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
HNRNPCL1	343069	broad.mit.edu	37	1	12908278	12908278	+	5'UTR	SNP	C	A	A	rs3860363		TCGA-EJ-5509-01A-01D-1576-08	TCGA-EJ-5509-10A-01D-1577-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:12908278C>A	uc010obf.1	-	2					LOC649330_uc009vno.2_5'Flank	NM_001013631	NP_001013653	O60812	HNRCL_HUMAN	heterogeneous nuclear ribonucleoprotein C-like							ribonucleoprotein complex	nucleotide binding				0						TGCAGCCAAACCAGCTCAGTC	0.458													4	11	---	---	---	---	PASS
PRAMEF2	65122	broad.mit.edu	37	1	12921277	12921277	+	Missense_Mutation	SNP	A	T	T	rs3204826	byFrequency	TCGA-EJ-5509-01A-01D-1576-08	TCGA-EJ-5509-10A-01D-1577-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:12921277A>T	uc001aum.1	+	4	1155	c.1068A>T	c.(1066-1068)TTA>TTT	p.L356F		NM_023014	NP_075390	O60811	PRAM2_HUMAN	PRAME family member 2	356	LRR 2.										0	Ovarian(185;0.249)	Renal(390;0.000469)|Lung NSC(185;0.00143)|all_lung(284;0.00181)|Colorectal(325;0.00215)|Breast(348;0.00224)|Myeloproliferative disorder(586;0.0393)|Hepatocellular(190;0.0623)|Ovarian(437;0.0731)		UCEC - Uterine corpus endometrioid carcinoma (279;0.00812)|Colorectal(212;2.4e-06)|Kidney(185;4.89e-05)|COAD - Colon adenocarcinoma(227;0.000152)|KIRC - Kidney renal clear cell carcinoma(229;0.000194)|BRCA - Breast invasive adenocarcinoma(304;0.000293)|STAD - Stomach adenocarcinoma(313;0.0072)|READ - Rectum adenocarcinoma(331;0.0649)		CCCTCGTGTTAGAGGGCTGTC	0.542													6	92	---	---	---	---	PASS
PRAMEF2	65122	broad.mit.edu	37	1	12921385	12921385	+	Silent	SNP	C	T	T			TCGA-EJ-5509-01A-01D-1576-08	TCGA-EJ-5509-10A-01D-1577-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:12921385C>T	uc001aum.1	+	4	1263	c.1176C>T	c.(1174-1176)GAC>GAT	p.D392D		NM_023014	NP_075390	O60811	PRAM2_HUMAN	PRAME family member 2	392											0	Ovarian(185;0.249)	Renal(390;0.000469)|Lung NSC(185;0.00143)|all_lung(284;0.00181)|Colorectal(325;0.00215)|Breast(348;0.00224)|Myeloproliferative disorder(586;0.0393)|Hepatocellular(190;0.0623)|Ovarian(437;0.0731)		UCEC - Uterine corpus endometrioid carcinoma (279;0.00812)|Colorectal(212;2.4e-06)|Kidney(185;4.89e-05)|COAD - Colon adenocarcinoma(227;0.000152)|KIRC - Kidney renal clear cell carcinoma(229;0.000194)|BRCA - Breast invasive adenocarcinoma(304;0.000293)|STAD - Stomach adenocarcinoma(313;0.0072)|READ - Rectum adenocarcinoma(331;0.0649)		TGTCTATTGACGCCCTGAAGG	0.557													12	58	---	---	---	---	PASS
SPEN	23013	broad.mit.edu	37	1	16255572	16255572	+	Nonsense_Mutation	SNP	C	A	A			TCGA-EJ-5509-01A-01D-1576-08	TCGA-EJ-5509-10A-01D-1577-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:16255572C>A	uc001axk.1	+	11	3041	c.2837C>A	c.(2836-2838)TCA>TAA	p.S946*	SPEN_uc010obp.1_Nonsense_Mutation_p.S905*	NM_015001	NP_055816	Q96T58	MINT_HUMAN	spen homolog, transcriptional regulator	946					interspecies interaction between organisms|negative regulation of transcription, DNA-dependent|Notch signaling pathway	nucleus	nucleotide binding|protein binding|RNA binding			ovary(6)|breast(3)|lung(2)|skin(2)|upper_aerodigestive_tract(1)|central_nervous_system(1)	15		Colorectal(325;0.000258)|Breast(348;0.000278)|Lung NSC(340;0.000419)|Renal(390;0.000518)|all_lung(284;0.000567)|Ovarian(437;0.0129)|Myeloproliferative disorder(586;0.0255)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0185)|Colorectal(212;5.96e-07)|COAD - Colon adenocarcinoma(227;3.11e-05)|BRCA - Breast invasive adenocarcinoma(304;0.000115)|Kidney(64;0.000212)|KIRC - Kidney renal clear cell carcinoma(64;0.003)|STAD - Stomach adenocarcinoma(313;0.013)|READ - Rectum adenocarcinoma(331;0.0681)		AAGGGGCTTTCAAGCCATGTT	0.498													7	137	---	---	---	---	PASS
PALMD	54873	broad.mit.edu	37	1	100152323	100152323	+	Missense_Mutation	SNP	C	T	T			TCGA-EJ-5509-01A-01D-1576-08	TCGA-EJ-5509-10A-01D-1577-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:100152323C>T	uc001dsg.2	+	4	786	c.343C>T	c.(343-345)CGG>TGG	p.R115W	PALMD_uc001dsf.2_Missense_Mutation_p.R115W	NM_017734	NP_060204	Q9NP74	PALMD_HUMAN	palmdelphin	115					regulation of cell shape	cytoplasm|membrane				ovary(2)|pancreas(1)	3		all_epithelial(167;0.000813)|all_lung(203;0.0214)|Lung NSC(277;0.0216)		Epithelial(280;0.067)|all cancers(265;0.117)|COAD - Colon adenocarcinoma(174;0.142)|Lung(183;0.201)		GTCAATTGAGCGGACAACAGA	0.333													25	99	---	---	---	---	PASS
SPRR3	6707	broad.mit.edu	37	1	152975739	152975739	+	Silent	SNP	T	C	C	rs17851565		TCGA-EJ-5509-01A-01D-1576-08	TCGA-EJ-5509-10A-01D-1577-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:152975739T>C	uc001fax.3	+	3	393	c.243T>C	c.(241-243)GGT>GGC	p.G81G	SPRR3_uc001faz.3_Silent_p.G81G|SPRR3_uc001fay.2_Silent_p.G73G	NM_005416	NP_005407	Q9UBC9	SPRR3_HUMAN	small proline-rich protein 3	81	5.|14 X 8 AA approximate tandem repeats.				keratinization|peptide cross-linking|wound healing	cytoplasm	protein binding|structural molecule activity			skin(1)	1	Lung NSC(65;1.49e-28)|Hepatocellular(266;0.0877)|all_hematologic(923;0.127)|Melanoma(130;0.242)		LUSC - Lung squamous cell carcinoma(543;0.171)			CTGAGCCAGGTTGTACCAAGG	0.592													4	60	---	---	---	---	PASS
C1orf85	112770	broad.mit.edu	37	1	156263002	156263002	+	Intron	SNP	T	C	C			TCGA-EJ-5509-01A-01D-1576-08	TCGA-EJ-5509-10A-01D-1577-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:156263002T>C	uc001foh.2	-						C1orf85_uc001fof.3_5'Flank|C1orf85_uc001fog.1_Intron|C1orf85_uc001foi.2_Intron|C1orf85_uc009wrx.2_Intron|C1orf85_uc001foj.2_Intron	NM_144580	NP_653181	Q8WWB7	NCUG1_HUMAN	kidney predominant protein NCU-G1 precursor						positive regulation of transcription from RNA polymerase II promoter	cytosol|integral to membrane|lysosomal membrane|nucleus	ligand-dependent nuclear receptor activity|protein binding transcription factor activity|sequence-specific DNA binding transcription factor activity|transcription regulatory region DNA binding			ovary(2)	2	Hepatocellular(266;0.158)					AGCATCGACCTAGAGCAAGCA	0.622													3	121	---	---	---	---	PASS
CD48	962	broad.mit.edu	37	1	160654892	160654892	+	Missense_Mutation	SNP	G	T	T			TCGA-EJ-5509-01A-01D-1576-08	TCGA-EJ-5509-10A-01D-1577-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:160654892G>T	uc001fwn.2	-	2	202	c.170C>A	c.(169-171)ACC>AAC	p.T57N	CD48_uc001fwo.1_Missense_Mutation_p.T57N|CD48_uc001fwp.2_Missense_Mutation_p.T57N	NM_001778	NP_001769	P09326	CD48_HUMAN	CD48 molecule precursor	57	Ig-like C2-type 1.				blood coagulation|defense response|leukocyte migration	integral to plasma membrane|membrane raft	protein binding				0	all_cancers(52;2.18e-17)|all_hematologic(112;0.093)		BRCA - Breast invasive adenocarcinoma(70;0.0175)			ATAAAACCAGGTTAGTTGTTT	0.438													4	112	---	---	---	---	PASS
DHX9	1660	broad.mit.edu	37	1	182812496	182812496	+	Missense_Mutation	SNP	A	G	G			TCGA-EJ-5509-01A-01D-1576-08	TCGA-EJ-5509-10A-01D-1577-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:182812496A>G	uc001gpr.2	+	3	342	c.179A>G	c.(178-180)AAT>AGT	p.N60S	DHX9_uc001gps.2_5'UTR	NM_001357	NP_001348	Q08211	DHX9_HUMAN	DEAH (Asp-Glu-Ala-His) box polypeptide 9	60	DRBM 1.|Interaction with CREBBP.				CRD-mediated mRNA stabilization|nuclear mRNA splicing, via spliceosome	centrosome|CRD-mediated mRNA stability complex|nucleolus|nucleoplasm|ribonucleoprotein complex	ATP binding|ATP-dependent DNA helicase activity|ATP-dependent RNA helicase activity|DNA binding|double-stranded RNA binding|protein binding			ovary(2)	2						GCACAAAGCAATGCTGCCAGA	0.363													3	135	---	---	---	---	PASS
C1orf101	257044	broad.mit.edu	37	1	244716060	244716060	+	Missense_Mutation	SNP	G	A	A			TCGA-EJ-5509-01A-01D-1576-08	TCGA-EJ-5509-10A-01D-1577-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:244716060G>A	uc001iam.2	+	9	1032	c.973G>A	c.(973-975)GGT>AGT	p.G325S	C1orf101_uc001iak.1_Intron|C1orf101_uc001ial.2_Missense_Mutation_p.G325S|C1orf101_uc010pym.1_Missense_Mutation_p.G174S|C1orf101_uc010pyn.1_Missense_Mutation_p.G258S	NM_001130957	NP_001124429	Q5SY80	CA101_HUMAN	hypothetical protein LOC257044 isoform 1	325	Extracellular (Potential).					integral to membrane				ovary(1)|breast(1)	2	all_cancers(71;2.99e-05)|all_epithelial(71;0.00015)|all_neural(11;0.0269)|Breast(184;0.0654)|Glioma(6;0.0724)|Ovarian(71;0.0761)|all_lung(81;0.0874)|Lung NSC(105;0.121)		all cancers(7;1.22e-05)|OV - Ovarian serous cystadenocarcinoma(106;0.001)|GBM - Glioblastoma multiforme(7;0.0154)			TCTTCCTGATGGTGGAATTAC	0.284													4	155	---	---	---	---	PASS
CNGA3	1261	broad.mit.edu	37	2	99012981	99012981	+	Missense_Mutation	SNP	A	G	G			TCGA-EJ-5509-01A-01D-1576-08	TCGA-EJ-5509-10A-01D-1577-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:99012981A>G	uc002syt.2	+	8	1765	c.1348A>G	c.(1348-1350)ACG>GCG	p.T450A	CNGA3_uc002syu.2_Missense_Mutation_p.T432A|CNGA3_uc010fij.2_Missense_Mutation_p.T454A	NM_001298	NP_001289	Q16281	CNGA3_HUMAN	cyclic nucleotide gated channel alpha 3 isoform	450					signal transduction|visual perception	integral to membrane	cGMP binding			ovary(5)|upper_aerodigestive_tract(1)	6						CAACAAGAAGACGGTGGATGA	0.537													17	37	---	---	---	---	PASS
C1QL2	165257	broad.mit.edu	37	2	119915187	119915187	+	Missense_Mutation	SNP	C	G	G			TCGA-EJ-5509-01A-01D-1576-08	TCGA-EJ-5509-10A-01D-1577-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:119915187C>G	uc002tlo.2	-	1	1285	c.659G>C	c.(658-660)TGG>TCG	p.W220S		NM_182528	NP_872334	Q7Z5L3	C1QL2_HUMAN	complement component 1, q subcomponent-like 2	220	C1q.					collagen				pancreas(1)	1						GAGGTCCGCCCACATGCTGGT	0.647										HNSCC(49;0.14)			6	37	---	---	---	---	PASS
ERCC3	2071	broad.mit.edu	37	2	128050211	128050211	+	Missense_Mutation	SNP	G	A	A			TCGA-EJ-5509-01A-01D-1576-08	TCGA-EJ-5509-10A-01D-1577-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:128050211G>A	uc002toh.1	-	3	541	c.446C>T	c.(445-447)CCT>CTT	p.P149L	ERCC3_uc002toe.1_5'Flank|ERCC3_uc002tof.1_Missense_Mutation_p.P85L|ERCC3_uc002tog.1_Missense_Mutation_p.P85L|ERCC3_uc010flx.1_5'UTR|ERCC3_uc010yzh.1_RNA|ERCC3_uc010fly.2_Silent_p.L102L	NM_000122	NP_000113	P19447	ERCC3_HUMAN	excision repair cross-complementing rodent	149					cell cycle checkpoint|DNA topological change|hair cell differentiation|induction of apoptosis|interspecies interaction between organisms|mRNA capping|nucleotide-excision repair, DNA damage removal|nucleotide-excision repair, DNA duplex unwinding|nucleotide-excision repair, DNA incision|positive regulation of transcription from RNA polymerase II promoter|positive regulation of viral transcription|protein localization|response to oxidative stress|termination of RNA polymerase I transcription|transcription elongation from RNA polymerase I promoter|transcription elongation from RNA polymerase II promoter|transcription initiation from RNA polymerase I promoter|transcription initiation from RNA polymerase II promoter|transcription-coupled nucleotide-excision repair|viral reproduction	holo TFIIH complex	3'-5' DNA helicase activity|ATP binding|damaged DNA binding|protein C-terminus binding|protein N-terminus binding|transcription factor binding			ovary(2)|lung(2)|breast(2)|kidney(1)	7	Colorectal(110;0.1)			BRCA - Breast invasive adenocarcinoma(221;0.073)		AATTCCATCAGGGACTCCAGT	0.483			Mis|S			skin basal cell|skin squamous cell|melanoma		Direct_reversal_of_damage|NER	Xeroderma_Pigmentosum				5	117	---	---	---	---	PASS
POTEE	445582	broad.mit.edu	37	2	132021721	132021721	+	Missense_Mutation	SNP	A	G	G			TCGA-EJ-5509-01A-01D-1576-08	TCGA-EJ-5509-10A-01D-1577-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:132021721A>G	uc002tsn.2	+	15	2745	c.2693A>G	c.(2692-2694)TAT>TGT	p.Y898C	PLEKHB2_uc002tsh.2_Intron|POTEE_uc002tsk.2_Missense_Mutation_p.Y498C|POTEE_uc002tsl.2_Missense_Mutation_p.Y480C|POTEE_uc010fmy.1_Missense_Mutation_p.Y362C	NM_001083538	NP_001077007	Q6S8J3	POTEE_HUMAN	protein expressed in prostate, ovary, testis,	898	Actin-like.						ATP binding				0						GAGCGTGGCTATAGGTTCACC	0.602													3	130	---	---	---	---	PASS
FAM171B	165215	broad.mit.edu	37	2	187627272	187627272	+	Missense_Mutation	SNP	A	T	T			TCGA-EJ-5509-01A-01D-1576-08	TCGA-EJ-5509-10A-01D-1577-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:187627272A>T	uc002ups.2	+	8	2315	c.2203A>T	c.(2203-2205)ATC>TTC	p.I735F	FAM171B_uc002upr.1_Missense_Mutation_p.I702F|FAM171B_uc002upt.2_Missense_Mutation_p.I204F	NM_177454	NP_803237	Q6P995	F171B_HUMAN	KIAA1946	735	Cytoplasmic (Potential).					integral to membrane	DNA binding			ovary(6)|breast(3)|central_nervous_system(1)	10						TCAGCCCAAGATCCTTTACTT	0.488													25	63	---	---	---	---	PASS
COL3A1	1281	broad.mit.edu	37	2	189875581	189875581	+	Nonsense_Mutation	SNP	A	T	T			TCGA-EJ-5509-01A-01D-1576-08	TCGA-EJ-5509-10A-01D-1577-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:189875581A>T	uc002uqj.1	+	50	4336	c.4219A>T	c.(4219-4221)AAA>TAA	p.K1407*		NM_000090	NP_000081	P02461	CO3A1_HUMAN	collagen type III alpha 1 preproprotein	1407	Fibrillar collagen NC1.				axon guidance|cell-matrix adhesion|collagen biosynthetic process|collagen fibril organization|fibril organization|heart development|integrin-mediated signaling pathway|negative regulation of immune response|peptide cross-linking|platelet activation|response to cytokine stimulus|response to radiation|skin development|transforming growth factor beta receptor signaling pathway	collagen type III|extracellular space	extracellular matrix structural constituent|integrin binding|platelet-derived growth factor binding	p.K1407R(1)		central_nervous_system(7)|ovary(4)|large_intestine(2)	13			OV - Ovarian serous cystadenocarcinoma(117;0.0106)|Epithelial(96;0.141)		Collagenase(DB00048)|Palifermin(DB00039)	AGGAAATAGCAAATTCACCTA	0.398													5	115	---	---	---	---	PASS
ANKAR	150709	broad.mit.edu	37	2	190557167	190557167	+	Intron	SNP	C	T	T			TCGA-EJ-5509-01A-01D-1576-08	TCGA-EJ-5509-10A-01D-1577-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:190557167C>T	uc002uqw.1	+						ANKAR_uc002uqu.2_Intron|ANKAR_uc002uqv.1_3'UTR	NM_144708	NP_653309	Q7Z5J8	ANKAR_HUMAN	ankyrin and armadillo repeat containing							integral to membrane	binding			ovary(2)|pancreas(1)|skin(1)	4			OV - Ovarian serous cystadenocarcinoma(117;0.00156)|Epithelial(96;0.0256)|all cancers(119;0.0744)			ATTCCTTAGACAATTTATCAT	0.363													18	59	---	---	---	---	PASS
SPAG16	79582	broad.mit.edu	37	2	214878685	214878685	+	Missense_Mutation	SNP	A	G	G			TCGA-EJ-5509-01A-01D-1576-08	TCGA-EJ-5509-10A-01D-1577-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:214878685A>G	uc002veq.2	+	13	1503	c.1411A>G	c.(1411-1413)AGA>GGA	p.R471G	SPAG16_uc010fuz.1_Missense_Mutation_p.R322G|SPAG16_uc002ver.2_Missense_Mutation_p.R417G|SPAG16_uc010zjk.1_Missense_Mutation_p.R377G	NM_024532	NP_078808	Q8N0X2	SPG16_HUMAN	sperm associated antigen 16 isoform 1	471	WD 3.				cilium assembly	cilium axoneme|flagellar axoneme				ovary(1)|skin(1)	2		Renal(323;0.00461)		UCEC - Uterine corpus endometrioid carcinoma (47;0.0525)|Epithelial(149;7.07e-07)|all cancers(144;7.96e-05)|Lung(261;0.00255)|LUSC - Lung squamous cell carcinoma(224;0.00599)		TGAAAGATGCAGATGTACTTT	0.343													4	245	---	---	---	---	PASS
FBXL2	25827	broad.mit.edu	37	3	33400492	33400492	+	Silent	SNP	C	T	T			TCGA-EJ-5509-01A-01D-1576-08	TCGA-EJ-5509-10A-01D-1577-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:33400492C>T	uc003cfp.2	+	3	170	c.99C>T	c.(97-99)TGC>TGT	p.C33C	FBXL2_uc011axm.1_RNA|FBXL2_uc011axn.1_RNA|FBXL2_uc011axo.1_5'UTR|FBXL2_uc011axp.1_Intron|FBXL2_uc011axq.1_Intron|FBXL2_uc011axr.1_Intron|FBXL2_uc011axs.1_RNA	NM_012157	NP_036289	Q9UKC9	FBXL2_HUMAN	F-box and leucine-rich repeat protein 2	33	F-box.				interspecies interaction between organisms|proteolysis	cytoplasm|membrane	protein binding|ubiquitin-protein ligase activity			large_intestine(1)	1						TAACTTTGTGCCGATGTGCAC	0.289													3	53	---	---	---	---	PASS
LOC729375	729375	broad.mit.edu	37	3	129821682	129821682	+	RNA	SNP	G	T	T			TCGA-EJ-5509-01A-01D-1576-08	TCGA-EJ-5509-10A-01D-1577-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:129821682G>T	uc003ene.2	-	2		c.234C>A			LOC729375_uc011ble.1_RNA					Homo sapiens cDNA FLJ42457 fis, clone BRACE2018700.												0						GGAGCCCGCTGGTGCTCCCAG	0.642													4	37	---	---	---	---	PASS
MUC4	4585	broad.mit.edu	37	3	195505835	195505835	+	Missense_Mutation	SNP	C	T	T	rs58500707	by1000genomes	TCGA-EJ-5509-01A-01D-1576-08	TCGA-EJ-5509-10A-01D-1577-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:195505835C>T	uc011bto.1	-	3	12692	c.12232G>A	c.(12232-12234)GCC>ACC	p.A4078T	MUC4_uc003fva.2_5'Flank|MUC4_uc003fvb.2_5'Flank|MUC4_uc003fvc.2_5'Flank|MUC4_uc003fvd.2_5'Flank|MUC4_uc003fve.2_5'Flank|MUC4_uc010hzr.2_5'Flank|MUC4_uc011btf.1_Intron|MUC4_uc011btg.1_Intron|MUC4_uc011bth.1_Intron|MUC4_uc011bti.1_Intron|MUC4_uc011btj.1_Intron|MUC4_uc011btk.1_Intron|MUC4_uc011btl.1_Intron|MUC4_uc011btm.1_Intron|MUC4_uc011btn.1_Intron|MUC4_uc003fvo.2_Intron|MUC4_uc003fvp.2_Intron|MUC4_uc010hzu.1_Intron	NM_018406	NP_060876	Q99102	MUC4_HUMAN	mucin 4 isoform a	Error:AA_residue_mismatch_between_GAF_and_UniProt_prot_seqs_after_alignment					cell-matrix adhesion	integral to plasma membrane|proteinaceous extracellular matrix	ErbB-2 class receptor binding|extracellular matrix constituent, lubricant activity				0	all_cancers(143;1.11e-08)|Ovarian(172;0.0634)|Breast(254;0.206)	Lung NSC(153;0.191)	Epithelial(36;3.72e-24)|all cancers(36;6.22e-22)|OV - Ovarian serous cystadenocarcinoma(49;1.1e-18)|Lung(62;4.65e-05)|LUSC - Lung squamous cell carcinoma(58;5.31e-05)	GBM - Glioblastoma multiforme(46;2.37e-05)		AGAGGGGTGGCGTGACCTGTG	0.597													4	5	---	---	---	---	PASS
GABRG1	2565	broad.mit.edu	37	4	46067560	46067560	+	Missense_Mutation	SNP	G	T	T			TCGA-EJ-5509-01A-01D-1576-08	TCGA-EJ-5509-10A-01D-1577-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:46067560G>T	uc003gxb.2	-	4	515	c.363C>A	c.(361-363)GAC>GAA	p.D121E		NM_173536	NP_775807	Q8N1C3	GBRG1_HUMAN	gamma-aminobutyric acid A receptor, gamma 1	121	Extracellular (Probable).				gamma-aminobutyric acid signaling pathway	cell junction|chloride channel complex|postsynaptic membrane	chloride channel activity|extracellular ligand-gated ion channel activity			ovary(2)	2				Lung(65;0.106)|LUSC - Lung squamous cell carcinoma(721;0.23)		TTAAACGACTGTCAAACCAGG	0.294													14	62	---	---	---	---	PASS
ANKRD17	26057	broad.mit.edu	37	4	74005375	74005375	+	Silent	SNP	T	G	G			TCGA-EJ-5509-01A-01D-1576-08	TCGA-EJ-5509-10A-01D-1577-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:74005375T>G	uc003hgp.2	-	15	3075	c.2958A>C	c.(2956-2958)GGA>GGC	p.G986G	ANKRD17_uc003hgo.2_Silent_p.G873G|ANKRD17_uc003hgq.2_Intron|ANKRD17_uc003hgr.2_Silent_p.G986G|ANKRD17_uc011cbd.1_Silent_p.G551G	NM_032217	NP_115593	O75179	ANR17_HUMAN	ankyrin repeat domain protein 17 isoform a	986	Gln-rich.				interspecies interaction between organisms	cytoplasm|nucleus	RNA binding			ovary(5)|skin(3)|upper_aerodigestive_tract(1)|lung(1)	10	Breast(15;0.000295)		Epithelial(6;8.86e-07)|OV - Ovarian serous cystadenocarcinoma(6;6.22e-06)|all cancers(17;1.51e-05)|Lung(101;0.103)|LUSC - Lung squamous cell carcinoma(112;0.154)			GTACTGGCTGTCCAACTATCA	0.562													5	32	---	---	---	---	PASS
FHDC1	85462	broad.mit.edu	37	4	153881743	153881743	+	Silent	SNP	C	T	T			TCGA-EJ-5509-01A-01D-1576-08	TCGA-EJ-5509-10A-01D-1577-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:153881743C>T	uc003inf.2	+	4	765	c.690C>T	c.(688-690)GGC>GGT	p.G230G		NM_033393	NP_203751	Q9C0D6	FHDC1_HUMAN	FH2 domain containing 1	230	FH2.				actin cytoskeleton organization		actin binding			large_intestine(1)|ovary(1)	2	all_hematologic(180;0.093)					CGTTTAGTGGCGACGTGTCGA	0.373													19	126	---	---	---	---	PASS
HIST1H2BO	8348	broad.mit.edu	37	6	27861558	27861558	+	Silent	SNP	G	A	A			TCGA-EJ-5509-01A-01D-1576-08	TCGA-EJ-5509-10A-01D-1577-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:27861558G>A	uc003nkc.1	+	1	356	c.318G>A	c.(316-318)GAG>GAA	p.E106E	HIST1H3J_uc003nka.2_5'Flank|HIST1H2AM_uc003nkb.1_5'Flank	NM_003527	NP_003518	P23527	H2B1O_HUMAN	histone cluster 1, H2bo	106					nucleosome assembly	nucleosome|nucleus	DNA binding				0						TGCCCGGGGAGCTGGCCAAGC	0.637													5	64	---	---	---	---	PASS
HSF2	3298	broad.mit.edu	37	6	122743865	122743865	+	Missense_Mutation	SNP	G	T	T			TCGA-EJ-5509-01A-01D-1576-08	TCGA-EJ-5509-10A-01D-1577-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:122743865G>T	uc003pyu.2	+	9	1020	c.833G>T	c.(832-834)TGT>TTT	p.C278F	HSF2_uc003pyv.2_Missense_Mutation_p.C278F	NM_004506	NP_004497	Q03933	HSF2_HUMAN	heat shock transcription factor 2 isoform a	278					response to stress|transcription from RNA polymerase II promoter	cytoplasm|nucleus	sequence-specific DNA binding transcription factor activity|transcription coactivator activity				0				OV - Ovarian serous cystadenocarcinoma(136;0.00371)|all cancers(137;0.0299)|GBM - Glioblastoma multiforme(226;0.0586)		TGATTTAGCTGTAGCCAGTAC	0.383													7	193	---	---	---	---	PASS
MUC17	140453	broad.mit.edu	37	7	100693835	100693835	+	Silent	SNP	T	C	C			TCGA-EJ-5509-01A-01D-1576-08	TCGA-EJ-5509-10A-01D-1577-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:100693835T>C	uc003uxp.1	+	7	12846	c.12793T>C	c.(12793-12795)TTG>CTG	p.L4265L	MUC17_uc010lho.1_Intron	NM_001040105	NP_001035194	Q685J3	MUC17_HUMAN	mucin 17 precursor	4265	Extracellular (Potential).|SEA.					extracellular region|integral to membrane|plasma membrane	extracellular matrix constituent, lubricant activity			ovary(14)|skin(8)|breast(3)|lung(2)	27	Lung NSC(181;0.136)|all_lung(186;0.182)					CAAGACAGTATTGGACAATGC	0.463													8	90	---	---	---	---	PASS
LAMB1	3912	broad.mit.edu	37	7	107575964	107575964	+	Missense_Mutation	SNP	C	T	T			TCGA-EJ-5509-01A-01D-1576-08	TCGA-EJ-5509-10A-01D-1577-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:107575964C>T	uc003vew.2	-	27	4419	c.4084G>A	c.(4084-4086)GAG>AAG	p.E1362K	LAMB1_uc003vev.2_Missense_Mutation_p.E1386K	NM_002291	NP_002282	P07942	LAMB1_HUMAN	laminin, beta 1 precursor	1362	Potential.|Domain II.				axon guidance|odontogenesis|positive regulation of cell migration|positive regulation of epithelial cell proliferation|substrate adhesion-dependent cell spreading	extracellular space|laminin-1 complex|laminin-10 complex|laminin-2 complex|laminin-8 complex|perinuclear region of cytoplasm	extracellular matrix structural constituent			ovary(4)|skin(2)|upper_aerodigestive_tract(1)|central_nervous_system(1)	8					Alteplase(DB00009)|Anistreplase(DB00029)|Reteplase(DB00015)|Tenecteplase(DB00031)	GATTCTCGCTCCATCATCACG	0.542													145	302	---	---	---	---	PASS
PLXNA4	91584	broad.mit.edu	37	7	132193088	132193088	+	Missense_Mutation	SNP	T	C	C			TCGA-EJ-5509-01A-01D-1576-08	TCGA-EJ-5509-10A-01D-1577-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:132193088T>C	uc003vra.3	-	2	594	c.365A>G	c.(364-366)TAC>TGC	p.Y122C	PLXNA4_uc003vrc.2_Missense_Mutation_p.Y122C|PLXNA4_uc003vrb.2_Missense_Mutation_p.Y122C	NM_020911	NP_065962	Q9HCM2	PLXA4_HUMAN	plexin A4 isoform 1	122	Extracellular (Potential).|Sema.					integral to membrane|intracellular|plasma membrane				ovary(1)	1						GTTCTCCTTGTAGTCTATGAG	0.552													4	95	---	---	---	---	PASS
TNKS	8658	broad.mit.edu	37	8	9564325	9564325	+	Missense_Mutation	SNP	G	T	T			TCGA-EJ-5509-01A-01D-1576-08	TCGA-EJ-5509-10A-01D-1577-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:9564325G>T	uc003wss.2	+	8	1279	c.1274G>T	c.(1273-1275)GGA>GTA	p.G425V	TNKS_uc011kwv.1_Missense_Mutation_p.G425V|TNKS_uc011kww.1_Missense_Mutation_p.G188V	NM_003747	NP_003738	O95271	TNKS1_HUMAN	tankyrase, TRF1-interacting ankyrin-related	425	ANK 5.				mitotic spindle organization|mRNA transport|negative regulation of DNA binding|peptidyl-serine phosphorylation|peptidyl-threonine phosphorylation|positive regulation of canonical Wnt receptor signaling pathway|positive regulation of telomere maintenance via telomerase|protein auto-ADP-ribosylation|protein localization to chromosome, telomeric region|protein poly-ADP-ribosylation|protein polyubiquitination|protein transport|spindle assembly|transmembrane transport|Wnt receptor signaling pathway	chromosome, centromeric region|Golgi membrane|microsome|nuclear chromosome, telomeric region|nuclear membrane|nuclear pore|pericentriolar material	NAD+ ADP-ribosyltransferase activity|protein binding|zinc ion binding			lung(4)|ovary(2)|kidney(1)	7				COAD - Colon adenocarcinoma(149;0.0467)		ATTCAGCATGGAGCTTGTGTT	0.373													4	146	---	---	---	---	PASS
PROSC	11212	broad.mit.edu	37	8	37623076	37623076	+	Silent	SNP	G	A	A			TCGA-EJ-5509-01A-01D-1576-08	TCGA-EJ-5509-10A-01D-1577-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:37623076G>A	uc003xkh.2	+	2	209	c.132G>A	c.(130-132)GCG>GCA	p.A44A		NM_007198	NP_009129	O94903	PROSC_HUMAN	proline synthetase co-transcribed homolog	44							pyridoxal phosphate binding			central_nervous_system(1)	1		Lung NSC(58;0.174)	BRCA - Breast invasive adenocarcinoma(5;6.14e-24)|LUSC - Lung squamous cell carcinoma(8;3.5e-10)		L-Proline(DB00172)|Pyridoxal Phosphate(DB00114)	GGCTAGTGGCGGTCAGCAAAA	0.532													14	268	---	---	---	---	PASS
GOT1L1	137362	broad.mit.edu	37	8	37794557	37794557	+	Missense_Mutation	SNP	C	T	T			TCGA-EJ-5509-01A-01D-1576-08	TCGA-EJ-5509-10A-01D-1577-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:37794557C>T	uc011lbj.1	-	5	638	c.538G>A	c.(538-540)GTC>ATC	p.V180I		NM_152413	NP_689626	Q8NHS2	AATC2_HUMAN	glutamic-oxaloacetic transaminase 1-like 1	180					biosynthetic process|cellular amino acid metabolic process	cytoplasm	pyridoxal phosphate binding|transaminase activity			ovary(1)	1	Colorectal(12;0.00627)	Lung NSC(58;0.118)|all_lung(54;0.195)	LUSC - Lung squamous cell carcinoma(8;1.37e-11)			ATCACAAGGACACAGCCATGT	0.557													6	80	---	---	---	---	PASS
UBQLN1	29979	broad.mit.edu	37	9	86293369	86293369	+	Missense_Mutation	SNP	G	A	A			TCGA-EJ-5509-01A-01D-1576-08	TCGA-EJ-5509-10A-01D-1577-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr9:86293369G>A	uc004amv.2	-	5	1431	c.857C>T	c.(856-858)GCT>GTT	p.A286V	UBQLN1_uc004amw.2_Missense_Mutation_p.A286V	NM_013438	NP_038466	Q9UMX0	UBQL1_HUMAN	ubiquilin 1 isoform 1	286					apoptosis|regulation of protein ubiquitination|response to hypoxia	endoplasmic reticulum|nucleus|perinuclear region of cytoplasm|proteasome complex	kinase binding				0						CTCTTGTGCAGCACTCAGCAT	0.458													5	385	---	---	---	---	PASS
TUBBP5	643224	broad.mit.edu	37	9	141070915	141070915	+	Silent	SNP	C	T	T			TCGA-EJ-5509-01A-01D-1576-08	TCGA-EJ-5509-10A-01D-1577-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr9:141070915C>T	uc004com.2	+	4	579	c.318C>T	c.(316-318)ACC>ACT	p.T106T	TUBBP5_uc010ncq.2_3'UTR					RecName: Full=Putative tubulin beta-4q chain;												0						TGTCAGACACCGTGGTGGAGC	0.522													4	60	---	---	---	---	PASS
C10orf50	645528	broad.mit.edu	37	10	26880266	26880266	+	RNA	SNP	G	A	A	rs138111133	by1000genomes	TCGA-EJ-5509-01A-01D-1576-08	TCGA-EJ-5509-10A-01D-1577-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:26880266G>A	uc001ist.2	+	2		c.501G>A				NR_026793				Homo sapiens, clone IMAGE:5172288, mRNA.												0						ACCAAGCCCAGTGGACAGATG	0.443													5	30	---	---	---	---	PASS
LOC441666	441666	broad.mit.edu	37	10	42832147	42832147	+	RNA	SNP	G	T	T	rs144592176	by1000genomes	TCGA-EJ-5509-01A-01D-1576-08	TCGA-EJ-5509-10A-01D-1577-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:42832147G>T	uc010qey.1	-	3		c.1828C>A				NR_024380				Homo sapiens noncoding mRNA sequence.												0						CACAATTGTAGGGTTTCTCTC	0.353													3	7	---	---	---	---	PASS
ANXA11	311	broad.mit.edu	37	10	81915551	81915551	+	3'UTR	SNP	C	T	T			TCGA-EJ-5509-01A-01D-1576-08	TCGA-EJ-5509-10A-01D-1577-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:81915551C>T	uc001kbq.1	-	17					ANXA11_uc010qlx.1_3'UTR|ANXA11_uc001kbr.1_3'UTR|ANXA11_uc001kbs.1_3'UTR|ANXA11_uc001kbt.1_3'UTR|ANXA11_uc010qly.1_3'UTR|ANXA11_uc009xsq.1_3'UTR|ANXA11_uc001kbu.1_3'UTR	NM_145869	NP_665876	P50995	ANX11_HUMAN	annexin A11						cell cycle|cytokinesis, completion of separation|phagocytosis|response to calcium ion	azurophil granule|melanosome|midbody|nuclear envelope|nucleoplasm|phagocytic vesicle|specific granule|spindle	calcium-dependent phospholipid binding|calcium-dependent protein binding|S100 alpha binding			ovary(1)	1	Prostate(51;0.00985)|all_epithelial(25;0.0951)		Colorectal(32;0.109)			ATTCTTTTGGCCTTTTCCTGG	0.517													48	106	---	---	---	---	PASS
C10orf58	84293	broad.mit.edu	37	10	82185669	82185669	+	Silent	SNP	C	T	T			TCGA-EJ-5509-01A-01D-1576-08	TCGA-EJ-5509-10A-01D-1577-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:82185669C>T	uc001kcc.3	+	4	478	c.318C>T	c.(316-318)GGC>GGT	p.G106G	C10orf58_uc001kcd.3_Silent_p.G95G|C10orf58_uc001kce.3_Silent_p.G106G|C10orf58_uc001kcf.3_Silent_p.G106G	NM_032333	NP_115709	Q9BRX8	CJ058_HUMAN	hypothetical protein LOC84293 precursor	106						extracellular region					0			Colorectal(32;0.229)			ACCAGCTGGGCGTCCCCCTCT	0.522													36	87	---	---	---	---	PASS
INA	9118	broad.mit.edu	37	10	105048298	105048298	+	Missense_Mutation	SNP	G	T	T			TCGA-EJ-5509-01A-01D-1576-08	TCGA-EJ-5509-10A-01D-1577-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:105048298G>T	uc001kws.2	+	3	1421	c.1372G>T	c.(1372-1374)GTA>TTA	p.V458L		NM_032727	NP_116116	Q16352	AINX_HUMAN	internexin neuronal intermediate filament	458	Tail.				cell differentiation|nervous system development	neurofilament	structural constituent of cytoskeleton			ovary(1)|breast(1)	2				Epithelial(162;3.45e-09)|all cancers(201;9.17e-08)|BRCA - Breast invasive adenocarcinoma(275;0.198)		GGCATCTAAGGTAGCCTCTAA	0.423													8	97	---	---	---	---	PASS
LOC650368	650368	broad.mit.edu	37	11	3427759	3427759	+	RNA	SNP	C	T	T			TCGA-EJ-5509-01A-01D-1576-08	TCGA-EJ-5509-10A-01D-1577-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:3427759C>T	uc010qxs.1	+	9		c.752C>T			LOC650368_uc001lxx.2_RNA|LOC650368_uc001lxy.2_RNA	NR_024248				Homo sapiens cDNA FLJ41654 fis, clone FEBRA2025463, weakly  similar to Homo sapiens HMT-1 mRNA for beta-1,4 mannosyltransferase.												0						TGTCTGCACACGTCCTGCAGT	0.612													3	46	---	---	---	---	PASS
LOC650368	650368	broad.mit.edu	37	11	3427765	3427765	+	RNA	SNP	G	C	C			TCGA-EJ-5509-01A-01D-1576-08	TCGA-EJ-5509-10A-01D-1577-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:3427765G>C	uc010qxs.1	+	9		c.758G>C			LOC650368_uc001lxx.2_RNA|LOC650368_uc001lxy.2_RNA	NR_024248				Homo sapiens cDNA FLJ41654 fis, clone FEBRA2025463, weakly  similar to Homo sapiens HMT-1 mRNA for beta-1,4 mannosyltransferase.												0						CACACGTCCTGCAGTGGCCTG	0.602													3	47	---	---	---	---	PASS
LOC650368	650368	broad.mit.edu	37	11	3427845	3427845	+	RNA	SNP	C	T	T			TCGA-EJ-5509-01A-01D-1576-08	TCGA-EJ-5509-10A-01D-1577-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:3427845C>T	uc010qxs.1	+	9		c.838C>T			LOC650368_uc001lxx.2_RNA|LOC650368_uc001lxy.2_RNA	NR_024248				Homo sapiens cDNA FLJ41654 fis, clone FEBRA2025463, weakly  similar to Homo sapiens HMT-1 mRNA for beta-1,4 mannosyltransferase.												0						CTTCAAGTGGCAGGAGCAGAA	0.587													5	46	---	---	---	---	PASS
DNHD1	144132	broad.mit.edu	37	11	6519277	6519277	+	5'UTR	SNP	C	A	A			TCGA-EJ-5509-01A-01D-1576-08	TCGA-EJ-5509-10A-01D-1577-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:6519277C>A	uc001mdw.3	+	3					DNHD1_uc001mdp.2_5'UTR	NM_144666	NP_653267	Q96M86	DNHD1_HUMAN	dynein heavy chain domain 1 isoform 1						microtubule-based movement	dynein complex	microtubule motor activity			ovary(2)	2		Medulloblastoma(188;0.00776)|all_neural(188;0.0652)|Breast(177;0.171)		Epithelial(150;3.93e-08)|BRCA - Breast invasive adenocarcinoma(625;0.13)		TTCCTCCTAACCCCATTGACT	0.612													3	46	---	---	---	---	PASS
DCDC1	341019	broad.mit.edu	37	11	31312310	31312310	+	Missense_Mutation	SNP	G	C	C			TCGA-EJ-5509-01A-01D-1576-08	TCGA-EJ-5509-10A-01D-1577-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:31312310G>C	uc001msv.2	-	7	1046	c.844C>G	c.(844-846)CTT>GTT	p.L282V	DCDC1_uc001msu.1_Intron	NM_181807	NP_861523	P59894	DCDC1_HUMAN	doublecortin domain containing 1	282					intracellular signal transduction					skin(1)	1	Lung SC(675;0.225)					CTAATAGAAAGAACAGGCTTG	0.393													37	91	---	---	---	---	PASS
MYBPC3	4607	broad.mit.edu	37	11	47360202	47360202	+	Missense_Mutation	SNP	C	T	T			TCGA-EJ-5509-01A-01D-1576-08	TCGA-EJ-5509-10A-01D-1577-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:47360202C>T	uc001nfa.3	-	22	2232	c.2177G>A	c.(2176-2178)CGC>CAC	p.R726H	MYBPC3_uc010rhl.1_RNA	NM_000256	NP_000247	Q14896	MYPC3_HUMAN	myosin binding protein C, cardiac	725	Ig-like C2-type 5.				cardiac muscle contraction|cell adhesion|muscle filament sliding|regulation of muscle filament sliding|regulation of striated muscle contraction|ventricular cardiac muscle tissue morphogenesis	C zone|cytosol|striated muscle myosin thick filament	actin binding|ATPase activator activity|metal ion binding|myosin heavy chain binding|structural constituent of muscle|titin binding			ovary(2)|central_nervous_system(1)	3				Lung(87;0.176)		GGTCTCCACGCGGACCCGGCC	0.642													10	26	---	---	---	---	PASS
ESRRA	2101	broad.mit.edu	37	11	64083442	64083442	+	3'UTR	SNP	A	G	G			TCGA-EJ-5509-01A-01D-1576-08	TCGA-EJ-5509-10A-01D-1577-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:64083442A>G	uc001nzq.1	+	7					ESRRA_uc001nzr.1_3'UTR|ESRRA_uc001nzs.1_3'UTR|PRDX5_uc001nzu.2_5'Flank|PRDX5_uc001nzv.2_5'Flank|PRDX5_uc001nzw.2_5'Flank|PRDX5_uc001nzx.2_5'Flank	NM_004451	NP_004442	P11474	ERR1_HUMAN	estrogen-related receptor alpha						positive regulation of transcription from RNA polymerase II promoter|regulation of transcription from RNA polymerase II promoter by nuclear hormone receptor	nucleoplasm	protein domain specific binding|sequence-specific DNA binding|steroid hormone receptor activity|zinc ion binding				0						GGACTGAGGCAAGGGGTGGGA	0.637													5	67	---	---	---	---	PASS
CCDC88B	283234	broad.mit.edu	37	11	64116832	64116832	+	Missense_Mutation	SNP	G	T	T			TCGA-EJ-5509-01A-01D-1576-08	TCGA-EJ-5509-10A-01D-1577-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:64116832G>T	uc001nzy.2	+	15	2690	c.2646G>T	c.(2644-2646)AAG>AAT	p.K882N	CCDC88B_uc009ypo.1_Missense_Mutation_p.K879N|CCDC88B_uc001nzz.1_Missense_Mutation_p.K531N|CCDC88B_uc001oaa.2_Missense_Mutation_p.K34N	NM_032251	NP_115627	A6NC98	CC88B_HUMAN	coiled-coil domain containing 88	882	Potential.				microtubule cytoskeleton organization	cytoplasm	microtubule binding			ovary(3)|skin(1)	4						TGCGGGGCAAGGAGTTGGGGG	0.488													3	18	---	---	---	---	PASS
MALAT1	378938	broad.mit.edu	37	11	65270044	65270044	+	RNA	SNP	T	A	A			TCGA-EJ-5509-01A-01D-1576-08	TCGA-EJ-5509-10A-01D-1577-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:65270044T>A	uc010roh.1	+	1		c.4812T>A			uc001ody.2_RNA|MALAT1_uc001odz.2_Intron	NR_002819				Homo sapiens clone alpha1 mRNA sequence.												0						TAGTTCAGCTTGAATGTCTCT	0.308													4	109	---	---	---	---	PASS
NLRX1	79671	broad.mit.edu	37	11	119045200	119045200	+	Silent	SNP	C	T	T			TCGA-EJ-5509-01A-01D-1576-08	TCGA-EJ-5509-10A-01D-1577-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:119045200C>T	uc001pvu.2	+	6	1103	c.888C>T	c.(886-888)GGC>GGT	p.G296G	NLRX1_uc010rzc.1_Silent_p.G118G|NLRX1_uc001pvv.2_Silent_p.G296G|NLRX1_uc001pvw.2_Silent_p.G296G|NLRX1_uc001pvx.2_Silent_p.G296G	NM_024618	NP_078894	Q86UT6	NLRX1_HUMAN	NLR family member X1 isoform 1	296	Required for interaction with MAVS.|NACHT.				innate immune response|interspecies interaction between organisms|negative regulation of type I interferon production	mitochondrial outer membrane	ATP binding			ovary(1)|skin(1)	2	all_hematologic(175;0.0977)	Medulloblastoma(222;0.0425)|Breast(348;0.052)|all_neural(223;0.112)		BRCA - Breast invasive adenocarcinoma(274;7.7e-05)		CTGCCATTGGCCGTATCCCCA	0.547													5	260	---	---	---	---	PASS
ZNF384	171017	broad.mit.edu	37	12	6787622	6787622	+	Silent	SNP	C	T	T	rs7964510	byFrequency	TCGA-EJ-5509-01A-01D-1576-08	TCGA-EJ-5509-10A-01D-1577-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:6787622C>T	uc010sfh.1	-	6	565	c.357G>A	c.(355-357)CCG>CCA	p.P119P	ZNF384_uc001qpz.2_Silent_p.P119P|ZNF384_uc001qqa.2_Silent_p.P119P|ZNF384_uc001qqb.2_Silent_p.P103P|ZNF384_uc001qqc.2_Silent_p.P119P|ZNF384_uc001qqd.2_Intron|ZNF384_uc001qqe.2_Silent_p.P103P|ZNF384_uc009zew.1_5'UTR	NM_001135734	NP_001129206	Q8TF68	ZN384_HUMAN	nuclear matrix transcription factor 4 isoform d	119					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding		EWSR1/ZNF384(4)	haematopoietic_and_lymphoid_tissue(4)|central_nervous_system(3)|kidney(1)	8						TTACCAAACCCGGACCTAGGA	0.498			T	EWSR1|TAF15 	ALL								10	13	---	---	---	---	PASS
TAS2R43	259289	broad.mit.edu	37	12	11244527	11244527	+	Missense_Mutation	SNP	G	C	C	rs151011945	by1000genomes	TCGA-EJ-5509-01A-01D-1576-08	TCGA-EJ-5509-10A-01D-1577-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:11244527G>C	uc001qzq.1	-	1	386	c.302C>G	c.(301-303)ACC>AGC	p.T101S	PRR4_uc009zhp.2_Intron|PRH1_uc001qzb.3_Intron|PRH1_uc001qzc.2_Intron|PRB4_uc001qzf.1_Intron|PRH1_uc001qzj.2_Intron	NM_176884	NP_795365	P59537	T2R43_HUMAN	taste receptor, type 2, member 43	101	Helical; Name=3; (Potential).				detection of chemical stimulus involved in sensory perception of bitter taste	cilium membrane|motile cilium	bitter taste receptor activity			ovary(1)	1			OV - Ovarian serous cystadenocarcinoma(49;0.0344)	BRCA - Breast invasive adenocarcinoma(232;0.196)		TATGCTGAGGGTAGTAGCAAG	0.368													3	130	---	---	---	---	PASS
PRB1	5542	broad.mit.edu	37	12	11506288	11506288	+	Missense_Mutation	SNP	T	C	C	rs140825288		TCGA-EJ-5509-01A-01D-1576-08	TCGA-EJ-5509-10A-01D-1577-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:11506288T>C	uc001qzw.1	-	4	786	c.749A>G	c.(748-750)AAA>AGA	p.K250R	PRB1_uc001qzu.1_Missense_Mutation_p.K117R|PRB1_uc001qzv.1_Intron	NM_005039	NP_005030	P04280	PRP1_HUMAN	proline-rich protein BstNI subfamily 1 isoform 1	311	13.|15 X 20 AA approximate tandem repeats of P-P-G-K-P-Q-G-P-P-[PAQ]-Q-[GE]-[GD]- [NKS]-[KSQRN]-[PRQS]-[QS] [GPS]-[PQAR]- [PSR].		Missing (in clone CP-5).			extracellular region					0			OV - Ovarian serous cystadenocarcinoma(49;0.185)			ACCTTGAGGTTTGTTGCCTCC	0.612													19	359	---	---	---	---	PASS
BLOC1S1	2647	broad.mit.edu	37	12	56113258	56113258	+	3'UTR	SNP	T	C	C			TCGA-EJ-5509-01A-01D-1576-08	TCGA-EJ-5509-10A-01D-1577-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:56113258T>C	uc009zny.1	+	3					BLOC1S1_uc001shi.2_Intron|BLOC1S1_uc001shj.3_Intron|RDH5_uc010spt.1_5'Flank|RDH5_uc010spu.1_5'Flank|RDH5_uc001shk.2_5'Flank|RDH5_uc001shl.2_5'Flank			P78537	BL1S1_HUMAN	RecName: Full=Biogenesis of lysosome-related organelles complex 1 subunit 1;          Short=BLOC-1 subunit 1; AltName: Full=GCN5-like protein 1; AltName: Full=Protein RT14;						cellular membrane organization|melanosome organization|platelet dense granule organization|post-Golgi vesicle-mediated transport	BLOC-1 complex|lysosomal membrane	protein binding				0						ATTCCTGGGCTCCCACCTCCT	0.527													14	59	---	---	---	---	PASS
CYP27B1	1594	broad.mit.edu	37	12	58160784	58160784	+	Missense_Mutation	SNP	C	T	T			TCGA-EJ-5509-01A-01D-1576-08	TCGA-EJ-5509-10A-01D-1577-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:58160784C>T	uc001spz.1	-	1	193	c.41G>A	c.(40-42)CGC>CAC	p.R14H	CYP27B1_uc001sqa.1_5'UTR|CYP27B1_uc001sqb.1_5'Flank|CYP27B1_uc001sqc.1_5'Flank	NM_000785	NP_000776	O15528	CP27B_HUMAN	cytochrome P450, family 27, subfamily B,	14					bone mineralization|calcium ion homeostasis|calcium ion transport|decidualization|G1 to G0 transition|hormone biosynthetic process|negative regulation of calcidiol 1-monooxygenase activity|negative regulation of cell growth|negative regulation of cell proliferation|positive regulation of keratinocyte differentiation|positive regulation of vitamin D 24-hydroxylase activity|positive regulation of vitamin D receptor signaling pathway|regulation of bone mineralization|response to estrogen stimulus|response to interferon-gamma|response to lipopolysaccharide|response to tumor necrosis factor|response to vitamin D|vitamin D biosynthetic process|xenobiotic metabolic process	mitochondrial outer membrane	calcidiol 1-monooxygenase activity|electron carrier activity|heme binding			central_nervous_system(3)	3	all_cancers(7;8.09e-80)|Lung NSC(6;2.26e-27)|all_lung(6;1.99e-25)|all_epithelial(6;3.62e-18)|Glioma(12;6.95e-05)|all_neural(12;0.00016)|Melanoma(17;0.122)		GBM - Glioblastoma multiforme(5;1.97e-113)|all cancers(5;1.54e-78)|BRCA - Breast invasive adenocarcinoma(9;0.0294)		Calcidiol(DB00146)|Calcitriol(DB00136)|Ergocalciferol(DB00153)	CCAGCGGACGCGATGGAACAC	0.627													7	190	---	---	---	---	PASS
TMTC3	160418	broad.mit.edu	37	12	88568465	88568465	+	Silent	SNP	T	C	C			TCGA-EJ-5509-01A-01D-1576-08	TCGA-EJ-5509-10A-01D-1577-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:88568465T>C	uc001tau.2	+	9	1501	c.1281T>C	c.(1279-1281)GAT>GAC	p.D427D	TMTC3_uc009zsm.2_RNA	NM_181783	NP_861448	Q6ZXV5	TMTC3_HUMAN	transmembrane and tetratricopeptide repeat	427	TPR 1.					integral to membrane	binding			skin(1)	1						GAAATTGGGATTGGGAGTCTG	0.343													9	201	---	---	---	---	PASS
LOC284232	284232	broad.mit.edu	37	13	19415650	19415650	+	RNA	SNP	C	A	A			TCGA-EJ-5509-01A-01D-1576-08	TCGA-EJ-5509-10A-01D-1577-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr13:19415650C>A	uc010tcj.1	-	1		c.30460G>T				NR_027995				Homo sapiens ankyrin repeat domain 20 family, member A2 pseudogene (LOC284232), non-coding RNA.												0						aaaacccaaacaaaacaaaaC	0.179													7	37	---	---	---	---	PASS
KBTBD6	89890	broad.mit.edu	37	13	41705440	41705440	+	Missense_Mutation	SNP	G	T	T			TCGA-EJ-5509-01A-01D-1576-08	TCGA-EJ-5509-10A-01D-1577-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr13:41705440G>T	uc001uxu.1	-	1	1497	c.1208C>A	c.(1207-1209)ACA>AAA	p.T403K	KBTBD6_uc010ace.1_Intron|KBTBD6_uc010tfe.1_Missense_Mutation_p.T337K|uc001uxv.1_5'Flank	NM_152903	NP_690867	Q86V97	KBTB6_HUMAN	kelch repeat and BTB (POZ) domain-containing 6	403	Kelch 1.						protein binding			ovary(1)|skin(1)	2		Lung NSC(96;4.52e-06)|Breast(139;0.00123)|Prostate(109;0.0181)|Lung SC(185;0.0262)|Hepatocellular(98;0.114)		all cancers(112;4.08e-09)|Epithelial(112;4.74e-06)|OV - Ovarian serous cystadenocarcinoma(117;0.000131)|GBM - Glioblastoma multiforme(144;0.000876)|BRCA - Breast invasive adenocarcinoma(63;0.0673)		CCAGAGGTCTGTCCTGGGCTG	0.507													5	166	---	---	---	---	PASS
VPS18	57617	broad.mit.edu	37	15	41188211	41188211	+	Missense_Mutation	SNP	G	A	A	rs79533486	by1000genomes	TCGA-EJ-5509-01A-01D-1576-08	TCGA-EJ-5509-10A-01D-1577-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr15:41188211G>A	uc001zne.2	+	2	506	c.167G>A	c.(166-168)CGC>CAC	p.R56H		NM_020857	NP_065908	Q9P253	VPS18_HUMAN	vacuolar protein sorting 18	56					endosome organization|lysosome organization|protein transport	HOPS complex|late endosome membrane|lysosomal membrane	metal ion binding|protein binding			ovary(2)|large_intestine(1)	3		all_cancers(109;1.35e-17)|all_epithelial(112;3.78e-15)|Lung NSC(122;9.68e-11)|all_lung(180;2.25e-09)|Melanoma(134;0.0574)|Ovarian(310;0.0822)|Colorectal(260;0.0946)		GBM - Glioblastoma multiforme(113;1.07e-05)|COAD - Colon adenocarcinoma(120;0.15)|BRCA - Breast invasive adenocarcinoma(123;0.164)		CCTTCCGAGCGCATTACCAGT	0.517													4	224	---	---	---	---	PASS
LOC645752	645752	broad.mit.edu	37	15	78211548	78211548	+	Silent	SNP	T	C	C			TCGA-EJ-5509-01A-01D-1576-08	TCGA-EJ-5509-10A-01D-1577-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr15:78211548T>C	uc010bky.2	-	11	983	c.219A>G	c.(217-219)CAA>CAG	p.Q73Q		NR_027024				SubName: Full=GOLGA6 protein; Flags: Fragment;												0						CCACCTGGGATTGGAGCTTTC	0.562													4	157	---	---	---	---	PASS
ISG20	3669	broad.mit.edu	37	15	89195526	89195526	+	Silent	SNP	A	G	G	rs1137166	byFrequency	TCGA-EJ-5509-01A-01D-1576-08	TCGA-EJ-5509-10A-01D-1577-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr15:89195526A>G	uc002bmv.1	+	3	707	c.414A>G	c.(412-414)CTA>CTG	p.L138L	ISG20_uc002bmu.1_RNA|ISG20_uc002bmw.1_RNA|ISG20_uc010upn.1_RNA	NM_002201	NP_002192	Q96AZ6	ISG20_HUMAN	interferon stimulated exonuclease	138					cell proliferation|DNA catabolic process, exonucleolytic|response to virus|RNA catabolic process|type I interferon-mediated signaling pathway	PML body	3'-5'-exoribonuclease activity|exoribonuclease II activity|metal ion binding|RNA binding|single-stranded DNA specific 3'-5' exodeoxyribonuclease activity				0	Lung NSC(78;0.0554)|all_lung(78;0.103)		BRCA - Breast invasive adenocarcinoma(143;0.12)			AGCGCCTCCTACACAAGAGCA	0.363													3	70	---	---	---	---	PASS
C15orf51	196968	broad.mit.edu	37	15	100333090	100333090	+	RNA	SNP	T	C	C	rs115410867	by1000genomes	TCGA-EJ-5509-01A-01D-1576-08	TCGA-EJ-5509-10A-01D-1577-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr15:100333090T>C	uc010urx.1	-	5		c.1102A>G			C15orf51_uc010ury.1_RNA	NR_003260				Homo sapiens cDNA FLJ43799 fis, clone TESTI4000288.												0						GCCATTCTTTTGCTGGGCTTG	0.478													10	153	---	---	---	---	PASS
MIR1826	100302162	broad.mit.edu	37	16	33965563	33965563	+	RNA	SNP	C	T	T	rs142154618	by1000genomes	TCGA-EJ-5509-01A-01D-1576-08	TCGA-EJ-5509-10A-01D-1577-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr16:33965563C>T	hsa-mir-1826|MI0008194	+			c.56C>T																				0						CAGGGCTTTGCCTGTCTGAGC	0.617													3	34	---	---	---	---	PASS
FAM192A	80011	broad.mit.edu	37	16	57206263	57206263	+	Missense_Mutation	SNP	T	C	C			TCGA-EJ-5509-01A-01D-1576-08	TCGA-EJ-5509-10A-01D-1577-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr16:57206263T>C	uc010vhk.1	-	4	507	c.248A>G	c.(247-249)GAT>GGT	p.D83G	FAM192A_uc002ekz.3_Missense_Mutation_p.D83G|FAM192A_uc002ekv.3_Missense_Mutation_p.D6G|FAM192A_uc002ekw.3_Missense_Mutation_p.D83G|FAM192A_uc002ekx.3_Missense_Mutation_p.D83G|FAM192A_uc002eky.3_Missense_Mutation_p.D83G|FAM192A_uc010ccx.2_Missense_Mutation_p.D83G	NM_024946	NP_079222	Q9GZU8	F192A_HUMAN	NEFA-interacting nuclear protein NIP30	83						nucleus					0						CTCATCTTCATCTAAGCCTCT	0.368													3	137	---	---	---	---	PASS
CLEC18B	497190	broad.mit.edu	37	16	74445474	74445474	+	Intron	SNP	G	A	A	rs139352962	by1000genomes	TCGA-EJ-5509-01A-01D-1576-08	TCGA-EJ-5509-10A-01D-1577-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr16:74445474G>A	uc002fct.2	-						CLEC18B_uc002fcu.2_Intron|CLEC18B_uc010vmu.1_3'UTR	NM_001011880	NP_001011880	Q6UXF7	CL18B_HUMAN	C-type lectin domain family 18, member B							extracellular region	sugar binding				0						GGTCAGAGACGTTGAAGGAAC	0.353													19	185	---	---	---	---	PASS
KARS	3735	broad.mit.edu	37	16	75669946	75669946	+	Missense_Mutation	SNP	C	A	A			TCGA-EJ-5509-01A-01D-1576-08	TCGA-EJ-5509-10A-01D-1577-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr16:75669946C>A	uc002feq.2	-	5	581	c.533G>T	c.(532-534)CGG>CTG	p.R178L	KARS_uc002fer.2_Missense_Mutation_p.R206L|KARS_uc002fes.2_Missense_Mutation_p.R22L|KARS_uc010cgz.2_Missense_Mutation_p.R22L	NM_005548	NP_005539	Q15046	SYK_HUMAN	lysyl-tRNA synthetase isoform 2	178					interspecies interaction between organisms|lysyl-tRNA aminoacylation|tRNA processing	cytosol|extracellular region|mitochondrial matrix|nucleus|plasma membrane|soluble fraction	ATP binding|lysine-tRNA ligase activity|metal ion binding|tRNA binding			ovary(2)	2					L-Lysine(DB00123)	TATGTCTCCCCGACGCAGTTT	0.373													3	62	---	---	---	---	PASS
MYH4	4622	broad.mit.edu	37	17	10367810	10367810	+	Missense_Mutation	SNP	T	G	G			TCGA-EJ-5509-01A-01D-1576-08	TCGA-EJ-5509-10A-01D-1577-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:10367810T>G	uc002gmn.2	-	7	738	c.627A>C	c.(625-627)GAA>GAC	p.E209D	uc002gml.1_Intron	NM_017533	NP_060003	Q9Y623	MYH4_HUMAN	myosin, heavy polypeptide 4, skeletal muscle	209	Myosin head-like.				muscle filament sliding	muscle myosin complex|myosin filament|sarcomere	actin binding|ATP binding|calmodulin binding|microfilament motor activity|structural constituent of muscle			ovary(10)|skin(2)|central_nervous_system(1)	13						CAGAGGCAGGTTCCTCTTTTT	0.348													9	24	---	---	---	---	PASS
RHOT1	55288	broad.mit.edu	37	17	30533970	30533970	+	Silent	SNP	A	G	G	rs16967164	byFrequency	TCGA-EJ-5509-01A-01D-1576-08	TCGA-EJ-5509-10A-01D-1577-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:30533970A>G	uc002hgz.2	+	17	1697	c.1458A>G	c.(1456-1458)GAA>GAG	p.E486E	RHOT1_uc002hgw.2_Silent_p.E486E|RHOT1_uc002hgy.2_Silent_p.E486E|RHOT1_uc002hha.2_Silent_p.E359E|RHOT1_uc010csv.2_RNA|RHOT1_uc002hgx.2_Silent_p.E359E|RHOT1_uc010wby.1_Silent_p.E486E|RHOT1_uc002hhb.2_Silent_p.E465E|RHOT1_uc002hgv.2_Silent_p.E486E	NM_018307	NP_060777	Q8IXI2	MIRO1_HUMAN	ras homolog gene family, member T1 isoform 3	486	Miro 2.|Mitochondrial intermembrane (Potential).				apoptosis|cellular homeostasis|mitochondrion transport along microtubule|regulation of small GTPase mediated signal transduction|small GTPase mediated signal transduction	cytosol|integral to mitochondrial outer membrane|plasma membrane	calcium ion binding|GTP binding|GTPase activity|protein binding			ovary(3)|central_nervous_system(1)	4		Myeloproliferative disorder(56;0.0255)|Breast(31;0.116)|Ovarian(249;0.182)				CTGAAGCTGAAATCATTTGTG	0.313													4	170	---	---	---	---	PASS
KRTAP9-2	83899	broad.mit.edu	37	17	39383041	39383041	+	Silent	SNP	C	T	T	rs71371479		TCGA-EJ-5509-01A-01D-1576-08	TCGA-EJ-5509-10A-01D-1577-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:39383041C>T	uc002hwf.2	+	1	142	c.135C>T	c.(133-135)TCC>TCT	p.S45S		NM_031961	NP_114167	Q9BYQ4	KRA92_HUMAN	keratin associated protein 9.2	45	17 X 5 AA repeats of C-C-[RQVSGE]-[SPTQ]- [TASP].|5.					keratin filament	protein binding			upper_aerodigestive_tract(1)	1		Breast(137;0.000496)	STAD - Stomach adenocarcinoma(17;0.000397)			GCTGTGTGTCCAGCTGCTGCC	0.647													4	53	---	---	---	---	PASS
KRTAP9-4	85280	broad.mit.edu	37	17	39406008	39406008	+	Silent	SNP	A	C	C			TCGA-EJ-5509-01A-01D-1576-08	TCGA-EJ-5509-10A-01D-1577-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:39406008A>C	uc002hwi.2	+	1	70	c.36A>C	c.(34-36)ACA>ACC	p.T12T	KRTAP9-9_uc010wfq.1_Intron	NM_033191	NP_149461	Q9BYQ2	KRA94_HUMAN	keratin associated protein 9-4	12	15 X 5 AA repeats of C-C-[RQVGE]-[SPTN]- [TASPF].|1.					keratin filament					0		Breast(137;0.000496)	STAD - Stomach adenocarcinoma(17;0.000397)			GTCAGCCTACATGCTGCAGGA	0.597													5	108	---	---	---	---	PASS
STAT3	6774	broad.mit.edu	37	17	40498723	40498723	+	Missense_Mutation	SNP	G	A	A			TCGA-EJ-5509-01A-01D-1576-08	TCGA-EJ-5509-10A-01D-1577-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:40498723G>A	uc002hzl.1	-	3	377	c.137C>T	c.(136-138)GCG>GTG	p.A46V	STAT3_uc002hzk.1_Missense_Mutation_p.A46V|STAT3_uc002hzm.1_Missense_Mutation_p.A46V|STAT3_uc010wgh.1_5'UTR|STAT3_uc002hzn.1_Missense_Mutation_p.A46V	NM_139276	NP_644805	P40763	STAT3_HUMAN	signal transducer and activator of transcription	46					cellular component movement|eating behavior|eye photoreceptor cell differentiation|glucose homeostasis|interleukin-6-mediated signaling pathway|interspecies interaction between organisms|JAK-STAT cascade involved in growth hormone signaling pathway|negative regulation of transcription from RNA polymerase II promoter|nerve growth factor receptor signaling pathway|positive regulation of transcription from RNA polymerase II promoter|protein import into nucleus|response to estradiol stimulus|sexual reproduction|temperature homeostasis	cytosol|nucleus|plasma membrane	calcium ion binding|ligand-regulated transcription factor activity|protein dimerization activity|protein kinase binding|sequence-specific DNA binding transcription factor activity|signal transducer activity|transcription factor binding|transcription regulatory region DNA binding			ovary(1)|lung(1)|breast(1)|central_nervous_system(1)	4		all_cancers(22;1.39e-06)|all_epithelial(22;2.95e-05)|Breast(137;0.000135)		BRCA - Breast invasive adenocarcinoma(366;0.139)		TTTGCTGGCCGCATATGCCCT	0.433									Hyperimmunoglobulin_E_Recurrent_Infection_Syndrome				5	289	---	---	---	---	PASS
NPEPPS	9520	broad.mit.edu	37	17	45664677	45664677	+	Silent	SNP	C	T	T	rs149817839	by1000genomes	TCGA-EJ-5509-01A-01D-1576-08	TCGA-EJ-5509-10A-01D-1577-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:45664677C>T	uc002ilr.3	+	9	1285	c.1062C>T	c.(1060-1062)CTC>CTT	p.L354L	NPEPPS_uc010wkt.1_Silent_p.L350L|NPEPPS_uc010wku.1_Silent_p.L318L|NPEPPS_uc010wkv.1_5'UTR	NM_006310	NP_006301	P55786	PSA_HUMAN	aminopeptidase puromycin sensitive	354					proteolysis	cytosol|nucleus	aminopeptidase activity|metallopeptidase activity|protein binding|zinc ion binding				0						GACATGAACTCGCCCATCAAT	0.358													5	39	---	---	---	---	PASS
SPOP	8405	broad.mit.edu	37	17	47696425	47696425	+	Missense_Mutation	SNP	A	C	C			TCGA-EJ-5509-01A-01D-1576-08	TCGA-EJ-5509-10A-01D-1577-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:47696425A>C	uc010dbk.2	-	6	1030	c.398T>G	c.(397-399)TTC>TGC	p.F133C	SPOP_uc002ipb.2_Missense_Mutation_p.F133C|SPOP_uc002ipc.2_Missense_Mutation_p.F133C|SPOP_uc002ipd.2_Missense_Mutation_p.F133C|SPOP_uc002ipe.2_Missense_Mutation_p.F133C|SPOP_uc002ipf.2_Missense_Mutation_p.F133C|SPOP_uc002ipg.2_Missense_Mutation_p.F133C	NM_003563	NP_003554	O43791	SPOP_HUMAN	speckle-type POZ protein	133	MATH.|Required for nuclear localization.				mRNA processing	nucleus	protein binding	p.F133L(1)		prostate(2)|ovary(2)|lung(2)	6						GAATTTCTTGAATCCCCAGTC	0.448										Prostate(2;0.17)			59	155	---	---	---	---	PASS
INTS2	57508	broad.mit.edu	37	17	59984779	59984779	+	Missense_Mutation	SNP	C	A	A			TCGA-EJ-5509-01A-01D-1576-08	TCGA-EJ-5509-10A-01D-1577-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:59984779C>A	uc002izn.2	-	8	1271	c.1195G>T	c.(1195-1197)GCT>TCT	p.A399S	INTS2_uc002izm.2_Missense_Mutation_p.A391S	NM_020748	NP_065799	Q9H0H0	INT2_HUMAN	integrator complex subunit 2	399					snRNA processing	integral to membrane|integrator complex|nuclear membrane	protein binding			ovary(1)|lung(1)|pancreas(1)	3						TTGAGTCCAGCGATCCCCATC	0.413													2	6	---	---	---	---	PASS
SDK2	54549	broad.mit.edu	37	17	71384169	71384169	+	Silent	SNP	C	T	T	rs139527427	byFrequency	TCGA-EJ-5509-01A-01D-1576-08	TCGA-EJ-5509-10A-01D-1577-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:71384169C>T	uc010dfm.2	-	30	4200	c.4200G>A	c.(4198-4200)CCG>CCA	p.P1400P	SDK2_uc002jjt.3_Silent_p.P559P|SDK2_uc010dfn.2_Silent_p.P1079P	NM_001144952	NP_001138424	Q58EX2	SDK2_HUMAN	sidekick 2	1400	Fibronectin type-III 9.|Extracellular (Potential).				cell adhesion	integral to membrane				ovary(2)	2						TGGGGGGCTGCGGACGGTCTG	0.682													3	4	---	---	---	---	PASS
WBP2	23558	broad.mit.edu	37	17	73851410	73851410	+	5'UTR	SNP	A	C	C			TCGA-EJ-5509-01A-01D-1576-08	TCGA-EJ-5509-10A-01D-1577-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:73851410A>C	uc002jps.2	-	1					WBP2_uc002jpr.2_5'Flank|WBP2_uc010wsl.1_5'UTR|WBP2_uc002jpt.2_5'UTR|WBP2_uc002jpu.1_RNA|WBP2_uc010wsm.1_5'UTR|WBP2_uc010wsn.1_5'UTR	NM_012478	NP_036610	Q969T9	WBP2_HUMAN	WW domain binding protein 2								protein binding				0			all cancers(21;2.61e-06)|Epithelial(20;2.92e-06)|BRCA - Breast invasive adenocarcinoma(9;0.00092)|LUSC - Lung squamous cell carcinoma(166;0.154)			GAGACTCAAAACGCAATGAGC	0.567													30	88	---	---	---	---	PASS
SEPT9	10801	broad.mit.edu	37	17	75478262	75478262	+	Missense_Mutation	SNP	C	T	T			TCGA-EJ-5509-01A-01D-1576-08	TCGA-EJ-5509-10A-01D-1577-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:75478262C>T	uc002jts.3	+	4	884	c.758C>T	c.(757-759)GCC>GTC	p.A253V	SEPT9_uc010wtk.1_Missense_Mutation_p.A234V|SEPT9_uc002jtt.3_Missense_Mutation_p.A89V|SEPT9_uc002jtu.3_Missense_Mutation_p.A235V|SEPT9_uc002jtv.2_Missense_Mutation_p.A246V|SEPT9_uc002jtw.2_Missense_Mutation_p.A89V|SEPT9_uc002jtx.1_Missense_Mutation_p.A89V|SEPT9_uc010wtl.1_Missense_Mutation_p.A29V|SEPT9_uc002jty.3_Missense_Mutation_p.A2V|SEPT9_uc010wtm.1_Missense_Mutation_p.A2V|SEPT9_uc010wtn.1_Missense_Mutation_p.A2V|SEPT9_uc010dhd.2_Missense_Mutation_p.A141V	NM_001113491	NP_001106963	Q9UHD8	SEPT9_HUMAN	septin 9 isoform a	253					cell cycle|cell division|protein heterooligomerization	microtubule|perinuclear region of cytoplasm|stress fiber	GTP binding|GTPase activity|protein binding|protein binding			breast(2)|ovary(1)	3			BRCA - Breast invasive adenocarcinoma(99;0.153)			GGCGACATGGCCGACACCCCC	0.572													3	13	---	---	---	---	PASS
ANKRD29	147463	broad.mit.edu	37	18	21229120	21229120	+	Missense_Mutation	SNP	G	T	T			TCGA-EJ-5509-01A-01D-1576-08	TCGA-EJ-5509-10A-01D-1577-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr18:21229120G>T	uc002kun.2	-	2	216	c.59C>A	c.(58-60)GCC>GAC	p.A20D	ANKRD29_uc002kuo.2_Missense_Mutation_p.A20D	NM_173505	NP_775776	Q8N6D5	ANR29_HUMAN	ankyrin repeat domain 29	20	ANK 1.									ovary(3)|breast(1)	4	all_cancers(21;5.07e-05)|all_epithelial(16;2.49e-07)|Lung NSC(20;0.00211)|all_lung(20;0.00676)|Colorectal(14;0.0202)|Ovarian(20;0.127)					TCCTCTCCTGGCTGCCCAGAA	0.522													6	43	---	---	---	---	PASS
C19orf21	126353	broad.mit.edu	37	19	757143	757143	+	Missense_Mutation	SNP	T	G	G			TCGA-EJ-5509-01A-01D-1576-08	TCGA-EJ-5509-10A-01D-1577-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:757143T>G	uc002lpo.2	+	2	280	c.197T>G	c.(196-198)GTG>GGG	p.V66G		NM_173481	NP_775752	Q8IVT2	CS021_HUMAN	hypothetical protein LOC126353	66										upper_aerodigestive_tract(1)	1		Acute lymphoblastic leukemia(61;4.36e-14)|all_hematologic(61;4.84e-09)|Lung NSC(49;0.000145)|all_lung(49;0.000236)|Breast(49;0.0014)		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)		AGGCAGGGGGTGTCCTACAGC	0.697													7	28	---	---	---	---	PASS
COL5A3	50509	broad.mit.edu	37	19	10104082	10104082	+	Missense_Mutation	SNP	C	T	T			TCGA-EJ-5509-01A-01D-1576-08	TCGA-EJ-5509-10A-01D-1577-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:10104082C>T	uc002mmq.1	-	19	1809	c.1723G>A	c.(1723-1725)GGT>AGT	p.G575S		NM_015719	NP_056534	P25940	CO5A3_HUMAN	collagen, type V, alpha 3 preproprotein	575	Triple-helical region.				collagen fibril organization|skin development	collagen type V	collagen binding|extracellular matrix structural constituent			ovary(7)|lung(1)|central_nervous_system(1)|skin(1)	10			Epithelial(33;7.11e-05)			CCTGGGGGACCGGGTTGCCCC	0.567													6	256	---	---	---	---	PASS
LSR	51599	broad.mit.edu	37	19	35758823	35758823	+	3'UTR	SNP	G	C	C			TCGA-EJ-5509-01A-01D-1576-08	TCGA-EJ-5509-10A-01D-1577-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:35758823G>C	uc002nyl.2	+	10					LSR_uc002nym.2_3'UTR|LSR_uc002nyn.2_3'UTR|LSR_uc002nyo.2_3'UTR|LSR_uc010xsr.1_3'UTR|LSR_uc002nyp.2_3'UTR|USF2_uc010xss.1_5'Flank|USF2_uc002nyq.1_5'Flank|USF2_uc002nyr.1_5'Flank|USF2_uc002nys.1_5'Flank|USF2_uc002nyt.1_5'Flank|USF2_uc002nyu.1_5'Flank|USF2_uc002nyv.1_5'Flank	NM_205834	NP_991403	Q86X29	LSR_HUMAN	lipolysis stimulated lipoprotein receptor						embryo development|liver development	chylomicron|integral to membrane|low-density lipoprotein particle|plasma membrane|very-low-density lipoprotein particle	receptor activity				0	all_lung(56;3.91e-09)|Lung NSC(56;5.64e-09)|Esophageal squamous(110;0.162)		Epithelial(14;1.33e-19)|OV - Ovarian serous cystadenocarcinoma(14;1.29e-18)|all cancers(14;7.11e-17)|LUSC - Lung squamous cell carcinoma(66;0.0417)			CACTGATGAAGCCCTGCCATA	0.498													11	21	---	---	---	---	PASS
PAK7	57144	broad.mit.edu	37	20	9520008	9520008	+	3'UTR	SNP	T	G	G			TCGA-EJ-5509-01A-01D-1576-08	TCGA-EJ-5509-10A-01D-1577-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr20:9520008T>G	uc002wnl.2	-	11					PAK7_uc002wnk.2_3'UTR|PAK7_uc002wnj.2_3'UTR|PAK7_uc010gby.1_3'UTR	NM_020341	NP_065074	Q9P286	PAK7_HUMAN	p21-activated kinase 7								ATP binding|protein binding|protein serine/threonine kinase activity			lung(11)|skin(5)|central_nervous_system(3)|ovary(2)|large_intestine(1)|stomach(1)	23			COAD - Colon adenocarcinoma(9;0.194)			AATTGGCTGGTCTAGAATGCA	0.498													12	45	---	---	---	---	PASS
ZNF831	128611	broad.mit.edu	37	20	57769548	57769548	+	Silent	SNP	G	A	A			TCGA-EJ-5509-01A-01D-1576-08	TCGA-EJ-5509-10A-01D-1577-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr20:57769548G>A	uc002yan.2	+	1	3474	c.3474G>A	c.(3472-3474)ACG>ACA	p.T1158T		NM_178457	NP_848552	Q5JPB2	ZN831_HUMAN	zinc finger protein 831	1158						intracellular	nucleic acid binding|zinc ion binding			skin(13)|ovary(1)	14	all_lung(29;0.0085)					ACTCAGGGACGTCCCGGAGCC	0.672													30	78	---	---	---	---	PASS
U2AF1	7307	broad.mit.edu	37	21	44513243	44513243	+	Missense_Mutation	SNP	G	A	A			TCGA-EJ-5509-01A-01D-1576-08	TCGA-EJ-5509-10A-01D-1577-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr21:44513243G>A	uc002zda.1	-	8	776	c.692C>T	c.(691-693)TCG>TTG	p.S231L	U2AF1_uc002zcy.1_Missense_Mutation_p.S158L|U2AF1_uc002zcz.1_Missense_Mutation_p.S158L|U2AF1_uc002zdb.1_Missense_Mutation_p.S231L|U2AF1_uc010gpi.1_3'UTR	NM_001025203	NP_001020374	Q01081	U2AF1_HUMAN	U2 small nuclear RNA auxillary factor 1 isoform	231	Arg/Gly/Ser-rich (RS domain).				mRNA 3'-end processing|mRNA export from nucleus|termination of RNA polymerase II transcription	Cajal body|catalytic step 2 spliceosome|nuclear speck	nucleotide binding|RNA binding|zinc ion binding				0						ACGATCTCTCGACCGCCTCCT	0.408													5	46	---	---	---	---	PASS
CRYAA	1409	broad.mit.edu	37	21	44589279	44589279	+	Missense_Mutation	SNP	G	A	A			TCGA-EJ-5509-01A-01D-1576-08	TCGA-EJ-5509-10A-01D-1577-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr21:44589279G>A	uc002zdd.1	+	1	139	c.70G>A	c.(70-72)GAC>AAC	p.D24N		NM_000394	NP_000385	P02489	CRYAA_HUMAN	crystallin, alpha A	24					anti-apoptosis|negative regulation of intracellular transport|protein homooligomerization|response to heat|visual perception	cytoplasm|nucleus	structural constituent of eye lens|unfolded protein binding			breast(1)|central_nervous_system(1)	2						CCGGCTGTTCGACCAGTTTTT	0.617													32	117	---	---	---	---	PASS
LOC96610	96610	broad.mit.edu	37	22	23264852	23264852	+	RNA	SNP	G	A	A	rs143968317	by1000genomes	TCGA-EJ-5509-01A-01D-1576-08	TCGA-EJ-5509-10A-01D-1577-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr22:23264852G>A	uc011aim.1	+	379		c.16673G>A								Parts of antibodies, mostly variable regions.												0						GGTGTGTCTCGTAAGTGACTT	0.607													3	39	---	---	---	---	PASS
KDM6A	7403	broad.mit.edu	37	X	44938412	44938412	+	Missense_Mutation	SNP	A	G	G			TCGA-EJ-5509-01A-01D-1576-08	TCGA-EJ-5509-10A-01D-1577-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chrX:44938412A>G	uc004dge.3	+	20	3335	c.2960A>G	c.(2959-2961)AAA>AGA	p.K987R	KDM6A_uc010nhk.2_Missense_Mutation_p.K953R|KDM6A_uc011mkz.1_Missense_Mutation_p.K1039R|KDM6A_uc011mla.1_Missense_Mutation_p.K942R|KDM6A_uc011mlb.1_Missense_Mutation_p.K994R|KDM6A_uc011mlc.1_Missense_Mutation_p.K691R|KDM6A_uc011mld.1_Missense_Mutation_p.K626R	NM_021140	NP_066963	O15550	KDM6A_HUMAN	ubiquitously transcribed tetratricopeptide	987					histone H3-K4 methylation		metal ion binding|oxidoreductase activity, acting on single donors with incorporation of molecular oxygen, incorporation of two atoms of oxygen			kidney(24)|haematopoietic_and_lymphoid_tissue(23)|oesophagus(11)|large_intestine(7)|lung(5)|breast(4)|central_nervous_system(3)|urinary_tract(3)|endometrium(2)|pancreas(2)	84						TTCTCTACTAAAACTTTGGTG	0.333			D|N|F|S		renal|oesophageal SCC|MM								4	59	---	---	---	---	PASS
Unknown	0	broad.mit.edu	37	M	6460	6460	+	5'UTR	SNP	G	A	A			TCGA-EJ-5509-01A-01D-1576-08	TCGA-EJ-5509-10A-01D-1577-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chrM:6460G>A	uc011mfh.1	+	1					uc004cou.3_5'Flank|uc011mfi.1_5'Flank					Homo sapiens cDNA: FLJ22894 fis, clone KAT04907.																		CCTCTTCGTCTGATCCGTCCT	0.473													10	62	---	---	---	---	PASS
VPS13D	55187	broad.mit.edu	37	1	12464219	12464220	+	Intron	INS	-	A	A			TCGA-EJ-5509-01A-01D-1576-08	TCGA-EJ-5509-10A-01D-1577-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:12464219_12464220insA	uc001atv.2	+						VPS13D_uc001atw.2_Intron|VPS13D_uc001atx.2_Intron|VPS13D_uc009vnl.2_Intron	NM_015378	NP_056193	Q5THJ4	VP13D_HUMAN	vacuolar protein sorting 13D isoform 1						protein localization					ovary(4)|pancreas(1)	5	Ovarian(185;0.249)	Lung NSC(185;4.08e-05)|all_lung(284;4.55e-05)|Renal(390;0.000147)|Colorectal(325;0.00058)|Breast(348;0.00093)|Ovarian(437;0.00965)|Hepatocellular(190;0.0202)|Myeloproliferative disorder(586;0.0255)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0327)|Colorectal(212;4.63e-06)|BRCA - Breast invasive adenocarcinoma(304;0.000289)|COAD - Colon adenocarcinoma(227;0.000801)|Kidney(185;0.00216)|KIRC - Kidney renal clear cell carcinoma(229;0.00544)|STAD - Stomach adenocarcinoma(313;0.012)|READ - Rectum adenocarcinoma(331;0.0476)|Lung(427;0.209)		TATTTGTCTTTAAAAAAAAAAA	0.312													6	3	---	---	---	---	
PRAMEF16	654348	broad.mit.edu	37	1	13497435	13497435	+	Intron	DEL	G	-	-			TCGA-EJ-5509-01A-01D-1576-08	TCGA-EJ-5509-10A-01D-1577-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:13497435delG	uc001aux.2	+							NM_001045480	NP_001038945	Q5VWM1	PRA16_HUMAN	PRAME family member 16												0	Ovarian(185;0.249)	Renal(390;0.000469)|Lung NSC(185;0.00143)|all_lung(284;0.00181)|Colorectal(325;0.00215)|Breast(348;0.00224)|Myeloproliferative disorder(586;0.0393)|Hepatocellular(190;0.0623)|Ovarian(437;0.0731)		UCEC - Uterine corpus endometrioid carcinoma (279;0.00812)|Colorectal(212;4.88e-06)|Kidney(185;4.89e-05)|KIRC - Kidney renal clear cell carcinoma(229;0.000194)|COAD - Colon adenocarcinoma(227;0.000241)|BRCA - Breast invasive adenocarcinoma(304;0.000293)|STAD - Stomach adenocarcinoma(313;0.0072)|READ - Rectum adenocarcinoma(331;0.0649)		CCCCATTGCAGGTTACTACAA	0.473													6	3	---	---	---	---	
USP24	23358	broad.mit.edu	37	1	55545465	55545466	+	Intron	DEL	CT	-	-	rs72019614		TCGA-EJ-5509-01A-01D-1576-08	TCGA-EJ-5509-10A-01D-1577-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:55545465_55545466delCT	uc001cyg.3	-							NM_015306	NP_056121	Q9UPU5	UBP24_HUMAN	ubiquitin specific protease 24						ubiquitin-dependent protein catabolic process		binding|cysteine-type peptidase activity|ubiquitin thiolesterase activity			ovary(6)|kidney(6)|breast(1)	13						TACTCACACACTGAGTACTCAC	0.312													9	5	---	---	---	---	
GBP5	115362	broad.mit.edu	37	1	89732536	89732537	+	Intron	DEL	AT	-	-			TCGA-EJ-5509-01A-01D-1576-08	TCGA-EJ-5509-10A-01D-1577-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:89732536_89732537delAT	uc001dnc.2	-						GBP5_uc001dnd.2_Intron|GBP5_uc001dne.1_Intron	NM_052942	NP_443174	Q96PP8	GBP5_HUMAN	guanylate-binding protein 5							plasma membrane	GTP binding|GTPase activity			ovary(1)	1				all cancers(265;0.00784)|Epithelial(280;0.0286)		AGCTGGGTGAATATATATATAT	0.218													20	7	---	---	---	---	
CEPT1	10390	broad.mit.edu	37	1	111703576	111703576	+	Intron	DEL	A	-	-	rs143334479		TCGA-EJ-5509-01A-01D-1576-08	TCGA-EJ-5509-10A-01D-1577-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:111703576delA	uc001eah.1	+						CEPT1_uc001eai.1_Intron|CEPT1_uc001eaj.1_Intron	NM_001007794	NP_001007795	Q9Y6K0	CEPT1_HUMAN	choline/ethanolaminephosphotransferase							endoplasmic reticulum membrane|integral to membrane|nuclear membrane	diacylglycerol cholinephosphotransferase activity|ethanolaminephosphotransferase activity|metal ion binding				0		all_cancers(81;2.27e-05)|all_epithelial(167;7.36e-06)|all_lung(203;0.00018)|Lung NSC(277;0.000359)		Lung(183;0.0173)|Colorectal(144;0.0375)|all cancers(265;0.0701)|LUSC - Lung squamous cell carcinoma(189;0.0888)|Epithelial(280;0.103)|COAD - Colon adenocarcinoma(174;0.141)	Choline(DB00122)	GTGATTTGGTAAAAAAAAAAA	0.299													6	6	---	---	---	---	
RNPEP	6051	broad.mit.edu	37	1	201957915	201957916	+	Intron	INS	-	G	G			TCGA-EJ-5509-01A-01D-1576-08	TCGA-EJ-5509-10A-01D-1577-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:201957915_201957916insG	uc001gxd.2	+						RNPEP_uc001gxe.2_Intron|RNPEP_uc001gxf.2_Intron	NM_020216	NP_064601	Q9H4A4	AMPB_HUMAN	arginyl aminopeptidase						leukotriene biosynthetic process		epoxide hydrolase activity|zinc ion binding			upper_aerodigestive_tract(1)	1				KIRC - Kidney renal clear cell carcinoma(1967;3.23e-08)|Colorectal(1306;0.005)		CCAGACTGGCTGGCGGAAAGGT	0.470													70	7	---	---	---	---	
RAD51AP2	729475	broad.mit.edu	37	2	17696274	17696275	+	Intron	INS	-	A	A	rs34060092		TCGA-EJ-5509-01A-01D-1576-08	TCGA-EJ-5509-10A-01D-1577-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:17696274_17696275insA	uc002rcl.1	-						RAD51AP2_uc010exn.1_Intron	NM_001099218	NP_001092688	Q09MP3	R51A2_HUMAN	RAD51 associated protein 2											ovary(1)	1	Acute lymphoblastic leukemia(172;0.155)|all_hematologic(175;0.158)					CTTCTTGCTGGAAAAAAAAAAA	0.307													4	3	---	---	---	---	
SMC6	79677	broad.mit.edu	37	2	17959465	17959466	+	Intron	DEL	AT	-	-	rs10535307		TCGA-EJ-5509-01A-01D-1576-08	TCGA-EJ-5509-10A-01D-1577-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:17959465_17959466delAT	uc010exo.2	-						GEN1_uc002rct.2_Intron|GEN1_uc010yjs.1_Intron|GEN1_uc002rcu.2_Intron	NM_024624	NP_078900	Q96SB8	SMC6_HUMAN	SMC6 protein						DNA recombination|DNA repair	chromosome|nucleus	ATP binding			breast(4)|upper_aerodigestive_tract(1)|kidney(1)	6	Acute lymphoblastic leukemia(172;0.155)|all_hematologic(175;0.158)					acacacacacatatatgtgtat	0.050													4	3	---	---	---	---	
WDR35	57539	broad.mit.edu	37	2	20174175	20174176	+	Intron	INS	-	A	A	rs60345222		TCGA-EJ-5509-01A-01D-1576-08	TCGA-EJ-5509-10A-01D-1577-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:20174175_20174176insA	uc002rdi.2	-						WDR35_uc002rdj.2_Intron|WDR35_uc010ext.2_Intron|WDR35_uc002rdh.2_Intron	NM_001006657	NP_001006658	Q9P2L0	WDR35_HUMAN	WD repeat domain 35 isoform 1											ovary(1)	1	Acute lymphoblastic leukemia(172;0.155)|all_hematologic(175;0.215)					atctcaaaaagaaaaaaaaaaa	0.109													5	3	---	---	---	---	
NFU1	27247	broad.mit.edu	37	2	69627837	69627838	+	Intron	INS	-	T	T			TCGA-EJ-5509-01A-01D-1576-08	TCGA-EJ-5509-10A-01D-1577-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:69627837_69627838insT	uc002sfk.2	-						NFU1_uc002sfj.2_Intron|NFU1_uc002sfl.2_Intron|NFU1_uc002sfm.2_Intron|NFU1_uc010fdi.2_Intron|NFU1_uc002sfn.1_Intron	NM_001002755	NP_001002755	Q9UMS0	NFU1_HUMAN	HIRA interacting protein 5 isoform 2						iron-sulfur cluster assembly	cytosol|mitochondrion|nucleus	4 iron, 4 sulfur cluster binding|iron ion binding|protein binding				0						ttagaattaaattttttttttt	0.257													8	4	---	---	---	---	
RMND5A	64795	broad.mit.edu	37	2	87095980	87095981	+	Intron	DEL	AC	-	-	rs71392954		TCGA-EJ-5509-01A-01D-1576-08	TCGA-EJ-5509-10A-01D-1577-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:87095980_87095981delAC	uc002srs.3	+						uc010fgu.1_Intron			Q9H871	RMD5A_HUMAN	SubName: Full=cDNA FLJ10361 fis, clone NT2RM2001256, highly similar to Anaphase-promoting complex subunit 1;											ovary(1)|skin(1)	2						CAAAAAAAAAACAAAAACAAAA	0.307													32	7	---	---	---	---	
Unknown	0	broad.mit.edu	37	2	113103992	113103992	+	IGR	DEL	C	-	-			TCGA-EJ-5509-01A-01D-1576-08	TCGA-EJ-5509-10A-01D-1577-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:113103992delC								ZC3H6 (6352 upstream) : RGPD8 (21974 downstream)																							tcaccaccatcaccactgcca	0.000													4	2	---	---	---	---	
ACVR2A	92	broad.mit.edu	37	2	148683686	148683686	+	Frame_Shift_Del	DEL	A	-	-			TCGA-EJ-5509-01A-01D-1576-08	TCGA-EJ-5509-10A-01D-1577-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:148683686delA	uc002twg.2	+	11	1572	c.1303delA	c.(1303-1305)AAAfs	p.K435fs	ACVR2A_uc010zbn.1_Frame_Shift_Del_p.K327fs|ACVR2A_uc002twh.2_Frame_Shift_Del_p.K435fs	NM_001616	NP_001607	P27037	AVR2A_HUMAN	activin A receptor, type IIA precursor	435	Cytoplasmic (Potential).|Protein kinase.				activin receptor signaling pathway|BMP signaling pathway|positive regulation of activin receptor signaling pathway|positive regulation of bone mineralization|positive regulation of erythrocyte differentiation|positive regulation of osteoblast differentiation|positive regulation of protein phosphorylation	cytoplasm|inhibin-betaglycan-ActRII complex|integral to plasma membrane	ATP binding|coreceptor activity|inhibin beta-A binding|metal ion binding|receptor signaling protein serine/threonine kinase activity|transforming growth factor beta receptor activity			stomach(8)|large_intestine(2)|lung(1)|breast(1)|kidney(1)	13				BRCA - Breast invasive adenocarcinoma(221;0.0969)		TGTTGTGCATAAAAAAAAGAG	0.368													162	7	---	---	---	---	
FASTKD1	79675	broad.mit.edu	37	2	170425509	170425509	+	Intron	DEL	A	-	-			TCGA-EJ-5509-01A-01D-1576-08	TCGA-EJ-5509-10A-01D-1577-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:170425509delA	uc002uev.3	-						FASTKD1_uc002uew.3_Intron|FASTKD1_uc002uex.3_Intron|FASTKD1_uc002uey.2_Intron	NM_024622	NP_078898	Q53R41	FAKD1_HUMAN	FAST kinase domains 1						apoptosis|cellular respiration	mitochondrion	ATP binding|protein kinase activity			ovary(4)	4						actccatctcaaaaaaaaaaa	0.124													4	3	---	---	---	---	
TTN	7273	broad.mit.edu	37	2	179506008	179506008	+	Frame_Shift_Del	DEL	T	-	-			TCGA-EJ-5509-01A-01D-1576-08	TCGA-EJ-5509-10A-01D-1577-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:179506008delT	uc010zfg.1	-	169	33113	c.32889delA	c.(32887-32889)AAAfs	p.K10963fs	TTN_uc010zfh.1_Frame_Shift_Del_p.K4658fs|TTN_uc010zfi.1_Frame_Shift_Del_p.K4591fs|TTN_uc010zfj.1_Frame_Shift_Del_p.K4466fs|TTN_uc010fre.1_Frame_Shift_Del_p.K841fs|TTN_uc002umw.1_Intron|TTN_uc002umx.1_Intron	NM_133378	NP_596869	Q8WZ42	TITIN_HUMAN	titin isoform N2-A	11890							ATP binding|nucleic acid binding|protein serine/threonine kinase activity|protein tyrosine kinase activity			ovary(58)|stomach(19)|large_intestine(17)|lung(16)|skin(16)|breast(10)|pancreas(7)|kidney(4)|central_nervous_system(3)|urinary_tract(2)|upper_aerodigestive_tract(1)	153			OV - Ovarian serous cystadenocarcinoma(117;0.023)|Epithelial(96;0.0454)|all cancers(119;0.134)			TAGGTTCTACTTTAGGTTCTT	0.289													4	2	---	---	---	---	
ATP2B2	491	broad.mit.edu	37	3	10380211	10380211	+	Intron	DEL	T	-	-	rs34558372		TCGA-EJ-5509-01A-01D-1576-08	TCGA-EJ-5509-10A-01D-1577-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:10380211delT	uc003bvt.2	-						ATP2B2_uc003bvv.2_Intron|ATP2B2_uc003bvw.2_Intron|ATP2B2_uc003bvs.2_5'Flank|ATP2B2_uc010hdo.2_Intron	NM_001001331	NP_001001331	Q01814	AT2B2_HUMAN	plasma membrane calcium ATPase 2 isoform 1						ATP biosynthetic process|cytosolic calcium ion homeostasis|platelet activation	cytosol|integral to membrane|plasma membrane	ATP binding|ATP binding|calcium ion binding|calcium-transporting ATPase activity|calcium-transporting ATPase activity|calmodulin binding|calmodulin binding|metal ion binding|PDZ domain binding|protein C-terminus binding			ovary(3)|skin(2)|central_nervous_system(1)	6						TGACAATGtcttttttttttt	0.299													4	2	---	---	---	---	
ATP8A1	10396	broad.mit.edu	37	4	42557859	42557860	+	Intron	INS	-	TAAA	TAAA	rs145505019	by1000genomes	TCGA-EJ-5509-01A-01D-1576-08	TCGA-EJ-5509-10A-01D-1577-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:42557859_42557860insTAAA	uc003gwr.2	-						ATP8A1_uc003gws.2_Intron|ATP8A1_uc011byz.1_Intron	NM_006095	NP_006086	Q9Y2Q0	AT8A1_HUMAN	ATPase, aminophospholipid transporter (APLT),						ATP biosynthetic process	chromaffin granule membrane|integral to membrane|plasma membrane	aminophospholipid transporter activity|ATP binding|ATPase activity, coupled to transmembrane movement of ions, phosphorylative mechanism|cation-transporting ATPase activity|magnesium ion binding|phospholipid-translocating ATPase activity			skin(2)|central_nervous_system(1)	3					Phosphatidylserine(DB00144)	aactaactaactaaataaataa	0.104													5	3	---	---	---	---	
FRAS1	80144	broad.mit.edu	37	4	79328729	79328730	+	Intron	INS	-	A	A	rs150195882	by1000genomes	TCGA-EJ-5509-01A-01D-1576-08	TCGA-EJ-5509-10A-01D-1577-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:79328729_79328730insA	uc003hlb.2	+						FRAS1_uc003hkw.2_Intron	NM_025074	NP_079350	Q86XX4	FRAS1_HUMAN	Fraser syndrome 1						cell communication	integral to membrane|plasma membrane	metal ion binding			large_intestine(5)	5						TCTTTCTAGTTAAAAAAAAAAT	0.396													22	12	---	---	---	---	
FRG1	2483	broad.mit.edu	37	4	190874371	190874372	+	Intron	DEL	AG	-	-			TCGA-EJ-5509-01A-01D-1576-08	TCGA-EJ-5509-10A-01D-1577-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:190874371_190874372delAG	uc003izs.2	+							NM_004477	NP_004468	Q14331	FRG1_HUMAN	FSHD region gene 1						rRNA processing	Cajal body|catalytic step 2 spliceosome|nuclear speck|nucleolus					0		all_cancers(14;1.44e-58)|all_epithelial(14;6.32e-41)|all_lung(41;8.13e-17)|Lung NSC(41;2.13e-16)|Breast(6;2.54e-06)|Melanoma(20;0.000263)|Hepatocellular(41;0.00213)|Renal(120;0.0183)|all_hematologic(60;0.0358)|Prostate(90;0.0421)|all_neural(102;0.147)		all cancers(3;1.73e-30)|Epithelial(3;5.85e-30)|OV - Ovarian serous cystadenocarcinoma(60;5.56e-15)|BRCA - Breast invasive adenocarcinoma(30;9.14e-06)|Lung(3;3.54e-05)|STAD - Stomach adenocarcinoma(60;8.83e-05)|LUSC - Lung squamous cell carcinoma(40;0.000198)|GBM - Glioblastoma multiforme(59;0.00892)|READ - Rectum adenocarcinoma(43;0.161)		TTAAGCCCACAGGGTAATTTTG	0.252													4	4	---	---	---	---	
CYFIP2	26999	broad.mit.edu	37	5	156734645	156734646	+	Intron	DEL	GT	-	-	rs72522007		TCGA-EJ-5509-01A-01D-1576-08	TCGA-EJ-5509-10A-01D-1577-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:156734645_156734646delGT	uc003lwq.2	+						CYFIP2_uc011ddn.1_Intron|CYFIP2_uc011ddo.1_Intron|CYFIP2_uc003lwr.2_Intron|CYFIP2_uc003lws.2_Intron|CYFIP2_uc003lwt.2_Intron|CYFIP2_uc011ddp.1_Intron	NM_001037333	NP_001032410	Q96F07	CYFP2_HUMAN	cytoplasmic FMR1 interacting protein 2						apoptosis|cell-cell adhesion	cell junction|perinuclear region of cytoplasm|synapse|synaptosome	protein binding				0	Renal(175;0.00212)	Medulloblastoma(196;0.0306)|all_neural(177;0.0897)	Kidney(164;0.000171)|KIRC - Kidney renal clear cell carcinoma(164;0.000785)			TCTCTACAGGgtgtgtgtgtgt	0.238													4	2	---	---	---	---	
FAM153B	202134	broad.mit.edu	37	5	175530031	175530031	+	Intron	DEL	G	-	-			TCGA-EJ-5509-01A-01D-1576-08	TCGA-EJ-5509-10A-01D-1577-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:175530031delG	uc003mdk.2	+							NM_001079529	NP_001072997	P0C7A2	F153B_HUMAN	hypothetical protein LOC202134											ovary(1)	1	all_cancers(89;0.00406)|Renal(175;0.000269)|Lung NSC(126;0.0103)|all_lung(126;0.0164)	Medulloblastoma(196;0.0208)|all_neural(177;0.0416)|all_hematologic(541;0.214)	Kidney(164;3.85e-05)|KIRC - Kidney renal clear cell carcinoma(164;0.000183)	Kidney(146;0.0965)		CCTGCACTGCGTGGTGTGCAC	0.507													5	3	---	---	---	---	
HLA-C	3107	broad.mit.edu	37	6	31239153	31239154	+	Intron	INS	-	C	C			TCGA-EJ-5509-01A-01D-1576-08	TCGA-EJ-5509-10A-01D-1577-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:31239153_31239154insC	uc003nsy.2	-						HLA-C_uc011dnj.1_Intron|HLA-C_uc003nsx.2_5'UTR|HLA-C_uc003nsz.2_Intron|HLA-C_uc010jsl.2_Intron|HLA-C_uc003nta.2_Intron|HLA-C_uc003ntb.2_Intron|HLA-C_uc003ntc.1_Intron|HLA-B_uc010jsm.1_Intron|HLA-B_uc011dnk.1_Intron|HLA-C_uc011dnl.1_Intron|HLA-B_uc003ntf.2_Intron	NM_002117	NP_002108	Q9TNN7	1C05_HUMAN	major histocompatibility complex, class I, C						antigen processing and presentation of peptide antigen via MHC class I|interferon-gamma-mediated signaling pathway|interspecies interaction between organisms|regulation of immune response|type I interferon-mediated signaling pathway	integral to membrane|MHC class I protein complex					0						GTCAGCCCAGTCCCCCGAGCCC	0.703													9	7	---	---	---	---	
PKHD1	5314	broad.mit.edu	37	6	51923570	51923573	+	Intron	DEL	TCTA	-	-	rs66624918		TCGA-EJ-5509-01A-01D-1576-08	TCGA-EJ-5509-10A-01D-1577-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:51923570_51923573delTCTA	uc003pah.1	-						PKHD1_uc003pai.2_Intron	NM_138694	NP_619639	P08F94	PKHD1_HUMAN	fibrocystin isoform 1						cell-cell adhesion|cilium assembly|homeostatic process|kidney development|negative regulation of cellular component movement	anchored to external side of plasma membrane|apical plasma membrane|integral to membrane|microtubule basal body	protein binding|receptor activity			lung(15)|ovary(15)|large_intestine(5)|central_nervous_system(3)|skin(3)|breast(2)|upper_aerodigestive_tract(1)	44	Lung NSC(77;0.0605)					TCTCCAGCTCtctatctatctatc	0.333													3	3	---	---	---	---	
Unknown	0	broad.mit.edu	37	6	58778285	58778285	+	IGR	DEL	C	-	-			TCGA-EJ-5509-01A-01D-1576-08	TCGA-EJ-5509-10A-01D-1577-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:58778285delC								GUSBL2 (490561 upstream) : None (None downstream)																							atcttataaacccagacagaa	0.000													257	7	---	---	---	---	
Unknown	0	broad.mit.edu	37	7	61968770	61968770	+	IGR	DEL	G	-	-	rs61713499		TCGA-EJ-5509-01A-01D-1576-08	TCGA-EJ-5509-10A-01D-1577-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:61968770delG								None (None upstream) : LOC643955 (782902 downstream)																							ttgaaacactgtttttgcgga	0.000													210	7	---	---	---	---	
AUTS2	26053	broad.mit.edu	37	7	69805150	69805151	+	Intron	DEL	AC	-	-	rs71530000		TCGA-EJ-5509-01A-01D-1576-08	TCGA-EJ-5509-10A-01D-1577-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:69805150_69805151delAC	uc003tvw.3	+						AUTS2_uc003tvx.3_Intron	NM_015570	NP_056385	Q8WXX7	AUTS2_HUMAN	autism susceptibility candidate 2 isoform 1											ovary(2)|central_nervous_system(1)	3		all_cancers(73;0.0264)|all_epithelial(88;0.0198)|Lung NSC(55;0.0599)|all_lung(88;0.093)		LUSC - Lung squamous cell carcinoma(90;0.082)|Lung(90;0.186)		ATGGAGAGAAacacacacacac	0.218													4	2	---	---	---	---	
PMS2L11	441263	broad.mit.edu	37	7	76626961	76626962	+	Intron	INS	-	TG	TG	rs140820337		TCGA-EJ-5509-01A-01D-1576-08	TCGA-EJ-5509-10A-01D-1577-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:76626961_76626962insTG	uc003ufw.3	+						PMS2L11_uc011kgn.1_Intron	NR_023383				Homo sapiens cDNA FLJ59034 complete cds, moderately similar to Protein deltex-2.												0						ggaggtggggatgtggggtgtg	0.000													2	5	---	---	---	---	
MOGAT3	346606	broad.mit.edu	37	7	100843370	100843370	+	Intron	DEL	A	-	-			TCGA-EJ-5509-01A-01D-1576-08	TCGA-EJ-5509-10A-01D-1577-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:100843370delA	uc003uyc.2	-						MOGAT3_uc010lhr.2_Intron	NM_178176	NP_835470	Q86VF5	MOGT3_HUMAN	monoacylglycerol O-acyltransferase 3						glycerol metabolic process|lipid biosynthetic process	endoplasmic reticulum membrane|integral to membrane	2-acylglycerol O-acyltransferase activity|diacylglycerol O-acyltransferase activity			ovary(2)	2	Lung NSC(181;0.168)|all_lung(186;0.215)					gactcagtctaaaaaaaaaaa	0.274													50	13	---	---	---	---	
PRSS1	5644	broad.mit.edu	37	7	142460532	142460532	+	Intron	DEL	A	-	-			TCGA-EJ-5509-01A-01D-1576-08	TCGA-EJ-5509-10A-01D-1577-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:142460532delA	uc003wak.2	+						uc011krr.1_Intron|uc003vzp.2_Intron|uc011ksh.1_Intron|uc011ksi.1_Intron|uc003vzw.1_Intron|uc010loj.1_Intron|uc003wad.2_Intron|uc003wag.1_Intron|TRY6_uc011ksn.1_Intron|PRSS1_uc003wam.2_Intron	NM_002769	NP_002760	P07477	TRY1_HUMAN	protease, serine, 1 preproprotein						digestion|proteolysis	extracellular space	metal ion binding|protein binding|serine-type endopeptidase activity			large_intestine(1)|central_nervous_system(1)	2	Melanoma(164;0.047)	all_cancers(3;2.14e-49)|Acute lymphoblastic leukemia(3;7.3e-185)|all_hematologic(3;1.1e-165)	all cancers(2;0.000126)|Colorectal(2;0.000157)|Epithelial(2;0.000191)|COAD - Colon adenocarcinoma(2;0.00189)			TGCAGTGCCCACATGGAGAAG	0.567									Hereditary_Pancreatitis				43	12	---	---	---	---	
ASPH	444	broad.mit.edu	37	8	62437929	62437930	+	Intron	DEL	AT	-	-	rs71992492		TCGA-EJ-5509-01A-01D-1576-08	TCGA-EJ-5509-10A-01D-1577-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:62437929_62437930delAT	uc003xuj.2	-						ASPH_uc011leg.1_Intron	NM_004318	NP_004309	Q12797	ASPH_HUMAN	aspartate beta-hydroxylase isoform a						muscle contraction	integral to endoplasmic reticulum membrane	calcium ion binding|electron carrier activity|oxidoreductase activity, acting on single donors with incorporation of molecular oxygen, incorporation of two atoms of oxygen|peptide-aspartate beta-dioxygenase activity|structural constituent of muscle			ovary(3)	3	Lung SC(2;0.153)	Lung NSC(129;0.0358)|all_lung(136;0.0654)|all_epithelial(80;0.101)			L-Aspartic Acid(DB00128)|Succinic acid(DB00139)	acacacacacatacacacacGC	0.307													4	2	---	---	---	---	
ASPH	444	broad.mit.edu	37	8	62437930	62437931	+	Intron	INS	-	AC	AC	rs58731265		TCGA-EJ-5509-01A-01D-1576-08	TCGA-EJ-5509-10A-01D-1577-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:62437930_62437931insAC	uc003xuj.2	-						ASPH_uc011leg.1_Intron	NM_004318	NP_004309	Q12797	ASPH_HUMAN	aspartate beta-hydroxylase isoform a						muscle contraction	integral to endoplasmic reticulum membrane	calcium ion binding|electron carrier activity|oxidoreductase activity, acting on single donors with incorporation of molecular oxygen, incorporation of two atoms of oxygen|peptide-aspartate beta-dioxygenase activity|structural constituent of muscle			ovary(3)	3	Lung SC(2;0.153)	Lung NSC(129;0.0358)|all_lung(136;0.0654)|all_epithelial(80;0.101)			L-Aspartic Acid(DB00128)|Succinic acid(DB00139)	cacacacacatacacacacGCT	0.307													4	2	---	---	---	---	
PRSS3	5646	broad.mit.edu	37	9	33795418	33795423	+	Intron	DEL	GCCGAG	-	-			TCGA-EJ-5509-01A-01D-1576-08	TCGA-EJ-5509-10A-01D-1577-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr9:33795418_33795423delGCCGAG	uc003ztj.3	+						uc003ztk.1_Intron|PRSS3_uc003zti.3_Intron|PRSS3_uc003ztl.3_5'Flank	NM_007343	NP_031369	P35030	TRY3_HUMAN	mesotrypsin isoform 1 preproprotein						digestion|endothelial cell migration|zymogen activation	extracellular space	calcium ion binding|protein binding|serine-type endopeptidase activity|serine-type peptidase activity				0			LUSC - Lung squamous cell carcinoma(29;0.0176)			GCCAAACGTAGCCGAGCTGATGCAAG	0.529													8	5	---	---	---	---	
CBWD3	445571	broad.mit.edu	37	9	70871931	70871931	+	Intron	DEL	G	-	-			TCGA-EJ-5509-01A-01D-1576-08	TCGA-EJ-5509-10A-01D-1577-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr9:70871931delG	uc004agi.3	+						CBWD3_uc011lro.1_Intron|CBWD3_uc004agj.3_Intron|CBWD3_uc011lrp.1_Intron|CBWD3_uc004agl.3_Intron	NM_201453	NP_958861	Q5JTY5	CBWD3_HUMAN	COBW domain containing 3								ATP binding				0				all cancers(8;0.00136)|Epithelial(8;0.0288)|GBM - Glioblastoma multiforme(74;0.0402)|OV - Ovarian serous cystadenocarcinoma(323;0.18)		TATCTTTCTTGgttttttttt	0.174													4	3	---	---	---	---	
LAMC3	10319	broad.mit.edu	37	9	133967310	133967311	+	3'UTR	INS	-	CA	CA	rs139352027	by1000genomes	TCGA-EJ-5509-01A-01D-1576-08	TCGA-EJ-5509-10A-01D-1577-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr9:133967310_133967311insCA	uc004caa.1	+	28					LAMC3_uc010mze.1_3'UTR	NM_006059	NP_006050	Q9Y6N6	LAMC3_HUMAN	laminin, gamma 3 precursor						cell adhesion	basement membrane|membrane	structural molecule activity			ovary(2)|pancreas(1)	3	all_hematologic(7;0.0028)	Myeloproliferative disorder(178;0.204)		OV - Ovarian serous cystadenocarcinoma(145;5.06e-05)|Epithelial(140;0.000551)		GTGTGGATAGTCACTCCCTGCC	0.594													3	3	---	---	---	---	
SARDH	1757	broad.mit.edu	37	9	136561200	136561200	+	Intron	DEL	G	-	-	rs35905090		TCGA-EJ-5509-01A-01D-1576-08	TCGA-EJ-5509-10A-01D-1577-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr9:136561200delG	uc004cep.3	-						SARDH_uc004ceo.2_Intron|SARDH_uc011mdn.1_Intron|SARDH_uc011mdo.1_Intron|SARDH_uc004cen.2_Intron	NM_001134707	NP_001128179	Q9UL12	SARDH_HUMAN	sarcosine dehydrogenase precursor						glycine catabolic process	mitochondrial matrix	aminomethyltransferase activity|sarcosine dehydrogenase activity				0				OV - Ovarian serous cystadenocarcinoma(145;3.21e-07)|Epithelial(140;2.37e-06)|all cancers(34;2.75e-05)		GGGGCCGGACGGGGGGGAGCT	0.463													6	4	---	---	---	---	
NEBL	10529	broad.mit.edu	37	10	21117694	21117695	+	Intron	INS	-	AG	AG	rs139794801	by1000genomes	TCGA-EJ-5509-01A-01D-1576-08	TCGA-EJ-5509-10A-01D-1577-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:21117694_21117695insAG	uc001iqi.2	-						NEBL_uc001iqj.2_Intron|NEBL_uc001iqk.2_Intron|NEBL_uc001iql.1_Intron	NM_006393	NP_006384	O76041	NEBL_HUMAN	nebulette sarcomeric isoform						regulation of actin filament length		actin binding|structural constituent of muscle			ovary(2)	2						CTTACACTCCCagagagagaga	0.238													2	4	---	---	---	---	
Unknown	0	broad.mit.edu	37	10	42385707	42385722	+	IGR	DEL	AATGGAATCATCATTA	-	-	rs33914712		TCGA-EJ-5509-01A-01D-1576-08	TCGA-EJ-5509-10A-01D-1577-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:42385707_42385722delAATGGAATCATCATTA								None (None upstream) : LOC441666 (441593 downstream)																							aatggaatcgaatggaatcatcattaaatggaatca	0.042													70	14	---	---	---	---	
Unknown	0	broad.mit.edu	37	10	42392302	42392302	+	IGR	DEL	G	-	-	rs72505279		TCGA-EJ-5509-01A-01D-1576-08	TCGA-EJ-5509-10A-01D-1577-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:42392302delG								None (None upstream) : LOC441666 (435013 downstream)																							aacatcgaatggaatcgaatg	0.000													25	8	---	---	---	---	
SYT15	83849	broad.mit.edu	37	10	46968899	46968912	+	Intron	DEL	CACACACACACACA	-	-	rs72038340	by1000genomes	TCGA-EJ-5509-01A-01D-1576-08	TCGA-EJ-5509-10A-01D-1577-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:46968899_46968912delCACACACACACACA	uc001jea.2	-						SYT15_uc001jdz.2_Intron|SYT15_uc001jeb.2_Intron|SYT15_uc010qfp.1_5'Flank	NM_031912	NP_114118	Q9BQS2	SYT15_HUMAN	synaptotagmin XV isoform a							integral to membrane|plasma membrane					0						cacacacacgcacacacacacacacacacacaca	0.271													9	5	---	---	---	---	
PCDH15	65217	broad.mit.edu	37	10	57327604	57327605	+	Intron	INS	-	A	A			TCGA-EJ-5509-01A-01D-1576-08	TCGA-EJ-5509-10A-01D-1577-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:57327604_57327605insA	uc001jjv.1	-							NM_001142770	NP_001136242	Q96QU1	PCD15_HUMAN	protocadherin 15 isoform CD2-2 precursor						equilibrioception|homophilic cell adhesion|photoreceptor cell maintenance|sensory perception of sound	extracellular region|extracellular space|integral to membrane|photoreceptor outer segment|plasma membrane|stereocilium|synapse	calcium ion binding			pancreas(5)|ovary(4)|upper_aerodigestive_tract(2)|skin(2)	13		Melanoma(3;0.117)|Lung SC(717;0.238)				catcagacatgaaaaaaaaaac	0.000										HNSCC(58;0.16)			4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	10	102104600	102104601	+	IGR	INS	-	T	T			TCGA-EJ-5509-01A-01D-1576-08	TCGA-EJ-5509-10A-01D-1577-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:102104600_102104601insT								PKD2L1 (14357 upstream) : SCD (2171 downstream)																							AAAAATCACAAttttttttttt	0.163													8	4	---	---	---	---	
Unknown	0	broad.mit.edu	37	11	59066135	59066136	+	IGR	INS	-	GGAAGGAA	GGAAGGAA	rs36130299		TCGA-EJ-5509-01A-01D-1576-08	TCGA-EJ-5509-10A-01D-1577-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:59066135_59066136insGGAAGGAA								MPEG1 (85641 upstream) : OR5AN1 (65796 downstream)																							gatggacagatggaaggaagga	0.000													5	4	---	---	---	---	
TMPRSS4	56649	broad.mit.edu	37	11	117974091	117974092	+	Intron	INS	-	TTTGTTTGTTTG	TTTGTTTGTTTG	rs138588873	by1000genomes	TCGA-EJ-5509-01A-01D-1576-08	TCGA-EJ-5509-10A-01D-1577-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:117974091_117974092insTTTGTTTGTTTG	uc010rxo.1	+						TMPRSS4_uc010rxp.1_Intron|TMPRSS4_uc010rxq.1_Intron|TMPRSS4_uc010rxr.1_Intron|TMPRSS4_uc010rxs.1_Intron|TMPRSS4_uc009yzu.2_Intron|TMPRSS4_uc010rxt.1_Intron	NM_019894	NP_063947	Q9NRS4	TMPS4_HUMAN	transmembrane protease, serine 4 isoform 1						proteolysis	integral to membrane	scavenger receptor activity|serine-type endopeptidase activity			large_intestine(1)|central_nervous_system(1)	2	all_hematologic(175;0.0487)	Medulloblastoma(222;0.0431)|all_hematologic(192;0.164)|Breast(348;0.183)|all_neural(223;0.238)		BRCA - Breast invasive adenocarcinoma(274;4.16e-05)|Epithelial(105;0.00204)		GTATAAGGttctttgtttgttt	0.267													10	11	---	---	---	---	
MLL	4297	broad.mit.edu	37	11	118353037	118353038	+	Intron	INS	-	T	T			TCGA-EJ-5509-01A-01D-1576-08	TCGA-EJ-5509-10A-01D-1577-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:118353037_118353038insT	uc001pta.2	+						MLL_uc001ptb.2_Intron|MLL_uc001pte.1_Intron|MLL_uc009zab.1_Intron	NM_005933	NP_005924	Q03164	MLL1_HUMAN	myeloid/lymphoid or mixed-lineage leukemia						apoptosis|embryonic hemopoiesis|histone H4-K16 acetylation|positive regulation of transcription, DNA-dependent|protein complex assembly|transcription from RNA polymerase II promoter	MLL1 complex	AT DNA binding|histone acetyl-lysine binding|histone methyltransferase activity (H3-K4 specific)|protein homodimerization activity|sequence-specific DNA binding transcription factor activity|transcription regulatory region DNA binding|unmethylated CpG binding|zinc ion binding			lung(7)|ovary(5)|kidney(5)|central_nervous_system(3)|pancreas(2)|urinary_tract(1)|breast(1)|skin(1)	25	all_hematologic(175;0.046)	all_hematologic(192;1.13e-50)|all_neural(223;3.18e-06)|Breast(348;1.07e-05)|Medulloblastoma(222;0.0425)|Hepatocellular(160;0.244)		OV - Ovarian serous cystadenocarcinoma(223;2.77e-44)|BRCA - Breast invasive adenocarcinoma(274;1.2e-11)|Lung(307;3.48e-06)|LUSC - Lung squamous cell carcinoma(976;7.92e-05)|Colorectal(284;0.144)		AGTTTAAATAGTTTTTTTTTTT	0.292			T|O	MLL|MLLT1|MLLT2|MLLT3|MLLT4|MLLT7|MLLT10|MLLT6|ELL|EPS15|AF1Q|CREBBP|SH3GL1|FNBP1|PNUTL1|MSF|GPHN|GMPS|SSH3BP1|ARHGEF12|GAS7|FOXO3A|LAF4|LCX|SEPT6|LPP|CBFA2T1|GRAF|EP300|PICALM|HEAB	AML|ALL								6	3	---	---	---	---	
LARP4	113251	broad.mit.edu	37	12	50847266	50847267	+	Frame_Shift_Ins	INS	-	T	T			TCGA-EJ-5509-01A-01D-1576-08	TCGA-EJ-5509-10A-01D-1577-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:50847266_50847267insT	uc001rwp.1	+	9	972_973	c.828_829insT	c.(826-831)ACATTTfs	p.T276fs	LARP4_uc001rwo.1_Frame_Shift_Ins_p.T282fs|LARP4_uc001rwq.1_Intron|LARP4_uc001rwr.1_Frame_Shift_Ins_p.T276fs|LARP4_uc001rws.1_Frame_Shift_Ins_p.T275fs|LARP4_uc009zlr.1_Frame_Shift_Ins_p.T95fs|LARP4_uc001rwt.1_Intron|LARP4_uc001rwm.2_Frame_Shift_Ins_p.T276fs|LARP4_uc001rwn.2_Frame_Shift_Ins_p.T206fs	NM_052879	NP_443111	Q71RC2	LARP4_HUMAN	c-Mpl binding protein isoform a	276_277	RRM.						nucleotide binding|RNA binding			ovary(1)	1						CCATCAATACATTTTTTGCTAA	0.307													170	7	---	---	---	---	
RNFT2	84900	broad.mit.edu	37	12	117191713	117191713	+	Intron	DEL	C	-	-			TCGA-EJ-5509-01A-01D-1576-08	TCGA-EJ-5509-10A-01D-1577-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:117191713delC	uc009zwn.2	+						RNFT2_uc001twb.3_Intron|RNFT2_uc001twa.3_Intron	NM_001109903	NP_001103373	Q96EX2	RNFT2_HUMAN	transmembrane protein 118 isoform 1							integral to membrane	zinc ion binding				0	all_neural(191;0.117)|Medulloblastoma(191;0.163)			BRCA - Breast invasive adenocarcinoma(302;0.034)		TGTGCCTTTTCCCCCATGTTG	0.522													39	11	---	---	---	---	
Unknown	0	broad.mit.edu	37	13	87574502	87574503	+	IGR	DEL	GT	-	-			TCGA-EJ-5509-01A-01D-1576-08	TCGA-EJ-5509-10A-01D-1577-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr13:87574502_87574503delGT								None (None upstream) : SLITRK5 (750367 downstream)																							cgtaatgttcgtgtgtgtgtgt	0.000													3	3	---	---	---	---	
Unknown	0	broad.mit.edu	37	15	20148741	20148742	+	IGR	INS	-	T	T	rs141152913	by1000genomes	TCGA-EJ-5509-01A-01D-1576-08	TCGA-EJ-5509-10A-01D-1577-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr15:20148741_20148742insT								None (None upstream) : GOLGA6L6 (588352 downstream)																							GCCCCCACCCCGCCTCGGCTTT	0.653													6	3	---	---	---	---	
CNGB1	1258	broad.mit.edu	37	16	57983037	57983037	+	Intron	DEL	T	-	-	rs152141	by1000genomes	TCGA-EJ-5509-01A-01D-1576-08	TCGA-EJ-5509-10A-01D-1577-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr16:57983037delT	uc002emt.2	-						CNGB1_uc010cdh.2_Intron	NM_001297	NP_001288	Q14028	CNGB1_HUMAN	cyclic nucleotide gated channel beta 1 isoform						sensory perception of smell	intracellular cyclic nucleotide activated cation channel complex	cAMP binding|intracellular cAMP activated cation channel activity			breast(3)|pancreas(1)	4						ctagtgTGTGTGGGGGGGGAT	0.303													14	7	---	---	---	---	
SF3B3	23450	broad.mit.edu	37	16	70604237	70604237	+	Intron	DEL	T	-	-	rs145475451		TCGA-EJ-5509-01A-01D-1576-08	TCGA-EJ-5509-10A-01D-1577-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr16:70604237delT	uc002ezf.2	+							NM_012426	NP_036558	Q15393	SF3B3_HUMAN	splicing factor 3b, subunit 3						protein complex assembly	catalytic step 2 spliceosome|nucleoplasm|small nuclear ribonucleoprotein complex|U12-type spliceosomal complex	nucleic acid binding|protein binding			ovary(1)	1		Ovarian(137;0.0694)				GGCCATTTGGttttttttttt	0.214													9	4	---	---	---	---	
CDC27	996	broad.mit.edu	37	17	45219612	45219612	+	Frame_Shift_Del	DEL	A	-	-			TCGA-EJ-5509-01A-01D-1576-08	TCGA-EJ-5509-10A-01D-1577-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:45219612delA	uc002ild.3	-	11	1488	c.1361delT	c.(1360-1362)CTAfs	p.L454fs	CDC27_uc002ile.3_Frame_Shift_Del_p.L460fs|CDC27_uc002ilf.3_Frame_Shift_Del_p.L454fs|CDC27_uc010wkp.1_Frame_Shift_Del_p.L393fs|CDC27_uc010wkq.1_Intron	NM_001256	NP_001247	P30260	CDC27_HUMAN	cell division cycle protein 27 isoform 2	454					anaphase-promoting complex-dependent proteasomal ubiquitin-dependent protein catabolic process|cell proliferation|mitotic cell cycle spindle assembly checkpoint|mitotic metaphase/anaphase transition|negative regulation of ubiquitin-protein ligase activity involved in mitotic cell cycle|positive regulation of ubiquitin-protein ligase activity involved in mitotic cell cycle|protein K11-linked ubiquitination	anaphase-promoting complex|centrosome|cytosol|nucleoplasm|spindle microtubule	protein phosphatase binding			lung(2)|breast(2)|ovary(1)	5						TGCTTTTTGTAGATTAAAGGC	0.308													78	10	---	---	---	---	
RGS9	8787	broad.mit.edu	37	17	63186049	63186049	+	Intron	DEL	T	-	-	rs112552969		TCGA-EJ-5509-01A-01D-1576-08	TCGA-EJ-5509-10A-01D-1577-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:63186049delT	uc002jfe.2	+						RGS9_uc010dem.2_Intron|RGS9_uc002jfd.2_Intron|RGS9_uc002jff.2_Intron|RGS9_uc002jfg.2_Intron	NM_003835	NP_003826	O75916	RGS9_HUMAN	regulator of G-protein signaling 9 isoform 1						intracellular signal transduction|negative regulation of signal transduction|regulation of G-protein coupled receptor protein signaling pathway|visual perception	cytoplasm|heterotrimeric G-protein complex	GTPase activator activity|signal transducer activity			ovary(2)|skin(2)	4						TCCTTAGAACTTTTTTTTTTT	0.483													4	3	---	---	---	---	
KPNA2	3838	broad.mit.edu	37	17	66040631	66040634	+	Intron	DEL	CAAG	-	-			TCGA-EJ-5509-01A-01D-1576-08	TCGA-EJ-5509-10A-01D-1577-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:66040631_66040634delCAAG	uc002jgk.2	+						KPNA2_uc002jgl.2_Intron	NM_002266	NP_002257	P52292	IMA2_HUMAN	karyopherin alpha 2						DNA metabolic process|G2 phase of mitotic cell cycle|interspecies interaction between organisms|M phase specific microtubule process|NLS-bearing substrate import into nucleus|regulation of DNA recombination	cytoplasm|nuclear pore|nucleoplasm	histone deacetylase binding|nuclear localization sequence binding|protein transporter activity			central_nervous_system(2)	2	all_cancers(12;1.18e-09)		BRCA - Breast invasive adenocarcinoma(8;1.03e-07)|LUSC - Lung squamous cell carcinoma(166;0.24)			TAAGTCCTATCAAGGTGGCTTTGT	0.377													562	7	---	---	---	---	
Unknown	0	broad.mit.edu	37	17	75940475	75940476	+	IGR	DEL	CA	-	-	rs35882145		TCGA-EJ-5509-01A-01D-1576-08	TCGA-EJ-5509-10A-01D-1577-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:75940475_75940476delCA								FLJ45079 (60306 upstream) : TNRC6C (59842 downstream)																							Tacacacacgcacacacacaca	0.411													4	2	---	---	---	---	
CXCL17	284340	broad.mit.edu	37	19	42933186	42933187	+	Intron	INS	-	T	T			TCGA-EJ-5509-01A-01D-1576-08	TCGA-EJ-5509-10A-01D-1577-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:42933186_42933187insT	uc002otu.2	-						uc010eif.1_Intron|uc002ott.1_Intron|uc010eig.1_Intron|uc010eih.1_Intron|LIPE_uc002otr.2_5'Flank	NM_198477	NP_940879	Q6UXB2	VCC1_HUMAN	chemokine (C-X-C motif) ligand 17 precursor						angiogenesis|cell differentiation|chemotaxis	extracellular region					0		Prostate(69;0.00899)				TTTAACAtttcttttttttttg	0.223													114	9	---	---	---	---	
PHLDB3	653583	broad.mit.edu	37	19	43999307	43999308	+	Intron	INS	-	A	A	rs148094242	by1000genomes	TCGA-EJ-5509-01A-01D-1576-08	TCGA-EJ-5509-10A-01D-1577-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:43999307_43999308insA	uc002own.3	-						PHLDB3_uc010eit.2_Intron	NM_198850	NP_942147	Q6NSJ2	PHLB3_HUMAN	pleckstrin homology-like domain, family B,												0		Prostate(69;0.0153)				gagggaggaggggctagggcct	0.045													4	2	---	---	---	---	
NTN5	126147	broad.mit.edu	37	19	49173217	49173218	+	Intron	INS	-	CAT	CAT			TCGA-EJ-5509-01A-01D-1576-08	TCGA-EJ-5509-10A-01D-1577-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:49173217_49173218insCAT	uc002pkb.2	-						SEC1_uc010xzv.1_Intron|SEC1_uc002pka.2_Intron|SEC1_uc010xzw.1_Intron|SEC1_uc010ema.2_Intron|NTN5_uc002pkc.2_Intron	NM_145807	NP_665806	Q8WTR8	NET5_HUMAN	netrin 5 precursor							extracellular region				large_intestine(1)|pancreas(1)	2						accaccatcaccatcaccacca	0.000													4	2	---	---	---	---	
EPS8L1	54869	broad.mit.edu	37	19	55587649	55587649	+	Intron	DEL	G	-	-			TCGA-EJ-5509-01A-01D-1576-08	TCGA-EJ-5509-10A-01D-1577-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:55587649delG	uc002qis.3	+						EPS8L1_uc010ess.1_Intron|EPS8L1_uc010est.1_Intron|EPS8L1_uc010yfr.1_Intron|EPS8L1_uc010esu.1_5'Flank	NM_133180	NP_573441	Q8TE68	ES8L1_HUMAN	epidermal growth factor receptor pathway							cytoplasm					0			BRCA - Breast invasive adenocarcinoma(297;0.209)	GBM - Glioblastoma multiforme(193;0.044)		aggaggggctgggggcctgga	0.070													5	3	---	---	---	---	
MCM8	84515	broad.mit.edu	37	20	5975123	5975124	+	3'UTR	DEL	AG	-	-	rs11472210		TCGA-EJ-5509-01A-01D-1576-08	TCGA-EJ-5509-10A-01D-1577-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr20:5975123_5975124delAG	uc002wmi.2	+	19					MCM8_uc002wmj.2_3'UTR|MCM8_uc002wmk.2_3'UTR|MCM8_uc002wml.2_3'UTR|MCM8_uc010gbp.2_3'UTR|MCM8_uc002wmm.2_3'UTR	NM_032485	NP_115874	Q9UJA3	MCM8_HUMAN	minichromosome maintenance complex component 8						cell cycle checkpoint|DNA strand elongation involved in DNA replication|G1/S transition of mitotic cell cycle|M/G1 transition of mitotic cell cycle|regulation of transcription, DNA-dependent|S phase of mitotic cell cycle|transcription, DNA-dependent	nucleoplasm	ATP binding|DNA binding|nucleoside-triphosphatase activity			skin(1)	1						acagacagacagacacacacac	0.252													13	12	---	---	---	---	
