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
PTCHD2	57540	broad.mit.edu	37	1	11579432	11579432	+	Missense_Mutation	SNP	G	A	A			TCGA-BP-5177-01A-01D-1429-08	TCGA-BP-5177-11A-01D-1429-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:11579432G>A	uc001ash.3	+	8	2048	c.1910G>A	c.(1909-1911)CGG>CAG	p.R637Q	PTCHD2_uc001asi.1_Missense_Mutation_p.R637Q	NM_020780	NP_065831	Q9P2K9	PTHD2_HUMAN	patched domain containing 2	637	Cytoplasmic (Potential).				cholesterol homeostasis|regulation of lipid transport|smoothened signaling pathway	endoplasmic reticulum|integral to membrane|nuclear membrane	hedgehog receptor activity			skin(3)|ovary(2)|pancreas(1)|breast(1)	7	Ovarian(185;0.249)	Lung NSC(185;4.16e-05)|all_lung(284;4.76e-05)|Renal(390;0.000147)|Breast(348;0.00093)|Colorectal(325;0.00205)|Hepatocellular(190;0.00913)|Ovarian(437;0.00965)|Myeloproliferative disorder(586;0.0255)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0228)|Colorectal(212;3.13e-07)|COAD - Colon adenocarcinoma(227;4.83e-05)|BRCA - Breast invasive adenocarcinoma(304;0.000325)|Kidney(185;0.000877)|KIRC - Kidney renal clear cell carcinoma(229;0.00273)|STAD - Stomach adenocarcinoma(313;0.00766)|READ - Rectum adenocarcinoma(331;0.0549)		AATTGCAGCCGGAAGACCTCC	0.647													69	225	---	---	---	---	PASS
HSPG2	3339	broad.mit.edu	37	1	22154639	22154639	+	Missense_Mutation	SNP	A	T	T			TCGA-BP-5177-01A-01D-1429-08	TCGA-BP-5177-11A-01D-1429-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:22154639A>T	uc001bfj.2	-	90	12456	c.12416T>A	c.(12415-12417)CTG>CAG	p.L4139Q	HSPG2_uc001bfi.2_Missense_Mutation_p.L156Q|HSPG2_uc009vqd.2_Missense_Mutation_p.L4140Q	NM_005529	NP_005520	P98160	PGBM_HUMAN	heparan sulfate proteoglycan 2 precursor	4139	EGF-like 3.				angiogenesis|cell adhesion|lipid metabolic process|lipoprotein metabolic process	basement membrane|extracellular space|plasma membrane	protein C-terminus binding			ovary(5)|large_intestine(2)|central_nervous_system(1)|skin(1)	9		Colorectal(325;3.46e-05)|all_lung(284;7.93e-05)|Lung NSC(340;8.71e-05)|Renal(390;0.000219)|Breast(348;0.00222)|Ovarian(437;0.00308)|Myeloproliferative disorder(586;0.0255)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0498)|OV - Ovarian serous cystadenocarcinoma(117;1.14e-26)|Colorectal(126;4.18e-07)|COAD - Colon adenocarcinoma(152;1.82e-05)|GBM - Glioblastoma multiforme(114;3.13e-05)|BRCA - Breast invasive adenocarcinoma(304;0.000756)|STAD - Stomach adenocarcinoma(196;0.00656)|KIRC - Kidney renal clear cell carcinoma(1967;0.00942)|READ - Rectum adenocarcinoma(331;0.0721)|Lung(427;0.223)	Becaplermin(DB00102)|Palifermin(DB00039)	GTGCTCACACAGGTCTCCTGT	0.701													3	67	---	---	---	---	PASS
AKR1A1	10327	broad.mit.edu	37	1	46032733	46032733	+	Intron	SNP	G	T	T			TCGA-BP-5177-01A-01D-1429-08	TCGA-BP-5177-11A-01D-1429-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:46032733G>T	uc001cod.2	+						AKR1A1_uc009vxw.2_3'UTR|AKR1A1_uc001coe.2_Intron|AKR1A1_uc001cof.2_5'Flank|AKR1A1_uc001cog.2_5'Flank	NM_006066	NP_006057	P14550	AK1A1_HUMAN	aldo-keto reductase family 1, member A1						glucose metabolic process		alditol:NADP+ 1-oxidoreductase activity|electron carrier activity|protein binding				0	Acute lymphoblastic leukemia(166;0.155)					TCAGGGGGTTGAGCAGGATGG	0.517													4	118	---	---	---	---	PASS
ANKRD13C	81573	broad.mit.edu	37	1	70766485	70766485	+	Missense_Mutation	SNP	C	A	A			TCGA-BP-5177-01A-01D-1429-08	TCGA-BP-5177-11A-01D-1429-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:70766485C>A	uc001dex.3	-	7	1209	c.883G>T	c.(883-885)GAC>TAC	p.D295Y	ANKRD13C_uc009wbk.2_Missense_Mutation_p.D260Y	NM_030816	NP_110443	Q8N6S4	AN13C_HUMAN	ankyrin repeat domain 13C	295					protein retention in ER lumen|regulation of anoikis|regulation of receptor biosynthetic process	endoplasmic reticulum membrane|perinuclear region of cytoplasm	receptor binding				0						TGTTCATTGTCTAATACTACA	0.363													15	42	---	---	---	---	PASS
CLCA2	9635	broad.mit.edu	37	1	86913358	86913358	+	Silent	SNP	T	C	C			TCGA-BP-5177-01A-01D-1429-08	TCGA-BP-5177-11A-01D-1429-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:86913358T>C	uc001dlr.3	+	11	2043	c.1881T>C	c.(1879-1881)AAT>AAC	p.N627N		NM_006536	NP_006527	Q9UQC9	CLCA2_HUMAN	chloride channel accessory 2 precursor	627	Extracellular (Potential).				cell adhesion	basal plasma membrane|cell junction|extracellular region|integral to plasma membrane	chloride channel activity			ovary(1)|breast(1)|skin(1)	3		Lung NSC(277;0.238)		all cancers(265;0.0233)|Epithelial(280;0.0452)		TTTATGCCAATGTGAAACAGG	0.507													44	93	---	---	---	---	PASS
RBM8A	9939	broad.mit.edu	37	1	145508564	145508564	+	Missense_Mutation	SNP	A	C	C			TCGA-BP-5177-01A-01D-1429-08	TCGA-BP-5177-11A-01D-1429-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:145508564A>C	uc001ent.1	+	4	324	c.295A>C	c.(295-297)ATT>CTT	p.I99L	NBPF10_uc001emp.3_Intron|RBM8A_uc001enu.1_Missense_Mutation_p.I98L|RBM8A_uc001enw.1_5'Flank	NM_005105	NP_005096	Q9Y5S9	RBM8A_HUMAN	RNA binding motif protein 8A	99	RRM.				mRNA 3'-end processing|mRNA export from nucleus|nuclear-transcribed mRNA catabolic process, nonsense-mediated decay|regulation of translation|termination of RNA polymerase II transcription	catalytic step 2 spliceosome|cytosol|exon-exon junction complex|nuclear speck	mRNA binding|nucleotide binding|protein binding				0	all_hematologic(18;0.0187)|Acute lymphoblastic leukemia(18;0.0786)					ATATGGGGAAATTAAAAACAT	0.438													42	118	---	---	---	---	PASS
KCNN3	3782	broad.mit.edu	37	1	154705482	154705482	+	Silent	SNP	G	A	A			TCGA-BP-5177-01A-01D-1429-08	TCGA-BP-5177-11A-01D-1429-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:154705482G>A	uc001ffp.2	-	4	1901	c.1587C>T	c.(1585-1587)ATC>ATT	p.I529I	KCNN3_uc001ffo.2_Silent_p.I224I	NM_002249	NP_002240	Q9UGI6	KCNN3_HUMAN	small conductance calcium-activated potassium	534	Helical; Name=Segment S6; (Potential).					integral to membrane	calmodulin binding			lung(1)	1	all_lung(78;2.29e-27)|all_hematologic(923;0.088)|Hepatocellular(266;0.108)|all_neural(408;0.245)		BRCA - Breast invasive adenocarcinoma(34;0.00819)			TACTCACCATGATGCCAGTGA	0.532													15	71	---	---	---	---	PASS
RFWD2	64326	broad.mit.edu	37	1	176055007	176055007	+	Missense_Mutation	SNP	T	C	C			TCGA-BP-5177-01A-01D-1429-08	TCGA-BP-5177-11A-01D-1429-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:176055007T>C	uc001gku.1	-	10	1302	c.1046A>G	c.(1045-1047)TAT>TGT	p.Y349C	RFWD2_uc001gkv.1_Missense_Mutation_p.Y325C|RFWD2_uc001gkw.1_Missense_Mutation_p.Y109C|RFWD2_uc009wwv.2_Missense_Mutation_p.Y148C|RFWD2_uc001gkt.1_Missense_Mutation_p.Y188C	NM_022457	NP_071902	Q8NHY2	RFWD2_HUMAN	ring finger and WD repeat domain 2 isoform a	349					DNA damage response, signal transduction by p53 class mediator resulting in cell cycle arrest	centrosome|cytosol|focal adhesion|nuclear speck	protein binding|ubiquitin-protein ligase activity|zinc ion binding				0						CGTGCTATTATACCAAGGCTG	0.338													35	147	---	---	---	---	PASS
NAV1	89796	broad.mit.edu	37	1	201751584	201751584	+	Silent	SNP	C	T	T			TCGA-BP-5177-01A-01D-1429-08	TCGA-BP-5177-11A-01D-1429-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:201751584C>T	uc001gwu.2	+	6	2291	c.1944C>T	c.(1942-1944)AGC>AGT	p.S648S	NAV1_uc001gwv.1_Silent_p.S156S|NAV1_uc001gww.1_Silent_p.S257S|NAV1_uc001gwx.2_Silent_p.S257S|NAV1_uc001gwy.1_Silent_p.S29S	NM_020443	NP_065176	Q8NEY1	NAV1_HUMAN	neuron navigator 1	648					cell differentiation|nervous system development	cytoplasm|microtubule	nucleoside-triphosphatase activity|nucleotide binding			central_nervous_system(3)|ovary(1)	4						GCAAGACTAGCTTAGATGTTT	0.552													37	114	---	---	---	---	PASS
OR2M2	391194	broad.mit.edu	37	1	248343988	248343988	+	Missense_Mutation	SNP	G	A	A			TCGA-BP-5177-01A-01D-1429-08	TCGA-BP-5177-11A-01D-1429-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:248343988G>A	uc010pzf.1	+	1	701	c.701G>A	c.(700-702)CGT>CAT	p.R234H		NM_001004688	NP_001004688	Q96R28	OR2M2_HUMAN	olfactory receptor, family 2, subfamily M,	234	Cytoplasmic (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(3)|skin(1)	4	all_cancers(71;0.000149)|all_epithelial(71;1.27e-05)|Breast(184;0.00909)|Ovarian(71;0.0377)|all_lung(81;0.127)|Lung NSC(105;0.136)		OV - Ovarian serous cystadenocarcinoma(106;0.0245)			GGAGAGGGTCGTTGCAAAGCT	0.468													5	193	---	---	---	---	PASS
CNRIP1	25927	broad.mit.edu	37	2	68520911	68520911	+	3'UTR	SNP	C	A	A			TCGA-BP-5177-01A-01D-1429-08	TCGA-BP-5177-11A-01D-1429-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:68520911C>A	uc002sek.3	-	3					CNRIP1_uc002sej.3_Intron|CNRIP1_uc002sem.1_RNA|CNRIP1_uc002sel.3_RNA	NM_015463	NP_056278	Q96F85	CNRP1_HUMAN	cannabinoid receptor interacting protein 1								protein binding			liver(1)	1						AATGGTGTGGCATGCCTTGTT	0.433													11	35	---	---	---	---	PASS
WASH2P	375260	broad.mit.edu	37	2	114355998	114355998	+	Missense_Mutation	SNP	C	G	G			TCGA-BP-5177-01A-01D-1429-08	TCGA-BP-5177-11A-01D-1429-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:114355998C>G	uc002tkh.2	+	5	674	c.616C>G	c.(616-618)CAC>GAC	p.H206D	WASH2P_uc002tka.2_RNA|WASH2P_uc002tkb.2_RNA|WASH2P_uc002tkd.2_RNA	NM_182905	NP_878908			WAS protein family homolog 1												0						CCAAGGTGGGCACTTGATGTC	0.612													3	9	---	---	---	---	PASS
NCKAP5	344148	broad.mit.edu	37	2	133540492	133540492	+	Missense_Mutation	SNP	G	A	A			TCGA-BP-5177-01A-01D-1429-08	TCGA-BP-5177-11A-01D-1429-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:133540492G>A	uc002ttp.2	-	14	4266	c.3892C>T	c.(3892-3894)CGC>TGC	p.R1298C	NCKAP5_uc002ttq.2_Intron	NM_207363	NP_997246	O14513	NCKP5_HUMAN	Nck-associated protein 5 isoform 1	1298							protein binding				0						ATCTGAGTGCGGACTTTGCCT	0.562													12	134	---	---	---	---	PASS
HOXD4	3233	broad.mit.edu	37	2	177016412	177016412	+	Missense_Mutation	SNP	C	G	G			TCGA-BP-5177-01A-01D-1429-08	TCGA-BP-5177-11A-01D-1429-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:177016412C>G	uc002uks.2	+	1	300	c.51C>G	c.(49-51)TTC>TTG	p.F17L		NM_014621	NP_055436	P09016	HXD4_HUMAN	homeobox D4	17						nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity			pancreas(1)	1			OV - Ovarian serous cystadenocarcinoma(117;0.00765)|Epithelial(96;0.105)	Colorectal(32;0.0224)|READ - Rectum adenocarcinoma(9;0.0556)		ACCCCAAGTTCCCTCCGTGCG	0.542													37	197	---	---	---	---	PASS
STRADB	55437	broad.mit.edu	37	2	202344965	202344965	+	3'UTR	SNP	T	G	G			TCGA-BP-5177-01A-01D-1429-08	TCGA-BP-5177-11A-01D-1429-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:202344965T>G	uc002uyd.3	+	12						NM_018571	NP_061041	Q9C0K7	STRAB_HUMAN	STE20-related kinase adaptor beta						activation of protein kinase activity|cell cycle arrest|insulin receptor signaling pathway|protein export from nucleus|regulation of fatty acid oxidation	cytosol|nucleus	ATP binding|protein binding|protein kinase activity			skin(2)|stomach(1)|lung(1)	4						CTTCTGTATTTCTAGGTACAA	0.368													5	239	---	---	---	---	PASS
SLC23A3	151295	broad.mit.edu	37	2	220034713	220034713	+	5'UTR	SNP	T	C	C			TCGA-BP-5177-01A-01D-1429-08	TCGA-BP-5177-11A-01D-1429-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:220034713T>C	uc010zks.1	-	1					NHEJ1_uc002vjq.3_RNA|SLC23A3_uc010zkr.1_5'UTR|SLC23A3_uc010fwb.2_5'UTR|SLC23A3_uc002vjs.1_5'Flank|SLC23A3_uc002vjt.1_5'Flank	NM_001144889	NP_001138361	Q6PIS1	S23A3_HUMAN	solute carrier family 23 (nucleobase						transmembrane transport	integral to membrane	protein binding|transporter activity				0		Renal(207;0.0474)		Epithelial(149;9.27e-07)|all cancers(144;0.000156)|LUSC - Lung squamous cell carcinoma(224;0.008)|Lung(261;0.00942)		TCATGCTGCCTTGCCTTTCGC	0.602													26	18	---	---	---	---	PASS
VHL	7428	broad.mit.edu	37	3	10188246	10188246	+	Missense_Mutation	SNP	T	A	A			TCGA-BP-5177-01A-01D-1429-08	TCGA-BP-5177-11A-01D-1429-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:10188246T>A	uc003bvc.2	+	2	602	c.389T>A	c.(388-390)GTT>GAT	p.V130D	VHL_uc003bvd.2_Intron	NM_000551	NP_000542	P40337	VHL_HUMAN	von Hippel-Lindau tumor suppressor isoform 1	130	Involved in binding to CCT complex.		V -> L (in ECYT2 and VHLD; type I).		anti-apoptosis|cell morphogenesis|negative regulation of cell proliferation|negative regulation of transcription from RNA polymerase II promoter|positive regulation of cell differentiation|positive regulation of transcription, DNA-dependent|protein stabilization|protein ubiquitination|proteolysis	cytosol|endoplasmic reticulum|membrane|mitochondrion|nucleus	protein binding|transcription factor binding	p.V130L(7)|p.V130>F(1)|p.V130G(1)|p.V130fs*28(1)|p.V130fs*29(1)|p.V130D(1)		kidney(1273)|soft_tissue(24)|adrenal_gland(15)|large_intestine(13)|pancreas(5)|endometrium(4)|thyroid(3)|upper_aerodigestive_tract(3)|central_nervous_system(2)|lung(2)|pleura(1)|paratesticular_tissues(1)	1346				Kidney(1;0.000404)|KIRC - Kidney renal clear cell carcinoma(1;0.000569)		GGGCTTCTGGTTAACCAAACT	0.418		1	D|Mis|N|F|S		renal|hemangioma|pheochromocytoma	renal|hemangioma|pheochromocytoma			von_Hippel-Lindau_disease|Chuvash_Polycythemia_|Pheochromocytoma_(Adrenal)_Familial				79	151	---	---	---	---	PASS
RPL15	6138	broad.mit.edu	37	3	23960059	23960059	+	Missense_Mutation	SNP	G	T	T			TCGA-BP-5177-01A-01D-1429-08	TCGA-BP-5177-11A-01D-1429-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:23960059G>T	uc003ccn.2	+	3	337	c.301G>T	c.(301-303)GTT>TTT	p.V101F	NKIRAS1_uc003cck.2_Intron|NKIRAS1_uc003ccj.2_5'Flank|NKIRAS1_uc003ccl.2_5'Flank|NKIRAS1_uc003ccm.2_5'Flank|RPL15_uc011awi.1_Missense_Mutation_p.V101F|RPL15_uc011awj.1_Intron|RPL15_uc003cco.2_Missense_Mutation_p.V101F|RPL15_uc003ccp.2_Missense_Mutation_p.V101F|RPL15_uc003ccq.2_Missense_Mutation_p.V101F|RPL15_uc003ccr.2_Missense_Mutation_p.V101F	NM_002948	NP_002939	P61313	RL15_HUMAN	ribosomal protein L15	101				V -> L (in Ref. 5; AAG44837).	endocrine pancreas development|translational elongation|translational termination|viral transcription	cytosol|ribosome	RNA binding|structural constituent of ribosome			ovary(1)	1						CCTTCAGTCCGTTGCAGAGGT	0.478													7	105	---	---	---	---	PASS
IGSF10	285313	broad.mit.edu	37	3	151176495	151176495	+	Missense_Mutation	SNP	C	A	A			TCGA-BP-5177-01A-01D-1429-08	TCGA-BP-5177-11A-01D-1429-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:151176495C>A	uc011bod.1	-	1	3	c.3G>T	c.(1-3)ATG>ATT	p.M1I		NM_178822	NP_849144	Q6WRI0	IGS10_HUMAN	immunoglobulin superfamily, member 10 precursor	1					cell differentiation|multicellular organismal development|ossification	extracellular region				skin(7)|ovary(5)|central_nervous_system(1)	13			LUSC - Lung squamous cell carcinoma(72;0.0394)|Lung(72;0.0517)			CTTTTACCTTCATCCTGAAAA	0.532													3	45	---	---	---	---	PASS
PPBPL2	10895	broad.mit.edu	37	4	74919821	74919821	+	RNA	SNP	G	T	T			TCGA-BP-5177-01A-01D-1429-08	TCGA-BP-5177-11A-01D-1429-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:74919821G>T	uc010iim.1	-	1		c.1296C>A				NR_026769				Homo sapiens pro-platelet basic protein-like 2, mRNA (cDNA clone IMAGE:40146960).												0						GGTCCAGGCAGATTTTTTCTC	0.403													13	45	---	---	---	---	PASS
OTUD4	54726	broad.mit.edu	37	4	146058470	146058470	+	3'UTR	SNP	T	C	C			TCGA-BP-5177-01A-01D-1429-08	TCGA-BP-5177-11A-01D-1429-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:146058470T>C	uc003ika.3	-	21					OTUD4_uc003ijz.3_3'UTR	NM_001102653	NP_001096123	Q01804	OTUD4_HUMAN	OTU domain containing 4 protein isoform 3								protein binding			ovary(2)|breast(1)	3	all_hematologic(180;0.151)					TAAGGGGGGCTGGGGAGAGGA	0.408													11	42	---	---	---	---	PASS
PCDHA10	56139	broad.mit.edu	37	5	140237249	140237249	+	Missense_Mutation	SNP	G	C	C			TCGA-BP-5177-01A-01D-1429-08	TCGA-BP-5177-11A-01D-1429-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:140237249G>C	uc003lhx.2	+	1	1616	c.1616G>C	c.(1615-1617)GGG>GCG	p.G539A	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_uc011dad.1_Missense_Mutation_p.G539A	NM_018901	NP_061724	Q9Y5I2	PCDAA_HUMAN	protocadherin alpha 10 isoform 1 precursor	539	Cadherin 5.|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)			GCGCGCGATGGGGGCGTGCCG	0.687													9	151	---	---	---	---	PASS
PPP2R2B	5521	broad.mit.edu	37	5	145969341	145969341	+	3'UTR	SNP	T	G	G			TCGA-BP-5177-01A-01D-1429-08	TCGA-BP-5177-11A-01D-1429-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:145969341T>G	uc003loe.2	-	9					PPP2R2B_uc010jgm.2_3'UTR|PPP2R2B_uc003log.3_3'UTR|PPP2R2B_uc003lof.3_3'UTR|PPP2R2B_uc003loi.3_3'UTR|PPP2R2B_uc003loh.3_3'UTR|PPP2R2B_uc003loj.3_3'UTR|PPP2R2B_uc003lok.3_3'UTR|PPP2R2B_uc011dbu.1_3'UTR|PPP2R2B_uc011dbv.1_3'UTR	NM_004576	NP_004567	Q00005	2ABB_HUMAN	beta isoform of regulatory subunit B55, protein						apoptosis|signal transduction	cytoskeleton|mitochondrial outer membrane|protein phosphatase type 2A complex	protein binding|protein phosphatase type 2A regulator activity			ovary(1)|prostate(1)	2			KIRC - Kidney renal clear cell carcinoma(527;0.000785)|Kidney(363;0.00101)			TGACAAAAGTTTCTTAGAACT	0.378													4	15	---	---	---	---	PASS
SKIV2L	6499	broad.mit.edu	37	6	31928014	31928014	+	Missense_Mutation	SNP	C	T	T	rs146717555		TCGA-BP-5177-01A-01D-1429-08	TCGA-BP-5177-11A-01D-1429-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:31928014C>T	uc003nyn.1	+	4	643	c.254C>T	c.(253-255)ACG>ATG	p.T85M	RDBP_uc003nyk.2_5'Flank|RDBP_uc011dot.1_5'Flank|RDBP_uc003nyl.1_5'Flank|RDBP_uc003nym.1_5'Flank|SKIV2L_uc011dou.1_Intron|SKIV2L_uc011dov.1_Intron	NM_006929	NP_008860	Q15477	SKIV2_HUMAN	superkiller viralicidic activity 2-like homolog	85						nucleus	ATP binding|ATP-dependent RNA helicase activity|protein binding|RNA binding			ovary(1)|large_intestine(1)|breast(1)|central_nervous_system(1)	4						CAGAGGAAGACGGATCCCTGG	0.517													59	295	---	---	---	---	PASS
GFRAL	389400	broad.mit.edu	37	6	55216230	55216230	+	Nonsense_Mutation	SNP	C	T	T			TCGA-BP-5177-01A-01D-1429-08	TCGA-BP-5177-11A-01D-1429-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:55216230C>T	uc003pcm.1	+	5	636	c.550C>T	c.(550-552)CAG>TAG	p.Q184*		NM_207410	NP_997293	Q6UXV0	GFRAL_HUMAN	GDNF family receptor alpha like precursor	184	Extracellular (Potential).					integral to membrane	receptor activity			ovary(1)|breast(1)	2	Lung NSC(77;0.0875)|Renal(3;0.122)		LUSC - Lung squamous cell carcinoma(124;0.23)			TAACATTGCCCAGATGTTGGC	0.428													13	367	---	---	---	---	PASS
AIM1	202	broad.mit.edu	37	6	106968602	106968602	+	Silent	SNP	G	A	A			TCGA-BP-5177-01A-01D-1429-08	TCGA-BP-5177-11A-01D-1429-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:106968602G>A	uc003prh.2	+	2	2782	c.2295G>A	c.(2293-2295)CCG>CCA	p.P765P		NM_001624	NP_001615	Q9Y4K1	AIM1_HUMAN	absent in melanoma 1	765							sugar binding			breast(4)|ovary(2)|upper_aerodigestive_tract(1)|large_intestine(1)|skin(1)	9	Breast(9;0.0138)|all_epithelial(6;0.169)	all_cancers(87;4.67e-25)|all_epithelial(87;5.46e-21)|Acute lymphoblastic leukemia(125;2.15e-07)|all_hematologic(75;5.28e-06)|Colorectal(196;3.46e-05)|all_lung(197;5.94e-05)|Lung NSC(302;7.26e-05)|Ovarian(999;0.00473)	Epithelial(6;0.00114)|all cancers(7;0.00726)|BRCA - Breast invasive adenocarcinoma(8;0.0114)|OV - Ovarian serous cystadenocarcinoma(5;0.0305)	all cancers(137;1.73e-50)|Epithelial(106;2.42e-48)|OV - Ovarian serous cystadenocarcinoma(136;1.51e-27)|BRCA - Breast invasive adenocarcinoma(108;0.00104)|GBM - Glioblastoma multiforme(226;0.00858)		AAATGTCACCGGCTTTACATT	0.453													28	84	---	---	---	---	PASS
SYNE1	23345	broad.mit.edu	37	6	152623233	152623233	+	Intron	SNP	C	A	A			TCGA-BP-5177-01A-01D-1429-08	TCGA-BP-5177-11A-01D-1429-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:152623233C>A	uc010kiw.2	-						SYNE1_uc010kiv.2_Intron|SYNE1_uc003qos.3_Intron|SYNE1_uc003qot.3_Intron|SYNE1_uc003qou.3_Intron|SYNE1_uc010kiy.1_5'UTR	NM_182961	NP_892006	Q8NF91	SYNE1_HUMAN	spectrin repeat containing, nuclear envelope 1						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)		GGTGTCAGAGCAGCATCAAAA	0.567										HNSCC(10;0.0054)			3	48	---	---	---	---	PASS
RADIL	55698	broad.mit.edu	37	7	4838975	4838975	+	3'UTR	SNP	G	C	C	rs149757850	by1000genomes	TCGA-BP-5177-01A-01D-1429-08	TCGA-BP-5177-11A-01D-1429-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:4838975G>C	uc003snj.1	-	15					RADIL_uc003sng.1_RNA|RADIL_uc003sni.1_3'UTR|RADIL_uc011jwc.1_3'UTR|RADIL_uc011jwd.1_RNA|RADIL_uc003snh.1_3'UTR	NM_018059	NP_060529	Q96JH8	RADIL_HUMAN	Rap GTPase interactor						cell adhesion|multicellular organismal development|signal transduction		protein binding			lung(2)|central_nervous_system(2)|pancreas(2)|breast(1)	7		Ovarian(82;0.0175)		UCEC - Uterine corpus endometrioid carcinoma (126;0.0986)|OV - Ovarian serous cystadenocarcinoma(56;7.41e-15)		GTGGGACCGGGTGCCGGGCCT	0.647													5	43	---	---	---	---	PASS
DNAH11	8701	broad.mit.edu	37	7	21639591	21639591	+	Missense_Mutation	SNP	C	T	T			TCGA-BP-5177-01A-01D-1429-08	TCGA-BP-5177-11A-01D-1429-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:21639591C>T	uc003svc.2	+	15	2885	c.2854C>T	c.(2854-2856)CCT>TCT	p.P952S		NM_003777	NP_003768	Q96DT5	DYH11_HUMAN	dynein, axonemal, heavy chain 11	952	Stem (By similarity).				microtubule-based movement	axonemal dynein complex|cilium axoneme|cytoplasm|microtubule	ATP binding|ATPase activity|microtubule motor activity			ovary(8)|large_intestine(3)|pancreas(3)|central_nervous_system(1)	15						GATCTTGTTGCCTCCTGAGAT	0.393									Kartagener_syndrome				49	52	---	---	---	---	PASS
ING3	54556	broad.mit.edu	37	7	120590838	120590838	+	5'UTR	SNP	C	T	T			TCGA-BP-5177-01A-01D-1429-08	TCGA-BP-5177-11A-01D-1429-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:120590838C>T	uc003vjn.2	+	1					ING3_uc011knr.1_5'UTR|ING3_uc003vjl.2_5'UTR|ING3_uc003vjm.1_5'UTR|ING3_uc003vjo.2_5'UTR|ING3_uc003vjp.2_5'UTR|ING3_uc011kns.1_5'Flank	NM_019071	NP_061944	Q9NXR8	ING3_HUMAN	inhibitor of growth family, member 3 isoform 1						histone H2A acetylation|histone H4 acetylation|positive regulation of apoptosis|regulation of growth|regulation of transcription, DNA-dependent|transcription, DNA-dependent	NuA4 histone acetyltransferase complex|Piccolo NuA4 histone acetyltransferase complex	zinc ion binding			ovary(1)	1	all_neural(327;0.117)					ttGCCGGAGTCGAGCGGGTGC	0.532													8	21	---	---	---	---	PASS
PCMTD1	115294	broad.mit.edu	37	8	52732843	52732843	+	3'UTR	SNP	C	T	T	rs116069210	by1000genomes	TCGA-BP-5177-01A-01D-1429-08	TCGA-BP-5177-11A-01D-1429-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:52732843C>T	uc003xqx.3	-	6					PCMTD1_uc011ldm.1_3'UTR|PCMTD1_uc003xqw.3_3'UTR|PCMTD1_uc011ldn.1_3'UTR|PCMTD1_uc010lya.2_3'UTR	NM_052937	NP_443169	Q96MG8	PCMD1_HUMAN	protein-L-isoaspartate (D-aspartate)							cytoplasm	protein-L-isoaspartate (D-aspartate) O-methyltransferase activity				0		Lung NSC(129;0.0795)|all_lung(136;0.144)				TCTCTTTTAACTCCTAACAAA	0.284													3	20	---	---	---	---	PASS
PCMTD1	115294	broad.mit.edu	37	8	52732871	52732871	+	3'UTR	SNP	T	C	C	rs77261625	by1000genomes	TCGA-BP-5177-01A-01D-1429-08	TCGA-BP-5177-11A-01D-1429-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:52732871T>C	uc003xqx.3	-	6					PCMTD1_uc011ldm.1_3'UTR|PCMTD1_uc003xqw.3_3'UTR|PCMTD1_uc011ldn.1_3'UTR|PCMTD1_uc010lya.2_3'UTR	NM_052937	NP_443169	Q96MG8	PCMD1_HUMAN	protein-L-isoaspartate (D-aspartate)							cytoplasm	protein-L-isoaspartate (D-aspartate) O-methyltransferase activity				0		Lung NSC(129;0.0795)|all_lung(136;0.144)				TTTTCAAGACTAAAGGAATTA	0.313													3	37	---	---	---	---	PASS
REXO1L1	254958	broad.mit.edu	37	8	86573410	86573410	+	3'UTR	SNP	G	A	A	rs79376271	by1000genomes	TCGA-BP-5177-01A-01D-1429-08	TCGA-BP-5177-11A-01D-1429-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:86573410G>A	uc011lfw.1	-	1						NM_172239	NP_758439	Q8IX06	GOR_HUMAN	exonuclease GOR							cytoplasm|nucleus	exonuclease activity|nucleic acid binding				0						TGGGCAGAGGGATGTGAACAG	0.667													5	20	---	---	---	---	PASS
NOL8	55035	broad.mit.edu	37	9	95077535	95077535	+	Missense_Mutation	SNP	C	T	T			TCGA-BP-5177-01A-01D-1429-08	TCGA-BP-5177-11A-01D-1429-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr9:95077535C>T	uc004arv.2	-	7	1709	c.1372G>A	c.(1372-1374)GAT>AAT	p.D458N	NOL8_uc010mqw.2_RNA|NOL8_uc004arw.2_Intron|NOL8_uc011ltw.1_Missense_Mutation_p.D390N	NM_017948	NP_060418	Q76FK4	NOL8_HUMAN	nucleolar protein 8	458					DNA replication|positive regulation of cell growth	nucleolus	nucleotide binding|protein binding|RNA binding			ovary(1)	1						GAATCAGCATCTTCACTGCTA	0.393													15	70	---	---	---	---	PASS
HSDL2	84263	broad.mit.edu	37	9	115179063	115179063	+	Intron	SNP	A	C	C			TCGA-BP-5177-01A-01D-1429-08	TCGA-BP-5177-11A-01D-1429-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr9:115179063A>C	uc004bga.1	+						HSDL2_uc011lwv.1_Intron|HSDL2_uc004bgb.1_Intron|HSDL2_uc004bgc.1_Intron|HSDL2_uc011lww.1_Intron|HSDL2_uc004bgd.2_RNA	NM_032303	NP_115679	Q6YN16	HSDL2_HUMAN	hydroxysteroid dehydrogenase like 2							peroxisome	oxidoreductase activity|sterol binding				0						ttaaaaaaaaaaGTGGAGAAA	0.149													5	16	---	---	---	---	PASS
EPS8L2	64787	broad.mit.edu	37	11	726936	726936	+	Missense_Mutation	SNP	G	C	C			TCGA-BP-5177-01A-01D-1429-08	TCGA-BP-5177-11A-01D-1429-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:726936G>C	uc001lqt.2	+	21	2350	c.2103G>C	c.(2101-2103)ATG>ATC	p.M701I	EPS8L2_uc001lqu.2_Missense_Mutation_p.M701I|EPS8L2_uc010qwk.1_Missense_Mutation_p.M717I|EPS8L2_uc001lqv.2_Missense_Mutation_p.M656I|EPS8L2_uc001lqw.2_Missense_Mutation_p.M313I|EPS8L2_uc001lqx.2_Missense_Mutation_p.M313I|EPS8L2_uc001lqy.2_Missense_Mutation_p.M209I	NM_022772	NP_073609	Q9H6S3	ES8L2_HUMAN	epidermal growth factor receptor pathway	701						cytoplasm				pancreas(1)	1		all_cancers(49;1.24e-08)|all_epithelial(84;1.87e-05)|Breast(177;0.000286)|Ovarian(85;0.000953)|Medulloblastoma(188;0.0109)|all_neural(188;0.0299)|Lung NSC(207;0.106)|all_lung(207;0.136)		all cancers(45;4.37e-27)|Epithelial(43;2.81e-26)|OV - Ovarian serous cystadenocarcinoma(40;1.33e-20)|BRCA - Breast invasive adenocarcinoma(625;4.29e-05)|Lung(200;0.0582)|LUSC - Lung squamous cell carcinoma(625;0.0703)		AAGAACTCATGAACAAGTTTC	0.627													4	34	---	---	---	---	PASS
CARS	833	broad.mit.edu	37	11	3069161	3069161	+	Intron	SNP	G	T	T			TCGA-BP-5177-01A-01D-1429-08	TCGA-BP-5177-11A-01D-1429-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:3069161G>T	uc001lxh.2	-						CARS_uc001lxe.2_5'UTR|CARS_uc001lxf.2_Silent_p.L32L|CARS_uc001lxg.2_Intron|CARS_uc010qxo.1_Silent_p.L32L|CARS_uc010qxp.1_Intron	NM_001751	NP_001742	P49589	SYCC_HUMAN	cysteinyl-tRNA synthetase isoform b						cysteinyl-tRNA aminoacylation	cytoplasm|cytosol	ATP binding|cysteine-tRNA ligase activity|metal ion binding|protein homodimerization activity|protein homodimerization activity|tRNA binding|tRNA binding		CARS/ALK(5)	soft_tissue(5)|ovary(2)	7		all_epithelial(84;0.000236)|Medulloblastoma(188;0.00106)|Breast(177;0.00328)|Ovarian(85;0.00556)|all_neural(188;0.00681)		BRCA - Breast invasive adenocarcinoma(625;0.00317)|LUSC - Lung squamous cell carcinoma(625;0.218)	L-Cysteine(DB00151)	TACGCGTGCTGAGGTGCTCGT	0.622			T	ALK	ALCL								3	48	---	---	---	---	PASS
GNG3	2785	broad.mit.edu	37	11	62475843	62475843	+	Nonsense_Mutation	SNP	G	T	T			TCGA-BP-5177-01A-01D-1429-08	TCGA-BP-5177-11A-01D-1429-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:62475843G>T	uc001nuv.2	+	2	351	c.76G>T	c.(76-78)GAA>TAA	p.E26*	BSCL2_uc001nuo.1_5'Flank|BSCL2_uc009yoc.1_5'Flank|BSCL2_uc001nup.2_5'Flank|BSCL2_uc001nuq.1_5'Flank|BSCL2_uc001nur.3_5'Flank|BSCL2_uc009yod.2_Intron|BSCL2_uc001nut.3_Intron|HNRNPUL2_uc001nuu.1_Intron	NM_012202	NP_036334	P63215	GBG3_HUMAN	guanine nucleotide binding protein (G protein),	26					activation of MAPK activity|cellular response to glucagon stimulus|energy reserve metabolic process|synaptic transmission		GTPase activity|signal transducer activity				0						GCTTAAGATTGAAGCCAGCTT	0.522													21	53	---	---	---	---	PASS
SLC22A11	55867	broad.mit.edu	37	11	64338518	64338518	+	3'UTR	SNP	T	C	C			TCGA-BP-5177-01A-01D-1429-08	TCGA-BP-5177-11A-01D-1429-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:64338518T>C	uc001oai.2	+	10					SLC22A11_uc001oaj.2_3'UTR|SLC22A11_uc009ypq.2_3'UTR	NM_018484	NP_060954	Q9NSA0	S22AB_HUMAN	solute carrier family 22 member 11						urate metabolic process	apical plasma membrane|external side of plasma membrane|integral to plasma membrane	inorganic anion exchanger activity|protein binding|sodium-independent organic anion transmembrane transporter activity			ovary(1)|central_nervous_system(1)	2					Probenecid(DB01032)	GCTCTAGAAATTGTGCCTGCA	0.532													35	101	---	---	---	---	PASS
FAM118B	79607	broad.mit.edu	37	11	126132093	126132093	+	3'UTR	SNP	C	A	A			TCGA-BP-5177-01A-01D-1429-08	TCGA-BP-5177-11A-01D-1429-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:126132093C>A	uc001qdf.2	+	9					FAM118B_uc009zca.2_3'UTR|FAM118B_uc001qdg.2_3'UTR	NM_024556	NP_078832	Q9BPY3	F118B_HUMAN	hypothetical protein LOC79607												0	all_hematologic(175;0.145)	Breast(109;0.00156)|Lung NSC(97;0.00948)|all_lung(97;0.0101)|Medulloblastoma(222;0.0425)|all_neural(223;0.112)		BRCA - Breast invasive adenocarcinoma(274;1.15e-06)|OV - Ovarian serous cystadenocarcinoma(99;0.0784)		CAGTGTTTAACAAGTAAACTT	0.458													3	38	---	---	---	---	PASS
NXPH4	11247	broad.mit.edu	37	12	57619419	57619419	+	Silent	SNP	G	A	A			TCGA-BP-5177-01A-01D-1429-08	TCGA-BP-5177-11A-01D-1429-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:57619419G>A	uc010srf.1	+	2	991	c.816G>A	c.(814-816)AAG>AAA	p.K272K	NXPH4_uc009zpj.2_Silent_p.K78K	NM_007224	NP_009155	O95158	NXPH4_HUMAN	neurexophilin 4 precursor	272	V (Cys-rich).				neuropeptide signaling pathway	extracellular region					0						TCTGTGCCAAGCCCTTCAAAG	0.577													14	74	---	---	---	---	PASS
SRGAP1	57522	broad.mit.edu	37	12	64377783	64377783	+	Nonsense_Mutation	SNP	C	T	T			TCGA-BP-5177-01A-01D-1429-08	TCGA-BP-5177-11A-01D-1429-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:64377783C>T	uc010ssp.1	+	2	180	c.124C>T	c.(124-126)CGA>TGA	p.R42*	SRGAP1_uc001srt.2_Nonsense_Mutation_p.R42*|SRGAP1_uc001srv.2_Nonsense_Mutation_p.R2*	NM_020762	NP_065813	Q7Z6B7	SRGP1_HUMAN	SLIT-ROBO Rho GTPase activating protein 1	42	FCH.				axon guidance	cytosol				ovary(2)|central_nervous_system(2)	4			GBM - Glioblastoma multiforme(3;0.000139)|BRCA - Breast invasive adenocarcinoma(9;0.225)	GBM - Glioblastoma multiforme(28;0.0608)		AACGGAGATGCGAGTTCAGCT	0.408													22	103	---	---	---	---	PASS
LOC284232	284232	broad.mit.edu	37	13	19415677	19415677	+	RNA	SNP	A	T	T	rs142136612	by1000genomes	TCGA-BP-5177-01A-01D-1429-08	TCGA-BP-5177-11A-01D-1429-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr13:19415677A>T	uc010tcj.1	-	1		c.30433T>A				NR_027995				Homo sapiens ankyrin repeat domain 20 family, member A2 pseudogene (LOC284232), non-coding RNA.												0						AACACACTGCAATAGGCTTAC	0.239													4	106	---	---	---	---	PASS
ADPRHL1	113622	broad.mit.edu	37	13	114107552	114107552	+	Missense_Mutation	SNP	C	G	G			TCGA-BP-5177-01A-01D-1429-08	TCGA-BP-5177-11A-01D-1429-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr13:114107552C>G	uc001vtq.1	-	1	288	c.201G>C	c.(199-201)GAG>GAC	p.E67D		NM_138430	NP_612439	Q8NDY3	ARHL1_HUMAN	ADP-ribosylhydrolase like 1 isoform 1	67					protein de-ADP-ribosylation		ADP-ribosylarginine hydrolase activity|magnesium ion binding				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;0.0395)|all_epithelial(44;0.011)|all_lung(25;0.0271)|Lung NSC(25;0.0977)|Breast(118;0.188)	all cancers(43;0.0195)|GBM - Glioblastoma multiforme(44;0.116)			TGGTGAGGGCCTCGGCGGTTG	0.642													11	67	---	---	---	---	PASS
SMOC1	64093	broad.mit.edu	37	14	70459140	70459140	+	Missense_Mutation	SNP	G	A	A			TCGA-BP-5177-01A-01D-1429-08	TCGA-BP-5177-11A-01D-1429-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr14:70459140G>A	uc001xls.1	+	6	786	c.533G>A	c.(532-534)GGG>GAG	p.G178E	SMOC1_uc001xlt.1_Missense_Mutation_p.G178E	NM_022137	NP_071420	Q9H4F8	SMOC1_HUMAN	secreted modular calcium-binding protein 1	178					cell differentiation|eye development|limb development|regulation of osteoblast differentiation|signal transduction	basement membrane	calcium ion binding			upper_aerodigestive_tract(1)|pancreas(1)	2				all cancers(60;0.00417)|BRCA - Breast invasive adenocarcinoma(234;0.0119)|OV - Ovarian serous cystadenocarcinoma(108;0.028)		TCAGATGACGGGTCTAAGCCG	0.443													28	69	---	---	---	---	PASS
TECPR2	9895	broad.mit.edu	37	14	102901086	102901086	+	Silent	SNP	C	T	T			TCGA-BP-5177-01A-01D-1429-08	TCGA-BP-5177-11A-01D-1429-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr14:102901086C>T	uc001ylw.1	+	9	2080	c.1932C>T	c.(1930-1932)CTC>CTT	p.L644L	TECPR2_uc010awl.2_Silent_p.L644L|TECPR2_uc010txx.1_Intron	NM_014844	NP_055659	O15040	TCPR2_HUMAN	tectonin beta-propeller repeat containing 2	644							protein binding			lung(1)|central_nervous_system(1)|skin(1)	3						AAGTCCCCCTCCTGAACTCAC	0.592													12	58	---	---	---	---	PASS
PAR4	347745	broad.mit.edu	37	15	25456944	25456944	+	Intron	SNP	G	A	A			TCGA-BP-5177-01A-01D-1429-08	TCGA-BP-5177-11A-01D-1429-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr15:25456944G>A	uc001yzk.1	+						PAR4_uc010ayo.1_Intron|SNORD115-20_uc001yzq.1_Intron|PAR4_uc001yzs.2_RNA|uc001yzt.1_5'Flank|HBII-52-24_uc010ayp.1_5'Flank					Homo sapiens clone Rt-13I SNURF-SNRPN mRNA, downstream untranslated exons, alternatively spliced.												0						CCCTGGGTTGGGTCAATGATG	0.532													60	238	---	---	---	---	PASS
MAPKBP1	23005	broad.mit.edu	37	15	42108803	42108803	+	Missense_Mutation	SNP	C	A	A			TCGA-BP-5177-01A-01D-1429-08	TCGA-BP-5177-11A-01D-1429-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr15:42108803C>A	uc001zok.3	+	14	1844	c.1558C>A	c.(1558-1560)CAT>AAT	p.H520N	MAPKBP1_uc001zoj.3_Missense_Mutation_p.H514N|MAPKBP1_uc010bcj.2_Missense_Mutation_p.H21N|MAPKBP1_uc010bci.2_Missense_Mutation_p.H514N|MAPKBP1_uc010udb.1_Missense_Mutation_p.H353N|MAPKBP1_uc010bck.2_5'UTR|MAPKBP1_uc010bcl.2_Missense_Mutation_p.H21N	NM_001128608	NP_001122080	O60336	MABP1_HUMAN	mitogen-activated protein kinase binding protein	520	WD 8.									central_nervous_system(5)|breast(2)|upper_aerodigestive_tract(1)|pancreas(1)|skin(1)	10		all_cancers(109;7.71e-14)|all_epithelial(112;5.15e-12)|Lung NSC(122;3.74e-08)|all_lung(180;1.81e-07)|Melanoma(134;0.0262)		OV - Ovarian serous cystadenocarcinoma(18;3.95e-17)|GBM - Glioblastoma multiforme(94;5.71e-07)|Lung(196;0.0436)|BRCA - Breast invasive adenocarcinoma(123;0.203)|LUSC - Lung squamous cell carcinoma(244;0.225)		GGTGGAGGCCCATGACTCTGA	0.577													20	51	---	---	---	---	PASS
PLA2G4F	255189	broad.mit.edu	37	15	42446347	42446347	+	Silent	SNP	G	A	A			TCGA-BP-5177-01A-01D-1429-08	TCGA-BP-5177-11A-01D-1429-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr15:42446347G>A	uc001zoz.2	-	4	456	c.393C>T	c.(391-393)GAC>GAT	p.D131D	PLA2G4F_uc010bcr.2_5'UTR|PLA2G4F_uc001zpa.2_5'UTR|PLA2G4F_uc010bcs.2_5'UTR	NM_213600	NP_998765	Q68DD2	PA24F_HUMAN	phospholipase A2, group IVF	131	C2.				phospholipid catabolic process	cytosol|lysosomal membrane	metal ion binding|phospholipase A2 activity			ovary(4)	4		all_cancers(109;4.82e-12)|all_epithelial(112;5.64e-11)|Lung NSC(122;2.17e-07)|all_lung(180;8.79e-07)|Melanoma(134;0.091)		GBM - Glioblastoma multiforme(94;8.97e-07)		GGCTTCTCAGGTCAAACAGGA	0.612													12	127	---	---	---	---	PASS
TBC1D24	57465	broad.mit.edu	37	16	2546654	2546654	+	Missense_Mutation	SNP	A	G	G			TCGA-BP-5177-01A-01D-1429-08	TCGA-BP-5177-11A-01D-1429-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr16:2546654A>G	uc002cql.2	+	2	645	c.505A>G	c.(505-507)ATC>GTC	p.I169V	TBC1D24_uc002cqk.2_Missense_Mutation_p.I169V|TBC1D24_uc002cqm.2_Missense_Mutation_p.I169V|TBC1D24_uc010bsm.2_5'Flank	NM_020705	NP_065756	Q9ULP9	TBC24_HUMAN	TBC1 domain family, member 24	169	Rab-GAP TBC.				neuron projection development	cytoplasm	protein binding|Rab GTPase activator activity				0						CAGGAGGCTGATCGACCAGAG	0.637													11	35	---	---	---	---	PASS
C17orf49	124944	broad.mit.edu	37	17	6920727	6920727	+	3'UTR	SNP	A	C	C			TCGA-BP-5177-01A-01D-1429-08	TCGA-BP-5177-11A-01D-1429-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:6920727A>C	uc002gec.2	+	8					C17orf49_uc002geb.3_3'UTR|C17orf49_uc002ged.2_3'UTR|C17orf49_uc002gee.2_3'UTR|C17orf49_uc010vti.1_3'UTR	NM_174893	NP_777553	Q8IXM2	BAP18_HUMAN	hypothetical protein LOC124944 isoform 2						chromatin modification	MLL1 complex|NURF complex	DNA binding			large_intestine(1)	1						AGAGGGCTGAAAGGCTGCTGG	0.547													6	34	---	---	---	---	PASS
TOB1	10140	broad.mit.edu	37	17	48941286	48941286	+	Silent	SNP	T	C	C			TCGA-BP-5177-01A-01D-1429-08	TCGA-BP-5177-11A-01D-1429-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:48941286T>C	uc002isw.2	-	1	128	c.93A>G	c.(91-93)GAA>GAG	p.E31E	TOB1_uc010wmy.1_Silent_p.E31E|TOB1_uc010wmz.1_Silent_p.E31E|uc002isy.2_5'Flank	NM_005749	NP_005740	P50616	TOB1_HUMAN	transducer of ERBB2, 1	31					negative regulation of cell proliferation		SH3/SH2 adaptor activity			large_intestine(1)	1			BRCA - Breast invasive adenocarcinoma(22;1.09e-08)			GTCTTTCAAGTTCTTCACCAA	0.383													48	138	---	---	---	---	PASS
DHX40P1	653645	broad.mit.edu	37	17	58066651	58066651	+	Silent	SNP	C	T	T	rs144367363	by1000genomes	TCGA-BP-5177-01A-01D-1429-08	TCGA-BP-5177-11A-01D-1429-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:58066651C>T	uc002iyf.2	-	9	721	c.486G>A	c.(484-486)CAG>CAA	p.Q162Q	uc002iye.1_Intron	NR_002924				Homo sapiens DEAH (Asp-Glu-Ala-His) box polypeptide 40 pseudogene, mRNA (cDNA clone IMAGE:5170263).												0						ACTGGTAAAGCTGTTTAAGAG	0.333													3	24	---	---	---	---	PASS
ABCA8	10351	broad.mit.edu	37	17	66881449	66881449	+	Missense_Mutation	SNP	A	G	G			TCGA-BP-5177-01A-01D-1429-08	TCGA-BP-5177-11A-01D-1429-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:66881449A>G	uc002jhp.2	-	25	3496	c.3317T>C	c.(3316-3318)GTA>GCA	p.V1106A	ABCA8_uc002jhq.2_Missense_Mutation_p.V1146A|ABCA8_uc010wqq.1_Missense_Mutation_p.V1146A	NM_007168	NP_009099	O94911	ABCA8_HUMAN	ATP-binding cassette, sub-family A member 8	1106	Helical; (Potential).					integral to membrane|plasma membrane	ATP binding|ATPase activity, coupled to transmembrane movement of substances			ovary(2)|skin(1)	3	Breast(10;4.56e-13)					CACAGAGAATACAGTGACCTA	0.353													14	46	---	---	---	---	PASS
CABLES1	91768	broad.mit.edu	37	18	20716478	20716478	+	Missense_Mutation	SNP	C	T	T			TCGA-BP-5177-01A-01D-1429-08	TCGA-BP-5177-11A-01D-1429-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr18:20716478C>T	uc002kuc.2	+	1	752	c.752C>T	c.(751-753)GCC>GTC	p.A251V	CABLES1_uc002kub.2_Intron	NM_001100619	NP_001094089	Q8TDN4	CABL1_HUMAN	Cdk5 and Abl enzyme substrate 1 isoform 2	251	Interacts with CDK3 (By similarity).				blood coagulation|cell cycle|cell division|regulation of cell cycle|regulation of cell division	cytosol|nucleus	cyclin-dependent protein kinase regulator activity|protein binding			breast(1)	1	all_cancers(21;0.000102)|all_epithelial(16;2.48e-06)|Lung NSC(20;0.00696)|all_lung(20;0.0197)|Colorectal(14;0.0202)|Ovarian(20;0.127)					CTGCCCATCGCCTTCTCCAGG	0.682													7	22	---	---	---	---	PASS
GALNT1	2589	broad.mit.edu	37	18	33272259	33272259	+	Missense_Mutation	SNP	C	A	A			TCGA-BP-5177-01A-01D-1429-08	TCGA-BP-5177-11A-01D-1429-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr18:33272259C>A	uc010dmu.2	+	9	1327	c.1274C>A	c.(1273-1275)CCA>CAA	p.P425Q	GALNT1_uc002kyz.3_Missense_Mutation_p.P365Q|GALNT1_uc002kzb.2_Missense_Mutation_p.P425Q	NM_020474	NP_065207	Q10472	GALT1_HUMAN	polypeptide N-acetylgalactosaminyltransferase 1	425	Lumenal (Potential).				protein O-linked glycosylation via serine|protein O-linked glycosylation via threonine	extracellular region|Golgi cisterna membrane|integral to membrane|perinuclear region of cytoplasm	manganese ion binding|polypeptide N-acetylgalactosaminyltransferase activity|sugar binding			ovary(2)	2						TCTCAAATTCCACGTCACTAT	0.299													40	108	---	---	---	---	PASS
TBXA2R	6915	broad.mit.edu	37	19	3600380	3600380	+	Missense_Mutation	SNP	C	T	T			TCGA-BP-5177-01A-01D-1429-08	TCGA-BP-5177-11A-01D-1429-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:3600380C>T	uc002lyg.1	-	2	467	c.253G>A	c.(253-255)GTG>ATG	p.V85M	TBXA2R_uc002lye.1_Missense_Mutation_p.V85M	NM_001060	NP_001051	P21731	TA2R_HUMAN	thromboxane A2 receptor isoform alpha	85	Helical; Name=2; (Potential).				platelet activation	integral to plasma membrane	guanyl-nucleotide exchange factor activity|protein binding|thromboxane A2 receptor activity				0		Hepatocellular(1079;0.137)		UCEC - Uterine corpus endometrioid carcinoma (162;6.64e-05)|BRCA - Breast invasive adenocarcinoma(158;0.00253)|STAD - Stomach adenocarcinoma(1328;0.18)	Ridogrel(DB01207)	TGGGACACCACGATGGTACCG	0.672													4	45	---	---	---	---	PASS
TIMM44	10469	broad.mit.edu	37	19	7999040	7999040	+	Silent	SNP	C	T	T			TCGA-BP-5177-01A-01D-1429-08	TCGA-BP-5177-11A-01D-1429-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:7999040C>T	uc002miz.2	-	5	479	c.477G>A	c.(475-477)TCG>TCA	p.S159S	TIMM44_uc002mja.2_5'UTR|TIMM44_uc010dvx.1_RNA	NM_006351	NP_006342	O43615	TIM44_HUMAN	translocase of inner mitochondrial membrane 44	159					protein targeting to mitochondrion	mitochondrial inner membrane presequence translocase complex|mitochondrial matrix	ATP binding|P-P-bond-hydrolysis-driven protein transmembrane transporter activity			ovary(1)	1						CCGACTCGGCCGACTGCTTGG	0.607													31	85	---	---	---	---	PASS
NCAN	1463	broad.mit.edu	37	19	19329874	19329874	+	Missense_Mutation	SNP	G	T	T			TCGA-BP-5177-01A-01D-1429-08	TCGA-BP-5177-11A-01D-1429-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:19329874G>T	uc002nlz.2	+	3	323	c.224G>T	c.(223-225)CGG>CTG	p.R75L		NM_004386	NP_004377	O14594	NCAN_HUMAN	chondroitin sulfate proteoglycan 3 precursor	75	Ig-like V-type.				axon guidance|cell adhesion	extracellular region	calcium ion binding|hyaluronic acid binding|sugar binding			ovary(4)	4			Epithelial(12;0.00544)			GATGCCCCTCGGATAAAGTGG	0.657													16	49	---	---	---	---	PASS
TSSK6	83983	broad.mit.edu	37	19	19625999	19625999	+	Missense_Mutation	SNP	C	T	T			TCGA-BP-5177-01A-01D-1429-08	TCGA-BP-5177-11A-01D-1429-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:19625999C>T	uc002nmr.2	-	1	471	c.238G>A	c.(238-240)GAG>AAG	p.E80K	TSSK6_uc002nmq.2_RNA|NDUFA13_uc002nms.2_5'Flank|NDUFA13_uc010xqx.1_5'Flank|NDUFA13_uc010xqy.1_5'Flank	NM_032037	NP_114426	Q9BXA6	TSSK6_HUMAN	testis-specific serine kinase 6	80	Protein kinase.				multicellular organismal development|sperm chromatin condensation		ATP binding|magnesium ion binding|protein serine/threonine kinase activity			stomach(1)	1						TTGCACACCTCGATGAACTCG	0.657													26	65	---	---	---	---	PASS
SPIB	6689	broad.mit.edu	37	19	50926877	50926877	+	Missense_Mutation	SNP	G	A	A			TCGA-BP-5177-01A-01D-1429-08	TCGA-BP-5177-11A-01D-1429-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:50926877G>A	uc002psd.2	+	5	380	c.355G>A	c.(355-357)GCA>ACA	p.A119T	SPIB_uc002pse.2_Missense_Mutation_p.A119T|SPIB_uc010ycc.1_Missense_Mutation_p.A28T	NM_003121	NP_003112	Q01892	SPIB_HUMAN	Spi-B transcription factor (Spi-1/PU.1 related)	119					regulation of transcription from RNA polymerase II promoter	cytoplasm|microtubule cytoskeleton|nucleus	sequence-specific DNA binding			lung(1)|kidney(1)	2		all_neural(266;0.131)		OV - Ovarian serous cystadenocarcinoma(262;0.00757)|GBM - Glioblastoma multiforme(134;0.0186)		GGTTCCCCCGGCATATGCCCC	0.647													14	36	---	---	---	---	PASS
ZNF480	147657	broad.mit.edu	37	19	52825621	52825621	+	Missense_Mutation	SNP	G	A	A			TCGA-BP-5177-01A-01D-1429-08	TCGA-BP-5177-11A-01D-1429-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:52825621G>A	uc010ydl.1	+	5	1188	c.1118G>A	c.(1117-1119)TGT>TAT	p.C373Y	ZNF480_uc002pyv.2_Missense_Mutation_p.C296Y|ZNF480_uc010ydm.1_Missense_Mutation_p.C330Y|ZNF480_uc010epn.2_Missense_Mutation_p.C204Y|uc002pyw.1_Intron	NM_144684	NP_653285	Q8WV37	ZN480_HUMAN	zinc finger protein 480	373	C2H2-type 7.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	nucleic acid binding|zinc ion binding			large_intestine(1)	1				GBM - Glioblastoma multiforme(134;0.00212)|OV - Ovarian serous cystadenocarcinoma(262;0.00369)		CCTTACAAATGTAATGAATGT	0.378													33	107	---	---	---	---	PASS
PFKL	5211	broad.mit.edu	37	21	45739440	45739440	+	Intron	SNP	T	C	C			TCGA-BP-5177-01A-01D-1429-08	TCGA-BP-5177-11A-01D-1429-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr21:45739440T>C	uc002zel.2	+						PFKL_uc002zek.2_Intron|PFKL_uc002zem.2_5'UTR|PFKL_uc002zen.2_5'UTR	NM_002626	NP_002617	P17858	K6PL_HUMAN	liver phosphofructokinase						fructose 6-phosphate metabolic process|glycolysis|protein oligomerization	6-phosphofructokinase complex	6-phosphofructokinase activity|ATP binding|fructose-6-phosphate binding|identical protein binding|kinase binding|metal ion binding				0				Colorectal(79;0.0811)		GGAAGGGGCCTGCGGGTGGTA	0.682													6	3	---	---	---	---	PASS
WNT7B	7477	broad.mit.edu	37	22	46319160	46319160	+	Missense_Mutation	SNP	C	T	T			TCGA-BP-5177-01A-01D-1429-08	TCGA-BP-5177-11A-01D-1429-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr22:46319160C>T	uc003bgo.2	-	4	1000	c.626G>A	c.(625-627)TGC>TAC	p.C209Y	WNT7B_uc010haa.2_Missense_Mutation_p.C213Y	NM_058238	NP_478679	P56706	WNT7B_HUMAN	wingless-type MMTV integration site family,	209					activation of JUN kinase activity|anterior/posterior pattern formation|axis specification|axonogenesis|canonical Wnt receptor signaling pathway|cell-cell signaling|cellular response to retinoic acid|central nervous system vasculogenesis|chorio-allantoic fusion|developmental growth involved in morphogenesis|embryonic placenta morphogenesis|establishment or maintenance of polarity of embryonic epithelium|fibroblast proliferation|forebrain regionalization|inner medullary collecting duct development|lens fiber cell development|lobar bronchus development|lung epithelium development|lung morphogenesis|lung-associated mesenchyme development|mammary gland epithelium development|metanephric collecting duct development|metanephric loop of Henle development|metanephros morphogenesis|negative regulation of smoothened signaling pathway|outer medullary collecting duct development|oxygen homeostasis|positive regulation of JNK cascade|positive regulation of osteoblast differentiation|renal inner medulla development|renal outer medulla development|stem cell proliferation|synapse organization|trachea cartilage morphogenesis|Wnt receptor signaling pathway, calcium modulating pathway	extracellular space|plasma membrane|proteinaceous extracellular matrix	extracellular matrix structural constituent|frizzled binding|signal transducer activity			lung(1)	1		Ovarian(80;0.00965)|all_neural(38;0.0416)		UCEC - Uterine corpus endometrioid carcinoma (28;0.0178)|LUAD - Lung adenocarcinoma(64;0.247)		TTTGGTGGTGCAGGAGCCAGA	0.647													19	72	---	---	---	---	PASS
XIST	7503	broad.mit.edu	37	X	73063375	73063375	+	RNA	SNP	G	C	C			TCGA-BP-5177-01A-01D-1429-08	TCGA-BP-5177-11A-01D-1429-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chrX:73063375G>C	uc004ebm.1	-	1		c.9214C>G				NR_001564				Homo sapiens cDNA: FLJ21545 fis, clone COL06195.												0						ACATGCCCCTGATGCAAGGGG	0.368													5	90	---	---	---	---	PASS
CXorf26	51260	broad.mit.edu	37	X	75397644	75397644	+	Silent	SNP	A	G	G			TCGA-BP-5177-01A-01D-1429-08	TCGA-BP-5177-11A-01D-1429-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chrX:75397644A>G	uc004ecl.1	+	6	806	c.603A>G	c.(601-603)AAA>AAG	p.K201K		NM_016500	NP_057584	Q9BVG4	CX026_HUMAN	hypothetical protein LOC51260	201											0						gagaagaaaaagaggaaggaa	0.050													7	45	---	---	---	---	PASS
SPEN	23013	broad.mit.edu	37	1	16265060	16265061	+	Intron	INS	-	T	T			TCGA-BP-5177-01A-01D-1429-08	TCGA-BP-5177-11A-01D-1429-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:16265060_16265061insT	uc001axk.1	+						SPEN_uc010obp.1_Intron	NM_015001	NP_055816	Q96T58	MINT_HUMAN	spen homolog, transcriptional regulator						interspecies interaction between organisms|negative regulation of transcription, DNA-dependent|Notch signaling pathway	nucleus	nucleotide binding|protein binding|RNA binding			ovary(6)|breast(3)|lung(2)|skin(2)|upper_aerodigestive_tract(1)|central_nervous_system(1)	15		Colorectal(325;0.000258)|Breast(348;0.000278)|Lung NSC(340;0.000419)|Renal(390;0.000518)|all_lung(284;0.000567)|Ovarian(437;0.0129)|Myeloproliferative disorder(586;0.0255)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0185)|Colorectal(212;5.96e-07)|COAD - Colon adenocarcinoma(227;3.11e-05)|BRCA - Breast invasive adenocarcinoma(304;0.000115)|Kidney(64;0.000212)|KIRC - Kidney renal clear cell carcinoma(64;0.003)|STAD - Stomach adenocarcinoma(313;0.013)|READ - Rectum adenocarcinoma(331;0.0681)		TGAAAAAAAGCTTTTTTTTTTT	0.361													4	2	---	---	---	---	
C1orf177	163747	broad.mit.edu	37	1	55285601	55285602	+	Intron	DEL	AT	-	-			TCGA-BP-5177-01A-01D-1429-08	TCGA-BP-5177-11A-01D-1429-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:55285601_55285602delAT	uc001cyb.3	+						C1orf177_uc001cya.3_Intron	NM_001110533	NP_001104003	Q3ZCV2	CA177_HUMAN	hypothetical protein LOC163747 isoform 2												0						cctcccccccatatttcttttc	0.000													4	2	---	---	---	---	
DPYD	1806	broad.mit.edu	37	1	97596488	97596491	+	Intron	DEL	TCTA	-	-	rs71841164	by1000genomes	TCGA-BP-5177-01A-01D-1429-08	TCGA-BP-5177-11A-01D-1429-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:97596488_97596491delTCTA	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)	tttctctctctctatctatctatc	0.118													2	5	---	---	---	---	
GDAP2	54834	broad.mit.edu	37	1	118429438	118429439	+	Intron	INS	-	ACA	ACA	rs143592216	by1000genomes	TCGA-BP-5177-01A-01D-1429-08	TCGA-BP-5177-11A-01D-1429-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:118429438_118429439insACA	uc001ehf.2	-						GDAP2_uc001ehg.2_Intron	NM_017686	NP_060156	Q9NXN4	GDAP2_HUMAN	ganglioside induced differentiation associated											ovary(2)	2		all_cancers(81;0.0156)|all_lung(203;5.81e-05)|Lung NSC(69;0.000446)|all_epithelial(167;0.00295)		Lung(183;0.0583)|LUSC - Lung squamous cell carcinoma(189;0.194)		CTACTCTGCAGACAACACCTAT	0.307													6	3	---	---	---	---	
RNF144A	9781	broad.mit.edu	37	2	7164326	7164326	+	Intron	DEL	T	-	-			TCGA-BP-5177-01A-01D-1429-08	TCGA-BP-5177-11A-01D-1429-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:7164326delT	uc002qys.2	+						RNF144A_uc002qyt.2_Intron	NM_014746	NP_055561	P50876	R144A_HUMAN	ring finger protein 144							Golgi apparatus|integral to membrane	ligase activity|zinc ion binding			ovary(1)|kidney(1)	2	all_hematologic(175;0.127)|Acute lymphoblastic leukemia(172;0.155)	all_cancers(51;0.226)		OV - Ovarian serous cystadenocarcinoma(76;0.195)		TTCTGGTTAAttttttttttc	0.229													2	6	---	---	---	---	
RABL2A	11159	broad.mit.edu	37	2	114392866	114392868	+	Intron	DEL	CTT	-	-			TCGA-BP-5177-01A-01D-1429-08	TCGA-BP-5177-11A-01D-1429-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:114392866_114392868delCTT	uc002tkn.3	+						RABL2A_uc010flb.2_Intron|RABL2A_uc002tkl.3_Intron|RABL2A_uc002tkm.3_Intron|RABL2A_uc002tks.3_Intron|RABL2A_uc002tkr.2_Intron|RABL2A_uc002tkp.3_Intron	NM_007082	NP_009013	Q9UBK7	RBL2A_HUMAN	RAB, member of RAS oncogene family-like 2A						small GTPase mediated signal transduction		GTP binding|GTPase activity			skin(1)	1						CTCCCCAGAGCTTCTTAGTGAGA	0.581													3	5	---	---	---	---	
TTN	7273	broad.mit.edu	37	2	179563659	179563659	+	Intron	DEL	G	-	-			TCGA-BP-5177-01A-01D-1429-08	TCGA-BP-5177-11A-01D-1429-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:179563659delG	uc010zfg.1	-						TTN_uc010zfh.1_Intron|TTN_uc010zfi.1_Intron|TTN_uc010zfj.1_Intron|TTN_uc002umz.1_Intron|TTN_uc010fre.1_Intron	NM_133378	NP_596869	Q8WZ42	TITIN_HUMAN	titin isoform N2-A								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)			aaaaaaaaaagaaaaaaaaag	0.264													4	2	---	---	---	---	
RHO	6010	broad.mit.edu	37	3	129252686	129252686	+	3'UTR	DEL	T	-	-	rs71811187		TCGA-BP-5177-01A-01D-1429-08	TCGA-BP-5177-11A-01D-1429-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:129252686delT	uc003emt.2	+	5						NM_000539	NP_000530	P08100	OPSD_HUMAN	rhodopsin						protein-chromophore linkage|rhodopsin mediated signaling pathway	Golgi apparatus|integral to plasma membrane|photoreceptor inner segment membrane|photoreceptor outer segment membrane	G-protein coupled receptor activity|metal ion binding|photoreceptor activity|protein binding				0		all_neural(597;0.0227)|Myeloproliferative disorder(1037;0.0255)|Prostate(884;0.183)		GBM - Glioblastoma multiforme(114;2.58e-05)|Lung(219;0.0234)	Halothane(DB01159)	GGCTCCttaattttttttttt	0.493													6	3	---	---	---	---	
Unknown	0	broad.mit.edu	37	4	49099749	49099753	+	IGR	DEL	TCCGG	-	-	rs60947727		TCGA-BP-5177-01A-01D-1429-08	TCGA-BP-5177-11A-01D-1429-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:49099749_49099753delTCCGG								CWH43 (35656 upstream) : None (None downstream)																							tccattccgttccggtccattccat	0.000													29	13	---	---	---	---	
FNIP2	57600	broad.mit.edu	37	4	159750861	159750863	+	Intron	DEL	GGG	-	-	rs142274727	by1000genomes	TCGA-BP-5177-01A-01D-1429-08	TCGA-BP-5177-11A-01D-1429-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:159750861_159750863delGGG	uc003iqe.3	+						FNIP2_uc003iqd.2_Intron	NM_020840	NP_065891	Q9P278	FNIP2_HUMAN	folliculin interacting protein 2						DNA damage response, signal transduction resulting in induction of apoptosis|protein phosphorylation|regulation of protein phosphorylation	cytoplasm	protein binding				0	all_hematologic(180;0.24)			COAD - Colon adenocarcinoma(41;0.00936)		Ctgtgtgtgtggggtgtgtgtgt	0.256													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	4	166469229	166469236	+	IGR	DEL	AATGTTAT	-	-			TCGA-BP-5177-01A-01D-1429-08	TCGA-BP-5177-11A-01D-1429-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:166469229_166469236delAATGTTAT								CPE (49748 upstream) : TLL1 (325174 downstream)																							GATCCATAGCAATGTTATAATACGTTTC	0.356													5	5	---	---	---	---	
Unknown	0	broad.mit.edu	37	4	185889220	185889220	+	IGR	DEL	C	-	-	rs67656977		TCGA-BP-5177-01A-01D-1429-08	TCGA-BP-5177-11A-01D-1429-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:185889220delC								ACSL1 (142005 upstream) : HELT (50775 downstream)																							gtattgtatacctgaaatttg	0.060													5	3	---	---	---	---	
Unknown	0	broad.mit.edu	37	5	14044842	14044843	+	IGR	DEL	AA	-	-			TCGA-BP-5177-01A-01D-1429-08	TCGA-BP-5177-11A-01D-1429-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:14044842_14044843delAA								DNAH5 (100253 upstream) : TRIO (98986 downstream)																							ggaaggaaggaaaaggaaggaa	0.000													4	3	---	---	---	---	
Unknown	0	broad.mit.edu	37	5	53808664	53808667	+	IGR	DEL	CCTT	-	-			TCGA-BP-5177-01A-01D-1429-08	TCGA-BP-5177-11A-01D-1429-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:53808664_53808667delCCTT								HSPB3 (56457 upstream) : SNX18 (4922 downstream)																							tccttccttcccttccttccttcc	0.103													5	4	---	---	---	---	
Unknown	0	broad.mit.edu	37	5	60863819	60863822	+	IGR	DEL	TTCC	-	-			TCGA-BP-5177-01A-01D-1429-08	TCGA-BP-5177-11A-01D-1429-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:60863819_60863822delTTCC								ZSWIM6 (21821 upstream) : FLJ37543 (69814 downstream)																							cgttcctttgttccttccttcctt	0.137													4	3	---	---	---	---	
RAD17	5884	broad.mit.edu	37	5	68669513	68669514	+	Intron	DEL	AT	-	-	rs60134751		TCGA-BP-5177-01A-01D-1429-08	TCGA-BP-5177-11A-01D-1429-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:68669513_68669514delAT	uc003jwo.2	+						RAD17_uc003jwg.2_Intron|RAD17_uc003jwh.2_Intron|RAD17_uc003jwi.2_Intron|RAD17_uc003jwj.2_Intron|RAD17_uc003jwk.2_Intron|RAD17_uc003jwl.2_Intron|RAD17_uc003jwm.2_Intron|RAD17_uc003jwn.2_Intron	NM_133339	NP_579917	O75943	RAD17_HUMAN	RAD17 homolog isoform 2						cell cycle|DNA damage checkpoint|DNA repair|DNA replication|DNA replication checkpoint|mitotic cell cycle checkpoint|negative regulation of DNA replication|regulation of phosphorylation	nucleoplasm	ATP binding|nucleoside-triphosphatase activity|protein binding				0		Lung NSC(167;5.19e-05)|Prostate(74;0.0143)|Ovarian(174;0.0448)|Breast(144;0.198)		OV - Ovarian serous cystadenocarcinoma(47;9.36e-57)|Epithelial(20;1.21e-52)|all cancers(19;3.34e-48)|Lung(70;0.0183)		tctcaaaaaaattttttttttt	0.104								Direct_reversal_of_damage|Other_conserved_DNA_damage_response_genes					2	4	---	---	---	---	
HMGCR	3156	broad.mit.edu	37	5	74639545	74639549	+	Intron	DEL	TTGTA	-	-	rs3064191		TCGA-BP-5177-01A-01D-1429-08	TCGA-BP-5177-11A-01D-1429-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:74639545_74639549delTTGTA	uc003kdp.2	+						HMGCR_uc011cst.1_Intron|HMGCR_uc003kdq.2_Intron|HMGCR_uc010izn.1_5'Flank	NM_000859	NP_000850	P04035	HMDH_HUMAN	3-hydroxy-3-methylglutaryl-Coenzyme A reductase						cholesterol biosynthetic process|coenzyme A metabolic process|germ cell migration|gonad development|isoprenoid biosynthetic process	endoplasmic reticulum membrane|integral to membrane|peroxisomal membrane	hydroxymethylglutaryl-CoA reductase (NADPH) activity|NADP binding			ovary(1)	1		all_lung(232;0.00101)|Lung NSC(167;0.00278)|Ovarian(174;0.0129)|Prostate(461;0.174)		OV - Ovarian serous cystadenocarcinoma(47;2.24e-54)	Atorvastatin(DB01076)|Bezafibrate(DB01393)|Cerivastatin(DB00439)|Fluvastatin(DB01095)|Lovastatin(DB00227)|NADH(DB00157)|Pravastatin(DB00175)|Rosuvastatin(DB01098)|Simvastatin(DB00641)	TTTATTGGACTTGTATTGTGCTTAC	0.244													6	5	---	---	---	---	
MARCH3	115123	broad.mit.edu	37	5	126250459	126250460	+	Intron	INS	-	AC	AC	rs58386463		TCGA-BP-5177-01A-01D-1429-08	TCGA-BP-5177-11A-01D-1429-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:126250459_126250460insAC	uc003kuf.2	-							NM_178450	NP_848545	Q86UD3	MARH3_HUMAN	membrane-associated ring finger (C3HC4) 3						endocytosis	cytoplasmic vesicle membrane|early endosome membrane|integral to membrane|lysosome	ligase activity|zinc ion binding			upper_aerodigestive_tract(1)	1		Prostate(80;0.0928)	KIRC - Kidney renal clear cell carcinoma(527;0.0268)|Kidney(363;0.0488)	Epithelial(69;0.074)|OV - Ovarian serous cystadenocarcinoma(64;0.0793)		CTCTTTCTCAAacacacacaca	0.347													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	5	171005598	171005601	+	IGR	DEL	AGGA	-	-	rs111722197		TCGA-BP-5177-01A-01D-1429-08	TCGA-BP-5177-11A-01D-1429-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:171005598_171005601delAGGA								FGF18 (121436 upstream) : FBXW11 (282955 downstream)																							AGAGAGATAGaggaaggaaggaag	0.230													6	3	---	---	---	---	
RBM24	221662	broad.mit.edu	37	6	17282852	17282854	+	Intron	DEL	ACG	-	-			TCGA-BP-5177-01A-01D-1429-08	TCGA-BP-5177-11A-01D-1429-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:17282852_17282854delACG	uc003nbz.3	+						RBM24_uc003nby.3_Intron|RBM24_uc011dix.1_Intron|RBM24_uc003nca.2_5'Flank	NM_001143942	NP_001137414	Q9BX46	RBM24_HUMAN	RNA binding motif protein 24 isoform 1						cell differentiation|regulation of mRNA stability|regulation of myotube differentiation	cytoplasm|nucleus	mRNA 3'-UTR binding|nucleotide binding			ovary(1)|skin(1)	2	Breast(50;0.0615)|Ovarian(93;0.0733)	all_hematologic(90;0.062)	all cancers(50;0.131)|Epithelial(50;0.15)			ccccccccccacgcccccgcccg	0.369													4	2	---	---	---	---	
HLA-C	3107	broad.mit.edu	37	6	31237526	31237527	+	Intron	INS	-	A	A	rs150596066	by1000genomes	TCGA-BP-5177-01A-01D-1429-08	TCGA-BP-5177-11A-01D-1429-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:31237526_31237527insA	uc003nsy.2	-						HLA-C_uc011dnj.1_Intron|HLA-C_uc003nsx.2_Intron|HLA-C_uc003nsz.2_Intron|HLA-C_uc010jsl.2_Intron|HLA-C_uc003nta.2_Intron|HLA-C_uc003ntb.2_Intron|HLA-C_uc003ntc.1_Intron|HLA-B_uc010jsm.1_Intron|HLA-B_uc011dnk.1_Intron	NM_002117	NP_002108	Q9TNN7	1C05_HUMAN	major histocompatibility complex, class I, C						antigen processing and presentation of peptide antigen via MHC class I|interferon-gamma-mediated signaling pathway|interspecies interaction between organisms|regulation of immune response|type I interferon-mediated signaling pathway	integral to membrane|MHC class I protein complex					0						ATGCTGGAATCAGGACCCCAAC	0.515													1	5	---	---	---	---	
Unknown	0	broad.mit.edu	37	6	58159479	58159480	+	IGR	INS	-	GAAGGAAG	GAAGGAAG			TCGA-BP-5177-01A-01D-1429-08	TCGA-BP-5177-11A-01D-1429-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:58159479_58159480insGAAGGAAG								PRIM2 (646104 upstream) : GUSBL2 (86679 downstream)																							aggaaaggaaagaaggaaggaa	0.173													4	3	---	---	---	---	
SLC2A12	154091	broad.mit.edu	37	6	134312046	134312046	+	3'UTR	DEL	T	-	-			TCGA-BP-5177-01A-01D-1429-08	TCGA-BP-5177-11A-01D-1429-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:134312046delT	uc003qem.1	-	5						NM_145176	NP_660159	Q8TD20	GTR12_HUMAN	solute carrier family 2 (facilitated glucose							endomembrane system|integral to membrane|perinuclear region of cytoplasm|plasma membrane	D-glucose transmembrane transporter activity			ovary(1)	1	Breast(56;0.214)|Colorectal(23;0.221)			OV - Ovarian serous cystadenocarcinoma(155;0.0101)|GBM - Glioblastoma multiforme(68;0.0123)		AGCCAGTAACTTTTTTTTTTT	0.413													4	3	---	---	---	---	
HIBADH	11112	broad.mit.edu	37	7	27672200	27672200	+	Intron	DEL	A	-	-	rs143191859		TCGA-BP-5177-01A-01D-1429-08	TCGA-BP-5177-11A-01D-1429-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:27672200delA	uc003szf.2	-						HIBADH_uc003szg.2_Intron|HIBADH_uc003szh.2_Intron|HIBADH_uc003szi.2_Intron	NM_152740	NP_689953	P31937	3HIDH_HUMAN	3-hydroxyisobutyrate dehydrogenase precursor						branched chain family amino acid catabolic process|pentose-phosphate shunt|valine metabolic process	mitochondrial matrix	3-hydroxyisobutyrate dehydrogenase activity|NAD binding|phosphogluconate dehydrogenase (decarboxylating) activity			ovary(2)	2			GBM - Glioblastoma multiforme(3;0.0368)		NADH(DB00157)	GCAAATGACCAAAAAAAAAAA	0.313													8	4	---	---	---	---	
POU6F2	11281	broad.mit.edu	37	7	39446014	39446014	+	Intron	DEL	T	-	-	rs11354354		TCGA-BP-5177-01A-01D-1429-08	TCGA-BP-5177-11A-01D-1429-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:39446014delT	uc003thb.1	+							NM_007252	NP_009183	P78424	PO6F2_HUMAN	POU class 6 homeobox 2 isoform 1						central nervous system development|ganglion mother cell fate determination|transcription from RNA polymerase II promoter|visual perception		sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity			central_nervous_system(1)	1						CCTTCCAGCCTCGTTTCCATC	0.597													4	10	---	---	---	---	
Unknown	0	broad.mit.edu	37	7	102016084	102016085	+	Intron	DEL	TA	-	-			TCGA-BP-5177-01A-01D-1429-08	TCGA-BP-5177-11A-01D-1429-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:102016084_102016085delTA	uc003uzd.1	+						uc003uze.1_Intron|PRKRIP1_uc003uzf.2_Intron|PRKRIP1_uc003uzg.2_Intron|PRKRIP1_uc011kkq.1_5'Flank	NM_001003686	NP_001003686			SubName: Full=Putative uncharacterized protein PMS2L3;																		atatatattttatatatatata	0.178													4	2	---	---	---	---	
SLC26A3	1811	broad.mit.edu	37	7	107427059	107427059	+	Intron	DEL	A	-	-			TCGA-BP-5177-01A-01D-1429-08	TCGA-BP-5177-11A-01D-1429-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:107427059delA	uc003ver.2	-						SLC26A3_uc003ves.2_Intron	NM_000111	NP_000102	P40879	S26A3_HUMAN	solute carrier family 26, member 3						excretion	integral to membrane|membrane fraction	inorganic anion exchanger activity|secondary active sulfate transmembrane transporter activity|sequence-specific DNA binding transcription factor activity|transcription cofactor activity			ovary(3)|skin(1)	4						TGGGGAGGCGAAAAAAAAAAA	0.463													4	3	---	---	---	---	
BLK	640	broad.mit.edu	37	8	11361881	11361881	+	Intron	DEL	A	-	-	rs138228664		TCGA-BP-5177-01A-01D-1429-08	TCGA-BP-5177-11A-01D-1429-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:11361881delA	uc003wty.2	+						BLK_uc003wtz.2_Intron|BLK_uc003wtx.2_Intron	NM_001715	NP_001706	P51451	BLK_HUMAN	B lymphoid tyrosine kinase						intracellular protein kinase cascade|positive regulation of insulin secretion		ATP binding|non-membrane spanning protein tyrosine kinase activity			large_intestine(1)|stomach(1)|ovary(1)	3			STAD - Stomach adenocarcinoma(15;0.00391)	COAD - Colon adenocarcinoma(149;0.207)		aggaagaaagaaaagaaaaga	0.119													7	5	---	---	---	---	
Unknown	0	broad.mit.edu	37	8	93591561	93591562	+	IGR	INS	-	TTTC	TTTC	rs34835405		TCGA-BP-5177-01A-01D-1429-08	TCGA-BP-5177-11A-01D-1429-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:93591561_93591562insTTTC								RUNX1T1 (483855 upstream) : C8orf83 (304303 downstream)																							ctttctttctttttctttcttt	0.000													9	4	---	---	---	---	
PTDSS1	9791	broad.mit.edu	37	8	97321977	97321978	+	Intron	INS	-	TATATC	TATATC	rs146465884	by1000genomes	TCGA-BP-5177-01A-01D-1429-08	TCGA-BP-5177-11A-01D-1429-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:97321977_97321978insTATATC	uc003yht.1	+						PTDSS1_uc003yhu.1_Intron	NM_014754	NP_055569	P48651	PTSS1_HUMAN	phosphatidylserine synthase 1						phosphatidylserine biosynthetic process	integral to membrane	transferase activity			ovary(1)	1	Breast(36;6.18e-05)				Phosphatidylserine(DB00144)	ACTAGATTTtatatatctatat	0.238													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	8	142525529	142525530	+	IGR	INS	-	CCCTG	CCCTG			TCGA-BP-5177-01A-01D-1429-08	TCGA-BP-5177-11A-01D-1429-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:142525529_142525530insCCCTG								FLJ43860 (8199 upstream) : MIR1302-7 (342073 downstream)																							aagaccctggcccctgccctgc	0.000													3	4	---	---	---	---	
DOCK8	81704	broad.mit.edu	37	9	304943	304943	+	Intron	DEL	G	-	-	rs145661146		TCGA-BP-5177-01A-01D-1429-08	TCGA-BP-5177-11A-01D-1429-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr9:304943delG	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)		agctctaactgggggacagag	0.129													5	3	---	---	---	---	
Unknown	0	broad.mit.edu	37	9	13624309	13624310	+	IGR	INS	-	ACAA	ACAA	rs144239676	by1000genomes	TCGA-BP-5177-01A-01D-1429-08	TCGA-BP-5177-11A-01D-1429-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr9:13624309_13624310insACAA								MPDZ (344746 upstream) : NFIB (457538 downstream)																							catacacacacacacacacaca	0.000													4	2	---	---	---	---	
LINGO2	158038	broad.mit.edu	37	9	28189699	28189700	+	Intron	INS	-	AGGA	AGGA	rs145816256	by1000genomes	TCGA-BP-5177-01A-01D-1429-08	TCGA-BP-5177-11A-01D-1429-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr9:28189699_28189700insAGGA	uc003zqu.1	-						LINGO2_uc010mjf.1_Intron|LINGO2_uc003zqv.1_Intron	NM_152570	NP_689783	Q7L985	LIGO2_HUMAN	leucine rich repeat and Ig domain containing 2							integral to membrane				upper_aerodigestive_tract(1)|ovary(1)|central_nervous_system(1)	3	Melanoma(11;0.242)	all_neural(11;2.78e-09)		UCEC - Uterine corpus endometrioid carcinoma (5;0.0818)|GBM - Glioblastoma multiforme(2;1.31e-34)|all cancers(2;2.37e-25)|Lung(2;7.48e-08)|LUSC - Lung squamous cell carcinoma(38;5.09e-07)|KIRC - Kidney renal clear cell carcinoma(2;0.0465)|Kidney(2;0.0604)		ggaagggagggaggaaggaagg	0.153													3	3	---	---	---	---	
CNTNAP3	79937	broad.mit.edu	37	9	39107309	39107310	+	Intron	INS	-	GGAA	GGAA			TCGA-BP-5177-01A-01D-1429-08	TCGA-BP-5177-11A-01D-1429-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr9:39107309_39107310insGGAA	uc004abi.2	-						CNTNAP3_uc004abj.2_Intron|CNTNAP3_uc011lqr.1_Intron|CNTNAP3_uc004abk.1_Intron	NM_033655	NP_387504	Q9BZ76	CNTP3_HUMAN	cell recognition molecule CASPR3 precursor						cell adhesion|cell recognition|signal transduction	extracellular region|integral to membrane|plasma membrane	receptor binding			ovary(1)	1				GBM - Glioblastoma multiforme(29;0.02)|Lung(182;0.0681)		ggagggagtggggaaggaagga	0.035													9	4	---	---	---	---	
C9orf152	401546	broad.mit.edu	37	9	112962443	112962450	+	3'UTR	DEL	GAAAGAAA	-	-	rs76094720		TCGA-BP-5177-01A-01D-1429-08	TCGA-BP-5177-11A-01D-1429-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr9:112962443_112962450delGAAAGAAA	uc011lwk.1	-	2						NM_001012993	NP_001013011	Q5JTZ5	CI152_HUMAN	hypothetical protein LOC401546												0						aggaagagaggaaagaaagaaggaaaga	0.144													2	4	---	---	---	---	
KIAA0368	23392	broad.mit.edu	37	9	114170786	114170786	+	Intron	DEL	A	-	-			TCGA-BP-5177-01A-01D-1429-08	TCGA-BP-5177-11A-01D-1429-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr9:114170786delA	uc004bfe.1	-							NM_001080398	NP_001073867			KIAA0368 protein												0						AACTGCACCTAAAAAAAAAAA	0.348													4	2	---	---	---	---	
FKBP15	23307	broad.mit.edu	37	9	116034972	116034973	+	Intron	DEL	TT	-	-			TCGA-BP-5177-01A-01D-1429-08	TCGA-BP-5177-11A-01D-1429-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr9:116034972_116034973delTT	uc010muu.1	-						CDC26_uc004bgw.2_Intron	NM_015258	NP_056073	Q5T1M5	FKB15_HUMAN	FK506 binding protein 15, 133kDa						endocytosis|protein folding	axon|early endosome	actin binding			ovary(3)	3						TTCTAAAGTCtttttttttttt	0.124													4	2	---	---	---	---	
EXD3	54932	broad.mit.edu	37	9	140267711	140267729	+	Intron	DEL	GAGGGTGAAGCCACGGGCT	-	-	rs59889670		TCGA-BP-5177-01A-01D-1429-08	TCGA-BP-5177-11A-01D-1429-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr9:140267711_140267729delGAGGGTGAAGCCACGGGCT	uc004cmp.2	-						C9orf167_uc011mew.1_Intron|EXD3_uc010ncg.1_Intron|EXD3_uc004cmr.2_Intron|EXD3_uc004cms.2_Intron	NM_017820	NP_060290	Q8N9H8	MUT7_HUMAN	exonuclease 3'-5' domain containing 3						nucleobase, nucleoside, nucleotide and nucleic acid metabolic process	intracellular	3'-5' exonuclease activity|nucleic acid binding				0						TCAGGGGGCAGAGGGTGAAGCCACGGGCTGAGTCTTGGC	0.685													3	4	---	---	---	---	
ARL5B	221079	broad.mit.edu	37	10	18957250	18957250	+	Intron	DEL	A	-	-			TCGA-BP-5177-01A-01D-1429-08	TCGA-BP-5177-11A-01D-1429-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:18957250delA	uc001iqd.1	+							NM_178815	NP_848930	Q96KC2	ARL5B_HUMAN	ADP-ribosylation factor-like 8						small GTPase mediated signal transduction	intracellular	GTP binding			ovary(1)	1						TCCTTCCGTTAAAAAAAAAAA	0.353													4	2	---	---	---	---	
DNA2	1763	broad.mit.edu	37	10	70184845	70184845	+	Intron	DEL	C	-	-	rs75564385		TCGA-BP-5177-01A-01D-1429-08	TCGA-BP-5177-11A-01D-1429-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:70184845delC	uc001jof.2	-						DNA2_uc001jog.1_Intron|DNA2_uc001joh.1_Intron	NM_001080449	NP_001073918	P51530	DNA2L_HUMAN	DNA replication helicase 2 homolog						base-excision repair|DNA replication, removal of RNA primer|mitochondrial DNA repair|mitochondrial DNA replication|positive regulation of DNA replication|S phase of mitotic cell cycle|telomere maintenance via recombination|telomere maintenance via semi-conservative replication	mitochondrial nucleoid|nucleoplasm	5'-flap endonuclease activity|ATP binding|ATP-dependent DNA helicase activity|DNA binding|site-specific endodeoxyribonuclease activity, specific for altered base				0						TGGAACAtttctttttttttt	0.179													6	3	---	---	---	---	
MIR606	693191	broad.mit.edu	37	10	77312184	77312184	+	5'Flank	DEL	C	-	-	rs1367290		TCGA-BP-5177-01A-01D-1429-08	TCGA-BP-5177-11A-01D-1429-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:77312184delC	hsa-mir-606|MI0003619	+																							0						ttttttttttcccccccctct	0.000													5	4	---	---	---	---	
Unknown	0	broad.mit.edu	37	11	33451583	33451584	+	IGR	INS	-	CCTC	CCTC	rs111256373		TCGA-BP-5177-01A-01D-1429-08	TCGA-BP-5177-11A-01D-1429-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:33451583_33451584insCCTC								HIPK3 (75644 upstream) : C11orf41 (112293 downstream)																							cttccttccttccttccttcct	0.030													9	4	---	---	---	---	
CACNA1C	775	broad.mit.edu	37	12	2656822	2656823	+	Intron	DEL	TG	-	-			TCGA-BP-5177-01A-01D-1429-08	TCGA-BP-5177-11A-01D-1429-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:2656822_2656823delTG	uc009zdu.1	+						CACNA1C_uc009zdv.1_Intron|CACNA1C_uc001qkb.2_Intron|CACNA1C_uc001qkc.2_Intron|CACNA1C_uc001qke.2_Intron|CACNA1C_uc001qkf.2_Intron|CACNA1C_uc001qjz.2_Intron|CACNA1C_uc001qkd.2_Intron|CACNA1C_uc001qkg.2_Intron|CACNA1C_uc009zdw.1_Intron|CACNA1C_uc001qkh.2_Intron|CACNA1C_uc001qkl.2_Intron|CACNA1C_uc001qkn.2_Intron|CACNA1C_uc001qko.2_Intron|CACNA1C_uc001qkp.2_Intron|CACNA1C_uc001qkr.2_Intron|CACNA1C_uc001qku.2_Intron|CACNA1C_uc001qkq.2_Intron|CACNA1C_uc001qks.2_Intron|CACNA1C_uc001qkt.2_Intron|CACNA1C_uc001qka.1_Intron|CACNA1C_uc001qki.1_Intron|CACNA1C_uc001qkj.1_Intron|CACNA1C_uc001qkk.1_Intron|CACNA1C_uc001qkm.1_Intron|CACNA1C_uc009zdy.1_Intron|CACNA1C_uc001qkv.1_Intron	NM_199460	NP_955630	Q13936	CAC1C_HUMAN	calcium channel, voltage-dependent, L type,						axon guidance|calcium ion transport into cytosol|energy reserve metabolic process|regulation of insulin secretion	cytoplasm|postsynaptic density|voltage-gated calcium channel complex	calmodulin binding|voltage-gated calcium channel activity			ovary(10)|central_nervous_system(1)	11			OV - Ovarian serous cystadenocarcinoma(31;0.00256)	LUAD - Lung adenocarcinoma(1;0.134)	Ibutilide(DB00308)|Isradipine(DB00270)|Magnesium Sulfate(DB00653)|Mibefradil(DB01388)|Nicardipine(DB00622)|Verapamil(DB00661)	gtatatatgttgtgtgtgtgtg	0.366													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	12	31269805	31269806	+	Intron	INS	-	AAG	AAG	rs10650892		TCGA-BP-5177-01A-01D-1429-08	TCGA-BP-5177-11A-01D-1429-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:31269805_31269806insAAG	uc010sjy.1	-						uc001rjy.2_Intron|uc001rjz.2_Intron					RecName: Full=Ovostatin homolog 1; Flags: Precursor;																		CAATATTCCTCAAACTTCTCTT	0.307													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	12	98401877	98401879	+	IGR	DEL	GAA	-	-			TCGA-BP-5177-01A-01D-1429-08	TCGA-BP-5177-11A-01D-1429-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:98401877_98401879delGAA								RMST (443084 upstream) : LOC100128191 (504874 downstream)																							agaggaagaggaagaagaagaag	0.000													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	12	112761752	112761759	+	IGR	DEL	TTCTTTCT	-	-	rs72030325		TCGA-BP-5177-01A-01D-1429-08	TCGA-BP-5177-11A-01D-1429-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:112761752_112761759delTTCTTTCT								C12orf51 (17714 upstream) : RPL6 (81236 downstream)																							ACTGAGGTGCttctttctttctttcttt	0.115													2	6	---	---	---	---	
DNAH10	196385	broad.mit.edu	37	12	124315343	124315343	+	Intron	DEL	T	-	-	rs7976816		TCGA-BP-5177-01A-01D-1429-08	TCGA-BP-5177-11A-01D-1429-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:124315343delT	uc001uft.3	+							NM_207437	NP_997320	Q8IVF4	DYH10_HUMAN	dynein, axonemal, heavy chain 10						microtubule-based movement	cilium axoneme|cytoplasm|dynein complex|microtubule	ATP binding|ATPase activity|microtubule motor activity			ovary(3)|skin(2)|central_nervous_system(1)	6	all_neural(191;0.101)|Medulloblastoma(191;0.163)			OV - Ovarian serous cystadenocarcinoma(86;0.000207)|Epithelial(86;0.000556)|all cancers(50;0.00346)		aaaaaaaaaattagctgagcg	0.100													1	5	---	---	---	---	
UGGT2	55757	broad.mit.edu	37	13	96600472	96600473	+	Intron	INS	-	ACACAC	ACACAC	rs149949392	by1000genomes	TCGA-BP-5177-01A-01D-1429-08	TCGA-BP-5177-11A-01D-1429-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr13:96600472_96600473insACACAC	uc001vmt.2	-							NM_020121	NP_064506	Q9NYU1	UGGG2_HUMAN	UDP-glucose ceramide glucosyltransferase-like 2						post-translational protein modification|protein folding|protein N-linked glycosylation via asparagine	endoplasmic reticulum lumen|ER-Golgi intermediate compartment	UDP-glucose:glycoprotein glucosyltransferase activity			ovary(2)|central_nervous_system(1)	3						TTCTAAGGAATacacacacaca	0.218													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	13	112850045	112850048	+	IGR	DEL	CCCC	-	-	rs112803567		TCGA-BP-5177-01A-01D-1429-08	TCGA-BP-5177-11A-01D-1429-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr13:112850045_112850048delCCCC								SOX1 (124025 upstream) : C13orf28 (180621 downstream)																							tctttcctttcccccttcctccct	0.020													4	2	---	---	---	---	
C14orf21	161424	broad.mit.edu	37	14	24772593	24772593	+	Intron	DEL	T	-	-	rs112529240		TCGA-BP-5177-01A-01D-1429-08	TCGA-BP-5177-11A-01D-1429-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr14:24772593delT	uc001wol.1	+						C14orf21_uc001wom.1_Intron	NM_174913	NP_777573	Q86U38	CN021_HUMAN	hypothetical protein LOC161424								RNA binding			breast(2)|central_nervous_system(1)|skin(1)	4				GBM - Glioblastoma multiforme(265;0.0185)		ACCCAGCTAAttttttttttt	0.313													4	3	---	---	---	---	
DCAF4	26094	broad.mit.edu	37	14	73412936	73412936	+	Intron	DEL	A	-	-			TCGA-BP-5177-01A-01D-1429-08	TCGA-BP-5177-11A-01D-1429-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr14:73412936delA	uc001xng.2	+						DCAF4_uc001xnj.2_Intron|DCAF4_uc010ttr.1_Intron|DCAF4_uc001xnh.2_Intron|DCAF4_uc010tts.1_Intron|DCAF4_uc010ttt.1_Intron|DCAF4_uc001xni.2_Intron|DCAF4_uc001xnk.2_Intron	NM_015604	NP_056419	Q8WV16	DCAF4_HUMAN	DDB1 and CUL4 associated factor 4 isoform 1							CUL4 RING ubiquitin ligase complex				ovary(1)|central_nervous_system(1)|skin(1)	3						ttgtctctacaaaaaaaaaaa	0.045													4	2	---	---	---	---	
CATSPERB	79820	broad.mit.edu	37	14	92176041	92176041	+	Intron	DEL	C	-	-	rs12882622		TCGA-BP-5177-01A-01D-1429-08	TCGA-BP-5177-11A-01D-1429-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr14:92176041delC	uc001xzs.1	-							NM_024764	NP_079040	Q9H7T0	CTSRB_HUMAN	cation channel, sperm-associated, beta						cell differentiation|multicellular organismal development|spermatogenesis	integral to membrane				breast(2)|skin(2)|ovary(1)	5		all_cancers(154;0.0663)|all_epithelial(191;0.236)				ctcaaaaaaacaaaaaaaaag	0.144													4	2	---	---	---	---	
PPCDC	60490	broad.mit.edu	37	15	75315647	75315653	+	5'Flank	DEL	AAAAAAA	-	-	rs71434249		TCGA-BP-5177-01A-01D-1429-08	TCGA-BP-5177-11A-01D-1429-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr15:75315647_75315653delAAAAAAA	uc002azo.2	+							NM_021823	NP_068595	Q96CD2	COAC_HUMAN	phosphopantothenoylcysteine decarboxylase						coenzyme A biosynthetic process|pantothenate metabolic process	cytosol	phosphopantothenoylcysteine decarboxylase activity				0						GGACAACAGCaaaaaaaaaaaaaaaaa	0.430													4	2	---	---	---	---	
STARD5	80765	broad.mit.edu	37	15	81611436	81611436	+	Intron	DEL	A	-	-			TCGA-BP-5177-01A-01D-1429-08	TCGA-BP-5177-11A-01D-1429-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr15:81611436delA	uc002bgm.2	-						STARD5_uc002bgn.2_Intron	NM_181900	NP_871629	Q9NSY2	STAR5_HUMAN	StAR-related lipid transfer protein 5						C21-steroid hormone biosynthetic process|lipid transport	cytosol	lipid binding			ovary(1)	1						CTTCCGCAGGAAAAAAAAAAA	0.488													3	3	---	---	---	---	
Unknown	0	broad.mit.edu	37	15	101250575	101250580	+	IGR	DEL	GATGGA	-	-	rs111555768	by1000genomes	TCGA-BP-5177-01A-01D-1429-08	TCGA-BP-5177-11A-01D-1429-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr15:101250575_101250580delGATGGA								ASB7 (58673 upstream) : ALDH1A3 (169429 downstream)																							tggaggtcatgatggaggtggaggtg	0.000													4	2	---	---	---	---	
DHX38	9785	broad.mit.edu	37	16	72134670	72134670	+	Intron	DEL	A	-	-			TCGA-BP-5177-01A-01D-1429-08	TCGA-BP-5177-11A-01D-1429-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr16:72134670delA	uc002fcb.2	+						DHX38_uc010vmp.1_Intron	NM_014003	NP_054722	Q92620	PRP16_HUMAN	DEAH (Asp-Glu-Ala-His) box polypeptide 38						mRNA 3'-end processing|mRNA export from nucleus|nuclear mRNA splicing, via spliceosome|termination of RNA polymerase II transcription	catalytic step 2 spliceosome|nucleoplasm	ATP binding|ATP-dependent helicase activity|nucleic acid binding|protein binding			skin(1)	1		Ovarian(137;0.125)				tctcaaaagtacaaaaattag	0.000													5	3	---	---	---	---	
DHX33	56919	broad.mit.edu	37	17	5364623	5364625	+	Intron	DEL	CTT	-	-			TCGA-BP-5177-01A-01D-1429-08	TCGA-BP-5177-11A-01D-1429-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:5364623_5364625delCTT	uc002gca.2	-						DHX33_uc002gbz.2_5'UTR|DHX33_uc002gcb.2_Intron|DHX33_uc010clf.2_Intron	NM_020162	NP_064547	Q9H6R0	DHX33_HUMAN	DEAH (Asp-Glu-Ala-His) box polypeptide 33							nucleolus	ATP binding|ATP-dependent helicase activity|nucleic acid binding			ovary(1)|pancreas(1)	2						CTTTCCTTTCCTTCTTTTTTTTT	0.291													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	17	25279521	25279521	+	IGR	DEL	G	-	-			TCGA-BP-5177-01A-01D-1429-08	TCGA-BP-5177-11A-01D-1429-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:25279521delG								None (None upstream) : WSB1 (341585 downstream)																							aaaataaagaggaaaaggaag	0.000													9	4	---	---	---	---	
TBC1D29	26083	broad.mit.edu	37	17	28885450	28885451	+	5'Flank	INS	-	T	T			TCGA-BP-5177-01A-01D-1429-08	TCGA-BP-5177-11A-01D-1429-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:28885450_28885451insT	uc002hfh.2	+						uc002hfg.1_5'Flank|TBC1D29_uc002hfi.2_5'Flank	NM_015594	NP_056409	Q9UFV1	TBC29_HUMAN	TBC1 domain family, member 29							intracellular	Rab GTPase activator activity				0		Myeloproliferative disorder(56;0.0255)				TGGCATAAACCTCCAGCAAGGG	0.540													10	5	---	---	---	---	
MED13	9969	broad.mit.edu	37	17	60129744	60129744	+	Intron	DEL	A	-	-			TCGA-BP-5177-01A-01D-1429-08	TCGA-BP-5177-11A-01D-1429-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:60129744delA	uc002izo.2	-							NM_005121	NP_005112	Q9UHV7	MED13_HUMAN	mediator complex subunit 13						androgen receptor signaling pathway|positive regulation of transcription from RNA polymerase II promoter|transcription initiation from RNA polymerase II promoter	mediator complex	ligand-dependent nuclear receptor transcription coactivator activity|receptor activity|RNA polymerase II transcription cofactor activity|thyroid hormone receptor binding|vitamin D receptor binding			large_intestine(1)|ovary(1)	2						AAAGTGGTTTAAAAAAAAAAA	0.323													6	4	---	---	---	---	
USP36	57602	broad.mit.edu	37	17	76808780	76808780	+	Intron	DEL	A	-	-			TCGA-BP-5177-01A-01D-1429-08	TCGA-BP-5177-11A-01D-1429-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:76808780delA	uc002jvz.1	-						USP36_uc002jwa.1_Intron|USP36_uc002jwb.1_Intron|USP36_uc002jwc.1_Intron	NM_025090	NP_079366	Q9P275	UBP36_HUMAN	ubiquitin specific peptidase 36						ubiquitin-dependent protein catabolic process	nucleolus	cysteine-type peptidase activity|ubiquitin thiolesterase activity			lung(2)|ovary(1)|breast(1)|kidney(1)	5			BRCA - Breast invasive adenocarcinoma(99;0.000842)|OV - Ovarian serous cystadenocarcinoma(97;0.151)			ctctgtctcgaaaaaaaaaaa	0.149													4	2	---	---	---	---	
KCTD1	284252	broad.mit.edu	37	18	24173355	24173357	+	Intron	DEL	GAG	-	-			TCGA-BP-5177-01A-01D-1429-08	TCGA-BP-5177-11A-01D-1429-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr18:24173355_24173357delGAG	uc010xbk.1	-							NM_198991	NP_945342	Q719H9	KCTD1_HUMAN	potassium channel tetramerisation domain						negative regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus|voltage-gated potassium channel complex	transcription corepressor activity|transcription factor binding|voltage-gated potassium channel activity			ovary(1)	1	all_cancers(21;0.00191)|Lung NSC(5;0.000698)|all_lung(6;0.0019)|Ovarian(20;0.0848)		Epithelial(2;7.8e-06)|OV - Ovarian serous cystadenocarcinoma(3;9.02e-06)|all cancers(3;3.37e-05)			ggaggaagaagaggaggaggaag	0.000													5	5	---	---	---	---	
KANK3	256949	broad.mit.edu	37	19	8398950	8398961	+	In_Frame_Del	DEL	TCGCTGTCGCCA	-	-	rs111751275		TCGA-BP-5177-01A-01D-1429-08	TCGA-BP-5177-11A-01D-1429-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:8398950_8398961delTCGCTGTCGCCA	uc010dwa.2	-	5	1533_1544	c.1467_1478delTGGCGACAGCGA	c.(1465-1479)GATGGCGACAGCGAG>GAG	p.DGDS489del	KANK3_uc002mjp.1_In_Frame_Del_p.MATA1del	NM_198471	NP_940873	Q6NY19	KANK3_HUMAN	ankyrin repeat domain 47	489_492											0						GCCACCGTTCTCGCTGTCGCCATCGCTGTCGC	0.693													4	3	---	---	---	---	
ZNF699	374879	broad.mit.edu	37	19	9415598	9415598	+	Intron	DEL	A	-	-			TCGA-BP-5177-01A-01D-1429-08	TCGA-BP-5177-11A-01D-1429-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:9415598delA	uc002mlc.1	-							NM_198535	NP_940937	Q32M78	ZN699_HUMAN	zinc finger protein 699						regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0						actctgtctcaaaaaaaaaaa	0.060													4	3	---	---	---	---	
ZNF430	80264	broad.mit.edu	37	19	21239293	21239294	+	Intron	INS	-	A	A			TCGA-BP-5177-01A-01D-1429-08	TCGA-BP-5177-11A-01D-1429-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:21239293_21239294insA	uc002npj.2	+						ZNF430_uc002npk.2_Intron	NM_025189	NP_079465	Q9H8G1	ZN430_HUMAN	zinc finger protein 430						regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			skin(2)	2						agactctgtctaaaaaaaaaaa	0.124													4	2	---	---	---	---	
PPFIA3	8541	broad.mit.edu	37	19	49642747	49642747	+	Intron	DEL	A	-	-	rs75201704		TCGA-BP-5177-01A-01D-1429-08	TCGA-BP-5177-11A-01D-1429-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:49642747delA	uc002pmr.2	+						PPFIA3_uc010yai.1_Intron|PPFIA3_uc010yaj.1_Intron|PPFIA3_uc002pms.2_Intron	NM_003660	NP_003651	O75145	LIPA3_HUMAN	PTPRF interacting protein alpha 3							cell surface|cytoplasm	protein binding			lung(1)	1		all_lung(116;3.16e-06)|Lung NSC(112;6.25e-06)|all_neural(266;0.0189)|Ovarian(192;0.0392)		all cancers(93;2.36e-05)|OV - Ovarian serous cystadenocarcinoma(262;0.000203)|GBM - Glioblastoma multiforme(486;0.00307)|Epithelial(262;0.00677)		actccatctcaaaaaaaaaaa	0.194													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	19	49715837	49715838	+	IGR	INS	-	CTTC	CTTC	rs76677262		TCGA-BP-5177-01A-01D-1429-08	TCGA-BP-5177-11A-01D-1429-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:49715837_49715838insCTTC								TRPM4 (746 upstream) : SLC6A16 (77056 downstream)																							AATGTAACCTActtccttcctt	0.035													4	6	---	---	---	---	
LILRB3	11025	broad.mit.edu	37	19	54733630	54733631	+	Intron	INS	-	T	T	rs141238984	by1000genomes	TCGA-BP-5177-01A-01D-1429-08	TCGA-BP-5177-11A-01D-1429-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:54733630_54733631insT	uc010erh.1	-						LILRB3_uc002qeh.1_Intron|LILRB3_uc002qeg.1_Intron|LILRB3_uc002qei.1_Intron|LILRA6_uc002qek.1_Intron|LILRB3_uc002qej.1_Intron|LILRA6_uc002qel.1_Intron|LILRA6_uc002qem.1_Intron|LILRB3_uc002qen.1_Intron|LILRB3_uc002qeo.1_Intron|LILRB3_uc002qep.1_Intron|LILRB3_uc002qeq.1_Intron|LILRB3_uc002qer.1_Intron|LILRB3_uc002qes.1_Intron|LILRA6_uc010yep.1_Intron|LILRA6_uc010yeq.1_Intron	NM_006864	NP_006855	O75022	LIRB3_HUMAN	leukocyte immunoglobulin-like receptor,						cell surface receptor linked signaling pathway|defense response	integral to plasma membrane	transmembrane receptor activity			skin(2)|ovary(1)	3	all_cancers(19;0.00723)|all_epithelial(19;0.00389)|all_lung(19;0.0175)|Lung NSC(19;0.0325)|Ovarian(34;0.19)			GBM - Glioblastoma multiforme(193;0.105)		atttttttgtattttcagtaga	0.005													8	8	---	---	---	---	
Unknown	0	broad.mit.edu	37	20	46629408	46629411	+	IGR	DEL	CTTC	-	-	rs149071160	by1000genomes	TCGA-BP-5177-01A-01D-1429-08	TCGA-BP-5177-11A-01D-1429-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr20:46629408_46629411delCTTC								SULF2 (214048 upstream) : LOC284749 (359243 downstream)																							ttctttctttcttccttccttcct	0.000													5	3	---	---	---	---	
PREX1	57580	broad.mit.edu	37	20	47298216	47298217	+	Intron	INS	-	GATGGATG	GATGGATG			TCGA-BP-5177-01A-01D-1429-08	TCGA-BP-5177-11A-01D-1429-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr20:47298216_47298217insGATGGATG	uc002xtw.1	-							NM_020820	NP_065871	Q8TCU6	PREX1_HUMAN	phosphatidylinositol-3,4,						actin filament polymerization|apoptosis|induction of apoptosis by extracellular signals|nerve growth factor receptor signaling pathway|neutrophil activation|small GTPase mediated signal transduction|superoxide metabolic process	cytosol|plasma membrane	enzyme binding|phospholipid binding|Rho GTPase activator activity|Rho guanyl-nucleotide exchange factor activity			lung(3)|ovary(2)|pancreas(1)	6			BRCA - Breast invasive adenocarcinoma(12;0.0135)|Colorectal(8;0.198)			GTGACTACatagatggatggat	0.208													3	5	---	---	---	---	
Unknown	0	broad.mit.edu	37	20	49068651	49068651	+	IGR	DEL	A	-	-	rs71190560		TCGA-BP-5177-01A-01D-1429-08	TCGA-BP-5177-11A-01D-1429-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr20:49068651delA								CEBPB (259439 upstream) : PTPN1 (58240 downstream)																							ggaaggaaggaaaggaaggaa	0.060													6	3	---	---	---	---	
ATP9A	10079	broad.mit.edu	37	20	50217347	50217348	+	3'UTR	DEL	AC	-	-	rs66637813		TCGA-BP-5177-01A-01D-1429-08	TCGA-BP-5177-11A-01D-1429-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr20:50217347_50217348delAC	uc002xwg.1	-	28					ATP9A_uc010gih.1_3'UTR|ATP9A_uc002xwf.1_3'UTR	NM_006045	NP_006036	O75110	ATP9A_HUMAN	ATPase, class II, type 9A						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(4)	4						CTCTTTAAAAacacacacacac	0.292													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	21	11114442	11114442	+	IGR	DEL	A	-	-	rs5842456		TCGA-BP-5177-01A-01D-1429-08	TCGA-BP-5177-11A-01D-1429-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr21:11114442delA								BAGE (15505 upstream) : None (None downstream)																							TGCTTAGGTTAAATTTTTTTT	0.289													8	4	---	---	---	---	
Unknown	0	broad.mit.edu	37	22	25855682	25855683	+	Intron	INS	-	GTGT	GTGT	rs138963277	by1000genomes	TCGA-BP-5177-01A-01D-1429-08	TCGA-BP-5177-11A-01D-1429-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr22:25855682_25855683insGTGT	uc003abt.2	+						uc003abu.2_Intron|uc003abv.2_Intron					Homo sapiens cDNA clone IMAGE:3542716, partial cds.																		CCTGGCAGCTGgtgtgtgtgtg	0.406													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	X	45606319	45606320	+	5'Flank	INS	-	GT	GT	rs5905482		TCGA-BP-5177-01A-01D-1429-08	TCGA-BP-5177-11A-01D-1429-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chrX:45606319_45606320insGT	uc011mle.1	-						MIR221_hsa-mir-221|MI0000298_5'Flank					DM004476																		tgtgtgtgtgagtgtgtgtgtg	0.213													5	4	---	---	---	---	
