 (407143 downstream)																							aatggtgcgattttggctcac	0.055													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	10	121438948	121438949	+	IGR	DEL	AG	-	-	rs34670290		TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:121438948_121438949delAG								BAG3 (1621 upstream) : INPP5F (46660 downstream)																							aaaaaaaaaaagaaCCAAAGAT	0.203													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	10	122723066	122723066	+	IGR	DEL	T	-	-	rs7895591	by1000genomes	TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:122723066delT								WDR11 (54031 upstream) : FGFR2 (514779 downstream)																							CAGGGACCGGTCATTGAAGGC	0.647													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	10	123229865	123229866	+	IGR	INS	-	C	C	rs139061324	by1000genomes	TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:123229865_123229866insC								WDR11 (560830 upstream) : FGFR2 (7979 downstream)																							GCTGGAAGAGACCAGGTTTACT	0.520													1	7	---	---	---	---	
TACC2	10579	broad.mit.edu	37	10	123932354	123932354	+	Intron	DEL	G	-	-			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:123932354delG	uc001lfv.2	+						TACC2_uc001lfw.2_Intron|TACC2_uc009xzx.2_Intron|TACC2_uc010qtv.1_Intron|TACC2_uc001lfx.2_Intron|TACC2_uc001lfy.2_Intron|TACC2_uc001lfz.2_Intron|TACC2_uc001lga.2_Intron|TACC2_uc009xzy.2_Intron	NM_206862	NP_996744	O95359	TACC2_HUMAN	transforming, acidic coiled-coil containing							microtubule organizing center|nucleus	nuclear hormone receptor binding			ovary(4)|breast(3)|skin(2)|central_nervous_system(1)	10		all_neural(114;0.0656)|Lung NSC(174;0.136)|all_lung(145;0.17)|Breast(234;0.197)				GGGGAGGGCAGGGGGTGAGGG	0.622													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	10	129655217	129655218	+	IGR	INS	-	A	A	rs146121560	by1000genomes	TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:129655217_129655218insA								FOXI2 (115767 upstream) : CLRN3 (20896 downstream)																							cccatctctacaaaaaatacaa	0.000													3	3	---	---	---	---	
PTPRE	5791	broad.mit.edu	37	10	129761936	129761937	+	Intron	DEL	GT	-	-			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:129761936_129761937delGT	uc001lkb.2	+						PTPRE_uc009yat.2_Intron	NM_006504	NP_006495	P23469	PTPRE_HUMAN	protein tyrosine phosphatase, receptor type, E						negative regulation of insulin receptor signaling pathway|protein phosphorylation	cytoplasm|integral to membrane|intermediate filament cytoskeleton|nucleus|plasma membrane	transmembrane receptor protein tyrosine phosphatase activity			ovary(1)	1		all_epithelial(44;1.66e-05)|all_lung(145;0.00456)|Lung NSC(174;0.0066)|all_neural(114;0.0936)|Colorectal(57;0.141)|Breast(234;0.166)|Melanoma(40;0.203)				CTGGGGTGGAGTgtgtgtgtgt	0.475													3	3	---	---	---	---	
Unknown	0	broad.mit.edu	37	10	130692141	130692141	+	IGR	DEL	G	-	-	rs141772021		TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:130692141delG								MKI67 (767673 upstream) : MGMT (573313 downstream)																							CCTCTTTTTTGGGGGGGGGGC	0.323													2	6	---	---	---	---	
Unknown	0	broad.mit.edu	37	10	132588817	132588818	+	IGR	DEL	CA	-	-	rs144154274		TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:132588817_132588818delCA								GLRX3 (606033 upstream) : TCERG1L (301838 downstream)																							cactcacccccacacacacaga	0.000													3	4	---	---	---	---	
KNDC1	85442	broad.mit.edu	37	10	134976540	134976541	+	Intron	INS	-	GAA	GAA	rs139064453		TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:134976540_134976541insGAA	uc001llz.1	+							NM_152643	NP_689856	Q76NI1	VKIND_HUMAN	kinase non-catalytic C-lobe domain (KIND)						regulation of small GTPase mediated signal transduction|small GTPase mediated signal transduction					upper_aerodigestive_tract(1)|ovary(1)	2		all_cancers(35;4.16e-10)|all_epithelial(44;2.07e-08)|Lung NSC(174;0.000845)|all_lung(145;0.00145)|all_neural(114;0.0299)|Melanoma(40;0.123)|Colorectal(31;0.173)|Glioma(114;0.203)		OV - Ovarian serous cystadenocarcinoma(35;8.77e-06)|Epithelial(32;1.13e-05)|all cancers(32;1.51e-05)		AGGGCTTCCTGGAGGTGTCCTG	0.559													1	5	---	---	---	---	
ODF3	113746	broad.mit.edu	37	11	195918	195918	+	5'Flank	DEL	A	-	-			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:195918delA	uc001lob.2	+						ODF3_uc010qvk.1_5'Flank|ODF3_uc001loc.2_5'Flank	NM_053280	NP_444510	Q96PU9	ODF3A_HUMAN	outer dense fiber of sperm tails 3						cell differentiation|multicellular organismal development|spermatogenesis	cytoplasm				ovary(1)	1		all_cancers(49;9.23e-07)|all_epithelial(84;0.000315)|Breast(177;0.00122)|Ovarian(85;0.0202)|Medulloblastoma(188;0.0321)|all_neural(188;0.0762)		all cancers(45;3.95e-27)|Epithelial(43;2.66e-26)|OV - Ovarian serous cystadenocarcinoma(40;5.55e-21)|BRCA - Breast invasive adenocarcinoma(625;3.56e-05)|Lung(200;0.105)|LUSC - Lung squamous cell carcinoma(625;0.122)		CCTGGTGAGGAGGACCTGGTG	0.637													5	4	---	---	---	---	
PHRF1	57661	broad.mit.edu	37	11	574549	574549	+	5'Flank	DEL	G	-	-			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:574549delG	uc001lqe.2	+						LOC143666_uc010qwb.1_RNA|PHRF1_uc010qwc.1_5'Flank|PHRF1_uc010qwd.1_5'Flank|PHRF1_uc010qwe.1_5'Flank	NM_020901	NP_065952	Q9P1Y6	PHRF1_HUMAN	PHD and ring finger domains 1								RNA polymerase binding|zinc ion binding				0						tacaatctctggtctctgcac	0.000													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	11	2278032	2278033	+	IGR	INS	-	GT	GT	rs145955073	by1000genomes	TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:2278032_2278033insGT								TH (84997 upstream) : ASCL2 (11696 downstream)																							TGCGTTTCtgcgtgtgtgtgtg	0.312													1	5	---	---	---	---	
INSC	387755	broad.mit.edu	37	11	15138505	15138506	+	Intron	INS	-	TT	TT			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:15138505_15138506insTT	uc001mly.2	+						INSC_uc001mlz.2_Intron	NM_001031853	NP_001027024	Q1MX18	INSC_HUMAN	inscuteable isoform a						cell differentiation|nervous system development	cytoplasm	binding			upper_aerodigestive_tract(2)|ovary(2)|central_nervous_system(1)	5						ttccttccttctttgatggagt	0.005													5	3	---	---	---	---	
Unknown	0	broad.mit.edu	37	11	15951716	15951716	+	IGR	DEL	G	-	-			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:15951716delG								INSC (682964 upstream) : SOX6 (36280 downstream)																							GAAGAGGGAAGGCAAGAGTGG	0.408													4	2	---	---	---	---	
LUZP2	338645	broad.mit.edu	37	11	24854959	24854960	+	Intron	INS	-	A	A	rs72512307		TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:24854959_24854960insA	uc001mqs.2	+						LUZP2_uc009yif.2_Intron|LUZP2_uc009yig.2_Intron	NM_001009909	NP_001009909	Q86TE4	LUZP2_HUMAN	leucine zipper protein 2 precursor							extracellular region				ovary(1)|skin(1)	2						ATTGTTTGTTGGAAAAATATTC	0.366													1	5	---	---	---	---	
RCN1	5954	broad.mit.edu	37	11	32074270	32074270	+	Intron	DEL	A	-	-			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:32074270delA	uc010rea.1	+							NM_002901	NP_002892	Q15293	RCN1_HUMAN	reticulocalbin 1 precursor							endoplasmic reticulum lumen	calcium ion binding			large_intestine(1)	1	Lung SC(675;0.225)					AAGGTGAAGGAAAAAAGCAGA	0.428											OREG0020860	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	11	32310199	32310199	+	IGR	DEL	A	-	-			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:32310199delA								RCN1 (182928 upstream) : WT1 (99126 downstream)																							gcactgcaggaaaaaaaatag	0.035													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	11	34031910	34031910	+	IGR	DEL	A	-	-			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:34031910delA								LMO2 (118074 upstream) : CAPRIN1 (41320 downstream)																							accctgtctcaaaaaaaaaaa	0.070													3	3	---	---	---	---	
Unknown	0	broad.mit.edu	37	11	44381317	44381317	+	IGR	DEL	T	-	-			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:44381317delT								ALX4 (49601 upstream) : CD82 (205824 downstream)																							CCCTCCCTCCTGCTTCCTCCA	0.602													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	11	46221340	46221341	+	IGR	DEL	CA	-	-	rs10544284		TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:46221340_46221341delCA								PHF21A (78355 upstream) : CREB3L1 (77887 downstream)																							cccacccacccacacacacaca	0.005													4	2	---	---	---	---	
KBTBD4	55709	broad.mit.edu	37	11	47597411	47597412	+	Intron	INS	-	T	T	rs35653820		TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:47597411_47597412insT	uc001nfx.2	-						NDUFS3_uc001nft.3_Intron|KBTBD4_uc001nfw.1_Intron|KBTBD4_uc001nfz.2_Intron|KBTBD4_uc001nfy.2_Intron	NM_016506	NP_057590	Q9NVX7	KBTB4_HUMAN	kelch repeat and BTB (POZ) domain containing 4											ovary(1)|central_nervous_system(1)	2						CCTAAAATTGCttttttttttt	0.173													5	5	---	---	---	---	
Unknown	0	broad.mit.edu	37	11	48880640	48880641	+	IGR	INS	-	C	C			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:48880640_48880641insC								OR4A47 (369368 upstream) : FOLH1 (287547 downstream)																							gaaacactcttttttggaatct	0.000													4	2	---	---	---	---	
P2RX3	5024	broad.mit.edu	37	11	57106479	57106479	+	Intron	DEL	C	-	-			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:57106479delC	uc001nju.2	+							NM_002559	NP_002550	P56373	P2RX3_HUMAN	purinergic receptor P2X3						positive regulation of calcium ion transport into cytosol|positive regulation of calcium-mediated signaling	integral to plasma membrane	ATP binding|extracellular ATP-gated cation channel activity|purinergic nucleotide receptor activity				0						ATCTCCCCAACAAGAGAACAG	0.592													4	2	---	---	---	---	
RTN4RL2	349667	broad.mit.edu	37	11	57234851	57234851	+	Intron	DEL	T	-	-			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:57234851delT	uc010rjt.1	+							NM_178570	NP_848665	Q86UN3	R4RL2_HUMAN	reticulon 4 receptor-like 2 precursor						axon regeneration	anchored to plasma membrane	receptor activity				0						gcctggctaattttttttttt	0.000													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	11	60788383	60788384	+	IGR	DEL	GT	-	-			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:60788383_60788384delGT								CD6 (537 upstream) : CD5 (81546 downstream)																							CATGTTCAGAgtgtgtgtgtgt	0.317													4	2	---	---	---	---	
VPS37C	55048	broad.mit.edu	37	11	60916051	60916051	+	Intron	DEL	A	-	-	rs34392188		TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:60916051delA	uc001nqv.1	-						VPS37C_uc001nqw.1_Intron	NM_017966	NP_060436	A5D8V6	VP37C_HUMAN	vacuolar protein sorting 37C						cellular membrane organization|endosome transport|protein transport	late endosome membrane					0						ACAGGAGGttaaaaaaaaaaa	0.393													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	11	61799901	61799903	+	IGR	DEL	GTG	-	-			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:61799901_61799903delGTG								FTH1 (64769 upstream) : INCENP (91542 downstream)																							aaaaactagtgtggtggcgggca	0.000													4	2	---	---	---	---	
INCENP	3619	broad.mit.edu	37	11	61910159	61910159	+	Intron	DEL	T	-	-	rs59893507		TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:61910159delT	uc001nsw.1	+						INCENP_uc009ynw.1_Intron|INCENP_uc001nsx.1_Intron|INCENP_uc001nsy.1_5'Flank	NM_001040694	NP_001035784	Q9NQS7	INCE_HUMAN	inner centromere protein antigens 135/155kDa						chromosome segregation|cytokinesis|mitotic prometaphase	centromeric heterochromatin|condensed chromosome kinetochore|cytosol|microtubule|spindle	protein binding			lung(1)	1						ggttcccatctgccttctgtg	0.000													6	3	---	---	---	---	
Unknown	0	broad.mit.edu	37	11	62040694	62040695	+	IGR	INS	-	AC	AC	rs142599989	by1000genomes	TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:62040694_62040695insAC								SCGB2A2 (67 upstream) : SCGB1D4 (23059 downstream)																							atattttacatacacacacaca	0.257													3	5	---	---	---	---	
MARK2	2011	broad.mit.edu	37	11	63618985	63618986	+	Intron	INS	-	T	T	rs141800995	by1000genomes	TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:63618985_63618986insT	uc001nxw.2	+						MARK2_uc001nxx.2_Intron|MARK2_uc001nxy.2_Intron|MARK2_uc001nxv.3_Intron	NM_001039469	NP_001034558	Q7KZI7	MARK2_HUMAN	MAP/microtubule affinity-regulating kinase 2						cell differentiation|establishment or maintenance of epithelial cell apical/basal polarity|intracellular protein kinase cascade|multicellular organismal development|response to oxidative stress	plasma membrane	ATP binding|magnesium ion binding|protein binding|protein serine/threonine kinase activity			stomach(1)|ovary(1)|lung(1)	3						GTTTCACTTTCTTTTTTTCTGT	0.342													2	6	---	---	---	---	
NRXN2	9379	broad.mit.edu	37	11	64455895	64455896	+	Intron	DEL	GA	-	-			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:64455895_64455896delGA	uc001oar.2	-						NRXN2_uc001oas.2_Intron|NRXN2_uc001oaq.2_Intron	NM_015080	NP_055895	P58401	NRX2B_HUMAN	neurexin 2 isoform alpha-1 precursor						cell adhesion	integral to membrane				upper_aerodigestive_tract(2)|central_nervous_system(2)|skin(2)|ovary(2)|kidney(1)|pancreas(1)	10						AGATGGTGAGGAGAGAGAGAGA	0.554											OREG0021059	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	4	2	---	---	---	---	
CAPN1	823	broad.mit.edu	37	11	64969299	64969299	+	Intron	DEL	T	-	-	rs71960475		TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:64969299delT	uc009yqd.1	+						CAPN1_uc001odf.1_Intron|CAPN1_uc001odg.1_Intron|CAPN1_uc010roa.1_Intron	NM_005186	NP_005177	P07384	CAN1_HUMAN	calpain 1, large subunit						positive regulation of cell proliferation|proteolysis	cytoplasm|plasma membrane	calcium ion binding|calcium-dependent cysteine-type endopeptidase activity|protein binding			ovary(1)	1		Lung NSC(402;0.094)|Melanoma(852;0.16)		Lung(977;0.00168)|LUSC - Lung squamous cell carcinoma(976;0.00813)		tttgtttttgttttttttttt	0.000													4	3	---	---	---	---	
Unknown	0	broad.mit.edu	37	11	65219920	65219920	+	IGR	DEL	A	-	-			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:65219920delA								MIR612 (7892 upstream) : MALAT1 (45313 downstream)																							aatgatcaataaaaaaaaaaa	0.000													4	3	---	---	---	---	
Unknown	0	broad.mit.edu	37	11	67512550	67512551	+	IGR	INS	-	CA	CA			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:67512550_67512551insCA								ALDH3B2 (63865 upstream) : LOC645332 (46689 downstream)																							acacatgcacccacacacacac	0.074													4	2	---	---	---	---	
ALDH3B1	221	broad.mit.edu	37	11	67783720	67783720	+	Intron	DEL	C	-	-			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:67783720delC	uc010rpy.1	+						ALDH3B1_uc001omy.1_3'UTR|ALDH3B1_uc001omz.2_Intron|ALDH3B1_uc001ona.2_Intron|ALDH3B1_uc001onb.2_RNA	NM_001161473	NP_001154945	P43353	AL3B1_HUMAN	aldehyde dehydrogenase 3B1 isoform a						alcohol metabolic process|cellular aldehyde metabolic process|lipid metabolic process		3-chloroallyl aldehyde dehydrogenase activity|aldehyde dehydrogenase				0					NADH(DB00157)	aggggaggctccccatggatg	0.000													4	2	---	---	---	---	
CAPN5	726	broad.mit.edu	37	11	76792818	76792818	+	Intron	DEL	G	-	-			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:76792818delG	uc001oxx.2	+						CAPN5_uc009yup.2_Intron|CAPN5_uc009yuq.2_Intron|CAPN5_uc001oxy.2_Intron	NM_004055	NP_004046	O15484	CAN5_HUMAN	calpain 5						proteolysis|signal transduction	intracellular	calcium-dependent cysteine-type endopeptidase activity				0						GGCACCGGCTGGCACCCAGCT	0.672													4	2	---	---	---	---	
ODZ4	26011	broad.mit.edu	37	11	78559875	78559878	+	Intron	DEL	AGGA	-	-	rs67325005		TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:78559875_78559878delAGGA	uc001ozl.3	-							NM_001098816	NP_001092286	Q6N022	TEN4_HUMAN	odz, odd Oz/ten-m homolog 4						signal transduction	integral to membrane				ovary(2)|pancreas(2)	4						gaAAGCAAAGaggaaggaaggaag	0.137													4	2	---	---	---	---	
CNTN5	53942	broad.mit.edu	37	11	99942594	99942594	+	Intron	DEL	A	-	-	rs76748292		TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:99942594delA	uc001pga.2	+						CNTN5_uc009ywv.1_Intron|CNTN5_uc001pfz.2_Intron|CNTN5_uc001pgb.2_Intron	NM_014361	NP_055176	O94779	CNTN5_HUMAN	contactin 5 isoform long						cell adhesion	anchored to membrane|plasma membrane	protein binding			skin(3)|ovary(2)|pancreas(2)|breast(1)	8		all_hematologic(158;1.22e-05)|Acute lymphoblastic leukemia(157;3.81e-05)|Melanoma(852;0.219)		BRCA - Breast invasive adenocarcinoma(274;0.00146)|KIRC - Kidney renal clear cell carcinoma(183;0.156)|Kidney(183;0.196)		GAATAAATTGAAAAAAAAAAC	0.323													4	3	---	---	---	---	
Unknown	0	broad.mit.edu	37	11	102382206	102382207	+	IGR	INS	-	T	T	rs111301960		TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:102382206_102382207insT								TMEM123 (58431 upstream) : MMP7 (9033 downstream)																							TACTTCTTTCCTTTTTTTTTTT	0.327													4	2	---	---	---	---	
CADM1	23705	broad.mit.edu	37	11	115133515	115133515	+	Intron	DEL	T	-	-	rs113040150		TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:115133515delT	uc001ppi.3	-						CADM1_uc001ppf.3_Intron|CADM1_uc001ppk.3_Intron|CADM1_uc001ppj.3_Intron|CADM1_uc001ppl.2_Intron	NM_014333	NP_055148	Q9BY67	CADM1_HUMAN	immunoglobulin superfamily, member 4D isoform 1						adherens junction organization|apoptosis|cell differentiation|cell junction assembly|cell recognition|detection of stimulus|heterophilic cell-cell adhesion|homophilic cell adhesion|multicellular organismal development|positive regulation of cytokine secretion|spermatogenesis|susceptibility to natural killer cell mediated cytotoxicity	basolateral plasma membrane|cell-cell junction|integral to membrane	PDZ domain binding|protein C-terminus binding|protein homodimerization activity|receptor binding			ovary(2)	2	all_hematologic(175;0.0628)	all_cancers(61;2.98e-14)|all_epithelial(67;2.64e-08)|all_hematologic(158;0.000154)|Melanoma(852;0.000952)|Acute lymphoblastic leukemia(157;0.00101)|Breast(348;0.0102)|Medulloblastoma(222;0.0429)|Prostate(24;0.145)|all_neural(223;0.237)		BRCA - Breast invasive adenocarcinoma(274;5.01e-06)|Epithelial(105;0.000305)|all cancers(92;0.00303)		TTGATGGGTCTTTTTTTTTTT	0.114													4	2	---	---	---	---	
DSCAML1	57453	broad.mit.edu	37	11	117634338	117634338	+	Intron	DEL	C	-	-			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:117634338delC	uc001prh.1	-						DSCAML1_uc001pri.1_Intron	NM_020693	NP_065744	Q8TD84	DSCL1_HUMAN	Down syndrome cell adhesion molecule like 1						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)		GGCTGCTTTTCCCCAAGAGCA	0.448													4	2	---	---	---	---	
VWA5A	4013	broad.mit.edu	37	11	123994642	123994642	+	Intron	DEL	A	-	-			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:123994642delA	uc001pzu.2	+						VWA5A_uc001pzr.2_Intron|VWA5A_uc001pzs.2_Intron|VWA5A_uc010sae.1_Intron|VWA5A_uc001pzt.2_Intron	NM_001130142	NP_001123614	O00534	VMA5A_HUMAN	BCSC-1 isoform 1											upper_aerodigestive_tract(1)|ovary(1)	2						TAGTAAACAGAAAAAAAAAAG	0.388													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	11	128552682	128552683	+	Intron	INS	-	AC	AC	rs147701021	by1000genomes	TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:128552682_128552683insAC	uc001qek.2	-											Homo sapiens cDNA FLJ35701 fis, clone SPLEN2020007.																		cacacacacatacacacacaca	0.391													5	3	---	---	---	---	
ADAMTS15	170689	broad.mit.edu	37	11	130342576	130342578	+	Intron	DEL	CCT	-	-			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:130342576_130342578delCCT	uc010scd.1	+							NM_139055	NP_620686	Q8TE58	ATS15_HUMAN	a disintegrin-like and metalloprotease						proteolysis	proteinaceous extracellular matrix	metalloendopeptidase activity|zinc ion binding			large_intestine(2)|pancreas(1)|lung(1)|skin(1)	5	all_hematologic(175;0.0429)	Lung NSC(97;0.000601)|Breast(109;0.000962)|all_lung(97;0.00125)|Medulloblastoma(222;0.0425)|all_neural(223;0.0837)		OV - Ovarian serous cystadenocarcinoma(99;0.0631)|Lung(977;0.215)		CCGCCCCACCcctcctcctcctc	0.222													4	2	---	---	---	---	
OPCML	4978	broad.mit.edu	37	11	133184880	133184881	+	Intron	INS	-	GTGT	GTGT	rs142102140	by1000genomes	TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:133184880_133184881insGTGT	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)		AGTGTGTGTGCGTGTGTGTGTG	0.376													2	4	---	---	---	---	
ERC1	23085	broad.mit.edu	37	12	1545322	1545323	+	Intron	DEL	AC	-	-			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:1545322_1545323delAC	uc001qjb.2	+						ERC1_uc001qiz.2_Intron|ERC1_uc001qjc.2_Intron|ERC1_uc001qja.2_Intron|ERC1_uc001qjd.2_Intron|ERC1_uc001qjf.2_Intron|ERC1_uc010sdv.1_Intron|ERC1_uc001qje.2_Intron	NM_178040	NP_829884	Q8IUD2	RB6I2_HUMAN	RAB6-interacting protein 2 isoform epsilon						I-kappaB phosphorylation|multicellular organismal development|positive regulation of anti-apoptosis|positive regulation of NF-kappaB transcription factor activity|protein transport	Golgi membrane|IkappaB kinase complex|presynaptic membrane	leucine zipper domain binding			ovary(2)|lung(2)|breast(1)	5	all_epithelial(11;0.0698)|Ovarian(42;0.107)		OV - Ovarian serous cystadenocarcinoma(31;0.00239)|BRCA - Breast invasive adenocarcinoma(9;0.0567)			AGACAGACGGacacacacacac	0.411													6	4	---	---	---	---	
TULP3	7289	broad.mit.edu	37	12	3033682	3033682	+	Intron	DEL	A	-	-			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:3033682delA	uc010seh.1	+						TULP3_uc010sef.1_Intron|TULP3_uc009zec.1_Intron|TULP3_uc010seg.1_Intron|TULP3_uc001qlj.2_Intron|TULP3_uc010sei.1_Intron	NM_003324	NP_003315	O75386	TULP3_HUMAN	tubby like protein 3 isoform 1						G-protein coupled receptor protein signaling pathway|regulation of transcription, DNA-dependent	cytoplasm|extracellular region|nucleus|plasma membrane	phosphatidylinositol-4,5-bisphosphate binding				0			OV - Ovarian serous cystadenocarcinoma(31;0.000818)			agtctctaacaaaaaaaaatt	0.000													4	2	---	---	---	---	
EFCAB4B	84766	broad.mit.edu	37	12	3787864	3787865	+	Intron	INS	-	A	A			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:3787864_3787865insA	uc001qmj.2	-						EFCAB4B_uc010sen.1_Intron|EFCAB4B_uc010seo.1_Intron	NM_032680	NP_116069	Q9BSW2	EFC4B_HUMAN	EF-hand calcium binding domain 4B isoform c						activation of store-operated calcium channel activity|store-operated calcium entry	cytoplasm	calcium ion binding|protein binding			ovary(1)|pancreas(1)	2			OV - Ovarian serous cystadenocarcinoma(31;0.00287)|COAD - Colon adenocarcinoma(12;0.0264)			GATTCCTAAAGAAAAAAAAATG	0.530													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	12	3988123	3988123	+	IGR	DEL	T	-	-	rs113027187		TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:3988123delT								PARP11 (5515 upstream) : CCND2 (394779 downstream)																							ggcttctttcttttttttttt	0.000													2	5	---	---	---	---	
SLC2A14	144195	broad.mit.edu	37	12	7990690	7990690	+	Intron	DEL	T	-	-	rs71451921		TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:7990690delT	uc001qtk.2	-						SLC2A14_uc001qtl.2_Intron|SLC2A14_uc001qtm.2_Intron|SLC2A14_uc010sgg.1_Intron|SLC2A14_uc001qtn.2_Intron|SLC2A14_uc001qto.2_Intron|SLC2A14_uc010sgh.1_Intron	NM_153449	NP_703150	Q8TDB8	GTR14_HUMAN	glucose transporter 14						cell differentiation|multicellular organismal development|spermatogenesis	integral to membrane	glucose transmembrane transporter activity			ovary(1)	1				Kidney(36;0.0883)		TTTACCACAAttttttttttt	0.035													3	4	---	---	---	---	
Unknown	0	broad.mit.edu	37	12	8108577	8108579	+	IGR	DEL	AAC	-	-	rs79977890		TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:8108577_8108579delAAC								SLC2A3 (19685 upstream) : FOXJ2 (76780 downstream)																							aaaaaacaataacaacaaaaaTT	0.034													4	2	---	---	---	---	
TAS2R7	50837	broad.mit.edu	37	12	10954482	10954482	+	Frame_Shift_Del	DEL	G	-	-			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:10954482delG	uc001qyv.2	-	1	745	c.688delC	c.(688-690)CATfs	p.H230fs		NM_023919	NP_076408	Q9NYW3	TA2R7_HUMAN	taste receptor, type 2, member 7	230	Cytoplasmic (Potential).				sensory perception of taste	integral to membrane	taste receptor activity			skin(1)	1						GCTCTCACATGGGCTTCTGTG	0.507													19	9	---	---	---	---	
Unknown	0	broad.mit.edu	37	12	12998530	12998531	+	IGR	DEL	TT	-	-			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:12998530_12998531delTT								DDX47 (15621 upstream) : RPL13AP20 (29880 downstream)																							ttttctttcctttttttttttt	0.178													4	2	---	---	---	---	
PLEKHA5	54477	broad.mit.edu	37	12	19336957	19336957	+	Intron	DEL	A	-	-			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:19336957delA	uc001reb.2	+						PLEKHA5_uc010sie.1_Intron|PLEKHA5_uc001rea.2_Intron|PLEKHA5_uc009zin.2_Intron|PLEKHA5_uc001rdz.3_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)					tcTTATAAGGAAAAATTTGTT	0.199													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	12	19771618	19771618	+	IGR	DEL	C	-	-	rs112111736		TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:19771618delC								AEBP2 (96445 upstream) : PDE3A (750579 downstream)																							gcatagaatgcccctcaatgt	0.000													2	7	---	---	---	---	
Unknown	0	broad.mit.edu	37	12	29120643	29120644	+	IGR	DEL	AC	-	-	rs60181081		TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:29120643_29120644delAC								CCDC91 (417545 upstream) : FAR2 (181588 downstream)																							CCCCATGCAAacacacacacac	0.460													5	3	---	---	---	---	
TSPAN11	441631	broad.mit.edu	37	12	31114489	31114489	+	Intron	DEL	A	-	-			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:31114489delA	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)					CTTGTTTTCTAAAGAGATGAC	0.323													4	2	---	---	---	---	
TSPAN11	441631	broad.mit.edu	37	12	31122610	31122610	+	Intron	DEL	C	-	-			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:31122610delC	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)					TTAGCTTCCACCACCACCTCC	0.493													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	12	32077622	32077622	+	IGR	DEL	C	-	-			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:32077622delC								H3F3C (132447 upstream) : C12orf35 (34731 downstream)																							ctcactgcaacctctgcaaaa	0.045													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	12	34470095	34470095	+	IGR	DEL	T	-	-			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:34470095delT								ALG10 (288861 upstream) : None (None downstream)																							tgccgcgccattttttttttc	0.000													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	12	37991301	37991301	+	IGR	DEL	T	-	-			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:37991301delT								None (None upstream) : ALG10B (719256 downstream)																							tatcttcacataaaaactaga	0.000													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	12	38007363	38007364	+	IGR	INS	-	A	A			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:38007363_38007364insA								None (None upstream) : ALG10B (703193 downstream)																							cagagttgaactttcttttcat	0.000													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	12	42047496	42047496	+	IGR	DEL	G	-	-	rs5797753		TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:42047496delG								PDZRN4 (79112 upstream) : GXYLT1 (428154 downstream)																							attacaattcggattacaatt	0.080													3	3	---	---	---	---	
MCRS1	10445	broad.mit.edu	37	12	49957758	49957758	+	Intron	DEL	C	-	-			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:49957758delC	uc001ruk.1	-						MCRS1_uc001rui.1_Intron|MCRS1_uc001ruj.1_Intron|MCRS1_uc001rul.1_Intron|MCRS1_uc009zlj.1_Intron|MCRS1_uc001rum.1_Intron|MCRS1_uc001run.1_Intron	NM_006337	NP_006328	Q96EZ8	MCRS1_HUMAN	microspherule protein 1 isoform 1						DNA recombination|DNA repair|protein modification process|regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasm|Ino80 complex|MLL1 complex|nucleolus	protein binding			large_intestine(1)	1						TGTTAAGCATCCAACCAAGCT	0.453													4	2	---	---	---	---	
LOC283332	283332	broad.mit.edu	37	12	50306862	50306862	+	5'Flank	DEL	C	-	-			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:50306862delC	uc001rvl.2	-						uc001rvm.2_Intron	NR_026948				Homo sapiens cDNA FLJ35896 fis, clone TESTI2009462.												0						cctccagcagccccgagtgat	0.000													4	2	---	---	---	---	
AQP2	359	broad.mit.edu	37	12	50342343	50342343	+	5'Flank	DEL	A	-	-			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:50342343delA	uc001rvn.2	+							NM_000486	NP_000477	P41181	AQP2_HUMAN	aquaporin 2						cellular response to copper ion|cellular response to mercury ion|excretion	apical plasma membrane|integral to membrane|transport vesicle membrane	glycerol transmembrane transporter activity|water channel activity			ovary(2)	2						catgtctactaaaaaaaaata	0.000													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	12	51285039	51285040	+	IGR	INS	-	CT	CT	rs145484326	by1000genomes	TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:51285039_51285040insCT								TMPRSS12 (3378 upstream) : METTL7A (33494 downstream)																							aacattttgccgtttacactca	0.010													0	6	---	---	---	---	
Unknown	0	broad.mit.edu	37	12	52809970	52809971	+	IGR	DEL	GT	-	-			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:52809970_52809971delGT								KRT82 (9794 upstream) : KRT75 (7883 downstream)																							atgtgtgtccgtgtgtgtgtgt	0.208													4	2	---	---	---	---	
KRT72	140807	broad.mit.edu	37	12	52983487	52983488	+	Intron	INS	-	A	A			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:52983487_52983488insA	uc001sar.2	-						KRT72_uc001saq.2_Intron|KRT72_uc010sns.1_Intron|KRT72_uc010snt.1_Intron	NM_001146225	NP_001139697	Q14CN4	K2C72_HUMAN	keratin 72 isoform 1							keratin filament	structural molecule activity			ovary(5)|pancreas(1)	6				BRCA - Breast invasive adenocarcinoma(357;0.195)		TGAGGGCCCTCAAAAGGAGCCG	0.545													1	7	---	---	---	---	
RAB5B	5869	broad.mit.edu	37	12	56387907	56387907	+	3'UTR	DEL	T	-	-			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:56387907delT	uc001siv.2	+	6					RAB5B_uc001siw.2_3'UTR|RAB5B_uc009zog.2_3'UTR|RAB5B_uc010spz.1_3'UTR	NM_002868	NP_002859	P61020	RAB5B_HUMAN	RAB5B, member RAS oncogene family						protein transport|small GTPase mediated signal transduction	early endosome membrane|melanosome|membrane fraction|plasma membrane	GTP binding|GTP-dependent protein binding|GTPase activity				0			UCEC - Uterine corpus endometrioid carcinoma (6;0.0471)|OV - Ovarian serous cystadenocarcinoma(18;0.235)			GTTCTTCCACTTAGGCCTCAA	0.527													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	12	56454959	56454959	+	IGR	DEL	T	-	-			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:56454959delT								RPS26 (16954 upstream) : ERBB3 (18933 downstream)																							TTTCTTTTTCTTTTTTTTTTT	0.184													4	2	---	---	---	---	
BAZ2A	11176	broad.mit.edu	37	12	56999208	56999208	+	Intron	DEL	T	-	-			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:56999208delT	uc001slq.1	-						BAZ2A_uc001slp.1_Intron|BAZ2A_uc009zov.1_5'Flank|BAZ2A_uc009zow.1_Intron	NM_013449	NP_038477	Q9UIF9	BAZ2A_HUMAN	bromodomain adjacent to zinc finger domain, 2A						chromatin silencing at rDNA|DNA methylation|transcription, DNA-dependent	chromatin silencing complex|nucleolus|rDNA heterochromatin	DNA binding|histone acetyl-lysine binding|ligand-dependent nuclear receptor binding|RNA binding|zinc ion binding				0						TTTTATGTAAttttttttttt	0.174													7	4	---	---	---	---	
STAT6	6778	broad.mit.edu	37	12	57509253	57509253	+	Intron	DEL	A	-	-	rs113142888		TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:57509253delA	uc009zpg.2	-							NM_003153	NP_003144	P42226	STAT6_HUMAN	signal transducer and activator of transcription						regulation of transcription from RNA polymerase II promoter	cytosol|nucleus	calcium ion binding|DNA binding|protein binding|sequence-specific DNA binding transcription factor activity|signal transducer activity			ovary(2)|lung(1)|skin(1)	4						ggttgtggggaaaaaaAAAAA	0.015													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	12	60225803	60225806	+	IGR	DEL	TTCT	-	-	rs73113325	by1000genomes	TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:60225803_60225806delTTCT								SLC16A7 (50396 upstream) : None (None downstream)																							ttcccttcccttctcttccccttc	0.083													5	3	---	---	---	---	
Unknown	0	broad.mit.edu	37	12	61263499	61263500	+	IGR	INS	-	T	T	rs144809708	by1000genomes	TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:61263499_61263500insT								None (None upstream) : FAM19A2 (838543 downstream)																							tccttccttccttccttccttc	0.079													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	12	68755937	68755937	+	IGR	DEL	A	-	-			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:68755937delA								MDM1 (29776 upstream) : RAP1B (248715 downstream)																							AAAAATCCATAAAtcaatcag	0.189													4	2	---	---	---	---	
CPM	1368	broad.mit.edu	37	12	69249523	69249524	+	3'UTR	INS	-	T	T	rs63143060		TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:69249523_69249524insT	uc001sup.2	-	9					CPM_uc001sur.2_3'UTR|CPM_uc001suq.2_3'UTR	NM_198320	NP_938079	P14384	CBPM_HUMAN	carboxypeptidase M precursor						anatomical structure morphogenesis|proteolysis	anchored to membrane|cytoplasm|nucleus|plasma membrane	metallocarboxypeptidase activity|zinc ion binding				0	all_epithelial(5;1.09e-35)|Lung NSC(4;1.47e-33)|all_lung(4;1.02e-31)|Breast(13;1.59e-06)		all cancers(2;2.69e-50)|GBM - Glioblastoma multiforme(2;7.34e-41)|BRCA - Breast invasive adenocarcinoma(5;5.38e-10)|Lung(24;4.61e-05)|LUAD - Lung adenocarcinoma(15;0.000376)|STAD - Stomach adenocarcinoma(21;0.00372)|Kidney(9;0.143)			gtttgtttttgttttttttttt	0.144													4	2	---	---	---	---	
TSPAN8	7103	broad.mit.edu	37	12	71576434	71576435	+	Intron	DEL	CA	-	-	rs34002910		TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:71576434_71576435delCA	uc001swk.1	-							NM_004616	NP_004607	P19075	TSN8_HUMAN	transmembrane 4 superfamily member 3						protein glycosylation	integral to membrane|lysosome	signal transducer activity			skin(2)|lung(1)|central_nervous_system(1)	4			LUSC - Lung squamous cell carcinoma(43;0.24)|OV - Ovarian serous cystadenocarcinoma(12;0.244)			cacacatatgcacacacacaca	0.129													4	2	---	---	---	---	
MRPL42	28977	broad.mit.edu	37	12	93875462	93875462	+	Intron	DEL	G	-	-			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:93875462delG	uc001tcr.2	+						MRPL42_uc001tcq.2_Intron|MRPL42_uc001tcs.2_Intron|MRPL42_uc001tct.2_Intron	NM_172177	NP_751917	Q9Y6G3	RM42_HUMAN	mitochondrial ribosomal protein L42 isoform a						translation	mitochondrial small ribosomal subunit	structural constituent of ribosome			ovary(2)	2						ccacttccatgggaggattcc	0.000													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	12	94325587	94325587	+	IGR	DEL	A	-	-			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:94325587delA								CRADD (36971 upstream) : PLXNC1 (216912 downstream)																							AGAGAGAGAGAAaaagaaaaa	0.164													4	2	---	---	---	---	
ANKS1B	56899	broad.mit.edu	37	12	100179037	100179038	+	Intron	DEL	GT	-	-	rs112178308		TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:100179037_100179038delGT	uc001tge.1	-						ANKS1B_uc001tgf.1_Intron|ANKS1B_uc009ztt.1_Intron	NM_152788	NP_690001	Q7Z6G8	ANS1B_HUMAN	cajalin 2 isoform a							Cajal body|cell junction|cytoplasm|dendritic spine|postsynaptic density|postsynaptic membrane					0		all_cancers(3;0.0197)|all_epithelial(3;0.0101)|Esophageal squamous(3;0.0559)|Breast(359;0.209)		OV - Ovarian serous cystadenocarcinoma(2;2.89e-08)|Epithelial(2;6.12e-08)|all cancers(2;4.07e-06)		TCAGTAGGTCgtgtgtgtgtgt	0.248													4	3	---	---	---	---	
Unknown	0	broad.mit.edu	37	12	106587336	106587336	+	IGR	DEL	G	-	-			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:106587336delG								NUAK1 (53525 upstream) : CKAP4 (44324 downstream)																							tctgctgaatggtggctctgt	0.075													4	2	---	---	---	---	
RAD9B	144715	broad.mit.edu	37	12	110957214	110957215	+	Intron	INS	-	TTG	TTG			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:110957214_110957215insTTG	uc001trf.3	+						RAD9B_uc001trg.3_Intron|RAD9B_uc010sya.1_Intron|RAD9B_uc001tre.3_Intron|RAD9B_uc001trd.3_Intron	NM_152442	NP_689655	Q6WBX8	RAD9B_HUMAN	RAD9 homolog B						cell cycle checkpoint|DNA repair|DNA replication	nucleoplasm	protein binding			pancreas(1)|skin(1)	2						cggccTACTGTttgttgttgtt	0.010													4	3	---	---	---	---	
Unknown	0	broad.mit.edu	37	12	111403210	111403211	+	IGR	DEL	CC	-	-	rs71927625		TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:111403210_111403211delCC								MYL2 (44806 upstream) : CUX2 (68618 downstream)																							CCCCTCCACACCCCCCCCCCtt	0.337													4	2	---	---	---	---	
C12orf51	283450	broad.mit.edu	37	12	112694531	112694531	+	Intron	DEL	T	-	-			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:112694531delT	uc009zwc.2	-						C12orf51_uc010syk.1_Intron|C12orf51_uc001tts.2_Intron|C12orf51_uc001ttt.3_Intron	NM_001109662	NP_001103132			chromosome 12 open reading frame 51											ovary(1)|lung(1)	2						TTATACTTGCTTTTTTTTTTC	0.328													3	3	---	---	---	---	
Unknown	0	broad.mit.edu	37	12	112759912	112759912	+	IGR	DEL	A	-	-	rs149789820		TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:112759912delA								C12orf51 (15874 upstream) : RPL6 (83083 downstream)																							cttgtctgctaaaaaaaaaaa	0.149													4	2	---	---	---	---	
RPH3A	22895	broad.mit.edu	37	12	113116159	113116159	+	Intron	DEL	A	-	-			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:113116159delA	uc010syl.1	+							NM_001143854	NP_001137326	Q9Y2J0	RP3A_HUMAN	rabphilin 3A homolog isoform 1						intracellular protein transport	cell junction|synaptic vesicle	Rab GTPase binding|transporter activity|zinc ion binding			ovary(3)|central_nervous_system(2)|skin(2)	7				BRCA - Breast invasive adenocarcinoma(302;0.00453)		ggaaggaaggaaaggaaggaa	0.129													4	2	---	---	---	---	
TPCN1	53373	broad.mit.edu	37	12	113698688	113698688	+	Intron	DEL	T	-	-			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:113698688delT	uc001tuw.2	+						TPCN1_uc001tux.2_Intron|TPCN1_uc010syt.1_Intron	NM_017901	NP_060371	Q9ULQ1	TPC1_HUMAN	two pore segment channel 1 isoform 2							endosome membrane|integral to membrane|lysosomal membrane	NAADP-sensitive calcium-release channel activity|voltage-gated ion channel activity			skin(2)|ovary(1)	3						ATTTTAGGaattttttttttt	0.204													4	3	---	---	---	---	
MED13L	23389	broad.mit.edu	37	12	116604114	116604114	+	Intron	DEL	G	-	-			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:116604114delG	uc001tvw.2	-							NM_015335	NP_056150	Q71F56	MD13L_HUMAN	mediator complex subunit 13-like						regulation of transcription from RNA polymerase II promoter|transcription, DNA-dependent					skin(4)|ovary(2)|upper_aerodigestive_tract(1)|lung(1)	8	all_neural(191;0.117)|Medulloblastoma(191;0.163)			BRCA - Breast invasive adenocarcinoma(302;0.0407)		tcagtgggctggggaaagcag	0.000													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	12	117847208	117847219	+	IGR	DEL	ATGGATGGGTGG	-	-	rs73208176	by1000genomes	TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:117847208_117847219delATGGATGGGTGG								NOS1 (47626 upstream) : KSR2 (43598 downstream)																							ggagggatgaatggatgggtggatggatgggt	0.085													5	5	---	---	---	---	
TAOK3	51347	broad.mit.edu	37	12	118675787	118675788	+	Intron	INS	-	C	C			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:118675787_118675788insC	uc001twx.2	-						TAOK3_uc001tww.2_Intron|TAOK3_uc001twy.3_Intron	NM_016281	NP_057365	Q9H2K8	TAOK3_HUMAN	TAO kinase 3						MAPKKK cascade|negative regulation of JNK cascade|positive regulation of JNK cascade|protein autophosphorylation	mitochondrion|plasma membrane	ATP binding|protein kinase inhibitor activity|protein serine/threonine kinase activity			lung(5)|central_nervous_system(1)	6	all_neural(191;0.0804)|Medulloblastoma(191;0.0922)					TGCTTAGGCAACCTAAAAATTG	0.371													12	7	---	---	---	---	
CIT	11113	broad.mit.edu	37	12	120310387	120310388	+	Intron	DEL	CC	-	-			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:120310387_120310388delCC	uc001txi.1	-						CIT_uc001txj.1_Intron	NM_007174	NP_009105	O14578	CTRO_HUMAN	citron						intracellular signal transduction		ATP binding|metal ion binding|protein serine/threonine kinase activity|SH3 domain binding|small GTPase regulator activity			ovary(6)|urinary_tract(1)|lung(1)|breast(1)|skin(1)	10	all_neural(191;0.0804)|Medulloblastoma(191;0.0922)	Myeloproliferative disorder(1001;0.0255)		BRCA - Breast invasive adenocarcinoma(302;0.211)		TGAGGGTTTACCCATAAGTCTT	0.361													4	2	---	---	---	---	
RILPL1	353116	broad.mit.edu	37	12	123957868	123957868	+	Intron	DEL	C	-	-	rs79001007		TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:123957868delC	uc001ufe.2	-						RILPL1_uc001ufd.2_Intron|RILPL1_uc010tas.1_Intron	NM_178314	NP_847884	Q5EBL4	RIPL1_HUMAN	Rab interacting lysosomal protein-like 1						neuroprotection	cytosol					0	all_neural(191;0.101)|Medulloblastoma(191;0.163)			OV - Ovarian serous cystadenocarcinoma(86;0.000224)|Epithelial(86;0.00067)|all cancers(50;0.00836)|BRCA - Breast invasive adenocarcinoma(302;0.197)		tcgagaccagcctggccaacg	0.000													2	4	---	---	---	---	
Unknown	0	broad.mit.edu	37	12	125364008	125364010	+	IGR	DEL	CTG	-	-			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:125364008_125364010delCTG								SCARB1 (15489 upstream) : UBC (32184 downstream)																							TTTAAGGGCTCTGCTATGTTGGA	0.369													2	4	---	---	---	---	
TMEM132C	92293	broad.mit.edu	37	12	129011264	129011264	+	Intron	DEL	G	-	-			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:129011264delG	uc001uhs.3	+							NM_001136103	NP_001129575	Q8N3T6	T132C_HUMAN	transmembrane protein 132C							integral to membrane				central_nervous_system(1)	1						tccctaaggtgggatttgagt	0.000													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	12	131792618	131792619	+	IGR	INS	-	ACAC	ACAC	rs139866147	by1000genomes	TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:131792618_131792619insACAC								LOC116437 (95143 upstream) : SFRS8 (403016 downstream)																							ATGGCTTTTATacacacacaca	0.262													5	4	---	---	---	---	
Unknown	0	broad.mit.edu	37	12	132094823	132094824	+	IGR	INS	-	CT	CT	rs139551511	by1000genomes	TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:132094823_132094824insCT								LOC116437 (397348 upstream) : SFRS8 (100811 downstream)																							GAGTGTCCCCCGTTTTATAGCC	0.554													3	3	---	---	---	---	
Unknown	0	broad.mit.edu	37	13	19746449	19746452	+	IGR	DEL	CCTG	-	-	rs36217642		TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr13:19746449_19746452delCCTG								DKFZp686A1627 (54026 upstream) : TUBA3C (1468 downstream)																							TGCAGTACTTCCTGCCTATCACTG	0.529													3	4	---	---	---	---	
Unknown	0	broad.mit.edu	37	13	21918778	21918779	+	IGR	DEL	CA	-	-			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr13:21918778_21918779delCA								MRP63 (165560 upstream) : ZDHHC20 (31731 downstream)																							CCCCGAACCCCACACACACACA	0.599													3	3	---	---	---	---	
Unknown	0	broad.mit.edu	37	13	24489787	24489788	+	Intron	INS	-	CATT	CATT			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr13:24489787_24489788insCATT	uc001upb.1	-											Homo sapiens cDNA FLJ45359 fis, clone BRHIP3013588.																		actctacctaacattctctaca	0.000													4	2	---	---	---	---	
RNF6	6049	broad.mit.edu	37	13	26716846	26716846	+	Intron	DEL	G	-	-			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr13:26716846delG	uc001uqn.1	-									Q9Y252	RNF6_HUMAN	SubName: Full=RNF6 protein;						negative regulation of axon extension|positive regulation of transcription, DNA-dependent|protein K27-linked ubiquitination|protein K48-linked ubiquitination|protein K6-linked ubiquitination|regulation of androgen receptor signaling pathway|ubiquitin-dependent protein catabolic process	axon|cytoplasm|PML body	androgen receptor binding|ubiquitin-protein ligase activity|zinc ion binding			ovary(1)|skin(1)	2	Colorectal(5;0.000442)	Lung SC(185;0.0156)|Breast(139;0.147)		all cancers(112;0.00893)|Epithelial(112;0.0481)|OV - Ovarian serous cystadenocarcinoma(117;0.148)|GBM - Glioblastoma multiforme(144;0.23)|Lung(94;0.245)		cgatagacatgggggactcca	0.000													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	13	28310137	28310137	+	IGR	DEL	A	-	-			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr13:28310137delA								POLR1D (68590 upstream) : GSX1 (56643 downstream)																							TAGAAACCCTAAGAACTTTTT	0.363													4	2	---	---	---	---	
FLT3	2322	broad.mit.edu	37	13	28651117	28651118	+	Intron	INS	-	AGGG	AGGG	rs9581979		TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr13:28651117_28651118insAGGG	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)	gggagggaggaagggagggaag	0.050			Mis|O		AML|ALL								4	2	---	---	---	---	
SLC7A1	6541	broad.mit.edu	37	13	30117777	30117777	+	Intron	DEL	C	-	-			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr13:30117777delC	uc001uso.2	-							NM_003045	NP_003036	P30825	CTR1_HUMAN	solute carrier family 7 (cationic amino acid						cellular nitrogen compound metabolic process|ion transport	integral to plasma membrane	receptor activity				0		Lung SC(185;0.0257)|Breast(139;0.238)		all cancers(112;0.0148)|OV - Ovarian serous cystadenocarcinoma(117;0.0554)|Epithelial(112;0.0875)|GBM - Glioblastoma multiforme(144;0.179)	L-Arginine(DB00125)|L-Lysine(DB00123)|L-Ornithine(DB00129)	ATCAGAGGTTCCCCaggagga	0.269													4	2	---	---	---	---	
FRY	10129	broad.mit.edu	37	13	32753641	32753642	+	Intron	DEL	TG	-	-	rs35460820		TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr13:32753641_32753642delTG	uc001utx.2	+						FRY_uc010tdw.1_Intron	NM_023037	NP_075463	Q5TBA9	FRY_HUMAN	furry homolog						regulation of transcription, DNA-dependent|transcription, DNA-dependent	integral to membrane				ovary(5)|large_intestine(1)|skin(1)	7		Lung SC(185;0.0271)		all cancers(112;4.81e-05)|Epithelial(112;0.000656)|OV - Ovarian serous cystadenocarcinoma(117;0.0123)|BRCA - Breast invasive adenocarcinoma(63;0.0295)|GBM - Glioblastoma multiforme(144;0.104)		GTATTAAATTtgtgtgtgtgtg	0.248													4	3	---	---	---	---	
Unknown	0	broad.mit.edu	37	13	47111567	47111568	+	IGR	DEL	TC	-	-			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr13:47111567_47111568delTC								C13orf18 (99242 upstream) : LRCH1 (15728 downstream)																							tgcctttctttctctctctctc	0.000													4	3	---	---	---	---	
Unknown	0	broad.mit.edu	37	13	48356804	48356804	+	IGR	DEL	A	-	-			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr13:48356804delA								HTR2A (885754 upstream) : SUCLA2 (159988 downstream)																							agggtattccaagacctgcag	0.000													4	3	---	---	---	---	
DLEU1	10301	broad.mit.edu	37	13	50834462	50834463	+	Intron	INS	-	TT	TT			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr13:50834462_50834463insTT	uc010adl.1	+						DLEU1_uc001vee.1_Intron|DLEU1_uc010adm.1_Intron|DLEU1_uc010adn.1_Intron|DLEU1_uc001vef.1_Intron|DLEU1_uc001veg.1_Intron|DLEU1_uc010tgn.1_Intron|DLEU1_uc001vei.1_Intron|DLEU1_uc010ado.1_Intron|DLEU1_uc010adp.1_Intron|uc001vek.1_Intron|uc001vel.1_Intron|uc001vem.1_Intron|uc001ven.1_Intron					Homo sapiens XTP6 (XTP6) mRNA, complete cds.												0						ccaatatgttcttttttttttt	0.089													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	13	76909030	76909030	+	IGR	DEL	C	-	-			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr13:76909030delC								LMO7 (475026 upstream) : KCTD12 (545274 downstream)																							TTCCATTATTCCATGTAGAGC	0.433													4	2	---	---	---	---	
DZIP1	22873	broad.mit.edu	37	13	96271941	96271942	+	Intron	INS	-	A	A			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr13:96271941_96271942insA	uc001vmk.2	-						DZIP1_uc001vml.2_Intron	NM_198968	NP_945319	Q86YF9	DZIP1_HUMAN	DAZ interacting protein 1 isoform 2						germ cell development|multicellular organismal development|spermatogenesis	cytoplasm|nucleus	nucleic acid binding|protein binding|zinc ion binding			ovary(2)	2	all_neural(89;0.0878)|Breast(111;0.148)|Medulloblastoma(90;0.163)		BRCA - Breast invasive adenocarcinoma(86;0.141)			AGTTTCATGAGAAAAAAAAAAA	0.257													4	2	---	---	---	---	
HS6ST3	266722	broad.mit.edu	37	13	96823187	96823188	+	Intron	INS	-	CA	CA			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr13:96823187_96823188insCA	uc001vmw.2	+							NM_153456	NP_703157	Q8IZP7	H6ST3_HUMAN	heparan sulfate 6-O-sulfotransferase 3							integral to membrane	sulfotransferase activity			ovary(1)|skin(1)	2	all_neural(89;0.0878)|Medulloblastoma(90;0.163)					GCGCACGTGCGCACACACACAC	0.396													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	13	112220706	112220707	+	IGR	INS	-	G	G	rs148032942		TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr13:112220706_112220707insG								C13orf16 (224113 upstream) : SOX1 (501206 downstream)																							TGGACCTTGTCACCCCCACGCT	0.540													5	3	---	---	---	---	
GRTP1	79774	broad.mit.edu	37	13	114013864	114013864	+	Intron	DEL	G	-	-			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr13:114013864delG	uc001vtn.2	-						GRTP1_uc010tkc.1_Intron|GRTP1_uc010agv.1_Intron	NM_024719	NP_078995	Q5TC63	GRTP1_HUMAN	growth hormone regulated TBC protein 1							intracellular	Rab GTPase activator activity				0	Lung NSC(43;0.0161)|all_neural(89;0.0337)|Hepatocellular(20;0.0877)|Medulloblastoma(90;0.163)|Lung SC(71;0.218)	all_cancers(25;0.0314)|all_epithelial(44;0.011)|all_lung(25;0.0271)|Lung NSC(25;0.0978)|Breast(118;0.188)	all cancers(43;0.025)|GBM - Glioblastoma multiforme(44;0.206)|Epithelial(84;0.246)			cctcctgcctgggtgacagag	0.050													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	14	20400493	20400495	+	IGR	DEL	TCC	-	-	rs113089255		TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr14:20400493_20400495delTCC								OR4K5 (10758 upstream) : OR4K1 (3331 downstream)																							ccttttttcttcctcctcctcct	0.172													5	3	---	---	---	---	
CCNB1IP1	57820	broad.mit.edu	37	14	20782696	20782696	+	Intron	DEL	G	-	-			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr14:20782696delG	uc001vwv.2	-						CCNB1IP1_uc001vww.2_Intron|CCNB1IP1_uc001vwx.2_Intron|CCNB1IP1_uc001vwy.2_Intron|CCNB1IP1_uc001vwz.2_Intron	NM_182851	NP_878271	Q9NPC3	CIP1_HUMAN	cyclin B1 interacting protein 1 isoform 3							chromosome|nucleus	ligase activity|metal ion binding|protein binding		HMGA2/CCNB1IP1(2)	soft_tissue(2)|ovary(1)	3	all_cancers(95;0.00092)	all_lung(585;0.235)	Epithelial(56;8.86e-07)|all cancers(55;4.98e-06)	GBM - Glioblastoma multiforme(265;0.0164)		aaatccaggtggatcttggat	0.000			T	HMGA2	leiomyoma								4	4	---	---	---	---	
MYH7	4625	broad.mit.edu	37	14	23900948	23900948	+	Intron	DEL	C	-	-			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr14:23900948delC	uc001wjx.2	-							NM_000257	NP_000248	P12883	MYH7_HUMAN	myosin, heavy chain 7, cardiac muscle, beta						adult heart development|muscle filament sliding|regulation of heart rate|ventricular cardiac muscle tissue morphogenesis	focal adhesion|muscle myosin complex|myosin filament|nucleus|sarcomere	actin binding|actin-dependent ATPase activity|ATP binding|calmodulin binding|microfilament motor activity|structural constituent of muscle			ovary(3)|skin(1)	4	all_cancers(95;2.54e-05)			GBM - Glioblastoma multiforme(265;0.00725)		CGGTACAGGACCTTGGAGGGC	0.602													40	35	---	---	---	---	
JPH4	84502	broad.mit.edu	37	14	24043147	24043148	+	Intron	DEL	AC	-	-	rs35127620		TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr14:24043147_24043148delAC	uc001wkq.2	-						JPH4_uc010tnr.1_5'Flank|JPH4_uc001wkr.2_Intron	NM_032452	NP_115828	Q96JJ6	JPH4_HUMAN	junctophilin 4						calcium ion transport into cytosol|regulation of ryanodine-sensitive calcium-release channel activity	integral to membrane|junctional sarcoplasmic reticulum membrane				ovary(1)|pancreas(1)	2	all_cancers(95;0.000251)			GBM - Glioblastoma multiforme(265;0.00654)		TCTCTCTGTAacacacacacac	0.317													5	3	---	---	---	---	
NFATC4	4776	broad.mit.edu	37	14	24837338	24837338	+	5'UTR	DEL	G	-	-	rs3215609		TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr14:24837338delG	uc001wpc.2	+	1					NFATC4_uc010tok.1_Intron|NFATC4_uc010tol.1_Intron|NFATC4_uc010alr.2_Intron|NFATC4_uc010als.2_Intron|NFATC4_uc010tom.1_Intron|NFATC4_uc010ton.1_Intron|NFATC4_uc010too.1_Intron|NFATC4_uc010alt.2_Intron|NFATC4_uc010top.1_Intron|NFATC4_uc010toq.1_Intron|NFATC4_uc010alu.2_5'UTR|NFATC4_uc010tor.1_5'UTR|NFATC4_uc010tos.1_5'Flank|NFATC4_uc010tot.1_5'Flank|NFATC4_uc010tou.1_5'Flank|NFATC4_uc010tov.1_5'Flank|NFATC4_uc010tow.1_5'Flank|NFATC4_uc010alv.2_5'Flank|NFATC4_uc010tox.1_5'Flank	NM_004554	NP_004545	Q14934	NFAC4_HUMAN	nuclear factor of activated T-cells,						cell differentiation|inflammatory response|transcription from RNA polymerase II promoter	cytoplasm|intermediate filament cytoskeleton|nucleus	DNA binding|sequence-specific DNA binding transcription factor activity|transcription coactivator activity			ovary(1)|central_nervous_system(1)|skin(1)	3				GBM - Glioblastoma multiforme(265;0.018)		GGGACAGGCTGGGGGGGGGAC	0.507													4	3	---	---	---	---	
Unknown	0	broad.mit.edu	37	14	25792202	25792202	+	IGR	DEL	C	-	-			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr14:25792202delC								STXBP6 (273031 upstream) : None (None downstream)																							cttttcctctcccaagagcac	0.000													4	2	---	---	---	---	
HEATR5A	25938	broad.mit.edu	37	14	31818589	31818590	+	Intron	INS	-	A	A			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr14:31818589_31818590insA	uc001wrf.3	-						HEATR5A_uc010ami.2_Intron|HEATR5A_uc001wrg.1_Intron|HEATR5A_uc010tpk.1_Intron	NM_015473	NP_056288	Q86XA9	HTR5A_HUMAN	HEAT repeat containing 5A								binding			ovary(1)	1	Hepatocellular(127;0.0877)|Breast(36;0.137)		LUAD - Lung adenocarcinoma(48;0.00292)|Lung(238;0.0164)|BRCA - Breast invasive adenocarcinoma(188;0.0797)|STAD - Stomach adenocarcinoma(7;0.173)	GBM - Glioblastoma multiforme(265;0.0059)		gactccgtctcaaaaaaaaaaa	0.153													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	14	35384952	35384952	+	IGR	DEL	T	-	-	rs143684318		TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr14:35384952delT								BAZ1A (40099 upstream) : C14orf19 (24176 downstream)																							GTCAACAttcttttttttttt	0.144													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	14	35390295	35390296	+	IGR	INS	-	T	T	rs113610910		TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr14:35390295_35390296insT								BAZ1A (45442 upstream) : C14orf19 (18832 downstream)																							CACATATTGCAttttttttttt	0.188													5	3	---	---	---	---	
Unknown	0	broad.mit.edu	37	14	35865017	35865017	+	IGR	DEL	A	-	-			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr14:35865017delA								KIAA0391 (78344 upstream) : NFKBIA (5700 downstream)																							actctgtctcaaaaaaaaaaa	0.199													4	2	---	---	---	---	
BRMS1L	84312	broad.mit.edu	37	14	36328150	36328150	+	Intron	DEL	T	-	-			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr14:36328150delT	uc001wtl.2	+						BRMS1L_uc010tpx.1_Intron	NM_032352	NP_115728	Q5PSV4	BRM1L_HUMAN	breast cancer metastasis-suppressor 1-like						regulation of growth|regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus				skin(1)	1	Breast(36;0.137)|Hepatocellular(127;0.158)		Lung(8;1.7e-07)|LUAD - Lung adenocarcinoma(9;3e-07)|Epithelial(34;0.00467)|all cancers(34;0.0157)|BRCA - Breast invasive adenocarcinoma(188;0.158)	GBM - Glioblastoma multiforme(112;0.0333)		atcttacccattttttttttt	0.000													4	4	---	---	---	---	
MIPOL1	145282	broad.mit.edu	37	14	37995575	37995575	+	Intron	DEL	T	-	-			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr14:37995575delT	uc001wuc.2	+						MIPOL1_uc001wub.3_Intron|MIPOL1_uc001wud.2_Intron|MIPOL1_uc010ams.2_Intron|MIPOL1_uc001wue.2_Intron|MIPOL1_uc010amt.2_Intron	NM_138731	NP_620059	Q8TD10	MIPO1_HUMAN	mirror-image polydactyly 1											ovary(1)|central_nervous_system(1)	2	Breast(36;0.119)|Esophageal squamous(585;0.164)|Hepatocellular(127;0.213)		Lung(238;6.03e-07)|LUAD - Lung adenocarcinoma(48;2.48e-05)|Epithelial(34;0.047)|all cancers(34;0.0953)|LUSC - Lung squamous cell carcinoma(13;0.0975)|BRCA - Breast invasive adenocarcinoma(188;0.196)	GBM - Glioblastoma multiforme(112;0.0358)		acttcttttcttttttttttt	0.144													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	14	38660092	38660092	+	IGR	DEL	C	-	-			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr14:38660092delC								FOXA1 (595603 upstream) : SSTR1 (17112 downstream)																							caccttgcgacccccactcct	0.000													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	14	39850549	39850552	+	IGR	DEL	ACAC	-	-			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr14:39850549_39850552delACAC								CTAGE5 (30154 upstream) : FBXO33 (16326 downstream)																							ccttttaaatacacacacacacat	0.000													4	2	---	---	---	---	
MDGA2	161357	broad.mit.edu	37	14	47766682	47766696	+	Intron	DEL	GGAGTGGAGGGGTGT	-	-	rs140027848	by1000genomes	TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr14:47766682_47766696delGGAGTGGAGGGGTGT	uc001wwj.3	-						MDGA2_uc001wwi.3_Intron|MDGA2_uc010ani.2_Intron	NM_001113498	NP_001106970	Q7Z553	MDGA2_HUMAN	MAM domain containing 1 isoform 1						spinal cord motor neuron differentiation	anchored to membrane|plasma membrane				ovary(4)|large_intestine(1)|pancreas(1)	6						gaagggaaggggagtggaggggtgtgaagggaagg	0.112													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	14	51745527	51745527	+	IGR	DEL	A	-	-			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr14:51745527delA								TMX1 (21157 upstream) : FRMD6 (210328 downstream)																							TTATGGAACCACttttttttt	0.209													4	2	---	---	---	---	
FRMD6	122786	broad.mit.edu	37	14	51957110	51957111	+	Intron	DEL	AG	-	-			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr14:51957110_51957111delAG	uc001wzb.2	+							NM_001042481	NP_001035946	Q96NE9	FRMD6_HUMAN	FERM domain containing 6							cytoskeleton|mitochondrion|plasma membrane	binding			ovary(1)|breast(1)|central_nervous_system(1)	3	all_epithelial(31;0.0163)|Breast(41;0.089)					TATTTATGACAGAGAGAGAGAG	0.391													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	14	52704075	52704076	+	IGR	INS	-	C	C	rs142565131		TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr14:52704075_52704076insC								NID2 (168129 upstream) : PTGDR (30355 downstream)																							aaaactttttttttttttaact	0.000													4	2	---	---	---	---	
SLC35F4	341880	broad.mit.edu	37	14	58055307	58055307	+	Intron	DEL	A	-	-			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr14:58055307delA	uc001xdb.1	-						SLC35F4_uc010aoz.1_Intron|SLC35F4_uc010apa.1_Intron	NM_001080455	NP_001073924			solute carrier family 35, member F4											ovary(2)	2						CTGGAACCATAAGACTTTAAG	0.483													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	14	58255694	58255694	+	IGR	DEL	A	-	-			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr14:58255694delA								SLC35F4 (192079 upstream) : C14orf37 (215115 downstream)																							gaacaaagataaagtgtacca	0.000													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	14	59289284	59289285	+	IGR	INS	-	T	T	rs141240337		TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr14:59289284_59289285insT								DACT1 (174248 upstream) : DAAM1 (366114 downstream)																							gtgtgtgtgtgtgtgtgtgtgt	0.183													4	3	---	---	---	---	
DAAM1	23002	broad.mit.edu	37	14	59748243	59748245	+	Intron	DEL	GGA	-	-			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr14:59748243_59748245delGGA	uc001xdz.1	+						DAAM1_uc001xea.1_Intron|DAAM1_uc001xeb.1_Intron	NM_014992	NP_055807	Q9Y4D1	DAAM1_HUMAN	dishevelled-associated activator of						actin cytoskeleton organization	cytoplasm|plasma membrane	actin binding|Rho GTPase binding			ovary(1)	1				OV - Ovarian serous cystadenocarcinoma(108;0.165)		TGCTGCTGTTggaggaggaggag	0.197													4	2	---	---	---	---	
GPR135	64582	broad.mit.edu	37	14	59912115	59912115	+	Intron	DEL	A	-	-			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr14:59912115delA	uc001xed.2	-							NM_022571		Q8IZ08	GP135_HUMAN	G protein-coupled receptor 135							integral to membrane|plasma membrane	G-protein coupled receptor activity				0				OV - Ovarian serous cystadenocarcinoma(108;0.134)		cgaccagcccaaaaaacatct	0.144													4	2	---	---	---	---	
SNAPC1	6617	broad.mit.edu	37	14	62246426	62246427	+	Intron	INS	-	T	T	rs5809124		TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr14:62246426_62246427insT	uc001xft.2	+							NM_003082	NP_003073	Q16533	SNPC1_HUMAN	small nuclear RNA activating complex,						regulation of transcription, DNA-dependent|transcription from RNA polymerase III promoter	nucleoplasm	DNA binding				0				OV - Ovarian serous cystadenocarcinoma(108;0.0639)|BRCA - Breast invasive adenocarcinoma(234;0.186)		cactttgttggttttttttttt	0.000													4	2	---	---	---	---	
ESR2	2100	broad.mit.edu	37	14	64751569	64751569	+	Intron	DEL	T	-	-	rs36101201		TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr14:64751569delT	uc001xha.1	-						ESR2_uc001xgu.2_Intron|ESR2_uc001xgv.2_Intron|ESR2_uc001xgw.2_Intron|ESR2_uc001xgx.2_Intron|ESR2_uc001xgy.1_5'Flank|ESR2_uc001xgz.1_5'Flank|ESR2_uc010aqb.1_5'Flank|ESR2_uc010aqc.1_5'Flank	NM_001437	NP_001428	Q92731	ESR2_HUMAN	estrogen receptor beta isoform 1						cell-cell signaling|negative regulation of cell growth|regulation of transcription from RNA polymerase II promoter by nuclear hormone receptor	mitochondrion|nucleoplasm	enzyme binding|estrogen receptor activity|receptor antagonist activity|sequence-specific DNA binding transcription factor activity|steroid binding|transcription coactivator activity|zinc ion binding			central_nervous_system(2)|ovary(1)	3				all cancers(60;0.00916)|OV - Ovarian serous cystadenocarcinoma(108;0.0111)|BRCA - Breast invasive adenocarcinoma(234;0.0437)	Bicalutamide(DB01128)|Estradiol(DB00783)|Estramustine(DB01196)|Raloxifene(DB00481)|Tamoxifen(DB00675)|Trilostane(DB01108)	ATCGCATTACttttttttttt	0.194													4	2	---	---	---	---	
SPTB	6710	broad.mit.edu	37	14	65281740	65281741	+	Intron	INS	-	TGTGTGTGCA	TGTGTGTGCA	rs141303230	by1000genomes	TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr14:65281740_65281741insTGTGTGTGCA	uc001xht.2	-						SPTB_uc001xhr.2_Intron|SPTB_uc001xhs.2_Intron|SPTB_uc001xhu.2_Intron	NM_000347	NP_000338	P11277	SPTB1_HUMAN	spectrin beta isoform b						actin filament capping|axon guidance	cell surface|cytosol|intrinsic to internal side of plasma membrane|protein complex|spectrin|spectrin-associated cytoskeleton	actin filament binding|structural constituent of cytoskeleton			ovary(7)|skin(2)|lung(1)|central_nervous_system(1)	11		all_lung(585;4.15e-09)		all cancers(60;4.33e-34)|OV - Ovarian serous cystadenocarcinoma(108;8.32e-20)|BRCA - Breast invasive adenocarcinoma(234;0.0628)		GTGTGTATGTGTGTGTGTGCAT	0.465													3	3	---	---	---	---	
Unknown	0	broad.mit.edu	37	14	66285968	66285969	+	IGR	DEL	CA	-	-	rs113157485		TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr14:66285968_66285969delCA								FUT8 (76007 upstream) : C14orf53 (667140 downstream)																							atatacacatcacacacacaca	0.188													5	3	---	---	---	---	
Unknown	0	broad.mit.edu	37	14	73377848	73377848	+	IGR	DEL	A	-	-			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr14:73377848delA								DPF3 (17039 upstream) : DCAF4 (15192 downstream)																							actctgtctcaaaaaaaaaaa	0.129													4	2	---	---	---	---	
PROX2	283571	broad.mit.edu	37	14	75327075	75327076	+	Intron	INS	-	A	A	rs147909431	by1000genomes	TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr14:75327075_75327076insA	uc001xqr.1	-						PROX2_uc001xqq.1_Intron	NM_001080408	NP_001073877	Q3B8N5	PROX2_HUMAN	prospero homeobox 2						multicellular organismal development|regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding				0			KIRC - Kidney renal clear cell carcinoma(43;0.238)	BRCA - Breast invasive adenocarcinoma(234;0.00652)		gttttgctaccaaaaaaaaaag	0.000													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	14	78121202	78121203	+	IGR	INS	-	GT	GT			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr14:78121202_78121203insGT								SPTLC2 (38092 upstream) : ALKBH1 (17546 downstream)																							GGTGGAGGGAGGGgtgtgtgtg	0.426											OREG0022839	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	6	3	---	---	---	---	
ALKBH1	8846	broad.mit.edu	37	14	78155509	78155509	+	Intron	DEL	C	-	-			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr14:78155509delC	uc001xuc.1	-						ALKBH1_uc001xud.1_Intron	NM_006020	NP_006011	Q13686	ALKB1_HUMAN	alkylated DNA repair protein alkB homolog						DNA dealkylation involved in DNA repair|DNA demethylation|oxidative demethylation|RNA repair	mitochondrion	DNA-(apurinic or apyrimidinic site) lyase activity|ferrous iron binding|methylcytosine dioxygenase activity|oxidoreductase activity, acting on single donors with incorporation of molecular oxygen, incorporation of two atoms of oxygen			ovary(1)|skin(1)	2			Kidney(204;0.164)	BRCA - Breast invasive adenocarcinoma(234;0.0291)		ctactccactctcagcctagc	0.104													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	14	80887054	80887054	+	Intron	DEL	T	-	-			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr14:80887054delT	uc001xuw.1	+											Homo sapiens, clone IMAGE:5167652, mRNA.																		gtcttcaaccttttttttttt	0.000													4	3	---	---	---	---	
Unknown	0	broad.mit.edu	37	14	84816332	84816333	+	IGR	INS	-	A	A			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr14:84816332_84816333insA								None (None upstream) : None (None downstream)																							ACAGAATGCTTAAAAAAAAAAA	0.193													3	3	---	---	---	---	
Unknown	0	broad.mit.edu	37	14	85760478	85760479	+	IGR	DEL	AC	-	-			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr14:85760478_85760479delAC								None (None upstream) : FLRT2 (236009 downstream)																							ATCACACCAAacacacacacac	0.371													4	4	---	---	---	---	
Unknown	0	broad.mit.edu	37	14	85789101	85789101	+	IGR	DEL	G	-	-			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr14:85789101delG								None (None upstream) : FLRT2 (207387 downstream)																							attttaaacaggaaagtgaga	0.000													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	14	87130859	87130860	+	IGR	INS	-	T	T	rs35235154		TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr14:87130859_87130860insT								None (None upstream) : None (None downstream)																							TATGAACACACttttttttttt	0.193													1	5	---	---	---	---	
Unknown	0	broad.mit.edu	37	14	87372333	87372334	+	RNA	INS	-	CT	CT	rs145921920	by1000genomes	TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr14:87372333_87372334insCT	uc001xvs.2	+	1		c.209_210insCT								Homo sapiens cDNA clone IMAGE:4821442.																		cacgctgtcacctcGTCTCTAC	0.188													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	14	87523943	87523944	+	IGR	DEL	TT	-	-	rs10603788		TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr14:87523943_87523944delTT								None (None upstream) : GALC (780220 downstream)																							TAAAACACAGTTTATGGGAAAG	0.342													3	3	---	---	---	---	
FOXN3	1112	broad.mit.edu	37	14	89900157	89900157	+	Intron	DEL	A	-	-			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr14:89900157delA	uc001xxo.3	-						FOXN3_uc010atk.2_Intron|FOXN3_uc001xxp.2_Intron	NM_001085471	NP_001078940	O00409	FOXN3_HUMAN	checkpoint suppressor 1 isoform 1						DNA damage checkpoint|embryo development|G2 phase of mitotic cell cycle|negative regulation of transcription, DNA-dependent|pattern specification process|regulation of sequence-specific DNA binding transcription factor activity|tissue development	transcription factor complex	DNA bending activity|double-stranded DNA binding|promoter binding|protein C-terminus binding|sequence-specific DNA binding|sequence-specific enhancer binding RNA polymerase II transcription factor activity|specific RNA polymerase II transcription factor activity|specific transcriptional repressor activity|transcription activator activity|transcription factor binding			skin(2)|ovary(1)	3						ctctgtctccaaaaaaaaaaa	0.149													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	14	93252576	93252576	+	IGR	DEL	G	-	-			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr14:93252576delG								LGMN (37564 upstream) : GOLGA5 (8074 downstream)																							cctgtgggttgggggctctct	0.000													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	14	95545079	95545081	+	IGR	DEL	AAA	-	-	rs10532024		TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr14:95545079_95545081delAAA								GSC (308580 upstream) : DICER1 (7484 downstream)																							ACCAAAAAACAAAAAAAAAAAAC	0.498													4	5	---	---	---	---	
CLMN	79789	broad.mit.edu	37	14	95701458	95701459	+	Intron	INS	-	CA	CA	rs140586255	by1000genomes	TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr14:95701458_95701459insCA	uc001yef.2	-							NM_024734	NP_079010	Q96JQ2	CLMN_HUMAN	calmin							integral to membrane	actin binding				0				Epithelial(152;0.193)		tctctctctctcACACACACAC	0.134													5	3	---	---	---	---	
Unknown	0	broad.mit.edu	37	14	96258620	96258620	+	IGR	DEL	G	-	-			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr14:96258620delG								TCL1A (78087 upstream) : C14orf132 (247042 downstream)																							aagtgctgctgggagggttaa	0.114													2	4	---	---	---	---	
Unknown	0	broad.mit.edu	37	14	96410154	96410155	+	IGR	INS	-	A	A	rs144196106	by1000genomes	TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr14:96410154_96410155insA								TCL1A (229621 upstream) : C14orf132 (95507 downstream)																							GCCAGTCATTTAAAAAAAAAAG	0.465													7	4	---	---	---	---	
BDKRB2	624	broad.mit.edu	37	14	96694022	96694023	+	Intron	DEL	AC	-	-	rs34882192		TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr14:96694022_96694023delAC	uc010avm.1	+						BDKRB2_uc010avl.1_Intron|BDKRB2_uc010twu.1_Intron|BDKRB2_uc001yfg.2_Intron	NM_000623	NP_000614	P30411	BKRB2_HUMAN	bradykinin receptor B2						arachidonic acid secretion|elevation of cytosolic calcium ion concentration|transmembrane receptor protein tyrosine kinase signaling pathway	endosome|integral to plasma membrane	bradykinin receptor activity|phosphatidylinositol phospholipase C activity|protease binding|protein heterodimerization activity|type 1 angiotensin receptor binding			ovary(3)|breast(1)|kidney(1)	5		all_cancers(154;0.0678)|Melanoma(154;0.155)|all_epithelial(191;0.179)		COAD - Colon adenocarcinoma(157;0.226)		gtgcacacaaacacacacatgc	0.178													4	4	---	---	---	---	
Unknown	0	broad.mit.edu	37	14	97084440	97084441	+	IGR	INS	-	C	C	rs143291780	by1000genomes	TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr14:97084440_97084441insC								PAPOLA (50994 upstream) : VRK1 (179243 downstream)																							TTTTCCTGGGACCCTGCTTCCC	0.327													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	14	97830872	97830872	+	IGR	DEL	T	-	-			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr14:97830872delT								VRK1 (482922 upstream) : C14orf64 (561075 downstream)																							CCTTTTAGTATTTTTTTTTTT	0.368													4	2	---	---	---	---	
C14orf70	283601	broad.mit.edu	37	14	101136001	101136002	+	Intron	DEL	AC	-	-	rs71872407		TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr14:101136001_101136002delAC	uc001yhr.1	+							NR_024096				Homo sapiens cDNA FLJ36778 fis, clone ADRGL2001301.												0						CCTTGCTCCAACACACACACAC	0.495													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	14	101756611	101756614	+	IGR	DEL	ACAC	-	-	rs66872746		TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr14:101756611_101756614delACAC								MIR656 (223473 upstream) : DIO3OS (261946 downstream)																							gcatacataaacacacacacacac	0.353													3	4	---	---	---	---	
HSP90AA1	3320	broad.mit.edu	37	14	102576740	102576743	+	Intron	DEL	TTTG	-	-	rs34904342		TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr14:102576740_102576743delTTTG	uc001ykv.3	-							NM_001017963	NP_001017963	P07900	HS90A_HUMAN	heat shock 90kDa protein 1, alpha isoform 1						axon guidance|cellular chaperone-mediated protein complex assembly|G2/M transition of mitotic cell cycle|nitric oxide metabolic process|positive regulation of nitric oxide biosynthetic process|protein import into mitochondrial outer membrane|protein refolding|regulation of nitric-oxide synthase activity|response to unfolded protein|signal transduction	cytosol|melanosome|plasma membrane	ATP binding|ATPase activity|nitric-oxide synthase regulator activity|protein homodimerization activity|TPR domain binding|unfolded protein binding			ovary(2)|central_nervous_system(2)|prostate(1)|lung(1)|breast(1)	7					Rifabutin(DB00615)	ggcattcagttttgtttgtttgtt	0.000													2	4	---	---	---	---	
RCOR1	23186	broad.mit.edu	37	14	103191359	103191359	+	Intron	DEL	A	-	-			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr14:103191359delA	uc001ymb.2	+							NM_015156	NP_055971	Q9UKL0	RCOR1_HUMAN	REST corepressor 1						blood coagulation|histone H4 deacetylation|interspecies interaction between organisms	transcriptional repressor complex	protein binding|RNA polymerase II core promoter proximal region sequence-specific DNA binding transcription factor activity involved in negative regulation of transcription|transcription regulatory region DNA binding			ovary(1)	1						TTCAGGGCTTAGAGGCAGGTA	0.408													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	14	103615591	103615593	+	IGR	DEL	AAA	-	-	rs141928659		TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr14:103615591_103615593delAAA								TNFAIP2 (11815 upstream) : EIF5 (184900 downstream)																							actccatctcaaaaaaaaaaaaa	0.177													4	3	---	---	---	---	
PPP1R13B	23368	broad.mit.edu	37	14	104234455	104234456	+	Intron	INS	-	T	T	rs34489666		TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr14:104234455_104234456insT	uc001yof.1	-						PPP1R13B_uc001yog.1_Intron	NM_015316	NP_056131	Q96KQ4	ASPP1_HUMAN	apoptosis-stimulating protein of p53, 1						apoptosis|induction of apoptosis|negative regulation of cell cycle	cytoplasm|nucleus|plasma membrane	protein binding			ovary(1)	1		all_cancers(154;0.173)|all_epithelial(191;0.131)|Melanoma(154;0.155)				TGAGTGTCttcttttttttttt	0.153													3	3	---	---	---	---	
Unknown	0	broad.mit.edu	37	14	104673100	104673101	+	IGR	DEL	GT	-	-	rs72717010		TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr14:104673100_104673101delGT								KIF26A (25866 upstream) : C14orf180 (372955 downstream)																							GACACACACAgtgtgtgtgtgt	0.535													5	4	---	---	---	---	
Unknown	0	broad.mit.edu	37	14	105565040	105565041	+	IGR	INS	-	TC	TC	rs10686748		TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr14:105565040_105565041insTC								GPR132 (33286 upstream) : JAG2 (43036 downstream)																							tgattacaAttttttttttgag	0.000													5	5	---	---	---	---	
ADAM6	8755	broad.mit.edu	37	14	106707951	106707952	+	Intron	DEL	TT	-	-			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr14:106707951_106707952delTT	uc010tyt.1	-											Parts of antibodies, mostly variable regions.												0						cgtggaaaagtttgaaatttcc	0.000													2	4	---	---	---	---	
ADAM6	8755	broad.mit.edu	37	14	107181867	107181868	+	Intron	INS	-	G	G	rs139211115		TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr14:107181867_107181868insG	uc010tyt.1	-											Parts of antibodies, mostly variable regions.												0						agatcacttttttgccatcctg	0.000													3	6	---	---	---	---	
ADAM6	8755	broad.mit.edu	37	14	107185668	107185668	+	Intron	DEL	G	-	-	rs66820495		TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr14:107185668delG	uc010tyt.1	-											Parts of antibodies, mostly variable regions.												0						GGTTCTGTGTGGGGAAGTGGA	0.483													3	4	---	---	---	---	
Unknown	0	broad.mit.edu	37	15	20012456	20012456	+	IGR	DEL	A	-	-			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr15:20012456delA								None (None upstream) : GOLGA6L6 (724638 downstream)																							atatgaagatatttccttttc	0.000													6	3	---	---	---	---	
Unknown	0	broad.mit.edu	37	15	20105569	20105570	+	IGR	INS	-	A	A	rs150211308		TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr15:20105569_20105570insA								None (None upstream) : GOLGA6L6 (631524 downstream)																							AAAGATCCCCCTGGAAATTAGG	0.381													2	5	---	---	---	---	
Unknown	0	broad.mit.edu	37	15	20310091	20310092	+	IGR	INS	-	T	T			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr15:20310091_20310092insT								None (None upstream) : GOLGA6L6 (427002 downstream)																							gcatggctggcttggctgactg	0.000													4	3	---	---	---	---	
Unknown	0	broad.mit.edu	37	15	20515151	20515153	+	IGR	DEL	ATG	-	-			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr15:20515151_20515153delATG								None (None upstream) : GOLGA6L6 (221941 downstream)																							aaatgatgaaatgatgagatgtg	0.000													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	15	20620346	20620348	+	Intron	DEL	ATT	-	-			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr15:20620346_20620348delATT	uc001ytg.2	-						uc010tyx.1_Intron|uc001yth.3_Intron					RecName: Full=Putative HERC2-like protein 3;																		aaagtctcccattattattgtgt	0.000													4	3	---	---	---	---	
Unknown	0	broad.mit.edu	37	15	22177755	22177756	+	IGR	INS	-	T	T			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr15:22177755_22177756insT								CXADRP2 (160877 upstream) : LOC727924 (100276 downstream)																							ACTATCGACCATTTTTTCTGTG	0.441													4	2	---	---	---	---	
OR4N4	283694	broad.mit.edu	37	15	22325871	22325872	+	Intron	INS	-	C	C	rs143935447	by1000genomes	TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr15:22325871_22325872insC	uc001yuc.1	+						LOC727924_uc001ytz.1_Intron|LOC727924_uc001yua.2_Intron|LOC727924_uc001yub.1_Intron	NM_001005241	NP_001005241	Q8N0Y3	OR4N4_HUMAN	olfactory receptor, family 4, subfamily N,						sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(4)|skin(1)	5		all_cancers(20;1.94e-20)|all_epithelial(15;3.94e-18)|Lung NSC(15;8.53e-15)|all_lung(15;2.87e-14)|Breast(32;0.00519)|Colorectal(260;0.101)	GBM - Glioblastoma multiforme(6;0.124)	all cancers(64;1.64e-11)|Epithelial(43;5.81e-10)|BRCA - Breast invasive adenocarcinoma(123;0.000255)|Kidney(6;0.00736)|KIRC - Kidney renal clear cell carcinoma(6;0.0135)|GBM - Glioblastoma multiforme(186;0.0963)		gacccataggtcaatggaacag	0.000													4	2	---	---	---	---	
OR4N4	283694	broad.mit.edu	37	15	22334928	22334929	+	Intron	INS	-	AGAGAC	AGAGAC	rs139309913	by1000genomes	TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr15:22334928_22334929insAGAGAC	uc001yuc.1	+						LOC727924_uc001ytz.1_Intron|LOC727924_uc001yua.2_Intron|LOC727924_uc001yub.1_Intron	NM_001005241	NP_001005241	Q8N0Y3	OR4N4_HUMAN	olfactory receptor, family 4, subfamily N,						sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(4)|skin(1)	5		all_cancers(20;1.94e-20)|all_epithelial(15;3.94e-18)|Lung NSC(15;8.53e-15)|all_lung(15;2.87e-14)|Breast(32;0.00519)|Colorectal(260;0.101)	GBM - Glioblastoma multiforme(6;0.124)	all cancers(64;1.64e-11)|Epithelial(43;5.81e-10)|BRCA - Breast invasive adenocarcinoma(123;0.000255)|Kidney(6;0.00736)|KIRC - Kidney renal clear cell carcinoma(6;0.0135)|GBM - Glioblastoma multiforme(186;0.0963)		gtatttttagtagggtctctcc	0.000													4	3	---	---	---	---	
Unknown	0	broad.mit.edu	37	15	24157464	24157473	+	IGR	DEL	ACTCCCCTAG	-	-	rs11279527		TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr15:24157464_24157473delACTCCCCTAG								NDN (225014 upstream) : PWRN2 (252453 downstream)																							GTGACTTTCTACTCCCCTAGCAACAGCCAG	0.519													3	3	---	---	---	---	
Unknown	0	broad.mit.edu	37	15	24375327	24375328	+	IGR	INS	-	A	A	rs71975506		TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr15:24375327_24375328insA								NDN (442877 upstream) : PWRN2 (34598 downstream)																							ACTCCTTCTCCAAAAAAAAaaa	0.050													4	2	---	---	---	---	
ATP10A	57194	broad.mit.edu	37	15	25987435	25987436	+	Intron	INS	-	T	T	rs144797667	by1000genomes	TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr15:25987435_25987436insT	uc010ayu.2	-							NM_024490	NP_077816	O60312	AT10A_HUMAN	ATPase, class V, type 10A						ATP biosynthetic process|regulation of cell shape	integral to membrane|plasma membrane	ATP binding|ATPase activity, coupled to transmembrane movement of ions, phosphorylative mechanism|magnesium ion binding|phospholipid-translocating ATPase activity			pancreas(2)|ovary(1)|breast(1)|liver(1)	5		all_cancers(20;5.16e-25)|all_lung(180;1.51e-14)|Acute lymphoblastic leukemia(1;2.53e-05)|all_hematologic(1;0.000267)|Breast(32;0.00125)		all cancers(64;9.48e-07)|Epithelial(43;1.69e-06)|BRCA - Breast invasive adenocarcinoma(123;0.0252)|Lung(196;0.244)		CAGGTGGCTTCTGGGAGGCTCA	0.535													5	3	---	---	---	---	
Unknown	0	broad.mit.edu	37	15	26186556	26186557	+	IGR	DEL	TG	-	-	rs10667873		TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr15:26186556_26186557delTG								ATP10A (76239 upstream) : GABRB3 (602138 downstream)																							gtgcgtggtctgtgtgtgtgtg	0.015													4	2	---	---	---	---	
FAM7A3	89837	broad.mit.edu	37	15	32714606	32714607	+	Intron	INS	-	T	T	rs148437913		TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr15:32714606_32714607insT	uc001zgb.2	-						FAM7A3_uc010ubp.1_Intron|FAM7A3_uc001zgd.2_Intron|FAM7A3_uc001zge.2_Intron					Homo sapiens family with sequence similarity 7, member A3, mRNA (cDNA clone IMAGE:4579054).												0						ATGATATCACAttttttttttg	0.223													4	2	---	---	---	---	
CHRM5	1133	broad.mit.edu	37	15	34298108	34298108	+	Intron	DEL	C	-	-			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr15:34298108delC	uc001zhk.1	+						AVEN_uc001zhj.2_Intron	NM_012125	NP_036257	P08912	ACM5_HUMAN	cholinergic receptor, muscarinic 5						cell proliferation|inhibition of adenylate cyclase activity by muscarinic acetylcholine receptor signaling pathway	cell junction|integral to plasma membrane|postsynaptic membrane	muscarinic acetylcholine receptor activity|phosphatidylinositol phospholipase C activity			ovary(1)|central_nervous_system(1)	2		all_lung(180;1.76e-08)		all cancers(64;4.82e-17)|GBM - Glioblastoma multiforme(113;2.58e-06)|BRCA - Breast invasive adenocarcinoma(123;0.0262)	Atropine(DB00572)|Benzquinamide(DB00767)|Cryptenamine(DB00785)|Homatropine Methylbromide(DB00725)|Methotrimeprazine(DB01403)|Metixene(DB00340)|Olanzapine(DB00334)|Promazine(DB00420)|Promethazine(DB01069)|Propiomazine(DB00777)|Thiethylperazine(DB00372)	GCAAAGACTGCCTGAAAACTA	0.388													3	4	---	---	---	---	
SLC12A6	9990	broad.mit.edu	37	15	34541214	34541214	+	Intron	DEL	T	-	-			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr15:34541214delT	uc001zhw.2	-						SLC12A6_uc001zhv.2_Intron|SLC12A6_uc001zhx.2_Intron|SLC12A6_uc001zhy.2_Intron|SLC12A6_uc001zhz.2_Intron|SLC12A6_uc001zia.2_Intron|SLC12A6_uc001zib.2_Intron|SLC12A6_uc001zic.2_Intron|SLC12A6_uc010bau.2_Intron|SLC12A6_uc001zid.2_Intron|SLC12A6_uc001zht.2_Intron|SLC12A6_uc001zhu.2_Intron	NM_133647	NP_598408	Q9UHW9	S12A6_HUMAN	solute carrier family 12, member 6 isoform a						angiogenesis|cellular hypotonic salinity response|potassium ion transport|sodium ion transport	basolateral plasma membrane|integral to membrane	potassium:chloride symporter activity			central_nervous_system(5)|ovary(1)|skin(1)	7		all_lung(180;2.78e-08)		all cancers(64;3.43e-17)|GBM - Glioblastoma multiforme(113;2.6e-07)|BRCA - Breast invasive adenocarcinoma(123;0.0301)	Potassium Chloride(DB00761)	taaaaagaggtagagagggcc	0.045													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	15	35036957	35036957	+	IGR	DEL	C	-	-			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr15:35036957delC								GOLGA8B (208735 upstream) : GJD2 (7722 downstream)																							AAAAGCTTGGCCCCCACCTGG	0.363													4	2	---	---	---	---	
BMF	90427	broad.mit.edu	37	15	40380754	40380754	+	3'UTR	DEL	C	-	-			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr15:40380754delC	uc001zkv.2	-	4					BMF_uc001zkt.2_3'UTR|BMF_uc001zku.2_3'UTR|BMF_uc001zkw.2_3'UTR	NM_033503	NP_277038	Q96LC9	BMF_HUMAN	Bcl2 modifying factor isoform bmf-1						activation of pro-apoptotic gene products|induction of apoptosis by intracellular signals|positive regulation of protein homooligomerization|positive regulation of release of cytochrome c from mitochondria	cytosol|mitochondrial outer membrane|myosin complex|plasma membrane	protein binding			ovary(1)	1		all_cancers(109;4.18e-18)|all_epithelial(112;6.15e-15)|Lung NSC(122;5.63e-11)|all_lung(180;1.4e-09)|Melanoma(134;0.0574)|Ovarian(310;0.0822)|Colorectal(260;0.117)		GBM - Glioblastoma multiforme(113;1.29e-06)|BRCA - Breast invasive adenocarcinoma(123;0.0516)		GTAGCATGCTCCTTGCTGTCC	0.602													4	2	---	---	---	---	
PLCB2	5330	broad.mit.edu	37	15	40581665	40581672	+	Intron	DEL	CCTTAACA	-	-			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr15:40581665_40581672delCCTTAACA	uc001zld.2	-						PLCB2_uc001zlc.2_Intron|PLCB2_uc010bbo.2_Intron|PLCB2_uc010ucm.1_Intron	NM_004573	NP_004564	Q00722	PLCB2_HUMAN	phospholipase C, beta 2						activation of phospholipase C activity|intracellular signal transduction|lipid catabolic process|phospholipid metabolic process|synaptic transmission	cytosol	calcium ion binding|phosphatidylinositol phospholipase C activity|signal transducer activity			ovary(3)|breast(3)|kidney(1)|pancreas(1)	8		all_cancers(109;9.35e-19)|all_epithelial(112;1.18e-15)|Lung NSC(122;2.45e-11)|all_lung(180;6.47e-10)|Melanoma(134;0.0574)|Ovarian(310;0.0822)|Colorectal(260;0.117)		GBM - Glioblastoma multiforme(113;9.38e-06)|BRCA - Breast invasive adenocarcinoma(123;0.0508)		tgggcaaattccttaacattaggtagtt	0.082													8	4	---	---	---	---	
INO80	54617	broad.mit.edu	37	15	41323761	41323761	+	Intron	DEL	A	-	-			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr15:41323761delA	uc001zni.2	-						INO80_uc010ucu.1_Intron	NM_017553	NP_060023	Q9ULG1	INO80_HUMAN	INO80 complex homolog 1						cell division|cellular response to ionizing radiation|cellular response to UV|chromatin remodeling|double-strand break repair via homologous recombination|mitotic sister chromatid segregation|positive regulation of cell growth|positive regulation of DNA replication involved in S phase|positive regulation of transcription from RNA polymerase II promoter|regulation of G1/S transition of mitotic cell cycle|spindle assembly|UV-damage excision repair	Ino80 complex|microtubule	actin binding|alpha-tubulin binding|ATP binding|ATPase activity|DNA binding|DNA helicase activity			ovary(2)|pancreas(1)|skin(1)	4						ggaagggaggaagggaggaag	0.015													4	2	---	---	---	---	
SLC28A2	9153	broad.mit.edu	37	15	45546435	45546436	+	Intron	INS	-	AG	AG	rs147224286	by1000genomes	TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr15:45546435_45546436insAG	uc001zva.2	+							NM_004212	NP_004203	O43868	S28A2_HUMAN	solute carrier family 28 (sodium-coupled						nucleobase, nucleoside and nucleotide metabolic process	integral to plasma membrane|membrane fraction	nucleoside binding|nucleoside:sodium symporter activity|purine nucleoside transmembrane transporter activity			ovary(4)	4		all_cancers(109;8.53e-07)|all_epithelial(112;1.39e-05)|Lung NSC(122;8.3e-05)|all_lung(180;0.000547)|Melanoma(134;0.0417)		all cancers(107;3.77e-16)|GBM - Glioblastoma multiforme(94;2.71e-06)		AAAAGCTGAGAAGAGGACATTG	0.233													1	6	---	---	---	---	
GATM	2628	broad.mit.edu	37	15	45668604	45668615	+	Intron	DEL	CTTCAGGAAGCT	-	-	rs138059319		TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr15:45668604_45668615delCTTCAGGAAGCT	uc001zvc.2	-						GATM_uc001zvb.2_Intron|GATM_uc010uev.1_Intron	NM_001482	NP_001473	P50440	GATM_HUMAN	L-arginine:glycine amidinotransferase precursor						creatine biosynthetic process	mitochondrial inner membrane|mitochondrial intermembrane space	glycine amidinotransferase activity|protein binding				0		all_cancers(109;1.25e-09)|all_epithelial(112;5.56e-08)|Lung NSC(122;3.55e-06)|all_lung(180;2.56e-05)|Melanoma(134;0.027)		all cancers(107;4.87e-16)|GBM - Glioblastoma multiforme(94;1.97e-06)	Creatine(DB00148)|Glycine(DB00145)|L-Ornithine(DB00129)	aagggaagagcttcaggaagctcttcaggaag	0.198													7	6	---	---	---	---	
Unknown	0	broad.mit.edu	37	15	45756158	45756158	+	Intron	DEL	T	-	-	rs143709087		TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr15:45756158delT	uc001zvi.1	+											Homo sapiens cDNA FLJ32124 fis, clone PEBLM1000180.																		accaccaccatcaccatcacc	0.080													3	7	---	---	---	---	
Unknown	0	broad.mit.edu	37	15	46023540	46023540	+	IGR	DEL	A	-	-			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr15:46023540delA								SQRDL (40062 upstream) : None (None downstream)																							agtgatgtgcaaagtactaaa	0.075													3	3	---	---	---	---	
Unknown	0	broad.mit.edu	37	15	46663519	46663520	+	IGR	DEL	AA	-	-	rs72404735		TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr15:46663519_46663520delAA								SQRDL (680041 upstream) : SEMA6D (812883 downstream)																							AGATAGAAATAAAAAAAAAACT	0.079													2	4	---	---	---	---	
Unknown	0	broad.mit.edu	37	15	52380101	52380101	+	IGR	DEL	G	-	-			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr15:52380101delG								MAPK6 (21640 upstream) : BCL2L10 (21723 downstream)																							ccactgcactgggccTAAATC	0.020													4	2	---	---	---	---	
KIAA1370	56204	broad.mit.edu	37	15	52914051	52914052	+	Intron	INS	-	TT	TT			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr15:52914051_52914052insTT	uc002acg.3	-						KIAA1370_uc002ach.3_Intron|KIAA1370_uc010bfg.1_Intron|KIAA1370_uc010ugf.1_Intron	NM_019600	NP_062546	Q32MH5	K1370_HUMAN	hypothetical protein LOC56204												0				all cancers(107;0.0803)		CTTACtttttcttttttttttt	0.010													3	3	---	---	---	---	
FAM63B	54629	broad.mit.edu	37	15	59108865	59108866	+	Intron	DEL	CT	-	-	rs79491470		TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr15:59108865_59108866delCT	uc002afj.2	+						FAM63B_uc002afi.2_Intron|FAM63B_uc002afk.2_Intron|FAM63B_uc002afl.2_Intron	NM_001040450	NP_001035540	Q8NBR6	FA63B_HUMAN	hypothetical protein LOC54629 isoform a											central_nervous_system(1)	1						aactagggcactctagagcaat	0.030													4	2	---	---	---	---	
HERC1	8925	broad.mit.edu	37	15	64024193	64024195	+	Intron	DEL	GGT	-	-			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr15:64024193_64024195delGGT	uc002amp.2	-						HERC1_uc010uil.1_Intron	NM_003922	NP_003913	Q15751	HERC1_HUMAN	hect domain and RCC1-like domain 1						protein modification process|transport	cytosol|Golgi apparatus|membrane	acid-amino acid ligase activity|ARF guanyl-nucleotide exchange factor activity			ovary(6)|breast(6)|lung(5)|central_nervous_system(2)	19						GGGTCTGAAGGGTGGTGGTGGTG	0.256													4	2	---	---	---	---	
MEGF11	84465	broad.mit.edu	37	15	66470021	66470022	+	Intron	INS	-	T	T			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr15:66470021_66470022insT	uc002apm.2	-						MEGF11_uc002apl.2_Intron|MEGF11_uc002apn.1_Intron	NM_032445	NP_115821	A6BM72	MEG11_HUMAN	multiple EGF-like-domains 11 precursor							basolateral plasma membrane|integral to membrane				pancreas(1)	1						CCtttttcttcttttttttttt	0.238													3	3	---	---	---	---	
ZWILCH	55055	broad.mit.edu	37	15	66804944	66804944	+	Intron	DEL	A	-	-			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr15:66804944delA	uc002aqb.2	+						RPL4_uc002apx.2_Intron|ZWILCH_uc010bhu.1_Intron|ZWILCH_uc002aqa.2_Intron|ZWILCH_uc010bhv.2_Intron	NM_017975	NP_060445	Q9H900	ZWILC_HUMAN	Zwilch						cell division|mitotic cell cycle checkpoint|mitotic prometaphase	condensed chromosome kinetochore|cytosol	protein binding			ovary(1)	1						CAACCAGGCTAATAACGGTAA	0.134													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	15	68792500	68792500	+	IGR	DEL	C	-	-			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr15:68792500delC								ITGA11 (68008 upstream) : CORO2B (79073 downstream)																							tctcccccttccccccatact	0.219													9	4	---	---	---	---	
NOX5	79400	broad.mit.edu	37	15	69342773	69342773	+	Intron	DEL	T	-	-			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr15:69342773delT	uc002ars.1	+						NOX5_uc002arp.1_Intron|NOX5_uc002arq.1_Intron|NOX5_uc010bid.1_Intron|NOX5_uc002arr.1_Intron|NOX5_uc010bie.1_Intron|NOX5_uc010bif.1_Intron	NM_024505	NP_078781	Q96PH1	NOX5_HUMAN	NADPH oxidase, EF-hand calcium binding domain 5						angiogenesis|angiogenesis|cytokine secretion|cytokinesis|electron transport chain|endothelial cell proliferation|induction of apoptosis|positive regulation of reactive oxygen species metabolic process|regulation of fusion of sperm to egg plasma membrane|regulation of proton transport|superoxide anion generation	endoplasmic reticulum|endoplasmic reticulum|integral to membrane	calcium ion binding|electron carrier activity|flavin adenine dinucleotide binding|heme binding|hydrogen ion channel activity|NADP binding|superoxide-generating NADPH oxidase activity			breast(1)|pancreas(1)	2						TGCAAACACCTTAgctctgtc	0.035													4	2	---	---	---	---	
PSTPIP1	9051	broad.mit.edu	37	15	77295997	77296000	+	Intron	DEL	AAAA	-	-	rs77736772		TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr15:77295997_77296000delAAAA	uc002bcf.2	+						PSTPIP1_uc010bkt.1_Intron|PSTPIP1_uc010umo.1_Intron|PSTPIP1_uc010bku.1_Intron|PSTPIP1_uc002bcg.2_Intron|PSTPIP1_uc010bkv.1_Intron|PSTPIP1_uc010bkw.1_Intron	NM_003978	NP_003969	O43586	PPIP1_HUMAN	proline-serine-threonine phosphatase interacting						cell adhesion|signal transduction	cleavage furrow|lamellipodium|perinuclear region of cytoplasm	catalytic activity			ovary(1)	1						actccgtctcaaaaaaaaaaaaag	0.059													4	2	---	---	---	---	
SH2D7	646892	broad.mit.edu	37	15	78391362	78391362	+	Intron	DEL	T	-	-			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr15:78391362delT	uc010blb.1	+							NM_001101404	NP_001094874	A6NKC9	SH2D7_HUMAN	SH2 domain containing 7												0						ttttcttttcttttttttttt	0.149													2	4	---	---	---	---	
RASGRF1	5923	broad.mit.edu	37	15	79347914	79347915	+	Intron	DEL	AC	-	-			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr15:79347914_79347915delAC	uc002beq.2	-						RASGRF1_uc002bep.2_Intron|RASGRF1_uc010blm.1_Intron|RASGRF1_uc002ber.3_Intron	NM_002891	NP_002882	Q13972	RGRF1_HUMAN	Ras protein-specific guanine						activation of Rac GTPase activity|apoptosis|induction of apoptosis by extracellular signals|long-term memory|nerve growth factor receptor signaling pathway|neuron projection development|regulation of Rac protein signal transduction|small GTPase mediated signal transduction|synaptic transmission	cytosol|growth cone|plasma membrane|synaptosome	Rho guanyl-nucleotide exchange factor activity			skin(4)|ovary(1)|central_nervous_system(1)	6						CCATTTTGAGacacacacacac	0.416													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	15	79459683	79459684	+	IGR	DEL	GA	-	-			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr15:79459683_79459684delGA								RASGRF1 (76468 upstream) : MIR184 (42446 downstream)																							tctgttcatggagagagagaga	0.000													4	2	---	---	---	---	
TMED3	23423	broad.mit.edu	37	15	79635331	79635331	+	Intron	DEL	A	-	-			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr15:79635331delA	uc010unj.1	+							NM_007364	NP_031390	Q9Y3Q3	TMED3_HUMAN	transmembrane emp24 domain containing 3						protein transport	ER-Golgi intermediate compartment membrane|Golgi apparatus|integral to membrane				ovary(1)|skin(1)	2						ggtagtaaggaaggtctcatc	0.000													4	2	---	---	---	---	
ARNT2	9915	broad.mit.edu	37	15	80797113	80797113	+	Intron	DEL	A	-	-			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr15:80797113delA	uc002bfr.2	+						ARNT2_uc010unm.1_Intron|ARNT2_uc002bfs.2_Intron	NM_014862	NP_055677	Q9HBZ2	ARNT2_HUMAN	aryl hydrocarbon receptor nuclear translocator						central nervous system development|in utero embryonic development|response to hypoxia		aryl hydrocarbon receptor binding|DNA binding|protein heterodimerization activity|sequence-specific DNA binding transcription factor activity|signal transducer activity			central_nervous_system(3)|ovary(1)|pancreas(1)	5			BRCA - Breast invasive adenocarcinoma(143;0.134)			tgtctcaaagaaaaaaaaaaa	0.264													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	15	81328047	81328047	+	IGR	DEL	T	-	-			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr15:81328047delT								MESDC1 (31703 upstream) : C15orf26 (63702 downstream)																							CAATTTTAGATTAGATTCCAA	0.343													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	15	81905538	81905539	+	IGR	INS	-	A	A	rs142337728	by1000genomes	TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr15:81905538_81905539insA								TMC3 (239120 upstream) : MEX3B (428589 downstream)																							GCGAAACCTTGAAAAAAAAAAC	0.312													4	2	---	---	---	---	
HOMER2	9455	broad.mit.edu	37	15	83574032	83574032	+	Intron	DEL	A	-	-			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr15:83574032delA	uc002bjg.2	-						HOMER2_uc002bjh.2_Intron|HOMER2_uc002bjj.2_Intron|HOMER2_uc002bji.2_Intron	NM_199330	NP_955362	Q9NSB8	HOME2_HUMAN	homer 2 isoform 2						metabotropic glutamate receptor signaling pathway	cell junction|cytoplasm|postsynaptic density|postsynaptic membrane					0						gaaaagactgaaaaaaaaaaa	0.000													4	3	---	---	---	---	
Unknown	0	broad.mit.edu	37	15	85278266	85278267	+	IGR	INS	-	T	T	rs34015068		TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr15:85278266_85278267insT								SEC11A (18592 upstream) : ZNF592 (13551 downstream)																							CCCACCCCACCTTTTTTTTTTT	0.396													3	4	---	---	---	---	
Unknown	0	broad.mit.edu	37	15	88115491	88115492	+	IGR	INS	-	CA	CA	rs145812567	by1000genomes	TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr15:88115491_88115492insCA								AGBL1 (543208 upstream) : NCRNA00052 (4668 downstream)																							GTGCACGTGCGcacacacacac	0.356													4	4	---	---	---	---	
NTRK3	4916	broad.mit.edu	37	15	88536648	88536649	+	Intron	INS	-	A	A			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr15:88536648_88536649insA	uc002bme.1	-						NTRK3_uc002bmh.2_Intron|NTRK3_uc002bmf.1_Intron|NTRK3_uc010upl.1_Intron|NTRK3_uc010bnh.1_Intron|NTRK3_uc002bmg.2_Intron|NTRK3_uc010bni.2_Intron	NM_001012338	NP_001012338	Q16288	NTRK3_HUMAN	neurotrophic tyrosine kinase, receptor, type 3						transmembrane receptor protein tyrosine kinase signaling pathway	integral to plasma membrane	ATP binding|transmembrane receptor protein tyrosine kinase activity		ETV6/NTRK3(234)	soft_tissue(85)|kidney(66)|breast(56)|salivary_gland(26)|lung(22)|large_intestine(6)|ovary(6)|stomach(5)|central_nervous_system(3)|pancreas(3)|haematopoietic_and_lymphoid_tissue(2)|skin(1)	281			BRCA - Breast invasive adenocarcinoma(143;0.211)			CTCTGAATTCCAAGATTTGTGA	0.376			T	ETV6	congenital fibrosarcoma|Secretory breast 					TSP Lung(13;0.10)			4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	15	90000230	90000230	+	IGR	DEL	T	-	-			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr15:90000230delT								LOC254559 (58512 upstream) : RHCG (14408 downstream)																							CCACATCCCCTTCTCTGAGCC	0.284													1	5	---	---	---	---	
C15orf42	90381	broad.mit.edu	37	15	90121890	90121891	+	Intron	INS	-	C	C			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr15:90121890_90121891insC	uc002boe.2	+							NM_152259	NP_689472	Q7Z2Z1	TICRR_HUMAN	leucine-rich repeat kinase 1						cell cycle|DNA repair|DNA replication|formation of translation preinitiation complex|G2/M transition checkpoint|mitotic cell cycle DNA replication checkpoint|regulation of DNA-dependent DNA replication initiation|response to ionizing radiation	nucleus	chromatin binding|protein binding			ovary(4)|central_nervous_system(2)|skin(1)	7	Lung NSC(78;0.0237)|all_lung(78;0.0478)		BRCA - Breast invasive adenocarcinoma(143;0.128)			tctctctctctttttttttttG	0.203													3	3	---	---	---	---	
RGMA	56963	broad.mit.edu	37	15	93591300	93591300	+	Intron	DEL	C	-	-			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr15:93591300delC	uc002bss.1	-						RGMA_uc002bsq.1_Intron|RGMA_uc010boi.1_Intron|RGMA_uc002bsr.1_Intron|RGMA_uc010urc.1_Intron	NM_020211	NP_064596	Q96B86	RGMA_HUMAN	RGM domain family, member A precursor						axon guidance	anchored to membrane|endoplasmic reticulum|plasma membrane					0	Lung NSC(78;0.0542)|all_lung(78;0.0786)		BRCA - Breast invasive adenocarcinoma(143;0.0312)|OV - Ovarian serous cystadenocarcinoma(32;0.108)			GGCCTCAGGACCAGGTGCTAA	0.622													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	15	93721547	93721547	+	IGR	DEL	A	-	-			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr15:93721547delA								RGMA (89114 upstream) : None (None downstream)																							ttttttttttagcaatagaat	0.005													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	15	93782221	93782222	+	IGR	INS	-	AAAC	AAAC	rs143150220	by1000genomes	TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr15:93782221_93782222insAAAC								RGMA (149788 upstream) : MCTP2 (992579 downstream)																							TAAACACTCAAAAACAAACAAA	0.465													4	5	---	---	---	---	
Unknown	0	broad.mit.edu	37	15	98906457	98906460	+	IGR	DEL	AGAA	-	-			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr15:98906457_98906460delAGAA								ARRDC4 (389390 upstream) : FAM169B (73931 downstream)																							ggagggagggagaaagaaagaaag	0.132													3	3	---	---	---	---	
TTC23	64927	broad.mit.edu	37	15	99737310	99737310	+	Intron	DEL	T	-	-			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr15:99737310delT	uc002bur.2	-						TTC23_uc002bus.2_Intron|TTC23_uc002but.2_Intron|TTC23_uc002buu.2_Intron|TTC23_uc002buv.2_Intron|TTC23_uc002bux.2_Intron|TTC23_uc002buw.2_Intron|TTC23_uc010boq.2_Intron|TTC23_uc002buy.2_Intron|TTC23_uc010bor.2_Intron|TTC23_uc002buz.2_Intron	NM_022905	NP_075056	Q5W5X9	TTC23_HUMAN	tetratricopeptide repeat domain 23								binding				0	all_cancers(4;1.49e-13)|Lung NSC(78;0.000545)|all_lung(78;0.00121)|Melanoma(26;0.00505)|Medulloblastoma(229;0.163)		all cancers(5;8.11e-09)|OV - Ovarian serous cystadenocarcinoma(32;0.00215)			Gtttctgttcttttttttttt	0.159													4	2	---	---	---	---	
ADAMTS17	170691	broad.mit.edu	37	15	100698094	100698095	+	Intron	DEL	TT	-	-	rs71151940		TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr15:100698094_100698095delTT	uc002bvv.1	-						ADAMTS17_uc002bvx.1_Intron	NM_139057	NP_620688	Q8TE56	ATS17_HUMAN	ADAM metallopeptidase with thrombospondin type 1						proteolysis	intracellular|proteinaceous extracellular matrix	metalloendopeptidase activity|zinc ion binding			ovary(2)|central_nervous_system(1)	3	Lung NSC(78;0.00299)|all_lung(78;0.00457)|Melanoma(26;0.00571)		OV - Ovarian serous cystadenocarcinoma(32;0.0013)|LUSC - Lung squamous cell carcinoma(107;0.132)|Lung(145;0.161)	COAD - Colon adenocarcinoma(1;0.111)|all cancers(203;0.219)		AGCTATAttctttttttttttt	0.188													4	2	---	---	---	---	
MAPK8IP3	23162	broad.mit.edu	37	16	1770385	1770385	+	Intron	DEL	G	-	-			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr16:1770385delG	uc002cmk.2	+						MAPK8IP3_uc002cmi.1_Intron|MAPK8IP3_uc002cmj.1_Intron|MAPK8IP3_uc002cml.2_Intron|MAPK8IP3_uc010uvl.1_Intron	NM_015133	NP_055948	Q9UPT6	JIP3_HUMAN	mitogen-activated protein kinase 8 interacting						vesicle-mediated transport	Golgi membrane	kinesin binding|MAP-kinase scaffold activity|protein kinase binding			breast(2)|central_nervous_system(1)	3						agtccataaagagataatgga	0.000													4	2	---	---	---	---	
CCNF	899	broad.mit.edu	37	16	2494902	2494902	+	Intron	DEL	T	-	-	rs111443270		TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr16:2494902delT	uc002cqd.1	+						CCNF_uc002cqe.1_Intron	NM_001761	NP_001752	P41002	CCNF_HUMAN	cyclin F						cell division|mitosis|negative regulation of centrosome duplication|protein ubiquitination|SCF-dependent proteasomal ubiquitin-dependent protein catabolic process	centriole|nucleus|SCF ubiquitin ligase complex	protein binding			central_nervous_system(1)|kidney(1)	2		Ovarian(90;0.17)				ATTGAACAtcttttttttttt	0.050													3	3	---	---	---	---	
A2BP1	54715	broad.mit.edu	37	16	7652979	7652979	+	Intron	DEL	C	-	-			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr16:7652979delC	uc002cys.2	+						A2BP1_uc010buf.1_Intron|A2BP1_uc002cyr.1_Intron|A2BP1_uc002cyt.2_Intron|A2BP1_uc010uxz.1_Intron|A2BP1_uc010uya.1_Intron|A2BP1_uc002cyv.1_Intron|A2BP1_uc010uyb.1_Intron|A2BP1_uc002cyw.2_Intron|A2BP1_uc002cyy.2_Intron|A2BP1_uc002cyx.2_Intron|A2BP1_uc010uyc.1_Intron	NM_018723	NP_061193	Q9NWB1	RFOX1_HUMAN	ataxin 2-binding protein 1 isoform 4						mRNA processing|RNA splicing|RNA transport	nucleus|trans-Golgi network	nucleotide binding|protein C-terminus binding|RNA binding				0		all_cancers(2;4.54e-52)|Colorectal(2;6.95e-44)|all_epithelial(2;1.15e-37)|Lung NSC(2;0.000289)|all_lung(2;0.00148)|Myeloproliferative disorder(2;0.0122)|Medulloblastoma(2;0.0354)|all_neural(2;0.0381)|all_hematologic(2;0.0749)|Renal(2;0.0758)|Melanoma(2;0.211)		Colorectal(1;3.55e-51)|COAD - Colon adenocarcinoma(2;1.92e-46)|all cancers(1;5.36e-16)|Epithelial(1;3.98e-15)|READ - Rectum adenocarcinoma(2;3.71e-05)|GBM - Glioblastoma multiforme(1;0.0499)		acagtgtgctcctgaatgtcc	0.000													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	16	7808353	7808354	+	IGR	INS	-	TAAG	TAAG	rs141909915	by1000genomes	TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr16:7808353_7808354insTAAG								A2BP1 (45013 upstream) : TMEM114 (811149 downstream)																							CAGAATCTAGATAAGATAAGTA	0.450													2	4	---	---	---	---	
GRIN2A	2903	broad.mit.edu	37	16	10140503	10140504	+	Intron	DEL	AC	-	-			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr16:10140503_10140504delAC	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)	AGCAGCAGCTACACACACACAC	0.267													4	2	---	---	---	---	
CLEC16A	23274	broad.mit.edu	37	16	11064866	11064866	+	Intron	DEL	T	-	-	rs71404430		TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr16:11064866delT	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						ATTGGCAACATTTTTTTTTTT	0.428													5	3	---	---	---	---	
Unknown	0	broad.mit.edu	37	16	14410165	14410165	+	IGR	DEL	T	-	-			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr16:14410165delT								MIR365-1 (6937 upstream) : PARN (119394 downstream)																							aattgttgtatttttagtaga	0.000													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	16	14441344	14441344	+	IGR	DEL	A	-	-			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr16:14441344delA								MIR365-1 (38116 upstream) : PARN (88215 downstream)																							aaaaagaattaaaaaaaaaag	0.000													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	16	15059344	15059344	+	IGR	DEL	C	-	-			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr16:15059344delC								NPIP (13414 upstream) : PDXDC1 (9255 downstream)																							gccgagaatacttatttccgt	0.000													4	6	---	---	---	---	
XYLT1	64131	broad.mit.edu	37	16	17333171	17333172	+	Intron	INS	-	CATC	CATC	rs151198680	by1000genomes	TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr16:17333171_17333172insCATC	uc002dfa.2	-							NM_022166	NP_071449	Q86Y38	XYLT1_HUMAN	xylosyltransferase I						glycosaminoglycan biosynthetic process	endoplasmic reticulum membrane|extracellular region|Golgi membrane|integral to membrane	acetylglucosaminyltransferase activity|protein xylosyltransferase activity			ovary(4)	4						tccagtccattcatccatccat	0.000													4	2	---	---	---	---	
SMG1	23049	broad.mit.edu	37	16	18860392	18860410	+	Intron	DEL	AAAAAAAAAAAAAAAAAAA	-	-	rs72227263		TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr16:18860392_18860410delAAAAAAAAAAAAAAAAAAA	uc002dfm.2	-						SMG1_uc010bwb.2_Intron|SMG1_uc010bwa.2_Intron|SMG1_uc002dfo.3_Intron	NM_015092	NP_055907	Q96Q15	SMG1_HUMAN	PI-3-kinase-related kinase SMG-1						DNA repair|mRNA export from nucleus|nuclear-transcribed mRNA catabolic process, nonsense-mediated decay|peptidyl-serine phosphorylation|phosphatidylinositol phosphorylation|protein autophosphorylation	cytoplasm|nucleus	ATP binding|metal ion binding|protein binding|protein serine/threonine kinase activity			breast(5)|stomach(4)|lung(4)|kidney(2)|ovary(1)	16						actccatctcaaaaaaaaaaaaaaaaaaaaaaaaaaaaa	0.128													3	3	---	---	---	---	
ANKS4B	257629	broad.mit.edu	37	16	21248915	21248915	+	Intron	DEL	A	-	-	rs35450922		TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr16:21248915delA	uc010bwp.1	+							NM_145865	NP_665872	Q8N8V4	ANS4B_HUMAN	harmonin-interacting ankyrin-repeat containing											ovary(2)	2				GBM - Glioblastoma multiforme(48;0.0565)		aggaaggggcaaaaaaaaaaa	0.000													3	3	---	---	---	---	
Unknown	0	broad.mit.edu	37	16	21689790	21689791	+	Intron	DEL	TT	-	-	rs215894	by1000genomes	TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr16:21689790_21689791delTT	uc002diq.3	+						OTOA_uc002djh.2_5'Flank					Homo sapiens cDNA FLJ59829 complete cds.																		tatatatatatTAAAAAAACAT	0.262													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	16	22389443	22389443	+	IGR	DEL	T	-	-			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr16:22389443delT								CDR2 (3505 upstream) : RRN3P3 (41424 downstream)																							CAATTCTCCAttttttttttc	0.194													4	2	---	---	---	---	
ARHGAP17	55114	broad.mit.edu	37	16	24949682	24949683	+	Intron	INS	-	A	A			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr16:24949682_24949683insA	uc002dnb.2	-						ARHGAP17_uc002dmy.2_5'Flank|ARHGAP17_uc002dmz.2_Intron|ARHGAP17_uc002dna.2_Intron|ARHGAP17_uc002dnc.2_Intron|ARHGAP17_uc010vcf.1_Intron	NM_001006634	NP_001006635	Q68EM7	RHG17_HUMAN	nadrin isoform 1						regulation of small GTPase mediated signal transduction|small GTPase mediated signal transduction	cytosol|tight junction	GTPase activator activity|SH3 domain binding				0				GBM - Glioblastoma multiforme(48;0.0407)		gggactgtctcaaaaaaaaaaa	0.188													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	16	25694689	25694690	+	IGR	INS	-	AAA	AAA	rs71385566		TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr16:25694689_25694690insAAA								ZKSCAN2 (425834 upstream) : HS3ST4 (8657 downstream)																							gactcagtctcaaaaaaaaaaa	0.010													3	3	---	---	---	---	
Unknown	0	broad.mit.edu	37	16	26386271	26386278	+	IGR	DEL	ATGGACGC	-	-	rs59268185		TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr16:26386271_26386278delATGGACGC								HS3ST4 (237263 upstream) : C16orf82 (691941 downstream)																							ggatggatggatggacgcatggatggat	0.077													5	3	---	---	---	---	
Unknown	0	broad.mit.edu	37	16	32103336	32103337	+	IGR	INS	-	G	G			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr16:32103336_32103337insG								ZNF267 (174710 upstream) : HERC2P4 (59273 downstream)																							tgccagaagctggggggaggaa	0.000													8	5	---	---	---	---	
Unknown	0	broad.mit.edu	37	16	32366041	32366041	+	IGR	DEL	A	-	-	rs71390956		TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr16:32366041delA								HERC2P4 (202167 upstream) : TP53TG3B (318800 downstream)																							actccatctcaaaaaaaaaaa	0.000													6	3	---	---	---	---	
Unknown	0	broad.mit.edu	37	16	32475663	32475663	+	IGR	DEL	T	-	-			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr16:32475663delT								HERC2P4 (311789 upstream) : TP53TG3B (209178 downstream)																							atggcttttattacattaaag	0.000													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	16	32494367	32494368	+	IGR	INS	-	T	T	rs143786075	by1000genomes	TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr16:32494367_32494368insT								HERC2P4 (330493 upstream) : TP53TG3B (190473 downstream)																							ttaaacccttcttttcattcag	0.000													6	5	---	---	---	---	
Unknown	0	broad.mit.edu	37	16	32520722	32520723	+	IGR	INS	-	A	A			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr16:32520722_32520723insA								HERC2P4 (356848 upstream) : TP53TG3B (164118 downstream)																							ttctagtttttatctgaagata	0.000													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	16	32547182	32547182	+	IGR	DEL	A	-	-	rs113245414		TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr16:32547182delA								HERC2P4 (383308 upstream) : TP53TG3B (137659 downstream)																							ctgctgaatgaaaaaaaagtt	0.000													3	3	---	---	---	---	
Unknown	0	broad.mit.edu	37	16	32622579	32622580	+	IGR	DEL	GT	-	-	rs74801285		TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr16:32622579_32622580delGT								HERC2P4 (458705 upstream) : TP53TG3B (62261 downstream)																							TAAAATATAGGTTTTTTTTTTT	0.411													2	4	---	---	---	---	
Unknown	0	broad.mit.edu	37	16	33370073	33370074	+	IGR	DEL	TC	-	-	rs113975885		TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr16:33370073_33370074delTC								SLC6A10P (473610 upstream) : MIR1826 (595434 downstream)																							TTTTTGTTGTTCTCAACCTGAG	0.436													4	3	---	---	---	---	
Unknown	0	broad.mit.edu	37	16	33953097	33953098	+	IGR	INS	-	C	C			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr16:33953097_33953098insC								None (None upstream) : MIR1826 (12410 downstream)																							CCTGttctttttttttcttctt	0.228													5	4	---	---	---	---	
Unknown	0	broad.mit.edu	37	16	33998798	33998800	+	IGR	DEL	TTT	-	-	rs80074164	by1000genomes	TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr16:33998798_33998800delTTT								MIR1826 (33206 upstream) : UBE2MP1 (405002 downstream)																							ttctgtgtagtttttatTAttat	0.000													6	3	---	---	---	---	
Unknown	0	broad.mit.edu	37	16	34010586	34010587	+	IGR	INS	-	T	T			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr16:34010586_34010587insT								MIR1826 (44994 upstream) : UBE2MP1 (393215 downstream)																							aagatatttccttttccaccat	0.000													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	16	35184857	35184858	+	IGR	DEL	TG	-	-			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr16:35184857_35184858delTG								LOC146481 (469890 upstream) : None (None downstream)																							tgtgtgtgtttgtgtgtgtgtg	0.010													4	2	---	---	---	---	
MYLK3	91807	broad.mit.edu	37	16	46793541	46793542	+	Intron	INS	-	T	T			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr16:46793541_46793542insT	uc010vge.1	-									Q32MK0	MYLK3_HUMAN	SubName: Full=cDNA FLJ50066, highly similar to Homo sapiens cardiac-MyBP-C associated Ca/CaM kinase (MLCK), mRNA;						cardiac myofibril assembly|cellular response to interleukin-1|positive regulation of sarcomere organization|regulation of vascular permeability involved in acute inflammatory response|sarcomere organization|sarcomerogenesis	cytosol	ATP binding|calmodulin-dependent protein kinase activity|myosin light chain kinase activity			stomach(2)|skin(2)|large_intestine(1)|ovary(1)|central_nervous_system(1)	7		all_cancers(37;0.00023)|all_epithelial(9;0.000543)|all_lung(18;0.00585)|Lung NSC(13;0.0496)|Breast(268;0.116)				cTTTTCTCCACttttttttttt	0.020													3	3	---	---	---	---	
Unknown	0	broad.mit.edu	37	16	52067396	52067396	+	IGR	DEL	A	-	-			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr16:52067396delA								SALL1 (882213 upstream) : TOX3 (404522 downstream)																							tgtcttagggaaaaaggccta	0.189													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	16	52614695	52614696	+	Intron	INS	-	A	A	rs35290740		TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr16:52614695_52614696insA	uc002egx.2	-											Homo sapiens cDNA clone IMAGE:5172237.																		tattTTCTCTTAAAAAAAAAAA	0.084													2	4	---	---	---	---	
Unknown	0	broad.mit.edu	37	16	57373838	57373838	+	IGR	DEL	C	-	-			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr16:57373838delC								PLLP (55267 upstream) : CCL22 (18880 downstream)																							ctctctgtcaccccccccggc	0.000													1	5	---	---	---	---	
Unknown	0	broad.mit.edu	37	16	61088393	61088394	+	IGR	INS	-	A	A	rs113424990		TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr16:61088393_61088394insA								None (None upstream) : CDH8 (598841 downstream)																							gcaagactaagaaaaaaaaaaa	0.000													4	2	---	---	---	---	
ZFP90	146198	broad.mit.edu	37	16	68594790	68594791	+	Intron	INS	-	T	T	rs146019803	by1000genomes	TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr16:68594790_68594791insT	uc010cff.2	+						ZFP90_uc002ewb.2_Intron|ZFP90_uc002ewc.2_Intron|ZFP90_uc002ewd.2_Intron|ZFP90_uc002ewe.2_Intron	NM_133458	NP_597715	Q8TF47	ZFP90_HUMAN	zinc finger protein 90						positive regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(1)	1		Ovarian(137;0.192)		OV - Ovarian serous cystadenocarcinoma(108;0.00233)|Epithelial(162;0.0184)|all cancers(182;0.0946)		GCtttatcttcttttttttttc	0.025													4	2	---	---	---	---	
PDPR	55066	broad.mit.edu	37	16	70156811	70156812	+	Intron	INS	-	T	T	rs142153363	by1000genomes	TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr16:70156811_70156812insT	uc002eyf.1	+						CLEC18C_uc002exy.2_Intron|PDPR_uc010vlr.1_Intron	NM_017990	NP_060460	Q8NCN5	PDPR_HUMAN	pyruvate dehydrogenase phosphatase regulatory						glycine catabolic process|pyruvate metabolic process|regulation of acetyl-CoA biosynthetic process from pyruvate	mitochondrial matrix	aminomethyltransferase activity|oxidoreductase activity			breast(1)	1				BRCA - Breast invasive adenocarcinoma(221;0.124)		gcagtggatAGttttttttttg	0.005													4	2	---	---	---	---	
PDPR	55066	broad.mit.edu	37	16	70183173	70183173	+	Intron	DEL	T	-	-	rs112696216		TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr16:70183173delT	uc002eyf.1	+						CLEC18C_uc002exy.2_Intron|PDPR_uc010vlr.1_Intron|PDPR_uc002eyg.1_Intron|PDPR_uc002eyh.2_Intron|PDPR_uc010vls.1_Intron	NM_017990	NP_060460	Q8NCN5	PDPR_HUMAN	pyruvate dehydrogenase phosphatase regulatory						glycine catabolic process|pyruvate metabolic process|regulation of acetyl-CoA biosynthetic process from pyruvate	mitochondrial matrix	aminomethyltransferase activity|oxidoreductase activity			breast(1)	1				BRCA - Breast invasive adenocarcinoma(221;0.124)		cacttcacaatttttttttta	0.015													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	16	73872662	73872663	+	IGR	DEL	TG	-	-			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr16:73872662_73872663delTG								HTA (744992 upstream) : PSMD7 (458018 downstream)																							tgtgtgtgtctgtgtgtgtgtg	0.337													5	3	---	---	---	---	
Unknown	0	broad.mit.edu	37	16	77193827	77193828	+	IGR	INS	-	T	T	rs140856890	by1000genomes	TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr16:77193827_77193828insT								CNTNAP4 (600692 upstream) : MON1B (31008 downstream)																							gctctttcctcttttttttttc	0.342													3	4	---	---	---	---	
Unknown	0	broad.mit.edu	37	16	79359496	79359497	+	IGR	DEL	AC	-	-	rs72208683		TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr16:79359496_79359497delAC								WWOX (112933 upstream) : MAF (268249 downstream)																							ccagacacaaacacacacacac	0.030													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	16	79448410	79448410	+	IGR	DEL	C	-	-			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr16:79448410delC								WWOX (201847 upstream) : MAF (179336 downstream)																							gcctccaggacccaaacacct	0.000													4	2	---	---	---	---	
CMIP	80790	broad.mit.edu	37	16	81671388	81671389	+	Intron	INS	-	CCA	CCA	rs144777954	by1000genomes	TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr16:81671388_81671389insCCA	uc002fgp.2	+						CMIP_uc002fgq.1_Intron|CMIP_uc010vnq.1_Intron	NM_198390	NP_938204	Q8IY22	CMIP_HUMAN	c-Maf-inducing protein isoform C-mip							cytoplasm|nucleus					0						ATGGGGCTGGGACCTGCCAGCC	0.371													4	5	---	---	---	---	
PLCG2	5336	broad.mit.edu	37	16	81823395	81823395	+	Intron	DEL	C	-	-			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr16:81823395delC	uc002fgt.2	+						PLCG2_uc010chg.1_Intron	NM_002661	NP_002652	P16885	PLCG2_HUMAN	phospholipase C, gamma 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						cccctcctctccctcctcttc	0.343													4	2	---	---	---	---	
HSD17B2	3294	broad.mit.edu	37	16	82086408	82086408	+	Intron	DEL	A	-	-			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr16:82086408delA	uc002fgv.2	+							NM_002153	NP_002144	P37059	DHB2_HUMAN	hydroxysteroid (17-beta) dehydrogenase 2						response to retinoic acid|steroid biosynthetic process	endoplasmic reticulum membrane|integral to membrane	17-alpha,20-alpha-dihydroxypregn-4-en-3-one dehydrogenase activity|binding|estradiol 17-beta-dehydrogenase activity|testosterone 17-beta-dehydrogenase (NAD+) activity			ovary(1)|central_nervous_system(1)	2					NADH(DB00157)	gaactgctgtaaaaaagcata	0.169													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	16	83894367	83894367	+	IGR	DEL	G	-	-			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr16:83894367delG								HSBP1 (47773 upstream) : MLYCD (38363 downstream)																							CTGAGCTCCTGCAAGCTCCAA	0.542													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	16	84084341	84084341	+	IGR	DEL	C	-	-			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr16:84084341delC								SLC38A8 (8579 upstream) : MBTPS1 (3030 downstream)																							AGCTGCAAGGCCCGCATGTGC	0.607													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	16	86637368	86637380	+	IGR	DEL	TTCCTCCTCCTCT	-	-	rs80335270	by1000genomes	TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr16:86637368_86637380delTTCCTCCTCCTCT								FOXL1 (22065 upstream) : FBXO31 (725564 downstream)																							ctacttcgtcttcctcctcctctttcctcctac	0.033													4	2	---	---	---	---	
ZCCHC14	23174	broad.mit.edu	37	16	87451758	87451759	+	Intron	DEL	TC	-	-			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr16:87451758_87451759delTC	uc002fjz.1	-						ZCCHC14_uc002fka.1_Intron|ZCCHC14_uc002fkb.2_Intron	NM_015144	NP_055959	Q8WYQ9	ZCH14_HUMAN	zinc finger, CCHC domain containing 14						cell communication		nucleic acid binding|phosphatidylinositol binding|zinc ion binding			upper_aerodigestive_tract(1)|breast(1)	2				BRCA - Breast invasive adenocarcinoma(80;0.0285)		GATAGGTATTTCTGTTACTTCT	0.317													4	3	---	---	---	---	
ACSF3	197322	broad.mit.edu	37	16	89190899	89190900	+	Intron	INS	-	TGTA	TGTA	rs145930785		TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr16:89190899_89190900insTGTA	uc002fmp.2	+						ACSF3_uc010cig.1_Intron|ACSF3_uc010cih.1_Intron|ACSF3_uc002fmq.1_Intron|ACSF3_uc010cii.1_Intron|ACSF3_uc002fmr.1_Intron	NM_174917	NP_777577	Q4G176	ACSF3_HUMAN	acyl-CoA synthetase family member 3 precursor						fatty acid metabolic process	mitochondrion	acid-thiol ligase activity|ATP binding				0				BRCA - Breast invasive adenocarcinoma(80;0.0281)		CACACACTGAGTGTGTGTTACC	0.515													4	2	---	---	---	---	
ACSF3	197322	broad.mit.edu	37	16	89191196	89191197	+	Intron	DEL	AT	-	-	rs151169319		TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr16:89191196_89191197delAT	uc002fmp.2	+						ACSF3_uc010cig.1_Intron|ACSF3_uc010cih.1_Intron|ACSF3_uc002fmq.1_Intron|ACSF3_uc010cii.1_Intron|ACSF3_uc002fmr.1_Intron	NM_174917	NP_777577	Q4G176	ACSF3_HUMAN	acyl-CoA synthetase family member 3 precursor						fatty acid metabolic process	mitochondrion	acid-thiol ligase activity|ATP binding				0				BRCA - Breast invasive adenocarcinoma(80;0.0281)		CGCACACTGCATGTGTGTGTGA	0.277													4	5	---	---	---	---	
DPEP1	1800	broad.mit.edu	37	16	89701395	89701395	+	Intron	DEL	T	-	-			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr16:89701395delT	uc010cin.2	+						DPEP1_uc002fnr.3_Intron|DPEP1_uc002fns.3_Intron	NM_001128141	NP_001121613	P16444	DPEP1_HUMAN	dipeptidase 1 precursor						proteolysis	anchored to membrane|apical plasma membrane|microvillus membrane	dipeptidase activity|dipeptidyl-peptidase activity|metal ion binding|metalloexopeptidase activity|protein binding			large_intestine(1)	1		all_lung(18;0.0054)|all_hematologic(23;0.094)		BRCA - Breast invasive adenocarcinoma(80;0.0258)	Cilastatin(DB01597)	cccttccttctcctttccctt	0.035													3	3	---	---	---	---	
ABR	29	broad.mit.edu	37	17	1022694	1022694	+	Intron	DEL	T	-	-			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:1022694delT	uc002fsd.2	-						ABR_uc002fse.2_Intron|ABR_uc010cjq.1_Intron	NM_021962	NP_068781	Q12979	ABR_HUMAN	active breakpoint cluster region-related						apoptosis|induction of apoptosis by extracellular signals|nerve growth factor receptor signaling pathway|regulation of Rho protein signal transduction|small GTPase mediated signal transduction	cytosol	GTPase activator activity|protein binding|Rho guanyl-nucleotide exchange factor activity			upper_aerodigestive_tract(1)	1				UCEC - Uterine corpus endometrioid carcinoma (25;0.0228)		TGAGCCTGAGTTCCTCCCAGC	0.562													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	17	1829806	1829806	+	IGR	DEL	G	-	-			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:1829806delG								RPA1 (26958 upstream) : RTN4RL1 (8167 downstream)																							AGTTTGGGATGAGGGGTCAGG	0.537													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	17	5899867	5899868	+	IGR	DEL	GA	-	-			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:5899867_5899868delGA								NLRP1 (412035 upstream) : WSCD1 (72569 downstream)																							gtgtgtctgtgagagagagaga	0.000													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	17	7541954	7541954	+	IGR	DEL	T	-	-			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:7541954delT								SHBG (5254 upstream) : ATP1B2 (12300 downstream)														p.0?(2)|p.?(1)									cttcttcttcttttttttttt	0.159													3	3	---	---	---	---	
DNAH9	1770	broad.mit.edu	37	17	11708370	11708371	+	Intron	INS	-	A	A			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:11708370_11708371insA	uc002gne.2	+						DNAH9_uc010coo.2_Intron	NM_001372	NP_001363	Q9NYC9	DYH9_HUMAN	dynein, axonemal, heavy chain 9 isoform 2						cell projection organization|cellular component movement|microtubule-based movement|spermatogenesis	axonemal dynein complex|cilium axoneme|cytoplasm|microtubule	ATP binding|ATPase activity|microtubule motor activity			skin(10)|ovary(4)|breast(3)|central_nervous_system(2)|pancreas(1)	20		Breast(5;0.0122)|all_epithelial(5;0.131)		Colorectal(4;6.88e-05)|COAD - Colon adenocarcinoma(4;0.000813)|READ - Rectum adenocarcinoma(10;0.157)		ggctctgtctcaaaaaaaaaaa	0.223													3	3	---	---	---	---	
Unknown	0	broad.mit.edu	37	17	14254736	14254736	+	IGR	DEL	A	-	-	rs76311868		TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:14254736delA								HS3ST3B1 (5244 upstream) : PMP22 (878361 downstream)																							aaaaaagaagaaaaaaaaatt	0.000													0	6	---	---	---	---	
ATPAF2	91647	broad.mit.edu	37	17	17932149	17932149	+	Intron	DEL	G	-	-			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:17932149delG	uc002gse.1	-						ATPAF2_uc002gsd.1_Intron|ATPAF2_uc002gsf.1_Intron|ATPAF2_uc010cps.1_5'Flank|ATPAF2_uc010vxf.1_Intron	NM_145691	NP_663729	Q8N5M1	ATPF2_HUMAN	ATP synthase mitochondrial F1 complex assembly						proton-transporting ATP synthase complex assembly	mitochondrion|nuclear speck	protein binding				0	all_neural(463;0.228)					GATTAAAGCTGGGGGAAGGGA	0.493													4	2	---	---	---	---	
MAP2K3	5606	broad.mit.edu	37	17	21217018	21217020	+	Intron	DEL	CCT	-	-	rs72412380		TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:21217018_21217020delCCT	uc002gys.2	+						MAP2K3_uc002gyt.2_Intron|MAP2K3_uc002gyu.2_Intron	NM_145109	NP_659731	P46734	MP2K3_HUMAN	mitogen-activated protein kinase kinase 3						activation of MAPK activity|innate immune response|MyD88-dependent toll-like receptor signaling pathway|MyD88-independent toll-like receptor signaling pathway|positive regulation of transcription, DNA-dependent|stress-activated MAPK cascade|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|MAP kinase kinase activity|protein binding|protein serine/threonine kinase activity|protein tyrosine kinase activity				0				COAD - Colon adenocarcinoma(3;0.0131)|Colorectal(15;0.0553)		TACCTGGCTCCCTCCTCCCTCCT	0.389													7	4	---	---	---	---	
Unknown	0	broad.mit.edu	37	17	21561660	21561660	+	IGR	DEL	A	-	-			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:21561660delA								C17orf51 (83929 upstream) : FAM27L (263710 downstream)																							CCGCCTGCGGACCCTCTGCCC	0.701													7	5	---	---	---	---	
TNFAIP1	7126	broad.mit.edu	37	17	26666267	26666268	+	Intron	INS	-	A	A			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:26666267_26666268insA	uc002hax.1	+						TNFAIP1_uc002hay.2_Intron|TNFAIP1_uc010waf.1_Intron	NM_021137	NP_066960	Q13829	BACD2_HUMAN	tumor necrosis factor, alpha-induced protein 1						apoptosis|cell migration|DNA replication|embryo development|immune response|negative regulation of Rho protein signal transduction|proteasomal ubiquitin-dependent protein catabolic process|protein ubiquitination|stress fiber assembly	Cul3-RING ubiquitin ligase complex|endosome|nucleus|voltage-gated potassium channel complex	GTP-Rho binding|voltage-gated potassium channel activity				0	all_lung(13;0.000294)|Lung NSC(42;0.000964)			UCEC - Uterine corpus endometrioid carcinoma (53;0.153)		ctgtctctaagaaaaaaaaaaa	0.218													4	2	---	---	---	---	
ANKRD13B	124930	broad.mit.edu	37	17	27925741	27925741	+	Intron	DEL	T	-	-			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:27925741delT	uc002hei.2	+						ANKRD13B_uc002heh.2_Intron|ANKRD13B_uc002hej.2_Intron	NM_152345	NP_689558	Q86YJ7	AN13B_HUMAN	ankyrin repeat domain 13B												0						aatttttgtatttttttttgt	0.000													4	2	---	---	---	---	
EFCAB5	374786	broad.mit.edu	37	17	28342628	28342628	+	Intron	DEL	C	-	-			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:28342628delC	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						cacatccttgccaacacttat	0.005													4	2	---	---	---	---	
ACCN1	40	broad.mit.edu	37	17	32379820	32379821	+	Intron	INS	-	A	A			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:32379820_32379821insA	uc002hhu.2	-							NM_001094	NP_001085	Q16515	ACCN1_HUMAN	amiloride-sensitive cation channel 1, neuronal						central nervous system development|peripheral nervous system development|synaptic transmission	integral to plasma membrane	ligand-gated sodium channel activity|protein binding			ovary(2)|large_intestine(1)|central_nervous_system(1)	4		Breast(31;0.042)|Ovarian(249;0.202)		UCEC - Uterine corpus endometrioid carcinoma (308;0.13)|BRCA - Breast invasive adenocarcinoma(366;0.215)	Amiloride(DB00594)	gtatttttagtagagatgggat	0.000													4	2	---	---	---	---	
SYNRG	11276	broad.mit.edu	37	17	35940574	35940587	+	Intron	DEL	GTGTGTGTGTGTGT	-	-			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:35940574_35940587delGTGTGTGTGTGTGT	uc002hoa.2	-						SYNRG_uc010wde.1_Intron|SYNRG_uc010wdf.1_Intron|SYNRG_uc002hoc.2_Intron|SYNRG_uc002hoe.2_Intron|SYNRG_uc002hod.2_Intron|SYNRG_uc010wdg.1_Intron|SYNRG_uc002hob.2_Intron|SYNRG_uc010cvd.1_5'Flank|SYNRG_uc002hog.1_Intron|SYNRG_uc010wdh.1_Intron	NM_007247	NP_009178	Q9UMZ2	SYNRG_HUMAN	synergin, gamma isoform 1						endocytosis|intracellular protein transport	AP-1 adaptor complex	calcium ion binding			ovary(2)	2						tttgtatttcgtgtgtgtgtgtgtgtgtgtgtgt	0.000													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	17	36300681	36300683	+	IGR	DEL	AGA	-	-	rs10631909		TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:36300681_36300683delAGA								TBC1D3 (5583 upstream) : MRPL45 (152315 downstream)																							GATGATTGAGAGAAGAACCATAT	0.315													4	4	---	---	---	---	
CISD3	284106	broad.mit.edu	37	17	36889466	36889467	+	Intron	INS	-	CCTGC	CCTGC	rs139586171	by1000genomes	TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:36889466_36889467insCCTGC	uc010wds.1	+							NM_001136498	NP_001129970	P0C7P0	CISD3_HUMAN	CDGSH iron sulfur domain 3 precursor							mitochondrion	2 iron, 2 sulfur cluster binding|metal ion binding				0						AGCTCCTGCAGCCTGCCCTGCC	0.455													4	4	---	---	---	---	
JUP	3728	broad.mit.edu	37	17	39709060	39709061	+	Intron	DEL	AC	-	-			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:39709060_39709061delAC	uc010wfs.1	-							NM_021991	NP_068831	P14923	PLAK_HUMAN	junction plakoglobin						adherens junction organization|atrioventricular valve morphogenesis|cell migration|cell morphogenesis|cellular response to indole-3-methanol|cytoskeletal anchoring at plasma membrane|detection of mechanical stimulus|ectoderm development|endothelial cell-cell adhesion|gastrulation|morphogenesis of embryonic epithelium|negative regulation of heart induction by canonical Wnt receptor signaling pathway|negative regulation of Wnt receptor signaling pathway involved in heart development|nervous system development|oocyte development|positive regulation of protein import into nucleus|positive regulation of sequence-specific DNA binding transcription factor activity|skin development	actin cytoskeleton|Axin-APC-beta-catenin-GSK3B complex|basolateral plasma membrane|catenin complex|desmosome|fascia adherens|gamma-catenin-TCF7L2 complex|internal side of plasma membrane|nucleus|protein-DNA complex|Z disc|zonula adherens	alpha-catenin binding|cadherin binding|protein homodimerization activity|protein kinase binding|protein phosphatase binding|RPTP-like protein binding|specific RNA polymerase II transcription factor activity|transcription coactivator activity			ovary(2)|lung(2)|breast(1)	5		Breast(137;0.000162)	BRCA - Breast invasive adenocarcinoma(4;0.233)	BRCA - Breast invasive adenocarcinoma(366;0.15)		acacacacaaacacacacacac	0.000													6	3	---	---	---	---	
JUP	3728	broad.mit.edu	37	17	39926159	39926160	+	Intron	INS	-	T	T	rs144932522		TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:39926159_39926160insT	uc002hxq.2	-						JUP_uc010wfs.1_Intron|JUP_uc002hxr.2_Intron|JUP_uc002hxs.2_Intron	NM_021991	NP_068831	P14923	PLAK_HUMAN	junction plakoglobin						adherens junction organization|atrioventricular valve morphogenesis|cell migration|cell morphogenesis|cellular response to indole-3-methanol|cytoskeletal anchoring at plasma membrane|detection of mechanical stimulus|ectoderm development|endothelial cell-cell adhesion|gastrulation|morphogenesis of embryonic epithelium|negative regulation of heart induction by canonical Wnt receptor signaling pathway|negative regulation of Wnt receptor signaling pathway involved in heart development|nervous system development|oocyte development|positive regulation of protein import into nucleus|positive regulation of sequence-specific DNA binding transcription factor activity|skin development	actin cytoskeleton|Axin-APC-beta-catenin-GSK3B complex|basolateral plasma membrane|catenin complex|desmosome|fascia adherens|gamma-catenin-TCF7L2 complex|internal side of plasma membrane|nucleus|protein-DNA complex|Z disc|zonula adherens	alpha-catenin binding|cadherin binding|protein homodimerization activity|protein kinase binding|protein phosphatase binding|RPTP-like protein binding|specific RNA polymerase II transcription factor activity|transcription coactivator activity			ovary(2)|lung(2)|breast(1)	5		Breast(137;0.000162)	BRCA - Breast invasive adenocarcinoma(4;0.233)	BRCA - Breast invasive adenocarcinoma(366;0.15)		CATCAAGGGAATTTTTTTTTtt	0.243													4	2	---	---	---	---	
PTRF	284119	broad.mit.edu	37	17	40568393	40568394	+	Intron	DEL	AG	-	-	rs147694843	by1000genomes	TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:40568393_40568394delAG	uc002hzo.2	-						PTRF_uc010wgi.1_Intron	NM_012232	NP_036364	Q6NZI2	PTRF_HUMAN	polymerase I and transcript release factor						regulation of transcription, DNA-dependent|termination of RNA polymerase I transcription|transcription initiation from RNA polymerase I promoter	caveola|cytosol|endoplasmic reticulum|microsome|mitochondrion|nucleoplasm	protein binding|rRNA primary transcript binding			breast(1)	1		all_cancers(22;0.00146)|Breast(137;0.00116)|all_epithelial(22;0.0134)		BRCA - Breast invasive adenocarcinoma(366;0.193)		caaagaaagaagagagagagag	0.000													3	3	---	---	---	---	
KIAA1267	284058	broad.mit.edu	37	17	44281392	44281393	+	Intron	INS	-	A	A			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:44281392_44281393insA	uc010dav.2	-							NM_015443	NP_056258	Q7Z3B3	K1267_HUMAN	hypothetical protein LOC284058							MLL1 complex	protein binding			skin(2)	2		Melanoma(429;0.211)				ggggagcaggggaaggcaacca	0.000													3	3	---	---	---	---	
SKAP1	8631	broad.mit.edu	37	17	46240615	46240615	+	Intron	DEL	C	-	-			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:46240615delC	uc002ini.1	-						SKAP1_uc002inj.1_Intron|SKAP1_uc010dbd.1_Intron|SKAP1_uc010dbe.1_Intron	NM_003726	NP_003717	Q86WV1	SKAP1_HUMAN	src kinase associated phosphoprotein 1 isoform						positive regulation of transcription from RNA polymerase II promoter|T cell receptor signaling pathway	cytoplasm|nucleus|plasma membrane	antigen binding|protein kinase binding|SH2 domain binding				0						TATCTGCAAGCCCCAGGGGAA	0.448													4	2	---	---	---	---	
HOXB6	3216	broad.mit.edu	37	17	46678353	46678354	+	Intron	INS	-	GT	GT	rs143143868	by1000genomes	TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:46678353_46678354insGT	uc002ins.1	-						HOXB6_uc010dbh.1_Intron|HOXB6_uc002int.1_5'Flank|uc002inu.2_5'Flank	NM_018952	NP_061825	P17509	HXB6_HUMAN	homeobox B6						anterior/posterior axis specification, embryo	nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity				0						GGGATATTtgcgtgtgtgtgtg	0.337													6	3	---	---	---	---	
Unknown	0	broad.mit.edu	37	17	46791072	46791072	+	IGR	DEL	A	-	-			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:46791072delA								MIR196A1 (81151 upstream) : PRAC (8020 downstream)																							actccttctcaaaaaaaaaaa	0.224													3	3	---	---	---	---	
COX11	1353	broad.mit.edu	37	17	53043196	53043197	+	Intron	INS	-	A	A	rs150725955		TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:53043196_53043197insA	uc010wng.1	-						STXBP4_uc010dcc.1_5'Flank|STXBP4_uc002iuf.1_5'Flank|STXBP4_uc010dcd.1_5'Flank|COX11_uc010wne.1_Intron|COX11_uc010wnf.1_Intron|COX11_uc002iue.2_Intron|COX11_uc010wnh.1_Intron	NM_004375	NP_004366	Q9Y6N1	COX11_HUMAN	COX11 homolog, cytochrome c oxidase assembly						respiratory chain complex IV assembly|respiratory gaseous exchange	integral to membrane|mitochondrial inner membrane	copper ion binding|cytochrome-c oxidase activity|electron carrier activity			ovary(1)	1						catctcaaaagaaaaaaaaaaa	0.183													4	3	---	---	---	---	
TEX14	56155	broad.mit.edu	37	17	56677004	56677004	+	Frame_Shift_Del	DEL	C	-	-			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:56677004delC	uc010dcz.1	-	14	1838	c.1720delG	c.(1720-1722)GTTfs	p.V574fs	TEX14_uc002iwr.1_Frame_Shift_Del_p.V568fs|TEX14_uc002iws.1_Frame_Shift_Del_p.V568fs|TEX14_uc010dda.1_Frame_Shift_Del_p.V348fs	NM_198393	NP_938207	Q8IWB6	TEX14_HUMAN	testis expressed sequence 14 isoform a	574						cytoplasm	ATP binding|protein kinase activity			stomach(4)|lung(3)|breast(3)|ovary(3)|upper_aerodigestive_tract(1)|large_intestine(1)|skin(1)|pancreas(1)	17	Medulloblastoma(34;0.127)|all_neural(34;0.237)					AAAGAGTGAACCCTTGGTGAA	0.463													34	26	---	---	---	---	
TEX14	56155	broad.mit.edu	37	17	56747786	56747786	+	Intron	DEL	A	-	-			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:56747786delA	uc010dcz.1	-						TEX14_uc002iwr.1_Intron|TEX14_uc002iws.1_Intron|TEX14_uc010dda.1_Intron|TEX14_uc010wnz.1_Intron	NM_198393	NP_938207	Q8IWB6	TEX14_HUMAN	testis expressed sequence 14 isoform a							cytoplasm	ATP binding|protein kinase activity			stomach(4)|lung(3)|breast(3)|ovary(3)|upper_aerodigestive_tract(1)|large_intestine(1)|skin(1)|pancreas(1)	17	Medulloblastoma(34;0.127)|all_neural(34;0.237)					TGGGAAGATTAAAAAAAAAAA	0.279													4	2	---	---	---	---	
TUBD1	51174	broad.mit.edu	37	17	57937953	57937954	+	Intron	INS	-	T	T			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:57937953_57937954insT	uc002ixw.1	-						TUBD1_uc010ddf.1_Intron|TUBD1_uc010ddg.1_Intron|TUBD1_uc010ddh.1_Intron|TUBD1_uc010wok.1_Intron|TUBD1_uc002ixx.1_Intron|TUBD1_uc010wol.1_Intron|TUBD1_uc010ddi.1_Intron	NM_016261	NP_057345	Q9UJT1	TBD_HUMAN	delta-tubulin						cell differentiation|microtubule-based movement|multicellular organismal development|protein polymerization|spermatogenesis	centriole|microtubule|nucleus	GTP binding|GTPase activity|structural molecule activity			ovary(1)	1	all_cancers(5;3.18e-13)|Breast(5;2.91e-25)|all_neural(34;0.0878)|Medulloblastoma(34;0.0922)		Epithelial(12;9.34e-13)|all cancers(12;1.91e-11)			AGTGAACtttcttttttttttt	0.163													6	3	---	---	---	---	
TUBD1	51174	broad.mit.edu	37	17	57965300	57965300	+	Intron	DEL	T	-	-			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:57965300delT	uc002ixw.1	-						TUBD1_uc010ddf.1_Intron|TUBD1_uc010ddg.1_Intron|TUBD1_uc010ddh.1_Intron|TUBD1_uc010wok.1_Intron|TUBD1_uc002ixx.1_Intron|TUBD1_uc010wol.1_Intron|TUBD1_uc010ddi.1_Intron	NM_016261	NP_057345	Q9UJT1	TBD_HUMAN	delta-tubulin						cell differentiation|microtubule-based movement|multicellular organismal development|protein polymerization|spermatogenesis	centriole|microtubule|nucleus	GTP binding|GTPase activity|structural molecule activity			ovary(1)	1	all_cancers(5;3.18e-13)|Breast(5;2.91e-25)|all_neural(34;0.0878)|Medulloblastoma(34;0.0922)		Epithelial(12;9.34e-13)|all cancers(12;1.91e-11)			GTTAGATGTCttttttttttt	0.020													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	17	60152237	60152237	+	IGR	DEL	T	-	-			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:60152237delT								MED13 (9594 upstream) : TBC1D3P2 (189832 downstream)																							atgactgaccttttttttttt	0.000													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	17	60302269	60302270	+	IGR	INS	-	A	A			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:60302269_60302270insA								MED13 (159626 upstream) : TBC1D3P2 (39799 downstream)																							ctccatctcataaaaaaaaaga	0.000													4	2	---	---	---	---	
TLK2	11011	broad.mit.edu	37	17	60547573	60547574	+	Intron	DEL	GT	-	-			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:60547573_60547574delGT	uc002izx.3	+									Q86UE8	TLK2_HUMAN	SubName: Full=Putative uncharacterized protein TLK1; Flags: Fragment;						cell cycle|chromatin modification|intracellular signal transduction|regulation of chromatin assembly or disassembly|response to DNA damage stimulus	nucleus	ATP binding|protein binding|protein serine/threonine kinase activity			stomach(1)|kidney(1)	2						CTGTTTTTTGgtgtgtgtgtgt	0.040													4	2	---	---	---	---	
TLK2	11011	broad.mit.edu	37	17	60680888	60680888	+	Intron	DEL	T	-	-			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:60680888delT	uc010ddp.2	+						TLK2_uc002izx.3_Intron|TLK2_uc002izz.3_Intron|TLK2_uc002jaa.3_Intron|TLK2_uc010wpd.1_Intron	NM_006852	NP_006843	Q86UE8	TLK2_HUMAN	tousled-like kinase 2 isoform A						cell cycle|chromatin modification|intracellular signal transduction|regulation of chromatin assembly or disassembly|response to DNA damage stimulus	nucleus	ATP binding|protein binding|protein serine/threonine kinase activity			stomach(1)|kidney(1)	2						GTGTTTGATCTTTTTTTTTTT	0.279													4	2	---	---	---	---	
RGS9	8787	broad.mit.edu	37	17	63186049	63186049	+	Intron	DEL	T	-	-	rs112552969		TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:63186049delT	uc002jfe.2	+						RGS9_uc010dem.2_Intron|RGS9_uc002jfd.2_Intron|RGS9_uc002jff.2_Intron|RGS9_uc002jfg.2_Intron	NM_003835	NP_003826	O75916	RGS9_HUMAN	regulator of G-protein signaling 9 isoform 1						intracellular signal transduction|negative regulation of signal transduction|regulation of G-protein coupled receptor protein signaling pathway|visual perception	cytoplasm|heterotrimeric G-protein complex	GTPase activator activity|signal transducer activity			ovary(2)|skin(2)	4						TCCTTAGAACTTTTTTTTTTT	0.483													4	3	---	---	---	---	
Unknown	0	broad.mit.edu	37	17	66678978	66678978	+	IGR	DEL	A	-	-			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:66678978delA								FAM20A (81883 upstream) : ABCA8 (184455 downstream)																							TCTAACACTTAAAAAAAAAAG	0.348													4	2	---	---	---	---	
SDK2	54549	broad.mit.edu	37	17	71347252	71347253	+	Intron	DEL	TT	-	-	rs112562964		TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:71347252_71347253delTT	uc010dfm.2	-						SDK2_uc002jjt.3_Intron	NM_001144952	NP_001138424	Q58EX2	SDK2_HUMAN	sidekick 2						cell adhesion	integral to membrane				ovary(2)	2						Ctttttcccctttttttttttt	0.025													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	17	71918937	71918937	+	IGR	DEL	T	-	-	rs36099537		TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:71918937delT								C17orf54 (94261 upstream) : RPL38 (280858 downstream)																							acacactcagttttttttttt	0.000													2	4	---	---	---	---	
FADS6	283985	broad.mit.edu	37	17	72885607	72885607	+	Intron	DEL	C	-	-			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:72885607delC	uc002jmd.1	-							NM_178128	NP_835229	Q8N9I5	FADS6_HUMAN	fatty acid desaturase domain family, member 6						fatty acid biosynthetic process	integral to membrane	oxidoreductase activity				0	all_lung(278;0.172)|Lung NSC(278;0.207)					TGACACAGCACCCAACGCCCC	0.413													4	2	---	---	---	---	
SLC16A5	9121	broad.mit.edu	37	17	73094787	73094788	+	Intron	INS	-	TTTG	TTTG	rs143801301	by1000genomes	TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:73094787_73094788insTTTG	uc002jmr.2	+						SLC16A5_uc002jms.1_Intron|SLC16A5_uc002jmt.2_Intron|SLC16A5_uc002jmu.2_Intron|SLC16A5_uc010wrt.1_Intron	NM_004695	NP_004686	O15375	MOT6_HUMAN	solute carrier family 16, member 5						organic anion transport	integral to plasma membrane|membrane fraction	secondary active monocarboxylate transmembrane transporter activity|symporter activity			central_nervous_system(1)	1	all_lung(278;0.226)		LUSC - Lung squamous cell carcinoma(166;0.162)|Lung(188;0.235)		Pyruvic acid(DB00119)	gacaggctttttttgtttgttt	0.050													4	3	---	---	---	---	
NUP85	79902	broad.mit.edu	37	17	73218137	73218140	+	Intron	DEL	TTTG	-	-	rs5822073		TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:73218137_73218140delTTTG	uc002jng.1	+						NUP85_uc010dgd.1_Intron|NUP85_uc010wrv.1_Intron	NM_024844	NP_079120	Q9BW27	NUP85_HUMAN	nucleoporin 85						carbohydrate metabolic process|glucose transport|mitotic prometaphase|mRNA transport|protein transport|regulation of glucose transport|transmembrane transport|viral reproduction	condensed chromosome kinetochore|cytosol|nuclear membrane|Nup107-160 complex|spindle	protein binding			ovary(1)	1	all_lung(278;0.14)|Lung NSC(278;0.168)		all cancers(21;3.45e-06)			tgtgttttgttttgtttgtttgtt	0.000													3	3	---	---	---	---	
Unknown	0	broad.mit.edu	37	17	73406133	73406136	+	IGR	DEL	GTAT	-	-	rs35467778		TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:73406133_73406136delGTAT								GRB2 (4343 upstream) : KIAA0195 (46528 downstream)																							atgtatgtacgtatgtatgtatgt	0.010													5	5	---	---	---	---	
Unknown	0	broad.mit.edu	37	17	74611572	74611572	+	IGR	DEL	G	-	-			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:74611572delG								ST6GALNAC2 (29427 upstream) : ST6GALNAC1 (9275 downstream)																							TCGGTGAACAGGTGGTAACGG	0.313													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	17	75119139	75119139	+	IGR	DEL	T	-	-			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:75119139delT								C17orf86 (28072 upstream) : SEC14L1 (17866 downstream)																							tttgtttttgttttttttttt	0.174													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	17	75731849	75731852	+	IGR	DEL	CCTC	-	-			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:75731849_75731852delCCTC								SEPT9 (235173 upstream) : FLJ45079 (143257 downstream)																							GGGCGAGCAGCCTCCCTCCCTCCC	0.608													4	2	---	---	---	---	
LOC283999	283999	broad.mit.edu	37	17	76228889	76228890	+	Intron	DEL	GT	-	-			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:76228889_76228890delGT	uc002jvk.2	+						LOC283999_uc010dhm.1_Intron	NM_001145529	NP_001139001	A6NFC5	TM235_HUMAN	hypothetical protein LOC283999							integral to membrane|tight junction	structural molecule activity				0						CAGGGCAGGGgtgtgtgtgtga	0.465													4	2	---	---	---	---	
CCDC40	55036	broad.mit.edu	37	17	78029554	78029554	+	Intron	DEL	C	-	-			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:78029554delC	uc010dht.2	+						CCDC40_uc010wub.1_Intron|CCDC40_uc002jxm.3_Intron	NM_017950	NP_060420	Q4G0X9	CCD40_HUMAN	coiled-coil domain containing 40						axonemal dynein complex assembly|ciliary cell motility|cilium movement involved in determination of left/right asymmetry|flagellar cell motility	cilium|cytoplasm				ovary(3)	3	all_neural(118;0.167)		OV - Ovarian serous cystadenocarcinoma(97;0.0292)|BRCA - Breast invasive adenocarcinoma(99;0.149)			CGTCTCTTTTCCCCTTCCCCC	0.318													4	2	---	---	---	---	
FAM195B	348262	broad.mit.edu	37	17	79784399	79784399	+	Intron	DEL	A	-	-	rs4013609		TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:79784399delA	uc010wuy.1	-						FAM195B_uc010wuz.1_Intron|FAM195B_uc002kjd.2_Intron	NM_001093767	NP_001087236	C9JLW8	F195B_HUMAN	hypothetical protein LOC348262												0						accctgtgtcaaaaaaaaaaa	0.010													3	3	---	---	---	---	
METRNL	284207	broad.mit.edu	37	17	81034738	81034739	+	5'Flank	INS	-	T	T			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:81034738_81034739insT	uc002kgh.2	+							NM_001004431	NP_001004431	Q641Q3	METRL_HUMAN	meteorin, glial cell differentiation							extracellular region					0	Breast(20;0.000443)|all_neural(118;0.0779)		BRCA - Breast invasive adenocarcinoma(99;0.0517)|OV - Ovarian serous cystadenocarcinoma(97;0.0868)			ATGCTCACTGGGAAGCAGTCCC	0.614													4	2	---	---	---	---	
DLGAP1	9229	broad.mit.edu	37	18	3827061	3827061	+	Intron	DEL	G	-	-			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr18:3827061delG	uc002kmf.2	-						DLGAP1_uc010wyz.1_Intron|DLGAP1_uc002kme.1_Intron|DLGAP1_uc010dkn.2_Intron|DLGAP1_uc010wyw.1_Intron|DLGAP1_uc010wyx.1_Intron|DLGAP1_uc010wyy.1_Intron|DLGAP1_uc002kmg.2_Intron|DLGAP1_uc002kmk.2_Intron	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)				gactcaggatggaaattagga	0.000													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	18	19581939	19581939	+	IGR	DEL	T	-	-			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr18:19581939delT								MIB1 (131029 upstream) : GATA6 (167477 downstream)																							AGCAACCACCTTTTACACCGC	0.567													4	2	---	---	---	---	
C18orf45	85019	broad.mit.edu	37	18	20848768	20848769	+	Intron	DEL	GT	-	-	rs72363310		TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr18:20848768_20848769delGT	uc010xaq.1	-									Q24JQ0	CR045_HUMAN	Homo sapiens cDNA FLJ41629 fis, clone DFNES2010502.							integral to membrane					0	all_cancers(21;0.000238)|all_epithelial(16;5.29e-06)|Lung NSC(20;0.00925)|Colorectal(14;0.0202)|all_lung(20;0.0255)|Ovarian(20;0.127)					gtgtgtgtgcgtgtgtgtgtgt	0.322													0	6	---	---	---	---	
Unknown	0	broad.mit.edu	37	18	33872055	33872056	+	IGR	INS	-	A	A	rs140238791	by1000genomes	TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr18:33872055_33872056insA								MOCOS (23371 upstream) : FHOD3 (5646 downstream)																							cctcctgcctcaAAAATGTGGT	0.178													3	3	---	---	---	---	
Unknown	0	broad.mit.edu	37	18	39471572	39471572	+	IGR	DEL	C	-	-			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr18:39471572delC								KC6 (371011 upstream) : PIK3C3 (63627 downstream)																							gatgctggtgccatggttcct	0.000													4	2	---	---	---	---	
KATNAL2	83473	broad.mit.edu	37	18	44624592	44624593	+	Intron	INS	-	A	A	rs78808663		TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr18:44624592_44624593insA	uc002lco.2	+						KATNAL2_uc010dnq.1_3'UTR|KATNAL2_uc002lcp.3_Intron	NM_031303	NP_112593	Q8IYT4	KATL2_HUMAN	katanin p60 subunit A-like 2							cytoplasm|microtubule	ATP binding|microtubule-severing ATPase activity			ovary(1)|skin(1)|central_nervous_system(1)|pancreas(1)	4						gactccgtctcaaaaaaaaaaa	0.005													4	2	---	---	---	---	
ZBTB7C	201501	broad.mit.edu	37	18	45889574	45889575	+	Intron	INS	-	C	C	rs150863827	by1000genomes	TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr18:45889574_45889575insC	uc010dnw.2	-						ZBTB7C_uc010dob.1_Intron|ZBTB7C_uc010doc.1_Intron|ZBTB7C_uc010dod.1_Intron|ZBTB7C_uc010doe.1_Intron|ZBTB7C_uc010dof.1_Intron|ZBTB7C_uc010dog.1_Intron|ZBTB7C_uc010doh.1_Intron|ZBTB7C_uc010doi.1_Intron|ZBTB7C_uc010doj.1_Intron|ZBTB7C_uc010dok.1_Intron|ZBTB7C_uc010dol.1_Intron|ZBTB7C_uc010doa.1_Intron|ZBTB7C_uc010don.1_Intron|ZBTB7C_uc010doo.1_Intron|ZBTB7C_uc010dop.1_Intron|ZBTB7C_uc010doq.1_Intron|ZBTB7C_uc010dor.1_Intron|ZBTB7C_uc010dos.1_Intron|ZBTB7C_uc010dot.1_Intron|ZBTB7C_uc010dou.1_Intron|ZBTB7C_uc010dom.1_Intron	NM_001039360	NP_001034449	A1YPR0	ZBT7C_HUMAN	zinc finger and BTB domain containing 7C							intracellular	nucleic acid binding|zinc ion binding			ovary(1)	1						TTCTTGCTGCTCGGGAGGGAGG	0.347													2	7	---	---	---	---	
DYM	54808	broad.mit.edu	37	18	46572127	46572127	+	Intron	DEL	C	-	-			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr18:46572127delC	uc002ldi.1	-						DYM_uc010xdf.1_Intron|uc002ldh.2_Intron	NM_017653	NP_060123	Q7RTS9	DYM_HUMAN	dymeclin							Golgi apparatus					0						CCCTGGAGGGCCCCGCACAGG	0.622													4	2	---	---	---	---	
SMAD4	4089	broad.mit.edu	37	18	48562344	48562344	+	Intron	DEL	T	-	-			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr18:48562344delT	uc010xdp.1	+						SMAD4_uc010xdo.1_Intron	NM_005359	NP_005350	Q13485	SMAD4_HUMAN	mothers against decapentaplegic homolog 4						BMP signaling pathway|negative regulation of cell growth|negative regulation of protein catabolic process|negative regulation of transcription, DNA-dependent|palate development|positive regulation of epithelial to mesenchymal transition|positive regulation of pathway-restricted SMAD protein phosphorylation|positive regulation of SMAD protein import into nucleus|positive regulation of transforming growth factor beta receptor signaling pathway|regulation of transforming growth factor-beta2 production|response to hypoxia|response to transforming growth factor beta stimulus|SMAD protein complex assembly|SMAD protein signal transduction|transforming growth factor beta receptor signaling pathway	activin responsive factor complex|centrosome|cytosol	I-SMAD binding|protein homodimerization activity|R-SMAD binding|transcription regulatory region DNA binding|transforming growth factor beta receptor, common-partner cytoplasmic mediator activity			pancreas(170)|large_intestine(108)|thyroid(19)|lung(11)|small_intestine(9)|upper_aerodigestive_tract(8)|biliary_tract(8)|ovary(7)|breast(6)|stomach(5)|oesophagus(3)|testis(2)|central_nervous_system(2)|haematopoietic_and_lymphoid_tissue(2)|gastrointestinal_tract_(site_indeterminate)(2)|liver(2)|kidney(1)|urinary_tract(1)|vulva(1)|skin(1)|NS(1)	369		all_cancers(7;0.203)|Colorectal(6;0.003)|all_epithelial(6;0.00336)		Colorectal(16;0.0032)|COAD - Colon adenocarcinoma(17;0.0708)|READ - Rectum adenocarcinoma(32;0.155)		TTTGGTATGCTTATCCTTACT	0.219									Juvenile_Polyposis|Hereditary_Hemorrhagic_Telangiectasia				4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	18	56524780	56524780	+	IGR	DEL	T	-	-	rs35037550		TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr18:56524780delT								MALT1 (107410 upstream) : ZNF532 (5281 downstream)																							attttcttgcttttttttttt	0.000													2	5	---	---	---	---	
PQLC1	80148	broad.mit.edu	37	18	77680161	77680161	+	Intron	DEL	A	-	-	rs150533815		TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr18:77680161delA	uc002lnl.2	-						PQLC1_uc010dre.2_Intron|PQLC1_uc002lnk.2_Intron|PQLC1_uc010xfm.1_Intron	NM_025078	NP_079354	Q8N2U9	PQLC1_HUMAN	PQ loop repeat containing 1 isoform 1							integral to membrane				large_intestine(1)|ovary(1)	2		Esophageal squamous(42;0.0212)|Melanoma(33;0.2)		OV - Ovarian serous cystadenocarcinoma(15;8.2e-07)|BRCA - Breast invasive adenocarcinoma(31;0.0258)		GAGGAGAGACAGGAACCGAGG	0.274													5	5	---	---	---	---	
Unknown	0	broad.mit.edu	37	19	1188388	1188388	+	IGR	DEL	T	-	-			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:1188388delT								SBNO2 (14106 upstream) : STK11 (17410 downstream)																							gcctggctaattttttttttt	0.000													3	3	---	---	---	---	
REXO1	57455	broad.mit.edu	37	19	1829248	1829248	+	Intron	DEL	T	-	-			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:1829248delT	uc002lua.3	-						REXO1_uc010dsr.1_Intron	NM_020695	NP_065746	Q8N1G1	REXO1_HUMAN	transcription elongation factor B polypeptide 3							nucleus	exonuclease activity|nucleic acid binding				0		Ovarian(11;1.78e-06)|Hepatocellular(1079;0.137)		UCEC - Uterine corpus endometrioid carcinoma (162;6.64e-05)|OV - Ovarian serous cystadenocarcinoma(105;1.09e-113)|Epithelial(107;3.79e-112)|all cancers(105;1.67e-104)|BRCA - Breast invasive adenocarcinoma(158;0.00136)|STAD - Stomach adenocarcinoma(1328;0.18)		CACAGGAAGAttttttttttt	0.318													4	2	---	---	---	---	
REXO1	57455	broad.mit.edu	37	19	1841197	1841197	+	Intron	DEL	C	-	-	rs66463271		TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:1841197delC	uc002lua.3	-						REXO1_uc010dsr.1_Intron	NM_020695	NP_065746	Q8N1G1	REXO1_HUMAN	transcription elongation factor B polypeptide 3							nucleus	exonuclease activity|nucleic acid binding				0		Ovarian(11;1.78e-06)|Hepatocellular(1079;0.137)		UCEC - Uterine corpus endometrioid carcinoma (162;6.64e-05)|OV - Ovarian serous cystadenocarcinoma(105;1.09e-113)|Epithelial(107;3.79e-112)|all cancers(105;1.67e-104)|BRCA - Breast invasive adenocarcinoma(158;0.00136)|STAD - Stomach adenocarcinoma(1328;0.18)		CTGACAGTCTCCCTTCTACCC	0.517													3	5	---	---	---	---	
TMPRSS9	360200	broad.mit.edu	37	19	2391599	2391600	+	Intron	INS	-	GT	GT	rs150804975	by1000genomes	TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:2391599_2391600insGT	uc010xgx.1	+						TMPRSS9_uc002lvv.1_Intron	NM_182973	NP_892018	Q7Z410	TMPS9_HUMAN	transmembrane protease, serine 9						proteolysis	integral to plasma membrane	serine-type endopeptidase activity			ovary(1)|central_nervous_system(1)	2				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)		tgtgtgcatgcgtgtgtgtgtg	0.302													2	4	---	---	---	---	
PIP5K1C	23396	broad.mit.edu	37	19	3661318	3661318	+	Intron	DEL	C	-	-	rs34598658		TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:3661318delC	uc002lyj.1	-						PIP5K1C_uc010xhq.1_Intron|PIP5K1C_uc010xhr.1_Intron	NM_012398	NP_036530	O60331	PI51C_HUMAN	phosphatidylinositol-4-phosphate 5-kinase, type						axon guidance	cytosol|plasma membrane	1-phosphatidylinositol-4-phosphate 5-kinase activity|ATP binding			stomach(2)|skin(2)	4		Hepatocellular(1079;0.137)		UCEC - Uterine corpus endometrioid carcinoma (162;6.95e-05)|BRCA - Breast invasive adenocarcinoma(158;0.0026)|STAD - Stomach adenocarcinoma(1328;0.183)		aggcacatggccgccaagaac	0.104													0	6	---	---	---	---	
ZFR2	23217	broad.mit.edu	37	19	3840805	3840805	+	Intron	DEL	C	-	-			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:3840805delC	uc002lyw.2	-						ZFR2_uc010xhx.1_Intron	NM_015174	NP_055989	Q9UPR6	ZFR2_HUMAN	zinc finger RNA binding protein 2 isoform 1							intracellular	nucleic acid binding|zinc ion binding			central_nervous_system(1)|pancreas(1)	2				UCEC - Uterine corpus endometrioid carcinoma (162;6.64e-05)|BRCA - Breast invasive adenocarcinoma(158;0.00514)|STAD - Stomach adenocarcinoma(1328;0.19)		gctgggattacaggcctaagc	0.000													4	2	---	---	---	---	
TICAM1	148022	broad.mit.edu	37	19	4828136	4828137	+	Intron	INS	-	T	T	rs144298485	by1000genomes	TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:4828136_4828137insT	uc002mbi.2	-							NM_182919	NP_891549	Q8IUC6	TCAM1_HUMAN	toll-like receptor adaptor molecule 1						apoptosis|I-kappaB kinase/NF-kappaB cascade|inflammatory response|innate immune response|MyD88-dependent toll-like receptor signaling pathway|MyD88-independent toll-like receptor signaling pathway|positive regulation of I-kappaB kinase/NF-kappaB cascade|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|endosome membrane|plasma membrane	protein kinase binding|signal transducer activity			breast(1)	1				UCEC - Uterine corpus endometrioid carcinoma (162;6.64e-05)|BRCA - Breast invasive adenocarcinoma(158;0.0139)		tgttttttttattttttttgag	0.203													4	2	---	---	---	---	
EMR1	2015	broad.mit.edu	37	19	6887379	6887380	+	5'Flank	DEL	GA	-	-			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:6887379_6887380delGA	uc002mfw.2	+						EMR1_uc010dvc.2_5'Flank|EMR1_uc010dvb.2_5'Flank|EMR1_uc010xji.1_5'Flank|EMR1_uc010xjj.1_5'Flank	NM_001974	NP_001965	Q14246	EMR1_HUMAN	egf-like module containing, mucin-like, hormone						cell adhesion|neuropeptide signaling pathway	integral to plasma membrane	calcium ion binding|G-protein coupled receptor activity			ovary(3)|lung(1)|skin(1)	5	all_hematologic(4;0.166)					CCATGGGAAGGAGAGAGAGAGA	0.421													5	3	---	---	---	---	
INSR	3643	broad.mit.edu	37	19	7207592	7207593	+	Intron	INS	-	A	A	rs139600079	by1000genomes	TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:7207592_7207593insA	uc002mgd.1	-						INSR_uc002mge.1_Intron|INSR_uc002mgf.2_Intron	NM_000208	NP_000199	P06213	INSR_HUMAN	insulin receptor isoform Long precursor						activation of MAPK activity|activation of protein kinase B activity|carbohydrate metabolic process|fibroblast growth factor receptor signaling pathway|G-protein coupled receptor protein signaling pathway|glucose homeostasis|heart morphogenesis|peptidyl-tyrosine phosphorylation|positive regulation of cell migration|positive regulation of cell proliferation|positive regulation of developmental growth|positive regulation of DNA replication|positive regulation of glucose import|positive regulation of glycogen biosynthetic process|positive regulation of glycolysis|positive regulation of MAPKKK cascade|positive regulation of mitosis|positive regulation of nitric oxide biosynthetic process|positive regulation of protein kinase B signaling cascade|positive regulation of protein phosphorylation|positive regulation of respiratory burst|protein autophosphorylation|protein heterotetramerization|regulation of embryonic development|regulation of transcription, DNA-dependent|transformation of host cell by virus	caveola|endosome membrane|insulin receptor complex|microsome	ATP binding|GTP binding|insulin binding|insulin receptor activity|insulin receptor substrate binding|insulin-like growth factor I binding|insulin-like growth factor II binding|insulin-like growth factor receptor binding|metal ion binding|phosphatidylinositol 3-kinase binding|PTB domain binding|receptor signaling protein tyrosine kinase activity|SH2 domain binding			ovary(4)|lung(3)|central_nervous_system(2)|large_intestine(1)|stomach(1)|skin(1)	12					Insulin Glargine recombinant(DB00047)|Insulin recombinant(DB00030)|Insulin, porcine(DB00071)	GCAACCATCTCAAAAAACAACA	0.381													3	3	---	---	---	---	
ZNF559	84527	broad.mit.edu	37	19	9447270	9447271	+	Intron	INS	-	A	A			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:9447270_9447271insA	uc002mlg.2	+						ZNF559_uc002mlf.2_Intron|ZNF559_uc010dwl.1_Intron|ZNF559_uc010xkn.1_Intron|ZNF559_uc010dwm.1_Intron|ZNF559_uc002mle.3_Intron|ZNF559_uc010dwk.1_Intron|ZNF559_uc002mld.2_Intron|ZNF559_uc010dwo.1_Intron|ZNF559_uc002mlh.1_Intron|ZNF177_uc002mli.2_Intron|ZNF177_uc002mlj.2_Intron	NM_032497	NP_115886	Q9BR84	ZN559_HUMAN	zinc finger protein 559						regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(1)	1						gactccatctcaaaaaaaaaac	0.000													3	3	---	---	---	---	
ECSIT	51295	broad.mit.edu	37	19	11628096	11628096	+	Intron	DEL	A	-	-			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:11628096delA	uc002msb.2	-						ECSIT_uc010dyc.1_Intron|ECSIT_uc010dyd.2_Intron|ECSIT_uc010xma.1_Intron	NM_016581	NP_057665	Q9BQ95	ECSIT_HUMAN	evolutionarily conserved signaling intermediate						innate immune response|regulation of oxidoreductase activity	mitochondrion	oxidoreductase activity, acting on NADH or NADPH|protein binding			ovary(1)	1						AGGCAATGTTAAAAAAAAAAA	0.065													4	2	---	---	---	---	
ZNF44	51710	broad.mit.edu	37	19	12402351	12402351	+	Intron	DEL	A	-	-			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:12402351delA	uc010xmj.1	-						ZNF44_uc002mtl.2_Intron|ZNF44_uc010dyr.1_Intron|ZNF44_uc010xmi.1_Intron|ZNF44_uc002mtn.3_Intron|ZNF44_uc010dys.2_Intron|ZNF44_uc002mto.2_Intron	NM_001164276	NP_001157748	P15621	ZNF44_HUMAN	zinc finger protein 44 isoform 1						regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasm|microtubule cytoskeleton|nucleus	DNA binding|protein binding|zinc ion binding			ovary(1)	1		Renal(1328;0.157)		GBM - Glioblastoma multiforme(1328;0.0164)|Lung(535;0.179)		catctctaccaaaaatacaaa	0.095													4	2	---	---	---	---	
CACNA1A	773	broad.mit.edu	37	19	13445411	13445412	+	Intron	INS	-	TT	TT	rs79798415		TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:13445411_13445412insTT	uc010dze.2	-						CACNA1A_uc002mwy.3_Intron	NM_001127221	NP_001120693	O00555	CAC1A_HUMAN	calcium channel, alpha 1A subunit isoform 3						cell death|elevation of cytosolic calcium ion concentration|energy reserve metabolic process|membrane depolarization|regulation of insulin secretion	cytoplasm|nucleus	syntaxin binding			large_intestine(2)	2			OV - Ovarian serous cystadenocarcinoma(19;5.07e-21)		Bepridil(DB01244)|Cinnarizine(DB00568)|Loperamide(DB00836)|Nisoldipine(DB00401)|Pregabalin(DB00230)	gtgtgtttgtgtgtgtgtgtgt	0.307													3	4	---	---	---	---	
ZSWIM4	65249	broad.mit.edu	37	19	13924875	13924875	+	Intron	DEL	T	-	-			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:13924875delT	uc002mxh.1	+						ZSWIM4_uc010xng.1_Intron	NM_023072	NP_075560	Q9H7M6	ZSWM4_HUMAN	zinc finger, SWIM-type containing 4								zinc ion binding			central_nervous_system(2)	2			OV - Ovarian serous cystadenocarcinoma(19;2.94e-23)|Epithelial(5;4.58e-19)			ACACGCATCCttttttttttt	0.239													2	4	---	---	---	---	
Unknown	0	broad.mit.edu	37	19	14536904	14536905	+	IGR	INS	-	T	T	rs143659936	by1000genomes	TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:14536904_14536905insT								DDX39 (6733 upstream) : PKN1 (7261 downstream)																							GTTTTTGTTTGTTTTTTTTTTG	0.099													3	3	---	---	---	---	
Unknown	0	broad.mit.edu	37	19	16153921	16153924	+	IGR	DEL	TGGA	-	-			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:16153921_16153924delTGGA								FLJ25328 (1006 upstream) : TPM4 (24393 downstream)																							gatgaatgagtggatggatggatg	0.059													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	19	18933522	18933522	+	IGR	DEL	T	-	-			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:18933522delT								COMP (31408 upstream) : UPF1 (9222 downstream)																							cgcgcccggcttttttttttt	0.000													4	2	---	---	---	---	
ZNF429	353088	broad.mit.edu	37	19	21731738	21731738	+	Intron	DEL	T	-	-			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:21731738delT	uc010ecu.1	+									Q86V71	ZN429_HUMAN	Homo sapiens KRAB zinc finger protein HZF26 (HZF26) mRNA, partial cds.						regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(2)	2						atgcttgtgatttttacacat	0.000													4	2	---	---	---	---	
ZNF100	163227	broad.mit.edu	37	19	21917893	21917893	+	Intron	DEL	A	-	-			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:21917893delA	uc002nqi.2	-						ZNF100_uc002nqh.2_Intron	NM_173531	NP_775802	Q8IYN0	ZN100_HUMAN	zinc finger protein 100						regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0						cagcaaatgcaaaacacattg	0.000													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	19	28558833	28558833	+	IGR	DEL	G	-	-			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:28558833delG								LOC148189 (273985 upstream) : LOC148145 (897207 downstream)																							GGCAGTCAAAGGGGGACTCGA	0.547													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	19	30409977	30409979	+	IGR	DEL	ACA	-	-	rs112140621		TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:30409977_30409979delACA								CCNE1 (94759 upstream) : C19orf2 (4572 downstream)																							accctgtctcacaacaacaacaa	0.000													5	4	---	---	---	---	
Unknown	0	broad.mit.edu	37	19	30823192	30823192	+	IGR	DEL	T	-	-			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:30823192delT								C19orf2 (316581 upstream) : ZNF536 (40136 downstream)																							tttctggcccttgtcttctct	0.224													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	19	33317585	33317586	+	Intron	DEL	AC	-	-	rs67597657		TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:33317585_33317586delAC	uc002nts.1	+											Homo sapiens cDNA FLJ13072 fis, clone NT2RP3001844.																		GTTCTCTTGAACAGAACCCCAA	0.545													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	19	34411152	34411152	+	IGR	DEL	C	-	-			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:34411152delC								KCTD15 (104487 upstream) : LSM14A (252200 downstream)																							gtgaaagaaaccaatccaaaa	0.000													4	2	---	---	---	---	
RBM42	79171	broad.mit.edu	37	19	36127056	36127056	+	Intron	DEL	T	-	-	rs34463796		TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:36127056delT	uc002oan.2	+						RBM42_uc010eef.2_Intron|RBM42_uc002oao.2_Intron|RBM42_uc002oap.2_Intron|RBM42_uc002oaq.2_Intron|RBM42_uc010eeg.2_Intron	NM_024321	NP_077297	Q9BTD8	RBM42_HUMAN	RNA binding motif protein 42							cytoplasm|nucleus	nucleotide binding|RNA binding				0	all_lung(56;1.58e-07)|Lung NSC(56;2.43e-07)|Esophageal squamous(110;0.162)		LUSC - Lung squamous cell carcinoma(66;0.0724)			tcttcttttgttttttttttt	0.139													5	3	---	---	---	---	
NPHS1	4868	broad.mit.edu	37	19	36320744	36320745	+	Intron	INS	-	T	T	rs112437714		TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:36320744_36320745insT	uc002oby.2	-							NM_004646	NP_004637	O60500	NPHN_HUMAN	nephrin precursor						cell adhesion|excretion|muscle organ development	integral to plasma membrane				ovary(4)|skin(1)	5	all_lung(56;7.14e-07)|Lung NSC(56;1.12e-06)|Esophageal squamous(110;0.162)		LUSC - Lung squamous cell carcinoma(66;0.0515)			ctcggcttaacttttttttttt	0.000													4	3	---	---	---	---	
ZNF527	84503	broad.mit.edu	37	19	37875404	37875405	+	Intron	INS	-	A	A			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:37875404_37875405insA	uc010efk.1	+						ZNF527_uc002ogf.3_Intron|ZNF527_uc010xtq.1_Intron|ZNF527_uc002oge.2_Intron	NM_032453	NP_115829	Q8NB42	ZN527_HUMAN	zinc finger protein 527						regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(2)	2			COAD - Colon adenocarcinoma(19;0.114)|Colorectal(19;0.177)			gaccctgtctcaaaaaaaaaaa	0.000													2	4	---	---	---	---	
ZNF607	84775	broad.mit.edu	37	19	38194172	38194173	+	Intron	INS	-	A	A			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:38194172_38194173insA	uc002ohc.1	-						ZNF607_uc002ohb.1_Intron	NM_032689	NP_116078	Q96SK3	ZN607_HUMAN	zinc finger protein 607						regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0			UCEC - Uterine corpus endometrioid carcinoma (49;0.0775)			taaataaatagcaaaaaaaaaa	0.000													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	19	39400054	39400055	+	IGR	INS	-	A	A	rs141351396	by1000genomes	TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:39400054_39400055insA								NFKBIB (521 upstream) : SARS2 (5849 downstream)																							TCGGTTCTCATAGTGGCATCCA	0.584													5	3	---	---	---	---	
ITPKC	80271	broad.mit.edu	37	19	41242192	41242193	+	Intron	INS	-	A	A			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:41242192_41242193insA	uc002oot.2	+							NM_025194	NP_079470	Q96DU7	IP3KC_HUMAN	inositol 1,4,5-trisphosphate 3-kinase C							cytoplasm|nucleus	ATP binding|calmodulin binding|inositol trisphosphate 3-kinase activity				0			LUSC - Lung squamous cell carcinoma(20;0.000219)|Lung(22;0.000959)			gagactctgtcaaaaaaaaaaa	0.079													4	2	---	---	---	---	
ZNF574	64763	broad.mit.edu	37	19	42570626	42570626	+	5'Flank	DEL	A	-	-			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:42570626delA	uc002osk.3	+						GRIK5_uc002osj.1_5'Flank|GRIK5_uc010eib.1_5'Flank	NM_022752	NP_073589	Q6ZN55	ZN574_HUMAN	zinc finger protein 574						regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0		Prostate(69;0.059)				taaaagggggaaaaaaaaaaa	0.035													6	4	---	---	---	---	
ZNF574	64763	broad.mit.edu	37	19	42576156	42576157	+	Intron	INS	-	A	A			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:42576156_42576157insA	uc002osk.3	+							NM_022752	NP_073589	Q6ZN55	ZN574_HUMAN	zinc finger protein 574						regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0		Prostate(69;0.059)				actccatctccaaaaaaaaaac	0.213													4	3	---	---	---	---	
ZNF226	7769	broad.mit.edu	37	19	44677476	44677479	+	Intron	DEL	CCTC	-	-	rs72010186		TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:44677476_44677479delCCTC	uc002oyp.2	+						ZNF226_uc002oyn.2_Intron|ZNF226_uc002oyo.2_Intron|ZNF226_uc002oyq.2_5'UTR|ZNF226_uc002oyr.2_5'UTR|ZNF226_uc010ejg.2_Intron|ZNF226_uc002oys.2_Intron|ZNF226_uc002oyt.2_Intron	NM_001032373	NP_001027545	Q9NYT6	ZN226_HUMAN	zinc finger protein 226 isoform a						regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0		Prostate(69;0.0352)|all_neural(266;0.202)				gccacattgtcctccctcttgctt	0.000													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	19	46911129	46911130	+	IGR	INS	-	TC	TC	rs77574236		TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:46911129_46911130insTC								PPP5C (17026 upstream) : CCDC8 (2457 downstream)																							GCTTTTGAGTTTGTGTGATAAC	0.376													1	5	---	---	---	---	
Unknown	0	broad.mit.edu	37	19	47141417	47141417	+	RNA	DEL	G	-	-			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:47141417delG	uc002pez.1	-	1		c.1002delC								Homo sapiens cDNA FLJ10148 fis, clone HEMBA1003370.																		TCCCACATACGGTCTCTCAAT	0.547													7	4	---	---	---	---	
SAE1	10055	broad.mit.edu	37	19	47698994	47698995	+	Intron	DEL	TT	-	-	rs138250666		TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:47698994_47698995delTT	uc002pgc.2	+						SAE1_uc002pgd.2_Intron|SAE1_uc010ekx.2_Intron|SAE1_uc010ekw.2_Intron|SAE1_uc010xyk.1_Intron|SAE1_uc002pge.2_Intron	NM_016402	NP_057486	Q9UBE0	SAE1_HUMAN	SubName: Full=SUMO-1 activating enzyme subunit 1, isoform CRA_b; SubName: Full=cDNA, FLJ96708, Homo sapiens SUMO-1 activating enzyme subunit 1 (SAE1), mRNA;						protein sumoylation|protein ubiquitination	nucleus	ATP-dependent protein binding|enzyme activator activity|ligase activity|protein C-terminus binding|protein heterodimerization activity|ubiquitin activating enzyme activity			ovary(1)	1		all_cancers(25;1.13e-05)|all_lung(116;0.000192)|all_epithelial(76;0.000274)|Lung NSC(112;0.000446)|all_neural(266;0.0652)|Ovarian(192;0.15)		all cancers(93;0.00013)|OV - Ovarian serous cystadenocarcinoma(262;0.000146)|Epithelial(262;0.00697)|GBM - Glioblastoma multiforme(486;0.0278)		ttttttcttctttttttttttt	0.010													5	3	---	---	---	---	
KCNJ14	3770	broad.mit.edu	37	19	48969062	48969062	+	3'UTR	DEL	A	-	-			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:48969062delA	uc002pje.1	+	3					KCNJ14_uc002pjf.1_3'UTR|uc002pjg.2_RNA	NM_013348	NP_037480	Q9UNX9	IRK14_HUMAN	potassium inwardly-rectifying channel J14							voltage-gated potassium channel complex	inward rectifier potassium channel activity			skin(1)	1		all_epithelial(76;2.38e-06)|all_lung(116;4.89e-06)|Lung NSC(112;9.34e-06)|all_neural(266;0.0189)|Ovarian(192;0.0261)		OV - Ovarian serous cystadenocarcinoma(262;0.000109)|all cancers(93;0.000129)|Epithelial(262;0.0081)|GBM - Glioblastoma multiforme(486;0.0222)		CTGTAATGCCAAAAGGAATGA	0.463													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	19	49211157	49211158	+	IGR	INS	-	GAAG	GAAG	rs76195787	by1000genomes	TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:49211157_49211158insGAAG								FUT2 (1967 upstream) : MAMSTR (5097 downstream)																							aagaaagaaagaaaggaagaaa	0.000													4	3	---	---	---	---	
TRPM4	54795	broad.mit.edu	37	19	49697930	49697931	+	Intron	INS	-	TCCA	TCCA	rs71180607		TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:49697930_49697931insTCCA	uc002pmw.2	+						TRPM4_uc010emu.2_Intron|TRPM4_uc010yak.1_Intron|TRPM4_uc002pmx.2_Intron|TRPM4_uc010emv.2_Intron|TRPM4_uc010yal.1_Intron|TRPM4_uc002pmy.2_Intron	NM_017636	NP_060106	Q8TD43	TRPM4_HUMAN	transient receptor potential cation channel,						dendritic cell chemotaxis|positive regulation of canonical Wnt receptor signaling pathway|positive regulation of cell proliferation|protein sumoylation|regulation of T cell cytokine production	endoplasmic reticulum|Golgi apparatus|integral to membrane|plasma membrane	ATP binding|calcium activated cation channel activity|calmodulin binding			ovary(1)|central_nervous_system(1)	2		all_lung(116;8.54e-05)|Lung NSC(112;0.000139)|all_neural(266;0.0506)|Ovarian(192;0.15)		all cancers(93;2.88e-05)|OV - Ovarian serous cystadenocarcinoma(262;0.000222)|GBM - Glioblastoma multiforme(486;0.00339)|Epithelial(262;0.00751)		ccctccctcccttccttccttc	0.005													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	19	50696494	50696495	+	IGR	INS	-	C	C	rs144753012	by1000genomes	TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:50696494_50696495insC								C19orf41 (29956 upstream) : MYH14 (10390 downstream)																							tctaagagggtcctctgactgc	0.000													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	19	51343186	51343187	+	IGR	INS	-	T	T	rs77347150		TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:51343186_51343187insT								KLK15 (8407 upstream) : KLK3 (14984 downstream)																							tttacgttttgttttttttttt	0.139													4	3	---	---	---	---	
SIGLEC9	27180	broad.mit.edu	37	19	51632812	51632812	+	Intron	DEL	G	-	-			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:51632812delG	uc002pvu.2	+						SIGLEC9_uc010yct.1_Intron	NM_014441	NP_055256	Q9Y336	SIGL9_HUMAN	sialic acid binding Ig-like lectin 9 precursor						cell adhesion|cell surface receptor linked signaling pathway	integral to plasma membrane	sugar binding			skin(1)	1		all_neural(266;0.0529)		GBM - Glioblastoma multiforme(134;0.000826)|OV - Ovarian serous cystadenocarcinoma(262;0.00295)		tcgtttgtttgtttttgtttt	0.199													4	2	---	---	---	---	
IGLON5	402665	broad.mit.edu	37	19	51822559	51822560	+	Intron	DEL	GT	-	-	rs35370241		TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:51822559_51822560delGT	uc002pwc.2	+							NM_001101372	NP_001094842	A6NGN9	IGLO5_HUMAN	IgLON family member 5 precursor							extracellular region					0						gtgtgtgtgcgtgtgtgtgtgt	0.446													3	5	---	---	---	---	
Unknown	0	broad.mit.edu	37	19	52422675	52422675	+	IGR	DEL	A	-	-	rs79329083		TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:52422675delA								ZNF649 (14428 upstream) : ZNF613 (8013 downstream)																							aagcattctgaaaaaaaaaaa	0.005													6	3	---	---	---	---	
Unknown	0	broad.mit.edu	37	19	55682835	55682838	+	IGR	DEL	AAGT	-	-	rs72065818		TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:55682835_55682838delAAGT								C19orf51 (4817 upstream) : SYT5 (1631 downstream)																							gcttaggagcaagtAAGTTTGTTT	0.255													3	5	---	---	---	---	
HSPBP1	23640	broad.mit.edu	37	19	55788861	55788862	+	Intron	INS	-	G	G	rs147038820	by1000genomes	TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:55788861_55788862insG	uc002qjx.2	-						HSPBP1_uc002qjy.2_Intron|HSPBP1_uc002qkb.2_Intron|HSPBP1_uc002qka.2_Intron|HSPBP1_uc002qkd.2_Intron|HSPBP1_uc002qkc.2_Intron	NM_012267	NP_036399	Q9NZL4	HPBP1_HUMAN	hsp70-interacting protein						positive regulation of proteasomal ubiquitin-dependent protein catabolic process|positive regulation of protein ubiquitination|protein folding		enzyme inhibitor activity|protein binding				0			BRCA - Breast invasive adenocarcinoma(297;0.209)	GBM - Glioblastoma multiforme(193;0.0452)		GGCAGAGCCTTGCTCCTTATGG	0.594													5	3	---	---	---	---	
Unknown	0	broad.mit.edu	37	19	55959982	55959983	+	IGR	DEL	CA	-	-			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:55959982_55959983delCA								SHISA7 (5752 upstream) : ISOC2 (4365 downstream)																							acacacacaccacacacaccac	0.000													4	2	---	---	---	---	
ZSCAN22	342945	broad.mit.edu	37	19	58851130	58851131	+	3'UTR	INS	-	T	T	rs144615729	by1000genomes	TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:58851130_58851131insT	uc002qsc.2	+	3					ZSCAN22_uc010yhz.1_3'UTR	NM_181846	NP_862829	P10073	ZSC22_HUMAN	zinc finger and SCAN domain containing 22						viral reproduction	nucleus	DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			pancreas(1)	1		all_cancers(17;3.11e-12)|all_epithelial(17;9.43e-09)|Colorectal(82;0.000256)|Lung NSC(17;0.000607)|all_lung(17;0.0024)|all_neural(62;0.0412)|Ovarian(87;0.156)		UCEC - Uterine corpus endometrioid carcinoma (67;0.168)|GBM - Glioblastoma multiforme(193;0.0289)		GAACGGACACCTGCCATGCCCA	0.411													2	6	---	---	---	---	
Unknown	0	broad.mit.edu	37	20	564328	564328	+	IGR	DEL	T	-	-			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr20:564328delT								CSNK2A1 (39846 upstream) : TCF15 (20311 downstream)																							TTACTGGAGATTTTCTctgta	0.219													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	20	1687681	1687681	+	IGR	DEL	C	-	-			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr20:1687681delC								SIRPG (49256 upstream) : SIRPA (187132 downstream)																							gaagagatggccttttacagc	0.000													4	3	---	---	---	---	
Unknown	0	broad.mit.edu	37	20	2654796	2654797	+	IGR	INS	-	A	A	rs80311744		TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr20:2654796_2654797insA								IDH3B (9953 upstream) : EBF4 (18727 downstream)																							gactccatctgaaaaaaaaaaa	0.178													2	4	---	---	---	---	
CDS2	8760	broad.mit.edu	37	20	5165756	5165756	+	Intron	DEL	A	-	-			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr20:5165756delA	uc002wls.2	+						CDS2_uc002wlr.1_Intron|CDS2_uc010zqt.1_Intron|CDS2_uc002wlu.2_Intron|CDS2_uc010zqu.1_Intron|CDS2_uc002wlv.2_Intron|CDS2_uc010zqv.1_Intron	NM_003818	NP_003809	O95674	CDS2_HUMAN	phosphatidate cytidylyltransferase 2						phospholipid biosynthetic process	integral to membrane|mitochondrial inner membrane	phosphatidate cytidylyltransferase activity				0						ACAACTGATTAAAAAAAAAAA	0.234													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	20	9512957	9512958	+	IGR	DEL	AT	-	-	rs150357466		TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr20:9512957_9512958delAT								C20orf103 (1786 upstream) : PAK7 (5079 downstream)																							GGAAGAAAACATATAAAACACA	0.441													3	4	---	---	---	---	
Unknown	0	broad.mit.edu	37	20	9970989	9970989	+	IGR	DEL	A	-	-			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr20:9970989delA								PAK7 (151302 upstream) : ANKRD5 (44708 downstream)																							ttaaagtattaaaaaaaaaaa	0.199													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	20	11260780	11260780	+	IGR	DEL	A	-	-	rs79053068		TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr20:11260780delA								JAG1 (606086 upstream) : BTBD3 (610697 downstream)																							TCACAACATTAAAAAAAAAAT	0.224													2	4	---	---	---	---	
Unknown	0	broad.mit.edu	37	20	11835528	11835528	+	IGR	DEL	A	-	-			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr20:11835528delA								None (None upstream) : BTBD3 (35949 downstream)																							actccgtatcaaaaaaaaaaa	0.000													3	3	---	---	---	---	
Unknown	0	broad.mit.edu	37	20	13655808	13655808	+	IGR	DEL	A	-	-	rs111619426		TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr20:13655808delA								TASP1 (36225 upstream) : ESF1 (39162 downstream)																							tccatctcggaaaaaaaaaaa	0.000													6	3	---	---	---	---	
Unknown	0	broad.mit.edu	37	20	13825008	13825011	+	IGR	DEL	GTGT	-	-	rs72146394		TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr20:13825008_13825011delGTGT								C20orf7 (27136 upstream) : SEL1L2 (5041 downstream)																							TTATTCAAGAgtgtgtgtgtgtgt	0.426													3	4	---	---	---	---	
MACROD2	140733	broad.mit.edu	37	20	14111577	14111577	+	Intron	DEL	T	-	-	rs11299862		TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr20:14111577delT	uc002wou.2	+						MACROD2_uc002wot.2_Intron	NM_080676	NP_542407	A1Z1Q3	MACD2_HUMAN	MACRO domain containing 2 isoform 1												0		all_neural(2;0.0381)|Acute lymphoblastic leukemia(2;0.175)				Gttttttttgttttttttttt	0.109													4	2	---	---	---	---	
C20orf72	92667	broad.mit.edu	37	20	17962292	17962293	+	Intron	DEL	GT	-	-			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr20:17962292_17962293delGT	uc002wqh.2	+						C20orf72_uc010gco.2_Intron|C20orf72_uc010gcp.2_Intron	NM_052865	NP_443097	Q9BQP7	CT072_HUMAN	hypothetical protein LOC92667												0						TCTACTACTCgtgtgtgtgtgt	0.020													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	20	20908425	20908426	+	IGR	DEL	GG	-	-			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr20:20908425_20908426delGG								RALGAPA2 (215159 upstream) : PLK1S1 (198198 downstream)																							GGCCTCACCTGGACCAATGGGT	0.500													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	20	21667578	21667579	+	IGR	INS	-	T	T			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr20:21667578_21667579insT								NKX2-2 (172914 upstream) : PAX1 (18718 downstream)																							CAAACTTGACAttttttttttt	0.183													4	3	---	---	---	---	
Unknown	0	broad.mit.edu	37	20	24416031	24416032	+	IGR	INS	-	GTGT	GTGT	rs138362764	by1000genomes	TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr20:24416031_24416032insGTGT								GGTLC1 (446615 upstream) : TMEM90B (33803 downstream)																							AGATGTGAATGgtgtgtgtgtg	0.178													7	4	---	---	---	---	
Unknown	0	broad.mit.edu	37	20	25079658	25079658	+	IGR	DEL	A	-	-	rs151125724		TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr20:25079658delA								VSX1 (16891 upstream) : LOC284798 (41776 downstream)																							actctgtctcaaaaaaaaaaa	0.139													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	20	25735949	25735952	+	IGR	DEL	CTTT	-	-	rs150472743		TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr20:25735949_25735952delCTTT								ZNF337 (58480 upstream) : FAM182B (8150 downstream)																							tttacaaaacctttctaacagttt	0.000													3	3	---	---	---	---	
Unknown	0	broad.mit.edu	37	20	26252927	26252928	+	IGR	INS	-	T	T	rs113168015		TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr20:26252927_26252928insT								MIR663 (64013 upstream) : None (None downstream)																							CCTGGTTAGGGTATGATTCAGC	0.450													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	20	30855811	30855812	+	IGR	DEL	TC	-	-			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr20:30855811_30855812delTC								POFUT1 (29345 upstream) : KIF3B (9655 downstream)																							cttccttccttcctctctctct	0.079													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	20	31560722	31560723	+	IGR	INS	-	T	T			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr20:31560722_31560723insT								MAPRE1 (122512 upstream) : SUN5 (10859 downstream)																							CCTGATGTGCCTTCGGTATGTC	0.629													3	3	---	---	---	---	
BASE	317716	broad.mit.edu	37	20	31790714	31790714	+	Intron	DEL	G	-	-	rs71771888		TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr20:31790714delG	uc002wyp.2	+						BASE_uc002wyq.2_Intron|BASE_uc010gei.1_Intron	NR_026760				Homo sapiens BASE mRNA, complete cds.												0						AAAAAAAAAAGAAGGATTGCT	0.214													4	2	---	---	---	---	
CBFA2T2	9139	broad.mit.edu	37	20	32211761	32211761	+	Intron	DEL	A	-	-			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr20:32211761delA	uc002wzg.1	+						CBFA2T2_uc010zug.1_Intron|CBFA2T2_uc002wze.1_Intron|CBFA2T2_uc002wzf.1_Intron|CBFA2T2_uc002wzh.1_Intron|CBFA2T2_uc002wzi.1_Intron|CBFA2T2_uc002wzj.1_Intron	NM_005093	NP_005084	O43439	MTG8R_HUMAN	core-binding factor, runt domain, alpha subunit							nucleus	protein binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			pancreas(1)|skin(1)	2						AAAGAATTGGaaaaaaaaaaa	0.303													6	3	---	---	---	---	
Unknown	0	broad.mit.edu	37	20	40020280	40020280	+	IGR	DEL	T	-	-			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr20:40020280delT								EMILIN3 (24782 upstream) : CHD6 (10890 downstream)																							tgagcaggccttagaatcatg	0.070													4	2	---	---	---	---	
PTPRT	11122	broad.mit.edu	37	20	40717752	40717753	+	Intron	DEL	GT	-	-			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr20:40717752_40717753delGT	uc002xkg.2	-						PTPRT_uc010ggj.2_Intron|PTPRT_uc010ggi.2_Intron	NM_007050	NP_008981	O14522	PTPRT_HUMAN	protein tyrosine phosphatase, receptor type, T						homophilic cell adhesion|transmembrane receptor protein tyrosine kinase signaling pathway	cell surface|integral to membrane|plasma membrane	alpha-catenin binding|beta-catenin binding|cadherin binding|delta-catenin binding|gamma-catenin binding|protein tyrosine phosphatase activity|receptor activity			skin(8)|ovary(7)|lung(5)	20		Myeloproliferative disorder(115;0.00452)|Lung NSC(126;0.0573)|all_lung(126;0.0783)				gtgtgtgtgagtgtgtgtgtgt	0.441													3	3	---	---	---	---	
Unknown	0	broad.mit.edu	37	20	43367334	43367334	+	Intron	DEL	T	-	-	rs56125162		TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr20:43367334delT	uc002xml.1	-						uc002xmm.1_Intron					Homo sapiens cDNA FLJ33523 fis, clone BRAMY2006411.																		ctcttacaTGTGTGTCATTTA	0.085													4	2	---	---	---	---	
STK4	6789	broad.mit.edu	37	20	43677153	43677153	+	Intron	DEL	T	-	-	rs79409911		TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr20:43677153delT	uc002xnb.2	+						STK4_uc010ggx.2_Intron|STK4_uc010ggy.2_Intron	NM_006282	NP_006273	Q13043	STK4_HUMAN	serine/threonine kinase 4						apoptosis|cell morphogenesis|hippo signaling cascade|intracellular protein kinase cascade|negative regulation of canonical Wnt receptor signaling pathway|peptidyl-serine phosphorylation|positive regulation of apoptosis|protein autophosphorylation	cytoplasm|nucleus	ATP binding|magnesium ion binding|protein homodimerization activity|protein serine/threonine kinase activator activity|protein serine/threonine kinase activity|transcription factor binding			ovary(1)|skin(1)	2		Myeloproliferative disorder(115;0.0122)				TGCTTTGTGAttttttttttt	0.224													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	20	43892258	43892258	+	IGR	DEL	T	-	-			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr20:43892258delT								SLPI (9052 upstream) : MATN4 (29829 downstream)																							TTTGATGTTGTTTTTCCTCCC	0.348													4	2	---	---	---	---	
EYA2	2139	broad.mit.edu	37	20	45573210	45573211	+	Intron	INS	-	GAG	GAG	rs147037486	by1000genomes	TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr20:45573210_45573211insGAG	uc002xsm.2	+						EYA2_uc010ghp.2_Intron	NM_005244	NP_005235	O00167	EYA2_HUMAN	eyes absent 2 isoform a						DNA repair|histone dephosphorylation|mesodermal cell fate specification|regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasm|nucleus	magnesium ion binding|protein binding|protein tyrosine phosphatase activity			ovary(1)	1		Myeloproliferative disorder(115;0.0241)				ctctccaaaatgagaaaaacag	0.119													3	4	---	---	---	---	
Unknown	0	broad.mit.edu	37	20	48392617	48392618	+	IGR	DEL	AG	-	-			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr20:48392617_48392618delAG								B4GALT5 (62196 upstream) : SLC9A8 (36632 downstream)																							aaaaTTAAAAagagagagagag	0.153													4	3	---	---	---	---	
Unknown	0	broad.mit.edu	37	20	48653949	48653949	+	IGR	DEL	G	-	-			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr20:48653949delG								SNAI1 (48531 upstream) : TMEM189-UBE2V1 (43714 downstream)																							gtgggggccagggccatgccc	0.353													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	20	49940893	49940896	+	IGR	DEL	GTGA	-	-	rs138500634		TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr20:49940893_49940896delGTGA								KCNG1 (301218 upstream) : NFATC2 (66870 downstream)																							gtgtgtgtgtgtgagtgtgCACAC	0.358													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	20	51014685	51014687	+	IGR	DEL	AAC	-	-	rs74177442		TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr20:51014685_51014687delAAC								ZFP64 (206161 upstream) : TSHZ2 (574190 downstream)																							tcTAaacaataacaacaacaaca	0.000													4	2	---	---	---	---	
DOK5	55816	broad.mit.edu	37	20	53109226	53109227	+	Intron	DEL	TG	-	-	rs66992940		TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr20:53109226_53109227delTG	uc002xwy.2	+						DOK5_uc010gin.2_Intron|DOK5_uc002xwz.2_Intron	NM_018431	NP_060901	Q9P104	DOK5_HUMAN	docking protein 5								insulin receptor binding			ovary(1)	1			Colorectal(105;0.202)			agtgTGGCTTtgtgtgtgtgtg	0.094													4	4	---	---	---	---	
Unknown	0	broad.mit.edu	37	20	56131441	56131441	+	IGR	DEL	T	-	-			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr20:56131441delT								CTCFL (30733 upstream) : PCK1 (4696 downstream)																							TGTGTGtttgttttttttttt	0.244													7	4	---	---	---	---	
Unknown	0	broad.mit.edu	37	20	56457602	56457602	+	IGR	DEL	G	-	-			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr20:56457602delG								PMEPA1 (171061 upstream) : C20orf85 (268381 downstream)																							AGGAGTAAGTGGGGAGGGATG	0.393													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	20	56469638	56469639	+	IGR	INS	-	GGAA	GGAA	rs138222517	by1000genomes	TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr20:56469638_56469639insGGAA								PMEPA1 (183097 upstream) : C20orf85 (256344 downstream)																							gaagggaggagggaaggaagga	0.054													6	4	---	---	---	---	
SYCP2	10388	broad.mit.edu	37	20	58489006	58489006	+	Intron	DEL	G	-	-			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr20:58489006delG	uc002yaz.2	-						SYCP2_uc010gju.1_Intron	NM_014258	NP_055073	Q9BX26	SYCP2_HUMAN	synaptonemal complex protein 2						cell division|meiotic prophase I|synaptonemal complex assembly		DNA binding			ovary(3)|lung(2)	5	all_lung(29;0.00344)		BRCA - Breast invasive adenocarcinoma(7;1.19e-09)			GACAGTAAATGGTTGTATCTT	0.333													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	20	59304310	59304310	+	IGR	DEL	T	-	-			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr20:59304310delT								MIR646 (420685 upstream) : CDH4 (523249 downstream)																							ctacatggagttgcccaattg	0.164													4	3	---	---	---	---	
Unknown	0	broad.mit.edu	37	20	59466326	59466327	+	IGR	INS	-	TT	TT	rs78234751		TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr20:59466326_59466327insTT								MIR646 (582701 upstream) : CDH4 (361232 downstream)																							TGCTCTCTCTCCTTCTTTCCCA	0.391													3	3	---	---	---	---	
CABLES2	81928	broad.mit.edu	37	20	60973128	60973133	+	Intron	DEL	GGTGGT	-	-			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr20:60973128_60973133delGGTGGT	uc002ycv.2	-							NM_031215	NP_112492	Q9BTV7	CABL2_HUMAN	Cdk5 and Abl enzyme substrate 2						cell cycle|cell division|regulation of cell cycle|regulation of cell division		cyclin-dependent protein kinase regulator activity			pancreas(1)	1	Breast(26;2.05e-08)		BRCA - Breast invasive adenocarcinoma(19;4.36e-06)			tggtggtgacggtggtggtggtggtg	0.000													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	20	61410791	61410793	+	IGR	DEL	CAA	-	-	rs147683468		TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr20:61410791_61410793delCAA								NTSR1 (16669 upstream) : C20orf20 (17012 downstream)																							CTCGCCCCTGCAACAACAGCACT	0.611													3	3	---	---	---	---	
Unknown	0	broad.mit.edu	37	21	10498470	10498470	+	Intron	DEL	A	-	-			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr21:10498470delA	uc011abv.1	-											Homo sapiens cDNA, FLJ18615.																		ctagtagaagaaaaaaaaaac	0.000													3	4	---	---	---	---	
Unknown	0	broad.mit.edu	37	21	10713720	10713721	+	IGR	DEL	TT	-	-	rs28856340		TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr21:10713720_10713721delTT								None (None upstream) : TPTE (193022 downstream)																							caccacaggcttcaaagtgctc	0.000													11	5	---	---	---	---	
Unknown	0	broad.mit.edu	37	21	10837250	10837259	+	IGR	DEL	AATGGAATGC	-	-	rs149153731		TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr21:10837250_10837259delAATGGAATGC								None (None upstream) : TPTE (69484 downstream)																							aatggactcgaatggaatgcaatggaatgg	0.000													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	21	10894689	10894689	+	IGR	DEL	A	-	-	rs149043106		TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr21:10894689delA								None (None upstream) : TPTE (12054 downstream)																							ttttcaagtgAAAAAAAAAAA	0.085													4	2	---	---	---	---	
BAGE2	85319	broad.mit.edu	37	21	11062214	11062214	+	Intron	DEL	C	-	-	rs113361486		TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr21:11062214delC	uc002yit.1	-						BAGE_uc002yiw.1_5'Flank|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)		taaaaagaaaccccccaaaaa	0.035													4	3	---	---	---	---	
Unknown	0	broad.mit.edu	37	21	11134501	11134502	+	IGR	INS	-	A	A	rs141313387		TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr21:11134501_11134502insA								BAGE (35564 upstream) : None (None downstream)																							tccCATTCATTAAAAAAAAAAT	0.025													6	5	---	---	---	---	
Unknown	0	broad.mit.edu	37	21	14359037	14359037	+	IGR	DEL	T	-	-	rs112182285		TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr21:14359037delT								None (None upstream) : C21orf99 (51450 downstream)																							gcgctcctaatttccacttgc	0.000													6	3	---	---	---	---	
Unknown	0	broad.mit.edu	37	21	14375978	14375978	+	IGR	DEL	T	-	-			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr21:14375978delT								None (None upstream) : C21orf99 (34509 downstream)																							AAttttattcttttttttttt	0.045													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	21	14806690	14806691	+	IGR	DEL	CT	-	-	rs112927866		TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr21:14806690_14806691delCT								C21orf99 (316121 upstream) : POTED (175807 downstream)																							cagagcaagactctgtctGTAA	0.035													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	21	15260784	15260785	+	IGR	INS	-	T	T			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr21:15260784_15260785insT								C21orf15 (40099 upstream) : C21orf81 (55311 downstream)																							aGCTACTGTGCTTtttttttac	0.114													4	4	---	---	---	---	
NRIP1	8204	broad.mit.edu	37	21	16396888	16396889	+	Intron	INS	-	GT	GT			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr21:16396888_16396889insGT	uc002yjx.2	-							NM_003489	NP_003480	P48552	NRIP1_HUMAN	nuclear receptor interacting protein 1						androgen receptor signaling pathway|negative regulation of transcription from RNA polymerase II promoter|positive regulation of transcription from RNA polymerase II promoter|transcription, DNA-dependent		androgen receptor binding|estrogen receptor binding|glucocorticoid receptor binding|transcription coactivator activity|transcription corepressor activity				0				Epithelial(23;1.19e-05)|all cancers(11;4.64e-05)|COAD - Colon adenocarcinoma(22;0.000232)|Colorectal(24;0.0006)|OV - Ovarian serous cystadenocarcinoma(11;0.00418)|Lung(58;0.199)|LUSC - Lung squamous cell carcinoma(23;0.24)		TGGTATCCAGAgtgtgtgtgtg	0.158													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	21	20079321	20079321	+	Intron	DEL	T	-	-	rs111918656		TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr21:20079321delT	uc010glf.1	-						uc002ykx.2_Intron					Homo sapiens, clone IMAGE:5392784, mRNA.																		tcttcttctattttttttttg	0.000													4	4	---	---	---	---	
Unknown	0	broad.mit.edu	37	21	31424608	31424608	+	IGR	DEL	A	-	-			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr21:31424608delA								GRIK1 (112326 upstream) : CLDN17 (113655 downstream)																							GCTGTGGTTTAAAAAAAAAGC	0.378													3	3	---	---	---	---	
HUNK	30811	broad.mit.edu	37	21	33328434	33328434	+	Intron	DEL	G	-	-			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr21:33328434delG	uc002yph.2	+							NM_014586	NP_055401	P57058	HUNK_HUMAN	hormonally upregulated Neu-associated kinase						multicellular organismal development|signal transduction		ATP binding|protein serine/threonine kinase activity			stomach(1)|skin(1)	2						gtcccagcctggggaagaccc	0.020													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	21	34299361	34299362	+	IGR	DEL	GT	-	-	rs72034272		TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr21:34299361_34299362delGT								C21orf62 (113308 upstream) : OLIG2 (98877 downstream)																							GAGGTAAGGGgtgtgtgtgtgt	0.198													3	4	---	---	---	---	
KCNJ6	3763	broad.mit.edu	37	21	39084769	39084770	+	Intron	INS	-	C	C			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr21:39084769_39084770insC	uc011aej.1	-						KCNJ6_uc002ywo.2_Intron	NM_002240	NP_002231	P48051	IRK6_HUMAN	potassium inwardly-rectifying channel J6						synaptic transmission	Golgi apparatus|voltage-gated potassium channel complex	G-protein activated inward rectifier potassium channel activity|protein binding			skin(1)	1					Halothane(DB01159)	cccctcctcctctctccctcct	0.158													4	2	---	---	---	---	
KCNJ6	3763	broad.mit.edu	37	21	39236416	39236416	+	Intron	DEL	T	-	-	rs72485481		TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr21:39236416delT	uc011aej.1	-						KCNJ6_uc002ywo.2_Intron	NM_002240	NP_002231	P48051	IRK6_HUMAN	potassium inwardly-rectifying channel J6						synaptic transmission	Golgi apparatus|voltage-gated potassium channel complex	G-protein activated inward rectifier potassium channel activity|protein binding			skin(1)	1					Halothane(DB01159)	CAATTCTCTAttttttttttt	0.254													4	2	---	---	---	---	
SLC37A1	54020	broad.mit.edu	37	21	43930634	43930635	+	Intron	INS	-	TATC	TATC	rs140799428	by1000genomes	TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr21:43930634_43930635insTATC	uc002zbi.2	+						SLC37A1_uc002zbh.1_Intron	NM_018964	NP_061837	P57057	GLPT_HUMAN	solute carrier family 37 member 1						carbohydrate transport|transmembrane transport	integral to membrane					0						tagtaagtccttatcaataatt	0.000													3	3	---	---	---	---	
TRPM2	7226	broad.mit.edu	37	21	45823423	45823424	+	Intron	DEL	AT	-	-	rs45509499		TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr21:45823423_45823424delAT	uc002zet.1	+						TRPM2_uc002zeu.1_Intron|TRPM2_uc002zew.1_Intron|TRPM2_uc010gpt.1_Intron|TRPM2_uc002zex.1_Intron|TRPM2_uc002zey.1_Intron	NM_003307	NP_003298	O94759	TRPM2_HUMAN	transient receptor potential cation channel,							integral to plasma membrane	ADP-ribose diphosphatase activity|calcium channel activity|sodium channel activity			ovary(1)|central_nervous_system(1)|pancreas(1)	3						gcacacacacataggcacacac	0.054													2	5	---	---	---	---	
Unknown	0	broad.mit.edu	37	22	17044467	17044467	+	IGR	DEL	A	-	-			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr22:17044467delA								OR11H1 (594663 upstream) : CCT8L2 (27181 downstream)																							ccggccagccaagccggccaa	0.000													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	22	17236829	17236829	+	IGR	DEL	T	-	-			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr22:17236829delT								psiTPTE22 (57308 upstream) : XKR3 (27484 downstream)																							ttttgttttgttttgttttga	0.109													5	3	---	---	---	---	
CECR2	27443	broad.mit.edu	37	22	18030097	18030098	+	Intron	DEL	AA	-	-	rs67518338		TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr22:18030097_18030098delAA	uc010gqw.1	+						CECR2_uc010gqv.1_Intron|CECR2_uc002zml.2_Intron|CECR2_uc002zmo.2_Intron	NM_031413	NP_113601	Q9BXF3	CECR2_HUMAN	cat eye syndrome chromosome region, candidate 2						chromatin modification|cytokinesis|cytoskeleton organization|DNA fragmentation involved in apoptotic nuclear change|vesicle-mediated transport		protein binding			ovary(1)|skin(1)	2		all_epithelial(15;0.139)		Lung(27;0.146)		TGACCAAGGTAAAAAAAAAAAA	0.351													5	3	---	---	---	---	
TUBA8	51807	broad.mit.edu	37	22	18570343	18570343	+	Intron	DEL	C	-	-			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr22:18570343delC	uc002znr.2	+						PEX26_uc002znp.3_Intron|PEX26_uc002znq.3_Intron|PEX26_uc002znt.2_Intron	NM_018943	NP_061816	Q9NY65	TBA8_HUMAN	tubulin, alpha 8						microtubule-based movement|protein polymerization	cytoplasm|microtubule	GTP binding|GTPase activity|structural molecule activity				0						CTTTATGGTTCCCGTAAGCCC	0.502													4	2	---	---	---	---	
GGT3P	2679	broad.mit.edu	37	22	18795006	18795009	+	5'Flank	DEL	CAAA	-	-			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr22:18795006_18795009delCAAA	uc002zob.1	-											Homo sapiens cDNA clone IMAGE:5761295, **** WARNING: chimeric clone ****.												0						AAAAGGTCCCCAAACAAAGAATCC	0.314													4	2	---	---	---	---	
HIRA	7290	broad.mit.edu	37	22	19425515	19425516	+	Intron	INS	-	A	A			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr22:19425515_19425516insA	uc010gro.1	-						HIRA_uc010grp.2_Intron	NM_003325	NP_003316	P54198	HIRA_HUMAN	HIR histone cell cycle regulation defective						chromatin modification|regulation of transcription from RNA polymerase II promoter	PML body	chromatin binding|protein binding|sequence-specific DNA binding transcription factor activity|transcription corepressor activity			ovary(1)	1	Colorectal(54;0.0993)					aactccccatcaaaaaaaaaaa	0.000													4	3	---	---	---	---	
Unknown	0	broad.mit.edu	37	22	19618654	19618655	+	IGR	DEL	TT	-	-			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr22:19618654_19618655delTT								LOC150185 (64292 upstream) : SEPT5 (83332 downstream)																							AGTCCATCCCtttttttttttt	0.203													4	4	---	---	---	---	
Unknown	0	broad.mit.edu	37	22	21911817	21911818	+	IGR	INS	-	T	T			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr22:21911817_21911818insT								PI4KAP2 (40037 upstream) : UBE2L3 (10139 downstream)																							CAGATCTACtcttttttttttt	0.233													4	2	---	---	---	---	
LOC96610	96610	broad.mit.edu	37	22	22801174	22801174	+	Intron	DEL	T	-	-			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr22:22801174delT	uc011aim.1	+											Parts of antibodies, mostly variable regions.												0						GCATCTGCTCTTGTGCAAAAT	0.478													4	2	---	---	---	---	
RAB36	9609	broad.mit.edu	37	22	23491139	23491139	+	Intron	DEL	A	-	-			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr22:23491139delA	uc002zwv.1	+						RAB36_uc010gtw.1_Intron	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)		cgaccacatgaaaaggtgcta	0.199													4	2	---	---	---	---	
C22orf13	83606	broad.mit.edu	37	22	24946768	24946769	+	Intron	INS	-	CCA	CCA	rs141155875	by1000genomes	TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr22:24946768_24946769insCCA	uc003aah.2	-						C22orf13_uc003aal.2_Intron|C22orf13_uc003aai.3_Intron|C22orf13_uc003aaj.3_Intron|C22orf13_uc003aak.3_Intron	NM_031444	NP_113632	Q96NT3	CV013_HUMAN	chromosome 22 open reading frame 13												0						tggctcagaggccatttccagg	0.129													6	5	---	---	---	---	
Unknown	0	broad.mit.edu	37	22	27945796	27945797	+	IGR	INS	-	A	A	rs75121073		TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr22:27945796_27945797insA								MIAT (830847 upstream) : MN1 (198469 downstream)																							gacttcatctcaaaaaaaaaaa	0.109													5	3	---	---	---	---	
Unknown	0	broad.mit.edu	37	22	29081617	29081618	+	IGR	INS	-	AAA	AAA			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr22:29081617_29081618insAAA								TTC28 (5764 upstream) : CHEK2 (2113 downstream)																							aactccgtctcaaaaaaaaaaa	0.000													4	2	---	---	---	---	
TCN2	6948	broad.mit.edu	37	22	31014260	31014260	+	Intron	DEL	T	-	-	rs111711760		TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr22:31014260delT	uc003aip.1	+						TCN2_uc003aiq.1_Intron|TCN2_uc003air.1_Intron	NM_000355	NP_000346	P20062	TCO2_HUMAN	transcobalamin II precursor						cobalamin metabolic process|cobalamin transport|cobalt ion transport	extracellular space	cobalamin binding			central_nervous_system(1)	1					Cyanocobalamin(DB00115)|Hydroxocobalamin(DB00200)	Gttttttttgttttttttttt	0.070													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	22	34354821	34354821	+	IGR	DEL	C	-	-			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr22:34354821delC								LARGE (36237 upstream) : None (None downstream)																							tcctcttcttccactggctgc	0.000													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	22	35871902	35871902	+	IGR	DEL	T	-	-	rs147950948		TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr22:35871902delT								MCM5 (51408 upstream) : RASD2 (65450 downstream)																							AAAATTACCCTTTTTTTTTTT	0.313													6	3	---	---	---	---	
TXN2	25828	broad.mit.edu	37	22	36870394	36870394	+	Intron	DEL	A	-	-			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr22:36870394delA	uc003apk.1	-						TXN2_uc003apl.1_Intron	NM_012473	NP_036605	Q99757	THIOM_HUMAN	thioredoxin 2 precursor						cell redox homeostasis|electron transport chain|glycerol ether metabolic process|transport	mitochondrion|nucleolus	electron carrier activity				0						tcctttgggtaatcactcccc	0.189													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	22	37346126	37346127	+	IGR	DEL	TT	-	-			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr22:37346126_37346127delTT								CSF2RB (9649 upstream) : C22orf33 (41034 downstream)																							tttctcattgtttttttttttt	0.000													4	2	---	---	---	---	
TMPRSS6	164656	broad.mit.edu	37	22	37474907	37474908	+	Intron	INS	-	GAG	GAG	rs12161061		TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr22:37474907_37474908insGAG	uc003aqs.1	-						TMPRSS6_uc003aqt.1_Intron	NM_153609	NP_705837	Q8IU80	TMPS6_HUMAN	transmembrane protease, serine 6						angiogenesis|extracellular matrix organization|fibrinolysis|intracellular signal transduction|proteolysis	integral to membrane|intracellular|plasma membrane	serine-type endopeptidase activity			breast(4)|ovary(1)|skin(1)	6						aagaaggagaagaggaagggag	0.000													5	3	---	---	---	---	
Unknown	0	broad.mit.edu	37	22	37725469	37725470	+	IGR	INS	-	T	T	rs140152470	by1000genomes	TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr22:37725469_37725470insT								CYTH4 (14081 upstream) : ELFN2 (38509 downstream)																							GAATCATTCCCCCTCTCAGGTC	0.485													9	4	---	---	---	---	
MFNG	4242	broad.mit.edu	37	22	37875441	37875441	+	Frame_Shift_Del	DEL	C	-	-			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr22:37875441delC	uc003ass.1	-	4	673	c.503delG	c.(502-504)GGAfs	p.G168fs	MFNG_uc011ani.1_Frame_Shift_Del_p.G46fs|MFNG_uc011anj.1_Frame_Shift_Del_p.G154fs|CARD10_uc003ast.1_RNA	NM_002405	NP_002396	O00587	MFNG_HUMAN	O-fucosylpeptide	168	Lumenal (Potential).				pattern specification process	extracellular space|integral to Golgi membrane	O-fucosylpeptide 3-beta-N-acetylglucosaminyltransferase activity			lung(1)	1	Melanoma(58;0.0574)					GCTGGGCCTTCCCACATAGAC	0.632													26	20	---	---	---	---	
TMEM184B	25829	broad.mit.edu	37	22	38663442	38663442	+	Intron	DEL	T	-	-			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr22:38663442delT	uc003avf.1	-						TMEM184B_uc003avg.1_Intron|TMEM184B_uc003avh.1_Intron|TMEM184B_uc010gxl.1_Intron	NM_012264	NP_036396	Q9Y519	T184B_HUMAN	transmembrane protein 184B							integral to membrane					0	Melanoma(58;0.045)					CCCTAATAtcttttttttttt	0.269													4	3	---	---	---	---	
KCNJ4	3761	broad.mit.edu	37	22	38850078	38850079	+	Intron	DEL	AC	-	-			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr22:38850078_38850079delAC	uc003avt.1	-							NM_152868	NP_690607	P48050	IRK4_HUMAN	potassium inwardly-rectifying channel J4						synaptic transmission	basolateral plasma membrane|voltage-gated potassium channel complex	inward rectifier potassium channel activity|PDZ domain binding				0	Melanoma(58;0.0286)					GTGGGGGAGAACACACACACAC	0.594													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	22	39452586	39452586	+	IGR	DEL	T	-	-			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr22:39452586delT								APOBEC3F (613 upstream) : APOBEC3G (20439 downstream)																							gttaaggctattttcgctttt	0.000													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	22	41387825	41387825	+	IGR	DEL	T	-	-			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr22:41387825delT								RBX1 (19159 upstream) : MIR1281 (100692 downstream)																							tttcctattcttttttttttt	0.000													3	4	---	---	---	---	
FAM109B	150368	broad.mit.edu	37	22	42475029	42475029	+	3'UTR	DEL	C	-	-			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr22:42475029delC	uc003bbz.2	+	3					C22orf32_uc003bca.2_5'Flank	NM_001002034	NP_001002034	Q6ICB4	SESQ2_HUMAN	hypothetical protein LOC150368						endosome organization|receptor recycling|retrograde transport, endosome to Golgi	clathrin-coated vesicle|early endosome|recycling endosome|trans-Golgi network	protein homodimerization activity				0						CCGTTTGTCACCCAGGGTGTA	0.562													4	2	---	---	---	---	
NFAM1	150372	broad.mit.edu	37	22	42830509	42830509	+	5'Flank	DEL	T	-	-			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr22:42830509delT	uc003bcn.3	-							NM_145912	NP_666017	Q8NET5	NFAM1_HUMAN	NFAT activation molecule 1 precursor						B cell differentiation|inflammatory response|intracellular signal transduction|positive regulation of B cell receptor signaling pathway|positive regulation of cytokine production|positive regulation of sequence-specific DNA binding transcription factor activity	integral to membrane|intracellular|plasma membrane	transmembrane receptor activity				0						CCACGCAGCCTCCTGGGGAGA	0.672													4	2	---	---	---	---	
CYB5R3	1727	broad.mit.edu	37	22	43023853	43023853	+	Intron	DEL	G	-	-			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr22:43023853delG	uc003bcz.2	-						CYB5R3_uc010gzc.1_Intron|CYB5R3_uc003bcw.2_Intron|CYB5R3_uc011aps.1_Intron|CYB5R3_uc003bcy.2_Intron|CYB5R3_uc003bcx.2_Intron	NM_000398	NP_000389	P00387	NB5R3_HUMAN	cytochrome b5 reductase 3 isoform m						blood circulation|cholesterol biosynthetic process|water-soluble vitamin metabolic process	endoplasmic reticulum membrane|hemoglobin complex|mitochondrial outer membrane	cytochrome-b5 reductase activity			skin(1)	1					NADH(DB00157)	CAGGAGCAGTGGAGAGGCTGG	0.607													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	22	43068071	43068072	+	IGR	INS	-	A	A	rs113732434		TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr22:43068071_43068072insA								CYB5R3 (22666 upstream) : A4GALT (20056 downstream)																							gactccgtctcaaaaaaaaaaa	0.000													4	2	---	---	---	---	
MPPED1	758	broad.mit.edu	37	22	43900846	43900848	+	Intron	DEL	TGA	-	-	rs76484145		TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr22:43900846_43900848delTGA	uc011apv.1	+						MPPED1_uc011apw.1_Intron|MPPED1_uc011apx.1_Intron|MPPED1_uc011apy.1_Intron|MPPED1_uc011apz.1_Intron	NM_001044370	NP_001037835	O15442	MPPD1_HUMAN	metallophosphoesterase domain containing 1								hydrolase activity				0		all_neural(38;0.0244)|Ovarian(80;0.0694)				atggtggtggtgatgataaaggt	0.074													1	5	---	---	---	---	
PHF21B	112885	broad.mit.edu	37	22	45280004	45280015	+	Intron	DEL	ATGATCACCATT	-	-	rs60606161		TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr22:45280004_45280015delATGATCACCATT	uc003bfn.2	-						PHF21B_uc003bfm.2_Intron|PHF21B_uc011aqk.1_Intron|PHF21B_uc011aql.1_Intron	NM_138415	NP_612424	Q96EK2	PF21B_HUMAN	PHD finger protein 21B isoform 1								zinc ion binding			ovary(2)|skin(1)	3		all_neural(38;0.00802)|Glioma(61;0.0353)|Ovarian(80;0.0731)		UCEC - Uterine corpus endometrioid carcinoma (28;0.0203)		catcaccatcatgatcaccattatcaccacca	0.000													5	3	---	---	---	---	
RIBC2	26150	broad.mit.edu	37	22	45812780	45812781	+	Intron	DEL	TT	-	-			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr22:45812780_45812781delTT	uc011aqs.1	+							NM_015653	NP_056468	Q9H4K1	RIBC2_HUMAN	RIB43A domain with coiled-coils 2												0		Ovarian(80;0.00965)|all_neural(38;0.0416)		UCEC - Uterine corpus endometrioid carcinoma (28;0.0178)		attactcaggtttttttttttt	0.000													4	3	---	---	---	---	
Unknown	0	broad.mit.edu	37	22	46289918	46289918	+	IGR	DEL	A	-	-	rs112456529		TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr22:46289918delA								ATXN10 (49089 upstream) : WNT7B (26330 downstream)																							gtggtttgttaaaaaaaaaaa	0.000													5	3	---	---	---	---	
TTC38	55020	broad.mit.edu	37	22	46667471	46667471	+	Intron	DEL	C	-	-			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr22:46667471delC	uc003bhi.2	+						TTC38_uc011aqx.1_Intron	NM_017931	NP_060401	Q5R3I4	TTC38_HUMAN	tetratricopeptide repeat domain 38								binding			ovary(1)	1						cagctcactgcaacctctacc	0.010													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	22	49615627	49615627	+	IGR	DEL	A	-	-			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr22:49615627delA								FAM19A5 (467885 upstream) : C22orf34 (192549 downstream)																							gtgtattggtaaactggacgc	0.000													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	X	512042	512045	+	IGR	DEL	TCTT	-	-			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chrX:512042_512045delTCTT								PPP2R3B (164415 upstream) : SHOX (73034 downstream)																							tctctttctctctttctttctttc	0.098													3	3	---	---	---	---	
Unknown	0	broad.mit.edu	37	X	929609	929609	+	IGR	DEL	C	-	-			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chrX:929609delC								SHOX (309464 upstream) : CRLF2 (385278 downstream)																							CGTGTTCCCTCCATATGCAGC	0.453													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	X	957620	957623	+	IGR	DEL	ATCC	-	-			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chrX:957620_957623delATCC								SHOX (337475 upstream) : CRLF2 (357264 downstream)																							gtatgtatgtatccatccatccat	0.000													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	X	1680095	1680096	+	IGR	INS	-	CTCC	CTCC			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chrX:1680095_1680096insCTCC								P2RY8 (24058 upstream) : SFRS17A (30390 downstream)																							ttccttcctttctccctccctc	0.000													2	4	---	---	---	---	
ASMT	438	broad.mit.edu	37	X	1731847	1731848	+	Intron	INS	-	TCTC	TCTC			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chrX:1731847_1731848insTCTC	uc004cqd.2	+						ASMT_uc010ncy.2_5'Flank|ASMT_uc004cqe.2_5'Flank	NM_004043	NP_004034	P46597	HIOM_HUMAN	acetylserotonin O-methyltransferase						melatonin biosynthetic process|translation	cytosol	acetylserotonin O-methyltransferase activity|S-methyltransferase activity			skin(1)	1		all_cancers(21;4.28e-07)|all_epithelial(21;2.07e-08)|all_lung(23;2.81e-05)|Lung NSC(23;0.000693)|Lung SC(21;0.122)				CTTCAAGGATTTCTTtttcttt	0.257													4	3	---	---	---	---	
Unknown	0	broad.mit.edu	37	X	1863415	1863417	+	IGR	DEL	CTC	-	-			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chrX:1863415_1863417delCTC								ASMT (101442 upstream) : DHRSX (274140 downstream)																							tgtgctttttctcctcctttgcc	0.000													3	4	---	---	---	---	
Unknown	0	broad.mit.edu	37	X	2029174	2029177	+	IGR	DEL	CTCA	-	-			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chrX:2029174_2029177delCTCA								ASMT (267201 upstream) : DHRSX (108380 downstream)																							ctgtctctctctcactctcttctc	0.000													3	3	---	---	---	---	
XG	7499	broad.mit.edu	37	X	2668246	2668246	+	5'Flank	DEL	A	-	-			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chrX:2668246delA	uc011mhg.1	+						XG_uc010ndb.2_5'Flank|XG_uc004cqp.2_5'Flank	NM_175569	NP_780778	P55808	XG_HUMAN	XG glycoprotein isoform 1 precursor							integral to membrane|plasma membrane				ovary(1)	1		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)				cctgtgtctcaaaaaaaaaaa	0.005													2	4	---	---	---	---	
MAP7D2	256714	broad.mit.edu	37	X	20042909	20042922	+	Intron	DEL	ACTCAGTCTCCTGA	-	-			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chrX:20042909_20042922delACTCAGTCTCCTGA	uc004czr.1	-						MAP7D2_uc004czq.1_Intron|MAP7D2_uc011mji.1_Intron|MAP7D2_uc010nfo.1_Intron|MAP7D2_uc011mjj.1_Intron	NM_152780	NP_689993	Q96T17	MA7D2_HUMAN	MAP7 domain containing 2											ovary(2)|breast(1)	3						CTAATATAAGACTCAGTCTCCTGAACACCTTCCA	0.393													6	3	---	---	---	---	
Unknown	0	broad.mit.edu	37	X	45976333	45976333	+	IGR	DEL	T	-	-			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chrX:45976333delT								MIR222 (369803 upstream) : ZNF673 (330291 downstream)																							tttggatggatttttttttct	0.000													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	X	61695733	61695733	+	IGR	DEL	C	-	-			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chrX:61695733delC								None (None upstream) : SPIN4 (871375 downstream)																							tgaacatatacccgtttcgaa	0.000													4	2	---	---	---	---	
HDAC8	55869	broad.mit.edu	37	X	71788808	71788808	+	Intron	DEL	C	-	-			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chrX:71788808delC	uc004eau.2	-						HDAC8_uc011mqe.1_5'Flank|HDAC8_uc011mqf.1_Intron|HDAC8_uc011mqg.1_Intron|HDAC8_uc011mqh.1_Intron|HDAC8_uc010nlk.1_Intron|HDAC8_uc004eav.2_Intron|HDAC8_uc004eaw.2_Intron	NM_018486	NP_060956	Q9BY41	HDAC8_HUMAN	histone deacetylase 8						chromatin assembly or disassembly|negative regulation of transcription from RNA polymerase II promoter|transcription, DNA-dependent	cytoplasm|histone deacetylase complex|nuclear chromosome	histone deacetylase activity (H3-K16 specific)|metal ion binding|NAD-dependent histone deacetylase activity (H3-K14 specific)|NAD-dependent histone deacetylase activity (H3-K9 specific)|NAD-dependent histone deacetylase activity (H4-K16 specific)|transcription factor binding				0	Renal(35;0.156)				Vorinostat(DB02546)	GAAACAGAAGCCAGCAGTCTG	0.448													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	X	79817169	79817169	+	IGR	DEL	C	-	-			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chrX:79817169delC								FAM46D (116359 upstream) : BRWD3 (114514 downstream)																							TTTGGTGCCTCCCCTTGGACC	0.607													3	9	---	---	---	---	
Unknown	0	broad.mit.edu	37	X	131722878	131722878	+	IGR	DEL	G	-	-			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chrX:131722878delG								MBNL3 (98883 upstream) : HS6ST2 (37160 downstream)																							tggtttctttgggcccacgcc	0.154													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	X	134219684	134219684	+	IGR	DEL	T	-	-			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chrX:134219684delT								FAM127B (33463 upstream) : NCRNA00087 (9331 downstream)																							cctttattgcttttttttttt	0.000													4	2	---	---	---	---	
FGF13	2258	broad.mit.edu	37	X	137754848	137754849	+	Intron	DEL	GA	-	-	rs138287834	by1000genomes	TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chrX:137754848_137754849delGA	uc004fam.2	-						FGF13_uc004fan.2_Intron|FGF13_uc011mwi.1_Intron|FGF13_uc004faq.2_Intron|FGF13_uc004far.2_Intron|FGF13_uc011mwj.1_Intron|FGF13_uc011mwk.1_Intron	NM_004114	NP_004105	Q92913	FGF13_HUMAN	fibroblast growth factor 13 isoform 1						cell-cell signaling|MAPKKK cascade|nervous system development	cytoplasm|nucleus	growth factor activity|protein kinase activator activity			ovary(1)|large_intestine(1)|breast(1)	3	Acute lymphoblastic leukemia(192;0.000127)					tgccaggctggagaatttgggg	0.000													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	Y	9951639	9951640	+	IGR	INS	-	C	C	rs142000841		TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chrY:9951639_9951640insC								TTTY22 (300785 upstream) : None (None downstream)																							aaactagaaataatttaaaaag	0.000													2	4	---	---	---	---	
Unknown	0	broad.mit.edu	37	Y	10044164	10044164	+	IGR	DEL	T	-	-	rs142909793		TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chrY:10044164delT								TTTY22 (393310 upstream) : None (None downstream)																							aacttctttgtgatgagagct	0.000													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	Y	10069721	10069722	+	IGR	INS	-	T	T			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chrY:10069721_10069722insT								TTTY22 (418867 upstream) : None (None downstream)																							tcaatcaaaagaaggttcaact	0.000													6	4	---	---	---	---	
Unknown	0	broad.mit.edu	37	Y	13143406	13143406	+	IGR	DEL	C	-	-			TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chrY:13143406delC								None (None upstream) : None (None downstream)																							acaatctcagctcacatttca	0.010													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	Y	58997444	58997445	+	IGR	INS	-	TT	TT	rs112443172		TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chrY:58997444_58997445insTT								None (None upstream) : None (None downstream)																							ctacaggtgcctatgacatatc	0.000													4	3	---	---	---	---	
Unknown	0	broad.mit.edu	37	Y	59030173	59030174	+	IGR	DEL	GT	-	-	rs3069048		TCGA-18-3421-01A-01D-0983-08	TCGA-18-3421-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chrY:59030173_59030174delGT								None (None upstream) : None (None downstream)																							caaaaaaaaGGTGGGGGGCAGA	0.050													4	2	---	---	---	---	
