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	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	validation_status	validation_method	validation_tumor_sample	validation_alt_allele
Unknown	0	broad.mit.edu	37	1	5050112	5050113	+	IGR	DEL	TC	-	-			TCGA-CG-4462-01A-01D-1158-08	TCGA-CG-4462-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:5050112_5050113delTC								AJAP1 (206262 upstream) : NPHP4 (872757 downstream)																																			---	---	---	---
KIAA0090	23065	broad.mit.edu	37	1	19563462	19563462	+	Intron	DEL	A	-	-	rs71577881		TCGA-CG-4462-01A-01D-1158-08	TCGA-CG-4462-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:19563462delA	uc001bbo.2	-						KIAA0090_uc001bbp.2_Intron|KIAA0090_uc001bbq.2_Intron|KIAA0090_uc001bbr.2_Intron	NM_015047	NP_055862			hypothetical protein LOC23065 precursor							integral to membrane	protein binding			ovary(1)	1		Colorectal(325;0.000147)|Renal(390;0.000469)|Breast(348;0.00366)|all_lung(284;0.00519)|Lung NSC(340;0.00544)|Myeloproliferative disorder(586;0.0393)|Ovarian(437;0.0707)		UCEC - Uterine corpus endometrioid carcinoma (279;0.00492)|BRCA - Breast invasive adenocarcinoma(304;3.84e-05)|Kidney(64;0.000191)|KIRC - Kidney renal clear cell carcinoma(64;0.00274)|GBM - Glioblastoma multiforme(114;0.005)|STAD - Stomach adenocarcinoma(196;0.00644)|READ - Rectum adenocarcinoma(331;0.0656)														---	---	---	---
ALPL	249	broad.mit.edu	37	1	21902749	21902764	+	Intron	DEL	TGGATGGATGGATGGG	-	-	rs67585448		TCGA-CG-4462-01A-01D-1158-08	TCGA-CG-4462-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:21902749_21902764delTGGATGGATGGATGGG	uc001bet.2	+						ALPL_uc010odn.1_Intron|ALPL_uc010odo.1_Intron|ALPL_uc010odp.1_Intron|ALPL_uc001beu.3_Intron	NM_000478	NP_000469			tissue-nonspecific alkaline phosphatase						response to vitamin D|skeletal system development	anchored to membrane|cytoplasm|integral to membrane|plasma membrane	alkaline phosphatase activity|metal ion binding			ovary(2)|central_nervous_system(2)|skin(1)	5		all_lung(284;2.19e-05)|Lung NSC(340;2.22e-05)|Colorectal(325;3.46e-05)|Renal(390;0.000219)|Breast(348;0.00222)|Ovarian(437;0.00308)|Myeloproliferative disorder(586;0.0255)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0192)|OV - Ovarian serous cystadenocarcinoma(117;8.7e-28)|COAD - Colon adenocarcinoma(152;1.57e-05)|GBM - Glioblastoma multiforme(114;2.66e-05)|BRCA - Breast invasive adenocarcinoma(304;0.000177)|STAD - Stomach adenocarcinoma(196;0.00645)|KIRC - Kidney renal clear cell carcinoma(1967;0.00856)|READ - Rectum adenocarcinoma(331;0.0623)|Lung(427;0.146)	Amifostine(DB01143)													---	---	---	---
Unknown	0	broad.mit.edu	37	1	25380784	25380787	+	IGR	DEL	CCTT	-	-			TCGA-CG-4462-01A-01D-1158-08	TCGA-CG-4462-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:25380784_25380787delCCTT								RUNX3 (89172 upstream) : SYF2 (167980 downstream)																																			---	---	---	---
NOS1AP	9722	broad.mit.edu	37	1	162259067	162259070	+	Intron	DEL	CTTT	-	-	rs72224178	by1000genomes	TCGA-CG-4462-01A-01D-1158-08	TCGA-CG-4462-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:162259067_162259070delCTTT	uc001gbv.2	+						NOS1AP_uc010pkr.1_Intron|NOS1AP_uc010pks.1_Intron|NOS1AP_uc001gbw.2_Intron	NM_014697	NP_055512			nitric oxide synthase 1 (neuronal) adaptor						regulation of apoptosis|regulation of nitric oxide biosynthetic process|regulation of nitric-oxide synthase activity		nitric-oxide synthase binding|PDZ domain binding			lung(2)|upper_aerodigestive_tract(1)	3	all_hematologic(112;0.203)		BRCA - Breast invasive adenocarcinoma(70;0.0537)															---	---	---	---
XPR1	9213	broad.mit.edu	37	1	180805493	180805493	+	Intron	DEL	A	-	-	rs72155316		TCGA-CG-4462-01A-01D-1158-08	TCGA-CG-4462-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:180805493delA	uc001goi.2	+						XPR1_uc009wxm.2_Intron|XPR1_uc009wxn.2_Intron	NM_004736	NP_004727			xenotropic and polytropic retrovirus receptor							integral to plasma membrane	G-protein coupled receptor activity				0																		---	---	---	---
Unknown	0	broad.mit.edu	37	1	195112282	195112283	+	IGR	INS	-	A	A	rs61028020		TCGA-CG-4462-01A-01D-1158-08	TCGA-CG-4462-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:195112282_195112283insA								None (None upstream) : None (None downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	1	207273434	207273439	+	IGR	DEL	TGTGTA	-	-	rs35665980		TCGA-CG-4462-01A-01D-1158-08	TCGA-CG-4462-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:207273434_207273439delTGTGTA								C4BPB (99 upstream) : C4BPA (4072 downstream)																																			---	---	---	---
USH2A	7399	broad.mit.edu	37	1	215916729	215916730	+	Intron	DEL	TG	-	-	rs6540907		TCGA-CG-4462-01A-01D-1158-08	TCGA-CG-4462-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:215916729_215916730delTG	uc001hku.1	-							NM_206933	NP_996816			usherin isoform B						maintenance of organ identity|photoreceptor cell maintenance|response to stimulus|sensory perception of sound	basement membrane|cytoplasm|integral to membrane|stereocilium membrane	collagen binding			ovary(20)|upper_aerodigestive_tract(2)|skin(2)|kidney(1)|central_nervous_system(1)	26				OV - Ovarian serous cystadenocarcinoma(81;0.0547)|all cancers(67;0.0875)											HNSCC(13;0.011)			---	---	---	---
RYR2	6262	broad.mit.edu	37	1	237886196	237886197	+	Intron	DEL	CT	-	-	rs146977948		TCGA-CG-4462-01A-01D-1158-08	TCGA-CG-4462-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:237886196_237886197delCT	uc001hyl.1	+						RYR2_uc010pxz.1_Intron	NM_001035	NP_001026			cardiac muscle ryanodine receptor						cardiac muscle contraction|detection of calcium ion|induction of apoptosis by ionic changes|regulation of cardiac muscle contraction by regulation of the release of sequestered calcium ion|release of sequestered calcium ion into cytosol by sarcoplasmic reticulum|response to caffeine|response to hypoxia|response to redox state	calcium channel complex|cytosol|plasma membrane|plasma membrane enriched fraction|sarcoplasmic reticulum membrane	calcium ion binding|calmodulin binding|identical protein binding|protein kinase A catalytic subunit binding|protein kinase A regulatory subunit binding|receptor activity|ryanodine-sensitive calcium-release channel activity|suramin binding			ovary(17)|large_intestine(6)|central_nervous_system(6)|pancreas(3)|breast(1)	33	Ovarian(103;0.103)	all_cancers(173;0.000368)|Melanoma(53;0.0179)|all_epithelial(177;0.0225)	OV - Ovarian serous cystadenocarcinoma(106;0.00606)															---	---	---	---
RYR2	6262	broad.mit.edu	37	1	237905568	237905569	+	Intron	INS	-	C	C	rs146179584	by1000genomes;by1000genomes	TCGA-CG-4462-01A-01D-1158-08	TCGA-CG-4462-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:237905568_237905569insC	uc001hyl.1	+						RYR2_uc010pya.1_Intron	NM_001035	NP_001026			cardiac muscle ryanodine receptor						cardiac muscle contraction|detection of calcium ion|induction of apoptosis by ionic changes|regulation of cardiac muscle contraction by regulation of the release of sequestered calcium ion|release of sequestered calcium ion into cytosol by sarcoplasmic reticulum|response to caffeine|response to hypoxia|response to redox state	calcium channel complex|cytosol|plasma membrane|plasma membrane enriched fraction|sarcoplasmic reticulum membrane	calcium ion binding|calmodulin binding|identical protein binding|protein kinase A catalytic subunit binding|protein kinase A regulatory subunit binding|receptor activity|ryanodine-sensitive calcium-release channel activity|suramin binding			ovary(17)|large_intestine(6)|central_nervous_system(6)|pancreas(3)|breast(1)	33	Ovarian(103;0.103)	all_cancers(173;0.000368)|Melanoma(53;0.0179)|all_epithelial(177;0.0225)	OV - Ovarian serous cystadenocarcinoma(106;0.00606)															---	---	---	---
ALLC	55821	broad.mit.edu	37	2	3745212	3745215	+	Intron	DEL	TCTA	-	-	rs77220200	by1000genomes	TCGA-CG-4462-01A-01D-1158-08	TCGA-CG-4462-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:3745212_3745215delTCTA	uc010ewt.2	+						ALLC_uc002qyf.2_Intron	NM_018436	NP_060906			allantoicase isoform a								allantoicase activity			central_nervous_system(1)	1	Acute lymphoblastic leukemia(172;0.0627)|all_hematologic(175;0.088)	all_cancers(51;0.24)		OV - Ovarian serous cystadenocarcinoma(76;0.088)|all cancers(51;0.151)|Epithelial(75;0.206)											HNSCC(21;0.051)			---	---	---	---
ATAD2B	54454	broad.mit.edu	37	2	24110911	24110912	+	Intron	INS	-	A	A	rs145193037	by1000genomes	TCGA-CG-4462-01A-01D-1158-08	TCGA-CG-4462-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:24110911_24110912insA	uc002rek.3	-						ATAD2B_uc010yki.1_Intron|ATAD2B_uc010exx.1_Intron	NM_017552	NP_060022			ATPase family, AAA domain containing 2B								ATP binding|nucleoside-triphosphatase activity			central_nervous_system(1)	1	Acute lymphoblastic leukemia(172;0.155)|all_hematologic(175;0.215)																	---	---	---	---
SLC4A1AP	22950	broad.mit.edu	37	2	27887771	27887771	+	Intron	DEL	A	-	-			TCGA-CG-4462-01A-01D-1158-08	TCGA-CG-4462-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:27887771delA	uc002rlk.3	+						SUPT7L_uc002rlh.1_5'Flank|SUPT7L_uc002rli.1_5'Flank|SUPT7L_uc010ymf.1_5'Flank|SUPT7L_uc002rlj.1_5'Flank|SUPT7L_uc010ezh.1_5'Flank	NM_018158	NP_060628			solute carrier family 4 (anion exchanger),							cytoplasm|nucleus	double-stranded RNA binding|protein binding				0	Acute lymphoblastic leukemia(172;0.155)																	---	---	---	---
Unknown	0	broad.mit.edu	37	2	39723084	39723085	+	Intron	INS	-	CTTC	CTTC	rs145006304	by1000genomes	TCGA-CG-4462-01A-01D-1158-08	TCGA-CG-4462-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:39723084_39723085insCTTC	uc002rrq.2	+						uc002rrr.1_Intron					Homo sapiens cDNA FLJ33477 fis, clone BRAMY2002604.																														---	---	---	---
USP39	10713	broad.mit.edu	37	2	85876225	85876225	+	3'UTR	DEL	T	-	-	rs67966554		TCGA-CG-4462-01A-01D-1158-08	TCGA-CG-4462-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:85876225delT	uc002sqe.2	+	14					USP39_uc002sqb.2_3'UTR|USP39_uc010ysu.1_3'UTR|USP39_uc010ysv.1_3'UTR|USP39_uc002sqf.2_3'UTR|USP39_uc002sqg.2_3'UTR|USP39_uc010fgo.2_3'UTR	NM_006590	NP_006581			ubiquitin specific protease 39						spliceosome assembly|ubiquitin-dependent protein catabolic process	nucleus	protein binding|ubiquitin thiolesterase activity|zinc ion binding			ovary(1)	1																OREG0014749	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	---	---	---	---
Unknown	0	broad.mit.edu	37	2	113104045	113104047	+	IGR	DEL	CCG	-	-	rs145154377		TCGA-CG-4462-01A-01D-1158-08	TCGA-CG-4462-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:113104045_113104047delCCG								ZC3H6 (6405 upstream) : RGPD8 (21919 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	2	156126552	156126552	+	IGR	DEL	A	-	-	rs77418096		TCGA-CG-4462-01A-01D-1158-08	TCGA-CG-4462-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:156126552delA								KCNJ3 (413538 upstream) : None (None downstream)																																			---	---	---	---
NUP35	129401	broad.mit.edu	37	2	183993328	183993328	+	Intron	DEL	A	-	-	rs71407008		TCGA-CG-4462-01A-01D-1158-08	TCGA-CG-4462-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:183993328delA	uc002upf.2	+						NUP35_uc010zfs.1_Intron|NUP35_uc010zft.1_Intron|NUP35_uc002upg.2_Intron	NM_138285	NP_612142			nucleoporin 35kDa						carbohydrate metabolic process|glucose transport|mRNA transport|protein transport|regulation of glucose transport|transmembrane transport|viral reproduction	intermediate filament cytoskeleton|nuclear membrane|nuclear pore|plasma membrane					0																		---	---	---	---
FBXL2	25827	broad.mit.edu	37	3	33317558	33317558	+	5'Flank	DEL	T	-	-	rs34582904		TCGA-CG-4462-01A-01D-1158-08	TCGA-CG-4462-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:33317558delT	uc003cfp.2	+						FBXL2_uc011axm.1_5'Flank|FBXL2_uc011axn.1_5'Flank|FBXL2_uc011axo.1_5'Flank|FBXL2_uc011axp.1_5'Flank|FBXL2_uc011axq.1_5'Flank|FBXL2_uc011axr.1_5'Flank	NM_012157	NP_036289			F-box and leucine-rich repeat protein 2						interspecies interaction between organisms|proteolysis	cytoplasm|membrane	protein binding|ubiquitin-protein ligase activity			large_intestine(1)	1																		---	---	---	---
PRKAR2A	5576	broad.mit.edu	37	3	48794052	48794052	+	Intron	DEL	A	-	-			TCGA-CG-4462-01A-01D-1158-08	TCGA-CG-4462-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:48794052delA	uc010hki.1	-						PRKAR2A_uc003cux.1_Intron|PRKAR2A_uc003cuy.1_Intron	NM_004157	NP_004148			cAMP-dependent protein kinase, regulatory						activation of phospholipase C activity|activation of protein kinase A activity|blood coagulation|cellular response to glucagon stimulus|energy reserve metabolic process|intracellular signal transduction|nerve growth factor receptor signaling pathway|regulation of insulin secretion|transmembrane transport|water transport	centrosome|cytosol|membrane fraction	cAMP binding|cAMP-dependent protein kinase regulator activity			ovary(1)	1				BRCA - Breast invasive adenocarcinoma(193;0.000176)|Kidney(197;0.00246)|KIRC - Kidney renal clear cell carcinoma(197;0.00261)														---	---	---	---
LOC100302640	100302640	broad.mit.edu	37	3	106824710	106824711	+	Intron	DEL	TT	-	-	rs139188639		TCGA-CG-4462-01A-01D-1158-08	TCGA-CG-4462-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:106824710_106824711delTT	uc003dwf.3	-											Homo sapiens cDNA clone IMAGE:5284861.												0																		---	---	---	---
ITGB5	3693	broad.mit.edu	37	3	124570472	124570473	+	Intron	INS	-	CG	CG			TCGA-CG-4462-01A-01D-1158-08	TCGA-CG-4462-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:124570472_124570473insCG	uc003eho.2	-							NM_002213	NP_002204			integrin, beta 5 precursor						cell-matrix adhesion|integrin-mediated signaling pathway|multicellular organismal development|muscle contraction	integrin complex	receptor activity			skin(2)	2				GBM - Glioblastoma multiforme(114;0.163)														---	---	---	---
FGFRL1	53834	broad.mit.edu	37	4	1006076	1006077	+	Intron	INS	-	A	A	rs143405079	by1000genomes	TCGA-CG-4462-01A-01D-1158-08	TCGA-CG-4462-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:1006076_1006077insA	uc003gce.2	+						FGFRL1_uc003gcf.2_Intron|FGFRL1_uc003gcg.2_Intron|FGFRL1_uc010ibo.2_Intron	NM_021923	NP_068742			fibroblast growth factor receptor-like 1						regulation of cell growth	integral to membrane|plasma membrane	fibroblast growth factor receptor activity|heparin binding				0			OV - Ovarian serous cystadenocarcinoma(23;0.0158)															---	---	---	---
TBC1D1	23216	broad.mit.edu	37	4	38120014	38120015	+	Intron	INS	-	T	T	rs143317281	by1000genomes	TCGA-CG-4462-01A-01D-1158-08	TCGA-CG-4462-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:38120014_38120015insT	uc003gtb.2	+						TBC1D1_uc011byd.1_Intron|TBC1D1_uc010ifd.2_Intron|TBC1D1_uc003gtd.2_5'Flank	NM_015173	NP_055988			TBC1 (tre-2/USP6, BUB2, cdc16) domain family,							nucleus	Rab GTPase activator activity			ovary(1)	1																		---	---	---	---
MAST4	375449	broad.mit.edu	37	5	66215805	66215806	+	Intron	DEL	TT	-	-	rs73765897		TCGA-CG-4462-01A-01D-1158-08	TCGA-CG-4462-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:66215805_66215806delTT	uc003jut.1	+						MAST4_uc003jur.3_Intron|MAST4_uc010iwz.2_Intron|MAST4_uc003jus.2_Intron	NM_015183	NP_055998			microtubule associated serine/threonine kinase							cytoplasm	ATP binding|magnesium ion binding|protein serine/threonine kinase activity			lung(6)|ovary(2)|kidney(2)|breast(2)|central_nervous_system(1)	13		Lung NSC(167;8.56e-06)|Prostate(74;0.00637)|Ovarian(174;0.0563)|Breast(144;0.0586)|Colorectal(97;0.245)		Lung(70;0.011)														---	---	---	---
RGNEF	64283	broad.mit.edu	37	5	73142411	73142412	+	Intron	INS	-	T	T	rs142259999	by1000genomes	TCGA-CG-4462-01A-01D-1158-08	TCGA-CG-4462-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:73142411_73142412insT	uc011csq.1	+						RGNEF_uc003kcx.2_Intron|RGNEF_uc003kcy.1_Intron|RGNEF_uc010izf.2_Intron|RGNEF_uc011csr.1_Intron	NM_001080479	NP_001073948			Rho-guanine nucleotide exchange factor						cell differentiation|intracellular signal transduction|regulation of Rho protein signal transduction	cytoplasm|plasma membrane	metal ion binding|Rho guanyl-nucleotide exchange factor activity|RNA binding				0		Lung NSC(167;0.0378)|all_lung(232;0.04)|Ovarian(174;0.0798)		OV - Ovarian serous cystadenocarcinoma(47;1.25e-51)														---	---	---	---
ERAP1	51752	broad.mit.edu	37	5	96117713	96117715	+	Intron	DEL	TTT	-	-	rs142478570		TCGA-CG-4462-01A-01D-1158-08	TCGA-CG-4462-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:96117713_96117715delTTT	uc003kmm.2	-						ERAP1_uc003kml.2_Intron|ERAP1_uc010jbm.1_Intron|ERAP1_uc003kmn.2_Intron	NM_001040458	NP_001035548			type 1 tumor necrosis factor receptor shedding						angiogenesis|antigen processing and presentation of endogenous peptide antigen via MHC class I|fat cell differentiation|membrane protein ectodomain proteolysis|regulation of blood pressure|regulation of innate immune response|response to bacterium	cytosol|endoplasmic reticulum lumen|endoplasmic reticulum membrane|extracellular region|integral to membrane	aminopeptidase activity|interleukin-1, Type II receptor binding|interleukin-6 receptor binding|metalloexopeptidase activity|zinc ion binding			ovary(1)|pancreas(1)	2		all_cancers(142;1.75e-06)|all_epithelial(76;3.08e-09)|all_lung(232;0.000435)|Lung NSC(167;0.000601)|Ovarian(225;0.024)|Colorectal(57;0.0432)|Breast(839;0.244)		all cancers(79;7.26e-15)|COAD - Colon adenocarcinoma(37;0.071)														---	---	---	---
Unknown	0	broad.mit.edu	37	5	123569154	123569157	+	IGR	DEL	AGGA	-	-	rs72496860		TCGA-CG-4462-01A-01D-1158-08	TCGA-CG-4462-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:123569154_123569157delAGGA								CSNK1G3 (616692 upstream) : ZNF608 (403453 downstream)																																			---	---	---	---
SLC12A2	6558	broad.mit.edu	37	5	127487249	127487249	+	Intron	DEL	T	-	-	rs146057040		TCGA-CG-4462-01A-01D-1158-08	TCGA-CG-4462-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:127487249delT	uc003kus.2	+						SLC12A2_uc010jdf.2_Intron|SLC12A2_uc010jdg.2_Intron	NM_001046	NP_001037			solute carrier family 12						potassium ion transport|sodium ion transport|transepithelial ammonium transport|transepithelial chloride transport	integral to plasma membrane|membrane fraction	ammonia transmembrane transporter activity|sodium:potassium:chloride symporter activity			ovary(3)	3		all_cancers(142;0.0972)|Prostate(80;0.151)	KIRC - Kidney renal clear cell carcinoma(527;0.0268)|Kidney(363;0.0488)	Epithelial(69;0.0433)|OV - Ovarian serous cystadenocarcinoma(64;0.0978)	Bumetanide(DB00887)|Potassium Chloride(DB00761)													---	---	---	---
Unknown	0	broad.mit.edu	37	5	171749447	171749448	+	IGR	INS	-	TTCCTTCT	TTCCTTCT	rs114993798	by1000genomes	TCGA-CG-4462-01A-01D-1158-08	TCGA-CG-4462-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:171749447_171749448insTTCCTTCT								UBTD2 (38652 upstream) : SH3PXD2B (11057 downstream)																																			---	---	---	---
FAF2	23197	broad.mit.edu	37	5	175913675	175913675	+	Intron	DEL	T	-	-	rs5873535		TCGA-CG-4462-01A-01D-1158-08	TCGA-CG-4462-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:175913675delT	uc003mej.3	+							NM_014613	NP_055428			UBX domain containing 8						response to unfolded protein	endoplasmic reticulum|lipid particle	protein binding			ovary(1)	1																		---	---	---	---
PKHD1	5314	broad.mit.edu	37	6	51923570	51923573	+	Intron	DEL	TCTA	-	-	rs66624918		TCGA-CG-4462-01A-01D-1158-08	TCGA-CG-4462-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:51923570_51923573delTCTA	uc003pah.1	-						PKHD1_uc003pai.2_Intron	NM_138694	NP_619639			fibrocystin isoform 1						cell-cell adhesion|cilium assembly|homeostatic process|kidney development|negative regulation of cellular component movement	anchored to external side of plasma membrane|apical plasma membrane|integral to membrane|microtubule basal body	protein binding|receptor activity			lung(15)|ovary(15)|large_intestine(5)|central_nervous_system(3)|skin(3)|breast(2)|upper_aerodigestive_tract(1)	44	Lung NSC(77;0.0605)																	---	---	---	---
Unknown	0	broad.mit.edu	37	6	116146551	116146552	+	IGR	INS	-	GAAG	GAAG	rs71012306		TCGA-CG-4462-01A-01D-1158-08	TCGA-CG-4462-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:116146551_116146552insGAAG								None (None upstream) : FRK (116141 downstream)																																			---	---	---	---
LAMA2	3908	broad.mit.edu	37	6	129706456	129706459	+	Intron	DEL	GGAA	-	-			TCGA-CG-4462-01A-01D-1158-08	TCGA-CG-4462-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:129706456_129706459delGGAA	uc003qbn.2	+						LAMA2_uc003qbo.2_Intron	NM_000426	NP_000417			laminin alpha 2 subunit isoform a precursor						cell adhesion|muscle organ development|regulation of cell adhesion|regulation of cell migration|regulation of embryonic development	laminin-1 complex	receptor binding|structural molecule activity			ovary(8)|breast(1)|skin(1)	10				OV - Ovarian serous cystadenocarcinoma(136;0.178)|all cancers(137;0.245)														---	---	---	---
Unknown	0	broad.mit.edu	37	6	135471486	135471486	+	IGR	DEL	T	-	-			TCGA-CG-4462-01A-01D-1158-08	TCGA-CG-4462-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:135471486delT								HBS1L (95450 upstream) : MYB (30967 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	7	22601849	22601850	+	5'Flank	INS	-	CCT	CCT	rs113123884		TCGA-CG-4462-01A-01D-1158-08	TCGA-CG-4462-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:22601849_22601850insCCT	uc003svi.1	+											Homo sapiens cDNA FLJ41967 fis, clone PUAEN2009348.																														---	---	---	---
DPY19L2P1	554236	broad.mit.edu	37	7	35204311	35204311	+	Intron	DEL	A	-	-			TCGA-CG-4462-01A-01D-1158-08	TCGA-CG-4462-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:35204311delA	uc003teq.1	-						DPY19L2P1_uc010kwz.1_5'Flank					RecName: Full=Protein dpy-19 homolog 2-like 2; AltName: Full=Dpy-19-like protein 2 pseudogene 2;												0																		---	---	---	---
Unknown	0	broad.mit.edu	37	7	57659470	57659471	+	IGR	DEL	TA	-	-	rs79867563	by1000genomes	TCGA-CG-4462-01A-01D-1158-08	TCGA-CG-4462-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:57659470_57659471delTA								ZNF716 (126205 upstream) : None (None downstream)																																			---	---	---	---
LOC100132832	100132832	broad.mit.edu	37	7	76669648	76669649	+	Intron	INS	-	ATCTC	ATCTC			TCGA-CG-4462-01A-01D-1158-08	TCGA-CG-4462-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:76669648_76669649insATCTC	uc003ufy.2	+						PMS2L11_uc011kgn.1_Intron	NR_028058				Homo sapiens cDNA FLJ59034 complete cds, moderately similar to Protein deltex-2.												0																		---	---	---	---
Unknown	0	broad.mit.edu	37	7	101963169	101963172	+	IGR	DEL	TCTT	-	-	rs142666100		TCGA-CG-4462-01A-01D-1158-08	TCGA-CG-4462-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:101963169_101963172delTCTT								SH2B2 (992 upstream) : SPDYE6 (23021 downstream)																																			---	---	---	---
MYOM2	9172	broad.mit.edu	37	8	2033648	2033649	+	Intron	DEL	CC	-	-	rs67333717		TCGA-CG-4462-01A-01D-1158-08	TCGA-CG-4462-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:2033648_2033649delCC	uc003wpx.3	+						MYOM2_uc011kwi.1_Intron	NM_003970	NP_003961			myomesin 2						muscle contraction	myosin filament	structural constituent of muscle			ovary(4)|central_nervous_system(1)|skin(1)	6		Ovarian(12;0.0572)|Colorectal(14;0.0844)|Hepatocellular(245;0.217)		BRCA - Breast invasive adenocarcinoma(11;1.85e-05)|Colorectal(4;0.0101)|READ - Rectum adenocarcinoma(4;0.148)|COAD - Colon adenocarcinoma(4;0.179)														---	---	---	---
KIF13B	23303	broad.mit.edu	37	8	29053762	29053762	+	Intron	DEL	A	-	-	rs146672114		TCGA-CG-4462-01A-01D-1158-08	TCGA-CG-4462-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:29053762delA	uc003xhh.3	-						KIF13B_uc003xhj.2_Intron|KIF13B_uc010lvf.1_Intron|KIF13B_uc003xhk.2_Intron	NM_015254	NP_056069			kinesin family member 13B						microtubule-based movement|protein targeting|signal transduction|T cell activation	cytoplasm|microtubule	ATP binding|microtubule motor activity|protein kinase binding				0		Ovarian(32;0.000536)		KIRC - Kidney renal clear cell carcinoma(542;0.152)|Kidney(114;0.181)														---	---	---	---
TAF2	6873	broad.mit.edu	37	8	120793175	120793175	+	Intron	DEL	A	-	-			TCGA-CG-4462-01A-01D-1158-08	TCGA-CG-4462-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:120793175delA	uc003you.2	-							NM_003184	NP_003175			TBP-associated factor 2						G2/M transition of mitotic cell cycle|positive regulation of transcription from RNA polymerase II promoter|transcription initiation from RNA polymerase II promoter	transcription factor TFIID complex|transcription factor TFTC complex	metallopeptidase activity|protein binding|transcription regulatory region DNA binding|zinc ion binding			large_intestine(2)|ovary(2)|kidney(1)|skin(1)	6	Lung NSC(37;9.35e-07)|Ovarian(258;0.011)|Hepatocellular(40;0.161)		STAD - Stomach adenocarcinoma(47;0.00185)															---	---	---	---
FER1L6	654463	broad.mit.edu	37	8	124982108	124982110	+	Intron	DEL	AAA	-	-			TCGA-CG-4462-01A-01D-1158-08	TCGA-CG-4462-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:124982108_124982110delAAA	uc003yqw.2	+							NM_001039112	NP_001034201			fer-1-like 6							integral to membrane				ovary(5)|skin(5)|central_nervous_system(1)	11	Lung NSC(37;4.1e-12)|Ovarian(258;0.00438)|all_neural(195;0.0741)		STAD - Stomach adenocarcinoma(47;0.00186)															---	---	---	---
COL22A1	169044	broad.mit.edu	37	8	139774852	139774853	+	Intron	INS	-	ACACACA	ACACACA	rs149851445	by1000genomes	TCGA-CG-4462-01A-01D-1158-08	TCGA-CG-4462-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:139774852_139774853insACACACA	uc003yvd.2	-						COL22A1_uc011ljo.1_5'Flank	NM_152888	NP_690848			collagen, type XXII, alpha 1						cell adhesion	collagen|cytoplasm	structural molecule activity			ovary(11)|pancreas(1)|skin(1)	13	all_epithelial(106;1.55e-12)|Lung NSC(106;1.67e-05)|all_lung(105;3.39e-05)|Ovarian(258;0.00672)|Acute lymphoblastic leukemia(118;0.155)		BRCA - Breast invasive adenocarcinoma(115;0.0517)												HNSCC(7;0.00092)			---	---	---	---
TRAPPC9	83696	broad.mit.edu	37	8	141282507	141282512	+	Intron	DEL	ATGGTG	-	-			TCGA-CG-4462-01A-01D-1158-08	TCGA-CG-4462-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:141282507_141282512delATGGTG	uc003yvj.2	-						TRAPPC9_uc003yvh.2_Intron|TRAPPC9_uc010mel.1_Intron|TRAPPC9_uc003yvi.1_Intron	NM_001160372	NP_001153844			trafficking protein particle complex 9 isoform						cell differentiation	endoplasmic reticulum|Golgi apparatus				skin(2)	2																		---	---	---	---
Unknown	0	broad.mit.edu	37	9	33662182	33662193	+	IGR	DEL	CTGTAGCCCCAA	-	-	rs113011049		TCGA-CG-4462-01A-01D-1158-08	TCGA-CG-4462-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr9:33662182_33662193delCTGTAGCCCCAA								ANXA2P2 (36652 upstream) : PTENP1 (11314 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	9	36409321	36409322	+	IGR	DEL	AA	-	-			TCGA-CG-4462-01A-01D-1158-08	TCGA-CG-4462-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr9:36409321_36409322delAA								RNF38 (8126 upstream) : MELK (163583 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	9	91131649	91131650	+	IGR	INS	-	TTCCTTCC	TTCCTTCC	rs62580715		TCGA-CG-4462-01A-01D-1158-08	TCGA-CG-4462-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr9:91131649_91131650insTTCCTTCC								SPIN1 (38029 upstream) : NXNL2 (18366 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	9	118904151	118904154	+	IGR	DEL	GGAA	-	-	rs137990063	by1000genomes	TCGA-CG-4462-01A-01D-1158-08	TCGA-CG-4462-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr9:118904151_118904154delGGAA								C9orf27 (216774 upstream) : PAPPA (11917 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	10	2712023	2712026	+	IGR	DEL	GGAA	-	-	rs67471590		TCGA-CG-4462-01A-01D-1158-08	TCGA-CG-4462-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:2712023_2712026delGGAA								ADARB2 (932305 upstream) : PFKP (397726 downstream)																																			---	---	---	---
LOC387647	387647	broad.mit.edu	37	10	29719487	29719502	+	Intron	DEL	CTTCCTTTCCTTCCTT	-	-	rs144346049	by1000genomes;by1000genomes	TCGA-CG-4462-01A-01D-1158-08	TCGA-CG-4462-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:29719487_29719502delCTTCCTTTCCTTCCTT	uc001iuo.1	+						LOC387647_uc001iup.2_Intron|LOC387647_uc001iuq.1_Intron					Homo sapiens cDNA FLJ31518 fis, clone NT2RI2000064.												0																		---	---	---	---
Unknown	0	broad.mit.edu	37	10	30450743	30450744	+	IGR	INS	-	T	T	rs148421389		TCGA-CG-4462-01A-01D-1158-08	TCGA-CG-4462-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:30450743_30450744insT								KIAA1462 (46323 upstream) : MTPAP (147987 downstream)																																			---	---	---	---
PCDH15	65217	broad.mit.edu	37	10	57298250	57298251	+	Intron	INS	-	T	T			TCGA-CG-4462-01A-01D-1158-08	TCGA-CG-4462-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:57298250_57298251insT	uc001jjv.1	-							NM_001142770	NP_001136242			protocadherin 15 isoform CD2-2 precursor						equilibrioception|homophilic cell adhesion|photoreceptor cell maintenance|sensory perception of sound	extracellular region|extracellular space|integral to membrane|photoreceptor outer segment|plasma membrane|stereocilium|synapse	calcium ion binding			pancreas(5)|ovary(4)|upper_aerodigestive_tract(2)|skin(2)	13		Melanoma(3;0.117)|Lung SC(717;0.238)													HNSCC(58;0.16)			---	---	---	---
TET1	80312	broad.mit.edu	37	10	70371619	70371620	+	Intron	DEL	GA	-	-			TCGA-CG-4462-01A-01D-1158-08	TCGA-CG-4462-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:70371619_70371620delGA	uc001jok.3	+							NM_030625	NP_085128			CXXC finger 6						DNA demethylation|inner cell mass cell differentiation|negative regulation of methylation-dependent chromatin silencing|stem cell maintenance		iron ion binding|methylcytosine dioxygenase activity|oxidoreductase activity, acting on single donors with incorporation of molecular oxygen, incorporation of two atoms of oxygen|structure-specific DNA binding|zinc ion binding			ovary(5)|lung(2)|prostate(1)|breast(1)	9																		---	---	---	---
LRP4	4038	broad.mit.edu	37	11	46912172	46912172	+	Intron	DEL	T	-	-			TCGA-CG-4462-01A-01D-1158-08	TCGA-CG-4462-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:46912172delT	uc001ndn.3	-							NM_002334	NP_002325			low density lipoprotein receptor-related protein						endocytosis|negative regulation of canonical Wnt receptor signaling pathway|Wnt receptor signaling pathway	integral to membrane	calcium ion binding|receptor activity			skin(2)|upper_aerodigestive_tract(1)|ovary(1)	4				Lung(87;0.159)														---	---	---	---
OR9G9	504191	broad.mit.edu	37	11	56467698	56467701	+	5'Flank	DEL	TGAT	-	-	rs33975577		TCGA-CG-4462-01A-01D-1158-08	TCGA-CG-4462-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:56467698_56467701delTGAT	uc010rjn.1	+							NM_001013358	NP_001013376			olfactory receptor, family 9, subfamily G,						sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity				0																		---	---	---	---
CAPN1	823	broad.mit.edu	37	11	64954882	64954882	+	Intron	DEL	C	-	-	rs3832790		TCGA-CG-4462-01A-01D-1158-08	TCGA-CG-4462-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:64954882delC	uc009yqd.1	+						CAPN1_uc001odf.1_Intron|CAPN1_uc001odg.1_Intron|CAPN1_uc010roa.1_Intron	NM_005186	NP_005177			calpain 1, large subunit						positive regulation of cell proliferation|proteolysis	cytoplasm|plasma membrane	calcium ion binding|calcium-dependent cysteine-type endopeptidase activity|protein binding			ovary(1)	1		Lung NSC(402;0.094)|Melanoma(852;0.16)		Lung(977;0.00168)|LUSC - Lung squamous cell carcinoma(976;0.00813)														---	---	---	---
BCL2L14	79370	broad.mit.edu	37	12	12243581	12243581	+	Intron	DEL	A	-	-			TCGA-CG-4462-01A-01D-1158-08	TCGA-CG-4462-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:12243581delA	uc001rac.2	+						ETV6_uc001raa.1_Intron|BCL2L14_uc001raf.1_Intron|BCL2L14_uc001rad.2_Intron|BCL2L14_uc001rae.2_Intron	NM_138723	NP_620049			BCL2-like 14 isoform 1						apoptosis|regulation of apoptosis	cytosol|endomembrane system|intracellular organelle|membrane	protein binding			skin(1)	1		Prostate(47;0.0872)		BRCA - Breast invasive adenocarcinoma(232;0.154)														---	---	---	---
Unknown	0	broad.mit.edu	37	12	53535721	53535722	+	IGR	INS	-	A	A	rs141513257		TCGA-CG-4462-01A-01D-1158-08	TCGA-CG-4462-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:53535721_53535722insA								SOAT2 (17399 upstream) : CSAD (15726 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	12	101892566	101892567	+	IGR	DEL	GT	-	-	rs71648254		TCGA-CG-4462-01A-01D-1158-08	TCGA-CG-4462-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:101892566_101892567delGT								SPIC (11792 upstream) : MYBPC1 (96180 downstream)																																			---	---	---	---
ATXN2	6311	broad.mit.edu	37	12	111951477	111951477	+	Intron	DEL	A	-	-			TCGA-CG-4462-01A-01D-1158-08	TCGA-CG-4462-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:111951477delA	uc001tsj.2	-						ATXN2_uc001tsh.2_Intron|ATXN2_uc001tsi.2_Intron|ATXN2_uc001tsk.2_Intron|ATXN2_uc001tsm.1_Intron	NM_002973	NP_002964			ataxin 2						cell death|cytoplasmic mRNA processing body assembly|regulation of translation|RNA metabolic process|RNA transport|stress granule assembly	nucleus|perinuclear region of cytoplasm|polysome|stress granule|trans-Golgi network	protein C-terminus binding|RNA binding			ovary(1)|breast(1)	2																		---	---	---	---
Unknown	0	broad.mit.edu	37	12	120025780	120025784	+	Intron	DEL	AAAAA	-	-			TCGA-CG-4462-01A-01D-1158-08	TCGA-CG-4462-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:120025780_120025784delAAAAA	uc001txf.2	-											Homo sapiens full length insert cDNA clone ZD48A05.																														---	---	---	---
DLGAP5	9787	broad.mit.edu	37	14	55655498	55655498	+	Intron	DEL	A	-	-	rs34953077		TCGA-CG-4462-01A-01D-1158-08	TCGA-CG-4462-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr14:55655498delA	uc001xbs.2	-						DLGAP5_uc001xbt.2_Intron	NM_014750	NP_055565			discs large homolog 7 isoform a						cell proliferation|cell-cell signaling|mitotic chromosome movement towards spindle pole|positive regulation of mitotic metaphase/anaphase transition	nucleus|spindle pole centrosome	phosphoprotein phosphatase activity|protein binding			ovary(1)|skin(1)	2																		---	---	---	---
Unknown	0	broad.mit.edu	37	14	95348897	95348900	+	IGR	DEL	ACAG	-	-	rs61613116		TCGA-CG-4462-01A-01D-1158-08	TCGA-CG-4462-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr14:95348897_95348900delACAG								GSC (112398 upstream) : DICER1 (203665 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	14	97980586	97980593	+	IGR	DEL	TTCCTTTT	-	-	rs71883285	by1000genomes	TCGA-CG-4462-01A-01D-1158-08	TCGA-CG-4462-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr14:97980586_97980593delTTCCTTTT								VRK1 (632636 upstream) : C14orf64 (411354 downstream)																																			---	---	---	---
WDR61	80349	broad.mit.edu	37	15	78585309	78585309	+	Intron	DEL	T	-	-	rs71947790		TCGA-CG-4462-01A-01D-1158-08	TCGA-CG-4462-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr15:78585309delT	uc002bdn.2	-						WDR61_uc002bdo.2_Intron|WDR61_uc010umz.1_Intron|WDR61_uc010una.1_Intron	NM_025234	NP_079510			WD repeat domain 61								protein binding			ovary(1)|skin(1)	2																		---	---	---	---
PSMA4	5685	broad.mit.edu	37	15	78838791	78838791	+	Intron	DEL	A	-	-	rs11350747		TCGA-CG-4462-01A-01D-1158-08	TCGA-CG-4462-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr15:78838791delA	uc002bdu.3	+						PSMA4_uc010blf.2_Intron|PSMA4_uc002bdv.3_Intron|PSMA4_uc002bdw.3_Intron|PSMA4_uc002bdx.3_Intron	NM_002789	NP_002780			proteasome alpha 4 subunit isoform 1						anaphase-promoting complex-dependent proteasomal ubiquitin-dependent protein catabolic process|apoptosis|DNA damage response, signal transduction by p53 class mediator resulting in cell cycle arrest|G1/S transition of mitotic cell cycle|interspecies interaction between organisms|M/G1 transition of mitotic cell cycle|mRNA metabolic process|negative regulation of ubiquitin-protein ligase activity involved in mitotic cell cycle|positive regulation of ubiquitin-protein ligase activity involved in mitotic cell cycle|regulation of apoptosis|regulation of cellular amino acid metabolic process|S phase of mitotic cell cycle|viral reproduction	cytoplasm|nucleus|proteasome core complex, alpha-subunit complex	identical protein binding|threonine-type endopeptidase activity				0																		---	---	---	---
Unknown	0	broad.mit.edu	37	15	102293062	102293064	+	Intron	DEL	CTC	-	-	rs62026972		TCGA-CG-4462-01A-01D-1158-08	TCGA-CG-4462-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr15:102293062_102293064delCTC	uc010usj.1	+						uc002bxo.2_5'Flank|uc002bxp.3_RNA|uc002bxq.2_5'Flank|uc002bxt.2_5'Flank|uc002bxz.3_5'Flank|uc002byd.2_5'Flank|uc002bye.2_5'Flank|uc002byf.1_5'Flank|uc002byg.2_5'Flank|uc002byi.2_5'Flank|uc002byk.2_5'Flank|uc002bym.2_5'Flank|uc002byn.2_5'Flank|uc010usm.1_5'Flank|uc002byr.2_5'Flank|uc002bys.2_5'Flank					RecName: Full=Uncharacterized protein C15orf51.; Flags: Fragment;																														---	---	---	---
Unknown	0	broad.mit.edu	37	15	102299886	102299887	+	5'Flank	INS	-	G	G			TCGA-CG-4462-01A-01D-1158-08	TCGA-CG-4462-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr15:102299886_102299887insG	uc002bzh.1	-						uc002bzk.2_5'Flank|uc002bzn.2_5'Flank|uc010uso.1_5'Flank|uc002bzs.2_5'Flank|uc010usv.1_5'Flank|uc002cal.2_5'Flank|uc002cam.2_5'Flank|uc010usx.1_5'Flank|uc002cao.2_5'Flank|uc002cap.2_5'Flank|uc002caq.2_5'Flank|uc010usz.1_5'Flank|uc010uta.1_5'Flank|uc002cas.2_5'Flank|uc002cat.1_5'Flank|uc002cau.2_5'Flank|uc010utb.1_5'Flank|uc002cav.2_5'Flank|uc002caw.2_5'Flank|uc002cax.2_5'Flank|uc010utc.1_5'Flank|uc002cay.2_5'Flank|uc002cbb.2_5'Flank|uc002cbc.1_5'Flank|uc002cbd.2_5'Flank|uc002cbe.2_5'Flank|uc002cbg.2_5'Flank|uc002cbh.2_5'Flank|uc002cbi.2_5'Flank|uc002cbk.2_5'Flank|uc002cbl.2_5'Flank|uc010utd.1_5'Flank					DQ575740																														---	---	---	---
ARHGAP17	55114	broad.mit.edu	37	16	24990188	24990188	+	Intron	DEL	A	-	-	rs71907404		TCGA-CG-4462-01A-01D-1158-08	TCGA-CG-4462-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr16:24990188delA	uc002dnb.2	-						ARHGAP17_uc002dnc.2_Intron|ARHGAP17_uc010vcf.1_Intron|ARHGAP17_uc002dng.1_Intron	NM_001006634	NP_001006635			nadrin isoform 1						regulation of small GTPase mediated signal transduction|small GTPase mediated signal transduction	cytosol|tight junction	GTPase activator activity|SH3 domain binding				0				GBM - Glioblastoma multiforme(48;0.0407)														---	---	---	---
PLCG2	5336	broad.mit.edu	37	16	81973807	81973808	+	Intron	INS	-	TGCA	TGCA	rs141767011	by1000genomes	TCGA-CG-4462-01A-01D-1158-08	TCGA-CG-4462-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr16:81973807_81973808insTGCA	uc002fgt.2	+							NM_002661	NP_002652			phospholipase C, gamma 2						intracellular signal transduction|phospholipid catabolic process|platelet activation	plasma membrane	phosphatidylinositol phospholipase C activity|protein binding|signal transducer activity			large_intestine(4)|lung(2)|ovary(1)|skin(1)	8																		---	---	---	---
Unknown	0	broad.mit.edu	37	17	18353637	18353638	+	IGR	INS	-	C	C			TCGA-CG-4462-01A-01D-1158-08	TCGA-CG-4462-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:18353637_18353638insC								LOC339240 (24991 upstream) : LGALS9C (26461 downstream)																																			---	---	---	---
Unknown	0	broad.mit.edu	37	17	35210342	35210343	+	IGR	INS	-	GG	GG			TCGA-CG-4462-01A-01D-1158-08	TCGA-CG-4462-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:35210342_35210343insGG								MRM1 (244936 upstream) : LHX1 (84156 downstream)																																			---	---	---	---
TEX14	56155	broad.mit.edu	37	17	56663598	56663599	+	Intron	INS	-	T	T	rs143677617	by1000genomes	TCGA-CG-4462-01A-01D-1158-08	TCGA-CG-4462-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:56663598_56663599insT	uc010dcz.1	-						TEX14_uc002iwr.1_Intron|TEX14_uc002iws.1_Intron|TEX14_uc010dda.1_Intron	NM_198393	NP_938207			testis expressed sequence 14 isoform a							cytoplasm	ATP binding|protein kinase activity			stomach(4)|lung(3)|breast(3)|ovary(3)|upper_aerodigestive_tract(1)|large_intestine(1)|skin(1)|pancreas(1)	17	Medulloblastoma(34;0.127)|all_neural(34;0.237)																	---	---	---	---
BAIAP2	10458	broad.mit.edu	37	17	79090262	79090263	+	3'UTR	INS	-	GCCCCA	GCCCCA	rs148172788	by1000genomes	TCGA-CG-4462-01A-01D-1158-08	TCGA-CG-4462-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:79090262_79090263insGCCCCA	uc002jzg.2	+	15					BAIAP2_uc002jzd.2_3'UTR|BAIAP2_uc002jzf.2_3'UTR|BAIAP2_uc002jze.2_3'UTR|BAIAP2_uc010wuh.1_3'UTR|BAIAP2_uc002jzh.2_3'UTR	NM_017451	NP_059345			BAI1-associated protein 2 isoform 2						axonogenesis|filopodium assembly|insulin receptor signaling pathway|regulation of actin cytoskeleton organization|response to bacterium	cell junction|cytoskeleton|cytosol|filopodium|nucleus|ruffle	cytoskeletal adaptor activity|proline-rich region binding|protein C-terminus binding|SH3 domain binding				0	all_neural(118;0.101)		BRCA - Breast invasive adenocarcinoma(99;0.0228)|OV - Ovarian serous cystadenocarcinoma(97;0.0524)															---	---	---	---
DLGAP1	9229	broad.mit.edu	37	18	3741135	3741136	+	Intron	INS	-	C	C			TCGA-CG-4462-01A-01D-1158-08	TCGA-CG-4462-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr18:3741135_3741136insC	uc002kmf.2	-						DLGAP1_uc010wyz.1_Intron|DLGAP1_uc002kme.1_Intron|DLGAP1_uc010dkn.2_Intron|DLGAP1_uc010wyw.1_Intron|DLGAP1_uc010wyx.1_Intron|DLGAP1_uc010wyy.1_Intron|DLGAP1_uc002kmg.2_Intron|DLGAP1_uc002kmk.2_Intron	NM_004746	NP_004737			discs large homolog-associated protein 1 isoform						synaptic transmission	cell junction|postsynaptic density|postsynaptic membrane				ovary(2)|pancreas(1)|skin(1)	4		Colorectal(8;0.0257)																---	---	---	---
PLIN3	10226	broad.mit.edu	37	19	4864169	4864170	+	Intron	INS	-	T	T			TCGA-CG-4462-01A-01D-1158-08	TCGA-CG-4462-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:4864169_4864170insT	uc002mbj.2	-						PLIN3_uc002mbk.2_Intron|PLIN3_uc002mbl.3_Intron	NM_005817	NP_005808			mannose 6 phosphate receptor binding protein 1						vesicle-mediated transport	endosome membrane|Golgi apparatus|lipid particle	protein binding				0					Galsulfase(DB01279)|Idursulfase(DB01271)													---	---	---	---
INSR	3643	broad.mit.edu	37	19	7174851	7174852	+	Intron	DEL	TG	-	-			TCGA-CG-4462-01A-01D-1158-08	TCGA-CG-4462-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:7174851_7174852delTG	uc002mgd.1	-						INSR_uc002mge.1_Intron|INSR_uc002mgf.2_Intron	NM_000208	NP_000199			insulin receptor isoform Long precursor						activation of MAPK activity|activation of protein kinase B activity|carbohydrate metabolic process|fibroblast growth factor receptor signaling pathway|G-protein coupled receptor protein signaling pathway|glucose homeostasis|heart morphogenesis|peptidyl-tyrosine phosphorylation|positive regulation of cell migration|positive regulation of cell proliferation|positive regulation of developmental growth|positive regulation of DNA replication|positive regulation of glucose import|positive regulation of glycogen biosynthetic process|positive regulation of glycolysis|positive regulation of MAPKKK cascade|positive regulation of mitosis|positive regulation of nitric oxide biosynthetic process|positive regulation of protein kinase B signaling cascade|positive regulation of protein phosphorylation|positive regulation of respiratory burst|protein autophosphorylation|protein heterotetramerization|regulation of embryonic development|regulation of transcription, DNA-dependent|transformation of host cell by virus	caveola|endosome membrane|insulin receptor complex|microsome	ATP binding|GTP binding|insulin binding|insulin receptor activity|insulin receptor substrate binding|insulin-like growth factor I binding|insulin-like growth factor II binding|insulin-like growth factor receptor binding|metal ion binding|phosphatidylinositol 3-kinase binding|PTB domain binding|receptor signaling protein tyrosine kinase activity|SH2 domain binding			ovary(4)|lung(3)|central_nervous_system(2)|large_intestine(1)|stomach(1)|skin(1)	12					Insulin Glargine recombinant(DB00047)|Insulin recombinant(DB00030)|Insulin, porcine(DB00071)													---	---	---	---
MAN2B1	4125	broad.mit.edu	37	19	12767170	12767171	+	Intron	INS	-	A	A			TCGA-CG-4462-01A-01D-1158-08	TCGA-CG-4462-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:12767170_12767171insA	uc002mub.2	-						MAN2B1_uc010dyv.1_Intron	NM_000528	NP_000519			mannosidase, alpha, class 2B, member 1						protein deglycosylation	lysosome	alpha-mannosidase activity|zinc ion binding			ovary(4)|central_nervous_system(2)	6																		---	---	---	---
CLC	1178	broad.mit.edu	37	19	40226844	40226844	+	Intron	DEL	G	-	-	rs367156	by1000genomes	TCGA-CG-4462-01A-01D-1158-08	TCGA-CG-4462-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:40226844delG	uc002omh.2	-							NM_001828	NP_001819			Charcot-Leyden crystal protein						lipid catabolic process|multicellular organismal development		carboxylesterase activity|lysophospholipase activity|sugar binding				0	all_cancers(60;2.99e-06)|all_lung(34;4.7e-08)|Lung NSC(34;5.46e-08)|Ovarian(47;0.06)	Renal(1328;0.000147)|Hepatocellular(1079;0.0202)|Myeloproliferative disorder(2;0.0255)	Epithelial(26;6.43e-25)|OV - Ovarian serous cystadenocarcinoma(5;1.07e-24)|all cancers(26;8.38e-23)	GBM - Glioblastoma multiforme(1328;4.97e-06)|STAD - Stomach adenocarcinoma(1328;0.00655)														---	---	---	---
ISOC2	79763	broad.mit.edu	37	19	55964546	55964547	+	3'UTR	INS	-	C	C	rs139098245	by1000genomes	TCGA-CG-4462-01A-01D-1158-08	TCGA-CG-4462-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:55964546_55964547insC	uc002qlb.2	-	6					ISOC2_uc002qla.2_3'UTR|ISOC2_uc002qlc.2_3'UTR	NM_001136201	NP_001129673			isochorismatase domain containing 2 isoform 1						protein destabilization	mitochondrion|nucleus	catalytic activity|protein binding			ovary(1)	1	Breast(117;0.155)		BRCA - Breast invasive adenocarcinoma(297;0.18)|LUSC - Lung squamous cell carcinoma(43;0.193)	GBM - Glioblastoma multiforme(193;0.0535)														---	---	---	---
SLC4A11	83959	broad.mit.edu	37	20	3217988	3218006	+	Intron	DEL	ATGGGCAGCCTGCCCTCTC	-	-	rs6037508	by1000genomes;by1000genomes;by1000genomes	TCGA-CG-4462-01A-01D-1158-08	TCGA-CG-4462-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr20:3217988_3218006delATGGGCAGCCTGCCCTCTC	uc002wig.2	-						SLC4A11_uc010zqe.1_Intron|SLC4A11_uc002wih.2_Intron|SLC4A11_uc010zqf.1_Intron	NM_032034	NP_114423			solute carrier family 4 member 11						cellular cation homeostasis|fluid transport|phosphoenolpyruvate-dependent sugar phosphotransferase system	basolateral plasma membrane|integral to membrane	bicarbonate transmembrane transporter activity|borate transmembrane transporter activity|hydrogen ion channel activity|inorganic anion exchanger activity|sodium channel activity|sugar:hydrogen symporter activity			ovary(1)	1																		---	---	---	---
Unknown	0	broad.mit.edu	37	20	10927472	10927475	+	IGR	DEL	TTCC	-	-			TCGA-CG-4462-01A-01D-1158-08	TCGA-CG-4462-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr20:10927472_10927475delTTCC								JAG1 (272778 upstream) : BTBD3 (944002 downstream)																																			---	---	---	---
C21orf81	391267	broad.mit.edu	37	21	15347257	15347258	+	Intron	INS	-	A	A	rs80199214		TCGA-CG-4462-01A-01D-1158-08	TCGA-CG-4462-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr21:15347257_15347258insA	uc002yji.2	-							NR_027270				Homo sapiens C21orf81 protein (C21orf81) mRNA, complete cds.												0																		---	---	---	---
PCNT	5116	broad.mit.edu	37	21	47787226	47787226	+	Intron	DEL	T	-	-			TCGA-CG-4462-01A-01D-1158-08	TCGA-CG-4462-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr21:47787226delT	uc002zji.3	+						PCNT_uc002zjj.2_Intron	NM_006031	NP_006022			pericentrin						cilium assembly|G2/M transition of mitotic cell cycle	cytosol|microtubule	calmodulin binding			ovary(4)|breast(2)|pancreas(2)	8	Breast(49;0.112)																	---	---	---	---
LZTR1	8216	broad.mit.edu	37	22	21341677	21341678	+	Intron	INS	-	A	A	rs149184314		TCGA-CG-4462-01A-01D-1158-08	TCGA-CG-4462-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr22:21341677_21341678insA	uc002zto.2	+						LZTR1_uc002ztn.2_Intron|LZTR1_uc011ahy.1_Intron|LZTR1_uc010gsr.1_5'Flank	NM_006767	NP_006758			leucine-zipper-like transcription regulator 1						anatomical structure morphogenesis		sequence-specific DNA binding transcription factor activity			ovary(2)|lung(2)	4	all_cancers(11;1.83e-25)|all_epithelial(7;9.19e-23)|Lung NSC(8;3.06e-15)|all_lung(8;5.05e-14)|Melanoma(16;0.000465)|Ovarian(15;0.0028)|Colorectal(54;0.0332)|all_neural(72;0.142)	Lung SC(17;0.0262)	LUSC - Lung squamous cell carcinoma(15;0.000204)|Lung(15;0.00494)|Epithelial(17;0.195)															---	---	---	---
MYO18B	84700	broad.mit.edu	37	22	26402276	26402277	+	Intron	INS	-	T	T			TCGA-CG-4462-01A-01D-1158-08	TCGA-CG-4462-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr22:26402276_26402277insT	uc003abz.1	+						MYO18B_uc003aca.1_Intron|MYO18B_uc010guy.1_Intron|MYO18B_uc010guz.1_Intron|MYO18B_uc011aka.1_Intron|MYO18B_uc011akb.1_Intron|MYO18B_uc010gva.1_Intron	NM_032608	NP_115997			myosin XVIIIB							nucleus|sarcomere|unconventional myosin complex	actin binding|ATP binding|motor activity			ovary(5)|central_nervous_system(3)|large_intestine(2)|breast(2)	12																		---	---	---	---
C22orf31	25770	broad.mit.edu	37	22	29456183	29456183	+	Intron	DEL	T	-	-	rs71910260		TCGA-CG-4462-01A-01D-1158-08	TCGA-CG-4462-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr22:29456183delT	uc003aej.1	-							NM_015370	NP_056185			hypothetical protein LOC25770												0																		---	---	---	---
TAB1	10454	broad.mit.edu	37	22	39815792	39815792	+	Intron	DEL	A	-	-			TCGA-CG-4462-01A-01D-1158-08	TCGA-CG-4462-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr22:39815792delA	uc003axt.2	+						TAB1_uc003axr.2_Intron|TAB1_uc011aok.1_Intron|TAB1_uc003axu.1_Intron	NM_006116	NP_006107			mitogen-activated protein kinase kinase kinase 7						activation of MAPK activity|activation of MAPKKK activity|I-kappaB kinase/NF-kappaB cascade|innate immune response|JNK cascade|MyD88-dependent toll-like receptor signaling pathway|MyD88-independent toll-like receptor signaling pathway|positive regulation of NF-kappaB transcription factor activity|stress-activated MAPK cascade|Toll signaling pathway|toll-like receptor 1 signaling pathway|toll-like receptor 2 signaling pathway|toll-like receptor 3 signaling pathway|toll-like receptor 4 signaling pathway	cytosol|endosome membrane	catalytic activity|protein binding			breast(1)	1																		---	---	---	---
Unknown	0	broad.mit.edu	37	22	49246204	49246206	+	IGR	DEL	GAG	-	-			TCGA-CG-4462-01A-01D-1158-08	TCGA-CG-4462-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr22:49246204_49246206delGAG								FAM19A5 (98462 upstream) : C22orf34 (561970 downstream)																																			---	---	---	---
FRMPD4	9758	broad.mit.edu	37	X	12728253	12728260	+	Intron	DEL	AGATAGAC	-	-			TCGA-CG-4462-01A-01D-1158-08	TCGA-CG-4462-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chrX:12728253_12728260delAGATAGAC	uc004cuz.1	+						FRMPD4_uc011mij.1_Intron	NM_014728	NP_055543			FERM and PDZ domain containing 4						positive regulation of synapse structural plasticity	cytoskeleton|dendritic spine	phosphatidylinositol-4,5-bisphosphate binding|protein binding			central_nervous_system(5)|ovary(3)|skin(2)|large_intestine(1)|lung(1)|pancreas(1)	13																		---	---	---	---
PLEKHG5	57449	broad.mit.edu	37	1	6530360	6530360	+	Missense_Mutation	SNP	G	A	A			TCGA-CG-4462-01A-01D-1158-08	TCGA-CG-4462-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:6530360G>A	uc001ano.1	-	17	2005	c.1904C>T	c.(1903-1905)CCG>CTG	p.P635L	PLEKHG5_uc001ann.1_Missense_Mutation_p.P616L|PLEKHG5_uc001anq.1_Missense_Mutation_p.P656L|PLEKHG5_uc001anp.1_Missense_Mutation_p.P656L|PLEKHG5_uc001anj.1_Missense_Mutation_p.P140L|PLEKHG5_uc009vma.1_Missense_Mutation_p.P419L|PLEKHG5_uc010nzr.1_Missense_Mutation_p.P648L|PLEKHG5_uc001ank.1_Missense_Mutation_p.P579L|PLEKHG5_uc009vmb.1_Missense_Mutation_p.P579L|PLEKHG5_uc001anl.1_Missense_Mutation_p.P579L|PLEKHG5_uc001anm.1_Missense_Mutation_p.P579L|PLEKHG5_uc001anr.1_5'Flank	NM_001042663	NP_001036128	O94827	PKHG5_HUMAN	pleckstrin homology domain containing family G	635					apoptosis|induction of apoptosis by extracellular signals|nerve growth factor receptor signaling pathway|positive regulation of I-kappaB kinase/NF-kappaB cascade|regulation of Rho protein signal transduction|small GTPase mediated signal transduction	cytosol|perinuclear region of cytoplasm	Rho guanyl-nucleotide exchange factor activity|signal transducer activity			liver(1)	1	Ovarian(185;0.02)|all_lung(157;0.154)	all_cancers(23;1.7e-35)|all_epithelial(116;2.78e-22)|all_lung(118;7.57e-07)|Lung NSC(185;4.26e-06)|Colorectal(325;4.47e-05)|all_hematologic(16;0.00014)|Breast(487;0.000688)|Renal(390;0.0007)|Hepatocellular(190;0.00308)|Myeloproliferative disorder(586;0.0255)|Ovarian(437;0.0448)		Epithelial(90;5.51e-35)|GBM - Glioblastoma multiforme(13;3.57e-27)|Colorectal(212;6.23e-08)|COAD - Colon adenocarcinoma(227;1.33e-05)|Kidney(185;4.89e-05)|KIRC - Kidney renal clear cell carcinoma(229;0.000894)|BRCA - Breast invasive adenocarcinoma(365;0.00107)|STAD - Stomach adenocarcinoma(132;0.00159)|READ - Rectum adenocarcinoma(331;0.0419)														---	---	---	---
LDLRAD2	401944	broad.mit.edu	37	1	22141037	22141037	+	Missense_Mutation	SNP	C	T	T			TCGA-CG-4462-01A-01D-1158-08	TCGA-CG-4462-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:22141037C>T	uc001bfg.1	+	2	419	c.232C>T	c.(232-234)CGC>TGC	p.R78C		NM_001013693	NP_001013715	Q5SZI1	LRAD2_HUMAN	low density lipoprotein receptor class A domain	78	Extracellular (Potential).					integral to membrane	receptor activity				0		Colorectal(325;0.000147)|Renal(390;0.000734)|Lung NSC(340;0.00166)|all_lung(284;0.00172)|Breast(348;0.012)|Myeloproliferative disorder(586;0.0393)|Ovarian(437;0.0427)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0416)|OV - Ovarian serous cystadenocarcinoma(117;5.2e-26)|COAD - Colon adenocarcinoma(152;1.13e-05)|GBM - Glioblastoma multiforme(114;1.36e-05)|BRCA - Breast invasive adenocarcinoma(304;0.000544)|KIRC - Kidney renal clear cell carcinoma(1967;0.00598)|STAD - Stomach adenocarcinoma(196;0.00644)|READ - Rectum adenocarcinoma(331;0.0649)|Lung(427;0.197)														---	---	---	---
TRIM62	55223	broad.mit.edu	37	1	33612785	33612785	+	Missense_Mutation	SNP	C	T	T			TCGA-CG-4462-01A-01D-1158-08	TCGA-CG-4462-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:33612785C>T	uc001bxb.2	-	5	2059	c.1421G>A	c.(1420-1422)CGC>CAC	p.R474H		NM_018207	NP_060677	Q9BVG3	TRI62_HUMAN	tripartite motif-containing 62	474	B30.2/SPRY.			R -> L (in Ref. 1; BAA91792).		intracellular	zinc ion binding				0		Myeloproliferative disorder(586;0.0393)																---	---	---	---
CSMD2	114784	broad.mit.edu	37	1	34312507	34312507	+	Silent	SNP	G	A	A	rs143306375		TCGA-CG-4462-01A-01D-1158-08	TCGA-CG-4462-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:34312507G>A	uc001bxn.1	-	6	920	c.891C>T	c.(889-891)CGC>CGT	p.R297R	CSMD2_uc001bxm.1_Silent_p.R337R	NM_052896	NP_443128	Q7Z408	CSMD2_HUMAN	CUB and Sushi multiple domains 2	297	CUB 2.|Extracellular (Potential).					integral to membrane|plasma membrane	protein binding			ovary(6)|skin(5)|pancreas(1)	12		Myeloproliferative disorder(586;0.0294)|all_neural(195;0.249)																---	---	---	---
KIF2C	11004	broad.mit.edu	37	1	45226090	45226090	+	Silent	SNP	T	C	C			TCGA-CG-4462-01A-01D-1158-08	TCGA-CG-4462-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:45226090T>C	uc001cmg.3	+	15	1621	c.1506T>C	c.(1504-1506)ACT>ACC	p.T502T	KIF2C_uc010olb.1_Silent_p.T461T|KIF2C_uc010olc.1_Silent_p.T389T|KIF2C_uc001cmh.3_Silent_p.T448T	NM_006845	NP_006836	Q99661	KIF2C_HUMAN	kinesin family member 2C	502	Kinesin-motor.				blood coagulation|cell division|cell proliferation|chromosome segregation|establishment or maintenance of microtubule cytoskeleton polarity|microtubule depolymerization|microtubule-based movement|mitotic prometaphase|regulation of chromosome segregation	condensed chromosome kinetochore|cytosol|kinesin complex|microtubule|nucleus	ATP binding|centromeric DNA binding|microtubule motor activity|microtubule plus-end binding			ovary(1)	1	Acute lymphoblastic leukemia(166;0.155)																	---	---	---	---
LHX8	431707	broad.mit.edu	37	1	75614308	75614308	+	Missense_Mutation	SNP	G	C	C			TCGA-CG-4462-01A-01D-1158-08	TCGA-CG-4462-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:75614308G>C	uc001dgo.2	+	8	1415	c.751G>C	c.(751-753)GAT>CAT	p.D251H	LHX8_uc001dgq.2_Missense_Mutation_p.D190H	NM_001001933	NP_001001933	Q68G74	LHX8_HUMAN	LIM homeobox 8	251	Homeobox.					nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(3)	3																		---	---	---	---
ATXN7L2	127002	broad.mit.edu	37	1	110028719	110028719	+	Silent	SNP	G	A	A			TCGA-CG-4462-01A-01D-1158-08	TCGA-CG-4462-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:110028719G>A	uc001dxr.2	+	2	183	c.168G>A	c.(166-168)TTG>TTA	p.L56L	ATXN7L2_uc001dxs.2_5'Flank	NM_153340	NP_699171	Q5T6C5	AT7L2_HUMAN	ataxin 7-like 2	56										ovary(2)	2		all_epithelial(167;0.00197)|all_lung(203;0.00291)|Lung NSC(277;0.00453)		Colorectal(144;0.0129)|Lung(183;0.0426)|Epithelial(280;0.0675)|READ - Rectum adenocarcinoma(129;0.0693)|all cancers(265;0.071)|LUSC - Lung squamous cell carcinoma(189;0.228)														---	---	---	---
SPTA1	6708	broad.mit.edu	37	1	158589036	158589036	+	Missense_Mutation	SNP	A	G	G			TCGA-CG-4462-01A-01D-1158-08	TCGA-CG-4462-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:158589036A>G	uc001fst.1	-	45	6705	c.6506T>C	c.(6505-6507)TTC>TCC	p.F2169S		NM_003126	NP_003117	P02549	SPTA1_HUMAN	spectrin, alpha, erythrocytic 1	2169	Spectrin 21.				actin filament capping|actin filament organization|axon guidance|regulation of cell shape	cytosol|intrinsic to internal side of plasma membrane|spectrin|spectrin-associated cytoskeleton	actin filament binding|calcium ion binding|structural constituent of cytoskeleton			ovary(4)|skin(2)|upper_aerodigestive_tract(1)|breast(1)	8	all_hematologic(112;0.0378)																	---	---	---	---
FAM5C	339479	broad.mit.edu	37	1	190195436	190195436	+	Missense_Mutation	SNP	A	C	C			TCGA-CG-4462-01A-01D-1158-08	TCGA-CG-4462-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:190195436A>C	uc001gse.1	-	6	969	c.737T>G	c.(736-738)CTT>CGT	p.L246R	FAM5C_uc010pot.1_Missense_Mutation_p.L144R	NM_199051	NP_950252	Q76B58	FAM5C_HUMAN	family with sequence similarity 5, member C	246						extracellular region				lung(2)|ovary(1)|kidney(1)|skin(1)	5	Prostate(682;0.198)																	---	---	---	---
ACTN2	88	broad.mit.edu	37	1	236881196	236881196	+	Silent	SNP	C	T	T			TCGA-CG-4462-01A-01D-1158-08	TCGA-CG-4462-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:236881196C>T	uc001hyf.2	+	2	369	c.165C>T	c.(163-165)GCC>GCT	p.A55A	ACTN2_uc001hyg.2_5'UTR|ACTN2_uc009xgi.1_Silent_p.A55A	NM_001103	NP_001094	P35609	ACTN2_HUMAN	actinin, alpha 2	55	CH 1.|Actin-binding.				focal adhesion assembly|microspike assembly|muscle filament sliding|platelet activation|platelet degranulation|protein homotetramerization|regulation of apoptosis|synaptic transmission	actin filament|cytosol|dendritic spine|extracellular region|filopodium|focal adhesion|nucleolus|platelet alpha granule lumen|pseudopodium|Z disc	actin binding|calcium ion binding|FATZ 1 binding|identical protein binding|integrin binding|protein dimerization activity|structural constituent of muscle|titin binding|titin Z domain binding|ZASP binding			ovary(4)|skin(1)	5	Ovarian(103;0.0634)|Breast(184;0.221)	all_cancers(173;0.00661)|Acute lymphoblastic leukemia(190;0.109)|Prostate(94;0.174)	OV - Ovarian serous cystadenocarcinoma(106;0.00168)															---	---	---	---
ALK	238	broad.mit.edu	37	2	29416141	29416141	+	Silent	SNP	G	A	A			TCGA-CG-4462-01A-01D-1158-08	TCGA-CG-4462-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:29416141G>A	uc002rmy.2	-	29	5719	c.4812C>T	c.(4810-4812)TAC>TAT	p.Y1604Y	ALK_uc010ymo.1_Silent_p.Y536Y	NM_004304	NP_004295	Q9UM73	ALK_HUMAN	anaplastic lymphoma kinase precursor	1604	Cytoplasmic (Potential).				protein autophosphorylation|transmembrane receptor protein tyrosine kinase signaling pathway	integral to plasma membrane	ATP binding|protein binding|transmembrane receptor protein tyrosine kinase activity		NPM1/ALK(632)|EML4/ALK(246)|CLTC/ALK(44)|TPM3/ALK(33)|ATIC/ALK(24)|RANBP2/ALK(16)|TPM4/ALK(12)|TFG/ALK(7)|MSN/ALK(6)|CARS/ALK(5)|VCL/ALK(4)|KIF5B/ALK(4)|PPFIBP1/ALK(3)|SEC31A/ALK(3)|SQSTM1/ALK(2)	haematopoietic_and_lymphoid_tissue(726)|lung(262)|autonomic_ganglia(148)|soft_tissue(61)|breast(4)|kidney(4)|large_intestine(3)|skin(3)|ovary(3)|thyroid(2)|central_nervous_system(1)|pancreas(1)	1218	Acute lymphoblastic leukemia(172;0.155)				Adenosine triphosphate(DB00171)			T|Mis|A	NPM1|TPM3|TFG|TPM4|ATIC|CLTC|MSN|ALO17|CARS|EML4	ALCL|NSCLC|Neuroblastoma	neuroblastoma			Neuroblastoma_Familial_Clustering_of|Congenital_Central_Hypoventilation_Syndrome				---	---	---	---
ATP6V1E2	90423	broad.mit.edu	37	2	46739557	46739557	+	Silent	SNP	C	T	T	rs147271327		TCGA-CG-4462-01A-01D-1158-08	TCGA-CG-4462-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:46739557C>T	uc002ruy.2	-	2	1408	c.294G>A	c.(292-294)GCG>GCA	p.A98A	ATP6V1E2_uc002ruz.2_Silent_p.A98A	NM_080653	NP_542384	Q96A05	VATE2_HUMAN	ATPase, H+ transporting, lysosomal 31kDa, V1	98					cellular iron ion homeostasis|insulin receptor signaling pathway|transferrin transport	cytosol|proton-transporting two-sector ATPase complex, catalytic domain	proton-transporting ATPase activity, rotational mechanism			ovary(1)|skin(1)	2		all_hematologic(82;0.151)|Acute lymphoblastic leukemia(82;0.175)	LUSC - Lung squamous cell carcinoma(58;0.151)															---	---	---	---
CTNNA2	1496	broad.mit.edu	37	2	80874849	80874849	+	Missense_Mutation	SNP	C	T	T			TCGA-CG-4462-01A-01D-1158-08	TCGA-CG-4462-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:80874849C>T	uc010ysh.1	+	18	2719	c.2714C>T	c.(2713-2715)TCT>TTT	p.S905F	CTNNA2_uc010yse.1_Missense_Mutation_p.S857F|CTNNA2_uc010ysf.1_Missense_Mutation_p.S857F|CTNNA2_uc010ysg.1_Missense_Mutation_p.S812F|CTNNA2_uc010ysi.1_Missense_Mutation_p.S489F|CTNNA2_uc010ysj.1_Missense_Mutation_p.S186F	NM_004389	NP_004380	P26232	CTNA2_HUMAN	catenin, alpha 2 isoform 1	905					axonogenesis|brain morphogenesis|cell-cell adhesion|dendrite morphogenesis|muscle cell differentiation|positive regulation of muscle cell differentiation|prepulse inhibition|radial glia guided migration of Purkinje cell|regulation of synapse structural plasticity	actin cytoskeleton|axon|cytosol	cadherin binding|structural constituent of cytoskeleton			pancreas(4)|lung(3)|breast(1)|skin(1)	9																		---	---	---	---
RETSAT	54884	broad.mit.edu	37	2	85581480	85581480	+	Missense_Mutation	SNP	T	A	A			TCGA-CG-4462-01A-01D-1158-08	TCGA-CG-4462-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:85581480T>A	uc002spd.2	-	1	342	c.151A>T	c.(151-153)AGG>TGG	p.R51W	ELMOD3_uc010fgg.2_5'Flank|ELMOD3_uc002spf.3_5'Flank|ELMOD3_uc002spg.3_5'Flank|ELMOD3_uc002sph.3_5'Flank|ELMOD3_uc010ysn.1_5'Flank|ELMOD3_uc010yso.1_5'Flank|ELMOD3_uc010ysp.1_5'Flank|RETSAT_uc010ysm.1_Missense_Mutation_p.R51W|RETSAT_uc010fgf.2_Missense_Mutation_p.R51W	NM_017750	NP_060220	Q6NUM9	RETST_HUMAN	all-trans-13,14-dihydroretinol saturase	51					retinol metabolic process	endoplasmic reticulum membrane|nuclear outer membrane	all-trans-retinol 13,14-reductase activity|electron carrier activity			ovary(2)	2					Vitamin A(DB00162)													---	---	---	---
Unknown	0	broad.mit.edu	37	2	89513368	89513368	+	Intron	SNP	G	T	T			TCGA-CG-4462-01A-01D-1158-08	TCGA-CG-4462-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:89513368G>T	uc010ytr.1	-						uc002stl.2_Intron					Parts of antibodies, mostly variable regions.																														---	---	---	---
LIMS2	55679	broad.mit.edu	37	2	128399649	128399649	+	Missense_Mutation	SNP	G	A	A	rs138275119	byFrequency	TCGA-CG-4462-01A-01D-1158-08	TCGA-CG-4462-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:128399649G>A	uc002tpa.2	-	6	801	c.635C>T	c.(634-636)GCG>GTG	p.A212V	LIMS2_uc002tou.2_Missense_Mutation_p.A20V|LIMS2_uc002tov.2_Missense_Mutation_p.A60V|LIMS2_uc002tow.2_Missense_Mutation_p.A60V|LIMS2_uc002tox.2_Missense_Mutation_p.A236V|LIMS2_uc010fmb.2_Missense_Mutation_p.A122V|LIMS2_uc002toy.2_Missense_Mutation_p.A207V|LIMS2_uc010yzm.1_Missense_Mutation_p.A234V|LIMS2_uc002toz.2_Missense_Mutation_p.A207V|LIMS2_uc002tpb.2_Missense_Mutation_p.A207V	NM_001161403	NP_001154875	Q7Z4I7	LIMS2_HUMAN	LIM and senescent cell antigen-like domains 2	212	LIM zinc-binding 4.				cell junction assembly	cytosol|focal adhesion|nucleus	zinc ion binding				0	Colorectal(110;0.1)			BRCA - Breast invasive adenocarcinoma(221;0.0681)														---	---	---	---
GPR17	2840	broad.mit.edu	37	2	128409297	128409297	+	Missense_Mutation	SNP	G	A	A			TCGA-CG-4462-01A-01D-1158-08	TCGA-CG-4462-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:128409297G>A	uc010yzn.1	+	4	1683	c.1072G>A	c.(1072-1074)GAG>AAG	p.E358K	LIMS2_uc002tox.2_Intron|LIMS2_uc010fmb.2_Intron|LIMS2_uc002toy.2_Intron|LIMS2_uc010yzm.1_Intron|LIMS2_uc002tpa.2_Intron|LIMS2_uc002toz.2_Intron|LIMS2_uc002tpb.2_Intron|GPR17_uc002tpc.2_Missense_Mutation_p.E358K|GPR17_uc010yzo.1_Missense_Mutation_p.E330K|GPR17_uc002tpd.2_Missense_Mutation_p.E330K	NM_001161415	NP_001154887	Q13304	GPR17_HUMAN	G protein-coupled receptor 17 isoform a	358	Cytoplasmic (Potential).					integral to plasma membrane	chemokine receptor activity|purinergic nucleotide receptor activity, G-protein coupled				0	Colorectal(110;0.1)	Ovarian(717;0.15)		BRCA - Breast invasive adenocarcinoma(221;0.0677)														---	---	---	---
LRP1B	53353	broad.mit.edu	37	2	140990851	140990851	+	Silent	SNP	A	G	G			TCGA-CG-4462-01A-01D-1158-08	TCGA-CG-4462-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:140990851A>G	uc002tvj.1	-	91	14676	c.13704T>C	c.(13702-13704)GAT>GAC	p.D4568D		NM_018557	NP_061027	Q9NZR2	LRP1B_HUMAN	low density lipoprotein-related protein 1B	4568	Cytoplasmic (Potential).				protein transport|receptor-mediated endocytosis	integral to membrane	calcium ion binding			lung(17)|skin(12)|ovary(12)|pancreas(3)|upper_aerodigestive_tract(2)|central_nervous_system(2)|liver(1)|kidney(1)	50		all_cancers(3;1.1e-60)|all_epithelial(3;1.94e-59)|all_lung(3;1.09e-24)|Lung NSC(3;5.65e-24)|Esophageal squamous(3;5.41e-13)|Renal(3;0.000147)|Breast(3;0.000527)|Hepatocellular(3;0.011)|all_neural(3;0.014)|Colorectal(150;0.101)		UCEC - Uterine corpus endometrioid carcinoma (2;0.00139)|Epithelial(1;1.25e-24)|all cancers(1;8.86e-24)|OV - Ovarian serous cystadenocarcinoma(1;2.45e-12)|LUSC - Lung squamous cell carcinoma(1;2.97e-10)|Lung(1;6.05e-09)|BRCA - Breast invasive adenocarcinoma(221;0.0103)											TSP Lung(27;0.18)			---	---	---	---
TMEFF2	23671	broad.mit.edu	37	2	193059095	193059095	+	Silent	SNP	G	A	A			TCGA-CG-4462-01A-01D-1158-08	TCGA-CG-4462-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:193059095G>A	uc002utc.2	-	1	550	c.156C>T	c.(154-156)ACC>ACT	p.T52T	TMEFF2_uc002utd.1_Silent_p.T52T	NM_016192	NP_057276	Q9UIK5	TEFF2_HUMAN	transmembrane protein with EGF-like and two	52	Extracellular (Potential).					extracellular region|integral to membrane				lung(2)|pancreas(1)|breast(1)|skin(1)	5			OV - Ovarian serous cystadenocarcinoma(117;0.0835)															---	---	---	---
MPP4	58538	broad.mit.edu	37	2	202549823	202549823	+	Missense_Mutation	SNP	C	A	A			TCGA-CG-4462-01A-01D-1158-08	TCGA-CG-4462-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:202549823C>A	uc002uyk.3	-	7	746	c.538G>T	c.(538-540)GCC>TCC	p.A180S	MPP4_uc010ftj.2_Missense_Mutation_p.A180S|MPP4_uc010zhq.1_Missense_Mutation_p.A180S|MPP4_uc010zhr.1_Missense_Mutation_p.A180S|MPP4_uc010zhs.1_Missense_Mutation_p.A136S|MPP4_uc002uyj.3_Missense_Mutation_p.A136S|MPP4_uc010zht.1_Missense_Mutation_p.A153S|MPP4_uc002uyl.3_RNA|MPP4_uc010ftk.2_Missense_Mutation_p.A180S|MPP4_uc002uym.1_Missense_Mutation_p.A149S|MPP4_uc002uyn.2_Missense_Mutation_p.A136S	NM_033066	NP_149055	Q96JB8	MPP4_HUMAN	membrane protein, palmitoylated 4	180	PDZ.					cytoplasm	protein binding				0																		---	---	---	---
CHL1	10752	broad.mit.edu	37	3	382574	382574	+	Silent	SNP	T	G	G			TCGA-CG-4462-01A-01D-1158-08	TCGA-CG-4462-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:382574T>G	uc003bou.2	+	6	754	c.483T>G	c.(481-483)CCT>CCG	p.P161P	CHL1_uc003bot.2_Silent_p.P161P|CHL1_uc003bow.1_Silent_p.P161P|CHL1_uc011asi.1_Silent_p.P161P	NM_006614	NP_006605	O00533	CHL1_HUMAN	cell adhesion molecule with homology to L1CAM	161	Ig-like C2-type 2.|Extracellular (Potential).				axon guidance|cell adhesion|signal transduction	integral to membrane|plasma membrane|proteinaceous extracellular matrix				skin(5)|central_nervous_system(4)|large_intestine(2)|ovary(1)	12		all_cancers(2;1.14e-06)|all_epithelial(2;0.00367)|all_lung(1;0.061)|Lung NSC(2;0.201)		Epithelial(13;5.36e-06)|all cancers(10;1.4e-05)|OV - Ovarian serous cystadenocarcinoma(96;0.00323)|COAD - Colon adenocarcinoma(1;0.00925)|Colorectal(20;0.0198)														---	---	---	---
CAND2	23066	broad.mit.edu	37	3	12858905	12858905	+	Missense_Mutation	SNP	G	A	A			TCGA-CG-4462-01A-01D-1158-08	TCGA-CG-4462-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:12858905G>A	uc003bxk.2	+	10	2523	c.2474G>A	c.(2473-2475)CGC>CAC	p.R825H	CAND2_uc003bxj.2_Missense_Mutation_p.R732H	NM_001162499	NP_001155971	O75155	CAND2_HUMAN	TBP-interacting protein isoform 1	825					positive regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	protein binding			skin(3)|pancreas(1)	4																		---	---	---	---
CTNNB1	1499	broad.mit.edu	37	3	41275627	41275627	+	Intron	SNP	C	G	G			TCGA-CG-4462-01A-01D-1158-08	TCGA-CG-4462-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:41275627C>G	uc010hia.1	+						CTNNB1_uc003ckp.2_Intron|CTNNB1_uc003ckq.2_Intron|CTNNB1_uc003ckr.2_Intron|CTNNB1_uc011azf.1_Intron|CTNNB1_uc011azg.1_Intron|CTNNB1_uc003cks.2_3'UTR|CTNNB1_uc003ckt.1_5'Flank	NM_001904	NP_001895			beta-catenin						adherens junction assembly|androgen receptor signaling pathway|branching involved in ureteric bud morphogenesis|canonical Wnt receptor signaling pathway involved in negative regulation of apoptosis|canonical Wnt receptor signaling pathway involved in positive regulation of epithelial to mesenchymal transition|cell-cell adhesion|cell-matrix adhesion|cellular component disassembly involved in apoptosis|cellular response to growth factor stimulus|cellular response to indole-3-methanol|central nervous system vasculogenesis|cytoskeletal anchoring at plasma membrane|determination of dorsal/ventral asymmetry|dorsal/ventral axis specification|ectoderm development|embryonic axis specification|embryonic foregut morphogenesis|embryonic leg joint morphogenesis|endodermal cell fate commitment|endothelial tube morphogenesis|epithelial to mesenchymal transition|gastrulation with mouth forming second|glial cell fate determination|hair follicle morphogenesis|hair follicle placode formation|hindbrain development|liver development|lung cell differentiation|lung induction|lung-associated mesenchyme development|male genitalia development|mesenchymal cell proliferation involved in lung development|mesenchymal to epithelial transition involved in metanephros morphogenesis|negative regulation of cell proliferation|negative regulation of chondrocyte differentiation|negative regulation of heart induction by canonical Wnt receptor signaling pathway|negative regulation of osteoclast differentiation|negative regulation of transcription from RNA polymerase II promoter|nephron tubule formation|odontogenesis of dentine-containing tooth|oocyte development|pancreas development|positive regulation of anti-apoptosis|positive regulation of apoptosis|positive regulation of branching involved in lung morphogenesis|positive regulation of epithelial cell proliferation involved in prostate gland development|positive regulation of fibroblast growth factor receptor signaling pathway|positive regulation of heparan sulfate proteoglycan biosynthetic process|positive regulation of I-kappaB kinase/NF-kappaB cascade|positive regulation of MAPKKK cascade|positive regulation of muscle cell differentiation|positive regulation of osteoblast differentiation|positive regulation of transcription from RNA polymerase II promoter|protein localization at cell surface|proximal/distal pattern formation|regulation of angiogenesis|regulation of calcium ion import|regulation of centriole-centriole cohesion|regulation of centromeric sister chromatid cohesion|regulation of fibroblast proliferation|regulation of nephron tubule epithelial cell differentiation|regulation of protein localization at cell surface|regulation of smooth muscle cell proliferation|regulation of T cell proliferation|renal inner medulla development|renal outer medulla development|renal vesicle formation|response to drug|response to estradiol stimulus|Schwann cell proliferation|smooth muscle cell differentiation|synapse organization|synaptic vesicle transport|T cell differentiation in thymus|thymus development|trachea formation	APC-Axin-1-beta-catenin complex|Axin-APC-beta-catenin-GSK3B complex|beta-catenin-TCF7L2 complex|catenin complex|cell cortex|cell-substrate adherens junction|centrosome|dendritic shaft|desmosome|fascia adherens|internal side of plasma membrane|lamellipodium|lateral plasma membrane|microvillus membrane|perinuclear region of cytoplasm|protein-DNA complex|synapse|transcription factor complex|Z disc|zonula adherens	alpha-catenin binding|androgen receptor binding|cadherin binding|estrogen receptor binding|I-SMAD binding|ion channel binding|protein binding|protein C-terminus binding|protein kinase binding|protein phosphatase binding|R-SMAD binding|RPTP-like protein binding|signal transducer activity|specific RNA polymerase II transcription factor activity|structural molecule activity|transcription coactivator activity|transcription regulatory region DNA binding		CTNNB1/PLAG1(60)	liver(806)|soft_tissue(609)|large_intestine(243)|endometrium(222)|kidney(172)|stomach(157)|central_nervous_system(139)|ovary(104)|skin(97)|pancreas(91)|adrenal_gland(85)|pituitary(81)|salivary_gland(62)|haematopoietic_and_lymphoid_tissue(57)|thyroid(55)|biliary_tract(41)|lung(38)|prostate(24)|bone(20)|small_intestine(17)|cervix(9)|parathyroid(9)|urinary_tract(8)|breast(7)|oesophagus(5)|NS(3)|pleura(2)|upper_aerodigestive_tract(2)|eye(1)	3166				KIRC - Kidney renal clear cell carcinoma(284;0.0028)|Kidney(284;0.00294)	Lithium(DB01356)		15	H|Mis|T	PLAG1	colorectal|cvarian| hepatoblastoma|others|pleomorphic salivary adenoma				Pilomatrixoma_Familial_Clustering_of				---	---	---	---
IP6K1	9807	broad.mit.edu	37	3	49770384	49770384	+	Silent	SNP	C	A	A			TCGA-CG-4462-01A-01D-1158-08	TCGA-CG-4462-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:49770384C>A	uc003cxm.1	-	4	771	c.456G>T	c.(454-456)CCG>CCT	p.P152P	IP6K1_uc003cxn.1_5'UTR|IP6K1_uc011bcv.1_5'UTR|IP6K1_uc003cxo.2_Silent_p.P152P	NM_153273	NP_695005	Q92551	IP6K1_HUMAN	inositol hexakisphosphate kinase 1 isoform 1	152					phosphatidylinositol phosphorylation	cytoplasm|nucleus	ATP binding|inositol hexakisphosphate 5-kinase activity|inositol trisphosphate 3-kinase activity				0																		---	---	---	---
ROBO2	6092	broad.mit.edu	37	3	77600145	77600145	+	Intron	SNP	G	A	A			TCGA-CG-4462-01A-01D-1158-08	TCGA-CG-4462-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:77600145G>A	uc003dpy.3	+						ROBO2_uc003dpz.2_Intron|ROBO2_uc011bgj.1_Intron|ROBO2_uc011bgk.1_Intron	NM_002942	NP_002933			roundabout, axon guidance receptor, homolog 2						apoptosis involved in luteolysis|axon midline choice point recognition|cellular response to hormone stimulus|homophilic cell adhesion|metanephros development|negative regulation of negative chemotaxis|negative regulation of synaptogenesis|olfactory bulb interneuron development|positive regulation of axonogenesis|retinal ganglion cell axon guidance|ureteric bud development	axolemma|cell surface|integral to membrane	axon guidance receptor activity|identical protein binding			lung(5)|skin(3)|ovary(1)|large_intestine(1)|liver(1)	11				Epithelial(33;0.00199)|LUSC - Lung squamous cell carcinoma(21;0.008)|BRCA - Breast invasive adenocarcinoma(55;0.00884)|Lung(72;0.0183)|KIRC - Kidney renal clear cell carcinoma(39;0.0832)|Kidney(39;0.103)														---	---	---	---
FBXO40	51725	broad.mit.edu	37	3	121341997	121341997	+	Missense_Mutation	SNP	C	A	A			TCGA-CG-4462-01A-01D-1158-08	TCGA-CG-4462-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:121341997C>A	uc003eeg.2	+	3	1931	c.1721C>A	c.(1720-1722)ACC>AAC	p.T574N		NM_016298	NP_057382	Q9UH90	FBX40_HUMAN	F-box protein 40	574	F-box.				muscle cell differentiation	centrosome|nucleus	ubiquitin-protein ligase activity|zinc ion binding			ovary(2)|lung(1)|breast(1)|central_nervous_system(1)	5				GBM - Glioblastoma multiforme(114;0.189)														---	---	---	---
PPARGC1A	10891	broad.mit.edu	37	4	23815806	23815806	+	Silent	SNP	G	A	A			TCGA-CG-4462-01A-01D-1158-08	TCGA-CG-4462-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:23815806G>A	uc003gqs.2	-	8	1420	c.1300C>T	c.(1300-1302)CTG>TTG	p.L434L	PPARGC1A_uc003gqt.2_RNA|PPARGC1A_uc011bxp.1_RNA|PPARGC1A_uc010ier.1_RNA	NM_013261	NP_037393	Q9UBK2	PRGC1_HUMAN	peroxisome proliferator-activated receptor	434					androgen receptor signaling pathway|brown fat cell differentiation|cellular glucose homeostasis|digestion|fatty acid oxidation|gluconeogenesis|mitochondrion organization|mRNA processing|neuron death|positive regulation of fatty acid oxidation|positive regulation of gluconeogenesis|positive regulation of histone acetylation|positive regulation of sequence-specific DNA binding transcription factor activity|positive regulation of transcription from RNA polymerase II promoter|protein complex assembly|protein stabilization|response to muscle activity|response to starvation|RNA splicing|temperature homeostasis|transcription initiation from RNA polymerase II promoter	DNA-directed RNA polymerase II, core complex	androgen receptor binding|DNA binding|ligand-dependent nuclear receptor binding|ligand-dependent nuclear receptor transcription coactivator activity|nucleotide binding|RNA binding|RNA polymerase II transcription cofactor activity|transcription factor binding			ovary(2)|lung(2)|kidney(2)|skin(2)	8		Breast(46;0.0503)																---	---	---	---
KLB	152831	broad.mit.edu	37	4	39449979	39449979	+	Missense_Mutation	SNP	G	T	T			TCGA-CG-4462-01A-01D-1158-08	TCGA-CG-4462-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:39449979G>T	uc003gua.2	+	5	2905	c.2808G>T	c.(2806-2808)GAG>GAT	p.E936D	KLB_uc011byj.1_Missense_Mutation_p.E927D	NM_175737	NP_783864	Q86Z14	KLOTB_HUMAN	klotho beta	936	Extracellular (Potential).|Glycosyl hydrolase-1 2.				carbohydrate metabolic process	integral to membrane|plasma membrane	cation binding|fibroblast growth factor binding|hydrolase activity, hydrolyzing O-glycosyl compounds			skin(1)	1																		---	---	---	---
PDS5A	23244	broad.mit.edu	37	4	39915231	39915231	+	Missense_Mutation	SNP	C	T	T			TCGA-CG-4462-01A-01D-1158-08	TCGA-CG-4462-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:39915231C>T	uc003guv.3	-	9	1532	c.992G>A	c.(991-993)CGA>CAA	p.R331Q	PDS5A_uc010ifo.2_Missense_Mutation_p.R291Q|PDS5A_uc003guw.3_Missense_Mutation_p.R331Q	NM_001100399	NP_001093869	Q29RF7	PDS5A_HUMAN	PDS5, regulator of cohesion maintenance, homolog	331					cell division|mitosis|negative regulation of DNA replication	chromatin|nucleus	identical protein binding				0																		---	---	---	---
TACR3	6870	broad.mit.edu	37	4	104640440	104640440	+	Silent	SNP	G	A	A			TCGA-CG-4462-01A-01D-1158-08	TCGA-CG-4462-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:104640440G>A	uc003hxe.1	-	1	536	c.393C>T	c.(391-393)GAC>GAT	p.D131D		NM_001059	NP_001050	P29371	NK3R_HUMAN	tachykinin receptor 3	131	Helical; Name=2; (Potential).					integral to plasma membrane	tachykinin receptor activity			ovary(3)|lung(2)|breast(1)|skin(1)	7		Hepatocellular(203;0.217)		UCEC - Uterine corpus endometrioid carcinoma (10;0.22)|OV - Ovarian serous cystadenocarcinoma(123;3.4e-08)														---	---	---	---
C4orf31	79625	broad.mit.edu	37	4	121958208	121958208	+	Silent	SNP	G	A	A			TCGA-CG-4462-01A-01D-1158-08	TCGA-CG-4462-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:121958208G>A	uc003idq.1	-	4	1445	c.918C>T	c.(916-918)CCC>CCT	p.P306P		NM_024574	NP_078850	Q8TB73	CD031_HUMAN	hypothetical protein LOC79625 precursor	306	Fibronectin type-III 1.										0																		---	---	---	---
NIPBL	25836	broad.mit.edu	37	5	37052624	37052624	+	Nonsense_Mutation	SNP	C	T	T			TCGA-CG-4462-01A-01D-1158-08	TCGA-CG-4462-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:37052624C>T	uc003jkl.3	+	42	7718	c.7219C>T	c.(7219-7221)CGA>TGA	p.R2407*	NIPBL_uc003jkk.3_Nonsense_Mutation_p.R2407*|NIPBL_uc003jkn.2_Nonsense_Mutation_p.R100*	NM_133433	NP_597677	Q6KC79	NIPBL_HUMAN	delangin isoform A	2407					brain development|cellular protein localization|cellular response to X-ray|cognition|developmental growth|ear morphogenesis|embryonic arm morphogenesis|embryonic digestive tract morphogenesis|external genitalia morphogenesis|eye morphogenesis|face morphogenesis|gall bladder development|maintenance of mitotic sister chromatid cohesion|metanephros development|negative regulation of transcription from RNA polymerase II promoter|outflow tract morphogenesis|positive regulation of histone deacetylation|regulation of developmental growth|regulation of embryonic development|regulation of hair cycle|response to DNA damage stimulus|sensory perception of sound|uterus morphogenesis	SMC loading complex	chromo shadow domain binding|histone deacetylase binding|protein C-terminus binding|protein N-terminus binding			ovary(4)|lung(2)|large_intestine(1)|breast(1)|kidney(1)	9	all_lung(31;0.000447)|Hepatocellular(1;0.108)		Epithelial(62;0.072)|COAD - Colon adenocarcinoma(61;0.14)|all cancers(62;0.191)|Colorectal(62;0.202)															---	---	---	---
VCAN	1462	broad.mit.edu	37	5	82834437	82834437	+	Missense_Mutation	SNP	C	T	T	rs150017263		TCGA-CG-4462-01A-01D-1158-08	TCGA-CG-4462-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:82834437C>T	uc003kii.3	+	8	5971	c.5615C>T	c.(5614-5616)CCG>CTG	p.P1872L	VCAN_uc003kij.3_Missense_Mutation_p.P885L|VCAN_uc010jau.2_Intron|VCAN_uc003kik.3_Intron|VCAN_uc003kil.3_Missense_Mutation_p.P536L	NM_004385	NP_004376	P13611	CSPG2_HUMAN	versican isoform 1 precursor	1872	GAG-beta.				cell adhesion|cell recognition|glial cell migration	extracellular space|proteinaceous extracellular matrix	calcium ion binding|hyaluronic acid binding|sugar binding			ovary(7)|skin(6)|lung(2)|central_nervous_system(1)	16		Lung NSC(167;0.0216)|all_lung(232;0.0251)|Ovarian(174;0.142)		OV - Ovarian serous cystadenocarcinoma(54;2.47e-41)|Epithelial(54;2.51e-34)|all cancers(79;5.19e-29)														---	---	---	---
GPR98	84059	broad.mit.edu	37	5	89948224	89948224	+	Missense_Mutation	SNP	G	T	T			TCGA-CG-4462-01A-01D-1158-08	TCGA-CG-4462-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:89948224G>T	uc003kju.2	+	19	3574	c.3478G>T	c.(3478-3480)GAT>TAT	p.D1160Y	GPR98_uc003kjt.2_5'UTR	NM_032119	NP_115495	Q8WXG9	GPR98_HUMAN	G protein-coupled receptor 98 precursor	1160	Extracellular (Potential).				cell communication|cell-cell adhesion|maintenance of organ identity|neuropeptide signaling pathway|photoreceptor cell maintenance	cell surface|cytoplasm|integral to membrane|plasma membrane	calcium ion binding|G-protein coupled receptor activity			ovary(11)|central_nervous_system(3)|pancreas(2)	16		all_cancers(142;1.05e-09)|all_epithelial(76;1.81e-12)|all_lung(232;5.41e-06)|Lung NSC(167;1.72e-05)|Ovarian(174;0.00948)|Colorectal(57;0.133)|Breast(839;0.192)		OV - Ovarian serous cystadenocarcinoma(54;7.01e-30)|Epithelial(54;6.79e-25)|all cancers(79;1.88e-20)														---	---	---	---
PCDHA3	56145	broad.mit.edu	37	5	140182680	140182680	+	Missense_Mutation	SNP	C	T	T			TCGA-CG-4462-01A-01D-1158-08	TCGA-CG-4462-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:140182680C>T	uc003lhf.2	+	1	1898	c.1898C>T	c.(1897-1899)ACG>ATG	p.T633M	PCDHA1_uc003lha.2_Intron|PCDHA1_uc003lhb.2_Intron|PCDHA2_uc003lhd.2_Intron|PCDHA2_uc011czy.1_Intron|PCDHA3_uc011czz.1_Missense_Mutation_p.T633M	NM_018906	NP_061729	Q9Y5H8	PCDA3_HUMAN	protocadherin alpha 3 isoform 1 precursor	633	Cadherin 6.|Extracellular (Potential).				homophilic cell adhesion|nervous system development	integral to plasma membrane	calcium ion binding|protein binding			ovary(6)|skin(2)	8			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)															---	---	---	---
C1QTNF2	114898	broad.mit.edu	37	5	159776723	159776723	+	Missense_Mutation	SNP	G	A	A			TCGA-CG-4462-01A-01D-1158-08	TCGA-CG-4462-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:159776723G>A	uc003lyd.2	-	3	449	c.445C>T	c.(445-447)CGG>TGG	p.R149W		NM_031908	NP_114114	Q9BXJ5	C1QT2_HUMAN	C1q and tumor necrosis factor related protein 2	104	Collagen-like.					collagen				skin(1)	1	Renal(175;0.00196)	Medulloblastoma(196;0.0354)|all_neural(177;0.116)	Kidney(164;7.83e-05)|KIRC - Kidney renal clear cell carcinoma(164;0.000525)															---	---	---	---
LCP2	3937	broad.mit.edu	37	5	169697919	169697919	+	Missense_Mutation	SNP	T	G	G			TCGA-CG-4462-01A-01D-1158-08	TCGA-CG-4462-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:169697919T>G	uc003man.1	-	7	534	c.327A>C	c.(325-327)GAA>GAC	p.E109D	LCP2_uc011det.1_5'UTR|LCP2_uc010jjo.1_5'Flank	NM_005565	NP_005556	Q13094	LCP2_HUMAN	lymphocyte cytosolic protein 2	109					immune response|platelet activation|T cell receptor signaling pathway|transmembrane receptor protein tyrosine kinase signaling pathway	cytosol	protein binding			ovary(1)	1	Renal(175;0.000159)|Lung NSC(126;0.0221)|all_lung(126;0.0337)	Medulloblastoma(196;0.0109)|all_neural(177;0.0146)	Kidney(164;7.53e-05)|KIRC - Kidney renal clear cell carcinoma(164;0.000525)	OV - Ovarian serous cystadenocarcinoma(192;0.247)														---	---	---	---
OR2B2	81697	broad.mit.edu	37	6	27879292	27879292	+	Missense_Mutation	SNP	T	C	C			TCGA-CG-4462-01A-01D-1158-08	TCGA-CG-4462-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:27879292T>C	uc011dkw.1	-	1	806	c.806A>G	c.(805-807)GAC>GGC	p.D269G		NM_033057	NP_149046	Q9GZK3	OR2B2_HUMAN	olfactory receptor, family 2, subfamily B,	269	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity				0																		---	---	---	---
C6orf15	29113	broad.mit.edu	37	6	31079710	31079710	+	Silent	SNP	C	T	T			TCGA-CG-4462-01A-01D-1158-08	TCGA-CG-4462-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:31079710C>T	uc003nsk.1	-	2	426	c.426G>A	c.(424-426)GCG>GCA	p.A142A	PSORS1C1_uc003nsl.1_5'Flank|PSORS1C1_uc010jsj.1_5'Flank	NM_014070	NP_054789	Q6UXA7	CF015_HUMAN	STG protein precursor	142											0																		---	---	---	---
SENP6	26054	broad.mit.edu	37	6	76412460	76412460	+	Silent	SNP	T	C	C			TCGA-CG-4462-01A-01D-1158-08	TCGA-CG-4462-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:76412460T>C	uc003pid.3	+	19	3007	c.2388T>C	c.(2386-2388)TGT>TGC	p.C796C	SENP6_uc003pie.3_Silent_p.C789C|SENP6_uc010kbf.2_Intron	NM_015571	NP_056386	Q9GZR1	SENP6_HUMAN	SUMO1/sentrin specific peptidase 6 isoform 1	796	Protease.				proteolysis	cytoplasm|nucleus	cysteine-type peptidase activity			breast(2)|urinary_tract(1)|ovary(1)|lung(1)|skin(1)	6		all_hematologic(105;0.189)																---	---	---	---
GRIK2	2898	broad.mit.edu	37	6	102247636	102247636	+	Silent	SNP	C	T	T			TCGA-CG-4462-01A-01D-1158-08	TCGA-CG-4462-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:102247636C>T	uc003pqp.3	+	7	1314	c.1065C>T	c.(1063-1065)TTC>TTT	p.F355F	GRIK2_uc003pqn.2_Silent_p.F355F|GRIK2_uc003pqo.3_Silent_p.F355F|GRIK2_uc010kcw.2_Silent_p.F355F	NM_021956	NP_068775	Q13002	GRIK2_HUMAN	glutamate receptor, ionotropic, kainate 2	355	Extracellular (Potential).				glutamate signaling pathway|induction of programmed cell death in response to chemical stimulus|neuron apoptosis|positive regulation of synaptic transmission|regulation of short-term neuronal synaptic plasticity	cell junction|postsynaptic membrane	extracellular-glutamate-gated ion channel activity|kainate selective glutamate receptor activity			ovary(2)|pancreas(1)|breast(1)|skin(1)	5		all_cancers(76;1.19e-07)|Acute lymphoblastic leukemia(125;6.17e-11)|all_hematologic(75;6.01e-08)|all_epithelial(87;0.0121)|Colorectal(196;0.14)		all cancers(137;0.112)|BRCA - Breast invasive adenocarcinoma(108;0.124)|GBM - Glioblastoma multiforme(226;0.206)	L-Glutamic Acid(DB00142)													---	---	---	---
SLC2A12	154091	broad.mit.edu	37	6	134350402	134350402	+	Silent	SNP	G	A	A			TCGA-CG-4462-01A-01D-1158-08	TCGA-CG-4462-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:134350402G>A	uc003qem.1	-	2	732	c.561C>T	c.(559-561)TAC>TAT	p.Y187Y		NM_145176	NP_660159	Q8TD20	GTR12_HUMAN	solute carrier family 2 (facilitated glucose	187	Helical; (Potential).					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)														---	---	---	---
TXNDC3	51314	broad.mit.edu	37	7	37889997	37889997	+	Missense_Mutation	SNP	A	C	C			TCGA-CG-4462-01A-01D-1158-08	TCGA-CG-4462-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:37889997A>C	uc003tfn.2	+	4	423	c.51A>C	c.(49-51)CAA>CAC	p.Q17H		NM_016616	NP_057700	Q8N427	TXND3_HUMAN	thioredoxin domain containing 3	17	Thioredoxin.				cell differentiation|cell redox homeostasis|CTP biosynthetic process|GTP biosynthetic process|multicellular organismal development|spermatogenesis|UTP biosynthetic process	cytoplasm|microtubule cytoskeleton	ATP binding|nucleoside diphosphate kinase activity			ovary(1)|breast(1)|central_nervous_system(1)	3														Kartagener_syndrome				---	---	---	---
INHBA	3624	broad.mit.edu	37	7	41729393	41729393	+	Missense_Mutation	SNP	C	T	T			TCGA-CG-4462-01A-01D-1158-08	TCGA-CG-4462-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:41729393C>T	uc003thq.2	-	2	1371	c.1136G>A	c.(1135-1137)CGG>CAG	p.R379Q	INHBA_uc003thr.2_Missense_Mutation_p.R379Q	NM_002192	NP_002183	P08476	INHBA_HUMAN	inhibin beta A precursor	379				RMR -> AC (in Ref. 7; CAA51163).	cell cycle arrest|cell surface receptor linked signaling pathway|defense response|erythrocyte differentiation|eyelid development in camera-type eye|G1/S transition of mitotic cell cycle|growth|hair follicle development|hemoglobin biosynthetic process|hemopoietic progenitor cell differentiation|induction of apoptosis|male gonad development|negative regulation of B cell differentiation|negative regulation of cell growth|negative regulation of cell proliferation|negative regulation of follicle-stimulating hormone secretion|negative regulation of interferon-gamma biosynthetic process|negative regulation of macrophage differentiation|negative regulation of phosphorylation|nervous system development|odontogenesis|ovarian follicle development|palate development|positive regulation of erythrocyte differentiation|positive regulation of follicle-stimulating hormone secretion|positive regulation of ovulation|positive regulation of transcription from RNA polymerase II promoter|progesterone secretion|regulation of activin receptor signaling pathway	activin A complex|inhibin A complex	cytokine activity|follistatin binding|growth factor activity|hormone activity|identical protein binding|signal transducer activity			lung(5)|ovary(1)	6															TSP Lung(11;0.080)			---	---	---	---
CACNA2D1	781	broad.mit.edu	37	7	81600061	81600061	+	Intron	SNP	A	T	T			TCGA-CG-4462-01A-01D-1158-08	TCGA-CG-4462-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:81600061A>T	uc003uhr.1	-						CACNA2D1_uc011kgy.1_5'UTR	NM_000722	NP_000713			calcium channel, voltage-dependent, alpha							voltage-gated calcium channel complex	metal ion binding			ovary(5)|pancreas(1)	6					Felodipine(DB01023)|Gabapentin(DB00996)|Ibutilide(DB00308)|Isradipine(DB00270)|Magnesium Sulfate(DB00653)|Nifedipine(DB01115)													---	---	---	---
GAL3ST4	79690	broad.mit.edu	37	7	99757813	99757813	+	Missense_Mutation	SNP	C	T	T	rs145166071		TCGA-CG-4462-01A-01D-1158-08	TCGA-CG-4462-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:99757813C>T	uc003utt.2	-	3	2216	c.1199G>A	c.(1198-1200)CGA>CAA	p.R400Q	C7orf43_uc010lgp.2_5'Flank|C7orf43_uc011kjj.1_5'Flank|C7orf43_uc003utr.2_5'Flank|C7orf43_uc003uts.2_5'Flank|GAL3ST4_uc003utu.2_Missense_Mutation_p.R400Q|GAL3ST4_uc010lgq.2_Missense_Mutation_p.R338Q	NM_024637	NP_078913	Q96RP7	G3ST4_HUMAN	galactose-3-O-sulfotransferase 4	400	Lumenal (Potential).				cell-cell signaling|oligosaccharide metabolic process|proteoglycan biosynthetic process|sulfur compound metabolic process	Golgi cisterna membrane|integral to membrane|membrane fraction	3'-phosphoadenosine 5'-phosphosulfate binding|galactosylceramide sulfotransferase activity|proteoglycan sulfotransferase activity			ovary(3)	3	Lung NSC(181;0.0181)|all_lung(186;0.0284)|Esophageal squamous(72;0.0439)																	---	---	---	---
CPA2	1358	broad.mit.edu	37	7	129915080	129915080	+	Missense_Mutation	SNP	C	A	A			TCGA-CG-4462-01A-01D-1158-08	TCGA-CG-4462-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:129915080C>A	uc003vpq.2	+	6	597	c.578C>A	c.(577-579)GCA>GAA	p.A193E	CPA2_uc011kpc.1_Missense_Mutation_p.A193E	NM_001869	NP_001860	P48052	CBPA2_HUMAN	carboxypeptidase A2 (pancreatic) precursor	193					proteolysis|vacuolar protein catabolic process	extracellular region|vacuole	metallocarboxypeptidase activity|zinc ion binding			ovary(1)	1	Melanoma(18;0.0435)																	---	---	---	---
PLXNA4	91584	broad.mit.edu	37	7	131831381	131831381	+	Missense_Mutation	SNP	C	G	G			TCGA-CG-4462-01A-01D-1158-08	TCGA-CG-4462-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:131831381C>G	uc003vra.3	-	28	5172	c.4943G>C	c.(4942-4944)GGA>GCA	p.G1648A	PLXNA4_uc003vqz.3_5'Flank	NM_020911	NP_065962	Q9HCM2	PLXA4_HUMAN	plexin A4 isoform 1	1648	Cytoplasmic (Potential).					integral to membrane|intracellular|plasma membrane				ovary(1)	1																		---	---	---	---
LRGUK	136332	broad.mit.edu	37	7	133933822	133933822	+	Missense_Mutation	SNP	A	G	G			TCGA-CG-4462-01A-01D-1158-08	TCGA-CG-4462-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:133933822A>G	uc003vrm.1	+	18	2208	c.2192A>G	c.(2191-2193)GAA>GGA	p.E731G		NM_144648	NP_653249	Q96M69	LRGUK_HUMAN	leucine-rich repeats and guanylate kinase domain	731							ATP binding|kinase activity			lung(2)|skin(2)|kidney(1)	5																		---	---	---	---
PARP12	64761	broad.mit.edu	37	7	139726076	139726076	+	Silent	SNP	G	A	A	rs145495111		TCGA-CG-4462-01A-01D-1158-08	TCGA-CG-4462-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:139726076G>A	uc003vvl.1	-	11	2575	c.1701C>T	c.(1699-1701)AGC>AGT	p.S567S	PARP12_uc003vvk.1_Silent_p.S353S|PARP12_uc010lnf.1_RNA	NM_022750	NP_073587	Q9H0J9	PAR12_HUMAN	poly ADP-ribose polymerase 12	567	PARP catalytic.					nucleus	NAD+ ADP-ribosyltransferase activity|nucleic acid binding|zinc ion binding			ovary(3)	3	Melanoma(164;0.0142)																	---	---	---	---
CLEC5A	23601	broad.mit.edu	37	7	141631515	141631515	+	Intron	SNP	C	T	T			TCGA-CG-4462-01A-01D-1158-08	TCGA-CG-4462-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:141631515C>T	uc003vwv.1	-						CLEC5A_uc011krm.1_Intron|CLEC5A_uc003vww.1_Intron|CLEC5A_uc010lnq.1_Intron|CLEC5A_uc010lnr.1_Intron	NM_013252	NP_037384			C-type lectin, superfamily member 5						anti-apoptosis|cellular defense response|innate immune response|interspecies interaction between organisms|osteoblast development	cell surface|integral to plasma membrane	sugar binding|viral receptor activity				0	Melanoma(164;0.0171)																	---	---	---	---
Unknown	0	broad.mit.edu	37	7	142326989	142326989	+	Intron	SNP	C	G	G			TCGA-CG-4462-01A-01D-1158-08	TCGA-CG-4462-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:142326989C>G	uc011krp.1	+						uc011krr.1_Intron|uc003vzo.2_Missense_Mutation_p.T96S					Homo sapiens mRNA for T cell receptor beta variable 3, partial cds, clone: un 191.																														---	---	---	---
CSMD1	64478	broad.mit.edu	37	8	2820779	2820779	+	Missense_Mutation	SNP	C	T	T			TCGA-CG-4462-01A-01D-1158-08	TCGA-CG-4462-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:2820779C>T	uc011kwk.1	-	60	9812	c.9422G>A	c.(9421-9423)CGC>CAC	p.R3141H	CSMD1_uc011kwj.1_Missense_Mutation_p.R2470H|CSMD1_uc010lrg.2_Missense_Mutation_p.R1032H	NM_033225	NP_150094	Q96PZ7	CSMD1_HUMAN	CUB and Sushi multiple domains 1 precursor	3141	Sushi 25.|Extracellular (Potential).					integral to membrane				breast(20)|large_intestine(5)	25		all_cancers(1;5.7e-41)|all_epithelial(1;2.54e-36)|Lung NSC(1;7.54e-11)|all_lung(1;3.2e-10)|Hepatocellular(1;3.78e-05)|Breast(1;0.000196)|Myeloproliferative disorder(4;0.000374)|Esophageal squamous(1;0.0157)|Ovarian(12;0.091)|Renal(68;0.144)|Colorectal(14;0.234)		all cancers(1;5.03e-41)|Epithelial(1;4.78e-31)|Lung(1;1.14e-14)|LUSC - Lung squamous cell carcinoma(1;2.34e-14)|GBM - Glioblastoma multiforme(1;4.49e-10)|Colorectal(4;1.18e-07)|OV - Ovarian serous cystadenocarcinoma(1;3.2e-07)|BRCA - Breast invasive adenocarcinoma(1;6.17e-07)|COAD - Colon adenocarcinoma(4;0.000539)|READ - Rectum adenocarcinoma(4;0.00896)|Kidney(5;0.00957)|KIRC - Kidney renal clear cell carcinoma(5;0.0689)														---	---	---	---
RIMS2	9699	broad.mit.edu	37	8	104898339	104898339	+	Silent	SNP	C	T	T			TCGA-CG-4462-01A-01D-1158-08	TCGA-CG-4462-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:104898339C>T	uc003yls.2	+	2	1087	c.846C>T	c.(844-846)GGC>GGT	p.G282G	RIMS2_uc003ylp.2_Silent_p.G504G|RIMS2_uc003ylw.2_Silent_p.G312G|RIMS2_uc003ylq.2_Silent_p.G312G|RIMS2_uc003ylr.2_Silent_p.G312G	NM_014677	NP_055492	Q9UQ26	RIMS2_HUMAN	regulating synaptic membrane exocytosis 2	535					intracellular protein transport	cell junction|presynaptic membrane	metal ion binding|Rab GTPase binding			ovary(6)|lung(2)|breast(2)|skin(2)|large_intestine(1)|central_nervous_system(1)|pancreas(1)	15			OV - Ovarian serous cystadenocarcinoma(57;7.7e-07)|STAD - Stomach adenocarcinoma(118;0.229)												HNSCC(12;0.0054)			---	---	---	---
COL14A1	7373	broad.mit.edu	37	8	121322263	121322263	+	Nonsense_Mutation	SNP	C	T	T			TCGA-CG-4462-01A-01D-1158-08	TCGA-CG-4462-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:121322263C>T	uc003yox.2	+	37	4682	c.4417C>T	c.(4417-4419)CGA>TGA	p.R1473*	COL14A1_uc003yoz.2_Nonsense_Mutation_p.R438*	NM_021110	NP_066933	Q05707	COEA1_HUMAN	collagen, type XIV, alpha 1 precursor	1473	Triple-helical region 1 (COL2).				cell-cell adhesion|collagen fibril organization	collagen type XIV|extracellular space	collagen binding|extracellular matrix structural constituent|protein binding, bridging			ovary(4)|kidney(4)|skin(2)|pancreas(1)|central_nervous_system(1)	12	Lung NSC(37;6.52e-07)|Ovarian(258;0.00769)|Hepatocellular(40;0.161)		OV - Ovarian serous cystadenocarcinoma(1;6.47e-38)|STAD - Stomach adenocarcinoma(47;0.00503)															---	---	---	---
OC90	729330	broad.mit.edu	37	8	133036823	133036823	+	Missense_Mutation	SNP	C	T	T			TCGA-CG-4462-01A-01D-1158-08	TCGA-CG-4462-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:133036823C>T	uc003ytg.2	-	13	1339	c.1339G>A	c.(1339-1341)GAG>AAG	p.E447K	OC90_uc011lix.1_Missense_Mutation_p.E447K	NM_001080399	NP_001073868	Q02509	OC90_HUMAN	otoconin 90	463					lipid catabolic process|phospholipid metabolic process		calcium ion binding|phospholipase A2 activity			ovary(2)|skin(1)	3	Esophageal squamous(12;0.00693)|Ovarian(258;0.00769)|Acute lymphoblastic leukemia(118;0.155)		BRCA - Breast invasive adenocarcinoma(115;0.000805)															---	---	---	---
SLC45A4	57210	broad.mit.edu	37	8	142227211	142227211	+	Silent	SNP	G	A	A	rs144829418	byFrequency	TCGA-CG-4462-01A-01D-1158-08	TCGA-CG-4462-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:142227211G>A	uc003ywd.1	-	5	1862	c.1554C>T	c.(1552-1554)GCC>GCT	p.A518A	SLC45A4_uc003ywc.1_Silent_p.A518A|SLC45A4_uc010meq.1_Silent_p.A516A	NM_001080431	NP_001073900	Q5BKX6	S45A4_HUMAN	solute carrier family 45, member 4	569	Helical; (Potential).				transport	integral to membrane				ovary(2)	2	all_cancers(97;1.52e-15)|all_epithelial(106;2.92e-14)|Lung NSC(106;1.23e-05)|all_lung(105;1.75e-05)|Ovarian(258;0.01)|Acute lymphoblastic leukemia(118;0.155)		BRCA - Breast invasive adenocarcinoma(115;0.0493)															---	---	---	---
PGM5	5239	broad.mit.edu	37	9	71098810	71098810	+	Missense_Mutation	SNP	C	T	T			TCGA-CG-4462-01A-01D-1158-08	TCGA-CG-4462-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr9:71098810C>T	uc004agr.2	+	9	1554	c.1325C>T	c.(1324-1326)ACG>ATG	p.T442M		NM_021965	NP_068800	Q15124	PGM5_HUMAN	phosphoglucomutase 5	442					cell adhesion|cellular calcium ion homeostasis|glucose metabolic process	costamere|dystrophin-associated glycoprotein complex|focal adhesion|intercalated disc|internal side of plasma membrane|sarcolemma|spot adherens junction|stress fiber|Z disc	intramolecular transferase activity, phosphotransferases|magnesium ion binding|structural molecule activity			ovary(1)|pancreas(1)	2																		---	---	---	---
FLJ46321	389763	broad.mit.edu	37	9	84608947	84608947	+	Silent	SNP	A	C	C			TCGA-CG-4462-01A-01D-1158-08	TCGA-CG-4462-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr9:84608947A>C	uc004amn.2	+	4	3609	c.3562A>C	c.(3562-3564)AGA>CGA	p.R1188R		NM_001001670	NP_001001670	Q6ZQQ2	F75D1_HUMAN	hypothetical protein LOC389763	1188						integral to membrane					0																		---	---	---	---
ZNF618	114991	broad.mit.edu	37	9	116770668	116770668	+	Intron	SNP	T	C	C			TCGA-CG-4462-01A-01D-1158-08	TCGA-CG-4462-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr9:116770668T>C	uc004bid.2	+						ZNF618_uc004bib.1_Intron|ZNF618_uc004bic.2_Intron|ZNF618_uc011lxi.1_Intron|ZNF618_uc011lxj.1_Intron	NM_133374	NP_588615			zinc finger protein 618						regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0																		---	---	---	---
ORM1	5004	broad.mit.edu	37	9	117087117	117087117	+	Missense_Mutation	SNP	A	G	G			TCGA-CG-4462-01A-01D-1158-08	TCGA-CG-4462-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr9:117087117A>G	uc004bik.3	+	4	487	c.376A>G	c.(376-378)AAG>GAG	p.K126E	ORM1_uc011lxo.1_Missense_Mutation_p.K126E	NM_000607	NP_000598	P02763	A1AG1_HUMAN	orosomucoid 1 precursor	126					acute-phase response|regulation of immune system process|transport	extracellular space	protein binding				0		Myeloproliferative disorder(63;0.163)			Acenocoumarol(DB01418)|Alfentanil(DB00802)|Aprindine(DB01429)|Disopyramide(DB00280)|Penbutolol(DB01359)|Phenprocoumon(DB00946)|Quinidine(DB00908)|Tamsulosin(DB00706)													---	---	---	---
FIBCD1	84929	broad.mit.edu	37	9	133779715	133779715	+	Intron	SNP	G	A	A			TCGA-CG-4462-01A-01D-1158-08	TCGA-CG-4462-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr9:133779715G>A	uc004bzz.2	-						FIBCD1_uc011mcc.1_Intron	NM_032843	NP_116232			fibrinogen C domain containing 1						signal transduction	extracellular space|integral to membrane	chitin binding|metal ion binding|receptor binding				0	all_hematologic(7;0.0028)			OV - Ovarian serous cystadenocarcinoma(145;3.52e-05)|Epithelial(140;0.00019)														---	---	---	---
MYO3A	53904	broad.mit.edu	37	10	26457674	26457674	+	Missense_Mutation	SNP	A	C	C			TCGA-CG-4462-01A-01D-1158-08	TCGA-CG-4462-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:26457674A>C	uc001isn.2	+	28	3505	c.3145A>C	c.(3145-3147)AAT>CAT	p.N1049H	MYO3A_uc009xkp.1_RNA|MYO3A_uc009xkq.1_Intron	NM_017433	NP_059129	Q8NEV4	MYO3A_HUMAN	myosin IIIA	1049					protein autophosphorylation|response to stimulus|sensory perception of sound|visual perception	cytoplasm|filamentous actin|filopodium|myosin complex	actin binding|actin-dependent ATPase activity|ADP binding|ATP binding|calmodulin binding|plus-end directed microfilament motor activity|protein serine/threonine kinase activity			ovary(6)|stomach(3)|lung(3)|central_nervous_system(2)|breast(1)|skin(1)|kidney(1)|pancreas(1)	18																		---	---	---	---
KNDC1	85442	broad.mit.edu	37	10	135027241	135027241	+	Intron	SNP	C	T	T			TCGA-CG-4462-01A-01D-1158-08	TCGA-CG-4462-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:135027241C>T	uc001llz.1	+							NM_152643	NP_689856			kinase non-catalytic C-lobe domain (KIND)						regulation of small GTPase mediated signal transduction|small GTPase mediated signal transduction					upper_aerodigestive_tract(1)|ovary(1)	2		all_cancers(35;4.16e-10)|all_epithelial(44;2.07e-08)|Lung NSC(174;0.000845)|all_lung(145;0.00145)|all_neural(114;0.0299)|Melanoma(40;0.123)|Colorectal(31;0.173)|Glioma(114;0.203)		OV - Ovarian serous cystadenocarcinoma(35;8.77e-06)|Epithelial(32;1.13e-05)|all cancers(32;1.51e-05)														---	---	---	---
C11orf41	25758	broad.mit.edu	37	11	33667477	33667477	+	Silent	SNP	G	A	A			TCGA-CG-4462-01A-01D-1158-08	TCGA-CG-4462-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:33667477G>A	uc001mup.3	+	16	4906	c.4782G>A	c.(4780-4782)TCG>TCA	p.S1594S		NM_012194	NP_036326	Q6ZVL6	CK041_HUMAN	hypothetical protein LOC25758	1588						integral to membrane				ovary(2)	2																		---	---	---	---
BEST1	7439	broad.mit.edu	37	11	61729952	61729952	+	Missense_Mutation	SNP	C	G	G			TCGA-CG-4462-01A-01D-1158-08	TCGA-CG-4462-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:61729952C>G	uc001nss.2	+	10	1906	c.1326C>G	c.(1324-1326)AAC>AAG	p.N442K	BEST1_uc010rlq.1_3'UTR|BEST1_uc010rlr.1_3'UTR|BEST1_uc010rls.1_Missense_Mutation_p.N70K|BEST1_uc001nsr.2_Missense_Mutation_p.N382K|BEST1_uc009ynt.2_RNA|BEST1_uc010rlt.1_Missense_Mutation_p.N382K|BEST1_uc001nst.2_Missense_Mutation_p.N355K|BEST1_uc010rlu.1_3'UTR|BEST1_uc010rlv.1_Missense_Mutation_p.N336K	NM_004183	NP_004174	O76090	BEST1_HUMAN	bestrophin 1 isoform 1	442	Cytoplasmic (Potential).				response to stimulus|transepithelial chloride transport|visual perception	basolateral plasma membrane|chloride channel complex|cytosol|membrane fraction	chloride channel activity			central_nervous_system(1)	1																		---	---	---	---
CCDC81	60494	broad.mit.edu	37	11	86123466	86123466	+	Missense_Mutation	SNP	C	T	T			TCGA-CG-4462-01A-01D-1158-08	TCGA-CG-4462-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:86123466C>T	uc001pbx.1	+	11	1684	c.1256C>T	c.(1255-1257)GCG>GTG	p.A419V	CCDC81_uc001pbw.1_Missense_Mutation_p.A329V|CCDC81_uc010rtq.1_Missense_Mutation_p.A202V|CCDC81_uc001pby.1_Missense_Mutation_p.A154V	NM_001156474	NP_001149946	Q6ZN84	CCD81_HUMAN	coiled-coil domain containing 81 isoform 1	419										skin(1)	1		Acute lymphoblastic leukemia(157;5.51e-06)|all_hematologic(158;0.00535)																---	---	---	---
HINFP	25988	broad.mit.edu	37	11	119005167	119005167	+	Missense_Mutation	SNP	C	T	T			TCGA-CG-4462-01A-01D-1158-08	TCGA-CG-4462-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:119005167C>T	uc001pvp.2	+	11	1702	c.1513C>T	c.(1513-1515)CTT>TTT	p.L505F	HINFP_uc001pvq.2_Missense_Mutation_p.L505F|HINFP_uc001pvr.2_Missense_Mutation_p.L258F	NM_015517	NP_056332	Q9BQA5	HINFP_HUMAN	MBD2 (methyl-CpG-binding protein)-interacting	505	Interaction with NPAT.				DNA damage checkpoint|DNA repair|establishment of protein localization|in utero embryonic development|myoblast differentiation|negative regulation of transcription, DNA-dependent|positive regulation of transcription, DNA-dependent|regulation of transcription involved in G1/S phase of mitotic cell cycle	Cajal body	enzyme binding|histone binding|sequence-specific DNA binding transcription factor activity|transcription coactivator activity|transcription regulatory region DNA binding|zinc ion binding			pancreas(2)|ovary(1)|skin(1)	4																OREG0021397	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	---	---	---	---
RAD51AP1	10635	broad.mit.edu	37	12	4662198	4662198	+	Silent	SNP	C	T	T			TCGA-CG-4462-01A-01D-1158-08	TCGA-CG-4462-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:4662198C>T	uc001qmw.2	+	8	813	c.657C>T	c.(655-657)GAC>GAT	p.D219D	RAD51AP1_uc001qmu.2_Silent_p.D202D|RAD51AP1_uc001qmv.2_Silent_p.D165D|RAD51AP1_uc010sep.1_Silent_p.D84D|RAD51AP1_uc010seq.1_Silent_p.D84D|RAD51AP1_uc009zeg.2_RNA	NM_001130862	NP_001124334	Q96B01	R51A1_HUMAN	RAD51 associated protein 1 isoform a	219					double-strand break repair via homologous recombination		double-stranded DNA binding|protein binding|protein binding|RNA binding|single-stranded DNA binding				0			Colorectal(7;0.00306)|COAD - Colon adenocarcinoma(12;0.0389)															---	---	---	---
NCAPD2	9918	broad.mit.edu	37	12	6637448	6637448	+	Missense_Mutation	SNP	C	T	T			TCGA-CG-4462-01A-01D-1158-08	TCGA-CG-4462-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:6637448C>T	uc001qoo.2	+	25	3299	c.3253C>T	c.(3253-3255)CGC>TGC	p.R1085C	NCAPD2_uc009zen.1_Missense_Mutation_p.R957C|NCAPD2_uc010sfd.1_Missense_Mutation_p.R1040C	NM_014865	NP_055680	Q15021	CND1_HUMAN	non-SMC condensin I complex, subunit D2	1085					cell division|mitotic chromosome condensation	condensin core heterodimer|cytoplasm	histone binding			ovary(2)|lung(1)|breast(1)|kidney(1)	5																		---	---	---	---
PZP	5858	broad.mit.edu	37	12	9344831	9344831	+	Missense_Mutation	SNP	C	T	T			TCGA-CG-4462-01A-01D-1158-08	TCGA-CG-4462-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:9344831C>T	uc001qvl.2	-	13	1533	c.1504G>A	c.(1504-1506)GTC>ATC	p.V502I	PZP_uc009zgl.2_Missense_Mutation_p.V371I	NM_002864	NP_002855			pregnancy-zone protein precursor											ovary(3)|upper_aerodigestive_tract(1)|large_intestine(1)	5																		---	---	---	---
FAM186B	84070	broad.mit.edu	37	12	49993507	49993507	+	Missense_Mutation	SNP	C	T	T			TCGA-CG-4462-01A-01D-1158-08	TCGA-CG-4462-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:49993507C>T	uc001ruo.2	-	4	2089	c.1916G>A	c.(1915-1917)GGG>GAG	p.G639E	FAM186B_uc010smk.1_Missense_Mutation_p.G549E	NM_032130	NP_115506	Q8IYM0	F186B_HUMAN	hypothetical protein LOC84070	639						protein complex				ovary(1)	1																		---	---	---	---
SSH1	54434	broad.mit.edu	37	12	109201542	109201542	+	Missense_Mutation	SNP	C	A	A			TCGA-CG-4462-01A-01D-1158-08	TCGA-CG-4462-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:109201542C>A	uc001tnm.2	-	8	685	c.598G>T	c.(598-600)GGG>TGG	p.G200W	SSH1_uc001tnl.2_5'Flank|SSH1_uc010sxg.1_Missense_Mutation_p.G211W|SSH1_uc001tnn.3_Missense_Mutation_p.G200W|SSH1_uc001tno.1_Missense_Mutation_p.G104W	NM_018984	NP_061857	Q8WYL5	SSH1_HUMAN	slingshot 1 isoform 1	200					actin cytoskeleton organization|cell morphogenesis|cellular response to ATP|regulation of actin polymerization or depolymerization|regulation of axonogenesis|regulation of cellular protein metabolic process|regulation of lamellipodium assembly	cleavage furrow|cytoplasm|cytoskeleton|lamellipodium|midbody|plasma membrane	actin binding|protein tyrosine phosphatase activity|protein tyrosine/serine/threonine phosphatase activity			ovary(4)	4																		---	---	---	---
MVK	4598	broad.mit.edu	37	12	110013842	110013842	+	Silent	SNP	C	A	A			TCGA-CG-4462-01A-01D-1158-08	TCGA-CG-4462-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:110013842C>A	uc001toy.3	+	3	302	c.118C>A	c.(118-120)CGG>AGG	p.R40R	MMAB_uc001tou.2_5'Flank|MMAB_uc001tov.2_5'Flank|MMAB_uc001tow.2_5'Flank|MMAB_uc010sxq.1_5'Flank|MMAB_uc001tox.2_5'Flank|MVK_uc009zvk.2_Silent_p.R40R|MVK_uc010sxr.1_Silent_p.R40R|MVK_uc001toz.3_5'UTR|MVK_uc001tpc.3_RNA	NM_001114185	NP_001107657	Q03426	KIME_HUMAN	mevalonate kinase	40					cholesterol biosynthetic process|isoprenoid biosynthetic process	cytosol|peroxisome	ATP binding|identical protein binding|mevalonate kinase activity				0																		---	---	---	---
TBX5	6910	broad.mit.edu	37	12	114841689	114841689	+	Silent	SNP	G	A	A			TCGA-CG-4462-01A-01D-1158-08	TCGA-CG-4462-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:114841689G>A	uc001tvo.2	-	2	510	c.15C>T	c.(13-15)GAC>GAT	p.D5D	TBX5_uc001tvp.2_Silent_p.D5D|TBX5_uc001tvq.2_Intron|TBX5_uc010syv.1_Silent_p.D5D	NM_181486	NP_852259	Q99593	TBX5_HUMAN	T-box 5 isoform 1	5					cardiac left ventricle formation|cell migration involved in coronary vasculogenesis|cell-cell signaling|embryonic arm morphogenesis|induction of apoptosis|negative regulation of cardiac muscle cell proliferation|negative regulation of cell migration|negative regulation of epithelial to mesenchymal transition|pericardium development|positive regulation of cardioblast differentiation|positive regulation of transcription from RNA polymerase II promoter|ventricular septum development	cytoplasm|nucleus	protein binding|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|transcription factor binding			ovary(6)|pancreas(1)|skin(1)	8	Medulloblastoma(191;0.163)|all_neural(191;0.178)			BRCA - Breast invasive adenocarcinoma(302;0.0893)														---	---	---	---
COG3	83548	broad.mit.edu	37	13	46090314	46090314	+	Missense_Mutation	SNP	C	T	T			TCGA-CG-4462-01A-01D-1158-08	TCGA-CG-4462-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr13:46090314C>T	uc001vak.2	+	17	1947	c.1846C>T	c.(1846-1848)CTT>TTT	p.L616F	COG3_uc010tfv.1_Missense_Mutation_p.L453F|COG3_uc010aci.2_Missense_Mutation_p.L392F	NM_031431	NP_113619	Q96JB2	COG3_HUMAN	component of golgi transport complex 3	616					ER to Golgi vesicle-mediated transport|intra-Golgi vesicle-mediated transport|intracellular protein transport|protein glycosylation|protein localization to organelle|protein stabilization|retrograde vesicle-mediated transport, Golgi to ER	cis-Golgi network|Golgi cisterna membrane|Golgi transport complex	protein binding|protein transporter activity			breast(1)|skin(1)	2		Lung NSC(96;0.000145)|Breast(56;0.000596)|Prostate(109;0.00438)|Hepatocellular(98;0.0207)|Lung SC(185;0.0262)	KIRC - Kidney renal clear cell carcinoma(16;0.234)	GBM - Glioblastoma multiforme(144;0.000124)														---	---	---	---
SLITRK5	26050	broad.mit.edu	37	13	88328449	88328449	+	Missense_Mutation	SNP	G	A	A			TCGA-CG-4462-01A-01D-1158-08	TCGA-CG-4462-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr13:88328449G>A	uc001vln.2	+	2	1025	c.806G>A	c.(805-807)CGC>CAC	p.R269H	SLITRK5_uc010tic.1_Intron	NM_015567	NP_056382	O94991	SLIK5_HUMAN	SLIT and NTRK-like family, member 5 precursor	269	LRRCT 1.|Extracellular (Potential).					integral to membrane				ovary(2)|pancreas(2)|central_nervous_system(1)	5	all_neural(89;0.101)|Medulloblastoma(90;0.163)																	---	---	---	---
TTLL5	23093	broad.mit.edu	37	14	76147917	76147917	+	Nonsense_Mutation	SNP	C	T	T			TCGA-CG-4462-01A-01D-1158-08	TCGA-CG-4462-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr14:76147917C>T	uc001xrx.2	+	4	416	c.211C>T	c.(211-213)CGA>TGA	p.R71*	TTLL5_uc001xrw.1_Nonsense_Mutation_p.R71*|TTLL5_uc010ask.1_Nonsense_Mutation_p.R71*|TTLL5_uc001xrv.2_Nonsense_Mutation_p.R71*	NM_015072	NP_055887	Q6EMB2	TTLL5_HUMAN	tubulin tyrosine ligase-like family, member 5	71	TTL.				protein modification process|transcription, DNA-dependent	centrosome|cilium|microtubule basal body|nucleus	tubulin-tyrosine ligase activity			ovary(2)|central_nervous_system(1)	3				BRCA - Breast invasive adenocarcinoma(234;0.029)														---	---	---	---
C14orf145	145508	broad.mit.edu	37	14	81209494	81209494	+	Missense_Mutation	SNP	A	G	G			TCGA-CG-4462-01A-01D-1158-08	TCGA-CG-4462-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr14:81209494A>G	uc001xux.2	-	18	2902	c.2731T>C	c.(2731-2733)TCT>CCT	p.S911P	C14orf145_uc010asz.1_RNA	NM_152446	NP_689659	Q6ZU80	CE128_HUMAN	hypothetical protein LOC145508	911	Potential.					centriole|spindle pole					0				BRCA - Breast invasive adenocarcinoma(234;0.0586)														---	---	---	---
EML1	2009	broad.mit.edu	37	14	100377910	100377910	+	Silent	SNP	G	T	T			TCGA-CG-4462-01A-01D-1158-08	TCGA-CG-4462-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr14:100377910G>T	uc001ygs.2	+	13	1560	c.1491G>T	c.(1489-1491)ACG>ACT	p.T497T	EML1_uc010tww.1_Silent_p.T485T|EML1_uc001ygq.2_Silent_p.T516T|EML1_uc001ygr.2_Silent_p.T516T	NM_004434	NP_004425	O00423	EMAL1_HUMAN	echinoderm microtubule associated protein like 1	497	WD 5.					cytoplasm|microtubule|microtubule associated complex	calcium ion binding|protein binding			large_intestine(2)|pancreas(1)|ovary(1)|skin(1)	5		Melanoma(154;0.0879)|all_epithelial(191;0.216)																---	---	---	---
MIR495	574453	broad.mit.edu	37	14	101500139	101500139	+	RNA	SNP	C	T	T			TCGA-CG-4462-01A-01D-1158-08	TCGA-CG-4462-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr14:101500139C>T	hsa-mir-495|MI0003135	+			c.48C>T																				0																		---	---	---	---
TECPR2	9895	broad.mit.edu	37	14	102906877	102906877	+	Missense_Mutation	SNP	G	C	C			TCGA-CG-4462-01A-01D-1158-08	TCGA-CG-4462-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr14:102906877G>C	uc001ylw.1	+	11	2831	c.2683G>C	c.(2683-2685)GTG>CTG	p.V895L	TECPR2_uc010awl.2_Missense_Mutation_p.V895L|TECPR2_uc010txx.1_Missense_Mutation_p.V58L	NM_014844	NP_055659	O15040	TCPR2_HUMAN	tectonin beta-propeller repeat containing 2	895							protein binding			lung(1)|central_nervous_system(1)|skin(1)	3																		---	---	---	---
PPP1R13B	23368	broad.mit.edu	37	14	104212794	104212794	+	Missense_Mutation	SNP	C	T	T			TCGA-CG-4462-01A-01D-1158-08	TCGA-CG-4462-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr14:104212794C>T	uc001yof.1	-	9	1349	c.1066G>A	c.(1066-1068)GGA>AGA	p.G356R	PPP1R13B_uc010awv.1_RNA|PPP1R13B_uc001yog.1_Missense_Mutation_p.G223R	NM_015316	NP_056131	Q96KQ4	ASPP1_HUMAN	apoptosis-stimulating protein of p53, 1	356					apoptosis|induction of apoptosis|negative regulation of cell cycle	cytoplasm|nucleus|plasma membrane	protein binding			ovary(1)	1		all_cancers(154;0.173)|all_epithelial(191;0.131)|Melanoma(154;0.155)																---	---	---	---
LBXCOR1	390598	broad.mit.edu	37	15	68118709	68118709	+	Silent	SNP	C	T	T			TCGA-CG-4462-01A-01D-1158-08	TCGA-CG-4462-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr15:68118709C>T	uc002aqy.1	+	2	516	c.516C>T	c.(514-516)TTC>TTT	p.F172F		NM_001031807	NP_001026977	P84550	SKOR1_HUMAN	transcriptional corepressor Corl1	181					negative regulation of BMP signaling pathway|negative regulation of transcription from RNA polymerase II promoter|negative regulation of transforming growth factor beta receptor signaling pathway|transcription, DNA-dependent	cytoplasm|dendrite|neuronal cell body|nucleus	nucleotide binding|SMAD binding|transcription repressor activity				0																		---	---	---	---
EFTUD1	79631	broad.mit.edu	37	15	82532780	82532780	+	Missense_Mutation	SNP	G	C	C			TCGA-CG-4462-01A-01D-1158-08	TCGA-CG-4462-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr15:82532780G>C	uc002bgt.1	-	6	664	c.495C>G	c.(493-495)CAC>CAG	p.H165Q	EFTUD1_uc002bgu.1_Missense_Mutation_p.H114Q	NM_024580	NP_078856	Q7Z2Z2	ETUD1_HUMAN	elongation factor Tu GTP binding domain	165					mature ribosome assembly		GTP binding|GTPase activity|ribosome binding|translation elongation factor activity			ovary(1)	1																		---	---	---	---
SRCAP	10847	broad.mit.edu	37	16	30745292	30745292	+	Missense_Mutation	SNP	T	C	C			TCGA-CG-4462-01A-01D-1158-08	TCGA-CG-4462-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr16:30745292T>C	uc002dze.1	+	30	6957	c.6572T>C	c.(6571-6573)ATT>ACT	p.I2191T	SRCAP_uc002dzf.2_RNA|SRCAP_uc002dzg.1_Missense_Mutation_p.I1986T	NM_006662	NP_006653	Q6ZRS2	SRCAP_HUMAN	Snf2-related CBP activator protein	2191	Helicase C-terminal.				interspecies interaction between organisms|regulation of transcription from RNA polymerase II promoter|transcription, DNA-dependent	Golgi apparatus|nucleus|protein complex	ATP binding|DNA binding|helicase activity|histone acetyltransferase activity|transcription coactivator activity			ovary(3)|skin(1)	4			Colorectal(24;0.198)															---	---	---	---
FHOD1	29109	broad.mit.edu	37	16	67264254	67264254	+	Missense_Mutation	SNP	C	T	T			TCGA-CG-4462-01A-01D-1158-08	TCGA-CG-4462-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr16:67264254C>T	uc002esl.2	-	19	3126	c.3014G>A	c.(3013-3015)CGT>CAT	p.R1005H	FHOD1_uc002esk.2_Missense_Mutation_p.R64H|FHOD1_uc010ced.2_Missense_Mutation_p.R812H	NM_013241	NP_037373	Q9Y613	FHOD1_HUMAN	formin homology 2 domain containing 1	1005	FH2.				actin cytoskeleton organization	cytoplasm|cytoskeleton|nucleus	actin binding			breast(2)|ovary(1)	3		Ovarian(137;0.0563)		OV - Ovarian serous cystadenocarcinoma(108;0.000691)|Epithelial(162;0.00462)|all cancers(182;0.0434)														---	---	---	---
PHLPP2	23035	broad.mit.edu	37	16	71715755	71715755	+	Missense_Mutation	SNP	C	G	G			TCGA-CG-4462-01A-01D-1158-08	TCGA-CG-4462-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr16:71715755C>G	uc002fax.2	-	5	795	c.789G>C	c.(787-789)GAG>GAC	p.E263D	PHLPP2_uc002fav.2_RNA|PHLPP2_uc010cgf.2_Missense_Mutation_p.E263D|PHLPP2_uc002fay.1_Missense_Mutation_p.E263D	NM_015020	NP_055835	Q6ZVD8	PHLP2_HUMAN	PH domain and leucine rich repeat protein	263	LRR 1.					cytoplasm|membrane|nucleus	metal ion binding|phosphoprotein phosphatase activity			ovary(1)|central_nervous_system(1)	2																		---	---	---	---
CNTNAP4	85445	broad.mit.edu	37	16	76389294	76389294	+	Silent	SNP	C	A	A	rs138220882		TCGA-CG-4462-01A-01D-1158-08	TCGA-CG-4462-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr16:76389294C>A	uc002feu.1	+	5	661	c.276C>A	c.(274-276)ACC>ACA	p.T92T	CNTNAP4_uc002fev.1_Silent_p.T4T|CNTNAP4_uc010chb.1_Silent_p.T67T|CNTNAP4_uc002fex.1_Silent_p.T95T|CNTNAP4_uc002few.2_Silent_p.T67T	NM_033401	NP_207837	Q9C0A0	CNTP4_HUMAN	cell recognition protein CASPR4 isoform 1	92	Extracellular (Potential).|F5/8 type C.				cell adhesion|signal transduction	integral to membrane	receptor binding			ovary(1)|pancreas(1)	2																		---	---	---	---
BAHCC1	57597	broad.mit.edu	37	17	79430011	79430011	+	Intron	SNP	C	T	T			TCGA-CG-4462-01A-01D-1158-08	TCGA-CG-4462-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:79430011C>T	uc002kaf.2	+							NM_001080519	NP_001073988			BAH domain and coiled-coil containing 1								DNA binding			ovary(1)	1	all_neural(118;0.0804)|Melanoma(429;0.242)		BRCA - Breast invasive adenocarcinoma(99;0.0224)|OV - Ovarian serous cystadenocarcinoma(97;0.116)															---	---	---	---
L3MBTL4	91133	broad.mit.edu	37	18	6046733	6046733	+	Missense_Mutation	SNP	C	T	T	rs12958879		TCGA-CG-4462-01A-01D-1158-08	TCGA-CG-4462-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr18:6046733C>T	uc002kmz.3	-	17	1625	c.1465G>A	c.(1465-1467)GGT>AGT	p.G489S	L3MBTL4_uc010dkt.2_Missense_Mutation_p.G489S|L3MBTL4_uc002kmy.3_Intron	NM_173464	NP_775735	Q8NA19	LMBL4_HUMAN	l(3)mbt-like 4	489					chromatin modification	nucleus	sequence-specific DNA binding transcription factor activity|zinc ion binding			skin(2)|pancreas(1)	3		Colorectal(10;0.0249)																---	---	---	---
SMAD2	4087	broad.mit.edu	37	18	45368211	45368211	+	Nonsense_Mutation	SNP	G	C	C			TCGA-CG-4462-01A-01D-1158-08	TCGA-CG-4462-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr18:45368211G>C	uc002lcy.2	-	11	1639	c.1391C>G	c.(1390-1392)TCA>TGA	p.S464*	SMAD2_uc002lcz.2_Nonsense_Mutation_p.S464*|SMAD2_uc010xdc.1_Nonsense_Mutation_p.S434*	NM_005901	NP_005892	Q15796	SMAD2_HUMAN	Sma- and Mad-related protein 2 isoform 1	464	MH2.			S->A: Loss of phosphorylation by TGFBR1; when associated with A-465 and A-467.	anterior/posterior pattern formation|cell fate commitment|common-partner SMAD protein phosphorylation|intracellular signal transduction|mesoderm formation|negative regulation of transcription, DNA-dependent|palate development|paraxial mesoderm morphogenesis|positive regulation of epithelial to mesenchymal transition|positive regulation of transcription from RNA polymerase II promoter|primary miRNA processing|regulation of binding|regulation of transforming growth factor beta receptor signaling pathway|response to cholesterol|SMAD protein complex assembly|transforming growth factor beta receptor signaling pathway|zygotic specification of dorsal/ventral axis	activin responsive factor complex|cytosol	activating transcription factor binding|co-SMAD binding|double-stranded DNA binding|I-SMAD binding|R-SMAD binding|sequence-specific DNA binding transcription factor activity|transforming growth factor beta receptor, pathway-specific cytoplasmic mediator activity|type I transforming growth factor beta receptor binding|ubiquitin protein ligase binding	p.R462fs*>4(1)		large_intestine(3)|lung(1)|central_nervous_system(1)	5																		---	---	---	---
FBXO15	201456	broad.mit.edu	37	18	71790684	71790684	+	Missense_Mutation	SNP	C	A	A			TCGA-CG-4462-01A-01D-1158-08	TCGA-CG-4462-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr18:71790684C>A	uc002lle.2	-	8	1165	c.829G>T	c.(829-831)GGC>TGC	p.G277C	FBXO15_uc002llf.2_Missense_Mutation_p.G353C	NM_152676	NP_689889	Q8NCQ5	FBX15_HUMAN	F-box protein 15 isoform 1	277										ovary(2)|pancreas(1)	3		Esophageal squamous(42;0.103)|Prostate(75;0.173)		BRCA - Breast invasive adenocarcinoma(31;0.143)														---	---	---	---
SALL3	27164	broad.mit.edu	37	18	76755232	76755232	+	Missense_Mutation	SNP	C	T	T			TCGA-CG-4462-01A-01D-1158-08	TCGA-CG-4462-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr18:76755232C>T	uc002lmt.2	+	2	3241	c.3241C>T	c.(3241-3243)CCC>TCC	p.P1081S	SALL3_uc010dra.2_Missense_Mutation_p.P616S	NM_171999	NP_741996	Q9BXA9	SALL3_HUMAN	sal-like 3	1081					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(2)|large_intestine(1)|central_nervous_system(1)	4		Esophageal squamous(42;0.129)|Melanoma(33;0.16)|Prostate(75;0.167)		OV - Ovarian serous cystadenocarcinoma(15;4.69e-06)|BRCA - Breast invasive adenocarcinoma(31;0.0256)														---	---	---	---
ICAM5	7087	broad.mit.edu	37	19	10401793	10401793	+	Missense_Mutation	SNP	C	T	T			TCGA-CG-4462-01A-01D-1158-08	TCGA-CG-4462-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:10401793C>T	uc002mnu.3	+	2	193	c.128C>T	c.(127-129)GCG>GTG	p.A43V	ICAM5_uc002mnv.3_5'Flank	NM_003259	NP_003250	Q9UMF0	ICAM5_HUMAN	intercellular adhesion molecule 5 precursor	43	Extracellular (Potential).				cell-cell adhesion	integral to plasma membrane				breast(3)	3			OV - Ovarian serous cystadenocarcinoma(20;2.64e-09)|Epithelial(33;4.31e-06)|all cancers(31;9.75e-06)															---	---	---	---
CILP2	148113	broad.mit.edu	37	19	19656264	19656264	+	Silent	SNP	C	T	T			TCGA-CG-4462-01A-01D-1158-08	TCGA-CG-4462-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:19656264C>T	uc002nmv.3	+	8	2995	c.2910C>T	c.(2908-2910)TAC>TAT	p.Y970Y	CILP2_uc002nmw.3_Silent_p.Y976Y	NM_153221	NP_694953	Q8IUL8	CILP2_HUMAN	cartilage intermediate layer protein 2	970						proteinaceous extracellular matrix	carbohydrate binding|carboxypeptidase activity			ovary(1)	1																		---	---	---	---
SIGLEC12	89858	broad.mit.edu	37	19	52001483	52001483	+	Missense_Mutation	SNP	G	T	T			TCGA-CG-4462-01A-01D-1158-08	TCGA-CG-4462-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:52001483G>T	uc002pwx.1	-	5	1250	c.1194C>A	c.(1192-1194)CAC>CAA	p.H398Q	SIGLEC12_uc002pww.1_Missense_Mutation_p.H280Q|SIGLEC12_uc010eoy.1_Missense_Mutation_p.H125Q	NM_053003	NP_443729	Q96PQ1	SIG12_HUMAN	sialic acid binding immunoglobulin-like	398	Ig-like C2-type 2.|Extracellular (Potential).				cell adhesion	integral to membrane	sugar binding			ovary(3)|skin(2)	5		all_neural(266;0.0199)		GBM - Glioblastoma multiforme(134;0.00161)|OV - Ovarian serous cystadenocarcinoma(262;0.0102)														---	---	---	---
TMC2	117532	broad.mit.edu	37	20	2591146	2591146	+	Missense_Mutation	SNP	C	T	T			TCGA-CG-4462-01A-01D-1158-08	TCGA-CG-4462-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr20:2591146C>T	uc002wgf.1	+	12	1510	c.1495C>T	c.(1495-1497)CGC>TGC	p.R499C	TMC2_uc002wgg.1_Missense_Mutation_p.R483C|TMC2_uc010zpw.1_Missense_Mutation_p.R331C|TMC2_uc010zpx.1_Missense_Mutation_p.R330C	NM_080751	NP_542789	Q8TDI7	TMC2_HUMAN	transmembrane cochlear-expressed protein 2	499	Extracellular (Potential).					integral to membrane				ovary(3)	3																		---	---	---	---
SETD4	54093	broad.mit.edu	37	21	37416162	37416162	+	Silent	SNP	G	A	A			TCGA-CG-4462-01A-01D-1158-08	TCGA-CG-4462-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr21:37416162G>A	uc002yuw.1	-	6	2192	c.819C>T	c.(817-819)GGC>GGT	p.G273G	SETD4_uc002yux.1_Silent_p.G249G|SETD4_uc002yuu.2_RNA|SETD4_uc002yuv.2_Silent_p.G273G|SETD4_uc002yuy.2_Silent_p.G273G|SETD4_uc002yuz.2_Silent_p.G249G|SETD4_uc002yva.2_Silent_p.G249G	NM_017438	NP_059134	Q9NVD3	SETD4_HUMAN	SET domain containing 4 isoform a	273	SET.									large_intestine(1)|ovary(1)	2																		---	---	---	---
GAL3ST1	9514	broad.mit.edu	37	22	30951395	30951395	+	Missense_Mutation	SNP	C	T	T			TCGA-CG-4462-01A-01D-1158-08	TCGA-CG-4462-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr22:30951395C>T	uc003aig.1	-	4	957	c.817G>A	c.(817-819)GTG>ATG	p.V273M	GAL3ST1_uc003aih.1_Missense_Mutation_p.V273M|GAL3ST1_uc003aii.1_Missense_Mutation_p.V273M|GAL3ST1_uc010gvz.1_Missense_Mutation_p.V273M	NM_004861	NP_004852	Q99999	G3ST1_HUMAN	galactose-3-O-sulfotransferase 1	273	Lumenal (Potential).				protein N-linked glycosylation	Golgi membrane|integral to plasma membrane|membrane fraction	galactosylceramide sulfotransferase activity				0																		---	---	---	---
MAGEB18	286514	broad.mit.edu	37	X	26157454	26157454	+	Missense_Mutation	SNP	T	G	G			TCGA-CG-4462-01A-01D-1158-08	TCGA-CG-4462-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chrX:26157454T>G	uc004dbq.1	+	2	539	c.352T>G	c.(352-354)TTG>GTG	p.L118V		NM_173699	NP_775970	Q96M61	MAGBI_HUMAN	melanoma antigen family B, 18	118	MAGE.						protein binding			central_nervous_system(1)	1																		---	---	---	---
ATP6AP2	10159	broad.mit.edu	37	X	40464996	40464996	+	Nonsense_Mutation	SNP	C	T	T			TCGA-CG-4462-01A-01D-1158-08	TCGA-CG-4462-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chrX:40464996C>T	uc004det.2	+	9	1144	c.1042C>T	c.(1042-1044)CGA>TGA	p.R348*	ATP6AP2_uc010nhc.2_RNA|ATP6AP2_uc011mkl.1_Nonsense_Mutation_p.R272*|ATP6AP2_uc011mkm.1_Nonsense_Mutation_p.R316*|ATP6AP2_uc011mkn.1_Nonsense_Mutation_p.R270*|ATP6AP2_uc004deu.1_Nonsense_Mutation_p.R212*	NM_005765	NP_005756	O75787	RENR_HUMAN	ATPase, H+ transporting, lysosomal accessory	348	Cytoplasmic (Potential).				angiotensin maturation|positive regulation of transforming growth factor-beta1 production|regulation of MAPKKK cascade	external side of plasma membrane|integral to membrane	protein binding|receptor activity				0																		---	---	---	---
HUWE1	10075	broad.mit.edu	37	X	53619553	53619553	+	Silent	SNP	C	A	A			TCGA-CG-4462-01A-01D-1158-08	TCGA-CG-4462-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chrX:53619553C>A	uc004dsp.2	-	33	4179	c.3777G>T	c.(3775-3777)CGG>CGT	p.R1259R	HUWE1_uc004dsn.2_Silent_p.R84R	NM_031407	NP_113584	Q7Z6Z7	HUWE1_HUMAN	HECT, UBA and WWE domain containing 1	1259					base-excision repair|cell differentiation|histone ubiquitination|protein monoubiquitination|protein polyubiquitination|protein ubiquitination involved in ubiquitin-dependent protein catabolic process	cytoplasm|nucleus	DNA binding|protein binding|ubiquitin-protein ligase activity			ovary(8)|large_intestine(4)|breast(4)|kidney(1)	17																		---	---	---	---
PHKA1	5255	broad.mit.edu	37	X	71895995	71895995	+	Silent	SNP	G	A	A			TCGA-CG-4462-01A-01D-1158-08	TCGA-CG-4462-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chrX:71895995G>A	uc004eax.3	-	6	844	c.543C>T	c.(541-543)TTC>TTT	p.F181F	PHKA1_uc004eay.3_Silent_p.F181F|PHKA1_uc011mqi.1_Silent_p.F181F	NM_002637	NP_002628	P46020	KPB1_HUMAN	phosphorylase kinase, alpha 1 (muscle) isoform	181					glucose metabolic process|glycogen catabolic process	cytosol|plasma membrane	calmodulin binding|glucan 1,4-alpha-glucosidase activity|phosphorylase kinase activity			ovary(3)|skin(1)	4	Renal(35;0.156)																	---	---	---	---
NOX1	27035	broad.mit.edu	37	X	100125713	100125713	+	Missense_Mutation	SNP	G	A	A			TCGA-CG-4462-01A-01D-1158-08	TCGA-CG-4462-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chrX:100125713G>A	uc004egj.2	-	2	342	c.136C>T	c.(136-138)CTT>TTT	p.L46F	uc010nnf.2_Intron|NOX1_uc004egl.3_Missense_Mutation_p.L46F|NOX1_uc010nne.2_Missense_Mutation_p.L46F	NM_007052	NP_008983	Q9Y5S8	NOX1_HUMAN	NADPH oxidase 1 isoform long	46	Helical; (Potential).				angiogenesis|cell migration|electron transport chain|FADH2 metabolic process|hydrogen peroxide metabolic process|inflammatory response|intracellular pH elevation|positive regulation of integrin biosynthetic process|positive regulation of smooth muscle cell proliferation|positive regulation vascular endothelial growth factor production|respiratory burst|response to pH|signal transduction|superoxide anion generation	cell junction|early endosome|invadopodium membrane|NADPH oxidase complex	electron carrier activity|flavin adenine dinucleotide binding|iron ion binding|Rac GTPase binding|superoxide-generating NADPH oxidase activity|voltage-gated proton channel activity			ovary(1)	1																		---	---	---	---
SLC25A5	292	broad.mit.edu	37	X	118604441	118604441	+	Missense_Mutation	SNP	G	A	A			TCGA-CG-4462-01A-01D-1158-08	TCGA-CG-4462-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chrX:118604441G>A	uc004erh.3	+	3	820	c.704G>A	c.(703-705)CGC>CAC	p.R235H	LOC100303728_uc004ere.1_5'Flank|LOC100303728_uc004erg.1_5'Flank	NM_001152	NP_001143	P05141	ADT2_HUMAN	adenine nucleotide translocator 2	235	Helical; Name=5; (By similarity).|Substrate recognition (By similarity).|Solcar 3.				chromosome segregation|energy reserve metabolic process|interspecies interaction between organisms|regulation of insulin secretion|viral reproduction	integral to plasma membrane|mitochondrial inner membrane|mitochondrial nucleoid|MMXD complex	adenine transmembrane transporter activity|protein binding			ovary(1)	1					Clodronate(DB00720)													---	---	---	---
SPANXN2	494119	broad.mit.edu	37	X	142795339	142795339	+	Missense_Mutation	SNP	T	G	G			TCGA-CG-4462-01A-01D-1158-08	TCGA-CG-4462-10A-01D-1158-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chrX:142795339T>G	uc004fbz.2	-	2	1093	c.339A>C	c.(337-339)GAA>GAC	p.E113D		NM_001009615	NP_001009615	Q5MJ10	SPXN2_HUMAN	SPANX-N2 protein	113										ovary(1)	1	Acute lymphoblastic leukemia(192;6.56e-05)																	---	---	---	---
