Hugo_Symbol	Entrez_Gene_Id	Center	NCBI_Build	Chromosome	Start_position	End_position	Strand	Variant_Classification	Variant_Type	Reference_Allele	Tumor_Seq_Allele1	Tumor_Seq_Allele2	dbSNP_RS	dbSNP_Val_Status	Tumor_Sample_Barcode	Matched_Norm_Sample_Barcode	Match_Norm_Seq_Allele1	Match_Norm_Seq_Allele2	Tumor_Validation_Allele1	Tumor_Validation_Allele2	Match_Norm_Validation_Allele1	Match_Norm_Validation_Allele2	Verification_Status	Validation_Status	Mutation_Status	Sequencing_Phase	Sequence_Source	Validation_Method	Score	BAM_file	Sequencer	Genome_Change	Annotation_Transcript	Transcript_Strand	Transcript_Exon	Transcript_Position	cDNA_Change	Codon_Change	Protein_Change	Other_Transcripts	Refseq_mRNA_Id	Refseq_prot_Id	SwissProt_acc_Id	SwissProt_entry_Id	Description	UniProt_AApos	UniProt_Region	UniProt_Site	UniProt_Natural_Variations	UniProt_Experimental_Info	GO_Biological_Process	GO_Cellular_Component	GO_Molecular_Function	COSMIC_overlapping_mutations	COSMIC_fusion_genes	COSMIC_tissue_types_affected	COSMIC_total_alterations_in_gene	Tumorscape_Amplification_Peaks	Tumorscape_Deletion_Peaks	TCGAscape_Amplification_Peaks	TCGAscape_Deletion_Peaks	DrugBank	ref_context	gc_content	CCLE_ONCOMAP_overlapping_mutations	CCLE_ONCOMAP_total_mutations_in_gene	CGC_Mutation_Type	CGC_Translocation_Partner	CGC_Tumor_Types_Somatic	CGC_Tumor_Types_Germline	CGC_Other_Diseases	DNARepairGenes_Role	FamilialCancerDatabase_Syndromes	MUTSIG_Published_Results	OREGANNO_ID	OREGANNO_Values	t_alt_count	t_ref_count	validation_status	validation_method	validation_tumor_sample	validation_alt_allele	filter
CSMD2	114784	broad.mit.edu	37	1	34052212	34052212	+	Missense_Mutation	SNP	T	C	C			TCGA-B0-4945-01A-01D-1421-08	TCGA-B0-4945-11A-01D-1421-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:34052212T>C	uc001bxn.1	-	47	6978	c.6949A>G	c.(6949-6951)ATC>GTC	p.I2317V	CSMD2_uc001bxm.1_Missense_Mutation_p.I2315V	NM_052896	NP_443128	Q7Z408	CSMD2_HUMAN	CUB and Sushi multiple domains 2	2317	Sushi 13.|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)				TAGCGTACGATGTCACCTGTC	0.483													6	103	---	---	---	---	PASS
LRRC8B	23507	broad.mit.edu	37	1	90048312	90048312	+	Missense_Mutation	SNP	A	G	G			TCGA-B0-4945-01A-01D-1421-08	TCGA-B0-4945-11A-01D-1421-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:90048312A>G	uc001dni.2	+	7	610	c.103A>G	c.(103-105)ATG>GTG	p.M35V	LRRC8B_uc001dnh.2_Missense_Mutation_p.M35V|LRRC8B_uc001dnj.2_Missense_Mutation_p.M35V	NM_001134476	NP_001127948	Q6P9F7	LRC8B_HUMAN	leucine rich repeat containing 8 family, member	35	Helical; (Potential).					integral to membrane				ovary(2)	2		all_lung(203;0.17)		all cancers(265;0.00515)|Epithelial(280;0.0241)		CACACTGATCATGCTGCTGGT	0.493													4	253	---	---	---	---	PASS
ARHGAP29	9411	broad.mit.edu	37	1	94649835	94649835	+	Missense_Mutation	SNP	G	A	A			TCGA-B0-4945-01A-01D-1421-08	TCGA-B0-4945-11A-01D-1421-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:94649835G>A	uc001dqj.3	-	19	2488	c.2119C>T	c.(2119-2121)CGT>TGT	p.R707C	ARHGAP29_uc009wdq.1_RNA|ARHGAP29_uc001dqk.2_Missense_Mutation_p.R273C	NM_004815	NP_004806	Q52LW3	RHG29_HUMAN	PTPL1-associated RhoGAP 1	707	Rho-GAP.				Rho protein signal transduction	cytosol	metal ion binding|Rho GTPase activator activity			breast(4)|skin(3)|lung(2)|upper_aerodigestive_tract(1)|ovary(1)	11		all_lung(203;0.000732)|Lung NSC(277;0.00328)		all cancers(265;0.0187)|Epithelial(280;0.159)		CCACACACACGATAAATTCCC	0.284													40	152	---	---	---	---	PASS
AGL	178	broad.mit.edu	37	1	100377967	100377967	+	Silent	SNP	G	C	C			TCGA-B0-4945-01A-01D-1421-08	TCGA-B0-4945-11A-01D-1421-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:100377967G>C	uc001dsi.1	+	29	4243	c.3843G>C	c.(3841-3843)GGG>GGC	p.G1281G	AGL_uc001dsj.1_Silent_p.G1281G|AGL_uc001dsk.1_Silent_p.G1281G|AGL_uc001dsl.1_Silent_p.G1281G|AGL_uc001dsm.1_Silent_p.G1265G|AGL_uc001dsn.1_Silent_p.G1264G	NM_000642	NP_000633	P35573	GDE_HUMAN	amylo-1,6-glucosidase,	1281	4-alpha-glucanotransferase.				glucose metabolic process|glycogen biosynthetic process|glycogen catabolic process	cytosol|isoamylase complex|nucleus	4-alpha-glucanotransferase activity|amylo-alpha-1,6-glucosidase activity|cation binding			ovary(1)|central_nervous_system(1)|skin(1)	3		all_epithelial(167;2.2e-06)|all_lung(203;0.000295)|Lung NSC(277;0.00131)		Epithelial(280;0.15)|COAD - Colon adenocarcinoma(174;0.151)|Lung(183;0.209)|all cancers(265;0.237)		TTAGAGATGGGTCTGCTGTGG	0.328													4	117	---	---	---	---	PASS
INSRR	3645	broad.mit.edu	37	1	156821582	156821582	+	Splice_Site	SNP	T	C	C			TCGA-B0-4945-01A-01D-1421-08	TCGA-B0-4945-11A-01D-1421-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:156821582T>C	uc010pht.1	-	4	1196	c.942_splice	c.e4-1	p.S314_splice	NTRK1_uc001fqf.1_Intron|NTRK1_uc009wsi.1_Intron|INSRR_uc009wsj.1_Intron	NM_014215	NP_055030	P14616	INSRR_HUMAN	insulin receptor-related receptor precursor						protein autophosphorylation|transmembrane receptor protein tyrosine kinase signaling pathway	integral to plasma membrane	ATP binding|insulin receptor substrate binding|metal ion binding|phosphatidylinositol 3-kinase binding|transmembrane receptor protein tyrosine kinase activity			lung(11)|ovary(5)|skin(2)|kidney(1)|central_nervous_system(1)	20	all_hematologic(923;0.0839)|Hepatocellular(266;0.158)					CAGAATATGCTAGCAGGAGCA	0.607													8	38	---	---	---	---	PASS
FCRL5	83416	broad.mit.edu	37	1	157491077	157491077	+	Missense_Mutation	SNP	C	A	A			TCGA-B0-4945-01A-01D-1421-08	TCGA-B0-4945-11A-01D-1421-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:157491077C>A	uc001fqu.2	-	11	2403	c.2245G>T	c.(2245-2247)GTG>TTG	p.V749L	FCRL5_uc009wsm.2_Missense_Mutation_p.V749L	NM_031281	NP_112571	Q96RD9	FCRL5_HUMAN	Fc receptor-like 5	749	Extracellular (Potential).					integral to membrane|plasma membrane	receptor activity			ovary(3)|breast(2)|central_nervous_system(1)	6	all_hematologic(112;0.0378)|Hepatocellular(266;0.178)	Prostate(1639;0.231)				GGGCGAGACACCGGAACTGAA	0.498													10	43	---	---	---	---	PASS
CD1E	913	broad.mit.edu	37	1	158326808	158326808	+	3'UTR	SNP	G	A	A			TCGA-B0-4945-01A-01D-1421-08	TCGA-B0-4945-11A-01D-1421-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:158326808G>A	uc001fse.2	+	6					CD1E_uc001fsd.2_3'UTR|CD1E_uc001fsk.2_3'UTR|CD1E_uc001fsj.2_3'UTR|CD1E_uc001fsc.2_3'UTR|CD1E_uc010pig.1_RNA|CD1E_uc001fsa.2_3'UTR|CD1E_uc001fsf.2_3'UTR|CD1E_uc001fry.2_3'UTR|CD1E_uc001fsg.2_3'UTR|CD1E_uc001fsh.2_3'UTR|CD1E_uc001fsi.2_3'UTR|CD1E_uc009wsv.2_3'UTR|CD1E_uc001frz.2_3'UTR|CD1E_uc009wsw.2_3'UTR	NM_030893	NP_112155	P15812	CD1E_HUMAN	CD1E antigen isoform a precursor						antigen processing and presentation|immune response	early endosome|Golgi membrane|integral to plasma membrane|late endosome|lysosomal lumen				skin(3)	3	all_hematologic(112;0.0378)					GACCCCTTTAGGAATACTTTT	0.338													6	19	---	---	---	---	PASS
ITPKB	3707	broad.mit.edu	37	1	226836374	226836374	+	Silent	SNP	T	C	C			TCGA-B0-4945-01A-01D-1421-08	TCGA-B0-4945-11A-01D-1421-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:226836374T>C	uc010pvo.1	-	3	2371	c.2031A>G	c.(2029-2031)GCA>GCG	p.A677A		NM_002221	NP_002212	P27987	IP3KB_HUMAN	1D-myo-inositol-trisphosphate 3-kinase B	677							ATP binding|calmodulin binding|inositol trisphosphate 3-kinase activity			ovary(4)|central_nervous_system(1)	5		Prostate(94;0.0773)				TGTGTCTACCTGCGTGTCCTG	0.542													22	158	---	---	---	---	PASS
SFRS7	6432	broad.mit.edu	37	2	38975784	38975784	+	Missense_Mutation	SNP	C	A	A			TCGA-B0-4945-01A-01D-1421-08	TCGA-B0-4945-11A-01D-1421-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:38975784C>A	uc002rqz.2	-	4	636	c.398G>T	c.(397-399)AGA>ATA	p.R133I	SFRS7_uc002rra.2_RNA|SFRS7_uc010ynp.1_Missense_Mutation_p.R133I|GEMIN6_uc002rrb.2_5'Flank	NM_001031684	NP_001026854	Q16629	SRSF7_HUMAN	splicing factor, arginine/serine-rich 7	133	Arg/Ser-rich (RS domain).				mRNA 3'-end processing|mRNA export from nucleus|nuclear mRNA splicing, via spliceosome|termination of RNA polymerase II transcription	nucleoplasm	nucleotide binding|protein binding|RNA binding|zinc ion binding				0		all_hematologic(82;0.248)				AGAATGTGATCTAGACCGTGA	0.403													33	159	---	---	---	---	PASS
GALNT5	11227	broad.mit.edu	37	2	158167827	158167827	+	Missense_Mutation	SNP	A	T	T			TCGA-B0-4945-01A-01D-1421-08	TCGA-B0-4945-11A-01D-1421-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:158167827A>T	uc002tzg.2	+	10	3045	c.2790A>T	c.(2788-2790)CAA>CAT	p.Q930H	GALNT5_uc010zci.1_RNA	NM_014568	NP_055383	Q7Z7M9	GALT5_HUMAN	N-acetylgalactosaminyltransferase 5	930	Lumenal (Potential).|Ricin B-type lectin.				glycosaminoglycan biosynthetic process	Golgi membrane|integral to membrane	polypeptide N-acetylgalactosaminyltransferase activity|sugar binding			breast(3)|skin(1)	4						AGCCATATCAAAAGTGGAAAT	0.318													25	99	---	---	---	---	PASS
VHL	7428	broad.mit.edu	37	3	10191513	10191513	+	Missense_Mutation	SNP	T	C	C			TCGA-B0-4945-01A-01D-1421-08	TCGA-B0-4945-11A-01D-1421-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:10191513T>C	uc003bvc.2	+	3	719	c.506T>C	c.(505-507)CTA>CCA	p.L169P	VHL_uc003bvd.2_Missense_Mutation_p.L128P	NM_000551	NP_000542	P40337	VHL_HUMAN	von Hippel-Lindau tumor suppressor isoform 1	169					anti-apoptosis|cell morphogenesis|negative regulation of cell proliferation|negative regulation of transcription from RNA polymerase II promoter|positive regulation of cell differentiation|positive regulation of transcription, DNA-dependent|protein stabilization|protein ubiquitination|proteolysis	cytosol|endoplasmic reticulum|membrane|mitochondrion|nucleus	protein binding|transcription factor binding	p.L169P(5)|p.L169L(2)|p.S168fs*3(1)|p.L169_V170del(1)|p.L169*(1)|p.L169fs*33(1)|p.V170fs*31(1)		kidney(1273)|soft_tissue(24)|adrenal_gland(15)|large_intestine(13)|pancreas(5)|endometrium(4)|thyroid(3)|upper_aerodigestive_tract(3)|central_nervous_system(2)|lung(2)|pleura(1)|paratesticular_tissues(1)	1346				Kidney(1;0.000404)|KIRC - Kidney renal clear cell carcinoma(1;0.000569)		GTCCGGAGCCTAGTCAAGCCT	0.517		1	D|Mis|N|F|S		renal|hemangioma|pheochromocytoma	renal|hemangioma|pheochromocytoma			von_Hippel-Lindau_disease|Chuvash_Polycythemia_|Pheochromocytoma_(Adrenal)_Familial				16	38	---	---	---	---	PASS
GRM2	2912	broad.mit.edu	37	3	51749885	51749885	+	Missense_Mutation	SNP	T	A	A			TCGA-B0-4945-01A-01D-1421-08	TCGA-B0-4945-11A-01D-1421-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:51749885T>A	uc010hlv.2	+	4	2335	c.2096T>A	c.(2095-2097)GTG>GAG	p.V699E	GRM2_uc003dbo.3_Missense_Mutation_p.V81E|GRM2_uc010hlu.2_RNA	NM_000839	NP_000830	Q14416	GRM2_HUMAN	glutamate receptor, metabotropic 2 isoform a	699	Helical; Name=4; (Potential).				synaptic transmission	integral to plasma membrane				lung(1)	1				BRCA - Breast invasive adenocarcinoma(193;8.01e-05)|Kidney(197;0.000539)|KIRC - Kidney renal clear cell carcinoma(197;0.000716)	Acamprosate(DB00659)|Nicotine(DB00184)	GCCTGGCTGGTGGTGGAGGCA	0.662													4	22	---	---	---	---	PASS
PVRL3	25945	broad.mit.edu	37	3	110830894	110830894	+	Missense_Mutation	SNP	A	G	G			TCGA-B0-4945-01A-01D-1421-08	TCGA-B0-4945-11A-01D-1421-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:110830894A>G	uc003dxt.1	+	2	178	c.178A>G	c.(178-180)ATT>GTT	p.I60V	PVRL3_uc003dxu.1_Missense_Mutation_p.I37V	NM_015480	NP_056295	Q9NQS3	PVRL3_HUMAN	poliovirus receptor-related 3 precursor	60	Extracellular (Potential).|Ig-like V-type.				adherens junction organization|cell junction assembly|homophilic cell adhesion	integral to membrane	cell adhesion molecule binding|protein homodimerization activity			upper_aerodigestive_tract(2)	2						AGCTGGACCAATTATTGTGGA	0.378													3	112	---	---	---	---	PASS
TMPRSS7	344805	broad.mit.edu	37	3	111793233	111793233	+	Missense_Mutation	SNP	C	A	A			TCGA-B0-4945-01A-01D-1421-08	TCGA-B0-4945-11A-01D-1421-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:111793233C>A	uc010hqb.2	+	12	1549	c.1379C>A	c.(1378-1380)CCA>CAA	p.P460Q	TMPRSS7_uc011bhr.1_Missense_Mutation_p.P315Q	NM_001042575	NP_001036040	Q7RTY8	TMPS7_HUMAN	transmembrane protease, serine 7	586	Extracellular (Potential).|LDL-receptor class A 3.				proteolysis	integral to membrane|plasma membrane	serine-type endopeptidase activity			ovary(1)|kidney(1)	2						GTGGATTGTCCAGATGGAAGT	0.378													5	224	---	---	---	---	PASS
MCM2	4171	broad.mit.edu	37	3	127335714	127335714	+	Missense_Mutation	SNP	G	A	A			TCGA-B0-4945-01A-01D-1421-08	TCGA-B0-4945-11A-01D-1421-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:127335714G>A	uc003ejp.2	+	10	1583	c.1526G>A	c.(1525-1527)GGC>GAC	p.G509D	MCM2_uc011bkm.1_Missense_Mutation_p.G379D|MCM2_uc010hsl.2_RNA|MCM2_uc011bkn.1_Missense_Mutation_p.G462D	NM_004526	NP_004517	P49736	MCM2_HUMAN	minichromosome maintenance complex component 2	509	MCM.				cell cycle checkpoint|DNA strand elongation involved in DNA replication|DNA-dependent DNA replication initiation|G1/S transition of mitotic cell cycle|M/G1 transition of mitotic cell cycle|S phase of mitotic cell cycle	chromatin|MCM complex	ATP binding|helicase activity|metal ion binding			ovary(3)|skin(1)	4						CCTCCAGGTGGCAAGCACAAG	0.547													4	108	---	---	---	---	PASS
ARMC8	25852	broad.mit.edu	37	3	137953933	137953933	+	Missense_Mutation	SNP	C	A	A			TCGA-B0-4945-01A-01D-1421-08	TCGA-B0-4945-11A-01D-1421-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:137953933C>A	uc003esa.1	+	8	911	c.544C>A	c.(544-546)CTA>ATA	p.L182I	ARMC8_uc003erw.2_Missense_Mutation_p.L182I|ARMC8_uc003erx.2_Missense_Mutation_p.L182I|ARMC8_uc003ery.2_Missense_Mutation_p.L154I|ARMC8_uc003erz.2_Missense_Mutation_p.L154I|ARMC8_uc011bmf.1_Missense_Mutation_p.L165I|ARMC8_uc011bmg.1_Missense_Mutation_p.L196I|ARMC8_uc011bmh.1_Missense_Mutation_p.L123I|ARMC8_uc003esb.1_Missense_Mutation_p.L154I|ARMC8_uc003esc.1_5'Flank	NM_015396	NP_056211	Q8IUR7	ARMC8_HUMAN	armadillo repeat containing 8 isoform 2	196	ARM 4.						binding				0						TATTGCTCACCTACTAACCTC	0.333													4	108	---	---	---	---	PASS
SLC9A9	285195	broad.mit.edu	37	3	143567237	143567237	+	Translation_Start_Site	SNP	G	T	T			TCGA-B0-4945-01A-01D-1421-08	TCGA-B0-4945-11A-01D-1421-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:143567237G>T	uc003evn.2	-	1	110	c.-72C>A	c.(-74--70)GACTG>GAATG		SLC9A9_uc011bnk.1_Translation_Start_Site	NM_173653	NP_775924	Q8IVB4	SL9A9_HUMAN	solute carrier family 9 (sodium/hydrogen						regulation of pH	integral to membrane|late endosome membrane|recycling endosome	sodium:hydrogen antiporter activity			ovary(2)|skin(1)	3						GCCTAAGACAGTCTGACTGCC	0.418													10	58	---	---	---	---	PASS
YEATS2	55689	broad.mit.edu	37	3	183433028	183433028	+	Silent	SNP	G	A	A			TCGA-B0-4945-01A-01D-1421-08	TCGA-B0-4945-11A-01D-1421-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:183433028G>A	uc003fly.2	+	2	273	c.78G>A	c.(76-78)CGG>CGA	p.R26R		NM_018023	NP_060493	Q9ULM3	YETS2_HUMAN	YEATS domain containing 2	26					histone H3 acetylation|negative regulation of transcription from RNA polymerase II promoter	Ada2/Gcn5/Ada3 transcription activator complex	TBP-class protein binding			ovary(3)|large_intestine(1)	4	all_cancers(143;6.55e-10)|Ovarian(172;0.0303)		all cancers(12;2.38e-42)|Epithelial(37;1.9e-36)|OV - Ovarian serous cystadenocarcinoma(80;6.48e-22)			CAAATAAGCGGCATAAAGCAA	0.398													4	153	---	---	---	---	PASS
OTOP1	133060	broad.mit.edu	37	4	4199146	4199146	+	Missense_Mutation	SNP	A	C	C			TCGA-B0-4945-01A-01D-1421-08	TCGA-B0-4945-11A-01D-1421-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:4199146A>C	uc003ghp.1	-	5	1445	c.1415T>G	c.(1414-1416)ATG>AGG	p.M472R		NM_177998	NP_819056	Q7RTM1	OTOP1_HUMAN	otopetrin 1	472					biomineral tissue development	extracellular space|integral to membrane				ovary(2)|central_nervous_system(1)	3				UCEC - Uterine corpus endometrioid carcinoma (64;0.168)		AGCAAGGGGCATGGTGTTGCC	0.542													28	111	---	---	---	---	PASS
LAP3	51056	broad.mit.edu	37	4	17579162	17579162	+	Missense_Mutation	SNP	G	T	T			TCGA-B0-4945-01A-01D-1421-08	TCGA-B0-4945-11A-01D-1421-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:17579162G>T	uc003gph.1	+	1	236	c.74G>T	c.(73-75)CGG>CTG	p.R25L	LAP3_uc010ieg.2_Missense_Mutation_p.R25L	NM_015907	NP_056991	P28838	AMPL_HUMAN	leucine aminopeptidase 3	25					proteolysis	nucleus	aminopeptidase activity|magnesium ion binding|manganese ion binding|metalloexopeptidase activity|zinc ion binding				0						TTCGGGAGCCGGAGTCTCTCC	0.701													2	1	---	---	---	---	PASS
ADAMTS3	9508	broad.mit.edu	37	4	73175164	73175164	+	Missense_Mutation	SNP	G	T	T			TCGA-B0-4945-01A-01D-1421-08	TCGA-B0-4945-11A-01D-1421-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:73175164G>T	uc003hgk.1	-	15	2166	c.2129C>A	c.(2128-2130)TCC>TAC	p.S710Y	ADAMTS3_uc003hgl.2_Missense_Mutation_p.S51Y	NM_014243	NP_055058	O15072	ATS3_HUMAN	ADAM metallopeptidase with thrombospondin type 1	710	Cys-rich.				collagen catabolic process|collagen fibril organization|proteolysis	proteinaceous extracellular matrix	heparin binding|metalloendopeptidase activity|zinc ion binding			ovary(1)|lung(1)	2			Epithelial(6;4.97e-05)|OV - Ovarian serous cystadenocarcinoma(6;5.66e-05)|all cancers(17;0.000486)|Lung(101;0.103)|LUSC - Lung squamous cell carcinoma(112;0.154)			TCGGCAGTGGGAATTATCTCC	0.438													35	145	---	---	---	---	PASS
SDHAP3	728609	broad.mit.edu	37	5	1572231	1572231	+	Intron	SNP	G	A	A	rs138881746	by1000genomes	TCGA-B0-4945-01A-01D-1421-08	TCGA-B0-4945-11A-01D-1421-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:1572231G>A	uc011cmd.1	-						SDHAP3_uc011cme.1_RNA					Homo sapiens cDNA FLJ58919 complete cds, moderately similar to Succinate dehydrogenase (ubiquinone) flavoprotein subunit, mitochondrial precursor (EC1.3.5.1).												0						CTTCTTCCCCGGAGTGCAGAA	0.498													3	9	---	---	---	---	PASS
GPR98	84059	broad.mit.edu	37	5	90049431	90049431	+	Missense_Mutation	SNP	T	A	A			TCGA-B0-4945-01A-01D-1421-08	TCGA-B0-4945-11A-01D-1421-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:90049431T>A	uc003kju.2	+	54	11258	c.11162T>A	c.(11161-11163)CTA>CAA	p.L3721Q	GPR98_uc003kjt.2_Missense_Mutation_p.L1427Q|GPR98_uc003kjv.2_Missense_Mutation_p.L1321Q	NM_032119	NP_115495	Q8WXG9	GPR98_HUMAN	G protein-coupled receptor 98 precursor	3721	Calx-beta 24.|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)		ACAATCACTCTAACTATTCTT	0.353													6	179	---	---	---	---	PASS
FCHSD1	89848	broad.mit.edu	37	5	141027542	141027542	+	Missense_Mutation	SNP	A	C	C			TCGA-B0-4945-01A-01D-1421-08	TCGA-B0-4945-11A-01D-1421-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:141027542A>C	uc003llk.2	-	8	749	c.698T>G	c.(697-699)CTG>CGG	p.L233R	FCHSD1_uc010jgg.2_5'Flank|FCHSD1_uc003llj.2_RNA	NM_033449	NP_258260	Q86WN1	FCSD1_HUMAN	FCH and double SH3 domains 1	233									FCHSD1/BRAF(2)	skin(2)|ovary(1)|central_nervous_system(1)	4			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			GGCCTTGAGCAGAGCTGGCAG	0.572													5	42	---	---	---	---	PASS
SLC36A1	206358	broad.mit.edu	37	5	150843113	150843113	+	Splice_Site	SNP	G	T	T			TCGA-B0-4945-01A-01D-1421-08	TCGA-B0-4945-11A-01D-1421-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:150843113G>T	uc003luc.2	+	3	361	c.144_splice	c.e3-1	p.T48_splice	GM2A_uc011dcs.1_Intron|SLC36A1_uc003lub.1_Splice_Site_p.T48_splice|SLC36A1_uc010jhw.1_Splice_Site_p.T48_splice	NM_078483	NP_510968	Q7Z2H8	S36A1_HUMAN	solute carrier family 36 member 1						cellular nitrogen compound metabolic process|ion transport	endoplasmic reticulum|integral to membrane|lysosomal membrane|plasma membrane	amino acid transmembrane transporter activity|symporter activity			skin(1)	1		Medulloblastoma(196;0.091)|all_hematologic(541;0.103)|all_neural(839;0.138)	KIRC - Kidney renal clear cell carcinoma(527;0.000785)|Kidney(363;0.00101)		Glycine(DB00145)|L-Alanine(DB00160)	TTCCACTTCAGATGGTTCCAG	0.368													4	110	---	---	---	---	PASS
JARID2	3720	broad.mit.edu	37	6	15452279	15452279	+	Silent	SNP	G	T	T			TCGA-B0-4945-01A-01D-1421-08	TCGA-B0-4945-11A-01D-1421-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:15452279G>T	uc003nbj.2	+	4	610	c.366G>T	c.(364-366)CCG>CCT	p.P122P	JARID2_uc011diu.1_Intron|JARID2_uc011div.1_5'UTR|JARID2_uc011diw.1_Silent_p.P84P	NM_004973	NP_004964	Q92833	JARD2_HUMAN	jumonji, AT rich interactive domain 2 protein	122					central nervous system development|chromatin modification|negative regulation of histone methylation|positive regulation of histone H3-K9 methylation|stem cell differentiation|transcription, DNA-dependent		chromatin binding			ovary(2)|lung(1)|pancreas(1)	4	Breast(50;0.0142)|Ovarian(93;0.103)	all_hematologic(90;0.00612)				AGTCTCAGCCGAATAGTCCCA	0.453													4	136	---	---	---	---	PASS
OR12D3	81797	broad.mit.edu	37	6	29342286	29342286	+	Missense_Mutation	SNP	C	T	T			TCGA-B0-4945-01A-01D-1421-08	TCGA-B0-4945-11A-01D-1421-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:29342286C>T	uc003nme.2	-	1	783	c.779G>A	c.(778-780)CGT>CAT	p.R260H		NM_030959	NP_112221	Q9UGF7	O12D3_HUMAN	olfactory receptor, family 12, subfamily D,	260	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(2)|breast(1)	3						TGAAGCAGGACGAATATATGT	0.488													9	116	---	---	---	---	PASS
WDR46	9277	broad.mit.edu	37	6	33255942	33255942	+	Missense_Mutation	SNP	T	G	G			TCGA-B0-4945-01A-01D-1421-08	TCGA-B0-4945-11A-01D-1421-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:33255942T>G	uc003ods.2	-	5	588	c.544A>C	c.(544-546)ATT>CTT	p.I182L	WDR46_uc011dra.1_Missense_Mutation_p.I128L|WDR46_uc010juo.1_RNA|PFDN6_uc003odt.1_5'Flank|PFDN6_uc010jup.1_5'Flank	NM_005452	NP_005443	O15213	WDR46_HUMAN	WD repeat domain 46 isoform 1	182											0						GCACTTGCAATGTCCACAGCC	0.522													95	466	---	---	---	---	PASS
DAXX	1616	broad.mit.edu	37	6	33288852	33288852	+	Missense_Mutation	SNP	G	A	A			TCGA-B0-4945-01A-01D-1421-08	TCGA-B0-4945-11A-01D-1421-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:33288852G>A	uc003oec.2	-	3	904	c.700C>T	c.(700-702)CGC>TGC	p.R234C	DAXX_uc011drd.1_Missense_Mutation_p.R159C|DAXX_uc011dre.1_Missense_Mutation_p.R246C|DAXX_uc003oed.2_Missense_Mutation_p.R234C|DAXX_uc010juw.2_Missense_Mutation_p.R159C	NM_001350	NP_001341	Q9UER7	DAXX_HUMAN	death-domain associated protein isoform a	234					activation of JUN kinase activity|androgen receptor signaling pathway|apoptosis|induction of apoptosis via death domain receptors|interspecies interaction between organisms|negative regulation of transcription, DNA-dependent|regulation of protein ubiquitination|transcription, DNA-dependent	chromosome, centromeric region|cytosol|nucleolus|PML body	androgen receptor binding|heat shock protein binding|p53 binding|protein homodimerization activity|protein N-terminus binding|receptor signaling protein activity|transcription factor binding|ubiquitin protein ligase binding			pancreas(18)|ovary(2)|skin(2)|prostate(1)	23						CCAAAGAGGCGGATCAGCTTA	0.577			Mis|F|N		Pancreatic neuroendocrine tumors								18	63	---	---	---	---	PASS
KPNA5	3841	broad.mit.edu	37	6	117037431	117037431	+	Missense_Mutation	SNP	G	A	A			TCGA-B0-4945-01A-01D-1421-08	TCGA-B0-4945-11A-01D-1421-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:117037431G>A	uc003pxh.2	+	8	837	c.706G>A	c.(706-708)GCC>ACC	p.A236T		NM_002269	NP_002260	O15131	IMA5_HUMAN	karyopherin alpha 5	233	NLS binding site (major) (By similarity).|ARM 4.				NLS-bearing substrate import into nucleus	cytoplasm|nuclear pore	protein binding|protein transporter activity			breast(3)|skin(1)	4		all_cancers(87;0.0314)|all_epithelial(87;0.0216)|Colorectal(196;0.234)		GBM - Glioblastoma multiforme(226;0.0298)|all cancers(137;0.0461)|OV - Ovarian serous cystadenocarcinoma(136;0.0513)|Epithelial(106;0.212)		TGCCGTGTGGGCCCTCTCAAA	0.323													5	105	---	---	---	---	PASS
PKD1L1	168507	broad.mit.edu	37	7	47835650	47835650	+	Missense_Mutation	SNP	C	A	A			TCGA-B0-4945-01A-01D-1421-08	TCGA-B0-4945-11A-01D-1421-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:47835650C>A	uc003tny.1	-	55	8292	c.8292G>T	c.(8290-8292)AAG>AAT	p.K2764N	C7orf69_uc003tnz.3_Intron|C7orf69_uc003toa.1_Intron	NM_138295	NP_612152	Q8TDX9	PK1L1_HUMAN	polycystin-1L1	2764	Cytoplasmic (Potential).				cell-cell adhesion	integral to membrane				ovary(8)|upper_aerodigestive_tract(2)|breast(1)	11						AGGTGAGGACCTTTTCCCACA	0.398													5	265	---	---	---	---	PASS
ZNF716	441234	broad.mit.edu	37	7	57529077	57529077	+	Missense_Mutation	SNP	G	A	A			TCGA-B0-4945-01A-01D-1421-08	TCGA-B0-4945-11A-01D-1421-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:57529077G>A	uc011kdi.1	+	4	1022	c.910G>A	c.(910-912)GCC>ACC	p.A304T		NM_001159279	NP_001152751			zinc finger protein 716											ovary(2)	2						ATGTGGCAAAGCCTTTAGCCG	0.423													18	49	---	---	---	---	PASS
CCDC132	55610	broad.mit.edu	37	7	92921015	92921015	+	Missense_Mutation	SNP	C	A	A			TCGA-B0-4945-01A-01D-1421-08	TCGA-B0-4945-11A-01D-1421-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:92921015C>A	uc003umo.2	+	13	1071	c.943C>A	c.(943-945)CAT>AAT	p.H315N	CCDC132_uc003umq.2_RNA|CCDC132_uc003ump.2_Missense_Mutation_p.H285N|CCDC132_uc003umr.2_RNA|CCDC132_uc011khz.1_Missense_Mutation_p.H35N	NM_017667	NP_060137	Q96JG6	CC132_HUMAN	coiled-coil domain containing 132 isoform a	315											0	all_cancers(62;2.64e-11)|all_epithelial(64;1.4e-10)|Breast(17;0.000675)|Lung NSC(181;0.0618)|all_lung(186;0.0837)		STAD - Stomach adenocarcinoma(171;0.000302)			TTTTCTTTAGCATGTTACACC	0.303													23	120	---	---	---	---	PASS
COG5	10466	broad.mit.edu	37	7	106924166	106924166	+	Missense_Mutation	SNP	G	A	A			TCGA-B0-4945-01A-01D-1421-08	TCGA-B0-4945-11A-01D-1421-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:106924166G>A	uc003ved.2	-	13	1943	c.1418C>T	c.(1417-1419)GCT>GTT	p.A473V	COG5_uc003vec.2_Missense_Mutation_p.A473V|COG5_uc003vee.2_Missense_Mutation_p.A473V	NM_181733	NP_859422	Q9UP83	COG5_HUMAN	component of oligomeric golgi complex 5 isoform	473					intra-Golgi vesicle-mediated transport|protein transport	cytosol|Golgi membrane|Golgi transport complex|nucleus	protein binding			central_nervous_system(2)|skin(2)	4						GTCTTTCAAAGCCTTTTCTGG	0.368													32	210	---	---	---	---	PASS
DGKI	9162	broad.mit.edu	37	7	137263043	137263043	+	Silent	SNP	A	G	G			TCGA-B0-4945-01A-01D-1421-08	TCGA-B0-4945-11A-01D-1421-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:137263043A>G	uc003vtt.2	-	16	1672	c.1671T>C	c.(1669-1671)CGT>CGC	p.R557R	DGKI_uc003vtu.2_Silent_p.R257R	NM_004717	NP_004708	O75912	DGKI_HUMAN	diacylglycerol kinase, iota	557					activation of protein kinase C activity by G-protein coupled receptor protein signaling pathway|intracellular signal transduction|platelet activation	nucleus|plasma membrane	ATP binding|diacylglycerol kinase activity|metal ion binding			ovary(1)|kidney(1)|skin(1)	3						TATTTCGAAAACGACTGTTGA	0.338													3	121	---	---	---	---	PASS
OR2F1	26211	broad.mit.edu	37	7	143657606	143657606	+	Silent	SNP	C	T	T			TCGA-B0-4945-01A-01D-1421-08	TCGA-B0-4945-11A-01D-1421-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:143657606C>T	uc003wds.1	+	1	587	c.543C>T	c.(541-543)CTC>CTT	p.L181L		NM_012369	NP_036501	Q13607	OR2F1_HUMAN	olfactory receptor, family 2, subfamily F,	181	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			skin(2)|ovary(1)	3	Melanoma(164;0.0903)					CCTGTGAACTCCTAGCTGTGG	0.507													5	116	---	---	---	---	PASS
MLL3	58508	broad.mit.edu	37	7	151878457	151878457	+	Missense_Mutation	SNP	G	T	T			TCGA-B0-4945-01A-01D-1421-08	TCGA-B0-4945-11A-01D-1421-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:151878457G>T	uc003wla.2	-	36	6707	c.6488C>A	c.(6487-6489)CCT>CAT	p.P2163H	MLL3_uc003wkz.2_Missense_Mutation_p.P1224H	NM_170606	NP_733751	Q8NEZ4	MLL3_HUMAN	myeloid/lymphoid or mixed-lineage leukemia 3	2163	Pro-rich.				intracellular signal transduction|regulation of transcription, DNA-dependent|transcription, DNA-dependent		DNA binding|protein binding|zinc ion binding			large_intestine(27)|pancreas(13)|ovary(9)|central_nervous_system(8)|breast(3)|upper_aerodigestive_tract(1)|urinary_tract(1)|skin(1)	63	all_neural(206;0.187)	all_hematologic(28;0.0592)|Prostate(32;0.0906)	OV - Ovarian serous cystadenocarcinoma(82;0.00715)	UCEC - Uterine corpus endometrioid carcinoma (81;0.0597)|BRCA - Breast invasive adenocarcinoma(188;0.0462)		GGGAGTTCCAGGAGGTTGAGA	0.483			N		medulloblastoma								35	153	---	---	---	---	PASS
SLC7A2	6542	broad.mit.edu	37	8	17396414	17396414	+	Intron	SNP	C	T	T			TCGA-B0-4945-01A-01D-1421-08	TCGA-B0-4945-11A-01D-1421-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:17396414C>T	uc011kyc.1	+						SLC7A2_uc011kyd.1_Silent_p.C27C|SLC7A2_uc011kye.1_Silent_p.C27C	NM_001008539	NP_001008539	P52569	CTR2_HUMAN	solute carrier family 7, member 2 isoform 2						cellular amino acid metabolic process|ion transport	cytoplasm|integral to plasma membrane|membrane fraction	basic amino acid transmembrane transporter activity			ovary(2)|skin(1)	3				Colorectal(111;0.0577)|COAD - Colon adenocarcinoma(73;0.216)	L-Lysine(DB00123)|L-Ornithine(DB00129)	CACCGGTTTGCGACAGCAAGT	0.418													4	164	---	---	---	---	PASS
LEPROTL1	23484	broad.mit.edu	37	8	29961950	29961950	+	Missense_Mutation	SNP	G	A	A			TCGA-B0-4945-01A-01D-1421-08	TCGA-B0-4945-11A-01D-1421-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:29961950G>A	uc003xhw.3	+	3	334	c.227G>A	c.(226-228)GGC>GAC	p.G76D	LEPROTL1_uc003xhx.2_Missense_Mutation_p.G76D	NM_015344	NP_056159	O95214	LERL1_HUMAN	leptin receptor overlapping transcript-like 1	76	Helical; (Potential).					integral to membrane					0				KIRC - Kidney renal clear cell carcinoma(542;0.094)|Kidney(114;0.113)		CTTACAACGGGCATTGTCGTG	0.378													4	230	---	---	---	---	PASS
KDM4C	23081	broad.mit.edu	37	9	6793078	6793078	+	Missense_Mutation	SNP	C	A	A			TCGA-B0-4945-01A-01D-1421-08	TCGA-B0-4945-11A-01D-1421-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr9:6793078C>A	uc003zkh.2	+	2	670	c.90C>A	c.(88-90)AAC>AAA	p.N30K	KDM4C_uc010mhu.2_Missense_Mutation_p.N52K|KDM4C_uc010mhw.2_Missense_Mutation_p.N30K|KDM4C_uc011lmi.1_Missense_Mutation_p.N30K|KDM4C_uc011lmj.1_RNA|KDM4C_uc003zkg.2_Missense_Mutation_p.N30K|KDM4C_uc011lmk.1_5'UTR|KDM4C_uc010mhv.2_Missense_Mutation_p.N30K	NM_015061	NP_055876	Q9H3R0	KDM4C_HUMAN	jumonji domain containing 2C isoform 1	30	JmjN.				positive regulation of cell proliferation|regulation of transcription from RNA polymerase II promoter by nuclear hormone receptor|transcription, DNA-dependent	nuclear chromatin	androgen receptor binding|enzyme binding|histone demethylase activity (H3-K9 specific)|nucleic acid binding|oxidoreductase activity, acting on single donors with incorporation of molecular oxygen, incorporation of two atoms of oxygen|zinc ion binding			ovary(1)	1						GGGAGTTCAACAAATACCTTG	0.483													4	217	---	---	---	---	PASS
ZNF322B	387328	broad.mit.edu	37	9	99960636	99960636	+	Silent	SNP	T	C	C			TCGA-B0-4945-01A-01D-1421-08	TCGA-B0-4945-11A-01D-1421-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr9:99960636T>C	uc004axd.1	-	1	1275	c.1158A>G	c.(1156-1158)AAA>AAG	p.K386K	uc004axb.2_5'Flank|ZNF322B_uc004axc.1_5'Flank|uc010msl.1_Intron	NM_199005	NP_945356			zinc finger protein 322B												0		Acute lymphoblastic leukemia(62;0.158)				GCTCAAGACCTTTTTCACTCA	0.418													4	317	---	---	---	---	PASS
ANKS6	203286	broad.mit.edu	37	9	101498789	101498789	+	3'UTR	SNP	C	A	A			TCGA-B0-4945-01A-01D-1421-08	TCGA-B0-4945-11A-01D-1421-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr9:101498789C>A	uc004ayu.2	-	15					ANKS6_uc004ayt.2_3'UTR|ANKS6_uc004ayv.1_3'UTR|ANKS6_uc004ayw.1_Intron|ANKS6_uc004ayx.1_Intron|ANKS6_uc004ayy.1_RNA	NM_173551	NP_775822	Q68DC2	ANKS6_HUMAN	ankyrin repeat and sterile alpha motif domain											ovary(2)	2		Acute lymphoblastic leukemia(62;0.0527)				CTGGTGGCTGCGGGAAGGAGG	0.592													3	23	---	---	---	---	PASS
HSPA5	3309	broad.mit.edu	37	9	128001354	128001354	+	Missense_Mutation	SNP	G	C	C			TCGA-B0-4945-01A-01D-1421-08	TCGA-B0-4945-11A-01D-1421-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr9:128001354G>C	uc004bpn.2	-	5	1118	c.862C>G	c.(862-864)CTC>GTC	p.L288V		NM_005347	NP_005338	P11021	GRP78_HUMAN	heat shock 70kDa protein 5	288					anti-apoptosis|cellular response to glucose starvation|ER-associated protein catabolic process|platelet activation|platelet degranulation|regulation of protein folding in endoplasmic reticulum	cell surface|endoplasmic reticulum chaperone complex|endoplasmic reticulum lumen|ER-Golgi intermediate compartment|integral to endoplasmic reticulum membrane|melanosome|midbody|nucleus|perinuclear region of cytoplasm	ATP binding|ATPase activity|calcium ion binding|caspase inhibitor activity|chaperone binding|misfolded protein binding|protein binding, bridging|protein domain specific binding|ubiquitin protein ligase binding|unfolded protein binding			ovary(3)|skin(1)	4					Antihemophilic Factor(DB00025)	TCGCGCCGGAGTTTCTGCACA	0.458										Prostate(1;0.17)			32	113	---	---	---	---	PASS
AGAP6	414189	broad.mit.edu	37	10	51769499	51769499	+	Silent	SNP	C	T	T			TCGA-B0-4945-01A-01D-1421-08	TCGA-B0-4945-11A-01D-1421-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:51769499C>T	uc001jix.3	+	8	2012	c.1614C>T	c.(1612-1614)GAC>GAT	p.D538D		NM_001077665	NP_001071133	Q5VW22	AGAP6_HUMAN	ArfGAP with GTPase domain, ankyrin repeat and PH	538					regulation of ARF GTPase activity		ARF GTPase activator activity|zinc ion binding			skin(1)	1						TTGTCAATGACCTAGCCAACA	0.542													32	195	---	---	---	---	PASS
DNAJC9	23234	broad.mit.edu	37	10	75003676	75003676	+	Missense_Mutation	SNP	C	G	G			TCGA-B0-4945-01A-01D-1421-08	TCGA-B0-4945-11A-01D-1421-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:75003676C>G	uc001jtr.2	-	4	666	c.588G>C	c.(586-588)GAG>GAC	p.E196D	DNAJC9_uc010qkg.1_Missense_Mutation_p.E196D	NM_015190	NP_056005	Q8WXX5	DNJC9_HUMAN	DnaJ homolog, subfamily C, member 9	196					protein folding		heat shock protein binding|unfolded protein binding				0	Prostate(51;0.0119)					CTTCTTTGGCCTCTTCCTGAG	0.453													8	153	---	---	---	---	PASS
VDAC2	7417	broad.mit.edu	37	10	76989456	76989456	+	Missense_Mutation	SNP	C	G	G			TCGA-B0-4945-01A-01D-1421-08	TCGA-B0-4945-11A-01D-1421-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:76989456C>G	uc001jwz.2	+	9	949	c.790C>G	c.(790-792)CCT>GCT	p.P264A	VDAC2_uc010qld.1_Missense_Mutation_p.P225A|VDAC2_uc001jxa.2_Missense_Mutation_p.P279A|VDAC2_uc010qle.1_Missense_Mutation_p.P225A	NM_003375	NP_003366	P45880	VDAC2_HUMAN	voltage-dependent anion channel 2	264						mitochondrial nucleoid|mitochondrial outer membrane|pore complex	nucleotide binding|porin activity|protein binding|voltage-gated anion channel activity			pancreas(2)|ovary(1)	3	all_cancers(46;0.0642)|all_epithelial(25;0.00604)|Prostate(51;0.0112)|Ovarian(15;0.183)				Dihydroxyaluminium(DB01375)	GACTCTGAGGCCTGGTAAGTA	0.274													5	241	---	---	---	---	PASS
SMC3	9126	broad.mit.edu	37	10	112340772	112340772	+	Missense_Mutation	SNP	A	T	T			TCGA-B0-4945-01A-01D-1421-08	TCGA-B0-4945-11A-01D-1421-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:112340772A>T	uc001kze.2	+	8	666	c.540A>T	c.(538-540)AAA>AAT	p.K180N		NM_005445	NP_005436	Q9UQE7	SMC3_HUMAN	structural maintenance of chromosomes 3	180	Potential.				cell division|DNA mediated transformation|DNA repair|meiosis|mitotic metaphase/anaphase transition|mitotic prometaphase|mitotic spindle organization|negative regulation of DNA endoreduplication|signal transduction|sister chromatid cohesion	basement membrane|chromatin|chromosome, centromeric region|cytoplasm|meiotic cohesin complex|nuclear matrix|nucleoplasm|spindle pole	ATP binding|dynein binding|microtubule motor activity|protein heterodimerization activity			ovary(1)|central_nervous_system(1)|skin(1)	3		Breast(234;0.0848)|Lung NSC(174;0.238)		Epithelial(162;0.00206)|all cancers(201;0.0227)|BRCA - Breast invasive adenocarcinoma(275;0.127)		CCTTAATGAAAGAAACAGGTA	0.368													29	134	---	---	---	---	PASS
ZRANB1	54764	broad.mit.edu	37	10	126671767	126671767	+	Silent	SNP	G	A	A	rs75293113	byFrequency	TCGA-B0-4945-01A-01D-1421-08	TCGA-B0-4945-11A-01D-1421-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:126671767G>A	uc001lic.2	+	7	1943	c.1572G>A	c.(1570-1572)ACG>ACA	p.T524T	ZRANB1_uc010qug.1_Silent_p.T550T	NM_017580	NP_060050	Q9UGI0	ZRAN1_HUMAN	zinc finger, RAN-binding domain containing 1	524	OTU.|TRAF-binding.				positive regulation of Wnt receptor signaling pathway|protein K63-linked deubiquitination|Wnt receptor signaling pathway	aggresome|centrosome|intermediate filament cytoskeleton|nucleolus	cysteine-type peptidase activity|protein binding|ubiquitin thiolesterase activity|zinc ion binding			ovary(1)|kidney(1)	2		all_lung(145;0.0132)|Lung NSC(174;0.0193)|all_neural(114;0.116)|Colorectal(57;0.172)		Colorectal(40;0.113)|COAD - Colon adenocarcinoma(40;0.119)		TGGAGCAGACGCACATTTTTG	0.363													50	224	---	---	---	---	PASS
Unknown	0	broad.mit.edu	37	11	30930565	30930565	+	RNA	SNP	C	G	G			TCGA-B0-4945-01A-01D-1421-08	TCGA-B0-4945-11A-01D-1421-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:30930565C>G	uc001mss.1	-	7		c.949G>C			uc009yjk.1_Missense_Mutation_p.K730N|uc009yjj.1_5'Flank					Homo sapiens mRNA for KIAA1493 protein, partial cds.																		ATGTAATTTCCTTATCCAAGG	0.368													22	110	---	---	---	---	PASS
ARHGAP32	9743	broad.mit.edu	37	11	129062035	129062035	+	Missense_Mutation	SNP	G	A	A			TCGA-B0-4945-01A-01D-1421-08	TCGA-B0-4945-11A-01D-1421-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:129062035G>A	uc009zcp.2	-	1	59	c.59C>T	c.(58-60)TCT>TTT	p.S20F		NM_001142685	NP_001136157	A7KAX9	RHG32_HUMAN	Rho GTPase-activating protein isoform 1	20					cell communication|regulation of small GTPase mediated signal transduction|small GTPase mediated signal transduction	cell cortex|cell junction|cytosol|dendritic spine|endoplasmic reticulum membrane|endosome membrane|Golgi membrane|postsynaptic density|postsynaptic membrane	GTPase activator activity|phosphatidylinositol binding			lung(3)|ovary(2)	5						TATAACTTCAGACTCCAACCA	0.423													91	317	---	---	---	---	PASS
CS	1431	broad.mit.edu	37	12	56676694	56676694	+	Nonsense_Mutation	SNP	C	A	A			TCGA-B0-4945-01A-01D-1421-08	TCGA-B0-4945-11A-01D-1421-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:56676694C>A	uc001sks.1	-	5	539	c.349G>T	c.(349-351)GAG>TAG	p.E117*	CS_uc010sql.1_Nonsense_Mutation_p.E104*|CS_uc001skr.1_Nonsense_Mutation_p.E51*|CS_uc001skt.1_Nonsense_Mutation_p.E72*|CS_uc010sqm.1_Nonsense_Mutation_p.E51*	NM_004077	NP_004068	O75390	CISY_HUMAN	citrate synthase precursor	117					cellular carbohydrate metabolic process|tricarboxylic acid cycle	mitochondrial matrix	citrate (Si)-synthase activity				0		Myeloproliferative disorder(1001;0.000374)		BRCA - Breast invasive adenocarcinoma(357;6.17e-07)		AATAAGCCCTCAGGCAGGGGT	0.498													5	128	---	---	---	---	PASS
UHRF1BP1L	23074	broad.mit.edu	37	12	100452655	100452655	+	Silent	SNP	C	G	G	rs148366892		TCGA-B0-4945-01A-01D-1421-08	TCGA-B0-4945-11A-01D-1421-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:100452655C>G	uc001tgq.2	-	14	2629	c.2400G>C	c.(2398-2400)TCG>TCC	p.S800S	UHRF1BP1L_uc001tgp.2_Silent_p.S450S	NM_015054	NP_055869	A0JNW5	UH1BL_HUMAN	UHRF1 (ICBP90) binding protein 1-like isoform a	800										ovary(2)	2						CTGCCTCTGACGAGGAAGGGG	0.403													4	184	---	---	---	---	PASS
RIC8B	55188	broad.mit.edu	37	12	107237651	107237651	+	Missense_Mutation	SNP	C	G	G			TCGA-B0-4945-01A-01D-1421-08	TCGA-B0-4945-11A-01D-1421-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:107237651C>G	uc001tlx.2	+	6	1212	c.1087C>G	c.(1087-1089)CTA>GTA	p.L363V	RIC8B_uc001tlw.2_Missense_Mutation_p.L363V|RIC8B_uc001tly.2_Missense_Mutation_p.L323V|RIC8B_uc001tlz.2_RNA|RIC8B_uc009zur.2_RNA	NM_018157	NP_060627	Q9NVN3	RIC8B_HUMAN	resistance to inhibitors of cholinesterase 8	363					regulation of G-protein coupled receptor protein signaling pathway	cell cortex|cytosol|plasma membrane	G-protein alpha-subunit binding|guanyl-nucleotide exchange factor activity			ovary(1)	1						TAGAGAGGGTCTAACTCCAGT	0.353													33	169	---	---	---	---	PASS
GPR81	27198	broad.mit.edu	37	12	123214322	123214322	+	Missense_Mutation	SNP	G	A	A			TCGA-B0-4945-01A-01D-1421-08	TCGA-B0-4945-11A-01D-1421-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:123214322G>A	uc001ucz.2	-	1	808	c.565C>T	c.(565-567)CTC>TTC	p.L189F	GPR81_uc001ucw.1_RNA	NM_032554	NP_115943	Q9BXC0	HCAR1_HUMAN	G protein-coupled receptor 81	189	Helical; Name=5; (Potential).				response to estradiol stimulus	integral to membrane|plasma membrane	G-protein coupled receptor activity				0	all_neural(191;0.0837)|Medulloblastoma(191;0.163)			OV - Ovarian serous cystadenocarcinoma(86;2.14e-05)|Epithelial(86;3.25e-05)|BRCA - Breast invasive adenocarcinoma(302;0.197)		ATGATGCCGAGGGGCATAAAG	0.552													6	80	---	---	---	---	PASS
TMEM132D	121256	broad.mit.edu	37	12	129559305	129559305	+	Missense_Mutation	SNP	G	T	T			TCGA-B0-4945-01A-01D-1421-08	TCGA-B0-4945-11A-01D-1421-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:129559305G>T	uc009zyl.1	-	9	2743	c.2415C>A	c.(2413-2415)AAC>AAA	p.N805K	TMEM132D_uc001uia.2_Missense_Mutation_p.N343K	NM_133448	NP_597705	Q14C87	T132D_HUMAN	transmembrane protein 132D precursor	805	Extracellular (Potential).					integral to membrane				ovary(10)|pancreas(2)|upper_aerodigestive_tract(1)|skin(1)	14	all_neural(191;0.101)|Medulloblastoma(191;0.163)	all_epithelial(31;0.0934)|Breast(359;0.133)		OV - Ovarian serous cystadenocarcinoma(86;0.000288)|Epithelial(86;0.0116)|all cancers(50;0.0246)		TGTCACTGGTGTTGGGGTTAG	0.483													30	188	---	---	---	---	PASS
DYNC1H1	1778	broad.mit.edu	37	14	102482817	102482817	+	Silent	SNP	C	A	A			TCGA-B0-4945-01A-01D-1421-08	TCGA-B0-4945-11A-01D-1421-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr14:102482817C>A	uc001yks.2	+	37	7769	c.7605C>A	c.(7603-7605)ATC>ATA	p.I2535I	DYNC1H1_uc001ykt.1_Silent_p.I26I	NM_001376	NP_001367	Q14204	DYHC1_HUMAN	cytoplasmic dynein 1 heavy chain 1	2535					cytoplasmic mRNA processing body assembly|G2/M transition of mitotic cell cycle|microtubule-based movement|mitotic spindle organization|stress granule assembly|transport	centrosome|cytoplasmic dynein complex|cytosol|Golgi apparatus|microtubule	ATP binding|ATPase activity, coupled|microtubule motor activity|protein binding			ovary(7)|central_nervous_system(2)|pancreas(1)	10						TACCCATTATCGATTATGAGG	0.507													3	84	---	---	---	---	PASS
C14orf2	9556	broad.mit.edu	37	14	104381489	104381489	+	Missense_Mutation	SNP	A	G	G			TCGA-B0-4945-01A-01D-1421-08	TCGA-B0-4945-11A-01D-1421-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr14:104381489A>G	uc001yoi.3	-	2	135	c.38T>C	c.(37-39)ATG>ACG	p.M13T	C14orf2_uc001yoj.3_Missense_Mutation_p.M30T|C14orf2_uc010aww.1_Missense_Mutation_p.M13T|C14orf2_uc001yok.2_Missense_Mutation_p.M13T	NM_004894	NP_004885	P56378	68MP_HUMAN	6.8 kDa mitochondrial proteolipid isoform 1	13						mitochondrion					0				Epithelial(152;0.223)		GTAGGGCTTCATGGGGATCCA	0.373													35	112	---	---	---	---	PASS
CASC5	57082	broad.mit.edu	37	15	40897317	40897317	+	Missense_Mutation	SNP	A	G	G			TCGA-B0-4945-01A-01D-1421-08	TCGA-B0-4945-11A-01D-1421-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr15:40897317A>G	uc010bbs.1	+	3	206	c.45A>G	c.(43-45)ATA>ATG	p.I15M	CASC5_uc010ucq.1_Translation_Start_Site|CASC5_uc001zme.2_Missense_Mutation_p.I15M|CASC5_uc010bbt.1_Missense_Mutation_p.I15M	NM_170589	NP_733468	Q8NG31	CASC5_HUMAN	cancer susceptibility candidate 5 isoform 1	15	Interaction with BUB1 and BUB1B.				acrosome assembly|attachment of spindle microtubules to kinetochore|cell division|CenH3-containing nucleosome assembly at centromere|mitotic prometaphase|spindle assembly checkpoint	acrosomal vesicle|condensed chromosome kinetochore|cytosol|nucleoplasm	protein binding			breast(3)|central_nervous_system(1)|skin(1)	5		all_cancers(109;2.03e-18)|all_epithelial(112;4.26e-15)|Lung NSC(122;1.12e-10)|all_lung(180;2.59e-09)|Melanoma(134;0.0574)|Ovarian(310;0.0822)|Colorectal(260;0.0946)		GBM - Glioblastoma multiforme(113;4.99e-05)|BRCA - Breast invasive adenocarcinoma(123;0.0861)|COAD - Colon adenocarcinoma(120;0.211)		GTGACAATATAGAGAGACCTG	0.303													10	254	---	---	---	---	PASS
SRRM2	23524	broad.mit.edu	37	16	2812602	2812602	+	Silent	SNP	G	A	A			TCGA-B0-4945-01A-01D-1421-08	TCGA-B0-4945-11A-01D-1421-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr16:2812602G>A	uc002crk.2	+	11	2622	c.2073G>A	c.(2071-2073)AGG>AGA	p.R691R	SRRM2_uc002crj.1_Silent_p.R595R|SRRM2_uc002crl.1_Silent_p.R691R|SRRM2_uc010bsu.1_Silent_p.R595R	NM_016333	NP_057417	Q9UQ35	SRRM2_HUMAN	splicing coactivator subunit SRm300	691	Arg-rich.|Ser-rich.					Cajal body|catalytic step 2 spliceosome|nuclear speck	C2H2 zinc finger domain binding|protein N-terminus binding|RNA binding			ovary(1)|pancreas(1)|central_nervous_system(1)|skin(1)	4						GGAGAGGGAGGTCTCGGTCTA	0.572													5	100	---	---	---	---	PASS
ERCC4	2072	broad.mit.edu	37	16	14014044	14014044	+	Silent	SNP	C	A	A			TCGA-B0-4945-01A-01D-1421-08	TCGA-B0-4945-11A-01D-1421-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr16:14014044C>A	uc002dce.2	+	1	31	c.22C>A	c.(22-24)CGA>AGA	p.R8R	ERCC4_uc010bva.2_Silent_p.R8R	NM_005236	NP_005227	Q92889	XPF_HUMAN	excision repair cross-complementing rodent	8					double-strand break repair via homologous recombination|meiotic mismatch repair|negative regulation of telomere maintenance|nucleotide-excision repair, DNA damage removal|nucleotide-excision repair, DNA incision, 3'-to lesion|nucleotide-excision repair, DNA incision, 5'-to lesion|resolution of meiotic recombination intermediates|telomere maintenance via telomere shortening|transcription-coupled nucleotide-excision repair	nuclear chromosome, telomeric region|nucleoplasm|nucleotide-excision repair factor 1 complex	damaged DNA binding|protein C-terminus binding|protein N-terminus binding|single-stranded DNA binding|single-stranded DNA specific endodeoxyribonuclease activity			lung(4)|ovary(3)|skin(2)|pancreas(1)	10						GCAGCCGGCTCGACGGATTGC	0.657			Mis|N|F			skin basal cell|skin squamous cell|melanoma		Direct_reversal_of_damage|NER	Xeroderma_Pigmentosum				3	50	---	---	---	---	PASS
NLRC5	84166	broad.mit.edu	37	16	57059677	57059677	+	Silent	SNP	C	T	T			TCGA-B0-4945-01A-01D-1421-08	TCGA-B0-4945-11A-01D-1421-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr16:57059677C>T	uc002ekk.1	+	6	1047	c.822C>T	c.(820-822)TCC>TCT	p.S274S	NLRC5_uc010ccq.1_RNA|NLRC5_uc002ekn.2_Silent_p.S79S|NLRC5_uc002ekl.2_Silent_p.S79S|NLRC5_uc002ekm.2_Silent_p.S79S|NLRC5_uc010ccr.1_RNA	NM_032206	NP_115582	Q86WI3	NLRC5_HUMAN	nucleotide-binding oligomerization domains 27	274	NACHT.				defense response to virus|innate immune response|negative regulation of NF-kappaB transcription factor activity|negative regulation of type I interferon production|negative regulation of type I interferon-mediated signaling pathway|positive regulation of interferon-gamma-mediated signaling pathway|positive regulation of MHC class I biosynthetic process|positive regulation of transcription from RNA polymerase II promoter|positive regulation of type I interferon-mediated signaling pathway|regulation of kinase activity	cytosol|nucleus	ATP binding|protein binding|RNA polymerase II core promoter sequence-specific DNA binding			ovary(4)|skin(2)|breast(1)	7		all_neural(199;0.225)				TGACACCGTCCGAGCTCCTTT	0.527													8	170	---	---	---	---	PASS
CCL2	6347	broad.mit.edu	37	17	32583808	32583808	+	Missense_Mutation	SNP	G	C	C			TCGA-B0-4945-01A-01D-1421-08	TCGA-B0-4945-11A-01D-1421-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:32583808G>C	uc002hhy.2	+	3	335	c.262G>C	c.(262-264)GAC>CAC	p.D88H		NM_002982	NP_002973	P13500	CCL2_HUMAN	small inducible cytokine A2 precursor	88				Missing: 83% reduction in activity.	angiogenesis|anti-apoptosis|apoptotic cell clearance|astrocyte cell migration|cell adhesion|cellular response to interferon-gamma|cellular response to interleukin-1|cellular response to lipopolysaccharide|cellular response to tumor necrosis factor|G-protein signaling, coupled to cyclic nucleotide second messenger|helper T cell extravasation|humoral immune response|inflammatory response|JAK-STAT cascade|macrophage chemotaxis|monocyte chemotaxis|positive regulation of nitric-oxide synthase biosynthetic process|positive regulation of T cell activation|viral genome replication	extracellular space	CCR2 chemokine receptor binding|chemokine activity|protein kinase activity|signal transducer activity			pancreas(1)	1	Breast(3;0.00224)	Ovarian(249;0.0694)|Breast(31;0.151)|Lung NSC(157;0.153)		UCEC - Uterine corpus endometrioid carcinoma (308;0.000241)|BRCA - Breast invasive adenocarcinoma(366;0.0103)	Atorvastatin(DB01076)|Danazol(DB01406)|Mimosine(DB01055)|Simvastatin(DB00641)	GGATTCCATGGACCACCTGGA	0.502													4	56	---	---	---	---	PASS
SLFN12	55106	broad.mit.edu	37	17	33749078	33749078	+	Missense_Mutation	SNP	C	G	G			TCGA-B0-4945-01A-01D-1421-08	TCGA-B0-4945-11A-01D-1421-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:33749078C>G	uc002hji.3	-	2	1347	c.970G>C	c.(970-972)GTG>CTG	p.V324L	SLFN12_uc002hjj.3_Missense_Mutation_p.V324L|SLFN12_uc010cts.2_Missense_Mutation_p.V324L	NM_018042	NP_060512	Q8IYM2	SLN12_HUMAN	schlafen family member 12	324							ATP binding			skin(1)	1		Ovarian(249;0.17)		UCEC - Uterine corpus endometrioid carcinoma (308;0.0182)		TTATCTTTCACATGCCAGGAA	0.488													3	98	---	---	---	---	PASS
CDC6	990	broad.mit.edu	37	17	38447480	38447480	+	Nonsense_Mutation	SNP	C	T	T			TCGA-B0-4945-01A-01D-1421-08	TCGA-B0-4945-11A-01D-1421-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:38447480C>T	uc002huj.1	+	3	559	c.349C>T	c.(349-351)CAA>TAA	p.Q117*		NM_001254	NP_001245	Q99741	CDC6_HUMAN	cell division cycle 6 protein	117					cell division|DNA replication|DNA replication checkpoint|M/G1 transition of mitotic cell cycle|mitosis|negative regulation of cell proliferation|negative regulation of DNA replication|positive regulation of cell cycle cytokinesis|positive regulation of chromosome segregation|regulation of cyclin-dependent protein kinase activity|regulation of mitotic anaphase|regulation of transcription involved in G1/S phase of mitotic cell cycle|S phase of mitotic cell cycle|traversing start control point of mitotic cell cycle	cytosol|nucleoplasm|spindle midzone|spindle pole	ATP binding|kinase binding|nucleoside-triphosphatase activity			ovary(2)|breast(1)	3						CAAAGTTCACCAAAACAAAAT	0.388													6	131	---	---	---	---	PASS
MPP3	4356	broad.mit.edu	37	17	41898423	41898423	+	Missense_Mutation	SNP	A	T	T			TCGA-B0-4945-01A-01D-1421-08	TCGA-B0-4945-11A-01D-1421-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:41898423A>T	uc002iei.3	-	11	854	c.688T>A	c.(688-690)TTC>ATC	p.F230I	MPP3_uc002ieh.2_Missense_Mutation_p.F255I|MPP3_uc002iej.2_RNA|MPP3_uc010czi.1_Missense_Mutation_p.F230I|MPP3_uc010wik.1_Missense_Mutation_p.F255I	NM_001932	NP_001923	Q13368	MPP3_HUMAN	palmitoylated membrane protein 3	230	SH3.				signal transduction	cell surface|integral to plasma membrane	guanylate kinase activity			large_intestine(1)|skin(1)	2		Breast(137;0.00394)		BRCA - Breast invasive adenocarcinoma(366;0.119)		GCGCGCATGAACACCTGCACA	0.627													3	24	---	---	---	---	PASS
LRRC37A4	55073	broad.mit.edu	37	17	43587708	43587708	+	Intron	SNP	A	G	G			TCGA-B0-4945-01A-01D-1421-08	TCGA-B0-4945-11A-01D-1421-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:43587708A>G	uc002ije.2	-						uc010wjp.1_RNA					Homo sapiens cDNA FLJ34414 fis, clone HEART2003168, highly similar to Homo sapiens c114 SLIT-like testicular protein (LOC474170), mRNA.												0						AACAACCACCATCTCCAAATC	0.348													3	56	---	---	---	---	PASS
QRICH2	84074	broad.mit.edu	37	17	74287900	74287900	+	Missense_Mutation	SNP	C	A	A			TCGA-B0-4945-01A-01D-1421-08	TCGA-B0-4945-11A-01D-1421-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:74287900C>A	uc002jrd.1	-	4	2590	c.2410G>T	c.(2410-2412)GGT>TGT	p.G804C	QRICH2_uc010wsz.1_Missense_Mutation_p.G730C|QRICH2_uc010dgw.1_Intron	NM_032134	NP_115510	Q9H0J4	QRIC2_HUMAN	glutamine rich 2	804							protein binding			ovary(1)|pancreas(1)|lung(1)|central_nervous_system(1)|skin(1)	5						TGTCTCAAACCATACTGATCC	0.463													4	175	---	---	---	---	PASS
METRNL	284207	broad.mit.edu	37	17	81042716	81042716	+	Intron	SNP	C	A	A			TCGA-B0-4945-01A-01D-1421-08	TCGA-B0-4945-11A-01D-1421-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:81042716C>A	uc002kgh.2	+						METRNL_uc002kgi.2_5'UTR	NM_001004431	NP_001004431	Q641Q3	METRL_HUMAN	meteorin, glial cell differentiation							extracellular region					0	Breast(20;0.000443)|all_neural(118;0.0779)		BRCA - Breast invasive adenocarcinoma(99;0.0517)|OV - Ovarian serous cystadenocarcinoma(97;0.0868)			GAGCCGCCATCATTTGGAGCG	0.697													6	18	---	---	---	---	PASS
C18orf34	374864	broad.mit.edu	37	18	30517850	30517850	+	3'UTR	SNP	G	T	T			TCGA-B0-4945-01A-01D-1421-08	TCGA-B0-4945-11A-01D-1421-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr18:30517850G>T	uc002kxn.2	-	22					C18orf34_uc010xbq.1_RNA|C18orf34_uc010dme.1_3'UTR|C18orf34_uc010xbr.1_3'UTR|C18orf34_uc010dmf.1_3'UTR|C18orf34_uc002kxo.2_3'UTR	NM_001105528	NP_001098998	Q5BJE1	CR034_HUMAN	hypothetical protein LOC374864 isoform 1											ovary(1)	1						GCTGGGAGGTGAGTGAGTTTT	0.408													5	7	---	---	---	---	PASS
TCF3	6929	broad.mit.edu	37	19	1623968	1623968	+	Silent	SNP	C	T	T			TCGA-B0-4945-01A-01D-1421-08	TCGA-B0-4945-11A-01D-1421-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:1623968C>T	uc002ltr.2	-	8	598	c.531G>A	c.(529-531)CCG>CCA	p.P177P	TCF3_uc002lto.2_5'Flank|TCF3_uc002ltt.3_Silent_p.P177P|TCF3_uc002ltq.2_Silent_p.P126P|TCF3_uc002lts.1_Silent_p.P93P	NM_003200	NP_003191	P15923	TFE2_HUMAN	transcription factor 3 isoform E12	177					B cell lineage commitment|B cell lineage commitment|G1 phase of mitotic cell cycle|immunoglobulin V(D)J recombination|muscle cell differentiation|positive regulation of B cell proliferation|positive regulation of cell cycle|positive regulation of muscle cell differentiation|positive regulation of neuron differentiation|positive regulation of sequence-specific DNA binding transcription factor activity|positive regulation of transcription from RNA polymerase II promoter|positive regulation of transcription from RNA polymerase II promoter	cytoplasm|nucleus|protein complex|transcription factor complex	bHLH transcription factor binding|DNA binding|E-box binding|identical protein binding|mitogen-activated protein kinase kinase kinase binding|protein heterodimerization activity|protein homodimerization activity|sequence-specific DNA binding transcription factor activity|sequence-specific DNA binding transcription factor activity|transcription coactivator activity|vitamin D response element binding			lung(2)|breast(2)|ovary(1)|large_intestine(1)|skin(1)	7		Acute lymphoblastic leukemia(61;5.94e-12)|all_hematologic(61;1.27e-07)		UCEC - Uterine corpus endometrioid carcinoma (162;6.64e-05)|OV - Ovarian serous cystadenocarcinoma(105;1.09e-113)|Epithelial(107;3.79e-112)|all cancers(105;1.67e-104)|BRCA - Breast invasive adenocarcinoma(158;0.00136)|STAD - Stomach adenocarcinoma(1328;0.18)		GAAGACCCGGCGGGACCTTCC	0.632			T	PBX1|HLF|TFPT	pre B-ALL								5	28	---	---	---	---	PASS
KIAA1543	57662	broad.mit.edu	37	19	7670326	7670326	+	Silent	SNP	G	A	A			TCGA-B0-4945-01A-01D-1421-08	TCGA-B0-4945-11A-01D-1421-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:7670326G>A	uc002mgv.3	+	2	464	c.363G>A	c.(361-363)CCG>CCA	p.P121P	KIAA1543_uc002mgu.3_Silent_p.P121P	NM_020902	NP_065953	Q9P1Y5	CAMP3_HUMAN	NEZHA isoform 2	121					epithelial cell-cell adhesion|microtubule anchoring|regulation of microtubule cytoskeleton organization|zonula adherens maintenance	cytoplasm|microtubule|zonula adherens	microtubule minus-end binding			pancreas(1)	1						CCGAGCGCCCGGTGCGCGAGG	0.682													3	40	---	---	---	---	PASS
CRLF1	9244	broad.mit.edu	37	19	18709677	18709677	+	Missense_Mutation	SNP	C	A	A			TCGA-B0-4945-01A-01D-1421-08	TCGA-B0-4945-11A-01D-1421-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:18709677C>A	uc010ebt.1	-	3	626	c.432G>T	c.(430-432)TGG>TGT	p.W144C		NM_004750	NP_004741	O75462	CRLF1_HUMAN	cytokine receptor-like factor 1 precursor	144	Fibronectin type-III 1.				negative regulation of neuron apoptosis|positive regulation of cell proliferation|positive regulation of tyrosine phosphorylation of Stat3 protein	extracellular space	cytokine binding|protein heterodimerization activity|receptor activity			central_nervous_system(1)	1						TGTTCTTGGACCAGCAGCTGA	0.612													4	88	---	---	---	---	PASS
UBA2	10054	broad.mit.edu	37	19	34959981	34959981	+	Missense_Mutation	SNP	A	C	C			TCGA-B0-4945-01A-01D-1421-08	TCGA-B0-4945-11A-01D-1421-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:34959981A>C	uc002nvk.2	+	17	1848	c.1778A>C	c.(1777-1779)GAT>GCT	p.D593A	UBA2_uc002nvl.2_Missense_Mutation_p.D497A	NM_005499	NP_005490	Q9UBT2	SAE2_HUMAN	SUMO-1 activating enzyme subunit 2	593					protein sumoylation	nucleus	ATP binding|enzyme activator activity|ligase activity|metal ion binding|protein heterodimerization activity|SUMO activating enzyme activity			ovary(1)	1	Esophageal squamous(110;0.162)		LUSC - Lung squamous cell carcinoma(66;0.211)			GTTGATTCAGATGAAGAAGAT	0.413													10	46	---	---	---	---	PASS
PTGIR	5739	broad.mit.edu	37	19	47124908	47124908	+	Missense_Mutation	SNP	C	G	G			TCGA-B0-4945-01A-01D-1421-08	TCGA-B0-4945-11A-01D-1421-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:47124908C>G	uc002pex.2	-	3	903	c.790G>C	c.(790-792)GTC>CTC	p.V264L		NM_000960	NP_000951	P43119	PI2R_HUMAN	prostaglandin I2 (prostacyclin) receptor (IP)	264	Extracellular (Potential).				cell-cell signaling|G-protein signaling, coupled to cyclic nucleotide second messenger|platelet activation	integral to plasma membrane	G-protein coupled receptor activity|guanyl-nucleotide exchange factor activity				0		Ovarian(192;0.0129)|all_neural(266;0.0459)|Breast(70;0.212)		OV - Ovarian serous cystadenocarcinoma(262;0.000327)|all cancers(93;0.000641)|Epithelial(262;0.0174)|GBM - Glioblastoma multiforme(486;0.0331)	Dinoprost Tromethamine(DB01160)|Dinoprostone(DB00917)|Epoprostenol(DB01240)|Iloprost(DB01088)|Misoprostol(DB00929)	TCAGGGGCGACAGCCTGGGTG	0.632													6	42	---	---	---	---	PASS
SIGLEC10	89790	broad.mit.edu	37	19	51919558	51919558	+	Intron	SNP	C	A	A			TCGA-B0-4945-01A-01D-1421-08	TCGA-B0-4945-11A-01D-1421-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:51919558C>A	uc002pwo.2	-						SIGLEC10_uc002pwp.2_Intron|SIGLEC10_uc002pwq.2_Intron|SIGLEC10_uc002pwr.2_Intron|SIGLEC10_uc010ycy.1_Intron|SIGLEC10_uc010ycz.1_Intron|SIGLEC10_uc010eow.2_Silent_p.L18L|SIGLEC10_uc002pws.1_Intron	NM_033130	NP_149121	Q96LC7	SIG10_HUMAN	sialic acid binding Ig-like lectin 10 precursor						cell adhesion	extracellular region|integral to membrane|plasma membrane	sugar binding			skin(1)	1		all_neural(266;0.0199)		GBM - Glioblastoma multiforme(134;0.000668)|OV - Ovarian serous cystadenocarcinoma(262;0.0101)		CGACGGCCCTCAGTACCTGGC	0.453													4	202	---	---	---	---	PASS
TTYH1	57348	broad.mit.edu	37	19	54930442	54930442	+	Nonsense_Mutation	SNP	C	A	A			TCGA-B0-4945-01A-01D-1421-08	TCGA-B0-4945-11A-01D-1421-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:54930442C>A	uc002qfq.2	+	2	359	c.267C>A	c.(265-267)TGC>TGA	p.C89*	TTYH1_uc010yey.1_Nonsense_Mutation_p.C138*|TTYH1_uc002qfr.2_Nonsense_Mutation_p.C89*|TTYH1_uc002qft.2_Nonsense_Mutation_p.C89*|TTYH1_uc002qfu.1_5'UTR	NM_020659	NP_065710	Q9H313	TTYH1_HUMAN	tweety 1 isoform 1	89	Helical; Name=2; (Potential).				cell adhesion	chloride channel complex|plasma membrane	chloride channel activity|iron ion transmembrane transporter activity				0	Ovarian(34;0.19)			GBM - Glioblastoma multiforme(193;0.0767)		GGGGAGGCTGCGTCACCTGGA	0.687													3	47	---	---	---	---	PASS
LILRA2	11027	broad.mit.edu	37	19	55086932	55086932	+	Missense_Mutation	SNP	C	T	T			TCGA-B0-4945-01A-01D-1421-08	TCGA-B0-4945-11A-01D-1421-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:55086932C>T	uc002qgg.3	+	5	954	c.865C>T	c.(865-867)CAC>TAC	p.H289Y	LILRA2_uc010ern.2_Missense_Mutation_p.H289Y|LILRA2_uc002qgf.2_Missense_Mutation_p.H289Y|LILRA2_uc010yfe.1_Missense_Mutation_p.H289Y|LILRA2_uc010yff.1_Missense_Mutation_p.H277Y|LILRA2_uc010ero.2_Missense_Mutation_p.H277Y|LILRA2_uc010yfg.1_Intron	NM_001130917	NP_001124389	Q8N149	LIRA2_HUMAN	leukocyte immunoglobulin-like receptor,	289	Ig-like C2-type 3.|Extracellular (Potential).				defense response	integral to membrane	antigen binding|receptor activity			ovary(1)	1				GBM - Glioblastoma multiforme(193;0.0963)		GAGCCCCTCCCACGGGGGCCA	0.647													3	92	---	---	---	---	PASS
ZHX3	23051	broad.mit.edu	37	20	39831138	39831138	+	Nonsense_Mutation	SNP	C	A	A			TCGA-B0-4945-01A-01D-1421-08	TCGA-B0-4945-11A-01D-1421-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr20:39831138C>A	uc002xjs.1	-	3	2797	c.2419G>T	c.(2419-2421)GAG>TAG	p.E807*	ZHX3_uc002xjq.1_Intron|ZHX3_uc002xjr.1_Nonsense_Mutation_p.E807*|ZHX3_uc002xjt.1_Nonsense_Mutation_p.E807*|ZHX3_uc002xju.1_Nonsense_Mutation_p.E807*|ZHX3_uc002xjv.1_Nonsense_Mutation_p.E807*|ZHX3_uc002xjw.1_Nonsense_Mutation_p.E807*|ZHX3_uc010ggg.1_Nonsense_Mutation_p.E807*	NM_015035	NP_055850	Q9H4I2	ZHX3_HUMAN	zinc fingers and homeoboxes 3	807	Homeobox 4.				negative regulation of transcription, DNA-dependent	cytoplasm|nucleolus	protein binding|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(1)|pancreas(1)|skin(1)	3		Myeloproliferative disorder(115;0.00425)				CGCACCACCTCTGGCCGTGGC	0.577													5	211	---	---	---	---	PASS
PABPC1L	80336	broad.mit.edu	37	20	43564119	43564119	+	Missense_Mutation	SNP	C	A	A			TCGA-B0-4945-01A-01D-1421-08	TCGA-B0-4945-11A-01D-1421-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr20:43564119C>A	uc010ggv.1	+	11	1614	c.1532C>A	c.(1531-1533)GCA>GAA	p.A511E	PABPC1L_uc010zwq.1_RNA|PABPC1L_uc002xmv.2_RNA|PABPC1L_uc002xmw.2_Missense_Mutation_p.A65E|PABPC1L_uc002xmx.2_Missense_Mutation_p.A65E	NM_001124756	NP_001118228	Q4VXU2	PAP1L_HUMAN	poly(A)-binding protein, cytoplasmic 1-like	511							nucleotide binding|RNA binding			ovary(1)	1						TGTTCCTCAGCAGCACATAGC	0.577													4	32	---	---	---	---	PASS
IGLL1	3543	broad.mit.edu	37	22	23915409	23915409	+	3'UTR	SNP	T	C	C			TCGA-B0-4945-01A-01D-1421-08	TCGA-B0-4945-11A-01D-1421-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr22:23915409T>C	uc002zxd.2	-	3					IGLL1_uc002zxe.2_3'UTR	NM_020070	NP_064455	P15814	IGLL1_HUMAN	immunoglobulin lambda-like polypeptide 1 isoform						immune response	extracellular region|membrane					0						TCCCCTGGGATCCTGCAGCTC	0.572													10	50	---	---	---	---	PASS
LIMK2	3985	broad.mit.edu	37	22	31664140	31664140	+	Missense_Mutation	SNP	C	T	T			TCGA-B0-4945-01A-01D-1421-08	TCGA-B0-4945-11A-01D-1421-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr22:31664140C>T	uc003akh.2	+	11	1416	c.1271C>T	c.(1270-1272)CCC>CTC	p.P424L	LIMK2_uc003akg.2_Missense_Mutation_p.P341L|LIMK2_uc003aki.2_Missense_Mutation_p.P178L|LIMK2_uc003akj.2_Missense_Mutation_p.P403L|LIMK2_uc003akk.2_Missense_Mutation_p.P403L|LIMK2_uc011aln.1_Missense_Mutation_p.P341L	NM_005569	NP_005560	P53671	LIMK2_HUMAN	LIM domain kinase 2 isoform 2a	424	Protein kinase.					mitochondrion|nucleus	ATP binding|protein serine/threonine kinase activity|zinc ion binding			ovary(2)	2						GATCCGTTCCCCTGGCAGCAG	0.577													19	93	---	---	---	---	PASS
TMPRSS6	164656	broad.mit.edu	37	22	37462067	37462067	+	3'UTR	SNP	C	T	T			TCGA-B0-4945-01A-01D-1421-08	TCGA-B0-4945-11A-01D-1421-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr22:37462067C>T	uc003aqs.1	-	18					TMPRSS6_uc003aqt.1_3'UTR	NM_153609	NP_705837	Q8IU80	TMPS6_HUMAN	transmembrane protease, serine 6						angiogenesis|extracellular matrix organization|fibrinolysis|intracellular signal transduction|proteolysis	integral to membrane|intracellular|plasma membrane	serine-type endopeptidase activity			breast(4)|ovary(1)|skin(1)	6						TGGCAGTTGCCCTGGGCTCTC	0.627													17	49	---	---	---	---	PASS
MSL3	10943	broad.mit.edu	37	X	11790301	11790301	+	Silent	SNP	C	T	T			TCGA-B0-4945-01A-01D-1421-08	TCGA-B0-4945-11A-01D-1421-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chrX:11790301C>T	uc004cuw.2	+	11	1413	c.1308C>T	c.(1306-1308)GAC>GAT	p.D436D	MSL3_uc004cux.2_Silent_p.D377D|MSL3_uc011mig.1_Silent_p.D287D|MSL3_uc011mih.1_Silent_p.D424D|MSL3_uc004cuy.2_Silent_p.D270D	NM_078629	NP_523353	Q8N5Y2	MS3L1_HUMAN	male-specific lethal 3-like 1 isoform a	436					histone H4-K16 acetylation|multicellular organismal development|transcription from RNA polymerase II promoter	MSL complex	DNA binding|methylated histone residue binding|sequence-specific DNA binding transcription factor activity			ovary(1)	1						TTGTGCCTGACAATTACCCCC	0.463													7	362	---	---	---	---	PASS
Unknown	0	broad.mit.edu	37	X	19507017	19507017	+	IGR	SNP	C	T	T			TCGA-B0-4945-01A-01D-1421-08	TCGA-B0-4945-11A-01D-1421-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chrX:19507017C>T								MAP3K15 (6623 upstream) : SH3KBP1 (45067 downstream)																							TCAAAGCTTTCTCGGACTCCA	0.483													9	187	---	---	---	---	PASS
FAM47A	158724	broad.mit.edu	37	X	34149812	34149812	+	Missense_Mutation	SNP	G	A	A			TCGA-B0-4945-01A-01D-1421-08	TCGA-B0-4945-11A-01D-1421-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chrX:34149812G>A	uc004ddg.2	-	1	617	c.584C>T	c.(583-585)CCG>CTG	p.P195L		NM_203408	NP_981953	Q5JRC9	FA47A_HUMAN	hypothetical protein LOC158724	195	Pro-rich.									ovary(4)|central_nervous_system(1)	5						ATGGGACACCGGAGTCTCGGG	0.612													4	98	---	---	---	---	PASS
MAOB	4129	broad.mit.edu	37	X	43698194	43698194	+	Missense_Mutation	SNP	G	T	T			TCGA-B0-4945-01A-01D-1421-08	TCGA-B0-4945-11A-01D-1421-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chrX:43698194G>T	uc004dfz.3	-	3	375	c.199C>A	c.(199-201)CGT>AGT	p.R67S	MAOB_uc011mkx.1_Missense_Mutation_p.R51S|MAOB_uc011mky.1_Missense_Mutation_p.R51S|MAOB_uc010nhj.2_Missense_Mutation_p.R67S	NM_000898	NP_000889	P27338	AOFB_HUMAN	monoamine oxidase B	67	Cytoplasmic.				xenobiotic metabolic process	integral to membrane|mitochondrial outer membrane	electron carrier activity|primary amine oxidase activity			ovary(1)|central_nervous_system(1)	2					Amantadine(DB00915)|Bupropion(DB01156)|Carbidopa(DB00190)|Citalopram(DB00215)|Dopamine(DB00988)|Entacapone(DB00494)|Furazolidone(DB00614)|Ginkgo biloba(DB01381)|Ibuprofen(DB01050)|Imipramine(DB00458)|Iproniazid(DB04818)|Isocarboxazid(DB01247)|Levodopa(DB01235)|Maprotiline(DB00934)|Meclizine(DB00737)|Moclobemide(DB01171)|Nicotine(DB00184)|Pargyline(DB01626)|Phenelzine(DB00780)|Phentermine(DB00191)|Rasagiline(DB01367)|Selegiline(DB01037)|Tranylcypromine(DB00752)	CTCAAGATACGATTCTGGGTT	0.383													13	337	---	---	---	---	PASS
SLC7A3	84889	broad.mit.edu	37	X	70147814	70147814	+	Missense_Mutation	SNP	A	C	C			TCGA-B0-4945-01A-01D-1421-08	TCGA-B0-4945-11A-01D-1421-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chrX:70147814A>C	uc004dyn.2	-	6	1035	c.877T>G	c.(877-879)TCT>GCT	p.S293A	SLC7A3_uc004dyo.2_Missense_Mutation_p.S293A	NM_032803	NP_116192	Q8WY07	CTR3_HUMAN	solute carrier family 7 (cationic amino acid	293	Helical; Name=7; (Potential).				cellular nitrogen compound metabolic process	integral to membrane|plasma membrane				ovary(1)|kidney(1)	2	Renal(35;0.156)				L-Arginine(DB00125)|L-Lysine(DB00123)|L-Ornithine(DB00129)	AAGCAGACAGACAGTGAGATC	0.517													8	32	---	---	---	---	PASS
Unknown	0	broad.mit.edu	37	1	88614131	88614154	+	IGR	DEL	GAAGGAAGGAAGGAAGGAAGGAAG	-	-	rs71664185		TCGA-B0-4945-01A-01D-1421-08	TCGA-B0-4945-11A-01D-1421-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:88614131_88614154delGAAGGAAGGAAGGAAGGAAGGAAG								LMO4 (799528 upstream) : PKN2 (535768 downstream)																							gaagaaagaagaaggaaggaaggaaggaaggaaggaaggaagga	0.134													3	5	---	---	---	---	
VAV3	10451	broad.mit.edu	37	1	108417352	108417353	+	Intron	INS	-	TTG	TTG	rs150166087	by1000genomes	TCGA-B0-4945-01A-01D-1421-08	TCGA-B0-4945-11A-01D-1421-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:108417352_108417353insTTG	uc001dvk.1	-						VAV3_uc010ouw.1_Intron|VAV3_uc001dvl.1_Intron|VAV3_uc010oux.1_Intron	NM_006113	NP_006104	Q9UKW4	VAV3_HUMAN	vav 3 guanine nucleotide exchange factor isoform						angiogenesis|apoptosis|B cell receptor signaling pathway|induction of apoptosis by extracellular signals|nerve growth factor receptor signaling pathway|platelet activation|positive regulation of B cell proliferation|regulation of Rho protein signal transduction|response to DNA damage stimulus|response to drug|small GTPase mediated signal transduction	cytosol	GTPase activator activity|metal ion binding|SH3/SH2 adaptor activity			ovary(5)|lung(2)|breast(2)	9		all_epithelial(167;5.38e-05)|all_lung(203;0.000314)|Lung NSC(277;0.000594)		Colorectal(144;0.0331)|Lung(183;0.128)|Epithelial(280;0.204)		gggtttcttttttgttgttgtt	0.203													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	1	108921140	108921141	+	Intron	DEL	TG	-	-			TCGA-B0-4945-01A-01D-1421-08	TCGA-B0-4945-11A-01D-1421-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:108921140_108921141delTG	uc001dvq.2	+							NM_001143989				neuroblastoma breakpoint family, member 4																		tatatatgtatgtgtgtgtgtg	0.228													4	2	---	---	---	---	
NBPF15	284565	broad.mit.edu	37	1	148562535	148562536	+	Intron	INS	-	CCTT	CCTT	rs142085487	by1000genomes	TCGA-B0-4945-01A-01D-1421-08	TCGA-B0-4945-11A-01D-1421-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:148562535_148562536insCCTT	uc001esc.2	+						NBPF15_uc001esb.1_Intron	NM_173638	NP_775909	Q8N660	NBPFF_HUMAN	hypothetical protein LOC284565							cytoplasm					0	all_hematologic(923;0.032)					cttcctccctcccttccttcct	0.000													4	3	---	---	---	---	
RABGAP1L	9910	broad.mit.edu	37	1	174164755	174164758	+	Intron	DEL	CTTC	-	-	rs71878256		TCGA-B0-4945-01A-01D-1421-08	TCGA-B0-4945-11A-01D-1421-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:174164755_174164758delCTTC	uc001gjx.2	+						RABGAP1L_uc009wwq.1_Intron|RABGAP1L_uc001gjw.2_Intron	NM_014857	NP_055672	Q5R372	RBG1L_HUMAN	RAB GTPase activating protein 1-like isoform A						regulation of protein localization	early endosome|Golgi apparatus|nucleus	Rab GTPase activator activity			ovary(2)|lung(1)|kidney(1)	4						ttctttctttcttccttccttcct	0.000													4	2	---	---	---	---	
EDARADD	128178	broad.mit.edu	37	1	236630726	236630727	+	Intron	INS	-	CACA	CACA	rs72237464		TCGA-B0-4945-01A-01D-1421-08	TCGA-B0-4945-11A-01D-1421-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:236630726_236630727insCACA	uc001hxu.1	+						EDARADD_uc001hxv.1_Intron	NM_145861	NP_665860	Q8WWZ3	EDAD_HUMAN	EDAR-associated death domain isoform A						cell differentiation|signal transduction	cytoplasm					0	Ovarian(103;0.0634)|Breast(184;0.247)	all_cancers(173;0.0232)|Prostate(94;0.174)	OV - Ovarian serous cystadenocarcinoma(106;0.00117)			acacacacgcgcacacacacac	0.307													2	4	---	---	---	---	
PSME4	23198	broad.mit.edu	37	2	54131006	54131007	+	Intron	INS	-	A	A	rs34521882		TCGA-B0-4945-01A-01D-1421-08	TCGA-B0-4945-11A-01D-1421-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:54131006_54131007insA	uc002rxp.2	-						PSME4_uc010yop.1_Intron|PSME4_uc010yoq.1_Intron|PSME4_uc010fbu.1_Intron|PSME4_uc010fbv.1_Intron	NM_014614	NP_055429	Q14997	PSME4_HUMAN	proteasome (prosome, macropain) activator						anaphase-promoting complex-dependent proteasomal ubiquitin-dependent protein catabolic process|apoptosis|cell differentiation|DNA damage response, signal transduction by p53 class mediator resulting in cell cycle arrest|M/G1 transition of mitotic cell cycle|mRNA metabolic process|multicellular organismal development|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|spermatogenesis|viral reproduction	nuclear speck|proteasome complex	binding			ovary(2)|breast(2)|pancreas(1)	5			Lung(47;0.125)|LUSC - Lung squamous cell carcinoma(58;0.181)			tgaaatacattaaaaaaaagaa	0.074													4	2	---	---	---	---	
CTNNA2	1496	broad.mit.edu	37	2	79423063	79423066	+	Intron	DEL	TTTG	-	-	rs3979543		TCGA-B0-4945-01A-01D-1421-08	TCGA-B0-4945-11A-01D-1421-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:79423063_79423066delTTTG	uc010yse.1	+							NM_004389	NP_004380	P26232	CTNA2_HUMAN	catenin, alpha 2 isoform 1						axonogenesis|brain morphogenesis|cell-cell adhesion|dendrite morphogenesis|muscle cell differentiation|positive regulation of muscle cell differentiation|prepulse inhibition|radial glia guided migration of Purkinje cell|regulation of synapse structural plasticity	actin cytoskeleton|axon|cytosol	cadherin binding|structural constituent of cytoskeleton			pancreas(4)|lung(3)|breast(1)|skin(1)	9						AACTCAGttttttgtttgtttgtt	0.201													3	3	---	---	---	---	
SNRNP200	23020	broad.mit.edu	37	2	96950488	96950488	+	Intron	DEL	T	-	-			TCGA-B0-4945-01A-01D-1421-08	TCGA-B0-4945-11A-01D-1421-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:96950488delT	uc002svu.2	-						SNRNP200_uc002svt.2_5'Flank|SNRNP200_uc010yuj.1_Intron|SNRNP200_uc002svv.1_5'UTR	NM_014014	NP_054733	O75643	U520_HUMAN	activating signal cointegrator 1 complex subunit							catalytic step 2 spliceosome|nucleoplasm|U5 snRNP	ATP binding|ATP-dependent helicase activity|nucleic acid binding|protein binding			ovary(5)|skin(4)|large_intestine(1)	10						CAGCtttttcttttttttttt	0.244													4	2	---	---	---	---	
UBR3	130507	broad.mit.edu	37	2	170938525	170938525	+	3'UTR	DEL	T	-	-			TCGA-B0-4945-01A-01D-1421-08	TCGA-B0-4945-11A-01D-1421-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:170938525delT	uc010zdi.1	+	39					UBR3_uc002ufr.3_RNA|UBR3_uc010fqa.2_3'UTR|UBR3_uc002uft.3_3'UTR|UBR3_uc010zdj.1_3'UTR|UBR3_uc002ufu.3_3'UTR	NM_172070	NP_742067	Q6ZT12	UBR3_HUMAN	E3 ubiquitin-protein ligase UBR3						sensory perception of smell|suckling behavior|ubiquitin-dependent protein catabolic process	integral to membrane	ubiquitin-protein ligase activity|zinc ion binding				0						AATGGtataattttttttttt	0.289													4	2	---	---	---	---	
KIF1A	547	broad.mit.edu	37	2	241724234	241724234	+	Intron	DEL	G	-	-	rs113212728		TCGA-B0-4945-01A-01D-1421-08	TCGA-B0-4945-11A-01D-1421-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:241724234delG	uc002vzy.2	-						KIF1A_uc010fzk.2_Intron|KIF1A_uc002vzz.1_Intron	NM_004321	NP_004312	Q12756	KIF1A_HUMAN	axonal transport of synaptic vesicles						anterograde axon cargo transport	cytoplasm|microtubule|nucleus	ATP binding|microtubule motor activity			lung(1)	1		all_epithelial(40;1.35e-15)|Breast(86;2.14e-05)|Renal(207;0.00183)|Ovarian(221;0.0228)|all_lung(227;0.0295)|all_neural(83;0.0459)|Lung NSC(271;0.0942)|all_hematologic(139;0.158)|Melanoma(123;0.16)|Hepatocellular(293;0.244)		Epithelial(32;6.12e-30)|all cancers(36;3.46e-27)|OV - Ovarian serous cystadenocarcinoma(60;1.38e-14)|Kidney(56;5e-09)|KIRC - Kidney renal clear cell carcinoma(57;5e-08)|BRCA - Breast invasive adenocarcinoma(100;5.87e-06)|Lung(119;0.00209)|LUSC - Lung squamous cell carcinoma(224;0.00902)|Colorectal(34;0.0282)|COAD - Colon adenocarcinoma(134;0.176)		CCTCTGGGGCGGGGGGGGGGA	0.657													6	4	---	---	---	---	
Unknown	0	broad.mit.edu	37	3	75703977	75703978	+	IGR	INS	-	T	T			TCGA-B0-4945-01A-01D-1421-08	TCGA-B0-4945-11A-01D-1421-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:75703977_75703978insT								MIR1324 (23968 upstream) : ZNF717 (54816 downstream)																							TCTTTTCTGAATTTTTTATTTT	0.322													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	3	122779228	122779231	+	IGR	DEL	CTTC	-	-	rs12632332		TCGA-B0-4945-01A-01D-1421-08	TCGA-B0-4945-11A-01D-1421-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:122779228_122779231delCTTC								SEMA5B (31776 upstream) : PDIA5 (6734 downstream)																							tccttcctttcttccttccttctt	0.005													3	3	---	---	---	---	
SCFD2	152579	broad.mit.edu	37	4	53826911	53826911	+	Intron	DEL	C	-	-			TCGA-B0-4945-01A-01D-1421-08	TCGA-B0-4945-11A-01D-1421-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:53826911delC	uc003gzu.2	-						SCFD2_uc010igm.2_Intron	NM_152540	NP_689753	Q8WU76	SCFD2_HUMAN	sec1 family domain containing 2						protein transport|vesicle docking involved in exocytosis					ovary(2)|pancreas(1)	3			GBM - Glioblastoma multiforme(3;1.07e-26)|LUSC - Lung squamous cell carcinoma(32;0.0134)			cacacacacaccacacaTGTG	0.139													4	2	---	---	---	---	
TMEM165	55858	broad.mit.edu	37	4	56290940	56290941	+	Intron	INS	-	AATA	AATA	rs140080934	by1000genomes	TCGA-B0-4945-01A-01D-1421-08	TCGA-B0-4945-11A-01D-1421-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:56290940_56290941insAATA	uc003hax.2	+						TMEM165_uc011bzy.1_Intron	NM_018475	NP_060945	Q9HC07	TM165_HUMAN	transmembrane protein 165							integral to membrane					0	Lung NSC(11;0.00545)|Glioma(25;0.08)|all_neural(26;0.101)|all_epithelial(27;0.135)		LUSC - Lung squamous cell carcinoma(4;1.62e-07)|Lung(4;1.34e-06)|Epithelial(7;0.0103)			CCATCTCTTATAGAGGTATTAA	0.252													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	5	95170388	95170389	+	IGR	DEL	TT	-	-			TCGA-B0-4945-01A-01D-1421-08	TCGA-B0-4945-11A-01D-1421-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:95170388_95170389delTT								GLRX (11811 upstream) : C5orf27 (17547 downstream)																							CATATGTTCCtttttttttttt	0.173													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	5	98023155	98023156	+	IGR	INS	-	GA	GA	rs60140602		TCGA-B0-4945-01A-01D-1421-08	TCGA-B0-4945-11A-01D-1421-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:98023155_98023156insGA								None (None upstream) : RGMB (81843 downstream)																							aaggaagaaagaggaagagaga	0.045													6	3	---	---	---	---	
TMEM232	642987	broad.mit.edu	37	5	109964364	109964367	+	Intron	DEL	GTGT	-	-	rs71957821		TCGA-B0-4945-01A-01D-1421-08	TCGA-B0-4945-11A-01D-1421-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:109964364_109964367delGTGT	uc011cvh.1	-						TMEM232_uc003kox.2_Intron|TMEM232_uc010jbs.2_Intron|TMEM232_uc003koy.3_Intron			C9JQI7	TM232_HUMAN	SubName: Full=cDNA FLJ54480;							integral to membrane					0						TCAGTATCCAgtgtgtgtgtgtgt	0.230													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	5	122572158	122572158	+	IGR	DEL	T	-	-	rs35571960		TCGA-B0-4945-01A-01D-1421-08	TCGA-B0-4945-11A-01D-1421-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:122572158delT								PRDM6 (48414 upstream) : CEP120 (108422 downstream)																							GAAACCCATCTTTTTTTTTTT	0.139													4	3	---	---	---	---	
PCDHGA10	56106	broad.mit.edu	37	5	140812926	140812929	+	Intron	DEL	CTAT	-	-	rs72463976		TCGA-B0-4945-01A-01D-1421-08	TCGA-B0-4945-11A-01D-1421-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:140812926_140812929delCTAT	uc003lkl.1	+						PCDHGA1_uc003lji.1_Intron|PCDHGA2_uc003ljk.1_Intron|PCDHGA3_uc003ljm.1_Intron|PCDHGA3_uc010jfx.1_Intron|PCDHGB1_uc003ljo.1_Intron|PCDHGA4_uc003ljq.1_Intron|PCDHGB2_uc003ljs.1_Intron|PCDHGA5_uc003lju.1_Intron|PCDHGB3_uc003ljw.1_Intron|PCDHGA6_uc003ljy.1_Intron|PCDHGA7_uc003lka.1_Intron|PCDHGB4_uc003lkc.1_Intron|PCDHGA8_uc003lkd.1_Intron|PCDHGB5_uc003lkf.1_Intron|PCDHGA9_uc003lkh.1_Intron|PCDHGB6_uc003lkj.1_Intron|PCDHGB7_uc003lkn.1_Intron|PCDHGA11_uc003lkp.1_Intron|PCDHGA11_uc003lkq.1_Intron|PCDHGA12_uc003lkt.1_Intron	NM_018913	NP_061736	Q9Y5H3	PCDGA_HUMAN	protocadherin gamma subfamily A, 10 isoform 1						homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding				0			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			tactgtctgcctatctatctatct	0.000													4	4	---	---	---	---	
RANBP17	64901	broad.mit.edu	37	5	170668309	170668309	+	Intron	DEL	T	-	-			TCGA-B0-4945-01A-01D-1421-08	TCGA-B0-4945-11A-01D-1421-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:170668309delT	uc003mba.2	+						RANBP17_uc003mbb.2_Intron|RANBP17_uc003mbd.2_Intron|RANBP17_uc010jjs.2_Intron	NM_022897	NP_075048	Q9H2T7	RBP17_HUMAN	RAN binding protein 17						mRNA transport|protein import into nucleus|transmembrane transport	cytoplasm|nuclear pore	GTP binding|protein transporter activity			ovary(2)|central_nervous_system(1)	3	Renal(175;0.000159)|Lung NSC(126;0.00751)|all_lung(126;0.0123)	Medulloblastoma(196;0.0399)|all_neural(177;0.0966)	Kidney(164;7.24e-05)|KIRC - Kidney renal clear cell carcinoma(164;0.000516)			CTATAGTGGCTTTTTTTTTTT	0.338			T	TRD@	ALL								6	3	---	---	---	---	
TSPAN17	26262	broad.mit.edu	37	5	176082912	176082912	+	Intron	DEL	C	-	-	rs6897431	by1000genomes	TCGA-B0-4945-01A-01D-1421-08	TCGA-B0-4945-11A-01D-1421-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:176082912delC	uc003met.2	+						TSPAN17_uc003mes.3_Intron|TSPAN17_uc003meu.2_Intron|TSPAN17_uc003mev.2_Intron|TSPAN17_uc003mew.2_Intron	NM_012171	NP_036303	Q96FV3	TSN17_HUMAN	transmembrane 4 superfamily member 17 isoform a							integral to membrane|ubiquitin ligase complex	protein binding|ubiquitin-protein ligase activity				0	all_cancers(89;0.00141)|Renal(175;0.000269)|Lung NSC(126;0.00814)|all_lung(126;0.0133)	Medulloblastoma(196;0.00498)|all_neural(177;0.0212)	Kidney(164;3.85e-05)|KIRC - Kidney renal clear cell carcinoma(164;0.000178)			aaaaaaaaaacaaaaGCACAT	0.284													3	3	---	---	---	---	
Unknown	0	broad.mit.edu	37	6	35127030	35127031	+	IGR	INS	-	T	T			TCGA-B0-4945-01A-01D-1421-08	TCGA-B0-4945-11A-01D-1421-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:35127030_35127031insT								TCP11 (17843 upstream) : SCUBE3 (55159 downstream)																							GGGTAGGATACttttttttttt	0.050													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	7	67816460	67816463	+	IGR	DEL	TTCC	-	-			TCGA-B0-4945-01A-01D-1421-08	TCGA-B0-4945-11A-01D-1421-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:67816460_67816463delTTCC								None (None upstream) : None (None downstream)																							ctttctttctttccttccttcctt	0.000													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	7	68195077	68195078	+	IGR	INS	-	AAAA	AAAA	rs10657254		TCGA-B0-4945-01A-01D-1421-08	TCGA-B0-4945-11A-01D-1421-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:68195077_68195078insAAAA								None (None upstream) : AUTS2 (868827 downstream)																							gagaaagaaagaaagaaagaaa	0.000													5	3	---	---	---	---	
STAG3L2	442582	broad.mit.edu	37	7	74300557	74300564	+	Frame_Shift_Del	DEL	AGAGCTCC	-	-			TCGA-B0-4945-01A-01D-1421-08	TCGA-B0-4945-11A-01D-1421-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:74300557_74300564delAGAGCTCC	uc003ubj.3	-	5	625_632	c.243_250delGGAGCTCT	c.(241-252)CTGGAGCTCTTCfs	p.L81fs	STAG3L2_uc011kfj.1_RNA	NM_001025202	NP_001020373	P0CL84	ST3L2_HUMAN	STAG3-like	81_84	SCD.					nucleus	binding				0						CGGCCAGTGAAGAGCTCCAGGCGTGCGG	0.572													6	3	---	---	---	---	
PUS7	54517	broad.mit.edu	37	7	105102888	105102889	+	Intron	INS	-	A	A	rs140910509	by1000genomes	TCGA-B0-4945-01A-01D-1421-08	TCGA-B0-4945-11A-01D-1421-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:105102888_105102889insA	uc003vcx.2	-						PUS7_uc010lji.2_Intron|PUS7_uc003vcy.2_Intron|PUS7_uc003vcz.1_Intron	NM_019042	NP_061915	Q96PZ0	PUS7_HUMAN	pseudouridylate synthase 7 homolog						pseudouridine synthesis|tRNA processing		pseudouridine synthase activity|RNA binding			breast(1)	1						aaaaaaaaaccaaaaaaaaaac	0.000													6	3	---	---	---	---	
PNPLA8	50640	broad.mit.edu	37	7	108150621	108150622	+	Intron	INS	-	A	A	rs35880371		TCGA-B0-4945-01A-01D-1421-08	TCGA-B0-4945-11A-01D-1421-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:108150621_108150622insA	uc003vff.1	-						PNPLA8_uc003vfg.1_Intron|PNPLA8_uc003vfh.1_Intron|PNPLA8_uc003vfi.1_Intron|PNPLA8_uc003vfj.1_Intron|PNPLA8_uc003vfk.1_Intron	NM_015723	NP_056538	Q9NP80	PLPL8_HUMAN	patatin-like phospholipase domain containing 8						fatty acid metabolic process|lipid catabolic process	endoplasmic reticulum membrane|Golgi membrane|integral to membrane|membrane fraction|perinuclear region of cytoplasm|peroxisomal membrane	ATP binding|calcium-independent phospholipase A2 activity|lysophospholipase activity			breast(2)	2						taaagtataataaaaaaaaaaa	0.203													4	3	---	---	---	---	
ASB15	142685	broad.mit.edu	37	7	123263918	123263918	+	Intron	DEL	A	-	-			TCGA-B0-4945-01A-01D-1421-08	TCGA-B0-4945-11A-01D-1421-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:123263918delA	uc003vku.1	+						ASB15_uc003vkv.1_Intron|ASB15_uc003vkw.1_Intron	NM_080928	NP_563616	Q8WXK1	ASB15_HUMAN	ankyrin repeat and SOCS box-containing 15						intracellular signal transduction					skin(2)|lung(1)	3						actctgtctcaaaaaaaaaaa	0.000													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	8	96977957	96977964	+	IGR	DEL	AGGGAAGG	-	-	rs67336860		TCGA-B0-4945-01A-01D-1421-08	TCGA-B0-4945-11A-01D-1421-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:96977957_96977964delAGGGAAGG								C8orf37 (696520 upstream) : GDF6 (176596 downstream)																							gaaggaaggaagggaaggaaggaaggaa	0.125													6	6	---	---	---	---	
TSNARE1	203062	broad.mit.edu	37	8	143337326	143337326	+	Intron	DEL	C	-	-			TCGA-B0-4945-01A-01D-1421-08	TCGA-B0-4945-11A-01D-1421-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:143337326delC	uc003ywk.2	-						TSNARE1_uc011lju.1_Intron|TSNARE1_uc003ywj.2_Intron	NM_145003	NP_659440	Q96NA8	TSNA1_HUMAN	t-SNARE domain containing 1						vesicle-mediated transport	integral to membrane					0	all_cancers(97;7.39e-11)|all_epithelial(106;8.98e-09)|Lung NSC(106;0.000167)|all_lung(105;0.000332)|Ovarian(258;0.0315)|Acute lymphoblastic leukemia(118;0.155)					atcaccaccaccatcaccatc	0.000													4	2	---	---	---	---	
SUSD3	203328	broad.mit.edu	37	9	95838036	95838036	+	Intron	DEL	G	-	-	rs147788846	by1000genomes	TCGA-B0-4945-01A-01D-1421-08	TCGA-B0-4945-11A-01D-1421-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr9:95838036delG	uc004atb.2	+						SUSD3_uc004atc.2_Intron	NM_145006	NP_659443	Q96L08	SUSD3_HUMAN	sushi domain containing 3							integral to membrane				breast(2)|skin(2)|ovary(1)|lung(1)	6						CCCCCCCCCCGCCATGCCTCA	0.672													8	4	---	---	---	---	
VAX1	11023	broad.mit.edu	37	10	118897632	118897632	+	5'UTR	DEL	C	-	-	rs56950787		TCGA-B0-4945-01A-01D-1421-08	TCGA-B0-4945-11A-01D-1421-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:118897632delC	uc009xyx.2	-	1					VAX1_uc001ldb.1_5'UTR	NM_001112704	NP_001106175	Q5SQQ9	VAX1_HUMAN	ventral anterior homeobox 1 isoform a							nucleus	sequence-specific DNA binding			ovary(2)	2				all cancers(201;0.0108)		GGGGGGGGGGCGGAGAAGGAA	0.438													6	3	---	---	---	---	
Unknown	0	broad.mit.edu	37	10	134206133	134206135	+	IGR	DEL	GAC	-	-			TCGA-B0-4945-01A-01D-1421-08	TCGA-B0-4945-11A-01D-1421-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:134206133_134206135delGAC								LRRC27 (11123 upstream) : PWWP2B (4567 downstream)																							tgatgatggtgacggtggtgaca	0.000													4	2	---	---	---	---	
TRPM5	29850	broad.mit.edu	37	11	2441291	2441311	+	Intron	DEL	GGCCCCCACGGCCCAGGTCTC	-	-	rs147399841		TCGA-B0-4945-01A-01D-1421-08	TCGA-B0-4945-11A-01D-1421-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:2441291_2441311delGGCCCCCACGGCCCAGGTCTC	uc001lwm.3	-						TRPM5_uc010qxl.1_Intron|TRPM5_uc009ydn.2_Intron	NM_014555	NP_055370	Q9NZQ8	TRPM5_HUMAN	transient receptor potential cation channel,							integral to membrane|plasma membrane	receptor activity|voltage-gated ion channel activity			ovary(1)|breast(1)|central_nervous_system(1)|skin(1)	4		Medulloblastoma(188;0.0049)|Breast(177;0.00586)|all_epithelial(84;0.0075)|Ovarian(85;0.0256)|all_neural(188;0.0311)		BRCA - Breast invasive adenocarcinoma(625;0.00147)|LUSC - Lung squamous cell carcinoma(625;0.191)		CCACGGCCCAGGCCCCCACGGCCCAGGTCTCGGTGCTCAGG	0.683													4	4	---	---	---	---	
LRRC4C	57689	broad.mit.edu	37	11	41254297	41254298	+	Intron	INS	-	AC	AC	rs143758457	by1000genomes	TCGA-B0-4945-01A-01D-1421-08	TCGA-B0-4945-11A-01D-1421-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:41254297_41254298insAC	uc001mxc.1	-						LRRC4C_uc001mxd.1_Intron	NM_020929	NP_065980	Q9HCJ2	LRC4C_HUMAN	netrin-G1 ligand precursor						regulation of axonogenesis	integral to membrane	protein binding			ovary(4)|skin(3)|central_nervous_system(1)	8		all_lung(304;0.0575)|Lung NSC(402;0.138)				GTGTTATCAAGacacacacaca	0.198													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	11	104366351	104366352	+	IGR	DEL	AA	-	-	rs5794322		TCGA-B0-4945-01A-01D-1421-08	TCGA-B0-4945-11A-01D-1421-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:104366351_104366352delAA								PDGFD (331324 upstream) : CASP12 (390090 downstream)																							acacacacacaaacaccacaTT	0.252													3	3	---	---	---	---	
Unknown	0	broad.mit.edu	37	12	3160466	3160483	+	IGR	DEL	TTCTTTCTTTCTTTTTCT	-	-	rs74214852		TCGA-B0-4945-01A-01D-1421-08	TCGA-B0-4945-11A-01D-1421-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:3160466_3160483delTTCTTTCTTTCTTTTTCT								TEAD4 (10625 upstream) : TSPAN9 (26074 downstream)																							ccttccttccttctttctttctttttctttctttcttt	0.000													2	4	---	---	---	---	
Unknown	0	broad.mit.edu	37	12	47144923	47144926	+	IGR	DEL	GAAG	-	-	rs35061598		TCGA-B0-4945-01A-01D-1421-08	TCGA-B0-4945-11A-01D-1421-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:47144923_47144926delGAAG								SLC38A2 (378278 upstream) : SLC38A4 (13618 downstream)																							aggaaggaaagaaggaaggaagga	0.196													6	3	---	---	---	---	
LIMA1	51474	broad.mit.edu	37	12	50599578	50599578	+	Intron	DEL	A	-	-	rs5798132		TCGA-B0-4945-01A-01D-1421-08	TCGA-B0-4945-11A-01D-1421-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:50599578delA	uc001rwj.3	-						LIMA1_uc001rwh.3_Intron|LIMA1_uc001rwi.3_Intron|LIMA1_uc001rwk.3_Intron|LIMA1_uc010smr.1_Intron|LIMA1_uc010sms.1_Intron	NM_016357	NP_057441	Q9UHB6	LIMA1_HUMAN	LIM domain and actin binding 1 isoform b						actin filament bundle assembly|negative regulation of actin filament depolymerization|ruffle organization	cytoplasm|focal adhesion|stress fiber	actin filament binding|actin monomer binding|zinc ion binding			ovary(1)	1						CTTCCGTCTCaaaaaaaaaaa	0.254													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	13	38559347	38559358	+	IGR	DEL	AGGCAGGCAGGC	-	-	rs71677886	by1000genomes	TCGA-B0-4945-01A-01D-1421-08	TCGA-B0-4945-11A-01D-1421-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr13:38559347_38559358delAGGCAGGCAGGC								TRPC4 (115408 upstream) : UFM1 (364584 downstream)																							gaaggaaggaaggcaggcaggcaggcaggcag	0.118													4	3	---	---	---	---	
CDC16	8881	broad.mit.edu	37	13	115008973	115008974	+	Intron	INS	-	A	A	rs35430682		TCGA-B0-4945-01A-01D-1421-08	TCGA-B0-4945-11A-01D-1421-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr13:115008973_115008974insA	uc001vuk.1	+						CDC16_uc001vul.1_Intron|CDC16_uc001vum.1_Intron|CDC16_uc001vun.1_Intron|CDC16_uc001vuo.1_Intron	NM_003903	NP_003894	Q13042	CDC16_HUMAN	anaphase-promoting complex, subunit 6						anaphase-promoting complex-dependent proteasomal ubiquitin-dependent protein catabolic process|cell division|cell proliferation|mitosis|mitotic cell cycle spindle assembly checkpoint|negative regulation of ubiquitin-protein ligase activity involved in mitotic cell cycle|positive regulation of ubiquitin-protein ligase activity involved in mitotic cell cycle|protein K11-linked ubiquitination	anaphase-promoting complex|centrosome|cytosol|nucleoplasm|spindle microtubule	binding				0	Lung NSC(43;0.00299)|all_neural(89;0.0337)|Medulloblastoma(90;0.163)|Lung SC(71;0.218)	all_cancers(25;0.0191)|all_epithelial(44;0.00716)|all_lung(25;0.0173)|Lung NSC(25;0.0634)|Breast(118;0.238)	BRCA - Breast invasive adenocarcinoma(86;0.0886)			CATAAGATTCCAAAAAAAAAAA	0.257													4	4	---	---	---	---	
Unknown	0	broad.mit.edu	37	14	31931925	31931925	+	IGR	DEL	A	-	-			TCGA-B0-4945-01A-01D-1421-08	TCGA-B0-4945-11A-01D-1421-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr14:31931925delA								HEATR5A (5245 upstream) : NUBPL (98666 downstream)																							aagactgtctaaaaaaaaaaa	0.164													3	3	---	---	---	---	
Unknown	0	broad.mit.edu	37	15	32742719	32742720	+	IGR	INS	-	AC	AC			TCGA-B0-4945-01A-01D-1421-08	TCGA-B0-4945-11A-01D-1421-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr15:32742719_32742720insAC								CHRNA7 (281486 upstream) : ARHGAP11A (164625 downstream)																							TCACAGTATGTacacacacaca	0.223													4	3	---	---	---	---	
EIF3J	8669	broad.mit.edu	37	15	44844033	44844034	+	Intron	INS	-	T	T			TCGA-B0-4945-01A-01D-1421-08	TCGA-B0-4945-11A-01D-1421-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr15:44844033_44844034insT	uc001ztv.2	+						EIF3J_uc010ueg.1_Intron|EIF3J_uc001ztw.2_Intron	NM_003758	NP_003749	O75822	EIF3J_HUMAN	eukaryotic translation initiation factor 3,							cytosol|eukaryotic translation initiation factor 3 complex	protein binding|translation initiation factor activity				0		all_cancers(109;2.81e-14)|all_epithelial(112;2.8e-12)|Lung NSC(122;1.66e-07)|all_lung(180;1.47e-06)|Melanoma(134;0.0122)		all cancers(107;3.13e-20)|GBM - Glioblastoma multiforme(94;9.81e-07)|COAD - Colon adenocarcinoma(120;0.0754)|Colorectal(105;0.0758)		gttgttttttgttttttttttt	0.168													4	2	---	---	---	---	
A2BP1	54715	broad.mit.edu	37	16	6460169	6460170	+	Intron	INS	-	TG	TG	rs141642420	by1000genomes	TCGA-B0-4945-01A-01D-1421-08	TCGA-B0-4945-11A-01D-1421-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr16:6460169_6460170insTG	uc002cys.2	+						A2BP1_uc010buf.1_Intron|A2BP1_uc002cyr.1_Intron|A2BP1_uc002cyt.2_Intron|A2BP1_uc010uxz.1_Intron	NM_018723	NP_061193	Q9NWB1	RFOX1_HUMAN	ataxin 2-binding protein 1 isoform 4						mRNA processing|RNA splicing|RNA transport	nucleus|trans-Golgi network	nucleotide binding|protein C-terminus binding|RNA binding				0		all_cancers(2;4.54e-52)|Colorectal(2;6.95e-44)|all_epithelial(2;1.15e-37)|Lung NSC(2;0.000289)|all_lung(2;0.00148)|Myeloproliferative disorder(2;0.0122)|Medulloblastoma(2;0.0354)|all_neural(2;0.0381)|all_hematologic(2;0.0749)|Renal(2;0.0758)|Melanoma(2;0.211)		Colorectal(1;3.55e-51)|COAD - Colon adenocarcinoma(2;1.92e-46)|all cancers(1;5.36e-16)|Epithelial(1;3.98e-15)|READ - Rectum adenocarcinoma(2;3.71e-05)|GBM - Glioblastoma multiforme(1;0.0499)		CATCATAAGGCtgtgtgtgtgt	0.297													6	3	---	---	---	---	
SMG1	23049	broad.mit.edu	37	16	18880243	18880244	+	Intron	INS	-	A	A			TCGA-B0-4945-01A-01D-1421-08	TCGA-B0-4945-11A-01D-1421-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr16:18880243_18880244insA	uc002dfm.2	-						SMG1_uc010bwb.2_Intron	NM_015092	NP_055907	Q96Q15	SMG1_HUMAN	PI-3-kinase-related kinase SMG-1						DNA repair|mRNA export from nucleus|nuclear-transcribed mRNA catabolic process, nonsense-mediated decay|peptidyl-serine phosphorylation|phosphatidylinositol phosphorylation|protein autophosphorylation	cytoplasm|nucleus	ATP binding|metal ion binding|protein binding|protein serine/threonine kinase activity			breast(5)|stomach(4)|lung(4)|kidney(2)|ovary(1)	16						AAGTTTTGGGGAAAAAAAAACA	0.262													3	3	---	---	---	---	
Unknown	0	broad.mit.edu	37	16	32176904	32176904	+	IGR	DEL	G	-	-			TCGA-B0-4945-01A-01D-1421-08	TCGA-B0-4945-11A-01D-1421-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr16:32176904delG								HERC2P4 (13030 upstream) : TP53TG3B (507937 downstream)																							AAAAAAAAAAGAAATCAAAGC	0.284													4	2	---	---	---	---	
CIAPIN1	57019	broad.mit.edu	37	16	57464912	57464912	+	Intron	DEL	T	-	-			TCGA-B0-4945-01A-01D-1421-08	TCGA-B0-4945-11A-01D-1421-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr16:57464912delT	uc002ell.1	-						CIAPIN1_uc002elk.1_Intron|CIAPIN1_uc002elm.1_Intron|CIAPIN1_uc002eln.1_Intron|CIAPIN1_uc010cda.1_Intron|CIAPIN1_uc002elo.1_Intron	NM_020313	NP_064709	Q6FI81	CPIN1_HUMAN	cytokine induced apoptosis inhibitor 1						anti-apoptosis|apoptosis	cytoplasm|nucleolus					0						gcctggctaattttttttttt	0.085													6	3	---	---	---	---	
BANP	54971	broad.mit.edu	37	16	88105917	88105917	+	Intron	DEL	C	-	-	rs67905287		TCGA-B0-4945-01A-01D-1421-08	TCGA-B0-4945-11A-01D-1421-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr16:88105917delC	uc002fkr.2	+						BANP_uc002fkp.2_Intron|BANP_uc002fkq.2_Intron|BANP_uc010vow.1_Intron|BANP_uc002fks.3_Intron	NM_079837	NP_524576	Q8N9N5	BANP_HUMAN	BTG3 associated nuclear protein isoform b						cell cycle|chromatin modification|multicellular organismal development|regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding				0				BRCA - Breast invasive adenocarcinoma(80;0.00551)		CGTGACTCTTCCTGTGCAGAG	0.632													7	9	---	---	---	---	
ALOXE3	59344	broad.mit.edu	37	17	8017599	8017599	+	Intron	DEL	G	-	-	rs138589278		TCGA-B0-4945-01A-01D-1421-08	TCGA-B0-4945-11A-01D-1421-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:8017599delG	uc010cnr.2	-						ALOXE3_uc002gka.2_Intron|ALOXE3_uc010vuo.1_Intron|ALOXE3_uc010vup.1_Intron	NM_021628	NP_067641	Q9BYJ1	LOXE3_HUMAN	arachidonate lipoxygenase 3 isoform 2						leukotriene biosynthetic process		iron ion binding|lipoxygenase activity			skin(3)|lung(1)|central_nervous_system(1)	5						gggagcacaagggggagacaa	0.174													4	3	---	---	---	---	
SUZ12	23512	broad.mit.edu	37	17	30322882	30322882	+	Intron	DEL	A	-	-	rs35646011		TCGA-B0-4945-01A-01D-1421-08	TCGA-B0-4945-11A-01D-1421-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:30322882delA	uc002hgs.2	+						SUZ12_uc002hgt.2_Intron	NM_015355	NP_056170	Q15022	SUZ12_HUMAN	joined to JAZF1						negative regulation of cell differentiation|transcription, DNA-dependent	ESC/E(Z) complex	histone methyltransferase activity|methylated histone residue binding|zinc ion binding		JAZF1/SUZ12(131)	soft_tissue(98)|endometrium(33)	131		Myeloproliferative disorder(56;0.0255)|all_hematologic(16;0.041)|Ovarian(249;0.182)|Breast(31;0.231)				AACTTTTTTTAAAAAAAAAAA	0.189			T	JAZF1	endometrial stromal tumours								4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	17	39063535	39063538	+	IGR	DEL	TTCC	-	-	rs71764584		TCGA-B0-4945-01A-01D-1421-08	TCGA-B0-4945-11A-01D-1421-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:39063535_39063538delTTCC								KRT20 (22056 upstream) : KRT23 (15414 downstream)																							cctccctcctttccttccttcctt	0.181													4	4	---	---	---	---	
TSEN54	283989	broad.mit.edu	37	17	73513183	73513191	+	Intron	DEL	GCCCTCCCT	-	-	rs113075319		TCGA-B0-4945-01A-01D-1421-08	TCGA-B0-4945-11A-01D-1421-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:73513183_73513191delGCCCTCCCT	uc002jof.1	+						CASKIN2_uc002joc.2_5'Flank|CASKIN2_uc002jod.2_5'Flank|TSEN54_uc002joe.1_Intron	NM_207346	NP_997229	Q7Z6J9	SEN54_HUMAN	tRNA splicing endonuclease 54 homolog						mRNA processing|tRNA splicing, via endonucleolytic cleavage and ligation	nucleolus				ovary(1)	1	all_cancers(13;3.15e-09)|all_epithelial(9;5.78e-10)|Breast(9;5.8e-10)|all_lung(278;0.246)		all cancers(21;4.57e-07)|Epithelial(20;2.92e-06)|Lung(188;0.0809)|LUSC - Lung squamous cell carcinoma(166;0.154)			ACCGGGGACCgccctccctgccctccctg	0.574													5	3	---	---	---	---	
TNRC6C	57690	broad.mit.edu	37	17	76087407	76087408	+	Intron	INS	-	A	A			TCGA-B0-4945-01A-01D-1421-08	TCGA-B0-4945-11A-01D-1421-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:76087407_76087408insA	uc002jud.2	+						TNRC6C_uc002juf.2_Intron	NM_018996	NP_061869	Q9HCJ0	TNR6C_HUMAN	trinucleotide repeat containing 6C isoform 2						gene silencing by RNA|regulation of translation		nucleotide binding|RNA binding			ovary(1)|central_nervous_system(1)	2			BRCA - Breast invasive adenocarcinoma(99;0.00269)|Lung(188;0.0973)			gactccgtctcaaaaaaaaaaa	0.178													3	3	---	---	---	---	
Unknown	0	broad.mit.edu	37	18	3281937	3281937	+	IGR	DEL	T	-	-			TCGA-B0-4945-01A-01D-1421-08	TCGA-B0-4945-11A-01D-1421-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr18:3281937delT								MYL12B (3657 upstream) : TGIF1 (130135 downstream)																							ccttccttccttccttccttc	0.189													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	18	39225487	39225488	+	IGR	DEL	TG	-	-	rs33988667		TCGA-B0-4945-01A-01D-1421-08	TCGA-B0-4945-11A-01D-1421-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr18:39225487_39225488delTG								KC6 (124926 upstream) : PIK3C3 (309711 downstream)																							Agtgtatgtctgtgtgtgtgtg	0.089													3	3	---	---	---	---	
RIN2	54453	broad.mit.edu	37	20	19898998	19899005	+	Intron	DEL	TGTGTGTG	-	-	rs71847428		TCGA-B0-4945-01A-01D-1421-08	TCGA-B0-4945-11A-01D-1421-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr20:19898998_19899005delTGTGTGTG	uc002wro.1	+						RIN2_uc010gcu.1_Intron	NM_018993	NP_061866	Q8WYP3	RIN2_HUMAN	Ras and Rab interactor 2						endocytosis|small GTPase mediated signal transduction	cytoplasm	GTPase activator activity|Rab guanyl-nucleotide exchange factor activity			lung(4)|ovary(1)	5						acaaatacattgtgtgtgtgtgtgtgtg	0.034													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	20	51227780	51227781	+	IGR	INS	-	C	C			TCGA-B0-4945-01A-01D-1421-08	TCGA-B0-4945-11A-01D-1421-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr20:51227780_51227781insC								ZFP64 (419256 upstream) : TSHZ2 (361096 downstream)																							cttctttccttcttccctccct	0.050													3	3	---	---	---	---	
Unknown	0	broad.mit.edu	37	21	40061951	40061954	+	IGR	DEL	CCTT	-	-	rs72264139		TCGA-B0-4945-01A-01D-1421-08	TCGA-B0-4945-11A-01D-1421-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr21:40061951_40061954delCCTT								ERG (28247 upstream) : NCRNA00114 (48925 downstream)																							tccctccctcccttccttccttcc	0.108													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	21	44756544	44756549	+	IGR	DEL	CACCAT	-	-			TCGA-B0-4945-01A-01D-1421-08	TCGA-B0-4945-11A-01D-1421-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr21:44756544_44756549delCACCAT								CRYAA (163631 upstream) : SIK1 (77849 downstream)																							ccaccatcaccaccatcaccaccacc	0.000													4	2	---	---	---	---	
COL6A1	1291	broad.mit.edu	37	21	47410424	47410424	+	Intron	DEL	C	-	-			TCGA-B0-4945-01A-01D-1421-08	TCGA-B0-4945-11A-01D-1421-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr21:47410424delC	uc002zhu.1	+							NM_001848	NP_001839	P12109	CO6A1_HUMAN	collagen, type VI, alpha 1 precursor						axon guidance|cell adhesion|protein heterotrimerization	collagen type VI|protein complex	platelet-derived growth factor binding			ovary(1)	1	all_hematologic(128;0.24)			Colorectal(79;0.0265)|READ - Rectum adenocarcinoma(84;0.0649)	Palifermin(DB00039)	gtgaaggtgacccggggaggg	0.104													2	4	---	---	---	---	
GGT1	2678	broad.mit.edu	37	22	25016169	25016170	+	Intron	INS	-	T	T	rs28418841	by1000genomes	TCGA-B0-4945-01A-01D-1421-08	TCGA-B0-4945-11A-01D-1421-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr22:25016169_25016170insT	uc003aan.1	+						GGT1_uc003aas.1_Intron|GGT1_uc003aat.1_Intron|GGT1_uc003aau.1_Intron|GGT1_uc003aav.1_Intron|GGT1_uc003aaw.1_Intron|GGT1_uc003aax.1_Intron	NM_013430	NP_038347	P19440	GGT1_HUMAN	gamma-glutamyltransferase 1 precursor						glutathione biosynthetic process	integral to membrane	acyltransferase activity|gamma-glutamyltransferase activity|protein binding				0					Glutathione(DB00143)	aaaaaaaaaaaaTCTTTCCTCC	0.277													8	4	---	---	---	---	
GYG2	8908	broad.mit.edu	37	X	2774840	2774841	+	Intron	INS	-	ATCT	ATCT	rs142965389		TCGA-B0-4945-01A-01D-1421-08	TCGA-B0-4945-11A-01D-1421-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chrX:2774840_2774841insATCT	uc004cqs.1	+						GYG2_uc004cqt.1_Intron|GYG2_uc004cqu.1_Intron|GYG2_uc004cqv.1_Intron|GYG2_uc004cqw.1_Intron|GYG2_uc004cqx.1_Intron|GYG2_uc010ndc.1_Intron	NM_003918	NP_003909	O15488	GLYG2_HUMAN	glycogenin 2 isoform b						glucose metabolic process|glycogen biosynthetic process|glycogen catabolic process	cytosol|soluble fraction	glycogenin glucosyltransferase activity			ovary(1)|kidney(1)	2		all_cancers(21;4.28e-07)|all_epithelial(21;2.07e-08)|all_lung(23;2.81e-05)|Lung NSC(23;0.000693)|Lung SC(21;0.122)				atctatctatcatctatctatc	0.173													6	3	---	---	---	---	
Unknown	0	broad.mit.edu	37	X	8195309	8195310	+	IGR	DEL	CT	-	-			TCGA-B0-4945-01A-01D-1421-08	TCGA-B0-4945-11A-01D-1421-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chrX:8195309_8195310delCT								VCX2 (56001 upstream) : VCX3B (237561 downstream)																							cttcctcttcctctctctctct	0.173													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	X	124468865	124468868	+	IGR	DEL	ACAC	-	-	rs67000401		TCGA-B0-4945-01A-01D-1421-08	TCGA-B0-4945-11A-01D-1421-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chrX:124468865_124468868delACAC								ODZ1 (371199 upstream) : DCAF12L2 (829646 downstream)																							acacacacaaacacacacacacac	0.108													5	3	---	---	---	---	
