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	Tumor_Sample_UUID	Matched_Norm_Sample_UUID	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
VPS13D	55187	broad.mit.edu	37	1	12318100	12318100	+	Silent	SNP	A	G	G			TCGA-66-2742-01A-01D-0983-08	TCGA-66-2742-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	07047a99-45bd-4df6-ad6f-934a48e8e213	09de7b21-79a1-4b8c-a835-7f7a4481f4d5	g.chr1:12318100A>G	uc001atv.2	+	10	1191	c.1050A>G	c.(1048-1050)GTA>GTG	p.V350V	VPS13D_uc001atw.2_Silent_p.V350V	NM_015378	NP_056193	Q5THJ4	VP13D_HUMAN	vacuolar protein sorting 13D isoform 1	350					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)		GTGATGCTGTATCTTACACTG	0.428													39	36	---	---	---	---	PASS
LAPTM5	7805	broad.mit.edu	37	1	31212756	31212756	+	Missense_Mutation	SNP	A	G	G			TCGA-66-2742-01A-01D-0983-08	TCGA-66-2742-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	07047a99-45bd-4df6-ad6f-934a48e8e213	09de7b21-79a1-4b8c-a835-7f7a4481f4d5	g.chr1:31212756A>G	uc001bsc.2	-	4	378	c.287T>C	c.(286-288)CTG>CCG	p.L96P		NM_006762	NP_006753	Q13571	LAPM5_HUMAN	lysosomal protein transmembrane 5	96	Helical; (Potential).				transport	integral to plasma membrane|lysosomal membrane					0		Colorectal(325;0.0199)|Myeloproliferative disorder(586;0.0393)|all_neural(195;0.0966)|Medulloblastoma(700;0.151)|Ovarian(437;0.192)		STAD - Stomach adenocarcinoma(196;0.0196)|READ - Rectum adenocarcinoma(331;0.0649)		TTGCAGGGACAGGAAGGGCAG	0.607													8	13	---	---	---	---	PASS
ZSCAN20	7579	broad.mit.edu	37	1	33945088	33945088	+	Nonsense_Mutation	SNP	G	T	T			TCGA-66-2742-01A-01D-0983-08	TCGA-66-2742-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	07047a99-45bd-4df6-ad6f-934a48e8e213	09de7b21-79a1-4b8c-a835-7f7a4481f4d5	g.chr1:33945088G>T	uc001bxj.3	+	2	366	c.199G>T	c.(199-201)GAG>TAG	p.E67*	ZSCAN20_uc001bxk.2_Nonsense_Mutation_p.E67*|ZSCAN20_uc009vui.2_Nonsense_Mutation_p.E67*	NM_145238	NP_660281	P17040	ZSC20_HUMAN	zinc finger protein 31	67	SCAN box.				viral reproduction	mitochondrion|nucleus	DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(2)|central_nervous_system(1)|pancreas(1)	4		Myeloproliferative disorder(586;0.0255)|all_neural(195;0.211)				TGGACCCCACGAGGCCTTCAG	0.612													18	36	---	---	---	---	PASS
TNNI3K	51086	broad.mit.edu	37	1	74801765	74801765	+	Missense_Mutation	SNP	A	G	G			TCGA-66-2742-01A-01D-0983-08	TCGA-66-2742-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	07047a99-45bd-4df6-ad6f-934a48e8e213	09de7b21-79a1-4b8c-a835-7f7a4481f4d5	g.chr1:74801765A>G	uc001dgf.1	+	7	665	c.614A>G	c.(613-615)CAC>CGC	p.H205R	TNNI3K_uc001dgc.1_Missense_Mutation_p.H306R|TNNI3K_uc001dgd.2_Missense_Mutation_p.H306R|TNNI3K_uc001dge.1_Missense_Mutation_p.H306R	NM_015978	NP_057062	Q59H18	TNI3K_HUMAN	TNNI3 interacting kinase isoform b	205	ANK 5.					cytoplasm|nucleus	ATP binding|metal ion binding|protein C-terminus binding|protein serine/threonine kinase activity|troponin I binding			large_intestine(4)|lung(3)|ovary(2)|upper_aerodigestive_tract(1)	10						AGACCCCTCCACCTAGCATCT	0.358													17	31	---	---	---	---	PASS
EVI5	7813	broad.mit.edu	37	1	93160930	93160930	+	Silent	SNP	A	C	C			TCGA-66-2742-01A-01D-0983-08	TCGA-66-2742-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	07047a99-45bd-4df6-ad6f-934a48e8e213	09de7b21-79a1-4b8c-a835-7f7a4481f4d5	g.chr1:93160930A>C	uc001dox.2	-	7	988	c.978T>G	c.(976-978)ACT>ACG	p.T326T	EVI5_uc010otf.1_Silent_p.T326T|EVI5_uc001doy.1_5'Flank	NM_005665	NP_005656	O60447	EVI5_HUMAN	ecotropic viral integration site 5	326	Dimerization.|Interaction with alpha-tubulin, gamma- tubulin, BIRC5 and FBXO5.|Rab-GAP TBC.				cell cycle|cell division|cell proliferation|multicellular organismal development	microtubule organizing center|nucleus|spindle	protein binding|Rab GTPase activator activity			ovary(1)|breast(1)	2		all_lung(203;0.00146)|Lung NSC(277;0.00565)|all_neural(321;0.185)|Melanoma(281;0.193)|Glioma(108;0.203)		Epithelial(280;8.09e-25)|OV - Ovarian serous cystadenocarcinoma(397;1.27e-22)|all cancers(265;1.74e-21)|GBM - Glioblastoma multiforme(16;0.00233)|BRCA - Breast invasive adenocarcinoma(282;0.211)		TAAGAAAGATAGTCAGAAACC	0.373													23	66	---	---	---	---	PASS
CCDC18	343099	broad.mit.edu	37	1	93730454	93730454	+	Missense_Mutation	SNP	C	A	A			TCGA-66-2742-01A-01D-0983-08	TCGA-66-2742-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	07047a99-45bd-4df6-ad6f-934a48e8e213	09de7b21-79a1-4b8c-a835-7f7a4481f4d5	g.chr1:93730454C>A	uc001dpq.2	+	27	4403	c.4235C>A	c.(4234-4236)ACT>AAT	p.T1412N	CCDC18_uc001dpr.1_Missense_Mutation_p.T207N|uc001dps.2_Intron	NM_206886	NP_996769	Q5T9S5	CCD18_HUMAN	sarcoma antigen NY-SAR-41	1293	Potential.									ovary(2)|breast(2)|pancreas(1)	5		all_lung(203;0.00196)|Lung NSC(277;0.00903)|Melanoma(281;0.099)|all_neural(321;0.185)|Glioma(108;0.203)		all cancers(265;0.00166)|GBM - Glioblastoma multiforme(16;0.00551)|Epithelial(280;0.0967)		GCATTACTTACTAAAGTAAGT	0.303													6	32	---	---	---	---	PASS
ABCA4	24	broad.mit.edu	37	1	94473855	94473855	+	Splice_Site	SNP	T	C	C	rs61750637		TCGA-66-2742-01A-01D-0983-08	TCGA-66-2742-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	07047a99-45bd-4df6-ad6f-934a48e8e213	09de7b21-79a1-4b8c-a835-7f7a4481f4d5	g.chr1:94473855T>C	uc001dqh.2	-	42	5940	c.5836_splice	c.e42-1	p.I1946_splice	ABCA4_uc001dqi.1_Splice_Site_p.I65_splice	NM_000350	NP_000341	P78363	ABCA4_HUMAN	ATP-binding cassette, sub-family A member 4						phototransduction, visible light|visual perception	integral to plasma membrane|membrane fraction	ATP binding|ATPase activity, coupled to transmembrane movement of substances			ovary(4)|skin(4)|central_nervous_system(2)|upper_aerodigestive_tract(1)|breast(1)	12		all_lung(203;0.000757)|Lung NSC(277;0.00335)		all cancers(265;0.00432)|GBM - Glioblastoma multiforme(16;0.00715)|Epithelial(280;0.171)		TGGATAAATCTGCAAGATACG	0.542													9	25	---	---	---	---	PASS
PRPF38B	55119	broad.mit.edu	37	1	109242502	109242502	+	Missense_Mutation	SNP	A	T	T			TCGA-66-2742-01A-01D-0983-08	TCGA-66-2742-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	07047a99-45bd-4df6-ad6f-934a48e8e213	09de7b21-79a1-4b8c-a835-7f7a4481f4d5	g.chr1:109242502A>T	uc001dvv.3	+	6	1783	c.1501A>T	c.(1501-1503)AGT>TGT	p.S501C	PRPF38B_uc001dvw.3_Missense_Mutation_p.S390C|PRPF38B_uc010ouz.1_Missense_Mutation_p.S304C	NM_018061	NP_060531	Q5VTL8	PR38B_HUMAN	PRP38 pre-mRNA processing factor 38 (yeast)	501					mRNA processing|RNA splicing	spliceosomal complex					0		all_epithelial(167;0.000154)|all_lung(203;0.00026)|Lung NSC(277;0.000508)		Colorectal(144;0.0149)|Lung(183;0.0888)|COAD - Colon adenocarcinoma(174;0.113)|Epithelial(280;0.161)		TAGAAAGCGTAGTAGAAGCAA	0.408													47	187	---	---	---	---	PASS
CD101	9398	broad.mit.edu	37	1	117576499	117576499	+	Missense_Mutation	SNP	A	G	G			TCGA-66-2742-01A-01D-0983-08	TCGA-66-2742-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	07047a99-45bd-4df6-ad6f-934a48e8e213	09de7b21-79a1-4b8c-a835-7f7a4481f4d5	g.chr1:117576499A>G	uc010oxb.1	+	9	2900	c.2842A>G	c.(2842-2844)AGG>GGG	p.R948G	CD101_uc009whd.2_Missense_Mutation_p.R948G|CD101_uc010oxc.1_Missense_Mutation_p.R948G|CD101_uc010oxd.1_Missense_Mutation_p.R886G	NM_004258	NP_004249	Q93033	IGSF2_HUMAN	immunoglobulin superfamily, member 2 precursor	948	Extracellular (Potential).				cell surface receptor linked signaling pathway	integral to membrane|plasma membrane	hydrolase activity, acting on carbon-nitrogen (but not peptide) bonds, in cyclic amides			skin(2)|upper_aerodigestive_tract(1)|ovary(1)	4						GCTTCCTTCCAGGATCTGCTC	0.478													6	50	---	---	---	---	PASS
TTF2	8458	broad.mit.edu	37	1	117631571	117631571	+	Missense_Mutation	SNP	A	G	G			TCGA-66-2742-01A-01D-0983-08	TCGA-66-2742-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	07047a99-45bd-4df6-ad6f-934a48e8e213	09de7b21-79a1-4b8c-a835-7f7a4481f4d5	g.chr1:117631571A>G	uc001egy.2	+	13	2329	c.2309A>G	c.(2308-2310)CAA>CGA	p.Q770R		NM_003594	NP_003585	Q9UNY4	TTF2_HUMAN	transcription termination factor, RNA polymerase	770	Helicase ATP-binding.				mRNA processing|regulation of transcription, DNA-dependent|RNA splicing|termination of RNA polymerase II transcription	cytoplasm|spliceosomal complex|transcription elongation factor complex	ATP binding|ATP-dependent helicase activity|DNA binding|DNA-dependent ATPase activity|protein binding|zinc ion binding			ovary(1)	1	Lung SC(450;0.225)	all_cancers(81;4.23e-06)|all_epithelial(167;3.65e-07)|all_lung(203;2.81e-06)|Lung NSC(69;1.98e-05)		Lung(183;0.0553)|Colorectal(144;0.179)|LUSC - Lung squamous cell carcinoma(189;0.19)		ACCCCCATTCAAAACAACTTA	0.438													43	63	---	---	---	---	PASS
ITGA10	8515	broad.mit.edu	37	1	145537199	145537199	+	Silent	SNP	C	T	T			TCGA-66-2742-01A-01D-0983-08	TCGA-66-2742-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	07047a99-45bd-4df6-ad6f-934a48e8e213	09de7b21-79a1-4b8c-a835-7f7a4481f4d5	g.chr1:145537199C>T	uc001eoa.2	+	19	2446	c.2370C>T	c.(2368-2370)GGC>GGT	p.G790G	NBPF10_uc001emp.3_Intron|ITGA10_uc010oyv.1_Silent_p.G659G|ITGA10_uc009wiw.2_Silent_p.G647G|ITGA10_uc010oyw.1_Silent_p.G735G	NM_003637	NP_003628	O75578	ITA10_HUMAN	integrin, alpha 10 precursor	790	Extracellular (Potential).				cell-matrix adhesion|integrin-mediated signaling pathway	integrin complex	collagen binding|receptor activity			lung(2)|ovary(2)|kidney(2)|large_intestine(1)|skin(1)	8	all_hematologic(18;0.0187)|Acute lymphoblastic leukemia(18;0.0786)					AGGATTGTGGCCCTGACAATG	0.493													11	87	---	---	---	---	PASS
TPM3	7170	broad.mit.edu	37	1	154145418	154145418	+	Nonsense_Mutation	SNP	C	A	A			TCGA-66-2742-01A-01D-0983-08	TCGA-66-2742-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	07047a99-45bd-4df6-ad6f-934a48e8e213	09de7b21-79a1-4b8c-a835-7f7a4481f4d5	g.chr1:154145418C>A	uc001fec.1	-	5	647	c.532G>T	c.(532-534)GAA>TAA	p.E178*	TPM3_uc001fdx.1_5'Flank|TPM3_uc010pei.1_Nonsense_Mutation_p.E51*|TPM3_uc001fdy.1_Nonsense_Mutation_p.E141*|TPM3_uc001fdz.1_Nonsense_Mutation_p.E141*|TPM3_uc001fea.1_Nonsense_Mutation_p.E141*|TPM3_uc001feb.1_Nonsense_Mutation_p.E141*|TPM3_uc010pej.1_Nonsense_Mutation_p.E74*|TPM3_uc009wor.2_Intron|TPM3_uc001fed.1_Nonsense_Mutation_p.E141*	NM_152263	NP_689476	P06753	TPM3_HUMAN	tropomyosin 3 isoform 1	177	By similarity.				cellular component movement|muscle filament sliding|regulation of muscle contraction	cytosol|muscle thin filament tropomyosin|stress fiber	actin binding		TPM3/ALK(33)	haematopoietic_and_lymphoid_tissue(22)|soft_tissue(11)|skin(1)	34	all_lung(78;9.35e-31)|Lung NSC(65;1.33e-28)|Hepatocellular(266;0.0877)|Melanoma(130;0.128)					TCTGTGCGTTCCAAGTCTCCT	0.473			T	NTRK1|ALK	papillary thyroid|ALCL								38	131	---	---	---	---	PASS
CD5L	922	broad.mit.edu	37	1	157805945	157805945	+	Missense_Mutation	SNP	G	T	T			TCGA-66-2742-01A-01D-0983-08	TCGA-66-2742-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	07047a99-45bd-4df6-ad6f-934a48e8e213	09de7b21-79a1-4b8c-a835-7f7a4481f4d5	g.chr1:157805945G>T	uc001frk.3	-	3	199	c.56C>A	c.(55-57)GCG>GAG	p.A19E		NM_005894	NP_005885	O43866	CD5L_HUMAN	CD5 molecule-like precursor	19					apoptosis|cellular defense response	extracellular space|membrane	scavenger receptor activity			ovary(1)	1	all_hematologic(112;0.0378)		LUSC - Lung squamous cell carcinoma(543;0.24)			AGATGGAGACGCTGCAAAGAG	0.592													9	33	---	---	---	---	PASS
OR10T2	128360	broad.mit.edu	37	1	158368446	158368446	+	Missense_Mutation	SNP	C	G	G			TCGA-66-2742-01A-01D-0983-08	TCGA-66-2742-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	07047a99-45bd-4df6-ad6f-934a48e8e213	09de7b21-79a1-4b8c-a835-7f7a4481f4d5	g.chr1:158368446C>G	uc010pih.1	-	1	811	c.811G>C	c.(811-813)GAT>CAT	p.D271H		NM_001004475	NP_001004475	Q8NGX3	O10T2_HUMAN	olfactory receptor, family 10, subfamily T,	271	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(2)|central_nervous_system(1)	3	all_hematologic(112;0.0378)					ACCAACTGATCCTTGTCTGAG	0.473													15	46	---	---	---	---	PASS
DARC	2532	broad.mit.edu	37	1	159175948	159175948	+	Missense_Mutation	SNP	G	A	A			TCGA-66-2742-01A-01D-0983-08	TCGA-66-2742-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	07047a99-45bd-4df6-ad6f-934a48e8e213	09de7b21-79a1-4b8c-a835-7f7a4481f4d5	g.chr1:159175948G>A	uc001fto.2	+	2	959	c.719G>A	c.(718-720)GGC>GAC	p.G240D	DARC_uc001ftp.3_Missense_Mutation_p.G242D	NM_002036	NP_002027	Q16570	DUFFY_HUMAN	Duffy blood group antigen isoform b	240	Cytoplasmic (Potential).				defense response	integral to membrane|plasma membrane	C-C chemokine binding|chemokine receptor activity			ovary(1)|lung(1)	2	all_hematologic(112;0.0429)					ATGGGGCCAGGCCCCTGGATG	0.537													30	104	---	---	---	---	PASS
IGSF8	93185	broad.mit.edu	37	1	160062403	160062403	+	Silent	SNP	A	T	T			TCGA-66-2742-01A-01D-0983-08	TCGA-66-2742-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	07047a99-45bd-4df6-ad6f-934a48e8e213	09de7b21-79a1-4b8c-a835-7f7a4481f4d5	g.chr1:160062403A>T	uc001fva.2	-	5	1440	c.1395T>A	c.(1393-1395)TCT>TCA	p.S465S	IGSF8_uc001fuz.2_Silent_p.S465S|IGSF8_uc009wtf.2_Silent_p.S465S	NM_052868	NP_443100	Q969P0	IGSF8_HUMAN	immunoglobulin superfamily, member 8	465	Ig-like C2-type 4.|Extracellular (Potential).				cell proliferation|cellular component movement|nervous system development|single fertilization|skeletal muscle tissue development	integral to membrane	protein binding				0	all_cancers(52;1.11e-16)|all_hematologic(112;0.093)		BRCA - Breast invasive adenocarcinoma(70;0.111)|LUSC - Lung squamous cell carcinoma(543;0.246)			CACCCCGCACAGAGATGTTGC	0.662													22	7	---	---	---	---	PASS
SELP	6403	broad.mit.edu	37	1	169581631	169581631	+	Missense_Mutation	SNP	C	T	T			TCGA-66-2742-01A-01D-0983-08	TCGA-66-2742-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	07047a99-45bd-4df6-ad6f-934a48e8e213	09de7b21-79a1-4b8c-a835-7f7a4481f4d5	g.chr1:169581631C>T	uc001ggi.3	-	6	850	c.785G>A	c.(784-786)TGC>TAC	p.C262Y	SELP_uc001ggh.2_Missense_Mutation_p.C97Y|SELP_uc009wvr.2_Missense_Mutation_p.C262Y	NM_003005	NP_002996	P16109	LYAM3_HUMAN	selectin P precursor	262	Extracellular (Potential).|Sushi 2.				platelet activation|platelet degranulation|positive regulation of platelet activation	external side of plasma membrane|extracellular space|integral to plasma membrane|membrane fraction|platelet alpha granule membrane|platelet dense granule membrane|soluble fraction	fucose binding|glycosphingolipid binding|heparin binding|lipopolysaccharide binding|oligosaccharide binding|sialic acid binding			ovary(2)|skin(2)	4	all_hematologic(923;0.208)				Clopidogrel(DB00758)|Heparin(DB01109)|Tirofiban(DB00775)	CAGGGGTGGGCACTGGGCAGC	0.473													19	65	---	---	---	---	PASS
C1orf9	51430	broad.mit.edu	37	1	172520726	172520726	+	Missense_Mutation	SNP	A	G	G			TCGA-66-2742-01A-01D-0983-08	TCGA-66-2742-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	07047a99-45bd-4df6-ad6f-934a48e8e213	09de7b21-79a1-4b8c-a835-7f7a4481f4d5	g.chr1:172520726A>G	uc001giq.3	+	2	453	c.137A>G	c.(136-138)AAC>AGC	p.N46S	C1orf9_uc010pmm.1_Missense_Mutation_p.N46S|C1orf9_uc009wwd.2_Missense_Mutation_p.N46S|C1orf9_uc010pmn.1_Missense_Mutation_p.N46S|C1orf9_uc010pmo.1_RNA	NM_014283	NP_055098	Q9UBS9	OSPT_HUMAN	chromosome 1 open reading frame 9 protein	46					multicellular organismal development|ossification	integral to membrane|rough endoplasmic reticulum membrane				ovary(2)	2		Breast(1374;0.212)		Colorectal(1306;3.98e-05)|KIRC - Kidney renal clear cell carcinoma(1967;0.00544)		CAAGATGACAACTGCGCACTA	0.398													6	46	---	---	---	---	PASS
ASPM	259266	broad.mit.edu	37	1	197056045	197056045	+	Missense_Mutation	SNP	C	A	A			TCGA-66-2742-01A-01D-0983-08	TCGA-66-2742-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	07047a99-45bd-4df6-ad6f-934a48e8e213	09de7b21-79a1-4b8c-a835-7f7a4481f4d5	g.chr1:197056045C>A	uc001gtu.2	-	27	10476	c.10219G>T	c.(10219-10221)GCT>TCT	p.A3407S	ASPM_uc001gtv.2_Missense_Mutation_p.A1822S	NM_018136	NP_060606	Q8IZT6	ASPM_HUMAN	asp (abnormal spindle)-like, microcephaly	3407					mitosis	cytoplasm|nucleus	calmodulin binding			ovary(4)|central_nervous_system(2)	6						TGTTTATGAGCTGTAAGTTTG	0.318													7	25	---	---	---	---	PASS
ASPM	259266	broad.mit.edu	37	1	197056046	197056046	+	Silent	SNP	T	A	A			TCGA-66-2742-01A-01D-0983-08	TCGA-66-2742-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	07047a99-45bd-4df6-ad6f-934a48e8e213	09de7b21-79a1-4b8c-a835-7f7a4481f4d5	g.chr1:197056046T>A	uc001gtu.2	-	27	10475	c.10218A>T	c.(10216-10218)ACA>ACT	p.T3406T	ASPM_uc001gtv.2_Silent_p.T1821T	NM_018136	NP_060606	Q8IZT6	ASPM_HUMAN	asp (abnormal spindle)-like, microcephaly	3406					mitosis	cytoplasm|nucleus	calmodulin binding			ovary(4)|central_nervous_system(2)	6						GTTTATGAGCTGTAAGTTTGT	0.313													7	25	---	---	---	---	PASS
C1orf106	55765	broad.mit.edu	37	1	200869268	200869268	+	Missense_Mutation	SNP	A	G	G			TCGA-66-2742-01A-01D-0983-08	TCGA-66-2742-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	07047a99-45bd-4df6-ad6f-934a48e8e213	09de7b21-79a1-4b8c-a835-7f7a4481f4d5	g.chr1:200869268A>G	uc001gvo.2	+	4	502	c.472A>G	c.(472-474)AAA>GAA	p.K158E	C1orf106_uc010ppm.1_Missense_Mutation_p.K73E	NM_018265	NP_060735	Q3KP66	CA106_HUMAN	hypothetical protein LOC55765 isoform 1	158										skin(2)|ovary(1)	3						GTATCCCCTCAAACCAGGGGA	0.622													4	25	---	---	---	---	PASS
NFASC	23114	broad.mit.edu	37	1	204971757	204971757	+	Missense_Mutation	SNP	C	A	A			TCGA-66-2742-01A-01D-0983-08	TCGA-66-2742-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	07047a99-45bd-4df6-ad6f-934a48e8e213	09de7b21-79a1-4b8c-a835-7f7a4481f4d5	g.chr1:204971757C>A	uc001hbj.2	+	27	3498	c.3170C>A	c.(3169-3171)GCC>GAC	p.A1057D	NFASC_uc010pra.1_Intron|NFASC_uc001hbi.2_Intron|NFASC_uc010prb.1_Intron|NFASC_uc010prc.1_Intron|NFASC_uc001hbl.1_Intron|NFASC_uc001hbm.1_Missense_Mutation_p.A80D|NFASC_uc009xbh.1_Intron	NM_001005388	NP_001005388	O94856	NFASC_HUMAN	neurofascin isoform 1 precursor	1164	Extracellular (Potential).|Fibronectin type-III 5.				axon guidance|cell adhesion|myelination|peripheral nervous system development	integral to membrane|node of Ranvier|plasma membrane	protein binding			ovary(3)|breast(1)|central_nervous_system(1)|skin(1)	6	all_cancers(21;0.0375)|Breast(84;0.0437)|all_epithelial(62;0.171)|Prostate(682;0.19)		KIRC - Kidney renal clear cell carcinoma(13;0.0584)|Kidney(21;0.0934)|BRCA - Breast invasive adenocarcinoma(75;0.158)			CCAGTTAAGGCCCAGGCTCAG	0.547													4	18	---	---	---	---	PASS
NFASC	23114	broad.mit.edu	37	1	204971758	204971758	+	Silent	SNP	C	A	A			TCGA-66-2742-01A-01D-0983-08	TCGA-66-2742-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	07047a99-45bd-4df6-ad6f-934a48e8e213	09de7b21-79a1-4b8c-a835-7f7a4481f4d5	g.chr1:204971758C>A	uc001hbj.2	+	27	3499	c.3171C>A	c.(3169-3171)GCC>GCA	p.A1057A	NFASC_uc010pra.1_Intron|NFASC_uc001hbi.2_Intron|NFASC_uc010prb.1_Intron|NFASC_uc010prc.1_Intron|NFASC_uc001hbl.1_Intron|NFASC_uc001hbm.1_Silent_p.A80A|NFASC_uc009xbh.1_Intron	NM_001005388	NP_001005388	O94856	NFASC_HUMAN	neurofascin isoform 1 precursor	1164	Extracellular (Potential).|Fibronectin type-III 5.				axon guidance|cell adhesion|myelination|peripheral nervous system development	integral to membrane|node of Ranvier|plasma membrane	protein binding			ovary(3)|breast(1)|central_nervous_system(1)|skin(1)	6	all_cancers(21;0.0375)|Breast(84;0.0437)|all_epithelial(62;0.171)|Prostate(682;0.19)		KIRC - Kidney renal clear cell carcinoma(13;0.0584)|Kidney(21;0.0934)|BRCA - Breast invasive adenocarcinoma(75;0.158)			CAGTTAAGGCCCAGGCTCAGC	0.542													4	18	---	---	---	---	PASS
CR2	1380	broad.mit.edu	37	1	207641891	207641891	+	Silent	SNP	A	T	T			TCGA-66-2742-01A-01D-0983-08	TCGA-66-2742-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	07047a99-45bd-4df6-ad6f-934a48e8e213	09de7b21-79a1-4b8c-a835-7f7a4481f4d5	g.chr1:207641891A>T	uc001hfw.2	+	3	559	c.465A>T	c.(463-465)CCA>CCT	p.P155P	CR2_uc001hfv.2_Silent_p.P155P|CR2_uc009xch.2_Silent_p.P155P|CR2_uc009xci.1_5'Flank	NM_001877	NP_001868	P20023	CR2_HUMAN	complement component (3d/Epstein Barr virus)	155	Sushi 3.|Extracellular (Potential).				complement activation, classical pathway|innate immune response	integral to membrane|plasma membrane	complement receptor activity|protein homodimerization activity			upper_aerodigestive_tract(3)|skin(3)|urinary_tract(1)|ovary(1)	8						TCGAGTGTCCAGCACTTCCTA	0.398													10	38	---	---	---	---	PASS
KCNH1	3756	broad.mit.edu	37	1	210948803	210948803	+	Missense_Mutation	SNP	A	G	G			TCGA-66-2742-01A-01D-0983-08	TCGA-66-2742-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	07047a99-45bd-4df6-ad6f-934a48e8e213	09de7b21-79a1-4b8c-a835-7f7a4481f4d5	g.chr1:210948803A>G	uc001hib.2	-	10	2169	c.1999T>C	c.(1999-2001)TGT>CGT	p.C667R	KCNH1_uc001hic.2_Missense_Mutation_p.C640R	NM_172362	NP_758872	O95259	KCNH1_HUMAN	potassium voltage-gated channel, subfamily H,	667	Cytoplasmic (Potential).|cNMP.				myoblast fusion|regulation of transcription, DNA-dependent	voltage-gated potassium channel complex	calmodulin binding|delayed rectifier potassium channel activity|two-component sensor activity			ovary(4)|central_nervous_system(1)	5				OV - Ovarian serous cystadenocarcinoma(81;0.0109)|all cancers(67;0.141)|Epithelial(68;0.185)		TGCAGATCACAGTAGGTCAAG	0.517													11	49	---	---	---	---	PASS
GALNT2	2590	broad.mit.edu	37	1	230401027	230401027	+	Missense_Mutation	SNP	C	G	G			TCGA-66-2742-01A-01D-0983-08	TCGA-66-2742-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	07047a99-45bd-4df6-ad6f-934a48e8e213	09de7b21-79a1-4b8c-a835-7f7a4481f4d5	g.chr1:230401027C>G	uc010pwa.1	+	14	1426	c.1354C>G	c.(1354-1356)CAG>GAG	p.Q452E	GALNT2_uc010pvy.1_Missense_Mutation_p.Q414E|GALNT2_uc010pvz.1_RNA|GALNT2_uc001htu.2_Missense_Mutation_p.Q64E	NM_004481	NP_004472	Q10471	GALT2_HUMAN	polypeptide N-acetylgalactosaminyltransferase 2	452	Lumenal (Potential).|Ricin B-type lectin.				immunoglobulin biosynthetic process|protein O-linked glycosylation via serine|protein O-linked glycosylation via threonine	extracellular region|Golgi cisterna membrane|integral to Golgi membrane|perinuclear region of cytoplasm	manganese ion binding|polypeptide N-acetylgalactosaminyltransferase activity|sugar binding			ovary(2)	2	Breast(184;0.193)|Ovarian(103;0.249)	all_cancers(173;0.156)|Prostate(94;0.179)				GGCCTTGCAGCAGGGAACTAA	0.517													54	135	---	---	---	---	PASS
CAPN9	10753	broad.mit.edu	37	1	230914830	230914830	+	Missense_Mutation	SNP	G	T	T			TCGA-66-2742-01A-01D-0983-08	TCGA-66-2742-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	07047a99-45bd-4df6-ad6f-934a48e8e213	09de7b21-79a1-4b8c-a835-7f7a4481f4d5	g.chr1:230914830G>T	uc001htz.1	+	9	1178	c.1065G>T	c.(1063-1065)CAG>CAT	p.Q355H	CAPN9_uc009xfg.1_Missense_Mutation_p.Q292H|CAPN9_uc001hua.1_Missense_Mutation_p.Q329H	NM_006615	NP_006606	O14815	CAN9_HUMAN	calpain 9 isoform 1	355	Domain III.				digestion|proteolysis	intracellular	calcium ion binding|calcium-dependent cysteine-type endopeptidase activity			ovary(1)	1	Breast(184;0.0871)|Ovarian(103;0.183)	Prostate(94;0.167)				CGGTCCATCAGGGAAGCTGGG	0.587													11	24	---	---	---	---	PASS
CAPN9	10753	broad.mit.edu	37	1	230914831	230914831	+	Nonsense_Mutation	SNP	G	T	T			TCGA-66-2742-01A-01D-0983-08	TCGA-66-2742-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	07047a99-45bd-4df6-ad6f-934a48e8e213	09de7b21-79a1-4b8c-a835-7f7a4481f4d5	g.chr1:230914831G>T	uc001htz.1	+	9	1179	c.1066G>T	c.(1066-1068)GGA>TGA	p.G356*	CAPN9_uc009xfg.1_Nonsense_Mutation_p.G293*|CAPN9_uc001hua.1_Nonsense_Mutation_p.G330*	NM_006615	NP_006606	O14815	CAN9_HUMAN	calpain 9 isoform 1	356	Domain III.				digestion|proteolysis	intracellular	calcium ion binding|calcium-dependent cysteine-type endopeptidase activity			ovary(1)	1	Breast(184;0.0871)|Ovarian(103;0.183)	Prostate(94;0.167)				GGTCCATCAGGGAAGCTGGGT	0.592													10	24	---	---	---	---	PASS
LYST	1130	broad.mit.edu	37	1	235860456	235860456	+	Missense_Mutation	SNP	C	A	A			TCGA-66-2742-01A-01D-0983-08	TCGA-66-2742-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	07047a99-45bd-4df6-ad6f-934a48e8e213	09de7b21-79a1-4b8c-a835-7f7a4481f4d5	g.chr1:235860456C>A	uc001hxj.2	-	46	10666	c.10491G>T	c.(10489-10491)CAG>CAT	p.Q3497H	LYST_uc001hxi.2_Missense_Mutation_p.Q721H	NM_000081	NP_000072	Q99698	LYST_HUMAN	lysosomal trafficking regulator	3497					defense response to bacterium|defense response to protozoan|defense response to virus|endosome to lysosome transport via multivesicular body sorting pathway|leukocyte chemotaxis|mast cell secretory granule organization|melanosome organization|natural killer cell mediated cytotoxicity|protein transport	cytoplasm|microtubule cytoskeleton	protein binding			ovary(6)|breast(4)|central_nervous_system(2)	12	Ovarian(103;0.0634)|Breast(184;0.23)	all_cancers(173;0.00246)|Prostate(94;0.0771)|Acute lymphoblastic leukemia(190;0.228)	OV - Ovarian serous cystadenocarcinoma(106;0.000674)			TGGGCAGAGCCTGGAGAGAGC	0.478									Chediak-Higashi_syndrome				21	38	---	---	---	---	PASS
ERO1LB	56605	broad.mit.edu	37	1	236389765	236389765	+	Missense_Mutation	SNP	G	T	T			TCGA-66-2742-01A-01D-0983-08	TCGA-66-2742-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	07047a99-45bd-4df6-ad6f-934a48e8e213	09de7b21-79a1-4b8c-a835-7f7a4481f4d5	g.chr1:236389765G>T	uc001hxt.2	-	12	1112	c.856C>A	c.(856-858)CGC>AGC	p.R286S		NM_019891	NP_063944	Q86YB8	ERO1B_HUMAN	endoplasmic reticulum oxidoreductin 1-Lbeta	286		FAD (By similarity).			electron transport chain|protein thiol-disulfide exchange|transport	endoplasmic reticulum membrane	flavin adenine dinucleotide binding|oxidoreductase activity, acting on a sulfur group of donors, disulfide as acceptor|unfolded protein binding				0	Ovarian(103;0.0634)|Breast(184;0.247)	all_cancers(173;0.123)|Acute lymphoblastic leukemia(190;0.205)|Prostate(94;0.219)	OV - Ovarian serous cystadenocarcinoma(106;0.00162)			GGGTCAAAGCGGTGTTTGAAT	0.393													14	34	---	---	---	---	PASS
OR2T33	391195	broad.mit.edu	37	1	248436713	248436713	+	Missense_Mutation	SNP	C	T	T			TCGA-66-2742-01A-01D-0983-08	TCGA-66-2742-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	07047a99-45bd-4df6-ad6f-934a48e8e213	09de7b21-79a1-4b8c-a835-7f7a4481f4d5	g.chr1:248436713C>T	uc010pzi.1	-	1	404	c.404G>A	c.(403-405)AGC>AAC	p.S135N		NM_001004695	NP_001004695	Q8NG76	O2T33_HUMAN	olfactory receptor, family 2, subfamily T,	135	Cytoplasmic (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			large_intestine(1)|ovary(1)	2	all_cancers(71;0.000124)|all_epithelial(71;1.03e-05)|Breast(184;0.00909)|Ovarian(71;0.0377)|all_lung(81;0.127)|Lung NSC(105;0.136)		OV - Ovarian serous cystadenocarcinoma(106;0.0245)			CAGCTGCCAGCTCATGAGAGT	0.592													10	76	---	---	---	---	PASS
SNTG2	54221	broad.mit.edu	37	2	1204904	1204904	+	Missense_Mutation	SNP	C	T	T			TCGA-66-2742-01A-01D-0983-08	TCGA-66-2742-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	07047a99-45bd-4df6-ad6f-934a48e8e213	09de7b21-79a1-4b8c-a835-7f7a4481f4d5	g.chr2:1204904C>T	uc002qwq.2	+	9	835	c.707C>T	c.(706-708)ACG>ATG	p.T236M	SNTG2_uc010ewi.2_Missense_Mutation_p.T109M	NM_018968	NP_061841	Q9NY99	SNTG2_HUMAN	syntrophin, gamma 2	236					central nervous system development	cytoplasm|cytoskeleton|sarcolemma|syntrophin complex	actin binding|PDZ domain binding			ovary(1)|large_intestine(1)|breast(1)	3	Acute lymphoblastic leukemia(172;0.0627)|all_hematologic(175;0.0797)	all_cancers(51;0.00469)		all cancers(51;0.0178)|OV - Ovarian serous cystadenocarcinoma(76;0.07)|Epithelial(75;0.0864)|GBM - Glioblastoma multiforme(21;0.173)		AAAGCCGGAACGGAAAAATTA	0.542													8	122	---	---	---	---	PASS
PXDN	7837	broad.mit.edu	37	2	1652584	1652584	+	Missense_Mutation	SNP	G	T	T			TCGA-66-2742-01A-01D-0983-08	TCGA-66-2742-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	07047a99-45bd-4df6-ad6f-934a48e8e213	09de7b21-79a1-4b8c-a835-7f7a4481f4d5	g.chr2:1652584G>T	uc002qxa.2	-	17	3032	c.2968C>A	c.(2968-2970)CTG>ATG	p.L990M		NM_012293	NP_036425	Q92626	PXDN_HUMAN	peroxidasin precursor	990					extracellular matrix organization|hydrogen peroxide catabolic process|immune response	endoplasmic reticulum|extracellular space|proteinaceous extracellular matrix	extracellular matrix structural constituent|heme binding|interleukin-1 receptor antagonist activity|peroxidase activity			pancreas(6)|ovary(2)	8	Acute lymphoblastic leukemia(172;0.0627)|all_hematologic(175;0.0797)	all_cancers(51;0.0845)|Lung NSC(108;0.00641)|all_epithelial(98;0.00716)		all cancers(51;0.0492)|OV - Ovarian serous cystadenocarcinoma(76;0.0973)|Epithelial(75;0.17)|GBM - Glioblastoma multiforme(21;0.228)		CGGAACCACAGCGTGTGCATG	0.647													3	8	---	---	---	---	PASS
APOB	338	broad.mit.edu	37	2	21231683	21231683	+	Nonsense_Mutation	SNP	C	T	T			TCGA-66-2742-01A-01D-0983-08	TCGA-66-2742-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	07047a99-45bd-4df6-ad6f-934a48e8e213	09de7b21-79a1-4b8c-a835-7f7a4481f4d5	g.chr2:21231683C>T	uc002red.2	-	26	8185	c.8057G>A	c.(8056-8058)TGG>TAG	p.W2686*		NM_000384	NP_000375	P04114	APOB_HUMAN	apolipoprotein B precursor	2686					cholesterol homeostasis|cholesterol metabolic process|leukocyte migration|low-density lipoprotein particle clearance|low-density lipoprotein particle remodeling|platelet activation|positive regulation of cholesterol storage|positive regulation of macrophage derived foam cell differentiation|receptor-mediated endocytosis|response to virus	chylomicron remnant|clathrin-coated endocytic vesicle membrane|endoplasmic reticulum lumen|endoplasmic reticulum membrane|endosome lumen|endosome membrane|intermediate-density lipoprotein particle|low-density lipoprotein particle|mature chylomicron|microsome|plasma membrane|very-low-density lipoprotein particle	cholesterol transporter activity|enzyme binding|heparin binding|low-density lipoprotein particle receptor binding|phospholipid binding|protein heterodimerization activity			ovary(11)|skin(9)|central_nervous_system(3)|large_intestine(2)|upper_aerodigestive_tract(1)|pancreas(1)	27	Acute lymphoblastic leukemia(172;0.155)|all_hematologic(175;0.215)				Atorvastatin(DB01076)	TGGAACGGGCCACTGCAGCTC	0.443													19	92	---	---	---	---	PASS
MPV17	4358	broad.mit.edu	37	2	27535960	27535960	+	Silent	SNP	C	A	A			TCGA-66-2742-01A-01D-0983-08	TCGA-66-2742-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	07047a99-45bd-4df6-ad6f-934a48e8e213	09de7b21-79a1-4b8c-a835-7f7a4481f4d5	g.chr2:27535960C>A	uc002rjr.2	-	2	134	c.87G>T	c.(85-87)CTG>CTT	p.L29L	MPV17_uc002rjq.2_Silent_p.L29L|MPV17_uc002rjs.2_Silent_p.L29L|MPV17_uc002rjt.2_Intron	NM_002437	NP_002428	P39210	MPV17_HUMAN	Mpv17 protein	29	Helical; (Potential).				cellular response to reactive oxygen species|glomerular basement membrane development|homeostatic process|inner ear development|mitochondrial genome maintenance|regulation of reactive oxygen species metabolic process	integral to peroxisomal membrane|mitochondrial inner membrane					0	Acute lymphoblastic leukemia(172;0.155)|all_hematologic(175;0.215)					TAATGTCACCCAGGCCCATCA	0.602													21	34	---	---	---	---	PASS
ALK	238	broad.mit.edu	37	2	29917817	29917817	+	Missense_Mutation	SNP	C	T	T			TCGA-66-2742-01A-01D-0983-08	TCGA-66-2742-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	07047a99-45bd-4df6-ad6f-934a48e8e213	09de7b21-79a1-4b8c-a835-7f7a4481f4d5	g.chr2:29917817C>T	uc002rmy.2	-	3	1758	c.851G>A	c.(850-852)AGG>AAG	p.R284K		NM_004304	NP_004295	Q9UM73	ALK_HUMAN	anaplastic lymphoma kinase precursor	284	MAM 1.|Extracellular (Potential).				protein autophosphorylation|transmembrane receptor protein tyrosine kinase signaling pathway	integral to plasma membrane	ATP binding|protein binding|transmembrane receptor protein tyrosine kinase activity		NPM1/ALK(632)|EML4/ALK(246)|CLTC/ALK(44)|TPM3/ALK(33)|ATIC/ALK(24)|RANBP2/ALK(16)|TPM4/ALK(12)|TFG/ALK(7)|MSN/ALK(6)|CARS/ALK(5)|VCL/ALK(4)|KIF5B/ALK(4)|PPFIBP1/ALK(3)|SEC31A/ALK(3)|SQSTM1/ALK(2)	haematopoietic_and_lymphoid_tissue(726)|lung(262)|autonomic_ganglia(148)|soft_tissue(61)|breast(4)|kidney(4)|large_intestine(3)|skin(3)|ovary(3)|thyroid(2)|central_nervous_system(1)|pancreas(1)	1218	Acute lymphoblastic leukemia(172;0.155)				Adenosine triphosphate(DB00171)	GCTCTGGTTCCTGAGGTCATG	0.572			T|Mis|A	NPM1|TPM3|TFG|TPM4|ATIC|CLTC|MSN|ALO17|CARS|EML4	ALCL|NSCLC|Neuroblastoma	neuroblastoma			Neuroblastoma_Familial_Clustering_of|Congenital_Central_Hypoventilation_Syndrome				13	63	---	---	---	---	PASS
ZNF638	27332	broad.mit.edu	37	2	71654035	71654035	+	Missense_Mutation	SNP	G	A	A			TCGA-66-2742-01A-01D-0983-08	TCGA-66-2742-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	07047a99-45bd-4df6-ad6f-934a48e8e213	09de7b21-79a1-4b8c-a835-7f7a4481f4d5	g.chr2:71654035G>A	uc002shx.2	+	24	5355	c.5036G>A	c.(5035-5037)CGC>CAC	p.R1679H	ZNF638_uc002shy.2_Missense_Mutation_p.R1679H|ZNF638_uc002shz.2_Missense_Mutation_p.R1679H|ZNF638_uc002sia.2_Missense_Mutation_p.R1679H|ZNF638_uc002sib.1_3'UTR|ZNF638_uc010fed.2_Intron|ZNF638_uc002sic.2_Missense_Mutation_p.R776H|ZNF638_uc002sid.2_Missense_Mutation_p.R48H	NM_014497	NP_055312	Q14966	ZN638_HUMAN	zinc finger protein 638	1679					RNA splicing	cytoplasm|nuclear speck	double-stranded DNA binding|nucleotide binding|RNA binding|zinc ion binding			pancreas(2)|ovary(1)|skin(1)	4						AAACAGGAACGCTTGGTAACT	0.393													22	49	---	---	---	---	PASS
C2orf78	388960	broad.mit.edu	37	2	74043169	74043169	+	Silent	SNP	C	A	A			TCGA-66-2742-01A-01D-0983-08	TCGA-66-2742-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	07047a99-45bd-4df6-ad6f-934a48e8e213	09de7b21-79a1-4b8c-a835-7f7a4481f4d5	g.chr2:74043169C>A	uc002sjr.1	+	3	1940	c.1819C>A	c.(1819-1821)CGG>AGG	p.R607R		NM_001080474	NP_001073943	A6NCI8	CB078_HUMAN	hypothetical protein LOC388960	607	Lys-rich.									ovary(2)	2						CAATATGAAACGGAAGAAAAA	0.443													12	89	---	---	---	---	PASS
HK2	3099	broad.mit.edu	37	2	75101429	75101429	+	Missense_Mutation	SNP	G	T	T			TCGA-66-2742-01A-01D-0983-08	TCGA-66-2742-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	07047a99-45bd-4df6-ad6f-934a48e8e213	09de7b21-79a1-4b8c-a835-7f7a4481f4d5	g.chr2:75101429G>T	uc002snd.2	+	7	2654	c.728G>T	c.(727-729)CGC>CTC	p.R243L		NM_000189	NP_000180	P52789	HXK2_HUMAN	hexokinase 2	243	Regulatory.				apoptotic mitochondrial changes|glucose transport|glycolysis|transmembrane transport	cytosol|mitochondrial outer membrane	ATP binding|glucokinase activity			ovary(1)|lung(1)	2						GAAGAGATGCGCCACATCGAC	0.612													5	25	---	---	---	---	PASS
LRRTM1	347730	broad.mit.edu	37	2	80530229	80530229	+	Missense_Mutation	SNP	C	A	A			TCGA-66-2742-01A-01D-0983-08	TCGA-66-2742-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	07047a99-45bd-4df6-ad6f-934a48e8e213	09de7b21-79a1-4b8c-a835-7f7a4481f4d5	g.chr2:80530229C>A	uc002sok.1	-	2	986	c.716G>T	c.(715-717)TGC>TTC	p.C239F	CTNNA2_uc010yse.1_Intron|CTNNA2_uc010ysf.1_Intron|CTNNA2_uc010ysg.1_Intron|CTNNA2_uc010ysh.1_Intron|CTNNA2_uc010ysi.1_5'Flank|LRRTM1_uc002soj.3_RNA	NM_178839	NP_849161	Q86UE6	LRRT1_HUMAN	leucine rich repeat transmembrane neuronal 1	239	LRR 7.|Lumenal (Potential).					axon|endoplasmic reticulum membrane|growth cone|integral to membrane				ovary(3)|upper_aerodigestive_tract(1)|skin(1)	5						CCTCCGCAGGCAGAGCGAGTG	0.582										HNSCC(69;0.2)			14	67	---	---	---	---	PASS
CD8A	925	broad.mit.edu	37	2	87017709	87017709	+	Missense_Mutation	SNP	T	C	C			TCGA-66-2742-01A-01D-0983-08	TCGA-66-2742-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	07047a99-45bd-4df6-ad6f-934a48e8e213	09de7b21-79a1-4b8c-a835-7f7a4481f4d5	g.chr2:87017709T>C	uc002srt.2	-	2	1034	c.145A>G	c.(145-147)AAC>GAC	p.N49D	RMND5A_uc002srs.3_Intron|CD8A_uc002srv.2_Missense_Mutation_p.N49D|CD8A_uc010ytn.1_Missense_Mutation_p.N90D|CD8A_uc002sru.2_Missense_Mutation_p.N49D	NM_001768	NP_001759	P01732	CD8A_HUMAN	CD8 antigen alpha polypeptide isoform 1	49	Ig-like V-type.|Extracellular (Potential).				antigen processing and presentation|regulation of immune response|transmembrane receptor protein tyrosine kinase signaling pathway	extracellular region|integral to plasma membrane|T cell receptor complex	coreceptor activity|MHC class I protein binding			ovary(1)	1						GACGTCGGGTTGGACAGCAGC	0.682													6	42	---	---	---	---	PASS
TEKT4	150483	broad.mit.edu	37	2	95542358	95542358	+	Silent	SNP	A	G	G			TCGA-66-2742-01A-01D-0983-08	TCGA-66-2742-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	07047a99-45bd-4df6-ad6f-934a48e8e213	09de7b21-79a1-4b8c-a835-7f7a4481f4d5	g.chr2:95542358A>G	uc002stw.1	+	6	1245	c.1152A>G	c.(1150-1152)CTA>CTG	p.L384L	uc002stv.1_Intron|TEKT4_uc010fhr.1_RNA	NM_144705	NP_653306	Q8WW24	TEKT4_HUMAN	tektin 4	384	Potential.				cell projection organization|microtubule cytoskeleton organization	cilium axoneme|flagellar axoneme|microtubule				ovary(1)|breast(1)|skin(1)	3						AGAAGCTTCTAGAAGCGGAGC	0.602													9	16	---	---	---	---	PASS
CNTNAP5	129684	broad.mit.edu	37	2	125367414	125367414	+	Missense_Mutation	SNP	A	C	C			TCGA-66-2742-01A-01D-0983-08	TCGA-66-2742-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	07047a99-45bd-4df6-ad6f-934a48e8e213	09de7b21-79a1-4b8c-a835-7f7a4481f4d5	g.chr2:125367414A>C	uc002tno.2	+	12	2154	c.1790A>C	c.(1789-1791)CAG>CCG	p.Q597P	CNTNAP5_uc010flu.2_Missense_Mutation_p.Q598P	NM_130773	NP_570129	Q8WYK1	CNTP5_HUMAN	contactin associated protein-like 5 precursor	597	Extracellular (Potential).|Fibrinogen C-terminal.				cell adhesion|signal transduction	integral to membrane	receptor binding			ovary(10)	10				BRCA - Breast invasive adenocarcinoma(221;0.248)		TACAGGCACCAGGGGAATACA	0.532													20	46	---	---	---	---	PASS
YSK4	80122	broad.mit.edu	37	2	135744864	135744864	+	Silent	SNP	A	G	G			TCGA-66-2742-01A-01D-0983-08	TCGA-66-2742-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	07047a99-45bd-4df6-ad6f-934a48e8e213	09de7b21-79a1-4b8c-a835-7f7a4481f4d5	g.chr2:135744864A>G	uc002tue.1	-	7	1609	c.1578T>C	c.(1576-1578)AAT>AAC	p.N526N	YSK4_uc002tuf.1_Intron|YSK4_uc010fnc.1_Intron|YSK4_uc010fnd.1_Silent_p.N413N|YSK4_uc010zbg.1_Intron|YSK4_uc002tuh.3_Silent_p.N254N|YSK4_uc002tui.3_Silent_p.N543N	NM_025052	NP_079328	Q56UN5	YSK4_HUMAN	Yeast Sps1/Ste20-related kinase 4 isoform 1	526							ATP binding|protein serine/threonine kinase activity			stomach(2)|urinary_tract(1)|ovary(1)|breast(1)	5				BRCA - Breast invasive adenocarcinoma(221;0.112)		TATGCTTGTCATTTTCTTGGT	0.413													21	40	---	---	---	---	PASS
LY75	4065	broad.mit.edu	37	2	160755282	160755282	+	Missense_Mutation	SNP	C	A	A			TCGA-66-2742-01A-01D-0983-08	TCGA-66-2742-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	07047a99-45bd-4df6-ad6f-934a48e8e213	09de7b21-79a1-4b8c-a835-7f7a4481f4d5	g.chr2:160755282C>A	uc002ubc.3	-	2	452	c.383G>T	c.(382-384)GGA>GTA	p.G128V	LY75_uc002ubb.3_Missense_Mutation_p.G128V|LY75_uc010fos.2_Missense_Mutation_p.G128V|LY75_uc010fot.1_Missense_Mutation_p.G128V	NM_002349	NP_002340	O60449	LY75_HUMAN	lymphocyte antigen 75 precursor	128	Extracellular (Potential).|Ricin B-type lectin.				endocytosis|immune response|inflammatory response	integral to plasma membrane	receptor activity|sugar binding				0				COAD - Colon adenocarcinoma(177;0.132)		TGTGCCATGTCCATCCTTCAG	0.522													6	29	---	---	---	---	PASS
SLC4A10	57282	broad.mit.edu	37	2	162833288	162833288	+	Silent	SNP	C	A	A			TCGA-66-2742-01A-01D-0983-08	TCGA-66-2742-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	07047a99-45bd-4df6-ad6f-934a48e8e213	09de7b21-79a1-4b8c-a835-7f7a4481f4d5	g.chr2:162833288C>A	uc002ubx.3	+	25	3430	c.3246C>A	c.(3244-3246)ATC>ATA	p.I1082I	SLC4A10_uc002uby.3_Silent_p.I1052I|SLC4A10_uc010zcs.1_Silent_p.I1063I	NM_022058	NP_071341	Q6U841	S4A10_HUMAN	solute carrier family 4, sodium bicarbonate	1082	Cytoplasmic (Potential).				bicarbonate transport|chloride transport|sodium ion transport	integral to membrane|plasma membrane	inorganic anion exchanger activity|symporter activity			ovary(2)|lung(2)|pancreas(1)	5						CATCTGTGATCAATATATCTG	0.363													6	15	---	---	---	---	PASS
KBTBD10	10324	broad.mit.edu	37	2	170366615	170366615	+	Silent	SNP	G	A	A			TCGA-66-2742-01A-01D-0983-08	TCGA-66-2742-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	07047a99-45bd-4df6-ad6f-934a48e8e213	09de7b21-79a1-4b8c-a835-7f7a4481f4d5	g.chr2:170366615G>A	uc002ueu.1	+	1	404	c.327G>A	c.(325-327)TTG>TTA	p.L109L	KBTBD10_uc010zdh.1_Intron	NM_006063	NP_006054	O60662	KBTBA_HUMAN	kelch repeat and BTB (POZ) domain containing 10	109					striated muscle contraction	centrosome|nucleolus|plasma membrane|pseudopodium|ruffle					0						TTTTTGCATTGGCCAGCCGCT	0.413													13	64	---	---	---	---	PASS
TTN	7273	broad.mit.edu	37	2	179593012	179593012	+	Missense_Mutation	SNP	C	A	A			TCGA-66-2742-01A-01D-0983-08	TCGA-66-2742-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	07047a99-45bd-4df6-ad6f-934a48e8e213	09de7b21-79a1-4b8c-a835-7f7a4481f4d5	g.chr2:179593012C>A	uc010zfg.1	-	64	16031	c.15807G>T	c.(15805-15807)CAG>CAT	p.Q5269H	TTN_uc010zfh.1_Intron|TTN_uc010zfi.1_Intron|TTN_uc010zfj.1_Intron|TTN_uc002umz.1_Missense_Mutation_p.Q1930H	NM_133378	NP_596869	Q8WZ42	TITIN_HUMAN	titin isoform N2-A	6196							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)			CCTTAAACCACTGAGCACTAA	0.383													13	29	---	---	---	---	PASS
MOBKL3	25843	broad.mit.edu	37	2	198380840	198380840	+	Silent	SNP	G	C	C			TCGA-66-2742-01A-01D-0983-08	TCGA-66-2742-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	07047a99-45bd-4df6-ad6f-934a48e8e213	09de7b21-79a1-4b8c-a835-7f7a4481f4d5	g.chr2:198380840G>C	uc002uun.3	+	1	70	c.30G>C	c.(28-30)CTG>CTC	p.L10L	MOBKL3_uc002uum.3_Intron|MOBKL3_uc010fsn.2_Silent_p.L10L|MOBKL3_uc010fso.2_5'UTR|MOBKL3_uc010zgz.1_5'UTR	NM_015387	NP_056202	Q9Y3A3	MOBL3_HUMAN	Mps One Binder kinase activator-like 3 isoform	10					transport	Golgi cisterna membrane|perinuclear region of cytoplasm	metal ion binding|protein binding				0			Epithelial(96;0.225)			CGGCAGTGCTGAGGCGGAACA	0.687													3	3	---	---	---	---	PASS
SPATS2L	26010	broad.mit.edu	37	2	201337764	201337764	+	Missense_Mutation	SNP	G	T	T			TCGA-66-2742-01A-01D-0983-08	TCGA-66-2742-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	07047a99-45bd-4df6-ad6f-934a48e8e213	09de7b21-79a1-4b8c-a835-7f7a4481f4d5	g.chr2:201337764G>T	uc002uvn.3	+	12	1622	c.1270G>T	c.(1270-1272)GCC>TCC	p.A424S	SPATS2L_uc010fst.2_Missense_Mutation_p.A424S|SPATS2L_uc002uvo.3_Missense_Mutation_p.A364S|SPATS2L_uc002uvp.3_Missense_Mutation_p.A424S|SPATS2L_uc002uvq.3_Missense_Mutation_p.A355S|SPATS2L_uc002uvr.3_Missense_Mutation_p.A424S|SPATS2L_uc010zhc.1_Missense_Mutation_p.A454S	NM_015535	NP_056350	Q9NUQ6	SPS2L_HUMAN	SPATS2-like protein isoform a	424						cytoplasm|nucleolus				ovary(2)|pancreas(1)	3						GACCATGCCGGCCAACAAGCA	0.522													6	11	---	---	---	---	PASS
CFLAR	8837	broad.mit.edu	37	2	202005138	202005138	+	Silent	SNP	C	T	T			TCGA-66-2742-01A-01D-0983-08	TCGA-66-2742-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	07047a99-45bd-4df6-ad6f-934a48e8e213	09de7b21-79a1-4b8c-a835-7f7a4481f4d5	g.chr2:202005138C>T	uc002uxb.3	+	5	1034	c.582C>T	c.(580-582)CTC>CTT	p.L194L	CFLAR_uc002uwz.2_Silent_p.L194L|CFLAR_uc002uxa.3_Silent_p.L194L|CFLAR_uc010zhk.1_Silent_p.L98L|CFLAR_uc002uxc.3_Silent_p.L194L|CFLAR_uc010zhl.1_Silent_p.L98L|CFLAR_uc010fsw.1_RNA|CFLAR_uc002uxd.3_Silent_p.L194L|CFLAR_uc002uxe.2_Silent_p.L194L|CFLAR_uc002uxf.2_Silent_p.L194L|CFLAR_uc010fsy.2_RNA|CFLAR_uc010fsx.2_Silent_p.L194L|CFLAR_uc010zhm.1_Silent_p.L98L|CFLAR_uc010fsz.2_5'UTR|CFLAR_uc002uxg.2_5'UTR|uc002uxh.1_RNA	NM_003879	NP_003870	O15519	CFLAR_HUMAN	CASP8 and FADD-like apoptosis regulator isoform	194	Interaction with caspase-8 propeptide.|Interaction with FADD.|Interaction with caspase-3.|Not proteolytically processed and involved in apoptosis inhibition.|Interaction with TRAF1 and TRAF2.|Interaction with caspase-8.				anti-apoptosis|apoptosis|induction of apoptosis by extracellular signals|interspecies interaction between organisms|positive regulation of I-kappaB kinase/NF-kappaB cascade|proteolysis		cysteine-type endopeptidase activity|protein binding				0						AAAAGAGTCTCAAGGATCCTT	0.388													9	82	---	---	---	---	PASS
FN1	2335	broad.mit.edu	37	2	216289955	216289955	+	Missense_Mutation	SNP	G	T	T			TCGA-66-2742-01A-01D-0983-08	TCGA-66-2742-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	07047a99-45bd-4df6-ad6f-934a48e8e213	09de7b21-79a1-4b8c-a835-7f7a4481f4d5	g.chr2:216289955G>T	uc002vfa.2	-	7	1164	c.898C>A	c.(898-900)CCC>ACC	p.P300T	FN1_uc002vfb.2_Missense_Mutation_p.P300T|FN1_uc002vfc.2_Missense_Mutation_p.P300T|FN1_uc002vfd.2_Missense_Mutation_p.P300T|FN1_uc002vfe.2_Missense_Mutation_p.P300T|FN1_uc002vff.2_Missense_Mutation_p.P300T|FN1_uc002vfg.2_Missense_Mutation_p.P300T|FN1_uc002vfh.2_Missense_Mutation_p.P300T|FN1_uc002vfi.2_Missense_Mutation_p.P300T|FN1_uc002vfj.2_Missense_Mutation_p.P300T|FN1_uc002vfl.2_Missense_Mutation_p.P300T	NM_212482	NP_997647	P02751	FINC_HUMAN	fibronectin 1 isoform 1 preproprotein	300					acute-phase response|angiogenesis|leukocyte migration|peptide cross-linking|platelet activation|platelet degranulation|regulation of cell shape|substrate adhesion-dependent cell spreading	ER-Golgi intermediate compartment|fibrinogen complex|platelet alpha granule lumen|proteinaceous extracellular matrix	collagen binding|extracellular matrix structural constituent|heparin binding	p.P300S(1)		central_nervous_system(7)|large_intestine(2)|breast(2)|ovary(1)|pancreas(1)	13		Renal(323;0.127)		Epithelial(149;9.59e-07)|all cancers(144;0.000174)|LUSC - Lung squamous cell carcinoma(224;0.008)|Lung(261;0.00948)	Alteplase(DB00009)|Anistreplase(DB00029)|Reteplase(DB00015)|Tenecteplase(DB00031)	GGAGGCTGGGGGTGAGGCTGC	0.522													12	97	---	---	---	---	PASS
TMPPE	643853	broad.mit.edu	37	3	33134425	33134425	+	Silent	SNP	T	C	C			TCGA-66-2742-01A-01D-0983-08	TCGA-66-2742-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	07047a99-45bd-4df6-ad6f-934a48e8e213	09de7b21-79a1-4b8c-a835-7f7a4481f4d5	g.chr3:33134425T>C	uc003cfk.2	-	2	1454	c.1263A>G	c.(1261-1263)ACA>ACG	p.T421T	GLB1_uc003cfh.1_Intron|GLB1_uc003cfi.1_Intron|GLB1_uc003cfj.1_Intron|GLB1_uc011axk.1_Intron|TMPPE_uc011axl.1_Silent_p.T284T	NM_001039770	NP_001034859	Q6ZT21	TMPPE_HUMAN	transmembrane protein with	421						integral to membrane	metal ion binding				0						CATACACGAATGTAGCCTGGG	0.567													10	11	---	---	---	---	PASS
EXOG	9941	broad.mit.edu	37	3	38539221	38539221	+	Missense_Mutation	SNP	C	T	T			TCGA-66-2742-01A-01D-0983-08	TCGA-66-2742-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	07047a99-45bd-4df6-ad6f-934a48e8e213	09de7b21-79a1-4b8c-a835-7f7a4481f4d5	g.chr3:38539221C>T	uc003cih.2	+	2	361	c.265C>T	c.(265-267)CGG>TGG	p.R89W	EXOG_uc010hhg.2_Intron|EXOG_uc011ayq.1_Intron|EXOG_uc003cij.2_5'UTR|EXOG_uc010hhd.2_Intron|EXOG_uc010hhe.2_Intron|EXOG_uc003cik.2_5'UTR|EXOG_uc010hhf.2_5'UTR|EXOG_uc003cii.2_Intron	NM_005107	NP_005098	Q9Y2C4	EXOG_HUMAN	endo/exonuclease (5'-3'), endonuclease G-like	89						mitochondrial inner membrane	endonuclease activity|metal ion binding|nucleic acid binding				0						TCAGGCAAAGCGGGTGCCTAG	0.398													12	28	---	---	---	---	PASS
MON1A	84315	broad.mit.edu	37	3	49947570	49947570	+	Missense_Mutation	SNP	C	T	T			TCGA-66-2742-01A-01D-0983-08	TCGA-66-2742-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	07047a99-45bd-4df6-ad6f-934a48e8e213	09de7b21-79a1-4b8c-a835-7f7a4481f4d5	g.chr3:49947570C>T	uc003cxz.2	-	4	1778	c.1652G>A	c.(1651-1653)AGC>AAC	p.S551N	MON1A_uc003cya.2_Missense_Mutation_p.S389N|MON1A_uc003cyb.2_Missense_Mutation_p.S389N	NM_032355	NP_115731	Q86VX9	MON1A_HUMAN	MON1 homolog A isoform a	454							protein binding			ovary(2)	2				BRCA - Breast invasive adenocarcinoma(193;4.62e-05)|KIRC - Kidney renal clear cell carcinoma(197;0.00551)|Kidney(197;0.00621)		GAGTCCCGAGCTCTTTGACTT	0.612													18	57	---	---	---	---	PASS
OR5AC2	81050	broad.mit.edu	37	3	97806723	97806723	+	Missense_Mutation	SNP	G	A	A			TCGA-66-2742-01A-01D-0983-08	TCGA-66-2742-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	07047a99-45bd-4df6-ad6f-934a48e8e213	09de7b21-79a1-4b8c-a835-7f7a4481f4d5	g.chr3:97806723G>A	uc011bgs.1	+	1	707	c.707G>A	c.(706-708)AGA>AAA	p.R236K		NM_054106	NP_473447	Q9NZP5	O5AC2_HUMAN	olfactory receptor, family 5, subfamily AC,	236	Cytoplasmic (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			skin(1)	1						GAAAAGGGCAGAAGCAAAGCC	0.408													6	40	---	---	---	---	PASS
PHLDB2	90102	broad.mit.edu	37	3	111632221	111632221	+	Missense_Mutation	SNP	A	T	T			TCGA-66-2742-01A-01D-0983-08	TCGA-66-2742-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	07047a99-45bd-4df6-ad6f-934a48e8e213	09de7b21-79a1-4b8c-a835-7f7a4481f4d5	g.chr3:111632221A>T	uc010hqa.2	+	3	1802	c.1391A>T	c.(1390-1392)GAC>GTC	p.D464V	PHLDB2_uc003dyc.2_Missense_Mutation_p.D491V|PHLDB2_uc003dyd.2_Missense_Mutation_p.D464V|PHLDB2_uc003dyg.2_Missense_Mutation_p.D464V|PHLDB2_uc003dyh.2_Missense_Mutation_p.D464V|PHLDB2_uc003dyi.2_Missense_Mutation_p.D50V|PHLDB2_uc003dyf.3_Missense_Mutation_p.D464V	NM_001134438	NP_001127910	Q86SQ0	PHLB2_HUMAN	pleckstrin homology-like domain, family B,	464						cytoplasm|intermediate filament cytoskeleton|plasma membrane				ovary(4)|skin(2)	6						ACAAAGCCTGACAGTCGCTTA	0.517													66	81	---	---	---	---	PASS
CCDC14	64770	broad.mit.edu	37	3	123650002	123650002	+	Silent	SNP	C	A	A			TCGA-66-2742-01A-01D-0983-08	TCGA-66-2742-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	07047a99-45bd-4df6-ad6f-934a48e8e213	09de7b21-79a1-4b8c-a835-7f7a4481f4d5	g.chr3:123650002C>A	uc011bjx.1	-	12	1960	c.1869G>T	c.(1867-1869)GGG>GGT	p.G623G	CCDC14_uc003egv.3_Silent_p.G264G|CCDC14_uc003egx.3_Silent_p.G423G|CCDC14_uc010hrt.2_Silent_p.G582G|CCDC14_uc003egy.3_Silent_p.G423G|CCDC14_uc003egz.2_Silent_p.G423G	NM_022757	NP_073594	Q49A88	CCD14_HUMAN	coiled-coil domain containing 14	623						centrosome					0		Lung NSC(201;0.0371)|Prostate(884;0.0405)|Myeloproliferative disorder(1037;0.205)		Lung(219;0.00942)|GBM - Glioblastoma multiforme(114;0.159)		GTAATGTTATCCCCAATATCT	0.368													11	39	---	---	---	---	PASS
ASTE1	28990	broad.mit.edu	37	3	130743391	130743391	+	Missense_Mutation	SNP	G	A	A			TCGA-66-2742-01A-01D-0983-08	TCGA-66-2742-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	07047a99-45bd-4df6-ad6f-934a48e8e213	09de7b21-79a1-4b8c-a835-7f7a4481f4d5	g.chr3:130743391G>A	uc003env.1	-	3	1202	c.760C>T	c.(760-762)CAC>TAC	p.H254Y	NEK11_uc003enx.2_5'Flank|NEK11_uc003eny.2_5'Flank|NEK11_uc003eoa.2_5'Flank|NEK11_uc003enz.2_5'Flank|NEK11_uc010htn.2_5'Flank|NEK11_uc011blk.1_5'Flank|NEK11_uc011bll.1_5'Flank|NEK11_uc003enw.1_5'Flank|NEK11_uc011blm.1_5'Flank|ASTE1_uc010htm.1_Missense_Mutation_p.H254Y|ASTE1_uc011blj.1_RNA	NM_014065	NP_054784	Q2TB18	ASTE1_HUMAN	asteroid homolog 1	254					DNA repair		nuclease activity				0						AGGATTCGGTGGTGTCTCCTC	0.438													28	25	---	---	---	---	PASS
TFDP2	7029	broad.mit.edu	37	3	141697362	141697362	+	Silent	SNP	C	T	T			TCGA-66-2742-01A-01D-0983-08	TCGA-66-2742-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	07047a99-45bd-4df6-ad6f-934a48e8e213	09de7b21-79a1-4b8c-a835-7f7a4481f4d5	g.chr3:141697362C>T	uc003eun.3	-	7	898	c.519G>A	c.(517-519)TCG>TCA	p.S173S	TFDP2_uc003euk.3_Silent_p.S86S|TFDP2_uc010hur.2_Silent_p.S112S|TFDP2_uc003eul.3_Silent_p.S112S|TFDP2_uc011bnf.1_Silent_p.S76S|TFDP2_uc011bng.1_Silent_p.S37S|TFDP2_uc003eum.3_Silent_p.S112S	NM_006286	NP_006277	Q14188	TFDP2_HUMAN	transcription factor Dp-2 (E2F dimerization	173	Potential.				cell cycle	transcription factor complex	DNA binding|protein domain specific binding|sequence-specific DNA binding transcription factor activity|transcription cofactor activity|transcription factor binding			kidney(1)	1						ATTTACATACCGAATCAGCAG	0.383													12	151	---	---	---	---	PASS
ZIC4	84107	broad.mit.edu	37	3	147108988	147108988	+	Missense_Mutation	SNP	A	C	C			TCGA-66-2742-01A-01D-0983-08	TCGA-66-2742-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	07047a99-45bd-4df6-ad6f-934a48e8e213	09de7b21-79a1-4b8c-a835-7f7a4481f4d5	g.chr3:147108988A>C	uc003ewd.1	-	4	1007	c.734T>G	c.(733-735)TTC>TGC	p.F245C	ZIC4_uc003ewc.1_Missense_Mutation_p.F175C|ZIC4_uc011bno.1_Missense_Mutation_p.F295C	NM_032153	NP_115529	Q8N9L1	ZIC4_HUMAN	zinc finger protein of the cerebellum 4	245	C2H2-type 4.					nucleus	DNA binding|zinc ion binding			upper_aerodigestive_tract(1)|central_nervous_system(1)	2						GCTGTTGGCGAAGCGCCGCTC	0.617													35	19	---	---	---	---	PASS
CP	1356	broad.mit.edu	37	3	148917542	148917542	+	Silent	SNP	G	A	A	rs144537170	byFrequency	TCGA-66-2742-01A-01D-0983-08	TCGA-66-2742-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	07047a99-45bd-4df6-ad6f-934a48e8e213	09de7b21-79a1-4b8c-a835-7f7a4481f4d5	g.chr3:148917542G>A	uc003ewy.3	-	8	1711	c.1458C>T	c.(1456-1458)AAC>AAT	p.N486N	CP_uc011bnr.1_RNA|CP_uc003ewx.3_Silent_p.N267N|CP_uc003ewz.2_Silent_p.N486N|CP_uc010hvf.1_Silent_p.N212N	NM_000096	NP_000087	P00450	CERU_HUMAN	ceruloplasmin precursor	486	Plastocyanin-like 3.|F5/8 type A 2.				cellular iron ion homeostasis|copper ion transport|transmembrane transport	extracellular space	chaperone binding|ferroxidase activity			ovary(1)	1		Prostate(884;0.00217)|Hepatocellular(537;0.00826)|Myeloproliferative disorder(1037;0.0122)|all_neural(597;0.0189)|Melanoma(1037;0.152)	LUSC - Lung squamous cell carcinoma(72;0.0473)|Lung(72;0.0607)		Drotrecogin alfa(DB00055)	ATGTGCCCTCGTTGTTCTTAT	0.443													32	218	---	---	---	---	PASS
MED12L	116931	broad.mit.edu	37	3	151148142	151148142	+	Missense_Mutation	SNP	T	C	C			TCGA-66-2742-01A-01D-0983-08	TCGA-66-2742-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	07047a99-45bd-4df6-ad6f-934a48e8e213	09de7b21-79a1-4b8c-a835-7f7a4481f4d5	g.chr3:151148142T>C	uc003eyp.2	+	42	6397	c.6359T>C	c.(6358-6360)GTG>GCG	p.V2120A	MED12L_uc011bnz.1_Missense_Mutation_p.V1784A	NM_053002	NP_443728	Q86YW9	MD12L_HUMAN	mediator of RNA polymerase II transcription,	2120	Gln-rich.				regulation of transcription from RNA polymerase II promoter|transcription, DNA-dependent	mediator complex				ovary(4)|large_intestine(1)|central_nervous_system(1)|skin(1)	7			LUSC - Lung squamous cell carcinoma(72;0.0394)|Lung(72;0.0517)			GCCGCCTTGGTGCGGCAGCTC	0.537													7	65	---	---	---	---	PASS
MBNL1	4154	broad.mit.edu	37	3	152174130	152174130	+	Missense_Mutation	SNP	G	T	T			TCGA-66-2742-01A-01D-0983-08	TCGA-66-2742-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	07047a99-45bd-4df6-ad6f-934a48e8e213	09de7b21-79a1-4b8c-a835-7f7a4481f4d5	g.chr3:152174130G>T	uc003ezm.2	+	7	1879	c.1090G>T	c.(1090-1092)GCA>TCA	p.A364S	MBNL1_uc003ezh.2_Missense_Mutation_p.A358S|MBNL1_uc003ezi.2_Missense_Mutation_p.A346S|MBNL1_uc003ezj.2_Missense_Mutation_p.A319S|MBNL1_uc003ezl.2_Intron|MBNL1_uc003ezp.2_Silent_p.L294L|MBNL1_uc003ezn.2_Missense_Mutation_p.A290S|MBNL1_uc003ezo.2_Missense_Mutation_p.A278S|MBNL1_uc010hvp.2_Intron	NM_207293	NP_997176	Q9NR56	MBNL1_HUMAN	muscleblind-like 1 isoform c	364					embryonic limb morphogenesis|in utero embryonic development|myoblast differentiation|nervous system development	nucleus|stress granule	double-stranded RNA binding|protein binding|zinc ion binding			ovary(1)	1			LUSC - Lung squamous cell carcinoma(72;0.0394)|Lung(72;0.0813)			TCCCTTCGCTGCAACAGCCAC	0.428													17	103	---	---	---	---	PASS
LRRC31	79782	broad.mit.edu	37	3	169569470	169569470	+	Missense_Mutation	SNP	G	T	T			TCGA-66-2742-01A-01D-0983-08	TCGA-66-2742-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	07047a99-45bd-4df6-ad6f-934a48e8e213	09de7b21-79a1-4b8c-a835-7f7a4481f4d5	g.chr3:169569470G>T	uc003fgc.1	-	7	1173	c.1096C>A	c.(1096-1098)CCA>ACA	p.P366T	LRRC31_uc010hwp.1_Missense_Mutation_p.P310T	NM_024727	NP_079003	Q6UY01	LRC31_HUMAN	leucine rich repeat containing 31	366										ovary(2)|skin(1)	3	all_cancers(22;2.76e-22)|all_epithelial(15;4.73e-27)|all_lung(20;9.24e-17)|Lung NSC(18;3.85e-16)|Ovarian(172;0.000223)|Breast(254;0.197)		Lung(28;2.71e-13)|STAD - Stomach adenocarcinoma(35;0.00943)			TTCAATGCTGGTAAAAATCGG	0.403													28	97	---	---	---	---	PASS
GHSR	2693	broad.mit.edu	37	3	172165779	172165779	+	Missense_Mutation	SNP	T	A	A			TCGA-66-2742-01A-01D-0983-08	TCGA-66-2742-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	07047a99-45bd-4df6-ad6f-934a48e8e213	09de7b21-79a1-4b8c-a835-7f7a4481f4d5	g.chr3:172165779T>A	uc003fib.1	-	1	425	c.425A>T	c.(424-426)TAC>TTC	p.Y142F	GHSR_uc011bpv.1_Missense_Mutation_p.Y142F	NM_198407	NP_940799	Q92847	GHSR_HUMAN	growth hormone secretagogue receptor isoform 1a	142	Cytoplasmic (Potential).				actin polymerization or depolymerization|adult feeding behavior|decidualization|growth hormone secretion|hormone-mediated signaling pathway|negative regulation of inflammatory response|negative regulation of interleukin-1 beta production|negative regulation of interleukin-6 biosynthetic process|negative regulation of tumor necrosis factor biosynthetic process|positive regulation of appetite|positive regulation of multicellular organism growth	cell surface|integral to membrane|membrane raft|neuron projection|plasma membrane	growth hormone secretagogue receptor activity|growth hormone-releasing hormone receptor activity			lung(3)|ovary(1)|central_nervous_system(1)	5	Ovarian(172;0.00143)|Breast(254;0.197)		Lung(28;3.93e-15)|LUSC - Lung squamous cell carcinoma(14;1.48e-14)|STAD - Stomach adenocarcinoma(35;0.235)			GATGGCGAAGTAGCGCTCGAC	0.617													29	13	---	---	---	---	PASS
HTR3E	285242	broad.mit.edu	37	3	183823602	183823602	+	Missense_Mutation	SNP	C	A	A			TCGA-66-2742-01A-01D-0983-08	TCGA-66-2742-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	07047a99-45bd-4df6-ad6f-934a48e8e213	09de7b21-79a1-4b8c-a835-7f7a4481f4d5	g.chr3:183823602C>A	uc010hxq.2	+	7	1236	c.770C>A	c.(769-771)CCC>CAC	p.P257H	HTR3E_uc003fml.3_Missense_Mutation_p.P242H|HTR3E_uc003fmm.2_Missense_Mutation_p.P272H|HTR3E_uc010hxr.2_Missense_Mutation_p.P283H|HTR3E_uc003fmn.2_Missense_Mutation_p.P257H	NM_182589	NP_872395	A5X5Y0	5HT3E_HUMAN	5-hydroxytryptamine receptor 3 subunit E	257	Helical; Name=1; (Potential).					integral to membrane|plasma membrane|postsynaptic membrane	extracellular ligand-gated ion channel activity|receptor activity			ovary(1)|central_nervous_system(1)|skin(1)	3	all_cancers(143;1.46e-10)|Ovarian(172;0.0303)		Epithelial(37;7.06e-36)|OV - Ovarian serous cystadenocarcinoma(80;3.11e-22)			CTTCTCGTGCCCAGTGGCTTT	0.552													19	143	---	---	---	---	PASS
RTP2	344892	broad.mit.edu	37	3	187416621	187416621	+	Nonsense_Mutation	SNP	C	A	A			TCGA-66-2742-01A-01D-0983-08	TCGA-66-2742-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	07047a99-45bd-4df6-ad6f-934a48e8e213	09de7b21-79a1-4b8c-a835-7f7a4481f4d5	g.chr3:187416621C>A	uc003fro.1	-	2	772	c.343G>T	c.(343-345)GAG>TAG	p.E115*		NM_001004312	NP_001004312	Q5QGT7	RTP2_HUMAN	receptor transporting protein 2	115	Cytoplasmic (Potential).				protein insertion into membrane	cell surface|integral to membrane|plasma membrane	olfactory receptor binding				0	all_cancers(143;4.06e-12)|Ovarian(172;0.0418)		OV - Ovarian serous cystadenocarcinoma(80;1.76e-18)	GBM - Glioblastoma multiforme(93;0.0515)		ACCAGGCCCTCGATGTTCTCC	0.677													19	22	---	---	---	---	PASS
ATP13A5	344905	broad.mit.edu	37	3	193061839	193061839	+	Missense_Mutation	SNP	C	G	G			TCGA-66-2742-01A-01D-0983-08	TCGA-66-2742-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	07047a99-45bd-4df6-ad6f-934a48e8e213	09de7b21-79a1-4b8c-a835-7f7a4481f4d5	g.chr3:193061839C>G	uc011bsq.1	-	9	820	c.820G>C	c.(820-822)GAG>CAG	p.E274Q		NM_198505	NP_940907	Q4VNC0	AT135_HUMAN	ATPase type 13A5	274					ATP biosynthetic process|cation transport	integral to membrane	ATP binding|ATPase activity, coupled to transmembrane movement of ions, phosphorylative mechanism|metal ion binding			ovary(5)|skin(4)|large_intestine(2)	11	all_cancers(143;1.08e-08)|Ovarian(172;0.0386)		OV - Ovarian serous cystadenocarcinoma(49;5.56e-18)|LUSC - Lung squamous cell carcinoma(58;6.08e-06)|Lung(62;6.49e-06)	GBM - Glioblastoma multiforme(46;0.000307)		TCCAGCTCCTCCAAACCTACA	0.418													17	58	---	---	---	---	PASS
ZFYVE28	57732	broad.mit.edu	37	4	2343208	2343208	+	Silent	SNP	G	A	A	rs74965159		TCGA-66-2742-01A-01D-0983-08	TCGA-66-2742-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	07047a99-45bd-4df6-ad6f-934a48e8e213	09de7b21-79a1-4b8c-a835-7f7a4481f4d5	g.chr4:2343208G>A	uc003gex.1	-	3	634	c.315C>T	c.(313-315)GCC>GCT	p.A105A	ZFYVE28_uc011bvk.1_Silent_p.A35A|ZFYVE28_uc011bvl.1_Silent_p.A105A|ZFYVE28_uc003gey.3_Silent_p.A35A|ZFYVE28_uc003gez.2_Silent_p.A58A|ZFYVE28_uc003gew.1_5'Flank	NM_020972	NP_066023	Q9HCC9	LST2_HUMAN	zinc finger, FYVE domain containing 28	105					negative regulation of epidermal growth factor receptor activity	cytosol|early endosome membrane	metal ion binding|phosphatidylinositol-3-phosphate binding|protein binding			skin(2)|ovary(1)	3						CCGCTACCTCGGCACCGAACC	0.662													5	11	---	---	---	---	PASS
CPZ	8532	broad.mit.edu	37	4	8613866	8613866	+	Missense_Mutation	SNP	C	A	A			TCGA-66-2742-01A-01D-0983-08	TCGA-66-2742-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	07047a99-45bd-4df6-ad6f-934a48e8e213	09de7b21-79a1-4b8c-a835-7f7a4481f4d5	g.chr4:8613866C>A	uc003glm.2	+	8	1466	c.1340C>A	c.(1339-1341)GCG>GAG	p.A447E	CPZ_uc003gll.2_RNA|CPZ_uc003gln.2_Missense_Mutation_p.A310E|CPZ_uc003glo.2_Missense_Mutation_p.A436E|CPZ_uc003glp.2_RNA	NM_001014447	NP_001014447	Q66K79	CBPZ_HUMAN	carboxypeptidase Z isoform 1	447					proteolysis|Wnt receptor signaling pathway	proteinaceous extracellular matrix	metallocarboxypeptidase activity|zinc ion binding			ovary(2)|pancreas(1)	3						ATCAACGGGGCGGACTGGTAC	0.403													11	3	---	---	---	---	PASS
LPHN3	23284	broad.mit.edu	37	4	62801650	62801650	+	Missense_Mutation	SNP	T	A	A			TCGA-66-2742-01A-01D-0983-08	TCGA-66-2742-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	07047a99-45bd-4df6-ad6f-934a48e8e213	09de7b21-79a1-4b8c-a835-7f7a4481f4d5	g.chr4:62801650T>A	uc010ihh.2	+	12	2275	c.2102T>A	c.(2101-2103)GTT>GAT	p.V701D	LPHN3_uc003hcq.3_Missense_Mutation_p.V701D|LPHN3_uc003hct.2_Missense_Mutation_p.V94D	NM_015236	NP_056051	Q9HAR2	LPHN3_HUMAN	latrophilin 3 precursor	688	Extracellular (Potential).				neuropeptide signaling pathway	integral to membrane|plasma membrane	G-protein coupled receptor activity|sugar binding			lung(15)|ovary(1)|central_nervous_system(1)|pancreas(1)	18						GAATTGGAAGTTGCAAGACTG	0.363													3	4	---	---	---	---	PASS
AREG	374	broad.mit.edu	37	4	75312287	75312287	+	Missense_Mutation	SNP	A	G	G			TCGA-66-2742-01A-01D-0983-08	TCGA-66-2742-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	07047a99-45bd-4df6-ad6f-934a48e8e213	09de7b21-79a1-4b8c-a835-7f7a4481f4d5	g.chr4:75312287A>G	uc011cbl.1	+	2	308	c.98A>G	c.(97-99)TAC>TGC	p.Y33C		NM_001657	NP_001648	P15514	AREG_HUMAN	amphiregulin preproprotein	33					cell proliferation|cell-cell signaling|epidermal growth factor receptor signaling pathway|G-protein coupled receptor protein signaling pathway|positive regulation of DNA replication	cell surface|extracellular space|integral to membrane	cytokine activity|growth factor activity				0			Lung(101;0.196)			AATGACACCTACTCTGGGAAG	0.488													48	39	---	---	---	---	PASS
ANK2	287	broad.mit.edu	37	4	114163341	114163341	+	Silent	SNP	C	A	A	rs113692517	byFrequency	TCGA-66-2742-01A-01D-0983-08	TCGA-66-2742-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	07047a99-45bd-4df6-ad6f-934a48e8e213	09de7b21-79a1-4b8c-a835-7f7a4481f4d5	g.chr4:114163341C>A	uc003ibe.3	+	9	967	c.867C>A	c.(865-867)GGC>GGA	p.G289G	ANK2_uc003ibd.3_Silent_p.G268G|ANK2_uc003ibf.3_Silent_p.G289G|ANK2_uc003ibc.2_Silent_p.G265G|ANK2_uc011cgb.1_Silent_p.G304G	NM_001148	NP_001139	Q01484	ANK2_HUMAN	ankyrin 2 isoform 1	289	ANK 8.				axon guidance|signal transduction	apical plasma membrane|basolateral plasma membrane|cytoskeleton|cytosol|sarcomere	protein binding|protein binding			central_nervous_system(7)|ovary(3)|large_intestine(2)|breast(1)|skin(1)	14		Ovarian(17;0.0448)|Hepatocellular(203;0.218)		OV - Ovarian serous cystadenocarcinoma(123;4.92e-05)		TGGATCGAGGCGGTCAGATCG	0.428													26	26	---	---	---	---	PASS
DDX60L	91351	broad.mit.edu	37	4	169305933	169305933	+	Missense_Mutation	SNP	C	T	T			TCGA-66-2742-01A-01D-0983-08	TCGA-66-2742-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	07047a99-45bd-4df6-ad6f-934a48e8e213	09de7b21-79a1-4b8c-a835-7f7a4481f4d5	g.chr4:169305933C>T	uc003irq.3	-	30	4167	c.3946G>A	c.(3946-3948)GAC>AAC	p.D1316N		NM_001012967	NP_001012985	Q5H9U9	DDX6L_HUMAN	DEAD (Asp-Glu-Ala-Asp) box polypeptide 60-like	1316	Helicase C-terminal.						ATP binding|ATP-dependent helicase activity|RNA binding			ovary(1)	1		Prostate(90;0.00876)|Renal(120;0.0183)|all_neural(102;0.0837)|Melanoma(52;0.132)		GBM - Glioblastoma multiforme(119;0.175)		CCAAGCAGGTCTTGACCTCTT	0.423													11	19	---	---	---	---	PASS
ODZ3	55714	broad.mit.edu	37	4	183575036	183575036	+	Silent	SNP	T	C	C			TCGA-66-2742-01A-01D-0983-08	TCGA-66-2742-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	07047a99-45bd-4df6-ad6f-934a48e8e213	09de7b21-79a1-4b8c-a835-7f7a4481f4d5	g.chr4:183575036T>C	uc003ivd.1	+	5	1138	c.1101T>C	c.(1099-1101)TCT>TCC	p.S367S		NM_001080477	NP_001073946	Q9P273	TEN3_HUMAN	odz, odd Oz/ten-m homolog 3	367	Extracellular (Potential).				signal transduction	integral to membrane					0		all_lung(41;2.69e-14)|Lung NSC(41;1.92e-11)|Melanoma(52;1.74e-05)|Colorectal(36;0.0062)|Breast(14;0.00748)|all_hematologic(60;0.0162)|Renal(120;0.0246)|Hepatocellular(41;0.0268)|Prostate(90;0.0283)|all_neural(102;0.155)|Medulloblastoma(177;0.184)		all cancers(43;1.42e-24)|Epithelial(43;6.86e-23)|OV - Ovarian serous cystadenocarcinoma(60;2.16e-11)|Colorectal(24;9.75e-06)|STAD - Stomach adenocarcinoma(60;2.96e-05)|COAD - Colon adenocarcinoma(29;0.00103)|GBM - Glioblastoma multiforme(59;0.00462)|LUSC - Lung squamous cell carcinoma(40;0.0391)|READ - Rectum adenocarcinoma(43;0.0487)		CATTACCTTCTGGAGACAATG	0.368													12	17	---	---	---	---	PASS
SLC6A3	6531	broad.mit.edu	37	5	1420684	1420684	+	Silent	SNP	A	G	G			TCGA-66-2742-01A-01D-0983-08	TCGA-66-2742-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	07047a99-45bd-4df6-ad6f-934a48e8e213	09de7b21-79a1-4b8c-a835-7f7a4481f4d5	g.chr5:1420684A>G	uc003jck.2	-	6	1048	c.927T>C	c.(925-927)TCT>TCC	p.S309S		NM_001044	NP_001035	Q01959	SC6A3_HUMAN	solute carrier family 6 (neurotransmitter	309					cell death|neurotransmitter biosynthetic process	axon|cytoplasm|integral to plasma membrane|neuronal cell body				ovary(3)|breast(2)|pancreas(1)	6			OV - Ovarian serous cystadenocarcinoma(19;0.00928)|all cancers(22;0.0262)		Amphetamine(DB00182)|Benztropine(DB00245)|Bupropion(DB01156)|Chloroprocaine(DB01161)|Cocaine(DB00907)|Dextroamphetamine(DB01576)|Diethylpropion(DB00937)|Duloxetine(DB00476)|Fencamfamine(DB01463)|Mazindol(DB00579)|Methylphenidate(DB00422)|Modafinil(DB00745)|Phenmetrazine(DB00830)|Phentermine(DB00191)|Procaine(DB00721)	CTGTACTCACAGACGCCTCGC	0.592													29	117	---	---	---	---	PASS
PRLR	5618	broad.mit.edu	37	5	35065607	35065607	+	Nonsense_Mutation	SNP	C	A	A			TCGA-66-2742-01A-01D-0983-08	TCGA-66-2742-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	07047a99-45bd-4df6-ad6f-934a48e8e213	09de7b21-79a1-4b8c-a835-7f7a4481f4d5	g.chr5:35065607C>A	uc003jjm.2	-	10	1983	c.1453G>T	c.(1453-1455)GAG>TAG	p.E485*	PRLR_uc003jjg.1_Intron|PRLR_uc003jjh.1_Intron|PRLR_uc003jji.1_Intron|PRLR_uc003jjj.1_Intron|PRLR_uc003jjk.1_Intron|PRLR_uc003jjl.3_Nonsense_Mutation_p.E384*	NM_000949	NP_000940	P16471	PRLR_HUMAN	prolactin receptor precursor	485	Cytoplasmic (Potential).				activation of JAK2 kinase activity|activation of transmembrane receptor protein tyrosine kinase activity|anti-apoptosis|embryo implantation|lactation|steroid biosynthetic process|T cell activation	cell surface|extracellular region|integral to membrane	metal ion binding|ornithine decarboxylase activator activity|peptide hormone binding|prolactin receptor activity|protein homodimerization activity			ovary(2)|skin(1)	3	all_lung(31;3.83e-05)		COAD - Colon adenocarcinoma(61;0.174)|Colorectal(62;0.229)		Dromostanolone(DB00858)|Fluoxymesterone(DB01185)|Pegvisomant(DB00082)|Somatropin recombinant(DB00052)	TGGTCAGTCTCAGAATGGAAG	0.483													27	58	---	---	---	---	PASS
DAB2	1601	broad.mit.edu	37	5	39383066	39383066	+	Missense_Mutation	SNP	C	A	A			TCGA-66-2742-01A-01D-0983-08	TCGA-66-2742-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	07047a99-45bd-4df6-ad6f-934a48e8e213	09de7b21-79a1-4b8c-a835-7f7a4481f4d5	g.chr5:39383066C>A	uc003jlx.2	-	10	1526	c.995G>T	c.(994-996)AGT>ATT	p.S332I	DAB2_uc003jlw.2_Missense_Mutation_p.S311I	NM_001343	NP_001334	P98082	DAB2_HUMAN	disabled homolog 2	332					cell proliferation|negative regulation of canonical Wnt receptor signaling pathway|negative regulation of protein binding|negative regulation of transcription, DNA-dependent|positive regulation of proteasomal ubiquitin-dependent protein catabolic process|positive regulation of protein phosphorylation|positive regulation of transcription, DNA-dependent|positive regulation of Wnt receptor signaling pathway, planar cell polarity pathway	clathrin coated vesicle membrane|coated pit	protein C-terminus binding			kidney(2)|skin(1)	3	all_lung(31;0.000197)		Epithelial(62;0.137)			GGGCCCATTACTCAGCGGAGT	0.498													25	73	---	---	---	---	PASS
GPR98	84059	broad.mit.edu	37	5	90049535	90049535	+	Missense_Mutation	SNP	A	G	G			TCGA-66-2742-01A-01D-0983-08	TCGA-66-2742-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	07047a99-45bd-4df6-ad6f-934a48e8e213	09de7b21-79a1-4b8c-a835-7f7a4481f4d5	g.chr5:90049535A>G	uc003kju.2	+	54	11362	c.11266A>G	c.(11266-11268)ATT>GTT	p.I3756V	GPR98_uc003kjt.2_Missense_Mutation_p.I1462V|GPR98_uc003kjv.2_Missense_Mutation_p.I1356V	NM_032119	NP_115495	Q8WXG9	GPR98_HUMAN	G protein-coupled receptor 98 precursor	3756	Extracellular (Potential).				cell communication|cell-cell adhesion|maintenance of organ identity|neuropeptide signaling pathway|photoreceptor cell maintenance	cell surface|cytoplasm|integral to membrane|plasma membrane	calcium ion binding|G-protein coupled receptor activity			ovary(11)|central_nervous_system(3)|pancreas(2)	16		all_cancers(142;1.05e-09)|all_epithelial(76;1.81e-12)|all_lung(232;5.41e-06)|Lung NSC(167;1.72e-05)|Ovarian(174;0.00948)|Colorectal(57;0.133)|Breast(839;0.192)		OV - Ovarian serous cystadenocarcinoma(54;7.01e-30)|Epithelial(54;6.79e-25)|all cancers(79;1.88e-20)		AGGTGCTACTATTGATCAGGA	0.453													21	24	---	---	---	---	PASS
FBN2	2201	broad.mit.edu	37	5	127648412	127648412	+	Missense_Mutation	SNP	C	T	T			TCGA-66-2742-01A-01D-0983-08	TCGA-66-2742-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	07047a99-45bd-4df6-ad6f-934a48e8e213	09de7b21-79a1-4b8c-a835-7f7a4481f4d5	g.chr5:127648412C>T	uc003kuu.2	-	37	5232	c.4793G>A	c.(4792-4794)GGG>GAG	p.G1598E		NM_001999	NP_001990	P35556	FBN2_HUMAN	fibrillin 2 precursor	1598	TB 6.				bone trabecula formation|negative regulation of transforming growth factor beta receptor signaling pathway by extracellular sequestering of TGFbeta|positive regulation of bone mineralization|positive regulation of osteoblast differentiation	microfibril	calcium ion binding|extracellular matrix structural constituent			ovary(8)|large_intestine(4)|pancreas(1)|kidney(1)|skin(1)	15		all_cancers(142;0.0216)|Prostate(80;0.0551)	KIRC - Kidney renal clear cell carcinoma(527;0.0268)|Kidney(363;0.0488)	OV - Ovarian serous cystadenocarcinoma(64;0.0821)|Epithelial(69;0.146)		GACGCCCACCCCGATCTCGGT	0.552													105	149	---	---	---	---	PASS
KDM3B	51780	broad.mit.edu	37	5	137727932	137727932	+	Silent	SNP	C	A	A			TCGA-66-2742-01A-01D-0983-08	TCGA-66-2742-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	07047a99-45bd-4df6-ad6f-934a48e8e213	09de7b21-79a1-4b8c-a835-7f7a4481f4d5	g.chr5:137727932C>A	uc003lcy.1	+	8	2811	c.2611C>A	c.(2611-2613)CGG>AGG	p.R871R	KDM3B_uc010jew.1_Silent_p.R527R|KDM3B_uc011cys.1_Intron	NM_016604	NP_057688	Q7LBC6	KDM3B_HUMAN	jumonji domain containing 1B	871					chromatin modification|regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	metal ion binding|oxidoreductase activity, acting on single donors with incorporation of molecular oxygen, incorporation of two atoms of oxygen			ovary(3)|upper_aerodigestive_tract(2)|lung(2)|kidney(2)|central_nervous_system(1)|skin(1)	11						GGGCCGGCCTCGGACTGCCCC	0.612													3	21	---	---	---	---	PASS
PCDHA6	56142	broad.mit.edu	37	5	140209961	140209961	+	Missense_Mutation	SNP	A	T	T			TCGA-66-2742-01A-01D-0983-08	TCGA-66-2742-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	07047a99-45bd-4df6-ad6f-934a48e8e213	09de7b21-79a1-4b8c-a835-7f7a4481f4d5	g.chr5:140209961A>T	uc003lho.2	+	1	2312	c.2285A>T	c.(2284-2286)GAG>GTG	p.E762V	PCDHA1_uc003lha.2_Intron|PCDHA1_uc003lhb.2_Intron|PCDHA2_uc003lhd.2_Intron|PCDHA3_uc003lhf.2_Intron|PCDHA4_uc003lhi.2_Intron|PCDHA4_uc003lhh.1_Intron|PCDHA5_uc003lhk.1_Intron|PCDHA5_uc003lhl.2_Intron|PCDHA6_uc003lhn.2_Intron|PCDHA6_uc011dab.1_Missense_Mutation_p.E762V	NM_018909	NP_061732	Q9UN73	PCDA6_HUMAN	protocadherin alpha 6 isoform 1 precursor	762	Cytoplasmic (Potential).				homophilic cell adhesion|nervous system development	extracellular region|integral to plasma membrane	calcium ion binding|protein binding			haematopoietic_and_lymphoid_tissue(1)|skin(1)	2			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			TGCTCCGGGGAGGGCCCACCC	0.597													6	35	---	---	---	---	PASS
PCDHGA4	56111	broad.mit.edu	37	5	140736606	140736606	+	Missense_Mutation	SNP	G	T	T			TCGA-66-2742-01A-01D-0983-08	TCGA-66-2742-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	07047a99-45bd-4df6-ad6f-934a48e8e213	09de7b21-79a1-4b8c-a835-7f7a4481f4d5	g.chr5:140736606G>T	uc003ljq.1	+	1	1839	c.1839G>T	c.(1837-1839)GAG>GAT	p.E613D	PCDHGA1_uc003lji.1_Intron|PCDHGA2_uc003ljk.1_Intron|PCDHGA3_uc003ljm.1_Intron|PCDHGA3_uc010jfx.1_Intron|PCDHGB1_uc003ljo.1_Intron|PCDHGA4_uc003ljp.1_Missense_Mutation_p.E613D	NM_018917	NP_061740	Q9Y5G9	PCDG4_HUMAN	protocadherin gamma subfamily A, 4 isoform 1	613	Extracellular (Potential).|Cadherin 6.				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding				0			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			AGTCCAGCGAGCCGGGACTAT	0.622													21	26	---	---	---	---	PASS
KIAA0141	9812	broad.mit.edu	37	5	141316862	141316862	+	Missense_Mutation	SNP	G	T	T	rs137962377		TCGA-66-2742-01A-01D-0983-08	TCGA-66-2742-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	07047a99-45bd-4df6-ad6f-934a48e8e213	09de7b21-79a1-4b8c-a835-7f7a4481f4d5	g.chr5:141316862G>T	uc003lls.2	+	11	1371	c.1249G>T	c.(1249-1251)GCT>TCT	p.A417S	KIAA0141_uc003llt.2_Missense_Mutation_p.A417S|KIAA0141_uc003llu.1_RNA	NM_001142603	NP_001136075	Q14154	DELE_HUMAN	hypothetical protein LOC9812 precursor	417	TPR 6.				apoptosis|regulation of caspase activity	mitochondrion	protein binding			skin(1)	1		all_hematologic(541;0.118)	KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			GCAGTCAGCCGCTCTGGGAAA	0.567													26	51	---	---	---	---	PASS
KIAA0319	9856	broad.mit.edu	37	6	24596213	24596213	+	Missense_Mutation	SNP	G	T	T			TCGA-66-2742-01A-01D-0983-08	TCGA-66-2742-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	07047a99-45bd-4df6-ad6f-934a48e8e213	09de7b21-79a1-4b8c-a835-7f7a4481f4d5	g.chr6:24596213G>T	uc011djo.1	-	3	926	c.689C>A	c.(688-690)CCT>CAT	p.P230H	KIAA0319_uc011djp.1_Missense_Mutation_p.P185H|KIAA0319_uc003neh.1_Missense_Mutation_p.P230H|KIAA0319_uc011djq.1_Missense_Mutation_p.P221H|KIAA0319_uc011djr.1_Missense_Mutation_p.P230H	NM_014809	NP_055624	Q5VV43	K0319_HUMAN	KIAA0319 precursor	230	Extracellular (Potential).				negative regulation of dendrite development|neuron migration	early endosome membrane|integral to membrane|plasma membrane	protein binding			ovary(1)|skin(1)	2						ACTTCTCTCAGGGAGTTTTGG	0.552													27	27	---	---	---	---	PASS
ZNF76	7629	broad.mit.edu	37	6	35260412	35260412	+	Missense_Mutation	SNP	T	C	C			TCGA-66-2742-01A-01D-0983-08	TCGA-66-2742-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	07047a99-45bd-4df6-ad6f-934a48e8e213	09de7b21-79a1-4b8c-a835-7f7a4481f4d5	g.chr6:35260412T>C	uc003oki.1	+	10	1218	c.1013T>C	c.(1012-1014)GTG>GCG	p.V338A	ZNF76_uc011dsz.1_Missense_Mutation_p.V338A|ZNF76_uc003okj.1_Missense_Mutation_p.V338A	NM_003427	NP_003418	P36508	ZNF76_HUMAN	zinc finger protein 76 (expressed in testis)	338	C2H2-type 6.				regulation of transcription from RNA polymerase II promoter|regulation of transcription from RNA polymerase III promoter|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0						CACCACGTGGTGCACACACAC	0.617													25	23	---	---	---	---	PASS
FGD2	221472	broad.mit.edu	37	6	36981871	36981871	+	Missense_Mutation	SNP	C	G	G			TCGA-66-2742-01A-01D-0983-08	TCGA-66-2742-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	07047a99-45bd-4df6-ad6f-934a48e8e213	09de7b21-79a1-4b8c-a835-7f7a4481f4d5	g.chr6:36981871C>G	uc010jwp.1	+	6	989	c.818C>G	c.(817-819)GCC>GGC	p.A273G	FGD2_uc003ong.2_5'UTR|FGD2_uc011dtv.1_5'UTR|FGD2_uc003oni.1_Missense_Mutation_p.A79G	NM_173558	NP_775829	Q7Z6J4	FGD2_HUMAN	FYVE, RhoGEF and PH domain containing 2	273	DH.				actin cytoskeleton organization|apoptosis|filopodium assembly|induction of apoptosis by extracellular signals|nerve growth factor receptor signaling pathway|regulation of Cdc42 GTPase activity|regulation of cell shape|small GTPase mediated signal transduction	cytoskeleton|cytosol|early endosome membrane|Golgi apparatus|lamellipodium|nucleus|ruffle membrane	metal ion binding|Rho guanyl-nucleotide exchange factor activity|small GTPase binding			upper_aerodigestive_tract(1)|lung(1)|pancreas(1)	3						CAGGCCGATGCCCAGAGTGAG	0.577													21	14	---	---	---	---	PASS
PKHD1	5314	broad.mit.edu	37	6	51618098	51618098	+	Missense_Mutation	SNP	C	T	T			TCGA-66-2742-01A-01D-0983-08	TCGA-66-2742-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	07047a99-45bd-4df6-ad6f-934a48e8e213	09de7b21-79a1-4b8c-a835-7f7a4481f4d5	g.chr6:51618098C>T	uc003pah.1	-	57	9127	c.8851G>A	c.(8851-8853)GGA>AGA	p.G2951R	PKHD1_uc010jzn.1_Missense_Mutation_p.G934R|PKHD1_uc003pai.2_Missense_Mutation_p.G2951R	NM_138694	NP_619639	P08F94	PKHD1_HUMAN	fibrocystin isoform 1	2951	Extracellular (Potential).				cell-cell adhesion|cilium assembly|homeostatic process|kidney development|negative regulation of cellular component movement	anchored to external side of plasma membrane|apical plasma membrane|integral to membrane|microtubule basal body	protein binding|receptor activity			lung(15)|ovary(15)|large_intestine(5)|central_nervous_system(3)|skin(3)|breast(2)|upper_aerodigestive_tract(1)	44	Lung NSC(77;0.0605)					GTCAACAGTCCAACCTCAGCA	0.468													15	22	---	---	---	---	PASS
KLHL32	114792	broad.mit.edu	37	6	97424046	97424046	+	Missense_Mutation	SNP	A	G	G			TCGA-66-2742-01A-01D-0983-08	TCGA-66-2742-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	07047a99-45bd-4df6-ad6f-934a48e8e213	09de7b21-79a1-4b8c-a835-7f7a4481f4d5	g.chr6:97424046A>G	uc010kcm.1	+	3	669	c.197A>G	c.(196-198)TAT>TGT	p.Y66C	KLHL32_uc003poy.2_Missense_Mutation_p.Y66C|KLHL32_uc011ead.1_Missense_Mutation_p.Y66C|KLHL32_uc003poz.2_5'UTR|KLHL32_uc011eae.1_Missense_Mutation_p.Y66C	NM_052904	NP_443136	Q96NJ5	KLH32_HUMAN	kelch-like 32	66	BTB.									ovary(3)|skin(1)	4		all_cancers(76;1.19e-06)|Acute lymphoblastic leukemia(125;5.83e-10)|all_hematologic(75;3.67e-07)|all_epithelial(107;0.00778)|Colorectal(196;0.122)		BRCA - Breast invasive adenocarcinoma(108;0.0558)		TGCAGTGACTATTTCCGGGTA	0.448													6	43	---	---	---	---	PASS
CDC40	51362	broad.mit.edu	37	6	110540601	110540601	+	Silent	SNP	A	T	T			TCGA-66-2742-01A-01D-0983-08	TCGA-66-2742-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	07047a99-45bd-4df6-ad6f-934a48e8e213	09de7b21-79a1-4b8c-a835-7f7a4481f4d5	g.chr6:110540601A>T	uc003pua.2	+	11	1149	c.1125A>T	c.(1123-1125)GTA>GTT	p.V375V		NM_015891	NP_056975	O60508	PRP17_HUMAN	cell division cycle 40 homolog	375	WD 3.				mRNA 3'-end processing|mRNA export from nucleus|termination of RNA polymerase II transcription	catalytic step 2 spliceosome|nucleoplasm					0		all_cancers(87;6.23e-06)|Acute lymphoblastic leukemia(125;2.66e-08)|all_hematologic(75;1.13e-06)|all_epithelial(87;0.00159)|Colorectal(196;0.0488)		Epithelial(106;0.0221)|all cancers(137;0.0314)|OV - Ovarian serous cystadenocarcinoma(136;0.034)		ACCGAAAAGTACCTTATTGTG	0.323													21	17	---	---	---	---	PASS
DSE	29940	broad.mit.edu	37	6	116747880	116747880	+	Missense_Mutation	SNP	A	G	G			TCGA-66-2742-01A-01D-0983-08	TCGA-66-2742-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	07047a99-45bd-4df6-ad6f-934a48e8e213	09de7b21-79a1-4b8c-a835-7f7a4481f4d5	g.chr6:116747880A>G	uc003pws.2	+	3	754	c.560A>G	c.(559-561)TAT>TGT	p.Y187C	DSE_uc011ebf.1_Missense_Mutation_p.Y187C|DSE_uc011ebg.1_Missense_Mutation_p.Y206C|DSE_uc003pwt.2_Missense_Mutation_p.Y187C	NM_001080976	NP_001074445	Q9UL01	DSE_HUMAN	dermatan sulfate epimerase precursor	187					dermatan sulfate biosynthetic process	endoplasmic reticulum|Golgi apparatus|integral to membrane	chondroitin-glucuronate 5-epimerase activity			ovary(1)	1		all_cancers(87;0.00019)|all_epithelial(87;0.000416)|Ovarian(999;0.133)|Colorectal(196;0.234)		Epithelial(106;0.00915)|OV - Ovarian serous cystadenocarcinoma(136;0.0149)|GBM - Glioblastoma multiforme(226;0.0189)|all cancers(137;0.0262)		GCCTCAGGGTATATGTATGAA	0.463													21	26	---	---	---	---	PASS
LAMA2	3908	broad.mit.edu	37	6	129649434	129649434	+	Silent	SNP	G	T	T			TCGA-66-2742-01A-01D-0983-08	TCGA-66-2742-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	07047a99-45bd-4df6-ad6f-934a48e8e213	09de7b21-79a1-4b8c-a835-7f7a4481f4d5	g.chr6:129649434G>T	uc003qbn.2	+	29	4293	c.4188G>T	c.(4186-4188)CCG>CCT	p.P1396P	LAMA2_uc003qbo.2_Silent_p.P1396P	NM_000426	NP_000417	P24043	LAMA2_HUMAN	laminin alpha 2 subunit isoform a precursor	1396	Laminin EGF-like 14; second part.				cell adhesion|muscle organ development|regulation of cell adhesion|regulation of cell migration|regulation of embryonic development	laminin-1 complex	receptor binding|structural molecule activity			ovary(8)|breast(1)|skin(1)	10				OV - Ovarian serous cystadenocarcinoma(136;0.178)|all cancers(137;0.245)		CATGCTTGCCGGGATTTTATC	0.507													26	23	---	---	---	---	PASS
HDAC9	9734	broad.mit.edu	37	7	18975451	18975451	+	Missense_Mutation	SNP	G	T	T			TCGA-66-2742-01A-01D-0983-08	TCGA-66-2742-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	07047a99-45bd-4df6-ad6f-934a48e8e213	09de7b21-79a1-4b8c-a835-7f7a4481f4d5	g.chr7:18975451G>T	uc003suh.2	+	22	2855	c.2814G>T	c.(2812-2814)AAG>AAT	p.K938N	HDAC9_uc003sue.2_Missense_Mutation_p.K938N|HDAC9_uc003sui.2_Missense_Mutation_p.K941N|HDAC9_uc003suj.2_Missense_Mutation_p.K897N|HDAC9_uc003suk.2_Missense_Mutation_p.K186N	NM_058176	NP_478056	Q9UKV0	HDAC9_HUMAN	histone deacetylase 9 isoform 1	938	Histone deacetylase.				B cell differentiation|cellular response to insulin stimulus|heart development|histone H3 deacetylation|histone H4 deacetylation|inflammatory response|negative regulation of transcription from RNA polymerase II promoter|negative regulation of transcription, DNA-dependent|peptidyl-lysine deacetylation|positive regulation of cell migration involved in sprouting angiogenesis|regulation of skeletal muscle fiber development|transcription, DNA-dependent	cytoplasm|histone deacetylase complex|histone methyltransferase complex|transcription factor complex	histone deacetylase activity (H3-K16 specific)|histone deacetylase binding|histone deacetylase binding|NAD-dependent histone deacetylase activity (H3-K14 specific)|NAD-dependent histone deacetylase activity (H3-K9 specific)|NAD-dependent histone deacetylase activity (H4-K16 specific)|protein binding|protein kinase C binding|repressing transcription factor binding|transcription corepressor activity			lung(2)|central_nervous_system(2)|kidney(1)	5	all_lung(11;0.187)				Valproic Acid(DB00313)	ATTTGACGAAGCAATTGATGA	0.378													38	113	---	---	---	---	PASS
STK31	56164	broad.mit.edu	37	7	23776540	23776540	+	Missense_Mutation	SNP	G	A	A			TCGA-66-2742-01A-01D-0983-08	TCGA-66-2742-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	07047a99-45bd-4df6-ad6f-934a48e8e213	09de7b21-79a1-4b8c-a835-7f7a4481f4d5	g.chr7:23776540G>A	uc003sws.3	+	8	927	c.860G>A	c.(859-861)GGT>GAT	p.G287D	STK31_uc003swt.3_Missense_Mutation_p.G264D|STK31_uc011jze.1_Missense_Mutation_p.G287D|STK31_uc010kuq.2_Missense_Mutation_p.G264D	NM_031414	NP_113602	Q9BXU1	STK31_HUMAN	serine/threonine kinase 31 isoform a	287							ATP binding|nucleic acid binding|protein serine/threonine kinase activity			skin(3)|lung(2)|ovary(2)|stomach(2)	9						TTGGCTGTTGGTGACTTTAAT	0.338													16	33	---	---	---	---	PASS
PLEKHA8	84725	broad.mit.edu	37	7	30102343	30102343	+	Missense_Mutation	SNP	A	T	T			TCGA-66-2742-01A-01D-0983-08	TCGA-66-2742-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	07047a99-45bd-4df6-ad6f-934a48e8e213	09de7b21-79a1-4b8c-a835-7f7a4481f4d5	g.chr7:30102343A>T	uc003tam.1	+	12	1376	c.1285A>T	c.(1285-1287)ATC>TTC	p.I429F	PLEKHA8_uc003tao.2_Missense_Mutation_p.I313F|PLEKHA8_uc003tap.1_Missense_Mutation_p.I429F|PLEKHA8_uc003tan.2_Missense_Mutation_p.I429F	NM_032639	NP_116028	Q96JA3	PKHA8_HUMAN	pleckstrin homology domain containing, family A	429					protein transport	cytoplasm	glycolipid binding|glycolipid transporter activity			breast(3)|ovary(1)	4						GGAGAAGGATATCCAGACAGC	0.358													19	47	---	---	---	---	PASS
Unknown	0	broad.mit.edu	37	7	38288949	38288949	+	Missense_Mutation	SNP	T	G	G			TCGA-66-2742-01A-01D-0983-08	TCGA-66-2742-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	07047a99-45bd-4df6-ad6f-934a48e8e213	09de7b21-79a1-4b8c-a835-7f7a4481f4d5	g.chr7:38288949T>G	uc003tfu.3	-	2	275	c.40A>C	c.(40-42)ACG>CCG	p.T14P	uc003tfv.2_Missense_Mutation_p.T14P|uc003tfw.2_RNA|uc003tfx.1_RNA|uc003tfz.1_RNA					SubName: Full=TARP protein;																		TCTGGCACCGTTAACCAGCTA	0.393													41	79	---	---	---	---	PASS
EGFR	1956	broad.mit.edu	37	7	55259524	55259524	+	Missense_Mutation	SNP	T	A	A	rs121913444		TCGA-66-2742-01A-01D-0983-08	TCGA-66-2742-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	07047a99-45bd-4df6-ad6f-934a48e8e213	09de7b21-79a1-4b8c-a835-7f7a4481f4d5	g.chr7:55259524T>A	uc003tqk.2	+	21	2828	c.2582T>A	c.(2581-2583)CTG>CAG	p.L861Q	EGFR_uc010kzg.1_Missense_Mutation_p.L816Q|EGFR_uc011kco.1_Missense_Mutation_p.L808Q|uc003tqo.2_5'Flank	NM_005228	NP_005219	P00533	EGFR_HUMAN	epidermal growth factor receptor isoform a	861	Cytoplasmic (Potential).|Protein kinase.		L -> Q (found in a lung cancer sample).		activation of phospholipase A2 activity by calcium-mediated signaling|activation of phospholipase C activity|axon guidance|cell proliferation|cell-cell adhesion|negative regulation of apoptosis|negative regulation of epidermal growth factor receptor signaling pathway|ossification|positive regulation of catenin import into nucleus|positive regulation of cell migration|positive regulation of cyclin-dependent protein kinase activity involved in G1/S|positive regulation of epithelial cell proliferation|positive regulation of MAP kinase activity|positive regulation of nitric oxide biosynthetic process|positive regulation of phosphorylation|positive regulation of protein kinase B signaling cascade|protein autophosphorylation|protein insertion into membrane|regulation of nitric-oxide synthase activity|regulation of peptidyl-tyrosine phosphorylation|response to stress|response to UV-A	basolateral plasma membrane|endoplasmic reticulum membrane|endosome|extracellular space|Golgi membrane|integral to membrane|nuclear membrane|Shc-EGFR complex	actin filament binding|ATP binding|double-stranded DNA binding|epidermal growth factor receptor activity|identical protein binding|MAP/ERK kinase kinase activity|protein heterodimerization activity|protein phosphatase binding|receptor signaling protein tyrosine kinase activity	p.L861Q(96)|p.L861R(10)|p.A859_L883>V(2)|p.L861F(1)|p.L861V(1)|p.L861P(1)		lung(9213)|central_nervous_system(103)|stomach(41)|upper_aerodigestive_tract(39)|prostate(32)|ovary(31)|thyroid(24)|breast(11)|peritoneum(9)|oesophagus(9)|salivary_gland(9)|large_intestine(8)|kidney(8)|urinary_tract(6)|skin(5)|adrenal_gland(5)|soft_tissue(4)|bone(3)|NS(2)|pancreas(2)|haematopoietic_and_lymphoid_tissue(2)|thymus(2)|liver(2)|eye(1)	9571	all_cancers(1;1.57e-46)|all_epithelial(1;5.62e-37)|Lung NSC(1;9.29e-25)|all_lung(1;4.39e-23)|Esophageal squamous(2;7.55e-08)|Breast(14;0.0318)		GBM - Glioblastoma multiforme(1;0)|all cancers(1;2.19e-314)|Lung(13;4.65e-05)|LUSC - Lung squamous cell carcinoma(13;0.000168)|STAD - Stomach adenocarcinoma(5;0.00164)|Epithelial(13;0.0607)		Cetuximab(DB00002)|Erlotinib(DB00530)|Gefitinib(DB00317)|Lapatinib(DB01259)|Lidocaine(DB00281)|Panitumumab(DB01269)|Trastuzumab(DB00072)	CTGGCCAAACTGCTGGGTGCG	0.557		8	A|O|Mis		glioma|NSCLC	NSCLC			Lung_Cancer_Familial_Clustering_of	TCGA GBM(3;<1E-08)|TSP Lung(4;<1E-08)			45	121	---	---	---	---	PASS
DOCK4	9732	broad.mit.edu	37	7	111629078	111629078	+	Missense_Mutation	SNP	C	A	A			TCGA-66-2742-01A-01D-0983-08	TCGA-66-2742-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	07047a99-45bd-4df6-ad6f-934a48e8e213	09de7b21-79a1-4b8c-a835-7f7a4481f4d5	g.chr7:111629078C>A	uc003vfx.2	-	6	725	c.456G>T	c.(454-456)TGG>TGT	p.W152C	DOCK4_uc003vfy.2_Missense_Mutation_p.W152C|DOCK4_uc003vga.1_5'UTR|DOCK4_uc010ljt.1_Missense_Mutation_p.W152C|DOCK4_uc003vgb.1_Missense_Mutation_p.W76C	NM_014705	NP_055520	Q8N1I0	DOCK4_HUMAN	dedicator of cytokinesis 4	152					cell chemotaxis	cytosol|endomembrane system|membrane|stereocilium	GTP binding|guanyl-nucleotide exchange factor activity|PDZ domain binding|Rac GTPase activator activity|Rac GTPase binding|receptor tyrosine kinase binding|SH3 domain binding			ovary(2)|haematopoietic_and_lymphoid_tissue(1)|central_nervous_system(1)	4		Acute lymphoblastic leukemia(1;0.0441)				ACTCATTGCCCCAGTCAAGCC	0.562													7	15	---	---	---	---	PASS
SLC13A1	6561	broad.mit.edu	37	7	122755604	122755604	+	Missense_Mutation	SNP	C	G	G			TCGA-66-2742-01A-01D-0983-08	TCGA-66-2742-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	07047a99-45bd-4df6-ad6f-934a48e8e213	09de7b21-79a1-4b8c-a835-7f7a4481f4d5	g.chr7:122755604C>G	uc003vkm.2	-	15	1781	c.1756G>C	c.(1756-1758)GCT>CCT	p.A586P	SLC13A1_uc010lks.2_Missense_Mutation_p.A462P	NM_022444	NP_071889	Q9BZW2	S13A1_HUMAN	solute carrier family 13 (sodium/sulfate	586						integral to membrane|plasma membrane	sodium:sulfate symporter activity			ovary(2)	2					Succinic acid(DB00139)	ATAGCAGGAGCCCACGAAGGG	0.413													14	40	---	---	---	---	PASS
OPN1SW	611	broad.mit.edu	37	7	128415130	128415130	+	Missense_Mutation	SNP	C	T	T			TCGA-66-2742-01A-01D-0983-08	TCGA-66-2742-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	07047a99-45bd-4df6-ad6f-934a48e8e213	09de7b21-79a1-4b8c-a835-7f7a4481f4d5	g.chr7:128415130C>T	uc003vnt.3	-	2	431	c.431G>A	c.(430-432)CGC>CAC	p.R144H		NM_001708	NP_001699	P03999	OPSB_HUMAN	opsin 1 (cone pigments), short-wave-sensitive	144	Cytoplasmic (Potential).				phototransduction|protein-chromophore linkage|visual perception	integral to plasma membrane	G-protein coupled receptor activity|photoreceptor activity				0						GGAGCTGAAGCGGAAGTTGCC	0.552													15	30	---	---	---	---	PASS
OR6B1	135946	broad.mit.edu	37	7	143701479	143701479	+	Silent	SNP	C	A	A			TCGA-66-2742-01A-01D-0983-08	TCGA-66-2742-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	07047a99-45bd-4df6-ad6f-934a48e8e213	09de7b21-79a1-4b8c-a835-7f7a4481f4d5	g.chr7:143701479C>A	uc003wdt.1	+	1	390	c.390C>A	c.(388-390)CTC>CTA	p.L130L		NM_001005281	NP_001005281	O95007	OR6B1_HUMAN	olfactory receptor, family 6, subfamily B,	130	Cytoplasmic (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)	1	Melanoma(164;0.0783)					GTCGCCCACTCCACTACCCAA	0.532													21	47	---	---	---	---	PASS
CNTNAP2	26047	broad.mit.edu	37	7	147336265	147336265	+	Silent	SNP	A	T	T			TCGA-66-2742-01A-01D-0983-08	TCGA-66-2742-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	07047a99-45bd-4df6-ad6f-934a48e8e213	09de7b21-79a1-4b8c-a835-7f7a4481f4d5	g.chr7:147336265A>T	uc003weu.1	+	13	2481	c.1965A>T	c.(1963-1965)CCA>CCT	p.P655P		NM_014141	NP_054860	Q9UHC6	CNTP2_HUMAN	cell recognition molecule Caspr2 precursor	655	Extracellular (Potential).|Fibrinogen C-terminal.				behavior|cell adhesion|clustering of voltage-gated potassium channels|limbic system development|neuron recognition|signal transduction|striatum development|superior temporal gyrus development|thalamus development|transmission of nerve impulse	axolemma|cell body fiber|dendrite|juxtaparanode region of axon|voltage-gated potassium channel complex	receptor binding			ovary(9)|central_nervous_system(1)|pancreas(1)	11	Melanoma(164;0.153)	all_cancers(3;3.51e-10)|all_epithelial(3;1.4e-05)|Myeloproliferative disorder(3;0.00452)|Lung NSC(3;0.0067)|all_lung(3;0.00794)	OV - Ovarian serous cystadenocarcinoma(82;0.0319)			GCTACAACCCAGAAAAATACT	0.512										HNSCC(39;0.1)			21	71	---	---	---	---	PASS
C7orf33	202865	broad.mit.edu	37	7	148312428	148312428	+	Missense_Mutation	SNP	C	T	T			TCGA-66-2742-01A-01D-0983-08	TCGA-66-2742-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	07047a99-45bd-4df6-ad6f-934a48e8e213	09de7b21-79a1-4b8c-a835-7f7a4481f4d5	g.chr7:148312428C>T	uc003wew.2	+	3	830	c.469C>T	c.(469-471)CAT>TAT	p.H157Y		NM_145304	NP_660347	Q8WU49	CG033_HUMAN	hypothetical protein LOC202865	157										central_nervous_system(1)	1	Melanoma(164;0.15)		OV - Ovarian serous cystadenocarcinoma(82;0.00291)			GGTACGTGGGCATGAAGTAAG	0.388													30	59	---	---	---	---	PASS
CLN8	2055	broad.mit.edu	37	8	1728421	1728421	+	Silent	SNP	C	G	G			TCGA-66-2742-01A-01D-0983-08	TCGA-66-2742-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	07047a99-45bd-4df6-ad6f-934a48e8e213	09de7b21-79a1-4b8c-a835-7f7a4481f4d5	g.chr8:1728421C>G	uc003wpo.3	+	3	854	c.549C>G	c.(547-549)GGC>GGG	p.G183G		NM_018941	NP_061764	Q9UBY8	CLN8_HUMAN	ceroid-lipofuscinosis, neuronal 8	183	TLC.				cell death|ceramide biosynthetic process|cholesterol metabolic process|lipid transport|negative regulation of proteolysis|phospholipid metabolic process	endoplasmic reticulum membrane|ER-Golgi intermediate compartment membrane|integral to membrane				ovary(1)|central_nervous_system(1)|skin(1)	3		Ovarian(12;0.0563)|Colorectal(14;0.0815)|Hepatocellular(245;0.0831)		BRCA - Breast invasive adenocarcinoma(11;7.67e-05)|READ - Rectum adenocarcinoma(644;0.0913)		TGCAGGCGGGCTGGTCCGAGT	0.453													9	25	---	---	---	---	PASS
RP1L1	94137	broad.mit.edu	37	8	10470689	10470689	+	Missense_Mutation	SNP	C	T	T			TCGA-66-2742-01A-01D-0983-08	TCGA-66-2742-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	07047a99-45bd-4df6-ad6f-934a48e8e213	09de7b21-79a1-4b8c-a835-7f7a4481f4d5	g.chr8:10470689C>T	uc003wtc.2	-	4	1148	c.919G>A	c.(919-921)GAT>AAT	p.D307N		NM_178857	NP_849188	Q8IWN7	RP1L1_HUMAN	retinitis pigmentosa 1-like 1	307					intracellular signal transduction					ovary(4)|breast(3)|central_nervous_system(1)	8				COAD - Colon adenocarcinoma(149;0.0811)		TTCATGTCATCGCCAGCCACC	0.647													14	43	---	---	---	---	PASS
DLC1	10395	broad.mit.edu	37	8	13357058	13357058	+	Missense_Mutation	SNP	C	T	T			TCGA-66-2742-01A-01D-0983-08	TCGA-66-2742-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	07047a99-45bd-4df6-ad6f-934a48e8e213	09de7b21-79a1-4b8c-a835-7f7a4481f4d5	g.chr8:13357058C>T	uc003wwm.2	-	2	967	c.523G>A	c.(523-525)GTA>ATA	p.V175I	DLC1_uc003wwn.2_Missense_Mutation_p.V175I|DLC1_uc011kxy.1_Missense_Mutation_p.V175I	NM_182643	NP_872584	Q96QB1	RHG07_HUMAN	deleted in liver cancer 1 isoform 1	175					actin cytoskeleton organization|activation of caspase activity|focal adhesion assembly|forebrain development|heart morphogenesis|hindbrain morphogenesis|induction of apoptosis|negative regulation of cell migration|negative regulation of cell proliferation|negative regulation of Rho protein signal transduction|negative regulation of stress fiber assembly|neural tube closure|positive regulation of protein dephosphorylation|regulation of cell shape|small GTPase mediated signal transduction	caveola|cytosol|focal adhesion|nucleus	Rho GTPase activator activity|SH2 domain binding			ovary(3)|pancreas(2)|lung(1)|kidney(1)	7						CTTTCTTTTACCAGTGCTAAT	0.408													12	82	---	---	---	---	PASS
DLC1	10395	broad.mit.edu	37	8	13357059	13357059	+	Silent	SNP	C	A	A	rs147848228		TCGA-66-2742-01A-01D-0983-08	TCGA-66-2742-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	07047a99-45bd-4df6-ad6f-934a48e8e213	09de7b21-79a1-4b8c-a835-7f7a4481f4d5	g.chr8:13357059C>A	uc003wwm.2	-	2	966	c.522G>T	c.(520-522)CTG>CTT	p.L174L	DLC1_uc003wwn.2_Silent_p.L174L|DLC1_uc011kxy.1_Silent_p.L174L	NM_182643	NP_872584	Q96QB1	RHG07_HUMAN	deleted in liver cancer 1 isoform 1	174					actin cytoskeleton organization|activation of caspase activity|focal adhesion assembly|forebrain development|heart morphogenesis|hindbrain morphogenesis|induction of apoptosis|negative regulation of cell migration|negative regulation of cell proliferation|negative regulation of Rho protein signal transduction|negative regulation of stress fiber assembly|neural tube closure|positive regulation of protein dephosphorylation|regulation of cell shape|small GTPase mediated signal transduction	caveola|cytosol|focal adhesion|nucleus	Rho GTPase activator activity|SH2 domain binding			ovary(3)|pancreas(2)|lung(1)|kidney(1)	7						TTTCTTTTACCAGTGCTAATT	0.408													12	81	---	---	---	---	PASS
SLC20A2	6575	broad.mit.edu	37	8	42294928	42294928	+	Nonsense_Mutation	SNP	C	A	A			TCGA-66-2742-01A-01D-0983-08	TCGA-66-2742-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	07047a99-45bd-4df6-ad6f-934a48e8e213	09de7b21-79a1-4b8c-a835-7f7a4481f4d5	g.chr8:42294928C>A	uc010lxl.2	-	8	1796	c.1102G>T	c.(1102-1104)GAG>TAG	p.E368*	SLC20A2_uc010lxm.2_Nonsense_Mutation_p.E368*|SLC20A2_uc003xpe.2_Nonsense_Mutation_p.E368*|SLC20A2_uc011lcu.1_Nonsense_Mutation_p.E170*	NM_006749	NP_006740	Q08357	S20A2_HUMAN	solute carrier family 20, member 2	368	Cytoplasmic (Potential).				interspecies interaction between organisms	integral to plasma membrane|membrane fraction	inorganic phosphate transmembrane transporter activity|receptor activity|sodium-dependent phosphate transmembrane transporter activity|sodium:phosphate symporter activity			ovary(2)	2	all_lung(13;8.33e-12)|Lung NSC(13;1.41e-10)|Ovarian(28;0.00579)|Prostate(17;0.0119)|Lung SC(25;0.211)	all_lung(54;0.00671)|Lung NSC(58;0.0184)|Esophageal squamous(32;0.131)|Hepatocellular(245;0.133)|Renal(179;0.151)	BRCA - Breast invasive adenocarcinoma(8;5.73e-10)|OV - Ovarian serous cystadenocarcinoma(14;0.00419)|Lung(22;0.0302)|LUSC - Lung squamous cell carcinoma(45;0.0869)			GGCTTCTCCTCGGGGCCCCTG	0.597													25	63	---	---	---	---	PASS
TOX	9760	broad.mit.edu	37	8	59728236	59728236	+	Silent	SNP	C	G	G			TCGA-66-2742-01A-01D-0983-08	TCGA-66-2742-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	07047a99-45bd-4df6-ad6f-934a48e8e213	09de7b21-79a1-4b8c-a835-7f7a4481f4d5	g.chr8:59728236C>G	uc003xtw.1	-	7	1274	c.1053G>C	c.(1051-1053)CTG>CTC	p.L351L		NM_014729	NP_055544	O94900	TOX_HUMAN	thymus high mobility group box protein TOX	351						nucleus	DNA binding			kidney(2)|lung(1)|skin(1)	4		all_cancers(86;0.165)|Myeloproliferative disorder(644;0.00452)|all_lung(136;0.036)|Lung NSC(129;0.0464)|all_epithelial(80;0.0607)				TCGAATTGATCAGCTGAGGAG	0.512													15	34	---	---	---	---	PASS
GGH	8836	broad.mit.edu	37	8	63938734	63938734	+	Missense_Mutation	SNP	G	A	A			TCGA-66-2742-01A-01D-0983-08	TCGA-66-2742-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	07047a99-45bd-4df6-ad6f-934a48e8e213	09de7b21-79a1-4b8c-a835-7f7a4481f4d5	g.chr8:63938734G>A	uc003xuw.2	-	5	765	c.482C>T	c.(481-483)CCG>CTG	p.P161L		NM_003878	NP_003869	Q92820	GGH_HUMAN	gamma-glutamyl hydrolase precursor	161	Gamma-glutamyl hydrolase.				glutamine metabolic process	extracellular space|lysosome|melanosome	gamma-glutamyl-peptidase activity				0	Breast(64;0.0716)	all_cancers(86;0.189)|Lung NSC(129;0.0324)|all_lung(136;0.0593)|all_epithelial(80;0.131)			Folic Acid(DB00158)|L-Glutamic Acid(DB00142)	GAAGTTCAGCGGCATTGCCAC	0.418													10	37	---	---	---	---	PASS
CYP7B1	9420	broad.mit.edu	37	8	65509278	65509278	+	Missense_Mutation	SNP	C	A	A			TCGA-66-2742-01A-01D-0983-08	TCGA-66-2742-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	07047a99-45bd-4df6-ad6f-934a48e8e213	09de7b21-79a1-4b8c-a835-7f7a4481f4d5	g.chr8:65509278C>A	uc003xvj.2	-	6	1646	c.1442G>T	c.(1441-1443)GGA>GTA	p.G481V		NM_004820	NP_004811	O75881	CP7B1_HUMAN	cytochrome P450, family 7, subfamily B,	481					bile acid biosynthetic process|cell death|cholesterol metabolic process|xenobiotic metabolic process	endoplasmic reticulum membrane|microsome	25-hydroxycholesterol 7alpha-hydroxylase activity|electron carrier activity|heme binding|oxysterol 7-alpha-hydroxylase activity			ovary(3)	3		all_cancers(86;0.217)|Lung NSC(129;0.0521)|all_lung(136;0.0906)|all_epithelial(80;0.215)				GTAGTTTAGTCCTATGGGCTT	0.303													10	27	---	---	---	---	PASS
CYP7B1	9420	broad.mit.edu	37	8	65509282	65509282	+	Missense_Mutation	SNP	T	A	A			TCGA-66-2742-01A-01D-0983-08	TCGA-66-2742-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	07047a99-45bd-4df6-ad6f-934a48e8e213	09de7b21-79a1-4b8c-a835-7f7a4481f4d5	g.chr8:65509282T>A	uc003xvj.2	-	6	1642	c.1438A>T	c.(1438-1440)ATA>TTA	p.I480L		NM_004820	NP_004811	O75881	CP7B1_HUMAN	cytochrome P450, family 7, subfamily B,	480					bile acid biosynthetic process|cell death|cholesterol metabolic process|xenobiotic metabolic process	endoplasmic reticulum membrane|microsome	25-hydroxycholesterol 7alpha-hydroxylase activity|electron carrier activity|heme binding|oxysterol 7-alpha-hydroxylase activity			ovary(3)	3		all_cancers(86;0.217)|Lung NSC(129;0.0521)|all_lung(136;0.0906)|all_epithelial(80;0.215)				TTTAGTCCTATGGGCTTATCA	0.318													9	27	---	---	---	---	PASS
PI15	51050	broad.mit.edu	37	8	75737654	75737654	+	Missense_Mutation	SNP	G	C	C			TCGA-66-2742-01A-01D-0983-08	TCGA-66-2742-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	07047a99-45bd-4df6-ad6f-934a48e8e213	09de7b21-79a1-4b8c-a835-7f7a4481f4d5	g.chr8:75737654G>C	uc003yal.2	+	2	349	c.170G>C	c.(169-171)AGG>ACG	p.R57T	uc003yak.1_Intron|PI15_uc003yam.2_Missense_Mutation_p.R57T	NM_015886	NP_056970	O43692	PI15_HUMAN	protease inhibitor 15 preproprotein	57						extracellular region	peptidase inhibitor activity			central_nervous_system(2)|ovary(1)	3	Breast(64;0.137)		BRCA - Breast invasive adenocarcinoma(89;0.104)|Epithelial(68;0.118)			CCCAAAGCCAGGCGGAAGCGC	0.448													10	68	---	---	---	---	PASS
STMN2	11075	broad.mit.edu	37	8	80553671	80553671	+	Missense_Mutation	SNP	G	C	C			TCGA-66-2742-01A-01D-0983-08	TCGA-66-2742-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	07047a99-45bd-4df6-ad6f-934a48e8e213	09de7b21-79a1-4b8c-a835-7f7a4481f4d5	g.chr8:80553671G>C	uc003ybj.2	+	3	225	c.174G>C	c.(172-174)TTG>TTC	p.L58F	STMN2_uc010lzp.2_RNA|STMN2_uc011lfn.1_Missense_Mutation_p.L58F	NM_007029	NP_008960	Q93045	STMN2_HUMAN	superiorcervical ganglia, neural specific 10	58	Regulatory/phosphorylation domain (Potential).				intracellular signal transduction|negative regulation of microtubule depolymerization|negative regulation of microtubule polymerization|negative regulation of neuron projection development|neuron differentiation|positive regulation of microtubule depolymerization|positive regulation of neuron projection development	axon|growth cone|membrane|membrane fraction|perinuclear region of cytoplasm|soluble fraction	protein binding			ovary(1)|central_nervous_system(1)	2	all_lung(9;8.34e-05)		Epithelial(68;0.0229)|all cancers(69;0.0874)			AGCTGATCTTGAAGCCACCAT	0.458													27	34	---	---	---	---	PASS
PKHD1L1	93035	broad.mit.edu	37	8	110476886	110476886	+	Missense_Mutation	SNP	G	T	T			TCGA-66-2742-01A-01D-0983-08	TCGA-66-2742-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	07047a99-45bd-4df6-ad6f-934a48e8e213	09de7b21-79a1-4b8c-a835-7f7a4481f4d5	g.chr8:110476886G>T	uc003yne.2	+	49	7929	c.7825G>T	c.(7825-7827)GGC>TGC	p.G2609C		NM_177531	NP_803875	Q86WI1	PKHL1_HUMAN	fibrocystin L precursor	2609	Extracellular (Potential).				immune response	cytosol|extracellular space|integral to membrane	receptor activity			ovary(9)|central_nervous_system(2)|large_intestine(1)|breast(1)|pancreas(1)	14			OV - Ovarian serous cystadenocarcinoma(57;9.88e-13)			AGTTCCCCTTGGCGAATTTTT	0.433										HNSCC(38;0.096)			25	76	---	---	---	---	PASS
CSMD3	114788	broad.mit.edu	37	8	113697704	113697704	+	Missense_Mutation	SNP	G	A	A			TCGA-66-2742-01A-01D-0983-08	TCGA-66-2742-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	07047a99-45bd-4df6-ad6f-934a48e8e213	09de7b21-79a1-4b8c-a835-7f7a4481f4d5	g.chr8:113697704G>A	uc003ynu.2	-	15	2572	c.2413C>T	c.(2413-2415)CAC>TAC	p.H805Y	CSMD3_uc003yns.2_Missense_Mutation_p.H77Y|CSMD3_uc003ynt.2_Missense_Mutation_p.H765Y|CSMD3_uc011lhx.1_Missense_Mutation_p.H701Y	NM_198123	NP_937756	Q7Z407	CSMD3_HUMAN	CUB and Sushi multiple domains 3 isoform 1	805	Extracellular (Potential).|CUB 4.					integral to membrane|plasma membrane				ovary(21)|lung(11)|skin(11)|kidney(8)|large_intestine(6)|upper_aerodigestive_tract(2)|central_nervous_system(2)|urinary_tract(1)|breast(1)	63						CGCAGTATGTGACTATTACTA	0.418										HNSCC(6;0.00088)|TCGA Ovarian(7;0.080)			22	41	---	---	---	---	PASS
ZFAT	57623	broad.mit.edu	37	8	135533199	135533199	+	Missense_Mutation	SNP	C	A	A			TCGA-66-2742-01A-01D-0983-08	TCGA-66-2742-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	07047a99-45bd-4df6-ad6f-934a48e8e213	09de7b21-79a1-4b8c-a835-7f7a4481f4d5	g.chr8:135533199C>A	uc003yup.2	-	13	3336	c.3161G>T	c.(3160-3162)TGG>TTG	p.W1054L	ZFAT_uc011ljj.1_Missense_Mutation_p.W173L|ZFAT_uc003yun.2_Missense_Mutation_p.W1042L|ZFAT_uc003yuo.2_Missense_Mutation_p.W1042L|ZFAT_uc010meh.2_Missense_Mutation_p.W1042L|ZFAT_uc010mei.2_RNA|ZFAT_uc003yuq.2_Missense_Mutation_p.W1042L|ZFAT_uc010mej.2_Missense_Mutation_p.W992L	NM_020863	NP_065914	Q9P243	ZFAT_HUMAN	zinc finger protein 406 isoform ZFAT-1	1054	C2H2-type 19.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytosol|nucleus	DNA binding|zinc ion binding			central_nervous_system(1)	1	all_epithelial(106;8.26e-19)|Lung NSC(106;3.47e-07)|all_lung(105;1.39e-06)|Ovarian(258;0.0102)|Acute lymphoblastic leukemia(118;0.155)		BRCA - Breast invasive adenocarcinoma(115;0.0432)			ATTGAACTCCCATTTGGTGCC	0.388													17	35	---	---	---	---	PASS
COL22A1	169044	broad.mit.edu	37	8	139611003	139611003	+	Missense_Mutation	SNP	G	C	C			TCGA-66-2742-01A-01D-0983-08	TCGA-66-2742-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	07047a99-45bd-4df6-ad6f-934a48e8e213	09de7b21-79a1-4b8c-a835-7f7a4481f4d5	g.chr8:139611003G>C	uc003yvd.2	-	61	4771	c.4324C>G	c.(4324-4326)CCC>GCC	p.P1442A	COL22A1_uc011ljo.1_Missense_Mutation_p.P722A	NM_152888	NP_690848	Q8NFW1	COMA1_HUMAN	collagen, type XXII, alpha 1	1442	Pro-rich.|Gly-rich.|Collagen-like 14.				cell adhesion	collagen|cytoplasm	structural molecule activity			ovary(11)|pancreas(1)|skin(1)	13	all_epithelial(106;1.55e-12)|Lung NSC(106;1.67e-05)|all_lung(105;3.39e-05)|Ovarian(258;0.00672)|Acute lymphoblastic leukemia(118;0.155)		BRCA - Breast invasive adenocarcinoma(115;0.0517)			GGCCCTGGGGGTCCAACTGGT	0.622										HNSCC(7;0.00092)			19	25	---	---	---	---	PASS
ZNF462	58499	broad.mit.edu	37	9	109689491	109689491	+	Missense_Mutation	SNP	C	A	A	rs76712188		TCGA-66-2742-01A-01D-0983-08	TCGA-66-2742-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	07047a99-45bd-4df6-ad6f-934a48e8e213	09de7b21-79a1-4b8c-a835-7f7a4481f4d5	g.chr9:109689491C>A	uc004bcz.2	+	3	3587	c.3298C>A	c.(3298-3300)CCC>ACC	p.P1100T	ZNF462_uc010mto.2_Missense_Mutation_p.P948T|ZNF462_uc004bda.2_Missense_Mutation_p.P948T	NM_021224	NP_067047	Q96JM2	ZN462_HUMAN	zinc finger protein 462	1100					transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(5)	5						GGGTTCCCCACCCCCCCCACA	0.527													3	12	---	---	---	---	PASS
ASB6	140459	broad.mit.edu	37	9	132400573	132400573	+	Missense_Mutation	SNP	G	C	C			TCGA-66-2742-01A-01D-0983-08	TCGA-66-2742-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	07047a99-45bd-4df6-ad6f-934a48e8e213	09de7b21-79a1-4b8c-a835-7f7a4481f4d5	g.chr9:132400573G>C	uc004byf.1	-	6	928	c.762C>G	c.(760-762)AGC>AGG	p.S254R	ASB6_uc004bye.1_Missense_Mutation_p.S179R|ASB6_uc004byg.1_3'UTR|ASB6_uc011mbt.1_Missense_Mutation_p.S175R|ASB6_uc010myx.1_Missense_Mutation_p.S225R	NM_017873	NP_060343	Q9NWX5	ASB6_HUMAN	ankyrin repeat and SOCS box-containing 6 isoform	254	ANK 5.				intracellular signal transduction	cytoplasm					0		Ovarian(14;0.00556)				CTGGGCACTCGCTGGGGTCGG	0.622													11	14	---	---	---	---	PASS
VAV2	7410	broad.mit.edu	37	9	136662858	136662858	+	Missense_Mutation	SNP	G	C	C	rs150680379		TCGA-66-2742-01A-01D-0983-08	TCGA-66-2742-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	07047a99-45bd-4df6-ad6f-934a48e8e213	09de7b21-79a1-4b8c-a835-7f7a4481f4d5	g.chr9:136662858G>C	uc004ces.2	-	10	956	c.910C>G	c.(910-912)CGG>GGG	p.R304G	VAV2_uc004cer.2_Missense_Mutation_p.R299G	NM_001134398	NP_001127870	P52735	VAV2_HUMAN	vav 2 guanine nucleotide exchange factor isoform	304	DH.				angiogenesis|apoptosis|axon guidance|induction of apoptosis by extracellular signals|nerve growth factor receptor signaling pathway|platelet activation|regulation of Rho protein signal transduction|small GTPase mediated signal transduction	cytosol	metal ion binding|Rho guanyl-nucleotide exchange factor activity			central_nervous_system(3)|ovary(2)|lung(2)|breast(1)	8				OV - Ovarian serous cystadenocarcinoma(145;3.9e-07)|Epithelial(140;2.07e-06)|all cancers(34;9.39e-06)		AAGTCCTCCCGGCTGGCCAGG	0.617													5	9	---	---	---	---	PASS
VAV2	7410	broad.mit.edu	37	9	136726513	136726513	+	Silent	SNP	C	A	A	rs145591299	byFrequency	TCGA-66-2742-01A-01D-0983-08	TCGA-66-2742-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	07047a99-45bd-4df6-ad6f-934a48e8e213	09de7b21-79a1-4b8c-a835-7f7a4481f4d5	g.chr9:136726513C>A	uc004ces.2	-	3	409	c.363G>T	c.(361-363)GCG>GCT	p.A121A	VAV2_uc004cer.2_Silent_p.A121A	NM_001134398	NP_001127870	P52735	VAV2_HUMAN	vav 2 guanine nucleotide exchange factor isoform	121					angiogenesis|apoptosis|axon guidance|induction of apoptosis by extracellular signals|nerve growth factor receptor signaling pathway|platelet activation|regulation of Rho protein signal transduction|small GTPase mediated signal transduction	cytosol	metal ion binding|Rho guanyl-nucleotide exchange factor activity			central_nervous_system(3)|ovary(2)|lung(2)|breast(1)	8				OV - Ovarian serous cystadenocarcinoma(145;3.9e-07)|Epithelial(140;2.07e-06)|all cancers(34;9.39e-06)		CTTTGTTCTGCGCGATGCTGT	0.567													3	7	---	---	---	---	PASS
NSUN6	221078	broad.mit.edu	37	10	18835047	18835047	+	Missense_Mutation	SNP	T	A	A			TCGA-66-2742-01A-01D-0983-08	TCGA-66-2742-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	07047a99-45bd-4df6-ad6f-934a48e8e213	09de7b21-79a1-4b8c-a835-7f7a4481f4d5	g.chr10:18835047T>A	uc010qcp.1	-	11	1643	c.1225A>T	c.(1225-1227)AGG>TGG	p.R409W	NSUN6_uc001iqb.2_5'Flank	NM_182543	NP_872349	Q8TEA1	NSUN6_HUMAN	NOL1/NOP2/Sun domain family, member 6	409							methyltransferase activity|RNA binding			ovary(2)	2						CCAGCTCCCCTCATTCCTTCT	0.463													15	86	---	---	---	---	PASS
GAD2	2572	broad.mit.edu	37	10	26518595	26518595	+	Silent	SNP	C	A	A	rs149136572	by1000genomes	TCGA-66-2742-01A-01D-0983-08	TCGA-66-2742-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	07047a99-45bd-4df6-ad6f-934a48e8e213	09de7b21-79a1-4b8c-a835-7f7a4481f4d5	g.chr10:26518595C>A	uc001isp.2	+	7	1232	c.729C>A	c.(727-729)GGC>GGA	p.G243G	GAD2_uc001isq.2_Silent_p.G243G	NM_001134366	NP_001127838	Q05329	DCE2_HUMAN	glutamate decarboxylase 2	243					glutamate decarboxylation to succinate|neurotransmitter biosynthetic process|neurotransmitter secretion	cell junction|clathrin sculpted gamma-aminobutyric acid transport vesicle membrane|cytosol|Golgi membrane|presynaptic membrane	glutamate decarboxylase activity|protein binding|pyridoxal phosphate binding			central_nervous_system(1)|skin(1)	2					L-Glutamic Acid(DB00142)	CTTTAGGTGGCGCCATATCTA	0.443													12	18	---	---	---	---	PASS
APBB1IP	54518	broad.mit.edu	37	10	26789824	26789824	+	Missense_Mutation	SNP	G	T	T			TCGA-66-2742-01A-01D-0983-08	TCGA-66-2742-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	07047a99-45bd-4df6-ad6f-934a48e8e213	09de7b21-79a1-4b8c-a835-7f7a4481f4d5	g.chr10:26789824G>T	uc001iss.2	+	5	558	c.237G>T	c.(235-237)GAG>GAT	p.E79D	APBB1IP_uc001isr.2_Missense_Mutation_p.E79D|APBB1IP_uc009xks.1_Missense_Mutation_p.E79D	NM_019043	NP_061916	Q7Z5R6	AB1IP_HUMAN	amyloid beta (A4) precursor protein-binding,	79					blood coagulation|signal transduction	cytoskeleton|cytosol|focal adhesion|lamellipodium				lung(4)|skin(2)|central_nervous_system(1)	7						GTGAGGCTGAGCAGAGGACAA	0.438													21	46	---	---	---	---	PASS
SVIL	6840	broad.mit.edu	37	10	29812615	29812615	+	Nonsense_Mutation	SNP	G	T	T			TCGA-66-2742-01A-01D-0983-08	TCGA-66-2742-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	07047a99-45bd-4df6-ad6f-934a48e8e213	09de7b21-79a1-4b8c-a835-7f7a4481f4d5	g.chr10:29812615G>T	uc001iut.1	-	15	3681	c.2928C>A	c.(2926-2928)TAC>TAA	p.Y976*	SVIL_uc010qdw.1_5'Flank|SVIL_uc001iuu.1_Nonsense_Mutation_p.Y550*	NM_021738	NP_068506	O95425	SVIL_HUMAN	supervillin isoform 2	976					cytoskeleton organization|skeletal muscle tissue development	cell junction|costamere|invadopodium|nucleus|podosome	actin filament binding			ovary(5)|upper_aerodigestive_tract(1)	6		Breast(68;0.103)				TCAGGATGGGGTAGGATGCTT	0.517													6	47	---	---	---	---	PASS
ANKRD30A	91074	broad.mit.edu	37	10	37430680	37430680	+	Silent	SNP	A	G	G			TCGA-66-2742-01A-01D-0983-08	TCGA-66-2742-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	07047a99-45bd-4df6-ad6f-934a48e8e213	09de7b21-79a1-4b8c-a835-7f7a4481f4d5	g.chr10:37430680A>G	uc001iza.1	+	7	786	c.687A>G	c.(685-687)GCA>GCG	p.A229A		NM_052997	NP_443723	Q9BXX3	AN30A_HUMAN	ankyrin repeat domain 30A	285						nucleus	DNA binding|sequence-specific DNA binding transcription factor activity			ovary(7)|breast(1)|skin(1)	9						ATGAGGCTGCACCCTTGGCGG	0.398													9	21	---	---	---	---	PASS
ZNF37A	7587	broad.mit.edu	37	10	38407647	38407647	+	Missense_Mutation	SNP	A	G	G			TCGA-66-2742-01A-01D-0983-08	TCGA-66-2742-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	07047a99-45bd-4df6-ad6f-934a48e8e213	09de7b21-79a1-4b8c-a835-7f7a4481f4d5	g.chr10:38407647A>G	uc001izk.2	+	8	2387	c.1568A>G	c.(1567-1569)TAT>TGT	p.Y523C	ZNF37A_uc001izl.2_Missense_Mutation_p.Y523C|ZNF37A_uc001izm.2_Missense_Mutation_p.Y523C	NM_001007094	NP_001007095	P17032	ZN37A_HUMAN	zinc finger protein 37a	523	C2H2-type 12.					nucleus	DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			breast(1)	1						GAGAAACCCTATGAATGTAAT	0.358													4	26	---	---	---	---	PASS
RBP3	5949	broad.mit.edu	37	10	48389413	48389413	+	Missense_Mutation	SNP	C	G	G			TCGA-66-2742-01A-01D-0983-08	TCGA-66-2742-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	07047a99-45bd-4df6-ad6f-934a48e8e213	09de7b21-79a1-4b8c-a835-7f7a4481f4d5	g.chr10:48389413C>G	uc001jez.2	-	1	1579	c.1465G>C	c.(1465-1467)GTG>CTG	p.V489L		NM_002900	NP_002891	P10745	RET3_HUMAN	retinol-binding protein 3 precursor	489	4 X approximate tandem repeats.|2.				lipid metabolic process|proteolysis|transport|visual perception	interphotoreceptor matrix	retinal binding|serine-type peptidase activity			large_intestine(1)|central_nervous_system(1)	2					Vitamin A(DB00162)	AGCAGGGGCACAGCAGAGGAT	0.642													7	6	---	---	---	---	PASS
SLC18A3	6572	broad.mit.edu	37	10	50820165	50820165	+	Missense_Mutation	SNP	T	A	A			TCGA-66-2742-01A-01D-0983-08	TCGA-66-2742-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	07047a99-45bd-4df6-ad6f-934a48e8e213	09de7b21-79a1-4b8c-a835-7f7a4481f4d5	g.chr10:50820165T>A	uc001jhw.2	+	1	1819	c.1379T>A	c.(1378-1380)CTG>CAG	p.L460Q	CHAT_uc001jhv.1_Intron|CHAT_uc001jhx.1_5'Flank|CHAT_uc001jhy.1_5'Flank|CHAT_uc001jia.2_5'Flank|CHAT_uc001jhz.2_5'Flank|CHAT_uc010qgs.1_5'Flank	NM_003055	NP_003046	Q16572	VACHT_HUMAN	vesicular acetylcholine transporter	460	Helical; (Potential).				neurotransmitter secretion	clathrin sculpted acetylcholine transport vesicle membrane|integral to plasma membrane|membrane fraction	acetylcholine transmembrane transporter activity			ovary(2)	2						CTGGCCAACCTGCTCTATGCT	0.637													3	13	---	---	---	---	PASS
CHAT	1103	broad.mit.edu	37	10	50856551	50856551	+	Splice_Site	SNP	A	G	G			TCGA-66-2742-01A-01D-0983-08	TCGA-66-2742-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	07047a99-45bd-4df6-ad6f-934a48e8e213	09de7b21-79a1-4b8c-a835-7f7a4481f4d5	g.chr10:50856551A>G	uc001jhz.2	+	9	1435	c.1282_splice	c.e9-2	p.F428_splice	CHAT_uc001jhv.1_Splice_Site_p.F310_splice|CHAT_uc001jhx.1_Splice_Site_p.F310_splice|CHAT_uc001jhy.1_Splice_Site_p.F310_splice|CHAT_uc001jia.2_Splice_Site_p.F310_splice|CHAT_uc010qgs.1_Splice_Site_p.F310_splice	NM_020549	NP_065574	P28329	CLAT_HUMAN	choline acetyltransferase isoform 2						neurotransmitter biosynthetic process|neurotransmitter secretion	cytosol|nucleus	choline O-acetyltransferase activity			central_nervous_system(3)	3		all_neural(218;0.107)		GBM - Glioblastoma multiforme(2;0.000585)	Choline(DB00122)	TTCCTGTTGCAGTTTGTGGTG	0.607													3	9	---	---	---	---	PASS
PDLIM1	9124	broad.mit.edu	37	10	97007015	97007015	+	Silent	SNP	C	T	T			TCGA-66-2742-01A-01D-0983-08	TCGA-66-2742-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	07047a99-45bd-4df6-ad6f-934a48e8e213	09de7b21-79a1-4b8c-a835-7f7a4481f4d5	g.chr10:97007015C>T	uc001kkh.2	-	5	751	c.642G>A	c.(640-642)ACG>ACA	p.T214T	PDLIM1_uc001kki.2_Silent_p.T214T|PDLIM1_uc009xuv.2_Silent_p.T214T|PDLIM1_uc001kkj.1_Silent_p.T214T	NM_020992	NP_066272	O00151	PDLI1_HUMAN	PDZ and LIM domain 1	214					response to oxidative stress	cytoplasm|cytoskeleton	zinc ion binding				0		Colorectal(252;0.083)		Epithelial(162;1.64e-06)|all cancers(201;3.71e-05)		CCAAGAAAGACGTGGACTGTT	0.468													19	95	---	---	---	---	PASS
C10orf62	414157	broad.mit.edu	37	10	99350269	99350269	+	Silent	SNP	C	T	T			TCGA-66-2742-01A-01D-0983-08	TCGA-66-2742-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	07047a99-45bd-4df6-ad6f-934a48e8e213	09de7b21-79a1-4b8c-a835-7f7a4481f4d5	g.chr10:99350269C>T	uc001koa.2	+	1	786	c.615C>T	c.(613-615)CAC>CAT	p.H205H	DHDPSL_uc001knx.2_Intron|DHDPSL_uc001kny.2_Intron|DHDPSL_uc001knz.2_Intron|PI4K2A_uc010qoy.1_Intron	NM_001009997	NP_001009997	Q5T681	CJ062_HUMAN	hypothetical protein LOC414157	205	His-rich.						protein binding				0		Colorectal(252;0.162)		Epithelial(162;9.58e-11)|all cancers(201;8.62e-09)		ACAGTCACCACAGTCACCATG	0.532													10	38	---	---	---	---	PASS
PSD	5662	broad.mit.edu	37	10	104176612	104176612	+	Missense_Mutation	SNP	G	A	A			TCGA-66-2742-01A-01D-0983-08	TCGA-66-2742-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	07047a99-45bd-4df6-ad6f-934a48e8e213	09de7b21-79a1-4b8c-a835-7f7a4481f4d5	g.chr10:104176612G>A	uc001kvg.1	-	2	711	c.184C>T	c.(184-186)CGT>TGT	p.R62C	PSD_uc001kvh.1_Intron|PSD_uc009xxd.1_Missense_Mutation_p.R62C|PSD_uc001kvi.1_Missense_Mutation_p.R62C|FBXL15_uc001kvj.1_5'Flank|FBXL15_uc001kvk.2_5'Flank	NM_002779	NP_002770	A5PKW4	PSD1_HUMAN	pleckstrin and Sec7 domain containing	62	Pro-rich.				regulation of ARF protein signal transduction	cytoplasm|plasma membrane|ruffle	ARF guanyl-nucleotide exchange factor activity|signal transducer activity			breast(2)|urinary_tract(1)	3				Epithelial(162;1.27e-08)|all cancers(201;2.85e-07)		GCTGTCACACGTCCCAGTTCC	0.697													13	23	---	---	---	---	PASS
COL17A1	1308	broad.mit.edu	37	10	105814742	105814742	+	Nonsense_Mutation	SNP	T	A	A			TCGA-66-2742-01A-01D-0983-08	TCGA-66-2742-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	07047a99-45bd-4df6-ad6f-934a48e8e213	09de7b21-79a1-4b8c-a835-7f7a4481f4d5	g.chr10:105814742T>A	uc001kxr.2	-	20	1910	c.1741A>T	c.(1741-1743)AAA>TAA	p.K581*	COL17A1_uc010qqv.1_Nonsense_Mutation_p.K565*	NM_000494	NP_000485	Q9UMD9	COHA1_HUMAN	alpha 1 type XVII collagen	581	Extracellular (Potential).|Triple-helical region.				cell-matrix adhesion|epidermis development|hemidesmosome assembly	basement membrane|cell-cell junction|collagen|hemidesmosome|integral to plasma membrane	protein binding			ovary(4)|pancreas(1)	5		Colorectal(252;0.103)|Breast(234;0.122)		Epithelial(162;2.5e-09)|all cancers(201;7.94e-08)|BRCA - Breast invasive adenocarcinoma(275;0.0165)		TAATTACCTTTAGGGCCTGGA	0.398													6	31	---	---	---	---	PASS
FAM53B	9679	broad.mit.edu	37	10	126311970	126311970	+	Missense_Mutation	SNP	C	A	A			TCGA-66-2742-01A-01D-0983-08	TCGA-66-2742-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	07047a99-45bd-4df6-ad6f-934a48e8e213	09de7b21-79a1-4b8c-a835-7f7a4481f4d5	g.chr10:126311970C>A	uc001lhv.1	-	5	1633	c.1110G>T	c.(1108-1110)CAG>CAT	p.Q370H	FAM53B_uc001lhu.1_Intron	NM_014661	NP_055476	Q14153	FA53B_HUMAN	hypothetical protein LOC9679	370										ovary(1)|pancreas(1)	2		all_lung(145;0.0191)|Lung NSC(174;0.0301)|Colorectal(57;0.106)|all_neural(114;0.117)		COAD - Colon adenocarcinoma(40;0.141)|Colorectal(40;0.15)		ACAGGTCCTCCTGGCAGGCGA	0.726													8	12	---	---	---	---	PASS
OR51V1	283111	broad.mit.edu	37	11	5221861	5221861	+	Missense_Mutation	SNP	T	G	G			TCGA-66-2742-01A-01D-0983-08	TCGA-66-2742-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	07047a99-45bd-4df6-ad6f-934a48e8e213	09de7b21-79a1-4b8c-a835-7f7a4481f4d5	g.chr11:5221861T>G	uc010qyz.1	-	1	70	c.70A>C	c.(70-72)ACT>CCT	p.T24P		NM_001004760	NP_001004760	Q9H2C8	O51V1_HUMAN	olfactory receptor, family 51, subfamily V,	24	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			skin(1)	1		Medulloblastoma(188;0.00225)|Breast(177;0.0155)|all_neural(188;0.0212)		Epithelial(150;2.83e-09)|BRCA - Breast invasive adenocarcinoma(625;0.135)		GAAAATCCAGTGAGAAGAAAG	0.438													21	37	---	---	---	---	PASS
OR51B6	390058	broad.mit.edu	37	11	5373352	5373352	+	Silent	SNP	C	G	G			TCGA-66-2742-01A-01D-0983-08	TCGA-66-2742-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	07047a99-45bd-4df6-ad6f-934a48e8e213	09de7b21-79a1-4b8c-a835-7f7a4481f4d5	g.chr11:5373352C>G	uc010qzb.1	+	1	615	c.615C>G	c.(613-615)GTC>GTG	p.V205V	HBG2_uc001mak.1_Intron|HBE1_uc001mam.1_Intron|OR51B5_uc001maq.1_Intron	NM_001004750	NP_001004750	Q9H340	O51B6_HUMAN	olfactory receptor, family 51, subfamily B,	205	Helical; Name=5; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)|skin(1)	2		Medulloblastoma(188;0.0075)|all_neural(188;0.0572)|Breast(177;0.0675)		Epithelial(150;2.9e-09)|BRCA - Breast invasive adenocarcinoma(625;0.135)		TTGCAATGGTCTTGTTGGACT	0.443													13	33	---	---	---	---	PASS
MYOD1	4654	broad.mit.edu	37	11	17741491	17741491	+	Silent	SNP	C	A	A			TCGA-66-2742-01A-01D-0983-08	TCGA-66-2742-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	07047a99-45bd-4df6-ad6f-934a48e8e213	09de7b21-79a1-4b8c-a835-7f7a4481f4d5	g.chr11:17741491C>A	uc001mni.2	+	1	382	c.162C>A	c.(160-162)GGC>GGA	p.G54G		NM_002478	NP_002469	P15172	MYOD1_HUMAN	myogenic differentiation 1	54					muscle cell fate commitment|positive regulation of muscle cell differentiation|positive regulation of transcription from RNA polymerase II promoter|protein phosphorylation|skeletal muscle tissue development	nuclear chromatin|transcription factor complex	E-box binding|protein heterodimerization activity|sequence-specific enhancer binding RNA polymerase II transcription factor activity|transcription coactivator activity			breast(2)|ovary(1)	3						TGCACGTGGGCGCGCTCCTGA	0.687													11	4	---	---	---	---	PASS
MRGPRX1	259249	broad.mit.edu	37	11	18955986	18955986	+	Missense_Mutation	SNP	C	G	G	rs145122494		TCGA-66-2742-01A-01D-0983-08	TCGA-66-2742-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	07047a99-45bd-4df6-ad6f-934a48e8e213	09de7b21-79a1-4b8c-a835-7f7a4481f4d5	g.chr11:18955986C>G	uc001mpg.2	-	1	564	c.346G>C	c.(346-348)GTG>CTG	p.V116L		NM_147199	NP_671732	Q96LB2	MRGX1_HUMAN	MAS-related GPR, member X1	116	Helical; Name=3; (Potential).				acute-phase response	integral to membrane|plasma membrane	G-protein coupled receptor activity			pancreas(2)|central_nervous_system(1)	3						TCGGTGCTCACGGCACTCAGA	0.567													25	31	---	---	---	---	PASS
OR4C11	219429	broad.mit.edu	37	11	55371721	55371721	+	Silent	SNP	A	T	T			TCGA-66-2742-01A-01D-0983-08	TCGA-66-2742-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	07047a99-45bd-4df6-ad6f-934a48e8e213	09de7b21-79a1-4b8c-a835-7f7a4481f4d5	g.chr11:55371721A>T	uc010rii.1	-	1	129	c.129T>A	c.(127-129)ATT>ATA	p.I43I		NM_001004700	NP_001004700	Q6IEV9	OR4CB_HUMAN	olfactory receptor, family 4, subfamily C,	43	Helical; Name=1; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)	1						TGGTCACAATAATGAGCATAT	0.403													27	30	---	---	---	---	PASS
OR5M9	390162	broad.mit.edu	37	11	56230073	56230073	+	Missense_Mutation	SNP	C	A	A			TCGA-66-2742-01A-01D-0983-08	TCGA-66-2742-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	07047a99-45bd-4df6-ad6f-934a48e8e213	09de7b21-79a1-4b8c-a835-7f7a4481f4d5	g.chr11:56230073C>A	uc010rjj.1	-	1	805	c.805G>T	c.(805-807)GGC>TGC	p.G269C		NM_001004743	NP_001004743	Q8NGP3	OR5M9_HUMAN	olfactory receptor, family 5, subfamily M,	269	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			skin(2)|ovary(1)|central_nervous_system(1)	4	Esophageal squamous(21;0.00448)					ACCATTTTGCCCTGCTCTACG	0.458													19	19	---	---	---	---	PASS
NXF1	10482	broad.mit.edu	37	11	62569222	62569222	+	Missense_Mutation	SNP	C	T	T			TCGA-66-2742-01A-01D-0983-08	TCGA-66-2742-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	07047a99-45bd-4df6-ad6f-934a48e8e213	09de7b21-79a1-4b8c-a835-7f7a4481f4d5	g.chr11:62569222C>T	uc001nvf.1	-	6	764	c.628G>A	c.(628-630)GAA>AAA	p.E210K	NXF1_uc001nvg.1_Missense_Mutation_p.E210K|NXF1_uc009yog.1_Missense_Mutation_p.E253K|NXF1_uc010rmh.1_Missense_Mutation_p.E73K	NM_006362	NP_006353	Q9UBU9	NXF1_HUMAN	nuclear RNA export factor 1 isoform 1	210	Interaction with THOC4.				gene expression|interspecies interaction between organisms	cytosol|nuclear speck	nucleotide binding|protein binding			skin(3)	3						TTTAGCTGTTCTACTTGTTCT	0.473													101	58	---	---	---	---	PASS
SLCO2B1	11309	broad.mit.edu	37	11	74883491	74883491	+	Silent	SNP	T	A	A			TCGA-66-2742-01A-01D-0983-08	TCGA-66-2742-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	07047a99-45bd-4df6-ad6f-934a48e8e213	09de7b21-79a1-4b8c-a835-7f7a4481f4d5	g.chr11:74883491T>A	uc001owb.2	+	7	1236	c.849T>A	c.(847-849)GCT>GCA	p.A283A	SLCO2B1_uc010rrq.1_Silent_p.A28A|SLCO2B1_uc010rrr.1_Silent_p.A139A|SLCO2B1_uc010rrs.1_Silent_p.A167A|SLCO2B1_uc001owc.2_Silent_p.A56A|SLCO2B1_uc001owd.2_Silent_p.A261A	NM_007256	NP_009187	O94956	SO2B1_HUMAN	solute carrier organic anion transporter family,	283	Helical; Name=6; (Potential).				sodium-independent organic anion transport	integral to membrane	sodium-independent organic anion transmembrane transporter activity			ovary(1)|breast(1)	2					Ergoloid mesylate(DB01049)	TCCTCATCGCTGCCGGTGCAG	0.562													25	25	---	---	---	---	PASS
FAT3	120114	broad.mit.edu	37	11	92495111	92495111	+	Silent	SNP	G	A	A			TCGA-66-2742-01A-01D-0983-08	TCGA-66-2742-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	07047a99-45bd-4df6-ad6f-934a48e8e213	09de7b21-79a1-4b8c-a835-7f7a4481f4d5	g.chr11:92495111G>A	uc001pdj.3	+	4	3776	c.3759G>A	c.(3757-3759)CAG>CAA	p.Q1253Q		NM_001008781	NP_001008781	Q8TDW7	FAT3_HUMAN	FAT tumor suppressor homolog 3	1253	Cadherin 11.|Extracellular (Potential).				homophilic cell adhesion|multicellular organismal development	integral to membrane|plasma membrane	calcium ion binding			ovary(4)|pancreas(1)	5		Acute lymphoblastic leukemia(157;3.01e-05)|all_hematologic(158;0.00858)				ACAAGCCCCAGTTCCCAGAGA	0.483										TCGA Ovarian(4;0.039)			109	91	---	---	---	---	PASS
CD3D	915	broad.mit.edu	37	11	118211200	118211200	+	Missense_Mutation	SNP	A	T	T			TCGA-66-2742-01A-01D-0983-08	TCGA-66-2742-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	07047a99-45bd-4df6-ad6f-934a48e8e213	09de7b21-79a1-4b8c-a835-7f7a4481f4d5	g.chr11:118211200A>T	uc001pss.1	-	2	301	c.164T>A	c.(163-165)ATT>AAT	p.I55N	CD3D_uc001pst.1_Missense_Mutation_p.I55N	NM_000732	NP_000723	P04234	CD3D_HUMAN	CD3 antigen, delta subunit isoform A precursor	55	Extracellular (Potential).				positive thymic T cell selection|T cell costimulation|T cell receptor signaling pathway	cytoplasm|integral to membrane	protein heterodimerization activity			ovary(1)	1	all_hematologic(175;0.046)	Medulloblastoma(222;0.0425)|Breast(348;0.181)|all_hematologic(192;0.196)|all_neural(223;0.234)		BRCA - Breast invasive adenocarcinoma(274;3.04e-05)		CAGTCTTGTAATGTCTGAGAG	0.448													13	25	---	---	---	---	PASS
OR8B2	26595	broad.mit.edu	37	11	124252427	124252427	+	Missense_Mutation	SNP	T	G	G			TCGA-66-2742-01A-01D-0983-08	TCGA-66-2742-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	07047a99-45bd-4df6-ad6f-934a48e8e213	09de7b21-79a1-4b8c-a835-7f7a4481f4d5	g.chr11:124252427T>G	uc010sai.1	-	1	813	c.813A>C	c.(811-813)AAA>AAC	p.K271N		NM_001005468	NP_001005468	Q96RD0	OR8B2_HUMAN	olfactory receptor, family 8, subfamily B,	271	Helical; Name=7; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity				0		Breast(109;0.0115)|Medulloblastoma(222;0.0523)|Lung NSC(97;0.118)|all_lung(97;0.126)|all_neural(223;0.224)		BRCA - Breast invasive adenocarcinoma(274;1.49e-06)|OV - Ovarian serous cystadenocarcinoma(99;0.0277)		CAGAAGAAACTTTTCCCTGCT	0.418													13	73	---	---	---	---	PASS
OR8B2	26595	broad.mit.edu	37	11	124252924	124252924	+	Missense_Mutation	SNP	A	G	G			TCGA-66-2742-01A-01D-0983-08	TCGA-66-2742-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	07047a99-45bd-4df6-ad6f-934a48e8e213	09de7b21-79a1-4b8c-a835-7f7a4481f4d5	g.chr11:124252924A>G	uc010sai.1	-	1	316	c.316T>C	c.(316-318)TTT>CTT	p.F106L		NM_001005468	NP_001005468	Q96RD0	OR8B2_HUMAN	olfactory receptor, family 8, subfamily B,	106	Helical; Name=3; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity				0		Breast(109;0.0115)|Medulloblastoma(222;0.0523)|Lung NSC(97;0.118)|all_lung(97;0.126)|all_neural(223;0.224)		BRCA - Breast invasive adenocarcinoma(274;1.49e-06)|OV - Ovarian serous cystadenocarcinoma(99;0.0277)		ATGACGAAAAAGAGAAAGAAA	0.388													61	48	---	---	---	---	PASS
LST-3TM12	338821	broad.mit.edu	37	12	21175876	21175876	+	Missense_Mutation	SNP	G	T	T			TCGA-66-2742-01A-01D-0983-08	TCGA-66-2742-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	07047a99-45bd-4df6-ad6f-934a48e8e213	09de7b21-79a1-4b8c-a835-7f7a4481f4d5	g.chr12:21175876G>T	uc010sin.1	+	4	433	c.433G>T	c.(433-435)GGG>TGG	p.G145W	SLCO1B3_uc010sil.1_Intron|LST-3TM12_uc010sim.1_Missense_Mutation_p.G192W	NM_001009562	NP_001009562	Q71QF0	Q71QF0_HUMAN	liver-specific organic anion transporter 3TM12	145						membrane	transporter activity				0						AGTACCATTGGGGATTTCTTA	0.383													10	21	---	---	---	---	PASS
ADAMTS20	80070	broad.mit.edu	37	12	43858395	43858395	+	Missense_Mutation	SNP	A	G	G			TCGA-66-2742-01A-01D-0983-08	TCGA-66-2742-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	07047a99-45bd-4df6-ad6f-934a48e8e213	09de7b21-79a1-4b8c-a835-7f7a4481f4d5	g.chr12:43858395A>G	uc010skx.1	-	10	1508	c.1508T>C	c.(1507-1509)ATA>ACA	p.I503T		NM_025003	NP_079279	P59510	ATS20_HUMAN	a disintegrin-like and metalloprotease with	503	Disintegrin.					proteinaceous extracellular matrix	zinc ion binding			central_nervous_system(5)|ovary(4)|lung(3)|large_intestine(2)|skin(2)|urinary_tract(1)|kidney(1)|pancreas(1)	19	all_cancers(12;2.6e-05)|Lung SC(27;0.184)	Lung NSC(34;0.0569)|all_lung(34;0.129)		GBM - Glioblastoma multiforme(48;0.0473)		TTTTCTTACTATATGGGGACA	0.338													16	37	---	---	---	---	PASS
ERBB3	2065	broad.mit.edu	37	12	56495001	56495001	+	Missense_Mutation	SNP	A	G	G			TCGA-66-2742-01A-01D-0983-08	TCGA-66-2742-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	07047a99-45bd-4df6-ad6f-934a48e8e213	09de7b21-79a1-4b8c-a835-7f7a4481f4d5	g.chr12:56495001A>G	uc001sjh.2	+	27	3551	c.3358A>G	c.(3358-3360)AGG>GGG	p.R1120G	ERBB3_uc009zoj.2_RNA|ERBB3_uc010sqb.1_Missense_Mutation_p.R477G|ERBB3_uc010sqc.1_Missense_Mutation_p.R1061G|ERBB3_uc009zok.2_Missense_Mutation_p.R385G|ERBB3_uc001sjk.2_Missense_Mutation_p.R361G|ERBB3_uc001sjl.2_Missense_Mutation_p.R240G	NM_001982	NP_001973	P21860	ERBB3_HUMAN	erbB-3 isoform 1 precursor	1120	Cytoplasmic (Potential).				cranial nerve development|heart development|negative regulation of cell adhesion|negative regulation of neuron apoptosis|negative regulation of secretion|negative regulation of signal transduction|neuron apoptosis|phosphatidylinositol 3-kinase cascade|positive regulation of phosphatidylinositol 3-kinase cascade|regulation of cell proliferation|Schwann cell differentiation|transmembrane receptor protein tyrosine kinase signaling pathway|wound healing	basolateral plasma membrane|extracellular space|integral to plasma membrane|receptor complex	ATP binding|growth factor binding|protein heterodimerization activity|protein homodimerization activity|protein tyrosine kinase activator activity|receptor signaling protein tyrosine kinase activity|transmembrane receptor protein tyrosine kinase activity			lung(3)|central_nervous_system(2)|stomach(1)|ovary(1)|skin(1)	8			OV - Ovarian serous cystadenocarcinoma(18;0.112)			GAGCCGGAGCAGGAGCCGGAG	0.612													13	17	---	---	---	---	PASS
GEFT	115557	broad.mit.edu	37	12	58006770	58006770	+	Missense_Mutation	SNP	T	G	G			TCGA-66-2742-01A-01D-0983-08	TCGA-66-2742-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	07047a99-45bd-4df6-ad6f-934a48e8e213	09de7b21-79a1-4b8c-a835-7f7a4481f4d5	g.chr12:58006770T>G	uc001spb.2	+	2	615	c.155T>G	c.(154-156)CTG>CGG	p.L52R	GEFT_uc009zpy.2_Missense_Mutation_p.L91R|GEFT_uc001soz.1_Intron|GEFT_uc001spa.2_Intron|uc001spc.2_RNA|GEFT_uc001spd.2_5'Flank	NM_182947	NP_891992	Q86VW2	ARHGP_HUMAN	RhoA/RAC/CDC42 exchange factor isoform 1	52					regulation of Rho protein signal transduction	cytosol|plasma membrane|sarcomere	Rho guanyl-nucleotide exchange factor activity				0	Melanoma(17;0.122)					GCCTCCGGTCTGGCTGCCCCc	0.493													14	44	---	---	---	---	PASS
DYRK2	8445	broad.mit.edu	37	12	68051334	68051334	+	Missense_Mutation	SNP	A	T	T			TCGA-66-2742-01A-01D-0983-08	TCGA-66-2742-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	07047a99-45bd-4df6-ad6f-934a48e8e213	09de7b21-79a1-4b8c-a835-7f7a4481f4d5	g.chr12:68051334A>T	uc001str.3	+	3	1049	c.647A>T	c.(646-648)GAT>GTT	p.D216V	DYRK2_uc001sts.3_Missense_Mutation_p.D143V	NM_006482	NP_006473	Q92630	DYRK2_HUMAN	dual-specificity tyrosine-(Y)-phosphorylation	216					apoptosis|DNA damage response, signal transduction by p53 class mediator resulting in induction of apoptosis|positive regulation of glycogen biosynthetic process|smoothened signaling pathway	cytoplasm|nucleus	ATP binding|magnesium ion binding|manganese ion binding|protein serine/threonine kinase activity|protein tyrosine kinase activity			ovary(2)|breast(1)|central_nervous_system(1)	4			Lung(24;6.81e-05)|LUAD - Lung adenocarcinoma(15;0.00107)|LUSC - Lung squamous cell carcinoma(43;0.196)	GBM - Glioblastoma multiforme(7;0.000573)		GTGCCCCACGATCACGTGGCT	0.552													4	25	---	---	---	---	PASS
MGAT4C	25834	broad.mit.edu	37	12	86374058	86374058	+	Missense_Mutation	SNP	C	T	T			TCGA-66-2742-01A-01D-0983-08	TCGA-66-2742-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	07047a99-45bd-4df6-ad6f-934a48e8e213	09de7b21-79a1-4b8c-a835-7f7a4481f4d5	g.chr12:86374058C>T	uc001tai.3	-	8	1696	c.446G>A	c.(445-447)CGT>CAT	p.R149H	MGAT4C_uc001tal.3_Missense_Mutation_p.R149H|MGAT4C_uc001taj.3_Missense_Mutation_p.R149H|MGAT4C_uc001tak.3_Missense_Mutation_p.R149H|MGAT4C_uc010sum.1_Missense_Mutation_p.R173H|MGAT4C_uc001tah.3_Missense_Mutation_p.R149H	NM_013244	NP_037376	Q9UBM8	MGT4C_HUMAN	alpha-1,3-mannosyl-glycoprotein	149	Lumenal (Potential).				post-translational protein modification|protein N-linked glycosylation via asparagine	Golgi membrane|integral to membrane	alpha-1,3-mannosylglycoprotein 4-beta-N-acetylglucosaminyltransferase activity|metal ion binding			ovary(3)	3						CATGGCATCACGCCAGGAAGA	0.398													5	34	---	---	---	---	PASS
IKBIP	121457	broad.mit.edu	37	12	99007962	99007962	+	Missense_Mutation	SNP	G	C	C			TCGA-66-2742-01A-01D-0983-08	TCGA-66-2742-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	07047a99-45bd-4df6-ad6f-934a48e8e213	09de7b21-79a1-4b8c-a835-7f7a4481f4d5	g.chr12:99007962G>C	uc001tfv.2	-	3	564	c.454C>G	c.(454-456)CAA>GAA	p.Q152E	IKBIP_uc001tfw.2_3'UTR	NM_201612	NP_963906	Q70UQ0	IKIP_HUMAN	IKK interacting protein isoform 2	152					induction of apoptosis|response to X-ray	endoplasmic reticulum membrane|integral to membrane	protein binding				0						GTAATGTCTTGAGAAAGCGTC	0.363													6	54	---	---	---	---	PASS
SCYL2	55681	broad.mit.edu	37	12	100709335	100709335	+	Splice_Site	SNP	G	T	T			TCGA-66-2742-01A-01D-0983-08	TCGA-66-2742-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	07047a99-45bd-4df6-ad6f-934a48e8e213	09de7b21-79a1-4b8c-a835-7f7a4481f4d5	g.chr12:100709335G>T	uc001thn.2	+	9	1146	c.1096_splice	c.e9-1	p.R366_splice	SCYL2_uc009ztw.1_Splice_Site_p.R193_splice|SCYL2_uc001thm.1_Splice_Site_p.R366_splice	NM_017988	NP_060458	Q6P3W7	SCYL2_HUMAN	SCY1-like 2 protein						endosome to lysosome transport|negative regulation of canonical Wnt receptor signaling pathway|positive regulation of clathrin-mediated endocytosis|positive regulation of receptor internalization	clathrin-coated vesicle|endosome membrane|Golgi apparatus|perinuclear region of cytoplasm	ATP binding|protein kinase activity|receptor binding			lung(3)|ovary(2)|skin(1)	6						TTGCCTTTCAGCGTGTCATTG	0.318													12	22	---	---	---	---	PASS
NR1H4	9971	broad.mit.edu	37	12	100897258	100897258	+	Missense_Mutation	SNP	T	A	A			TCGA-66-2742-01A-01D-0983-08	TCGA-66-2742-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	07047a99-45bd-4df6-ad6f-934a48e8e213	09de7b21-79a1-4b8c-a835-7f7a4481f4d5	g.chr12:100897258T>A	uc001tht.1	+	1	121	c.93T>A	c.(91-93)AGT>AGA	p.S31R	NR1H4_uc001thp.1_Intron|NR1H4_uc001thq.1_Intron|NR1H4_uc010svj.1_Intron|NR1H4_uc001thr.1_Intron|NR1H4_uc010svk.1_Intron|NR1H4_uc001ths.1_Missense_Mutation_p.S31R	NM_005123	NP_005114	Q96RI1	NR1H4_HUMAN	nuclear receptor subfamily 1, group H, member 4	31					bile acid metabolic process|regulation of transcription from RNA polymerase II promoter by nuclear hormone receptor	nucleoplasm	protein binding|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|steroid hormone receptor activity|thyroid hormone receptor activity|transcription coactivator activity|transcription corepressor activity|zinc ion binding			ovary(1)|lung(1)|skin(1)	3						AAATGATGAGTATGAAGCCCG	0.463													4	23	---	---	---	---	PASS
STAB2	55576	broad.mit.edu	37	12	104133214	104133214	+	Missense_Mutation	SNP	A	G	G			TCGA-66-2742-01A-01D-0983-08	TCGA-66-2742-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	07047a99-45bd-4df6-ad6f-934a48e8e213	09de7b21-79a1-4b8c-a835-7f7a4481f4d5	g.chr12:104133214A>G	uc001tjw.2	+	54	5908	c.5722A>G	c.(5722-5724)ACT>GCT	p.T1908A	STAB2_uc009zug.2_RNA	NM_017564	NP_060034	Q8WWQ8	STAB2_HUMAN	stabilin 2 precursor	1908	Extracellular (Potential).				angiogenesis|cell adhesion|defense response to bacterium|receptor-mediated endocytosis	cytoplasm|external side of plasma membrane|integral to plasma membrane	Gram-negative bacterial cell surface binding|hyaluronic acid binding|low-density lipoprotein receptor activity|protein disulfide oxidoreductase activity|scavenger receptor activity			ovary(9)|skin(5)	14						CTGTGTCAATACTCCCAGCTG	0.398													4	34	---	---	---	---	PASS
NAA25	80018	broad.mit.edu	37	12	112481660	112481660	+	Silent	SNP	T	C	C			TCGA-66-2742-01A-01D-0983-08	TCGA-66-2742-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	07047a99-45bd-4df6-ad6f-934a48e8e213	09de7b21-79a1-4b8c-a835-7f7a4481f4d5	g.chr12:112481660T>C	uc001ttm.2	-	18	2039	c.2019A>G	c.(2017-2019)GAA>GAG	p.E673E	NAA25_uc001ttn.3_RNA|NAA25_uc009zvz.1_Silent_p.E645E|NAA25_uc009zwa.1_Silent_p.E673E	NM_024953	NP_079229	Q14CX7	NAA25_HUMAN	mitochondrial distribution and morphology 20	673						cytoplasm	protein binding			ovary(1)|breast(1)|pancreas(1)	3						TCTTATGTTCTTCAGAAACGT	0.333													8	49	---	---	---	---	PASS
GPR12	2835	broad.mit.edu	37	13	27333507	27333507	+	Missense_Mutation	SNP	G	A	A			TCGA-66-2742-01A-01D-0983-08	TCGA-66-2742-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	07047a99-45bd-4df6-ad6f-934a48e8e213	09de7b21-79a1-4b8c-a835-7f7a4481f4d5	g.chr13:27333507G>A	uc010aal.2	-	2	680	c.458C>T	c.(457-459)ACG>ATG	p.T153M	GPR12_uc010tdl.1_Translation_Start_Site	NM_005288	NP_005279	P47775	GPR12_HUMAN	G protein-coupled receptor 12	153	Cytoplasmic (Potential).					integral to plasma membrane					0	Colorectal(5;5.77e-05)	Breast(139;0.198)		Epithelial(112;9.37e-07)|OV - Ovarian serous cystadenocarcinoma(117;1.16e-06)|all cancers(112;8.31e-06)|GBM - Glioblastoma multiforme(144;0.00121)|Lung(94;0.111)|LUSC - Lung squamous cell carcinoma(192;0.184)		AAACGTGACCGTCCTCTCCGA	0.577													8	52	---	---	---	---	PASS
NUFIP1	26747	broad.mit.edu	37	13	45517626	45517626	+	Missense_Mutation	SNP	T	A	A			TCGA-66-2742-01A-01D-0983-08	TCGA-66-2742-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	07047a99-45bd-4df6-ad6f-934a48e8e213	09de7b21-79a1-4b8c-a835-7f7a4481f4d5	g.chr13:45517626T>A	uc001uzp.2	-	9	1364	c.1322A>T	c.(1321-1323)TAT>TTT	p.Y441F		NM_012345	NP_036477	Q9UHK0	NUFP1_HUMAN	nuclear fragile X mental retardation protein	441					box C/D snoRNP assembly|positive regulation of transcription from RNA polymerase II promoter|RNA processing	actin cytoskeleton|cytosolic ribosome|nuclear matrix|nucleolus|perichromatin fibrils|pre-snoRNP complex|presynaptic active zone|transcription elongation factor complex	DNA binding|identical protein binding|protein binding, bridging|RNA binding|zinc ion binding				0		Lung NSC(96;8.23e-05)|Breast(139;0.00378)|Prostate(109;0.0107)|all_hematologic(4;0.014)|Lung SC(185;0.0262)|Hepatocellular(98;0.0524)|Acute lymphoblastic leukemia(4;0.143)	KIRC - Kidney renal clear cell carcinoma(16;0.234)	GBM - Glioblastoma multiforme(144;0.000306)|BRCA - Breast invasive adenocarcinoma(63;0.125)		TAACGTTTGATAGTTGTGATA	0.323													29	33	---	---	---	---	PASS
EDNRB	1910	broad.mit.edu	37	13	78492558	78492558	+	Missense_Mutation	SNP	T	C	C			TCGA-66-2742-01A-01D-0983-08	TCGA-66-2742-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	07047a99-45bd-4df6-ad6f-934a48e8e213	09de7b21-79a1-4b8c-a835-7f7a4481f4d5	g.chr13:78492558T>C	uc001vko.2	-	1	409	c.151A>G	c.(151-153)AAG>GAG	p.K51E	uc001vks.2_5'Flank|EDNRB_uc001vkq.1_Missense_Mutation_p.K51E|EDNRB_uc010aez.1_Missense_Mutation_p.K51E|EDNRB_uc001vkp.1_Missense_Mutation_p.K134E|EDNRB_uc010afa.1_Missense_Mutation_p.K51E	NM_001122659	NP_001116131	P24530	EDNRB_HUMAN	endothelin receptor type B isoform 1 precursor	51	Extracellular (Potential).				activation of phospholipase C activity by G-protein coupled receptor protein signaling pathway coupled to IP3 second messenger|enteric nervous system development|enteric smooth muscle cell differentiation|macrophage chemotaxis|negative regulation of adenylate cyclase activity|negative regulation of cellular protein metabolic process|negative regulation of neuron maturation|negative regulation of transcription from RNA polymerase II promoter|vein smooth muscle contraction	integral to plasma membrane	endothelin-B receptor activity|peptide hormone binding				0		Acute lymphoblastic leukemia(28;0.0279)|Breast(118;0.037)		GBM - Glioblastoma multiforme(99;0.0933)	Bosentan(DB00559)	CATAAGGTCTTAGTGGGTGGC	0.632													22	23	---	---	---	---	PASS
GPC5	2262	broad.mit.edu	37	13	92345764	92345764	+	Missense_Mutation	SNP	A	T	T			TCGA-66-2742-01A-01D-0983-08	TCGA-66-2742-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	07047a99-45bd-4df6-ad6f-934a48e8e213	09de7b21-79a1-4b8c-a835-7f7a4481f4d5	g.chr13:92345764A>T	uc010tif.1	+	3	1015	c.649A>T	c.(649-651)AGG>TGG	p.R217W		NM_004466	NP_004457	P78333	GPC5_HUMAN	glypican 5 precursor	217						anchored to membrane|extracellular space|integral to plasma membrane|proteinaceous extracellular matrix	heparan sulfate proteoglycan binding			ovary(2)|skin(2)|upper_aerodigestive_tract(1)	5	all_cancers(3;1.43e-07)|all_neural(89;0.0804)|Medulloblastoma(90;0.163)	Lung NSC(4;0.00454)				ACAGATGGGGAGGTCCCTGCT	0.522													11	13	---	---	---	---	PASS
SLC10A2	6555	broad.mit.edu	37	13	103705015	103705015	+	Missense_Mutation	SNP	C	T	T			TCGA-66-2742-01A-01D-0983-08	TCGA-66-2742-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	07047a99-45bd-4df6-ad6f-934a48e8e213	09de7b21-79a1-4b8c-a835-7f7a4481f4d5	g.chr13:103705015C>T	uc001vpy.3	-	3	1137	c.540G>A	c.(538-540)ATG>ATA	p.M180I		NM_000452	NP_000443	Q12908	NTCP2_HUMAN	solute carrier family 10 (sodium/bile acid	180	Extracellular (Potential).				bile acid metabolic process|organic anion transport	integral to plasma membrane	bile acid:sodium symporter activity			ovary(3)|skin(1)	4	all_neural(89;0.0662)|Medulloblastoma(90;0.163)|Lung SC(71;0.211)					GATTAACAAACATTCCAATGG	0.388													32	30	---	---	---	---	PASS
OR4K5	79317	broad.mit.edu	37	14	20388876	20388876	+	Silent	SNP	C	A	A			TCGA-66-2742-01A-01D-0983-08	TCGA-66-2742-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	07047a99-45bd-4df6-ad6f-934a48e8e213	09de7b21-79a1-4b8c-a835-7f7a4481f4d5	g.chr14:20388876C>A	uc010tkw.1	+	1	111	c.111C>A	c.(109-111)GTC>GTA	p.V37V		NM_001005483	NP_001005483	Q8NGD3	OR4K5_HUMAN	olfactory receptor, family 4, subfamily K,	37	Helical; Name=1; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)|skin(1)	2	all_cancers(95;0.00108)		Epithelial(56;9.96e-07)|all cancers(55;2.95e-06)	GBM - Glioblastoma multiforme(265;0.00327)		TGTATACAGTCATTGTGCTGG	0.408													10	88	---	---	---	---	PASS
KCNH5	27133	broad.mit.edu	37	14	63246548	63246548	+	Missense_Mutation	SNP	G	T	T			TCGA-66-2742-01A-01D-0983-08	TCGA-66-2742-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	07047a99-45bd-4df6-ad6f-934a48e8e213	09de7b21-79a1-4b8c-a835-7f7a4481f4d5	g.chr14:63246548G>T	uc001xfx.2	-	10	1968	c.1917C>A	c.(1915-1917)CAC>CAA	p.H639Q	KCNH5_uc001xfy.2_Intron|KCNH5_uc001xfz.1_Missense_Mutation_p.H581Q	NM_139318	NP_647479	Q8NCM2	KCNH5_HUMAN	potassium voltage-gated channel, subfamily H,	639	cNMP.|Cytoplasmic (Potential).				regulation of transcription, DNA-dependent	integral to membrane	calmodulin binding|two-component sensor activity|voltage-gated potassium channel activity			ovary(4)|skin(4)|central_nervous_system(1)	9				OV - Ovarian serous cystadenocarcinoma(108;0.00958)|BRCA - Breast invasive adenocarcinoma(234;0.168)		GCTTGATGATGTGTAGGTCAC	0.478													28	40	---	---	---	---	PASS
SNW1	22938	broad.mit.edu	37	14	78187074	78187074	+	Missense_Mutation	SNP	T	C	C			TCGA-66-2742-01A-01D-0983-08	TCGA-66-2742-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	07047a99-45bd-4df6-ad6f-934a48e8e213	09de7b21-79a1-4b8c-a835-7f7a4481f4d5	g.chr14:78187074T>C	uc001xuf.2	-	12	1255	c.1228A>G	c.(1228-1230)AGG>GGG	p.R410G	SNW1_uc010tvm.1_Missense_Mutation_p.R335G|SNW1_uc010asu.2_Missense_Mutation_p.R248G|SNW1_uc010tvn.1_Missense_Mutation_p.R410G	NM_012245	NP_036377	Q13573	SNW1_HUMAN	SKI-interacting protein	410					negative regulation of transcription, DNA-dependent|nuclear mRNA splicing, via spliceosome|regulation of transcription from RNA polymerase II promoter	catalytic step 2 spliceosome|nucleoplasm	Notch binding			ovary(1)	1			Kidney(204;0.164)	BRCA - Breast invasive adenocarcinoma(234;0.0291)		TTGAAGAGCCTTTGGTCATAC	0.393													29	66	---	---	---	---	PASS
SNW1	22938	broad.mit.edu	37	14	78187123	78187123	+	Silent	SNP	A	G	G			TCGA-66-2742-01A-01D-0983-08	TCGA-66-2742-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	07047a99-45bd-4df6-ad6f-934a48e8e213	09de7b21-79a1-4b8c-a835-7f7a4481f4d5	g.chr14:78187123A>G	uc001xuf.2	-	12	1206	c.1179T>C	c.(1177-1179)GCT>GCC	p.A393A	SNW1_uc010tvm.1_Silent_p.A318A|SNW1_uc010asu.2_Silent_p.A231A|SNW1_uc010tvn.1_Silent_p.A393A	NM_012245	NP_036377	Q13573	SNW1_HUMAN	SKI-interacting protein	393					negative regulation of transcription, DNA-dependent|nuclear mRNA splicing, via spliceosome|regulation of transcription from RNA polymerase II promoter	catalytic step 2 spliceosome|nucleoplasm	Notch binding			ovary(1)	1			Kidney(204;0.164)	BRCA - Breast invasive adenocarcinoma(234;0.0291)		GAACACCGAGAGCAATAACTT	0.388													24	55	---	---	---	---	PASS
SNW1	22938	broad.mit.edu	37	14	78187124	78187124	+	Missense_Mutation	SNP	G	T	T			TCGA-66-2742-01A-01D-0983-08	TCGA-66-2742-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	07047a99-45bd-4df6-ad6f-934a48e8e213	09de7b21-79a1-4b8c-a835-7f7a4481f4d5	g.chr14:78187124G>T	uc001xuf.2	-	12	1205	c.1178C>A	c.(1177-1179)GCT>GAT	p.A393D	SNW1_uc010tvm.1_Missense_Mutation_p.A318D|SNW1_uc010asu.2_Missense_Mutation_p.A231D|SNW1_uc010tvn.1_Missense_Mutation_p.A393D	NM_012245	NP_036377	Q13573	SNW1_HUMAN	SKI-interacting protein	393					negative regulation of transcription, DNA-dependent|nuclear mRNA splicing, via spliceosome|regulation of transcription from RNA polymerase II promoter	catalytic step 2 spliceosome|nucleoplasm	Notch binding			ovary(1)	1			Kidney(204;0.164)	BRCA - Breast invasive adenocarcinoma(234;0.0291)		AACACCGAGAGCAATAACTTC	0.383													24	54	---	---	---	---	PASS
NRXN3	9369	broad.mit.edu	37	14	79432744	79432744	+	Silent	SNP	C	A	A			TCGA-66-2742-01A-01D-0983-08	TCGA-66-2742-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	07047a99-45bd-4df6-ad6f-934a48e8e213	09de7b21-79a1-4b8c-a835-7f7a4481f4d5	g.chr14:79432744C>A	uc001xun.2	+	9	2144	c.1653C>A	c.(1651-1653)GTC>GTA	p.V551V	NRXN3_uc001xum.1_RNA|NRXN3_uc010asv.1_Silent_p.V676V	NM_004796	NP_004787	Q9Y4C0	NRX3A_HUMAN	neurexin 3 isoform 1 precursor	924	Extracellular (Potential).|Laminin G-like 5.				axon guidance|cell adhesion	integral to plasma membrane	metal ion binding|receptor activity			ovary(3)|upper_aerodigestive_tract(2)|pancreas(2)|central_nervous_system(1)|breast(1)|skin(1)	10		Renal(4;0.00876)		BRCA - Breast invasive adenocarcinoma(234;0.00544)|Kidney(3;0.029)|KIRC - Kidney renal clear cell carcinoma(182;0.223)		TCGAGCTTGTCAAGGGGTAAG	0.423													12	77	---	---	---	---	PASS
JAG2	3714	broad.mit.edu	37	14	105615534	105615534	+	Missense_Mutation	SNP	C	T	T			TCGA-66-2742-01A-01D-0983-08	TCGA-66-2742-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	07047a99-45bd-4df6-ad6f-934a48e8e213	09de7b21-79a1-4b8c-a835-7f7a4481f4d5	g.chr14:105615534C>T	uc001yqg.2	-	13	2130	c.1726G>A	c.(1726-1728)GAG>AAG	p.E576K	JAG2_uc010axf.2_5'Flank|JAG2_uc001yqf.2_5'UTR|JAG2_uc001yqh.2_Missense_Mutation_p.E538K	NM_002226	NP_002217	Q9Y219	JAG2_HUMAN	jagged 2 isoform a precursor	576	Extracellular (Potential).|EGF-like 10; atypical.				auditory receptor cell fate commitment|cell communication|cell cycle|Notch receptor processing|Notch signaling pathway|regulation of cell migration|regulation of cell proliferation|spermatogenesis|thymic T cell selection	integral to plasma membrane	calcium ion binding|growth factor activity|Notch binding			lung(3)|breast(2)	5		all_cancers(154;0.0336)|all_epithelial(191;0.0729)|Melanoma(154;0.155)	OV - Ovarian serous cystadenocarcinoma(23;0.00989)|all cancers(16;0.0114)|Epithelial(46;0.0272)	Epithelial(152;0.047)|OV - Ovarian serous cystadenocarcinoma(161;0.148)|all cancers(159;0.208)		GGGCACGGCTCGCGGGGCACG	0.677													8	37	---	---	---	---	PASS
GABRA5	2558	broad.mit.edu	37	15	27185220	27185220	+	Silent	SNP	T	G	G			TCGA-66-2742-01A-01D-0983-08	TCGA-66-2742-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	07047a99-45bd-4df6-ad6f-934a48e8e213	09de7b21-79a1-4b8c-a835-7f7a4481f4d5	g.chr15:27185220T>G	uc001zbd.1	+	10	1212	c.873T>G	c.(871-873)GTT>GTG	p.V291V	GABRB3_uc001zbb.2_5'Flank	NM_000810	NP_000801	P31644	GBRA5_HUMAN	gamma-aminobutyric acid A receptor, alpha 5	291	Helical; (Potential).				gamma-aminobutyric acid signaling pathway|synaptic transmission	cell junction|chloride channel complex|integral to plasma membrane|postsynaptic membrane	chloride channel activity|extracellular ligand-gated ion channel activity			ovary(1)	1		all_lung(180;4.59e-13)|Breast(32;0.000563)|Colorectal(260;0.227)		all cancers(64;1.45e-08)|Epithelial(43;4.96e-08)|BRCA - Breast invasive adenocarcinoma(123;0.0232)|Lung(196;0.182)	Alprazolam(DB00404)|Ethchlorvynol(DB00189)|Flunitrazepam(DB01544)|Flurazepam(DB00690)|Lorazepam(DB00186)|Meprobamate(DB00371)|Midazolam(DB00683)	CCAGGACAGTTTTTGGTGAGT	0.522													3	16	---	---	---	---	PASS
CHRM5	1133	broad.mit.edu	37	15	34355670	34355670	+	Missense_Mutation	SNP	G	A	A			TCGA-66-2742-01A-01D-0983-08	TCGA-66-2742-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	07047a99-45bd-4df6-ad6f-934a48e8e213	09de7b21-79a1-4b8c-a835-7f7a4481f4d5	g.chr15:34355670G>A	uc001zhk.1	+	3	1422	c.752G>A	c.(751-753)AGA>AAA	p.R251K	CHRM5_uc001zhl.1_Missense_Mutation_p.R251K	NM_012125	NP_036257	P08912	ACM5_HUMAN	cholinergic receptor, muscarinic 5	251	Cytoplasmic (By similarity).				cell proliferation|inhibition of adenylate cyclase activity by muscarinic acetylcholine receptor signaling pathway	cell junction|integral to plasma membrane|postsynaptic membrane	muscarinic acetylcholine receptor activity|phosphatidylinositol phospholipase C activity			ovary(1)|central_nervous_system(1)	2		all_lung(180;1.76e-08)		all cancers(64;4.82e-17)|GBM - Glioblastoma multiforme(113;2.58e-06)|BRCA - Breast invasive adenocarcinoma(123;0.0262)	Atropine(DB00572)|Benzquinamide(DB00767)|Cryptenamine(DB00785)|Homatropine Methylbromide(DB00725)|Methotrimeprazine(DB01403)|Metixene(DB00340)|Olanzapine(DB00334)|Promazine(DB00420)|Promethazine(DB01069)|Propiomazine(DB00777)|Thiethylperazine(DB00372)	GCTCTGTTCAGATCCTGCTTG	0.602													14	66	---	---	---	---	PASS
SLC12A6	9990	broad.mit.edu	37	15	34553129	34553129	+	Missense_Mutation	SNP	C	G	G			TCGA-66-2742-01A-01D-0983-08	TCGA-66-2742-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	07047a99-45bd-4df6-ad6f-934a48e8e213	09de7b21-79a1-4b8c-a835-7f7a4481f4d5	g.chr15:34553129C>G	uc001zhw.2	-	3	573	c.409G>C	c.(409-411)GAG>CAG	p.E137Q	SLC12A6_uc001zhv.2_Missense_Mutation_p.E86Q|SLC12A6_uc001zhx.2_Missense_Mutation_p.E122Q|SLC12A6_uc001zhy.2_RNA|SLC12A6_uc001zhz.2_RNA|SLC12A6_uc001zia.2_Missense_Mutation_p.E78Q|SLC12A6_uc001zib.2_Missense_Mutation_p.E128Q|SLC12A6_uc001zic.2_Missense_Mutation_p.E137Q|SLC12A6_uc010bau.2_Missense_Mutation_p.E137Q|SLC12A6_uc001zid.2_Missense_Mutation_p.E78Q|SLC12A6_uc001zhu.2_5'UTR	NM_133647	NP_598408	Q9UHW9	S12A6_HUMAN	solute carrier family 12, member 6 isoform a	137	Cytoplasmic (Potential).				angiogenesis|cellular hypotonic salinity response|potassium ion transport|sodium ion transport	basolateral plasma membrane|integral to membrane	potassium:chloride symporter activity			central_nervous_system(5)|ovary(1)|skin(1)	7		all_lung(180;2.78e-08)		all cancers(64;3.43e-17)|GBM - Glioblastoma multiforme(113;2.6e-07)|BRCA - Breast invasive adenocarcinoma(123;0.0301)	Potassium Chloride(DB00761)	AATATTACCTCAAAGAGTGCC	0.333													5	18	---	---	---	---	PASS
TYRO3	7301	broad.mit.edu	37	15	41857334	41857334	+	Missense_Mutation	SNP	G	C	C			TCGA-66-2742-01A-01D-0983-08	TCGA-66-2742-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	07047a99-45bd-4df6-ad6f-934a48e8e213	09de7b21-79a1-4b8c-a835-7f7a4481f4d5	g.chr15:41857334G>C	uc001zof.1	+	6	1002	c.778G>C	c.(778-780)GTT>CTT	p.V260L		NM_006293	NP_006284	Q06418	TYRO3_HUMAN	TYRO3 protein tyrosine kinase precursor	260	Fibronectin type-III 1.|Extracellular (Potential).					integral to plasma membrane	ATP binding|receptor signaling protein tyrosine kinase activity|transmembrane receptor protein tyrosine kinase activity			ovary(3)|lung(2)|central_nervous_system(1)	6		all_cancers(109;7.33e-15)|all_epithelial(112;2.8e-12)|Lung NSC(122;3.48e-08)|all_lung(180;1.71e-07)|Melanoma(134;0.0262)		OV - Ovarian serous cystadenocarcinoma(18;3.31e-18)|GBM - Glioblastoma multiforme(113;9.31e-07)|BRCA - Breast invasive adenocarcinoma(123;0.117)		GTCCTGTACAGTTCAGGTAGG	0.587													4	29	---	---	---	---	PASS
ZFP106	64397	broad.mit.edu	37	15	42720257	42720257	+	Missense_Mutation	SNP	C	A	A			TCGA-66-2742-01A-01D-0983-08	TCGA-66-2742-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	07047a99-45bd-4df6-ad6f-934a48e8e213	09de7b21-79a1-4b8c-a835-7f7a4481f4d5	g.chr15:42720257C>A	uc001zpw.2	-	12	5223	c.4888G>T	c.(4888-4890)GCG>TCG	p.A1630S	ZFP106_uc001zpu.2_Missense_Mutation_p.A728S|ZFP106_uc001zpv.2_Missense_Mutation_p.A815S|ZFP106_uc001zpx.2_Missense_Mutation_p.A858S	NM_022473	NP_071918	Q9H2Y7	ZF106_HUMAN	zinc finger protein 106 homolog	1630						nucleolus	zinc ion binding			central_nervous_system(2)|ovary(1)	3		all_cancers(109;1.63e-12)|all_epithelial(112;3.97e-11)|Lung NSC(122;2.04e-07)|all_lung(180;8.31e-07)|Melanoma(134;0.091)		GBM - Glioblastoma multiforme(94;8.6e-07)		GCCAGTCCCGCATAGAGGATT	0.493													10	63	---	---	---	---	PASS
SEMA6D	80031	broad.mit.edu	37	15	48063828	48063828	+	Missense_Mutation	SNP	C	G	G			TCGA-66-2742-01A-01D-0983-08	TCGA-66-2742-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	07047a99-45bd-4df6-ad6f-934a48e8e213	09de7b21-79a1-4b8c-a835-7f7a4481f4d5	g.chr15:48063828C>G	uc010bek.2	+	19	3428	c.3068C>G	c.(3067-3069)CCT>CGT	p.P1023R	SEMA6D_uc001zvw.2_Missense_Mutation_p.P961R|SEMA6D_uc001zvy.2_Missense_Mutation_p.P1023R|SEMA6D_uc001zvz.2_Missense_Mutation_p.P967R|SEMA6D_uc001zwa.2_3'UTR|SEMA6D_uc001zwb.2_Missense_Mutation_p.P961R|SEMA6D_uc001zwc.2_Missense_Mutation_p.P948R	NM_153618	NP_705871	Q8NFY4	SEM6D_HUMAN	semaphorin 6D isoform 4 precursor	1023	Cytoplasmic (Potential).				axon guidance	cytoplasm|integral to membrane|plasma membrane	receptor activity			skin(3)|breast(1)	4		all_lung(180;0.000635)|Myeloproliferative disorder(241;0.116)|Melanoma(134;0.18)		all cancers(107;1.2e-11)|GBM - Glioblastoma multiforme(94;1.2e-06)		CATCTGCAGCCTTCCCTCTCC	0.542													18	111	---	---	---	---	PASS
HDC	3067	broad.mit.edu	37	15	50534871	50534871	+	Missense_Mutation	SNP	C	G	G			TCGA-66-2742-01A-01D-0983-08	TCGA-66-2742-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	07047a99-45bd-4df6-ad6f-934a48e8e213	09de7b21-79a1-4b8c-a835-7f7a4481f4d5	g.chr15:50534871C>G	uc001zxz.2	-	12	1681	c.1575G>C	c.(1573-1575)CAG>CAC	p.Q525H	HDC_uc001zxy.2_Missense_Mutation_p.Q268H|HDC_uc010uff.1_Missense_Mutation_p.Q492H	NM_002112	NP_002103	P19113	DCHS_HUMAN	histidine decarboxylase	525					catecholamine biosynthetic process|histidine metabolic process		histidine decarboxylase activity			large_intestine(2)|skin(2)|upper_aerodigestive_tract(1)|central_nervous_system(1)	6		all_lung(180;0.0138)		all cancers(107;1.12e-06)|GBM - Glioblastoma multiforme(94;9.95e-05)	L-Histidine(DB00117)|Pyridoxal Phosphate(DB00114)	CACGCTGAGGCTGCTTGATGA	0.577													8	18	---	---	---	---	PASS
LMAN1L	79748	broad.mit.edu	37	15	75108845	75108845	+	Silent	SNP	C	A	A			TCGA-66-2742-01A-01D-0983-08	TCGA-66-2742-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	07047a99-45bd-4df6-ad6f-934a48e8e213	09de7b21-79a1-4b8c-a835-7f7a4481f4d5	g.chr15:75108845C>A	uc002ayt.1	+	3	410	c.408C>A	c.(406-408)ATC>ATA	p.I136I	LMAN1L_uc010bkd.2_Silent_p.I64I|LMAN1L_uc010ulo.1_Intron|LMAN1L_uc010bke.1_Silent_p.I136I	NM_021819	NP_068591	Q9HAT1	LMA1L_HUMAN	lectin, mannose-binding, 1 like precursor	136	Lumenal (Potential).|L-type lectin-like.					ER-Golgi intermediate compartment membrane|integral to membrane	sugar binding				0						GCATCGGGATCTTCTTTGACT	0.502													6	32	---	---	---	---	PASS
RASGRF1	5923	broad.mit.edu	37	15	79296437	79296437	+	Missense_Mutation	SNP	C	T	T	rs150222693		TCGA-66-2742-01A-01D-0983-08	TCGA-66-2742-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	07047a99-45bd-4df6-ad6f-934a48e8e213	09de7b21-79a1-4b8c-a835-7f7a4481f4d5	g.chr15:79296437C>T	uc002beq.2	-	16	2579	c.2204G>A	c.(2203-2205)CGC>CAC	p.R735H	RASGRF1_uc002bep.2_Missense_Mutation_p.R719H|RASGRF1_uc010blm.1_Missense_Mutation_p.R644H|RASGRF1_uc002ber.3_Missense_Mutation_p.R719H|RASGRF1_uc010unh.1_Missense_Mutation_p.R130H|RASGRF1_uc002beo.2_5'UTR	NM_002891	NP_002882	Q13972	RGRF1_HUMAN	Ras protein-specific guanine	735	N-terminal Ras-GEF.				activation of Rac GTPase activity|apoptosis|induction of apoptosis by extracellular signals|long-term memory|nerve growth factor receptor signaling pathway|neuron projection development|regulation of Rac protein signal transduction|small GTPase mediated signal transduction|synaptic transmission	cytosol|growth cone|plasma membrane|synaptosome	Rho guanyl-nucleotide exchange factor activity			skin(4)|ovary(1)|central_nervous_system(1)	6						GGAGAACTTGCGGGTGGCGCG	0.647													8	27	---	---	---	---	PASS
BCL2A1	597	broad.mit.edu	37	15	80253456	80253456	+	Missense_Mutation	SNP	T	A	A			TCGA-66-2742-01A-01D-0983-08	TCGA-66-2742-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	07047a99-45bd-4df6-ad6f-934a48e8e213	09de7b21-79a1-4b8c-a835-7f7a4481f4d5	g.chr15:80253456T>A	uc002bfc.3	-	2	663	c.481A>T	c.(481-483)ACA>TCA	p.T161S	BCL2A1_uc002bfd.3_3'UTR	NM_004049	NP_004040	Q16548	B2LA1_HUMAN	BCL2-related protein A1 isoform 1	161					anti-apoptosis|apoptosis	cytoplasm	protein binding			pancreas(1)	1						ATCTTTCCTGTAACTTCTAGA	0.353													11	28	---	---	---	---	PASS
MEF2A	4205	broad.mit.edu	37	15	100211761	100211761	+	Missense_Mutation	SNP	C	T	T			TCGA-66-2742-01A-01D-0983-08	TCGA-66-2742-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	07047a99-45bd-4df6-ad6f-934a48e8e213	09de7b21-79a1-4b8c-a835-7f7a4481f4d5	g.chr15:100211761C>T	uc010urw.1	+	4	654	c.295C>T	c.(295-297)CCA>TCA	p.P99S	MEF2A_uc010urv.1_Intron|MEF2A_uc010bos.2_Intron|MEF2A_uc002bvf.2_Missense_Mutation_p.P99S|MEF2A_uc002bve.2_Intron|MEF2A_uc002bvg.2_Intron|MEF2A_uc002bvi.2_Intron|MEF2A_uc010bot.2_Intron	NM_005587	NP_005578	Q02078	MEF2A_HUMAN	myocyte enhancer factor 2A isoform 1	99					apoptosis|BMK cascade|cardiac conduction|cellular response to calcium ion|dendrite morphogenesis|innate immune response|mitochondrial genome maintenance|mitochondrion distribution|muscle organ development|MyD88-dependent toll-like receptor signaling pathway|MyD88-independent toll-like receptor signaling pathway|negative regulation of transcription from RNA polymerase II promoter|nerve growth factor receptor signaling pathway|positive regulation of muscle cell differentiation|positive regulation of transcription from RNA polymerase II promoter|stress-activated MAPK cascade|Toll signaling pathway|toll-like receptor 1 signaling pathway|toll-like receptor 2 signaling pathway|toll-like receptor 3 signaling pathway|toll-like receptor 4 signaling pathway|ventricular cardiac myofibril development	nuclear chromatin|nucleoplasm	activating transcription factor binding|histone acetyltransferase binding|histone deacetylase binding|protein heterodimerization activity|RNA polymerase II regulatory region sequence-specific DNA binding|sequence-specific DNA binding RNA polymerase II transcription factor activity|SMAD binding			ovary(1)	1	Lung NSC(78;0.00335)|all_lung(78;0.00659)|Melanoma(26;0.00778)|Medulloblastoma(229;0.163)		OV - Ovarian serous cystadenocarcinoma(32;0.00085)			GTGCGACAGCCCAGACCCTGA	0.333													3	12	---	---	---	---	PASS
SOLH	6650	broad.mit.edu	37	16	603410	603410	+	Missense_Mutation	SNP	G	A	A			TCGA-66-2742-01A-01D-0983-08	TCGA-66-2742-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	07047a99-45bd-4df6-ad6f-934a48e8e213	09de7b21-79a1-4b8c-a835-7f7a4481f4d5	g.chr16:603410G>A	uc002chi.2	+	14	3518	c.3155G>A	c.(3154-3156)CGC>CAC	p.R1052H	SOLH_uc002chj.2_Missense_Mutation_p.R112H	NM_005632	NP_005623	O75808	CAN15_HUMAN	small optic lobes	1052					proteolysis	intracellular	calcium-dependent cysteine-type endopeptidase activity|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(1)|breast(1)	2		Hepatocellular(780;0.00335)				CTGGCACATCGCAAGGCAGCC	0.677													14	35	---	---	---	---	PASS
SSTR5	6755	broad.mit.edu	37	16	1129327	1129327	+	Silent	SNP	G	T	T	rs141899937		TCGA-66-2742-01A-01D-0983-08	TCGA-66-2742-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	07047a99-45bd-4df6-ad6f-934a48e8e213	09de7b21-79a1-4b8c-a835-7f7a4481f4d5	g.chr16:1129327G>T	uc002ckq.2	+	1	547	c.459G>T	c.(457-459)CCG>CCT	p.P153P	LOC146336_uc002cko.2_5'Flank|LOC146336_uc002ckp.1_5'Flank	NM_001053	NP_001044	P35346	SSR5_HUMAN	somatostatin receptor 5	153	Cytoplasmic (Potential).				negative regulation of cell proliferation	integral to plasma membrane	somatostatin receptor activity			lung(1)	1		Hepatocellular(780;0.00369)			Octreotide(DB00104)	GGCGCCGCCCGCGTGTGGCCA	0.687													7	5	---	---	---	---	PASS
MAPK8IP3	23162	broad.mit.edu	37	16	1798307	1798307	+	Missense_Mutation	SNP	G	T	T			TCGA-66-2742-01A-01D-0983-08	TCGA-66-2742-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	07047a99-45bd-4df6-ad6f-934a48e8e213	09de7b21-79a1-4b8c-a835-7f7a4481f4d5	g.chr16:1798307G>T	uc002cmk.2	+	7	1174	c.1054G>T	c.(1054-1056)GAC>TAC	p.D352Y	MAPK8IP3_uc002cml.2_Missense_Mutation_p.D352Y|MAPK8IP3_uc010uvl.1_Missense_Mutation_p.D353Y	NM_015133	NP_055948	Q9UPT6	JIP3_HUMAN	mitogen-activated protein kinase 8 interacting	352					vesicle-mediated transport	Golgi membrane	kinesin binding|MAP-kinase scaffold activity|protein kinase binding			breast(2)|central_nervous_system(1)	3						GCCAGAGCTGGACATGTGTCC	0.607													17	20	---	---	---	---	PASS
MEFV	4210	broad.mit.edu	37	16	3306572	3306572	+	Missense_Mutation	SNP	T	C	C			TCGA-66-2742-01A-01D-0983-08	TCGA-66-2742-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	07047a99-45bd-4df6-ad6f-934a48e8e213	09de7b21-79a1-4b8c-a835-7f7a4481f4d5	g.chr16:3306572T>C	uc002cun.1	-	1	56	c.16A>G	c.(16-18)AGT>GGT	p.S6G		NM_000243	NP_000234	O15553	MEFV_HUMAN	Mediterranean fever protein	6	DAPIN.				inflammatory response	cytoplasm|microtubule|microtubule associated complex|nucleus	actin binding|zinc ion binding			central_nervous_system(2)|skin(2)|ovary(1)|lung(1)	6					Colchicine(DB01394)	AGATGGTCACTAGGGGTCTTA	0.552													12	41	---	---	---	---	PASS
CREBBP	1387	broad.mit.edu	37	16	3823884	3823884	+	Silent	SNP	A	G	G			TCGA-66-2742-01A-01D-0983-08	TCGA-66-2742-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	07047a99-45bd-4df6-ad6f-934a48e8e213	09de7b21-79a1-4b8c-a835-7f7a4481f4d5	g.chr16:3823884A>G	uc002cvv.2	-	13	2535	c.2331T>C	c.(2329-2331)GGT>GGC	p.G777G	CREBBP_uc002cvw.2_Silent_p.G739G	NM_004380	NP_004371	Q92793	CBP_HUMAN	CREB binding protein isoform a	777					cellular lipid metabolic process|homeostatic process|interspecies interaction between organisms|N-terminal peptidyl-lysine acetylation|protein complex assembly|response to hypoxia	cytoplasm|nuclear body	histone acetyltransferase activity|MyoD binding|p53 binding|sequence-specific DNA binding transcription factor activity|signal transducer activity|transcription coactivator activity|zinc ion binding			haematopoietic_and_lymphoid_tissue(97)|ovary(14)|lung(6)|skin(6)|breast(2)|NS(1)|pancreas(1)	127		Ovarian(90;0.0266)		OV - Ovarian serous cystadenocarcinoma(1;3.54e-05)		TGGTGTGTGCACCCATCATGT	0.587			T|N|F|Mis|O	MLL|MORF|RUNXBP2	ALL|AML|DLBCL|B-NHL 		Rubinstein-Taybi syndrome		Rubinstein-Taybi_syndrome				24	52	---	---	---	---	PASS
PARN	5073	broad.mit.edu	37	16	14576629	14576629	+	Silent	SNP	A	G	G			TCGA-66-2742-01A-01D-0983-08	TCGA-66-2742-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	07047a99-45bd-4df6-ad6f-934a48e8e213	09de7b21-79a1-4b8c-a835-7f7a4481f4d5	g.chr16:14576629A>G	uc010uzd.1	-	22	1678	c.1536T>C	c.(1534-1536)TAT>TAC	p.Y512Y	PARN_uc010uzc.1_Silent_p.Y451Y|PARN_uc010uze.1_Silent_p.Y466Y|PARN_uc010uzf.1_Silent_p.Y337Y	NM_002582	NP_002573	O95453	PARN_HUMAN	poly(A)-specific ribonuclease (deadenylation	512					female gamete generation|nuclear-transcribed mRNA catabolic process, nonsense-mediated decay|nuclear-transcribed mRNA poly(A) tail shortening|RNA modification	cytosol|nucleolus	metal ion binding|mRNA 3'-UTR binding|nucleotide binding|poly(A)-specific ribonuclease activity|protein binding			ovary(2)	2						TTCTCCCCATATATTCAGCAT	0.413													8	25	---	---	---	---	PASS
GP2	2813	broad.mit.edu	37	16	20335162	20335162	+	Missense_Mutation	SNP	A	G	G			TCGA-66-2742-01A-01D-0983-08	TCGA-66-2742-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	07047a99-45bd-4df6-ad6f-934a48e8e213	09de7b21-79a1-4b8c-a835-7f7a4481f4d5	g.chr16:20335162A>G	uc002dgv.2	-	3	594	c.511T>C	c.(511-513)TGG>CGG	p.W171R	GP2_uc002dgw.2_Missense_Mutation_p.W171R|GP2_uc002dgx.2_Intron|GP2_uc002dgy.2_Intron	NM_001007240	NP_001007241	P55259	GP2_HUMAN	zymogen granule membrane glycoprotein 2 isoform	171						anchored to membrane|extracellular region|plasma membrane				ovary(3)|skin(1)	4						AGATTACACCAGGGAGTGCCT	0.577													5	11	---	---	---	---	PASS
PDILT	204474	broad.mit.edu	37	16	20370844	20370844	+	Missense_Mutation	SNP	C	G	G			TCGA-66-2742-01A-01D-0983-08	TCGA-66-2742-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	07047a99-45bd-4df6-ad6f-934a48e8e213	09de7b21-79a1-4b8c-a835-7f7a4481f4d5	g.chr16:20370844C>G	uc002dhc.1	-	12	1775	c.1552G>C	c.(1552-1554)GCT>CCT	p.A518P		NM_174924	NP_777584	Q8N807	PDILT_HUMAN	protein disulfide isomerase-like, testis	518					cell differentiation|cell redox homeostasis|multicellular organismal development|spermatogenesis	endoplasmic reticulum	isomerase activity			large_intestine(1)	1						TTTTCCTCAGCTAGCACTTCC	0.383													25	54	---	---	---	---	PASS
LOC81691	81691	broad.mit.edu	37	16	20839834	20839834	+	Missense_Mutation	SNP	A	G	G			TCGA-66-2742-01A-01D-0983-08	TCGA-66-2742-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	07047a99-45bd-4df6-ad6f-934a48e8e213	09de7b21-79a1-4b8c-a835-7f7a4481f4d5	g.chr16:20839834A>G	uc002dhv.2	+	11	1396	c.1133A>G	c.(1132-1134)TAT>TGT	p.Y378C	ERI2_uc002dht.3_Intron|LOC81691_uc002dhx.2_Missense_Mutation_p.Y378C|LOC81691_uc002dhw.2_Missense_Mutation_p.Y121C|LOC81691_uc002dhy.3_Missense_Mutation_p.Y378C	NM_030941	NP_112203	Q96IC2	REXON_HUMAN	exonuclease NEF-sp isoform 1	378						nucleolus	exonuclease activity|nucleotide binding|RNA binding			ovary(1)|kidney(1)	2						TTGGCTCGGTATTTCCTTAAG	0.398													23	28	---	---	---	---	PASS
AQP8	343	broad.mit.edu	37	16	25238511	25238511	+	Missense_Mutation	SNP	G	T	T			TCGA-66-2742-01A-01D-0983-08	TCGA-66-2742-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	07047a99-45bd-4df6-ad6f-934a48e8e213	09de7b21-79a1-4b8c-a835-7f7a4481f4d5	g.chr16:25238511G>T	uc002doc.2	+	5	807	c.725G>T	c.(724-726)GGA>GTA	p.G242V		NM_001169	NP_001160	O94778	AQP8_HUMAN	aquaporin 8	242	Helical; (Potential).				cellular response to cAMP	integral to plasma membrane	water channel activity			upper_aerodigestive_tract(1)|breast(1)|pancreas(1)	3				GBM - Glioblastoma multiforme(48;0.044)		CTGCTTGTTGGACTGCTCATT	0.597													5	27	---	---	---	---	PASS
MAZ	4150	broad.mit.edu	37	16	29818992	29818992	+	Nonsense_Mutation	SNP	C	T	T			TCGA-66-2742-01A-01D-0983-08	TCGA-66-2742-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	07047a99-45bd-4df6-ad6f-934a48e8e213	09de7b21-79a1-4b8c-a835-7f7a4481f4d5	g.chr16:29818992C>T	uc002dty.2	+	2	1054	c.886C>T	c.(886-888)CGA>TGA	p.R296*	uc002dtf.2_Intron|BOLA2_uc010bzb.1_Intron|MAZ_uc002dtv.1_Intron|MAZ_uc010vdx.1_Nonsense_Mutation_p.R273*|MAZ_uc002dtw.2_Intron|MAZ_uc002dtx.2_Nonsense_Mutation_p.R296*|MAZ_uc010bzg.2_Intron|MAZ_uc002dtz.1_Nonsense_Mutation_p.R14*|MAZ_uc002dua.2_5'Flank|MAZ_uc010vdy.1_5'Flank	NM_002383	NP_002374	P56270	MAZ_HUMAN	MYC-associated zinc finger protein isoform 1	296	C2H2-type 2.				regulation of transcription, DNA-dependent|termination of RNA polymerase II transcription|transcription initiation from RNA polymerase II promoter	nucleus	DNA binding|protein binding|RNA binding|zinc ion binding			ovary(1)	1						CCACCTGAACCGACACAAGCT	0.642													5	20	---	---	---	---	PASS
ABCC11	85320	broad.mit.edu	37	16	48209318	48209318	+	Silent	SNP	G	A	A			TCGA-66-2742-01A-01D-0983-08	TCGA-66-2742-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	07047a99-45bd-4df6-ad6f-934a48e8e213	09de7b21-79a1-4b8c-a835-7f7a4481f4d5	g.chr16:48209318G>A	uc002eff.1	-	25	3899	c.3549C>T	c.(3547-3549)TCC>TCT	p.S1183S	ABCC11_uc002efg.1_Silent_p.S1183S|ABCC11_uc002efh.1_Silent_p.S1183S|ABCC11_uc010cbg.1_RNA	NM_033151	NP_149163	Q96J66	ABCCB_HUMAN	ATP-binding cassette, sub-family C, member 11	1183	ABC transporter 2.|Cytoplasmic (Potential).					integral to membrane	ATP binding|ATPase activity, coupled to transmembrane movement of substances			ovary(3)|skin(2)|central_nervous_system(1)	6		all_cancers(37;0.127)|all_lung(18;0.132)|Breast(268;0.166)				CCATGCCCAAGGAGGACTTCC	0.612									Cerumen_Type				8	12	---	---	---	---	PASS
LDHD	197257	broad.mit.edu	37	16	75147555	75147555	+	Missense_Mutation	SNP	T	C	C			TCGA-66-2742-01A-01D-0983-08	TCGA-66-2742-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	07047a99-45bd-4df6-ad6f-934a48e8e213	09de7b21-79a1-4b8c-a835-7f7a4481f4d5	g.chr16:75147555T>C	uc002fdm.2	-	8	1080	c.1033A>G	c.(1033-1035)ATA>GTA	p.I345V	LDHD_uc002fdn.2_Missense_Mutation_p.I322V	NM_153486	NP_705690	Q86WU2	LDHD_HUMAN	D-lactate dehydrogenase isoform 1 precursor	345							D-lactate dehydrogenase (cytochrome) activity|flavin adenine dinucleotide binding|protein binding				0						TGCTGGACTATCTCCTCTGCA	0.667													4	13	---	---	---	---	PASS
CLEC3A	10143	broad.mit.edu	37	16	78064611	78064611	+	Missense_Mutation	SNP	G	A	A			TCGA-66-2742-01A-01D-0983-08	TCGA-66-2742-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	07047a99-45bd-4df6-ad6f-934a48e8e213	09de7b21-79a1-4b8c-a835-7f7a4481f4d5	g.chr16:78064611G>A	uc002ffh.3	+	3	548	c.467G>A	c.(466-468)CGT>CAT	p.R156H		NM_005752	NP_005743	O75596	CLC3A_HUMAN	C-type lectin domain family 3 member A	156	C-type lectin.				skeletal system development	extracellular region	sugar binding				0						AACTGGGACCGTGCACAGCCT	0.532													17	44	---	---	---	---	PASS
CTU2	348180	broad.mit.edu	37	16	88781041	88781041	+	Silent	SNP	G	A	A			TCGA-66-2742-01A-01D-0983-08	TCGA-66-2742-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	07047a99-45bd-4df6-ad6f-934a48e8e213	09de7b21-79a1-4b8c-a835-7f7a4481f4d5	g.chr16:88781041G>A	uc002flm.2	+	12	1296	c.1248G>A	c.(1246-1248)CAG>CAA	p.Q416Q	CTU2_uc002fln.2_Silent_p.Q416Q|CTU2_uc010chz.2_Silent_p.Q487Q|CTU2_uc010cia.2_Silent_p.Q329Q	NM_001012759	NP_001012777	Q2VPK5	CTU2_HUMAN	cytoplasmic tRNA 2-thiolation protein 2 isoform	416					tRNA thio-modification|tRNA wobble uridine modification	cytoplasm|protein complex|soluble fraction	protein binding			skin(1)	1						GTCTCTCCCAGATGCAGTCAC	0.697													15	27	---	---	---	---	PASS
OR3A4	390756	broad.mit.edu	37	17	3213890	3213890	+	Missense_Mutation	SNP	C	T	T			TCGA-66-2742-01A-01D-0983-08	TCGA-66-2742-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	07047a99-45bd-4df6-ad6f-934a48e8e213	09de7b21-79a1-4b8c-a835-7f7a4481f4d5	g.chr17:3213890C>T	uc002fvi.2	+	1	352	c.286C>T	c.(286-288)CCC>TCC	p.P96S		NR_024128				RecName: Full=Olfactory receptor 3A4; AltName: Full=Olfactory receptor 17-24;          Short=OR17-24;											ovary(1)	1						CAGAAGCATTCCCTATAAGGC	0.547													16	17	---	---	---	---	PASS
TP53	7157	broad.mit.edu	37	17	7573982	7573982	+	Nonsense_Mutation	SNP	C	A	A			TCGA-66-2742-01A-01D-0983-08	TCGA-66-2742-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	07047a99-45bd-4df6-ad6f-934a48e8e213	09de7b21-79a1-4b8c-a835-7f7a4481f4d5	g.chr17:7573982C>A	uc002gim.2	-	10	1239	c.1045G>T	c.(1045-1047)GAA>TAA	p.E349*	TP53_uc002gig.1_Intron|TP53_uc002gih.2_Intron|TP53_uc010cne.1_Intron|TP53_uc010cnf.1_3'UTR|TP53_uc010cng.1_3'UTR|TP53_uc002gii.1_Nonsense_Mutation_p.E217*|TP53_uc010cnh.1_3'UTR|TP53_uc010cni.1_3'UTR|TP53_uc002gij.2_Nonsense_Mutation_p.E349*	NM_001126112	NP_001119584	P04637	P53_HUMAN	tumor protein p53 isoform a	349	Oligomerization.|Interaction with HIPK1 (By similarity).|Interaction with CARM1.|Nuclear export signal.|Interaction with HIPK2.		E -> D (in a sporadic cancer; somatic mutation).		activation of caspase activity by cytochrome c|base-excision repair|blood coagulation|cell cycle arrest|cell differentiation|cell proliferation|cellular protein localization|cellular response to drug|cellular response to glucose starvation|cellular response to hypoxia|cellular response to ionizing radiation|cellular response to UV|determination of adult lifespan|DNA damage response, signal transduction by p53 class mediator resulting in cell cycle arrest|DNA damage response, signal transduction by p53 class mediator resulting in induction of apoptosis|DNA damage response, signal transduction by p53 class mediator resulting in transcription of p21 class mediator|ER overload response|interspecies interaction between organisms|negative regulation of apoptosis|negative regulation of cell growth|negative regulation of cell proliferation|negative regulation of helicase activity|negative regulation of transcription from RNA polymerase II promoter|negative regulation of transcription from RNA polymerase II promoter|nucleotide-excision repair|oxidative stress-induced premature senescence|positive regulation of histone deacetylation|positive regulation of neuron apoptosis|positive regulation of peptidyl-tyrosine phosphorylation|positive regulation of reactive oxygen species metabolic process|positive regulation of thymocyte apoptosis|positive regulation of transcription from RNA polymerase II promoter|positive regulation of transcription from RNA polymerase II promoter|protein localization|protein tetramerization|Ras protein signal transduction|regulation of mitochondrial membrane permeability|replicative senescence|response to antibiotic|response to gamma radiation|response to X-ray	cytoplasm|cytosol|endoplasmic reticulum|insoluble fraction|mitochondrion|nuclear chromatin|nuclear matrix|nucleolus|nucleus|PML body|protein complex|replication fork	ATP binding|chaperone binding|chromatin binding|copper ion binding|damaged DNA binding|DNA strand annealing activity|histone acetyltransferase binding|p53 binding|protease binding|protein binding|protein heterodimerization activity|protein kinase binding|protein N-terminus binding|protein phosphatase 2A binding|RNA polymerase II transcription factor binding|sequence-specific DNA binding transcription factor activity|transcription regulatory region DNA binding|transcription regulatory region DNA binding|transcription repressor activity|ubiquitin protein ligase binding|zinc ion binding	p.0?(7)|p.E349*(5)|p.E349fs*21(2)|p.I332fs*5(1)|p.?(1)		large_intestine(4656)|breast(2429)|upper_aerodigestive_tract(2212)|lung(2028)|ovary(1592)|oesophagus(1462)|haematopoietic_and_lymphoid_tissue(1228)|stomach(1136)|urinary_tract(1114)|central_nervous_system(1085)|liver(805)|skin(694)|pancreas(375)|biliary_tract(247)|soft_tissue(209)|prostate(194)|endometrium(150)|bone(102)|vulva(79)|kidney(79)|cervix(68)|thyroid(54)|salivary_gland(43)|adrenal_gland(37)|peritoneum(33)|eye(24)|thymus(21)|genital_tract(16)|autonomic_ganglia(16)|small_intestine(14)|testis(11)|penis(10)|vagina(6)|meninges(5)|pituitary(4)|pleura(3)|gastrointestinal_tract_(site_indeterminate)(1)|NS(1)|Fallopian tube(1)|placenta(1)	22245		all_cancers(10;1.01e-06)|Myeloproliferative disorder(207;0.0122)|Prostate(122;0.081)		GBM - Glioblastoma multiforme(2;1.59e-06)|READ - Rectum adenocarcinoma(115;0.174)		TCCTTGAGTTCCAAGGCCTCA	0.567		111	Mis|N|F		breast|colorectal|lung|sarcoma|adrenocortical|glioma|multiple other tumour types	breast|sarcoma|adrenocortical carcinoma|glioma|multiple other tumour types		Other_conserved_DNA_damage_response_genes	Hereditary_Adrenocortical_Cancer|Endometrial_Cancer_Familial_Clustering_of|Hereditary_Breast-Ovarian_Cancer_non-BRCA1/2|Li-Fraumeni_syndrome|Osteosarcoma_Familial_Clustering_of	HNSCC(1;<9.43e-08)|TCGA GBM(1;<1E-08)|TSP Lung(2;<1E-08)|TCGA Ovarian(1;<1.89e-07)|Multiple Myeloma(5;0.019)			12	11	---	---	---	---	PASS
TP53	7157	broad.mit.edu	37	17	7573983	7573983	+	Missense_Mutation	SNP	C	A	A			TCGA-66-2742-01A-01D-0983-08	TCGA-66-2742-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	07047a99-45bd-4df6-ad6f-934a48e8e213	09de7b21-79a1-4b8c-a835-7f7a4481f4d5	g.chr17:7573983C>A	uc002gim.2	-	10	1238	c.1044G>T	c.(1042-1044)TTG>TTT	p.L348F	TP53_uc002gig.1_Intron|TP53_uc002gih.2_Intron|TP53_uc010cne.1_Intron|TP53_uc010cnf.1_3'UTR|TP53_uc010cng.1_3'UTR|TP53_uc002gii.1_Missense_Mutation_p.L216F|TP53_uc010cnh.1_3'UTR|TP53_uc010cni.1_3'UTR|TP53_uc002gij.2_Missense_Mutation_p.L348F	NM_001126112	NP_001119584	P04637	P53_HUMAN	tumor protein p53 isoform a	348	Oligomerization.|Interaction with HIPK1 (By similarity).|Interaction with CARM1.|Nuclear export signal.|Interaction with HIPK2.		L -> S (in a sporadic cancer; somatic mutation).|L -> F (in a sporadic cancer; somatic mutation).		activation of caspase activity by cytochrome c|base-excision repair|blood coagulation|cell cycle arrest|cell differentiation|cell proliferation|cellular protein localization|cellular response to drug|cellular response to glucose starvation|cellular response to hypoxia|cellular response to ionizing radiation|cellular response to UV|determination of adult lifespan|DNA damage response, signal transduction by p53 class mediator resulting in cell cycle arrest|DNA damage response, signal transduction by p53 class mediator resulting in induction of apoptosis|DNA damage response, signal transduction by p53 class mediator resulting in transcription of p21 class mediator|ER overload response|interspecies interaction between organisms|negative regulation of apoptosis|negative regulation of cell growth|negative regulation of cell proliferation|negative regulation of helicase activity|negative regulation of transcription from RNA polymerase II promoter|negative regulation of transcription from RNA polymerase II promoter|nucleotide-excision repair|oxidative stress-induced premature senescence|positive regulation of histone deacetylation|positive regulation of neuron apoptosis|positive regulation of peptidyl-tyrosine phosphorylation|positive regulation of reactive oxygen species metabolic process|positive regulation of thymocyte apoptosis|positive regulation of transcription from RNA polymerase II promoter|positive regulation of transcription from RNA polymerase II promoter|protein localization|protein tetramerization|Ras protein signal transduction|regulation of mitochondrial membrane permeability|replicative senescence|response to antibiotic|response to gamma radiation|response to X-ray	cytoplasm|cytosol|endoplasmic reticulum|insoluble fraction|mitochondrion|nuclear chromatin|nuclear matrix|nucleolus|nucleus|PML body|protein complex|replication fork	ATP binding|chaperone binding|chromatin binding|copper ion binding|damaged DNA binding|DNA strand annealing activity|histone acetyltransferase binding|p53 binding|protease binding|protein binding|protein heterodimerization activity|protein kinase binding|protein N-terminus binding|protein phosphatase 2A binding|RNA polymerase II transcription factor binding|sequence-specific DNA binding transcription factor activity|transcription regulatory region DNA binding|transcription regulatory region DNA binding|transcription repressor activity|ubiquitin protein ligase binding|zinc ion binding	p.0?(7)|p.L348F(2)|p.L348*(2)|p.L348fs*22(1)|p.L348fs*0(1)|p.?(1)|p.I332fs*5(1)		large_intestine(4656)|breast(2429)|upper_aerodigestive_tract(2212)|lung(2028)|ovary(1592)|oesophagus(1462)|haematopoietic_and_lymphoid_tissue(1228)|stomach(1136)|urinary_tract(1114)|central_nervous_system(1085)|liver(805)|skin(694)|pancreas(375)|biliary_tract(247)|soft_tissue(209)|prostate(194)|endometrium(150)|bone(102)|vulva(79)|kidney(79)|cervix(68)|thyroid(54)|salivary_gland(43)|adrenal_gland(37)|peritoneum(33)|eye(24)|thymus(21)|genital_tract(16)|autonomic_ganglia(16)|small_intestine(14)|testis(11)|penis(10)|vagina(6)|meninges(5)|pituitary(4)|pleura(3)|gastrointestinal_tract_(site_indeterminate)(1)|NS(1)|Fallopian tube(1)|placenta(1)	22245		all_cancers(10;1.01e-06)|Myeloproliferative disorder(207;0.0122)|Prostate(122;0.081)		GBM - Glioblastoma multiforme(2;1.59e-06)|READ - Rectum adenocarcinoma(115;0.174)		CCTTGAGTTCCAAGGCCTCAT	0.567		111	Mis|N|F		breast|colorectal|lung|sarcoma|adrenocortical|glioma|multiple other tumour types	breast|sarcoma|adrenocortical carcinoma|glioma|multiple other tumour types		Other_conserved_DNA_damage_response_genes	Hereditary_Adrenocortical_Cancer|Endometrial_Cancer_Familial_Clustering_of|Hereditary_Breast-Ovarian_Cancer_non-BRCA1/2|Li-Fraumeni_syndrome|Osteosarcoma_Familial_Clustering_of	HNSCC(1;<9.43e-08)|TCGA GBM(1;<1E-08)|TSP Lung(2;<1E-08)|TCGA Ovarian(1;<1.89e-07)|Multiple Myeloma(5;0.019)			12	11	---	---	---	---	PASS
MYH4	4622	broad.mit.edu	37	17	10352030	10352030	+	Missense_Mutation	SNP	C	T	T			TCGA-66-2742-01A-01D-0983-08	TCGA-66-2742-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	07047a99-45bd-4df6-ad6f-934a48e8e213	09de7b21-79a1-4b8c-a835-7f7a4481f4d5	g.chr17:10352030C>T	uc002gmn.2	-	32	4547	c.4436G>A	c.(4435-4437)CGT>CAT	p.R1479H	uc002gml.1_Intron	NM_017533	NP_060003	Q9Y623	MYH4_HUMAN	myosin, heavy polypeptide 4, skeletal muscle	1479	Potential.				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						GCTGAGAGAACGCGACTCCTT	0.448													6	38	---	---	---	---	PASS
MYH2	4620	broad.mit.edu	37	17	10442558	10442558	+	Missense_Mutation	SNP	G	C	C			TCGA-66-2742-01A-01D-0983-08	TCGA-66-2742-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	07047a99-45bd-4df6-ad6f-934a48e8e213	09de7b21-79a1-4b8c-a835-7f7a4481f4d5	g.chr17:10442558G>C	uc010coi.2	-	14	1508	c.1380C>G	c.(1378-1380)ATC>ATG	p.I460M	uc002gml.1_Intron|MYH2_uc002gmp.3_Missense_Mutation_p.I460M|MYH2_uc010coj.2_Missense_Mutation_p.I460M	NM_001100112	NP_001093582	Q9UKX2	MYH2_HUMAN	myosin heavy chain IIa	460	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(5)|pancreas(4)|skin(3)|lung(1)|kidney(1)	14						CCAAGACCCCGATGAAGTACT	0.478													49	71	---	---	---	---	PASS
SEZ6	124925	broad.mit.edu	37	17	27285076	27285076	+	Missense_Mutation	SNP	C	T	T	rs139179377	by1000genomes	TCGA-66-2742-01A-01D-0983-08	TCGA-66-2742-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	07047a99-45bd-4df6-ad6f-934a48e8e213	09de7b21-79a1-4b8c-a835-7f7a4481f4d5	g.chr17:27285076C>T	uc002hdp.2	-	11	2385	c.2191G>A	c.(2191-2193)GGC>AGC	p.G731S	SEZ6_uc010crx.1_5'Flank|SEZ6_uc002hdm.2_RNA|SEZ6_uc010cry.1_Missense_Mutation_p.G731S|SEZ6_uc002hdq.1_Missense_Mutation_p.G606S	NM_178860	NP_849191	Q53EL9	SEZ6_HUMAN	seizure related 6 homolog isoform 1	731	Extracellular (Potential).|Sushi 3.					integral to membrane|plasma membrane				large_intestine(1)|central_nervous_system(1)	2	Lung NSC(42;0.0137)		Epithelial(11;4.73e-06)|all cancers(11;2.91e-05)|BRCA - Breast invasive adenocarcinoma(11;8.06e-05)|OV - Ovarian serous cystadenocarcinoma(11;0.111)			ACCACGGTGCCGTGCACTAGC	0.612													11	62	---	---	---	---	PASS
ADAM11	4185	broad.mit.edu	37	17	42848951	42848951	+	Splice_Site	SNP	G	A	A			TCGA-66-2742-01A-01D-0983-08	TCGA-66-2742-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	07047a99-45bd-4df6-ad6f-934a48e8e213	09de7b21-79a1-4b8c-a835-7f7a4481f4d5	g.chr17:42848951G>A	uc002ihh.2	+	5	382	c.382_splice	c.e5-1	p.G128_splice	ADAM11_uc010wjd.1_Splice_Site	NM_002390	NP_002381	O75078	ADA11_HUMAN	ADAM metallopeptidase domain 11 preproprotein						integrin-mediated signaling pathway|proteolysis	integral to membrane|plasma membrane	integrin binding|metalloendopeptidase activity|zinc ion binding			pancreas(1)	1		Prostate(33;0.0959)				TGCTCCTTCAGGGGGCTGGAG	0.647													27	61	---	---	---	---	PASS
MPO	4353	broad.mit.edu	37	17	56355373	56355373	+	Missense_Mutation	SNP	C	G	G			TCGA-66-2742-01A-01D-0983-08	TCGA-66-2742-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	07047a99-45bd-4df6-ad6f-934a48e8e213	09de7b21-79a1-4b8c-a835-7f7a4481f4d5	g.chr17:56355373C>G	uc002ivu.1	-	7	1196	c.1019G>C	c.(1018-1020)AGC>ACC	p.S340T		NM_000250	NP_000241	P05164	PERM_HUMAN	myeloperoxidase	340		Calcium.			anti-apoptosis|hydrogen peroxide catabolic process|low-density lipoprotein particle remodeling	extracellular space|lysosome|nucleus|stored secretory granule	chromatin binding|heme binding|heparin binding|peroxidase activity			ovary(2)|large_intestine(1)|pancreas(1)	4					Cefdinir(DB00535)	GTACACCATGCTGGCGTCCAC	0.647													6	80	---	---	---	---	PASS
TRIM37	4591	broad.mit.edu	37	17	57158532	57158532	+	Missense_Mutation	SNP	C	A	A			TCGA-66-2742-01A-01D-0983-08	TCGA-66-2742-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	07047a99-45bd-4df6-ad6f-934a48e8e213	09de7b21-79a1-4b8c-a835-7f7a4481f4d5	g.chr17:57158532C>A	uc002iwy.3	-	6	862	c.418G>T	c.(418-420)GTC>TTC	p.V140F	TRIM37_uc002iwz.3_Missense_Mutation_p.V140F|TRIM37_uc002ixa.3_Missense_Mutation_p.V18F|TRIM37_uc010woc.1_Missense_Mutation_p.V106F	NM_001005207	NP_001005207	O94972	TRI37_HUMAN	tripartite motif-containing 37 protein	140	Potential.					perinuclear region of cytoplasm|peroxisome	ligase activity|protein binding|zinc ion binding			lung(2)|pancreas(2)|ovary(1)|skin(1)|breast(1)	7	Medulloblastoma(34;0.0922)|all_neural(34;0.101)					ACTTTAGTGACGTGTTGCTCA	0.368									Mulibrey_Nanism				24	71	---	---	---	---	PASS
USP36	57602	broad.mit.edu	37	17	76795011	76795011	+	Silent	SNP	G	A	A	rs148007252		TCGA-66-2742-01A-01D-0983-08	TCGA-66-2742-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	07047a99-45bd-4df6-ad6f-934a48e8e213	09de7b21-79a1-4b8c-a835-7f7a4481f4d5	g.chr17:76795011G>A	uc002jvz.1	-	19	3544	c.3219C>T	c.(3217-3219)GAC>GAT	p.D1073D	USP36_uc002jwa.1_Silent_p.D1073D|USP36_uc002jvy.1_Silent_p.D133D	NM_025090	NP_079366	Q9P275	UBP36_HUMAN	ubiquitin specific peptidase 36	1071					ubiquitin-dependent protein catabolic process	nucleolus	cysteine-type peptidase activity|ubiquitin thiolesterase activity			lung(2)|ovary(1)|breast(1)|kidney(1)	5			BRCA - Breast invasive adenocarcinoma(99;0.000842)|OV - Ovarian serous cystadenocarcinoma(97;0.151)			CAAACTCTTCGTCCCAGTCAT	0.587													16	130	---	---	---	---	PASS
C17orf55	284185	broad.mit.edu	37	17	79279081	79279081	+	Silent	SNP	C	T	T			TCGA-66-2742-01A-01D-0983-08	TCGA-66-2742-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	07047a99-45bd-4df6-ad6f-934a48e8e213	09de7b21-79a1-4b8c-a835-7f7a4481f4d5	g.chr17:79279081C>T	uc002kac.1	-	4	513	c.84G>A	c.(82-84)AGG>AGA	p.R28R		NM_178519	NP_848614			hypothetical protein LOC284185												0	all_neural(118;0.0804)|Melanoma(429;0.242)		BRCA - Breast invasive adenocarcinoma(99;0.0272)|OV - Ovarian serous cystadenocarcinoma(97;0.117)			GATGAGCTGCCCTGTACCATG	0.672													3	9	---	---	---	---	PASS
EPB41L3	23136	broad.mit.edu	37	18	5397253	5397253	+	Missense_Mutation	SNP	G	T	T			TCGA-66-2742-01A-01D-0983-08	TCGA-66-2742-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	07047a99-45bd-4df6-ad6f-934a48e8e213	09de7b21-79a1-4b8c-a835-7f7a4481f4d5	g.chr18:5397253G>T	uc002kmt.1	-	18	2731	c.2645C>A	c.(2644-2646)GCA>GAA	p.A882E	EPB41L3_uc010wzh.1_Missense_Mutation_p.A713E|EPB41L3_uc002kmu.1_Missense_Mutation_p.A660E|EPB41L3_uc010dkq.1_Missense_Mutation_p.A551E|EPB41L3_uc002kms.1_Missense_Mutation_p.A117E|EPB41L3_uc010wze.1_Missense_Mutation_p.A187E|EPB41L3_uc010wzf.1_Missense_Mutation_p.A179E|EPB41L3_uc010wzg.1_Missense_Mutation_p.A154E|EPB41L3_uc010dkr.2_Missense_Mutation_p.A274E	NM_012307	NP_036439	Q9Y2J2	E41L3_HUMAN	erythrocyte membrane protein band 4.1-like 3	882	Carboxyl-terminal (CTD).				cortical actin cytoskeleton organization	cell-cell junction|cytoplasm|cytoskeleton|extrinsic to membrane	actin binding|structural molecule activity			ovary(5)	5						TGCGGGCTGTGCTGCAGCATC	0.612													20	60	---	---	---	---	PASS
NPC1	4864	broad.mit.edu	37	18	21115532	21115532	+	Missense_Mutation	SNP	G	C	C			TCGA-66-2742-01A-01D-0983-08	TCGA-66-2742-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	07047a99-45bd-4df6-ad6f-934a48e8e213	09de7b21-79a1-4b8c-a835-7f7a4481f4d5	g.chr18:21115532G>C	uc002kum.3	-	22	3652	c.3378C>G	c.(3376-3378)ATC>ATG	p.I1126M	NPC1_uc010dlu.1_5'Flank|NPC1_uc010xaz.1_Missense_Mutation_p.I859M	NM_000271	NP_000262	O15118	NPC1_HUMAN	Niemann-Pick disease, type C1 precursor	1126	Helical; (Potential).				autophagy|bile acid metabolic process|cholesterol efflux|cholesterol homeostasis|lysosomal transport	endoplasmic reticulum|integral to plasma membrane|late endosome membrane|lysosomal membrane|nuclear envelope|perinuclear region of cytoplasm	hedgehog receptor activity|protein binding|sterol transporter activity			ovary(2)	2	all_cancers(21;0.000106)|all_epithelial(16;6.57e-07)|Lung NSC(20;0.00166)|all_lung(20;0.00536)|Colorectal(14;0.0202)|Ovarian(20;0.127)					TGGCACACATGATGACTGCAG	0.537													17	20	---	---	---	---	PASS
FAM59A	64762	broad.mit.edu	37	18	29848546	29848546	+	Missense_Mutation	SNP	C	A	A			TCGA-66-2742-01A-01D-0983-08	TCGA-66-2742-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	07047a99-45bd-4df6-ad6f-934a48e8e213	09de7b21-79a1-4b8c-a835-7f7a4481f4d5	g.chr18:29848546C>A	uc002kxl.2	-	6	1975	c.1919G>T	c.(1918-1920)AGT>ATT	p.S640I	FAM59A_uc002kxk.1_Missense_Mutation_p.S639I	NM_022751	NP_073588	Q9H706	FA59A_HUMAN	family with sequence similarity 59, member A	640										ovary(1)|skin(1)	2						CAGGAAGTCACTCCTGGTCTG	0.502													12	23	---	---	---	---	PASS
LIPG	9388	broad.mit.edu	37	18	47107969	47107969	+	Missense_Mutation	SNP	G	T	T			TCGA-66-2742-01A-01D-0983-08	TCGA-66-2742-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	07047a99-45bd-4df6-ad6f-934a48e8e213	09de7b21-79a1-4b8c-a835-7f7a4481f4d5	g.chr18:47107969G>T	uc002ldv.2	+	6	1230	c.978G>T	c.(976-978)ATG>ATT	p.M326I	LIPG_uc002ldu.1_Missense_Mutation_p.M326I|LIPG_uc010xdh.1_Missense_Mutation_p.M252I	NM_006033	NP_006024	Q9Y5X9	LIPE_HUMAN	endothelial lipase precursor	326	Heparin-binding (By similarity).				cholesterol homeostasis|high-density lipoprotein particle remodeling|phospholipid catabolic process|phospholipid homeostasis|positive regulation of cholesterol transport|positive regulation of high-density lipoprotein particle clearance|reverse cholesterol transport	extracellular space	heparin binding|lipoprotein lipase activity|phospholipase A1 activity|protein binding|triglyceride lipase activity			ovary(1)|skin(1)	2						CCAAGAAAATGAGGAACAAGA	0.493													50	81	---	---	---	---	PASS
ALPK2	115701	broad.mit.edu	37	18	56246130	56246130	+	Silent	SNP	G	A	A			TCGA-66-2742-01A-01D-0983-08	TCGA-66-2742-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	07047a99-45bd-4df6-ad6f-934a48e8e213	09de7b21-79a1-4b8c-a835-7f7a4481f4d5	g.chr18:56246130G>A	uc002lhj.3	-	4	2092	c.1878C>T	c.(1876-1878)GGC>GGT	p.G626G		NM_052947	NP_443179	Q86TB3	ALPK2_HUMAN	heart alpha-kinase	626							ATP binding|protein serine/threonine kinase activity			ovary(7)|skin(5)|lung(1)|central_nervous_system(1)	14						AATTTGTGTTGCCTTCTTTGG	0.438											OREG0025011	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	13	76	---	---	---	---	PASS
CCDC102B	79839	broad.mit.edu	37	18	66504606	66504606	+	Silent	SNP	G	A	A			TCGA-66-2742-01A-01D-0983-08	TCGA-66-2742-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	07047a99-45bd-4df6-ad6f-934a48e8e213	09de7b21-79a1-4b8c-a835-7f7a4481f4d5	g.chr18:66504606G>A	uc002lkk.2	+	4	829	c.606G>A	c.(604-606)AAG>AAA	p.K202K	CCDC102B_uc002lki.2_Silent_p.K202K|CCDC102B_uc002lkj.1_Silent_p.K202K	NM_001093729	NP_001087198	Q68D86	C102B_HUMAN	coiled-coil domain containing 102B	202										ovary(1)|lung(1)|skin(1)	3		Esophageal squamous(42;0.0559)|Colorectal(73;0.0604)				CAAATAATAAGGTAAGAAAAA	0.323													10	80	---	---	---	---	PASS
ZNF407	55628	broad.mit.edu	37	18	72346027	72346027	+	Nonsense_Mutation	SNP	A	T	T			TCGA-66-2742-01A-01D-0983-08	TCGA-66-2742-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	07047a99-45bd-4df6-ad6f-934a48e8e213	09de7b21-79a1-4b8c-a835-7f7a4481f4d5	g.chr18:72346027A>T	uc002llw.2	+	1	3109	c.3052A>T	c.(3052-3054)AAG>TAG	p.K1018*	ZNF407_uc010xfc.1_Nonsense_Mutation_p.K1018*|ZNF407_uc010dqu.1_Nonsense_Mutation_p.K1018*|ZNF407_uc002llu.2_Nonsense_Mutation_p.K1017*	NM_017757	NP_060227	Q9C0G0	ZN407_HUMAN	zinc finger protein 407 isoform 1	1018	C2H2-type 10.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(2)	2		Esophageal squamous(42;0.131)|Prostate(75;0.173)		BRCA - Breast invasive adenocarcinoma(31;0.184)		AGGTGAGAATAAGTGTTTGCA	0.448													39	74	---	---	---	---	PASS
TMEM146	257062	broad.mit.edu	37	19	5776198	5776198	+	Missense_Mutation	SNP	C	A	A			TCGA-66-2742-01A-01D-0983-08	TCGA-66-2742-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	07047a99-45bd-4df6-ad6f-934a48e8e213	09de7b21-79a1-4b8c-a835-7f7a4481f4d5	g.chr19:5776198C>A	uc002mda.2	+	21	2029	c.1968C>A	c.(1966-1968)AAC>AAA	p.N656K		NM_152784	NP_689997	Q86XM0	TM146_HUMAN	transmembrane protein 146 precursor	656	Extracellular (Potential).					integral to membrane				ovary(1)|central_nervous_system(1)|pancreas(1)	3						ACGACCCCAACAACAATGCCC	0.592													10	36	---	---	---	---	PASS
MUC16	94025	broad.mit.edu	37	19	9046849	9046849	+	Missense_Mutation	SNP	G	T	T			TCGA-66-2742-01A-01D-0983-08	TCGA-66-2742-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	07047a99-45bd-4df6-ad6f-934a48e8e213	09de7b21-79a1-4b8c-a835-7f7a4481f4d5	g.chr19:9046849G>T	uc002mkp.2	-	5	34986	c.34782C>A	c.(34780-34782)AAC>AAA	p.N11594K		NM_024690	NP_078966	Q8WXI7	MUC16_HUMAN	mucin 16	11596	Thr-rich.|Extracellular (Potential).				cell adhesion	extracellular space|extrinsic to membrane|integral to membrane|plasma membrane	protein binding			lung(30)|ovary(15)|breast(8)|large_intestine(1)|skin(1)|prostate(1)|pancreas(1)	57						TATGGGAAAAGTTGGGAATTG	0.517													6	49	---	---	---	---	PASS
MUC16	94025	broad.mit.edu	37	19	9075949	9075949	+	Missense_Mutation	SNP	C	G	G			TCGA-66-2742-01A-01D-0983-08	TCGA-66-2742-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	07047a99-45bd-4df6-ad6f-934a48e8e213	09de7b21-79a1-4b8c-a835-7f7a4481f4d5	g.chr19:9075949C>G	uc002mkp.2	-	3	11701	c.11497G>C	c.(11497-11499)GCA>CCA	p.A3833P		NM_024690	NP_078966	Q8WXI7	MUC16_HUMAN	mucin 16	3834	Thr-rich.|Extracellular (Potential).				cell adhesion	extracellular space|extrinsic to membrane|integral to membrane|plasma membrane	protein binding			lung(30)|ovary(15)|breast(8)|large_intestine(1)|skin(1)|prostate(1)|pancreas(1)	57						AGAGTTGTTGCTGCTGATCTG	0.502													15	94	---	---	---	---	PASS
MUC16	94025	broad.mit.edu	37	19	9084683	9084683	+	Missense_Mutation	SNP	T	C	C			TCGA-66-2742-01A-01D-0983-08	TCGA-66-2742-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	07047a99-45bd-4df6-ad6f-934a48e8e213	09de7b21-79a1-4b8c-a835-7f7a4481f4d5	g.chr19:9084683T>C	uc002mkp.2	-	1	7336	c.7132A>G	c.(7132-7134)ATA>GTA	p.I2378V		NM_024690	NP_078966	Q8WXI7	MUC16_HUMAN	mucin 16	2378	Ser-rich.|Thr-rich.|Extracellular (Potential).				cell adhesion	extracellular space|extrinsic to membrane|integral to membrane|plasma membrane	protein binding			lung(30)|ovary(15)|breast(8)|large_intestine(1)|skin(1)|prostate(1)|pancreas(1)	57						GAAGAAGCTATGGAGGTGTTG	0.438													18	38	---	---	---	---	PASS
OR7D2	162998	broad.mit.edu	37	19	9297245	9297245	+	Missense_Mutation	SNP	C	T	T			TCGA-66-2742-01A-01D-0983-08	TCGA-66-2742-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	07047a99-45bd-4df6-ad6f-934a48e8e213	09de7b21-79a1-4b8c-a835-7f7a4481f4d5	g.chr19:9297245C>T	uc002mkz.1	+	1	976	c.788C>T	c.(787-789)GCG>GTG	p.A263V		NM_175883	NP_787079	Q96RA2	OR7D2_HUMAN	olfactory receptor, family 7, subfamily D,	263	Extracellular (Potential).				regulation of transcription, DNA-dependent|sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(2)|upper_aerodigestive_tract(1)	3						TTCACTTCTGCGGTGACTCAC	0.507													7	67	---	---	---	---	PASS
COL5A3	50509	broad.mit.edu	37	19	10071197	10071197	+	Missense_Mutation	SNP	T	A	A			TCGA-66-2742-01A-01D-0983-08	TCGA-66-2742-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	07047a99-45bd-4df6-ad6f-934a48e8e213	09de7b21-79a1-4b8c-a835-7f7a4481f4d5	g.chr19:10071197T>A	uc002mmq.1	-	67	5214	c.5128A>T	c.(5128-5130)AGC>TGC	p.S1710C		NM_015719	NP_056534	P25940	CO5A3_HUMAN	collagen, type V, alpha 3 preproprotein	1710	Fibrillar collagen NC1.				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)			CGAGAAGAGCTGAATTCGAAA	0.572													24	57	---	---	---	---	PASS
RGL3	57139	broad.mit.edu	37	19	11527293	11527293	+	Silent	SNP	G	A	A			TCGA-66-2742-01A-01D-0983-08	TCGA-66-2742-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	07047a99-45bd-4df6-ad6f-934a48e8e213	09de7b21-79a1-4b8c-a835-7f7a4481f4d5	g.chr19:11527293G>A	uc002mrp.2	-	4	484	c.420C>T	c.(418-420)AAC>AAT	p.N140N	RGL3_uc002mrn.2_5'UTR|RGL3_uc002mrm.2_5'UTR|RGL3_uc002mro.2_Silent_p.N140N|RGL3_uc002mrq.2_3'UTR	NM_001035223	NP_001030300	Q3MIN7	RGL3_HUMAN	ral guanine nucleotide dissociation	140	N-terminal Ras-GEF.				regulation of small GTPase mediated signal transduction|small GTPase mediated signal transduction	intracellular				ovary(1)	1						CCCACCTCAGGTTCTTGTTGA	0.542													24	85	---	---	---	---	PASS
SLC1A6	6511	broad.mit.edu	37	19	15061032	15061032	+	Missense_Mutation	SNP	C	T	T			TCGA-66-2742-01A-01D-0983-08	TCGA-66-2742-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	07047a99-45bd-4df6-ad6f-934a48e8e213	09de7b21-79a1-4b8c-a835-7f7a4481f4d5	g.chr19:15061032C>T	uc002naa.1	-	9	1678	c.1670G>A	c.(1669-1671)CGG>CAG	p.R557Q	SLC1A6_uc010dzu.1_Missense_Mutation_p.R479Q|SLC1A6_uc010xod.1_Missense_Mutation_p.R493Q	NM_005071	NP_005062	P48664	EAA4_HUMAN	solute carrier family 1 (high affinity	557					synaptic transmission	integral to plasma membrane|membrane fraction	high-affinity glutamate transmembrane transporter activity|L-aspartate transmembrane transporter activity|sodium:dicarboxylate symporter activity			pancreas(3)|ovary(2)|skin(1)	6					L-Glutamic Acid(DB00142)	GTTGCCTCCCCGTCCCCGGGA	0.652													21	20	---	---	---	---	PASS
MRPL34	64981	broad.mit.edu	37	19	17417103	17417103	+	Missense_Mutation	SNP	G	C	C			TCGA-66-2742-01A-01D-0983-08	TCGA-66-2742-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	07047a99-45bd-4df6-ad6f-934a48e8e213	09de7b21-79a1-4b8c-a835-7f7a4481f4d5	g.chr19:17417103G>C	uc002ngc.1	+	2	419	c.194G>C	c.(193-195)GGC>GCC	p.G65A	ABHD8_uc002ngb.3_5'Flank	NM_023937	NP_076426	Q9BQ48	RM34_HUMAN	mitochondrial ribosomal protein L34 precursor	65					translation		structural constituent of ribosome				0						AACAAGCACGGCTGGGTCCGG	0.667													2	2	---	---	---	---	PASS
C19orf50	79036	broad.mit.edu	37	19	18672950	18672950	+	Missense_Mutation	SNP	C	G	G			TCGA-66-2742-01A-01D-0983-08	TCGA-66-2742-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	07047a99-45bd-4df6-ad6f-934a48e8e213	09de7b21-79a1-4b8c-a835-7f7a4481f4d5	g.chr19:18672950C>G	uc002njo.2	+	2	226	c.84C>G	c.(82-84)ATC>ATG	p.I28M	C19orf50_uc002njp.2_RNA|C19orf50_uc002njq.2_Missense_Mutation_p.I28M	NM_024069	NP_076974	Q9BQD3	CS050_HUMAN	hypothetical protein LOC79036	28							protein binding				0						ACGCCATCATCCTGGCCCAGA	0.617													4	19	---	---	---	---	PASS
KLHL26	55295	broad.mit.edu	37	19	18778681	18778681	+	Silent	SNP	G	A	A			TCGA-66-2742-01A-01D-0983-08	TCGA-66-2742-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	07047a99-45bd-4df6-ad6f-934a48e8e213	09de7b21-79a1-4b8c-a835-7f7a4481f4d5	g.chr19:18778681G>A	uc002njz.1	+	3	501	c.474G>A	c.(472-474)GCG>GCA	p.A158A		NM_018316	NP_060786	Q53HC5	KLH26_HUMAN	kelch-like 26	158										ovary(1)	1						TCCTGAAGGCGGCCATGAGCG	0.647													7	36	---	---	---	---	PASS
NCAN	1463	broad.mit.edu	37	19	19345811	19345811	+	Nonsense_Mutation	SNP	C	A	A			TCGA-66-2742-01A-01D-0983-08	TCGA-66-2742-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	07047a99-45bd-4df6-ad6f-934a48e8e213	09de7b21-79a1-4b8c-a835-7f7a4481f4d5	g.chr19:19345811C>A	uc002nlz.2	+	10	3255	c.3156C>A	c.(3154-3156)TGC>TGA	p.C1052*	NCAN_uc010ecc.1_Nonsense_Mutation_p.C616*	NM_004386	NP_004377	O14594	NCAN_HUMAN	chondroitin sulfate proteoglycan 3 precursor	1052	EGF-like 2; calcium-binding (Potential).				axon guidance|cell adhesion	extracellular region	calcium ion binding|hyaluronic acid binding|sugar binding			ovary(4)	4			Epithelial(12;0.00544)			ACTGCCTCTGCAGCCCCTGTG	0.537													8	74	---	---	---	---	PASS
MLL4	9757	broad.mit.edu	37	19	36212435	36212435	+	Missense_Mutation	SNP	A	G	G			TCGA-66-2742-01A-01D-0983-08	TCGA-66-2742-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	07047a99-45bd-4df6-ad6f-934a48e8e213	09de7b21-79a1-4b8c-a835-7f7a4481f4d5	g.chr19:36212435A>G	uc010eei.2	+	3	2186	c.2186A>G	c.(2185-2187)AAC>AGC	p.N729S		NM_014727	NP_055542	Q9UMN6	MLL4_HUMAN	myeloid/lymphoid or mixed-lineage leukemia 4	729	Pro-rich.				chromatin-mediated maintenance of transcription		DNA binding|protein binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			central_nervous_system(6)|breast(2)|ovary(1)|kidney(1)|skin(1)	11	all_lung(56;3.33e-07)|Lung NSC(56;5.02e-07)|Esophageal squamous(110;0.162)		LUSC - Lung squamous cell carcinoma(66;0.0515)			GCTCTGAGCAACGGGCCACAG	0.662													10	37	---	---	---	---	PASS
ZNF260	339324	broad.mit.edu	37	19	37005980	37005980	+	Missense_Mutation	SNP	G	A	A			TCGA-66-2742-01A-01D-0983-08	TCGA-66-2742-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	07047a99-45bd-4df6-ad6f-934a48e8e213	09de7b21-79a1-4b8c-a835-7f7a4481f4d5	g.chr19:37005980G>A	uc002oee.1	-	4	1005	c.161C>T	c.(160-162)TCT>TTT	p.S54F	ZNF260_uc002oed.1_Missense_Mutation_p.S51F|ZNF260_uc010eey.1_Missense_Mutation_p.S51F|ZNF260_uc002oef.1_Missense_Mutation_p.S51F	NM_001012756	NP_001012774	Q3ZCT1	ZN260_HUMAN	zinc finger protein 260	54					multicellular organismal development|regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0	Esophageal squamous(110;0.162)					GCATTCATGAGATTTCTCTCC	0.363													28	61	---	---	---	---	PASS
NUMBL	9253	broad.mit.edu	37	19	41186909	41186909	+	Silent	SNP	G	A	A			TCGA-66-2742-01A-01D-0983-08	TCGA-66-2742-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	07047a99-45bd-4df6-ad6f-934a48e8e213	09de7b21-79a1-4b8c-a835-7f7a4481f4d5	g.chr19:41186909G>A	uc002oon.2	-	6	621	c.453C>T	c.(451-453)CGC>CGT	p.R151R	NUMBL_uc010xvq.1_Silent_p.R110R|NUMBL_uc002ooo.2_Silent_p.R151R|NUMBL_uc010xvr.1_Silent_p.R110R	NM_004756	NP_004747	Q9Y6R0	NUMBL_HUMAN	numb homolog (Drosophila)-like	151	PID.				cytokine-mediated signaling pathway|lateral ventricle development|neuroblast division in subventricular zone|protein metabolic process	cytoplasm	protein binding			lung(3)|ovary(1)|breast(1)	5			Lung(22;0.000393)|LUSC - Lung squamous cell carcinoma(20;0.00105)			TGTCCAGGTTGCGGTCAGGAG	0.547													42	93	---	---	---	---	PASS
ZNF229	7772	broad.mit.edu	37	19	44934577	44934577	+	Missense_Mutation	SNP	G	T	T			TCGA-66-2742-01A-01D-0983-08	TCGA-66-2742-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	07047a99-45bd-4df6-ad6f-934a48e8e213	09de7b21-79a1-4b8c-a835-7f7a4481f4d5	g.chr19:44934577G>T	uc002oze.1	-	6	813	c.379C>A	c.(379-381)CAA>AAA	p.Q127K	ZNF229_uc010ejk.1_5'UTR|ZNF229_uc010ejl.1_Missense_Mutation_p.Q121K	NM_014518	NP_055333	Q9UJW7	ZN229_HUMAN	zinc finger protein 229	127					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			skin(2)|ovary(1)|pancreas(1)	4		Prostate(69;0.0352)				TCTTTTCCTTGCAGATTTACT	0.468													18	66	---	---	---	---	PASS
VASP	7408	broad.mit.edu	37	19	46021024	46021024	+	Missense_Mutation	SNP	C	A	A			TCGA-66-2742-01A-01D-0983-08	TCGA-66-2742-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	07047a99-45bd-4df6-ad6f-934a48e8e213	09de7b21-79a1-4b8c-a835-7f7a4481f4d5	g.chr19:46021024C>A	uc002pcg.2	+	2	451	c.109C>A	c.(109-111)CAG>AAG	p.Q37K	VASP_uc010eki.2_Silent_p.S20S|VASP_uc002pci.2_Missense_Mutation_p.Q24K	NM_003370	NP_003361	P50552	VASP_HUMAN	vasodilator-stimulated phosphoprotein	37	WH1.				axon guidance|cell junction assembly|T cell receptor signaling pathway	actin cytoskeleton|cytosol|filopodium membrane|focal adhesion|lamellipodium membrane	actin binding|profilin binding|SH3 domain binding				0		Ovarian(192;0.051)|all_neural(266;0.112)		OV - Ovarian serous cystadenocarcinoma(262;0.0145)|GBM - Glioblastoma multiforme(486;0.154)		CAGCCGCGTCCAGATCTACCA	0.642													27	63	---	---	---	---	PASS
VASP	7408	broad.mit.edu	37	19	46021195	46021195	+	Silent	SNP	C	T	T			TCGA-66-2742-01A-01D-0983-08	TCGA-66-2742-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	07047a99-45bd-4df6-ad6f-934a48e8e213	09de7b21-79a1-4b8c-a835-7f7a4481f4d5	g.chr19:46021195C>T	uc002pcg.2	+	3	528	c.186C>T	c.(184-186)ATC>ATT	p.I62I	VASP_uc010eki.2_Missense_Mutation_p.S46L|VASP_uc002pci.2_Silent_p.I49I	NM_003370	NP_003361	P50552	VASP_HUMAN	vasodilator-stimulated phosphoprotein	62	WH1.				axon guidance|cell junction assembly|T cell receptor signaling pathway	actin cytoskeleton|cytosol|filopodium membrane|focal adhesion|lamellipodium membrane	actin binding|profilin binding|SH3 domain binding				0		Ovarian(192;0.051)|all_neural(266;0.112)		OV - Ovarian serous cystadenocarcinoma(262;0.0145)|GBM - Glioblastoma multiforme(486;0.154)		AGGTGGTCATCAACTGTGCCA	0.468													9	21	---	---	---	---	PASS
LILRB1	10859	broad.mit.edu	37	19	55144519	55144519	+	Silent	SNP	C	A	A			TCGA-66-2742-01A-01D-0983-08	TCGA-66-2742-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	07047a99-45bd-4df6-ad6f-934a48e8e213	09de7b21-79a1-4b8c-a835-7f7a4481f4d5	g.chr19:55144519C>A	uc002qgj.2	+	8	1351	c.1011C>A	c.(1009-1011)GCC>GCA	p.A337A	LILRB1_uc010erp.1_Intron|LILRB1_uc002qgl.2_Silent_p.A337A|LILRB1_uc002qgk.2_Silent_p.A337A|LILRB1_uc002qgm.2_Silent_p.A337A|LILRB1_uc010erq.2_Silent_p.A337A|LILRB1_uc010err.2_RNA	NM_006669	NP_006660	Q8NHL6	LIRB1_HUMAN	leukocyte immunoglobulin-like receptor,	337	Ig-like C2-type 4.|Extracellular (Potential).				regulation of immune response|response to virus	integral to membrane|plasma membrane	protein phosphatase 1 binding|receptor activity			large_intestine(1)|ovary(1)|skin(1)	3				GBM - Glioblastoma multiforme(193;0.0188)		CCACGGTGGCCTCAGGAGAGA	0.597										HNSCC(37;0.09)			22	24	---	---	---	---	PASS
NLRP7	199713	broad.mit.edu	37	19	55441986	55441986	+	Missense_Mutation	SNP	C	A	A			TCGA-66-2742-01A-01D-0983-08	TCGA-66-2742-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	07047a99-45bd-4df6-ad6f-934a48e8e213	09de7b21-79a1-4b8c-a835-7f7a4481f4d5	g.chr19:55441986C>A	uc002qih.3	-	9	2767	c.2691G>T	c.(2689-2691)GAG>GAT	p.E897D	NLRP7_uc002qig.3_Missense_Mutation_p.E869D|NLRP7_uc002qii.3_Missense_Mutation_p.E897D|NLRP7_uc010esk.2_Missense_Mutation_p.E897D|NLRP7_uc010esl.2_Missense_Mutation_p.E925D	NM_206828	NP_996611	Q8WX94	NALP7_HUMAN	NACHT, leucine rich repeat and PYD containing 7	897	LRR 7.						ATP binding			large_intestine(1)|breast(1)|central_nervous_system(1)	3				GBM - Glioblastoma multiforme(193;0.0325)		CTTGGAGCGCCTCTGAGAGAT	0.478													18	51	---	---	---	---	PASS
PLCB4	5332	broad.mit.edu	37	20	9371211	9371211	+	Nonsense_Mutation	SNP	C	A	A			TCGA-66-2742-01A-01D-0983-08	TCGA-66-2742-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	07047a99-45bd-4df6-ad6f-934a48e8e213	09de7b21-79a1-4b8c-a835-7f7a4481f4d5	g.chr20:9371211C>A	uc002wnf.2	+	16	1408	c.1272C>A	c.(1270-1272)TGC>TGA	p.C424*	PLCB4_uc010gbw.1_Nonsense_Mutation_p.C424*|PLCB4_uc010gbx.2_Nonsense_Mutation_p.C424*|PLCB4_uc002wne.2_Nonsense_Mutation_p.C424*|PLCB4_uc002wnh.2_Nonsense_Mutation_p.C271*	NM_182797	NP_877949	Q15147	PLCB4_HUMAN	phospholipase C beta 4 isoform b	424	PI-PLC X-box.				intracellular signal transduction|lipid catabolic process	cytosol	calcium ion binding|phosphatidylinositol phospholipase C activity|protein binding|signal transducer activity			skin(11)|ovary(3)|pancreas(1)	15						CCAAATATTGCGAAGATCTAT	0.353													12	22	---	---	---	---	PASS
C20orf71	128861	broad.mit.edu	37	20	31814784	31814784	+	Silent	SNP	T	C	C			TCGA-66-2742-01A-01D-0983-08	TCGA-66-2742-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	07047a99-45bd-4df6-ad6f-934a48e8e213	09de7b21-79a1-4b8c-a835-7f7a4481f4d5	g.chr20:31814784T>C	uc002wyr.2	+	6	878	c.670T>C	c.(670-672)TTG>CTG	p.L224L	C20orf71_uc002wys.2_Silent_p.L188L	NM_178466	NP_848561	Q9BQP9	SPLC3_HUMAN	short long palate, lung and nasal epithelium	224						extracellular region	lipid binding			ovary(1)|skin(1)	2						TGTGAAACTGTTGAAAAGCCT	0.552													21	75	---	---	---	---	PASS
FAM83C	128876	broad.mit.edu	37	20	33875512	33875512	+	Missense_Mutation	SNP	A	T	T			TCGA-66-2742-01A-01D-0983-08	TCGA-66-2742-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	07047a99-45bd-4df6-ad6f-934a48e8e213	09de7b21-79a1-4b8c-a835-7f7a4481f4d5	g.chr20:33875512A>T	uc010zux.1	-	4	1188	c.1070T>A	c.(1069-1071)ATG>AAG	p.M357K	EIF6_uc002xbx.1_5'Flank|EIF6_uc002xbz.1_5'Flank|EIF6_uc002xby.1_5'Flank|FAM83C_uc002xcb.1_Intron	NM_178468	NP_848563	Q9BQN1	FA83C_HUMAN	hypothetical protein LOC128876	357										ovary(2)	2			BRCA - Breast invasive adenocarcinoma(18;0.00252)			GGAGCGACCCATAAGCGGTGA	0.652													14	25	---	---	---	---	PASS
RALGAPB	57148	broad.mit.edu	37	20	37179733	37179733	+	Missense_Mutation	SNP	G	A	A			TCGA-66-2742-01A-01D-0983-08	TCGA-66-2742-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	07047a99-45bd-4df6-ad6f-934a48e8e213	09de7b21-79a1-4b8c-a835-7f7a4481f4d5	g.chr20:37179733G>A	uc002xiw.2	+	21	3286	c.3029G>A	c.(3028-3030)CGC>CAC	p.R1010H	RALGAPB_uc002xix.2_Missense_Mutation_p.R1006H|RALGAPB_uc002xiy.1_Intron|RALGAPB_uc002xiz.2_Missense_Mutation_p.R788H	NM_020336	NP_065069	Q86X10	RLGPB_HUMAN	Ral GTPase activating protein, beta subunit	1010					activation of Ral GTPase activity	intracellular	protein heterodimerization activity|Ral GTPase activator activity			pancreas(1)|skin(1)	2						CCTGAACCTCGCCCAGTTCCT	0.393													27	128	---	---	---	---	PASS
SLC32A1	140679	broad.mit.edu	37	20	37353631	37353631	+	Silent	SNP	C	A	A			TCGA-66-2742-01A-01D-0983-08	TCGA-66-2742-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	07047a99-45bd-4df6-ad6f-934a48e8e213	09de7b21-79a1-4b8c-a835-7f7a4481f4d5	g.chr20:37353631C>A	uc002xjc.2	+	1	527	c.264C>A	c.(262-264)GGC>GGA	p.G88G		NM_080552	NP_542119	Q9H598	VIAAT_HUMAN	solute carrier family 32, member 1	88	Cytoplasmic (Potential).				neurotransmitter secretion	clathrin sculpted gamma-aminobutyric acid transport vesicle membrane|integral to membrane|plasma membrane|synaptic vesicle membrane	vesicular hydrogen:amino acid antiporter activity				0		Myeloproliferative disorder(115;0.00878)			Glycine(DB00145)	ATCAGCGAGGCAGCGGAGCTC	0.672													24	37	---	---	---	---	PASS
PTPRT	11122	broad.mit.edu	37	20	40713432	40713432	+	Silent	SNP	G	T	T			TCGA-66-2742-01A-01D-0983-08	TCGA-66-2742-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	07047a99-45bd-4df6-ad6f-934a48e8e213	09de7b21-79a1-4b8c-a835-7f7a4481f4d5	g.chr20:40713432G>T	uc002xkg.2	-	29	4210	c.4026C>A	c.(4024-4026)GCC>GCA	p.A1342A	PTPRT_uc010ggj.2_Silent_p.A1361A|PTPRT_uc010ggi.2_Silent_p.A545A	NM_007050	NP_008981	O14522	PTPRT_HUMAN	protein tyrosine phosphatase, receptor type, T	1342	Cytoplasmic (Potential).|Tyrosine-protein phosphatase 2.				homophilic cell adhesion|transmembrane receptor protein tyrosine kinase signaling pathway	cell surface|integral to membrane|plasma membrane	alpha-catenin binding|beta-catenin binding|cadherin binding|delta-catenin binding|gamma-catenin binding|protein tyrosine phosphatase activity|receptor activity			skin(8)|ovary(7)|lung(5)	20		Myeloproliferative disorder(115;0.00452)|Lung NSC(126;0.0573)|all_lung(126;0.0783)				TGTCCCGGTAGGCAGGCCAGC	0.597													5	23	---	---	---	---	PASS
ZFP64	55734	broad.mit.edu	37	20	50769544	50769544	+	Missense_Mutation	SNP	T	A	A			TCGA-66-2742-01A-01D-0983-08	TCGA-66-2742-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	07047a99-45bd-4df6-ad6f-934a48e8e213	09de7b21-79a1-4b8c-a835-7f7a4481f4d5	g.chr20:50769544T>A	uc002xwl.2	-	6	1536	c.1187A>T	c.(1186-1188)GAC>GTC	p.D396V	ZFP64_uc002xwk.2_Intron|ZFP64_uc002xwm.2_Missense_Mutation_p.D394V|ZFP64_uc002xwn.2_Missense_Mutation_p.D342V	NM_018197	NP_060667	Q9NPA5	ZF64A_HUMAN	zinc finger protein 64 isoform a	396					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			upper_aerodigestive_tract(1)|ovary(1)	2						CTTAACCATGTCCCCATGGAA	0.552													21	66	---	---	---	---	PASS
TPTE	7179	broad.mit.edu	37	21	10921941	10921941	+	Missense_Mutation	SNP	G	T	T			TCGA-66-2742-01A-01D-0983-08	TCGA-66-2742-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	07047a99-45bd-4df6-ad6f-934a48e8e213	09de7b21-79a1-4b8c-a835-7f7a4481f4d5	g.chr21:10921941G>T	uc002yip.1	-	18	1450	c.1082C>A	c.(1081-1083)ACT>AAT	p.T361N	TPTE_uc002yis.1_RNA|TPTE_uc002yiq.1_Missense_Mutation_p.T343N|TPTE_uc002yir.1_Missense_Mutation_p.T323N|TPTE_uc010gkv.1_Missense_Mutation_p.T223N	NM_199261	NP_954870	P56180	TPTE_HUMAN	transmembrane phosphatase with tensin homology	361	Phosphatase tensin-type.				signal transduction	integral to membrane	ion channel activity|protein tyrosine phosphatase activity|protein tyrosine/serine/threonine phosphatase activity			ovary(2)|lung(1)|breast(1)|skin(1)	5			Colorectal(6;3.44e-05)|COAD - Colon adenocarcinoma(6;0.00727)|READ - Rectum adenocarcinoma(6;0.0723)	UCEC - Uterine corpus endometrioid carcinoma (6;0.0974)|all cancers(6;2.54e-22)|Epithelial(6;4.21e-19)|OV - Ovarian serous cystadenocarcinoma(6;1.16e-09)|BRCA - Breast invasive adenocarcinoma(6;7.72e-05)|Lung(8;0.000189)|LUSC - Lung squamous cell carcinoma(6;0.00379)|GBM - Glioblastoma multiforme(6;0.00391)|Kidney(17;0.0773)|LUAD - Lung adenocarcinoma(8;0.247)		TACCTTTGCAGTTGAACATAT	0.338													7	79	---	---	---	---	PASS
ADAMTS5	11096	broad.mit.edu	37	21	28296372	28296372	+	Silent	SNP	C	T	T			TCGA-66-2742-01A-01D-0983-08	TCGA-66-2742-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	07047a99-45bd-4df6-ad6f-934a48e8e213	09de7b21-79a1-4b8c-a835-7f7a4481f4d5	g.chr21:28296372C>T	uc002ymg.2	-	8	3522	c.2793G>A	c.(2791-2793)TAG>TAA	p.*931*		NM_007038	NP_008969	Q9UNA0	ATS5_HUMAN	ADAM metallopeptidase with thrombospondin type 1	931					proteolysis	proteinaceous extracellular matrix	integrin binding|metalloendopeptidase activity|zinc ion binding			upper_aerodigestive_tract(2)|ovary(1)|pancreas(1)	4						TAACCACAGGCTAACATTTCT	0.468													6	10	---	---	---	---	PASS
HSCB	150274	broad.mit.edu	37	22	29139937	29139937	+	Missense_Mutation	SNP	C	G	G			TCGA-66-2742-01A-01D-0983-08	TCGA-66-2742-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	07047a99-45bd-4df6-ad6f-934a48e8e213	09de7b21-79a1-4b8c-a835-7f7a4481f4d5	g.chr22:29139937C>G	uc003aea.2	+	2	345	c.304C>G	c.(304-306)CAC>GAC	p.H102D	CHEK2_uc003adt.1_5'Flank|CHEK2_uc003adu.1_5'Flank|CHEK2_uc003adv.1_5'Flank|CHEK2_uc003adw.1_5'Flank|CHEK2_uc003adx.1_5'Flank|CHEK2_uc003ady.1_5'Flank|CHEK2_uc003adz.1_5'Flank	NM_172002	NP_741999	Q8IWL3	HSC20_HUMAN	J-type co-chaperone HSC20 precursor	102	J.			HPD->AAA: Does not interact with HSPA9. Does not inhibit interaction with ISCU.	iron-sulfur cluster assembly|protein folding	mitochondrion	chaperone binding|heat shock protein binding|metal ion binding			kidney(1)	1						GCGTCTTGTCCACCCAGATTT	0.478													19	63	---	---	---	---	PASS
SMTN	6525	broad.mit.edu	37	22	31484072	31484072	+	Missense_Mutation	SNP	G	T	T			TCGA-66-2742-01A-01D-0983-08	TCGA-66-2742-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	07047a99-45bd-4df6-ad6f-934a48e8e213	09de7b21-79a1-4b8c-a835-7f7a4481f4d5	g.chr22:31484072G>T	uc003ajl.1	+	3	391	c.173G>T	c.(172-174)CGG>CTG	p.R58L	SMTN_uc003ajk.1_Missense_Mutation_p.R58L|SMTN_uc003ajm.1_Missense_Mutation_p.R58L|SMTN_uc011ale.1_Missense_Mutation_p.R112L|SMTN_uc011alf.1_Missense_Mutation_p.R114L|SMTN_uc003ajn.1_Missense_Mutation_p.R50L|SMTN_uc011alg.1_5'Flank	NM_006932	NP_008863	P53814	SMTN_HUMAN	smoothelin isoform c	58	Potential.				muscle organ development|smooth muscle contraction	actin cytoskeleton|cytoplasm	actin binding|structural constituent of muscle			large_intestine(2)|pancreas(1)	3						CGTGCCGAGCGGCAGGACAAC	0.657													3	5	---	---	---	---	PASS
LARGE	9215	broad.mit.edu	37	22	34157438	34157438	+	Missense_Mutation	SNP	C	T	T			TCGA-66-2742-01A-01D-0983-08	TCGA-66-2742-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	07047a99-45bd-4df6-ad6f-934a48e8e213	09de7b21-79a1-4b8c-a835-7f7a4481f4d5	g.chr22:34157438C>T	uc003and.3	-	3	605	c.26G>A	c.(25-27)CGG>CAG	p.R9Q	LARGE_uc003ane.3_Missense_Mutation_p.R9Q|LARGE_uc010gwp.2_Missense_Mutation_p.R9Q|LARGE_uc011ame.1_Intron|LARGE_uc011amf.1_Missense_Mutation_p.R9Q	NM_004737	NP_004728	O95461	LARGE_HUMAN	like-glycosyltransferase	9	Cytoplasmic (Potential).				glycosphingolipid biosynthetic process|muscle cell homeostasis|N-acetylglucosamine metabolic process|protein glycosylation	integral to Golgi membrane	acetylglucosaminyltransferase activity			ovary(1)|central_nervous_system(1)|skin(1)	3		Lung NSC(1;0.219)				CAAGAATTTCCGTCTCCCCCT	0.532													9	73	---	---	---	---	PASS
FAM47C	442444	broad.mit.edu	37	X	37027907	37027907	+	Missense_Mutation	SNP	G	A	A			TCGA-66-2742-01A-01D-0983-08	TCGA-66-2742-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	07047a99-45bd-4df6-ad6f-934a48e8e213	09de7b21-79a1-4b8c-a835-7f7a4481f4d5	g.chrX:37027907G>A	uc004ddl.1	+	1	1438	c.1424G>A	c.(1423-1425)TGC>TAC	p.C475Y		NM_001013736	NP_001013758	Q5HY64	FA47C_HUMAN	hypothetical protein LOC442444	475										ovary(3)	3						TCCCATCTCTGCCCGGAGCCT	0.627													31	32	---	---	---	---	PASS
TSPAN7	7102	broad.mit.edu	37	X	38546888	38546888	+	Silent	SNP	G	T	T			TCGA-66-2742-01A-01D-0983-08	TCGA-66-2742-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	07047a99-45bd-4df6-ad6f-934a48e8e213	09de7b21-79a1-4b8c-a835-7f7a4481f4d5	g.chrX:38546888G>T	uc004deg.3	+	7	786	c.717G>T	c.(715-717)CGG>CGT	p.R239R	TSPAN7_uc011mkj.1_Silent_p.R265R|TSPAN7_uc011mkk.1_Silent_p.R256R|TSPAN7_uc004deh.2_Silent_p.R147R	NM_004615	NP_004606	P41732	TSN7_HUMAN	tetraspanin 7	239	Cytoplasmic (Potential).				interspecies interaction between organisms	integral to plasma membrane				ovary(1)	1						GTCTGTCCCGGTTCATCACGG	0.473													13	7	---	---	---	---	PASS
KDM6A	7403	broad.mit.edu	37	X	44941830	44941830	+	Nonsense_Mutation	SNP	G	T	T			TCGA-66-2742-01A-01D-0983-08	TCGA-66-2742-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	07047a99-45bd-4df6-ad6f-934a48e8e213	09de7b21-79a1-4b8c-a835-7f7a4481f4d5	g.chrX:44941830G>T	uc004dge.3	+	21	3529	c.3154G>T	c.(3154-3156)GAA>TAA	p.E1052*	KDM6A_uc011mkz.1_Nonsense_Mutation_p.E1104*|KDM6A_uc011mla.1_Nonsense_Mutation_p.E1007*|KDM6A_uc011mlb.1_Nonsense_Mutation_p.E1059*|KDM6A_uc011mlc.1_Nonsense_Mutation_p.E756*|KDM6A_uc011mld.1_Nonsense_Mutation_p.E691*	NM_021140	NP_066963	O15550	KDM6A_HUMAN	ubiquitously transcribed tetratricopeptide	1052					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						GGAAGAAAATGAAAAAAGAAG	0.313			D|N|F|S		renal|oesophageal SCC|MM								20	10	---	---	---	---	PASS
PSMD10	5716	broad.mit.edu	37	X	107334727	107334727	+	Silent	SNP	T	A	A			TCGA-66-2742-01A-01D-0983-08	TCGA-66-2742-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	07047a99-45bd-4df6-ad6f-934a48e8e213	09de7b21-79a1-4b8c-a835-7f7a4481f4d5	g.chrX:107334727T>A	uc004enp.1	-	1	122	c.24A>T	c.(22-24)CTA>CTT	p.L8L	ATG4A_uc004enr.2_5'Flank|ATG4A_uc004ent.2_5'Flank|ATG4A_uc004ens.2_5'Flank|ATG4A_uc011msl.1_5'Flank|ATG4A_uc010npi.2_5'Flank|PSMD10_uc004enq.1_Silent_p.L8L|PSMD10_uc010nph.1_Silent_p.L8L	NM_002814	NP_002805	O75832	PSD10_HUMAN	proteasome 26S non-ATPase subunit 10 isoform 1	8	ANK 1.|Interaction with RB1.|Required for nuclear localization.				anaphase-promoting complex-dependent proteasomal ubiquitin-dependent protein catabolic process|apoptosis|cytoplasmic sequestering of NF-kappaB|DNA damage response, signal transduction by p53 class mediator resulting in cell cycle arrest|G1/S transition of mitotic cell cycle|M/G1 transition of mitotic cell cycle|mRNA metabolic process|negative regulation of apoptosis|negative regulation of DNA damage response, signal transduction by p53 class mediator|negative regulation of MAPKKK cascade|negative regulation of NF-kappaB transcription factor activity|negative regulation of release of cytochrome c from mitochondria|negative regulation of transcription from RNA polymerase II promoter|negative regulation of ubiquitin-protein ligase activity involved in mitotic cell cycle|positive regulation of cell growth|positive regulation of cyclin-dependent protein kinase activity|positive regulation of proteasomal ubiquitin-dependent protein catabolic process|positive regulation of ubiquitin-protein ligase activity involved in mitotic cell cycle|proteasome regulatory particle assembly|regulation of cellular amino acid metabolic process|S phase of mitotic cell cycle|viral reproduction	actin cytoskeleton|cytoplasm|intermediate filament cytoskeleton|nucleus|proteasome regulatory particle	transcription factor binding			ovary(1)	1						TGCAGACCATTAGGTTAGACA	0.562													45	25	---	---	---	---	PASS
DCAF12L1	139170	broad.mit.edu	37	X	125686112	125686112	+	Silent	SNP	G	A	A			TCGA-66-2742-01A-01D-0983-08	TCGA-66-2742-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	07047a99-45bd-4df6-ad6f-934a48e8e213	09de7b21-79a1-4b8c-a835-7f7a4481f4d5	g.chrX:125686112G>A	uc004eul.2	-	1	731	c.480C>T	c.(478-480)TCC>TCT	p.S160S		NM_178470	NP_848565	Q5VU92	DC121_HUMAN	DDB1 and CUL4 associated factor 12-like 1	160	WD 1.									skin(3)|ovary(1)	4						GAAGCGTCTTGGAGGGATTCA	0.667													10	13	---	---	---	---	PASS
BRS3	680	broad.mit.edu	37	X	135570420	135570420	+	Silent	SNP	C	A	A			TCGA-66-2742-01A-01D-0983-08	TCGA-66-2742-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	07047a99-45bd-4df6-ad6f-934a48e8e213	09de7b21-79a1-4b8c-a835-7f7a4481f4d5	g.chrX:135570420C>A	uc004ezv.1	+	1	296	c.147C>A	c.(145-147)GCC>GCA	p.A49A		NM_001727	NP_001718	P32247	BRS3_HUMAN	bombesin-like receptor 3	49	Helical; Name=1; (Potential).				adult feeding behavior|glucose metabolic process|regulation of blood pressure	integral to membrane|plasma membrane	bombesin receptor activity			ovary(1)	1	Acute lymphoblastic leukemia(192;0.000127)					CATTGTGTGCCATCTATATTA	0.398													34	25	---	---	---	---	PASS
MCF2	4168	broad.mit.edu	37	X	138692464	138692464	+	Nonsense_Mutation	SNP	A	T	T			TCGA-66-2742-01A-01D-0983-08	TCGA-66-2742-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	07047a99-45bd-4df6-ad6f-934a48e8e213	09de7b21-79a1-4b8c-a835-7f7a4481f4d5	g.chrX:138692464A>T	uc004fau.2	-	11	1691	c.1397T>A	c.(1396-1398)TTA>TAA	p.L466*	MCF2_uc004fav.2_Nonsense_Mutation_p.L482*|MCF2_uc011mwl.1_Nonsense_Mutation_p.L443*|MCF2_uc010nsh.1_Nonsense_Mutation_p.L466*|MCF2_uc011mwm.1_Nonsense_Mutation_p.L427*|MCF2_uc011mwn.1_Nonsense_Mutation_p.L611*|MCF2_uc004faw.2_Nonsense_Mutation_p.L526*|MCF2_uc011mwo.1_Nonsense_Mutation_p.L542*	NM_005369	NP_005360	P10911	MCF2_HUMAN	MCF.2 cell line derived transforming sequence	466					apoptosis|induction of apoptosis by extracellular signals|nerve growth factor receptor signaling pathway|regulation of Rho protein signal transduction|small GTPase mediated signal transduction	cytoskeleton|cytosol|membrane|membrane fraction	protein binding|Rho guanyl-nucleotide exchange factor activity			lung(1)|pleura(1)	2	Acute lymphoblastic leukemia(192;0.000127)					ATTTACTTTTAAGTTGCTCTG	0.299													3	5	---	---	---	---	PASS
MAGEA8	4107	broad.mit.edu	37	X	149013145	149013145	+	Silent	SNP	T	C	C			TCGA-66-2742-01A-01D-0983-08	TCGA-66-2742-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	07047a99-45bd-4df6-ad6f-934a48e8e213	09de7b21-79a1-4b8c-a835-7f7a4481f4d5	g.chrX:149013145T>C	uc004fdw.1	+	3	314	c.99T>C	c.(97-99)GCT>GCC	p.A33A		NM_005364	NP_005355	P43361	MAGA8_HUMAN	melanoma antigen family A, 8	33											0	Acute lymphoblastic leukemia(192;6.56e-05)					TTCCCACAGCTGAGGAGCAGA	0.567													4	12	---	---	---	---	PASS
NOTCH2	4853	broad.mit.edu	37	1	120612003	120612004	+	Frame_Shift_Del	DEL	GG	-	-			TCGA-66-2742-01A-01D-0983-08	TCGA-66-2742-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	07047a99-45bd-4df6-ad6f-934a48e8e213	09de7b21-79a1-4b8c-a835-7f7a4481f4d5	g.chr1:120612003_120612004delGG	uc001eik.2	-	1	273_274	c.17_18delCC	c.(16-18)CCCfs	p.P6fs	NOTCH2_uc001eil.2_Frame_Shift_Del_p.P6fs|NOTCH2_uc001eim.3_5'UTR	NM_024408	NP_077719	Q04721	NOTC2_HUMAN	notch 2 preproprotein	6					anti-apoptosis|bone remodeling|cell cycle arrest|cell fate determination|cell growth|hemopoiesis|induction of apoptosis|negative regulation of cell proliferation|nervous system development|Notch receptor processing|Notch signaling pathway|organ morphogenesis|positive regulation of Ras protein signal transduction|regulation of transcription, DNA-dependent|stem cell maintenance|transcription, DNA-dependent	cell surface|cytosol|endoplasmic reticulum lumen|extracellular region|Golgi lumen|integral to plasma membrane|nucleoplasm	calcium ion binding|ligand-regulated transcription factor activity|protein binding|receptor activity			lung(8)|haematopoietic_and_lymphoid_tissue(7)|ovary(4)|central_nervous_system(2)|skin(2)|kidney(2)|breast(1)|prostate(1)	27	all_neural(166;0.153)	all_lung(203;1.96e-06)|Lung NSC(69;1.47e-05)|all_epithelial(167;0.000809)		Lung(183;0.0242)|LUSC - Lung squamous cell carcinoma(189;0.133)		ACAGCAGAGCGGGGCGCAGGGC	0.663			N|F|Mis		marginal zone lymphoma|DLBCL				Alagille_Syndrome				10	5	---	---	---	---	
OR10K1	391109	broad.mit.edu	37	1	158435542	158435542	+	Frame_Shift_Del	DEL	C	-	-			TCGA-66-2742-01A-01D-0983-08	TCGA-66-2742-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	07047a99-45bd-4df6-ad6f-934a48e8e213	09de7b21-79a1-4b8c-a835-7f7a4481f4d5	g.chr1:158435542delC	uc010pij.1	+	1	191	c.191delC	c.(190-192)GCCfs	p.A64fs		NM_001004473	NP_001004473	Q8NGX5	O10K1_HUMAN	olfactory receptor, family 10, subfamily K,	64	Helical; Name=2; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)	1	all_hematologic(112;0.0378)					TTCTTCCTTGCCATCCTTTCT	0.478													106	93	---	---	---	---	
REG1P	5969	broad.mit.edu	37	2	79362646	79362647	+	RNA	INS	-	T	T			TCGA-66-2742-01A-01D-0983-08	TCGA-66-2742-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	07047a99-45bd-4df6-ad6f-934a48e8e213	09de7b21-79a1-4b8c-a835-7f7a4481f4d5	g.chr2:79362646_79362647insT	uc002soa.1	-	4		c.1667_1668insA			REG1P_uc002sob.1_RNA|REG1P_uc002soc.1_RNA					Homo sapiens mRNA for Reg-related sequence derived peptide-1, complete cds.												0						AAACATGTTTATTTTTATTGTT	0.426													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	3	195963973	195963974	+	RNA	INS	-	AG	AG	rs147293878	by1000genomes	TCGA-66-2742-01A-01D-0983-08	TCGA-66-2742-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	07047a99-45bd-4df6-ad6f-934a48e8e213	09de7b21-79a1-4b8c-a835-7f7a4481f4d5	g.chr3:195963973_195963974insAG	uc003fwf.1	-	1		c.812_813insCT								Homo sapiens full length insert cDNA clone ZD56D02.																		ACAGTCCTAGCAGAGGCAAGGA	0.480													0	8	---	---	---	---	
CASP4	837	broad.mit.edu	37	11	104822634	104822635	+	Frame_Shift_Del	DEL	TT	-	-			TCGA-66-2742-01A-01D-0983-08	TCGA-66-2742-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	07047a99-45bd-4df6-ad6f-934a48e8e213	09de7b21-79a1-4b8c-a835-7f7a4481f4d5	g.chr11:104822634_104822635delTT	uc001pid.1	-	3	433_434	c.360_361delAA	c.(358-363)GAAAGAfs	p.E120fs	CASP4_uc001pib.1_Frame_Shift_Del_p.E64fs|CASP4_uc009yxg.1_Frame_Shift_Del_p.E29fs|CASP4_uc010rux.1_Frame_Shift_Del_p.E120fs|CASP4_uc010ruy.1_Frame_Shift_Del_p.E120fs	NM_001225	NP_001216	P49662	CASP4_HUMAN	caspase 4 isoform alpha precursor	120_121					apoptosis|induction of apoptosis|proteolysis	intracellular	cysteine-type endopeptidase activity|protein binding			lung(2)|ovary(1)|skin(1)	4		Acute lymphoblastic leukemia(157;0.000967)|all_hematologic(158;0.0017)|Melanoma(852;0.0047)		BRCA - Breast invasive adenocarcinoma(274;0.000854)|Epithelial(105;0.00879)|all cancers(92;0.0357)		TCTTCAGCTCTTTCTTTACATA	0.406													24	12	---	---	---	---	
ZNF268	10795	broad.mit.edu	37	12	133780828	133780829	+	Frame_Shift_Ins	INS	-	C	C			TCGA-66-2742-01A-01D-0983-08	TCGA-66-2742-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	07047a99-45bd-4df6-ad6f-934a48e8e213	09de7b21-79a1-4b8c-a835-7f7a4481f4d5	g.chr12:133780828_133780829insC	uc010tcf.1	+	6	2886_2887	c.2556_2557insC	c.(2554-2559)CTTGTAfs	p.L852fs	ZNF268_uc010tbv.1_Frame_Shift_Ins_p.L691fs|ZNF268_uc010tbw.1_Frame_Shift_Ins_p.L691fs|ZNF268_uc010tbx.1_Frame_Shift_Ins_p.L712fs|ZNF268_uc010tby.1_Frame_Shift_Ins_p.L691fs|ZNF268_uc010tbz.1_Frame_Shift_Ins_p.L691fs|ZNF268_uc010tca.1_Frame_Shift_Ins_p.L691fs|ZNF268_uc010tcb.1_Frame_Shift_Ins_p.L712fs|ZNF268_uc010tcc.1_Frame_Shift_Ins_p.L691fs|ZNF268_uc010tcd.1_Frame_Shift_Ins_p.L691fs|ZNF268_uc010tce.1_Frame_Shift_Ins_p.L691fs|ZNF268_uc010tcg.1_Frame_Shift_Ins_p.L691fs|ZNF268_uc010tch.1_Frame_Shift_Ins_p.L852fs	NM_003415	NP_003406	Q14587	ZN268_HUMAN	zinc finger protein 268 isoform a	852_853	C2H2-type 21.					nucleus	DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(1)	1	all_neural(191;0.0982)|Medulloblastoma(191;0.163)	all_cancers(7;0.000215)|all_epithelial(31;0.096)		OV - Ovarian serous cystadenocarcinoma(86;3.58e-08)|Epithelial(86;6.6e-07)|all cancers(50;2.28e-05)		TACGCCTTCTTGTACACCAGAG	0.411													4	2	---	---	---	---	
ULK2	9706	broad.mit.edu	37	17	19744820	19744820	+	Frame_Shift_Del	DEL	T	-	-			TCGA-66-2742-01A-01D-0983-08	TCGA-66-2742-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	07047a99-45bd-4df6-ad6f-934a48e8e213	09de7b21-79a1-4b8c-a835-7f7a4481f4d5	g.chr17:19744820delT	uc002gwm.3	-	9	1195	c.686delA	c.(685-687)AACfs	p.N229fs	ULK2_uc002gwn.2_Frame_Shift_Del_p.N229fs	NM_001142610	NP_001136082	Q8IYT8	ULK2_HUMAN	unc-51-like kinase 2	229	Protein kinase.				signal transduction		ATP binding|protein binding|protein serine/threonine kinase activity			skin(2)|large_intestine(1)|stomach(1)	4	all_cancers(12;4.97e-05)|all_epithelial(12;0.00362)|Breast(13;0.186)					TAAGCTCCTGTTTTTTTCATA	0.308													16	10	---	---	---	---	
FAM108A1	81926	broad.mit.edu	37	19	1881526	1881528	+	In_Frame_Del	DEL	AGA	-	-			TCGA-66-2742-01A-01D-0983-08	TCGA-66-2742-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	07047a99-45bd-4df6-ad6f-934a48e8e213	09de7b21-79a1-4b8c-a835-7f7a4481f4d5	g.chr19:1881526_1881528delAGA	uc002lug.2	-	2	444_446	c.38_40delTCT	c.(37-42)TTCTGC>TGC	p.F13del	FAM108A1_uc002lud.2_In_Frame_Del_p.F13del|FAM108A1_uc002lue.2_In_Frame_Del_p.F13del|FAM108A1_uc002luf.2_In_Frame_Del_p.F13del	NM_001130111	NP_001123583	Q96GS6	F18A1_HUMAN	hypothetical protein LOC81926 isoform 2	13						extracellular region	hydrolase activity				0		Ovarian(11;0.000137)		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)		GGCGGGCAGCAGAAGAGGCAGCA	0.567													6	3	---	---	---	---	
TSSK2	23617	broad.mit.edu	37	22	19119776	19119776	+	Frame_Shift_Del	DEL	G	-	-	rs139504972		TCGA-66-2742-01A-01D-0983-08	TCGA-66-2742-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	07047a99-45bd-4df6-ad6f-934a48e8e213	09de7b21-79a1-4b8c-a835-7f7a4481f4d5	g.chr22:19119776delG	uc002zow.2	+	1	1456	c.864delG	c.(862-864)GAGfs	p.E288fs	DGCR14_uc002zot.2_3'UTR|DGCR14_uc002zou.2_3'UTR|DGCR14_uc002zov.2_RNA	NM_053006	NP_443732	Q96PF2	TSSK2_HUMAN	testis-specific serine kinase 2	288					cell differentiation|multicellular organismal development|spermatogenesis	cytoplasm	ATP binding|magnesium ion binding|protein binding|protein serine/threonine kinase activity			stomach(1)	1	Colorectal(54;0.0993)					TCAAGAGGGAGGGGGAGGGCA	0.637													42	21	---	---	---	---	
SSX8	280659	broad.mit.edu	37	X	52662823	52662824	+	RNA	DEL	AC	-	-			TCGA-66-2742-01A-01D-0983-08	TCGA-66-2742-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	07047a99-45bd-4df6-ad6f-934a48e8e213	09de7b21-79a1-4b8c-a835-7f7a4481f4d5	g.chrX:52662823_52662824delAC	uc011mob.1	+	8		c.1272_1273delAC				NR_027250				Homo sapiens cDNA FLJ56587 complete cds, highly similar to Protein SSX8.												0						acaccacacaacacacacacac	0.391													4	2	---	---	---	---	
