Hugo_Symbol	Entrez_Gene_Id	Center	NCBI_Build	Chromosome	Start_position	End_position	Strand	Variant_Classification	Variant_Type	Reference_Allele	Tumor_Seq_Allele1	Tumor_Seq_Allele2	dbSNP_RS	dbSNP_Val_Status	Tumor_Sample_Barcode	Matched_Norm_Sample_Barcode	Match_Norm_Seq_Allele1	Match_Norm_Seq_Allele2	Tumor_Validation_Allele1	Tumor_Validation_Allele2	Match_Norm_Validation_Allele1	Match_Norm_Validation_Allele2	Verification_Status	Validation_Status	Mutation_Status	Sequencing_Phase	Sequence_Source	Validation_Method	Score	BAM_file	Sequencer	Genome_Change	Annotation_Transcript	Transcript_Strand	Transcript_Exon	Transcript_Position	cDNA_Change	Codon_Change	Protein_Change	Other_Transcripts	Refseq_mRNA_Id	Refseq_prot_Id	SwissProt_acc_Id	SwissProt_entry_Id	Description	UniProt_AApos	UniProt_Region	UniProt_Site	UniProt_Natural_Variations	UniProt_Experimental_Info	GO_Biological_Process	GO_Cellular_Component	GO_Molecular_Function	COSMIC_overlapping_mutations	COSMIC_fusion_genes	COSMIC_tissue_types_affected	COSMIC_total_alterations_in_gene	Tumorscape_Amplification_Peaks	Tumorscape_Deletion_Peaks	TCGAscape_Amplification_Peaks	TCGAscape_Deletion_Peaks	DrugBank	ref_context	gc_content	CCLE_ONCOMAP_overlapping_mutations	CCLE_ONCOMAP_total_mutations_in_gene	CGC_Mutation_Type	CGC_Translocation_Partner	CGC_Tumor_Types_Somatic	CGC_Tumor_Types_Germline	CGC_Other_Diseases	DNARepairGenes_Role	FamilialCancerDatabase_Syndromes	MUTSIG_Published_Results	OREGANNO_ID	OREGANNO_Values	t_alt_count	t_ref_count	validation_status	validation_method	validation_tumor_sample	validation_alt_allele	filter
C1orf159	54991	broad.mit.edu	37	1	1021391	1021391	+	Silent	SNP	C	A	A			TCGA-21-1076-01A-02D-1521-08	TCGA-21-1076-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:1021391C>A	uc001act.2	-	9	906	c.420G>T	c.(418-420)GGG>GGT	p.G140G	C1orf159_uc001acu.2_Silent_p.G104G|C1orf159_uc001acr.2_RNA|C1orf159_uc001acs.2_RNA|C1orf159_uc010nyd.1_RNA|C1orf159_uc001acm.2_Silent_p.G104G|C1orf159_uc009vju.1_Missense_Mutation_p.W82C|C1orf159_uc001acn.2_Silent_p.G104G|C1orf159_uc001acp.2_Silent_p.G104G	NM_017891	NP_060361	Q96HA4	CA159_HUMAN	hypothetical protein LOC54991	140						integral to membrane					0	all_cancers(77;0.00164)|all_epithelial(69;0.000959)|all_lung(157;0.00963)|Lung NSC(156;0.0232)|Ovarian(185;0.0634)	all_epithelial(116;8.75e-19)|all_lung(118;2.3e-08)|Lung NSC(185;2.38e-06)|Renal(390;0.00183)|Breast(487;0.00354)|Hepatocellular(190;0.00826)|Myeloproliferative disorder(586;0.0122)|Ovarian(437;0.0308)|Lung SC(97;0.128)		Epithelial(90;2.96e-36)|OV - Ovarian serous cystadenocarcinoma(86;1.77e-22)|Colorectal(212;6.51e-05)|COAD - Colon adenocarcinoma(227;0.000214)|BRCA - Breast invasive adenocarcinoma(365;0.0025)|Kidney(185;0.00254)|STAD - Stomach adenocarcinoma(132;0.00645)|KIRC - Kidney renal clear cell carcinoma(229;0.037)|Lung(427;0.205)		CGCGCGGAGCCCCTGCAAACA	0.662													4	33	---	---	---	---	PASS
LRRC47	57470	broad.mit.edu	37	1	3703673	3703673	+	Missense_Mutation	SNP	C	T	T			TCGA-21-1076-01A-02D-1521-08	TCGA-21-1076-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:3703673C>T	uc001akx.1	-	2	845	c.817G>A	c.(817-819)GAG>AAG	p.E273K		NM_020710	NP_065761	Q8N1G4	LRC47_HUMAN	leucine rich repeat containing 47	273					translation		phenylalanine-tRNA ligase activity|RNA binding			large_intestine(1)|ovary(1)	2	all_cancers(77;0.0375)|Ovarian(185;0.0634)|all_lung(157;0.208)|Lung NSC(156;0.21)	all_epithelial(116;1.34e-16)|all_lung(118;2.53e-06)|Lung NSC(185;0.00028)|Renal(390;0.00357)|Breast(487;0.00446)|Hepatocellular(190;0.0218)|Myeloproliferative disorder(586;0.0393)|Lung SC(97;0.0743)|Ovarian(437;0.127)		Epithelial(90;5.49e-39)|OV - Ovarian serous cystadenocarcinoma(86;1.43e-22)|GBM - Glioblastoma multiforme(42;3.69e-16)|Colorectal(212;1.21e-05)|COAD - Colon adenocarcinoma(227;5.87e-05)|Kidney(185;0.000367)|BRCA - Breast invasive adenocarcinoma(365;0.000704)|KIRC - Kidney renal clear cell carcinoma(229;0.00567)|STAD - Stomach adenocarcinoma(132;0.00645)|Lung(427;0.124)		tccGAGCCCTCGGCACGGCCC	0.408													6	61	---	---	---	---	PASS
NPPB	4879	broad.mit.edu	37	1	11918371	11918371	+	Nonsense_Mutation	SNP	G	T	T			TCGA-21-1076-01A-02D-1521-08	TCGA-21-1076-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:11918371G>T	uc001atj.2	-	2	390	c.288C>A	c.(286-288)TAC>TAA	p.Y96*		NM_002521	NP_002512	P16860	ANFB_HUMAN	natriuretic peptide precursor B preproprotein	96					body fluid secretion|cGMP biosynthetic process|negative regulation of angiogenesis|negative regulation of cell growth|positive regulation of renal sodium excretion|positive regulation of urine volume|receptor guanylyl cyclase signaling pathway|regulation of blood pressure|regulation of blood vessel size|regulation of vascular permeability|regulation of vasodilation	extracellular space	diuretic hormone activity			ovary(2)	2	Ovarian(185;0.249)	Lung NSC(185;8.69e-05)|all_lung(284;9.87e-05)|Renal(390;0.000147)|Breast(348;0.00093)|Colorectal(325;0.00205)|Ovarian(437;0.00965)|Hepatocellular(190;0.0202)|Myeloproliferative disorder(586;0.0255)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0228)|Colorectal(212;4.88e-06)|COAD - Colon adenocarcinoma(227;0.000241)|BRCA - Breast invasive adenocarcinoma(304;0.000293)|Kidney(185;0.000722)|KIRC - Kidney renal clear cell carcinoma(229;0.00258)|STAD - Stomach adenocarcinoma(313;0.0072)|READ - Rectum adenocarcinoma(331;0.0649)	Carvedilol(DB01136)|Nesiritide(DB04899)|Testosterone(DB00624)	CCCGCAGGGTGTAGAGGACCA	0.652													15	57	---	---	---	---	PASS
CSMD2	114784	broad.mit.edu	37	1	34312521	34312521	+	Missense_Mutation	SNP	T	A	A			TCGA-21-1076-01A-02D-1521-08	TCGA-21-1076-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:34312521T>A	uc001bxn.1	-	6	906	c.877A>T	c.(877-879)AAC>TAC	p.N293Y	CSMD2_uc001bxm.1_Missense_Mutation_p.N333Y	NM_052896	NP_443128	Q7Z408	CSMD2_HUMAN	CUB and Sushi multiple domains 2	293	CUB 2.|Extracellular (Potential).					integral to membrane|plasma membrane	protein binding			ovary(6)|skin(5)|pancreas(1)	12		Myeloproliferative disorder(586;0.0294)|all_neural(195;0.249)				TGCCGGTGGTTGCCATCCGAT	0.612													15	51	---	---	---	---	PASS
ZMYM6	9204	broad.mit.edu	37	1	35469607	35469607	+	Splice_Site	SNP	C	A	A			TCGA-21-1076-01A-02D-1521-08	TCGA-21-1076-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:35469607C>A	uc001byh.2	-	14	2183	c.1955_splice	c.e14-1	p.G652_splice	ZMYM6_uc001byf.1_Splice_Site_p.G652_splice|ZMYM6_uc010oht.1_Splice_Site_p.G555_splice|ZMYM6_uc009vup.2_Splice_Site_p.G458_splice|ZMYM6_uc009vuq.1_Splice_Site_p.G652_splice	NM_007167	NP_009098	O95789	ZMYM6_HUMAN	zinc finger protein 258						multicellular organismal development	nucleus	DNA binding|zinc ion binding			ovary(3)	3		Myeloproliferative disorder(586;0.0255)|all_neural(195;0.13)				GTAACTGCACCTGTTGTAAAT	0.323													5	44	---	---	---	---	PASS
KIAA0467	23334	broad.mit.edu	37	1	43911659	43911659	+	Intron	SNP	A	C	C			TCGA-21-1076-01A-02D-1521-08	TCGA-21-1076-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:43911659A>C	uc001cjk.1	+						KIAA0467_uc001cjl.1_Intron	NM_015284	NP_056099	Q5T011	SZT2_HUMAN	hypothetical protein LOC23334							peroxisome					0	all_hematologic(146;0.0958)|Acute lymphoblastic leukemia(166;0.155)	Myeloproliferative disorder(586;0.0505)				CCCCAAGGTAACTTGTCATAT	0.517													17	73	---	---	---	---	PASS
PLK3	1263	broad.mit.edu	37	1	45270184	45270184	+	Intron	SNP	T	C	C			TCGA-21-1076-01A-02D-1521-08	TCGA-21-1076-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:45270184T>C	uc001cmn.2	+						PLK3_uc001cmo.2_Intron	NM_004073	NP_004064	Q9H4B4	PLK3_HUMAN	polo-like kinase 3							membrane	ATP binding|protein binding|protein serine/threonine kinase activity				0	Acute lymphoblastic leukemia(166;0.155)					GTAAGTGCTGTTATGGGGTGC	0.572													32	118	---	---	---	---	PASS
EFCAB7	84455	broad.mit.edu	37	1	64011719	64011719	+	Missense_Mutation	SNP	C	G	G			TCGA-21-1076-01A-02D-1521-08	TCGA-21-1076-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:64011719C>G	uc001dbf.2	+	7	1231	c.937C>G	c.(937-939)CAA>GAA	p.Q313E	DLEU2L_uc001dbg.1_5'Flank	NM_032437	NP_115813	A8K855	EFCB7_HUMAN	EF-hand calcium binding domain 7	313							calcium ion binding				0						AAACCTGAGTCAAGTTGAAGG	0.338													5	75	---	---	---	---	PASS
LRRC7	57554	broad.mit.edu	37	1	70482199	70482199	+	Missense_Mutation	SNP	G	T	T			TCGA-21-1076-01A-02D-1521-08	TCGA-21-1076-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:70482199G>T	uc001dep.2	+	12	1218	c.1188G>T	c.(1186-1188)TTG>TTT	p.L396F	LRRC7_uc009wbg.2_5'UTR	NM_020794	NP_065845	Q96NW7	LRRC7_HUMAN	leucine rich repeat containing 7	396	LRR 17.					centrosome|focal adhesion|nucleolus	protein binding			ovary(9)|breast(2)|central_nervous_system(2)|liver(1)	14						TTGCAGCTTTGTGGCTTTCTG	0.294													5	62	---	---	---	---	PASS
LRRIQ3	127255	broad.mit.edu	37	1	74507325	74507325	+	Silent	SNP	T	C	C			TCGA-21-1076-01A-02D-1521-08	TCGA-21-1076-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:74507325T>C	uc001dfy.3	-	7	1482	c.1290A>G	c.(1288-1290)CAA>CAG	p.Q430Q	LRRIQ3_uc001dfz.3_Intron	NM_001105659	NP_001099129	A6PVS8	LRIQ3_HUMAN	leucine-rich repeats and IQ motif containing 3	430										ovary(2)	2						CCTGCTTCTTTTGTTCTGTGT	0.368													4	113	---	---	---	---	PASS
CRYZ	1429	broad.mit.edu	37	1	75175781	75175781	+	Splice_Site	SNP	C	A	A			TCGA-21-1076-01A-02D-1521-08	TCGA-21-1076-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:75175781C>A	uc001dgk.2	-	7	1135	c.630_splice	c.e7+1	p.K210_splice	CRYZ_uc001dgj.2_Splice_Site_p.K210_splice|CRYZ_uc001dgl.2_Splice_Site_p.K210_splice|CRYZ_uc001dgm.2_Splice_Site_p.K73_splice	NM_001130042	NP_001123514	Q08257	QOR_HUMAN	crystallin, zeta isoform a						protein homotetramerization|visual perception|xenobiotic catabolic process	cytosol|Golgi apparatus	mRNA 3'-UTR binding|NADPH binding|NADPH:quinone reductase activity|zinc ion binding				0					Dicumarol(DB00266)	GAAAATTTTACCTTAATTTTA	0.353													3	32	---	---	---	---	PASS
USP33	23032	broad.mit.edu	37	1	78183552	78183552	+	Missense_Mutation	SNP	T	C	C			TCGA-21-1076-01A-02D-1521-08	TCGA-21-1076-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:78183552T>C	uc001dht.2	-	18	2358	c.2011A>G	c.(2011-2013)AGT>GGT	p.S671G	USP33_uc001dhs.2_Missense_Mutation_p.S392G|USP33_uc001dhu.2_Missense_Mutation_p.S640G|USP33_uc001dhv.2_Missense_Mutation_p.S476G|USP33_uc001dhw.2_Missense_Mutation_p.S663G	NM_015017	NP_055832	Q8TEY7	UBP33_HUMAN	ubiquitin specific protease 33 isoform 1	671					axon guidance|cell migration|endocytosis|protein K48-linked deubiquitination|protein K63-linked deubiquitination|regulation of G-protein coupled receptor protein signaling pathway|ubiquitin-dependent protein catabolic process	perinuclear region of cytoplasm|VCB complex	cysteine-type endopeptidase activity|G-protein-coupled receptor binding|protein binding|ubiquitin thiolesterase activity|ubiquitin-specific protease activity|zinc ion binding			lung(2)|ovary(1)	3						ATATACTTACTACTTGCAGTT	0.269													11	98	---	---	---	---	PASS
NGF	4803	broad.mit.edu	37	1	115829224	115829224	+	Missense_Mutation	SNP	C	G	G			TCGA-21-1076-01A-02D-1521-08	TCGA-21-1076-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:115829224C>G	uc001efu.1	-	3	362	c.193G>C	c.(193-195)GGG>CGG	p.G65R		NM_002506	NP_002497	P01138	NGF_HUMAN	nerve growth factor, beta polypeptide precursor	65					activation of MAPKK activity|activation of phospholipase C activity|anti-apoptosis|apoptosis|induction of apoptosis by extracellular signals|negative regulation of cell cycle|nerve growth factor processing|nerve growth factor receptor signaling pathway|phosphatidylinositol-mediated signaling|Ras protein signal transduction	endosome|Golgi lumen	growth factor activity|nerve growth factor receptor binding			upper_aerodigestive_tract(2)	2	Lung SC(450;0.211)	all_cancers(81;1.07e-06)|all_epithelial(167;4.43e-06)|all_lung(203;2.86e-05)|Lung NSC(69;4.99e-05)		Lung(183;0.0234)|Colorectal(144;0.0686)|COAD - Colon adenocarcinoma(174;0.111)|LUSC - Lung squamous cell carcinoma(189;0.133)|all cancers(265;0.159)|Epithelial(280;0.179)	Clenbuterol(DB01407)	CGGGTCTGCCCCGCCACGCGT	0.632													11	39	---	---	---	---	PASS
HSD3B1	3283	broad.mit.edu	37	1	120057197	120057197	+	Missense_Mutation	SNP	C	A	A			TCGA-21-1076-01A-02D-1521-08	TCGA-21-1076-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:120057197C>A	uc001ehv.1	+	4	1196	c.1051C>A	c.(1051-1053)CAG>AAG	p.Q351K	HSD3B1_uc001ehw.2_Missense_Mutation_p.Q353K	NM_000862	NP_000853	P14060	3BHS1_HUMAN	3 beta-hydroxysteroid dehydrogenase 1	351					androgen biosynthetic process|estrogen biosynthetic process|glucocorticoid biosynthetic process|mineralocorticoid biosynthetic process	integral to membrane|microsome|mitochondrial inner membrane|mitochondrial intermembrane space|smooth endoplasmic reticulum membrane	3-beta-hydroxy-delta5-steroid dehydrogenase activity|binding|steroid delta-isomerase activity			ovary(2)	2	all_neural(166;0.219)	all_lung(203;3.16e-06)|Lung NSC(69;2.19e-05)|all_epithelial(167;0.000624)		Lung(183;0.0106)|LUSC - Lung squamous cell carcinoma(189;0.0554)	NADH(DB00157)|Trilostane(DB01108)	GGAAGCCAAGCAGAAAACGGT	0.498													13	42	---	---	---	---	PASS
LCE1B	353132	broad.mit.edu	37	1	152784937	152784937	+	Missense_Mutation	SNP	G	T	T			TCGA-21-1076-01A-02D-1521-08	TCGA-21-1076-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:152784937G>T	uc001faq.2	+	1	491	c.15G>T	c.(13-15)CAG>CAT	p.Q5H		NM_178349	NP_848126	Q5T7P3	LCE1B_HUMAN	late cornified envelope 1B	5					keratinization						0	Lung NSC(65;9.06e-30)|Hepatocellular(266;0.0877)|all_hematologic(923;0.127)|Melanoma(130;0.242)		LUSC - Lung squamous cell carcinoma(543;0.171)			CCTGCCAGCAGAACCAGCAGC	0.478													20	124	---	---	---	---	PASS
MSTO1	55154	broad.mit.edu	37	1	155583567	155583567	+	Intron	SNP	A	T	T			TCGA-21-1076-01A-02D-1521-08	TCGA-21-1076-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:155583567A>T	uc001fky.2	+						MSTO1_uc001fkw.2_Intron|MSTO1_uc001fkx.2_Intron|MSTO1_uc001fla.2_Intron|MSTO1_uc001fkz.2_Intron|MSTO1_uc001fld.3_Intron|MSTO1_uc009wqs.2_Intron|MSTO1_uc010pgf.1_Intron|MSTO1_uc001flb.2_Intron|MSTO1_uc001flc.2_Intron	NM_018116	NP_060586	Q9BUK6	MSTO1_HUMAN	misato						mitochondrion distribution|protein polymerization	mitochondrial outer membrane|protein complex					0	Hepatocellular(266;0.0997)|all_neural(408;0.129)|all_hematologic(923;0.145)					GGTATGTAGGAGGTGAAGAAA	0.473													7	34	---	---	---	---	PASS
BCAN	63827	broad.mit.edu	37	1	156617423	156617423	+	Missense_Mutation	SNP	T	A	A			TCGA-21-1076-01A-02D-1521-08	TCGA-21-1076-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:156617423T>A	uc001fpp.2	+	4	926	c.590T>A	c.(589-591)CTT>CAT	p.L197H	BCAN_uc001fpo.2_Missense_Mutation_p.L197H	NM_021948	NP_068767	Q96GW7	PGCB_HUMAN	brevican isoform 1	197	Link 1.				cell adhesion	anchored to membrane|proteinaceous extracellular matrix	hyaluronic acid binding|sugar binding			ovary(1)|pancreas(1)	2	all_hematologic(923;0.088)|Hepatocellular(266;0.158)					GCCGCCTACCTTGGGGGCTAT	0.637													13	168	---	---	---	---	PASS
NTRK1	4914	broad.mit.edu	37	1	156841432	156841432	+	Silent	SNP	A	G	G			TCGA-21-1076-01A-02D-1521-08	TCGA-21-1076-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:156841432A>G	uc001fqh.1	+	7	791	c.735A>G	c.(733-735)CCA>CCG	p.P245P	NTRK1_uc001fqf.1_Silent_p.P215P|NTRK1_uc009wsi.1_Intron|NTRK1_uc001fqi.1_Silent_p.P245P|NTRK1_uc009wsk.1_Silent_p.P245P	NM_002529	NP_002520	P04629	NTRK1_HUMAN	neurotrophic tyrosine kinase, receptor, type 1	245	Ig-like C2-type 1.|Extracellular (Potential).				activation of adenylate cyclase activity|activation of MAPKK activity|activation of phospholipase C activity|cell differentiation|nerve growth factor receptor signaling pathway|nervous system development|phosphatidylinositol-mediated signaling|Ras protein signal transduction	endosome|integral to plasma membrane	ATP binding|neurotrophin receptor activity|transmembrane receptor protein serine/threonine kinase activity|transmembrane receptor protein tyrosine kinase activity			lung(9)|ovary(6)|stomach(1)|central_nervous_system(1)	17	all_hematologic(923;0.0839)|Hepatocellular(266;0.158)				Imatinib(DB00619)	GGGGTCTGCCATCCCTGGGGC	0.582			T	TPM3|TPR|TFG	papillary thyroid					TSP Lung(10;0.080)			12	84	---	---	---	---	PASS
FCRL2	79368	broad.mit.edu	37	1	157737371	157737371	+	Intron	SNP	G	A	A			TCGA-21-1076-01A-02D-1521-08	TCGA-21-1076-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:157737371G>A	uc001fre.2	-						FCRL2_uc001frd.2_Missense_Mutation_p.P18L|FCRL2_uc010phz.1_Intron|FCRL2_uc009wsp.2_Intron	NM_030764	NP_110391	Q96LA5	FCRL2_HUMAN	Fc receptor-like 2 precursor						cell-cell signaling	integral to membrane|plasma membrane|soluble fraction	receptor activity|SH3/SH2 adaptor activity			ovary(1)|pancreas(1)	2	all_hematologic(112;0.0378)		LUSC - Lung squamous cell carcinoma(543;0.24)			CCAACCTGCAGGCTCAGCAAA	0.468													7	108	---	---	---	---	PASS
OR6K2	81448	broad.mit.edu	37	1	158669530	158669530	+	Missense_Mutation	SNP	G	T	T			TCGA-21-1076-01A-02D-1521-08	TCGA-21-1076-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:158669530G>T	uc001fsu.1	-	1	913	c.913C>A	c.(913-915)CAC>AAC	p.H305N		NM_001005279	NP_001005279	Q8NGY2	OR6K2_HUMAN	olfactory receptor, family 6, subfamily K,	305	Cytoplasmic (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			pancreas(1)	1	all_hematologic(112;0.0378)					TGACCTATGTGCTTTTTTATA	0.383													15	36	---	---	---	---	PASS
MNDA	4332	broad.mit.edu	37	1	158812004	158812004	+	Missense_Mutation	SNP	C	T	T			TCGA-21-1076-01A-02D-1521-08	TCGA-21-1076-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:158812004C>T	uc001fsz.1	+	2	261	c.61C>T	c.(61-63)CAT>TAT	p.H21Y		NM_002432	NP_002423	P41218	MNDA_HUMAN	myeloid cell nuclear differentiation antigen	21	DAPIN.				B cell receptor signaling pathway|cellular defense response|negative regulation of B cell proliferation|positive regulation of apoptosis|regulation of transcription, DNA-dependent|response to DNA damage stimulus|transcription, DNA-dependent	cytoplasm|nucleus	DNA binding			ovary(2)|skin(2)	4	all_hematologic(112;0.0378)					GGATGATTATCATTTTACATC	0.313													4	46	---	---	---	---	PASS
RGS5	8490	broad.mit.edu	37	1	163138098	163138098	+	Silent	SNP	G	A	A			TCGA-21-1076-01A-02D-1521-08	TCGA-21-1076-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:163138098G>A	uc001gcn.2	-	2	352	c.105C>T	c.(103-105)GAC>GAT	p.D35D	RGS5_uc009wvb.2_Intron	NM_003617	NP_003608	O15539	RGS5_HUMAN	regulator of G-protein signalling 5	35					negative regulation of signal transduction|regulation of G-protein coupled receptor protein signaling pathway	cytoplasm|plasma membrane	GTPase activator activity|signal transducer activity				0			LUSC - Lung squamous cell carcinoma(543;0.187)			GAATGACAAGGTCACCAACTG	0.468													29	125	---	---	---	---	PASS
DUSP27	92235	broad.mit.edu	37	1	167096912	167096912	+	Missense_Mutation	SNP	G	T	T			TCGA-21-1076-01A-02D-1521-08	TCGA-21-1076-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:167096912G>T	uc001geb.1	+	5	2544	c.2544G>T	c.(2542-2544)AGG>AGT	p.R848S		NM_001080426	NP_001073895	Q5VZP5	DUS27_HUMAN	dual specificity phosphatase 27	848					protein dephosphorylation		protein tyrosine/serine/threonine phosphatase activity			ovary(3)	3						TGGAGCTTAGGGAGAAGATGT	0.498													5	79	---	---	---	---	PASS
DUSP27	92235	broad.mit.edu	37	1	167097009	167097009	+	Missense_Mutation	SNP	G	T	T			TCGA-21-1076-01A-02D-1521-08	TCGA-21-1076-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:167097009G>T	uc001geb.1	+	5	2641	c.2641G>T	c.(2641-2643)GGT>TGT	p.G881C		NM_001080426	NP_001073895	Q5VZP5	DUS27_HUMAN	dual specificity phosphatase 27	881					protein dephosphorylation		protein tyrosine/serine/threonine phosphatase activity			ovary(3)	3						TGAGGATGATGGTGTGGGTGA	0.488													7	57	---	---	---	---	PASS
CACYBP	27101	broad.mit.edu	37	1	174976282	174976282	+	Missense_Mutation	SNP	G	A	A			TCGA-21-1076-01A-02D-1521-08	TCGA-21-1076-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:174976282G>A	uc001gkj.1	+	4	806	c.381G>A	c.(379-381)ATG>ATA	p.M127I	CACYBP_uc001gki.1_Missense_Mutation_p.M84I	NM_014412	NP_055227	Q9HB71	CYBP_HUMAN	calcyclin binding protein isoform 1	127	Interaction with SKP1.|CS.					beta-catenin destruction complex	protein homodimerization activity				0						GTTACTCCATGATTGTGAACA	0.353													9	64	---	---	---	---	PASS
TNN	63923	broad.mit.edu	37	1	175049335	175049335	+	Missense_Mutation	SNP	C	A	A			TCGA-21-1076-01A-02D-1521-08	TCGA-21-1076-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:175049335C>A	uc001gkl.1	+	4	934	c.821C>A	c.(820-822)ACG>AAG	p.T274K	TNN_uc010pmx.1_Missense_Mutation_p.T274K	NM_022093	NP_071376	Q9UQP3	TENN_HUMAN	tenascin N precursor	274	Fibronectin type-III 1.				cell growth|cell migration|signal transduction	extracellular space|proteinaceous extracellular matrix				large_intestine(5)|ovary(3)|central_nervous_system(1)	9		Breast(1374;0.000962)		KIRC - Kidney renal clear cell carcinoma(1967;0.00198)		CTCAAGAACACGGAGGATTCT	0.612													10	102	---	---	---	---	PASS
TNR	7143	broad.mit.edu	37	1	175293589	175293589	+	Missense_Mutation	SNP	A	T	T			TCGA-21-1076-01A-02D-1521-08	TCGA-21-1076-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:175293589A>T	uc001gkp.1	-	20	3941	c.3860T>A	c.(3859-3861)GTG>GAG	p.V1287E	TNR_uc009wwu.1_Missense_Mutation_p.V1287E	NM_003285	NP_003276	Q92752	TENR_HUMAN	tenascin R precursor	1287	Fibrinogen C-terminal.				axon guidance|cell adhesion|signal transduction	proteinaceous extracellular matrix				pancreas(5)|ovary(4)|central_nervous_system(1)|skin(1)	11	Renal(580;0.146)					ACAGTTAGTCACTGCAACATC	0.502													7	92	---	---	---	---	PASS
PAPPA2	60676	broad.mit.edu	37	1	176564697	176564697	+	Missense_Mutation	SNP	C	A	A			TCGA-21-1076-01A-02D-1521-08	TCGA-21-1076-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:176564697C>A	uc001gkz.2	+	3	3121	c.1957C>A	c.(1957-1959)CGC>AGC	p.R653S	PAPPA2_uc001gky.1_Missense_Mutation_p.R653S|PAPPA2_uc009www.2_RNA	NM_020318	NP_064714	Q9BXP8	PAPP2_HUMAN	pappalysin 2 isoform 1	653	Metalloprotease.				cell differentiation|proteolysis|regulation of cell growth	extracellular region|intracellular|membrane	metalloendopeptidase activity|zinc ion binding			ovary(7)|central_nervous_system(5)|skin(2)|lung(1)|breast(1)	16						GGCTGATGTGCGCAAGACCTG	0.527													7	55	---	---	---	---	PASS
RGS18	64407	broad.mit.edu	37	1	192128338	192128338	+	Intron	SNP	T	A	A			TCGA-21-1076-01A-02D-1521-08	TCGA-21-1076-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:192128338T>A	uc001gsg.2	+							NM_130782	NP_570138	Q9NS28	RGS18_HUMAN	regulator of G-protein signalling 18						negative regulation of signal transduction	cytoplasm|plasma membrane	GTPase activator activity|signal transducer activity			ovary(3)	3						CATGAAGGCCTTTTTATTACA	0.423													5	21	---	---	---	---	PASS
TMCC2	9911	broad.mit.edu	37	1	205238663	205238663	+	Silent	SNP	C	T	T			TCGA-21-1076-01A-02D-1521-08	TCGA-21-1076-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:205238663C>T	uc001hbz.1	+	4	1777	c.1333C>T	c.(1333-1335)CTG>TTG	p.L445L	TMCC2_uc010prf.1_Silent_p.L367L|TMCC2_uc001hca.2_Silent_p.L220L|TMCC2_uc001hcb.1_Silent_p.L205L|TMCC2_uc001hcc.1_Silent_p.L66L|TMCC2_uc001hcd.2_Silent_p.L212L	NM_014858	NP_055673	O75069	TMCC2_HUMAN	transmembrane and coiled-coil domain family 2	445						integral to membrane	protein binding			pancreas(1)	1	Breast(84;0.0871)		BRCA - Breast invasive adenocarcinoma(75;0.117)			CATCGCCCACCTGAAGGACCC	0.642													24	104	---	---	---	---	PASS
CR1	1378	broad.mit.edu	37	1	207789970	207789970	+	Missense_Mutation	SNP	A	G	G			TCGA-21-1076-01A-02D-1521-08	TCGA-21-1076-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:207789970A>G	uc001hfy.2	+	33	5502	c.5362A>G	c.(5362-5364)ACT>GCT	p.T1788A	CR1_uc001hfx.2_Missense_Mutation_p.T2238A	NM_000573	NP_000564	P17927	CR1_HUMAN	complement receptor 1 isoform F precursor	1788	Sushi 28.|Extracellular (Potential).				complement activation, classical pathway|innate immune response	integral to plasma membrane	complement receptor activity			ovary(3)	3						ACACACAGGAACTCCCTTTGG	0.418													12	131	---	---	---	---	PASS
HSD11B1	3290	broad.mit.edu	37	1	209907664	209907664	+	Missense_Mutation	SNP	C	A	A			TCGA-21-1076-01A-02D-1521-08	TCGA-21-1076-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:209907664C>A	uc001hhj.2	+	7	784	c.677C>A	c.(676-678)GCA>GAA	p.A226E	HSD11B1_uc001hhk.2_Missense_Mutation_p.A226E	NM_181755	NP_861420	P28845	DHI1_HUMAN	11-beta-hydroxysteroid dehydrogenase 1	226	Lumenal (Potential).				glucocorticoid biosynthetic process	endoplasmic reticulum membrane|integral to membrane	11-beta-hydroxysteroid dehydrogenase (NADP+) activity|11-beta-hydroxysteroid dehydrogenase|binding			breast(1)	1				OV - Ovarian serous cystadenocarcinoma(81;1.04e-55)|Epithelial(68;1.57e-52)|all cancers(67;1.83e-46)|Colorectal(1306;0.115)	NADH(DB00157)	GCCATGAAGGCAGTTTCTGGG	0.478													6	30	---	---	---	---	PASS
USH2A	7399	broad.mit.edu	37	1	215824045	215824045	+	Missense_Mutation	SNP	A	T	T			TCGA-21-1076-01A-02D-1521-08	TCGA-21-1076-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:215824045A>T	uc001hku.1	-	65	14619	c.14232T>A	c.(14230-14232)CAT>CAA	p.H4744Q		NM_206933	NP_996816	O75445	USH2A_HUMAN	usherin isoform B	4744	Fibronectin type-III 33.|Extracellular (Potential).				maintenance of organ identity|photoreceptor cell maintenance|response to stimulus|sensory perception of sound	basement membrane|cytoplasm|integral to membrane|stereocilium membrane	collagen binding			ovary(20)|upper_aerodigestive_tract(2)|skin(2)|kidney(1)|central_nervous_system(1)	26				OV - Ovarian serous cystadenocarcinoma(81;0.0547)|all cancers(67;0.0875)		AAGAGATCACATGGAACGTGG	0.597										HNSCC(13;0.011)			25	274	---	---	---	---	PASS
ARF1	375	broad.mit.edu	37	1	228285621	228285621	+	Silent	SNP	G	A	A	rs146827674		TCGA-21-1076-01A-02D-1521-08	TCGA-21-1076-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:228285621G>A	uc001hrr.2	+	5	681	c.453G>A	c.(451-453)AGG>AGA	p.R151R	ARF1_uc001hrs.2_Silent_p.R151R|ARF1_uc001hrt.2_Missense_Mutation_p.E73K|ARF1_uc009xev.2_RNA|ARF1_uc001hru.2_Silent_p.R151R|ARF1_uc001hrv.2_Silent_p.R151R|ARF1_uc001hrw.2_Silent_p.R151R	NM_001024226	NP_001019397	P84077	ARF1_HUMAN	ADP-ribosylation factor 1	151					cellular copper ion homeostasis|COPI coating of Golgi vesicle|post-Golgi vesicle-mediated transport|protein transport|regulation of defense response to virus by virus|retrograde vesicle-mediated transport, Golgi to ER|small GTPase mediated signal transduction|viral reproduction	cytosol|Golgi membrane|perinuclear region of cytoplasm|plasma membrane	GTP binding|GTPase activity|protein binding|receptor signaling protein activity				0		Prostate(94;0.0405)				TACGCCACAGGAACTGGTACA	0.617													8	78	---	---	---	---	PASS
NUP133	55746	broad.mit.edu	37	1	229635458	229635458	+	Silent	SNP	C	T	T			TCGA-21-1076-01A-02D-1521-08	TCGA-21-1076-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:229635458C>T	uc001htn.2	-	5	713	c.621G>A	c.(619-621)AAG>AAA	p.K207K		NM_018230	NP_060700	Q8WUM0	NU133_HUMAN	nucleoporin 133kDa	207					carbohydrate metabolic process|glucose transport|mitotic prometaphase|mRNA export from nucleus|nuclear pore organization|protein transport|regulation of glucose transport|transmembrane transport|viral reproduction	condensed chromosome kinetochore|cytosol|Nup107-160 complex	nucleocytoplasmic transporter activity|protein binding			breast(4)|skin(2)|ovary(1)	7	Breast(184;0.104)|Ovarian(103;0.249)	Prostate(94;0.167)				AACTGTAAGTCTTATCACCTC	0.403													8	81	---	---	---	---	PASS
SIPA1L2	57568	broad.mit.edu	37	1	232574961	232574961	+	Silent	SNP	G	A	A			TCGA-21-1076-01A-02D-1521-08	TCGA-21-1076-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:232574961G>A	uc001hvg.2	-	13	4082	c.3924C>T	c.(3922-3924)GAC>GAT	p.D1308D	SIPA1L2_uc001hvf.2_Silent_p.D382D	NM_020808	NP_065859	Q9P2F8	SI1L2_HUMAN	signal-induced proliferation-associated 1 like	1308				D -> V (in Ref. 2; BAB14273).	regulation of small GTPase mediated signal transduction	intracellular	GTPase activator activity			ovary(2)|central_nervous_system(2)|pancreas(1)|skin(1)	6		all_cancers(173;0.00605)|Prostate(94;0.128)|all_epithelial(177;0.186)				TGGCTGGCTCGTCGTCAGGCC	0.637													5	82	---	---	---	---	PASS
RYR2	6262	broad.mit.edu	37	1	237801698	237801698	+	Missense_Mutation	SNP	G	T	T			TCGA-21-1076-01A-02D-1521-08	TCGA-21-1076-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:237801698G>T	uc001hyl.1	+	45	6954	c.6834G>T	c.(6832-6834)CAG>CAT	p.Q2278H		NM_001035	NP_001026	Q92736	RYR2_HUMAN	cardiac muscle ryanodine receptor	2278	Cytoplasmic (By similarity).|4 X approximate repeats.				cardiac muscle contraction|detection of calcium ion|induction of apoptosis by ionic changes|regulation of cardiac muscle contraction by regulation of the release of sequestered calcium ion|release of sequestered calcium ion into cytosol by sarcoplasmic reticulum|response to caffeine|response to hypoxia|response to redox state	calcium channel complex|cytosol|plasma membrane|plasma membrane enriched fraction|sarcoplasmic reticulum membrane	calcium ion binding|calmodulin binding|identical protein binding|protein kinase A catalytic subunit binding|protein kinase A regulatory subunit binding|receptor activity|ryanodine-sensitive calcium-release channel activity|suramin binding			ovary(17)|large_intestine(6)|central_nervous_system(6)|pancreas(3)|breast(1)	33	Ovarian(103;0.103)	all_cancers(173;0.000368)|Melanoma(53;0.0179)|all_epithelial(177;0.0225)	OV - Ovarian serous cystadenocarcinoma(106;0.00606)			AAAGTTGCCAGATGCTGGTGT	0.423													31	141	---	---	---	---	PASS
RYR2	6262	broad.mit.edu	37	1	237806707	237806707	+	Silent	SNP	C	A	A			TCGA-21-1076-01A-02D-1521-08	TCGA-21-1076-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:237806707C>A	uc001hyl.1	+	48	7422	c.7302C>A	c.(7300-7302)GGC>GGA	p.G2434G		NM_001035	NP_001026	Q92736	RYR2_HUMAN	cardiac muscle ryanodine receptor	2434	Cytoplasmic (By similarity).|4 X approximate repeats.				cardiac muscle contraction|detection of calcium ion|induction of apoptosis by ionic changes|regulation of cardiac muscle contraction by regulation of the release of sequestered calcium ion|release of sequestered calcium ion into cytosol by sarcoplasmic reticulum|response to caffeine|response to hypoxia|response to redox state	calcium channel complex|cytosol|plasma membrane|plasma membrane enriched fraction|sarcoplasmic reticulum membrane	calcium ion binding|calmodulin binding|identical protein binding|protein kinase A catalytic subunit binding|protein kinase A regulatory subunit binding|receptor activity|ryanodine-sensitive calcium-release channel activity|suramin binding			ovary(17)|large_intestine(6)|central_nervous_system(6)|pancreas(3)|breast(1)	33	Ovarian(103;0.103)	all_cancers(173;0.000368)|Melanoma(53;0.0179)|all_epithelial(177;0.0225)	OV - Ovarian serous cystadenocarcinoma(106;0.00606)			ATTTGGTGGGCGTTATCAGCA	0.428													8	113	---	---	---	---	PASS
RYR2	6262	broad.mit.edu	37	1	237863674	237863674	+	Missense_Mutation	SNP	C	A	A			TCGA-21-1076-01A-02D-1521-08	TCGA-21-1076-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:237863674C>A	uc001hyl.1	+	65	9394	c.9274C>A	c.(9274-9276)CAG>AAG	p.Q3092K	RYR2_uc010pxz.1_Missense_Mutation_p.Q47K	NM_001035	NP_001026	Q92736	RYR2_HUMAN	cardiac muscle ryanodine receptor	3092	Helical; Name=M'; (Potential).				cardiac muscle contraction|detection of calcium ion|induction of apoptosis by ionic changes|regulation of cardiac muscle contraction by regulation of the release of sequestered calcium ion|release of sequestered calcium ion into cytosol by sarcoplasmic reticulum|response to caffeine|response to hypoxia|response to redox state	calcium channel complex|cytosol|plasma membrane|plasma membrane enriched fraction|sarcoplasmic reticulum membrane	calcium ion binding|calmodulin binding|identical protein binding|protein kinase A catalytic subunit binding|protein kinase A regulatory subunit binding|receptor activity|ryanodine-sensitive calcium-release channel activity|suramin binding			ovary(17)|large_intestine(6)|central_nervous_system(6)|pancreas(3)|breast(1)	33	Ovarian(103;0.103)	all_cancers(173;0.000368)|Melanoma(53;0.0179)|all_epithelial(177;0.0225)	OV - Ovarian serous cystadenocarcinoma(106;0.00606)			AGGGGTTACTCAGATTATCAA	0.473													5	11	---	---	---	---	PASS
TRIM58	25893	broad.mit.edu	37	1	248023988	248023988	+	Missense_Mutation	SNP	G	T	T			TCGA-21-1076-01A-02D-1521-08	TCGA-21-1076-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:248023988G>T	uc001ido.2	+	2	538	c.490G>T	c.(490-492)GTG>TTG	p.V164L		NM_015431	NP_056246	Q8NG06	TRI58_HUMAN	tripartite motif-containing 58	164						intracellular	zinc ion binding			skin(3)|ovary(1)|pancreas(1)|lung(1)|central_nervous_system(1)	7	all_cancers(71;0.000139)|all_epithelial(71;1.58e-05)|Breast(184;0.0117)|Ovarian(71;0.0377)|all_lung(81;0.127)|Lung NSC(105;0.136)	all_cancers(173;0.0286)	OV - Ovarian serous cystadenocarcinoma(106;0.0319)			GGAGGCCAACGTGGGGAAAAA	0.478													7	66	---	---	---	---	PASS
OR2L13	284521	broad.mit.edu	37	1	248262938	248262938	+	Silent	SNP	C	A	A			TCGA-21-1076-01A-02D-1521-08	TCGA-21-1076-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:248262938C>A	uc001ids.2	+	3	598	c.261C>A	c.(259-261)GGC>GGA	p.G87G		NM_175911	NP_787107	Q8N349	OR2LD_HUMAN	olfactory receptor, family 2, subfamily L,	87	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity|protein binding			central_nervous_system(2)|ovary(1)|skin(1)	4	all_cancers(71;0.000149)|all_epithelial(71;1.27e-05)|Breast(184;0.00909)|Ovarian(71;0.0377)|all_lung(81;0.127)|Lung NSC(105;0.136)		OV - Ovarian serous cystadenocarcinoma(106;0.0132)			TCCTGTCCGGCCAGAAAGGCA	0.542													21	223	---	---	---	---	PASS
OR2T29	343563	broad.mit.edu	37	1	248722750	248722750	+	Missense_Mutation	SNP	C	G	G			TCGA-21-1076-01A-02D-1521-08	TCGA-21-1076-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:248722750C>G	uc001ieo.1	-	1	25	c.25G>C	c.(25-27)GAT>CAT	p.D9H		NM_001004694	NP_001004694	Q8NH02	O2T29_HUMAN	olfactory receptor, family 2, subfamily T,	15	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity				0	all_cancers(71;0.000108)|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;0.0265)			AGGATGAAATCCAACCTTCCA	0.488													4	63	---	---	---	---	PASS
MYT1L	23040	broad.mit.edu	37	2	1921047	1921047	+	Silent	SNP	G	A	A			TCGA-21-1076-01A-02D-1521-08	TCGA-21-1076-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:1921047G>A	uc002qxe.2	-	11	2375	c.1548C>T	c.(1546-1548)CAC>CAT	p.H516H	MYT1L_uc002qxd.2_Silent_p.H514H|MYT1L_uc010ewl.1_RNA	NM_015025	NP_055840	Q9UL68	MYT1L_HUMAN	myelin transcription factor 1-like	516	C2HC-type 2.				cell differentiation|nervous system development	nucleus	DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(5)|central_nervous_system(1)	6	Acute lymphoblastic leukemia(172;0.0627)|all_hematologic(175;0.0797)	all_cancers(51;0.037)|all_epithelial(98;0.241)		OV - Ovarian serous cystadenocarcinoma(76;0.169)|all cancers(51;0.244)		GCCCAGTTACGTGGCCGGTTC	0.537													14	232	---	---	---	---	PASS
MBOAT2	129642	broad.mit.edu	37	2	9013433	9013433	+	Intron	SNP	G	C	C			TCGA-21-1076-01A-02D-1521-08	TCGA-21-1076-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:9013433G>C	uc002qzg.1	-						MBOAT2_uc010yix.1_Intron	NM_138799	NP_620154	Q6ZWT7	MBOA2_HUMAN	O-acyltransferase (membrane bound) domain						phospholipid biosynthetic process	integral to membrane	1-acylglycerol-3-phosphate O-acyltransferase activity				0	all_hematologic(175;0.127)|Acute lymphoblastic leukemia(172;0.155)					ACCGCAGTCTGAAAAGCGCAA	0.403													8	46	---	---	---	---	PASS
GPN1	11321	broad.mit.edu	37	2	27854774	27854774	+	Intron	SNP	C	T	T			TCGA-21-1076-01A-02D-1521-08	TCGA-21-1076-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:27854774C>T	uc010ymc.1	+						ZNF512_uc010yly.1_Intron|CCDC121_uc002rle.2_5'Flank|GPN1_uc010ezf.2_Intron|GPN1_uc010yma.1_Intron|GPN1_uc010ymb.1_Intron|GPN1_uc010ymd.1_Intron|GPN1_uc010yme.1_Intron|GPN1_uc010ezg.1_Intron	NM_007266	NP_009197	Q9HCN4	GPN1_HUMAN	GPN-loop GTPase 1 isoform a							cytoplasm	GTP binding|nucleoside-triphosphatase activity|protein binding				0						TCAGGTATATCTGTCTTTAGT	0.383													12	133	---	---	---	---	PASS
GPN1	11321	broad.mit.edu	37	2	27854778	27854778	+	Intron	SNP	C	T	T			TCGA-21-1076-01A-02D-1521-08	TCGA-21-1076-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:27854778C>T	uc010ymc.1	+						ZNF512_uc010yly.1_Intron|CCDC121_uc002rle.2_5'Flank|GPN1_uc010ezf.2_Intron|GPN1_uc010yma.1_Intron|GPN1_uc010ymb.1_Intron|GPN1_uc010ymd.1_Intron|GPN1_uc010yme.1_Intron|GPN1_uc010ezg.1_Intron	NM_007266	NP_009197	Q9HCN4	GPN1_HUMAN	GPN-loop GTPase 1 isoform a							cytoplasm	GTP binding|nucleoside-triphosphatase activity|protein binding				0						GTATATCTGTCTTTAGTATAT	0.383													12	126	---	---	---	---	PASS
GPN1	11321	broad.mit.edu	37	2	27858012	27858012	+	Silent	SNP	C	T	T			TCGA-21-1076-01A-02D-1521-08	TCGA-21-1076-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:27858012C>T	uc010ymc.1	+	7	498	c.477C>T	c.(475-477)TCC>TCT	p.S159S	ZNF512_uc010yly.1_RNA|GPN1_uc010ezf.2_Silent_p.S133S|GPN1_uc010yma.1_Silent_p.S66S|GPN1_uc010ymb.1_Silent_p.S50S|GPN1_uc010ymd.1_Silent_p.S40S|GPN1_uc010yme.1_Silent_p.S159S|GPN1_uc010ezg.1_Silent_p.S40S	NM_007266	NP_009197	Q9HCN4	GPN1_HUMAN	GPN-loop GTPase 1 isoform a	145						cytoplasm	GTP binding|nucleoside-triphosphatase activity|protein binding				0						TTTAGGCATCCTCATTTCCAA	0.433													14	104	---	---	---	---	PASS
GPN1	11321	broad.mit.edu	37	2	27861080	27861080	+	Silent	SNP	C	T	T			TCGA-21-1076-01A-02D-1521-08	TCGA-21-1076-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:27861080C>T	uc010ymc.1	+	8	591	c.570C>T	c.(568-570)ATC>ATT	p.I190I	GPN1_uc010ezf.2_Silent_p.I164I|GPN1_uc010yma.1_Silent_p.I97I|GPN1_uc010ymb.1_Silent_p.I81I|GPN1_uc010ymd.1_Silent_p.I71I|GPN1_uc010yme.1_Silent_p.I190I|GPN1_uc010ezg.1_Silent_p.I71I	NM_007266	NP_009197	Q9HCN4	GPN1_HUMAN	GPN-loop GTPase 1 isoform a	176						cytoplasm	GTP binding|nucleoside-triphosphatase activity|protein binding				0						TTTTCAGCATCTTATACAAAA	0.373													8	57	---	---	---	---	PASS
SPAST	6683	broad.mit.edu	37	2	32361975	32361975	+	Missense_Mutation	SNP	A	G	G			TCGA-21-1076-01A-02D-1521-08	TCGA-21-1076-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:32361975A>G	uc002roc.2	+	11	1572	c.1351A>G	c.(1351-1353)AGA>GGA	p.R451G	SPAST_uc002rod.2_Missense_Mutation_p.R419G	NM_014946	NP_055761	Q9UBP0	SPAST_HUMAN	spastin isoform 1	451	Sufficient for microtubule severing.			R->G: Abrogates binding to the tail of alpha-tubulin and beta-3-tubulin, impairs ATPase activity and abolishes microtubule severing.	cell cycle|cell death|cell differentiation|cytokinesis, completion of separation|ER to Golgi vesicle-mediated transport|microtubule bundle formation|microtubule severing|nervous system development|protein hexamerization|protein homooligomerization	endoplasmic reticulum|endosome|integral to membrane|microtubule|microtubule organizing center|nucleus|perinuclear region of cytoplasm|spindle	alpha-tubulin binding|ATP binding|beta-tubulin binding|microtubule binding|microtubule-severing ATPase activity			breast(1)	1	Acute lymphoblastic leukemia(172;0.155)|all_hematologic(175;0.208)					GTGTGAAAGAAGAGAAGGGGA	0.338													13	26	---	---	---	---	PASS
NLRC4	58484	broad.mit.edu	37	2	32476605	32476605	+	Missense_Mutation	SNP	G	T	T			TCGA-21-1076-01A-02D-1521-08	TCGA-21-1076-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:32476605G>T	uc002roi.2	-	4	574	c.328C>A	c.(328-330)CAT>AAT	p.H110N	NLRC4_uc002roj.1_Missense_Mutation_p.H110N|NLRC4_uc010ezt.1_Intron	NM_021209	NP_067032	Q9NPP4	NLRC4_HUMAN	caspase recruitment domain protein 12	110					activation of caspase activity|defense response to bacterium|detection of bacterium|interleukin-1 beta secretion|positive regulation of apoptosis	cytoplasm	ATP binding|magnesium ion binding|protein homodimerization activity			ovary(3)|large_intestine(1)|lung(1)|skin(1)	6	Acute lymphoblastic leukemia(172;0.155)|all_hematologic(175;0.208)					GATGGGGTATGGTACAAGTCC	0.398													35	49	---	---	---	---	PASS
LHCGR	3973	broad.mit.edu	37	2	48915007	48915007	+	Nonsense_Mutation	SNP	G	T	T			TCGA-21-1076-01A-02D-1521-08	TCGA-21-1076-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:48915007G>T	uc002rwu.3	-	11	1999	c.1929C>A	c.(1927-1929)TGC>TGA	p.C643*	GTF2A1L_uc002rwt.2_Intron	NM_000233	NP_000224	P22888	LSHR_HUMAN	luteinizing hormone/choriogonadotropin receptor	643	Cytoplasmic (Potential).			C->G: Loss of palmitoylation.	male genitalia development|male gonad development	endosome|integral to plasma membrane	luteinizing hormone receptor activity			ovary(3)|lung(2)|breast(2)|skin(1)	8		all_hematologic(82;0.151)|Acute lymphoblastic leukemia(82;0.176)	Lung(47;0.101)|LUSC - Lung squamous cell carcinoma(58;0.151)		Cetrorelix(DB00050)|Choriogonadotropin alfa(DB00097)|Goserelin(DB00014)|Lutropin alfa(DB00044)|Menotropins(DB00032)	GACGTTTACAGCAGCCAAATT	0.373									Familial_Male-Limited_Precocious_Puberty				24	156	---	---	---	---	PASS
FSHR	2492	broad.mit.edu	37	2	49190478	49190478	+	Missense_Mutation	SNP	C	G	G			TCGA-21-1076-01A-02D-1521-08	TCGA-21-1076-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:49190478C>G	uc002rww.2	-	10	1556	c.1482G>C	c.(1480-1482)TGG>TGC	p.W494C	FSHR_uc002rwx.2_Missense_Mutation_p.W432C|FSHR_uc010fbn.2_Missense_Mutation_p.W468C	NM_000145	NP_000136	P23945	FSHR_HUMAN	follicle stimulating hormone receptor isoform 1	494	Helical; Name=4; (Potential).				female gamete generation|male gonad development|spermatogenesis	integral to membrane|plasma membrane	follicle-stimulating hormone receptor activity|protein binding			ovary(4)|lung(2)|central_nervous_system(1)|skin(1)	8		all_hematologic(82;0.152)|Acute lymphoblastic leukemia(82;0.181)	Lung(47;0.101)|LUSC - Lung squamous cell carcinoma(58;0.151)		Choriogonadotropin alfa(DB00097)|Follitropin beta(DB00066)|Menotropins(DB00032)|Urofollitropin(DB00094)	AAGCAAAAATCCAGCCCATCA	0.532									Gonadal_Dysgenesis_46_XX				8	53	---	---	---	---	PASS
NRXN1	9378	broad.mit.edu	37	2	50280565	50280565	+	Silent	SNP	C	G	G			TCGA-21-1076-01A-02D-1521-08	TCGA-21-1076-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:50280565C>G	uc010fbp.2	-	4	1584	c.777G>C	c.(775-777)GTG>GTC	p.V259V	NRXN1_uc002rxb.3_Silent_p.V996V|NRXN1_uc010fbq.2_Silent_p.V1364V|NRXN1_uc002rxe.3_Silent_p.V1294V	NM_138735	NP_620072	P58400	NRX1B_HUMAN	neurexin 1 isoform beta precursor	259	Extracellular (Potential).|Laminin G-like.				angiogenesis|neuron cell-cell adhesion|neuronal signal transduction	cell surface|endocytic vesicle|integral to membrane|presynaptic membrane	cell adhesion molecule binding|receptor binding			ovary(2)	2		all_hematologic(82;0.152)|Acute lymphoblastic leukemia(82;0.192)	Lung(47;0.0813)|LUSC - Lung squamous cell carcinoma(58;0.116)			CAACCAGTCTCACATTTCCCA	0.502													14	115	---	---	---	---	PASS
Unknown	0	broad.mit.edu	37	2	89986898	89986898	+	Intron	SNP	G	T	T			TCGA-21-1076-01A-02D-1521-08	TCGA-21-1076-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:89986898G>T	uc010fhm.2	+						uc002stn.1_RNA					Parts of antibodies, mostly variable regions.																		TATTTGTATTGGTACCTGCAG	0.557													8	59	---	---	---	---	PASS
MALL	7851	broad.mit.edu	37	2	110849307	110849307	+	Missense_Mutation	SNP	T	C	C			TCGA-21-1076-01A-02D-1521-08	TCGA-21-1076-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:110849307T>C	uc002tfk.2	-	2	920	c.146A>G	c.(145-147)CAC>CGC	p.H49R	MALL_uc010fju.2_Intron	NM_005434	NP_005425	Q13021	MALL_HUMAN	mal, T-cell differentiation protein-like	49	MARVEL.				cholesterol homeostasis	clathrin-coated vesicle|Golgi membrane|integral to membrane|membrane raft|plasma membrane	protein binding			ovary(1)|skin(1)	2				Epithelial(1;0.0546)|STAD - Stomach adenocarcinoma(1;0.18)		GTATACTATGTGGGTGGCGGC	0.448													11	77	---	---	---	---	PASS
TMEM87B	84910	broad.mit.edu	37	2	112863568	112863568	+	Intron	SNP	G	T	T			TCGA-21-1076-01A-02D-1521-08	TCGA-21-1076-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:112863568G>T	uc002thm.2	+							NM_032824	NP_116213	Q96K49	TM87B_HUMAN	transmembrane protein 87B precursor							integral to membrane					0						TGTTTATAATGTCTCTCGTAG	0.289													8	103	---	---	---	---	PASS
TMEM177	80775	broad.mit.edu	37	2	120439364	120439364	+	Nonstop_Mutation	SNP	G	T	T			TCGA-21-1076-01A-02D-1521-08	TCGA-21-1076-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:120439364G>T	uc010flg.1	+	2	1408	c.935G>T	c.(934-936)TGA>TTA	p.*312L	TMEM177_uc002tme.2_Intron|TMEM177_uc002tmc.1_Nonstop_Mutation_p.*312L|TMEM177_uc002tmd.2_Nonstop_Mutation_p.*312L|TMEM177_uc010flh.2_Intron	NM_001105198	NP_001098668	Q53S58	TM177_HUMAN	transmembrane protein 177	312						integral to membrane				ovary(1)	1	Colorectal(110;0.196)					GGCCGCTCCTGATGGGCTCAT	0.582													17	90	---	---	---	---	PASS
LRP1B	53353	broad.mit.edu	37	2	141253202	141253202	+	Missense_Mutation	SNP	T	C	C			TCGA-21-1076-01A-02D-1521-08	TCGA-21-1076-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:141253202T>C	uc002tvj.1	-	56	9938	c.8966A>G	c.(8965-8967)TAC>TGC	p.Y2989C		NM_018557	NP_061027	Q9NZR2	LRP1B_HUMAN	low density lipoprotein-related protein 1B	2989	Extracellular (Potential).|EGF-like 7.				protein transport|receptor-mediated endocytosis	integral to membrane	calcium ion binding			lung(17)|skin(12)|ovary(12)|pancreas(3)|upper_aerodigestive_tract(2)|central_nervous_system(2)|liver(1)|kidney(1)	50		all_cancers(3;1.1e-60)|all_epithelial(3;1.94e-59)|all_lung(3;1.09e-24)|Lung NSC(3;5.65e-24)|Esophageal squamous(3;5.41e-13)|Renal(3;0.000147)|Breast(3;0.000527)|Hepatocellular(3;0.011)|all_neural(3;0.014)|Colorectal(150;0.101)		UCEC - Uterine corpus endometrioid carcinoma (2;0.00139)|Epithelial(1;1.25e-24)|all cancers(1;8.86e-24)|OV - Ovarian serous cystadenocarcinoma(1;2.45e-12)|LUSC - Lung squamous cell carcinoma(1;2.97e-10)|Lung(1;6.05e-09)|BRCA - Breast invasive adenocarcinoma(221;0.0103)		GAGGCACTTGTAAGTCCCGTA	0.453										TSP Lung(27;0.18)			13	95	---	---	---	---	PASS
MMADHC	27249	broad.mit.edu	37	2	150426549	150426549	+	Missense_Mutation	SNP	C	T	T			TCGA-21-1076-01A-02D-1521-08	TCGA-21-1076-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:150426549C>T	uc002txb.2	-	7	1335	c.830G>A	c.(829-831)GGG>GAG	p.G277E	MMADHC_uc002txc.2_Missense_Mutation_p.G277E|MMADHC_uc010fnu.2_Missense_Mutation_p.G311E	NM_015702	NP_056517	Q9H3L0	MMAD_HUMAN	methylmalonic aciduria (cobalamin deficiency)	277						mitochondrion				central_nervous_system(1)|skin(1)	2						GAAGATACTCCCTACAACTAC	0.383													9	42	---	---	---	---	PASS
SCN3A	6328	broad.mit.edu	37	2	165997321	165997321	+	Missense_Mutation	SNP	C	T	T			TCGA-21-1076-01A-02D-1521-08	TCGA-21-1076-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:165997321C>T	uc002ucx.2	-	13	2351	c.1859G>A	c.(1858-1860)CGA>CAA	p.R620Q	SCN3A_uc002ucy.2_Missense_Mutation_p.R620Q|SCN3A_uc002ucz.2_Missense_Mutation_p.R620Q|SCN3A_uc002uda.1_Missense_Mutation_p.R489Q|SCN3A_uc002udb.1_Missense_Mutation_p.R489Q	NM_006922	NP_008853	Q9NY46	SCN3A_HUMAN	sodium channel, voltage-gated, type III, alpha	620						voltage-gated sodium channel complex	voltage-gated sodium channel activity			ovary(4)|breast(3)|skin(2)|central_nervous_system(1)	10					Lamotrigine(DB00555)	ACTGTTGCGTCGCTCTCCATG	0.498													6	48	---	---	---	---	PASS
SCN1A	6323	broad.mit.edu	37	2	166848153	166848153	+	Nonsense_Mutation	SNP	C	A	A	rs148703212		TCGA-21-1076-01A-02D-1521-08	TCGA-21-1076-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:166848153C>A	uc010zcz.1	-	26	5617	c.5599G>T	c.(5599-5601)GAG>TAG	p.E1867*		NM_006920	NP_008851	P35498	SCN1A_HUMAN	sodium channel, voltage-gated, type I, alpha	1878						voltage-gated sodium channel complex	voltage-gated sodium channel activity			ovary(6)|skin(6)|large_intestine(1)	13					Lamotrigine(DB00555)|Levetiracetam(DB01202)|Phenacemide(DB01121)|Phenytoin(DB00252)|Topiramate(DB00273)|Zonisamide(DB00909)	TCTCCACTCTCTCCTAGAACC	0.448													11	88	---	---	---	---	PASS
TTN	7273	broad.mit.edu	37	2	179397113	179397113	+	Silent	SNP	A	G	G			TCGA-21-1076-01A-02D-1521-08	TCGA-21-1076-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:179397113A>G	uc010zfg.1	-	307	96749	c.96525T>C	c.(96523-96525)TAT>TAC	p.Y32175Y	uc002umo.2_Intron|uc002ump.1_Intron|TTN_uc010zfh.1_Silent_p.Y25870Y|TTN_uc010zfi.1_Silent_p.Y25803Y|TTN_uc010zfj.1_Silent_p.Y25678Y	NM_133378	NP_596869	Q8WZ42	TITIN_HUMAN	titin isoform N2-A	33102							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)			TCAGTTCTGCATAACTTGTAC	0.498													18	93	---	---	---	---	PASS
TTN	7273	broad.mit.edu	37	2	179397773	179397773	+	Missense_Mutation	SNP	G	C	C			TCGA-21-1076-01A-02D-1521-08	TCGA-21-1076-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:179397773G>C	uc010zfg.1	-	307	96089	c.95865C>G	c.(95863-95865)TTC>TTG	p.F31955L	uc002umo.2_Intron|uc002ump.1_Intron|TTN_uc010zfh.1_Missense_Mutation_p.F25650L|TTN_uc010zfi.1_Missense_Mutation_p.F25583L|TTN_uc010zfj.1_Missense_Mutation_p.F25458L	NM_133378	NP_596869	Q8WZ42	TITIN_HUMAN	titin isoform N2-A	32882							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)			TCTCAAGTCTGAATTCCCCTT	0.453													21	286	---	---	---	---	PASS
TTN	7273	broad.mit.edu	37	2	179460466	179460466	+	Missense_Mutation	SNP	C	G	G			TCGA-21-1076-01A-02D-1521-08	TCGA-21-1076-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:179460466C>G	uc010zfg.1	-	244	50135	c.49911G>C	c.(49909-49911)TGG>TGC	p.W16637C	uc002umo.2_Intron|uc002ump.1_Intron|TTN_uc010zfh.1_Missense_Mutation_p.W10332C|TTN_uc010zfi.1_Missense_Mutation_p.W10265C|TTN_uc010zfj.1_Missense_Mutation_p.W10140C	NM_133378	NP_596869	Q8WZ42	TITIN_HUMAN	titin isoform N2-A	17564							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)			CTGGAGAAAACCATGTCAGTT	0.438													2	4	---	---	---	---	PASS
TTN	7273	broad.mit.edu	37	2	179582845	179582845	+	Silent	SNP	A	T	T			TCGA-21-1076-01A-02D-1521-08	TCGA-21-1076-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:179582845A>T	uc010zfg.1	-	83	21380	c.21156T>A	c.(21154-21156)TCT>TCA	p.S7052S	TTN_uc010zfh.1_Intron|TTN_uc010zfi.1_Intron|TTN_uc010zfj.1_Intron|TTN_uc002umz.1_Silent_p.S3713S	NM_133378	NP_596869	Q8WZ42	TITIN_HUMAN	titin isoform N2-A	7979							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)			CTTTATACCAAGAAATTCTAA	0.383													15	53	---	---	---	---	PASS
TTN	7273	broad.mit.edu	37	2	179583559	179583559	+	Nonsense_Mutation	SNP	G	T	T			TCGA-21-1076-01A-02D-1521-08	TCGA-21-1076-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:179583559G>T	uc010zfg.1	-	81	20860	c.20636C>A	c.(20635-20637)TCA>TAA	p.S6879*	TTN_uc010zfh.1_Intron|TTN_uc010zfi.1_Intron|TTN_uc010zfj.1_Intron|TTN_uc002umz.1_Nonsense_Mutation_p.S3540*	NM_133378	NP_596869	Q8WZ42	TITIN_HUMAN	titin isoform N2-A	7806							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)			GATGTTGCATGACTCCCCAGG	0.483													6	32	---	---	---	---	PASS
TTN	7273	broad.mit.edu	37	2	179597012	179597012	+	Nonsense_Mutation	SNP	G	A	A			TCGA-21-1076-01A-02D-1521-08	TCGA-21-1076-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:179597012G>A	uc010zfg.1	-	54	13176	c.12952C>T	c.(12952-12954)CAG>TAG	p.Q4318*	TTN_uc010zfh.1_Intron|TTN_uc010zfi.1_Intron|TTN_uc010zfj.1_Intron|TTN_uc002umz.1_Nonsense_Mutation_p.Q979*	NM_133378	NP_596869	Q8WZ42	TITIN_HUMAN	titin isoform N2-A	5245							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)			CAGGCTAGCTGGGTGGCATCT	0.403													26	122	---	---	---	---	PASS
STAT4	6775	broad.mit.edu	37	2	191897726	191897726	+	Missense_Mutation	SNP	C	G	G			TCGA-21-1076-01A-02D-1521-08	TCGA-21-1076-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:191897726C>G	uc002usm.1	-	21	2256	c.2002G>C	c.(2002-2004)GAC>CAC	p.D668H	STAT4_uc002usn.1_Missense_Mutation_p.D668H|STAT4_uc010zgk.1_Missense_Mutation_p.D513H|STAT4_uc002uso.2_Missense_Mutation_p.D668H	NM_003151	NP_003142	Q14765	STAT4_HUMAN	signal transducer and activator of transcription	668					JAK-STAT cascade	cytoplasm|nucleus	calcium ion binding|protein binding|sequence-specific DNA binding transcription factor activity|signal transducer activity			breast(3)|skin(2)|lung(1)|ovary(1)|prostate(1)|pancreas(1)	9			OV - Ovarian serous cystadenocarcinoma(117;0.00854)|Epithelial(96;0.0864)|all cancers(119;0.204)			AAGGCTTTGTCTTTGGGAATG	0.398													14	110	---	---	---	---	PASS
SATB2	23314	broad.mit.edu	37	2	200193597	200193597	+	Missense_Mutation	SNP	G	T	T			TCGA-21-1076-01A-02D-1521-08	TCGA-21-1076-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:200193597G>T	uc002uuy.1	-	8	2027	c.1210C>A	c.(1210-1212)CCT>ACT	p.P404T	SATB2_uc010fsq.1_Missense_Mutation_p.P286T|SATB2_uc002uuz.1_Missense_Mutation_p.P404T|SATB2_uc002uva.1_Missense_Mutation_p.P404T	NM_015265	NP_056080	Q9UPW6	SATB2_HUMAN	SATB homeobox 2	404	CUT 1.					cytoplasm|nuclear matrix	sequence-specific DNA binding transcription factor activity			ovary(1)	1						GCTGTCCGAGGGTCTTCTTCC	0.468													7	52	---	---	---	---	PASS
INO80D	54891	broad.mit.edu	37	2	206911302	206911302	+	Silent	SNP	T	A	A			TCGA-21-1076-01A-02D-1521-08	TCGA-21-1076-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:206911302T>A	uc002vaz.3	-	5	1404	c.999A>T	c.(997-999)CCA>CCT	p.P333P		NM_017759	NP_060229	Q53TQ3	IN80D_HUMAN	INO80 complex subunit D	333					DNA recombination|DNA repair|regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus				ovary(1)	1						CTGAGTCCTCTGGTTCCTCTC	0.418													12	68	---	---	---	---	PASS
C2orf67	151050	broad.mit.edu	37	2	210968907	210968907	+	Missense_Mutation	SNP	C	T	T			TCGA-21-1076-01A-02D-1521-08	TCGA-21-1076-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:210968907C>T	uc002vds.2	-	4	1557	c.1349G>A	c.(1348-1350)TGT>TAT	p.C450Y	C2orf67_uc002vdt.2_Missense_Mutation_p.C450Y|C2orf67_uc002vdw.2_Missense_Mutation_p.C450Y|C2orf67_uc002vdv.2_Missense_Mutation_p.C450Y|C2orf67_uc002vdx.1_Missense_Mutation_p.C450Y	NM_152519	NP_689732	A0AUZ9	CB067_HUMAN	hypothetical protein LOC151050	450										ovary(3)	3		Renal(323;0.202)		Epithelial(149;0.00435)|Lung(261;0.0529)|LUSC - Lung squamous cell carcinoma(261;0.0551)|all cancers(144;0.0696)		AGGATCTTGACACTCCTGGGG	0.393													5	56	---	---	---	---	PASS
CPS1	1373	broad.mit.edu	37	2	211447414	211447414	+	Missense_Mutation	SNP	T	A	A			TCGA-21-1076-01A-02D-1521-08	TCGA-21-1076-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:211447414T>A	uc002vee.3	+	6	734	c.602T>A	c.(601-603)ATT>AAT	p.I201N	CPS1_uc010fur.2_Missense_Mutation_p.I207N	NM_001875	NP_001866	P31327	CPSM_HUMAN	carbamoyl-phosphate synthetase 1 isoform b	201	Anthranilate phosphoribosyltransferase homolog.				carbamoyl phosphate biosynthetic process|citrulline biosynthetic process|glutamine metabolic process|glycogen catabolic process|nitric oxide metabolic process|positive regulation of vasodilation|response to lipopolysaccharide|triglyceride catabolic process|urea cycle	mitochondrial nucleoid	ATP binding|carbamoyl-phosphate synthase (ammonia) activity			ovary(8)|central_nervous_system(3)|breast(1)|skin(1)	13				Epithelial(149;0.00697)|Lung(261;0.0521)|LUSC - Lung squamous cell carcinoma(261;0.0544)|all cancers(144;0.0843)		CAGAATTTGATTGCTGAGGTT	0.333													6	84	---	---	---	---	PASS
VIL1	7429	broad.mit.edu	37	2	219294216	219294216	+	Intron	SNP	C	A	A			TCGA-21-1076-01A-02D-1521-08	TCGA-21-1076-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:219294216C>A	uc002via.2	+						VIL1_uc010zke.1_Intron|VIL1_uc002vib.2_Intron|VIL1_uc002vic.1_Intron	NM_007127	NP_009058	P09327	VILI_HUMAN	villin 1						actin filament capping|actin filament depolymerization|actin filament polymerization|actin filament severing|apoptosis|cellular response to epidermal growth factor stimulus|cytoplasmic actin-based contraction involved in cell motility|epidermal growth factor receptor signaling pathway|positive regulation of actin filament bundle assembly|positive regulation of epithelial cell migration|regulation of actin nucleation|regulation of cell shape|regulation of lamellipodium morphogenesis|regulation of wound healing|response to bacterium	actin filament bundle|cytoplasm|filopodium tip|intracellular membrane-bounded organelle|lamellipodium|microvillus|ruffle	actin filament binding|calcium ion binding|caspase inhibitor activity|lysophosphatidic acid binding|phosphatidylinositol-4,5-bisphosphate binding|protein homodimerization activity			ovary(1)	1		Renal(207;0.0474)		Epithelial(149;6.88e-07)|all cancers(144;0.00013)|LUSC - Lung squamous cell carcinoma(224;0.008)|Lung(261;0.00942)		TACCAGTGAGCGCCCAGCGGG	0.657													18	71	---	---	---	---	PASS
PTPRN	5798	broad.mit.edu	37	2	220161512	220161512	+	Missense_Mutation	SNP	T	C	C			TCGA-21-1076-01A-02D-1521-08	TCGA-21-1076-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:220161512T>C	uc002vkz.2	-	16	2358	c.2269A>G	c.(2269-2271)AGC>GGC	p.S757G	PTPRN_uc010zlc.1_Missense_Mutation_p.S667G|PTPRN_uc002vla.2_Missense_Mutation_p.S728G|uc010zld.1_5'Flank|MIR153-1_hsa-mir-153-1|MI0000463_5'Flank	NM_002846	NP_002837	Q16849	PTPRN_HUMAN	protein tyrosine phosphatase, receptor type, N	757	Cytoplasmic (Potential).|Tyrosine-protein phosphatase.				response to reactive oxygen species	integral to plasma membrane	transmembrane receptor protein tyrosine phosphatase activity			ovary(2)|lung(1)|skin(1)	4		Renal(207;0.0474)		Epithelial(149;4.22e-07)|all cancers(144;8.82e-05)|LUSC - Lung squamous cell carcinoma(224;0.008)|Lung(261;0.00942)|STAD - Stomach adenocarcinoma(1183;0.0875)		GAAGGGCTGCTCTCCACCTTC	0.607													4	47	---	---	---	---	PASS
PTPRN	5798	broad.mit.edu	37	2	220162785	220162785	+	Missense_Mutation	SNP	C	G	G			TCGA-21-1076-01A-02D-1521-08	TCGA-21-1076-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:220162785C>G	uc002vkz.2	-	13	1798	c.1709G>C	c.(1708-1710)AGC>ACC	p.S570T	PTPRN_uc010zlc.1_Missense_Mutation_p.S480T|PTPRN_uc002vla.2_Missense_Mutation_p.S541T	NM_002846	NP_002837	Q16849	PTPRN_HUMAN	protein tyrosine phosphatase, receptor type, N	570	Extracellular (Potential).				response to reactive oxygen species	integral to plasma membrane	transmembrane receptor protein tyrosine phosphatase activity			ovary(2)|lung(1)|skin(1)	4		Renal(207;0.0474)		Epithelial(149;4.22e-07)|all cancers(144;8.82e-05)|LUSC - Lung squamous cell carcinoma(224;0.008)|Lung(261;0.00942)|STAD - Stomach adenocarcinoma(1183;0.0875)		GGGTGAGGTGCTGTGCGCAGT	0.622													11	117	---	---	---	---	PASS
SPEG	10290	broad.mit.edu	37	2	220315888	220315888	+	Missense_Mutation	SNP	G	T	T			TCGA-21-1076-01A-02D-1521-08	TCGA-21-1076-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:220315888G>T	uc010fwg.2	+	5	2144	c.2144G>T	c.(2143-2145)GGA>GTA	p.G715V	SPEG_uc002vlm.2_RNA|SPEG_uc010fwh.1_5'UTR|SPEG_uc002vln.1_5'UTR|SPEG_uc002vlp.1_5'UTR	NM_005876	NP_005867	Q15772	SPEG_HUMAN	SPEG complex locus	715					muscle organ development|negative regulation of cell proliferation	nucleus	ATP binding|protein serine/threonine kinase activity	p.V712_P722del(1)		stomach(9)|ovary(4)|central_nervous_system(1)	14		Renal(207;0.0183)		Epithelial(149;4.5e-10)|all cancers(144;7.93e-08)|Lung(261;0.00639)|LUSC - Lung squamous cell carcinoma(224;0.00829)|READ - Rectum adenocarcinoma(5;0.163)		GTGTCCGCTGGAGAAGAGCCC	0.587													39	169	---	---	---	---	PASS
DGKD	8527	broad.mit.edu	37	2	234365572	234365572	+	Nonsense_Mutation	SNP	T	A	A			TCGA-21-1076-01A-02D-1521-08	TCGA-21-1076-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:234365572T>A	uc002vui.1	+	20	2415	c.2403T>A	c.(2401-2403)TAT>TAA	p.Y801*	DGKD_uc002vuj.1_Nonsense_Mutation_p.Y757*|DGKD_uc010fyh.1_Nonsense_Mutation_p.Y668*|DGKD_uc010fyi.1_RNA	NM_152879	NP_690618	Q16760	DGKD_HUMAN	diacylglycerol kinase, delta 130kDa isoform 2	801					activation of protein kinase C activity by G-protein coupled receptor protein signaling pathway|cell growth|diacylglycerol metabolic process|endocytosis|epidermal growth factor receptor signaling pathway|multicellular organismal development|platelet activation|protein homooligomerization|protein transport|response to organic substance|second-messenger-mediated signaling	cytoplasm|cytoplasmic membrane-bounded vesicle|plasma membrane|plasma membrane	ATP binding|diacylglycerol binding|diacylglycerol kinase activity|metal ion binding|protein heterodimerization activity|protein homodimerization activity			central_nervous_system(2)|pancreas(1)|lung(1)|skin(1)	5		Breast(86;0.0013)|Renal(207;0.00339)|all_hematologic(139;0.0116)|all_lung(227;0.0179)|Acute lymphoblastic leukemia(138;0.0326)|Lung NSC(271;0.0538)		Epithelial(121;1.31e-16)|BRCA - Breast invasive adenocarcinoma(100;0.000416)|Lung(119;0.00285)|LUSC - Lung squamous cell carcinoma(224;0.00655)	Phosphatidylserine(DB00144)	TGATGTGGTATGGAGTTCTTG	0.483													17	84	---	---	---	---	PASS
CNTN6	27255	broad.mit.edu	37	3	1262453	1262453	+	Silent	SNP	C	A	A			TCGA-21-1076-01A-02D-1521-08	TCGA-21-1076-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:1262453C>A	uc003boz.2	+	3	405	c.138C>A	c.(136-138)GTC>GTA	p.V46V	CNTN6_uc010hbo.2_Silent_p.V41V|CNTN6_uc011asj.1_5'UTR|CNTN6_uc003bpa.2_Silent_p.V46V	NM_014461	NP_055276	Q9UQ52	CNTN6_HUMAN	contactin 6 precursor	46	Ig-like C2-type 1.				axon guidance|cell adhesion|central nervous system development|Notch signaling pathway	anchored to membrane|plasma membrane				skin(3)|lung(2)|breast(2)|pancreas(1)	8		all_cancers(2;0.000164)|all_epithelial(2;0.107)		Epithelial(13;0.000233)|all cancers(10;0.0013)|OV - Ovarian serous cystadenocarcinoma(96;0.0139)		AATCTGAGGTCATCCTGAATT	0.383													24	71	---	---	---	---	PASS
ATG7	10533	broad.mit.edu	37	3	11400049	11400049	+	Missense_Mutation	SNP	G	A	A			TCGA-21-1076-01A-02D-1521-08	TCGA-21-1076-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:11400049G>A	uc003bwc.2	+	13	1559	c.1442G>A	c.(1441-1443)CGG>CAG	p.R481Q	ATG7_uc003bwd.2_Missense_Mutation_p.R481Q|ATG7_uc011aum.1_Missense_Mutation_p.R442Q	NM_006395	NP_006386	O95352	ATG7_HUMAN	APG7 autophagy 7-like isoform a	481					autophagy|cellular membrane fusion|positive regulation of protein modification process|protein lipidation|protein transport	cytoplasm	APG12 activating enzyme activity|protein homodimerization activity|ubiquitin activating enzyme activity			central_nervous_system(1)	1						AGGGAGAGCCGGTGGCTTCCT	0.517													7	39	---	---	---	---	PASS
ZNF385D	79750	broad.mit.edu	37	3	21706423	21706423	+	Silent	SNP	A	T	T			TCGA-21-1076-01A-02D-1521-08	TCGA-21-1076-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:21706423A>T	uc003cce.2	-	2	528	c.120T>A	c.(118-120)CCT>CCA	p.P40P	ZNF385D_uc010hfb.1_Intron	NM_024697	NP_078973	Q9H6B1	Z385D_HUMAN	zinc finger protein 385D	40						nucleus	nucleic acid binding|zinc ion binding			large_intestine(2)|skin(2)|ovary(1)	5						CAGTGTCAAGAGGAAAGGGAA	0.502													12	56	---	---	---	---	PASS
SCN10A	6336	broad.mit.edu	37	3	38802845	38802845	+	Missense_Mutation	SNP	G	A	A			TCGA-21-1076-01A-02D-1521-08	TCGA-21-1076-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:38802845G>A	uc003ciq.2	-	6	721	c.721C>T	c.(721-723)CAC>TAC	p.H241Y		NM_006514	NP_006505	Q9Y5Y9	SCNAA_HUMAN	sodium channel, voltage-gated, type X, alpha	241	I.				sensory perception	voltage-gated sodium channel complex				ovary(5)|skin(3)|large_intestine(1)|kidney(1)	10				KIRC - Kidney renal clear cell carcinoma(284;0.0769)|Kidney(284;0.0945)	Benzocaine(DB01086)|Bupivacaine(DB00297)|Chloroprocaine(DB01161)|Cocaine(DB00907)|Dibucaine(DB00527)|Dyclonine(DB00645)|Hexylcaine(DB00473)|Levobupivacaine(DB01002)|Lidocaine(DB00281)|Mepivacaine(DB00961)|Oxybuprocaine(DB00892)|Procaine(DB00721)|Proparacaine(DB00807)|Ropivacaine(DB00296)	TTCACTGAGTGAATCAGGGCC	0.507													17	31	---	---	---	---	PASS
SCN11A	11280	broad.mit.edu	37	3	38962736	38962736	+	Silent	SNP	G	C	C			TCGA-21-1076-01A-02D-1521-08	TCGA-21-1076-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:38962736G>C	uc011ays.1	-	6	922	c.723C>G	c.(721-723)GTC>GTG	p.V241V		NM_014139	NP_054858	Q9UI33	SCNBA_HUMAN	sodium channel, voltage-gated, type XI, alpha	241	I.				response to drug	voltage-gated sodium channel complex	voltage-gated sodium channel activity			skin(6)|ovary(1)|haematopoietic_and_lymphoid_tissue(1)|pancreas(1)	9				Kidney(284;0.00202)|KIRC - Kidney renal clear cell carcinoma(284;0.00226)	Cocaine(DB00907)	CCCCCACGATGACCTTCAGAC	0.537													6	121	---	---	---	---	PASS
TGM4	7047	broad.mit.edu	37	3	44932089	44932089	+	Intron	SNP	G	T	T			TCGA-21-1076-01A-02D-1521-08	TCGA-21-1076-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:44932089G>T	uc003coc.3	+						TGM4_uc003cob.2_Intron	NM_003241	NP_003232	P49221	TGM4_HUMAN	transglutaminase 4 (prostate)						peptide cross-linking|protein polyamination		acyltransferase activity|metal ion binding|protein-glutamine gamma-glutamyltransferase activity			ovary(1)	1				BRCA - Breast invasive adenocarcinoma(193;0.00963)|KIRC - Kidney renal clear cell carcinoma(197;0.0546)|Kidney(197;0.0686)	L-Glutamine(DB00130)	CTTATGGTTTGCTCAGGTCAC	0.473													29	86	---	---	---	---	PASS
TGM4	7047	broad.mit.edu	37	3	44935188	44935188	+	Splice_Site	SNP	G	T	T			TCGA-21-1076-01A-02D-1521-08	TCGA-21-1076-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:44935188G>T	uc003coc.3	+	5	622	c.549_splice	c.e5+1	p.Q183_splice	TGM4_uc003cob.2_Splice_Site	NM_003241	NP_003232	P49221	TGM4_HUMAN	transglutaminase 4 (prostate)						peptide cross-linking|protein polyamination		acyltransferase activity|metal ion binding|protein-glutamine gamma-glutamyltransferase activity			ovary(1)	1				BRCA - Breast invasive adenocarcinoma(193;0.00963)|KIRC - Kidney renal clear cell carcinoma(197;0.0546)|Kidney(197;0.0686)	L-Glutamine(DB00130)	CTTTGGTCAGGTAATGATTTG	0.507													19	89	---	---	---	---	PASS
NBEAL2	23218	broad.mit.edu	37	3	47043973	47043973	+	Missense_Mutation	SNP	G	A	A			TCGA-21-1076-01A-02D-1521-08	TCGA-21-1076-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:47043973G>A	uc003cqp.2	+	32	5443	c.5264G>A	c.(5263-5265)CGC>CAC	p.R1755H	NBEAL2_uc010hjm.1_Missense_Mutation_p.R1132H|NBEAL2_uc010hjn.1_Missense_Mutation_p.R151H|NBEAL2_uc010hjo.1_5'Flank	NM_015175	NP_055990	Q6ZNJ1	NBEL2_HUMAN	neurobeachin-like 2	1755							binding			ovary(1)	1		Acute lymphoblastic leukemia(5;0.0534)		BRCA - Breast invasive adenocarcinoma(193;0.0012)|KIRC - Kidney renal clear cell carcinoma(197;0.00575)|Kidney(197;0.00656)		GGGCAGCGGCGCCAGTGGGAG	0.577													7	48	---	---	---	---	PASS
ITIH1	3697	broad.mit.edu	37	3	52820992	52820992	+	Missense_Mutation	SNP	C	A	A			TCGA-21-1076-01A-02D-1521-08	TCGA-21-1076-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:52820992C>A	uc003dfs.2	+	14	1789	c.1765C>A	c.(1765-1767)CTG>ATG	p.L589M	ITIH1_uc010hmn.1_RNA|ITIH1_uc003dft.2_Missense_Mutation_p.L190M|ITIH1_uc010hmo.1_Missense_Mutation_p.L143M|ITIH1_uc003dfu.2_5'Flank	NM_002215	NP_002206	P19827	ITIH1_HUMAN	inter-alpha (globulin) inhibitor H1	589	Hyaluronan-binding.				hyaluronan metabolic process|leukocyte activation	extracellular region	calcium ion binding|serine-type endopeptidase inhibitor activity			ovary(3)	3				BRCA - Breast invasive adenocarcinoma(193;7.04e-05)|Kidney(197;0.000659)|KIRC - Kidney renal clear cell carcinoma(197;0.000795)|OV - Ovarian serous cystadenocarcinoma(275;0.0498)		GAGGGCCAACCTGTCATCCCA	0.557													30	62	---	---	---	---	PASS
MAGI1	9223	broad.mit.edu	37	3	66023687	66023687	+	Missense_Mutation	SNP	G	C	C			TCGA-21-1076-01A-02D-1521-08	TCGA-21-1076-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:66023687G>C	uc003dmn.2	-	1	823	c.297C>G	c.(295-297)TTC>TTG	p.F99L	MAGI1_uc003dmm.2_Missense_Mutation_p.F99L|MAGI1_uc003dmo.2_Missense_Mutation_p.F99L|MAGI1_uc003dmp.2_Missense_Mutation_p.F99L|MAGI1_uc003dmr.2_Missense_Mutation_p.F99L	NM_001033057	NP_001028229	Q96QZ7	MAGI1_HUMAN	membrane associated guanylate kinase, WW and PDZ	99	Guanylate kinase-like.|PDZ 1.				cell adhesion|cell surface receptor linked signaling pathway|protein complex assembly	tight junction	ATP binding|protein C-terminus binding			lung(2)|skin(1)|breast(1)|kidney(1)|pancreas(1)	6		Lung NSC(201;0.0016)		BRCA - Breast invasive adenocarcinoma(55;0.00138)|KIRC - Kidney renal clear cell carcinoma(15;0.0988)|Kidney(15;0.133)		TGACGGCCTTGAAGGTGACGG	0.642													66	179	---	---	---	---	PASS
OR5H1	26341	broad.mit.edu	37	3	97851588	97851588	+	Missense_Mutation	SNP	G	T	T			TCGA-21-1076-01A-02D-1521-08	TCGA-21-1076-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:97851588G>T	uc011bgt.1	+	1	47	c.47G>T	c.(46-48)GGA>GTA	p.G16V		NM_001005338	NP_001005338	A6NKK0	OR5H1_HUMAN	olfactory receptor, family 5, subfamily H,	16	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)|breast(1)	2						GTTCTCACAGGATTTTTATAT	0.403													27	93	---	---	---	---	PASS
OR5H14	403273	broad.mit.edu	37	3	97868313	97868313	+	Missense_Mutation	SNP	C	A	A			TCGA-21-1076-01A-02D-1521-08	TCGA-21-1076-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:97868313C>A	uc003dsg.1	+	1	84	c.84C>A	c.(82-84)TTC>TTA	p.F28L		NM_001005514	NP_001005514	A6NHG9	O5H14_HUMAN	olfactory receptor, family 5, subfamily H,	28	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			skin(1)	1						TACCCCTGTTCCTGGCATTCT	0.423													50	230	---	---	---	---	PASS
TBC1D23	55773	broad.mit.edu	37	3	100034982	100034982	+	Silent	SNP	T	A	A			TCGA-21-1076-01A-02D-1521-08	TCGA-21-1076-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:100034982T>A	uc003dtt.2	+	16	1815	c.1638T>A	c.(1636-1638)CGT>CGA	p.R546R	TBC1D23_uc003dts.2_Silent_p.R531R|TBC1D23_uc003dtu.2_5'UTR	NM_018309	NP_060779	Q9NUY8	TBC23_HUMAN	TBC1 domain family, member 23	546						intracellular	Rab GTPase activator activity			ovary(1)|liver(1)	2						AGCCTTACCGTGGCGTAAAGC	0.403													9	81	---	---	---	---	PASS
TBC1D23	55773	broad.mit.edu	37	3	100035014	100035014	+	Missense_Mutation	SNP	A	C	C			TCGA-21-1076-01A-02D-1521-08	TCGA-21-1076-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:100035014A>C	uc003dtt.2	+	16	1847	c.1670A>C	c.(1669-1671)GAA>GCA	p.E557A	TBC1D23_uc003dts.2_Missense_Mutation_p.E542A|TBC1D23_uc003dtu.2_5'UTR	NM_018309	NP_060779	Q9NUY8	TBC23_HUMAN	TBC1 domain family, member 23	557						intracellular	Rab GTPase activator activity			ovary(1)|liver(1)	2						ATTGGGGATGAAGAAGAATAC	0.433													7	66	---	---	---	---	PASS
TRAT1	50852	broad.mit.edu	37	3	108568085	108568085	+	Missense_Mutation	SNP	C	A	A			TCGA-21-1076-01A-02D-1521-08	TCGA-21-1076-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:108568085C>A	uc003dxi.1	+	5	431	c.287C>A	c.(286-288)GCC>GAC	p.A96D	TRAT1_uc010hpx.1_Missense_Mutation_p.A59D	NM_016388	NP_057472	Q6PIZ9	TRAT1_HUMAN	T-cell receptor interacting molecule	96	Cytoplasmic (Potential).				cellular defense response|negative regulation of receptor recycling|negative regulation of transport|positive regulation of calcium-mediated signaling|positive regulation of T cell receptor signaling pathway|T cell receptor signaling pathway	integral to plasma membrane|T cell receptor complex	phosphatidylinositol-4,5-bisphosphate 3-kinase activity|transmembrane receptor protein tyrosine kinase adaptor activity			skin(1)	1						ATGCAGGAAGCCACCCCATCT	0.378													7	60	---	---	---	---	PASS
TRAT1	50852	broad.mit.edu	37	3	108568086	108568086	+	Silent	SNP	C	A	A			TCGA-21-1076-01A-02D-1521-08	TCGA-21-1076-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:108568086C>A	uc003dxi.1	+	5	432	c.288C>A	c.(286-288)GCC>GCA	p.A96A	TRAT1_uc010hpx.1_Silent_p.A59A	NM_016388	NP_057472	Q6PIZ9	TRAT1_HUMAN	T-cell receptor interacting molecule	96	Cytoplasmic (Potential).				cellular defense response|negative regulation of receptor recycling|negative regulation of transport|positive regulation of calcium-mediated signaling|positive regulation of T cell receptor signaling pathway|T cell receptor signaling pathway	integral to plasma membrane|T cell receptor complex	phosphatidylinositol-4,5-bisphosphate 3-kinase activity|transmembrane receptor protein tyrosine kinase adaptor activity			skin(1)	1						TGCAGGAAGCCACCCCATCTG	0.373													7	59	---	---	---	---	PASS
ADPRH	141	broad.mit.edu	37	3	119306301	119306301	+	Intron	SNP	C	T	T			TCGA-21-1076-01A-02D-1521-08	TCGA-21-1076-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:119306301C>T	uc003ecs.2	+						ADPRH_uc010hqv.2_Intron|ADPRH_uc011bjb.1_Intron|ADPRH_uc003ect.2_Intron	NM_001125	NP_001116	P54922	ADPRH_HUMAN	ADP-ribosylarginine hydrolase						protein de-ADP-ribosylation		ADP-ribosylarginine hydrolase activity|magnesium ion binding			ovary(1)	1		Lung NSC(201;0.0977)		GBM - Glioblastoma multiforme(114;0.23)		AGATTTTTTCCTTTCTACAGG	0.378													3	61	---	---	---	---	PASS
GOLGB1	2804	broad.mit.edu	37	3	121414037	121414037	+	Missense_Mutation	SNP	A	G	G			TCGA-21-1076-01A-02D-1521-08	TCGA-21-1076-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:121414037A>G	uc003eei.3	-	13	5444	c.5318T>C	c.(5317-5319)CTA>CCA	p.L1773P	GOLGB1_uc010hrc.2_Missense_Mutation_p.L1778P|GOLGB1_uc003eej.3_Missense_Mutation_p.L1739P|GOLGB1_uc011bjm.1_Missense_Mutation_p.L1659P|GOLGB1_uc010hrd.1_Missense_Mutation_p.L1737P	NM_004487	NP_004478	Q14789	GOGB1_HUMAN	golgi autoantigen, golgin subfamily b,	1773	Cytoplasmic (Potential).|Potential.				Golgi organization	ER-Golgi intermediate compartment|Golgi membrane|Golgi stack|integral to membrane	protein binding			ovary(6)|breast(2)|skin(2)	10				GBM - Glioblastoma multiforme(114;0.0989)		GGTGGCCTCTAGGTTAGCTTG	0.403													46	311	---	---	---	---	PASS
UMPS	7372	broad.mit.edu	37	3	124458954	124458954	+	Nonsense_Mutation	SNP	G	T	T			TCGA-21-1076-01A-02D-1521-08	TCGA-21-1076-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:124458954G>T	uc003ehl.3	+	4	1172	c.1066G>T	c.(1066-1068)GAA>TAA	p.E356*	UMPS_uc003ehm.3_RNA|UMPS_uc011bka.1_Nonsense_Mutation_p.E178*|UMPS_uc011bkb.1_Nonsense_Mutation_p.E264*|UMPS_uc011bkc.1_Nonsense_Mutation_p.E178*|UMPS_uc003ehn.3_Nonsense_Mutation_p.E178*|UMPS_uc011bkd.1_Intron	NM_000373	NP_000364	P11172	UMPS_HUMAN	uridine monophosphate synthase	356	OMPdecase.				'de novo' pyrimidine base biosynthetic process|'de novo' UMP biosynthetic process|pyrimidine nucleoside biosynthetic process	cytosol|nucleus	orotate phosphoribosyltransferase activity|orotidine-5'-phosphate decarboxylase activity			kidney(1)	1				GBM - Glioblastoma multiforme(114;0.146)		AGGCCTGCAAGAAGTGGGCCT	0.547													36	231	---	---	---	---	PASS
EPHB1	2047	broad.mit.edu	37	3	134967254	134967254	+	Missense_Mutation	SNP	C	T	T			TCGA-21-1076-01A-02D-1521-08	TCGA-21-1076-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:134967254C>T	uc003eqt.2	+	14	2813	c.2593C>T	c.(2593-2595)CGG>TGG	p.R865W	EPHB1_uc003equ.2_Missense_Mutation_p.R426W	NM_004441	NP_004432	P54762	EPHB1_HUMAN	ephrin receptor EphB1 precursor	865	Cytoplasmic (Potential).|Protein kinase.					integral to plasma membrane	ATP binding|ephrin receptor activity|protein binding			lung(11)|ovary(6)|stomach(4)|breast(3)|central_nervous_system(2)|skin(2)|large_intestine(1)|pancreas(1)	30						GCAGAAGGACCGGAACAGCCG	0.592													22	75	---	---	---	---	PASS
KPNA4	3840	broad.mit.edu	37	3	160225962	160225962	+	Silent	SNP	T	C	C	rs145152566		TCGA-21-1076-01A-02D-1521-08	TCGA-21-1076-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:160225962T>C	uc003fdn.2	-	15	1611	c.1305A>G	c.(1303-1305)CTA>CTG	p.L435L		NM_002268	NP_002259	O00629	IMA4_HUMAN	karyopherin alpha 4	435	ARM 9.				NLS-bearing substrate import into nucleus	cytoplasm|nuclear pore	protein binding				0			Lung(72;0.00149)|LUSC - Lung squamous cell carcinoma(72;0.00216)			ATATATTACTTAGTCCATCGA	0.363													9	64	---	---	---	---	PASS
BCHE	590	broad.mit.edu	37	3	165548177	165548177	+	Silent	SNP	T	C	C			TCGA-21-1076-01A-02D-1521-08	TCGA-21-1076-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:165548177T>C	uc003fem.3	-	2	805	c.645A>G	c.(643-645)GGA>GGG	p.G215G	BCHE_uc003fen.3_Intron	NM_000055	NP_000046	P06276	CHLE_HUMAN	butyrylcholinesterase precursor	215					choline metabolic process|cocaine metabolic process|synaptic transmission, cholinergic	endoplasmic reticulum lumen|extracellular space|membrane	acetylcholinesterase activity|beta-amyloid binding|carboxylesterase activity|cholinesterase activity|enzyme binding			ovary(3)|pancreas(1)	4					Ambenonium(DB01122)|Atropine(DB00572)|Bambuterol(DB01408)|Chlorpromazine(DB00477)|Choline(DB00122)|Cinnarizine(DB00568)|Demecarium bromide(DB00944)|Dibucaine(DB00527)|Donepezil(DB00843)|Echothiophate Iodide(DB01057)|Edrophonium(DB01010)|Ethopropazine(DB00392)|Etomidate(DB00292)|Galantamine(DB00674)|Hexafluronium bromide(DB00941)|Isoflurophate(DB00677)|Mefloquine(DB00358)|Mivacurium(DB01226)|Neostigmine(DB01400)|Pancuronium(DB01337)|Pralidoxime(DB00733)|Procainamide(DB01035)|Pyridostigmine(DB00545)|Rivastigmine(DB00989)|Succinylcholine(DB00202)|Terbutaline(DB00871)|Trimethaphan(DB01116)	TTTTAGGATTTCCACCAAAGG	0.448													20	108	---	---	---	---	PASS
BCHE	590	broad.mit.edu	37	3	165548626	165548626	+	Missense_Mutation	SNP	G	T	T			TCGA-21-1076-01A-02D-1521-08	TCGA-21-1076-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:165548626G>T	uc003fem.3	-	2	356	c.196C>A	c.(196-198)CTT>ATT	p.L66I	BCHE_uc003fen.3_Intron	NM_000055	NP_000046	P06276	CHLE_HUMAN	butyrylcholinesterase precursor	66					choline metabolic process|cocaine metabolic process|synaptic transmission, cholinergic	endoplasmic reticulum lumen|extracellular space|membrane	acetylcholinesterase activity|beta-amyloid binding|carboxylesterase activity|cholinesterase activity|enzyme binding			ovary(3)|pancreas(1)	4					Ambenonium(DB01122)|Atropine(DB00572)|Bambuterol(DB01408)|Chlorpromazine(DB00477)|Choline(DB00122)|Cinnarizine(DB00568)|Demecarium bromide(DB00944)|Dibucaine(DB00527)|Donepezil(DB00843)|Echothiophate Iodide(DB01057)|Edrophonium(DB01010)|Ethopropazine(DB00392)|Etomidate(DB00292)|Galantamine(DB00674)|Hexafluronium bromide(DB00941)|Isoflurophate(DB00677)|Mefloquine(DB00358)|Mivacurium(DB01226)|Neostigmine(DB01400)|Pancuronium(DB01337)|Pralidoxime(DB00733)|Procainamide(DB01035)|Pyridostigmine(DB00545)|Rivastigmine(DB00989)|Succinylcholine(DB00202)|Terbutaline(DB00871)|Trimethaphan(DB01116)	AGTCTACCAAGAGGTGGCTGT	0.418													37	95	---	---	---	---	PASS
ZBBX	79740	broad.mit.edu	37	3	167039936	167039936	+	Missense_Mutation	SNP	T	C	C			TCGA-21-1076-01A-02D-1521-08	TCGA-21-1076-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:167039936T>C	uc003fep.2	-	12	1275	c.952A>G	c.(952-954)ATG>GTG	p.M318V	ZBBX_uc011bpc.1_Missense_Mutation_p.M318V|ZBBX_uc003feq.2_Missense_Mutation_p.M289V	NM_024687	NP_078963	A8MT70	ZBBX_HUMAN	zinc finger, B-box domain containing	318						intracellular	zinc ion binding			ovary(2)	2						AATTTTTCCATATAGGATAGA	0.279													20	38	---	---	---	---	PASS
RFC4	5984	broad.mit.edu	37	3	186508170	186508170	+	Missense_Mutation	SNP	C	G	G			TCGA-21-1076-01A-02D-1521-08	TCGA-21-1076-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:186508170C>G	uc003fqz.2	-	9	1050	c.827G>C	c.(826-828)GGA>GCA	p.G276A	RFC4_uc011bsc.1_Missense_Mutation_p.G276A	NM_002916	NP_002907	P35249	RFC4_HUMAN	replication factor C 4	276					cell cycle checkpoint|DNA strand elongation involved in DNA replication|nucleotide-excision repair, DNA gap filling|phosphatidylinositol-mediated signaling|S phase of mitotic cell cycle|telomere maintenance via recombination|telomere maintenance via semi-conservative replication|transcription-coupled nucleotide-excision repair	DNA replication factor C complex|nucleoplasm	ATP binding|DNA clamp loader activity|protein binding			breast(2)|upper_aerodigestive_tract(1)|ovary(1)|large_intestine(1)	5	all_cancers(143;2.92e-12)|Ovarian(172;0.0339)		OV - Ovarian serous cystadenocarcinoma(80;7.41e-21)	GBM - Glioblastoma multiforme(93;0.0739)		AGCAAATACTCCATCAATTTT	0.418													12	90	---	---	---	---	PASS
C3orf21	152002	broad.mit.edu	37	3	194877236	194877236	+	Missense_Mutation	SNP	C	G	G			TCGA-21-1076-01A-02D-1521-08	TCGA-21-1076-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:194877236C>G	uc003fum.3	-	3	835	c.727G>C	c.(727-729)GAC>CAC	p.D243H	C3orf21_uc003ful.2_Missense_Mutation_p.D40H|C3orf21_uc011bsw.1_Missense_Mutation_p.D97H	NM_152531	NP_689744	Q8NBI6	CC021_HUMAN	hypothetical protein LOC152002	243						integral to membrane	transferase activity, transferring glycosyl groups				0	all_cancers(143;9.33e-09)|Ovarian(172;0.0634)		Epithelial(36;1.73e-20)|all cancers(36;1.42e-18)|OV - Ovarian serous cystadenocarcinoma(49;1.56e-17)|Lung(62;0.000117)|LUSC - Lung squamous cell carcinoma(58;0.000146)	GBM - Glioblastoma multiforme(46;1.36e-05)		AGGAAACTGTCAAATTCCTCA	0.552													6	110	---	---	---	---	PASS
MUC4	4585	broad.mit.edu	37	3	195492241	195492241	+	Missense_Mutation	SNP	C	G	G			TCGA-21-1076-01A-02D-1521-08	TCGA-21-1076-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:195492241C>G	uc011bto.1	-	10	13774	c.13314G>C	c.(13312-13314)AAG>AAC	p.K4438N	MUC4_uc003fuz.2_Missense_Mutation_p.K164N|MUC4_uc003fva.2_Missense_Mutation_p.K46N|MUC4_uc003fvb.2_Missense_Mutation_p.K82N|MUC4_uc003fvc.2_RNA|MUC4_uc003fvd.2_RNA|MUC4_uc003fve.2_Missense_Mutation_p.K82N|MUC4_uc010hzr.2_RNA|MUC4_uc011btf.1_Missense_Mutation_p.K46N|MUC4_uc011btg.1_RNA|MUC4_uc011bth.1_Missense_Mutation_p.K130N|MUC4_uc011bti.1_Missense_Mutation_p.K130N|MUC4_uc011btj.1_Missense_Mutation_p.K307N|MUC4_uc011btk.1_Missense_Mutation_p.K46N|MUC4_uc011btl.1_Missense_Mutation_p.K75N|MUC4_uc011btm.1_Missense_Mutation_p.K255N|MUC4_uc011btn.1_Missense_Mutation_p.K46N|MUC4_uc003fvo.2_Missense_Mutation_p.K330N|MUC4_uc003fvp.2_Missense_Mutation_p.K279N|MUC4_uc010hzu.1_Missense_Mutation_p.K1178N	NM_018406	NP_060876	Q99102	MUC4_HUMAN	mucin 4 isoform a	1323	AMOP.				cell-matrix adhesion	integral to plasma membrane|proteinaceous extracellular matrix	ErbB-2 class receptor binding|extracellular matrix constituent, lubricant activity				0	all_cancers(143;1.11e-08)|Ovarian(172;0.0634)|Breast(254;0.206)	Lung NSC(153;0.191)	Epithelial(36;3.72e-24)|all cancers(36;6.22e-22)|OV - Ovarian serous cystadenocarcinoma(49;1.1e-18)|Lung(62;4.65e-05)|LUSC - Lung squamous cell carcinoma(58;5.31e-05)	GBM - Glioblastoma multiforme(46;2.37e-05)		GAGGCTGGCTCTTCAGCCACT	0.637													11	73	---	---	---	---	PASS
UGT2A3	79799	broad.mit.edu	37	4	69811054	69811054	+	Missense_Mutation	SNP	C	A	A			TCGA-21-1076-01A-02D-1521-08	TCGA-21-1076-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:69811054C>A	uc003hef.2	-	2	865	c.834G>T	c.(832-834)TTG>TTT	p.L278F	UGT2A3_uc010ihp.1_RNA	NM_024743	NP_079019	Q6UWM9	UD2A3_HUMAN	UDP glucuronosyltransferase 2 family,	278	Extracellular (Potential).					integral to membrane	glucuronosyltransferase activity			ovary(1)|skin(1)	2						GTTTACAGTGCAATCCTCCAA	0.373													7	47	---	---	---	---	PASS
ENAM	10117	broad.mit.edu	37	4	71509751	71509751	+	Nonsense_Mutation	SNP	C	T	T			TCGA-21-1076-01A-02D-1521-08	TCGA-21-1076-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:71509751C>T	uc011caw.1	+	9	2889	c.2608C>T	c.(2608-2610)CAG>TAG	p.Q870*		NM_031889	NP_114095	Q9NRM1	ENAM_HUMAN	enamelin precursor	870					bone mineralization|odontogenesis	proteinaceous extracellular matrix	structural constituent of tooth enamel			ovary(3)	3			Lung(101;0.235)			TCACCTAAGCCAGAGAGGCTC	0.473													14	63	---	---	---	---	PASS
SLC4A4	8671	broad.mit.edu	37	4	72316226	72316226	+	Nonsense_Mutation	SNP	G	T	T			TCGA-21-1076-01A-02D-1521-08	TCGA-21-1076-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:72316226G>T	uc003hfy.2	+	10	1291	c.1174G>T	c.(1174-1176)GAG>TAG	p.E392*	SLC4A4_uc010iic.2_Nonsense_Mutation_p.E392*|SLC4A4_uc010iib.2_Nonsense_Mutation_p.E392*|SLC4A4_uc003hfz.2_Nonsense_Mutation_p.E392*|SLC4A4_uc003hgc.3_Nonsense_Mutation_p.E348*|SLC4A4_uc010iid.2_5'UTR|SLC4A4_uc003hga.2_Nonsense_Mutation_p.E270*|SLC4A4_uc003hgb.3_Nonsense_Mutation_p.E348*	NM_001098484	NP_001091954	Q9Y6R1	S4A4_HUMAN	solute carrier family 4, sodium bicarbonate	392	Cytoplasmic (Potential).					basolateral plasma membrane|integral to plasma membrane	inorganic anion exchanger activity|protein binding|sodium:bicarbonate symporter activity			ovary(3)|kidney(1)|skin(1)	5			Lung(101;0.0739)|LUSC - Lung squamous cell carcinoma(112;0.225)			AATTAGGATAGAGCCTCCTAA	0.428													5	37	---	---	---	---	PASS
DSPP	1834	broad.mit.edu	37	4	88535380	88535380	+	Silent	SNP	T	C	C			TCGA-21-1076-01A-02D-1521-08	TCGA-21-1076-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:88535380T>C	uc003hqu.2	+	5	1686	c.1566T>C	c.(1564-1566)AAT>AAC	p.N522N		NM_014208	NP_055023	Q9NZW4	DSPP_HUMAN	dentin sialophosphoprotein preproprotein	522	Asp/Ser-rich.				biomineral tissue development|ossification|skeletal system development	proteinaceous extracellular matrix	calcium ion binding|collagen binding|extracellular matrix structural constituent			central_nervous_system(1)	1		Hepatocellular(203;0.114)|all_hematologic(202;0.236)		OV - Ovarian serous cystadenocarcinoma(123;0.000508)		CAGACACTAATAATAGTGACA	0.333													12	31	---	---	---	---	PASS
FAM190A	401145	broad.mit.edu	37	4	91549316	91549316	+	Missense_Mutation	SNP	G	T	T			TCGA-21-1076-01A-02D-1521-08	TCGA-21-1076-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:91549316G>T	uc003hsv.3	+	6	2205	c.1865G>T	c.(1864-1866)AGA>ATA	p.R622I	FAM190A_uc010ikv.2_RNA|FAM190A_uc003hsw.2_Missense_Mutation_p.R622I	NM_001145065	NP_001138537	Q9C0I3	F190A_HUMAN	KIAA1680 protein isoform 1	622										large_intestine(1)|ovary(1)	2						CTGCCATTCAGACTGATGTTA	0.463													19	54	---	---	---	---	PASS
ANXA5	308	broad.mit.edu	37	4	122592701	122592701	+	Splice_Site	SNP	C	A	A	rs113374737		TCGA-21-1076-01A-02D-1521-08	TCGA-21-1076-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:122592701C>A	uc003idu.3	-	9	791	c.721_splice	c.e9+1	p.V241_splice	ANXA5_uc003idv.3_Splice_Site_p.V241_splice|ANXA5_uc003idw.3_Splice_Site|ANXA5_uc010inm.2_Splice_Site_p.V241_splice|ANXA5_uc010inn.2_Splice_Site_p.V181_splice|ANXA5_uc010ino.2_Splice_Site_p.V141_splice	NM_001154	NP_001145	P08758	ANXA5_HUMAN	annexin 5						anti-apoptosis|blood coagulation|negative regulation of coagulation|signal transduction	cytoplasm	calcium ion binding|calcium-dependent phospholipid binding|phospholipase inhibitor activity			ovary(1)	1						AAATCACCTACCAACAGCAAG	0.383													4	28	---	---	---	---	PASS
TIGD4	201798	broad.mit.edu	37	4	153690989	153690989	+	Missense_Mutation	SNP	T	A	A			TCGA-21-1076-01A-02D-1521-08	TCGA-21-1076-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:153690989T>A	uc003imy.2	-	2	1950	c.1168A>T	c.(1168-1170)ACA>TCA	p.T390S		NM_145720	NP_663772	Q8IY51	TIGD4_HUMAN	tigger transposable element derived 4	390					regulation of transcription, DNA-dependent	chromosome, centromeric region|nucleus	chromatin binding|DNA binding			ovary(1)	1	all_hematologic(180;0.093)					TCTGCATTTGTTATGTCACTT	0.428													29	94	---	---	---	---	PASS
GUCY1A3	2982	broad.mit.edu	37	4	156632156	156632156	+	Missense_Mutation	SNP	C	G	G			TCGA-21-1076-01A-02D-1521-08	TCGA-21-1076-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:156632156C>G	uc003iov.2	+	7	1375	c.839C>G	c.(838-840)TCG>TGG	p.S280W	GUCY1A3_uc003iou.2_Missense_Mutation_p.S280W|GUCY1A3_uc010iqc.2_Missense_Mutation_p.S280W|GUCY1A3_uc003iow.2_Missense_Mutation_p.S280W|GUCY1A3_uc010iqd.2_Missense_Mutation_p.S279W|GUCY1A3_uc003iox.2_Missense_Mutation_p.S280W|GUCY1A3_uc003ioz.2_Missense_Mutation_p.S45W|GUCY1A3_uc003ioy.2_Missense_Mutation_p.S280W|GUCY1A3_uc010iqe.2_Missense_Mutation_p.S45W|GUCY1A3_uc003ipa.2_Intron|GUCY1A3_uc003ipb.2_Missense_Mutation_p.S280W	NM_000856	NP_000847	Q02108	GCYA3_HUMAN	guanylate cyclase 1, soluble, alpha 3 isoform A	280					blood circulation|intracellular signal transduction|nitric oxide mediated signal transduction|platelet activation	guanylate cyclase complex, soluble	GTP binding|guanylate cyclase activity|heme binding|receptor activity			central_nervous_system(2)|ovary(1)|skin(1)	4	all_hematologic(180;0.24)	Renal(120;0.0854)		COAD - Colon adenocarcinoma(41;0.17)		ATTCCCACATCGCTATTCTGC	0.463													19	78	---	---	---	---	PASS
WDR17	116966	broad.mit.edu	37	4	177081224	177081224	+	Missense_Mutation	SNP	G	T	T			TCGA-21-1076-01A-02D-1521-08	TCGA-21-1076-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:177081224G>T	uc003iuj.2	+	20	2833	c.2677G>T	c.(2677-2679)GTC>TTC	p.V893F	WDR17_uc003iuk.2_Missense_Mutation_p.V869F|WDR17_uc003ium.3_Missense_Mutation_p.V869F|WDR17_uc003iul.1_Intron|WDR17_uc003iun.2_Missense_Mutation_p.V112F	NM_170710	NP_733828	Q8IZU2	WDR17_HUMAN	WD repeat domain 17 isoform 1	893										ovary(2)|skin(2)|pancreas(1)|central_nervous_system(1)	6		Breast(14;0.00015)|Melanoma(52;0.00886)|Prostate(90;0.00996)|Renal(120;0.0183)|all_hematologic(60;0.107)|all_neural(102;0.164)		all cancers(43;2.21e-20)|Epithelial(43;9.71e-18)|OV - Ovarian serous cystadenocarcinoma(60;2.38e-09)|GBM - Glioblastoma multiforme(59;0.000295)|STAD - Stomach adenocarcinoma(60;0.000703)|LUSC - Lung squamous cell carcinoma(193;0.0232)		GAAAAAGCTAGTCCATTTTTT	0.398													19	49	---	---	---	---	PASS
PLEKHG4B	153478	broad.mit.edu	37	5	143200	143200	+	Missense_Mutation	SNP	G	A	A			TCGA-21-1076-01A-02D-1521-08	TCGA-21-1076-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:143200G>A	uc003jak.2	+	2	498	c.448G>A	c.(448-450)GGC>AGC	p.G150S		NM_052909	NP_443141	Q96PX9	PKH4B_HUMAN	pleckstrin homology domain containing, family G	150					regulation of Rho protein signal transduction	intracellular	Rho guanyl-nucleotide exchange factor activity			skin(2)	2			all cancers(22;0.0253)|Lung(60;0.113)	Kidney(1;0.119)		CACAGACGGCGGCAGCCTCCA	0.617													38	150	---	---	---	---	PASS
SLC6A18	348932	broad.mit.edu	37	5	1238097	1238097	+	Silent	SNP	G	T	T			TCGA-21-1076-01A-02D-1521-08	TCGA-21-1076-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:1238097G>T	uc003jby.1	+	5	777	c.654G>T	c.(652-654)CTG>CTT	p.L218L		NM_182632	NP_872438	Q96N87	S6A18_HUMAN	solute carrier family 6, member 18	218	Helical; Name=5; (Potential).				cellular nitrogen compound metabolic process	integral to plasma membrane	amino acid transmembrane transporter activity|neurotransmitter:sodium symporter activity			ovary(1)	1	all_cancers(3;2.99e-16)|Lung NSC(6;8.55e-15)|all_lung(6;7.2e-14)|all_epithelial(6;1.76e-10)		Epithelial(17;0.000356)|all cancers(22;0.00124)|OV - Ovarian serous cystadenocarcinoma(19;0.00239)|Lung(60;0.185)			TCCCTTACCTGGTCCTGACCA	0.488													17	84	---	---	---	---	PASS
ADAMTS16	170690	broad.mit.edu	37	5	5190155	5190155	+	Missense_Mutation	SNP	G	A	A			TCGA-21-1076-01A-02D-1521-08	TCGA-21-1076-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:5190155G>A	uc003jdl.2	+	7	1257	c.1119G>A	c.(1117-1119)ATG>ATA	p.M373I	ADAMTS16_uc003jdk.1_Missense_Mutation_p.M373I|ADAMTS16_uc003jdj.1_Missense_Mutation_p.M373I	NM_139056	NP_620687	Q8TE57	ATS16_HUMAN	ADAM metallopeptidase with thrombospondin type 1	373	Peptidase M12B.				proteolysis	proteinaceous extracellular matrix	metalloendopeptidase activity|zinc ion binding			ovary(3)|lung(2)|large_intestine(1)|breast(1)|pancreas(1)	8						CTGGATTGATGGGGAAAGATG	0.532													26	129	---	---	---	---	PASS
DNAH5	1767	broad.mit.edu	37	5	13885145	13885145	+	Missense_Mutation	SNP	T	A	A			TCGA-21-1076-01A-02D-1521-08	TCGA-21-1076-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:13885145T>A	uc003jfd.2	-	19	2978	c.2936A>T	c.(2935-2937)GAG>GTG	p.E979V		NM_001369	NP_001360	Q8TE73	DYH5_HUMAN	dynein, axonemal, heavy chain 5	979	Stem (By similarity).				microtubule-based movement	cilium axoneme|cytoplasm|microtubule	ATP binding|ATPase activity|microtubule motor activity			ovary(14)|skin(13)|upper_aerodigestive_tract(1)|central_nervous_system(1)|breast(1)|pancreas(1)	31	Lung NSC(4;0.00476)					GCGAATGGCCTCTAGTGTATT	0.428									Kartagener_syndrome				24	123	---	---	---	---	PASS
ADAMTS12	81792	broad.mit.edu	37	5	33662024	33662024	+	Missense_Mutation	SNP	G	T	T			TCGA-21-1076-01A-02D-1521-08	TCGA-21-1076-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:33662024G>T	uc003jia.1	-	6	1200	c.1037C>A	c.(1036-1038)ACC>AAC	p.T346N	ADAMTS12_uc010iuq.1_Missense_Mutation_p.T346N	NM_030955	NP_112217	P58397	ATS12_HUMAN	ADAM metallopeptidase with thrombospondin type 1	346	Peptidase M12B.				proteolysis	proteinaceous extracellular matrix	metalloendopeptidase activity|zinc ion binding			ovary(4)|skin(2)|upper_aerodigestive_tract(1)|lung(1)|kidney(1)	9						GGTGTACCTGGTGAGAAGGAC	0.498										HNSCC(64;0.19)			24	86	---	---	---	---	PASS
HEATR7B2	133558	broad.mit.edu	37	5	41061722	41061722	+	Missense_Mutation	SNP	G	T	T			TCGA-21-1076-01A-02D-1521-08	TCGA-21-1076-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:41061722G>T	uc003jmj.3	-	6	1055	c.565C>A	c.(565-567)CTG>ATG	p.L189M		NM_173489	NP_775760	Q7Z745	HTRB2_HUMAN	HEAT repeat family member 7B2	189							binding			ovary(6)|central_nervous_system(2)	8						TACCAGAACAGCATGAAGATC	0.493													30	247	---	---	---	---	PASS
SKIV2L2	23517	broad.mit.edu	37	5	54706346	54706346	+	Intron	SNP	T	C	C			TCGA-21-1076-01A-02D-1521-08	TCGA-21-1076-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:54706346T>C	uc003jpy.3	+						SKIV2L2_uc011cqi.1_Intron	NM_015360	NP_056175	P42285	SK2L2_HUMAN	superkiller viralicidic activity 2-like 2						maturation of 5.8S rRNA	catalytic step 2 spliceosome|nucleolus	ATP binding|ATP-dependent helicase activity|nucleic acid binding|protein binding			ovary(1)|skin(1)	2		Lung NSC(810;0.000744)|Breast(144;0.181)|Prostate(74;0.194)				TGTTTTGCCATTGTAGTGCTG	0.343													13	60	---	---	---	---	PASS
RGNEF	64283	broad.mit.edu	37	5	73163721	73163721	+	Missense_Mutation	SNP	C	T	T			TCGA-21-1076-01A-02D-1521-08	TCGA-21-1076-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:73163721C>T	uc011csq.1	+	18	2184	c.2173C>T	c.(2173-2175)CCA>TCA	p.P725S	RGNEF_uc003kcx.2_Missense_Mutation_p.P725S|RGNEF_uc010izf.2_Missense_Mutation_p.P725S|RGNEF_uc011csr.1_Missense_Mutation_p.P412S	NM_001080479	NP_001073948	Q8N1W1	RGNEF_HUMAN	Rho-guanine nucleotide exchange factor	725					cell differentiation|intracellular signal transduction|regulation of Rho protein signal transduction	cytoplasm|plasma membrane	metal ion binding|Rho guanyl-nucleotide exchange factor activity|RNA binding				0		Lung NSC(167;0.0378)|all_lung(232;0.04)|Ovarian(174;0.0798)		OV - Ovarian serous cystadenocarcinoma(47;1.25e-51)		TAGAGACATCCCACAGCCTGG	0.478													8	55	---	---	---	---	PASS
OTP	23440	broad.mit.edu	37	5	76932928	76932928	+	Silent	SNP	G	T	T			TCGA-21-1076-01A-02D-1521-08	TCGA-21-1076-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:76932928G>T	uc003kfg.2	-	2	313	c.165C>A	c.(163-165)GCC>GCA	p.A55A		NM_032109	NP_115485	Q5XKR4	OTP_HUMAN	orthopedia homeobox	55						nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity			pancreas(1)	1		all_lung(232;0.00051)|Lung NSC(167;0.000601)|Ovarian(174;0.0105)|Prostate(461;0.214)		OV - Ovarian serous cystadenocarcinoma(54;9.04e-51)|Epithelial(54;1.62e-45)|all cancers(79;4.4e-41)		GCAGCAGAGTGGCTCCCTCCA	0.731													6	16	---	---	---	---	PASS
RASA1	5921	broad.mit.edu	37	5	86674274	86674274	+	Missense_Mutation	SNP	G	A	A			TCGA-21-1076-01A-02D-1521-08	TCGA-21-1076-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:86674274G>A	uc003kiw.2	+	18	2524	c.2406G>A	c.(2404-2406)ATG>ATA	p.M802I	RASA1_uc010jav.2_RNA|RASA1_uc003kix.2_Missense_Mutation_p.M625I|RASA1_uc011ctv.1_Missense_Mutation_p.M635I|RASA1_uc011ctw.1_Missense_Mutation_p.M636I|RASA1_uc010jaw.2_Missense_Mutation_p.M624I	NM_002890	NP_002881	P20936	RASA1_HUMAN	RAS p21 protein activator 1 isoform 1	802	Ras-GAP.				cytokinesis|embryo development|intracellular signal transduction|negative regulation of cell-matrix adhesion|negative regulation of neuron apoptosis|negative regulation of Ras protein signal transduction|positive regulation of anti-apoptosis|regulation of actin filament polymerization|regulation of cell shape|regulation of RNA metabolic process|vasculogenesis	cytosol|intrinsic to internal side of plasma membrane	glycoprotein binding|GTPase binding|potassium channel inhibitor activity|Ras GTPase activator activity|receptor binding			upper_aerodigestive_tract(3)|ovary(1)|lung(1)	5		all_cancers(142;8.25e-07)|Lung NSC(167;0.000185)|all_lung(232;0.000222)|Colorectal(57;0.00542)|Ovarian(174;0.0423)		OV - Ovarian serous cystadenocarcinoma(54;4.72e-41)|Epithelial(54;1.51e-36)|all cancers(79;3.76e-31)		AGCAGTATATGAAAGCCACTG	0.353													14	55	---	---	---	---	PASS
GPR98	84059	broad.mit.edu	37	5	89953848	89953848	+	Missense_Mutation	SNP	C	T	T			TCGA-21-1076-01A-02D-1521-08	TCGA-21-1076-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:89953848C>T	uc003kju.2	+	21	4601	c.4505C>T	c.(4504-4506)CCC>CTC	p.P1502L	GPR98_uc003kjt.2_5'UTR	NM_032119	NP_115495	Q8WXG9	GPR98_HUMAN	G protein-coupled receptor 98 precursor	1502	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)		CATGCCATGCCCGCAAAAAGT	0.413													16	75	---	---	---	---	PASS
ST8SIA4	7903	broad.mit.edu	37	5	100191798	100191798	+	Intron	SNP	G	T	T			TCGA-21-1076-01A-02D-1521-08	TCGA-21-1076-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:100191798G>T	uc003knk.2	-							NM_005668	NP_005659	Q92187	SIA8D_HUMAN	ST8 alpha-N-acetyl-neuraminide						axon guidance|N-glycan processing	integral to Golgi membrane	alpha-N-acetylneuraminate alpha-2,8-sialyltransferase activity			large_intestine(1)|central_nervous_system(1)	2		all_cancers(142;1.5e-07)|all_epithelial(76;1.43e-10)|Prostate(80;0.000644)|Lung NSC(167;0.0059)|all_lung(232;0.00914)|Ovarian(225;0.024)|Colorectal(57;0.09)|Breast(839;0.203)		COAD - Colon adenocarcinoma(37;0.00402)		GTCCTTTCCAGTCACTTACCC	0.393													7	51	---	---	---	---	PASS
PCDHA7	56141	broad.mit.edu	37	5	140216232	140216232	+	Missense_Mutation	SNP	G	A	A			TCGA-21-1076-01A-02D-1521-08	TCGA-21-1076-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:140216232G>A	uc003lhq.2	+	1	2264	c.2264G>A	c.(2263-2265)CGG>CAG	p.R755Q	PCDHA1_uc003lha.2_Intron|PCDHA1_uc003lhb.2_Intron|PCDHA2_uc003lhd.2_Intron|PCDHA3_uc003lhf.2_Intron|PCDHA4_uc003lhi.2_Intron|PCDHA4_uc003lhh.1_Intron|PCDHA5_uc003lhk.1_Intron|PCDHA5_uc003lhl.2_Intron|PCDHA6_uc003lhn.2_Intron|PCDHA6_uc003lho.2_Intron|PCDHA7_uc011dac.1_Missense_Mutation_p.R755Q	NM_018910	NP_061733	Q9UN72	PCDA7_HUMAN	protocadherin alpha 7 isoform 1 precursor	755	Cytoplasmic (Potential).				homophilic cell adhesion|nervous system development	integral to plasma membrane	calcium ion binding|protein binding			ovary(2)|skin(2)	4			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			CAGCAGAGGCGGCAGAGGGTG	0.617													10	50	---	---	---	---	PASS
EBF1	1879	broad.mit.edu	37	5	158141190	158141190	+	Nonsense_Mutation	SNP	C	A	A			TCGA-21-1076-01A-02D-1521-08	TCGA-21-1076-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:158141190C>A	uc010jip.2	-	12	1428	c.1126G>T	c.(1126-1128)GAA>TAA	p.E376*	EBF1_uc011ddw.1_Nonsense_Mutation_p.E244*|EBF1_uc011ddx.1_Nonsense_Mutation_p.E377*|EBF1_uc003lxl.3_Nonsense_Mutation_p.E345*	NM_024007	NP_076870	Q9UH73	COE1_HUMAN	early B-cell factor	376					multicellular organismal development	nucleus	DNA binding|metal ion binding		HMGA2/EBF1(2)	soft_tissue(2)|ovary(1)|central_nervous_system(1)|pancreas(1)	5	Renal(175;0.00196)	Acute lymphoblastic leukemia(3;2.99e-06)|all_hematologic(3;0.000772)|Medulloblastoma(196;0.037)|all_neural(177;0.143)	Kidney(164;7.83e-05)|KIRC - Kidney renal clear cell carcinoma(164;0.000525)			AGTATTACTTCCTGTCAAGAG	0.488			T	HMGA2	lipoma								28	122	---	---	---	---	PASS
ATP10B	23120	broad.mit.edu	37	5	160031014	160031014	+	Silent	SNP	A	T	T			TCGA-21-1076-01A-02D-1521-08	TCGA-21-1076-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:160031014A>T	uc003lym.1	-	20	4042	c.3195T>A	c.(3193-3195)GCT>GCA	p.A1065A	ATP10B_uc010jit.1_Silent_p.A382A	NM_025153	NP_079429	O94823	AT10B_HUMAN	ATPase, class V, type 10B	1065	Cytoplasmic (Potential).				ATP biosynthetic process	integral to membrane	ATP binding|ATPase activity, coupled to transmembrane movement of ions, phosphorylative mechanism|magnesium ion binding|phospholipid-translocating ATPase activity			ovary(3)|central_nervous_system(1)|pancreas(1)	5	Renal(175;0.00196)	Medulloblastoma(196;0.0377)|all_neural(177;0.121)	Kidney(164;7.83e-05)|KIRC - Kidney renal clear cell carcinoma(164;0.000525)			CAATATCAGCAGCTTGAATCA	0.403													14	72	---	---	---	---	PASS
LMAN2	10960	broad.mit.edu	37	5	176759097	176759097	+	Missense_Mutation	SNP	C	A	A			TCGA-21-1076-01A-02D-1521-08	TCGA-21-1076-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:176759097C>A	uc003mge.2	-	8	1298	c.1061G>T	c.(1060-1062)CGC>CTC	p.R354L	LMAN2_uc003mgd.2_3'UTR	NM_006816	NP_006807	Q12907	LMAN2_HUMAN	lectin, mannose-binding 2 precursor	354	Cytoplasmic (Potential).				protein transport	endoplasmic reticulum membrane|ER-Golgi intermediate compartment membrane|Golgi membrane|integral to membrane	metal ion binding|sugar binding				0	all_cancers(89;2.04e-05)|Renal(175;0.000269)|Lung NSC(126;0.000832)|all_lung(126;0.00152)	all_neural(177;0.00802)|Medulloblastoma(196;0.0145)|all_hematologic(541;0.248)	Kidney(164;2.23e-05)|KIRC - Kidney renal clear cell carcinoma(164;0.000178)			TCAGTAGAAGCGCTTGTTCCG	0.597													5	29	---	---	---	---	PASS
SIRT5	23408	broad.mit.edu	37	6	13592056	13592056	+	Silent	SNP	C	T	T			TCGA-21-1076-01A-02D-1521-08	TCGA-21-1076-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:13592056C>T	uc003nay.2	+	5	701	c.405C>T	c.(403-405)GTC>GTT	p.V135V	SIRT5_uc003naw.2_Silent_p.V135V|SIRT5_uc003nax.2_Silent_p.V27V|SIRT5_uc011dit.1_Silent_p.V135V	NM_012241	NP_036373	Q9NXA8	SIRT5_HUMAN	sirtuin 5 isoform 1	135	Deacetylase sirtuin-type.				chromatin silencing|protein ADP-ribosylation|protein deacetylation	mitochondrial intermembrane space|mitochondrial matrix	hydrolase activity, acting on carbon-nitrogen (but not peptide) bonds, in linear amides|NAD+ ADP-ribosyltransferase activity|NAD+ binding|zinc ion binding			skin(2)|upper_aerodigestive_tract(1)	3	Breast(50;0.00669)|Ovarian(93;0.0634)	all_hematologic(90;0.117)	Epithelial(50;0.176)		Suramin(DB04786)	GCCGGCGAGTCGTGGTCATCA	0.647													12	35	---	---	---	---	PASS
HIST1H3A	8350	broad.mit.edu	37	6	26020744	26020744	+	Silent	SNP	G	T	T	rs140398034	byFrequency	TCGA-21-1076-01A-02D-1521-08	TCGA-21-1076-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:26020744G>T	uc003nfp.1	+	1	27	c.27G>T	c.(25-27)CGG>CGT	p.R9R	HIST1H1A_uc003nfo.2_5'Flank|HIST1H4A_uc003nfq.2_5'Flank	NM_003529	NP_003520	P68431	H31_HUMAN	histone cluster 1, H3a	9					blood coagulation|nucleosome assembly|regulation of gene silencing|S phase	nucleoplasm|nucleosome	DNA binding|protein binding			ovary(1)|pancreas(1)	2						AAACTGCTCGGAAGTCTACTG	0.572													9	46	---	---	---	---	PASS
GABBR1	2550	broad.mit.edu	37	6	29574954	29574954	+	Silent	SNP	G	A	A			TCGA-21-1076-01A-02D-1521-08	TCGA-21-1076-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:29574954G>A	uc003nmt.3	-	17	2370	c.2034C>T	c.(2032-2034)TAC>TAT	p.Y678Y	GABBR1_uc003nmp.3_Silent_p.Y561Y|GABBR1_uc003nms.3_Silent_p.Y561Y|GABBR1_uc003nmu.3_Silent_p.Y616Y|GABBR1_uc011dlr.1_Silent_p.Y501Y	NM_001470	NP_001461	Q9UBS5	GABR1_HUMAN	gamma-aminobutyric acid (GABA) B receptor 1	678	Helical; Name=3; (Potential).				gamma-aminobutyric acid signaling pathway|negative regulation of adenylate cyclase activity|synaptic transmission	cell junction|extracellular region|integral to plasma membrane|postsynaptic membrane	G-protein coupled receptor activity|GABA-B receptor activity			ovary(5)|liver(1)|skin(1)	7					Baclofen(DB00181)|Progabide(DB00837)	ACATGGAACCGTAGCCCAGAC	0.562													25	68	---	---	---	---	PASS
LEMD2	221496	broad.mit.edu	37	6	33756175	33756175	+	Missense_Mutation	SNP	T	A	A			TCGA-21-1076-01A-02D-1521-08	TCGA-21-1076-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:33756175T>A	uc011drm.1	-	1	732	c.719A>T	c.(718-720)CAG>CTG	p.Q240L	LEMD2_uc011drl.1_5'Flank|LEMD2_uc003ofe.2_Intron	NM_181336	NP_851853	Q8NC56	LEMD2_HUMAN	LEM domain containing 2 isoform 1	240						integral to nuclear inner membrane				central_nervous_system(1)	1						CTCCGCCTCCTGCGGCGCTGA	0.706													3	9	---	---	---	---	PASS
TREM1	54210	broad.mit.edu	37	6	41250247	41250247	+	Missense_Mutation	SNP	C	A	A			TCGA-21-1076-01A-02D-1521-08	TCGA-21-1076-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:41250247C>A	uc003oqf.1	-	2	356	c.292G>T	c.(292-294)GTC>TTC	p.V98F	TREM1_uc003oqg.1_Missense_Mutation_p.V98F	NM_018643	NP_061113	Q9NP99	TREM1_HUMAN	triggering receptor expressed on myeloid cells 1	98	Extracellular (Potential).|Ig-like V-type.				blood coagulation|humoral immune response|intracellular signal transduction|leukocyte migration	extracellular region|integral to membrane|intracellular|plasma membrane	receptor activity			breast(1)	1	Ovarian(28;0.0327)|Colorectal(47;0.196)				Glutathione(DB00143)	ACCATTCGGACGCGCAGTAAA	0.507													6	94	---	---	---	---	PASS
ENPP4	22875	broad.mit.edu	37	6	46111159	46111159	+	Missense_Mutation	SNP	C	G	G			TCGA-21-1076-01A-02D-1521-08	TCGA-21-1076-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:46111159C>G	uc003oxy.2	+	4	1403	c.1144C>G	c.(1144-1146)CCA>GCA	p.P382A		NM_014936	NP_055751	Q9Y6X5	ENPP4_HUMAN	ectonucleotide pyrophosphatase/phosphodiesterase	382	Extracellular (Potential).					integral to membrane	hydrolase activity			ovary(3)|skin(1)	4						GGGATTAAAACCACATCCCAA	0.438													12	196	---	---	---	---	PASS
CRISP1	167	broad.mit.edu	37	6	49806242	49806242	+	Intron	SNP	G	C	C			TCGA-21-1076-01A-02D-1521-08	TCGA-21-1076-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:49806242G>C	uc003ozw.2	-						CRISP1_uc003ozx.2_Intron	NM_001131	NP_001122	P54107	CRIS1_HUMAN	acidic epididymal glycoprotein-like 1 isoform 1						fusion of sperm to egg plasma membrane	extracellular space					0	Lung NSC(77;0.0358)					ATTTCCCCTTGAATAAAAAAA	0.333													9	92	---	---	---	---	PASS
PKHD1	5314	broad.mit.edu	37	6	51948026	51948026	+	Missense_Mutation	SNP	G	T	T			TCGA-21-1076-01A-02D-1521-08	TCGA-21-1076-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:51948026G>T	uc003pah.1	-	3	356	c.80C>A	c.(79-81)CCT>CAT	p.P27H	PKHD1_uc003pai.2_Missense_Mutation_p.P27H	NM_138694	NP_619639	P08F94	PKHD1_HUMAN	fibrocystin isoform 1	27	Extracellular (Potential).|IPT/TIG 1; atypical.				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)					ACCTTCTTCAGGTTCAATATG	0.393													28	57	---	---	---	---	PASS
EYS	346007	broad.mit.edu	37	6	66063359	66063359	+	Missense_Mutation	SNP	C	A	A			TCGA-21-1076-01A-02D-1521-08	TCGA-21-1076-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:66063359C>A	uc011dxu.1	-	9	1989	c.1451G>T	c.(1450-1452)GGA>GTA	p.G484V	EYS_uc003peq.2_Missense_Mutation_p.G484V|EYS_uc003per.1_Missense_Mutation_p.G484V	NM_001142800	NP_001136272	Q5T1H1	EYS_HUMAN	eyes shut homolog isoform 1	484					response to stimulus|visual perception	extracellular region	calcium ion binding			lung(4)|ovary(1)|skin(1)	6						ACCTGCAAATCCCAATTGCCA	0.338													9	55	---	---	---	---	PASS
DPPA5	340168	broad.mit.edu	37	6	74063882	74063882	+	Missense_Mutation	SNP	G	C	C			TCGA-21-1076-01A-02D-1521-08	TCGA-21-1076-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:74063882G>C	uc003pgs.1	-	1	72	c.67C>G	c.(67-69)CCA>GCA	p.P23A		NM_001025290	NP_001020461	A6NC42	DPPA5_HUMAN	developmental pluripotency associated 5	23	KH; atypical.				multicellular organismal development	cytoplasm	RNA binding				0						AACACCTCTGGATCTTTCAGG	0.607													10	93	---	---	---	---	PASS
TBX18	9096	broad.mit.edu	37	6	85446855	85446855	+	Missense_Mutation	SNP	C	A	A			TCGA-21-1076-01A-02D-1521-08	TCGA-21-1076-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:85446855C>A	uc003pkl.1	-	8	1372	c.1372G>T	c.(1372-1374)GTG>TTG	p.V458L	TBX18_uc010kbq.1_Intron	NM_001080508	NP_001073977	O95935	TBX18_HUMAN	T-box 18	458					multicellular organismal development	nucleus	DNA binding|sequence-specific DNA binding transcription factor activity			ovary(2)|pancreas(2)|lung(1)	5		all_cancers(76;0.000283)|Acute lymphoblastic leukemia(125;3.66e-08)|all_hematologic(105;8.61e-05)|all_epithelial(107;0.0858)		BRCA - Breast invasive adenocarcinoma(108;0.0267)		CTCACGCCCACATAGGAGGGA	0.587													22	115	---	---	---	---	PASS
SYNCRIP	10492	broad.mit.edu	37	6	86332363	86332363	+	Missense_Mutation	SNP	T	G	G			TCGA-21-1076-01A-02D-1521-08	TCGA-21-1076-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:86332363T>G	uc003pla.2	-	8	1386	c.845A>C	c.(844-846)AAG>ACG	p.K282T	SYNCRIP_uc003pku.2_Missense_Mutation_p.K282T|SYNCRIP_uc003pkw.2_Missense_Mutation_p.K282T|SYNCRIP_uc003pky.2_Missense_Mutation_p.K184T|SYNCRIP_uc003pkv.2_Missense_Mutation_p.K282T|SYNCRIP_uc003pkx.2_Missense_Mutation_p.K130T|SYNCRIP_uc003pkz.2_Missense_Mutation_p.K282T	NM_006372	NP_006363	O60506	HNRPQ_HUMAN	synaptotagmin binding, cytoplasmic RNA	282	RRM 2.				CRD-mediated mRNA stabilization|interspecies interaction between organisms	catalytic step 2 spliceosome|CRD-mediated mRNA stability complex|endoplasmic reticulum|histone pre-mRNA 3'end processing complex|microsome|nucleoplasm	nucleotide binding|protein binding			ovary(2)	2		all_cancers(76;0.000137)|Acute lymphoblastic leukemia(125;3.66e-08)|Prostate(29;8.2e-07)|all_hematologic(105;8.61e-05)|all_epithelial(107;0.0297)		BRCA - Breast invasive adenocarcinoma(108;0.0389)		GTTTTTTTTCTTGTCATCCGG	0.418													23	134	---	---	---	---	PASS
ZNF292	23036	broad.mit.edu	37	6	87964863	87964863	+	Missense_Mutation	SNP	G	T	T			TCGA-21-1076-01A-02D-1521-08	TCGA-21-1076-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:87964863G>T	uc003plm.3	+	8	1557	c.1516G>T	c.(1516-1518)GGC>TGC	p.G506C		NM_015021	NP_055836	O60281	ZN292_HUMAN	zinc finger protein 292	506					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(4)	4		all_cancers(76;3.82e-09)|Prostate(29;1.34e-10)|Acute lymphoblastic leukemia(125;2.17e-10)|all_hematologic(105;1.08e-06)|all_epithelial(107;5.31e-05)		BRCA - Breast invasive adenocarcinoma(108;0.0199)		TGCTAATTCTGGCCTTCTTAA	0.388													7	45	---	---	---	---	PASS
ORC3L	23595	broad.mit.edu	37	6	88311521	88311521	+	Silent	SNP	G	T	T			TCGA-21-1076-01A-02D-1521-08	TCGA-21-1076-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:88311521G>T	uc003pmh.2	+	3	143	c.99G>T	c.(97-99)GGG>GGT	p.G33G	ORC3L_uc011dzl.1_Silent_p.G33G|ORC3L_uc011dzm.1_Silent_p.G33G|ORC3L_uc011dzn.1_RNA|ORC3L_uc003pmg.2_Silent_p.G33G|ORC3L_uc003pmi.2_Silent_p.G33G|ORC3L_uc011dzo.1_Intron|ORC3L_uc011dzp.1_Intron	NM_012381	NP_036513	Q9UBD5	ORC3_HUMAN	origin recognition complex, subunit 3 isoform 2	33					cell cycle checkpoint|DNA replication|G1/S transition of mitotic cell cycle|M/G1 transition of mitotic cell cycle|S phase of mitotic cell cycle	nuclear origin of replication recognition complex|nucleoplasm	DNA replication origin binding|protein binding				0		all_cancers(76;9.05e-09)|Acute lymphoblastic leukemia(125;2.15e-10)|Prostate(29;5.29e-10)|all_hematologic(105;1.08e-06)|all_epithelial(107;0.000114)		BRCA - Breast invasive adenocarcinoma(108;0.0469)		TTAACAAAGGGAAAAATGAGC	0.303													6	31	---	---	---	---	PASS
GABRR2	2570	broad.mit.edu	37	6	89974189	89974189	+	Missense_Mutation	SNP	G	A	A	rs149245573	by1000genomes	TCGA-21-1076-01A-02D-1521-08	TCGA-21-1076-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:89974189G>A	uc003pnb.2	-	8	1111	c.1103C>T	c.(1102-1104)GCG>GTG	p.A368V	GABRR2_uc011dzx.1_Missense_Mutation_p.A244V	NM_002043	NP_002034	P28476	GBRR2_HUMAN	gamma-aminobutyric acid (GABA) receptor, rho 2	368	Helical; (Potential).				synaptic transmission	cell junction|chloride channel complex|integral to plasma membrane|postsynaptic membrane	chloride channel activity|extracellular ligand-gated ion channel activity|GABA-A receptor activity				0		all_cancers(76;1.67e-09)|Prostate(29;1.16e-10)|Acute lymphoblastic leukemia(125;1.49e-10)|all_hematologic(105;7.77e-07)|all_epithelial(107;2.51e-05)|Lung NSC(302;0.238)		BRCA - Breast invasive adenocarcinoma(108;0.0158)		GTTGACAGCCGCATACTCCAG	0.597													3	55	---	---	---	---	PASS
GABRR2	2570	broad.mit.edu	37	6	89974291	89974291	+	Missense_Mutation	SNP	G	T	T			TCGA-21-1076-01A-02D-1521-08	TCGA-21-1076-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:89974291G>T	uc003pnb.2	-	8	1009	c.1001C>A	c.(1000-1002)ACG>AAG	p.T334K	GABRR2_uc011dzx.1_Missense_Mutation_p.T210K	NM_002043	NP_002034	P28476	GBRR2_HUMAN	gamma-aminobutyric acid (GABA) receptor, rho 2	334	Helical; (Potential).				synaptic transmission	cell junction|chloride channel complex|integral to plasma membrane|postsynaptic membrane	chloride channel activity|extracellular ligand-gated ion channel activity|GABA-A receptor activity				0		all_cancers(76;1.67e-09)|Prostate(29;1.16e-10)|Acute lymphoblastic leukemia(125;1.49e-10)|all_hematologic(105;7.77e-07)|all_epithelial(107;2.51e-05)|Lung NSC(302;0.238)		BRCA - Breast invasive adenocarcinoma(108;0.0158)		ATTCACGCCCGTGATGATGGT	0.567													12	107	---	---	---	---	PASS
HACE1	57531	broad.mit.edu	37	6	105219949	105219949	+	Missense_Mutation	SNP	C	A	A			TCGA-21-1076-01A-02D-1521-08	TCGA-21-1076-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:105219949C>A	uc003pqu.1	-	18	2142	c.1865G>T	c.(1864-1866)GGA>GTA	p.G622V	HACE1_uc010kcy.1_Missense_Mutation_p.G104V|HACE1_uc010kcz.1_Intron|HACE1_uc010kcx.1_Missense_Mutation_p.G31V|HACE1_uc003pqt.1_Missense_Mutation_p.G275V	NM_020771	NP_065822	Q8IYU2	HACE1_HUMAN	HECT domain and ankyrin repeat containing, E3	622	HECT.				protein ubiquitination involved in ubiquitin-dependent protein catabolic process	endoplasmic reticulum	ubiquitin-protein ligase activity			ovary(5)|lung(2)	7		all_cancers(87;6.89e-05)|Acute lymphoblastic leukemia(125;1.9e-08)|all_hematologic(75;9.25e-07)|all_epithelial(87;0.0216)|Colorectal(196;0.202)		BRCA - Breast invasive adenocarcinoma(108;0.122)|Epithelial(106;0.204)		AAAAGTTGTTCCTATTGaaat	0.323													5	25	---	---	---	---	PASS
PRDM1	639	broad.mit.edu	37	6	106555118	106555118	+	Silent	SNP	G	T	T			TCGA-21-1076-01A-02D-1521-08	TCGA-21-1076-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:106555118G>T	uc003prd.2	+	7	2469	c.2235G>T	c.(2233-2235)GTG>GTT	p.V745V	PRDM1_uc003pre.2_Silent_p.V611V	NM_001198	NP_001189	O75626	PRDM1_HUMAN	PR domain containing 1, with ZNF domain isoform	745					negative regulation of transcription from RNA polymerase II promoter	cytoplasm|nucleus	DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			haematopoietic_and_lymphoid_tissue(54)|ovary(1)|skin(1)	56	Breast(9;0.022)	all_cancers(87;2.2e-31)|all_epithelial(87;2.03e-21)|Acute lymphoblastic leukemia(125;4.99e-11)|all_lung(197;7.55e-09)|all_hematologic(75;5.82e-08)|Lung NSC(302;1.28e-06)|Colorectal(196;0.0112)|Ovarian(999;0.0365)		all cancers(137;1.83e-46)|Epithelial(106;5.59e-35)|OV - Ovarian serous cystadenocarcinoma(136;1.99e-20)|GBM - Glioblastoma multiforme(226;3.72e-11)|BRCA - Breast invasive adenocarcinoma(108;1.38e-05)		TCGAGGACGTGGAGGATGACA	0.507			D|N|Mis|F|S		DLBCL								31	196	---	---	---	---	PASS
LACE1	246269	broad.mit.edu	37	6	108840991	108840991	+	Missense_Mutation	SNP	T	C	C			TCGA-21-1076-01A-02D-1521-08	TCGA-21-1076-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:108840991T>C	uc003psj.2	+	12	1481	c.1295T>C	c.(1294-1296)ATG>ACG	p.M432T		NM_145315	NP_660358	Q8WV93	LACE1_HUMAN	lactation elevated 1	432							ATP binding			central_nervous_system(1)	1		all_cancers(87;1.5e-07)|Acute lymphoblastic leukemia(125;2.66e-08)|all_hematologic(75;1.13e-06)|all_epithelial(87;6.79e-05)|Colorectal(196;0.0294)|all_lung(197;0.0486)|Lung SC(18;0.152)		BRCA - Breast invasive adenocarcinoma(108;0.00179)|Epithelial(106;0.0024)|all cancers(137;0.00379)|OV - Ovarian serous cystadenocarcinoma(136;0.0118)		AGAATACTGATGGATGATTTG	0.373													12	62	---	---	---	---	PASS
EYA4	2070	broad.mit.edu	37	6	133802602	133802602	+	Silent	SNP	A	T	T			TCGA-21-1076-01A-02D-1521-08	TCGA-21-1076-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:133802602A>T	uc003qec.3	+	12	1430	c.972A>T	c.(970-972)GGA>GGT	p.G324G	EYA4_uc011ecq.1_Silent_p.G270G|EYA4_uc011ecr.1_Silent_p.G276G|EYA4_uc003qed.3_Silent_p.G324G|EYA4_uc003qee.3_Silent_p.G301G|EYA4_uc011ecs.1_Silent_p.G330G|uc003qef.1_Intron	NM_004100	NP_004091	O95677	EYA4_HUMAN	eyes absent 4 isoform a	324					anatomical structure morphogenesis|chromatin modification|DNA repair|multicellular organismal development|regulation of transcription, DNA-dependent|transcription, DNA-dependent|visual perception	cytoplasm|nucleus	metal ion binding|protein tyrosine phosphatase activity			large_intestine(2)	2	Colorectal(23;0.221)			GBM - Glioblastoma multiforme(68;0.00457)|OV - Ovarian serous cystadenocarcinoma(155;0.0152)		TATCTATAGGAGAGTTCGATA	0.383													19	125	---	---	---	---	PASS
ALDH8A1	64577	broad.mit.edu	37	6	135271188	135271188	+	Missense_Mutation	SNP	C	A	A	rs141981819	by1000genomes	TCGA-21-1076-01A-02D-1521-08	TCGA-21-1076-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:135271188C>A	uc003qew.2	-	1	57	c.4G>T	c.(4-6)GCT>TCT	p.A2S	ALDH8A1_uc003qex.2_Missense_Mutation_p.A2S|ALDH8A1_uc010kgh.2_5'UTR|ALDH8A1_uc011ecx.1_Missense_Mutation_p.A2S	NM_022568	NP_072090	Q9H2A2	AL8A1_HUMAN	aldehyde dehydrogenase 8A1 isoform 1	2					retinal metabolic process	cytoplasm	retinal dehydrogenase activity			ovary(2)|pancreas(1)|skin(1)	4	Colorectal(23;0.221)			OV - Ovarian serous cystadenocarcinoma(155;0.00401)|GBM - Glioblastoma multiforme(68;0.0058)		TTTGTTCCAGCCATAGCAAGG	0.468													10	93	---	---	---	---	PASS
ALDH8A1	64577	broad.mit.edu	37	6	135271189	135271189	+	Missense_Mutation	SNP	C	A	A			TCGA-21-1076-01A-02D-1521-08	TCGA-21-1076-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:135271189C>A	uc003qew.2	-	1	56	c.3G>T	c.(1-3)ATG>ATT	p.M1I	ALDH8A1_uc003qex.2_Missense_Mutation_p.M1I|ALDH8A1_uc010kgh.2_5'UTR|ALDH8A1_uc011ecx.1_Missense_Mutation_p.M1I	NM_022568	NP_072090	Q9H2A2	AL8A1_HUMAN	aldehyde dehydrogenase 8A1 isoform 1	1					retinal metabolic process	cytoplasm	retinal dehydrogenase activity			ovary(2)|pancreas(1)|skin(1)	4	Colorectal(23;0.221)			OV - Ovarian serous cystadenocarcinoma(155;0.00401)|GBM - Glioblastoma multiforme(68;0.0058)		TTGTTCCAGCCATAGCAAGGA	0.473													10	94	---	---	---	---	PASS
IL22RA2	116379	broad.mit.edu	37	6	137466874	137466874	+	Nonsense_Mutation	SNP	C	A	A			TCGA-21-1076-01A-02D-1521-08	TCGA-21-1076-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:137466874C>A	uc003qhl.2	-	7	980	c.679G>T	c.(679-681)GAA>TAA	p.E227*	IL22RA2_uc003qhm.2_Nonsense_Mutation_p.E195*|IL22RA2_uc003qhn.2_3'UTR	NM_052962	NP_443194	Q969J5	I22R2_HUMAN	interleukin 22-binding protein isoform 1	227	Fibronectin type-III 3.				regulation of tyrosine phosphorylation of Stat3 protein	extracellular space	interleukin-22 receptor activity				0	Colorectal(23;0.24)			GBM - Glioblastoma multiforme(68;0.000313)|OV - Ovarian serous cystadenocarcinoma(155;0.00407)		GCTTCAATTTCAACCGCTCTG	0.428													17	66	---	---	---	---	PASS
UTRN	7402	broad.mit.edu	37	6	144794931	144794931	+	Missense_Mutation	SNP	G	A	A			TCGA-21-1076-01A-02D-1521-08	TCGA-21-1076-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:144794931G>A	uc003qkt.2	+	23	3234	c.3142G>A	c.(3142-3144)GAC>AAC	p.D1048N	UTRN_uc010khq.1_Missense_Mutation_p.D1048N	NM_007124	NP_009055	P46939	UTRO_HUMAN	utrophin	1048	Spectrin 7.				muscle contraction|muscle organ development|positive regulation of cell-matrix adhesion	cell junction|cytoplasm|cytoskeleton|membrane fraction|nucleus|postsynaptic membrane	actin binding|calcium ion binding|zinc ion binding			ovary(4)|pancreas(1)	5		Ovarian(120;0.218)		OV - Ovarian serous cystadenocarcinoma(155;5.72e-07)|GBM - Glioblastoma multiforme(68;4.9e-05)|Colorectal(48;0.213)		TGCCCAAGGAGACGACGCAGG	0.443													3	46	---	---	---	---	PASS
UTRN	7402	broad.mit.edu	37	6	145161969	145161969	+	Splice_Site	SNP	G	T	T	rs141700678		TCGA-21-1076-01A-02D-1521-08	TCGA-21-1076-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:145161969G>T	uc003qkt.2	+	72	10362	c.10270_splice	c.e72+1	p.P3424_splice		NM_007124	NP_009055	P46939	UTRO_HUMAN	utrophin						muscle contraction|muscle organ development|positive regulation of cell-matrix adhesion	cell junction|cytoplasm|cytoskeleton|membrane fraction|nucleus|postsynaptic membrane	actin binding|calcium ion binding|zinc ion binding			ovary(4)|pancreas(1)	5		Ovarian(120;0.218)		OV - Ovarian serous cystadenocarcinoma(155;5.72e-07)|GBM - Glioblastoma multiforme(68;4.9e-05)|Colorectal(48;0.213)		TCTTGCTGCCGTGAGTATGAA	0.542													10	80	---	---	---	---	PASS
ESR1	2099	broad.mit.edu	37	6	152415692	152415692	+	Silent	SNP	C	A	A			TCGA-21-1076-01A-02D-1521-08	TCGA-21-1076-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:152415692C>A	uc003qom.3	+	9	1912	c.1542C>A	c.(1540-1542)ATC>ATA	p.I514I	ESR1_uc010kin.2_Silent_p.I514I|ESR1_uc010kio.2_Silent_p.I516I|ESR1_uc010kip.2_Silent_p.I513I|ESR1_uc003qon.3_Silent_p.I514I|ESR1_uc003qoo.3_Silent_p.I514I|ESR1_uc010kiq.2_Silent_p.I112I|ESR1_uc010kir.2_Silent_p.I253I|ESR1_uc011eet.1_RNA|ESR1_uc011eeu.1_Intron|ESR1_uc011eev.1_Silent_p.I99I|ESR1_uc011eew.1_Missense_Mutation_p.Q91K|ESR1_uc010kis.2_Silent_p.I183I|ESR1_uc011eex.1_Intron|ESR1_uc011eey.1_Intron	NM_001122742	NP_001116214	P03372	ESR1_HUMAN	estrogen receptor alpha isoform 4	514	Steroid-binding.|Interaction with AKAP13.				positive regulation of retinoic acid receptor signaling pathway|regulation of transcription from RNA polymerase II promoter by nuclear hormone receptor|response to estradiol stimulus	chromatin remodeling complex|cytoplasm|nucleoplasm	beta-catenin binding|enzyme binding|estrogen receptor activity|estrogen response element binding|nitric-oxide synthase regulator activity|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|steroid binding|zinc ion binding			central_nervous_system(2)|ovary(1)|lung(1)|breast(1)	5		Ovarian(120;0.0448)	BRCA - Breast invasive adenocarcinoma(37;0.0841)	OV - Ovarian serous cystadenocarcinoma(155;4.55e-10)	Chlorotrianisene(DB00269)|Clomifene(DB00882)|Conjugated Estrogens(DB00286)|Danazol(DB01406)|Desogestrel(DB00304)|Dienestrol(DB00890)|Diethylstilbestrol(DB00255)|Dromostanolone(DB00858)|Drospirenone(DB01395)|Estradiol(DB00783)|Estramustine(DB01196)|Estriol(DB04573)|Estrone(DB00655)|Ethinyl Estradiol(DB00977)|Ethynodiol Diacetate(DB00823)|Etonogestrel(DB00294)|Fluoxymesterone(DB01185)|Fulvestrant(DB00947)|Letrozole(DB01006)|Levonorgestrel(DB00367)|Medroxyprogesterone(DB00603)|Megestrol(DB00351)|Melatonin(DB01065)|Mestranol(DB01357)|Naloxone(DB01183)|Norgestimate(DB00957)|Norgestrel(DB00506)|Progesterone(DB00396)|Quinestrol(DB04575)|Raloxifene(DB00481)|Tamoxifen(DB00675)|Toremifene(DB00539)	TCTCCCACATCAGGCACATGA	0.582													6	71	---	---	---	---	PASS
Unknown	0	broad.mit.edu	37	6	153603755	153603755	+	IGR	SNP	C	A	A			TCGA-21-1076-01A-02D-1521-08	TCGA-21-1076-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:153603755C>A								RGS17 (151366 upstream) : OPRM1 (727881 downstream)																							GGTGGTGATGCAGACCACCAG	0.572													28	190	---	---	---	---	PASS
UNC93A	54346	broad.mit.edu	37	6	167728874	167728874	+	Silent	SNP	G	A	A	rs147514798		TCGA-21-1076-01A-02D-1521-08	TCGA-21-1076-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:167728874G>A	uc003qvq.2	+	8	1483	c.1308G>A	c.(1306-1308)CCG>CCA	p.P436P	UNC93A_uc003qvr.2_Silent_p.P394P	NM_018974	NP_061847	Q86WB7	UN93A_HUMAN	unc-93 homolog A isoform 1	436						integral to membrane|plasma membrane					0		Breast(66;7.62e-05)|Ovarian(120;0.105)		OV - Ovarian serous cystadenocarcinoma(33;2.22e-20)|BRCA - Breast invasive adenocarcinoma(81;6.17e-07)|GBM - Glioblastoma multiforme(31;0.00492)		CCAAGAACCCGATCAGACCCC	0.532													47	371	---	---	---	---	PASS
FERD3L	222894	broad.mit.edu	37	7	19184779	19184779	+	Silent	SNP	C	A	A			TCGA-21-1076-01A-02D-1521-08	TCGA-21-1076-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:19184779C>A	uc003suo.1	-	1	266	c.207G>T	c.(205-207)GTG>GTT	p.V69V	uc003sun.1_RNA	NM_152898	NP_690862	Q96RJ6	FER3L_HUMAN	nephew of atonal 3	69					negative regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding			large_intestine(1)	1						ccccctggtccacttcgcact	0.373													5	38	---	---	---	---	PASS
Unknown	0	broad.mit.edu	37	7	38393494	38393494	+	Intron	SNP	C	A	A			TCGA-21-1076-01A-02D-1521-08	TCGA-21-1076-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:38393494C>A	uc003tgp.1	+											Homo sapiens cDNA FLJ43658 fis, clone SYNOV4004184.																		TGGGGCCTTCCCCTCCTGGTG	0.512													13	99	---	---	---	---	PASS
GRB10	2887	broad.mit.edu	37	7	50671727	50671727	+	Missense_Mutation	SNP	G	T	T			TCGA-21-1076-01A-02D-1521-08	TCGA-21-1076-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:50671727G>T	uc003tpi.2	-	14	1543	c.1512C>A	c.(1510-1512)CAC>CAA	p.H504Q	GRB10_uc003tph.3_Missense_Mutation_p.H446Q|GRB10_uc003tpj.2_Missense_Mutation_p.H458Q|GRB10_uc003tpk.2_Missense_Mutation_p.H504Q|GRB10_uc010kzb.2_Missense_Mutation_p.H446Q|GRB10_uc003tpl.2_Missense_Mutation_p.H498Q|GRB10_uc003tpm.2_Missense_Mutation_p.H446Q|GRB10_uc003tpn.2_Missense_Mutation_p.H446Q	NM_005311	NP_005302	Q13322	GRB10_HUMAN	growth factor receptor-bound protein 10 isoform	504	SH2.				insulin receptor signaling pathway|insulin receptor signaling pathway|negative regulation of glucose import|negative regulation of glycogen biosynthetic process|negative regulation of insulin receptor signaling pathway|negative regulation of Wnt receptor signaling pathway|positive regulation of phosphorylation|positive regulation of vascular endothelial growth factor receptor signaling pathway	cytosol|plasma membrane	insulin receptor binding|insulin receptor binding|SH3/SH2 adaptor activity			lung(3)|ovary(2)|upper_aerodigestive_tract(1)	6	Glioma(55;0.08)|all_neural(89;0.245)					TAATGATCCTGTGGGATTCCT	0.453									Russell-Silver_syndrome				19	257	---	---	---	---	PASS
POM121	9883	broad.mit.edu	37	7	72413633	72413633	+	Missense_Mutation	SNP	C	T	T	rs150818636	byFrequency	TCGA-21-1076-01A-02D-1521-08	TCGA-21-1076-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:72413633C>T	uc003twk.2	+	11	3101	c.3101C>T	c.(3100-3102)ACG>ATG	p.T1034M	POM121_uc003twj.2_Missense_Mutation_p.T769M|POM121_uc010lam.1_Missense_Mutation_p.T769M	NM_172020	NP_742017	Q96HA1	P121A_HUMAN	nuclear pore membrane protein 121	1034	Pore side (Potential).				carbohydrate metabolic process|glucose transport|mRNA transport|protein transport|regulation of glucose transport|transmembrane transport|viral reproduction	endoplasmic reticulum membrane|nuclear membrane|nuclear pore					0		Lung NSC(55;0.163)				GGCGGTGCCACGCACTCGGCG	0.652													13	182	---	---	---	---	PASS
TRIM50	135892	broad.mit.edu	37	7	72734219	72734219	+	Missense_Mutation	SNP	G	T	T			TCGA-21-1076-01A-02D-1521-08	TCGA-21-1076-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:72734219G>T	uc010lbd.1	-	3	547	c.422C>A	c.(421-423)TCT>TAT	p.S141Y	FKBP6_uc003twz.2_Intron|TRIM50_uc003txy.1_Missense_Mutation_p.S141Y|TRIM50_uc003txz.1_Missense_Mutation_p.S141Y	NM_178125	NP_835226	Q86XT4	TRI50_HUMAN	tripartite motif protein 50A	141	Potential.					cytoplasm|intracellular membrane-bounded organelle	ligase activity|zinc ion binding			skin(1)	1						CTTCAGCTCAGAGATGAGGGC	0.592													36	179	---	---	---	---	PASS
GRM3	2913	broad.mit.edu	37	7	86416062	86416062	+	Nonsense_Mutation	SNP	C	A	A			TCGA-21-1076-01A-02D-1521-08	TCGA-21-1076-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:86416062C>A	uc003uid.2	+	3	2053	c.954C>A	c.(952-954)TAC>TAA	p.Y318*	GRM3_uc010lef.2_Nonsense_Mutation_p.Y316*|GRM3_uc010leg.2_Nonsense_Mutation_p.Y190*|GRM3_uc010leh.2_Intron	NM_000840	NP_000831	Q14832	GRM3_HUMAN	glutamate receptor, metabotropic 3 precursor	318	Extracellular (Potential).				synaptic transmission	integral to plasma membrane				lung(4)|ovary(3)|central_nervous_system(2)|skin(2)|haematopoietic_and_lymphoid_tissue(1)|prostate(1)	13	Esophageal squamous(14;0.0058)|all_lung(186;0.132)|Lung NSC(181;0.142)				Acamprosate(DB00659)|Nicotine(DB00184)	ATGTGGCCTACGGCGCCATCA	0.667													9	44	---	---	---	---	PASS
DBF4	10926	broad.mit.edu	37	7	87536933	87536933	+	Missense_Mutation	SNP	G	T	T			TCGA-21-1076-01A-02D-1521-08	TCGA-21-1076-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:87536933G>T	uc003ujf.1	+	12	1984	c.1480G>T	c.(1480-1482)GAT>TAT	p.D494Y	DBF4_uc003ujh.1_Missense_Mutation_p.D234Y|DBF4_uc003ujg.1_Missense_Mutation_p.D270Y|DBF4_uc011khf.1_Missense_Mutation_p.D261Y	NM_006716	NP_006707	Q9UBU7	DBF4A_HUMAN	activator of S phase kinase	494					cell cycle checkpoint|DNA replication|G1/S transition of mitotic cell cycle|M/G1 transition of mitotic cell cycle	nucleoplasm	enzyme activator activity|nucleic acid binding|protein binding|zinc ion binding			lung(2)	2	Esophageal squamous(14;0.00202)	Breast(660;0.0334)				ACATGTTTCTGATTTCAGTAC	0.353													22	55	---	---	---	---	PASS
ZNF804B	219578	broad.mit.edu	37	7	88964364	88964364	+	Missense_Mutation	SNP	G	C	C			TCGA-21-1076-01A-02D-1521-08	TCGA-21-1076-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:88964364G>C	uc011khi.1	+	4	2606	c.2068G>C	c.(2068-2070)GGA>CGA	p.G690R		NM_181646	NP_857597	A4D1E1	Z804B_HUMAN	zinc finger protein 804B	690						intracellular	zinc ion binding			ovary(5)|skin(3)|pancreas(2)|upper_aerodigestive_tract(1)	11	all_hematologic(106;0.125)|Lung NSC(181;0.15)|all_lung(186;0.151)		STAD - Stomach adenocarcinoma(171;0.0513)			CAAGGTTTCCGGATGTGGAAA	0.453										HNSCC(36;0.09)			4	66	---	---	---	---	PASS
SAMD9	54809	broad.mit.edu	37	7	92733667	92733667	+	Missense_Mutation	SNP	T	C	C			TCGA-21-1076-01A-02D-1521-08	TCGA-21-1076-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:92733667T>C	uc003umf.2	-	3	2000	c.1744A>G	c.(1744-1746)ATA>GTA	p.I582V	SAMD9_uc003umg.2_Missense_Mutation_p.I582V	NM_017654	NP_060124	Q5K651	SAMD9_HUMAN	sterile alpha motif domain containing 9	582						cytoplasm				ovary(3)|skin(2)|breast(1)|central_nervous_system(1)	7	all_cancers(62;5.71e-11)|all_epithelial(64;3.25e-10)|Breast(17;0.000675)|Lung NSC(181;0.0969)|all_lung(186;0.125)		STAD - Stomach adenocarcinoma(171;0.000302)			CCCTGAAATATGTGTGGGTGC	0.383													12	122	---	---	---	---	PASS
BAIAP2L1	55971	broad.mit.edu	37	7	97935742	97935742	+	Intron	SNP	C	T	T			TCGA-21-1076-01A-02D-1521-08	TCGA-21-1076-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:97935742C>T	uc003upj.2	-						uc003upk.1_5'Flank	NM_018842	NP_061330	Q9UHR4	BI2L1_HUMAN	BAI1-associated protein 2-like 1						filopodium assembly|positive regulation of actin cytoskeleton reorganization|positive regulation of actin filament polymerization|response to bacterium|signal transduction	cell junction|cytoskeleton|cytosol|nucleus	actin binding|cytoskeletal adaptor activity|proline-rich region binding|SH3 domain binding			ovary(1)	1	all_cancers(62;4.34e-10)|all_epithelial(64;5e-10)|Esophageal squamous(72;0.00918)|Lung NSC(181;0.0113)|all_lung(186;0.0126)		STAD - Stomach adenocarcinoma(171;0.215)			CAGCCACGTTCAGGGCTACCT	0.577													17	140	---	---	---	---	PASS
MUC17	140453	broad.mit.edu	37	7	100679806	100679806	+	Silent	SNP	C	A	A			TCGA-21-1076-01A-02D-1521-08	TCGA-21-1076-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:100679806C>A	uc003uxp.1	+	3	5162	c.5109C>A	c.(5107-5109)GCC>GCA	p.A1703A	MUC17_uc010lho.1_RNA	NM_001040105	NP_001035194	Q685J3	MUC17_HUMAN	mucin 17 precursor	1703	Extracellular (Potential).|Ser-rich.|59 X approximate tandem repeats.|26.					extracellular region|integral to membrane|plasma membrane	extracellular matrix constituent, lubricant activity			ovary(14)|skin(8)|breast(3)|lung(2)	27	Lung NSC(181;0.136)|all_lung(186;0.182)					CACCGGTGGCCAGCTCTGCAA	0.478													104	279	---	---	---	---	PASS
RELN	5649	broad.mit.edu	37	7	103202279	103202279	+	Missense_Mutation	SNP	A	G	G			TCGA-21-1076-01A-02D-1521-08	TCGA-21-1076-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:103202279A>G	uc003vca.2	-	35	5492	c.5332T>C	c.(5332-5334)TGT>CGT	p.C1778R	RELN_uc010liz.2_Missense_Mutation_p.C1778R	NM_005045	NP_005036	P78509	RELN_HUMAN	reelin isoform a	1778	EGF-like 4.				axon guidance|cell adhesion|cerebral cortex tangential migration|glial cell differentiation|neuron migration|peptidyl-tyrosine phosphorylation|positive regulation of protein kinase activity|positive regulation of small GTPase mediated signal transduction|response to pain|spinal cord patterning	cytoplasm|dendrite|extracellular space|proteinaceous extracellular matrix	metal ion binding|protein serine/threonine/tyrosine kinase activity|serine-type peptidase activity			ovary(8)|upper_aerodigestive_tract(5)|large_intestine(2)|central_nervous_system(2)|skin(1)|pancreas(1)	19				COAD - Colon adenocarcinoma(1;8.98e-05)|Colorectal(1;0.00184)		CCAGCATCACAAATCCCTCGT	0.443													8	77	---	---	---	---	PASS
RINT1	60561	broad.mit.edu	37	7	105192040	105192040	+	Missense_Mutation	SNP	A	G	G			TCGA-21-1076-01A-02D-1521-08	TCGA-21-1076-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:105192040A>G	uc003vda.1	+	10	1588	c.1357A>G	c.(1357-1359)ATG>GTG	p.M453V	RINT1_uc010ljj.1_Missense_Mutation_p.M28V	NM_021930	NP_068749	Q6NUQ1	RINT1_HUMAN	RAD50 interactor 1	453	RINT1/TIP20.				cell cycle|G2/M transition DNA damage checkpoint|protein transport|vesicle-mediated transport	endoplasmic reticulum membrane	protein binding			ovary(3)|central_nervous_system(1)	4						AATGGACTCAATGCTTTCCTC	0.353													22	63	---	---	---	---	PASS
LAMB1	3912	broad.mit.edu	37	7	107600135	107600135	+	Splice_Site	SNP	C	T	T			TCGA-21-1076-01A-02D-1521-08	TCGA-21-1076-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:107600135C>T	uc003vew.2	-	19	2793	c.2458_splice	c.e19+1	p.P820_splice	LAMB1_uc003vev.2_Splice_Site_p.P844_splice|LAMB1_uc003vex.2_Missense_Mutation_p.R820H	NM_002291	NP_002282	P07942	LAMB1_HUMAN	laminin, beta 1 precursor						axon guidance|odontogenesis|positive regulation of cell migration|positive regulation of epithelial cell proliferation|substrate adhesion-dependent cell spreading	extracellular space|laminin-1 complex|laminin-10 complex|laminin-2 complex|laminin-8 complex|perinuclear region of cytoplasm	extracellular matrix structural constituent			ovary(4)|skin(2)|upper_aerodigestive_tract(1)|central_nervous_system(1)	8					Alteplase(DB00009)|Anistreplase(DB00029)|Reteplase(DB00015)|Tenecteplase(DB00031)	GAGGAACCTACGTTTGCATCC	0.527													10	95	---	---	---	---	PASS
PPP1R3A	5506	broad.mit.edu	37	7	113519426	113519426	+	Missense_Mutation	SNP	G	T	T			TCGA-21-1076-01A-02D-1521-08	TCGA-21-1076-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:113519426G>T	uc010ljy.1	-	4	1752	c.1721C>A	c.(1720-1722)ACC>AAC	p.T574N		NM_002711	NP_002702	Q16821	PPR3A_HUMAN	protein phosphatase 1, regulatory (inhibitor)	574					glycogen metabolic process	integral to membrane				lung(9)|ovary(9)|pancreas(7)|skin(6)|breast(2)|prostate(1)	34						GATTGCCCGGGTGGGGATTGC	0.478													45	137	---	---	---	---	PASS
TFEC	22797	broad.mit.edu	37	7	115596774	115596774	+	Missense_Mutation	SNP	G	A	A			TCGA-21-1076-01A-02D-1521-08	TCGA-21-1076-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:115596774G>A	uc003vhj.1	-	4	525	c.341C>T	c.(340-342)GCT>GTT	p.A114V	TFEC_uc003vhk.1_Missense_Mutation_p.A85V|TFEC_uc003vhl.3_Missense_Mutation_p.A85V|TFEC_uc011kmw.1_Missense_Mutation_p.A204V|TFEC_uc003vhm.1_RNA	NM_012252	NP_036384	O14948	TFEC_HUMAN	transcription factor EC isoform a	114	Necessary for transcriptional transactivation.					nucleus	DNA binding|sequence-specific DNA binding transcription factor activity|transcription coactivator activity|transcription corepressor activity			large_intestine(1)	1			STAD - Stomach adenocarcinoma(10;0.00878)			TGGACAAGAAGCACTTGTAAG	0.323													6	71	---	---	---	---	PASS
KCND2	3751	broad.mit.edu	37	7	119915193	119915193	+	Missense_Mutation	SNP	G	C	C			TCGA-21-1076-01A-02D-1521-08	TCGA-21-1076-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:119915193G>C	uc003vjj.1	+	1	1472	c.507G>C	c.(505-507)CAG>CAC	p.Q169H		NM_012281	NP_036413	Q9NZV8	KCND2_HUMAN	potassium voltage-gated channel, Shal-related	169	Cytoplasmic (Potential).				regulation of action potential|synaptic transmission	cell surface|dendritic spine	metal ion binding			ovary(2)|central_nervous_system(2)|skin(1)	5	all_neural(327;0.117)					CTGCAAGGCAGAGGGTCTGGA	0.612													26	98	---	---	---	---	PASS
SPAM1	6677	broad.mit.edu	37	7	123594517	123594517	+	Missense_Mutation	SNP	T	A	A			TCGA-21-1076-01A-02D-1521-08	TCGA-21-1076-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:123594517T>A	uc003vld.2	+	4	1295	c.893T>A	c.(892-894)CTT>CAT	p.L298H	SPAM1_uc003vle.2_Missense_Mutation_p.L298H|SPAM1_uc011koa.1_5'Flank|SPAM1_uc003vlf.3_Missense_Mutation_p.L298H|SPAM1_uc010lku.2_Missense_Mutation_p.L298H	NM_153189	NP_694859	P38567	HYALP_HUMAN	sperm adhesion molecule 1 isoform 2	298					binding of sperm to zona pellucida|carbohydrate metabolic process|cell adhesion|fusion of sperm to egg plasma membrane	anchored to membrane|plasma membrane	hyalurononglucosaminidase activity			ovary(3)|kidney(1)	4					Hyaluronidase(DB00070)	AAAAGTCCACTTCCGGTTTTT	0.413													14	72	---	---	---	---	PASS
PAX4	5078	broad.mit.edu	37	7	127251692	127251692	+	Silent	SNP	G	A	A			TCGA-21-1076-01A-02D-1521-08	TCGA-21-1076-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:127251692G>A	uc010lld.1	-	8	992	c.786C>T	c.(784-786)GCC>GCT	p.A262A	PAX4_uc003vmf.2_Silent_p.A260A|PAX4_uc003vmg.1_Silent_p.A262A	NM_006193	NP_006184	O43316	PAX4_HUMAN	paired box 4	270					cell differentiation|endocrine pancreas development|organ morphogenesis	nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity			ovary(1)	1						GTGGTTCCAGGGCAGGCAGGG	0.562													59	145	---	---	---	---	PASS
FLNC	2318	broad.mit.edu	37	7	128484996	128484996	+	Silent	SNP	G	T	T			TCGA-21-1076-01A-02D-1521-08	TCGA-21-1076-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:128484996G>T	uc003vnz.3	+	21	3686	c.3477G>T	c.(3475-3477)CGG>CGT	p.R1159R	FLNC_uc003voa.3_Silent_p.R1159R	NM_001458	NP_001449	Q14315	FLNC_HUMAN	gamma filamin isoform a	1159	Filamin 10.				cell junction assembly	cytoskeleton|cytosol|plasma membrane|sarcomere	actin binding			breast(5)|large_intestine(3)|ovary(2)|central_nervous_system(1)|skin(1)	12						GCAAGGTGCGGGCCAGTGGAC	0.632													12	95	---	---	---	---	PASS
FAM40B	57464	broad.mit.edu	37	7	129095154	129095154	+	Missense_Mutation	SNP	G	T	T			TCGA-21-1076-01A-02D-1521-08	TCGA-21-1076-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:129095154G>T	uc011koy.1	+	8	816	c.776G>T	c.(775-777)GGC>GTC	p.G259V	FAM40B_uc003vow.2_Missense_Mutation_p.G259V|FAM40B_uc011koz.1_5'Flank	NM_020704	NP_065755	Q9ULQ0	FA40B_HUMAN	hypothetical protein LOC57464 isoform a	259											0						TTCTGCAGTGGCCTGGCTCCT	0.512													36	187	---	---	---	---	PASS
CNOT4	4850	broad.mit.edu	37	7	135047693	135047693	+	Missense_Mutation	SNP	G	A	A			TCGA-21-1076-01A-02D-1521-08	TCGA-21-1076-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:135047693G>A	uc011kpy.1	-	11	2178	c.2086C>T	c.(2086-2088)CCC>TCC	p.P696S	CNOT4_uc003vss.2_Missense_Mutation_p.P622S|CNOT4_uc011kpz.1_Missense_Mutation_p.P693S|CNOT4_uc003vst.2_Missense_Mutation_p.P625S	NM_001008225	NP_001008226	O95628	CNOT4_HUMAN	CCR4-NOT transcription complex, subunit 4	365					nuclear-transcribed mRNA poly(A) tail shortening|protein autoubiquitination|regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytosol|nucleus	nucleotide binding|protein binding|RNA binding|ubiquitin-protein ligase activity|zinc ion binding				0						TTGCTGGGGGGTCTGAAGGCT	0.537													9	381	---	---	---	---	PASS
EZH2	2146	broad.mit.edu	37	7	148515074	148515074	+	Missense_Mutation	SNP	C	G	G	rs144316514		TCGA-21-1076-01A-02D-1521-08	TCGA-21-1076-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:148515074C>G	uc003wfd.1	-	10	1286	c.1120G>C	c.(1120-1122)GAA>CAA	p.E374Q	EZH2_uc011kug.1_Missense_Mutation_p.E365Q|EZH2_uc003wfb.1_Missense_Mutation_p.E379Q|EZH2_uc003wfc.1_Missense_Mutation_p.E335Q|EZH2_uc011kuh.1_Missense_Mutation_p.E365Q|EZH2_uc011kui.1_Missense_Mutation_p.E374Q|EZH2_uc011kuj.1_RNA	NM_004456	NP_004447	Q15910	EZH2_HUMAN	enhancer of zeste 2 isoform a	374					negative regulation of retinoic acid receptor signaling pathway|negative regulation of transcription, DNA-dependent|transcription, DNA-dependent	ESC/E(Z) complex	DNA binding|histone-lysine N-methyltransferase activity|protein binding	p.T374fs*3(1)		haematopoietic_and_lymphoid_tissue(180)|skin(2)|large_intestine(1)	183	Melanoma(164;0.15)		OV - Ovarian serous cystadenocarcinoma(82;0.00239)			TCCTTTGATTCCAGCACATTA	0.502			Mis		DLBCL								12	160	---	---	---	---	PASS
GIMAP8	155038	broad.mit.edu	37	7	150174540	150174540	+	Missense_Mutation	SNP	C	G	G	rs148200096	byFrequency	TCGA-21-1076-01A-02D-1521-08	TCGA-21-1076-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:150174540C>G	uc003whj.2	+	5	2000	c.1670C>G	c.(1669-1671)ACG>AGG	p.T557R		NM_175571	NP_783161	Q8ND71	GIMA8_HUMAN	GTPase, IMAP family member 8	557						endoplasmic reticulum|Golgi apparatus|mitochondrion	GTP binding			skin(3)|ovary(2)|breast(1)|central_nervous_system(1)	7			OV - Ovarian serous cystadenocarcinoma(82;0.0218)	UCEC - Uterine corpus endometrioid carcinoma (81;0.17)		GCAGACTTTACGAAATACGCG	0.498													33	116	---	---	---	---	PASS
NOS3	4846	broad.mit.edu	37	7	150696174	150696174	+	Splice_Site	SNP	G	T	T			TCGA-21-1076-01A-02D-1521-08	TCGA-21-1076-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:150696174G>T	uc003wif.2	+	8	1252	c.956_splice	c.e8+1	p.T319_splice	NOS3_uc011kuy.1_Splice_Site_p.T113_splice|NOS3_uc011kuz.1_Splice_Site_p.T319_splice|NOS3_uc011kva.1_Splice_Site_p.T319_splice|NOS3_uc011kvb.1_Splice_Site_p.T319_splice	NM_000603	NP_000594	P29474	NOS3_HUMAN	nitric oxide synthase 3 isoform 1						anti-apoptosis|arginine catabolic process|blood vessel remodeling|endothelial cell migration|mitochondrion organization|negative regulation of muscle hyperplasia|negative regulation of platelet activation|nitric oxide biosynthetic process|platelet activation|positive regulation of angiogenesis|positive regulation of guanylate cyclase activity|positive regulation of vasodilation|regulation of blood vessel size|regulation of nitric-oxide synthase activity|regulation of systemic arterial blood pressure by endothelin|response to fluid shear stress|response to heat|smooth muscle hyperplasia	caveola|cytoskeleton|cytosol|Golgi membrane	actin monomer binding|arginine binding|cadmium ion binding|calmodulin binding|flavin adenine dinucleotide binding|FMN binding|heme binding|NADP binding|nitric-oxide synthase activity|tetrahydrobiopterin binding			central_nervous_system(5)|large_intestine(2)|skin(1)	8	all_neural(206;0.219)		OV - Ovarian serous cystadenocarcinoma(82;0.0121)	UCEC - Uterine corpus endometrioid carcinoma (81;0.168)	L-Arginine(DB00125)|L-Citrulline(DB00155)|Rosuvastatin(DB01098)|Tetrahydrobiopterin(DB00360)	AGCACCCCACGTGAGCACCAA	0.652													81	252	---	---	---	---	PASS
GBX1	2636	broad.mit.edu	37	7	150864214	150864214	+	Missense_Mutation	SNP	C	A	A			TCGA-21-1076-01A-02D-1521-08	TCGA-21-1076-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:150864214C>A	uc011kvg.1	-	1	654	c.422G>T	c.(421-423)GGC>GTC	p.G141V		NM_001098834	NP_001092304	Q14549	GBX1_HUMAN	gastrulation brain homeo box 1	141	Pro-rich.					nuclear chromosome	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity				0			OV - Ovarian serous cystadenocarcinoma(82;0.00989)	UCEC - Uterine corpus endometrioid carcinoma (81;0.168)		TGGGCGTCGGCCGCCTGGCTC	0.562													8	38	---	---	---	---	PASS
WDR60	55112	broad.mit.edu	37	7	158738313	158738313	+	Missense_Mutation	SNP	G	C	C			TCGA-21-1076-01A-02D-1521-08	TCGA-21-1076-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:158738313G>C	uc003woe.3	+	25	3202	c.3044G>C	c.(3043-3045)GGT>GCT	p.G1015A	WDR60_uc010lqv.2_RNA|WDR60_uc010lqw.2_Missense_Mutation_p.G647A	NM_018051	NP_060521	Q8WVS4	WDR60_HUMAN	WD repeat domain 60	1015										ovary(2)|breast(1)|central_nervous_system(1)	4	Ovarian(565;0.152)	all_cancers(7;1.25e-09)|all_epithelial(9;0.000894)|all_hematologic(28;0.00603)	OV - Ovarian serous cystadenocarcinoma(82;0.00174)	UCEC - Uterine corpus endometrioid carcinoma (81;0.19)|STAD - Stomach adenocarcinoma(7;0.18)		GAGAAGGCTGGTGGCAGCTTC	0.657													5	11	---	---	---	---	PASS
MYOM2	9172	broad.mit.edu	37	8	2041864	2041864	+	Missense_Mutation	SNP	G	C	C			TCGA-21-1076-01A-02D-1521-08	TCGA-21-1076-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:2041864G>C	uc003wpx.3	+	17	2209	c.2071G>C	c.(2071-2073)GGG>CGG	p.G691R	MYOM2_uc011kwi.1_Missense_Mutation_p.G116R	NM_003970	NP_003961	P54296	MYOM2_HUMAN	myomesin 2	691	Fibronectin type-III 3.				muscle contraction	myosin filament	structural constituent of muscle			ovary(4)|central_nervous_system(1)|skin(1)	6		Ovarian(12;0.0572)|Colorectal(14;0.0844)|Hepatocellular(245;0.217)		BRCA - Breast invasive adenocarcinoma(11;1.85e-05)|Colorectal(4;0.0101)|READ - Rectum adenocarcinoma(4;0.148)|COAD - Colon adenocarcinoma(4;0.179)		CAATGCTGTGGGGATGAGTGA	0.532													15	87	---	---	---	---	PASS
ADAM18	8749	broad.mit.edu	37	8	39442156	39442156	+	Silent	SNP	C	A	A			TCGA-21-1076-01A-02D-1521-08	TCGA-21-1076-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:39442156C>A	uc003xni.2	+	1	15	c.15C>A	c.(13-15)CTC>CTA	p.L5L	ADAM18_uc003xnh.2_Silent_p.L5L|ADAM18_uc010lww.2_RNA|ADAM18_uc010lwx.2_Silent_p.L5L	NM_014237	NP_055052	Q9Y3Q7	ADA18_HUMAN	a disintegrin and metalloprotease domain 18	5					cell differentiation|multicellular organismal development|proteolysis|spermatogenesis	integral to membrane|membrane fraction	metalloendopeptidase activity|zinc ion binding			central_nervous_system(2)|upper_aerodigestive_tract(1)|ovary(1)|kidney(1)|skin(1)	6		all_cancers(7;1.32e-05)|all_epithelial(6;3.08e-10)|all_lung(54;0.00187)|Hepatocellular(245;0.00745)|Lung NSC(58;0.00769)|Breast(189;0.0112)	LUSC - Lung squamous cell carcinoma(45;0.000199)			TCCTTCTCCTCGCCCTCCTCA	0.607													14	135	---	---	---	---	PASS
ADAM2	2515	broad.mit.edu	37	8	39645623	39645623	+	Missense_Mutation	SNP	C	T	T			TCGA-21-1076-01A-02D-1521-08	TCGA-21-1076-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:39645623C>T	uc003xnj.2	-	9	865	c.790G>A	c.(790-792)GAT>AAT	p.D264N	ADAM2_uc003xnk.2_Missense_Mutation_p.D245N|ADAM2_uc011lck.1_Missense_Mutation_p.D264N|ADAM2_uc003xnl.2_Intron	NM_001464	NP_001455	Q99965	ADAM2_HUMAN	ADAM metallopeptidase domain 2 proprotein	264	Extracellular (Potential).|Peptidase M12B.				cell adhesion|fusion of sperm to egg plasma membrane|proteolysis	integral to plasma membrane	integrin binding|metalloendopeptidase activity|zinc ion binding			ovary(1)|lung(1)	2		all_cancers(7;2.38e-28)|all_epithelial(6;8.85e-21)|all_lung(54;1.24e-07)|Lung NSC(58;1.94e-07)|Hepatocellular(245;0.00745)|Breast(189;0.00908)|Renal(179;0.0183)|Colorectal(162;0.246)	LUSC - Lung squamous cell carcinoma(45;0.000149)	READ - Rectum adenocarcinoma(644;0.0689)|Kidney(114;0.162)		AATGCCACATCATGAGGACGT	0.294													9	85	---	---	---	---	PASS
SNAI2	6591	broad.mit.edu	37	8	49832952	49832952	+	Missense_Mutation	SNP	G	T	T			TCGA-21-1076-01A-02D-1521-08	TCGA-21-1076-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:49832952G>T	uc003xqp.2	-	2	292	c.128C>A	c.(127-129)CCA>CAA	p.P43Q		NM_003068	NP_003059	O43623	SNAI2_HUMAN	snail 2	43					canonical Wnt receptor signaling pathway|ectoderm and mesoderm interaction|multicellular organismal development|negative regulation of transcription from RNA polymerase II promoter|osteoblast differentiation|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(2)	2		all_cancers(86;0.0368)|all_epithelial(80;0.000624)|Lung NSC(129;0.0019)|all_lung(136;0.00502)				CTCTGGTTGTGGTATGACAGG	0.473													37	200	---	---	---	---	PASS
TOX	9760	broad.mit.edu	37	8	59750744	59750744	+	Missense_Mutation	SNP	C	T	T			TCGA-21-1076-01A-02D-1521-08	TCGA-21-1076-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:59750744C>T	uc003xtw.1	-	5	1041	c.820G>A	c.(820-822)GAT>AAT	p.D274N		NM_014729	NP_055544	O94900	TOX_HUMAN	thymus high mobility group box protein TOX	274	HMG box.					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)				GCCTGAGTATCACGAAAGAAT	0.458													20	73	---	---	---	---	PASS
CHD7	55636	broad.mit.edu	37	8	61707581	61707581	+	Silent	SNP	G	A	A			TCGA-21-1076-01A-02D-1521-08	TCGA-21-1076-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:61707581G>A	uc003xue.2	+	4	2610	c.2133G>A	c.(2131-2133)AAG>AAA	p.K711K		NM_017780	NP_060250	Q9P2D1	CHD7_HUMAN	chromodomain helicase DNA binding protein 7	711	Lys-rich.				central nervous system development|chromatin modification|cognition|cranial nerve development|face development|heart morphogenesis|in utero embryonic development|inner ear morphogenesis|nose development|palate development|regulation of growth hormone secretion|regulation of transcription, DNA-dependent|retina development in camera-type eye|skeletal system development|T cell differentiation|transcription, DNA-dependent	nucleus	ATP binding|chromatin binding|DNA binding|helicase activity	p.556_871dup(1)		ovary(4)|large_intestine(1)|central_nervous_system(1)|lung(1)|breast(1)|pancreas(1)	9		all_cancers(86;0.2)|all_lung(136;0.0402)|Lung NSC(129;0.0459)|all_epithelial(80;0.0477)	BRCA - Breast invasive adenocarcinoma(89;0.143)			GTGCTTTGAAGAAAAAGGTCA	0.398													8	76	---	---	---	---	PASS
MYBL1	4603	broad.mit.edu	37	8	67479191	67479191	+	Missense_Mutation	SNP	C	G	G			TCGA-21-1076-01A-02D-1521-08	TCGA-21-1076-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:67479191C>G	uc003xwj.2	-	13	2172	c.1765G>C	c.(1765-1767)GAA>CAA	p.E589Q	MYBL1_uc003xwl.2_Missense_Mutation_p.E589Q|MYBL1_uc003xwk.2_Missense_Mutation_p.E588Q	NM_001080416	NP_001073885	P10243	MYBA_HUMAN	v-myb myeloblastosis viral oncogene homolog	589					positive regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding			ovary(2)|pancreas(1)	3			Epithelial(68;0.00211)|all cancers(69;0.00726)|OV - Ovarian serous cystadenocarcinoma(28;0.00989)|BRCA - Breast invasive adenocarcinoma(89;0.0938)			TTTAAAACTTCCCGAATATCT	0.333													8	67	---	---	---	---	PASS
ZNF704	619279	broad.mit.edu	37	8	81555279	81555279	+	Missense_Mutation	SNP	A	C	C			TCGA-21-1076-01A-02D-1521-08	TCGA-21-1076-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:81555279A>C	uc003yby.1	-	8	1350	c.1118T>G	c.(1117-1119)GTC>GGC	p.V373G		NM_001033723	NP_001028895	Q6ZNC4	ZN704_HUMAN	zinc finger protein 704	373						intracellular	zinc ion binding				0	all_cancers(3;8.53e-08)|all_epithelial(4;4.59e-10)|Breast(3;2.56e-06)|Lung NSC(7;2.58e-06)|all_lung(9;9.4e-06)		BRCA - Breast invasive adenocarcinoma(6;0.00401)|Epithelial(68;0.00448)|all cancers(69;0.0277)			CCTTAAGCTGACTGTGCCTCT	0.512													9	71	---	---	---	---	PASS
LRP12	29967	broad.mit.edu	37	8	105507409	105507409	+	Missense_Mutation	SNP	C	T	T			TCGA-21-1076-01A-02D-1521-08	TCGA-21-1076-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:105507409C>T	uc003yma.2	-	6	1704	c.1609G>A	c.(1609-1611)GAA>AAA	p.E537K	LRP12_uc003ymb.2_Missense_Mutation_p.E518K|LRP12_uc003ylz.2_5'UTR	NM_013437	NP_038465	Q9Y561	LRP12_HUMAN	low density lipoprotein-related protein 12	537	Cytoplasmic (Potential).				endocytosis|regulation of growth	coated pit|integral to plasma membrane	low-density lipoprotein receptor activity|protein binding				0			OV - Ovarian serous cystadenocarcinoma(57;1.21e-06)|STAD - Stomach adenocarcinoma(118;0.229)			AATTCTGCTTCCACTCTTGAC	0.368													8	84	---	---	---	---	PASS
ZFPM2	23414	broad.mit.edu	37	8	106814000	106814000	+	Missense_Mutation	SNP	C	G	G			TCGA-21-1076-01A-02D-1521-08	TCGA-21-1076-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:106814000C>G	uc003ymd.2	+	8	1713	c.1690C>G	c.(1690-1692)CTA>GTA	p.L564V	ZFPM2_uc011lhs.1_Missense_Mutation_p.L295V	NM_012082	NP_036214	Q8WW38	FOG2_HUMAN	zinc finger protein, multitype 2	564	C2HC-type 2.				blood coagulation|negative regulation of fat cell differentiation|outflow tract septum morphogenesis|right ventricular cardiac muscle tissue morphogenesis|ventricular septum morphogenesis	nucleoplasm	DNA binding|RNA polymerase II transcription coactivator activity|transcription corepressor activity|transcription factor binding|zinc ion binding			ovary(4)|large_intestine(1)	5			OV - Ovarian serous cystadenocarcinoma(57;8.28e-08)			GGATAATTATCTAGTGCACAA	0.453													23	162	---	---	---	---	PASS
ZFPM2	23414	broad.mit.edu	37	8	106814360	106814360	+	Missense_Mutation	SNP	C	A	A			TCGA-21-1076-01A-02D-1521-08	TCGA-21-1076-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:106814360C>A	uc003ymd.2	+	8	2073	c.2050C>A	c.(2050-2052)CCA>ACA	p.P684T	ZFPM2_uc011lhs.1_Missense_Mutation_p.P415T	NM_012082	NP_036214	Q8WW38	FOG2_HUMAN	zinc finger protein, multitype 2	684					blood coagulation|negative regulation of fat cell differentiation|outflow tract septum morphogenesis|right ventricular cardiac muscle tissue morphogenesis|ventricular septum morphogenesis	nucleoplasm	DNA binding|RNA polymerase II transcription coactivator activity|transcription corepressor activity|transcription factor binding|zinc ion binding			ovary(4)|large_intestine(1)	5			OV - Ovarian serous cystadenocarcinoma(57;8.28e-08)			GGAAAGTGACCCAAATAAGAC	0.453													8	39	---	---	---	---	PASS
CSMD3	114788	broad.mit.edu	37	8	113301660	113301660	+	Silent	SNP	A	G	G			TCGA-21-1076-01A-02D-1521-08	TCGA-21-1076-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:113301660A>G	uc003ynu.2	-	57	9241	c.9082T>C	c.(9082-9084)TTA>CTA	p.L3028L	CSMD3_uc003yns.2_Silent_p.L2230L|CSMD3_uc003ynt.2_Silent_p.L2988L|CSMD3_uc011lhx.1_Silent_p.L2859L	NM_198123	NP_937756	Q7Z407	CSMD3_HUMAN	CUB and Sushi multiple domains 3 isoform 1	3028	Sushi 21.|Extracellular (Potential).					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						GACTGGCCTAAAAGGGAACGC	0.473										HNSCC(6;0.00088)|TCGA Ovarian(7;0.080)			27	125	---	---	---	---	PASS
ZHX2	22882	broad.mit.edu	37	8	123964389	123964389	+	Silent	SNP	A	G	G			TCGA-21-1076-01A-02D-1521-08	TCGA-21-1076-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:123964389A>G	uc003ypk.1	+	3	1206	c.639A>G	c.(637-639)GAA>GAG	p.E213E		NM_014943	NP_055758	Q9Y6X8	ZHX2_HUMAN	zinc fingers and homeoboxes 2	213	Required for homodimerization.					cytoplasm|nucleus|plasma membrane	protein binding|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(1)|skin(1)	2	Lung NSC(37;2e-09)|Ovarian(258;0.0205)|Hepatocellular(40;0.105)		STAD - Stomach adenocarcinoma(47;0.00527)			ACCACGTGGAAGGGACCGCCC	0.582													32	147	---	---	---	---	PASS
PTP4A3	11156	broad.mit.edu	37	8	142437157	142437157	+	Missense_Mutation	SNP	C	A	A			TCGA-21-1076-01A-02D-1521-08	TCGA-21-1076-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:142437157C>A	uc003ywg.1	+	3	651	c.317C>A	c.(316-318)GCG>GAG	p.A106E	PTP4A3_uc003ywh.1_Missense_Mutation_p.A106E|PTP4A3_uc010met.1_Intron	NM_032611	NP_116000	O75365	TP4A3_HUMAN	protein tyrosine phosphatase type IVA, member 3	106	Tyrosine-protein phosphatase.					early endosome|plasma membrane	identical protein binding|prenylated protein tyrosine phosphatase activity|protein tyrosine/serine/threonine phosphatase activity				0	all_cancers(97;2.55e-15)|all_epithelial(106;1.39e-13)|Lung NSC(106;2.07e-05)|all_lung(105;2.89e-05)|Ovarian(258;0.0303)|Acute lymphoblastic leukemia(118;0.155)		BRCA - Breast invasive adenocarcinoma(115;0.0474)			CACTGCGTGGCGGGCCTGGGC	0.677													30	123	---	---	---	---	PASS
KCNV2	169522	broad.mit.edu	37	9	2718960	2718960	+	Nonsense_Mutation	SNP	C	A	A			TCGA-21-1076-01A-02D-1521-08	TCGA-21-1076-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr9:2718960C>A	uc003zho.1	+	1	1435	c.1221C>A	c.(1219-1221)TGC>TGA	p.C407*		NM_133497	NP_598004	Q8TDN2	KCNV2_HUMAN	potassium channel, subfamily V, member 2	407	Cytoplasmic (Potential).					voltage-gated potassium channel complex	voltage-gated potassium channel activity			ovary(1)|central_nervous_system(1)	2				GBM - Glioblastoma multiforme(50;0.0257)		TGCGCCAGTGCTACCAGCAGG	0.622													17	47	---	---	---	---	PASS
ADAMTSL1	92949	broad.mit.edu	37	9	18474278	18474278	+	Silent	SNP	G	T	T			TCGA-21-1076-01A-02D-1521-08	TCGA-21-1076-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr9:18474278G>T	uc003zne.3	+	1	175	c.48G>T	c.(46-48)CTG>CTT	p.L16L	ADAMTSL1_uc003znb.2_Silent_p.L16L|ADAMTSL1_uc003znc.3_Silent_p.L16L	NM_001040272	NP_001035362	Q8N6G6	ATL1_HUMAN	ADAMTS-like 1 isoform 4 precursor	16						proteinaceous extracellular matrix	metallopeptidase activity|zinc ion binding			ovary(3)|upper_aerodigestive_tract(1)|lung(1)	5				GBM - Glioblastoma multiforme(50;1.29e-17)		TCCTCTTTCTGGCTTTCCTGC	0.443													14	124	---	---	---	---	PASS
ADAMTSL1	92949	broad.mit.edu	37	9	18776954	18776954	+	Silent	SNP	C	T	T			TCGA-21-1076-01A-02D-1521-08	TCGA-21-1076-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr9:18776954C>T	uc003zne.3	+	19	2854	c.2727C>T	c.(2725-2727)ATC>ATT	p.I909I		NM_001040272	NP_001035362	Q8N6G6	ATL1_HUMAN	ADAMTS-like 1 isoform 4 precursor	909	Ig-like C2-type 1.					proteinaceous extracellular matrix	metallopeptidase activity|zinc ion binding			ovary(3)|upper_aerodigestive_tract(1)|lung(1)	5				GBM - Glioblastoma multiforme(50;1.29e-17)		AGCCCCTCATCACCTGGGAGA	0.672													15	53	---	---	---	---	PASS
TLN1	7094	broad.mit.edu	37	9	35712073	35712073	+	Missense_Mutation	SNP	G	A	A			TCGA-21-1076-01A-02D-1521-08	TCGA-21-1076-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr9:35712073G>A	uc003zxt.2	-	28	3964	c.3610C>T	c.(3610-3612)CCT>TCT	p.P1204S		NM_006289	NP_006280	Q9Y490	TLN1_HUMAN	talin 1	1204					axon guidance|cell adhesion|cell-cell junction assembly|cellular component movement|cytoskeletal anchoring at plasma membrane|muscle contraction|platelet activation|platelet degranulation	actin cytoskeleton|centrosome|cytosol|extracellular region|focal adhesion|intracellular membrane-bounded organelle|ruffle membrane	actin binding|insulin receptor binding|LIM domain binding|structural constituent of cytoskeleton|vinculin binding			lung(7)|breast(3)|ovary(2)|central_nervous_system(1)	13	all_epithelial(49;0.167)		Lung(28;0.00276)|LUSC - Lung squamous cell carcinoma(32;0.00418)|STAD - Stomach adenocarcinoma(86;0.194)			CGCTGGCCAGGTAGGCAGCTG	0.582													8	35	---	---	---	---	PASS
FAM74A3	728495	broad.mit.edu	37	9	40716152	40716152	+	RNA	SNP	A	G	G			TCGA-21-1076-01A-02D-1521-08	TCGA-21-1076-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr9:40716152A>G	uc010mmk.2	+	1		c.629A>G				NR_026801				Homo sapiens family with sequence similarity 74, member A3 (FAM74A3), non-coding RNA.											skin(1)	1				GBM - Glioblastoma multiforme(29;0.02)|Lung(182;0.0681)		TGTCCCGGAGAAGACATGGAG	0.493													11	84	---	---	---	---	PASS
C9orf79	286234	broad.mit.edu	37	9	90499904	90499904	+	Missense_Mutation	SNP	C	A	A			TCGA-21-1076-01A-02D-1521-08	TCGA-21-1076-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr9:90499904C>A	uc004app.3	+	4	537	c.502C>A	c.(502-504)CCA>ACA	p.P168T	C9orf79_uc004apo.1_Intron	NM_178828	NP_849150	Q6ZUB1	CI079_HUMAN	chromosome 9 open reading frame 79	168	Pro-rich.					integral to membrane				ovary(3)	3						CGTGTGTAAACCAGTGCCTGC	0.637													22	114	---	---	---	---	PASS
C9orf79	286234	broad.mit.edu	37	9	90503319	90503319	+	Missense_Mutation	SNP	G	T	T			TCGA-21-1076-01A-02D-1521-08	TCGA-21-1076-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr9:90503319G>T	uc004app.3	+	4	3952	c.3917G>T	c.(3916-3918)AGG>ATG	p.R1306M		NM_178828	NP_849150	Q6ZUB1	CI079_HUMAN	chromosome 9 open reading frame 79	1306						integral to membrane				ovary(3)	3						GGCCCACCAAGGCAGTTTATG	0.587													12	54	---	---	---	---	PASS
ECM2	1842	broad.mit.edu	37	9	95274313	95274313	+	Missense_Mutation	SNP	T	C	C			TCGA-21-1076-01A-02D-1521-08	TCGA-21-1076-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr9:95274313T>C	uc004ash.2	-	5	1215	c.1150A>G	c.(1150-1152)ATA>GTA	p.I384V	CENPP_uc004arz.2_Intron|CENPP_uc010mqx.2_Intron|ECM2_uc004asf.3_Missense_Mutation_p.I362V|ECM2_uc011lty.1_Missense_Mutation_p.I384V|ECM2_uc004asg.2_Missense_Mutation_p.I362V	NM_001393	NP_001384	O94769	ECM2_HUMAN	extracellular matrix protein 2 precursor	384	LRR 1.				cell-matrix adhesion		integrin binding			ovary(1)|skin(1)	2						TTTGGACCTATGCCTGAAGAA	0.408													13	69	---	---	---	---	PASS
FGD3	89846	broad.mit.edu	37	9	95797812	95797812	+	Missense_Mutation	SNP	G	T	T			TCGA-21-1076-01A-02D-1521-08	TCGA-21-1076-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr9:95797812G>T	uc004asw.2	+	18	2747	c.2119G>T	c.(2119-2121)GCC>TCC	p.A707S	FGD3_uc004asx.2_Missense_Mutation_p.A706S|FGD3_uc004asz.2_Missense_Mutation_p.A707S|FGD3_uc011luc.1_Missense_Mutation_p.A310S	NM_001083536	NP_001077005	Q5JSP0	FGD3_HUMAN	FYVE, RhoGEF and PH domain containing 3	707					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|Golgi apparatus|lamellipodium|ruffle	metal ion binding|Rho guanyl-nucleotide exchange factor activity|small GTPase binding			ovary(1)|breast(1)	2						TGGGGACACGGCCCAGGACAG	0.662													14	62	---	---	---	---	PASS
CORO2A	7464	broad.mit.edu	37	9	100888860	100888860	+	Missense_Mutation	SNP	C	T	T			TCGA-21-1076-01A-02D-1521-08	TCGA-21-1076-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr9:100888860C>T	uc004ayl.2	-	11	1683	c.1417G>A	c.(1417-1419)GAA>AAA	p.E473K	CORO2A_uc004aym.2_Missense_Mutation_p.E473K|CORO2A_uc004ayk.2_Missense_Mutation_p.E120K	NM_003389	NP_003380	Q92828	COR2A_HUMAN	coronin, actin binding protein, 2A	473					actin cytoskeleton organization|intracellular signal transduction	actin cytoskeleton|transcriptional repressor complex	actin filament binding	p.E473D(1)		skin(2)|ovary(1)|pancreas(1)	4		Acute lymphoblastic leukemia(62;0.0559)				GGGGGGCATTCGAAAACGTCA	0.567													29	202	---	---	---	---	PASS
ZNF462	58499	broad.mit.edu	37	9	109690746	109690746	+	Missense_Mutation	SNP	G	T	T			TCGA-21-1076-01A-02D-1521-08	TCGA-21-1076-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr9:109690746G>T	uc004bcz.2	+	3	4842	c.4553G>T	c.(4552-4554)AGG>ATG	p.R1518M	ZNF462_uc010mto.2_Missense_Mutation_p.R1366M|ZNF462_uc004bda.2_Missense_Mutation_p.R1366M	NM_021224	NP_067047	Q96JM2	ZN462_HUMAN	zinc finger protein 462	1518	C2H2-type 13.				transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(5)	5						TACAAATGCAGGCATTGCCCA	0.542													14	56	---	---	---	---	PASS
AMBP	259	broad.mit.edu	37	9	116836319	116836319	+	Missense_Mutation	SNP	A	G	G			TCGA-21-1076-01A-02D-1521-08	TCGA-21-1076-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr9:116836319A>G	uc004bie.3	-	4	714	c.451T>C	c.(451-453)TAC>CAC	p.Y151H	AMBP_uc011lxk.1_Missense_Mutation_p.Y92H|AMBP_uc010mvc.1_RNA	NM_001633	NP_001624	P02760	AMBP_HUMAN	alpha-1-microglobulin/bikunin preproprotein	151					cell adhesion|female pregnancy|heme catabolic process|interspecies interaction between organisms|negative regulation of immune response|negative regulation of JNK cascade|protein-chromophore linkage	extracellular region|plasma membrane	calcium channel inhibitor activity|calcium oxalate binding|heme binding|IgA binding|protein homodimerization activity|serine-type endopeptidase inhibitor activity|transporter activity			skin(1)	1					Human Serum Albumin(DB00062)|Serum albumin iodonated(DB00064)	CCTTTACCGTAGAGCTTGGCA	0.473													7	78	---	---	---	---	PASS
TNC	3371	broad.mit.edu	37	9	117827163	117827163	+	Missense_Mutation	SNP	C	G	G			TCGA-21-1076-01A-02D-1521-08	TCGA-21-1076-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr9:117827163C>G	uc004bjj.3	-	11	3612	c.3250G>C	c.(3250-3252)GAG>CAG	p.E1084Q	TNC_uc010mvf.2_Missense_Mutation_p.E1084Q	NM_002160	NP_002151	P24821	TENA_HUMAN	tenascin C precursor	1084	Fibronectin type-III 6.				cell adhesion|response to wounding|signal transduction	extracellular space	receptor binding|syndecan binding			central_nervous_system(4)|upper_aerodigestive_tract(1)|ovary(1)|skin(1)	7						CAGCCAACCTCAGTCACGGTG	0.517													17	98	---	---	---	---	PASS
CERCAM	51148	broad.mit.edu	37	9	131191110	131191110	+	Missense_Mutation	SNP	G	A	A			TCGA-21-1076-01A-02D-1521-08	TCGA-21-1076-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr9:131191110G>A	uc004buz.3	+	7	1359	c.961G>A	c.(961-963)GAG>AAG	p.E321K	CERCAM_uc004buy.1_Missense_Mutation_p.E243K|CERCAM_uc010mxz.2_Missense_Mutation_p.E243K|CERCAM_uc010mya.1_Missense_Mutation_p.E162K	NM_016174	NP_057258	Q5T4B2	GT253_HUMAN	cerebral endothelial cell adhesion molecule 1	321					cellular component movement|leukocyte cell-cell adhesion|lipopolysaccharide biosynthetic process	endoplasmic reticulum lumen|plasma membrane				pancreas(1)	1						AGGGTTTGACGAGGTAAGTCC	0.637													10	64	---	---	---	---	PASS
FCN1	2219	broad.mit.edu	37	9	137809684	137809684	+	Missense_Mutation	SNP	G	A	A			TCGA-21-1076-01A-02D-1521-08	TCGA-21-1076-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr9:137809684G>A	uc004cfi.2	-	1	126	c.34C>T	c.(34-36)CTC>TTC	p.L12F		NM_002003	NP_001994	O00602	FCN1_HUMAN	ficolin 1 precursor	12					opsonization|signal transduction	collagen|extracellular space	antigen binding|calcium ion binding|receptor binding|sugar binding			large_intestine(1)|ovary(1)	2		Myeloproliferative disorder(178;0.0333)		OV - Ovarian serous cystadenocarcinoma(145;3.46e-08)|Epithelial(140;6.01e-08)|all cancers(34;3.69e-07)		AGGACAGCGAGCCCCCGGGCC	0.587													28	121	---	---	---	---	PASS
RBP3	5949	broad.mit.edu	37	10	48389526	48389526	+	Missense_Mutation	SNP	G	C	C			TCGA-21-1076-01A-02D-1521-08	TCGA-21-1076-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:48389526G>C	uc001jez.2	-	1	1466	c.1352C>G	c.(1351-1353)TCC>TGC	p.S451C		NM_002900	NP_002891	P10745	RET3_HUMAN	retinol-binding protein 3 precursor	451	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)	ACCCAGGACGGAGGCGTCAGC	0.622													5	40	---	---	---	---	PASS
PCDH15	65217	broad.mit.edu	37	10	55721612	55721612	+	Missense_Mutation	SNP	A	G	G			TCGA-21-1076-01A-02D-1521-08	TCGA-21-1076-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:55721612A>G	uc001jju.1	-	22	3304	c.2909T>C	c.(2908-2910)GTA>GCA	p.V970A	PCDH15_uc010qhq.1_Missense_Mutation_p.V975A|PCDH15_uc010qhr.1_Missense_Mutation_p.V970A|PCDH15_uc010qhs.1_Missense_Mutation_p.V982A|PCDH15_uc010qht.1_Missense_Mutation_p.V977A|PCDH15_uc010qhu.1_Missense_Mutation_p.V970A|PCDH15_uc001jjv.1_Intron|PCDH15_uc010qhv.1_Missense_Mutation_p.V970A|PCDH15_uc010qhw.1_Missense_Mutation_p.V933A|PCDH15_uc010qhx.1_Missense_Mutation_p.V899A|PCDH15_uc010qhy.1_Missense_Mutation_p.V975A|PCDH15_uc010qhz.1_Missense_Mutation_p.V970A|PCDH15_uc010qia.1_Missense_Mutation_p.V948A|PCDH15_uc010qib.1_Missense_Mutation_p.V948A	NM_033056	NP_149045	Q96QU1	PCD15_HUMAN	protocadherin 15 isoform CD1-4 precursor	970	Extracellular (Potential).|Cadherin 9.				equilibrioception|homophilic cell adhesion|photoreceptor cell maintenance|sensory perception of sound	extracellular region|extracellular space|integral to membrane|photoreceptor outer segment|plasma membrane|stereocilium|synapse	calcium ion binding			pancreas(5)|ovary(4)|upper_aerodigestive_tract(2)|skin(2)	13		Melanoma(3;0.117)|Lung SC(717;0.238)				AGGAAACTGTACATCATCTAC	0.328										HNSCC(58;0.16)			11	79	---	---	---	---	PASS
DDX50	79009	broad.mit.edu	37	10	70695820	70695820	+	Missense_Mutation	SNP	G	T	T			TCGA-21-1076-01A-02D-1521-08	TCGA-21-1076-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:70695820G>T	uc001jou.2	+	11	1687	c.1580G>T	c.(1579-1581)AGC>ATC	p.S527I	DDX50_uc010qjc.1_Missense_Mutation_p.S527I	NM_024045	NP_076950	Q9BQ39	DDX50_HUMAN	nucleolar protein GU2	527						nucleolus	ATP binding|ATP-dependent helicase activity|RNA binding	p.S527S(1)		ovary(1)	1						AAATCTAAAAGCATGGATGCC	0.328													4	47	---	---	---	---	PASS
SFTPA2	729238	broad.mit.edu	37	10	81317074	81317074	+	Missense_Mutation	SNP	C	A	A			TCGA-21-1076-01A-02D-1521-08	TCGA-21-1076-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:81317074C>A	uc001kal.3	-	6	735	c.638G>T	c.(637-639)CGA>CTA	p.R213L	SFTPA2_uc001kan.3_Missense_Mutation_p.R213L	NM_006926	NP_008857	Q8IWL1	SFPA2_HUMAN	RecName: Full=Pulmonary surfactant-associated protein A2;          Short=SP-A2;          Short=SP-A;          Short=PSP-A;          Short=PSPA; AltName: Full=Alveolar proteinosis protein; AltName: Full=35 kDa pulmonary surfactant-associated protein; Flags: Precursor;	213	C-type lectin.				cell junction assembly|respiratory gaseous exchange	collagen|extracellular space	sugar binding				0	all_cancers(46;0.197)|Breast(12;0.000326)|Prostate(51;0.00985)|all_epithelial(25;0.0149)		Epithelial(14;0.00957)|all cancers(16;0.0179)|Colorectal(32;0.229)			AGGCTCCCCTCGGTACCAGTT	0.547									Pulmonary_Fibrosis_Idiopathic				67	261	---	---	---	---	PASS
LRIT2	340745	broad.mit.edu	37	10	85981835	85981835	+	Silent	SNP	G	A	A	rs140185624	byFrequency	TCGA-21-1076-01A-02D-1521-08	TCGA-21-1076-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:85981835G>A	uc001kcy.2	-	3	1502	c.1494C>T	c.(1492-1494)CGC>CGT	p.R498R	LRIT2_uc010qmc.1_Silent_p.R508R	NM_001017924	NP_001017924	A6NDA9	LRIT2_HUMAN	leucine rich repeat containing 22 precursor	498						integral to membrane				ovary(2)	2						GAAGACAGCCGCGCAGGACCC	0.632													23	90	---	---	---	---	PASS
DPCD	25911	broad.mit.edu	37	10	103354462	103354462	+	Missense_Mutation	SNP	G	C	C			TCGA-21-1076-01A-02D-1521-08	TCGA-21-1076-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:103354462G>C	uc001ktn.2	+	2	117	c.112G>C	c.(112-114)GAA>CAA	p.E38Q		NM_015448	NP_056263	Q9BVM2	DPCD_HUMAN	DPCD protein	38							protein binding			skin(1)	1						GGAAATGGCTGAAGAATATGA	0.473													21	81	---	---	---	---	PASS
PNLIPRP1	5407	broad.mit.edu	37	10	118354352	118354352	+	Silent	SNP	G	T	T			TCGA-21-1076-01A-02D-1521-08	TCGA-21-1076-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:118354352G>T	uc001lco.1	+	5	459	c.441G>T	c.(439-441)GTG>GTT	p.V147V	PNLIPRP1_uc001lcp.2_Silent_p.V147V|PNLIPRP1_uc009xys.1_RNA	NM_006229	NP_006220	P54315	LIPR1_HUMAN	pancreatic lipase-related protein 1 precursor	147					lipid metabolic process		calcium ion binding|triglyceride lipase activity			ovary(1)|breast(1)	2				all cancers(201;0.0161)		GCGCCCAGGTGGCCCAGATGC	0.597													5	51	---	---	---	---	PASS
PNLIPRP1	5407	broad.mit.edu	37	10	118354353	118354353	+	Missense_Mutation	SNP	G	T	T			TCGA-21-1076-01A-02D-1521-08	TCGA-21-1076-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:118354353G>T	uc001lco.1	+	5	460	c.442G>T	c.(442-444)GCC>TCC	p.A148S	PNLIPRP1_uc001lcp.2_Missense_Mutation_p.A148S|PNLIPRP1_uc009xys.1_RNA	NM_006229	NP_006220	P54315	LIPR1_HUMAN	pancreatic lipase-related protein 1 precursor	148					lipid metabolic process		calcium ion binding|triglyceride lipase activity			ovary(1)|breast(1)	2				all cancers(201;0.0161)		CGCCCAGGTGGCCCAGATGCT	0.602													5	49	---	---	---	---	PASS
DPYSL4	10570	broad.mit.edu	37	10	134008372	134008372	+	Missense_Mutation	SNP	G	A	A			TCGA-21-1076-01A-02D-1521-08	TCGA-21-1076-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:134008372G>A	uc009ybb.2	+	4	491	c.337G>A	c.(337-339)GGT>AGT	p.G113S		NM_006426	NP_006417	O14531	DPYL4_HUMAN	dihydropyrimidinase-like 4	113					axon guidance|pyrimidine base catabolic process	cytosol	hydrolase activity, acting on carbon-nitrogen (but not peptide) bonds, in cyclic amides			central_nervous_system(2)	2		all_cancers(35;4.33e-08)|all_epithelial(44;6.75e-06)|Lung NSC(174;0.0108)|all_lung(145;0.0173)|all_neural(114;0.0726)|Glioma(114;0.172)|Melanoma(40;0.175)|Colorectal(31;0.19)		OV - Ovarian serous cystadenocarcinoma(35;7.21e-05)|Epithelial(32;8.01e-05)|all cancers(32;9.29e-05)|BRCA - Breast invasive adenocarcinoma(275;0.206)		CCCCGACACGGGTGTGAGCCT	0.657													19	80	---	---	---	---	PASS
MUC2	4583	broad.mit.edu	37	11	1098686	1098686	+	Silent	SNP	C	T	T	rs56034260	by1000genomes	TCGA-21-1076-01A-02D-1521-08	TCGA-21-1076-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:1098686C>T	uc001lsx.1	+	40	14169	c.14142C>T	c.(14140-14142)TAC>TAT	p.Y4714Y		NM_002457	NP_002448	Q02817	MUC2_HUMAN	mucin 2 precursor	4714						inner mucus layer|outer mucus layer	protein binding			lung(1)|breast(1)	2		all_cancers(49;1.08e-07)|all_epithelial(84;5.08e-05)|Breast(177;0.000307)|Ovarian(85;0.000953)|Medulloblastoma(188;0.0109)|all_neural(188;0.0299)|Lung NSC(207;0.191)		BRCA - Breast invasive adenocarcinoma(625;0.000207)|Lung(200;0.0576)|LUSC - Lung squamous cell carcinoma(625;0.0703)	Pranlukast(DB01411)	AGCACTACTACGATGCCTGCG	0.652													6	21	---	---	---	---	PASS
OR52I1	390037	broad.mit.edu	37	11	4615724	4615724	+	Silent	SNP	C	T	T			TCGA-21-1076-01A-02D-1521-08	TCGA-21-1076-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:4615724C>T	uc010qyi.1	+	1	456	c.456C>T	c.(454-456)GTC>GTT	p.V152V		NM_001005169	NP_001005169	Q8NGK6	O52I1_HUMAN	olfactory receptor, family 52, subfamily I,	152	Helical; Name=4; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)|central_nervous_system(1)	2		Medulloblastoma(188;0.0075)|Breast(177;0.0461)|all_neural(188;0.0577)		Epithelial(150;7.98e-12)|BRCA - Breast invasive adenocarcinoma(625;0.0284)|LUSC - Lung squamous cell carcinoma(625;0.19)		GTATGGCCGTCACCATCAGAG	0.483													37	86	---	---	---	---	PASS
OR52N5	390075	broad.mit.edu	37	11	5799488	5799488	+	Missense_Mutation	SNP	A	C	C			TCGA-21-1076-01A-02D-1521-08	TCGA-21-1076-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:5799488A>C	uc010qzn.1	-	1	377	c.377T>G	c.(376-378)CTC>CGC	p.L126R	TRIM5_uc001mbq.1_Intron|TRIM22_uc009yet.1_Intron	NM_001001922	NP_001001922	Q8NH56	O52N5_HUMAN	olfactory receptor, family 52, subfamily N,	126	Helical; Name=3; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			skin(2)	2		Medulloblastoma(188;0.0075)|all_neural(188;0.0577)|Breast(177;0.086)		Epithelial(150;3.05e-11)|LUSC - Lung squamous cell carcinoma(625;0.112)|BRCA - Breast invasive adenocarcinoma(625;0.135)|Lung(200;0.195)		TAGAGCCATGAGCATGAGCAC	0.488													9	78	---	---	---	---	PASS
TRAF6	7189	broad.mit.edu	37	11	36520129	36520129	+	Missense_Mutation	SNP	C	T	T			TCGA-21-1076-01A-02D-1521-08	TCGA-21-1076-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:36520129C>T	uc001mwr.1	-	4	698	c.358G>A	c.(358-360)GAC>AAC	p.D120N	TRAF6_uc001mws.1_Missense_Mutation_p.D120N	NM_145803	NP_665802	Q9Y4K3	TRAF6_HUMAN	TNF receptor-associated factor 6	120	Interaction with TAX1BP1.				activation of MAPK activity|activation of NF-kappaB-inducing kinase activity|anti-apoptosis|apoptosis|induction of apoptosis by extracellular signals|innate immune response|JNK cascade|membrane protein intracellular domain proteolysis|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|ossification|positive regulation of I-kappaB kinase/NF-kappaB cascade|positive regulation of interleukin-2 production|positive regulation of JUN kinase activity|positive regulation of NF-kappaB transcription factor activity|positive regulation of osteoclast differentiation|positive regulation of T cell cytokine production|protein autoubiquitination|protein K63-linked ubiquitination|response to interleukin-1|stress-activated MAPK cascade|T cell receptor signaling pathway|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	CD40 receptor complex|cell cortex|cytosol|endosome membrane|internal side of plasma membrane|nuclear membrane	histone deacetylase binding|mitogen-activated protein kinase kinase kinase binding|protein kinase B binding|protein N-terminus binding|ubiquitin-protein ligase activity|zinc ion binding			ovary(1)	1	all_lung(20;0.211)	all_hematologic(20;0.107)				GCAAAATTGTCTGGAAATAGT	0.353													18	56	---	---	---	---	PASS
NUP160	23279	broad.mit.edu	37	11	47834559	47834559	+	Silent	SNP	G	A	A			TCGA-21-1076-01A-02D-1521-08	TCGA-21-1076-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:47834559G>A	uc001ngm.2	-	15	1912	c.1827C>T	c.(1825-1827)TGC>TGT	p.C609C	NUP160_uc009ylw.2_RNA	NM_015231	NP_056046	Q12769	NU160_HUMAN	nucleoporin 160kDa	609					carbohydrate metabolic process|glucose transport|mitotic prometaphase|mRNA export from nucleus|protein transport|regulation of glucose transport|transmembrane transport|viral reproduction	cytosol|Nup107-160 complex	nucleocytoplasmic transporter activity|protein binding			ovary(4)|lung(1)|central_nervous_system(1)|skin(1)	7						TCAGCCGGAGGCATTTTATAA	0.378													9	71	---	---	---	---	PASS
PTPRJ	5795	broad.mit.edu	37	11	48149573	48149573	+	Silent	SNP	G	C	C			TCGA-21-1076-01A-02D-1521-08	TCGA-21-1076-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:48149573G>C	uc001ngp.3	+	7	1690	c.1335G>C	c.(1333-1335)CCG>CCC	p.P445P	PTPRJ_uc001ngo.3_Silent_p.P445P	NM_002843	NP_002834	Q12913	PTPRJ_HUMAN	protein tyrosine phosphatase, receptor type, J	445	Extracellular (Potential).|Fibronectin type-III 4.				contact inhibition|negative regulation of cell growth|negative regulation of cell migration|negative regulation of cell proliferation|negative regulation of epidermal growth factor receptor signaling pathway|negative regulation of MAP kinase activity|negative regulation of platelet-derived growth factor receptor signaling pathway|negative regulation of protein kinase B signaling cascade|negative regulation of T cell receptor signaling pathway|negative regulation of vascular permeability|platelet-derived growth factor receptor signaling pathway|positive chemotaxis|positive regulation of focal adhesion assembly|positive regulation of protein kinase B signaling cascade|positive regulation of survival gene product expression	cell surface|cell-cell junction|immunological synapse|integral to plasma membrane|ruffle membrane	beta-catenin binding|delta-catenin binding|gamma-catenin binding|mitogen-activated protein kinase binding|platelet-derived growth factor receptor binding|protein tyrosine phosphatase activity			breast(3)|kidney(3)|ovary(1)|skin(1)	8						AGGGCACGCCGGGCTTCCTCC	0.602													16	81	---	---	---	---	PASS
OR5I1	10798	broad.mit.edu	37	11	55702966	55702966	+	Missense_Mutation	SNP	T	C	C			TCGA-21-1076-01A-02D-1521-08	TCGA-21-1076-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:55702966T>C	uc010ris.1	-	1	911	c.911A>G	c.(910-912)GAG>GGG	p.E304G		NM_006637	NP_006628	Q13606	OR5I1_HUMAN	olfactory receptor, family 5, subfamily I,	304	Cytoplasmic (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)	1						TAGAACTTTCTCAGCTGCATC	0.333													7	33	---	---	---	---	PASS
OR5M1	390168	broad.mit.edu	37	11	56380541	56380541	+	Silent	SNP	A	G	G			TCGA-21-1076-01A-02D-1521-08	TCGA-21-1076-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:56380541A>G	uc001nja.1	-	1	438	c.438T>C	c.(436-438)ACT>ACC	p.T146T		NM_001004740	NP_001004740	Q8NGP8	OR5M1_HUMAN	olfactory receptor, family 5, subfamily M,	146	Helical; Name=4; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			central_nervous_system(1)	1						TGTAAGGGATAGTGACCAGAC	0.448													12	64	---	---	---	---	PASS
OR1S2	219958	broad.mit.edu	37	11	57971606	57971606	+	Silent	SNP	T	C	C			TCGA-21-1076-01A-02D-1521-08	TCGA-21-1076-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:57971606T>C	uc010rkb.1	-	1	48	c.48A>G	c.(46-48)CAA>CAG	p.Q16Q		NM_001004459	NP_001004459	Q8NGQ3	OR1S2_HUMAN	olfactory receptor, family 1, subfamily S,	16	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)	1		Breast(21;0.0589)				TTTGGTTTTCTTGATGCATAT	0.408													23	74	---	---	---	---	PASS
EFEMP2	30008	broad.mit.edu	37	11	65638668	65638668	+	Silent	SNP	G	A	A			TCGA-21-1076-01A-02D-1521-08	TCGA-21-1076-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:65638668G>A	uc001ofy.3	-	4	521	c.327C>T	c.(325-327)TGC>TGT	p.C109C	EFEMP2_uc001ofz.2_RNA|EFEMP2_uc001oga.2_Silent_p.C109C	NM_016938	NP_058634	O95967	FBLN4_HUMAN	EGF-containing fibulin-like extracellular matrix	109				AQHPNPCPP -> VNTQPLPT (in Ref. 2; AAC62108).	blood coagulation	basement membrane|membrane	calcium ion binding|extracellular matrix structural constituent|protein binding|transmembrane receptor activity			ovary(1)	1				READ - Rectum adenocarcinoma(159;0.169)		AGCCTGGTGGGCAGGGGTTGG	0.652													20	94	---	---	---	---	PASS
PAAF1	80227	broad.mit.edu	37	11	73598505	73598505	+	Intron	SNP	A	G	G			TCGA-21-1076-01A-02D-1521-08	TCGA-21-1076-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:73598505A>G	uc001ouk.1	+						PAAF1_uc001oul.1_Intron|PAAF1_uc009ytx.1_Intron|PAAF1_uc001oum.1_Intron	NM_025155	NP_079431	Q9BRP4	PAAF1_HUMAN	proteasomal ATPase-associated factor 1						interspecies interaction between organisms	proteasome complex	protein binding			ovary(1)|skin(1)	2	Breast(11;7.42e-05)					TAAACAAGGTATGTTTTTATG	0.363													10	36	---	---	---	---	PASS
B3GNT6	192134	broad.mit.edu	37	11	76750770	76750770	+	Missense_Mutation	SNP	G	C	C			TCGA-21-1076-01A-02D-1521-08	TCGA-21-1076-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:76750770G>C	uc001oxw.2	+	2	263	c.175G>C	c.(175-177)GAG>CAG	p.E59Q		NM_138706	NP_619651	Q6ZMB0	B3GN6_HUMAN	UDP-GlcNAc:betaGal	59	Lumenal (Potential).				O-glycan processing, core 3	Golgi membrane|integral to membrane	beta-1,3-galactosyl-O-glycosyl-glycoprotein beta-1,3-N-acetylglucosaminyltransferase activity|galactosyltransferase activity				0						CGCGGCTGACGAGCCGCCCTC	0.736													4	9	---	---	---	---	PASS
KCTD14	65987	broad.mit.edu	37	11	77727937	77727937	+	Missense_Mutation	SNP	C	A	A	rs141944721	byFrequency	TCGA-21-1076-01A-02D-1521-08	TCGA-21-1076-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:77727937C>A	uc001oyw.3	-	2	495	c.470G>T	c.(469-471)CGT>CTT	p.R157L		NM_023930	NP_076419	Q9BQ13	KCD14_HUMAN	potassium channel tetramerisation domain	157						voltage-gated potassium channel complex	voltage-gated potassium channel activity			ovary(2)	2	all_cancers(14;4.53e-19)|all_epithelial(13;1.73e-21)|Breast(9;2.71e-16)|Ovarian(111;0.152)		OV - Ovarian serous cystadenocarcinoma(8;1e-24)			GGCTTCTGCACGTGCCAGGCG	0.547													34	109	---	---	---	---	PASS
ABCG4	64137	broad.mit.edu	37	11	119024982	119024982	+	Missense_Mutation	SNP	G	A	A			TCGA-21-1076-01A-02D-1521-08	TCGA-21-1076-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:119024982G>A	uc001pvs.2	+	4	705	c.369G>A	c.(367-369)ATG>ATA	p.M123I	ABCG4_uc009zar.2_Missense_Mutation_p.M123I	NM_022169	NP_071452	Q9H172	ABCG4_HUMAN	ATP-binding cassette, subfamily G, member 4	123	Cytoplasmic (Potential).|ABC transporter.				cholesterol efflux	integral to membrane	ATP binding|ATPase activity|protein heterodimerization activity|protein homodimerization activity			ovary(2)	2	all_hematologic(175;0.0977)	Medulloblastoma(222;0.0425)|Breast(348;0.052)|all_neural(223;0.112)		BRCA - Breast invasive adenocarcinoma(274;7.7e-05)		AGTCTGGAATGAAGGGGCAGA	0.547													19	81	---	---	---	---	PASS
OR8B12	219858	broad.mit.edu	37	11	124413505	124413505	+	Silent	SNP	A	G	G			TCGA-21-1076-01A-02D-1521-08	TCGA-21-1076-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:124413505A>G	uc010sam.1	-	1	46	c.46T>C	c.(46-48)TTA>CTA	p.L16L		NM_001005195	NP_001005195	Q8NGG6	OR8BC_HUMAN	olfactory receptor, family 8, subfamily B,	16	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)|breast(1)|skin(1)	3		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;0.0213)		TGGTGGGTTAAGCCTTCGAGG	0.532													14	75	---	---	---	---	PASS
NTM	50863	broad.mit.edu	37	11	132082018	132082018	+	Missense_Mutation	SNP	C	T	T			TCGA-21-1076-01A-02D-1521-08	TCGA-21-1076-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:132082018C>T	uc001qgp.2	+	3	1167	c.503C>T	c.(502-504)ACT>ATT	p.T168I	NTM_uc001qgm.2_Missense_Mutation_p.T168I|NTM_uc010sch.1_Missense_Mutation_p.T159I|NTM_uc010sci.1_Missense_Mutation_p.T168I|NTM_uc010scj.1_Missense_Mutation_p.T127I|NTM_uc001qgo.2_Missense_Mutation_p.T168I|NTM_uc001qgq.2_Missense_Mutation_p.T168I|NTM_uc001qgr.2_5'UTR	NM_016522	NP_057606	Q9P121	NTRI_HUMAN	neurotrimin isoform 1	168	Ig-like C2-type 2.				cell adhesion|neuron recognition	anchored to membrane|plasma membrane				ovary(4)|central_nervous_system(1)|skin(1)	6						CCTACGGTTACTTGGAGACAC	0.433													17	50	---	---	---	---	PASS
NTM	50863	broad.mit.edu	37	11	132082019	132082019	+	Silent	SNP	T	C	C			TCGA-21-1076-01A-02D-1521-08	TCGA-21-1076-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:132082019T>C	uc001qgp.2	+	3	1168	c.504T>C	c.(502-504)ACT>ACC	p.T168T	NTM_uc001qgm.2_Silent_p.T168T|NTM_uc010sch.1_Silent_p.T159T|NTM_uc010sci.1_Silent_p.T168T|NTM_uc010scj.1_Silent_p.T127T|NTM_uc001qgo.2_Silent_p.T168T|NTM_uc001qgq.2_Silent_p.T168T|NTM_uc001qgr.2_5'UTR	NM_016522	NP_057606	Q9P121	NTRI_HUMAN	neurotrimin isoform 1	168	Ig-like C2-type 2.				cell adhesion|neuron recognition	anchored to membrane|plasma membrane				ovary(4)|central_nervous_system(1)|skin(1)	6						CTACGGTTACTTGGAGACACA	0.438													16	50	---	---	---	---	PASS
NTM	50863	broad.mit.edu	37	11	132177700	132177700	+	Missense_Mutation	SNP	T	G	G			TCGA-21-1076-01A-02D-1521-08	TCGA-21-1076-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:132177700T>G	uc001qgp.2	+	4	1308	c.644T>G	c.(643-645)GTA>GGA	p.V215G	NTM_uc001qgm.2_Missense_Mutation_p.V215G|NTM_uc010sch.1_Missense_Mutation_p.V206G|NTM_uc010sci.1_Missense_Mutation_p.V215G|NTM_uc010scj.1_Missense_Mutation_p.V174G|NTM_uc001qgo.2_Missense_Mutation_p.V215G|NTM_uc001qgq.2_Missense_Mutation_p.V215G|NTM_uc001qgr.2_5'UTR	NM_016522	NP_057606	Q9P121	NTRI_HUMAN	neurotrimin isoform 1	215	Ig-like C2-type 2.				cell adhesion|neuron recognition	anchored to membrane|plasma membrane				ovary(4)|central_nervous_system(1)|skin(1)	6						GTACGGAGAGTAAAGGTCACC	0.587													4	27	---	---	---	---	PASS
ANO2	57101	broad.mit.edu	37	12	5687599	5687599	+	Silent	SNP	C	T	T			TCGA-21-1076-01A-02D-1521-08	TCGA-21-1076-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:5687599C>T	uc001qnm.2	-	22	2391	c.2319G>A	c.(2317-2319)GTG>GTA	p.V773V		NM_020373	NP_065106	Q9NQ90	ANO2_HUMAN	anoctamin 2	778	Cytoplasmic (Potential).					chloride channel complex|plasma membrane	intracellular calcium activated chloride channel activity			ovary(4)|large_intestine(2)|central_nervous_system(1)	7						CATCGAGCCGCACTTCAATGA	0.547													6	41	---	---	---	---	PASS
COPS7A	50813	broad.mit.edu	37	12	6840163	6840163	+	Intron	SNP	C	A	A			TCGA-21-1076-01A-02D-1521-08	TCGA-21-1076-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:6840163C>A	uc001qqj.2	+						COPS7A_uc009zex.2_Intron|COPS7A_uc001qqk.2_Intron|COPS7A_uc001qql.2_Intron|COPS7A_uc001qqh.2_Intron|COPS7A_uc001qqi.2_Intron|COPS7A_uc001qqm.2_Intron|COPS7A_uc001qqn.3_Intron|COPS7A_uc001qqo.2_Intron	NM_001164094	NP_001157566	Q9UBW8	CSN7A_HUMAN	COP9 complex subunit 7a						cullin deneddylation	cytoplasm|signalosome				ovary(1)	1						tTCTCCTTGCCAGGCTCCGAG	0.502													12	49	---	---	---	---	PASS
CLEC4E	26253	broad.mit.edu	37	12	8693356	8693356	+	Intron	SNP	C	T	T			TCGA-21-1076-01A-02D-1521-08	TCGA-21-1076-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:8693356C>T	uc001quo.1	-							NM_014358	NP_055173	Q9ULY5	CLC4E_HUMAN	C-type lectin domain family 4, member E							integral to membrane	sugar binding			central_nervous_system(1)	1	Lung SC(5;0.184)					GCAGATTTTACCTGTGCATTG	0.264													4	115	---	---	---	---	PASS
ITPR2	3709	broad.mit.edu	37	12	26781091	26781091	+	Missense_Mutation	SNP	A	G	G			TCGA-21-1076-01A-02D-1521-08	TCGA-21-1076-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:26781091A>G	uc001rhg.2	-	23	3356	c.2939T>C	c.(2938-2940)ATC>ACC	p.I980T		NM_002223	NP_002214	Q14571	ITPR2_HUMAN	inositol 1,4,5-triphosphate receptor, type 2	980	Cytoplasmic (Potential).				activation of phospholipase C activity|energy reserve metabolic process|nerve growth factor receptor signaling pathway|platelet activation|regulation of insulin secretion|response to hypoxia	integral to membrane|plasma membrane enriched fraction|platelet dense tubular network membrane|sarcoplasmic reticulum membrane	calcium ion transmembrane transporter activity|inositol 1,4,5-trisphosphate-sensitive calcium-release channel activity			kidney(6)|ovary(4)|skin(2)|upper_aerodigestive_tract(1)|lung(1)	14	Colorectal(261;0.0847)					GACACTCAGGATAAACTATAA	0.353													34	117	---	---	---	---	PASS
OSBPL8	114882	broad.mit.edu	37	12	76772316	76772316	+	Missense_Mutation	SNP	C	A	A			TCGA-21-1076-01A-02D-1521-08	TCGA-21-1076-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:76772316C>A	uc001sye.1	-	16	2125	c.1645G>T	c.(1645-1647)GCA>TCA	p.A549S	OSBPL8_uc001syf.1_Missense_Mutation_p.A507S|OSBPL8_uc001syg.1_Missense_Mutation_p.A507S|OSBPL8_uc001syh.1_Missense_Mutation_p.A524S	NM_020841	NP_065892	Q9BZF1	OSBL8_HUMAN	oxysterol-binding protein-like protein 8 isoform	549					lipid transport		lipid binding			ovary(1)	1						TCTAATATTGCAGATAATGAG	0.254													22	74	---	---	---	---	PASS
LIN7A	8825	broad.mit.edu	37	12	81205404	81205404	+	Missense_Mutation	SNP	C	A	A			TCGA-21-1076-01A-02D-1521-08	TCGA-21-1076-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:81205404C>A	uc001szj.1	-	5	735	c.542G>T	c.(541-543)AGC>ATC	p.S181I	LIN7A_uc001szk.1_RNA	NM_004664	NP_004655	O14910	LIN7A_HUMAN	lin-7 homolog A	181	PDZ.				exocytosis|protein complex assembly|protein transport	basolateral plasma membrane|postsynaptic density|postsynaptic membrane|synaptosome|tight junction	L27 domain binding			ovary(1)|skin(1)	2						CAGCTTGACGCTGTCTTTAGC	0.488													22	75	---	---	---	---	PASS
STAB2	55576	broad.mit.edu	37	12	104014304	104014304	+	Missense_Mutation	SNP	G	T	T			TCGA-21-1076-01A-02D-1521-08	TCGA-21-1076-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:104014304G>T	uc001tjw.2	+	4	576	c.390G>T	c.(388-390)ATG>ATT	p.M130I		NM_017564	NP_060034	Q8WWQ8	STAB2_HUMAN	stabilin 2 precursor	130	Extracellular (Potential).|EGF-like 1.				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						CTGAAGGCATGGAAGGAAATG	0.488													4	16	---	---	---	---	PASS
STAB2	55576	broad.mit.edu	37	12	104056674	104056674	+	Silent	SNP	C	G	G			TCGA-21-1076-01A-02D-1521-08	TCGA-21-1076-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:104056674C>G	uc001tjw.2	+	18	2106	c.1920C>G	c.(1918-1920)GCC>GCG	p.A640A		NM_017564	NP_060034	Q8WWQ8	STAB2_HUMAN	stabilin 2 precursor	640	Extracellular (Potential).|FAS1 2.				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						AGATCACTGCCAAAAATGGCC	0.428													19	80	---	---	---	---	PASS
UBE3B	89910	broad.mit.edu	37	12	109937553	109937553	+	Missense_Mutation	SNP	G	C	C			TCGA-21-1076-01A-02D-1521-08	TCGA-21-1076-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:109937553G>C	uc001top.2	+	12	1659	c.1056G>C	c.(1054-1056)AAG>AAC	p.K352N	UBE3B_uc001toq.2_Missense_Mutation_p.K352N|UBE3B_uc001too.1_RNA|UBE3B_uc009zvj.1_Missense_Mutation_p.K352N	NM_130466	NP_569733	Q7Z3V4	UBE3B_HUMAN	ubiquitin protein ligase E3B	352					protein ubiquitination involved in ubiquitin-dependent protein catabolic process	intracellular	ubiquitin-protein ligase activity			ovary(2)|lung(2)	4						TGTCTCAGAAGAAGTCCAACC	0.537													8	53	---	---	---	---	PASS
IFT81	28981	broad.mit.edu	37	12	110565186	110565186	+	Missense_Mutation	SNP	A	G	G			TCGA-21-1076-01A-02D-1521-08	TCGA-21-1076-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:110565186A>G	uc001tqi.2	+	2	131	c.1A>G	c.(1-3)ATG>GTG	p.M1V	IFT81_uc001tqh.2_Missense_Mutation_p.M1V|IFT81_uc001tqj.2_RNA|IFT81_uc001tqg.2_Missense_Mutation_p.M1V	NM_001143779	NP_001137251	Q8WYA0	IFT81_HUMAN	intraflagellar transport 81-like isoform 1	1					cell differentiation|multicellular organismal development|spermatogenesis	intraflagellar transport particle B|microtubule-based flagellum				ovary(1)	1						AGACCTAATTATGAGTGATCA	0.303													2	11	---	---	---	---	PASS
NOS1	4842	broad.mit.edu	37	12	117672551	117672551	+	Silent	SNP	G	A	A			TCGA-21-1076-01A-02D-1521-08	TCGA-21-1076-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:117672551G>A	uc001twm.1	-	21	3740	c.3054C>T	c.(3052-3054)ATC>ATT	p.I1018I		NM_000620	NP_000611	P29475	NOS1_HUMAN	nitric oxide synthase 1, neuronal	1018	FAD-binding FR-type.				multicellular organismal response to stress|myoblast fusion|negative regulation of calcium ion transport into cytosol|neurotransmitter biosynthetic process|nitric oxide biosynthetic process|platelet activation|positive regulation of vasodilation|regulation of cardiac muscle contraction|response to heat|response to hypoxia	cytoskeleton|cytosol|dendritic spine|perinuclear region of cytoplasm|photoreceptor inner segment|sarcolemma|sarcoplasmic reticulum	arginine binding|cadmium ion binding|calmodulin binding|flavin adenine dinucleotide binding|FMN binding|heme binding|NADP binding|nitric-oxide synthase activity|tetrahydrobiopterin binding			ovary(3)|skin(3)|pancreas(1)	7	all_neural(191;0.0804)|Medulloblastoma(191;0.0922)			BRCA - Breast invasive adenocarcinoma(302;0.0561)	L-Citrulline(DB00155)	GACGCACGAAGATAGTTGACC	0.507													6	45	---	---	---	---	PASS
CAMKK2	10645	broad.mit.edu	37	12	121690485	121690485	+	Silent	SNP	T	A	A			TCGA-21-1076-01A-02D-1521-08	TCGA-21-1076-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:121690485T>A	uc001tzu.2	-	11	1264	c.1140A>T	c.(1138-1140)CTA>CTT	p.L380L	CAMKK2_uc001tzt.2_Silent_p.L380L|CAMKK2_uc001tzv.2_Silent_p.L380L|CAMKK2_uc001tzw.2_Silent_p.L380L|CAMKK2_uc001tzx.2_Silent_p.L380L|CAMKK2_uc001tzy.2_Silent_p.L380L|CAMKK2_uc001tzz.1_Silent_p.L167L|CAMKK2_uc001uaa.1_Silent_p.L380L|CAMKK2_uc001uab.2_Silent_p.L380L|CAMKK2_uc001uac.2_Silent_p.L380L	NM_006549	NP_006540	Q96RR4	KKCC2_HUMAN	calcium/calmodulin-dependent protein kinase	380	Protein kinase.				calcium-mediated signaling|MAPKKK cascade|positive regulation of transcription, DNA-dependent|protein autophosphorylation|regulation of protein kinase activity	cytoplasm	ATP binding|calcium ion binding|calmodulin binding|calmodulin-dependent protein kinase activity|protein tyrosine kinase activity			lung(1)|large_intestine(1)|stomach(1)	3	all_neural(191;0.0684)|Medulloblastoma(191;0.0922)					CAAAGCAGTATAGTGTCACAC	0.517													7	41	---	---	---	---	PASS
TMEM132D	121256	broad.mit.edu	37	12	129558726	129558726	+	Silent	SNP	C	T	T			TCGA-21-1076-01A-02D-1521-08	TCGA-21-1076-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:129558726C>T	uc009zyl.1	-	9	3322	c.2994G>A	c.(2992-2994)GAG>GAA	p.E998E	TMEM132D_uc001uia.2_Silent_p.E536E	NM_133448	NP_597705	Q14C87	T132D_HUMAN	transmembrane protein 132D precursor	998	Cytoplasmic (Potential).					integral to membrane				ovary(10)|pancreas(2)|upper_aerodigestive_tract(1)|skin(1)	14	all_neural(191;0.101)|Medulloblastoma(191;0.163)	all_epithelial(31;0.0934)|Breast(359;0.133)		OV - Ovarian serous cystadenocarcinoma(86;0.000288)|Epithelial(86;0.0116)|all cancers(50;0.0246)		ATTTACTTTCCTCGAAATCCA	0.453													27	121	---	---	---	---	PASS
EP400	57634	broad.mit.edu	37	12	132502198	132502198	+	Missense_Mutation	SNP	G	C	C			TCGA-21-1076-01A-02D-1521-08	TCGA-21-1076-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:132502198G>C	uc001ujn.2	+	19	4077	c.4042G>C	c.(4042-4044)GTG>CTG	p.V1348L	EP400_uc001ujl.2_Missense_Mutation_p.V1347L|EP400_uc001ujm.2_Missense_Mutation_p.V1348L	NM_015409	NP_056224	Q96L91	EP400_HUMAN	E1A binding protein p400	1384					histone H2A acetylation|histone H4 acetylation|regulation of transcription, DNA-dependent	NuA4 histone acetyltransferase complex|nuclear speck	ATP binding|DNA binding|helicase activity			central_nervous_system(4)|ovary(3)|breast(3)|skin(2)	12	all_neural(191;0.0982)|Medulloblastoma(191;0.163)	all_epithelial(31;0.198)		OV - Ovarian serous cystadenocarcinoma(86;3.01e-08)|Epithelial(86;3.43e-07)|all cancers(50;2.01e-06)		CTCTTCCTACGTGGCGGGGCC	0.592													19	88	---	---	---	---	PASS
P2RX2	22953	broad.mit.edu	37	12	133197898	133197898	+	Nonsense_Mutation	SNP	C	A	A			TCGA-21-1076-01A-02D-1521-08	TCGA-21-1076-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:133197898C>A	uc001ukj.1	+	9	963	c.963C>A	c.(961-963)TAC>TAA	p.Y321*	P2RX2_uc001uki.1_Nonsense_Mutation_p.Y321*|P2RX2_uc001ukk.1_Nonsense_Mutation_p.Y321*|P2RX2_uc001ukl.1_Nonsense_Mutation_p.Y297*|P2RX2_uc001ukm.1_Nonsense_Mutation_p.Y249*|P2RX2_uc001ukn.1_Nonsense_Mutation_p.Y229*|P2RX2_uc009zyt.1_Nonsense_Mutation_p.Y321*|P2RX2_uc001uko.1_Nonsense_Mutation_p.Y287*	NM_170682	NP_733782	Q9UBL9	P2RX2_HUMAN	purinergic receptor P2X2 isoform A	321	Pore-forming motif (Potential).|Extracellular (Potential).				positive regulation of calcium ion transport into cytosol|positive regulation of calcium-mediated signaling|protein homooligomerization	integral to membrane	ATP binding|extracellular ATP-gated cation channel activity|identical protein binding|purinergic nucleotide receptor activity				0	all_neural(191;0.0982)|Medulloblastoma(191;0.163)	all_epithelial(31;0.0767)		OV - Ovarian serous cystadenocarcinoma(86;2.32e-08)|Epithelial(86;8.62e-08)|all cancers(50;4.5e-06)		TCAAGGCCTACGGGATCCGCA	0.612													28	252	---	---	---	---	PASS
RCBTB1	55213	broad.mit.edu	37	13	50115118	50115118	+	Missense_Mutation	SNP	T	A	A			TCGA-21-1076-01A-02D-1521-08	TCGA-21-1076-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr13:50115118T>A	uc001vde.1	-	12	1610	c.1349A>T	c.(1348-1350)TAC>TTC	p.Y450F		NM_018191	NP_060661	Q8NDN9	RCBT1_HUMAN	regulator of chromosome condensation (RCC1) and	450					cell cycle|chromatin modification|regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasm|nucleus				ovary(1)	1		Lung NSC(96;2.1e-05)|Breast(56;0.00015)|Prostate(109;0.00314)|Hepatocellular(98;0.0207)|Myeloproliferative disorder(33;0.163)|Lung SC(185;0.187)|all_neural(104;0.19)	KIRC - Kidney renal clear cell carcinoma(9;0.206)	GBM - Glioblastoma multiforme(99;4.7e-09)		GTTTTCACAGTAAGATGTCGC	0.343													11	35	---	---	---	---	PASS
DOCK9	23348	broad.mit.edu	37	13	99554117	99554117	+	Missense_Mutation	SNP	A	T	T			TCGA-21-1076-01A-02D-1521-08	TCGA-21-1076-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr13:99554117A>T	uc001vnt.2	-	13	1476	c.1421T>A	c.(1420-1422)TTT>TAT	p.F474Y	DOCK9_uc001vnw.2_Missense_Mutation_p.F473Y|DOCK9_uc001vnv.1_RNA|DOCK9_uc010tir.1_Missense_Mutation_p.F474Y|DOCK9_uc010tis.1_Missense_Mutation_p.F473Y|DOCK9_uc010tit.1_Missense_Mutation_p.F474Y|DOCK9_uc010afu.1_Missense_Mutation_p.F289Y	NM_015296	NP_056111	Q9BZ29	DOCK9_HUMAN	dedicator of cytokinesis 9 isoform a	474					blood coagulation	cytosol|endomembrane system|membrane	GTP binding|GTPase binding|guanyl-nucleotide exchange factor activity			central_nervous_system(1)	1	all_neural(89;0.101)|Medulloblastoma(90;0.18)|Lung SC(71;0.184)					GGCCACAAGAAATATATCTGG	0.393													3	15	---	---	---	---	PASS
OR4Q3	441669	broad.mit.edu	37	14	20216180	20216180	+	Silent	SNP	G	T	T			TCGA-21-1076-01A-02D-1521-08	TCGA-21-1076-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr14:20216180G>T	uc010tkt.1	+	1	594	c.594G>T	c.(592-594)GTG>GTT	p.V198V		NM_172194	NP_751944	Q8NH05	OR4Q3_HUMAN	olfactory receptor, family 4, subfamily Q,	198	Helical; Name=5; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			breast(3)	3	all_cancers(95;0.00108)		Epithelial(56;9.96e-07)|all cancers(55;2.95e-06)	GBM - Glioblastoma multiforme(265;0.00327)		TGGTAGAGGTGCTGGTGATAG	0.498													10	70	---	---	---	---	PASS
OR11G2	390439	broad.mit.edu	37	14	20665802	20665802	+	Missense_Mutation	SNP	A	T	T			TCGA-21-1076-01A-02D-1521-08	TCGA-21-1076-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr14:20665802A>T	uc010tlb.1	+	1	308	c.308A>T	c.(307-309)AAC>ATC	p.N103I		NM_001005503	NP_001005503	Q8NGC1	O11G2_HUMAN	olfactory receptor, family 11, subfamily G,	103	Helical; Name=2; (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;9.76e-07)|all cancers(55;5.61e-06)	GBM - Glioblastoma multiforme(265;0.0144)		CTGCTCGCCAACTTCTCCTTC	0.527													22	103	---	---	---	---	PASS
Unknown	0	broad.mit.edu	37	14	22337320	22337320	+	Silent	SNP	C	T	T			TCGA-21-1076-01A-02D-1521-08	TCGA-21-1076-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr14:22337320C>T	uc010tmf.1	+	2	193	c.114C>T	c.(112-114)AGC>AGT	p.S38S	uc001wbw.2_Intron|uc010tmg.1_Intron|uc010tmh.1_Silent_p.S37S|uc001wby.2_Intron					SubName: Full=Putative uncharacterized protein ENSP00000374943;																		AGGGAGACAGCGCTGTTATCA	0.433													36	116	---	---	---	---	PASS
LRP10	26020	broad.mit.edu	37	14	23345950	23345950	+	Missense_Mutation	SNP	C	G	G			TCGA-21-1076-01A-02D-1521-08	TCGA-21-1076-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr14:23345950C>G	uc001whd.2	+	6	2030	c.1477C>G	c.(1477-1479)CCC>GCC	p.P493A	LRP10_uc001whe.2_Missense_Mutation_p.P369A	NM_014045	NP_054764	Q7Z4F1	LRP10_HUMAN	low density lipoprotein receptor-related protein	493	Cytoplasmic (Potential).				endocytosis	coated pit|integral to membrane				central_nervous_system(1)	1	all_cancers(95;4.69e-05)			GBM - Glioblastoma multiforme(265;0.00549)		GCAGCAGGCACCCCCTTCCTA	0.552													20	105	---	---	---	---	PASS
HEATR5A	25938	broad.mit.edu	37	14	31852749	31852749	+	Missense_Mutation	SNP	C	T	T			TCGA-21-1076-01A-02D-1521-08	TCGA-21-1076-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr14:31852749C>T	uc001wrf.3	-	4	772	c.695G>A	c.(694-696)GGA>GAA	p.G232E	HEATR5A_uc010ami.2_Missense_Mutation_p.G130E|HEATR5A_uc001wrg.1_Missense_Mutation_p.G114E|HEATR5A_uc010tpk.1_Missense_Mutation_p.G525E	NM_015473	NP_056288	Q86XA9	HTR5A_HUMAN	HEAT repeat containing 5A	519							binding			ovary(1)	1	Hepatocellular(127;0.0877)|Breast(36;0.137)		LUAD - Lung adenocarcinoma(48;0.00292)|Lung(238;0.0164)|BRCA - Breast invasive adenocarcinoma(188;0.0797)|STAD - Stomach adenocarcinoma(7;0.173)	GBM - Glioblastoma multiforme(265;0.0059)		ATGAGGAATTCCTAAAGGACA	0.383													28	180	---	---	---	---	PASS
MDGA2	161357	broad.mit.edu	37	14	47342674	47342674	+	Missense_Mutation	SNP	C	G	G			TCGA-21-1076-01A-02D-1521-08	TCGA-21-1076-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr14:47342674C>G	uc001wwj.3	-	14	2703	c.2507G>C	c.(2506-2508)TGT>TCT	p.C836S	MDGA2_uc001wwh.3_Missense_Mutation_p.C38S|MDGA2_uc001wwi.3_Missense_Mutation_p.C607S|MDGA2_uc010ani.2_Missense_Mutation_p.C396S	NM_001113498	NP_001106970	Q7Z553	MDGA2_HUMAN	MAM domain containing 1 isoform 1	836	MAM.				spinal cord motor neuron differentiation	anchored to membrane|plasma membrane				ovary(4)|large_intestine(1)|pancreas(1)	6						GAAGCTGAAACAATATGCAGT	0.383													18	109	---	---	---	---	PASS
C14orf39	317761	broad.mit.edu	37	14	60921721	60921721	+	Missense_Mutation	SNP	G	T	T			TCGA-21-1076-01A-02D-1521-08	TCGA-21-1076-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr14:60921721G>T	uc001xez.3	-	16	1611	c.1501C>A	c.(1501-1503)CAG>AAG	p.Q501K	C14orf39_uc010apo.2_Missense_Mutation_p.Q212K	NM_174978	NP_777638	Q08AQ4	Q08AQ4_HUMAN	hypothetical protein LOC317761	501										ovary(2)|haematopoietic_and_lymphoid_tissue(1)|skin(1)	4				OV - Ovarian serous cystadenocarcinoma(108;0.0448)		CATATTACCTGATCTGATGAG	0.313													10	55	---	---	---	---	PASS
SIX4	51804	broad.mit.edu	37	14	61187017	61187017	+	Missense_Mutation	SNP	C	G	G			TCGA-21-1076-01A-02D-1521-08	TCGA-21-1076-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr14:61187017C>G	uc001xfc.2	-	2	1010	c.1010G>C	c.(1009-1011)GGA>GCA	p.G337A	SIX4_uc010app.1_Missense_Mutation_p.G329A	NM_017420	NP_059116	Q9UIU6	SIX4_HUMAN	sine oculis homeobox homolog 4	337						nucleus				breast(3)|ovary(1)	4				OV - Ovarian serous cystadenocarcinoma(108;0.0275)		CTTAGCATTTCCAATTTGTTG	0.408													24	95	---	---	---	---	PASS
SPTB	6710	broad.mit.edu	37	14	65259873	65259873	+	Silent	SNP	C	T	T			TCGA-21-1076-01A-02D-1521-08	TCGA-21-1076-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr14:65259873C>T	uc001xht.2	-	13	2562	c.2508G>A	c.(2506-2508)CAG>CAA	p.Q836Q	SPTB_uc001xhr.2_Silent_p.Q836Q|SPTB_uc001xhs.2_Silent_p.Q836Q|SPTB_uc001xhu.2_Silent_p.Q836Q	NM_000347	NP_000338	P11277	SPTB1_HUMAN	spectrin beta isoform b	836	Spectrin 6.				actin filament capping|axon guidance	cell surface|cytosol|intrinsic to internal side of plasma membrane|protein complex|spectrin|spectrin-associated cytoskeleton	actin filament binding|structural constituent of cytoskeleton			ovary(7)|skin(2)|lung(1)|central_nervous_system(1)	11		all_lung(585;4.15e-09)		all cancers(60;4.33e-34)|OV - Ovarian serous cystadenocarcinoma(108;8.32e-20)|BRCA - Breast invasive adenocarcinoma(234;0.0628)		GCAGGTCCGCCTGGGCCACCA	0.632													18	93	---	---	---	---	PASS
C14orf174	161394	broad.mit.edu	37	14	77844685	77844685	+	Silent	SNP	T	G	G			TCGA-21-1076-01A-02D-1521-08	TCGA-21-1076-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr14:77844685T>G	uc001xtq.1	+	1	924	c.924T>G	c.(922-924)ACT>ACG	p.T308T	TMED8_uc010ast.1_5'Flank|TMED8_uc001xto.1_5'Flank	NM_001010860	NP_001010860	Q9P1V8	SAM15_HUMAN	hypothetical protein LOC161394	308											0			Kidney(204;0.164)	BRCA - Breast invasive adenocarcinoma(234;0.0278)		CTGAGCGGACTAAACCAGACT	0.473													9	115	---	---	---	---	PASS
NRXN3	9369	broad.mit.edu	37	14	79175927	79175927	+	Missense_Mutation	SNP	T	C	C			TCGA-21-1076-01A-02D-1521-08	TCGA-21-1076-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr14:79175927T>C	uc001xun.2	+	4	961	c.470T>C	c.(469-471)GTG>GCG	p.V157A	NRXN3_uc001xum.1_RNA|NRXN3_uc010asv.1_Missense_Mutation_p.V291A	NM_004796	NP_004787	Q9Y4C0	NRX3A_HUMAN	neurexin 3 isoform 1 precursor	530	Extracellular (Potential).|Laminin G-like 3.				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)		ACCATCAAAGTGAAAGCCACT	0.502													13	162	---	---	---	---	PASS
C14orf102	55051	broad.mit.edu	37	14	90756803	90756803	+	Missense_Mutation	SNP	T	C	C			TCGA-21-1076-01A-02D-1521-08	TCGA-21-1076-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr14:90756803T>C	uc001xyi.1	-	10	2022	c.1991A>G	c.(1990-1992)AAC>AGC	p.N664S	C14orf102_uc010atp.1_Missense_Mutation_p.N169S|C14orf102_uc001xyj.1_Missense_Mutation_p.N433S|C14orf102_uc001xyk.1_5'Flank	NM_017970	NP_060440	Q9H7Z3	CN102_HUMAN	hypothetical protein LOC55051 isoform 1	664							protein binding			ovary(2)|lung(1)	3		all_cancers(154;0.118)		COAD - Colon adenocarcinoma(157;0.218)		AAAGATGCTGTTCTCATCCAT	0.493													5	76	---	---	---	---	PASS
SMEK1	55671	broad.mit.edu	37	14	91948452	91948452	+	Missense_Mutation	SNP	G	A	A			TCGA-21-1076-01A-02D-1521-08	TCGA-21-1076-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr14:91948452G>A	uc001xzn.2	-	4	1205	c.383C>T	c.(382-384)CCA>CTA	p.P128L	SMEK1_uc001xzm.2_Missense_Mutation_p.P128L|SMEK1_uc001xzo.2_Missense_Mutation_p.P128L|SMEK1_uc010atz.2_Intron|SMEK1_uc001xzp.1_RNA|SMEK1_uc001xzq.1_Missense_Mutation_p.P4L	NM_032560	NP_115949	Q6IN85	P4R3A_HUMAN	SMEK homolog 1, suppressor of mek1	128						microtubule organizing center|nucleus	protein binding				0		all_cancers(154;0.0691)|all_epithelial(191;0.219)		COAD - Colon adenocarcinoma(157;0.221)		TTCTAAGCCTGGCGATGACAT	0.423													13	82	---	---	---	---	PASS
PPP4R4	57718	broad.mit.edu	37	14	94711944	94711944	+	Missense_Mutation	SNP	T	G	G			TCGA-21-1076-01A-02D-1521-08	TCGA-21-1076-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr14:94711944T>G	uc001ycs.1	+	13	1519	c.1365T>G	c.(1363-1365)GAT>GAG	p.D455E		NM_058237	NP_478144	Q6NUP7	PP4R4_HUMAN	HEAT-like repeat-containing protein isoform 1	455						cytoplasm|protein serine/threonine phosphatase complex	protein binding			skin(3)|upper_aerodigestive_tract(1)	4						CTCTTATAGATCATCTTCCAG	0.308													10	54	---	---	---	---	PASS
PACS2	23241	broad.mit.edu	37	14	105857562	105857562	+	Missense_Mutation	SNP	G	T	T			TCGA-21-1076-01A-02D-1521-08	TCGA-21-1076-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr14:105857562G>T	uc001yqt.2	+	20	2225	c.2050G>T	c.(2050-2052)GTG>TTG	p.V684L	PACS2_uc001yqs.2_Missense_Mutation_p.V609L|PACS2_uc001yqv.2_Missense_Mutation_p.V688L|PACS2_uc001yqu.2_Missense_Mutation_p.V699L	NM_015197	NP_056012	Q86VP3	PACS2_HUMAN	phosphofurin acidic cluster sorting protein 2	684					apoptosis|interspecies interaction between organisms	endoplasmic reticulum lumen|mitochondrion				pancreas(1)	1		all_cancers(154;0.0351)|all_epithelial(191;0.153)|Melanoma(154;0.155)	OV - Ovarian serous cystadenocarcinoma(23;0.0145)|Epithelial(46;0.036)	Epithelial(152;0.138)		GGTTGGAATTGTGGAGCCATC	0.622													11	39	---	---	---	---	PASS
ADAM6	8755	broad.mit.edu	37	14	106805353	106805353	+	RNA	SNP	C	G	G			TCGA-21-1076-01A-02D-1521-08	TCGA-21-1076-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr14:106805353C>G	uc010tyt.1	-	360		c.13855G>C			uc001ysw.1_5'Flank					Parts of antibodies, mostly variable regions.												0						AATAGATGTACCCAATCCACT	0.537													20	132	---	---	---	---	PASS
MKRN3	7681	broad.mit.edu	37	15	23811490	23811490	+	Silent	SNP	A	C	C			TCGA-21-1076-01A-02D-1521-08	TCGA-21-1076-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr15:23811490A>C	uc001ywh.3	+	1	1037	c.561A>C	c.(559-561)GCA>GCC	p.A187A	MKRN3_uc001ywi.2_Intron|MKRN3_uc010ayi.1_Silent_p.A187A	NM_005664	NP_005655	Q13064	MKRN3_HUMAN	makorin ring finger protein 3	187						ribonucleoprotein complex	ligase activity|nucleic acid binding|zinc ion binding			lung(6)|large_intestine(2)|ovary(2)	10		all_cancers(20;8.44e-25)|all_epithelial(15;3.69e-22)|Lung NSC(15;2.96e-18)|all_lung(15;2.8e-17)|Breast(32;0.000353)|Colorectal(260;0.14)		all cancers(64;3.02e-06)|Epithelial(43;1.94e-05)|BRCA - Breast invasive adenocarcinoma(123;0.0012)		GAGACAATGCAGACCGTGGAG	0.612													4	46	---	---	---	---	PASS
SNORD116-4	100033416	broad.mit.edu	37	15	25351672	25351672	+	Intron	SNP	C	T	T			TCGA-21-1076-01A-02D-1521-08	TCGA-21-1076-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr15:25351672C>T	uc001yxh.1	+						SNORD116-4_uc001yxm.1_Intron|IPW_uc001yxn.3_Intron|SNORD116-28_uc001yxy.2_Intron|IPW_uc001yyb.3_Intron|uc001yyd.2_Intron|SNORD116-29_uc001yyo.2_RNA					Homo sapiens clone kid4 SNURF-SNRPN mRNA, downstream untranslated exons, alternatively spliced.												0						GTGCCTGGATCGATGATGACT	0.458													13	46	---	---	---	---	PASS
UBE3A	7337	broad.mit.edu	37	15	25585232	25585232	+	Missense_Mutation	SNP	C	T	T			TCGA-21-1076-01A-02D-1521-08	TCGA-21-1076-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr15:25585232C>T	uc001zaq.2	-	10	2507	c.2507G>A	c.(2506-2508)AGG>AAG	p.R836K	uc001zae.2_Intron|UBE3A_uc001zar.2_Missense_Mutation_p.R813K|UBE3A_uc001zas.2_Missense_Mutation_p.R833K|UBE3A_uc001zat.2_Missense_Mutation_p.R813K	NM_000462	NP_000453	Q05086	UBE3A_HUMAN	ubiquitin protein ligase E3A isoform 2	836	HECT.				brain development|interspecies interaction between organisms|protein K48-linked ubiquitination|protein ubiquitination involved in ubiquitin-dependent protein catabolic process	nucleus|proteasome complex	protein binding|ubiquitin-protein ligase activity			upper_aerodigestive_tract(1)|ovary(1)|breast(1)	3		all_cancers(20;3.47e-21)|Breast(32;0.00123)		all cancers(64;2.78e-08)|Epithelial(43;8.85e-08)|BRCA - Breast invasive adenocarcinoma(123;0.0155)|Lung(196;0.0616)		AATTACCTACCTTTCTGTGTC	0.408													14	67	---	---	---	---	PASS
GABRA5	2558	broad.mit.edu	37	15	27128634	27128634	+	Missense_Mutation	SNP	G	C	C			TCGA-21-1076-01A-02D-1521-08	TCGA-21-1076-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr15:27128634G>C	uc001zbd.1	+	7	766	c.427G>C	c.(427-429)GCT>CCT	p.A143P	GABRB3_uc001zbb.2_Intron	NM_000810	NP_000801	P31644	GBRA5_HUMAN	gamma-aminobutyric acid A receptor, alpha 5	143	Extracellular (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)	GAAGTCCATCGCTCACAACAT	0.517													12	60	---	---	---	---	PASS
C15orf23	90417	broad.mit.edu	37	15	40681810	40681810	+	Missense_Mutation	SNP	C	G	G			TCGA-21-1076-01A-02D-1521-08	TCGA-21-1076-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr15:40681810C>G	uc001zll.2	+	5	704	c.589C>G	c.(589-591)CAG>GAG	p.Q197E	C15orf23_uc010ucp.1_Missense_Mutation_p.Q197E|C15orf23_uc001zlo.2_Missense_Mutation_p.Q197E|C15orf23_uc001zlm.2_RNA|C15orf23_uc001zln.2_RNA	NM_033286	NP_150628	Q9Y448	T4AF1_HUMAN	TRAF4 associated factor 1 isoform a	197	Potential.					nucleus	protein binding			ovary(1)|skin(1)	2		all_cancers(109;2.34e-14)|all_epithelial(112;9.21e-12)|Lung NSC(122;2.95e-09)|all_lung(180;6.03e-08)|Melanoma(134;0.091)|Colorectal(260;0.198)|Ovarian(310;0.243)		GBM - Glioblastoma multiforme(113;3.39e-06)|BRCA - Breast invasive adenocarcinoma(123;0.0798)		GACTGAAACTCAGGTAAGAGA	0.502													7	25	---	---	---	---	PASS
TGM5	9333	broad.mit.edu	37	15	43531095	43531095	+	Missense_Mutation	SNP	G	T	T			TCGA-21-1076-01A-02D-1521-08	TCGA-21-1076-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr15:43531095G>T	uc001zrd.1	-	9	1273	c.1265C>A	c.(1264-1266)TCT>TAT	p.S422Y	TGM5_uc001zrc.1_Missense_Mutation_p.S79Y|TGM5_uc001zre.1_Missense_Mutation_p.S340Y	NM_201631	NP_963925	O43548	TGM5_HUMAN	transglutaminase 5 isoform 1	422					epidermis development|peptide cross-linking	cytoplasm	acyltransferase activity|metal ion binding|protein-glutamine gamma-glutamyltransferase activity			central_nervous_system(1)	1		all_cancers(109;1.37e-14)|all_epithelial(112;1.26e-12)|Lung NSC(122;2.46e-08)|all_lung(180;2.75e-07)|Melanoma(134;0.0476)|Colorectal(260;0.216)		GBM - Glioblastoma multiforme(94;4e-07)	L-Glutamine(DB00130)	ATTGCCAACAGAACTCGTGTC	0.498													11	49	---	---	---	---	PASS
HDC	3067	broad.mit.edu	37	15	50545843	50545843	+	Silent	SNP	G	T	T			TCGA-21-1076-01A-02D-1521-08	TCGA-21-1076-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr15:50545843G>T	uc001zxz.2	-	7	847	c.741C>A	c.(739-741)ACC>ACA	p.T247T	HDC_uc001zxy.2_5'Flank|HDC_uc010uff.1_Silent_p.T247T|HDC_uc010bet.1_Silent_p.T168T	NM_002112	NP_002103	P19113	DCHS_HUMAN	histidine decarboxylase	247					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)	AGACCCCAGTGGTCCCTAGTG	0.483													6	126	---	---	---	---	PASS
HDC	3067	broad.mit.edu	37	15	50545844	50545844	+	Missense_Mutation	SNP	G	T	T			TCGA-21-1076-01A-02D-1521-08	TCGA-21-1076-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr15:50545844G>T	uc001zxz.2	-	7	846	c.740C>A	c.(739-741)ACC>AAC	p.T247N	HDC_uc001zxy.2_5'Flank|HDC_uc010uff.1_Missense_Mutation_p.T247N|HDC_uc010bet.1_Missense_Mutation_p.T168N	NM_002112	NP_002103	P19113	DCHS_HUMAN	histidine decarboxylase	247					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)	GACCCCAGTGGTCCCTAGTGT	0.488													6	123	---	---	---	---	PASS
SLTM	79811	broad.mit.edu	37	15	59224609	59224609	+	Missense_Mutation	SNP	T	C	C			TCGA-21-1076-01A-02D-1521-08	TCGA-21-1076-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr15:59224609T>C	uc002afp.2	-	2	284	c.196A>G	c.(196-198)ATT>GTT	p.I66V	SLTM_uc002afo.2_Missense_Mutation_p.I66V|SLTM_uc002afq.2_Translation_Start_Site|SLTM_uc010bgd.2_Intron|SLTM_uc002afr.1_Missense_Mutation_p.I66V	NM_024755	NP_079031	Q9NWH9	SLTM_HUMAN	modulator of estrogen induced transcription	66					apoptosis|regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	nucleotide binding|RNA binding			ovary(1)	1						GTTAATTCAATATTATCTGGA	0.294													9	81	---	---	---	---	PASS
CILP	8483	broad.mit.edu	37	15	65489148	65489148	+	Missense_Mutation	SNP	C	T	T			TCGA-21-1076-01A-02D-1521-08	TCGA-21-1076-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr15:65489148C>T	uc002aon.2	-	9	3657	c.3476G>A	c.(3475-3477)AGC>AAC	p.S1159N		NM_003613	NP_003604	O75339	CILP1_HUMAN	cartilage intermediate layer protein	1159					negative regulation of insulin-like growth factor receptor signaling pathway	extracellular matrix part|extracellular space|proteinaceous extracellular matrix				ovary(4)|pancreas(2)|skin(1)	7						GCCACCCCTGCTCGCTCGCTG	0.607													13	55	---	---	---	---	PASS
HCN4	10021	broad.mit.edu	37	15	73624626	73624626	+	Missense_Mutation	SNP	T	A	A			TCGA-21-1076-01A-02D-1521-08	TCGA-21-1076-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr15:73624626T>A	uc002avp.2	-	3	2211	c.1217A>T	c.(1216-1218)CAC>CTC	p.H406L		NM_005477	NP_005468	Q9Y3Q4	HCN4_HUMAN	hyperpolarization activated cyclic	406	Cytoplasmic (Potential).				blood circulation|muscle contraction	integral to membrane	cAMP binding|protein binding|sodium channel activity|voltage-gated potassium channel activity			ovary(5)|liver(1)	6				COAD - Colon adenocarcinoma(1;0.142)		GTAGGTCATGTGGAAGATCTG	0.627													7	58	---	---	---	---	PASS
CCDC33	80125	broad.mit.edu	37	15	74559107	74559107	+	Silent	SNP	C	T	T			TCGA-21-1076-01A-02D-1521-08	TCGA-21-1076-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr15:74559107C>T	uc002axo.2	+	4	802	c.408C>T	c.(406-408)CCC>CCT	p.P136P	CCDC33_uc002axp.2_5'UTR	NM_025055	NP_079331	Q8N5R6	CCD33_HUMAN	coiled-coil domain containing 33 isoform 1	339							protein binding			ovary(3)|skin(2)	5						TCTTCCACCCCTACCACTTTG	0.532													22	126	---	---	---	---	PASS
CRABP1	1381	broad.mit.edu	37	15	78640281	78640281	+	Missense_Mutation	SNP	G	A	A			TCGA-21-1076-01A-02D-1521-08	TCGA-21-1076-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr15:78640281G>A	uc002bdp.2	+	4	481	c.376G>A	c.(376-378)GAT>AAT	p.D126N		NM_004378	NP_004369	P29762	RABP1_HUMAN	cellular retinoic acid binding protein 1	126					multicellular organismal development|signal transduction	cytoplasm	retinal binding|retinol binding|transporter activity				0					Alitretinoin(DB00523)|Etretinate(DB00926)	GTTTGGCGCCGATGACGTGGT	0.468													14	79	---	---	---	---	PASS
CHRNA5	1138	broad.mit.edu	37	15	78879022	78879022	+	Missense_Mutation	SNP	G	T	T			TCGA-21-1076-01A-02D-1521-08	TCGA-21-1076-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr15:78879022G>T	uc002bdy.2	+	3	456	c.294G>T	c.(292-294)TGG>TGT	p.W98C	CHRNA5_uc002bdz.2_Missense_Mutation_p.W98C	NM_000745	NP_000736	P30532	ACHA5_HUMAN	cholinergic receptor, nicotinic, alpha 5	98	Extracellular (Potential).				behavioral response to nicotine	cell junction|postsynaptic membrane	acetylcholine receptor activity|nicotinic acetylcholine-activated cation-selective channel activity			ovary(1)|central_nervous_system(1)|skin(1)	3						CAAACGTCTGGTTGAAACAGG	0.274													18	162	---	---	---	---	PASS
AEN	64782	broad.mit.edu	37	15	89172627	89172627	+	Silent	SNP	G	T	T			TCGA-21-1076-01A-02D-1521-08	TCGA-21-1076-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr15:89172627G>T	uc002bmt.2	+	3	862	c.711G>T	c.(709-711)CTG>CTT	p.L237L	AEN_uc010bnm.1_Silent_p.L237L	NM_022767	NP_073604	Q8WTP8	AEN_HUMAN	interferon stimulated exonuclease gene	237	Exonuclease.				apoptosis|DNA damage response, signal transduction by p53 class mediator resulting in induction of apoptosis|response to ionizing radiation	nucleolus|nucleoplasm	exonuclease activity|nucleic acid binding				0						TAAAGGACCTGGCCCTGCAGC	0.652													8	109	---	---	---	---	PASS
CACNA1H	8912	broad.mit.edu	37	16	1250434	1250434	+	Missense_Mutation	SNP	G	A	A			TCGA-21-1076-01A-02D-1521-08	TCGA-21-1076-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr16:1250434G>A	uc002cks.2	+	7	1230	c.982G>A	c.(982-984)GAG>AAG	p.E328K	CACNA1H_uc002ckt.2_Missense_Mutation_p.E328K	NM_021098	NP_066921	O95180	CAC1H_HUMAN	calcium channel, voltage-dependent, T type,	328	Extracellular (Potential).|I.				aldosterone biosynthetic process|axon guidance|cellular response to hormone stimulus|cellular response to potassium ion|cortisol biosynthetic process|muscle contraction|myoblast fusion|positive regulation of acrosome reaction|regulation of heart contraction	voltage-gated calcium channel complex	low voltage-gated calcium channel activity			breast(2)	2		Hepatocellular(780;0.00369)			Flunarizine(DB04841)|Mibefradil(DB01388)	GCCGCAGGCCGAGGGGGTGGG	0.667													5	22	---	---	---	---	PASS
ACSM2A	123876	broad.mit.edu	37	16	20476943	20476943	+	Silent	SNP	C	T	T			TCGA-21-1076-01A-02D-1521-08	TCGA-21-1076-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr16:20476943C>T	uc010bwe.2	+	4	521	c.282C>T	c.(280-282)GCC>GCT	p.A94A	ACSM2A_uc010bwd.1_RNA|ACSM2A_uc010vax.1_Silent_p.A15A|ACSM2A_uc002dhf.3_Silent_p.A94A|ACSM2A_uc002dhg.3_Silent_p.A94A|ACSM2A_uc010vay.1_Silent_p.A15A	NM_001010845	NP_001010845	Q08AH3	ACS2A_HUMAN	acyl-CoA synthetase medium-chain family member	94					fatty acid metabolic process	mitochondrial matrix	ATP binding|butyrate-CoA ligase activity|metal ion binding			skin(2)|breast(1)	3						AGCAGGCAGCCAACGTCCTCT	0.602													9	62	---	---	---	---	PASS
EIF3CL	728689	broad.mit.edu	37	16	28734633	28734633	+	Missense_Mutation	SNP	C	A	A			TCGA-21-1076-01A-02D-1521-08	TCGA-21-1076-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr16:28734633C>A	uc010byj.2	+	10	1017	c.928C>A	c.(928-930)CCG>ACG	p.P310T	uc010vct.1_Intron|EIF3CL_uc010byi.2_Missense_Mutation_p.P309T|EIF3CL_uc002dqs.3_Missense_Mutation_p.P309T|EIF3C_uc002dqt.3_Missense_Mutation_p.P309T|EIF3CL_uc010vcy.1_Missense_Mutation_p.P299T|EIF3C_uc002dqu.3_Missense_Mutation_p.P309T|EIF3CL_uc002dqv.3_Missense_Mutation_p.P55T	NM_001099661	NP_001093131	B5ME19	B5ME19_HUMAN	eukaryotic translation initiation factor 3,	310						eukaryotic translation initiation factor 3 complex	translation initiation factor activity				0						GGGCGGAGTGCCGTTGGTTAA	0.542													53	471	---	---	---	---	PASS
CMTM2	146225	broad.mit.edu	37	16	66613798	66613798	+	Intron	SNP	G	A	A	rs112263070		TCGA-21-1076-01A-02D-1521-08	TCGA-21-1076-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr16:66613798G>A	uc002ept.2	+						CMTM2_uc010cdu.2_Intron	NM_144673	NP_653274	Q8TAZ6	CKLF2_HUMAN	chemokine-like factor superfamily 2						chemotaxis	extracellular space|integral to membrane	cytokine activity			ovary(1)	1		Ovarian(137;0.0563)		OV - Ovarian serous cystadenocarcinoma(108;0.068)|Epithelial(162;0.212)		GGAGTTTGGTGAGCTAAACTG	0.587													9	60	---	---	---	---	PASS
CMIP	80790	broad.mit.edu	37	16	81733360	81733360	+	Missense_Mutation	SNP	G	A	A			TCGA-21-1076-01A-02D-1521-08	TCGA-21-1076-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr16:81733360G>A	uc002fgp.2	+	15	1781	c.1709G>A	c.(1708-1710)GGT>GAT	p.G570D	CMIP_uc002fgq.1_Missense_Mutation_p.G476D|CMIP_uc010vnq.1_Missense_Mutation_p.G383D|CMIP_uc002fgr.1_Missense_Mutation_p.G417D	NM_198390	NP_938204	Q8IY22	CMIP_HUMAN	c-Maf-inducing protein isoform C-mip	536						cytoplasm|nucleus					0						AACAAGCTGGGTCCCTGCATG	0.602													3	17	---	---	---	---	PASS
OR1E1	8387	broad.mit.edu	37	17	3301392	3301392	+	Missense_Mutation	SNP	G	T	T			TCGA-21-1076-01A-02D-1521-08	TCGA-21-1076-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:3301392G>T	uc002fvj.1	-	1	313	c.313C>A	c.(313-315)CTG>ATG	p.L105M		NM_003553	NP_003544	P30953	OR1E1_HUMAN	olfactory receptor, family 1, subfamily E,	105	Helical; Name=3; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity				0						CCAAATAACAGGAAGAAGTAC	0.542													17	49	---	---	---	---	PASS
ZNF594	84622	broad.mit.edu	37	17	5086129	5086129	+	Missense_Mutation	SNP	G	C	C			TCGA-21-1076-01A-02D-1521-08	TCGA-21-1076-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:5086129G>C	uc010cla.1	-	2	1579	c.1423C>G	c.(1423-1425)CTT>GTT	p.L475V		NM_032530	NP_115919	Q96JF6	ZN594_HUMAN	zinc finger protein 594	475	C2H2-type 13.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(2)|skin(1)	3						TGTGTAACAAGGTGTGACCTC	0.473													23	78	---	---	---	---	PASS
TP53	7157	broad.mit.edu	37	17	7578442	7578442	+	Missense_Mutation	SNP	T	C	C	rs148924904		TCGA-21-1076-01A-02D-1521-08	TCGA-21-1076-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:7578442T>C	uc002gim.2	-	5	682	c.488A>G	c.(487-489)TAC>TGC	p.Y163C	TP53_uc002gig.1_Missense_Mutation_p.Y163C|TP53_uc002gih.2_Missense_Mutation_p.Y163C|TP53_uc010cne.1_5'Flank|TP53_uc010cnf.1_Missense_Mutation_p.Y31C|TP53_uc010cng.1_Missense_Mutation_p.Y31C|TP53_uc002gii.1_Missense_Mutation_p.Y31C|TP53_uc010cnh.1_Missense_Mutation_p.Y163C|TP53_uc010cni.1_Missense_Mutation_p.Y163C|TP53_uc002gij.2_Missense_Mutation_p.Y163C|TP53_uc010cnj.1_RNA|TP53_uc002gin.2_Missense_Mutation_p.Y70C|TP53_uc002gio.2_Missense_Mutation_p.Y31C|TP53_uc010vug.1_Missense_Mutation_p.Y124C	NM_001126112	NP_001119584	P04637	P53_HUMAN	tumor protein p53 isoform a	163	Required for interaction with FBXO42.||Interaction with HIPK1 (By similarity).|Interaction with AXIN1 (By similarity).		Y -> F (in a sporadic cancer; somatic mutation).|Y -> H (in sporadic cancers; somatic mutation).|Y -> C (in LFS; germline mutation and in sporadic cancers; somatic mutation).|Y -> S (in sporadic cancers; somatic mutation).|Y -> N (in sporadic cancers; somatic mutation).|Y -> D (in sporadic cancers; 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.Y163C(95)|p.Y163N(17)|p.Y163H(17)|p.Y163*(7)|p.0?(7)|p.Y163S(4)|p.Y163Y(3)|p.Y163fs*1(2)|p.Y163D(2)|p.Y163fs*7(2)|p.V157_C176del20(1)|p.Y163_Q165delYKQ(1)|p.P151_V173del23(1)|p.Y163fs*14(1)|p.S149fs*72(1)|p.A159_Q167delAMAIYKQSQ(1)|p.Y163fs*18(1)|p.I162_Y163delIY(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)		TGACTGCTTGTAGATGGCCAT	0.622		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)			33	82	---	---	---	---	PASS
MYH4	4622	broad.mit.edu	37	17	10356250	10356250	+	Splice_Site	SNP	C	A	A			TCGA-21-1076-01A-02D-1521-08	TCGA-21-1076-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:10356250C>A	uc002gmn.2	-	25	3223	c.3112_splice	c.e25-1	p.L1038_splice	uc002gml.1_Intron	NM_017533	NP_060003	Q9Y623	MYH4_HUMAN	myosin, heavy polypeptide 4, skeletal muscle						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						ATCCTTCAAGCTAAATTTATG	0.348													26	112	---	---	---	---	PASS
DNAH9	1770	broad.mit.edu	37	17	11672439	11672439	+	Missense_Mutation	SNP	G	T	T			TCGA-21-1076-01A-02D-1521-08	TCGA-21-1076-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:11672439G>T	uc002gne.2	+	38	7413	c.7345G>T	c.(7345-7347)GCG>TCG	p.A2449S	DNAH9_uc010coo.2_Missense_Mutation_p.A1743S	NM_001372	NP_001363	Q9NYC9	DYH9_HUMAN	dynein, axonemal, heavy chain 9 isoform 2	2449	AAA 3 (By similarity).				cell projection organization|cellular component movement|microtubule-based movement|spermatogenesis	axonemal dynein complex|cilium axoneme|cytoplasm|microtubule	ATP binding|ATPase activity|microtubule motor activity			skin(10)|ovary(4)|breast(3)|central_nervous_system(2)|pancreas(1)	20		Breast(5;0.0122)|all_epithelial(5;0.131)		Colorectal(4;6.88e-05)|COAD - Colon adenocarcinoma(4;0.000813)|READ - Rectum adenocarcinoma(10;0.157)		CCCATTCCAGGCGTGTTTGGT	0.597													22	85	---	---	---	---	PASS
TEKT3	64518	broad.mit.edu	37	17	15222447	15222447	+	Silent	SNP	C	A	A			TCGA-21-1076-01A-02D-1521-08	TCGA-21-1076-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:15222447C>A	uc002gon.2	-	5	868	c.681G>T	c.(679-681)CTG>CTT	p.L227L		NM_031898	NP_114104	Q9BXF9	TEKT3_HUMAN	tektin 3	227					microtubule cytoskeleton organization	cilium axoneme|flagellar axoneme|microtubule				ovary(2)	2				UCEC - Uterine corpus endometrioid carcinoma (92;0.0877)		CTTGACAACACAGAATAGTAT	0.294													4	47	---	---	---	---	PASS
CCDC144A	9720	broad.mit.edu	37	17	16612188	16612188	+	Nonsense_Mutation	SNP	C	T	T			TCGA-21-1076-01A-02D-1521-08	TCGA-21-1076-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:16612188C>T	uc002gqk.1	+	5	893	c.817C>T	c.(817-819)CAA>TAA	p.Q273*	CCDC144A_uc002gql.1_Intron|LOC162632_uc010cpj.1_5'Flank	NM_014695	NP_055510	A2RUR9	C144A_HUMAN	coiled-coil domain containing 144A	273											0						TCCTCATGTGCAAAAATCTGA	0.368													8	43	---	---	---	---	PASS
LGALS9C	654346	broad.mit.edu	37	17	18395776	18395776	+	Missense_Mutation	SNP	G	T	T			TCGA-21-1076-01A-02D-1521-08	TCGA-21-1076-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:18395776G>T	uc002gtw.2	+	9	748	c.678G>T	c.(676-678)ATG>ATT	p.M226I	LGALS9C_uc010vyb.1_Missense_Mutation_p.M138I	NM_001040078	NP_001035167	Q6DKI2	LEG9C_HUMAN	galectin 9 like	226							sugar binding			ovary(1)	1						GACAGCCGATGCCTTTCATCA	0.572													9	76	---	---	---	---	PASS
MMP28	79148	broad.mit.edu	37	17	34106336	34106336	+	Intron	SNP	G	A	A			TCGA-21-1076-01A-02D-1521-08	TCGA-21-1076-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:34106336G>A	uc002hjy.1	-						MMP28_uc002hjw.1_Intron|MMP28_uc002hjz.1_Intron|MMP28_uc002hka.2_Intron	NM_024302	NP_077278	Q9H239	MMP28_HUMAN	matrix metalloproteinase 28 isoform 1						proteolysis	proteinaceous extracellular matrix	calcium ion binding|metalloendopeptidase activity|zinc ion binding			skin(1)	1		Ovarian(249;0.17)		UCEC - Uterine corpus endometrioid carcinoma (308;0.0185)		GCCTGCGGGAGAGAGGAATAT	0.547													4	12	---	---	---	---	PASS
HEATR6	63897	broad.mit.edu	37	17	58151157	58151157	+	Missense_Mutation	SNP	G	C	C			TCGA-21-1076-01A-02D-1521-08	TCGA-21-1076-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:58151157G>C	uc002iyk.1	-	3	435	c.418C>G	c.(418-420)CTT>GTT	p.L140V	HEATR6_uc010wos.1_5'Flank	NM_022070	NP_071353	Q6AI08	HEAT6_HUMAN	HEAT repeat containing 6	140							binding			ovary(1)|skin(1)	2	all_cancers(5;2.25e-13)|Breast(5;4.84e-25)|all_neural(34;0.0878)|Medulloblastoma(34;0.0922)		BRCA - Breast invasive adenocarcinoma(1;5.93e-19)|Epithelial(12;7.59e-12)|all cancers(12;1.26e-10)			AGGGCTTGAAGAATTTCCCTG	0.383													12	78	---	---	---	---	PASS
HELZ	9931	broad.mit.edu	37	17	65145983	65145983	+	Missense_Mutation	SNP	C	A	A			TCGA-21-1076-01A-02D-1521-08	TCGA-21-1076-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:65145983C>A	uc010wqk.1	-	19	2665	c.2478G>T	c.(2476-2478)CAG>CAT	p.Q826H	HELZ_uc002jfv.3_RNA|HELZ_uc002jfx.3_Missense_Mutation_p.Q825H	NM_014877	NP_055692			helicase with zinc finger domain											ovary(1)|pancreas(1)	2	all_cancers(12;1.24e-11)|Breast(2;1.05e-17)|all_epithelial(3;3.87e-13)					GGGCACTTACCTGCATGTGAT	0.383													16	64	---	---	---	---	PASS
SDK2	54549	broad.mit.edu	37	17	71391492	71391492	+	Missense_Mutation	SNP	C	A	A			TCGA-21-1076-01A-02D-1521-08	TCGA-21-1076-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:71391492C>A	uc010dfm.2	-	25	3394	c.3394G>T	c.(3394-3396)GTG>TTG	p.V1132L	SDK2_uc002jjt.3_Missense_Mutation_p.V291L|SDK2_uc010dfn.2_Missense_Mutation_p.V811L	NM_001144952	NP_001138424	Q58EX2	SDK2_HUMAN	sidekick 2	1132	Extracellular (Potential).|Fibronectin type-III 6.				cell adhesion	integral to membrane				ovary(2)	2						TTATAGCCCACGGACTCAGGG	0.622													8	48	---	---	---	---	PASS
DTNA	1837	broad.mit.edu	37	18	32428337	32428337	+	Missense_Mutation	SNP	C	A	A	rs147541731		TCGA-21-1076-01A-02D-1521-08	TCGA-21-1076-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr18:32428337C>A	uc010dmn.1	+	13	1344	c.1343C>A	c.(1342-1344)TCC>TAC	p.S448Y	DTNA_uc010xbx.1_Intron|DTNA_uc002kxv.3_Missense_Mutation_p.S391Y|DTNA_uc002kxw.2_Missense_Mutation_p.S391Y|DTNA_uc010dmj.2_Missense_Mutation_p.S388Y|DTNA_uc002kxz.2_Missense_Mutation_p.S388Y|DTNA_uc002kxy.2_Missense_Mutation_p.S388Y|DTNA_uc010dml.2_Missense_Mutation_p.S388Y|DTNA_uc002kyb.3_Missense_Mutation_p.S445Y|DTNA_uc010dmm.2_Missense_Mutation_p.S448Y|DTNA_uc010xby.1_Missense_Mutation_p.S138Y|DTNA_uc010dmo.2_Missense_Mutation_p.S70Y|DTNA_uc002kyd.3_Missense_Mutation_p.S70Y|DTNA_uc010xbz.1_Missense_Mutation_p.S157Y|DTNA_uc010xca.1_Missense_Mutation_p.S100Y|DTNA_uc002kye.2_Missense_Mutation_p.S96Y	NM_001390	NP_001381	Q9Y4J8	DTNA_HUMAN	dystrobrevin alpha isoform 1	448	Syntrophin-binding region.				neuromuscular synaptic transmission|signal transduction|striated muscle contraction	cell junction|cytoplasm|synapse	calcium ion binding|protein binding|zinc ion binding				0						GCAGCAGAGTCCTCTTCGTCT	0.433													7	47	---	---	---	---	PASS
MOCOS	55034	broad.mit.edu	37	18	33800110	33800110	+	Silent	SNP	G	A	A			TCGA-21-1076-01A-02D-1521-08	TCGA-21-1076-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr18:33800110G>A	uc002kzq.3	+	9	1913	c.1890G>A	c.(1888-1890)CAG>CAA	p.Q630Q		NM_017947	NP_060417	Q96EN8	MOCOS_HUMAN	molybdenum cofactor sulfurase	630					Mo-molybdopterin cofactor biosynthetic process|water-soluble vitamin metabolic process	cytosol	lyase activity|Mo-molybdopterin cofactor sulfurase activity|molybdenum ion binding|pyridoxal phosphate binding			skin(1)	1					Pyridoxal Phosphate(DB00114)	GTCAGAAGCAGGAACCCCGGC	0.512													13	87	---	---	---	---	PASS
ADNP2	22850	broad.mit.edu	37	18	77895149	77895149	+	Missense_Mutation	SNP	C	T	T			TCGA-21-1076-01A-02D-1521-08	TCGA-21-1076-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr18:77895149C>T	uc002lnw.2	+	4	2308	c.1853C>T	c.(1852-1854)GCC>GTC	p.A618V		NM_014913	NP_055728	Q6IQ32	ADNP2_HUMAN	ADNP homeobox 2	618					cellular response to oxidative stress|cellular response to retinoic acid|negative regulation of cell death|neuron differentiation|positive regulation of cell growth	nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(4)|breast(3)|central_nervous_system(1)	8		all_cancers(4;1.06e-15)|all_epithelial(4;2.36e-10)|all_lung(4;0.000302)|Lung NSC(4;0.000518)|Esophageal squamous(42;0.0212)|Ovarian(4;0.0256)|all_hematologic(56;0.15)|Melanoma(33;0.2)		Epithelial(2;1.1e-11)|OV - Ovarian serous cystadenocarcinoma(15;7.54e-09)|BRCA - Breast invasive adenocarcinoma(31;0.00247)|STAD - Stomach adenocarcinoma(84;0.164)		TACACGCTGGCCCCCGTGTCT	0.602													12	66	---	---	---	---	PASS
ZNF554	115196	broad.mit.edu	37	19	2832368	2832368	+	Silent	SNP	A	T	T			TCGA-21-1076-01A-02D-1521-08	TCGA-21-1076-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:2832368A>T	uc002lwm.2	+	4	519	c.321A>T	c.(319-321)TCA>TCT	p.S107S	ZNF554_uc002lwl.2_Silent_p.S56S	NM_001102651	NP_001096121	Q86TJ5	ZN554_HUMAN	zinc finger protein 554	107	KRAB.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(1)	1		Hepatocellular(1079;0.137)		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)		CACAAACCTCACAAGTCACTA	0.453													27	151	---	---	---	---	PASS
KDM4B	23030	broad.mit.edu	37	19	5077390	5077390	+	Missense_Mutation	SNP	G	T	T			TCGA-21-1076-01A-02D-1521-08	TCGA-21-1076-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:5077390G>T	uc002mbq.3	+	8	915	c.689G>T	c.(688-690)GGG>GTG	p.G230V	KDM4B_uc010xil.1_Missense_Mutation_p.G230V|KDM4B_uc010xim.1_Missense_Mutation_p.G230V|KDM4B_uc002mbr.3_5'UTR	NM_015015	NP_055830	O94953	KDM4B_HUMAN	jumonji domain containing 2B	230	JmjC.				chromatin modification|regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	nucleic acid binding|oxidoreductase activity, acting on single donors with incorporation of molecular oxygen, incorporation of two atoms of oxygen|zinc ion binding			lung(1)	1						TTCTTCCCCGGGAGCTCGCAG	0.642													49	354	---	---	---	---	PASS
EMR1	2015	broad.mit.edu	37	19	6937277	6937277	+	Missense_Mutation	SNP	C	A	A			TCGA-21-1076-01A-02D-1521-08	TCGA-21-1076-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:6937277C>A	uc002mfw.2	+	19	2443	c.2405C>A	c.(2404-2406)GCC>GAC	p.A802D	EMR1_uc010dvc.2_Missense_Mutation_p.A737D|EMR1_uc010dvb.2_Missense_Mutation_p.A783D|EMR1_uc010xji.1_Missense_Mutation_p.A661D|EMR1_uc010xjj.1_Missense_Mutation_p.A625D	NM_001974	NP_001965	Q14246	EMR1_HUMAN	egf-like module containing, mucin-like, hormone	802	Helical; Name=6; (Potential).				cell adhesion|neuropeptide signaling pathway	integral to plasma membrane	calcium ion binding|G-protein coupled receptor activity			ovary(3)|lung(1)|skin(1)	5	all_hematologic(4;0.166)					AAGGCCTTTGCCCAGCTCTTC	0.542													31	158	---	---	---	---	PASS
C3P1	388503	broad.mit.edu	37	19	10157814	10157814	+	RNA	SNP	C	A	A			TCGA-21-1076-01A-02D-1521-08	TCGA-21-1076-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:10157814C>A	uc010dwx.1	+	10		c.1365C>A				NR_027300				Synthetic construct DNA, clone: pF1KB7402, Homo sapiens LOC388503 gene, without stop codon, in Flexi system.												0						CTCCCATTACCCCATCTCTGT	0.527													100	538	---	---	---	---	PASS
ICAM3	3385	broad.mit.edu	37	19	10444585	10444585	+	Missense_Mutation	SNP	G	T	T			TCGA-21-1076-01A-02D-1521-08	TCGA-21-1076-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:10444585G>T	uc002mob.2	-	7	1647	c.1592C>A	c.(1591-1593)ACG>AAG	p.T531K	RAVER1_uc002moa.2_5'Flank|ICAM3_uc010dxd.1_Missense_Mutation_p.T454K	NM_002162	NP_002153	P32942	ICAM3_HUMAN	intercellular adhesion molecule 3 precursor	531	Cytoplasmic (Potential).				cell-cell adhesion|regulation of immune response	integral to plasma membrane	integrin binding			upper_aerodigestive_tract(1)|ovary(1)|central_nervous_system(1)	3			OV - Ovarian serous cystadenocarcinoma(20;6.13e-09)|Epithelial(33;9.69e-06)|all cancers(31;2.05e-05)			CTGCATAGACGTGAGGGGCAG	0.587													27	203	---	---	---	---	PASS
SMARCA4	6597	broad.mit.edu	37	19	11118656	11118656	+	Missense_Mutation	SNP	G	T	T			TCGA-21-1076-01A-02D-1521-08	TCGA-21-1076-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:11118656G>T	uc002mqf.3	+	14	2364	c.2080G>T	c.(2080-2082)GAC>TAC	p.D694Y	SMARCA4_uc010dxp.2_Missense_Mutation_p.D694Y|SMARCA4_uc010dxo.2_Missense_Mutation_p.D694Y|SMARCA4_uc002mqg.1_Missense_Mutation_p.D694Y|SMARCA4_uc010dxq.2_Missense_Mutation_p.D694Y|SMARCA4_uc010dxr.2_Missense_Mutation_p.D694Y|SMARCA4_uc002mqj.3_Missense_Mutation_p.D694Y|SMARCA4_uc010dxs.2_Missense_Mutation_p.D694Y	NM_003072	NP_003063	P51532	SMCA4_HUMAN	SWI/SNF-related matrix-associated	694					chromatin remodeling|negative regulation of androgen receptor signaling pathway|negative regulation of cell growth|negative regulation of S phase of mitotic cell cycle|negative regulation of transcription from RNA polymerase II promoter|nervous system development|positive regulation of sequence-specific DNA binding transcription factor activity|positive regulation of transcription from RNA polymerase II promoter|transcription, DNA-dependent	nBAF complex|npBAF complex|nuclear chromatin|SWI/SNF complex|WINAC complex	androgen receptor binding|ATP binding|DNA binding|DNA-dependent ATPase activity|helicase activity|histone acetyl-lysine binding|identical protein binding|p53 binding|protein N-terminus binding|transcription corepressor activity	p.?(1)		lung(29)|ovary(8)|pancreas(7)|large_intestine(5)|central_nervous_system(5)|skin(3)|prostate(3)|breast(2)|adrenal_gland(1)|stomach(1)|liver(1)|autonomic_ganglia(1)|kidney(1)	67		all_lung(6;0.0512)|Lung NSC(9;0.0568)				TCCAGATCCAGACAGCGATGA	0.597			F|N|Mis		NSCLC				Rhabdoid_Predisposition_syndrome				6	57	---	---	---	---	PASS
MAN2B1	4125	broad.mit.edu	37	19	12769297	12769297	+	Missense_Mutation	SNP	G	C	C			TCGA-21-1076-01A-02D-1521-08	TCGA-21-1076-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:12769297G>C	uc002mub.2	-	8	1130	c.1054C>G	c.(1054-1056)CTC>GTC	p.L352V	MAN2B1_uc010dyv.1_Missense_Mutation_p.L351V	NM_000528	NP_000519	O00754	MA2B1_HUMAN	mannosidase, alpha, class 2B, member 1	352					protein deglycosylation	lysosome	alpha-mannosidase activity|zinc ion binding			ovary(4)|central_nervous_system(2)	6						GTGGAGTAGAGAACATGGACA	0.617													3	57	---	---	---	---	PASS
NWD1	284434	broad.mit.edu	37	19	16910890	16910890	+	Missense_Mutation	SNP	C	G	G			TCGA-21-1076-01A-02D-1521-08	TCGA-21-1076-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:16910890C>G	uc002neu.3	+	17	4075	c.3653C>G	c.(3652-3654)ACC>AGC	p.T1218S	NWD1_uc002net.3_Missense_Mutation_p.T1083S|NWD1_uc002nev.3_Missense_Mutation_p.T1012S			Q149M9	NWD1_HUMAN	RecName: Full=NACHT and WD repeat domain-containing protein 1;	1218	WD 10.						ATP binding			skin(3)|ovary(2)|pancreas(2)	7						ACCGGCCTCACCGCAGTGTCC	0.522													23	99	---	---	---	---	PASS
ARMC6	93436	broad.mit.edu	37	19	19168485	19168485	+	3'UTR	SNP	G	C	C			TCGA-21-1076-01A-02D-1521-08	TCGA-21-1076-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:19168485G>C	uc002nld.2	+	9					ARMC6_uc002nlc.2_3'UTR|ARMC6_uc010xql.1_Intron|ARMC6_uc002nle.2_3'UTR|ARMC6_uc010xqm.1_3'UTR	NM_033415	NP_219483	Q6NXE6	ARMC6_HUMAN	armadillo repeat containing 6								protein binding				0			OV - Ovarian serous cystadenocarcinoma(5;5.66e-06)|Epithelial(12;0.000391)			GTGTGACTCAGGAATGGGGGT	0.597													11	54	---	---	---	---	PASS
ZNF208	7757	broad.mit.edu	37	19	22154987	22154987	+	Missense_Mutation	SNP	C	A	A			TCGA-21-1076-01A-02D-1521-08	TCGA-21-1076-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:22154987C>A	uc002nqp.2	-	5	2698	c.2549G>T	c.(2548-2550)TGT>TTT	p.C850F	ZNF208_uc002nqo.1_Intron	NM_007153	NP_009084			zinc finger protein 208											ovary(5)|skin(2)	7		all_lung(12;0.0961)|Lung NSC(12;0.103)				GGCTTTGCCACATGCTTCACA	0.363													9	27	---	---	---	---	PASS
TSHZ3	57616	broad.mit.edu	37	19	31769875	31769875	+	Missense_Mutation	SNP	A	G	G			TCGA-21-1076-01A-02D-1521-08	TCGA-21-1076-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:31769875A>G	uc002nsy.3	-	2	889	c.824T>C	c.(823-825)CTG>CCG	p.L275P		NM_020856	NP_065907	Q63HK5	TSH3_HUMAN	zinc finger protein 537	275	C2H2-type 2.				negative regulation of transcription, DNA-dependent|regulation of respiratory gaseous exchange by neurological system process	growth cone|nucleus	chromatin binding|protein binding|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(4)|skin(2)|pancreas(1)|lung(1)	8	Esophageal squamous(110;0.226)					CATGCACTTCAGCACCTTCTG	0.507													23	401	---	---	---	---	PASS
DPY19L3	147991	broad.mit.edu	37	19	32971316	32971316	+	Missense_Mutation	SNP	A	G	G			TCGA-21-1076-01A-02D-1521-08	TCGA-21-1076-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:32971316A>G	uc002ntg.2	+	18	2018	c.1842A>G	c.(1840-1842)ATA>ATG	p.I614M	DPY19L3_uc002nth.1_Missense_Mutation_p.I614M|DPY19L3_uc002nti.1_RNA|DPY19L3_uc002ntj.1_Missense_Mutation_p.I36M	NM_207325	NP_997208	Q6ZPD9	D19L3_HUMAN	dpy-19-like 3	614						integral to membrane				ovary(4)	4	Esophageal squamous(110;0.162)					TTTATCAGATATATGCCAAGA	0.483													5	113	---	---	---	---	PASS
ANKRD27	84079	broad.mit.edu	37	19	33132955	33132955	+	Silent	SNP	G	C	C			TCGA-21-1076-01A-02D-1521-08	TCGA-21-1076-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:33132955G>C	uc002ntn.1	-	10	1035	c.879C>G	c.(877-879)CTC>CTG	p.L293L	ANKRD27_uc002nto.1_Silent_p.L293L	NM_032139	NP_115515	Q96NW4	ANR27_HUMAN	ankyrin repeat domain 27 (VPS9 domain)	293	VPS9.				early endosome to late endosome transport	early endosome|lysosome	GTPase activator activity|guanyl-nucleotide exchange factor activity			ovary(2)|skin(2)|pancreas(1)	5	Esophageal squamous(110;0.137)					ACTGTGTAATGAGCTGCACCA	0.498													11	340	---	---	---	---	PASS
ZNF383	163087	broad.mit.edu	37	19	37734025	37734025	+	Missense_Mutation	SNP	A	T	T			TCGA-21-1076-01A-02D-1521-08	TCGA-21-1076-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:37734025A>T	uc002oft.1	+	8	1467	c.887A>T	c.(886-888)CAA>CTA	p.Q296L	ZNF383_uc002ofs.1_Missense_Mutation_p.Q231L|ZNF383_uc002ofu.1_Missense_Mutation_p.Q296L	NM_152604	NP_689817	Q8NA42	ZN383_HUMAN	zinc finger protein 383	296	C2H2-type 5.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasm|nucleus	DNA binding|zinc ion binding			ovary(1)|skin(1)	2			COAD - Colon adenocarcinoma(19;0.114)|Colorectal(19;0.177)			AAGAGCTCACAACTTTTTCAG	0.388													14	66	---	---	---	---	PASS
PSG2	5670	broad.mit.edu	37	19	43576011	43576011	+	Missense_Mutation	SNP	C	A	A			TCGA-21-1076-01A-02D-1521-08	TCGA-21-1076-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:43576011C>A	uc002ovr.2	-	4	898	c.805G>T	c.(805-807)GCA>TCA	p.A269S	PSG6_uc002ovi.2_Intron|PSG6_uc010xwk.1_Intron|PSG2_uc002ovq.3_Missense_Mutation_p.A269S|PSG2_uc010eiq.1_Missense_Mutation_p.A269S|PSG2_uc002ovs.3_Missense_Mutation_p.A269S|PSG2_uc002ovt.3_Missense_Mutation_p.A269S	NM_031246	NP_112536	P11465	PSG2_HUMAN	pregnancy specific beta-1-glycoprotein 2	269	Ig-like C2-type 2.				cell migration|female pregnancy	extracellular region					0		Prostate(69;0.00682)				GAATACTGTGCCGGTGGGTTA	0.453													151	149	---	---	---	---	PASS
ZNF222	7673	broad.mit.edu	37	19	44536384	44536384	+	Missense_Mutation	SNP	C	T	T			TCGA-21-1076-01A-02D-1521-08	TCGA-21-1076-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:44536384C>T	uc002oyc.2	+	4	740	c.557C>T	c.(556-558)TCA>TTA	p.S186L	ZNF284_uc010ejd.2_Intron|ZNF222_uc002oye.2_Missense_Mutation_p.S226L|ZNF222_uc002oyd.2_Missense_Mutation_p.S132L	NM_013360	NP_037492	Q9UK12	ZN222_HUMAN	zinc finger protein 222 isoform 2	186	C2H2-type 2.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(3)	3		Prostate(69;0.0435)				AGTCAGAGCTCACGTCTGCAA	0.433													15	246	---	---	---	---	PASS
ZFP112	7771	broad.mit.edu	37	19	44844670	44844670	+	Missense_Mutation	SNP	C	T	T			TCGA-21-1076-01A-02D-1521-08	TCGA-21-1076-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:44844670C>T	uc010ejj.2	-	3	153	c.40G>A	c.(40-42)GCT>ACT	p.A14T	ZFP112_uc002ozc.3_Missense_Mutation_p.A8T|ZFP112_uc010xwy.1_Missense_Mutation_p.A31T|ZFP112_uc010xwz.1_Missense_Mutation_p.A13T	NM_001083335	NP_001076804	Q9UJU3	ZF112_HUMAN	zinc finger protein 228 isoform 1	14	KRAB.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(3)|skin(2)	5						AAGACCACAGCAACATCCTTG	0.502													86	144	---	---	---	---	PASS
CEACAM20	125931	broad.mit.edu	37	19	45029245	45029245	+	Missense_Mutation	SNP	C	G	G			TCGA-21-1076-01A-02D-1521-08	TCGA-21-1076-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:45029245C>G	uc010ejn.1	-	2	101	c.85G>C	c.(85-87)GCA>CCA	p.A29P	CEACAM20_uc010ejo.1_Missense_Mutation_p.A29P|CEACAM20_uc010ejp.1_Missense_Mutation_p.A29P|CEACAM20_uc010ejq.1_Missense_Mutation_p.A29P	NM_001102597	NP_001096067	Q6UY09	CEA20_HUMAN	carcinoembryonic antigen-related cell adhesion	29						integral to membrane				large_intestine(2)	2		Prostate(69;0.0352)				AGCTGGGCTGCAGCTGGAGGA	0.582													24	158	---	---	---	---	PASS
KLK2	3817	broad.mit.edu	37	19	51377982	51377982	+	Missense_Mutation	SNP	G	T	T	rs6072		TCGA-21-1076-01A-02D-1521-08	TCGA-21-1076-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:51377982G>T	uc002ptv.2	+	2	93	c.52G>T	c.(52-54)GTG>TTG	p.V18L	KLK2_uc010eog.2_Intron|KLK2_uc010yck.1_Missense_Mutation_p.V18L|KLK2_uc002ptu.2_Missense_Mutation_p.V18L|KLK2_uc002ptt.2_RNA|KLK2_uc010ycl.1_5'UTR|KLK2_uc010ycm.1_Intron|KLK2_uc010eoh.2_5'Flank	NM_005551	NP_005542	P20151	KLK2_HUMAN	kallikrein 2, prostatic isoform 1	18					proteolysis		serine-type endopeptidase activity			ovary(1)|skin(1)	2		all_neural(266;0.026)		OV - Ovarian serous cystadenocarcinoma(262;0.00758)|GBM - Glioblastoma multiforme(134;0.00871)		CGCAGGTGCCGTGCCCCTCAT	0.602			T	ETV4	prostate								14	85	---	---	---	---	PASS
LILRA3	11026	broad.mit.edu	37	19	54803681	54803681	+	Missense_Mutation	SNP	C	G	G			TCGA-21-1076-01A-02D-1521-08	TCGA-21-1076-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:54803681C>G	uc002qfd.2	-	3	208	c.143G>C	c.(142-144)AGG>ACG	p.R48T	LILRA6_uc002qew.1_Intron|LILRA3_uc010erk.2_Missense_Mutation_p.R48T	NM_006865	NP_006856	Q8N6C8	LIRA3_HUMAN	leukocyte immunoglobulin-like receptor,	48	Ig-like C2-type 1.				defense response	extracellular region|plasma membrane	antigen binding|receptor activity			ovary(1)	1	Ovarian(34;0.19)			GBM - Glioblastoma multiforme(193;0.105)		CCCCTGACACCTGAGGGTCAC	0.552													7	121	---	---	---	---	PASS
NLRP4	147945	broad.mit.edu	37	19	56390285	56390285	+	Missense_Mutation	SNP	T	C	C			TCGA-21-1076-01A-02D-1521-08	TCGA-21-1076-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:56390285T>C	uc002qmd.3	+	9	3244	c.2822T>C	c.(2821-2823)CTC>CCC	p.L941P	NLRP4_uc002qmf.2_Missense_Mutation_p.L866P|NLRP4_uc010etf.2_Missense_Mutation_p.L716P	NM_134444	NP_604393	Q96MN2	NALP4_HUMAN	NLR family, pyrin domain containing 4	941	LRR 7.						ATP binding			ovary(5)|skin(4)|lung(3)|upper_aerodigestive_tract(1)|kidney(1)|pancreas(1)	15		Colorectal(82;0.0002)|Ovarian(87;0.221)		GBM - Glioblastoma multiforme(193;0.0606)		GTGGTTGTACTCTGTGAGGCC	0.582													4	95	---	---	---	---	PASS
ZIM2	23619	broad.mit.edu	37	19	57286711	57286711	+	Missense_Mutation	SNP	G	C	C			TCGA-21-1076-01A-02D-1521-08	TCGA-21-1076-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:57286711G>C	uc002qnr.2	-	11	1311	c.929C>G	c.(928-930)ACT>AGT	p.T310S	uc010ygp.1_Intron|uc002qnp.1_Intron|ZIM2_uc010ygq.1_Missense_Mutation_p.T106S|ZIM2_uc010ygr.1_Missense_Mutation_p.T106S|ZIM2_uc002qnq.2_Missense_Mutation_p.T310S|ZIM2_uc010etp.2_Missense_Mutation_p.T310S|ZIM2_uc010ygs.1_Missense_Mutation_p.T310S	NM_015363	NP_056178	Q9NZV7	ZIM2_HUMAN	zinc finger, imprinted 2	310					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(3)	3		Colorectal(82;0.000256)|all_neural(62;0.103)|Ovarian(87;0.243)		GBM - Glioblastoma multiforme(193;0.0314)		TCCAGGAGCAGTGCCTTCCTG	0.448													18	89	---	---	---	---	PASS
SMOX	54498	broad.mit.edu	37	20	4163106	4163106	+	Missense_Mutation	SNP	A	T	T			TCGA-21-1076-01A-02D-1521-08	TCGA-21-1076-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr20:4163106A>T	uc002wkm.1	+	5	1181	c.980A>T	c.(979-981)CAT>CTT	p.H327L	SMOX_uc002wkk.1_Intron|SMOX_uc002wkl.1_Intron|SMOX_uc002wkn.1_Intron|SMOX_uc002wkp.2_Missense_Mutation_p.H327L|SMOX_uc010zqo.1_Intron|SMOX_uc002wko.1_Missense_Mutation_p.H327L	NM_175839	NP_787033	Q9NWM0	SMOX_HUMAN	spermine oxidase isoform 1	327					polyamine biosynthetic process|xenobiotic metabolic process	cytosol|nucleus	polyamine oxidase activity			breast(1)	1					Spermine(DB00127)	CCGGCGGACCATGTGATTGTG	0.642													21	94	---	---	---	---	PASS
TASP1	55617	broad.mit.edu	37	20	13463980	13463980	+	Silent	SNP	A	G	G			TCGA-21-1076-01A-02D-1521-08	TCGA-21-1076-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr20:13463980A>G	uc002woi.2	-	11	996	c.879T>C	c.(877-879)TGT>TGC	p.C293C	TASP1_uc010zri.1_RNA|TASP1_uc002woh.2_Silent_p.C270C|TASP1_uc010zrj.1_RNA	NM_017714	NP_060184	Q9H6P5	TASP1_HUMAN	taspase 1 precursor	293					asparagine catabolic process via L-aspartate|positive regulation of transcription, DNA-dependent|protein maturation		threonine-type endopeptidase activity				0						GATGCTCTCCACATCCTAGAA	0.438													16	83	---	---	---	---	PASS
CRNKL1	51340	broad.mit.edu	37	20	20033180	20033180	+	Missense_Mutation	SNP	T	A	A			TCGA-21-1076-01A-02D-1521-08	TCGA-21-1076-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr20:20033180T>A	uc002wrs.2	-	2	322	c.290A>T	c.(289-291)CAG>CTG	p.Q97L	C20orf26_uc010gcw.1_5'Flank|C20orf26_uc010zse.1_5'Flank|C20orf26_uc002wru.2_5'Flank|CRNKL1_uc002wrt.1_Missense_Mutation_p.Q85L	NM_016652	NP_057736	Q9BZJ0	CRNL1_HUMAN	crooked neck-like 1 protein	97					spliceosome assembly	catalytic step 2 spliceosome|cytoplasm|nuclear speck	RNA binding			ovary(2)|large_intestine(1)	3						GTGACCAGGCTGCGCGTCCTC	0.642													14	39	---	---	---	---	PASS
DEFB116	245930	broad.mit.edu	37	20	29891228	29891228	+	Missense_Mutation	SNP	C	A	A			TCGA-21-1076-01A-02D-1521-08	TCGA-21-1076-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr20:29891228C>A	uc010ztm.1	-	2	96	c.96G>T	c.(94-96)AAG>AAT	p.K32N		NM_001037731	NP_001032820	Q30KQ4	DB116_HUMAN	beta-defensin 116 precursor	32					defense response to bacterium	extracellular region					0	all_hematologic(12;0.158)		Colorectal(19;0.00254)|COAD - Colon adenocarcinoma(19;0.0347)			GCTCTCGGCTCTTGCCATTGT	0.453													24	137	---	---	---	---	PASS
ASXL1	171023	broad.mit.edu	37	20	31023858	31023858	+	Missense_Mutation	SNP	A	G	G			TCGA-21-1076-01A-02D-1521-08	TCGA-21-1076-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr20:31023858A>G	uc002wxs.2	+	12	3769	c.3343A>G	c.(3343-3345)AGC>GGC	p.S1115G	ASXL1_uc010geb.2_Missense_Mutation_p.S1006G	NM_015338	NP_056153	Q8IXJ9	ASXL1_HUMAN	additional sex combs like 1 isoform 1	1115					chromatin modification|regulation of transcription, DNA-dependent|transcription, DNA-dependent	PR-DUB complex	metal ion binding|protein binding			haematopoietic_and_lymphoid_tissue(239)|large_intestine(6)|central_nervous_system(2)|ovary(1)	248						GCTGCAGGGTAGCTTGCCCCT	0.567			F|N|Mis		MDS|CMML								21	96	---	---	---	---	PASS
SPINLW1	57119	broad.mit.edu	37	20	44166708	44166708	+	Missense_Mutation	SNP	T	A	A			TCGA-21-1076-01A-02D-1521-08	TCGA-21-1076-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr20:44166708T>A	uc010zxc.1	-	4	449	c.417A>T	c.(415-417)GAA>GAT	p.E139D	WFDC6_uc002xos.1_Missense_Mutation_p.E39D	NM_020398	NP_065131	O95925	EPPI_HUMAN	serine peptidase inhibitor-like, with Kunitz and	39	WAP.					extracellular region	serine-type endopeptidase inhibitor activity			pancreas(1)	1		Myeloproliferative disorder(115;0.0122)				CCACTTCGCATTCCACTTTGA	0.507													24	159	---	---	---	---	PASS
PCIF1	63935	broad.mit.edu	37	20	44569111	44569111	+	Intron	SNP	C	T	T			TCGA-21-1076-01A-02D-1521-08	TCGA-21-1076-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr20:44569111C>T	uc002xqs.2	+							NM_022104	NP_071387	Q9H4Z3	PCIF1_HUMAN	phosphorylated CTD interacting factor 1							nucleus				skin(1)	1						CTCCCTCCACCAGTCGGACCC	0.602													3	33	---	---	---	---	PASS
PREX1	57580	broad.mit.edu	37	20	47249075	47249075	+	Missense_Mutation	SNP	C	T	T			TCGA-21-1076-01A-02D-1521-08	TCGA-21-1076-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr20:47249075C>T	uc002xtw.1	-	34	4393	c.4370G>A	c.(4369-4371)GGT>GAT	p.G1457D	PREX1_uc002xtv.1_Missense_Mutation_p.G754D	NM_020820	NP_065871	Q8TCU6	PREX1_HUMAN	phosphatidylinositol-3,4,	1457					actin filament polymerization|apoptosis|induction of apoptosis by extracellular signals|nerve growth factor receptor signaling pathway|neutrophil activation|small GTPase mediated signal transduction|superoxide metabolic process	cytosol|plasma membrane	enzyme binding|phospholipid binding|Rho GTPase activator activity|Rho guanyl-nucleotide exchange factor activity			lung(3)|ovary(2)|pancreas(1)	6			BRCA - Breast invasive adenocarcinoma(12;0.0135)|Colorectal(8;0.198)			GCTGGCCCCACCCTCCAGGCG	0.647													11	81	---	---	---	---	PASS
TSHZ2	128553	broad.mit.edu	37	20	51870385	51870385	+	Missense_Mutation	SNP	G	T	T			TCGA-21-1076-01A-02D-1521-08	TCGA-21-1076-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr20:51870385G>T	uc002xwo.2	+	2	1344	c.388G>T	c.(388-390)GCC>TCC	p.A130S		NM_173485	NP_775756	Q9NRE2	TSH2_HUMAN	teashirt zinc finger homeobox 2	130					multicellular organismal development	nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(5)|haematopoietic_and_lymphoid_tissue(1)	6			STAD - Stomach adenocarcinoma(23;0.1)			CGCTGTCTACGCCAACATCCT	0.527													12	66	---	---	---	---	PASS
CASS4	57091	broad.mit.edu	37	20	55027803	55027803	+	Missense_Mutation	SNP	C	A	A			TCGA-21-1076-01A-02D-1521-08	TCGA-21-1076-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr20:55027803C>A	uc002xxp.2	+	6	1796	c.1571C>A	c.(1570-1572)TCC>TAC	p.S524Y	CASS4_uc002xxq.3_Missense_Mutation_p.S524Y|CASS4_uc002xxr.2_Missense_Mutation_p.S524Y|CASS4_uc010zze.1_Missense_Mutation_p.S470Y|CASS4_uc010gio.2_Intron	NM_001164116	NP_001157588	Q9NQ75	CASS4_HUMAN	HEF-like protein isoform a	524					cell adhesion	cytoplasm|cytoskeleton|focal adhesion	two-component sensor activity			ovary(2)|skin(1)	3						CAGACCATCTCCAACTCCTAC	0.488													12	59	---	---	---	---	PASS
ARFGAP1	55738	broad.mit.edu	37	20	61907487	61907487	+	Silent	SNP	G	A	A			TCGA-21-1076-01A-02D-1521-08	TCGA-21-1076-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr20:61907487G>A	uc002yem.2	+	3	217	c.105G>A	c.(103-105)GTG>GTA	p.V35V	ARFGAP1_uc011aas.1_Intron|ARFGAP1_uc011aat.1_5'UTR|ARFGAP1_uc002yel.2_Silent_p.V35V|ARFGAP1_uc002yen.2_Silent_p.V35V	NM_018209	NP_060679	Q8N6T3	ARFG1_HUMAN	ADP-ribosylation factor GTPase activating	35	C4-type.|Arf-GAP.				COPI coating of Golgi vesicle|protein transport|regulation of ARF GTPase activity|retrograde vesicle-mediated transport, Golgi to ER	cytosol|Golgi-associated vesicle membrane	ARF GTPase activator activity|zinc ion binding			pancreas(1)	1	all_cancers(38;1.59e-09)					GGGTCAGTGTGACCTACGGCA	0.627													43	188	---	---	---	---	PASS
Unknown	0	broad.mit.edu	37	21	10862921	10862921	+	IGR	SNP	A	G	G			TCGA-21-1076-01A-02D-1521-08	TCGA-21-1076-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr21:10862921A>G								None (None upstream) : TPTE (43822 downstream)																							GGTGTGCCCTAGTGATGGCAG	0.542													14	283	---	---	---	---	PASS
HIRA	7290	broad.mit.edu	37	22	19384472	19384472	+	Splice_Site	SNP	T	C	C			TCGA-21-1076-01A-02D-1521-08	TCGA-21-1076-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr22:19384472T>C	uc002zpf.1	-	7	714	c.494_splice	c.e7-1	p.E165_splice	HIRA_uc011agx.1_Splice_Site_p.E31_splice|HIRA_uc010grn.1_Splice_Site_p.E165_splice|HIRA_uc010gro.1_Splice_Site_p.E121_splice|HIRA_uc010grp.2_Splice_Site	NM_003325	NP_003316	P54198	HIRA_HUMAN	HIR histone cell cycle regulation defective						chromatin modification|regulation of transcription from RNA polymerase II promoter	PML body	chromatin binding|protein binding|sequence-specific DNA binding transcription factor activity|transcription corepressor activity			ovary(1)	1	Colorectal(54;0.0993)					CTAGAATTTCTGTGAAGAAAA	0.488													9	49	---	---	---	---	PASS
ASCC2	84164	broad.mit.edu	37	22	30198081	30198081	+	Silent	SNP	G	A	A			TCGA-21-1076-01A-02D-1521-08	TCGA-21-1076-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr22:30198081G>A	uc003agr.2	-	14	1575	c.1470C>T	c.(1468-1470)TGC>TGT	p.C490C	ASCC2_uc003ags.2_Intron|ASCC2_uc003agt.2_Silent_p.C490C|ASCC2_uc011akr.1_Silent_p.C414C	NM_032204	NP_115580	Q9H1I8	ASCC2_HUMAN	activating signal cointegrator 1 complex subunit	490	CUE.				regulation of transcription, DNA-dependent|transcription, DNA-dependent						0			OV - Ovarian serous cystadenocarcinoma(5;0.000103)|Epithelial(10;0.0169)|all cancers(5;0.0259)			AGTACTCCAGGCAGGCCAGGA	0.612													11	52	---	---	---	---	PASS
BPIL2	254240	broad.mit.edu	37	22	32810391	32810391	+	Missense_Mutation	SNP	C	A	A			TCGA-21-1076-01A-02D-1521-08	TCGA-21-1076-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr22:32810391C>A	uc003amn.2	-	15	1423	c.1423G>T	c.(1423-1425)GAC>TAC	p.D475Y	C22orf28_uc003amm.2_5'Flank|C22orf28_uc011ama.1_5'Flank|BPIL2_uc010gwo.2_Missense_Mutation_p.D232Y|BPIL2_uc011amb.1_Missense_Mutation_p.D199Y	NM_174932	NP_777592	Q8NFQ6	BPIL2_HUMAN	bactericidal/permeability-increasing	475						extracellular region	lipopolysaccharide binding|phospholipid binding			ovary(1)|skin(1)	2						TACTTCAGGTCGGTGGAAATC	0.493													7	93	---	---	---	---	PASS
APOL4	80832	broad.mit.edu	37	22	36595426	36595426	+	Intron	SNP	G	A	A			TCGA-21-1076-01A-02D-1521-08	TCGA-21-1076-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr22:36595426G>A	uc003aox.2	-						APOL4_uc003aow.2_Intron|APOL4_uc010gww.2_Intron|APOL4_uc003aoy.2_Intron	NM_145660	NP_663693	Q9BPW4	APOL4_HUMAN	apolipoprotein L4 isoform 2 precursor						lipid metabolic process|lipid transport|lipoprotein metabolic process	extracellular region	lipid binding				0						CTGCACCCTTGAGGAAGAGAA	0.552													15	65	---	---	---	---	PASS
FOXRED2	80020	broad.mit.edu	37	22	36894030	36894030	+	Intron	SNP	C	T	T			TCGA-21-1076-01A-02D-1521-08	TCGA-21-1076-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr22:36894030C>T	uc003apn.3	-						FOXRED2_uc003apm.3_Intron|FOXRED2_uc003apo.3_Intron|FOXRED2_uc003app.3_Intron	NM_024955	NP_079231	Q8IWF2	FXRD2_HUMAN	FAD-dependent oxidoreductase domain containing 2						ER-associated protein catabolic process	endoplasmic reticulum lumen	flavin adenine dinucleotide binding|oxidoreductase activity|protein binding			lung(1)|kidney(1)	2						TGGGGACGGGCTACTCACTCC	0.582													17	73	---	---	---	---	PASS
ENTHD1	150350	broad.mit.edu	37	22	40161370	40161370	+	Missense_Mutation	SNP	C	A	A			TCGA-21-1076-01A-02D-1521-08	TCGA-21-1076-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr22:40161370C>A	uc003ayg.2	-	6	1328	c.1077G>T	c.(1075-1077)CAG>CAT	p.Q359H		NM_152512	NP_689725	Q8IYW4	ENTD1_HUMAN	ENTH domain containing 1	359										ovary(2)|skin(1)	3	Melanoma(58;0.0749)					CTACAGAGGCCTGGTTATGGA	0.408													17	130	---	---	---	---	PASS
PNPLA5	150379	broad.mit.edu	37	22	44280221	44280221	+	Silent	SNP	C	G	G			TCGA-21-1076-01A-02D-1521-08	TCGA-21-1076-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr22:44280221C>G	uc003beg.2	-	7	1051	c.954G>C	c.(952-954)CTG>CTC	p.L318L	PNPLA5_uc011aqc.1_Silent_p.L178L|PNPLA5_uc003beh.2_Silent_p.L204L	NM_138814	NP_620169	Q7Z6Z6	PLPL5_HUMAN	patatin-like phospholipase domain containing 5	318					lipid catabolic process		hydrolase activity				0		all_neural(38;0.0966)|Ovarian(80;0.105)|Glioma(61;0.222)				ATGCTTTCTTCAGTGCTGCAA	0.627											OREG0026622	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	23	131	---	---	---	---	PASS
PNPLA3	80339	broad.mit.edu	37	22	44342622	44342622	+	3'UTR	SNP	G	T	T			TCGA-21-1076-01A-02D-1521-08	TCGA-21-1076-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr22:44342622G>T	uc003bei.1	+	9					PNPLA3_uc010gzm.1_Intron	NM_025225	NP_079501	Q9NST1	PLPL3_HUMAN	patatin-like phospholipase domain containing 3						triglyceride biosynthetic process|triglyceride catabolic process	integral to membrane	diolein transacylation activity|mono-olein transacylation activity|phospholipase A2 activity|triglyceride lipase activity				0		Ovarian(80;0.024)|all_neural(38;0.0416)				TGTGATGGGGGGTAGGCTGGC	0.542											OREG0026623	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	11	50	---	---	---	---	PASS
SBF1	6305	broad.mit.edu	37	22	50901147	50901147	+	Splice_Site	SNP	C	A	A			TCGA-21-1076-01A-02D-1521-08	TCGA-21-1076-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr22:50901147C>A	uc003blh.2	-	18	2164	c.1969_splice	c.e18-1	p.K657_splice	SBF1_uc011arx.1_Splice_Site_p.K321_splice|SBF1_uc003bli.2_Splice_Site_p.K658_splice	NM_002972	NP_002963	O95248	MTMR5_HUMAN	SET binding factor 1						protein dephosphorylation	integral to membrane|nucleus	protein tyrosine/serine/threonine phosphatase activity				0		all_cancers(38;5.78e-13)|all_epithelial(38;1.71e-11)|all_lung(38;3.89e-05)|Breast(42;0.000523)|Lung NSC(38;0.000992)|Ovarian(80;0.0221)|Hepatocellular(38;0.0691)|Lung SC(80;0.113)		BRCA - Breast invasive adenocarcinoma(115;0.206)|LUAD - Lung adenocarcinoma(64;0.247)		GGCTCAGCTTCTGCAGGAGCC	0.637													3	25	---	---	---	---	PASS
NCAPH2	29781	broad.mit.edu	37	22	50961585	50961585	+	Missense_Mutation	SNP	C	T	T			TCGA-21-1076-01A-02D-1521-08	TCGA-21-1076-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr22:50961585C>T	uc003blr.3	+	19	1789	c.1667C>T	c.(1666-1668)TCC>TTC	p.S556F	NCAPH2_uc003blv.2_Missense_Mutation_p.S556F|NCAPH2_uc010hbb.2_Intron|NCAPH2_uc003blu.3_RNA|NCAPH2_uc003bls.3_RNA|NCAPH2_uc003blt.3_RNA|NCAPH2_uc003blw.3_RNA|NCAPH2_uc003blx.3_Missense_Mutation_p.S557F|NCAPH2_uc003bly.3_RNA	NM_152299	NP_689512	Q6IBW4	CNDH2_HUMAN	kleisin beta isoform 2	556					chromosome condensation	chromosome|nucleus				ovary(1)|skin(1)	2		all_cancers(38;4.58e-14)|all_epithelial(38;1.12e-12)|all_lung(38;3.07e-05)|Breast(42;6.27e-05)|Lung NSC(38;0.000813)|Ovarian(80;0.0221)|Hepatocellular(38;0.0691)|Lung SC(80;0.113)		BRCA - Breast invasive adenocarcinoma(115;0.212)		ATGCTGGCCTCCCTGCAGCTG	0.637													4	39	---	---	---	---	PASS
FRMPD4	9758	broad.mit.edu	37	X	12736381	12736381	+	Missense_Mutation	SNP	C	G	G			TCGA-21-1076-01A-02D-1521-08	TCGA-21-1076-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chrX:12736381C>G	uc004cuz.1	+	16	3942	c.3436C>G	c.(3436-3438)CAA>GAA	p.Q1146E	FRMPD4_uc011mij.1_Missense_Mutation_p.Q1138E	NM_014728	NP_055543	Q14CM0	FRPD4_HUMAN	FERM and PDZ domain containing 4	1146					positive regulation of synapse structural plasticity	cytoskeleton|dendritic spine	phosphatidylinositol-4,5-bisphosphate binding|protein binding			central_nervous_system(5)|ovary(3)|skin(2)|large_intestine(1)|lung(1)|pancreas(1)	13						AGGACTTGGTCAAGGGGACCG	0.537													40	345	---	---	---	---	PASS
GLRA2	2742	broad.mit.edu	37	X	14550468	14550468	+	Missense_Mutation	SNP	A	T	T			TCGA-21-1076-01A-02D-1521-08	TCGA-21-1076-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chrX:14550468A>T	uc010nep.2	+	3	508	c.176A>T	c.(175-177)GAT>GTT	p.D59V	GLRA2_uc010neq.2_Missense_Mutation_p.D59V|GLRA2_uc004cwe.3_Missense_Mutation_p.D59V|GLRA2_uc011mio.1_5'UTR|GLRA2_uc011mip.1_Missense_Mutation_p.D37V	NM_001118885	NP_001112357	P23416	GLRA2_HUMAN	glycine receptor, alpha 2 isoform A	59	Extracellular (Probable).				neuropeptide signaling pathway	cell junction|chloride channel complex|integral to plasma membrane|postsynaptic membrane	extracellular-glycine-gated chloride channel activity|glycine binding|receptor activity|transmitter-gated ion channel activity			ovary(1)|lung(1)	2	Hepatocellular(33;0.128)				Ethanol(DB00898)|Glycine(DB00145)	TCAGGATATGATGCAAGAATC	0.378													10	113	---	---	---	---	PASS
BMX	660	broad.mit.edu	37	X	15526551	15526551	+	Silent	SNP	T	C	C			TCGA-21-1076-01A-02D-1521-08	TCGA-21-1076-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chrX:15526551T>C	uc004cww.2	+	2	263	c.75T>C	c.(73-75)AAT>AAC	p.N25N	BMX_uc004cwx.3_Silent_p.N25N|BMX_uc004cwy.3_Silent_p.N25N	NM_203281	NP_975010	P51813	BMX_HUMAN	BMX non-receptor tyrosine kinase	25	PH.				cellular component disassembly involved in apoptosis|intracellular signal transduction|mesoderm development	cytosol	ATP binding|metal ion binding|non-membrane spanning protein tyrosine kinase activity|protein binding|signal transducer activity			lung(3)|ovary(2)	5	Hepatocellular(33;0.183)					CACCAAATAATTACAAAGAAC	0.279													6	62	---	---	---	---	PASS
PTCHD1	139411	broad.mit.edu	37	X	23398078	23398078	+	Missense_Mutation	SNP	A	T	T			TCGA-21-1076-01A-02D-1521-08	TCGA-21-1076-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chrX:23398078A>T	uc004dal.3	+	2	730	c.722A>T	c.(721-723)CAG>CTG	p.Q241L	PTCHD1_uc010nfu.1_Missense_Mutation_p.Q241L	NM_173495	NP_775766	Q96NR3	PTHD1_HUMAN	patched domain containing 1	241					cognition|smoothened signaling pathway	integral to membrane|plasma membrane	hedgehog receptor activity			ovary(4)|kidney(1)|skin(1)	6						AGACTGTTTCAGAAATCCAAC	0.507													34	340	---	---	---	---	PASS
MAGEB16	139604	broad.mit.edu	37	X	35820883	35820883	+	Nonsense_Mutation	SNP	T	A	A			TCGA-21-1076-01A-02D-1521-08	TCGA-21-1076-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chrX:35820883T>A	uc010ngt.1	+	2	849	c.570T>A	c.(568-570)TAT>TAA	p.Y190*		NM_001099921	NP_001093391	A2A368	MAGBG_HUMAN	melanoma antigen family B, 16	190	MAGE.									lung(3)|ovary(2)|breast(1)|skin(1)	7						GCCTCACCTATGATGGGATGC	0.532													9	91	---	---	---	---	PASS
CYBB	1536	broad.mit.edu	37	X	37658245	37658245	+	Missense_Mutation	SNP	G	T	T			TCGA-21-1076-01A-02D-1521-08	TCGA-21-1076-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chrX:37658245G>T	uc004ddr.2	+	7	773	c.712G>T	c.(712-714)GTG>TTG	p.V238L	CYBB_uc011mke.1_RNA|CYBB_uc011mkf.1_Missense_Mutation_p.V206L|CYBB_uc011mkg.1_5'UTR	NM_000397	NP_000388	P04839	CY24B_HUMAN	cytochrome b-245 beta polypeptide	238	Extracellular (Potential).|Ferric oxidoreductase.				electron transport chain|inflammatory response|innate immune response|respiratory burst|superoxide anion generation	NADPH oxidase complex	electron carrier activity|flavin adenine dinucleotide binding|heme binding|protein heterodimerization activity|superoxide-generating NADPH oxidase activity|voltage-gated ion channel activity			central_nervous_system(1)|skin(1)	2						GAGTTTGGCTGTGCATAATAT	0.373													5	38	---	---	---	---	PASS
SRPX	8406	broad.mit.edu	37	X	38024093	38024093	+	Silent	SNP	G	C	C			TCGA-21-1076-01A-02D-1521-08	TCGA-21-1076-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chrX:38024093G>C	uc004ddy.1	-	5	668	c.582C>G	c.(580-582)CCC>CCG	p.P194P	SRPX_uc004ddz.1_Silent_p.P174P|SRPX_uc011mkh.1_Silent_p.P135P|SRPX_uc011mki.1_Silent_p.P194P	NM_006307	NP_006298	P78539	SRPX_HUMAN	sushi-repeat-containing protein, X-linked	194	HYR.				cell adhesion	cell surface|membrane					0						TCAGTTTGTTGGGTTCTGCAA	0.423													9	59	---	---	---	---	PASS
OTC	5009	broad.mit.edu	37	X	38229091	38229091	+	Missense_Mutation	SNP	G	A	A	rs72554338		TCGA-21-1076-01A-02D-1521-08	TCGA-21-1076-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chrX:38229091G>A	uc004def.3	+	3	473	c.259G>A	c.(259-261)GAG>AAG	p.E87K		NM_000531	NP_000522	P00480	OTC_HUMAN	ornithine carbamoyltransferase precursor	87			E -> K (in OTCD).		arginine biosynthetic process|urea cycle	mitochondrial matrix|ornithine carbamoyltransferase complex	ornithine carbamoyltransferase activity			ovary(1)|breast(1)	2					L-Citrulline(DB00155)|L-Ornithine(DB00129)	CATGATTTTTGAGAAAAGAAG	0.318													10	64	---	---	---	---	PASS
AKAP4	8852	broad.mit.edu	37	X	49955710	49955710	+	Missense_Mutation	SNP	C	A	A			TCGA-21-1076-01A-02D-1521-08	TCGA-21-1076-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chrX:49955710C>A	uc004dow.1	-	6	2582	c.2458G>T	c.(2458-2460)GGT>TGT	p.G820C	AKAP4_uc004dov.1_Missense_Mutation_p.G437C|AKAP4_uc010njp.1_Missense_Mutation_p.G642C|AKAP4_uc004dou.1_Missense_Mutation_p.G811C	NM_003886	NP_003877	Q5JQC9	AKAP4_HUMAN	A-kinase anchor protein 4 isoform 1	820					cell projection organization|single fertilization|sperm motility	cAMP-dependent protein kinase complex|cilium|cytoskeleton|microtubule-based flagellum	protein kinase A binding			kidney(3)|central_nervous_system(2)|ovary(1)|lung(1)|skin(1)	8	Ovarian(276;0.236)					TGAAGAAGACCTCCTACACTG	0.507													35	194	---	---	---	---	PASS
FAM120C	54954	broad.mit.edu	37	X	54107770	54107770	+	Missense_Mutation	SNP	C	T	T			TCGA-21-1076-01A-02D-1521-08	TCGA-21-1076-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chrX:54107770C>T	uc004dsz.3	-	14	3046	c.2963G>A	c.(2962-2964)GGT>GAT	p.G988D	FAM120C_uc011moh.1_Missense_Mutation_p.V851M	NM_017848	NP_060318	Q9NX05	F120C_HUMAN	hypothetical protein LOC54954	988										ovary(1)|central_nervous_system(1)	2						TCCTGGCCCACCGACAGAAAC	0.537													6	139	---	---	---	---	PASS
ITIH5L	347365	broad.mit.edu	37	X	54786271	54786271	+	Nonsense_Mutation	SNP	C	T	T			TCGA-21-1076-01A-02D-1521-08	TCGA-21-1076-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chrX:54786271C>T	uc004dtj.2	-	7	1023	c.993G>A	c.(991-993)TGG>TGA	p.W331*		NM_198510	NP_940912	Q6UXX5	ITH5L_HUMAN	inter-alpha (globulin) inhibitor H5-like	331	VWFA.				hyaluronan metabolic process	extracellular region	serine-type endopeptidase inhibitor activity			lung(2)|skin(2)|ovary(1)|breast(1)	6						CTCCAGCTTTCCAAACATTAA	0.468													15	66	---	---	---	---	PASS
ITIH5L	347365	broad.mit.edu	37	X	54800576	54800576	+	Missense_Mutation	SNP	C	G	G			TCGA-21-1076-01A-02D-1521-08	TCGA-21-1076-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chrX:54800576C>G	uc004dtj.2	-	6	871	c.841G>C	c.(841-843)GAG>CAG	p.E281Q		NM_198510	NP_940912	Q6UXX5	ITH5L_HUMAN	inter-alpha (globulin) inhibitor H5-like	281					hyaluronan metabolic process	extracellular region	serine-type endopeptidase inhibitor activity			lung(2)|skin(2)|ovary(1)|breast(1)	6						ACATTCTTCTCCATAGGTGGA	0.393													10	35	---	---	---	---	PASS
ARHGEF9	23229	broad.mit.edu	37	X	62974188	62974188	+	Missense_Mutation	SNP	G	T	T			TCGA-21-1076-01A-02D-1521-08	TCGA-21-1076-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chrX:62974188G>T	uc004dvl.2	-	1	844	c.5C>A	c.(4-6)ACG>AAG	p.T2K	ARHGEF9_uc004dvj.1_Intron|ARHGEF9_uc004dvk.1_5'UTR|ARHGEF9_uc011mos.1_Intron|ARHGEF9_uc004dvm.1_Intron|ARHGEF9_uc011mot.1_Intron|ARHGEF9_uc004dvn.2_Intron	NM_015185	NP_056000	O43307	ARHG9_HUMAN	Cdc42 guanine exchange factor 9	2					apoptosis|induction of apoptosis by extracellular signals|ion transmembrane transport|nerve growth factor receptor signaling pathway|regulation of Rho protein signal transduction|small GTPase mediated signal transduction|synaptic transmission	cytosol	Rho guanyl-nucleotide exchange factor activity			ovary(5)|large_intestine(1)|central_nervous_system(1)|pancreas(1)	8						ATATACCAACGTCATACATAT	0.418													8	56	---	---	---	---	PASS
MTMR8	55613	broad.mit.edu	37	X	63548673	63548673	+	Missense_Mutation	SNP	C	A	A			TCGA-21-1076-01A-02D-1521-08	TCGA-21-1076-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chrX:63548673C>A	uc004dvs.2	-	12	1528	c.1460G>T	c.(1459-1461)AGT>ATT	p.S487I	MTMR8_uc011mou.1_Intron	NM_017677	NP_060147	Q96EF0	MTMR8_HUMAN	myotubularin related protein 8	487	Myotubularin phosphatase.					nuclear envelope	protein tyrosine phosphatase activity			ovary(2)|breast(2)	4						GGGCACAGTACTAGGATTGAG	0.453													4	47	---	---	---	---	PASS
ZC4H2	55906	broad.mit.edu	37	X	64138987	64138987	+	Missense_Mutation	SNP	G	T	T			TCGA-21-1076-01A-02D-1521-08	TCGA-21-1076-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chrX:64138987G>T	uc004dvu.2	-	4	584	c.496C>A	c.(496-498)CAA>AAA	p.Q166K	ZC4H2_uc004dvv.2_Missense_Mutation_p.Q143K|ZC4H2_uc011mov.1_Missense_Mutation_p.Q143K|ZC4H2_uc011mow.1_Intron|ZC4H2_uc004dvw.1_3'UTR	NM_018684	NP_061154	Q9NQZ6	ZC4H2_HUMAN	zinc finger, C4H2 domain containing	166							metal ion binding|protein binding			ovary(1)	1						CTAGCCACTTGGAGCTGTTGG	0.582													12	39	---	---	---	---	PASS
OPHN1	4983	broad.mit.edu	37	X	67283827	67283827	+	Missense_Mutation	SNP	C	T	T			TCGA-21-1076-01A-02D-1521-08	TCGA-21-1076-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chrX:67283827C>T	uc004dww.3	-	21	2321	c.2027G>A	c.(2026-2028)AGG>AAG	p.R676K	OPHN1_uc011mpg.1_Intron	NM_002547	NP_002538	O60890	OPHN1_HUMAN	oligophrenin 1	676	Pro-rich.				axon guidance|endocytosis|filopodium assembly|small GTPase mediated signal transduction|substrate-dependent cell migration, cell extension	axon|cell junction|cytosol|dendritic spine|synapse	cytoskeletal adaptor activity|Rho GTPase activator activity|SH3 domain binding			ovary(2)	2						ATCCTGCAGCCTAGACACCAA	0.582													25	90	---	---	---	---	PASS
NLGN3	54413	broad.mit.edu	37	X	70389467	70389467	+	Silent	SNP	G	A	A			TCGA-21-1076-01A-02D-1521-08	TCGA-21-1076-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chrX:70389467G>A	uc004dzb.2	+	7	2311	c.2007G>A	c.(2005-2007)GGG>GGA	p.G669G	NLGN3_uc004dzc.2_Silent_p.G552G|NLGN3_uc011mps.1_Silent_p.G649G|NLGN3_uc004dze.2_Silent_p.G487G	NM_018977	NP_061850	Q9NZ94	NLGN3_HUMAN	neuroligin 3	689	Extracellular (Potential).				neuron cell-cell adhesion|positive regulation of synaptogenesis|receptor-mediated endocytosis|social behavior|synapse assembly	cell surface|endocytic vesicle|integral to plasma membrane|synapse	neurexin binding|receptor activity			ovary(1)	1	Renal(35;0.156)					CCTGGAACGGGGACCAGGATG	0.617													6	71	---	---	---	---	PASS
ITGB1BP2	26548	broad.mit.edu	37	X	70524911	70524911	+	Missense_Mutation	SNP	C	G	G			TCGA-21-1076-01A-02D-1521-08	TCGA-21-1076-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chrX:70524911C>G	uc004dzr.1	+	11	942	c.913C>G	c.(913-915)CAC>GAC	p.H305D	BCYRN1_uc011mpt.1_Intron|ITGB1BP2_uc004dzs.1_Missense_Mutation_p.H287D	NM_012278	NP_036410	Q9UKP3	ITBP2_HUMAN	integrin beta 1 binding protein 2	305					muscle organ development|signal transduction		SH3 domain binding			ovary(1)	1	Renal(35;0.156)					CCAGCTGGAGCACCCTGATGC	0.527													6	67	---	---	---	---	PASS
ERCC6L	54821	broad.mit.edu	37	X	71425953	71425953	+	Missense_Mutation	SNP	C	A	A			TCGA-21-1076-01A-02D-1521-08	TCGA-21-1076-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chrX:71425953C>A	uc004eaq.1	-	2	2761	c.2664G>T	c.(2662-2664)GAG>GAT	p.E888D	PIN4_uc004eao.1_Intron|ERCC6L_uc004eap.1_Missense_Mutation_p.E765D	NM_017669	NP_060139	Q2NKX8	ERC6L_HUMAN	excision repair protein ERCC6-like	888					cell division|mitotic prometaphase	condensed chromosome kinetochore|cytosol	ATP binding|DNA binding|helicase activity|protein binding			ovary(3)	3	Renal(35;0.156)					GACGTAAAATCTCATCATCCT	0.348													5	58	---	---	---	---	PASS
MAGEE1	57692	broad.mit.edu	37	X	75650843	75650843	+	Silent	SNP	G	A	A			TCGA-21-1076-01A-02D-1521-08	TCGA-21-1076-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chrX:75650843G>A	uc004ecm.1	+	1	2727	c.2520G>A	c.(2518-2520)CAG>CAA	p.Q840Q		NM_020932	NP_065983	Q9HCI5	MAGE1_HUMAN	melanoma antigen family E, 1	840	Interaction with DTNA (By similarity).|MAGE 2.					dendrite|nucleus|perinuclear region of cytoplasm|postsynaptic membrane				breast(3)|ovary(1)|pancreas(1)|skin(1)	6						TTTTGATGCAGGTCCTAAGCT	0.502													7	61	---	---	---	---	PASS
PCDH11X	27328	broad.mit.edu	37	X	91132791	91132791	+	Missense_Mutation	SNP	C	A	A			TCGA-21-1076-01A-02D-1521-08	TCGA-21-1076-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chrX:91132791C>A	uc004efk.1	+	2	2397	c.1552C>A	c.(1552-1554)CGT>AGT	p.R518S	PCDH11X_uc004efl.1_Missense_Mutation_p.R518S|PCDH11X_uc004efo.1_Missense_Mutation_p.R518S|PCDH11X_uc010nmv.1_Missense_Mutation_p.R518S|PCDH11X_uc004efm.1_Missense_Mutation_p.R518S|PCDH11X_uc004efn.1_Missense_Mutation_p.R518S|PCDH11X_uc004efh.1_Missense_Mutation_p.R518S|PCDH11X_uc004efj.1_Missense_Mutation_p.R518S	NM_032968	NP_116750	Q9BZA7	PC11X_HUMAN	protocadherin 11 X-linked isoform c	518	Cadherin 5.|Extracellular (Potential).				homophilic cell adhesion	integral to plasma membrane	calcium ion binding			large_intestine(2)	2						CCTGGATTGTCGTACAGGCAT	0.433													12	61	---	---	---	---	PASS
PCDH11X	27328	broad.mit.edu	37	X	91133515	91133515	+	Missense_Mutation	SNP	C	T	T			TCGA-21-1076-01A-02D-1521-08	TCGA-21-1076-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chrX:91133515C>T	uc004efk.1	+	2	3121	c.2276C>T	c.(2275-2277)CCT>CTT	p.P759L	PCDH11X_uc004efl.1_Missense_Mutation_p.P759L|PCDH11X_uc004efo.1_Missense_Mutation_p.P759L|PCDH11X_uc010nmv.1_Missense_Mutation_p.P759L|PCDH11X_uc004efm.1_Missense_Mutation_p.P759L|PCDH11X_uc004efn.1_Missense_Mutation_p.P759L|PCDH11X_uc004efh.1_Missense_Mutation_p.P759L|PCDH11X_uc004efj.1_Missense_Mutation_p.P759L	NM_032968	NP_116750	Q9BZA7	PC11X_HUMAN	protocadherin 11 X-linked isoform c	759	Cadherin 7.|Extracellular (Potential).				homophilic cell adhesion	integral to plasma membrane	calcium ion binding			large_intestine(2)	2						TTAGGACAGCCTGATTCTCTC	0.418													29	110	---	---	---	---	PASS
RPA4	29935	broad.mit.edu	37	X	96140101	96140101	+	3'UTR	SNP	G	T	T			TCGA-21-1076-01A-02D-1521-08	TCGA-21-1076-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chrX:96140101G>T	uc004efv.3	+	1					DIAPH2_uc004eft.3_Intron|DIAPH2_uc004efu.3_Intron|DIAPH2_uc004efs.2_Intron	NM_013347	NP_037479	Q13156	RFA4_HUMAN	replication protein A4, 34kDa						DNA damage checkpoint|DNA-dependent DNA replication initiation|G1/S transition of mitotic cell cycle|M/G1 transition of mitotic cell cycle|nucleotide-excision repair	DNA replication factor A complex|nucleoplasm	single-stranded DNA binding				0						ATTGAGGCAGGGAAAACATCC	0.433								Other_identified_genes_with_known_or_suspected_DNA_repair_function					4	77	---	---	---	---	PASS
BTK	695	broad.mit.edu	37	X	100611771	100611771	+	Splice_Site	SNP	C	A	A			TCGA-21-1076-01A-02D-1521-08	TCGA-21-1076-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chrX:100611771C>A	uc004ehg.2	-	14	1542	c.1349_splice	c.e14+1	p.M450_splice	BTK_uc004ehf.2_Intron|BTK_uc010nnh.2_Intron|BTK_uc010nni.2_Intron|BTK_uc004ehe.2_Splice_Site|BTK_uc010nnj.2_Splice_Site|BTK_uc010nnk.2_Intron|BTK_uc010nnl.2_Splice_Site_p.M20_splice|BTK_uc010nnm.2_Splice_Site_p.M20_splice|BTK_uc010nnn.2_Intron|BTK_uc010nno.2_Splice_Site_p.M484_splice|BTK_uc004ehh.1_Splice_Site|BTK_uc004ehi.2_Splice_Site_p.M450_splice	NM_000061	NP_000052	Q06187	BTK_HUMAN	Bruton agammaglobulinemia tyrosine kinase						calcium-mediated signaling|induction of apoptosis by extracellular signals|mesoderm development	cytosol|membrane raft|nucleus|plasma membrane	ATP binding|identical protein binding|metal ion binding|non-membrane spanning protein tyrosine kinase activity|phosphatidylinositol-3,4,5-trisphosphate binding			lung(3)|central_nervous_system(2)|ovary(1)	6						CTATAACTCACATCATGACTT	0.428									Agammaglobulinemia_X-linked				34	211	---	---	---	---	PASS
FAM199X	139231	broad.mit.edu	37	X	103432834	103432834	+	Missense_Mutation	SNP	C	A	A			TCGA-21-1076-01A-02D-1521-08	TCGA-21-1076-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chrX:103432834C>A	uc004elw.2	+	5	1009	c.843C>A	c.(841-843)AGC>AGA	p.S281R	FAM199X_uc004elx.2_Missense_Mutation_p.S98R	NM_207318	NP_997201	Q6PEV8	F199X_HUMAN	hypothetical protein LOC139231	281	Ser-rich.									ovary(1)	1						CCAGTGCCAGCGCCAGCAGCA	0.567													20	190	---	---	---	---	PASS
CLDN2	9075	broad.mit.edu	37	X	106171781	106171781	+	Missense_Mutation	SNP	G	T	T			TCGA-21-1076-01A-02D-1521-08	TCGA-21-1076-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chrX:106171781G>T	uc004emq.1	+	2	842	c.323G>T	c.(322-324)TGC>TTC	p.C108F	MORC4_uc004emp.3_Intron|CLDN2_uc004emt.1_Missense_Mutation_p.C108F	NM_020384	NP_065117	P57739	CLD2_HUMAN	claudin 2	108	Cytoplasmic (Potential).				calcium-independent cell-cell adhesion	integral to membrane|tight junction	identical protein binding|structural molecule activity			ovary(1)	1						ACAGTCTTCTGCCAGGAATCC	0.547													9	145	---	---	---	---	PASS
IL13RA2	3598	broad.mit.edu	37	X	114238647	114238647	+	Missense_Mutation	SNP	G	C	C			TCGA-21-1076-01A-02D-1521-08	TCGA-21-1076-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chrX:114238647G>C	uc004epx.2	-	10	1264	c.1139C>G	c.(1138-1140)ACA>AGA	p.T380R		NM_000640	NP_000631	Q14627	I13R2_HUMAN	interleukin 13 receptor, alpha 2 precursor	380	Cytoplasmic (Potential).					extracellular space|integral to membrane|soluble fraction	cytokine receptor activity			upper_aerodigestive_tract(1)|ovary(1)|lung(1)	3						AAGTCTTCATGTATCACAGAA	0.328													7	42	---	---	---	---	PASS
PLS3	5358	broad.mit.edu	37	X	114880810	114880810	+	Missense_Mutation	SNP	G	A	A			TCGA-21-1076-01A-02D-1521-08	TCGA-21-1076-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chrX:114880810G>A	uc004eqd.2	+	13	1856	c.1466G>A	c.(1465-1467)GGG>GAG	p.G489E	PLS3_uc010nqg.2_Missense_Mutation_p.G271E|PLS3_uc011mtf.1_Missense_Mutation_p.G476E|PLS3_uc004eqe.2_Missense_Mutation_p.G489E|PLS3_uc011mtg.1_Missense_Mutation_p.G462E|PLS3_uc011mth.1_Missense_Mutation_p.G444E|PLS3_uc011mti.1_Missense_Mutation_p.G165E|PLS3_uc011mtj.1_Missense_Mutation_p.G83E|PLS3_uc011mtk.1_Missense_Mutation_p.G150E|PLS3_uc011mtl.1_RNA	NM_005032	NP_005023	P13797	PLST_HUMAN	plastin 3	489	Actin-binding 2.|CH 3.					cytoplasm	actin binding|calcium ion binding			lung(1)|breast(1)	2						CTGAATGATGGGAACCAAACC	0.428													7	136	---	---	---	---	PASS
PGRMC1	10857	broad.mit.edu	37	X	118377201	118377201	+	Missense_Mutation	SNP	C	A	A			TCGA-21-1076-01A-02D-1521-08	TCGA-21-1076-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chrX:118377201C>A	uc004erb.2	+	3	688	c.572C>A	c.(571-573)GCC>GAC	p.A191D	PGRMC1_uc011mts.1_Missense_Mutation_p.A139D	NM_006667	NP_006658	O00264	PGRC1_HUMAN	progesterone receptor membrane component 1	191	Cytoplasmic (Potential).					cell surface|endoplasmic reticulum membrane|integral to membrane|microsome|nucleolus	heme binding|protein binding|receptor activity|steroid binding				0						GATGAGAGTGCCCGGAAAAAT	0.408													5	58	---	---	---	---	PASS
AKAP14	158798	broad.mit.edu	37	X	119053904	119053904	+	Missense_Mutation	SNP	G	C	C			TCGA-21-1076-01A-02D-1521-08	TCGA-21-1076-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chrX:119053904G>C	uc004ese.2	+	6	610	c.472G>C	c.(472-474)GAC>CAC	p.D158H	AKAP14_uc004esf.2_Missense_Mutation_p.D98H	NM_178813	NP_848928	Q86UN6	AKA28_HUMAN	A kinase (PRKA) anchor protein 14 isoform a	158						cytoplasm					0						TTATGTAGGTGACCACCAAGC	0.393													6	115	---	---	---	---	PASS
IGSF1	3547	broad.mit.edu	37	X	130678039	130678039	+	Intron	SNP	G	C	C			TCGA-21-1076-01A-02D-1521-08	TCGA-21-1076-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chrX:130678039G>C	uc004ewf.2	-						OR13H1_uc011muw.1_5'Flank	NM_001555	NP_001546	Q8N6C5	IGSF1_HUMAN	immunoglobulin superfamily, member 1 isoform 1						regulation of transcription, DNA-dependent	extracellular region|integral to membrane	inhibin beta-A binding|inhibin beta-B binding			ovary(3)|lung(1)|central_nervous_system(1)	5						ATAGTGGCAAGAGGGAAAGAT	0.408													17	70	---	---	---	---	PASS
HTATSF1	27336	broad.mit.edu	37	X	135593630	135593630	+	Nonsense_Mutation	SNP	G	T	T			TCGA-21-1076-01A-02D-1521-08	TCGA-21-1076-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chrX:135593630G>T	uc004ezw.2	+	10	2148	c.1726G>T	c.(1726-1728)GAG>TAG	p.E576*	HTATSF1_uc004ezx.2_Nonsense_Mutation_p.E576*	NM_001163280	NP_001156752	O43719	HTSF1_HUMAN	HIV-1 Tat specific factor 1	576	Asp/Glu-rich (acidic).|Mediates interaction with the P-TEFb complex.				regulation of transcription elongation, DNA-dependent|regulation of transcription from RNA polymerase II promoter|transcription, DNA-dependent|viral genome replication	nucleus	nucleotide binding|protein binding|RNA binding			ovary(2)|breast(1)	3	Acute lymphoblastic leukemia(192;0.000127)					AGATTTGGACGAGGAAGGTTC	0.393													13	64	---	---	---	---	PASS
Unknown	0	broad.mit.edu	37	1	48209045	48209047	+	IGR	DEL	GTG	-	-			TCGA-21-1076-01A-02D-1521-08	TCGA-21-1076-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:48209045_48209047delGTG								FOXD2 (302683 upstream) : SKINTL (358340 downstream)																							ggtggtggtagtggtggtggtgg	0.000													5	3	---	---	---	---	
MCOLN2	255231	broad.mit.edu	37	1	85412989	85412990	+	Intron	INS	-	CACA	CACA	rs150462929	by1000genomes	TCGA-21-1076-01A-02D-1521-08	TCGA-21-1076-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:85412989_85412990insCACA	uc001dkm.2	-						MCOLN2_uc001dkn.2_Intron	NM_153259	NP_694991	Q8IZK6	MCLN2_HUMAN	mucolipin 2							integral to membrane	ion channel activity			ovary(3)|upper_aerodigestive_tract(1)	4				all cancers(265;0.0111)|Epithelial(280;0.0263)|OV - Ovarian serous cystadenocarcinoma(397;0.217)		gcaccccccaccacacacacac	0.069													6	4	---	---	---	---	
SLC1A4	6509	broad.mit.edu	37	2	65231295	65231307	+	Intron	DEL	ATGGCCAAATACC	-	-	rs72295994		TCGA-21-1076-01A-02D-1521-08	TCGA-21-1076-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:65231295_65231307delATGGCCAAATACC	uc010yqa.1	+						SLC1A4_uc010ypy.1_Intron|SLC1A4_uc010ypz.1_Intron|SLC1A4_uc010fcv.2_Intron|SLC1A4_uc002sdh.2_Intron	NM_003038	NP_003029	P43007	SATT_HUMAN	solute carrier family 1, member 4 isoform 1						cellular nitrogen compound metabolic process|cognition|synaptic transmission, glutamatergic	intermediate filament|melanosome	chloride channel activity|L-alanine transmembrane transporter activity|L-cystine transmembrane transporter activity|L-hydroxyproline transmembrane transporter activity|L-proline transmembrane transporter activity|L-serine transmembrane transporter activity|L-threonine transmembrane transporter activity|sodium:dicarboxylate symporter activity			pancreas(1)	1					L-Alanine(DB00160)	TCCTTTGGTTATGGCCAAATACCATGGCCAAAT	0.347													5	3	---	---	---	---	
TBC1D8	11138	broad.mit.edu	37	2	101675674	101675675	+	Intron	DEL	TT	-	-			TCGA-21-1076-01A-02D-1521-08	TCGA-21-1076-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:101675674_101675675delTT	uc010fiv.2	-						TBC1D8_uc010yvw.1_Intron|TBC1D8_uc002tau.3_Intron	NM_001102426	NP_001095896	O95759	TBCD8_HUMAN	TBC1 domain family, member 8						blood circulation|positive regulation of cell proliferation	intracellular|membrane	calcium ion binding|Rab GTPase activator activity			ovary(3)	3						cagccAAGTCtttttttttttt	0.153													3	3	---	---	---	---	
ABCC5	10057	broad.mit.edu	37	3	183695545	183695546	+	Intron	INS	-	T	T			TCGA-21-1076-01A-02D-1521-08	TCGA-21-1076-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:183695545_183695546insT	uc003fmg.2	-						ABCC5_uc011bqt.1_Intron|ABCC5_uc010hxl.2_Intron	NM_005688	NP_005679	O15440	MRP5_HUMAN	ATP-binding cassette, sub-family C, member 5							integral to plasma membrane|membrane fraction	ATP binding|ATPase activity, coupled to transmembrane movement of substances|organic anion transmembrane transporter activity			ovary(2)|large_intestine(1)|central_nervous_system(1)	4	all_cancers(143;1.85e-10)|Ovarian(172;0.0303)		Epithelial(37;1.74e-35)|OV - Ovarian serous cystadenocarcinoma(80;6.48e-22)			AGTCAATTACAttttttttttt	0.218													4	2	---	---	---	---	
TCTEX1D2	255758	broad.mit.edu	37	3	196044026	196044027	+	Intron	DEL	GT	-	-			TCGA-21-1076-01A-02D-1521-08	TCGA-21-1076-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:196044026_196044027delGT	uc003fwi.2	-						TM4SF19_uc003fwj.2_Intron|uc003fwk.1_5'Flank	NM_152773	NP_689986	Q8WW35	TC1D2_HUMAN	Tctex1 domain containing 2								protein binding			ovary(1)|breast(1)	2	all_cancers(143;1.19e-08)|Ovarian(172;0.0634)|Breast(254;0.206)		Epithelial(36;3.94e-24)|all cancers(36;2.79e-22)|OV - Ovarian serous cystadenocarcinoma(49;8.53e-19)|LUSC - Lung squamous cell carcinoma(58;1.51e-06)|Lung(62;1.95e-06)	GBM - Glioblastoma multiforme(46;0.00314)		TTTTTTTTCAgtgtgtgtgtgt	0.292													2	4	---	---	---	---	
MFSD10	10227	broad.mit.edu	37	4	2934006	2934007	+	Intron	DEL	AG	-	-			TCGA-21-1076-01A-02D-1521-08	TCGA-21-1076-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:2934006_2934007delAG	uc003gfw.2	-						MFSD10_uc003gfv.2_5'Flank|MFSD10_uc003gfx.2_Intron|MFSD10_uc003gfz.2_Intron|MFSD10_uc003gfy.2_Intron|MFSD10_uc003gga.2_Intron|MFSD10_uc003ggb.1_Intron|MFSD10_uc003ggc.2_Intron|C4orf10_uc003ggd.1_5'Flank|C4orf10_uc003gge.1_5'Flank	NM_001120	NP_001111	Q14728	MFS10_HUMAN	major facilitator superfamily domain containing						apoptosis	integral to membrane	tetracycline transporter activity				0				UCEC - Uterine corpus endometrioid carcinoma (64;0.163)		GCTGGCACACAGGGGCACTTTA	0.653													9	4	---	---	---	---	
PLAC8	51316	broad.mit.edu	37	4	84028773	84028774	+	Intron	INS	-	T	T			TCGA-21-1076-01A-02D-1521-08	TCGA-21-1076-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:84028773_84028774insT	uc003hoe.2	-						PLAC8_uc011cco.1_Intron|PLAC8_uc010ijy.2_Intron|PLAC8_uc010ijz.2_Intron|PLAC8_uc003hod.2_Intron	NM_001130716	NP_001124188	Q9NZF1	PLAC8_HUMAN	placenta-specific 8											ovary(1)	1		Hepatocellular(203;0.114)				CATACGGAGGCttttttttttt	0.297													4	3	---	---	---	---	
FAM175A	84142	broad.mit.edu	37	4	84398555	84398556	+	Intron	INS	-	A	A	rs111579408		TCGA-21-1076-01A-02D-1521-08	TCGA-21-1076-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:84398555_84398556insA	uc003hou.2	-						FAM175A_uc003hov.2_Intron	NM_139076	NP_620775	Q6UWZ7	F175A_HUMAN	coiled-coil domain containing 98						chromatin modification|double-strand break repair|G2/M transition DNA damage checkpoint|positive regulation of DNA repair|response to ionizing radiation	BRCA1-A complex	polyubiquitin binding			kidney(1)	1						GTGTCCGAACCAAAAAAAAAAA	0.347													4	2	---	---	---	---	
FCHO2	115548	broad.mit.edu	37	5	72378704	72378704	+	Intron	DEL	T	-	-	rs11349696		TCGA-21-1076-01A-02D-1521-08	TCGA-21-1076-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:72378704delT	uc003kcl.2	+						FCHO2_uc011csl.1_Intron|FCHO2_uc010izb.2_Intron|FCHO2_uc011csn.1_Intron	NM_138782	NP_620137	Q0JRZ9	FCHO2_HUMAN	FCH domain only 2 isoform a											ovary(1)	1		Lung NSC(167;0.0465)|Ovarian(174;0.0908)|Prostate(461;0.165)		OV - Ovarian serous cystadenocarcinoma(47;4.6e-53)		TGAAAATTGAttttttttttt	0.144													6	3	---	---	---	---	
GPR98	84059	broad.mit.edu	37	5	90059081	90059081	+	Intron	DEL	T	-	-			TCGA-21-1076-01A-02D-1521-08	TCGA-21-1076-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:90059081delT	uc003kju.2	+						GPR98_uc003kjt.2_Intron	NM_032119	NP_115495	Q8WXG9	GPR98_HUMAN	G protein-coupled receptor 98 precursor						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)		GCTCTTTTTGTTTTTTTTTTT	0.289													9	4	---	---	---	---	
COL28A1	340267	broad.mit.edu	37	7	7413336	7413337	+	Intron	INS	-	T	T	rs35277875		TCGA-21-1076-01A-02D-1521-08	TCGA-21-1076-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:7413336_7413337insT	uc003src.1	-						COL28A1_uc011jxe.1_Intron	NM_001037763	NP_001032852	Q2UY09	COSA1_HUMAN	collagen, type XXVIII precursor						cell adhesion	basement membrane|collagen	serine-type endopeptidase inhibitor activity			skin(3)	3		Ovarian(82;0.0789)		UCEC - Uterine corpus endometrioid carcinoma (126;0.228)		ATTCTGGtttcttttttttttt	0.208													5	4	---	---	---	---	
KIAA0146	23514	broad.mit.edu	37	8	48614656	48614663	+	Intron	DEL	CTCTTACA	-	-	rs72232339	by1000genomes	TCGA-21-1076-01A-02D-1521-08	TCGA-21-1076-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:48614656_48614663delCTCTTACA	uc003xqd.2	+						KIAA0146_uc011ldb.1_Intron|KIAA0146_uc010lxs.2_Intron|KIAA0146_uc011ldc.1_Intron|KIAA0146_uc011ldd.1_Intron|KIAA0146_uc003xqe.2_Intron|KIAA0146_uc003xqf.2_Intron|KIAA0146_uc011lde.1_Intron|KIAA0146_uc010lxt.2_Intron|KIAA0146_uc011ldf.1_Intron|KIAA0146_uc011ldg.1_Intron	NM_001080394	NP_001073863	Q14159	K0146_HUMAN	hypothetical protein LOC23514												0		Lung NSC(58;0.175)				ctctctctctctctTacacacacacaca	0.159													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	8	96415908	96415914	+	IGR	DEL	TTTTTTT	-	-			TCGA-21-1076-01A-02D-1521-08	TCGA-21-1076-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:96415908_96415914delTTTTTTT								C8orf37 (134471 upstream) : GDF6 (738646 downstream)																							aataaaAGACttttttttttttttttt	0.217													4	2	---	---	---	---	
DENND3	22898	broad.mit.edu	37	8	142161551	142161563	+	Intron	DEL	TTGGGAGGCCAAG	-	-			TCGA-21-1076-01A-02D-1521-08	TCGA-21-1076-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:142161551_142161563delTTGGGAGGCCAAG	uc003yvy.2	+						DENND3_uc010mep.2_Intron	NM_014957	NP_055772	A2RUS2	DEND3_HUMAN	DENN/MADD domain containing 3											ovary(1)	1	all_cancers(97;7.36e-15)|all_epithelial(106;2.33e-13)|Lung NSC(106;1.23e-05)|all_lung(105;1.75e-05)|Ovarian(258;0.01)|Acute lymphoblastic leukemia(118;0.155)		BRCA - Breast invasive adenocarcinoma(115;0.105)			tcccatctgcttgggaggccaaggtgggaggat	0.000													3	3	---	---	---	---	
ERMP1	79956	broad.mit.edu	37	9	5797648	5797648	+	Intron	DEL	A	-	-			TCGA-21-1076-01A-02D-1521-08	TCGA-21-1076-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr9:5797648delA	uc003zjm.1	-						ERMP1_uc011lme.1_Intron|ERMP1_uc010mhs.1_Intron	NM_024896	NP_079172	Q7Z2K6	ERMP1_HUMAN	aminopeptidase Fxna						proteolysis	endoplasmic reticulum membrane|integral to membrane	metal ion binding|metallopeptidase activity			ovary(1)	1		Acute lymphoblastic leukemia(23;0.158)		GBM - Glioblastoma multiforme(50;0.00115)|Lung(218;0.111)		actccatctcaaaaaaaaaaa	0.159													5	3	---	---	---	---	
C9orf125	84302	broad.mit.edu	37	9	104239493	104239494	+	Intron	INS	-	AAAC	AAAC	rs67389871	by1000genomes	TCGA-21-1076-01A-02D-1521-08	TCGA-21-1076-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr9:104239493_104239494insAAAC	uc004bbm.2	-						uc004bbl.1_5'Flank	NM_032342	NP_115718	Q9BRR3	CI125_HUMAN	hypothetical protein LOC84302							integral to membrane					0		Acute lymphoblastic leukemia(62;0.0527)				GTAACTTaaaaaaacaaacaaa	0.351													7	6	---	---	---	---	
PTF1A	256297	broad.mit.edu	37	10	23482393	23482393	+	Intron	DEL	T	-	-	rs72117811		TCGA-21-1076-01A-02D-1521-08	TCGA-21-1076-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:23482393delT	uc001irp.2	+							NM_178161	NP_835455	Q7RTS3	PTF1A_HUMAN	pancreas specific transcription factor, 1a						endocrine pancreas development|exocrine pancreas development|regulation of transcription, DNA-dependent|tissue development|transcription, DNA-dependent	cytoplasm|transcription factor complex				pancreas(1)|skin(1)	2						GCGTTTCTCGttttttttttt	0.587													5	3	---	---	---	---	
FRG2B	441581	broad.mit.edu	37	10	135439939	135439940	+	Intron	INS	-	A	A			TCGA-21-1076-01A-02D-1521-08	TCGA-21-1076-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:135439939_135439940insA	uc010qvg.1	-							NM_001080998	NP_001074467	Q96QU4	FRG2B_HUMAN	FSHD region gene 2 family, member B							nucleus					0		all_cancers(35;7.01e-07)|all_epithelial(44;1.45e-05)|Lung NSC(174;0.027)|all_lung(145;0.0384)|all_neural(114;0.0726)|Glioma(114;0.172)|Melanoma(40;0.175)		OV - Ovarian serous cystadenocarcinoma(35;1.12e-06)|all cancers(32;1.43e-06)|Epithelial(32;1.71e-06)		ACACATTTCTCAAGTCCCCTGA	0.480													6	3	---	---	---	---	
ANKRD13A	88455	broad.mit.edu	37	12	110463770	110463770	+	Intron	DEL	T	-	-			TCGA-21-1076-01A-02D-1521-08	TCGA-21-1076-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:110463770delT	uc001tpx.2	+						ANKRD13A_uc009zvl.1_Intron|ANKRD13A_uc010sxw.1_Intron|ANKRD13A_uc001tpy.2_Intron|ANKRD13A_uc001tpz.2_5'Flank	NM_033121	NP_149112	Q8IZ07	AN13A_HUMAN	ankyrin repeat domain 13												0						TCTCTCTCTCttttttttttt	0.204													6	3	---	---	---	---	
MIR544	664613	broad.mit.edu	37	14	101514904	101514905	+	5'Flank	DEL	GT	-	-	rs112536165		TCGA-21-1076-01A-02D-1521-08	TCGA-21-1076-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr14:101514904_101514905delGT	hsa-mir-544|MI0003515	+						MIR655_hsa-mir-655|MI0003677_5'Flank																	0						CACCTCTGGGgtgtgtgtgtgt	0.312													5	4	---	---	---	---	
ABCC11	85320	broad.mit.edu	37	16	48265571	48265572	+	Intron	INS	-	A	A			TCGA-21-1076-01A-02D-1521-08	TCGA-21-1076-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr16:48265571_48265572insA	uc002eff.1	-						ABCC11_uc002efg.1_Intron|ABCC11_uc002efh.1_Intron|ABCC11_uc010vgl.1_Intron	NM_033151	NP_149163	Q96J66	ABCCB_HUMAN	ATP-binding cassette, sub-family C, member 11							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)				gaccctgagtcaaaaaaaaaaa	0.129									Cerumen_Type				4	4	---	---	---	---	
ZFPM1	161882	broad.mit.edu	37	16	88593211	88593211	+	Intron	DEL	T	-	-	rs35678431		TCGA-21-1076-01A-02D-1521-08	TCGA-21-1076-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr16:88593211delT	uc002fkv.2	+							NM_153813	NP_722520	Q8IX07	FOG1_HUMAN	zinc finger protein, multitype 1						blood coagulation|regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleoplasm	DNA binding|transcription factor binding|zinc ion binding			central_nervous_system(1)	1				BRCA - Breast invasive adenocarcinoma(80;0.0478)		GTTCCTACCCTCCCCCCCCAG	0.687													6	4	---	---	---	---	
SLC47A2	146802	broad.mit.edu	37	17	19608911	19608911	+	Intron	DEL	T	-	-	rs34629869		TCGA-21-1076-01A-02D-1521-08	TCGA-21-1076-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:19608911delT	uc002gwe.3	-						SLC47A2_uc002gwg.3_Intron|SLC47A2_uc002gwf.3_Intron|SLC47A2_uc002gwh.3_Intron|SLC47A2_uc002gwi.2_Intron|SLC47A2_uc010cqs.1_Intron|SLC47A2_uc010cqt.1_Intron	NM_152908	NP_690872	Q86VL8	S47A2_HUMAN	solute carrier family 47, member 2 isoform 1							integral to membrane|plasma membrane	drug:hydrogen antiporter activity				0	all_cancers(12;2.3e-05)|all_epithelial(12;0.0024)|Breast(13;0.245)					ACTCAGGGGCttttttttttt	0.348													6	3	---	---	---	---	
MAP2K3	5606	broad.mit.edu	37	17	21204581	21204584	+	Intron	DEL	TGTG	-	-	rs34743272		TCGA-21-1076-01A-02D-1521-08	TCGA-21-1076-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:21204581_21204584delTGTG	uc002gys.2	+						MAP2K3_uc002gyt.2_Intron|MAP2K3_uc002gyu.2_Intron	NM_145109	NP_659731	P46734	MP2K3_HUMAN	mitogen-activated protein kinase kinase 3						activation of MAPK activity|innate immune response|MyD88-dependent toll-like receptor signaling pathway|MyD88-independent toll-like receptor signaling pathway|positive regulation of transcription, DNA-dependent|stress-activated MAPK cascade|Toll signaling pathway|toll-like receptor 1 signaling pathway|toll-like receptor 2 signaling pathway|toll-like receptor 3 signaling pathway|toll-like receptor 4 signaling pathway	cytosol|nucleoplasm	ATP binding|MAP kinase kinase activity|protein binding|protein serine/threonine kinase activity|protein tyrosine kinase activity				0				COAD - Colon adenocarcinoma(3;0.0131)|Colorectal(15;0.0553)		CAGTTCTGTCTGTGTGACCATTCG	0.417													8	5	---	---	---	---	
NPEPPS	9520	broad.mit.edu	37	17	45646982	45646982	+	Intron	DEL	T	-	-			TCGA-21-1076-01A-02D-1521-08	TCGA-21-1076-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:45646982delT	uc002ilr.3	+						NPEPPS_uc010wkt.1_Intron|NPEPPS_uc010wku.1_Intron|NPEPPS_uc010dba.1_Intron	NM_006310	NP_006301	P55786	PSA_HUMAN	aminopeptidase puromycin sensitive						proteolysis	cytosol|nucleus	aminopeptidase activity|metallopeptidase activity|protein binding|zinc ion binding				0						TATTAAGAGCttttttttttt	0.169													4	3	---	---	---	---	
NAPG	8774	broad.mit.edu	37	18	10548537	10548537	+	Intron	DEL	T	-	-	rs1662154		TCGA-21-1076-01A-02D-1521-08	TCGA-21-1076-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr18:10548537delT	uc002kon.2	+						NAPG_uc010wzr.1_Intron|NAPG_uc002koo.2_Intron|NAPG_uc002kop.2_Intron	NM_003826	NP_003817	Q99747	SNAG_HUMAN	N-ethylmaleimide-sensitive factor attachment						cellular membrane fusion|intra-Golgi vesicle-mediated transport|intracellular protein transport|protein complex assembly|protein stabilization	membrane|membrane fraction|mitochondrion	protein binding				0						GTTTTACACCTTTTTTTTTTT	0.358													6	3	---	---	---	---	
ARHGEF18	23370	broad.mit.edu	37	19	7527344	7527344	+	Intron	DEL	T	-	-	rs139038534	by1000genomes	TCGA-21-1076-01A-02D-1521-08	TCGA-21-1076-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:7527344delT	uc002mgi.2	+						ARHGEF18_uc010xjm.1_Intron|ARHGEF18_uc002mgh.2_Intron|ARHGEF18_uc002mgj.1_Intron	NM_001130955	NP_001124427	Q6ZSZ5	ARHGI_HUMAN	Rho/Rac guanine nucleotide exchange factor 18						actin cytoskeleton organization|apoptosis|induction of apoptosis by extracellular signals|nerve growth factor receptor signaling pathway|regulation of cell shape|regulation of Rho protein signal transduction|small GTPase mediated signal transduction	cytosol	Rho guanyl-nucleotide exchange factor activity			ovary(1)	1		Renal(5;0.0902)				GGCTTCTATGTGGGGGGGGCC	0.493													4	2	---	---	---	---	
FAM187B	148109	broad.mit.edu	37	19	35719750	35719750	+	5'Flank	DEL	T	-	-			TCGA-21-1076-01A-02D-1521-08	TCGA-21-1076-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:35719750delT	uc002nyk.1	-							NM_152481	NP_689694	Q17R55	F187B_HUMAN	family with sequence similarity 187, member B							integral to membrane				ovary(2)	2						ACTGtttttcttttttttttt	0.249													6	4	---	---	---	---	
ZMYND8	23613	broad.mit.edu	37	20	45905655	45905655	+	Intron	DEL	A	-	-			TCGA-21-1076-01A-02D-1521-08	TCGA-21-1076-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr20:45905655delA	uc002xta.1	-						ZMYND8_uc010ghq.1_5'Flank|ZMYND8_uc010ghr.1_Intron|ZMYND8_uc002xst.1_Intron|ZMYND8_uc002xsu.1_Intron|ZMYND8_uc002xsv.1_Intron|ZMYND8_uc002xsw.1_Intron|ZMYND8_uc002xsx.1_Intron|ZMYND8_uc002xsy.1_Intron|ZMYND8_uc002xsz.1_Intron|ZMYND8_uc010zxy.1_Intron|ZMYND8_uc002xtb.1_Intron|ZMYND8_uc002xss.2_Intron|ZMYND8_uc010zxz.1_Intron|ZMYND8_uc002xtc.1_Intron|ZMYND8_uc002xtd.1_Intron|ZMYND8_uc002xte.1_Intron|ZMYND8_uc010zya.1_Intron|ZMYND8_uc002xtf.1_Intron|ZMYND8_uc002xtg.2_Intron|ZMYND8_uc010ghs.1_Intron	NM_012408	NP_036540	Q9ULU4	PKCB1_HUMAN	zinc finger, MYND-type containing 8 isoform b								protein binding|zinc ion binding			central_nervous_system(2)|urinary_tract(1)|ovary(1)|skin(1)	5			Epithelial(1;0.0289)|all cancers(1;0.0962)|OV - Ovarian serous cystadenocarcinoma(1;0.154)			TTATTCtattaaaaaaaaaaa	0.294													6	3	---	---	---	---	
DDX27	55661	broad.mit.edu	37	20	47845568	47845569	+	Intron	DEL	TT	-	-	rs11477123		TCGA-21-1076-01A-02D-1521-08	TCGA-21-1076-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr20:47845568_47845569delTT	uc002xuh.2	+							NM_017895	NP_060365	Q96GQ7	DDX27_HUMAN	DEAD (Asp-Glu-Ala-Asp) box polypeptide 27							nucleus	ATP binding|ATP-dependent helicase activity|nucleic acid binding|protein binding			kidney(2)	2			BRCA - Breast invasive adenocarcinoma(12;0.000899)|COAD - Colon adenocarcinoma(4;0.14)|Colorectal(8;0.166)			ACTGGAAGACtttttttttttt	0.262													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	20	49068651	49068651	+	IGR	DEL	A	-	-	rs71190560		TCGA-21-1076-01A-02D-1521-08	TCGA-21-1076-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr20:49068651delA								CEBPB (259439 upstream) : PTPN1 (58240 downstream)																							ggaaggaaggaaaggaaggaa	0.060													4	2	---	---	---	---	
TH1L	51497	broad.mit.edu	37	20	57561403	57561404	+	Intron	INS	-	T	T			TCGA-21-1076-01A-02D-1521-08	TCGA-21-1076-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr20:57561403_57561404insT	uc002yag.2	+						TH1L_uc010zzu.1_Intron|TH1L_uc002yaf.1_Intron|TH1L_uc002yah.2_Intron	NM_198976	NP_945327	Q8IXH7	NELFD_HUMAN	TH1-like protein						negative regulation of transcription, DNA-dependent|positive regulation of viral transcription|transcription elongation from RNA polymerase II promoter|viral reproduction	nucleoplasm	protein binding			upper_aerodigestive_tract(1)|ovary(1)|skin(1)	3	all_lung(29;0.00711)		Colorectal(105;0.109)			CCCTCTGCCACttttttttttt	0.228													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	21	10714026	10714027	+	IGR	INS	-	T	T	rs147845084		TCGA-21-1076-01A-02D-1521-08	TCGA-21-1076-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr21:10714026_10714027insT								None (None upstream) : TPTE (192716 downstream)																							cttctgtctagtttttatgtga	0.000													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	21	11114442	11114442	+	IGR	DEL	A	-	-	rs5842456		TCGA-21-1076-01A-02D-1521-08	TCGA-21-1076-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr21:11114442delA								BAGE (15505 upstream) : None (None downstream)																							TGCTTAGGTTAAATTTTTTTT	0.289													4	2	---	---	---	---	
GYG2	8908	broad.mit.edu	37	X	2774840	2774841	+	Intron	INS	-	ATCT	ATCT	rs142965389		TCGA-21-1076-01A-02D-1521-08	TCGA-21-1076-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chrX:2774840_2774841insATCT	uc004cqs.1	+						GYG2_uc004cqt.1_Intron|GYG2_uc004cqu.1_Intron|GYG2_uc004cqv.1_Intron|GYG2_uc004cqw.1_Intron|GYG2_uc004cqx.1_Intron|GYG2_uc010ndc.1_Intron	NM_003918	NP_003909	O15488	GLYG2_HUMAN	glycogenin 2 isoform b						glucose metabolic process|glycogen biosynthetic process|glycogen catabolic process	cytosol|soluble fraction	glycogenin glucosyltransferase activity			ovary(1)|kidney(1)	2		all_cancers(21;4.28e-07)|all_epithelial(21;2.07e-08)|all_lung(23;2.81e-05)|Lung NSC(23;0.000693)|Lung SC(21;0.122)				atctatctatcatctatctatc	0.173													5	3	---	---	---	---	
FAAH2	158584	broad.mit.edu	37	X	57458220	57458220	+	Intron	DEL	G	-	-	rs6521622		TCGA-21-1076-01A-02D-1521-08	TCGA-21-1076-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chrX:57458220delG	uc004dvc.2	+							NM_174912	NP_777572	Q6GMR7	FAAH2_HUMAN	fatty acid amide hydrolase 2							integral to membrane	carbon-nitrogen ligase activity, with glutamine as amido-N-donor|hydrolase activity			ovary(3)	3						ttgtttttttgttttttttgg	0.060										HNSCC(52;0.14)			3	3	---	---	---	---	
MORC4	79710	broad.mit.edu	37	X	106184602	106184609	+	3'UTR	DEL	GAGAGAGA	-	-			TCGA-21-1076-01A-02D-1521-08	TCGA-21-1076-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chrX:106184602_106184609delGAGAGAGA	uc004emu.3	-	17					MORC4_uc004emp.3_Intron|MORC4_uc004emv.3_3'UTR|MORC4_uc004emw.3_3'UTR	NM_024657	NP_078933	Q8TE76	MORC4_HUMAN	zinc finger, CW type with coiled-coil domain 2								ATP binding|zinc ion binding			ovary(1)	1						AGGTGAGGGTgagagagagagagagaga	0.284													4	2	---	---	---	---	
ALG13	79868	broad.mit.edu	37	X	111000722	111000722	+	Intron	DEL	T	-	-			TCGA-21-1076-01A-02D-1521-08	TCGA-21-1076-11A-01D-1521-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chrX:111000722delT	uc011msy.1	+						ALG13_uc011msx.1_Intron|ALG13_uc011msz.1_Intron|ALG13_uc011mta.1_Intron|ALG13_uc011mtb.1_Intron			Q9NP73	ALG13_HUMAN	SubName: Full=Asparagine-linked glycosylation 13 homolog (S. cerevisiae);						dolichol-linked oligosaccharide biosynthetic process|lipid glycosylation|post-translational protein modification|protein N-linked glycosylation via asparagine	endoplasmic reticulum membrane	carbohydrate binding|N-acetylglucosaminyldiphosphodolichol N-acetylglucosaminyltransferase activity			lung(1)	1						CCAATTCTTATTTTTTTTTTT	0.338													4	3	---	---	---	---	
