Hugo_Symbol	Entrez_Gene_Id	Center	NCBI_Build	Chromosome	Start_position	End_position	Strand	Variant_Classification	Variant_Type	Reference_Allele	Tumor_Seq_Allele1	Tumor_Seq_Allele2	dbSNP_RS	dbSNP_Val_Status	Tumor_Sample_Barcode	Matched_Norm_Sample_Barcode	Match_Norm_Seq_Allele1	Match_Norm_Seq_Allele2	Tumor_Validation_Allele1	Tumor_Validation_Allele2	Match_Norm_Validation_Allele1	Match_Norm_Validation_Allele2	Verification_Status	Validation_Status	Mutation_Status	Sequencing_Phase	Sequence_Source	Validation_Method	Score	BAM_file	Sequencer	Tumor_Sample_UUID	Matched_Norm_Sample_UUID	Genome_Change	Annotation_Transcript	Transcript_Strand	Transcript_Exon	Transcript_Position	cDNA_Change	Codon_Change	Protein_Change	Other_Transcripts	Refseq_mRNA_Id	Refseq_prot_Id	SwissProt_acc_Id	SwissProt_entry_Id	Description	UniProt_AApos	UniProt_Region	UniProt_Site	UniProt_Natural_Variations	UniProt_Experimental_Info	GO_Biological_Process	GO_Cellular_Component	GO_Molecular_Function	COSMIC_overlapping_mutations	COSMIC_fusion_genes	COSMIC_tissue_types_affected	COSMIC_total_alterations_in_gene	Tumorscape_Amplification_Peaks	Tumorscape_Deletion_Peaks	TCGAscape_Amplification_Peaks	TCGAscape_Deletion_Peaks	DrugBank	ref_context	gc_content	CCLE_ONCOMAP_overlapping_mutations	CCLE_ONCOMAP_total_mutations_in_gene	CGC_Mutation_Type	CGC_Translocation_Partner	CGC_Tumor_Types_Somatic	CGC_Tumor_Types_Germline	CGC_Other_Diseases	DNARepairGenes_Role	FamilialCancerDatabase_Syndromes	MUTSIG_Published_Results	OREGANNO_ID	OREGANNO_Values	t_alt_count	t_ref_count	validation_status	validation_method	validation_tumor_sample	validation_alt_allele	filter
TCEB3	6924	broad.mit.edu	37	1	24083610	24083610	+	Missense_Mutation	SNP	T	C	C			TCGA-18-3412-01A-01D-0983-08	TCGA-18-3412-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	84aca315-8380-4625-887f-a8b3c704c0a9	b5823b9b-ba3a-4d06-aae3-85a682d458f5	g.chr1:24083610T>C	uc001bho.2	+	10	2390	c.2330T>C	c.(2329-2331)GTG>GCG	p.V777A		NM_003198	NP_003189	Q14241	ELOA1_HUMAN	elongin A	777					positive regulation of viral transcription|regulation of transcription from RNA polymerase II promoter|transcription elongation from RNA polymerase II promoter|viral reproduction	integral to membrane	DNA binding			ovary(1)	1		Colorectal(325;3.46e-05)|Lung NSC(340;0.000112)|all_lung(284;0.00016)|Renal(390;0.000219)|Breast(348;0.0044)|Ovarian(437;0.00539)|Myeloproliferative disorder(586;0.0255)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0227)|OV - Ovarian serous cystadenocarcinoma(117;2.42e-24)|Colorectal(126;5.5e-08)|COAD - Colon adenocarcinoma(152;3.09e-06)|GBM - Glioblastoma multiforme(114;4.74e-06)|BRCA - Breast invasive adenocarcinoma(304;0.000973)|KIRC - Kidney renal clear cell carcinoma(1967;0.00334)|STAD - Stomach adenocarcinoma(196;0.0127)|READ - Rectum adenocarcinoma(331;0.0649)|Lung(427;0.0853)|LUSC - Lung squamous cell carcinoma(448;0.187)		AAACCCACTGTGAAGAGTAAG	0.458													36	7	---	---	---	---	PASS
CSMD2	114784	broad.mit.edu	37	1	34049275	34049275	+	Nonsense_Mutation	SNP	C	A	A			TCGA-18-3412-01A-01D-0983-08	TCGA-18-3412-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	84aca315-8380-4625-887f-a8b3c704c0a9	b5823b9b-ba3a-4d06-aae3-85a682d458f5	g.chr1:34049275C>A	uc001bxn.1	-	48	7242	c.7213G>T	c.(7213-7215)GAG>TAG	p.E2405*	CSMD2_uc001bxm.1_Nonsense_Mutation_p.E2403*	NM_052896	NP_443128	Q7Z408	CSMD2_HUMAN	CUB and Sushi multiple domains 2	2405	CUB 14.|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)				TATTGCTTCTCGCTGAGGAAG	0.413													4	81	---	---	---	---	PASS
CAP1	10487	broad.mit.edu	37	1	40530017	40530017	+	Missense_Mutation	SNP	T	C	C			TCGA-18-3412-01A-01D-0983-08	TCGA-18-3412-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	84aca315-8380-4625-887f-a8b3c704c0a9	b5823b9b-ba3a-4d06-aae3-85a682d458f5	g.chr1:40530017T>C	uc001cfa.3	+	5	642	c.413T>C	c.(412-414)ATC>ACC	p.I138T	CAP1_uc001cey.3_Missense_Mutation_p.I138T|CAP1_uc001cez.3_Missense_Mutation_p.I138T|CAP1_uc009vvz.2_Missense_Mutation_p.I138T|CAP1_uc010oje.1_Missense_Mutation_p.I55T	NM_006367	NP_006358	Q01518	CAP1_HUMAN	adenylyl cyclase-associated protein	138					activation of adenylate cyclase activity|axon guidance|establishment or maintenance of cell polarity|platelet activation|platelet degranulation|signal transduction	plasma membrane	actin binding			ovary(1)	1	Lung NSC(20;5.03e-06)|Ovarian(52;0.00167)|all_hematologic(146;0.0501)|Acute lymphoblastic leukemia(166;0.074)	Myeloproliferative disorder(586;0.0255)	OV - Ovarian serous cystadenocarcinoma(33;4.63e-18)|Epithelial(16;1.27e-16)|all cancers(16;2.3e-15)|LUSC - Lung squamous cell carcinoma(16;0.00146)|Lung(16;0.00204)			AGCGAAAGTATCCAGGCCCTG	0.517													36	11	---	---	---	---	PASS
EIF2B3	8891	broad.mit.edu	37	1	45444122	45444122	+	Silent	SNP	C	A	A			TCGA-18-3412-01A-01D-0983-08	TCGA-18-3412-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	84aca315-8380-4625-887f-a8b3c704c0a9	b5823b9b-ba3a-4d06-aae3-85a682d458f5	g.chr1:45444122C>A	uc001cmt.1	-	3	286	c.159G>T	c.(157-159)GTG>GTT	p.V53V	EIF2B3_uc001cmu.1_Silent_p.V53V|EIF2B3_uc001cmv.1_Silent_p.V53V|EIF2B3_uc001cmw.2_Silent_p.V53V	NM_020365	NP_065098	Q9NR50	EI2BG_HUMAN	eukaryotic translation initiation factor 2B,	53					negative regulation of translational initiation in response to stress|oligodendrocyte development|response to glucose stimulus|response to heat|response to peptide hormone stimulus	cytosol|eukaryotic translation initiation factor 2B complex	nucleotidyltransferase activity|protein binding|translation initiation factor activity			ovary(1)	1	Acute lymphoblastic leukemia(166;0.155)					TGGTTGTAACCACAATGACTT	0.348													5	117	---	---	---	---	PASS
GPBP1L1	60313	broad.mit.edu	37	1	46099321	46099321	+	Splice_Site	SNP	T	A	A			TCGA-18-3412-01A-01D-0983-08	TCGA-18-3412-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	84aca315-8380-4625-887f-a8b3c704c0a9	b5823b9b-ba3a-4d06-aae3-85a682d458f5	g.chr1:46099321T>A	uc001coq.2	-	10	2247	c.886_splice	c.e10-1	p.S296_splice	GPBP1L1_uc001coo.2_Splice_Site_p.S40_splice	NM_021639	NP_067652	Q9HC44	GPBL1_HUMAN	GC-rich promoter binding protein 1-like 1						regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding			ovary(1)	1	Acute lymphoblastic leukemia(166;0.155)					GGAGGGACTCTGGGCAAATAC	0.502													16	3	---	---	---	---	PASS
PRKAA2	5563	broad.mit.edu	37	1	57140174	57140174	+	Missense_Mutation	SNP	G	A	A			TCGA-18-3412-01A-01D-0983-08	TCGA-18-3412-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	84aca315-8380-4625-887f-a8b3c704c0a9	b5823b9b-ba3a-4d06-aae3-85a682d458f5	g.chr1:57140174G>A	uc001cyk.3	+	2	286	c.215G>A	c.(214-216)CGT>CAT	p.R72H		NM_006252	NP_006243	P54646	AAPK2_HUMAN	AMP-activated protein kinase alpha 2 catalytic	72	Protein kinase.				carnitine shuttle|cell cycle arrest|cholesterol biosynthetic process|energy reserve metabolic process|fatty acid biosynthetic process|insulin receptor signaling pathway|regulation of fatty acid biosynthetic process|regulation of fatty acid oxidation	cytosol|nucleoplasm	ATP binding|metal ion binding			breast(4)|ovary(1)|stomach(1)	6						AAACTCTTTCGTCATCCTCAT	0.269													18	38	---	---	---	---	PASS
FGGY	55277	broad.mit.edu	37	1	60139733	60139733	+	Missense_Mutation	SNP	A	T	T			TCGA-18-3412-01A-01D-0983-08	TCGA-18-3412-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	84aca315-8380-4625-887f-a8b3c704c0a9	b5823b9b-ba3a-4d06-aae3-85a682d458f5	g.chr1:60139733A>T	uc001czi.3	+	14	1652	c.1440A>T	c.(1438-1440)CAA>CAT	p.Q480H	FGGY_uc001czh.2_RNA|FGGY_uc009wac.2_Missense_Mutation_p.Q504H|FGGY_uc001czj.3_Missense_Mutation_p.Q479H|FGGY_uc001czk.3_Missense_Mutation_p.Q368H|FGGY_uc001czl.3_Missense_Mutation_p.Q392H|FGGY_uc001czm.3_Missense_Mutation_p.Q181H	NM_018291	NP_060761	Q96C11	FGGY_HUMAN	FGGY carbohydrate kinase domain containing	480					carbohydrate metabolic process|cell death|neuron homeostasis		kinase activity|phosphotransferase activity, alcohol group as acceptor			ovary(1)	1	all_cancers(7;7.36e-05)					TCCTGTCGCAAGAGGTGGAGT	0.612													4	10	---	---	---	---	PASS
DOCK7	85440	broad.mit.edu	37	1	63100504	63100504	+	Silent	SNP	C	A	A			TCGA-18-3412-01A-01D-0983-08	TCGA-18-3412-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	84aca315-8380-4625-887f-a8b3c704c0a9	b5823b9b-ba3a-4d06-aae3-85a682d458f5	g.chr1:63100504C>A	uc001daq.2	-	9	1009	c.975G>T	c.(973-975)CTG>CTT	p.L325L	DOCK7_uc001dan.2_Silent_p.L217L|DOCK7_uc001dao.2_Silent_p.L217L|DOCK7_uc001dap.2_Silent_p.L325L|DOCK7_uc009wah.1_Silent_p.L325L	NM_033407	NP_212132	Q96N67	DOCK7_HUMAN	dedicator of cytokinesis 7	325					activation of Rac GTPase activity|axonogenesis|establishment of neuroblast polarity|microtubule cytoskeleton organization|positive regulation of peptidyl-serine phosphorylation	axon|basal part of cell|growth cone	GTP binding|guanyl-nucleotide exchange factor activity|Rac GTPase binding			ovary(2)	2						CTGATCTTGCCAGGGTAGTAA	0.299													5	99	---	---	---	---	PASS
KCNA10	3744	broad.mit.edu	37	1	111060834	111060834	+	Silent	SNP	C	T	T			TCGA-18-3412-01A-01D-0983-08	TCGA-18-3412-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	84aca315-8380-4625-887f-a8b3c704c0a9	b5823b9b-ba3a-4d06-aae3-85a682d458f5	g.chr1:111060834C>T	uc001dzt.1	-	1	964	c.576G>A	c.(574-576)CTG>CTA	p.L192L		NM_005549	NP_005540	Q16322	KCA10_HUMAN	potassium voltage-gated channel, shaker-related	192						voltage-gated potassium channel complex	intracellular cyclic nucleotide activated cation channel activity|voltage-gated potassium channel activity			ovary(3)|large_intestine(1)	4		all_cancers(81;4.57e-06)|all_epithelial(167;1.52e-05)|all_lung(203;0.000152)|Lung NSC(277;0.000301)		Lung(183;0.0238)|all cancers(265;0.0874)|Colorectal(144;0.103)|Epithelial(280;0.116)|LUSC - Lung squamous cell carcinoma(189;0.134)		TGGTGGGTAGCAGTGTTTCAG	0.527													18	7	---	---	---	---	PASS
NBPF15	284565	broad.mit.edu	37	1	148594604	148594604	+	Missense_Mutation	SNP	C	G	G			TCGA-18-3412-01A-01D-0983-08	TCGA-18-3412-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	84aca315-8380-4625-887f-a8b3c704c0a9	b5823b9b-ba3a-4d06-aae3-85a682d458f5	g.chr1:148594604C>G	uc001esc.2	+	19	2466	c.1977C>G	c.(1975-1977)CAC>CAG	p.H659Q		NM_173638	NP_775909	Q8N660	NBPFF_HUMAN	hypothetical protein LOC284565	659	NBPF 6.					cytoplasm					0	all_hematologic(923;0.032)					CAAGTCTCCACCTGGTGTTCC	0.453													4	81	---	---	---	---	PASS
FLG	2312	broad.mit.edu	37	1	152286268	152286268	+	Missense_Mutation	SNP	G	T	T			TCGA-18-3412-01A-01D-0983-08	TCGA-18-3412-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	84aca315-8380-4625-887f-a8b3c704c0a9	b5823b9b-ba3a-4d06-aae3-85a682d458f5	g.chr1:152286268G>T	uc001ezu.1	-	3	1130	c.1094C>A	c.(1093-1095)TCT>TAT	p.S365Y	uc001ezv.2_RNA	NM_002016	NP_002007	P20930	FILA_HUMAN	filaggrin	365	Ser-rich.				keratinocyte differentiation	cytoplasmic membrane-bounded vesicle|intermediate filament	calcium ion binding|structural molecule activity			ovary(9)|skin(4)|upper_aerodigestive_tract(3)	16	Hepatocellular(266;0.0877)|Melanoma(130;0.116)|all_hematologic(923;0.127)		LUSC - Lung squamous cell carcinoma(543;0.206)			CTGTCCACGAGAGGAAGTCTC	0.562									Ichthyosis				7	270	---	---	---	---	PASS
ARHGEF11	9826	broad.mit.edu	37	1	156913790	156913790	+	Missense_Mutation	SNP	T	A	A			TCGA-18-3412-01A-01D-0983-08	TCGA-18-3412-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	84aca315-8380-4625-887f-a8b3c704c0a9	b5823b9b-ba3a-4d06-aae3-85a682d458f5	g.chr1:156913790T>A	uc001fqo.2	-	31	4092	c.3052A>T	c.(3052-3054)AGC>TGC	p.S1018C	ARHGEF11_uc010phu.1_Missense_Mutation_p.S434C|ARHGEF11_uc001fqn.2_Missense_Mutation_p.S1058C	NM_014784	NP_055599	O15085	ARHGB_HUMAN	Rho guanine nucleotide exchange factor (GEF) 11	1018	PH.				actin cytoskeleton organization|apoptosis|axon guidance|cellular component movement|cytokinesis|establishment of cell polarity|G-protein coupled receptor protein signaling pathway|induction of apoptosis by extracellular signals|nerve growth factor receptor signaling pathway|positive regulation of transcription, DNA-dependent|regulation of cell growth|regulation of Rho protein signal transduction|Rho protein signal transduction|striated muscle contraction	cytosol|Golgi apparatus|plasma membrane	G-protein-coupled receptor binding|GTPase activator activity|Rho guanyl-nucleotide exchange factor activity|signal transducer activity			ovary(3)|skin(2)|pleura(1)|lung(1)|kidney(1)|pancreas(1)	9	all_hematologic(923;0.0839)|Hepatocellular(266;0.158)					GTCTGCTTGCTGTCTGAGGAG	0.592													23	27	---	---	---	---	PASS
OR6K3	391114	broad.mit.edu	37	1	158687691	158687691	+	Missense_Mutation	SNP	C	A	A			TCGA-18-3412-01A-01D-0983-08	TCGA-18-3412-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	84aca315-8380-4625-887f-a8b3c704c0a9	b5823b9b-ba3a-4d06-aae3-85a682d458f5	g.chr1:158687691C>A	uc010pip.1	-	1	263	c.263G>T	c.(262-264)TGG>TTG	p.W88L		NM_001005327	NP_001005327	Q8NGY3	OR6K3_HUMAN	olfactory receptor, family 6, subfamily K,	88	Helical; Name=2; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)|kidney(1)|central_nervous_system(1)	3	all_hematologic(112;0.0378)					TGTGGTGTACCAGATCTCCAG	0.423													59	71	---	---	---	---	PASS
OR10J5	127385	broad.mit.edu	37	1	159505361	159505361	+	Missense_Mutation	SNP	C	G	G			TCGA-18-3412-01A-01D-0983-08	TCGA-18-3412-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	84aca315-8380-4625-887f-a8b3c704c0a9	b5823b9b-ba3a-4d06-aae3-85a682d458f5	g.chr1:159505361C>G	uc010piw.1	-	1	437	c.437G>C	c.(436-438)TGT>TCT	p.C146S		NM_001004469	NP_001004469	Q8NHC4	O10J5_HUMAN	olfactory receptor, family 10, subfamily J,	146	Helical; Name=4; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			skin(2)|ovary(1)	3	all_hematologic(112;0.0429)					AAAGGACCCACACACCAGCTG	0.512													23	33	---	---	---	---	PASS
KCNJ9	3765	broad.mit.edu	37	1	160057308	160057308	+	Missense_Mutation	SNP	G	T	T			TCGA-18-3412-01A-01D-0983-08	TCGA-18-3412-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	84aca315-8380-4625-887f-a8b3c704c0a9	b5823b9b-ba3a-4d06-aae3-85a682d458f5	g.chr1:160057308G>T	uc001fuy.1	+	3	1125	c.883G>T	c.(883-885)GTA>TTA	p.V295L		NM_004983	NP_004974	Q92806	IRK9_HUMAN	potassium inwardly-rectifying channel subfamily	295	Cytoplasmic (By similarity).				synaptic transmission	integral to membrane|plasma membrane	G-protein activated inward rectifier potassium channel activity|protein binding			ovary(1)|skin(1)	2	all_cancers(52;5.86e-16)|all_hematologic(112;0.093)		BRCA - Breast invasive adenocarcinoma(70;0.111)			CTCCTACCTGGTAGACGAGGT	0.582													4	44	---	---	---	---	PASS
HMCN1	83872	broad.mit.edu	37	1	186106962	186106962	+	Silent	SNP	T	C	C			TCGA-18-3412-01A-01D-0983-08	TCGA-18-3412-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	84aca315-8380-4625-887f-a8b3c704c0a9	b5823b9b-ba3a-4d06-aae3-85a682d458f5	g.chr1:186106962T>C	uc001grq.1	+	89	14011	c.13782T>C	c.(13780-13782)CTT>CTC	p.L4594L	HMCN1_uc001grs.1_Silent_p.L163L	NM_031935	NP_114141	Q96RW7	HMCN1_HUMAN	hemicentin 1 precursor	4594	TSP type-1 2.				response to stimulus|visual perception	basement membrane	calcium ion binding			ovary(22)|skin(1)	23						AATGGAGTCTTTGGGAAGAAT	0.488													34	42	---	---	---	---	PASS
RASSF5	83593	broad.mit.edu	37	1	206711563	206711563	+	Missense_Mutation	SNP	G	C	C			TCGA-18-3412-01A-01D-0983-08	TCGA-18-3412-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	84aca315-8380-4625-887f-a8b3c704c0a9	b5823b9b-ba3a-4d06-aae3-85a682d458f5	g.chr1:206711563G>C	uc001hed.2	+	2	577	c.520G>C	c.(520-522)GAG>CAG	p.E174Q	RASSF5_uc001hec.1_Missense_Mutation_p.E174Q|RASSF5_uc001hee.2_Missense_Mutation_p.E174Q	NM_182663	NP_872604	Q8WWW0	RASF5_HUMAN	Ras association (RalGDS/AF-6) domain family 5	174					apoptosis|intracellular signal transduction	cytoplasm|microtubule	metal ion binding|protein binding			ovary(1)	1	Breast(84;0.183)		BRCA - Breast invasive adenocarcinoma(75;0.166)			CAGTCAGCAGGAGGGTTTATC	0.547													13	60	---	---	---	---	PASS
OR2T8	343172	broad.mit.edu	37	1	248085236	248085236	+	Missense_Mutation	SNP	G	T	T			TCGA-18-3412-01A-01D-0983-08	TCGA-18-3412-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	84aca315-8380-4625-887f-a8b3c704c0a9	b5823b9b-ba3a-4d06-aae3-85a682d458f5	g.chr1:248085236G>T	uc010pzc.1	+	1	917	c.917G>T	c.(916-918)TGT>TTT	p.C306F		NM_001005522	NP_001005522	A6NH00	OR2T8_HUMAN	olfactory receptor, family 2, subfamily T,	306	Cytoplasmic (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity				0	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;0.0211)	OV - Ovarian serous cystadenocarcinoma(106;0.0319)			ATGGGTCGGTGTGTGGCCTTA	0.423													26	60	---	---	---	---	PASS
FAM84A	151354	broad.mit.edu	37	2	14774177	14774177	+	Missense_Mutation	SNP	A	T	T			TCGA-18-3412-01A-01D-0983-08	TCGA-18-3412-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	84aca315-8380-4625-887f-a8b3c704c0a9	b5823b9b-ba3a-4d06-aae3-85a682d458f5	g.chr2:14774177A>T	uc002rbz.1	+	2	316	c.74A>T	c.(73-75)GAA>GTA	p.E25V	FAM84A_uc002rca.1_5'Flank	NM_145175	NP_660158	Q96KN4	FA84A_HUMAN	family with sequence similarity 84, member A	25										pancreas(1)	1	Acute lymphoblastic leukemia(172;0.155)|all_hematologic(175;0.197)		GBM - Glioblastoma multiforme(1;0.00969)			TCGGGGATTGAAAAGGACGAA	0.622													7	24	---	---	---	---	PASS
RAD51AP2	729475	broad.mit.edu	37	2	17697653	17697653	+	Missense_Mutation	SNP	G	T	T			TCGA-18-3412-01A-01D-0983-08	TCGA-18-3412-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	84aca315-8380-4625-887f-a8b3c704c0a9	b5823b9b-ba3a-4d06-aae3-85a682d458f5	g.chr2:17697653G>T	uc002rcl.1	-	1	2054	c.2030C>A	c.(2029-2031)ACA>AAA	p.T677K	RAD51AP2_uc010exn.1_Missense_Mutation_p.T668K	NM_001099218	NP_001092688	Q09MP3	R51A2_HUMAN	RAD51 associated protein 2	677										ovary(1)	1	Acute lymphoblastic leukemia(172;0.155)|all_hematologic(175;0.158)					CGGAAAACCTGTATTTTGAGT	0.274													5	36	---	---	---	---	PASS
APOB	338	broad.mit.edu	37	2	21236080	21236080	+	Missense_Mutation	SNP	G	T	T			TCGA-18-3412-01A-01D-0983-08	TCGA-18-3412-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	84aca315-8380-4625-887f-a8b3c704c0a9	b5823b9b-ba3a-4d06-aae3-85a682d458f5	g.chr2:21236080G>T	uc002red.2	-	25	4296	c.4168C>A	c.(4168-4170)CAC>AAC	p.H1390N		NM_000384	NP_000375	P04114	APOB_HUMAN	apolipoprotein B precursor	1390					cholesterol homeostasis|cholesterol metabolic process|leukocyte migration|low-density lipoprotein particle clearance|low-density lipoprotein particle remodeling|platelet activation|positive regulation of cholesterol storage|positive regulation of macrophage derived foam cell differentiation|receptor-mediated endocytosis|response to virus	chylomicron remnant|clathrin-coated endocytic vesicle membrane|endoplasmic reticulum lumen|endoplasmic reticulum membrane|endosome lumen|endosome membrane|intermediate-density lipoprotein particle|low-density lipoprotein particle|mature chylomicron|microsome|plasma membrane|very-low-density lipoprotein particle	cholesterol transporter activity|enzyme binding|heparin binding|low-density lipoprotein particle receptor binding|phospholipid binding|protein heterodimerization activity			ovary(11)|skin(9)|central_nervous_system(3)|large_intestine(2)|upper_aerodigestive_tract(1)|pancreas(1)	27	Acute lymphoblastic leukemia(172;0.155)|all_hematologic(175;0.215)				Atorvastatin(DB01076)	GCCTTCATGTGGTAACGAGCC	0.532													6	167	---	---	---	---	PASS
UBXN2A	165324	broad.mit.edu	37	2	24199905	24199905	+	Missense_Mutation	SNP	G	A	A			TCGA-18-3412-01A-01D-0983-08	TCGA-18-3412-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	84aca315-8380-4625-887f-a8b3c704c0a9	b5823b9b-ba3a-4d06-aae3-85a682d458f5	g.chr2:24199905G>A	uc010exy.2	+	5	715	c.247G>A	c.(247-249)GAT>AAT	p.D83N	UBXN2A_uc002rem.2_RNA|UBXN2A_uc002ren.2_Missense_Mutation_p.D83N|UBXN2A_uc010ykj.1_Missense_Mutation_p.D83N	NM_181713	NP_859064	P68543	UBX2A_HUMAN	UBX domain containing 4	83	SEP.										0						AAGTTATTCCGATGGTGCCAG	0.284													6	74	---	---	---	---	PASS
PNPT1	87178	broad.mit.edu	37	2	55895077	55895077	+	Silent	SNP	G	C	C	rs147013543		TCGA-18-3412-01A-01D-0983-08	TCGA-18-3412-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	84aca315-8380-4625-887f-a8b3c704c0a9	b5823b9b-ba3a-4d06-aae3-85a682d458f5	g.chr2:55895077G>C	uc002rzf.2	-	12	1046	c.993C>G	c.(991-993)GCC>GCG	p.A331A	PNPT1_uc002rzg.2_RNA	NM_033109	NP_149100	Q8TCS8	PNPT1_HUMAN	polyribonucleotide nucleotidyltransferase 1	331					mRNA catabolic process|RNA processing	plasma membrane	3'-5'-exoribonuclease activity|polyribonucleotide nucleotidyltransferase activity|RNA binding				0			LUSC - Lung squamous cell carcinoma(58;0.127)|Lung(47;0.132)			CATATGGATCGGCTTCTGGAA	0.279													8	23	---	---	---	---	PASS
WDR54	84058	broad.mit.edu	37	2	74652764	74652764	+	Nonsense_Mutation	SNP	C	A	A			TCGA-18-3412-01A-01D-0983-08	TCGA-18-3412-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	84aca315-8380-4625-887f-a8b3c704c0a9	b5823b9b-ba3a-4d06-aae3-85a682d458f5	g.chr2:74652764C>A	uc002slb.2	+	10	1001	c.941C>A	c.(940-942)TCA>TAA	p.S314*		NM_032118	NP_115494	Q9H977	WDR54_HUMAN	WD repeat domain 54	314											0						TGTGATTCCTCAGGCAACTCC	0.557													6	175	---	---	---	---	PASS
IL1R2	7850	broad.mit.edu	37	2	102632492	102632492	+	Silent	SNP	C	T	T			TCGA-18-3412-01A-01D-0983-08	TCGA-18-3412-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	84aca315-8380-4625-887f-a8b3c704c0a9	b5823b9b-ba3a-4d06-aae3-85a682d458f5	g.chr2:102632492C>T	uc002tbm.2	+	4	721	c.492C>T	c.(490-492)GAC>GAT	p.D164D	IL1R2_uc002tbn.2_Silent_p.D164D|IL1R2_uc002tbo.1_Silent_p.D164D	NM_004633	NP_004624	P27930	IL1R2_HUMAN	interleukin 1 receptor, type II precursor	164	Extracellular (Potential).|Ig-like C2-type 2.				immune response	integral to membrane|plasma membrane	interleukin-1, Type II, blocking receptor activity			ovary(1)|breast(1)	2					Anakinra(DB00026)	ACAAAACTGACGTGAAGATTC	0.378													7	24	---	---	---	---	PASS
GPR39	2863	broad.mit.edu	37	2	133402844	133402844	+	Missense_Mutation	SNP	C	A	A			TCGA-18-3412-01A-01D-0983-08	TCGA-18-3412-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	84aca315-8380-4625-887f-a8b3c704c0a9	b5823b9b-ba3a-4d06-aae3-85a682d458f5	g.chr2:133402844C>A	uc002ttl.2	+	2	1496	c.1027C>A	c.(1027-1029)CTG>ATG	p.L343M	LYPD1_uc002ttm.3_3'UTR|LYPD1_uc002ttn.2_3'UTR|LYPD1_uc002tto.2_3'UTR	NM_001508	NP_001499	O43194	GPR39_HUMAN	G protein-coupled receptor 39	343	Helical; Name=7; (Potential).					integral to plasma membrane	G-protein coupled receptor activity|metal ion binding				0						CAACCCGCTCCTGTACACGGT	0.622													5	54	---	---	---	---	PASS
BAZ2B	29994	broad.mit.edu	37	2	160294950	160294950	+	Missense_Mutation	SNP	G	T	T			TCGA-18-3412-01A-01D-0983-08	TCGA-18-3412-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	84aca315-8380-4625-887f-a8b3c704c0a9	b5823b9b-ba3a-4d06-aae3-85a682d458f5	g.chr2:160294950G>T	uc002uao.2	-	8	1509	c.1157C>A	c.(1156-1158)CCT>CAT	p.P386H	BAZ2B_uc002uap.2_Missense_Mutation_p.P384H|BAZ2B_uc002uas.1_Missense_Mutation_p.P323H|BAZ2B_uc002uau.1_Missense_Mutation_p.P384H|BAZ2B_uc002uaq.1_Missense_Mutation_p.P314H|BAZ2B_uc002uat.3_3'UTR|BAZ2B_uc010fop.1_Missense_Mutation_p.P384H	NM_013450	NP_038478	Q9UIF8	BAZ2B_HUMAN	bromodomain adjacent to zinc finger domain, 2B	386					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|protein binding|zinc ion binding			ovary(3)|skin(1)	4						CAAAGATAAAGGTTTCACATT	0.383													6	53	---	---	---	---	PASS
CSRNP3	80034	broad.mit.edu	37	2	166532891	166532891	+	Missense_Mutation	SNP	G	A	A			TCGA-18-3412-01A-01D-0983-08	TCGA-18-3412-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	84aca315-8380-4625-887f-a8b3c704c0a9	b5823b9b-ba3a-4d06-aae3-85a682d458f5	g.chr2:166532891G>A	uc002udf.2	+	6	854	c.478G>A	c.(478-480)GAC>AAC	p.D160N	CSRNP3_uc002udg.2_Missense_Mutation_p.D160N	NM_024969	NP_079245	Q8WYN3	CSRN3_HUMAN	cysteine-serine-rich nuclear protein 3	160					apoptosis|positive regulation of apoptosis|positive regulation of transcription from RNA polymerase II promoter	nucleus	DNA binding|sequence-specific DNA binding transcription factor activity			ovary(3)|large_intestine(1)|skin(1)	5						TTCTGATGATGACATTGACCT	0.423													46	212	---	---	---	---	PASS
CHN1	1123	broad.mit.edu	37	2	175664914	175664914	+	Missense_Mutation	SNP	G	A	A			TCGA-18-3412-01A-01D-0983-08	TCGA-18-3412-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	84aca315-8380-4625-887f-a8b3c704c0a9	b5823b9b-ba3a-4d06-aae3-85a682d458f5	g.chr2:175664914G>A	uc002uji.2	-	13	1840	c.1310C>T	c.(1309-1311)GCA>GTA	p.A437V	CHN1_uc010zeq.1_Missense_Mutation_p.A411V|CHN1_uc002ujj.2_Missense_Mutation_p.A212V|CHN1_uc002ujg.2_Missense_Mutation_p.A312V	NM_001822	NP_001813	P15882	CHIN_HUMAN	chimerin (chimaerin) 1 isoform a	437	Rho-GAP.				regulation of small GTPase mediated signal transduction|small GTPase mediated signal transduction	cytosol	GTPase activator activity|metal ion binding|SH3/SH2 adaptor activity			ovary(2)|skin(1)	3			OV - Ovarian serous cystadenocarcinoma(117;0.226)			ATCATTCAATGCAGCCATGGC	0.403			T	TAF15	extraskeletal myxoid chondrosarcoma								8	43	---	---	---	---	PASS
ZSWIM2	151112	broad.mit.edu	37	2	187709452	187709452	+	Missense_Mutation	SNP	T	A	A			TCGA-18-3412-01A-01D-0983-08	TCGA-18-3412-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	84aca315-8380-4625-887f-a8b3c704c0a9	b5823b9b-ba3a-4d06-aae3-85a682d458f5	g.chr2:187709452T>A	uc002upu.1	-	3	315	c.275A>T	c.(274-276)AAC>ATC	p.N92I		NM_182521	NP_872327	Q8NEG5	ZSWM2_HUMAN	zinc finger, SWIM domain containing 2	92					apoptosis		zinc ion binding			ovary(2)|skin(1)	3			OV - Ovarian serous cystadenocarcinoma(117;0.0274)|Epithelial(96;0.164)			ACATTCATGGTTCCTTGGAAG	0.254													25	28	---	---	---	---	PASS
HECW2	57520	broad.mit.edu	37	2	197087045	197087045	+	Missense_Mutation	SNP	G	T	T			TCGA-18-3412-01A-01D-0983-08	TCGA-18-3412-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	84aca315-8380-4625-887f-a8b3c704c0a9	b5823b9b-ba3a-4d06-aae3-85a682d458f5	g.chr2:197087045G>T	uc002utm.1	-	24	4219	c.4036C>A	c.(4036-4038)CTA>ATA	p.L1346I	HECW2_uc002utl.1_Missense_Mutation_p.L990I	NM_020760	NP_065811	Q9P2P5	HECW2_HUMAN	HECT, C2 and WW domain containing E3 ubiquitin	1346	HECT.				protein ubiquitination involved in ubiquitin-dependent protein catabolic process	cytoplasm	ubiquitin-protein ligase activity			skin(5)|ovary(5)|lung(4)|pancreas(2)|central_nervous_system(1)|kidney(1)	18						AGGTATTCTAGGTCACTCAGG	0.408													5	68	---	---	---	---	PASS
NBEAL1	65065	broad.mit.edu	37	2	204032030	204032030	+	Missense_Mutation	SNP	C	T	T			TCGA-18-3412-01A-01D-0983-08	TCGA-18-3412-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	84aca315-8380-4625-887f-a8b3c704c0a9	b5823b9b-ba3a-4d06-aae3-85a682d458f5	g.chr2:204032030C>T	uc002uzt.3	+	37	6190	c.5857C>T	c.(5857-5859)CTT>TTT	p.L1953F	NBEAL1_uc002uzs.3_Missense_Mutation_p.L663F	NM_001114132	NP_001107604	Q6ZS30	NBEL1_HUMAN	neurobeachin-like 1 isoform 3	1953							binding			ovary(1)|skin(1)	2						AAGATCAGCCCTTGAGATTTT	0.363													16	51	---	---	---	---	PASS
FN1	2335	broad.mit.edu	37	2	216247035	216247035	+	Missense_Mutation	SNP	C	T	T			TCGA-18-3412-01A-01D-0983-08	TCGA-18-3412-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	84aca315-8380-4625-887f-a8b3c704c0a9	b5823b9b-ba3a-4d06-aae3-85a682d458f5	g.chr2:216247035C>T	uc002vfa.2	-	32	5330	c.5064G>A	c.(5062-5064)ATG>ATA	p.M1688I	FN1_uc002vfb.2_Missense_Mutation_p.M1597I|FN1_uc002vfc.2_Missense_Mutation_p.M1597I|FN1_uc002vfd.2_Missense_Mutation_p.M1688I|FN1_uc002vfe.2_Missense_Mutation_p.M1597I|FN1_uc002vff.2_Missense_Mutation_p.M1597I|FN1_uc002vfg.2_Missense_Mutation_p.M1597I|FN1_uc002vfh.2_Missense_Mutation_p.M1597I|FN1_uc002vfi.2_Missense_Mutation_p.M1688I|FN1_uc002vfj.2_Missense_Mutation_p.M1688I|FN1_uc002vez.2_5'UTR|FN1_uc010zjp.1_Missense_Mutation_p.M315I|FN1_uc010fvc.1_Missense_Mutation_p.M50I|FN1_uc010fvd.1_Missense_Mutation_p.M50I	NM_212482	NP_997647	P02751	FINC_HUMAN	fibronectin 1 isoform 1 preproprotein	Error:AA_residue_mismatch_between_GAF_and_UniProt_prot_seqs_after_alignment					acute-phase response|angiogenesis|leukocyte migration|peptide cross-linking|platelet activation|platelet degranulation|regulation of cell shape|substrate adhesion-dependent cell spreading	ER-Golgi intermediate compartment|fibrinogen complex|platelet alpha granule lumen|proteinaceous extracellular matrix	collagen binding|extracellular matrix structural constituent|heparin binding			central_nervous_system(7)|large_intestine(2)|breast(2)|ovary(1)|pancreas(1)	13		Renal(323;0.127)		Epithelial(149;9.59e-07)|all cancers(144;0.000174)|LUSC - Lung squamous cell carcinoma(224;0.008)|Lung(261;0.00948)	Alteplase(DB00009)|Anistreplase(DB00029)|Reteplase(DB00015)|Tenecteplase(DB00031)	CTTCAATAGTCATTTCTGTTT	0.453													6	35	---	---	---	---	PASS
DGKD	8527	broad.mit.edu	37	2	234347023	234347023	+	Silent	SNP	C	A	A			TCGA-18-3412-01A-01D-0983-08	TCGA-18-3412-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	84aca315-8380-4625-887f-a8b3c704c0a9	b5823b9b-ba3a-4d06-aae3-85a682d458f5	g.chr2:234347023C>A	uc002vui.1	+	9	1095	c.1083C>A	c.(1081-1083)CTC>CTA	p.L361L	DGKD_uc002vuj.1_Silent_p.L317L|DGKD_uc010fyh.1_Silent_p.L228L|DGKD_uc010fyi.1_RNA|DGKD_uc002vuk.1_Silent_p.L228L	NM_152879	NP_690618	Q16760	DGKD_HUMAN	diacylglycerol kinase, delta 130kDa isoform 2	361	DAGKc.				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)	GCCCACACCTCGGGTAGGAAG	0.413													4	98	---	---	---	---	PASS
ITPR1	3708	broad.mit.edu	37	3	4817034	4817034	+	Missense_Mutation	SNP	G	T	T			TCGA-18-3412-01A-01D-0983-08	TCGA-18-3412-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	84aca315-8380-4625-887f-a8b3c704c0a9	b5823b9b-ba3a-4d06-aae3-85a682d458f5	g.chr3:4817034G>T	uc003bqa.2	+	44	6292	c.5944G>T	c.(5944-5946)GGC>TGC	p.G1982C	ITPR1_uc010hca.1_Missense_Mutation_p.G1967C|ITPR1_uc011asu.1_Intron|ITPR1_uc003bqc.2_Missense_Mutation_p.G952C	NM_001099952	NP_001093422	Q14643	ITPR1_HUMAN	inositol 1,4,5-triphosphate receptor, type 1	2030	Cytoplasmic (Potential).				activation of phospholipase C activity|cell death|energy reserve metabolic process|nerve growth factor receptor signaling pathway|platelet activation|regulation of insulin secretion|response to hypoxia	endoplasmic reticulum membrane|integral to membrane|platelet dense granule membrane|platelet dense tubular network membrane	calcium ion transmembrane transporter activity|inositol 1,4,5-trisphosphate-sensitive calcium-release channel activity|intracellular ligand-gated calcium channel activity|phosphatidylinositol binding|protein binding	p.L1982L(1)		lung(7)|breast(5)|ovary(4)|large_intestine(1)|liver(1)|skin(1)|kidney(1)|pancreas(1)	21				Epithelial(13;0.0199)|OV - Ovarian serous cystadenocarcinoma(96;0.0361)|all cancers(10;0.0982)		TGGTCTTCTGGGCTTGTATAT	0.433													6	81	---	---	---	---	PASS
PRSS45	377047	broad.mit.edu	37	3	46785594	46785594	+	Silent	SNP	C	T	T			TCGA-18-3412-01A-01D-0983-08	TCGA-18-3412-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	84aca315-8380-4625-887f-a8b3c704c0a9	b5823b9b-ba3a-4d06-aae3-85a682d458f5	g.chr3:46785594C>T	uc010hjl.2	-	2	150	c.150G>A	c.(148-150)AAG>AAA	p.K50K	PRSS45_uc011bam.1_RNA	NM_199183	NP_954652	Q7RTY3	PRS45_HUMAN	testis serine protease 5	50	Peptidase S1.				proteolysis		serine-type endopeptidase activity				0						TGGGCTGCAGCTTGGAGGTGC	0.577													4	4	---	---	---	---	PASS
MIR548I1	100302204	broad.mit.edu	37	3	125509278	125509278	+	RNA	SNP	G	T	T			TCGA-18-3412-01A-01D-0983-08	TCGA-18-3412-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	84aca315-8380-4625-887f-a8b3c704c0a9	b5823b9b-ba3a-4d06-aae3-85a682d458f5	g.chr3:125509278G>T	hsa-mir-548i-1|MI0006421	-			c.118G>T																				0						TTTGGTAGAAGGAGAAAAGAT	0.259													6	77	---	---	---	---	PASS
COL6A6	131873	broad.mit.edu	37	3	130282213	130282213	+	Silent	SNP	C	A	A			TCGA-18-3412-01A-01D-0983-08	TCGA-18-3412-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	84aca315-8380-4625-887f-a8b3c704c0a9	b5823b9b-ba3a-4d06-aae3-85a682d458f5	g.chr3:130282213C>A	uc010htl.2	+	2	397	c.366C>A	c.(364-366)CCC>CCA	p.P122P		NM_001102608	NP_001096078	A6NMZ7	CO6A6_HUMAN	collagen type VI alpha 6 precursor	122	Nonhelical region.|VWFA 1.				axon guidance|cell adhesion	collagen				ovary(6)|central_nervous_system(1)|pancreas(1)	8						TCTCTGCACCCGCAAATGGGA	0.507													8	12	---	---	---	---	PASS
EPHB1	2047	broad.mit.edu	37	3	134851709	134851709	+	Missense_Mutation	SNP	G	T	T			TCGA-18-3412-01A-01D-0983-08	TCGA-18-3412-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	84aca315-8380-4625-887f-a8b3c704c0a9	b5823b9b-ba3a-4d06-aae3-85a682d458f5	g.chr3:134851709G>T	uc003eqt.2	+	5	1335	c.1115G>T	c.(1114-1116)CGC>CTC	p.R372L	EPHB1_uc010htz.1_RNA|EPHB1_uc011bly.1_3'UTR|EPHB1_uc003equ.2_5'UTR	NM_004441	NP_004432	P54762	EPHB1_HUMAN	ephrin receptor EphB1 precursor	372	Extracellular (Potential).|Fibronectin type-III 1.					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						AGCTGCTCCCGCTGTGACGAC	0.617													19	13	---	---	---	---	PASS
EIF2A	83939	broad.mit.edu	37	3	150301010	150301010	+	Silent	SNP	G	A	A			TCGA-18-3412-01A-01D-0983-08	TCGA-18-3412-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	84aca315-8380-4625-887f-a8b3c704c0a9	b5823b9b-ba3a-4d06-aae3-85a682d458f5	g.chr3:150301010G>A	uc003eya.2	+	13	1666	c.1650G>A	c.(1648-1650)CTG>CTA	p.L550L	SERP1_uc003exz.2_Intron|EIF2A_uc003eyb.2_Silent_p.L423L|EIF2A_uc003eyc.2_Silent_p.L423L|EIF2A_uc011bnv.1_Silent_p.L525L|EIF2A_uc011bnw.1_Silent_p.L489L|EIF2A_uc003eyd.2_Silent_p.L325L|uc003eye.1_Intron	NM_032025	NP_114414	Q9BY44	EIF2A_HUMAN	eukaryotic translation initiation factor 2A	550	Potential.				regulation of translation|ribosome assembly	eukaryotic translation initiation factor 2 complex	ribosome binding|translation initiation factor activity|tRNA binding				0		Melanoma(1037;0.0575)	LUSC - Lung squamous cell carcinoma(72;0.0538)|Lung(72;0.066)			TCGAACAACTGAAAGAACAAG	0.368													22	190	---	---	---	---	PASS
SI	6476	broad.mit.edu	37	3	164739162	164739162	+	Missense_Mutation	SNP	G	A	A			TCGA-18-3412-01A-01D-0983-08	TCGA-18-3412-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	84aca315-8380-4625-887f-a8b3c704c0a9	b5823b9b-ba3a-4d06-aae3-85a682d458f5	g.chr3:164739162G>A	uc003fei.2	-	27	3171	c.3109C>T	c.(3109-3111)CCC>TCC	p.P1037S		NM_001041	NP_001032	P14410	SUIS_HUMAN	sucrase-isomaltase	1037	Sucrase.|Lumenal.				carbohydrate metabolic process|polysaccharide digestion	apical plasma membrane|brush border|Golgi apparatus|integral to membrane	carbohydrate binding|oligo-1,6-glucosidase activity|sucrose alpha-glucosidase activity			ovary(7)|upper_aerodigestive_tract(4)|skin(2)|pancreas(1)	14		Prostate(884;0.00314)|Melanoma(1037;0.0153)|all_neural(597;0.0199)			Acarbose(DB00284)	TTCTTTTGGGGATCATAAATC	0.328										HNSCC(35;0.089)			9	273	---	---	---	---	PASS
SI	6476	broad.mit.edu	37	3	164792369	164792369	+	Missense_Mutation	SNP	C	A	A			TCGA-18-3412-01A-01D-0983-08	TCGA-18-3412-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	84aca315-8380-4625-887f-a8b3c704c0a9	b5823b9b-ba3a-4d06-aae3-85a682d458f5	g.chr3:164792369C>A	uc003fei.2	-	3	267	c.205G>T	c.(205-207)GAT>TAT	p.D69Y		NM_001041	NP_001032	P14410	SUIS_HUMAN	sucrase-isomaltase	69	Lumenal.|P-type 1.				carbohydrate metabolic process|polysaccharide digestion	apical plasma membrane|brush border|Golgi apparatus|integral to membrane	carbohydrate binding|oligo-1,6-glucosidase activity|sucrose alpha-glucosidase activity			ovary(7)|upper_aerodigestive_tract(4)|skin(2)|pancreas(1)	14		Prostate(884;0.00314)|Melanoma(1037;0.0153)|all_neural(597;0.0199)			Acarbose(DB00284)	TTGACAGGATCATTTAACACA	0.333										HNSCC(35;0.089)			17	72	---	---	---	---	PASS
BCHE	590	broad.mit.edu	37	3	165504037	165504037	+	Missense_Mutation	SNP	T	C	C			TCGA-18-3412-01A-01D-0983-08	TCGA-18-3412-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	84aca315-8380-4625-887f-a8b3c704c0a9	b5823b9b-ba3a-4d06-aae3-85a682d458f5	g.chr3:165504037T>C	uc003fem.3	-	3	1740	c.1580A>G	c.(1579-1581)AAA>AGA	p.K527R	BCHE_uc003fen.3_RNA	NM_000055	NP_000046	P06276	CHLE_HUMAN	butyrylcholinesterase precursor	527					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)	GGTTAGATATTTTTGTTCAGT	0.333													23	51	---	---	---	---	PASS
HTR3E	285242	broad.mit.edu	37	3	183818359	183818359	+	Missense_Mutation	SNP	A	C	C			TCGA-18-3412-01A-01D-0983-08	TCGA-18-3412-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	84aca315-8380-4625-887f-a8b3c704c0a9	b5823b9b-ba3a-4d06-aae3-85a682d458f5	g.chr3:183818359A>C	uc010hxq.2	+	2	620	c.154A>C	c.(154-156)AAG>CAG	p.K52Q	HTR3E_uc003fml.3_Missense_Mutation_p.K52Q|HTR3E_uc003fmm.2_Missense_Mutation_p.K67Q|HTR3E_uc010hxr.2_Missense_Mutation_p.K67Q|HTR3E_uc003fmn.2_Missense_Mutation_p.K67Q	NM_182589	NP_872395	A5X5Y0	5HT3E_HUMAN	5-hydroxytryptamine receptor 3 subunit E	52	Extracellular (Potential).					integral to membrane|plasma membrane|postsynaptic membrane	extracellular ligand-gated ion channel activity|receptor activity			ovary(1)|central_nervous_system(1)|skin(1)	3	all_cancers(143;1.46e-10)|Ovarian(172;0.0303)		Epithelial(37;7.06e-36)|OV - Ovarian serous cystadenocarcinoma(80;3.11e-22)			GTTTAATAGAAAGCCCTTCCG	0.537													37	305	---	---	---	---	PASS
EIF4G1	1981	broad.mit.edu	37	3	184045465	184045465	+	Missense_Mutation	SNP	G	T	T			TCGA-18-3412-01A-01D-0983-08	TCGA-18-3412-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	84aca315-8380-4625-887f-a8b3c704c0a9	b5823b9b-ba3a-4d06-aae3-85a682d458f5	g.chr3:184045465G>T	uc003fnp.2	+	25	3951	c.3753G>T	c.(3751-3753)GAG>GAT	p.E1251D	EIF4G1_uc003fnt.2_Missense_Mutation_p.E962D|EIF4G1_uc003fnq.2_Missense_Mutation_p.E1164D|EIF4G1_uc003fnr.2_Missense_Mutation_p.E1087D|EIF4G1_uc010hxx.2_Missense_Mutation_p.E1258D|EIF4G1_uc003fns.2_Missense_Mutation_p.E1211D|EIF4G1_uc010hxy.2_Missense_Mutation_p.E1258D|EIF4G1_uc003fnv.3_Missense_Mutation_p.E1252D|EIF4G1_uc003fnu.3_Missense_Mutation_p.E1251D|EIF4G1_uc003fnw.2_Missense_Mutation_p.E1258D|EIF4G1_uc003fnx.2_Missense_Mutation_p.E1056D|EIF4G1_uc003fny.3_Missense_Mutation_p.E1055D|EIF4G1_uc003foa.2_5'Flank	NM_198241	NP_937884	Q04637	IF4G1_HUMAN	eukaryotic translation initiation factor 4	1251	MI.				insulin receptor signaling pathway|interspecies interaction between organisms|nuclear-transcribed mRNA poly(A) tail shortening|regulation of translational initiation	cytosol|eukaryotic translation initiation factor 4F complex	protein binding|translation initiation factor activity			lung(2)|ovary(2)|upper_aerodigestive_tract(1)|large_intestine(1)|central_nervous_system(1)	7	all_cancers(143;1.06e-10)|Ovarian(172;0.0339)		Epithelial(37;1.53e-33)|OV - Ovarian serous cystadenocarcinoma(80;2.72e-22)			CTATCATTGAGGAATATCTCC	0.562													7	176	---	---	---	---	PASS
MAGEF1	64110	broad.mit.edu	37	3	184429384	184429384	+	Silent	SNP	G	A	A			TCGA-18-3412-01A-01D-0983-08	TCGA-18-3412-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	84aca315-8380-4625-887f-a8b3c704c0a9	b5823b9b-ba3a-4d06-aae3-85a682d458f5	g.chr3:184429384G>A	uc003fpa.2	-	1	453	c.226C>T	c.(226-228)CTG>TTG	p.L76L		NM_022149	NP_071432	Q9HAY2	MAGF1_HUMAN	melanoma antigen family F, 1	76	MAGE.									ovary(1)	1	all_cancers(143;4.61e-11)|Ovarian(172;0.0339)|Breast(254;0.247)		Epithelial(37;5.64e-35)|OV - Ovarian serous cystadenocarcinoma(80;2.56e-22)			GTCCGATTCAGCCGGCGGTAG	0.642													24	129	---	---	---	---	PASS
VPS8	23355	broad.mit.edu	37	3	184675210	184675210	+	Silent	SNP	C	A	A			TCGA-18-3412-01A-01D-0983-08	TCGA-18-3412-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	84aca315-8380-4625-887f-a8b3c704c0a9	b5823b9b-ba3a-4d06-aae3-85a682d458f5	g.chr3:184675210C>A	uc003fpb.1	+	36	3249	c.3078C>A	c.(3076-3078)ATC>ATA	p.I1026I	VPS8_uc010hyd.1_Silent_p.I936I|VPS8_uc010hye.1_Silent_p.I455I	NM_015303	NP_056118	Q8N3P4	VPS8_HUMAN	vacuolar protein sorting 8 homolog isoform b	1028							zinc ion binding			ovary(1)	1	all_cancers(143;2.51e-11)|Ovarian(172;0.0339)|Breast(254;0.247)		Epithelial(37;1.02e-33)|OV - Ovarian serous cystadenocarcinoma(80;4.81e-22)			CTCCTTGTATCACAGAGCAGT	0.373													8	65	---	---	---	---	PASS
LSG1	55341	broad.mit.edu	37	3	194366966	194366966	+	Missense_Mutation	SNP	C	A	A			TCGA-18-3412-01A-01D-0983-08	TCGA-18-3412-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	84aca315-8380-4625-887f-a8b3c704c0a9	b5823b9b-ba3a-4d06-aae3-85a682d458f5	g.chr3:194366966C>A	uc003fui.2	-	12	1865	c.1550G>T	c.(1549-1551)CGA>CTA	p.R517L		NM_018385	NP_060855	Q9H089	LSG1_HUMAN	large subunit GTPase 1	517					nuclear export|protein transport	Cajal body|endoplasmic reticulum	GTP binding|hydrolase activity				0	all_cancers(143;1.68e-08)|Ovarian(172;0.0634)		OV - Ovarian serous cystadenocarcinoma(49;4.34e-18)|LUSC - Lung squamous cell carcinoma(58;3.55e-06)|Lung(62;4.19e-06)	GBM - Glioblastoma multiforme(46;7.55e-06)		CATGAATCCTCGCATGTCTGT	0.448													5	197	---	---	---	---	PASS
MUC4	4585	broad.mit.edu	37	3	195484025	195484025	+	Missense_Mutation	SNP	G	T	T			TCGA-18-3412-01A-01D-0983-08	TCGA-18-3412-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	84aca315-8380-4625-887f-a8b3c704c0a9	b5823b9b-ba3a-4d06-aae3-85a682d458f5	g.chr3:195484025G>T	uc011bto.1	-	19	15237	c.14777C>A	c.(14776-14778)TCC>TAC	p.S4926Y	MUC4_uc003fuz.2_Missense_Mutation_p.S652Y|MUC4_uc003fva.2_Missense_Mutation_p.S534Y|MUC4_uc003fvb.2_Missense_Mutation_p.S570Y|MUC4_uc003fvc.2_RNA|MUC4_uc003fvd.2_RNA|MUC4_uc003fve.2_Missense_Mutation_p.S570Y|MUC4_uc010hzr.2_RNA|MUC4_uc011btf.1_Missense_Mutation_p.S534Y|MUC4_uc011btg.1_RNA|MUC4_uc011bth.1_Missense_Mutation_p.S618Y|MUC4_uc011bti.1_Missense_Mutation_p.S618Y|MUC4_uc011btj.1_Missense_Mutation_p.S795Y|MUC4_uc011btk.1_Missense_Mutation_p.S534Y|MUC4_uc011btl.1_Missense_Mutation_p.S563Y|MUC4_uc011btm.1_Missense_Mutation_p.S743Y|MUC4_uc011btn.1_Missense_Mutation_p.S534Y|MUC4_uc003fvo.2_Missense_Mutation_p.S818Y|MUC4_uc003fvp.2_Missense_Mutation_p.S767Y	NM_018406	NP_060876	Q99102	MUC4_HUMAN	mucin 4 isoform a	1811					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)		CACCTCCAGGGAGGAGTTGCC	0.572													7	184	---	---	---	---	PASS
UBXN7	26043	broad.mit.edu	37	3	196083658	196083658	+	Silent	SNP	G	T	T			TCGA-18-3412-01A-01D-0983-08	TCGA-18-3412-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	84aca315-8380-4625-887f-a8b3c704c0a9	b5823b9b-ba3a-4d06-aae3-85a682d458f5	g.chr3:196083658G>T	uc003fwm.3	-	11	1443	c.1368C>A	c.(1366-1368)ACC>ACA	p.T456T	UBXN7_uc003fwn.3_Silent_p.T308T|UBXN7_uc010iae.2_Silent_p.T294T	NM_015562	NP_056377	O94888	UBXN7_HUMAN	UBX domain containing 7	456	UBX.						protein binding			ovary(2)|pancreas(1)	3						GAGGAAAGTTGGTGAGAAGTT	0.393													6	130	---	---	---	---	PASS
FAM193A	8603	broad.mit.edu	37	4	2696737	2696737	+	Missense_Mutation	SNP	G	A	A			TCGA-18-3412-01A-01D-0983-08	TCGA-18-3412-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	84aca315-8380-4625-887f-a8b3c704c0a9	b5823b9b-ba3a-4d06-aae3-85a682d458f5	g.chr4:2696737G>A	uc010icl.2	+	15	2635	c.2284G>A	c.(2284-2286)GAC>AAC	p.D762N	FAM193A_uc010ick.2_Missense_Mutation_p.D962N|FAM193A_uc003gfd.2_Missense_Mutation_p.D762N|FAM193A_uc011bvm.1_Missense_Mutation_p.D784N|FAM193A_uc011bvn.1_Missense_Mutation_p.D762N|FAM193A_uc011bvo.1_RNA|FAM193A_uc010icm.2_RNA|FAM193A_uc003gfe.2_Missense_Mutation_p.D616N	NM_003704	NP_003695	P78312	F193A_HUMAN	hypothetical protein LOC8603	762										ovary(3)	3						GGATGATGGGGACGAGAGTGC	0.587													4	7	---	---	---	---	PASS
EVC2	132884	broad.mit.edu	37	4	5578179	5578179	+	Missense_Mutation	SNP	C	G	G			TCGA-18-3412-01A-01D-0983-08	TCGA-18-3412-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	84aca315-8380-4625-887f-a8b3c704c0a9	b5823b9b-ba3a-4d06-aae3-85a682d458f5	g.chr4:5578179C>G	uc003gij.2	-	18	3114	c.3060G>C	c.(3058-3060)GAG>GAC	p.E1020D	EVC2_uc011bwb.1_Missense_Mutation_p.E460D|EVC2_uc003gik.2_Missense_Mutation_p.E940D	NM_147127	NP_667338	Q86UK5	LBN_HUMAN	limbin	1020	Potential.					integral to membrane				large_intestine(3)|ovary(2)	5						ACTCCTGGAGCTCCTACACAA	0.627													4	2	---	---	---	---	PASS
BEND4	389206	broad.mit.edu	37	4	42145969	42145969	+	Missense_Mutation	SNP	C	G	G			TCGA-18-3412-01A-01D-0983-08	TCGA-18-3412-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	84aca315-8380-4625-887f-a8b3c704c0a9	b5823b9b-ba3a-4d06-aae3-85a682d458f5	g.chr4:42145969C>G	uc003gwn.2	-	3	1110	c.530G>C	c.(529-531)CGA>CCA	p.R177P	BEND4_uc003gwm.2_Missense_Mutation_p.R177P|BEND4_uc011byy.1_Missense_Mutation_p.R177P	NM_207406	NP_997289	Q6ZU67	BEND4_HUMAN	BEN domain containing 4 isoform a	177											0						GCTAAGAACTCGACTGCACTG	0.438													18	6	---	---	---	---	PASS
FRYL	285527	broad.mit.edu	37	4	48566052	48566052	+	Missense_Mutation	SNP	A	G	G			TCGA-18-3412-01A-01D-0983-08	TCGA-18-3412-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	84aca315-8380-4625-887f-a8b3c704c0a9	b5823b9b-ba3a-4d06-aae3-85a682d458f5	g.chr4:48566052A>G	uc003gyh.1	-	31	4114	c.3509T>C	c.(3508-3510)ATG>ACG	p.M1170T	FRYL_uc003gyk.2_Missense_Mutation_p.M1170T|FRYL_uc003gyi.1_Missense_Mutation_p.M59T	NM_015030	NP_055845	O94915	FRYL_HUMAN	furry-like	1170					regulation of transcription, DNA-dependent|transcription, DNA-dependent		protein binding			skin(1)	1						AGCCCAGTACATCAGGTTGCT	0.527													9	63	---	---	---	---	PASS
PPEF2	5470	broad.mit.edu	37	4	76805858	76805858	+	Missense_Mutation	SNP	C	A	A			TCGA-18-3412-01A-01D-0983-08	TCGA-18-3412-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	84aca315-8380-4625-887f-a8b3c704c0a9	b5823b9b-ba3a-4d06-aae3-85a682d458f5	g.chr4:76805858C>A	uc003hix.2	-	8	992	c.635G>T	c.(634-636)CGA>CTA	p.R212L	PPEF2_uc003hiy.2_RNA|PPEF2_uc003hiz.1_Missense_Mutation_p.R212L	NM_006239	NP_006230	O14830	PPE2_HUMAN	serine/threonine protein phosphatase with	212	Catalytic.				detection of stimulus involved in sensory perception|negative regulation of MAPKKK cascade|negative regulation of peptidyl-threonine phosphorylation|protein dephosphorylation|visual perception	cytoplasm|photoreceptor inner segment|photoreceptor outer segment	calcium ion binding|Hsp70 protein binding|Hsp90 protein binding|iron ion binding|manganese ion binding|mitogen-activated protein kinase kinase kinase binding|protein serine/threonine phosphatase activity			ovary(2)|lung(1)|central_nervous_system(1)	4			Lung(101;0.0809)|LUSC - Lung squamous cell carcinoma(112;0.0934)			ATCCTTGCCTCGATCCACAAA	0.458													5	176	---	---	---	---	PASS
ANK2	287	broad.mit.edu	37	4	114251433	114251433	+	Missense_Mutation	SNP	G	A	A			TCGA-18-3412-01A-01D-0983-08	TCGA-18-3412-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	84aca315-8380-4625-887f-a8b3c704c0a9	b5823b9b-ba3a-4d06-aae3-85a682d458f5	g.chr4:114251433G>A	uc003ibe.3	+	27	3032	c.2932G>A	c.(2932-2934)GGT>AGT	p.G978S	ANK2_uc003ibd.3_Missense_Mutation_p.G969S|ANK2_uc003ibf.3_Missense_Mutation_p.G978S|ANK2_uc011cgc.1_Missense_Mutation_p.G187S|ANK2_uc003ibg.3_Missense_Mutation_p.G6S|ANK2_uc003ibc.2_Missense_Mutation_p.G954S|ANK2_uc011cgb.1_Missense_Mutation_p.G993S	NM_001148	NP_001139	Q01484	ANK2_HUMAN	ankyrin 2 isoform 1	978	ZU5.|Interaction with SPTBN1.				axon guidance|signal transduction	apical plasma membrane|basolateral plasma membrane|cytoskeleton|cytosol|sarcomere	protein binding|protein binding			central_nervous_system(7)|ovary(3)|large_intestine(2)|breast(1)|skin(1)	14		Ovarian(17;0.0448)|Hepatocellular(203;0.218)		OV - Ovarian serous cystadenocarcinoma(123;4.92e-05)		GGATGCCCGAGGTGGTGCTAT	0.448													9	9	---	---	---	---	PASS
RAPGEF2	9693	broad.mit.edu	37	4	160274672	160274672	+	Missense_Mutation	SNP	A	T	T			TCGA-18-3412-01A-01D-0983-08	TCGA-18-3412-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	84aca315-8380-4625-887f-a8b3c704c0a9	b5823b9b-ba3a-4d06-aae3-85a682d458f5	g.chr4:160274672A>T	uc003iqg.3	+	22	3952	c.3642A>T	c.(3640-3642)TTA>TTT	p.L1214F		NM_014247	NP_055062	Q9Y4G8	RPGF2_HUMAN	Rap guanine nucleotide exchange factor 2	1214					cAMP-mediated signaling|MAPKKK cascade|small GTPase mediated signal transduction	integral to plasma membrane|intracellular	calcium ion binding|diacylglycerol binding|Rap GTPase activator activity|Rap guanyl-nucleotide exchange factor activity|signal transducer activity			lung(2)|upper_aerodigestive_tract(1)|skin(1)	4	all_hematologic(180;0.24)			COAD - Colon adenocarcinoma(41;0.0817)		GCCGAGGCTTATATGCTACAG	0.443													24	26	---	---	---	---	PASS
KLHL2	11275	broad.mit.edu	37	4	166215563	166215563	+	Missense_Mutation	SNP	C	G	G			TCGA-18-3412-01A-01D-0983-08	TCGA-18-3412-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	84aca315-8380-4625-887f-a8b3c704c0a9	b5823b9b-ba3a-4d06-aae3-85a682d458f5	g.chr4:166215563C>G	uc003irb.2	+	6	856	c.597C>G	c.(595-597)ATC>ATG	p.I199M	KLHL2_uc011cjm.1_Missense_Mutation_p.I203M|KLHL2_uc003irc.2_Missense_Mutation_p.I111M|KLHL2_uc010ira.2_Translation_Start_Site	NM_007246	NP_009177	O95198	KLHL2_HUMAN	kelch-like 2, Mayven isoform 1	199					intracellular protein transport	actin cytoskeleton|cytoplasm	actin binding|transporter activity				0	all_hematologic(180;0.221)			GBM - Glioblastoma multiforme(119;2.94e-27)|COAD - Colon adenocarcinoma(41;1.4e-05)|Kidney(143;4.95e-05)|KIRC - Kidney renal clear cell carcinoma(143;0.000927)		ATCTTGGCATCGAACAAGTGT	0.353													4	15	---	---	---	---	PASS
GLRA3	8001	broad.mit.edu	37	4	175598344	175598344	+	Missense_Mutation	SNP	G	T	T			TCGA-18-3412-01A-01D-0983-08	TCGA-18-3412-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	84aca315-8380-4625-887f-a8b3c704c0a9	b5823b9b-ba3a-4d06-aae3-85a682d458f5	g.chr4:175598344G>T	uc003ity.1	-	7	1315	c.812C>A	c.(811-813)TCC>TAC	p.S271Y	GLRA3_uc003itz.1_Missense_Mutation_p.S271Y	NM_006529	NP_006520	O75311	GLRA3_HUMAN	glycine receptor, alpha 3 isoform a	271	Helical; (Probable).				synaptic transmission	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(3)	3		Prostate(90;0.00601)|Breast(14;0.0091)|Melanoma(52;0.00959)|Renal(120;0.0183)|all_neural(102;0.0891)|all_hematologic(60;0.107)		all cancers(43;4.99e-18)|Epithelial(43;1.18e-16)|OV - Ovarian serous cystadenocarcinoma(60;5.88e-09)|STAD - Stomach adenocarcinoma(60;0.00442)|GBM - Glioblastoma multiforme(59;0.0102)|LUSC - Lung squamous cell carcinoma(193;0.0421)	Glycine(DB00145)	TGAAACCCAGGATAGAATAAC	0.468													4	19	---	---	---	---	PASS
ASB5	140458	broad.mit.edu	37	4	177136878	177136878	+	Missense_Mutation	SNP	G	C	C			TCGA-18-3412-01A-01D-0983-08	TCGA-18-3412-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	84aca315-8380-4625-887f-a8b3c704c0a9	b5823b9b-ba3a-4d06-aae3-85a682d458f5	g.chr4:177136878G>C	uc003iuq.1	-	7	879	c.863C>G	c.(862-864)GCT>GGT	p.A288G	ASB5_uc003iup.1_Missense_Mutation_p.A235G	NM_080874	NP_543150	Q8WWX0	ASB5_HUMAN	ankyrin repeat and SOCS box-containing protein	288	SOCS box.				intracellular signal transduction					skin(2)	2		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;2.13e-20)|Epithelial(43;9.94e-18)|OV - Ovarian serous cystadenocarcinoma(60;2e-09)|GBM - Glioblastoma multiforme(59;0.000254)|STAD - Stomach adenocarcinoma(60;0.000653)|LUSC - Lung squamous cell carcinoma(193;0.0393)		GCTTGGGGTAGCTACAAGAAG	0.353													8	19	---	---	---	---	PASS
FAT1	2195	broad.mit.edu	37	4	187630181	187630181	+	Silent	SNP	C	A	A			TCGA-18-3412-01A-01D-0983-08	TCGA-18-3412-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	84aca315-8380-4625-887f-a8b3c704c0a9	b5823b9b-ba3a-4d06-aae3-85a682d458f5	g.chr4:187630181C>A	uc003izf.2	-	2	989	c.801G>T	c.(799-801)CTG>CTT	p.L267L	FAT1_uc010iso.1_Silent_p.L267L	NM_005245	NP_005236	Q14517	FAT1_HUMAN	FAT tumor suppressor 1 precursor	267	Extracellular (Potential).				actin filament organization|anatomical structure morphogenesis|cell migration|cell-cell signaling|establishment or maintenance of cell polarity|homophilic cell adhesion	cell-cell junction|integral to plasma membrane|nucleus|perinuclear region of cytoplasm	calcium ion binding|protein binding			ovary(10)|central_nervous_system(1)|pancreas(1)	12						GGTCCCTGTCCAGTTCTGATG	0.522										HNSCC(5;0.00058)			7	262	---	---	---	---	PASS
KIAA0947	23379	broad.mit.edu	37	5	5463104	5463104	+	Nonsense_Mutation	SNP	C	A	A			TCGA-18-3412-01A-01D-0983-08	TCGA-18-3412-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	84aca315-8380-4625-887f-a8b3c704c0a9	b5823b9b-ba3a-4d06-aae3-85a682d458f5	g.chr5:5463104C>A	uc003jdm.3	+	13	3879	c.3657C>A	c.(3655-3657)TAC>TAA	p.Y1219*		NM_015325	NP_056140	Q9Y2F5	K0947_HUMAN	hypothetical protein LOC23379	1219										ovary(1)|central_nervous_system(1)	2						GAGAAAAATACAGAAAGCAAC	0.363													4	51	---	---	---	---	PASS
PRLR	5618	broad.mit.edu	37	5	35065919	35065919	+	Missense_Mutation	SNP	C	T	T			TCGA-18-3412-01A-01D-0983-08	TCGA-18-3412-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	84aca315-8380-4625-887f-a8b3c704c0a9	b5823b9b-ba3a-4d06-aae3-85a682d458f5	g.chr5:35065919C>T	uc003jjm.2	-	10	1671	c.1141G>A	c.(1141-1143)GAG>AAG	p.E381K	PRLR_uc003jjg.1_Intron|PRLR_uc003jjh.1_Intron|PRLR_uc003jji.1_Intron|PRLR_uc003jjj.1_Intron|PRLR_uc003jjk.1_Intron|PRLR_uc003jjl.3_Missense_Mutation_p.E280K	NM_000949	NP_000940	P16471	PRLR_HUMAN	prolactin receptor precursor	381	Cytoplasmic (Potential).				activation of JAK2 kinase activity|activation of transmembrane receptor protein tyrosine kinase activity|anti-apoptosis|embryo implantation|lactation|steroid biosynthetic process|T cell activation	cell surface|extracellular region|integral to membrane	metal ion binding|ornithine decarboxylase activator activity|peptide hormone binding|prolactin receptor activity|protein homodimerization activity			ovary(2)|skin(1)	3	all_lung(31;3.83e-05)		COAD - Colon adenocarcinoma(61;0.174)|Colorectal(62;0.229)		Dromostanolone(DB00858)|Fluoxymesterone(DB01185)|Pegvisomant(DB00082)|Somatropin recombinant(DB00052)	TCTGGCTTCTCAATGACCTCA	0.517													18	51	---	---	---	---	PASS
HCN1	348980	broad.mit.edu	37	5	45262556	45262556	+	Missense_Mutation	SNP	C	A	A			TCGA-18-3412-01A-01D-0983-08	TCGA-18-3412-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	84aca315-8380-4625-887f-a8b3c704c0a9	b5823b9b-ba3a-4d06-aae3-85a682d458f5	g.chr5:45262556C>A	uc003jok.2	-	8	2165	c.2140G>T	c.(2140-2142)GCT>TCT	p.A714S		NM_021072	NP_066550	O60741	HCN1_HUMAN	hyperpolarization activated cyclic	714	Cytoplasmic (Potential).					integral to membrane	cAMP binding|sodium channel activity|voltage-gated potassium channel activity			ovary(1)	1						AAAGTTCGAGCGGCCAGAGGG	0.483													6	16	---	---	---	---	PASS
SNX18	112574	broad.mit.edu	37	5	53814757	53814757	+	Missense_Mutation	SNP	G	C	C			TCGA-18-3412-01A-01D-0983-08	TCGA-18-3412-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	84aca315-8380-4625-887f-a8b3c704c0a9	b5823b9b-ba3a-4d06-aae3-85a682d458f5	g.chr5:53814757G>C	uc003jpj.3	+	1	1165	c.975G>C	c.(973-975)GAG>GAC	p.E325D	SNX18_uc011cqg.1_Missense_Mutation_p.E325D|SNX18_uc003jpi.3_Missense_Mutation_p.E325D	NM_052870	NP_443102	Q96RF0	SNX18_HUMAN	sorting nexin 18 isoform b	325	PX.				cell communication|endocytosis|positive regulation of GTPase activity|protein transport	endomembrane system|endosome membrane|extrinsic to internal side of plasma membrane	phosphatidylinositol binding|protein binding				0		Lung NSC(810;3.46e-05)|Breast(144;0.102)				GCCTGGCGGAGAAGTTCCCGG	0.632													6	16	---	---	---	---	PASS
SNX18	112574	broad.mit.edu	37	5	53814938	53814938	+	Missense_Mutation	SNP	G	T	T			TCGA-18-3412-01A-01D-0983-08	TCGA-18-3412-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	84aca315-8380-4625-887f-a8b3c704c0a9	b5823b9b-ba3a-4d06-aae3-85a682d458f5	g.chr5:53814938G>T	uc003jpj.3	+	1	1346	c.1156G>T	c.(1156-1158)GAC>TAC	p.D386Y	SNX18_uc011cqg.1_Missense_Mutation_p.D386Y|SNX18_uc003jpi.3_Missense_Mutation_p.D386Y	NM_052870	NP_443102	Q96RF0	SNX18_HUMAN	sorting nexin 18 isoform b	386	PX.				cell communication|endocytosis|positive regulation of GTPase activity|protein transport	endomembrane system|endosome membrane|extrinsic to internal side of plasma membrane	phosphatidylinositol binding|protein binding				0		Lung NSC(810;3.46e-05)|Breast(144;0.102)				CAGCAGCACCGACGAGAAAGC	0.642													5	12	---	---	---	---	PASS
APC	324	broad.mit.edu	37	5	112175468	112175468	+	Missense_Mutation	SNP	C	A	A			TCGA-18-3412-01A-01D-0983-08	TCGA-18-3412-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	84aca315-8380-4625-887f-a8b3c704c0a9	b5823b9b-ba3a-4d06-aae3-85a682d458f5	g.chr5:112175468C>A	uc010jby.2	+	16	4557	c.4177C>A	c.(4177-4179)CTT>ATT	p.L1393I	APC_uc011cvt.1_Missense_Mutation_p.L1375I|APC_uc003kpz.3_Missense_Mutation_p.L1393I|APC_uc003kpy.3_Missense_Mutation_p.L1393I|APC_uc010jbz.2_Missense_Mutation_p.L1110I|APC_uc010jca.2_Missense_Mutation_p.L693I	NM_001127511	NP_001120983	P25054	APC_HUMAN	adenomatous polyposis coli	1393	Ser-rich.				canonical Wnt receptor signaling pathway|cell adhesion|cell cycle arrest|cell migration|cellular component disassembly involved in apoptosis|cytokinesis after mitosis|mitotic cell cycle spindle assembly checkpoint|negative regulation of canonical Wnt receptor signaling pathway|negative regulation of cyclin-dependent protein kinase activity|negative regulation of microtubule depolymerization|positive regulation of apoptosis|positive regulation of cell migration|positive regulation of pseudopodium assembly|protein complex assembly|regulation of attachment of spindle microtubules to kinetochore|response to DNA damage stimulus|tight junction assembly	adherens junction|APC-Axin-1-beta-catenin complex|Axin-APC-beta-catenin-GSK3B complex|beta-catenin destruction complex|centrosome|cytosol|kinetochore|lamellipodium|lateral plasma membrane|nucleus|ruffle membrane|tight junction	beta-catenin binding|gamma-catenin binding|microtubule plus-end binding|protein kinase binding|protein kinase regulator activity	p.D1394fs*1(3)|p.L1393P(1)|p.Y1376fs*41(1)|p.K1192fs*3(1)|p.?(1)		large_intestine(2123)|stomach(123)|soft_tissue(55)|small_intestine(34)|breast(26)|pancreas(25)|urinary_tract(20)|lung(19)|thyroid(18)|liver(13)|central_nervous_system(10)|ovary(9)|skin(7)|upper_aerodigestive_tract(6)|adrenal_gland(6)|bone(6)|NS(5)|prostate(4)|endometrium(3)|kidney(1)|oesophagus(1)|biliary_tract(1)	2515		all_cancers(142;3.01e-27)|all_epithelial(76;2.3e-18)|all_hematologic(541;4.32e-09)|Ovarian(225;1.78e-06)|Lung NSC(167;0.000195)|Breast(839;0.000231)|all_lung(232;0.000247)|Colorectal(10;0.000355)|Prostate(80;0.00133)		OV - Ovarian serous cystadenocarcinoma(64;1.09e-113)|Epithelial(69;3.79e-112)|all cancers(49;1.67e-104)|BRCA - Breast invasive adenocarcinoma(61;0.00136)|COAD - Colon adenocarcinoma(37;0.00155)|Colorectal(14;0.00191)		TGTCAGTTCACTTGATAGTTT	0.468		12	D|Mis|N|F|S		colorectal|pancreatic|desmoid|hepatoblastoma|glioma|other CNS	colorectal|pancreatic|desmoid|hepatoblastoma|glioma|other CNS			Hereditary_Desmoid_Disease|Familial_Adenomatous_Polyposis|Turcot_syndrome	TSP Lung(16;0.13)			21	33	---	---	---	---	PASS
DDX46	9879	broad.mit.edu	37	5	134143584	134143584	+	Nonsense_Mutation	SNP	G	T	T			TCGA-18-3412-01A-01D-0983-08	TCGA-18-3412-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	84aca315-8380-4625-887f-a8b3c704c0a9	b5823b9b-ba3a-4d06-aae3-85a682d458f5	g.chr5:134143584G>T	uc003kzw.2	+	16	2269	c.2101G>T	c.(2101-2103)GAG>TAG	p.E701*	DDX46_uc003kzv.1_RNA	NM_014829	NP_055644	Q7L014	DDX46_HUMAN	DEAD (Asp-Glu-Ala-Asp) box polypeptide 46	701	Helicase C-terminal.				mRNA processing|RNA splicing	Cajal body|nuclear speck	ATP binding|ATP-dependent helicase activity|RNA binding			ovary(1)	1			KIRC - Kidney renal clear cell carcinoma(527;0.0101)|Kidney(363;0.0233)			CAACCATTATGAGGATTATGT	0.398													6	38	---	---	---	---	PASS
TIFAB	497189	broad.mit.edu	37	5	134785627	134785627	+	Missense_Mutation	SNP	C	A	A			TCGA-18-3412-01A-01D-0983-08	TCGA-18-3412-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	84aca315-8380-4625-887f-a8b3c704c0a9	b5823b9b-ba3a-4d06-aae3-85a682d458f5	g.chr5:134785627C>A	uc003law.3	-	2	204	c.3G>T	c.(1-3)ATG>ATT	p.M1I	C5orf20_uc003lav.2_5'Flank	NM_001099221	NP_001092691	Q6ZNK6	TIFAB_HUMAN	TIFA-related protein TIFAB	1											0			KIRC - Kidney renal clear cell carcinoma(527;0.0101)|Kidney(363;0.0233)			GGGGCTTCTCCATGGAAGAAG	0.597													4	38	---	---	---	---	PASS
SIL1	64374	broad.mit.edu	37	5	138356904	138356904	+	Silent	SNP	G	T	T			TCGA-18-3412-01A-01D-0983-08	TCGA-18-3412-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	84aca315-8380-4625-887f-a8b3c704c0a9	b5823b9b-ba3a-4d06-aae3-85a682d458f5	g.chr5:138356904G>T	uc003ldm.2	-	6	740	c.723C>A	c.(721-723)CTC>CTA	p.L241L	SIL1_uc003ldn.2_Silent_p.L240L|SIL1_uc003ldo.2_Silent_p.L241L|SIL1_uc003ldp.2_Silent_p.L241L|SIL1_uc003ldq.1_Silent_p.L34L	NM_022464	NP_071909	Q9H173	SIL1_HUMAN	SIL1 protein precursor	241	Interaction with HSPA5 and localization to the endoplasmic reticulum (By similarity).				intracellular protein transport|protein folding|transmembrane transport	endoplasmic reticulum lumen	unfolded protein binding				0			KIRC - Kidney renal clear cell carcinoma(527;0.00185)|Kidney(363;0.00325)			ACTCCTTCACGAGGGGCTCTG	0.537									Marinesco-Sj_gren_syndrome				4	43	---	---	---	---	PASS
RBM27	54439	broad.mit.edu	37	5	145649058	145649058	+	Missense_Mutation	SNP	G	A	A			TCGA-18-3412-01A-01D-0983-08	TCGA-18-3412-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	84aca315-8380-4625-887f-a8b3c704c0a9	b5823b9b-ba3a-4d06-aae3-85a682d458f5	g.chr5:145649058G>A	uc003lnz.3	+	17	2768	c.2602G>A	c.(2602-2604)GAG>AAG	p.E868K	RBM27_uc003lny.2_Missense_Mutation_p.E813K	NM_018989	NP_061862	Q9P2N5	RBM27_HUMAN	RNA binding motif protein 27	868	Potential.				mRNA processing	cytoplasm|nuclear speck	nucleotide binding|RNA binding|zinc ion binding			central_nervous_system(2)|pancreas(1)	3			KIRC - Kidney renal clear cell carcinoma(527;0.000785)|Kidney(363;0.00101)			GACTTTGAAAGAGCTTGGAGA	0.308													17	31	---	---	---	---	PASS
PPARGC1B	133522	broad.mit.edu	37	5	149216148	149216148	+	Silent	SNP	G	A	A			TCGA-18-3412-01A-01D-0983-08	TCGA-18-3412-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	84aca315-8380-4625-887f-a8b3c704c0a9	b5823b9b-ba3a-4d06-aae3-85a682d458f5	g.chr5:149216148G>A	uc003lrc.2	+	8	2172	c.2130G>A	c.(2128-2130)AGG>AGA	p.R710R	PPARGC1B_uc003lrb.1_Silent_p.R710R|PPARGC1B_uc003lrd.2_Silent_p.R671R|PPARGC1B_uc003lrf.2_Silent_p.R689R|PPARGC1B_uc003lre.1_Silent_p.R689R	NM_133263	NP_573570	Q86YN6	PRGC2_HUMAN	peroxisome proliferator-activated receptor	710					estrogen receptor signaling pathway|positive regulation of transcription from RNA polymerase II promoter	mediator complex	AF-2 domain binding|estrogen receptor binding|ligand-dependent nuclear receptor transcription coactivator activity|nucleotide binding|receptor activator activity|RNA binding|RNA polymerase II transcription cofactor activity				0			KIRC - Kidney renal clear cell carcinoma(527;0.000962)|Kidney(363;0.00147)			AGGTGCTGAGGTCCTGGGAGC	0.637													10	19	---	---	---	---	PASS
SYNPO	11346	broad.mit.edu	37	5	150028164	150028164	+	Silent	SNP	G	T	T			TCGA-18-3412-01A-01D-0983-08	TCGA-18-3412-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	84aca315-8380-4625-887f-a8b3c704c0a9	b5823b9b-ba3a-4d06-aae3-85a682d458f5	g.chr5:150028164G>T	uc003lsn.2	+	3	1433	c.1059G>T	c.(1057-1059)CTG>CTT	p.L353L	SYNPO_uc003lso.3_Silent_p.L109L|SYNPO_uc003lsp.2_Silent_p.L109L	NM_001109974	NP_001103444	Q8N3V7	SYNPO_HUMAN	synaptopodin isoform B	353					positive regulation of actin filament bundle assembly|regulation of stress fiber assembly	actin cytoskeleton|cytoplasm|dendritic spine|perikaryon|postsynaptic density|postsynaptic membrane|tight junction	actin binding|protein binding			large_intestine(1)	1		Medulloblastoma(196;0.134)|all_hematologic(541;0.224)	KIRC - Kidney renal clear cell carcinoma(527;0.000785)|Kidney(363;0.00101)			CACAGAGCCTGCCACTTTCTA	0.567													5	102	---	---	---	---	PASS
GABRA6	2559	broad.mit.edu	37	5	161116753	161116753	+	Missense_Mutation	SNP	C	G	G			TCGA-18-3412-01A-01D-0983-08	TCGA-18-3412-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	84aca315-8380-4625-887f-a8b3c704c0a9	b5823b9b-ba3a-4d06-aae3-85a682d458f5	g.chr5:161116753C>G	uc003lyu.2	+	6	979	c.641C>G	c.(640-642)ACA>AGA	p.T214R	GABRA6_uc003lyv.2_5'UTR	NM_000811	NP_000802	Q16445	GBRA6_HUMAN	gamma-aminobutyric acid A receptor, alpha 6	214	Extracellular (Probable).				gamma-aminobutyric acid signaling pathway	cell junction|chloride channel complex|integral to plasma membrane|postsynaptic membrane	benzodiazepine receptor activity|chloride channel activity	p.T214I(1)		ovary(7)|skin(3)|large_intestine(1)|central_nervous_system(1)	12	Renal(175;0.00259)	Medulloblastoma(196;0.0208)|all_neural(177;0.0672)	Kidney(164;7.83e-05)|KIRC - Kidney renal clear cell carcinoma(164;0.000525)		Alprazolam(DB00404)|Ethchlorvynol(DB00189)|Flunitrazepam(DB01544)|Flurazepam(DB00690)|Lorazepam(DB00186)|Meprobamate(DB00371)|Midazolam(DB00683)	ATTGGACAAACAGTATCTAGT	0.363										TCGA Ovarian(5;0.080)			17	29	---	---	---	---	PASS
TBC1D9B	23061	broad.mit.edu	37	5	179320369	179320369	+	Missense_Mutation	SNP	G	A	A			TCGA-18-3412-01A-01D-0983-08	TCGA-18-3412-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	84aca315-8380-4625-887f-a8b3c704c0a9	b5823b9b-ba3a-4d06-aae3-85a682d458f5	g.chr5:179320369G>A	uc003mlh.2	-	5	713	c.676C>T	c.(676-678)CTC>TTC	p.L226F	TBC1D9B_uc003mli.2_Missense_Mutation_p.L226F|TBC1D9B_uc003mlj.2_Missense_Mutation_p.L226F	NM_198868	NP_942568	Q66K14	TBC9B_HUMAN	TBC1 domain family, member 9B (with GRAM domain)	226						integral to membrane|intracellular	calcium ion binding|Rab GTPase activator activity			breast(1)|skin(1)	2	all_cancers(89;0.000197)|all_epithelial(37;6.84e-05)|Renal(175;0.000159)|Lung NSC(126;0.00136)|all_lung(126;0.00243)	all_cancers(40;0.0236)|Medulloblastoma(196;0.00498)|all_neural(177;0.0138)	Kidney(164;2.23e-05)|KIRC - Kidney renal clear cell carcinoma(164;0.000178)			GAGAAGAAGAGCTCCTGGTCG	0.607													11	28	---	---	---	---	PASS
HDGFL1	154150	broad.mit.edu	37	6	22569818	22569818	+	Missense_Mutation	SNP	G	T	T			TCGA-18-3412-01A-01D-0983-08	TCGA-18-3412-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	84aca315-8380-4625-887f-a8b3c704c0a9	b5823b9b-ba3a-4d06-aae3-85a682d458f5	g.chr6:22569818G>T	uc003nds.2	+	1	141	c.14G>T	c.(13-15)GGC>GTC	p.G5V		NM_138574	NP_612641	Q5TGJ6	HDGL1_HUMAN	hepatoma derived growth factor-like 1	5											0	Ovarian(93;0.163)					TCGGCCTACGGCATGCCCATG	0.647													17	2	---	---	---	---	PASS
GSTA4	2941	broad.mit.edu	37	6	52849319	52849319	+	Missense_Mutation	SNP	C	A	A			TCGA-18-3412-01A-01D-0983-08	TCGA-18-3412-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	84aca315-8380-4625-887f-a8b3c704c0a9	b5823b9b-ba3a-4d06-aae3-85a682d458f5	g.chr6:52849319C>A	uc003pbc.2	-	4	421	c.357G>T	c.(355-357)AAG>AAT	p.K119N	GSTA4_uc003pbd.2_Missense_Mutation_p.K26N|GSTA4_uc003pbe.2_Missense_Mutation_p.K26N|GSTA4_uc003pbf.2_Missense_Mutation_p.K119N	NM_001512	NP_001503	O15217	GSTA4_HUMAN	glutathione S-transferase alpha 4	119	GST C-terminal.				glutathione metabolic process|xenobiotic metabolic process	cytosol	glutathione transferase activity|protein homodimerization activity				0	Lung NSC(77;0.103)				Glutathione(DB00143)	TAACCACTTCCTTTTGCTGAT	0.428													5	58	---	---	---	---	PASS
RAB23	51715	broad.mit.edu	37	6	57075140	57075140	+	Silent	SNP	C	A	A			TCGA-18-3412-01A-01D-0983-08	TCGA-18-3412-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	84aca315-8380-4625-887f-a8b3c704c0a9	b5823b9b-ba3a-4d06-aae3-85a682d458f5	g.chr6:57075140C>A	uc003pds.2	-	2	245	c.39G>T	c.(37-39)GTG>GTT	p.V13V	RAB23_uc003pdt.2_Silent_p.V13V|RAB23_uc010kac.2_Silent_p.V13V|RAB23_uc010kad.2_RNA	NM_183227	NP_899050	Q9ULC3	RAB23_HUMAN	Ras-related protein Rab-23	13			Missing.		protein transport|small GTPase mediated signal transduction	plasma membrane	GTP binding			skin(1)	1	Lung NSC(77;0.121)		LUSC - Lung squamous cell carcinoma(124;0.0785)|Lung(124;0.13)			TCCCTACAACCACCATCTTTA	0.383													6	124	---	---	---	---	PASS
CD109	135228	broad.mit.edu	37	6	74520791	74520791	+	Missense_Mutation	SNP	C	T	T			TCGA-18-3412-01A-01D-0983-08	TCGA-18-3412-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	84aca315-8380-4625-887f-a8b3c704c0a9	b5823b9b-ba3a-4d06-aae3-85a682d458f5	g.chr6:74520791C>T	uc003php.2	+	28	4048	c.3623C>T	c.(3622-3624)ACC>ATC	p.T1208I	CD109_uc010kaz.2_Intron|CD109_uc003phq.2_Missense_Mutation_p.T1208I|CD109_uc010kba.2_Missense_Mutation_p.T1131I	NM_133493	NP_598000	Q6YHK3	CD109_HUMAN	CD109 antigen isoform 1 precursor	1208						anchored to membrane|extracellular space|plasma membrane	serine-type endopeptidase inhibitor activity			large_intestine(2)|ovary(2)	4						ATCCAAGTGACCGTGACGGGG	0.468													17	48	---	---	---	---	PASS
COL12A1	1303	broad.mit.edu	37	6	75814968	75814968	+	Missense_Mutation	SNP	G	T	T			TCGA-18-3412-01A-01D-0983-08	TCGA-18-3412-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	84aca315-8380-4625-887f-a8b3c704c0a9	b5823b9b-ba3a-4d06-aae3-85a682d458f5	g.chr6:75814968G>T	uc003phs.2	-	54	8385	c.8219C>A	c.(8218-8220)ACA>AAA	p.T2740K	COL12A1_uc003pht.2_Missense_Mutation_p.T1576K	NM_004370	NP_004361	Q99715	COCA1_HUMAN	collagen, type XII, alpha 1 long isoform	2740	Nonhelical region (NC3).				cell adhesion|collagen fibril organization|skeletal system development	collagen type XII|extracellular space	extracellular matrix structural constituent conferring tensile strength			ovary(6)|large_intestine(1)|breast(1)|skin(1)	9						CTGTGTACATGTGCAAGAATT	0.393													7	15	---	---	---	---	PASS
C6orf97	80129	broad.mit.edu	37	6	151917703	151917703	+	Missense_Mutation	SNP	T	G	G			TCGA-18-3412-01A-01D-0983-08	TCGA-18-3412-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	84aca315-8380-4625-887f-a8b3c704c0a9	b5823b9b-ba3a-4d06-aae3-85a682d458f5	g.chr6:151917703T>G	uc003qol.2	+	9	1790	c.1701T>G	c.(1699-1701)AAT>AAG	p.N567K		NM_025059	NP_079335	Q8IYT3	CF097_HUMAN	hypothetical protein LOC80129	567	Potential.										0		Ovarian(120;0.126)	BRCA - Breast invasive adenocarcinoma(37;0.111)	OV - Ovarian serous cystadenocarcinoma(155;1.48e-10)		CCGACACCAATGAACTGAAGG	0.478													30	56	---	---	---	---	PASS
THBS2	7058	broad.mit.edu	37	6	169621534	169621534	+	Missense_Mutation	SNP	C	G	G			TCGA-18-3412-01A-01D-0983-08	TCGA-18-3412-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	84aca315-8380-4625-887f-a8b3c704c0a9	b5823b9b-ba3a-4d06-aae3-85a682d458f5	g.chr6:169621534C>G	uc003qwt.2	-	21	3610	c.3362G>C	c.(3361-3363)GGC>GCC	p.G1121A		NM_003247	NP_003238	P35442	TSP2_HUMAN	thrombospondin 2 precursor	1121	TSP C-terminal.				cell adhesion	extracellular region	calcium ion binding|heparin binding|protein binding|structural molecule activity			ovary(5)	5		Breast(66;1.78e-05)|Ovarian(120;0.0728)|Esophageal squamous(34;0.247)		OV - Ovarian serous cystadenocarcinoma(33;1.85e-21)|BRCA - Breast invasive adenocarcinoma(81;1.43e-06)|GBM - Glioblastoma multiforme(31;0.000379)		CCTGATGTAGCCAGTCTTGGG	0.527													8	70	---	---	---	---	PASS
COX19	90639	broad.mit.edu	37	7	1009037	1009037	+	Nonsense_Mutation	SNP	C	A	A			TCGA-18-3412-01A-01D-0983-08	TCGA-18-3412-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	84aca315-8380-4625-887f-a8b3c704c0a9	b5823b9b-ba3a-4d06-aae3-85a682d458f5	g.chr7:1009037C>A	uc003sjp.1	-	3	340	c.250G>T	c.(250-252)GGA>TGA	p.G84*	ADAP1_uc010ksc.2_Intron	NM_001031617	NP_001026788	Q49B96	COX19_HUMAN	COX19 cytochrome c oxidase assembly homolog	84						cytosol					0		Ovarian(82;0.0112)		UCEC - Uterine corpus endometrioid carcinoma (27;0.0181)|OV - Ovarian serous cystadenocarcinoma(56;2.15e-15)		TCTGATTTTCCACTAGTCAAG	0.473													9	287	---	---	---	---	PASS
CTTNBP2	83992	broad.mit.edu	37	7	117431826	117431826	+	Nonsense_Mutation	SNP	G	T	T			TCGA-18-3412-01A-01D-0983-08	TCGA-18-3412-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	84aca315-8380-4625-887f-a8b3c704c0a9	b5823b9b-ba3a-4d06-aae3-85a682d458f5	g.chr7:117431826G>T	uc003vjf.2	-	4	1516	c.1424C>A	c.(1423-1425)TCG>TAG	p.S475*		NM_033427	NP_219499	Q8WZ74	CTTB2_HUMAN	cortactin binding protein 2	475	Pro-rich.									ovary(4)|central_nervous_system(1)	5	Lung NSC(10;0.0018)|all_lung(10;0.002)			LUSC - Lung squamous cell carcinoma(290;0.133)		ACTTGTAGGCGAGACATCTCT	0.483													7	287	---	---	---	---	PASS
TAS2R16	50833	broad.mit.edu	37	7	122635530	122635530	+	Silent	SNP	G	A	A			TCGA-18-3412-01A-01D-0983-08	TCGA-18-3412-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	84aca315-8380-4625-887f-a8b3c704c0a9	b5823b9b-ba3a-4d06-aae3-85a682d458f5	g.chr7:122635530G>A	uc003vkl.1	-	1	225	c.159C>T	c.(157-159)GGC>GGT	p.G53G		NM_016945	NP_058641	Q9NYV7	T2R16_HUMAN	taste receptor T2R16	53	Helical; Name=2; (Potential).				detection of chemical stimulus involved in sensory perception of bitter taste	endoplasmic reticulum|external side of plasma membrane|trans-Golgi network	bitter taste receptor activity|protein binding			ovary(1)|skin(1)	2						AGCGAGAGATGCCCAGGCTGA	0.438													16	60	---	---	---	---	PASS
ASB15	142685	broad.mit.edu	37	7	123256317	123256317	+	Silent	SNP	C	A	A			TCGA-18-3412-01A-01D-0983-08	TCGA-18-3412-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	84aca315-8380-4625-887f-a8b3c704c0a9	b5823b9b-ba3a-4d06-aae3-85a682d458f5	g.chr7:123256317C>A	uc003vku.1	+	5	442	c.150C>A	c.(148-150)GCC>GCA	p.A50A	ASB15_uc003vkv.1_Silent_p.A50A|ASB15_uc003vkw.1_Silent_p.A50A	NM_080928	NP_563616	Q8WXK1	ASB15_HUMAN	ankyrin repeat and SOCS box-containing 15	50					intracellular signal transduction					skin(2)|lung(1)	3						TTGTGGAGGCCATAAAACAAG	0.353													9	58	---	---	---	---	PASS
NUP205	23165	broad.mit.edu	37	7	135307641	135307641	+	Nonsense_Mutation	SNP	C	T	T			TCGA-18-3412-01A-01D-0983-08	TCGA-18-3412-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	84aca315-8380-4625-887f-a8b3c704c0a9	b5823b9b-ba3a-4d06-aae3-85a682d458f5	g.chr7:135307641C>T	uc003vsw.2	+	31	4478	c.4447C>T	c.(4447-4449)CGA>TGA	p.R1483*	NUP205_uc003vsx.2_RNA	NM_015135	NP_055950	Q92621	NU205_HUMAN	nucleoporin 205kDa	1483					carbohydrate metabolic process|glucose transport|mRNA transport|protein import into nucleus, docking|regulation of glucose transport|transmembrane transport|viral reproduction	nuclear pore	protein binding			ovary(3)|breast(1)|central_nervous_system(1)|skin(1)	6						AGTGGTCTGTCGAGATGCTTG	0.383													19	43	---	---	---	---	PASS
PDIA4	9601	broad.mit.edu	37	7	148718111	148718111	+	Missense_Mutation	SNP	C	G	G			TCGA-18-3412-01A-01D-0983-08	TCGA-18-3412-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	84aca315-8380-4625-887f-a8b3c704c0a9	b5823b9b-ba3a-4d06-aae3-85a682d458f5	g.chr7:148718111C>G	uc003wff.2	-	2	499	c.217G>C	c.(217-219)GAT>CAT	p.D73H		NM_004911	NP_004902	P13667	PDIA4_HUMAN	protein disulfide isomerase A4 precursor	73	Thioredoxin 1.				cell redox homeostasis|glycerol ether metabolic process|protein secretion	endoplasmic reticulum lumen|melanosome	electron carrier activity|protein binding|protein disulfide isomerase activity|protein disulfide oxidoreductase activity			lung(5)|ovary(1)	6	Melanoma(164;0.15)		OV - Ovarian serous cystadenocarcinoma(82;0.00385)			ACAAAATTATCAAAGTTTGCA	0.348													10	33	---	---	---	---	PASS
PDIA4	9601	broad.mit.edu	37	7	148718159	148718159	+	Nonsense_Mutation	SNP	C	A	A			TCGA-18-3412-01A-01D-0983-08	TCGA-18-3412-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	84aca315-8380-4625-887f-a8b3c704c0a9	b5823b9b-ba3a-4d06-aae3-85a682d458f5	g.chr7:148718159C>A	uc003wff.2	-	2	451	c.169G>T	c.(169-171)GAA>TAA	p.E57*		NM_004911	NP_004902	P13667	PDIA4_HUMAN	protein disulfide isomerase A4 precursor	57	Thioredoxin 1.				cell redox homeostasis|glycerol ether metabolic process|protein secretion	endoplasmic reticulum lumen|melanosome	electron carrier activity|protein binding|protein disulfide isomerase activity|protein disulfide oxidoreductase activity			lung(5)|ovary(1)	6	Melanoma(164;0.15)		OV - Ovarian serous cystadenocarcinoma(82;0.00385)			TCCTTAACTTCCAAGTCGtct	0.308													5	32	---	---	---	---	PASS
ZNF786	136051	broad.mit.edu	37	7	148769401	148769401	+	Missense_Mutation	SNP	C	A	A			TCGA-18-3412-01A-01D-0983-08	TCGA-18-3412-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	84aca315-8380-4625-887f-a8b3c704c0a9	b5823b9b-ba3a-4d06-aae3-85a682d458f5	g.chr7:148769401C>A	uc003wfh.2	-	4	600	c.463G>T	c.(463-465)GGC>TGC	p.G155C	ZNF786_uc011kuk.1_Missense_Mutation_p.G118C|ZNF786_uc003wfi.2_Missense_Mutation_p.G69C	NM_152411	NP_689624	Q8N393	ZN786_HUMAN	zinc finger protein 786	155					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			breast(3)|skin(1)	4	Melanoma(164;0.15)		OV - Ovarian serous cystadenocarcinoma(82;0.00463)			TCACTGGGGCCGCAGGCTAGT	0.592													9	12	---	---	---	---	PASS
ABP1	26	broad.mit.edu	37	7	150555890	150555890	+	Missense_Mutation	SNP	A	G	G			TCGA-18-3412-01A-01D-0983-08	TCGA-18-3412-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	84aca315-8380-4625-887f-a8b3c704c0a9	b5823b9b-ba3a-4d06-aae3-85a682d458f5	g.chr7:150555890A>G	uc003why.1	+	4	5828	c.1610A>G	c.(1609-1611)GAA>GGA	p.E537G	ABP1_uc003whz.1_Missense_Mutation_p.E537G|ABP1_uc003wia.1_Missense_Mutation_p.E537G	NM_001091	NP_001082	P19801	ABP1_HUMAN	amiloride binding protein 1 precursor	537					amine metabolic process	extracellular space|peroxisome	copper ion binding|diamine oxidase activity|heparin binding|histamine oxidase activity|methylputrescine oxidase activity|primary amine oxidase activity|propane-1,3-diamine oxidase activity|quinone binding			ovary(2)|breast(2)|skin(2)	6	all_neural(206;0.219)		OV - Ovarian serous cystadenocarcinoma(82;0.0121)	UCEC - Uterine corpus endometrioid carcinoma (81;0.168)	Amiloride(DB00594)|Spermine(DB00127)	ATGAAGCTAGAAAACATCACC	0.562													7	41	---	---	---	---	PASS
CSMD1	64478	broad.mit.edu	37	8	3224667	3224667	+	Missense_Mutation	SNP	C	A	A			TCGA-18-3412-01A-01D-0983-08	TCGA-18-3412-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	84aca315-8380-4625-887f-a8b3c704c0a9	b5823b9b-ba3a-4d06-aae3-85a682d458f5	g.chr8:3224667C>A	uc011kwk.1	-	20	3395	c.3005G>T	c.(3004-3006)GGG>GTG	p.G1002V	CSMD1_uc011kwj.1_Missense_Mutation_p.G394V|CSMD1_uc003wqe.2_Missense_Mutation_p.G158V	NM_033225	NP_150094	Q96PZ7	CSMD1_HUMAN	CUB and Sushi multiple domains 1 precursor	1002	Extracellular (Potential).|CUB 6.					integral to membrane				breast(20)|large_intestine(5)	25		all_cancers(1;5.7e-41)|all_epithelial(1;2.54e-36)|Lung NSC(1;7.54e-11)|all_lung(1;3.2e-10)|Hepatocellular(1;3.78e-05)|Breast(1;0.000196)|Myeloproliferative disorder(4;0.000374)|Esophageal squamous(1;0.0157)|Ovarian(12;0.091)|Renal(68;0.144)|Colorectal(14;0.234)		all cancers(1;5.03e-41)|Epithelial(1;4.78e-31)|Lung(1;1.14e-14)|LUSC - Lung squamous cell carcinoma(1;2.34e-14)|GBM - Glioblastoma multiforme(1;4.49e-10)|Colorectal(4;1.18e-07)|OV - Ovarian serous cystadenocarcinoma(1;3.2e-07)|BRCA - Breast invasive adenocarcinoma(1;6.17e-07)|COAD - Colon adenocarcinoma(4;0.000539)|READ - Rectum adenocarcinoma(4;0.00896)|Kidney(5;0.00957)|KIRC - Kidney renal clear cell carcinoma(5;0.0689)		CAACACCGACCCGGTGAGCCT	0.478													6	12	---	---	---	---	PASS
ADAM7	8756	broad.mit.edu	37	8	24342874	24342874	+	Missense_Mutation	SNP	G	C	C			TCGA-18-3412-01A-01D-0983-08	TCGA-18-3412-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	84aca315-8380-4625-887f-a8b3c704c0a9	b5823b9b-ba3a-4d06-aae3-85a682d458f5	g.chr8:24342874G>C	uc003xeb.2	+	10	1073	c.960G>C	c.(958-960)AAG>AAC	p.K320N	ADAM7_uc003xec.2_Missense_Mutation_p.K92N	NM_003817	NP_003808	Q9H2U9	ADAM7_HUMAN	a disintegrin and metalloproteinase domain 7	320	Peptidase M12B.|Extracellular (Potential).				proteolysis	integral to membrane	metalloendopeptidase activity|zinc ion binding			skin(3)|ovary(1)|kidney(1)	5		Prostate(55;0.0181)		Colorectal(74;0.0199)|COAD - Colon adenocarcinoma(73;0.0754)|BRCA - Breast invasive adenocarcinoma(99;0.182)		GTATCATTAAGGTGGGCTGTG	0.368													5	13	---	---	---	---	PASS
POTEA	340441	broad.mit.edu	37	8	43171087	43171087	+	Missense_Mutation	SNP	G	C	C			TCGA-18-3412-01A-01D-0983-08	TCGA-18-3412-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	84aca315-8380-4625-887f-a8b3c704c0a9	b5823b9b-ba3a-4d06-aae3-85a682d458f5	g.chr8:43171087G>C	uc003xpz.1	+	7	1001	c.958G>C	c.(958-960)GAA>CAA	p.E320Q	POTEA_uc003xqa.1_Missense_Mutation_p.E274Q	NM_001005365	NP_001005365	Q6S8J7	POTEA_HUMAN	POTE ankyrin domain family, member A isoform 2	320										ovary(1)	1						TAAAGGAAGTGAAAATAGTCA	0.308													17	39	---	---	---	---	PASS
PSKH2	85481	broad.mit.edu	37	8	87076814	87076814	+	Missense_Mutation	SNP	C	A	A			TCGA-18-3412-01A-01D-0983-08	TCGA-18-3412-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	84aca315-8380-4625-887f-a8b3c704c0a9	b5823b9b-ba3a-4d06-aae3-85a682d458f5	g.chr8:87076814C>A	uc011lfy.1	-	2	232	c.232G>T	c.(232-234)GTC>TTC	p.V78F		NM_033126	NP_149117	Q96QS6	KPSH2_HUMAN	protein serine kinase H2	78	Protein kinase.						ATP binding|protein serine/threonine kinase activity			stomach(2)|lung(2)|ovary(1)	5			STAD - Stomach adenocarcinoma(118;0.129)			TCTACCCTGACAACCCTGCTG	0.448													29	34	---	---	---	---	PASS
MTERFD1	51001	broad.mit.edu	37	8	97263208	97263208	+	Missense_Mutation	SNP	C	A	A			TCGA-18-3412-01A-01D-0983-08	TCGA-18-3412-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	84aca315-8380-4625-887f-a8b3c704c0a9	b5823b9b-ba3a-4d06-aae3-85a682d458f5	g.chr8:97263208C>A	uc003yhs.1	-	4	681	c.603G>T	c.(601-603)GAG>GAT	p.E201D	MTERFD1_uc003yhr.1_Missense_Mutation_p.E80D|MTERFD1_uc010mbd.1_Missense_Mutation_p.E201D	NM_015942	NP_057026	Q96E29	MTER1_HUMAN	MTERF domain containing 1 precursor	201					negative regulation of transcription, DNA-dependent|transcription, DNA-dependent	mitochondrion	transcription regulatory region DNA binding			ovary(1)	1	Breast(36;5.16e-05)					GTTGGTTATCCTCTATACCCA	0.368													6	81	---	---	---	---	PASS
SMARCA2	6595	broad.mit.edu	37	9	2039694	2039694	+	Missense_Mutation	SNP	G	T	T			TCGA-18-3412-01A-01D-0983-08	TCGA-18-3412-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	84aca315-8380-4625-887f-a8b3c704c0a9	b5823b9b-ba3a-4d06-aae3-85a682d458f5	g.chr9:2039694G>T	uc003zhc.2	+	4	683	c.584G>T	c.(583-585)GGC>GTC	p.G195V	SMARCA2_uc003zhd.2_Missense_Mutation_p.G195V|SMARCA2_uc010mha.2_Missense_Mutation_p.G186V	NM_003070	NP_003061	P51531	SMCA2_HUMAN	SWI/SNF-related matrix-associated	195					chromatin remodeling|negative regulation of cell growth|negative regulation of transcription from RNA polymerase II promoter|nervous system development	intermediate filament cytoskeleton|nBAF complex|npBAF complex|nuclear chromatin|nucleoplasm|SWI/SNF complex|WINAC complex	ATP binding|DNA-dependent ATPase activity|helicase activity|protein binding|RNA polymerase II transcription coactivator activity|transcription regulatory region DNA binding			ovary(2)|central_nervous_system(1)	3		all_lung(10;2.06e-09)|Lung NSC(10;2.43e-09)		GBM - Glioblastoma multiforme(50;0.0475)		CTGGCCCGAGGCCAGCCCCTC	0.463													20	2	---	---	---	---	PASS
CDKN2A	1029	broad.mit.edu	37	9	21971035	21971035	+	Missense_Mutation	SNP	T	C	C			TCGA-18-3412-01A-01D-0983-08	TCGA-18-3412-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	84aca315-8380-4625-887f-a8b3c704c0a9	b5823b9b-ba3a-4d06-aae3-85a682d458f5	g.chr9:21971035T>C	uc003zpk.2	-	2	535	c.323A>G	c.(322-324)GAT>GGT	p.D108G	MTAP_uc003zpi.1_Intron|CDKN2A_uc003zpj.2_3'UTR|CDKN2A_uc010miu.2_RNA|CDKN2A_uc003zpl.2_Silent_p.R163R	NM_000077	NP_000068	P42771	CD2A1_HUMAN	cyclin-dependent kinase inhibitor 2A isoform 1	108			D -> Y (in a head and neck tumor).|D -> H (in a bladder tumor).		cell cycle arrest|cell cycle checkpoint|G1 phase of mitotic cell cycle|G1/S transition of mitotic cell cycle|induction of apoptosis|negative regulation of cell growth|negative regulation of cell proliferation|negative regulation of cell-matrix adhesion|negative regulation of cyclin-dependent protein kinase activity|negative regulation of NF-kappaB transcription factor activity|positive regulation of macrophage apoptosis|positive regulation of smooth muscle cell apoptosis|Ras protein signal transduction|replicative senescence	cytosol|nucleus	cyclin-dependent protein kinase inhibitor activity|NF-kappaB binding|protein binding|protein binding|protein kinase binding	p.0?(1112)|p.D108Y(14)|p.?(13)|p.D108H(9)|p.D108N(5)|p.H83fs*2(2)|p.D105fs*8(1)|p.A68fs*3(1)|p.R107fs*33(1)		haematopoietic_and_lymphoid_tissue(647)|skin(419)|upper_aerodigestive_tract(414)|central_nervous_system(381)|lung(325)|pancreas(244)|oesophagus(230)|urinary_tract(225)|pleura(94)|liver(91)|soft_tissue(79)|bone(77)|ovary(76)|biliary_tract(71)|stomach(46)|breast(46)|kidney(39)|NS(28)|thyroid(24)|cervix(23)|meninges(18)|genital_tract(15)|endometrium(13)|prostate(11)|autonomic_ganglia(10)|salivary_gland(10)|large_intestine(9)|adrenal_gland(6)|eye(4)|vulva(2)|small_intestine(1)	3678		all_cancers(5;0)|Acute lymphoblastic leukemia(3;0)|all_hematologic(3;0)|all_epithelial(2;2.37e-290)|Lung NSC(2;1.26e-139)|all_lung(2;4.48e-131)|Glioma(2;3.26e-60)|all_neural(2;2.1e-52)|Renal(3;1.07e-46)|Esophageal squamous(3;3.83e-46)|Melanoma(2;2.74e-34)|Breast(3;1.14e-11)|Ovarian(3;0.000128)|Hepatocellular(5;0.00162)|Colorectal(97;0.172)		all cancers(2;0)|GBM - Glioblastoma multiforme(3;0)|Lung(2;4.07e-74)|Epithelial(2;1.08e-61)|LUSC - Lung squamous cell carcinoma(2;3.82e-48)|LUAD - Lung adenocarcinoma(2;4.56e-26)|OV - Ovarian serous cystadenocarcinoma(39;7.64e-10)|BRCA - Breast invasive adenocarcinoma(2;5.01e-09)|STAD - Stomach adenocarcinoma(4;4.63e-07)|Kidney(2;5.79e-07)|KIRC - Kidney renal clear cell carcinoma(2;7.27e-07)|COAD - Colon adenocarcinoma(8;5.15e-05)		GCCCCAGGCATCGCGCACGTC	0.741		17							Uveal_Melanoma_Familial|Familial_Malignant_Melanoma_and_Tumors_of_the_Nervous_System|Hereditary_Melanoma	HNSCC(2;<9.43e_08)|TSP Lung(5;3.83e-07)			4	1	---	---	---	---	PASS
FLJ46321	389763	broad.mit.edu	37	9	84604698	84604698	+	Missense_Mutation	SNP	G	T	T			TCGA-18-3412-01A-01D-0983-08	TCGA-18-3412-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	84aca315-8380-4625-887f-a8b3c704c0a9	b5823b9b-ba3a-4d06-aae3-85a682d458f5	g.chr9:84604698G>T	uc004amn.2	+	2	239	c.192G>T	c.(190-192)CAG>CAT	p.Q64H		NM_001001670	NP_001001670	Q6ZQQ2	F75D1_HUMAN	hypothetical protein LOC389763	64						integral to membrane					0						CTCAGCATCAGGGCAGAGCCA	0.398													23	19	---	---	---	---	PASS
FLJ46321	389763	broad.mit.edu	37	9	84608634	84608634	+	Missense_Mutation	SNP	G	T	T			TCGA-18-3412-01A-01D-0983-08	TCGA-18-3412-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	84aca315-8380-4625-887f-a8b3c704c0a9	b5823b9b-ba3a-4d06-aae3-85a682d458f5	g.chr9:84608634G>T	uc004amn.2	+	4	3296	c.3249G>T	c.(3247-3249)GAG>GAT	p.E1083D		NM_001001670	NP_001001670	Q6ZQQ2	F75D1_HUMAN	hypothetical protein LOC389763	1083						integral to membrane					0						GGACAACAGAGGATGGCAGAC	0.507													5	61	---	---	---	---	PASS
PTCH1	5727	broad.mit.edu	37	9	98232095	98232095	+	Missense_Mutation	SNP	C	A	A			TCGA-18-3412-01A-01D-0983-08	TCGA-18-3412-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	84aca315-8380-4625-887f-a8b3c704c0a9	b5823b9b-ba3a-4d06-aae3-85a682d458f5	g.chr9:98232095C>A	uc004avk.3	-	13	2035	c.1847G>T	c.(1846-1848)AGC>ATC	p.S616I	PTCH1_uc010mro.2_Missense_Mutation_p.S465I|PTCH1_uc010mrp.2_Missense_Mutation_p.S465I|PTCH1_uc010mrq.2_Missense_Mutation_p.S465I|PTCH1_uc004avl.3_Missense_Mutation_p.S465I|PTCH1_uc010mrr.2_Missense_Mutation_p.S550I|PTCH1_uc004avm.3_Missense_Mutation_p.S615I|PTCH1_uc010mrs.1_Missense_Mutation_p.S284I	NM_000264	NP_000255	Q13635	PTC1_HUMAN	patched isoform L	616	Cytoplasmic (Potential).				embryonic limb morphogenesis|negative regulation of multicellular organism growth|protein processing|regulation of smoothened signaling pathway|smoothened signaling pathway	integral to plasma membrane	hedgehog receptor activity	p.S616N(1)		skin(242)|central_nervous_system(72)|bone(33)|upper_aerodigestive_tract(11)|lung(6)|large_intestine(4)|breast(4)|oesophagus(3)|ovary(3)|vulva(1)	379		Medulloblastoma(1;7.87e-06)|all_neural(1;0.000555)|Acute lymphoblastic leukemia(62;0.136)				GAAAATGTACCTTGTAAAACA	0.438									Basal_Cell_Nevus_syndrome				7	252	---	---	---	---	PASS
ABCA1	19	broad.mit.edu	37	9	107565591	107565591	+	Missense_Mutation	SNP	C	A	A			TCGA-18-3412-01A-01D-0983-08	TCGA-18-3412-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	84aca315-8380-4625-887f-a8b3c704c0a9	b5823b9b-ba3a-4d06-aae3-85a682d458f5	g.chr9:107565591C>A	uc004bcl.2	-	33	4879	c.4566G>T	c.(4564-4566)AAG>AAT	p.K1522N		NM_005502	NP_005493	O95477	ABCA1_HUMAN	ATP-binding cassette, sub-family A member 1	1522	Extracellular.				Cdc42 protein signal transduction|cellular lipid metabolic process|cholesterol efflux|cholesterol homeostasis|cholesterol metabolic process|endosome transport|G-protein coupled receptor protein signaling pathway|high-density lipoprotein particle assembly|interleukin-1 beta secretion|intracellular cholesterol transport|lysosome organization|negative regulation of cholesterol storage|negative regulation of macrophage derived foam cell differentiation|phospholipid efflux|phospholipid homeostasis|platelet dense granule organization|positive regulation of cAMP biosynthetic process|reverse cholesterol transport	integral to plasma membrane|membrane fraction|membrane raft|phagocytic vesicle	anion transmembrane transporter activity|apolipoprotein A-I receptor activity|ATP binding|ATPase activity|cholesterol transporter activity|phospholipid transporter activity|small GTPase binding|syntaxin-13 binding			large_intestine(4)|lung(4)|ovary(4)|upper_aerodigestive_tract(1)|central_nervous_system(1)|breast(1)|skin(1)|pancreas(1)	17				OV - Ovarian serous cystadenocarcinoma(323;0.023)	Adenosine triphosphate(DB00171)|Glibenclamide(DB01016)	AGATCTTGTTCTTTAAGCTGC	0.408													6	185	---	---	---	---	PASS
VAV2	7410	broad.mit.edu	37	9	136661648	136661648	+	Splice_Site	SNP	T	A	A			TCGA-18-3412-01A-01D-0983-08	TCGA-18-3412-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	84aca315-8380-4625-887f-a8b3c704c0a9	b5823b9b-ba3a-4d06-aae3-85a682d458f5	g.chr9:136661648T>A	uc004ces.2	-	11	983	c.937_splice	c.e11-1	p.E313_splice	VAV2_uc004cer.2_Splice_Site_p.E308_splice	NM_001134398	NP_001127870	P52735	VAV2_HUMAN	vav 2 guanine nucleotide exchange factor isoform						angiogenesis|apoptosis|axon guidance|induction of apoptosis by extracellular signals|nerve growth factor receptor signaling pathway|platelet activation|regulation of Rho protein signal transduction|small GTPase mediated signal transduction	cytosol	metal ion binding|Rho guanyl-nucleotide exchange factor activity			central_nervous_system(3)|ovary(2)|lung(2)|breast(1)	8				OV - Ovarian serous cystadenocarcinoma(145;3.9e-07)|Epithelial(140;2.07e-06)|all cancers(34;9.39e-06)		TGTGCACTCCTGGGAGGGCGA	0.597													7	3	---	---	---	---	PASS
NRP1	8829	broad.mit.edu	37	10	33502401	33502401	+	Missense_Mutation	SNP	C	A	A			TCGA-18-3412-01A-01D-0983-08	TCGA-18-3412-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	84aca315-8380-4625-887f-a8b3c704c0a9	b5823b9b-ba3a-4d06-aae3-85a682d458f5	g.chr10:33502401C>A	uc001iwx.3	-	9	2050	c.1527G>T	c.(1525-1527)AAG>AAT	p.K509N	NRP1_uc001iwv.3_Missense_Mutation_p.K509N|NRP1_uc009xlz.2_Missense_Mutation_p.K509N|NRP1_uc001iww.3_Missense_Mutation_p.K328N|NRP1_uc001iwy.3_Missense_Mutation_p.K509N|NRP1_uc001iwz.2_Missense_Mutation_p.K509N|NRP1_uc001ixa.2_Missense_Mutation_p.K509N|NRP1_uc001ixb.1_Missense_Mutation_p.K509N|NRP1_uc001ixc.1_Missense_Mutation_p.K509N	NM_003873	NP_003864	O14786	NRP1_HUMAN	neuropilin 1 isoform a	509	Extracellular (Potential).|F5/8 type C 2.				axon guidance|cell adhesion|cell-cell signaling|organ morphogenesis|positive regulation of cell proliferation	extracellular region|integral to membrane|plasma membrane	growth factor binding|heparin binding|metal ion binding|vascular endothelial growth factor receptor activity			central_nervous_system(2)|ovary(1)|skin(1)	4					Palifermin(DB00039)|Pegaptanib(DB04895)	TCATGAACACCTTGTTCTCTC	0.532													6	102	---	---	---	---	PASS
MBL2	4153	broad.mit.edu	37	10	54531335	54531335	+	Nonsense_Mutation	SNP	C	A	A			TCGA-18-3412-01A-01D-0983-08	TCGA-18-3412-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	84aca315-8380-4625-887f-a8b3c704c0a9	b5823b9b-ba3a-4d06-aae3-85a682d458f5	g.chr10:54531335C>A	uc001jjt.2	-	1	126	c.61G>T	c.(61-63)GAA>TAA	p.E21*		NM_000242	NP_000233	P11226	MBL2_HUMAN	soluble mannose-binding lectin precursor	21	Cys-rich.				acute-phase response|complement activation, classical pathway|complement activation, lectin pathway|defense response to Gram-positive bacterium|negative regulation of growth of symbiont in host|opsonization|response to oxidative stress	collagen|extracellular space	bacterial cell surface binding|calcium-dependent protein binding|eukaryotic cell surface binding|mannose binding|receptor binding			ovary(1)	1						GTCACAGTTTCTGAGTAAGAC	0.532													6	14	---	---	---	---	PASS
PDZD8	118987	broad.mit.edu	37	10	119044409	119044409	+	Missense_Mutation	SNP	G	T	T			TCGA-18-3412-01A-01D-0983-08	TCGA-18-3412-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	84aca315-8380-4625-887f-a8b3c704c0a9	b5823b9b-ba3a-4d06-aae3-85a682d458f5	g.chr10:119044409G>T	uc001lde.1	-	5	2034	c.1835C>A	c.(1834-1836)CCA>CAA	p.P612Q		NM_173791	NP_776152	Q8NEN9	PDZD8_HUMAN	PDZ domain containing 8	612	Pro-rich.				intracellular signal transduction		metal ion binding				0		Colorectal(252;0.19)		all cancers(201;0.0121)		GAGAACATCTGGTTCTGCCTG	0.483													5	65	---	---	---	---	PASS
EIF3A	8661	broad.mit.edu	37	10	120810778	120810778	+	Nonsense_Mutation	SNP	G	T	T			TCGA-18-3412-01A-01D-0983-08	TCGA-18-3412-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	84aca315-8380-4625-887f-a8b3c704c0a9	b5823b9b-ba3a-4d06-aae3-85a682d458f5	g.chr10:120810778G>T	uc001ldu.2	-	15	2398	c.2252C>A	c.(2251-2253)TCA>TAA	p.S751*	EIF3A_uc010qsu.1_Nonsense_Mutation_p.S717*|EIF3A_uc009xzg.1_5'Flank	NM_003750	NP_003741	Q14152	EIF3A_HUMAN	eukaryotic translation initiation factor 3,	751	Interaction with EIF3B.|Glu-rich.				formation of translation initiation complex	cytosol|eukaryotic translation initiation factor 3 complex	protein binding|structural molecule activity|translation initiation factor activity				0		Lung NSC(174;0.094)|all_lung(145;0.123)		all cancers(201;0.0236)		AAGCATTCGTGACATTCGATT	0.363													5	53	---	---	---	---	PASS
STIM1	6786	broad.mit.edu	37	11	4104567	4104567	+	Missense_Mutation	SNP	G	C	C			TCGA-18-3412-01A-01D-0983-08	TCGA-18-3412-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	84aca315-8380-4625-887f-a8b3c704c0a9	b5823b9b-ba3a-4d06-aae3-85a682d458f5	g.chr11:4104567G>C	uc001lyv.2	+	10	1881	c.1313G>C	c.(1312-1314)GGC>GCC	p.G438A	STIM1_uc009yef.2_Missense_Mutation_p.G438A|STIM1_uc009yeg.2_Missense_Mutation_p.G265A	NM_003156	NP_003147	Q13586	STIM1_HUMAN	stromal interaction molecule 1 precursor	438	Cytoplasmic (Potential).				activation of store-operated calcium channel activity|calcium ion transport|detection of calcium ion|platelet activation	integral to endoplasmic reticulum membrane|integral to plasma membrane|microtubule	calcium ion binding|microtubule plus-end binding			pancreas(1)	1		Breast(177;0.00159)|Medulloblastoma(188;0.00258)|all_neural(188;0.0233)		BRCA - Breast invasive adenocarcinoma(625;0.114)|LUSC - Lung squamous cell carcinoma(625;0.141)		ATCCTCTGTGGCTTCCAGATT	0.582													13	28	---	---	---	---	PASS
TRIM68	55128	broad.mit.edu	37	11	4624558	4624558	+	Missense_Mutation	SNP	C	T	T			TCGA-18-3412-01A-01D-0983-08	TCGA-18-3412-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	84aca315-8380-4625-887f-a8b3c704c0a9	b5823b9b-ba3a-4d06-aae3-85a682d458f5	g.chr11:4624558C>T	uc001lzf.1	-	3	677	c.439G>A	c.(439-441)GAG>AAG	p.E147K	TRIM68_uc001lzg.1_5'UTR|TRIM68_uc010qyj.1_RNA|TRIM68_uc009yek.1_Missense_Mutation_p.E147K	NM_018073	NP_060543	Q6AZZ1	TRI68_HUMAN	ring finger protein 137	147					protein autoubiquitination|regulation of androgen receptor signaling pathway	Golgi apparatus|nucleolus|perinuclear region of cytoplasm	androgen receptor binding|histone acetyltransferase binding|ubiquitin-protein ligase activity|zinc ion binding			ovary(1)	1		Medulloblastoma(188;0.0025)|Breast(177;0.0101)|all_neural(188;0.0227)		Epithelial(150;9.49e-12)|BRCA - Breast invasive adenocarcinoma(625;0.0288)|LUSC - Lung squamous cell carcinoma(625;0.192)		TCGAGGGCCTCATGAAGTTCC	0.552													15	25	---	---	---	---	PASS
SYT9	143425	broad.mit.edu	37	11	7335113	7335113	+	Missense_Mutation	SNP	G	C	C			TCGA-18-3412-01A-01D-0983-08	TCGA-18-3412-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	84aca315-8380-4625-887f-a8b3c704c0a9	b5823b9b-ba3a-4d06-aae3-85a682d458f5	g.chr11:7335113G>C	uc001mfe.2	+	3	1222	c.985G>C	c.(985-987)GAC>CAC	p.D329H	SYT9_uc001mfd.2_RNA|SYT9_uc009yfi.2_Intron	NM_175733	NP_783860	Q86SS6	SYT9_HUMAN	synaptotagmin IX	329	Cytoplasmic (Potential).					cell junction|integral to membrane|synaptic vesicle membrane	metal ion binding|transporter activity			ovary(2)|large_intestine(1)	3				Epithelial(150;1.34e-07)|LUSC - Lung squamous cell carcinoma(625;0.0949)		TCACTTCCTAGACTTGGCTGA	0.478													35	82	---	---	---	---	PASS
ANO5	203859	broad.mit.edu	37	11	22239812	22239812	+	Missense_Mutation	SNP	G	T	T			TCGA-18-3412-01A-01D-0983-08	TCGA-18-3412-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	84aca315-8380-4625-887f-a8b3c704c0a9	b5823b9b-ba3a-4d06-aae3-85a682d458f5	g.chr11:22239812G>T	uc001mqi.2	+	4	476	c.159G>T	c.(157-159)TTG>TTT	p.L53F	ANO5_uc001mqj.2_Missense_Mutation_p.L52F	NM_213599	NP_998764	Q75V66	ANO5_HUMAN	anoctamin 5 isoform a	53	Cytoplasmic (Potential).					chloride channel complex|endoplasmic reticulum membrane	chloride channel activity			central_nervous_system(3)|ovary(1)	4						GATTCAATTTGTTCCTGAGGC	0.403													16	17	---	---	---	---	PASS
ANO3	63982	broad.mit.edu	37	11	26621132	26621132	+	Silent	SNP	G	T	T			TCGA-18-3412-01A-01D-0983-08	TCGA-18-3412-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	84aca315-8380-4625-887f-a8b3c704c0a9	b5823b9b-ba3a-4d06-aae3-85a682d458f5	g.chr11:26621132G>T	uc001mqt.3	+	17	1852	c.1707G>T	c.(1705-1707)GTG>GTT	p.V569V	ANO3_uc010rdr.1_Silent_p.V553V|ANO3_uc010rds.1_Silent_p.V408V|ANO3_uc010rdt.1_Silent_p.V423V	NM_031418	NP_113606	Q9BYT9	ANO3_HUMAN	transmembrane protein 16C	569	Helical; (Potential).					chloride channel complex	chloride channel activity			ovary(2)|central_nervous_system(1)|pancreas(1)	4						TTGGAGTTGTGGTGTACCGCC	0.398													5	57	---	---	---	---	PASS
PRR5L	79899	broad.mit.edu	37	11	36484109	36484109	+	Silent	SNP	G	T	T			TCGA-18-3412-01A-01D-0983-08	TCGA-18-3412-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	84aca315-8380-4625-887f-a8b3c704c0a9	b5823b9b-ba3a-4d06-aae3-85a682d458f5	g.chr11:36484109G>T	uc001mwo.3	+	9	1319	c.930G>T	c.(928-930)TCG>TCT	p.S310S	PRR5L_uc001mwp.2_Silent_p.S310S|PRR5L_uc009ykk.2_Silent_p.S182S|PRR5L_uc010rfc.1_3'UTR	NM_001160167	NP_001153639	Q6MZQ0	PRR5L_HUMAN	protor-2 isoform a	310										ovary(1)	1						TGATGCACTCGGGCCTGGGGG	0.667													3	2	---	---	---	---	PASS
OR4C16	219428	broad.mit.edu	37	11	55339800	55339800	+	Nonsense_Mutation	SNP	T	A	A			TCGA-18-3412-01A-01D-0983-08	TCGA-18-3412-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	84aca315-8380-4625-887f-a8b3c704c0a9	b5823b9b-ba3a-4d06-aae3-85a682d458f5	g.chr11:55339800T>A	uc010rih.1	+	1	197	c.197T>A	c.(196-198)TTA>TAA	p.L66*		NM_001004701	NP_001004701	Q8NGL9	OR4CG_HUMAN	olfactory receptor, family 4, subfamily C,	66	Helical; Name=2; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)|skin(1)	2		all_epithelial(135;0.0748)				TACTTATCCTTATCTGATACT	0.413													26	71	---	---	---	---	PASS
OR4P4	81300	broad.mit.edu	37	11	55406117	55406117	+	Missense_Mutation	SNP	G	C	C			TCGA-18-3412-01A-01D-0983-08	TCGA-18-3412-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	84aca315-8380-4625-887f-a8b3c704c0a9	b5823b9b-ba3a-4d06-aae3-85a682d458f5	g.chr11:55406117G>C	uc010rij.1	+	1	284	c.284G>C	c.(283-285)TGT>TCT	p.C95S		NM_001004124	NP_001004124	Q8NGL7	OR4P4_HUMAN	olfactory receptor, family 4, subfamily P,	95	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			central_nervous_system(1)	1						TATAATAACTGTATGATACAA	0.438													32	44	---	---	---	---	PASS
OR5D16	390144	broad.mit.edu	37	11	55607001	55607001	+	Silent	SNP	C	A	A			TCGA-18-3412-01A-01D-0983-08	TCGA-18-3412-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	84aca315-8380-4625-887f-a8b3c704c0a9	b5823b9b-ba3a-4d06-aae3-85a682d458f5	g.chr11:55607001C>A	uc010rio.1	+	1	774	c.774C>A	c.(772-774)CTC>CTA	p.L258L		NM_001005496	NP_001005496	Q8NGK9	OR5DG_HUMAN	olfactory receptor, family 5, subfamily D,	258	Helical; Name=6; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(4)|skin(1)	5		all_epithelial(135;0.208)				GCACCATCCTCTTCCTCTACT	0.532													5	57	---	---	---	---	PASS
OR5B21	219968	broad.mit.edu	37	11	58274946	58274946	+	Silent	SNP	G	T	T			TCGA-18-3412-01A-01D-0983-08	TCGA-18-3412-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	84aca315-8380-4625-887f-a8b3c704c0a9	b5823b9b-ba3a-4d06-aae3-85a682d458f5	g.chr11:58274946G>T	uc010rki.1	-	1	633	c.633C>A	c.(631-633)ATC>ATA	p.I211I		NM_001005218	NP_001005218	A6NL26	OR5BL_HUMAN	olfactory receptor, family 5, subfamily B,	211	Helical; Name=5; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(3)	3	Esophageal squamous(5;0.0027)	Breast(21;0.0778)				AAGAAATAAGGATGACCAGGA	0.488													11	17	---	---	---	---	PASS
MS4A3	932	broad.mit.edu	37	11	59834551	59834551	+	Missense_Mutation	SNP	C	T	T			TCGA-18-3412-01A-01D-0983-08	TCGA-18-3412-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	84aca315-8380-4625-887f-a8b3c704c0a9	b5823b9b-ba3a-4d06-aae3-85a682d458f5	g.chr11:59834551C>T	uc001nom.2	+	5	607	c.479C>T	c.(478-480)CCG>CTG	p.P160L	MS4A3_uc001non.2_Missense_Mutation_p.P114L|MS4A3_uc001noo.2_Missense_Mutation_p.P37L	NM_006138	NP_006129	Q96HJ5	MS4A3_HUMAN	membrane-spanning 4-domains, subfamily A, member	160	Extracellular (Potential).					endomembrane system|integral to membrane|perinuclear region of cytoplasm	protein binding|receptor activity			ovary(2)|skin(1)	3		all_epithelial(135;0.245)				TCAGAGTCACCGGACCTATGC	0.358													6	7	---	---	---	---	PASS
AHNAK	79026	broad.mit.edu	37	11	62291567	62291567	+	Missense_Mutation	SNP	T	G	G			TCGA-18-3412-01A-01D-0983-08	TCGA-18-3412-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	84aca315-8380-4625-887f-a8b3c704c0a9	b5823b9b-ba3a-4d06-aae3-85a682d458f5	g.chr11:62291567T>G	uc001ntl.2	-	5	10622	c.10322A>C	c.(10321-10323)GAA>GCA	p.E3441A	AHNAK_uc001ntk.1_Intron	NM_001620	NP_001611	Q09666	AHNK_HUMAN	AHNAK nucleoprotein isoform 1	3441					nervous system development	nucleus	protein binding			ovary(10)|pancreas(4)|skin(4)|upper_aerodigestive_tract(1)	19		Melanoma(852;0.155)				AAAGTCACCTTCTAAATTGGG	0.413													18	33	---	---	---	---	PASS
PLCB3	5331	broad.mit.edu	37	11	64026124	64026124	+	Nonsense_Mutation	SNP	G	T	T			TCGA-18-3412-01A-01D-0983-08	TCGA-18-3412-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	84aca315-8380-4625-887f-a8b3c704c0a9	b5823b9b-ba3a-4d06-aae3-85a682d458f5	g.chr11:64026124G>T	uc001nzb.2	+	11	1192	c.1192G>T	c.(1192-1194)GAG>TAG	p.E398*	PLCB3_uc009ypg.1_Nonsense_Mutation_p.E398*|PLCB3_uc009yph.1_Nonsense_Mutation_p.E331*|PLCB3_uc009ypi.2_Nonsense_Mutation_p.E398*	NM_000932	NP_000923	Q01970	PLCB3_HUMAN	phospholipase C beta 3	398	PI-PLC X-box.				intracellular signal transduction|lipid catabolic process|synaptic transmission	cytosol	calcium ion binding|calmodulin binding|phosphatidylinositol phospholipase C activity|signal transducer activity			ovary(1)|pancreas(1)	2						GGCCATTGCCGAGACTGCCTT	0.627													4	48	---	---	---	---	PASS
ANO1	55107	broad.mit.edu	37	11	70003075	70003075	+	Missense_Mutation	SNP	G	T	T			TCGA-18-3412-01A-01D-0983-08	TCGA-18-3412-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	84aca315-8380-4625-887f-a8b3c704c0a9	b5823b9b-ba3a-4d06-aae3-85a682d458f5	g.chr11:70003075G>T	uc001opj.2	+	16	1831	c.1526G>T	c.(1525-1527)TGG>TTG	p.W509L	ANO1_uc001opk.1_Missense_Mutation_p.W451L|ANO1_uc001opl.1_RNA|ANO1_uc010rqk.1_Missense_Mutation_p.W218L	NM_018043	NP_060513	Q5XXA6	ANO1_HUMAN	anoctamin 1, calcium activated chloride channel	509	Cytoplasmic (Potential).				multicellular organismal development	chloride channel complex|cytoplasm|plasma membrane	intracellular calcium activated chloride channel activity			ovary(1)|pancreas(1)	2						AAGCTGACATGGAGAGATCGG	0.498													6	147	---	---	---	---	PASS
CTTN	2017	broad.mit.edu	37	11	70277370	70277370	+	Nonsense_Mutation	SNP	C	A	A			TCGA-18-3412-01A-01D-0983-08	TCGA-18-3412-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	84aca315-8380-4625-887f-a8b3c704c0a9	b5823b9b-ba3a-4d06-aae3-85a682d458f5	g.chr11:70277370C>A	uc001opv.3	+	15	1456	c.1250C>A	c.(1249-1251)TCG>TAG	p.S417*	CTTN_uc001opu.2_Nonsense_Mutation_p.S380*|CTTN_uc001opw.3_Nonsense_Mutation_p.S380*|CTTN_uc010rqm.1_Nonsense_Mutation_p.S101*|CTTN_uc001opx.2_Nonsense_Mutation_p.S101*	NM_005231	NP_005222	Q14247	SRC8_HUMAN	cortactin isoform a	417						cell cortex|cytoskeleton|lamellipodium|ruffle|soluble fraction	protein binding			ovary(1)	1			BRCA - Breast invasive adenocarcinoma(2;4.34e-41)|LUSC - Lung squamous cell carcinoma(11;1.51e-13)|STAD - Stomach adenocarcinoma(18;0.0513)	Lung(977;0.0234)|LUSC - Lung squamous cell carcinoma(976;0.133)		AGGCTGCCCTCGAGCCCCGTC	0.567													5	151	---	---	---	---	PASS
CBL	867	broad.mit.edu	37	11	119103295	119103295	+	Silent	SNP	A	G	G			TCGA-18-3412-01A-01D-0983-08	TCGA-18-3412-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	84aca315-8380-4625-887f-a8b3c704c0a9	b5823b9b-ba3a-4d06-aae3-85a682d458f5	g.chr11:119103295A>G	uc001pwe.2	+	2	471	c.333A>G	c.(331-333)GAA>GAG	p.E111E		NM_005188	NP_005179	P22681	CBL_HUMAN	Cas-Br-M (murine) ecotropic retroviral	111	Cbl-PTB.|4H.				epidermal growth factor receptor signaling pathway|negative regulation of apoptosis|negative regulation of epidermal growth factor receptor signaling pathway|positive regulation of phosphatidylinositol 3-kinase cascade|positive regulation of receptor-mediated endocytosis	cytosol|nucleus	calcium ion binding|sequence-specific DNA binding transcription factor activity|SH3 domain binding|signal transducer activity|ubiquitin-protein ligase activity|zinc ion binding			haematopoietic_and_lymphoid_tissue(135)|lung(10)|central_nervous_system(2)|ovary(1)|breast(1)	149		Medulloblastoma(222;0.0425)|Breast(348;0.052)|all_neural(223;0.112)		BRCA - Breast invasive adenocarcinoma(274;4.92e-05)|OV - Ovarian serous cystadenocarcinoma(223;0.000784)		CACTTGGAGAAAATGAGTATT	0.393									CBL_gene-associated_Juvenile_Myelomonocytic_Leukemia_and_Developmental_Anomalies|Noonan_syndrome				25	43	---	---	---	---	PASS
C11orf63	79864	broad.mit.edu	37	11	122828115	122828115	+	Missense_Mutation	SNP	G	T	T			TCGA-18-3412-01A-01D-0983-08	TCGA-18-3412-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	84aca315-8380-4625-887f-a8b3c704c0a9	b5823b9b-ba3a-4d06-aae3-85a682d458f5	g.chr11:122828115G>T	uc001pym.2	+	8	2352	c.2055G>T	c.(2053-2055)AAG>AAT	p.K685N		NM_024806	NP_079082	Q6NUN7	CK063_HUMAN	hypothetical protein LOC79864 isoform 1	685										ovary(3)	3		Breast(109;0.00249)|Lung NSC(97;0.0177)|all_lung(97;0.018)|Medulloblastoma(222;0.0425)|all_neural(223;0.112)		BRCA - Breast invasive adenocarcinoma(274;5.34e-06)|OV - Ovarian serous cystadenocarcinoma(99;0.0311)		AACAAGTCAAGGAGTACAACA	0.373													5	72	---	---	---	---	PASS
FLI1	2313	broad.mit.edu	37	11	128628202	128628202	+	Missense_Mutation	SNP	G	A	A			TCGA-18-3412-01A-01D-0983-08	TCGA-18-3412-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	84aca315-8380-4625-887f-a8b3c704c0a9	b5823b9b-ba3a-4d06-aae3-85a682d458f5	g.chr11:128628202G>A	uc010sbu.1	+	2	552	c.211G>A	c.(211-213)GAC>AAC	p.D71N	FLI1_uc010sbt.1_5'UTR|FLI1_uc010sbv.1_Missense_Mutation_p.D38N|FLI1_uc009zci.2_5'UTR|FLI1_uc001qen.2_Missense_Mutation_p.D38N	NM_002017	NP_002008	Q01543	FLI1_HUMAN	Friend leukemia virus integration 1	71					hemostasis|organ morphogenesis	nucleus	protein binding|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity		EWSR1/FLI1(2266)	bone(2210)|soft_tissue(48)|autonomic_ganglia(4)|central_nervous_system(4)|lung(3)|ovary(2)|pancreas(2)	2273	all_hematologic(175;0.0641)	Lung NSC(97;0.00588)|all_lung(97;0.00764)|Breast(109;0.0115)|Medulloblastoma(222;0.0523)|all_neural(223;0.0862)|all_hematologic(192;0.182)		OV - Ovarian serous cystadenocarcinoma(99;0.01)|LUSC - Lung squamous cell carcinoma(976;0.0324)|Lung(977;0.0327)		GCGGGAGTATGACCACATGAA	0.577			T	EWSR1	Ewing sarcoma								7	14	---	---	---	---	PASS
TMEM45B	120224	broad.mit.edu	37	11	129724601	129724601	+	Missense_Mutation	SNP	T	C	C			TCGA-18-3412-01A-01D-0983-08	TCGA-18-3412-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	84aca315-8380-4625-887f-a8b3c704c0a9	b5823b9b-ba3a-4d06-aae3-85a682d458f5	g.chr11:129724601T>C	uc001qfe.1	+	3	336	c.275T>C	c.(274-276)ATG>ACG	p.M92T	TMEM45B_uc001qff.1_Missense_Mutation_p.M92T	NM_138788	NP_620143	Q96B21	TM45B_HUMAN	transmembrane protein 45B	92						integral to membrane					0	all_hematologic(175;0.0537)	Breast(109;0.00526)|Lung NSC(97;0.00901)|all_lung(97;0.018)|Medulloblastoma(222;0.0523)|all_neural(223;0.186)		OV - Ovarian serous cystadenocarcinoma(99;0.012)|Lung(977;0.179)|LUSC - Lung squamous cell carcinoma(976;0.189)		CACAGCACCATGTACCTATTC	0.522													12	25	---	---	---	---	PASS
CD163L1	283316	broad.mit.edu	37	12	7519883	7519883	+	Missense_Mutation	SNP	C	T	T			TCGA-18-3412-01A-01D-0983-08	TCGA-18-3412-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	84aca315-8380-4625-887f-a8b3c704c0a9	b5823b9b-ba3a-4d06-aae3-85a682d458f5	g.chr12:7519883C>T	uc001qsy.2	-	18	4254	c.4228G>A	c.(4228-4230)GAG>AAG	p.E1410K	CD163L1_uc010sge.1_Missense_Mutation_p.E1420K	NM_174941	NP_777601	Q9NR16	C163B_HUMAN	scavenger receptor cysteine-rich type 1	1410	Cytoplasmic (Potential).					extracellular region|integral to membrane|plasma membrane	scavenger receptor activity			ovary(8)|skin(2)|central_nervous_system(1)	11						GTCTCCATCTCATGGAATAAA	0.488													11	36	---	---	---	---	PASS
SLC2A14	144195	broad.mit.edu	37	12	7985369	7985369	+	Silent	SNP	G	T	T			TCGA-18-3412-01A-01D-0983-08	TCGA-18-3412-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	84aca315-8380-4625-887f-a8b3c704c0a9	b5823b9b-ba3a-4d06-aae3-85a682d458f5	g.chr12:7985369G>T	uc001qtk.2	-	8	922	c.129C>A	c.(127-129)ATC>ATA	p.I43I	SLC2A14_uc001qtl.2_Silent_p.I20I|SLC2A14_uc001qtm.2_Silent_p.I20I|SLC2A14_uc010sgg.1_5'UTR|SLC2A14_uc001qtn.2_Silent_p.I43I|SLC2A14_uc001qto.2_Intron|SLC2A14_uc010sgh.1_Silent_p.I58I	NM_153449	NP_703150	Q8TDB8	GTR14_HUMAN	glucose transporter 14	43	Helical; Name=1; (Potential).				cell differentiation|multicellular organismal development|spermatogenesis	integral to membrane	glucose transmembrane transporter activity			ovary(1)	1				Kidney(36;0.0883)		GGAAAGAGCCGATTGTAGCAA	0.473											OREG0021654	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	37	44	---	---	---	---	PASS
SMARCC2	6601	broad.mit.edu	37	12	56580987	56580987	+	Missense_Mutation	SNP	G	A	A			TCGA-18-3412-01A-01D-0983-08	TCGA-18-3412-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	84aca315-8380-4625-887f-a8b3c704c0a9	b5823b9b-ba3a-4d06-aae3-85a682d458f5	g.chr12:56580987G>A	uc001skb.2	-	2	321	c.215C>T	c.(214-216)CCG>CTG	p.P72L	SMARCC2_uc001skd.2_Missense_Mutation_p.P72L|SMARCC2_uc001ska.2_Missense_Mutation_p.P72L|SMARCC2_uc001skc.2_Missense_Mutation_p.P72L|SMARCC2_uc010sqf.1_5'UTR	NM_003075	NP_003066	Q8TAQ2	SMRC2_HUMAN	SWI/SNF-related matrix-associated	72					chromatin remodeling|negative regulation of transcription, DNA-dependent|nervous system development|positive regulation of transcription, DNA-dependent|regulation of transcription from RNA polymerase II promoter|transcription, DNA-dependent	nBAF complex|npBAF complex|nucleoplasm|SWI/SNF complex	DNA binding|protein binding|transcription coactivator activity			lung(2)|central_nervous_system(2)|ovary(1)|skin(1)	6			OV - Ovarian serous cystadenocarcinoma(18;0.123)			TTTAGTGAGCGGTGCATTGCT	0.463													21	71	---	---	---	---	PASS
STAB2	55576	broad.mit.edu	37	12	104033910	104033910	+	Nonsense_Mutation	SNP	G	T	T	rs12319476	byFrequency	TCGA-18-3412-01A-01D-0983-08	TCGA-18-3412-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	84aca315-8380-4625-887f-a8b3c704c0a9	b5823b9b-ba3a-4d06-aae3-85a682d458f5	g.chr12:104033910G>T	uc001tjw.2	+	9	1102	c.916G>T	c.(916-918)GAG>TAG	p.E306*		NM_017564	NP_060034	Q8WWQ8	STAB2_HUMAN	stabilin 2 precursor	306	Extracellular (Potential).				angiogenesis|cell adhesion|defense response to bacterium|receptor-mediated endocytosis	cytoplasm|external side of plasma membrane|integral to plasma membrane	Gram-negative bacterial cell surface binding|hyaluronic acid binding|low-density lipoprotein receptor activity|protein disulfide oxidoreductase activity|scavenger receptor activity			ovary(9)|skin(5)	14						GTCTCACTGCGAGTGTAAGGA	0.383													4	79	---	---	---	---	PASS
PLBD2	196463	broad.mit.edu	37	12	113824871	113824871	+	Missense_Mutation	SNP	G	T	T			TCGA-18-3412-01A-01D-0983-08	TCGA-18-3412-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	84aca315-8380-4625-887f-a8b3c704c0a9	b5823b9b-ba3a-4d06-aae3-85a682d458f5	g.chr12:113824871G>T	uc001tve.2	+	10	1451	c.1416G>T	c.(1414-1416)ATG>ATT	p.M472I	PLBD2_uc001tvf.2_Missense_Mutation_p.M440I	NM_173542	NP_775813	Q8NHP8	PLBL2_HUMAN	phospholipase B domain containing 2 isoform 1	472					lipid catabolic process	lysosomal lumen	hydrolase activity				0						TACAAGACATGGACTCCATGG	0.597													5	68	---	---	---	---	PASS
GLT1D1	144423	broad.mit.edu	37	12	129442181	129442181	+	Missense_Mutation	SNP	A	T	T	rs143132819		TCGA-18-3412-01A-01D-0983-08	TCGA-18-3412-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	84aca315-8380-4625-887f-a8b3c704c0a9	b5823b9b-ba3a-4d06-aae3-85a682d458f5	g.chr12:129442181A>T	uc010tbh.1	+	12	896	c.887A>T	c.(886-888)AAT>ATT	p.N296I	GLT1D1_uc001uhx.1_Missense_Mutation_p.N211I|GLT1D1_uc001uhy.1_RNA	NM_144669	NP_653270	Q96MS3	GL1D1_HUMAN	glycosyltransferase 1 domain containing 1	291					biosynthetic process	extracellular region	transferase activity, transferring glycosyl groups				0	all_neural(191;0.101)|Medulloblastoma(191;0.163)			OV - Ovarian serous cystadenocarcinoma(86;3.97e-06)|Epithelial(86;3.97e-05)|all cancers(50;0.00019)		CTGTTTTCCAATCCTCAGGTA	0.448													7	17	---	---	---	---	PASS
POSTN	10631	broad.mit.edu	37	13	38160416	38160416	+	Missense_Mutation	SNP	G	A	A			TCGA-18-3412-01A-01D-0983-08	TCGA-18-3412-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	84aca315-8380-4625-887f-a8b3c704c0a9	b5823b9b-ba3a-4d06-aae3-85a682d458f5	g.chr13:38160416G>A	uc001uwo.3	-	7	873	c.755C>T	c.(754-756)GCA>GTA	p.A252V	POSTN_uc001uwp.3_Missense_Mutation_p.A252V|POSTN_uc001uwr.2_Missense_Mutation_p.A252V|POSTN_uc001uwq.2_Missense_Mutation_p.A252V|POSTN_uc010teu.1_Missense_Mutation_p.A252V|POSTN_uc010tev.1_Missense_Mutation_p.A252V|POSTN_uc010tew.1_Missense_Mutation_p.A252V|POSTN_uc010tex.1_Missense_Mutation_p.A167V	NM_006475	NP_006466	Q15063	POSTN_HUMAN	periostin, osteoblast specific factor isoform 1	252	FAS1 2.				cell adhesion|skeletal system development	proteinaceous extracellular matrix	heparin binding			ovary(2)	2		Lung NSC(96;2.09e-05)|Prostate(109;0.0513)|Breast(139;0.0538)|Lung SC(185;0.0743)		all cancers(112;2.48e-08)|Epithelial(112;2.78e-06)|OV - Ovarian serous cystadenocarcinoma(117;0.000853)|BRCA - Breast invasive adenocarcinoma(63;0.013)|GBM - Glioblastoma multiforme(144;0.0154)		GATGGCAGCTGCCTGAAACAC	0.458													11	35	---	---	---	---	PASS
C13orf23	80209	broad.mit.edu	37	13	39587739	39587739	+	Silent	SNP	G	A	A			TCGA-18-3412-01A-01D-0983-08	TCGA-18-3412-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	84aca315-8380-4625-887f-a8b3c704c0a9	b5823b9b-ba3a-4d06-aae3-85a682d458f5	g.chr13:39587739G>A	uc001uwy.2	-	11	2523	c.1650C>T	c.(1648-1650)TCC>TCT	p.S550S	C13orf23_uc001uwz.2_Silent_p.S528S	NM_025138	NP_079414	Q86XN7	CM023_HUMAN	hypothetical protein LOC80209 isoform 1	550	Ser-rich.									ovary(2)|skin(2)|haematopoietic_and_lymphoid_tissue(1)	5		Lung NSC(96;6.01e-07)|Breast(139;0.00394)|Prostate(109;0.00676)|Lung SC(185;0.0548)|Hepatocellular(188;0.114)		all cancers(112;3.7e-08)|Epithelial(112;4.28e-06)|OV - Ovarian serous cystadenocarcinoma(117;0.00114)|BRCA - Breast invasive adenocarcinoma(63;0.00366)|GBM - Glioblastoma multiforme(144;0.0146)		TCAGGGGAGTGGAAGTTGAGT	0.587													20	58	---	---	---	---	PASS
ELF1	1997	broad.mit.edu	37	13	41517101	41517101	+	Missense_Mutation	SNP	C	T	T			TCGA-18-3412-01A-01D-0983-08	TCGA-18-3412-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	84aca315-8380-4625-887f-a8b3c704c0a9	b5823b9b-ba3a-4d06-aae3-85a682d458f5	g.chr13:41517101C>T	uc001uxs.2	-	7	1166	c.793G>A	c.(793-795)GGA>AGA	p.G265R	ELF1_uc010tfc.1_Missense_Mutation_p.G241R|ELF1_uc010acd.2_Missense_Mutation_p.G158R	NM_172373	NP_758961	P32519	ELF1_HUMAN	E74-like factor 1 (ets domain transcription	265	ETS.				positive regulation of transcription from RNA polymerase II promoter	cytoplasm|nucleus	protein binding|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity			ovary(1)	1		Lung NSC(96;8.3e-05)|Prostate(109;0.0233)|Breast(139;0.0296)|Lung SC(185;0.0367)		all cancers(112;1.87e-08)|Epithelial(112;8.45e-06)|OV - Ovarian serous cystadenocarcinoma(117;0.000202)|GBM - Glioblastoma multiforme(144;0.00266)|BRCA - Breast invasive adenocarcinoma(63;0.072)		AGTGCTCTTCCCATGGTCTCA	0.358													13	32	---	---	---	---	PASS
NEK5	341676	broad.mit.edu	37	13	52693485	52693485	+	Missense_Mutation	SNP	T	C	C			TCGA-18-3412-01A-01D-0983-08	TCGA-18-3412-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	84aca315-8380-4625-887f-a8b3c704c0a9	b5823b9b-ba3a-4d06-aae3-85a682d458f5	g.chr13:52693485T>C	uc001vge.2	-	4	324	c.184A>G	c.(184-186)AAC>GAC	p.N62D	NEK5_uc001vgf.2_Missense_Mutation_p.N62D	NM_199289	NP_954983	Q6P3R8	NEK5_HUMAN	NIMA-related kinase 5	62	Protein kinase.						ATP binding|metal ion binding|protein serine/threonine kinase activity			upper_aerodigestive_tract(1)	1		Breast(56;0.00173)|Lung NSC(96;0.0168)|Prostate(109;0.0412)|Hepatocellular(98;0.152)|Glioma(44;0.236)		GBM - Glioblastoma multiforme(99;3.7e-08)		GCTACAATGTTGGGATGTTTC	0.294													19	22	---	---	---	---	PASS
SLITRK6	84189	broad.mit.edu	37	13	86369450	86369450	+	Silent	SNP	A	G	G			TCGA-18-3412-01A-01D-0983-08	TCGA-18-3412-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	84aca315-8380-4625-887f-a8b3c704c0a9	b5823b9b-ba3a-4d06-aae3-85a682d458f5	g.chr13:86369450A>G	uc001vll.1	-	2	1653	c.1194T>C	c.(1192-1194)CGT>CGC	p.R398R	SLITRK6_uc010afe.1_Intron	NM_032229	NP_115605	Q9H5Y7	SLIK6_HUMAN	slit and trk like 6 precursor	398	Extracellular (Potential).|LRR 7.					integral to membrane				large_intestine(1)|ovary(1)|central_nervous_system(1)	3	all_neural(89;0.117)|Medulloblastoma(90;0.163)			GBM - Glioblastoma multiforme(99;0.0456)		GAACTTCAATACGATTGTTTC	0.353													12	30	---	---	---	---	PASS
AKAP6	9472	broad.mit.edu	37	14	33291404	33291404	+	Missense_Mutation	SNP	A	C	C			TCGA-18-3412-01A-01D-0983-08	TCGA-18-3412-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	84aca315-8380-4625-887f-a8b3c704c0a9	b5823b9b-ba3a-4d06-aae3-85a682d458f5	g.chr14:33291404A>C	uc001wrq.2	+	13	4555	c.4385A>C	c.(4384-4386)CAT>CCT	p.H1462P		NM_004274	NP_004265	Q13023	AKAP6_HUMAN	A-kinase anchor protein 6	1462					protein targeting	calcium channel complex|nuclear membrane|sarcoplasmic reticulum	protein kinase A binding|receptor binding			breast(6)|ovary(5)|lung(4)|skin(3)|large_intestine(2)|pancreas(1)	21	Breast(36;0.0388)|Prostate(35;0.15)		LUAD - Lung adenocarcinoma(48;0.00107)|Lung(238;0.00677)|STAD - Stomach adenocarcinoma(7;0.116)	GBM - Glioblastoma multiforme(265;0.019)		CAAGGAAAACATGATGTGTTT	0.368													6	32	---	---	---	---	PASS
PLEKHG3	26030	broad.mit.edu	37	14	65207982	65207982	+	Missense_Mutation	SNP	A	T	T			TCGA-18-3412-01A-01D-0983-08	TCGA-18-3412-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	84aca315-8380-4625-887f-a8b3c704c0a9	b5823b9b-ba3a-4d06-aae3-85a682d458f5	g.chr14:65207982A>T	uc001xho.1	+	16	2016	c.1747A>T	c.(1747-1749)ATG>TTG	p.M583L	PLEKHG3_uc001xhn.1_Missense_Mutation_p.M527L|PLEKHG3_uc001xhp.2_Missense_Mutation_p.M704L|PLEKHG3_uc010aqh.1_Missense_Mutation_p.M125L|PLEKHG3_uc001xhq.1_Missense_Mutation_p.M88L	NM_015549	NP_056364	A1L390	PKHG3_HUMAN	pleckstrin homology domain containing, family G,	583					regulation of Rho protein signal transduction	intracellular	Rho guanyl-nucleotide exchange factor activity			skin(1)	1				all cancers(60;0.00802)|OV - Ovarian serous cystadenocarcinoma(108;0.0109)|BRCA - Breast invasive adenocarcinoma(234;0.0485)		GGAAGAAGAAATGGGAGGTGC	0.627													13	16	---	---	---	---	PASS
DICER1	23405	broad.mit.edu	37	14	95590801	95590801	+	Missense_Mutation	SNP	G	T	T			TCGA-18-3412-01A-01D-0983-08	TCGA-18-3412-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	84aca315-8380-4625-887f-a8b3c704c0a9	b5823b9b-ba3a-4d06-aae3-85a682d458f5	g.chr14:95590801G>T	uc001ydw.2	-	9	1290	c.1108C>A	c.(1108-1110)CTG>ATG	p.L370M	DICER1_uc001ydv.2_Missense_Mutation_p.L360M|DICER1_uc001ydx.2_Missense_Mutation_p.L370M	NM_030621	NP_085124	Q9UPY3	DICER_HUMAN	dicer1	370	Required for interaction with PRKRA and TARBP2.				negative regulation of Schwann cell proliferation|negative regulation of transcription from RNA polymerase II promoter|nerve development|neuron projection morphogenesis|peripheral nervous system myelin formation|positive regulation of myelination|positive regulation of Schwann cell differentiation|pre-miRNA processing|production of siRNA involved in RNA interference|targeting of mRNA for destruction involved in RNA interference	cytosol|RNA-induced silencing complex	ATP binding|ATP-dependent helicase activity|double-stranded RNA binding|metal ion binding|protein binding|ribonuclease III activity			skin(2)|ovary(1)|pancreas(1)|lung(1)	5		all_cancers(154;0.0621)|all_epithelial(191;0.223)		Epithelial(152;0.211)|COAD - Colon adenocarcinoma(157;0.215)		ACAAATTTCAGGTCAAGTGAG	0.383			Mis F|N			pleuropulmonary blastoma			DICER_1_syndrome_|Familial_Multinodular_Goiter_				6	124	---	---	---	---	PASS
DYNC1H1	1778	broad.mit.edu	37	14	102474667	102474667	+	Nonsense_Mutation	SNP	C	A	A			TCGA-18-3412-01A-01D-0983-08	TCGA-18-3412-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	84aca315-8380-4625-887f-a8b3c704c0a9	b5823b9b-ba3a-4d06-aae3-85a682d458f5	g.chr14:102474667C>A	uc001yks.2	+	29	6134	c.5970C>A	c.(5968-5970)TAC>TAA	p.Y1990*		NM_001376	NP_001367	Q14204	DYHC1_HUMAN	cytoplasmic dynein 1 heavy chain 1	1990	AAA 1 (By similarity).				cytoplasmic mRNA processing body assembly|G2/M transition of mitotic cell cycle|microtubule-based movement|mitotic spindle organization|stress granule assembly|transport	centrosome|cytoplasmic dynein complex|cytosol|Golgi apparatus|microtubule	ATP binding|ATPase activity, coupled|microtubule motor activity|protein binding			ovary(7)|central_nervous_system(2)|pancreas(1)	10						ACCCCAACTACGACAAGAGTA	0.458													7	25	---	---	---	---	PASS
RCOR1	23186	broad.mit.edu	37	14	103174886	103174886	+	Missense_Mutation	SNP	C	A	A			TCGA-18-3412-01A-01D-0983-08	TCGA-18-3412-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	84aca315-8380-4625-887f-a8b3c704c0a9	b5823b9b-ba3a-4d06-aae3-85a682d458f5	g.chr14:103174886C>A	uc001ymb.2	+	6	736	c.736C>A	c.(736-738)CAT>AAT	p.H246N		NM_015156	NP_055971	Q9UKL0	RCOR1_HUMAN	REST corepressor 1	246	Interaction with HDAC1.|Potential.				blood coagulation|histone H4 deacetylation|interspecies interaction between organisms	transcriptional repressor complex	protein binding|RNA polymerase II core promoter proximal region sequence-specific DNA binding transcription factor activity involved in negative regulation of transcription|transcription regulatory region DNA binding			ovary(1)	1						GATGGATCGCCATGCCCGGAA	0.443													7	219	---	---	---	---	PASS
ADAM6	8755	broad.mit.edu	37	14	106321604	106321604	+	RNA	SNP	C	T	T			TCGA-18-3412-01A-01D-0983-08	TCGA-18-3412-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	84aca315-8380-4625-887f-a8b3c704c0a9	b5823b9b-ba3a-4d06-aae3-85a682d458f5	g.chr14:106321604C>T	uc010tyt.1	-	3599		c.55792G>A			uc001yrs.2_Intron|uc001yrt.2_Intron|uc001yrw.1_Intron|uc001yrx.1_Intron|uc001yrz.1_Intron|uc001yse.2_Intron|uc001ysf.2_Intron|uc001ysj.2_Intron|uc001ysk.1_Intron|uc001ysl.1_Intron|uc001ysm.1_Intron|uc001ysn.1_Intron|uc001yso.1_Intron					Parts of antibodies, mostly variable regions.												0						ACATGGAGGACGCATTCTGCT	0.637													8	5	---	---	---	---	PASS
ATP10A	57194	broad.mit.edu	37	15	25959028	25959028	+	Missense_Mutation	SNP	C	T	T			TCGA-18-3412-01A-01D-0983-08	TCGA-18-3412-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	84aca315-8380-4625-887f-a8b3c704c0a9	b5823b9b-ba3a-4d06-aae3-85a682d458f5	g.chr15:25959028C>T	uc010ayu.2	-	10	2243	c.2137G>A	c.(2137-2139)GTG>ATG	p.V713M		NM_024490	NP_077816	O60312	AT10A_HUMAN	ATPase, class V, type 10A	713	Cytoplasmic (Potential).				ATP biosynthetic process|regulation of cell shape	integral to membrane|plasma membrane	ATP binding|ATPase activity, coupled to transmembrane movement of ions, phosphorylative mechanism|magnesium ion binding|phospholipid-translocating ATPase activity			pancreas(2)|ovary(1)|breast(1)|liver(1)	5		all_cancers(20;5.16e-25)|all_lung(180;1.51e-14)|Acute lymphoblastic leukemia(1;2.53e-05)|all_hematologic(1;0.000267)|Breast(32;0.00125)		all cancers(64;9.48e-07)|Epithelial(43;1.69e-06)|BRCA - Breast invasive adenocarcinoma(123;0.0252)|Lung(196;0.244)		TCCACAAGCACGCAGTTGTAG	0.647													4	17	---	---	---	---	PASS
GABRB3	2562	broad.mit.edu	37	15	26812774	26812774	+	Silent	SNP	C	A	A			TCGA-18-3412-01A-01D-0983-08	TCGA-18-3412-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	84aca315-8380-4625-887f-a8b3c704c0a9	b5823b9b-ba3a-4d06-aae3-85a682d458f5	g.chr15:26812774C>A	uc001zaz.2	-	7	931	c.789G>T	c.(787-789)GTG>GTT	p.V263V	GABRB3_uc010uae.1_Silent_p.V178V|GABRB3_uc001zba.2_Silent_p.V263V|GABRB3_uc001zbb.2_Silent_p.V319V	NM_000814	NP_000805	P28472	GBRB3_HUMAN	gamma-aminobutyric acid (GABA) A receptor, beta	263	Helical; (Probable).				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			upper_aerodigestive_tract(1)|ovary(1)|lung(1)|liver(1)|central_nervous_system(1)	5		all_cancers(20;1.89e-22)|all_lung(180;6.35e-15)|Breast(32;0.000279)|Colorectal(260;0.232)		all cancers(64;1.46e-07)|Epithelial(43;2.89e-07)|BRCA - Breast invasive adenocarcinoma(123;0.0251)|COAD - Colon adenocarcinoma(236;0.235)|Lung(196;0.243)	Ethchlorvynol(DB00189)|Flurazepam(DB00690)|Lorazepam(DB00186)|Midazolam(DB00683)	TCCAGAAGGACACCCACGACA	0.398													10	23	---	---	---	---	PASS
APBA2	321	broad.mit.edu	37	15	29398955	29398955	+	Missense_Mutation	SNP	A	T	T			TCGA-18-3412-01A-01D-0983-08	TCGA-18-3412-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	84aca315-8380-4625-887f-a8b3c704c0a9	b5823b9b-ba3a-4d06-aae3-85a682d458f5	g.chr15:29398955A>T	uc001zck.2	+	11	2057	c.1850A>T	c.(1849-1851)CAG>CTG	p.Q617L	APBA2_uc010azj.2_Missense_Mutation_p.Q605L|APBA2_uc010uat.1_Missense_Mutation_p.Q605L|APBA2_uc001zcl.2_Missense_Mutation_p.Q605L	NM_005503	NP_005494	Q99767	APBA2_HUMAN	amyloid beta A4 precursor protein-binding,	617	PDZ 1.				nervous system development|protein transport		protein binding				0		all_lung(180;1.73e-12)|Breast(32;2.89e-05)|Colorectal(260;0.234)		all cancers(64;7.44e-11)|Epithelial(43;5.74e-10)|GBM - Glioblastoma multiforme(186;0.026)|BRCA - Breast invasive adenocarcinoma(123;0.0286)|Lung(196;0.24)		ATCGGGGACCAGATCATGTCC	0.662													12	11	---	---	---	---	PASS
EHD4	30844	broad.mit.edu	37	15	42246101	42246101	+	Missense_Mutation	SNP	C	A	A			TCGA-18-3412-01A-01D-0983-08	TCGA-18-3412-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	84aca315-8380-4625-887f-a8b3c704c0a9	b5823b9b-ba3a-4d06-aae3-85a682d458f5	g.chr15:42246101C>A	uc001zot.2	-	2	337	c.274G>T	c.(274-276)GGT>TGT	p.G92C	EHD4_uc001zou.2_Missense_Mutation_p.G92C	NM_139265	NP_644670	Q9H223	EHD4_HUMAN	EH-domain containing 4	92					endocytic recycling|protein homooligomerization	early endosome membrane|endoplasmic reticulum|nucleus|recycling endosome membrane	ATP binding|calcium ion binding|GTP binding|GTPase activity|nucleic acid binding|protein binding			ovary(2)	2		all_cancers(109;2.54e-12)|all_epithelial(112;6.59e-11)|Lung NSC(122;2.17e-07)|all_lung(180;8.79e-07)|Melanoma(134;0.091)		OV - Ovarian serous cystadenocarcinoma(18;1.6e-19)|GBM - Glioblastoma multiforme(94;3.77e-06)|COAD - Colon adenocarcinoma(120;0.0474)|Colorectal(105;0.0538)		GGCTCCGGACCAATCCTCATG	0.522													4	38	---	---	---	---	PASS
MNS1	55329	broad.mit.edu	37	15	56756394	56756394	+	Missense_Mutation	SNP	C	G	G			TCGA-18-3412-01A-01D-0983-08	TCGA-18-3412-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	84aca315-8380-4625-887f-a8b3c704c0a9	b5823b9b-ba3a-4d06-aae3-85a682d458f5	g.chr15:56756394C>G	uc002adr.2	-	2	220	c.55G>C	c.(55-57)GAT>CAT	p.D19H	MNS1_uc010bfo.2_5'UTR	NM_018365	NP_060835	Q8NEH6	MNS1_HUMAN	meiosis-specific nuclear structural 1	19					meiosis					ovary(1)	1				all cancers(107;0.0196)|GBM - Glioblastoma multiforme(80;0.101)		TAGTTTTCATCTACTAATTTC	0.333													25	54	---	---	---	---	PASS
KIAA1024	23251	broad.mit.edu	37	15	79750567	79750567	+	Missense_Mutation	SNP	G	A	A			TCGA-18-3412-01A-01D-0983-08	TCGA-18-3412-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	84aca315-8380-4625-887f-a8b3c704c0a9	b5823b9b-ba3a-4d06-aae3-85a682d458f5	g.chr15:79750567G>A	uc002bew.1	+	2	2153	c.2078G>A	c.(2077-2079)AGC>AAC	p.S693N	KIAA1024_uc010unk.1_Missense_Mutation_p.S693N	NM_015206	NP_056021	Q9UPX6	K1024_HUMAN	hypothetical protein LOC23251	693						integral to membrane				pancreas(2)|ovary(1)|central_nervous_system(1)	4						AACAGTGAAAGCCTGCGGGTC	0.547													42	79	---	---	---	---	PASS
FAM154B	283726	broad.mit.edu	37	15	82575397	82575397	+	Silent	SNP	C	G	G			TCGA-18-3412-01A-01D-0983-08	TCGA-18-3412-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	84aca315-8380-4625-887f-a8b3c704c0a9	b5823b9b-ba3a-4d06-aae3-85a682d458f5	g.chr15:82575397C>G	uc002bgv.2	+	3	1260	c.1191C>G	c.(1189-1191)GCC>GCG	p.A397A	FAM154B_uc010unr.1_Silent_p.A382A|FAM154B_uc010uns.1_RNA	NM_001008226	NP_001008227	Q658L1	F154B_HUMAN	hypothetical protein LOC283726	397										skin(2)	2						CAGTGAAGGCCTTCTAATAAC	0.333													8	19	---	---	---	---	PASS
SLC28A1	9154	broad.mit.edu	37	15	85478700	85478700	+	Missense_Mutation	SNP	G	A	A			TCGA-18-3412-01A-01D-0983-08	TCGA-18-3412-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	84aca315-8380-4625-887f-a8b3c704c0a9	b5823b9b-ba3a-4d06-aae3-85a682d458f5	g.chr15:85478700G>A	uc002blg.2	+	15	1734	c.1532G>A	c.(1531-1533)CGC>CAC	p.R511H	SLC28A1_uc010bnb.2_Missense_Mutation_p.R511H|SLC28A1_uc010upe.1_Intron|SLC28A1_uc010upf.1_Missense_Mutation_p.R511H|SLC28A1_uc010upg.1_Missense_Mutation_p.R511H	NM_004213	NP_004204	O00337	S28A1_HUMAN	solute carrier family 28, member 1 isoform 1	511					nucleobase, nucleoside and nucleotide metabolic process	integral to plasma membrane|membrane fraction	nucleoside binding			skin(2)|ovary(1)	3			BRCA - Breast invasive adenocarcinoma(143;0.0587)			AAGCAACGCCGCCTGGCAGGG	0.617													5	42	---	---	---	---	PASS
MSLN	10232	broad.mit.edu	37	16	814042	814042	+	Missense_Mutation	SNP	C	T	T			TCGA-18-3412-01A-01D-0983-08	TCGA-18-3412-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	84aca315-8380-4625-887f-a8b3c704c0a9	b5823b9b-ba3a-4d06-aae3-85a682d458f5	g.chr16:814042C>T	uc002cjw.1	+	5	250	c.199C>T	c.(199-201)CTT>TTT	p.L67F	MSLN_uc002cjt.1_Missense_Mutation_p.L67F|MSLN_uc002cju.1_Missense_Mutation_p.L67F|MSLN_uc010brd.1_Missense_Mutation_p.L66F|MSLN_uc002cjv.1_Missense_Mutation_p.L67F|MSLN_uc002cjx.1_Missense_Mutation_p.L67F|MSLN_uc002cjy.1_5'Flank	NM_013404	NP_037536	Q13421	MSLN_HUMAN	mesothelin isoform 2 preproprotein	67					cell adhesion	anchored to membrane|extracellular region|Golgi apparatus|plasma membrane				pancreas(1)	1		Hepatocellular(780;0.00335)				TCGCCAACTCCTTGGCTTCCC	0.662													8	8	---	---	---	---	PASS
CLDN9	9080	broad.mit.edu	37	16	3063982	3063982	+	Missense_Mutation	SNP	G	T	T			TCGA-18-3412-01A-01D-0983-08	TCGA-18-3412-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	84aca315-8380-4625-887f-a8b3c704c0a9	b5823b9b-ba3a-4d06-aae3-85a682d458f5	g.chr16:3063982G>T	uc010uwo.1	+	1	1526	c.619G>T	c.(619-621)GGT>TGT	p.G207C		NM_020982	NP_066192	O95484	CLD9_HUMAN	claudin 9	207	Cytoplasmic (Potential).				calcium-independent cell-cell adhesion|tight junction assembly	integral to membrane|tight junction	identical protein binding|structural molecule activity				0						CTCCCGCTCGGGTGCATCTGG	0.701													5	51	---	---	---	---	PASS
CREBBP	1387	broad.mit.edu	37	16	3777896	3777896	+	Missense_Mutation	SNP	G	T	T			TCGA-18-3412-01A-01D-0983-08	TCGA-18-3412-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	84aca315-8380-4625-887f-a8b3c704c0a9	b5823b9b-ba3a-4d06-aae3-85a682d458f5	g.chr16:3777896G>T	uc002cvv.2	-	31	7356	c.7152C>A	c.(7150-7152)CAC>CAA	p.H2384Q	CREBBP_uc002cvw.2_Missense_Mutation_p.H2346Q	NM_004380	NP_004371	Q92793	CBP_HUMAN	CREB binding protein isoform a	2384					cellular lipid metabolic process|homeostatic process|interspecies interaction between organisms|N-terminal peptidyl-lysine acetylation|protein complex assembly|response to hypoxia	cytoplasm|nuclear body	histone acetyltransferase activity|MyoD binding|p53 binding|sequence-specific DNA binding transcription factor activity|signal transducer activity|transcription coactivator activity|zinc ion binding			haematopoietic_and_lymphoid_tissue(97)|ovary(14)|lung(6)|skin(6)|breast(2)|NS(1)|pancreas(1)	127		Ovarian(90;0.0266)		OV - Ovarian serous cystadenocarcinoma(1;3.54e-05)		CGAGTCCGGGGTGGGGGGAAC	0.647			T|N|F|Mis|O	MLL|MORF|RUNXBP2	ALL|AML|DLBCL|B-NHL 		Rubinstein-Taybi syndrome		Rubinstein-Taybi_syndrome				9	36	---	---	---	---	PASS
SEC14L5	9717	broad.mit.edu	37	16	5053517	5053517	+	Silent	SNP	C	T	T			TCGA-18-3412-01A-01D-0983-08	TCGA-18-3412-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	84aca315-8380-4625-887f-a8b3c704c0a9	b5823b9b-ba3a-4d06-aae3-85a682d458f5	g.chr16:5053517C>T	uc002cye.2	+	11	1425	c.1245C>T	c.(1243-1245)ACC>ACT	p.T415T		NM_014692	NP_055507	O43304	S14L5_HUMAN	SEC14-like 5	415	CRAL-TRIO.					integral to membrane|intracellular	transporter activity				0						ACCCAGAGACCCTGGGTCGGC	0.647													10	7	---	---	---	---	PASS
PDXDC1	23042	broad.mit.edu	37	16	15098131	15098131	+	Silent	SNP	G	T	T			TCGA-18-3412-01A-01D-0983-08	TCGA-18-3412-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	84aca315-8380-4625-887f-a8b3c704c0a9	b5823b9b-ba3a-4d06-aae3-85a682d458f5	g.chr16:15098131G>T	uc002dda.3	+	5	554	c.330G>T	c.(328-330)CTG>CTT	p.L110L	PDXDC1_uc010uzl.1_Silent_p.L95L|PDXDC1_uc010uzm.1_Intron|PDXDC1_uc010bvc.1_Silent_p.L51L|PDXDC1_uc002dcz.2_Silent_p.L110L|PDXDC1_uc002ddb.3_Silent_p.L83L|PDXDC1_uc010uzn.1_Silent_p.L82L|PDXDC1_uc002ddc.2_Silent_p.L110L	NM_015027	NP_055842	Q6P996	PDXD1_HUMAN	pyridoxal-dependent decarboxylase domain	110					carboxylic acid metabolic process		carboxy-lyase activity|protein binding|pyridoxal phosphate binding			skin(1)	1					Pyridoxal Phosphate(DB00114)	AAGAGAAGCTGAGAAAACTTA	0.373													6	179	---	---	---	---	PASS
OGFOD1	55239	broad.mit.edu	37	16	56496445	56496445	+	Splice_Site	SNP	G	T	T			TCGA-18-3412-01A-01D-0983-08	TCGA-18-3412-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	84aca315-8380-4625-887f-a8b3c704c0a9	b5823b9b-ba3a-4d06-aae3-85a682d458f5	g.chr16:56496445G>T	uc002ejb.2	+	4	449	c.348_splice	c.e4-1	p.R116_splice	OGFOD1_uc002ejc.2_Splice_Site	NM_018233	NP_060703	Q8N543	OGFD1_HUMAN	2-oxoglutarate and iron-dependent oxygenase								iron ion binding|L-ascorbic acid binding|oxidoreductase activity, acting on paired donors, with incorporation or reduction of molecular oxygen, 2-oxoglutarate as one donor, and incorporation of one atom each of oxygen into both donors|oxidoreductase activity, acting on single donors with incorporation of molecular oxygen, incorporation of two atoms of oxygen			skin(1)	1					Vitamin C(DB00126)	TACATTTCTAGGAAAATTCTG	0.378													4	33	---	---	---	---	PASS
ADAMTS18	170692	broad.mit.edu	37	16	77401602	77401602	+	Missense_Mutation	SNP	G	C	C			TCGA-18-3412-01A-01D-0983-08	TCGA-18-3412-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	84aca315-8380-4625-887f-a8b3c704c0a9	b5823b9b-ba3a-4d06-aae3-85a682d458f5	g.chr16:77401602G>C	uc002ffc.3	-	4	933	c.514C>G	c.(514-516)CGA>GGA	p.R172G	ADAMTS18_uc002ffe.1_5'UTR|ADAMTS18_uc010vni.1_RNA	NM_199355	NP_955387	Q8TE60	ATS18_HUMAN	ADAM metallopeptidase with thrombospondin type 1	172					proteolysis	proteinaceous extracellular matrix	metalloendopeptidase activity|zinc ion binding			large_intestine(4)|lung(4)|kidney(4)|skin(3)|breast(1)|ovary(1)|pancreas(1)	18						TCATTTTTTCGTGTCCTTATT	0.463													30	18	---	---	---	---	PASS
PRDM7	11105	broad.mit.edu	37	16	90126948	90126948	+	Missense_Mutation	SNP	C	T	T			TCGA-18-3412-01A-01D-0983-08	TCGA-18-3412-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	84aca315-8380-4625-887f-a8b3c704c0a9	b5823b9b-ba3a-4d06-aae3-85a682d458f5	g.chr16:90126948C>T	uc010cje.2	-	9	1054	c.1034G>A	c.(1033-1035)CGA>CAA	p.R345Q	PRDM7_uc002fqo.2_Intron|PRDM7_uc010cjf.2_Intron|PRDM7_uc010cjg.1_Missense_Mutation_p.R139Q	NM_001098173	NP_001091643	Q9NQW5	PRDM7_HUMAN	PR domain containing 7 isoform 1	345	SET.					chromosome|nucleus	nucleic acid binding			ovary(1)	1		all_cancers(9;4.44e-13)|Lung NSC(15;1.56e-06)|all_lung(18;2.18e-06)|all_neural(9;0.00118)|all_hematologic(23;0.0194)		BRCA - Breast invasive adenocarcinoma(80;0.0278)		CCTAATGACTCGGCAGGTTCT	0.547													15	38	---	---	---	---	PASS
ALOX12B	242	broad.mit.edu	37	17	7979001	7979001	+	Silent	SNP	C	A	A			TCGA-18-3412-01A-01D-0983-08	TCGA-18-3412-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	84aca315-8380-4625-887f-a8b3c704c0a9	b5823b9b-ba3a-4d06-aae3-85a682d458f5	g.chr17:7979001C>A	uc002gjy.1	-	12	1827	c.1566G>T	c.(1564-1566)CCG>CCT	p.P522P		NM_001139	NP_001130	O75342	LX12B_HUMAN	arachidonate 12-lipoxygenase, 12R type	522	Lipoxygenase.				epidermis development|leukotriene biosynthetic process		arachidonate 12-lipoxygenase activity|iron ion binding|lipoxygenase activity				0						CTGCGTCACTCGGGTAATAAT	0.577										Multiple Myeloma(8;0.094)			5	144	---	---	---	---	PASS
NF1	4763	broad.mit.edu	37	17	29684312	29684312	+	Missense_Mutation	SNP	A	T	T			TCGA-18-3412-01A-01D-0983-08	TCGA-18-3412-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	84aca315-8380-4625-887f-a8b3c704c0a9	b5823b9b-ba3a-4d06-aae3-85a682d458f5	g.chr17:29684312A>T	uc002hgg.2	+	54	8228	c.7895A>T	c.(7894-7896)GAT>GTT	p.D2632V	NF1_uc002hgh.2_Missense_Mutation_p.D2611V|NF1_uc010cso.2_Missense_Mutation_p.D820V|NF1_uc010wbt.1_Missense_Mutation_p.D110V|NF1_uc010wbu.1_RNA	NM_001042492	NP_001035957	P21359	NF1_HUMAN	neurofibromin isoform 1	2632					actin cytoskeleton organization|adrenal gland development|artery morphogenesis|camera-type eye morphogenesis|cerebral cortex development|collagen fibril organization|forebrain astrocyte development|forebrain morphogenesis|heart development|liver development|MAPKKK cascade|metanephros development|myelination in peripheral nervous system|negative regulation of cell migration|negative regulation of endothelial cell proliferation|negative regulation of MAP kinase activity|negative regulation of MAPKKK cascade|negative regulation of neuroblast proliferation|negative regulation of oligodendrocyte differentiation|negative regulation of transcription factor import into nucleus|osteoblast differentiation|phosphatidylinositol 3-kinase cascade|pigmentation|positive regulation of adenylate cyclase activity|positive regulation of neuron apoptosis|Ras protein signal transduction|regulation of blood vessel endothelial cell migration|regulation of bone resorption|response to hypoxia|smooth muscle tissue development|spinal cord development|sympathetic nervous system development|visual learning|wound healing	axon|cytoplasm|dendrite|intrinsic to internal side of plasma membrane|nucleus	protein binding|Ras GTPase activator activity	p.D2632E(1)		soft_tissue(159)|central_nervous_system(56)|lung(28)|large_intestine(27)|haematopoietic_and_lymphoid_tissue(18)|ovary(18)|autonomic_ganglia(12)|breast(3)|skin(3)|stomach(2)|thyroid(1)|prostate(1)|kidney(1)|pancreas(1)	330		all_cancers(10;1.29e-12)|all_epithelial(10;0.00347)|all_hematologic(16;0.00556)|Acute lymphoblastic leukemia(14;0.00593)|Breast(31;0.014)|Myeloproliferative disorder(56;0.0255)|all_lung(9;0.0321)|Lung NSC(157;0.0659)		UCEC - Uterine corpus endometrioid carcinoma (4;4.38e-05)|all cancers(4;1.64e-26)|Epithelial(4;9.15e-23)|OV - Ovarian serous cystadenocarcinoma(4;3.58e-21)|GBM - Glioblastoma multiforme(4;0.00146)		TATACCACAGATGAGTTTGAT	0.358			D|Mis|N|F|S|O		neurofibroma|glioma	neurofibroma|glioma			Neurofibromatosis_type_1	TCGA GBM(6;<1E-08)|TSP Lung(7;0.0071)|TCGA Ovarian(3;0.0088)			24	22	---	---	---	---	PASS
MED1	5469	broad.mit.edu	37	17	37565935	37565935	+	Missense_Mutation	SNP	C	T	T			TCGA-18-3412-01A-01D-0983-08	TCGA-18-3412-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	84aca315-8380-4625-887f-a8b3c704c0a9	b5823b9b-ba3a-4d06-aae3-85a682d458f5	g.chr17:37565935C>T	uc002hrv.3	-	17	2751	c.2539G>A	c.(2539-2541)GGA>AGA	p.G847R	MED1_uc010wee.1_Missense_Mutation_p.G675R|MED1_uc002hru.2_Intron	NM_004774	NP_004765	Q15648	MED1_HUMAN	mediator complex subunit 1	847	Interaction with ESR1.				androgen biosynthetic process|androgen receptor signaling pathway|cellular lipid metabolic process|fat cell differentiation|positive regulation of transcription from RNA polymerase II promoter|regulation of transcription from RNA polymerase II promoter by nuclear hormone receptor|transcription initiation from RNA polymerase II promoter	mediator complex	DNA binding|estrogen receptor binding|ligand-dependent nuclear receptor binding|ligand-dependent nuclear receptor transcription coactivator activity|peroxisome proliferator activated receptor binding|receptor activity|retinoic acid receptor binding|RNA polymerase II transcription cofactor activity|thyroid hormone receptor binding|vitamin D receptor binding			lung(2)|ovary(2)|breast(1)|skin(1)|kidney(1)|pancreas(1)	8		Ovarian(249;1.78e-06)|Lung SC(565;0.0262)	Lung(15;0.0178)|LUAD - Lung adenocarcinoma(14;0.146)	UCEC - Uterine corpus endometrioid carcinoma (308;6.64e-05)|BRCA - Breast invasive adenocarcinoma(366;0.00136)|READ - Rectum adenocarcinoma(1115;0.0649)		CTGGGGCTTCCAGCAGCATCT	0.408										HNSCC(31;0.082)			17	49	---	---	---	---	PASS
CD300LG	146894	broad.mit.edu	37	17	41931189	41931189	+	Missense_Mutation	SNP	T	A	A			TCGA-18-3412-01A-01D-0983-08	TCGA-18-3412-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	84aca315-8380-4625-887f-a8b3c704c0a9	b5823b9b-ba3a-4d06-aae3-85a682d458f5	g.chr17:41931189T>A	uc002iem.2	+	4	537	c.496T>A	c.(496-498)TAC>AAC	p.Y166N	CD300LG_uc002iel.1_Intron|CD300LG_uc010czk.2_Missense_Mutation_p.Y166N|CD300LG_uc010wil.1_Missense_Mutation_p.Y132N|CD300LG_uc010czl.2_Intron	NM_145273	NP_660316	Q6UXG3	CLM9_HUMAN	CD300 molecule-like family member g precursor	166	Extracellular (Potential).					apical plasma membrane|basolateral plasma membrane|integral to membrane|multivesicular body membrane	receptor activity				0		Breast(137;0.0199)		BRCA - Breast invasive adenocarcinoma(366;0.115)		TCCTGGGCTCTACCCGGCAGC	0.597													14	8	---	---	---	---	PASS
BRIP1	83990	broad.mit.edu	37	17	59821870	59821870	+	Missense_Mutation	SNP	G	T	T			TCGA-18-3412-01A-01D-0983-08	TCGA-18-3412-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	84aca315-8380-4625-887f-a8b3c704c0a9	b5823b9b-ba3a-4d06-aae3-85a682d458f5	g.chr17:59821870G>T	uc002izk.1	-	15	2321	c.2180C>A	c.(2179-2181)CCA>CAA	p.P727Q	BRIP1_uc002izl.1_Missense_Mutation_p.P108Q	NM_032043	NP_114432	Q9BX63	FANCJ_HUMAN	BRCA1 interacting protein C-terminal helicase 1	727					DNA damage checkpoint|double-strand break repair|regulation of transcription from RNA polymerase II promoter	cytoplasm|nucleus	ATP binding|ATP-dependent DNA helicase activity|DNA binding|protein binding			ovary(1)	1						TCCTCCCTGTGGTTCTACAAT	0.358			F|N|Mis			AML|leukemia|breast		Direct_reversal_of_damage|Involved_in_tolerance_or_repair_of_DNA_crosslinks	Fanconi_Anemia				7	143	---	---	---	---	PASS
GH2	2689	broad.mit.edu	37	17	61958850	61958850	+	Missense_Mutation	SNP	C	A	A			TCGA-18-3412-01A-01D-0983-08	TCGA-18-3412-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	84aca315-8380-4625-887f-a8b3c704c0a9	b5823b9b-ba3a-4d06-aae3-85a682d458f5	g.chr17:61958850C>A	uc002jco.1	-	2	102	c.40G>T	c.(40-42)GGC>TGC	p.G14C	GH2_uc002jcj.2_Missense_Mutation_p.G14C|CSH2_uc002jck.2_Intron|GH2_uc002jcl.1_Missense_Mutation_p.G14C|GH2_uc002jcm.1_Missense_Mutation_p.G14C|GH2_uc002jcn.1_Missense_Mutation_p.G14C	NM_002059	NP_002050	P01242	SOM2_HUMAN	growth hormone 2 isoform 1	14						extracellular region	hormone activity			upper_aerodigestive_tract(2)|pancreas(1)	3						CAGAGCAGGCCAAAAGCCAGG	0.622													6	128	---	---	---	---	PASS
SCN4A	6329	broad.mit.edu	37	17	62018542	62018542	+	Silent	SNP	G	T	T			TCGA-18-3412-01A-01D-0983-08	TCGA-18-3412-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	84aca315-8380-4625-887f-a8b3c704c0a9	b5823b9b-ba3a-4d06-aae3-85a682d458f5	g.chr17:62018542G>T	uc002jds.1	-	24	5177	c.5100C>A	c.(5098-5100)ACC>ACA	p.T1700T		NM_000334	NP_000325	P35499	SCN4A_HUMAN	voltage-gated sodium channel type 4 alpha	1700					muscle contraction	voltage-gated sodium channel complex	voltage-gated sodium channel activity			ovary(1)|pancreas(1)|skin(1)	3					Lamotrigine(DB00555)	TCTCCTCCATGGTCTGCTTGA	0.587													5	82	---	---	---	---	PASS
RGS9	8787	broad.mit.edu	37	17	63221324	63221324	+	Missense_Mutation	SNP	C	A	A			TCGA-18-3412-01A-01D-0983-08	TCGA-18-3412-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	84aca315-8380-4625-887f-a8b3c704c0a9	b5823b9b-ba3a-4d06-aae3-85a682d458f5	g.chr17:63221324C>A	uc002jfe.2	+	18	1722	c.1612C>A	c.(1612-1614)CAG>AAG	p.Q538K	RGS9_uc010dem.2_Missense_Mutation_p.Q535K|RGS9_uc002jfd.2_Missense_Mutation_p.Q535K|RGS9_uc002jff.2_RNA|RGS9_uc002jfg.2_Missense_Mutation_p.Q309K	NM_003835	NP_003826	O75916	RGS9_HUMAN	regulator of G-protein signaling 9 isoform 1	538					intracellular signal transduction|negative regulation of signal transduction|regulation of G-protein coupled receptor protein signaling pathway|visual perception	cytoplasm|heterotrimeric G-protein complex	GTPase activator activity|signal transducer activity			ovary(2)|skin(2)	4						GGGCTTGGAGCAGAAAGGGGA	0.682													12	96	---	---	---	---	PASS
DLGAP1	9229	broad.mit.edu	37	18	3534460	3534460	+	Silent	SNP	G	T	T			TCGA-18-3412-01A-01D-0983-08	TCGA-18-3412-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	84aca315-8380-4625-887f-a8b3c704c0a9	b5823b9b-ba3a-4d06-aae3-85a682d458f5	g.chr18:3534460G>T	uc002kmf.2	-	7	2278	c.2211C>A	c.(2209-2211)TCC>TCA	p.S737S	DLGAP1_uc010wyz.1_Silent_p.S737S|DLGAP1_uc002kme.1_Silent_p.S435S|DLGAP1_uc010dkn.2_Silent_p.S445S|DLGAP1_uc010wyw.1_Silent_p.S443S|DLGAP1_uc010wyx.1_Silent_p.S459S|DLGAP1_uc010wyy.1_Silent_p.S421S|DLGAP1_uc002kmg.2_Silent_p.S435S	NM_004746	NP_004737	O14490	DLGP1_HUMAN	discs large homolog-associated protein 1 isoform	737					synaptic transmission	cell junction|postsynaptic density|postsynaptic membrane				ovary(2)|pancreas(1)|skin(1)	4		Colorectal(8;0.0257)				TGCTGACTGTGGAGGTGCTGG	0.527													4	27	---	---	---	---	PASS
SPIRE1	56907	broad.mit.edu	37	18	12449639	12449639	+	Nonstop_Mutation	SNP	A	G	G			TCGA-18-3412-01A-01D-0983-08	TCGA-18-3412-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	84aca315-8380-4625-887f-a8b3c704c0a9	b5823b9b-ba3a-4d06-aae3-85a682d458f5	g.chr18:12449639A>G	uc002kre.2	-	17	2316	c.2269T>C	c.(2269-2271)TGA>CGA	p.*757R	SPIRE1_uc002krc.2_RNA|SPIRE1_uc010wzw.1_Nonstop_Mutation_p.*623R|SPIRE1_uc010wzx.1_Nonstop_Mutation_p.*546R|SPIRE1_uc010wzy.1_Nonstop_Mutation_p.*743R	NM_001128626	NP_001122098	Q08AE8	SPIR1_HUMAN	spire homolog 1 isoform a	757						cytoskeleton|perinuclear region of cytoplasm	actin binding				0						CACGAGGCTCAGATCTCACTG	0.542													7	11	---	---	---	---	PASS
DSC3	1825	broad.mit.edu	37	18	28598040	28598040	+	Silent	SNP	T	A	A			TCGA-18-3412-01A-01D-0983-08	TCGA-18-3412-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	84aca315-8380-4625-887f-a8b3c704c0a9	b5823b9b-ba3a-4d06-aae3-85a682d458f5	g.chr18:28598040T>A	uc002kwj.3	-	9	1415	c.1260A>T	c.(1258-1260)GTA>GTT	p.V420V	DSC3_uc002kwi.3_Silent_p.V420V	NM_001941	NP_001932	Q14574	DSC3_HUMAN	desmocollin 3 isoform Dsc3a preproprotein	420	Cadherin 3.|Extracellular (Potential).				homophilic cell adhesion|protein stabilization	desmosome|integral to membrane|membrane fraction	calcium ion binding|gamma-catenin binding			ovary(2)|skin(2)	4			OV - Ovarian serous cystadenocarcinoma(10;0.125)			ACTGTACCTTTACAACAGAAA	0.269													14	48	---	---	---	---	PASS
MEP1B	4225	broad.mit.edu	37	18	29793244	29793244	+	Missense_Mutation	SNP	T	C	C			TCGA-18-3412-01A-01D-0983-08	TCGA-18-3412-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	84aca315-8380-4625-887f-a8b3c704c0a9	b5823b9b-ba3a-4d06-aae3-85a682d458f5	g.chr18:29793244T>C	uc002kxj.3	+	11	1348	c.1301T>C	c.(1300-1302)ATA>ACA	p.I434T		NM_005925	NP_005916	Q16820	MEP1B_HUMAN	meprin A beta precursor	434	Extracellular (Potential).|MATH.				digestion|proteolysis	extracellular space|integral to plasma membrane	metalloendopeptidase activity|zinc ion binding			ovary(2)	2						ATCTGGCATATAAGGAATTTC	0.423													8	88	---	---	---	---	PASS
ZNF516	9658	broad.mit.edu	37	18	74091542	74091542	+	Missense_Mutation	SNP	C	A	A			TCGA-18-3412-01A-01D-0983-08	TCGA-18-3412-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	84aca315-8380-4625-887f-a8b3c704c0a9	b5823b9b-ba3a-4d06-aae3-85a682d458f5	g.chr18:74091542C>A	uc010dqx.1	-	3	2763	c.2528G>T	c.(2527-2529)GGG>GTG	p.G843V	ZNF516_uc002lme.2_RNA|ZNF516_uc002lmd.2_RNA	NM_014643	NP_055458	Q92618	ZN516_HUMAN	zinc finger protein 516	843					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(1)	1		Prostate(75;0.0869)|Esophageal squamous(42;0.129)		OV - Ovarian serous cystadenocarcinoma(15;7.64e-06)|BRCA - Breast invasive adenocarcinoma(31;0.238)		CCCCGGCATCCCCCCTGGCAC	0.637													4	25	---	---	---	---	PASS
DCAF15	90379	broad.mit.edu	37	19	14069902	14069902	+	Missense_Mutation	SNP	C	T	T			TCGA-18-3412-01A-01D-0983-08	TCGA-18-3412-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	84aca315-8380-4625-887f-a8b3c704c0a9	b5823b9b-ba3a-4d06-aae3-85a682d458f5	g.chr19:14069902C>T	uc002mxt.2	+	7	836	c.830C>T	c.(829-831)CCC>CTC	p.P277L	DCAF15_uc002mxu.2_5'Flank	NM_138353	NP_612362	Q66K64	DCA15_HUMAN	DDB1 and CUL4 associated factor 15	277										central_nervous_system(1)	1						AGCACCTGCCCCCTGGCGCCT	0.657													7	79	---	---	---	---	PASS
UNC13A	23025	broad.mit.edu	37	19	17759368	17759368	+	Missense_Mutation	SNP	G	A	A			TCGA-18-3412-01A-01D-0983-08	TCGA-18-3412-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	84aca315-8380-4625-887f-a8b3c704c0a9	b5823b9b-ba3a-4d06-aae3-85a682d458f5	g.chr19:17759368G>A	uc002nhd.2	-	16	1952	c.1952C>T	c.(1951-1953)ACG>ATG	p.T651M		NM_001080421	NP_001073890	Q9UPW8	UN13A_HUMAN	unc-13 homolog A	563	Phorbol-ester/DAG-type.				exocytosis|intracellular signal transduction	cell junction|cytoplasm|presynaptic membrane	metal ion binding			ovary(3)	3						GTAGGTGGGCGTGGTGGCCGT	0.602													7	28	---	---	---	---	PASS
ELL	8178	broad.mit.edu	37	19	18555600	18555600	+	Missense_Mutation	SNP	C	T	T			TCGA-18-3412-01A-01D-0983-08	TCGA-18-3412-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	84aca315-8380-4625-887f-a8b3c704c0a9	b5823b9b-ba3a-4d06-aae3-85a682d458f5	g.chr19:18555600C>T	uc002njh.2	-	12	1900	c.1828G>A	c.(1828-1830)GCC>ACC	p.A610T	ELL_uc010ebq.2_Missense_Mutation_p.A553T|ELL_uc002njg.2_Missense_Mutation_p.A477T	NM_006532	NP_006523	P55199	ELL_HUMAN	elongation factor RNA polymerase II	610					positive regulation of transcription elongation, DNA-dependent|positive regulation of viral transcription|transcription elongation from RNA polymerase II promoter|viral reproduction	Cajal body|nuclear speck|transcription elongation factor complex	protein binding			lung(1)	1				GBM - Glioblastoma multiforme(1328;7.81e-07)		TCGTACTCGGCGATGAGCCTC	0.637			T	MLL	AL								11	13	---	---	---	---	PASS
ZNF792	126375	broad.mit.edu	37	19	35451839	35451839	+	Silent	SNP	G	T	T			TCGA-18-3412-01A-01D-0983-08	TCGA-18-3412-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	84aca315-8380-4625-887f-a8b3c704c0a9	b5823b9b-ba3a-4d06-aae3-85a682d458f5	g.chr19:35451839G>T	uc002nxh.1	-	2	480	c.93C>A	c.(91-93)CTC>CTA	p.L31L		NM_175872	NP_787068	Q3KQV3	ZN792_HUMAN	zinc finger protein 792	31	KRAB.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0	all_lung(56;4.18e-08)|Lung NSC(56;6.62e-08)|Esophageal squamous(110;0.162)		LUSC - Lung squamous cell carcinoma(66;0.0849)			GAGCCTCATCGAGGAGCACCC	0.557													5	246	---	---	---	---	PASS
CD22	933	broad.mit.edu	37	19	35822955	35822955	+	Silent	SNP	C	A	A			TCGA-18-3412-01A-01D-0983-08	TCGA-18-3412-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	84aca315-8380-4625-887f-a8b3c704c0a9	b5823b9b-ba3a-4d06-aae3-85a682d458f5	g.chr19:35822955C>A	uc010edt.2	+	2	89	c.12C>A	c.(10-12)CTC>CTA	p.L4L	CD22_uc010xst.1_5'UTR|CD22_uc010edu.2_Silent_p.L4L|CD22_uc010edv.2_Silent_p.L4L|CD22_uc002nzb.3_Silent_p.L4L	NM_001771	NP_001762	P20273	CD22_HUMAN	CD22 molecule precursor	4					cell adhesion		protein binding|sugar binding			ovary(5)|lung(3)|breast(1)	9	all_lung(56;9.78e-09)|Lung NSC(56;1.46e-08)|Esophageal squamous(110;0.162)		Epithelial(14;5.83e-19)|OV - Ovarian serous cystadenocarcinoma(14;3.19e-18)|all cancers(14;3.41e-16)|LUSC - Lung squamous cell carcinoma(66;0.0417)		OspA lipoprotein(DB00045)	TGCATCTCCTCGGCCCCTGGC	0.592													6	349	---	---	---	---	PASS
COX6B1	1340	broad.mit.edu	37	19	36142160	36142160	+	Missense_Mutation	SNP	G	T	T			TCGA-18-3412-01A-01D-0983-08	TCGA-18-3412-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	84aca315-8380-4625-887f-a8b3c704c0a9	b5823b9b-ba3a-4d06-aae3-85a682d458f5	g.chr19:36142160G>T	uc002oav.2	+	2	177	c.15G>T	c.(13-15)ATG>ATT	p.M5I		NM_001863	NP_001854	P14854	CX6B1_HUMAN	cytochrome c oxidase subunit VIb polypeptide 1	5					respiratory electron transport chain	mitochondrial inner membrane|mitochondrial intermembrane space	cytochrome-c oxidase activity				0	all_lung(56;2.22e-07)|Lung NSC(56;3.47e-07)|Esophageal squamous(110;0.162)		LUSC - Lung squamous cell carcinoma(66;0.0515)			CGGAAGACATGGAGACCAAAA	0.567													6	176	---	---	---	---	PASS
HKR1	284459	broad.mit.edu	37	19	37853645	37853645	+	Silent	SNP	G	C	C			TCGA-18-3412-01A-01D-0983-08	TCGA-18-3412-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	84aca315-8380-4625-887f-a8b3c704c0a9	b5823b9b-ba3a-4d06-aae3-85a682d458f5	g.chr19:37853645G>C	uc002ogb.2	+	6	1217	c.948G>C	c.(946-948)CTG>CTC	p.L316L	HKR1_uc002ofx.2_Silent_p.L32L|HKR1_uc002ofy.2_Silent_p.L32L|HKR1_uc002oga.2_Silent_p.L298L|HKR1_uc010xto.1_Silent_p.L298L|HKR1_uc002ogc.2_Silent_p.L297L|HKR1_uc010xtp.1_Silent_p.L255L|HKR1_uc002ogd.2_Silent_p.L255L	NM_181786	NP_861451	P10072	HKR1_HUMAN	GLI-Kruppel family member HKR1	316	C2H2-type 1.				multicellular organismal development|regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(2)	2			COAD - Colon adenocarcinoma(19;0.114)|Colorectal(19;0.177)			AGTCAAACCTGATCACACATC	0.498													11	202	---	---	---	---	PASS
ZNF527	84503	broad.mit.edu	37	19	37880525	37880525	+	Missense_Mutation	SNP	C	A	A			TCGA-18-3412-01A-01D-0983-08	TCGA-18-3412-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	84aca315-8380-4625-887f-a8b3c704c0a9	b5823b9b-ba3a-4d06-aae3-85a682d458f5	g.chr19:37880525C>A	uc010efk.1	+	5	1685	c.1574C>A	c.(1573-1575)CCC>CAC	p.P525H	ZNF527_uc002ogf.3_Missense_Mutation_p.P493H|ZNF527_uc010xtq.1_RNA	NM_032453	NP_115829	Q8NB42	ZN527_HUMAN	zinc finger protein 527	525					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(2)	2			COAD - Colon adenocarcinoma(19;0.114)|Colorectal(19;0.177)			GGAGAGAAACCCTATGAATGT	0.393													7	196	---	---	---	---	PASS
ZNF540	163255	broad.mit.edu	37	19	38103316	38103316	+	Missense_Mutation	SNP	G	T	T			TCGA-18-3412-01A-01D-0983-08	TCGA-18-3412-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	84aca315-8380-4625-887f-a8b3c704c0a9	b5823b9b-ba3a-4d06-aae3-85a682d458f5	g.chr19:38103316G>T	uc002ogq.2	+	5	1467	c.1135G>T	c.(1135-1137)GGT>TGT	p.G379C	ZNF540_uc002ogu.2_Missense_Mutation_p.G379C|ZNF540_uc010efq.2_Missense_Mutation_p.G347C	NM_152606	NP_689819	Q8NDQ6	ZN540_HUMAN	zinc finger protein 540	379					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			large_intestine(1)	1			COAD - Colon adenocarcinoma(19;0.114)|Colorectal(19;0.177)			AACTCATGCAGGTAAGAAACC	0.368													8	120	---	---	---	---	PASS
MAP4K1	11184	broad.mit.edu	37	19	39090611	39090611	+	Silent	SNP	C	G	G			TCGA-18-3412-01A-01D-0983-08	TCGA-18-3412-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	84aca315-8380-4625-887f-a8b3c704c0a9	b5823b9b-ba3a-4d06-aae3-85a682d458f5	g.chr19:39090611C>G	uc002oix.1	-	22	1731	c.1623G>C	c.(1621-1623)CGG>CGC	p.R541R	MAP4K1_uc002oiw.1_Silent_p.R128R|MAP4K1_uc002oiy.1_Silent_p.R541R|MAP4K1_uc010xug.1_Intron	NM_007181	NP_009112	Q92918	M4K1_HUMAN	mitogen-activated protein kinase kinase kinase	541	CNH.				activation of JUN kinase activity|peptidyl-serine phosphorylation		ATP binding|MAP kinase kinase kinase kinase activity|protein binding|small GTPase regulator activity			skin(4)|lung(3)|ovary(1)	8	all_cancers(60;6.42e-06)|Ovarian(47;0.103)		Lung(45;0.000751)|LUSC - Lung squamous cell carcinoma(53;0.00272)			CCCACGTAGTCCGGCTAGGAA	0.602													26	151	---	---	---	---	PASS
MAP4K1	11184	broad.mit.edu	37	19	39090744	39090744	+	Silent	SNP	C	G	G			TCGA-18-3412-01A-01D-0983-08	TCGA-18-3412-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	84aca315-8380-4625-887f-a8b3c704c0a9	b5823b9b-ba3a-4d06-aae3-85a682d458f5	g.chr19:39090744C>G	uc002oix.1	-	21	1689	c.1581G>C	c.(1579-1581)CGG>CGC	p.R527R	MAP4K1_uc002oiw.1_Silent_p.R114R|MAP4K1_uc002oiy.1_Silent_p.R527R|MAP4K1_uc010xug.1_Silent_p.R189R	NM_007181	NP_009112	Q92918	M4K1_HUMAN	mitogen-activated protein kinase kinase kinase	527	CNH.				activation of JUN kinase activity|peptidyl-serine phosphorylation		ATP binding|MAP kinase kinase kinase kinase activity|protein binding|small GTPase regulator activity			skin(4)|lung(3)|ovary(1)	8	all_cancers(60;6.42e-06)|Ovarian(47;0.103)		Lung(45;0.000751)|LUSC - Lung squamous cell carcinoma(53;0.00272)			CCTGGTCATTCCGGTTCAGGA	0.632													6	41	---	---	---	---	PASS
MAP4K1	11184	broad.mit.edu	37	19	39090770	39090770	+	Missense_Mutation	SNP	C	G	G			TCGA-18-3412-01A-01D-0983-08	TCGA-18-3412-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	84aca315-8380-4625-887f-a8b3c704c0a9	b5823b9b-ba3a-4d06-aae3-85a682d458f5	g.chr19:39090770C>G	uc002oix.1	-	21	1663	c.1555G>C	c.(1555-1557)GAG>CAG	p.E519Q	MAP4K1_uc002oiw.1_Missense_Mutation_p.E106Q|MAP4K1_uc002oiy.1_Missense_Mutation_p.E519Q|MAP4K1_uc010xug.1_Missense_Mutation_p.E181Q	NM_007181	NP_009112	Q92918	M4K1_HUMAN	mitogen-activated protein kinase kinase kinase	519	CNH.				activation of JUN kinase activity|peptidyl-serine phosphorylation		ATP binding|MAP kinase kinase kinase kinase activity|protein binding|small GTPase regulator activity			skin(4)|lung(3)|ovary(1)	8	all_cancers(60;6.42e-06)|Ovarian(47;0.103)		Lung(45;0.000751)|LUSC - Lung squamous cell carcinoma(53;0.00272)			ATGCCTTCCTCTGCCCCCAGG	0.622													6	40	---	---	---	---	PASS
CCDC8	83987	broad.mit.edu	37	19	46915941	46915941	+	Missense_Mutation	SNP	G	C	C			TCGA-18-3412-01A-01D-0983-08	TCGA-18-3412-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	84aca315-8380-4625-887f-a8b3c704c0a9	b5823b9b-ba3a-4d06-aae3-85a682d458f5	g.chr19:46915941G>C	uc002pep.2	-	1	979	c.127C>G	c.(127-129)CAG>GAG	p.Q43E		NM_032040	NP_114429	Q9H0W5	CCDC8_HUMAN	coiled-coil domain containing 8	43						plasma membrane				ovary(3)	3				OV - Ovarian serous cystadenocarcinoma(262;4.66e-05)|all cancers(93;0.000582)|Epithelial(262;0.00428)|GBM - Glioblastoma multiforme(486;0.0421)		tccaggaactgggtcagccgc	0.129													23	5	---	---	---	---	PASS
NLRP8	126205	broad.mit.edu	37	19	56467436	56467436	+	Missense_Mutation	SNP	A	T	T			TCGA-18-3412-01A-01D-0983-08	TCGA-18-3412-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	84aca315-8380-4625-887f-a8b3c704c0a9	b5823b9b-ba3a-4d06-aae3-85a682d458f5	g.chr19:56467436A>T	uc002qmh.2	+	3	2083	c.2012A>T	c.(2011-2013)AAG>ATG	p.K671M	NLRP8_uc010etg.2_Missense_Mutation_p.K671M	NM_176811	NP_789781	Q86W28	NALP8_HUMAN	NLR family, pyrin domain containing 8	671						cytoplasm	ATP binding			ovary(4)|breast(3)|central_nervous_system(2)|skin(2)|large_intestine(1)|kidney(1)	13		Colorectal(82;0.000147)|Ovarian(87;0.17)		GBM - Glioblastoma multiforme(193;0.0695)		AACGTGTGGAAGCTCAGCTCC	0.532													31	8	---	---	---	---	PASS
ZNF582	147948	broad.mit.edu	37	19	56901403	56901403	+	Missense_Mutation	SNP	C	A	A			TCGA-18-3412-01A-01D-0983-08	TCGA-18-3412-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	84aca315-8380-4625-887f-a8b3c704c0a9	b5823b9b-ba3a-4d06-aae3-85a682d458f5	g.chr19:56901403C>A	uc002qmz.1	-	4	358	c.199G>T	c.(199-201)GTG>TTG	p.V67L	ZNF582_uc002qmy.2_Missense_Mutation_p.V98L	NM_144690	NP_653291	Q96NG8	ZN582_HUMAN	zinc finger protein 582	67	KRAB.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(3)|large_intestine(1)	4		Colorectal(82;0.000256)|Ovarian(87;0.243)		GBM - Glioblastoma multiforme(193;0.0547)		ACTCTCTCCACCATCCAGGGC	0.483													3	26	---	---	---	---	PASS
SPTLC3	55304	broad.mit.edu	37	20	13090814	13090814	+	Silent	SNP	A	G	G			TCGA-18-3412-01A-01D-0983-08	TCGA-18-3412-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	84aca315-8380-4625-887f-a8b3c704c0a9	b5823b9b-ba3a-4d06-aae3-85a682d458f5	g.chr20:13090814A>G	uc002wod.1	+	7	1171	c.882A>G	c.(880-882)CGA>CGG	p.R294R		NM_018327	NP_060797	Q9NUV7	SPTC3_HUMAN	serine palmitoyltransferase, long chain base	294					sphingoid biosynthetic process	integral to membrane|serine C-palmitoyltransferase complex	pyridoxal phosphate binding|serine C-palmitoyltransferase activity|transferase activity, transferring nitrogenous groups				0					Pyridoxal Phosphate(DB00114)	GCCAGCCTCGAACCCGCAGAG	0.438													9	20	---	---	---	---	PASS
SNAI1	6615	broad.mit.edu	37	20	48600418	48600418	+	Missense_Mutation	SNP	C	T	T			TCGA-18-3412-01A-01D-0983-08	TCGA-18-3412-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	84aca315-8380-4625-887f-a8b3c704c0a9	b5823b9b-ba3a-4d06-aae3-85a682d458f5	g.chr20:48600418C>T	uc002xuz.2	+	2	210	c.140C>T	c.(139-141)CCG>CTG	p.P47L		NM_005985	NP_005976	O95863	SNAI1_HUMAN	snail 1 homolog	47					epithelial to mesenchymal transition|mesoderm formation|negative regulation of transcription from RNA polymerase II promoter|osteoblast differentiation|positive regulation of cell migration|positive regulation of epithelial to mesenchymal transition|positive regulation of transcription, DNA-dependent	cytoplasm|nucleus	kinase binding|zinc ion binding			ovary(1)	1			BRCA - Breast invasive adenocarcinoma(9;4.03e-06)			ATCCCACCTCCGGAGATCCTC	0.597													17	29	---	---	---	---	PASS
ZNF280A	129025	broad.mit.edu	37	22	22868913	22868913	+	Missense_Mutation	SNP	G	T	T			TCGA-18-3412-01A-01D-0983-08	TCGA-18-3412-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	84aca315-8380-4625-887f-a8b3c704c0a9	b5823b9b-ba3a-4d06-aae3-85a682d458f5	g.chr22:22868913G>T	uc002zwe.2	-	2	1295	c.1042C>A	c.(1042-1044)CAG>AAG	p.Q348K	LOC96610_uc011aim.1_Intron	NM_080740	NP_542778	P59817	Z280A_HUMAN	zinc finger protein 280A	348	C2H2-type 1.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(1)	1	all_hematologic(9;0.0135)|Acute lymphoblastic leukemia(84;0.17)	all_hematologic(6;1.74e-30)|Acute lymphoblastic leukemia(6;7.75e-22)		READ - Rectum adenocarcinoma(21;0.145)		CACTGTAGCTGGAAGGGAGTG	0.493													6	67	---	---	---	---	PASS
CABIN1	23523	broad.mit.edu	37	22	24434905	24434905	+	Missense_Mutation	SNP	G	A	A			TCGA-18-3412-01A-01D-0983-08	TCGA-18-3412-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	84aca315-8380-4625-887f-a8b3c704c0a9	b5823b9b-ba3a-4d06-aae3-85a682d458f5	g.chr22:24434905G>A	uc002zzi.1	+	4	333	c.206G>A	c.(205-207)CGG>CAG	p.R69Q	CABIN1_uc002zzj.1_Missense_Mutation_p.R69Q|CABIN1_uc002zzl.1_Missense_Mutation_p.R69Q|CABIN1_uc010guk.1_Missense_Mutation_p.R69Q|CABIN1_uc002zzk.1_Missense_Mutation_p.R69Q	NM_012295	NP_036427	Q9Y6J0	CABIN_HUMAN	calcineurin binding protein 1	69	TPR 1.				cell surface receptor linked signaling pathway|chromatin modification	nucleus	protein phosphatase inhibitor activity			ovary(2)|upper_aerodigestive_tract(1)|central_nervous_system(1)|pancreas(1)	5						AGCCTGCTGCGGGAGGTGAGG	0.358													23	21	---	---	---	---	PASS
GCAT	23464	broad.mit.edu	37	22	38211693	38211693	+	Missense_Mutation	SNP	C	T	T			TCGA-18-3412-01A-01D-0983-08	TCGA-18-3412-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	84aca315-8380-4625-887f-a8b3c704c0a9	b5823b9b-ba3a-4d06-aae3-85a682d458f5	g.chr22:38211693C>T	uc003atz.2	+	7	858	c.838C>T	c.(838-840)CCC>TCC	p.P280S	GCAT_uc003aua.1_Missense_Mutation_p.P306S	NM_014291	NP_055106	O75600	KBL_HUMAN	glycine C-acetyltransferase precursor	280					biosynthetic process|cellular amino acid metabolic process		glycine C-acetyltransferase activity|pyridoxal phosphate binding|transferase activity, transferring nitrogenous groups				0	Melanoma(58;0.045)				Glycine(DB00145)|Pyridoxal Phosphate(DB00114)	AGGGCCTGGGCCCCTGGTGTC	0.652													15	49	---	---	---	---	PASS
TNRC6B	23112	broad.mit.edu	37	22	40660695	40660695	+	Nonsense_Mutation	SNP	C	G	G			TCGA-18-3412-01A-01D-0983-08	TCGA-18-3412-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	84aca315-8380-4625-887f-a8b3c704c0a9	b5823b9b-ba3a-4d06-aae3-85a682d458f5	g.chr22:40660695C>G	uc011aor.1	+	5	672	c.461C>G	c.(460-462)TCA>TGA	p.S154*	TNRC6B_uc003aym.2_Intron|TNRC6B_uc003ayn.3_Nonsense_Mutation_p.S154*|TNRC6B_uc003ayo.2_5'UTR	NM_001162501	NP_001155973	Q9UPQ9	TNR6B_HUMAN	trinucleotide repeat containing 6B isoform 1	154					gene silencing by RNA|regulation of translation	cytoplasmic mRNA processing body	nucleotide binding|RNA binding				0						TCCCCAGACTCAACCCTTGGA	0.498													7	40	---	---	---	---	PASS
MED14	9282	broad.mit.edu	37	X	40534580	40534580	+	Missense_Mutation	SNP	C	T	T			TCGA-18-3412-01A-01D-0983-08	TCGA-18-3412-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	84aca315-8380-4625-887f-a8b3c704c0a9	b5823b9b-ba3a-4d06-aae3-85a682d458f5	g.chrX:40534580C>T	uc004dex.3	-	22	3054	c.2914G>A	c.(2914-2916)GAT>AAT	p.D972N		NM_004229	NP_004220	O60244	MED14_HUMAN	mediator complex subunit 14	972					androgen receptor signaling pathway|positive regulation of transcription from RNA polymerase II promoter|transcription initiation from RNA polymerase II promoter	mediator complex	ligand-dependent nuclear receptor transcription coactivator activity|receptor activity|RNA polymerase II transcription cofactor activity|thyroid hormone receptor binding|vitamin D receptor binding			breast(2)|kidney(1)|skin(1)	4						CTTCGAGCATCCTGATTGCTG	0.358													4	3	---	---	---	---	PASS
SATL1	340562	broad.mit.edu	37	X	84362697	84362697	+	Silent	SNP	C	A	A			TCGA-18-3412-01A-01D-0983-08	TCGA-18-3412-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	84aca315-8380-4625-887f-a8b3c704c0a9	b5823b9b-ba3a-4d06-aae3-85a682d458f5	g.chrX:84362697C>A	uc011mqx.1	-	1	1278	c.1278G>T	c.(1276-1278)CCG>CCT	p.P426P	SATL1_uc004een.2_Silent_p.P426P	NM_001163541	NP_001157013	Q86VE3	SATL1_HUMAN	spermidine/spermine N1-acetyl transferase-like 1	239	Gln-rich.			P -> L (in Ref. 2; AAI26402).			N-acetyltransferase activity			breast(2)	2						TTGGTTGCCTCGGGACTGGTT	0.562													4	109	---	---	---	---	PASS
POF1B	79983	broad.mit.edu	37	X	84560850	84560850	+	Nonsense_Mutation	SNP	C	A	A			TCGA-18-3412-01A-01D-0983-08	TCGA-18-3412-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	84aca315-8380-4625-887f-a8b3c704c0a9	b5823b9b-ba3a-4d06-aae3-85a682d458f5	g.chrX:84560850C>A	uc004eer.2	-	13	1530	c.1384G>T	c.(1384-1386)GAG>TAG	p.E462*	POF1B_uc004ees.2_Nonsense_Mutation_p.E462*	NM_024921	NP_079197	Q8WVV4	POF1B_HUMAN	premature ovarian failure, 1B	462							actin binding				0						TTTACCATCTCCGTGTAGTGG	0.408													9	405	---	---	---	---	PASS
CENPI	2491	broad.mit.edu	37	X	100387224	100387224	+	Missense_Mutation	SNP	C	A	A			TCGA-18-3412-01A-01D-0983-08	TCGA-18-3412-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	84aca315-8380-4625-887f-a8b3c704c0a9	b5823b9b-ba3a-4d06-aae3-85a682d458f5	g.chrX:100387224C>A	uc004egx.2	+	13	1603	c.1333C>A	c.(1333-1335)CTC>ATC	p.L445I	CENPI_uc011mrg.1_Missense_Mutation_p.L445I|CENPI_uc004egy.2_Missense_Mutation_p.L445I	NM_006733	NP_006724	Q92674	CENPI_HUMAN	centromere protein I	445					CenH3-containing nucleosome assembly at centromere|mitotic prometaphase	cytosol|kinetochore|nucleoplasm	protein binding			skin(1)	1						GAGCCTTCCTCTCTGGGATGG	0.398													8	366	---	---	---	---	PASS
TAF7L	54457	broad.mit.edu	37	X	100547911	100547911	+	Silent	SNP	G	T	T			TCGA-18-3412-01A-01D-0983-08	TCGA-18-3412-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	84aca315-8380-4625-887f-a8b3c704c0a9	b5823b9b-ba3a-4d06-aae3-85a682d458f5	g.chrX:100547911G>T	uc004ehb.2	-	1	135	c.123C>A	c.(121-123)ACC>ACA	p.T41T	TAF7L_uc004ehc.1_5'Flank	NM_024885	NP_079161	Q5H9L4	TAF7L_HUMAN	TATA box binding protein-associated factor, RNA	41					cell differentiation|multicellular organismal development|regulation of transcription, DNA-dependent|spermatogenesis|transcription initiation from RNA polymerase II promoter	cytoplasm|transcription factor TFIID complex	binding			breast(1)	1						TTTCATAGGTGGTTTCAGACC	0.527													11	490	---	---	---	---	PASS
GPRASP2	114928	broad.mit.edu	37	X	101972177	101972177	+	Nonsense_Mutation	SNP	G	T	T			TCGA-18-3412-01A-01D-0983-08	TCGA-18-3412-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	84aca315-8380-4625-887f-a8b3c704c0a9	b5823b9b-ba3a-4d06-aae3-85a682d458f5	g.chrX:101972177G>T	uc004ejk.2	+	4	3714	c.2380G>T	c.(2380-2382)GGA>TGA	p.G794*	GPRASP2_uc004ejl.2_Nonsense_Mutation_p.G794*|GPRASP2_uc004ejm.2_Nonsense_Mutation_p.G794*|GPRASP2_uc011mrp.1_Nonsense_Mutation_p.G133*	NM_138437	NP_612446	Q96D09	GASP2_HUMAN	G protein-coupled receptor associated sorting	794						cytoplasm	protein binding			ovary(1)	1						TATAAAAAGTGGAAAGATGTC	0.308													8	468	---	---	---	---	PASS
IL1RAPL2	26280	broad.mit.edu	37	X	105011134	105011134	+	Missense_Mutation	SNP	G	T	T			TCGA-18-3412-01A-01D-0983-08	TCGA-18-3412-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	84aca315-8380-4625-887f-a8b3c704c0a9	b5823b9b-ba3a-4d06-aae3-85a682d458f5	g.chrX:105011134G>T	uc004elz.1	+	11	2297	c.1541G>T	c.(1540-1542)GGG>GTG	p.G514V		NM_017416	NP_059112	Q9NP60	IRPL2_HUMAN	interleukin 1 receptor accessory protein-like 2	514	Cytoplasmic (Potential).|TIR.				central nervous system development|innate immune response	integral to membrane	interleukin-1, Type II, blocking receptor activity			breast(2)|ovary(1)	3						GAATTAAAAGGGAAAGTGAAT	0.403													10	342	---	---	---	---	PASS
NRK	203447	broad.mit.edu	37	X	105167219	105167219	+	Missense_Mutation	SNP	C	T	T			TCGA-18-3412-01A-01D-0983-08	TCGA-18-3412-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	84aca315-8380-4625-887f-a8b3c704c0a9	b5823b9b-ba3a-4d06-aae3-85a682d458f5	g.chrX:105167219C>T	uc004emd.2	+	18	3023	c.2720C>T	c.(2719-2721)CCG>CTG	p.P907L	NRK_uc010npc.1_Missense_Mutation_p.P575L	NM_198465	NP_940867	Q7Z2Y5	NRK_HUMAN	Nik related kinase	907							ATP binding|protein serine/threonine kinase activity|small GTPase regulator activity			breast(7)|ovary(3)|lung(2)|large_intestine(1)|central_nervous_system(1)	14						TGGTTAACTCCGGCACCTGTC	0.343										HNSCC(51;0.14)			12	140	---	---	---	---	PASS
COL4A6	1288	broad.mit.edu	37	X	107446160	107446160	+	Missense_Mutation	SNP	G	T	T			TCGA-18-3412-01A-01D-0983-08	TCGA-18-3412-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	84aca315-8380-4625-887f-a8b3c704c0a9	b5823b9b-ba3a-4d06-aae3-85a682d458f5	g.chrX:107446160G>T	uc004enw.3	-	13	938	c.835C>A	c.(835-837)CCG>ACG	p.P279T	COL4A6_uc004env.3_Missense_Mutation_p.P278T|COL4A6_uc011msn.1_Missense_Mutation_p.P278T|COL4A6_uc010npk.2_Missense_Mutation_p.P278T	NM_001847	NP_001838	Q14031	CO4A6_HUMAN	type IV alpha 6 collagen isoform A precursor	279	Triple-helical region.				cell adhesion|extracellular matrix organization	collagen type IV	extracellular matrix structural constituent|protein binding			ovary(6)|urinary_tract(1)|large_intestine(1)	8						AGACTTACCGGGAAGCCTGGA	0.463									Alport_syndrome_with_Diffuse_Leiomyomatosis				11	554	---	---	---	---	PASS
GUCY2F	2986	broad.mit.edu	37	X	108619384	108619384	+	Nonsense_Mutation	SNP	C	A	A			TCGA-18-3412-01A-01D-0983-08	TCGA-18-3412-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	84aca315-8380-4625-887f-a8b3c704c0a9	b5823b9b-ba3a-4d06-aae3-85a682d458f5	g.chrX:108619384C>A	uc004eod.3	-	18	3439	c.3163G>T	c.(3163-3165)GAG>TAG	p.E1055*	GUCY2F_uc011msq.1_RNA	NM_001522	NP_001513	P51841	GUC2F_HUMAN	guanylate cyclase 2F precursor	1055	Cytoplasmic (Potential).		E -> D (in a lung squamous cell carcinoma sample; somatic mutation).		intracellular signal transduction|receptor guanylyl cyclase signaling pathway|visual perception	integral to plasma membrane|nuclear outer membrane	ATP binding|GTP binding|guanylate cyclase activity|protein kinase activity|receptor activity	p.E1055D(1)		lung(4)|breast(3)|central_nervous_system(1)	8						AAGGTTTCCTCTGTGCCTTTG	0.408													7	279	---	---	---	---	PASS
CHRDL1	91851	broad.mit.edu	37	X	109963156	109963156	+	Nonsense_Mutation	SNP	C	A	A			TCGA-18-3412-01A-01D-0983-08	TCGA-18-3412-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	84aca315-8380-4625-887f-a8b3c704c0a9	b5823b9b-ba3a-4d06-aae3-85a682d458f5	g.chrX:109963156C>A	uc004eou.3	-	6	797	c.448G>T	c.(448-450)GAG>TAG	p.E150*	CHRDL1_uc004eov.2_Nonsense_Mutation_p.E144*|CHRDL1_uc004eow.2_Nonsense_Mutation_p.E149*|CHRDL1_uc010nps.2_Nonsense_Mutation_p.E149*|CHRDL1_uc004eot.2_Intron|CHRDL1_uc011mss.1_Intron|CHRDL1_uc004eox.3_Nonsense_Mutation_p.E143*	NM_001143981	NP_001137453	Q9BU40	CRDL1_HUMAN	chordin-like 1 isoform 1 precursor	143	VWFC 2.				BMP signaling pathway|cell differentiation|nervous system development|ossification	extracellular region					0						ACGTTTCCCTCCTGCCAAGGA	0.463													7	166	---	---	---	---	PASS
CAPN6	827	broad.mit.edu	37	X	110494322	110494322	+	Missense_Mutation	SNP	C	A	A			TCGA-18-3412-01A-01D-0983-08	TCGA-18-3412-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	84aca315-8380-4625-887f-a8b3c704c0a9	b5823b9b-ba3a-4d06-aae3-85a682d458f5	g.chrX:110494322C>A	uc004epc.1	-	8	1149	c.981G>T	c.(979-981)TTG>TTT	p.L327F	CAPN6_uc011msu.1_Missense_Mutation_p.L72F	NM_014289	NP_055104	Q9Y6Q1	CAN6_HUMAN	calpain 6	327	Calpain catalytic.				microtubule bundle formation|proteolysis|regulation of cytoskeleton organization	perinuclear region of cytoplasm|spindle microtubule	calcium-dependent cysteine-type endopeptidase activity|microtubule binding			ovary(2)|upper_aerodigestive_tract(1)|large_intestine(1)|lung(1)|skin(1)	6						AAAAGTCCTCCAAGCTCATCC	0.443													9	757	---	---	---	---	PASS
LHFPL1	340596	broad.mit.edu	37	X	111903881	111903881	+	Missense_Mutation	SNP	C	A	A	rs147016809		TCGA-18-3412-01A-01D-0983-08	TCGA-18-3412-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	84aca315-8380-4625-887f-a8b3c704c0a9	b5823b9b-ba3a-4d06-aae3-85a682d458f5	g.chrX:111903881C>A	uc004epq.2	-	3	788	c.455G>T	c.(454-456)GGG>GTG	p.G152V	LHFPL1_uc004epp.2_Missense_Mutation_p.G175V|LHFPL1_uc010nqa.2_Intron|LHFPL1_uc010nqb.2_Intron	NM_178175	NP_835469	Q86WI0	LHPL1_HUMAN	lipoma HMGIC fusion partner-like 1 precursor	152						integral to membrane					0						GGAGACATTCCCACATGTTTG	0.463													11	648	---	---	---	---	PASS
AMOT	154796	broad.mit.edu	37	X	112021836	112021836	+	Nonsense_Mutation	SNP	C	A	A			TCGA-18-3412-01A-01D-0983-08	TCGA-18-3412-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	84aca315-8380-4625-887f-a8b3c704c0a9	b5823b9b-ba3a-4d06-aae3-85a682d458f5	g.chrX:112021836C>A	uc004epr.2	-	11	3214	c.3214G>T	c.(3214-3216)GGA>TGA	p.G1072*	AMOT_uc004eps.2_Nonsense_Mutation_p.G663*	NM_001113490	NP_001106962	Q4VCS5	AMOT_HUMAN	angiomotin isoform 1	1072					actin cytoskeleton organization|cell-cell junction assembly|negative regulation of angiogenesis|negative regulation of vascular permeability|positive regulation of blood vessel endothelial cell migration|positive regulation of cell size|positive regulation of stress fiber assembly|regulation of cell migration	actin filament|cell surface|cytoplasm|endocytic vesicle|external side of plasma membrane|integral to membrane|lamellipodium|ruffle|stress fiber|tight junction|tight junction	angiostatin binding|protein binding|receptor activity			ovary(1)	1						GGCTCTTGTCCCAGGATCTGA	0.408													11	484	---	---	---	---	PASS
SLC6A14	11254	broad.mit.edu	37	X	115577987	115577987	+	Silent	SNP	A	C	C			TCGA-18-3412-01A-01D-0983-08	TCGA-18-3412-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	84aca315-8380-4625-887f-a8b3c704c0a9	b5823b9b-ba3a-4d06-aae3-85a682d458f5	g.chrX:115577987A>C	uc004eqi.2	+	7	974	c.870A>C	c.(868-870)TCA>TCC	p.S290S	SLC6A14_uc011mtm.1_RNA	NM_007231	NP_009162	Q9UN76	S6A14_HUMAN	solute carrier family 6 (amino acid	290					cellular amino acid metabolic process|response to toxin	integral to membrane	amino acid transmembrane transporter activity|neurotransmitter:sodium symporter activity			ovary(2)|pancreas(1)	3					L-Proline(DB00172)	AGGGTGCTTCAAAAGGCATTT	0.393													14	206	---	---	---	---	PASS
CROCCL1	84809	broad.mit.edu	37	1	16946455	16946456	+	RNA	INS	-	GCTCACGCTGCA	GCTCACGCTGCA			TCGA-18-3412-01A-01D-0983-08	TCGA-18-3412-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	84aca315-8380-4625-887f-a8b3c704c0a9	b5823b9b-ba3a-4d06-aae3-85a682d458f5	g.chr1:16946455_16946456insGCTCACGCTGCA	uc010ocf.1	-	3		c.442_443insTGCAGCGTGAGC			CROCCL1_uc009vov.1_RNA|CROCCL1_uc001aze.2_RNA|CROCCL1_uc001azf.2_RNA					Homo sapiens mRNA for FLJ00313 protein.												0						CAGCTCCTCCTGCTCACGCTGC	0.678													6	3	---	---	---	---	
COL4A4	1286	broad.mit.edu	37	2	227920724	227920725	+	Frame_Shift_Ins	INS	-	T	T			TCGA-18-3412-01A-01D-0983-08	TCGA-18-3412-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	84aca315-8380-4625-887f-a8b3c704c0a9	b5823b9b-ba3a-4d06-aae3-85a682d458f5	g.chr2:227920724_227920725insT	uc010zlt.1	-	30	3306_3307	c.2652_2653insA	c.(2650-2655)CCAGGCfs	p.P884fs		NM_000092	NP_000083	P53420	CO4A4_HUMAN	alpha 4 type IV collagen precursor	884_885	Triple-helical region.				axon guidance|glomerular basement membrane development	basal lamina|collagen type IV	extracellular matrix structural constituent|protein binding			ovary(5)|central_nervous_system(3)|pancreas(1)|breast(1)|skin(1)	11		Renal(207;0.00844)|all_lung(227;0.0187)|Lung NSC(271;0.0879)|all_hematologic(139;0.21)|Esophageal squamous(248;0.242)		Epithelial(121;6.7e-11)|all cancers(144;5.39e-08)|Lung(261;0.0132)|LUSC - Lung squamous cell carcinoma(224;0.0181)		CCTGGGAGGCCTGGGGGACCAT	0.619													22	10	---	---	---	---	
Unknown	0	broad.mit.edu	37	3	195428352	195428352	+	RNA	DEL	C	-	-	rs11337909		TCGA-18-3412-01A-01D-0983-08	TCGA-18-3412-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	84aca315-8380-4625-887f-a8b3c704c0a9	b5823b9b-ba3a-4d06-aae3-85a682d458f5	g.chr3:195428352delC	uc011btd.1	+	1		c.1531delC			uc003fux.1_RNA					Homo sapiens cDNA FLJ46488 fis, clone THYMU3026869.																		CTGCTGTCTGCCAGTGACTGC	0.557													13	7	---	---	---	---	
PRIM2	5558	broad.mit.edu	37	6	57513140	57513141	+	Splice_Site	INS	-	AACA	AACA	rs149351797		TCGA-18-3412-01A-01D-0983-08	TCGA-18-3412-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	84aca315-8380-4625-887f-a8b3c704c0a9	b5823b9b-ba3a-4d06-aae3-85a682d458f5	g.chr6:57513140_57513141insAACA	uc003pdx.2	+	19	2070	c.1983_splice	c.e19+1			NM_000947	NP_000938	P49643	PRI2_HUMAN	DNA primase polypeptide 2						DNA replication, synthesis of RNA primer|DNA strand elongation involved in DNA replication|DNA-dependent DNA replication initiation|G1/S transition of mitotic cell cycle|M/G1 transition of mitotic cell cycle|S phase of mitotic cell cycle|telomere maintenance via recombination|telomere maintenance via semi-conservative replication	alpha DNA polymerase:primase complex|nucleoplasm	4 iron, 4 sulfur cluster binding|DNA binding|DNA primase activity|metal ion binding				0				Colorectal(6;0.041)|READ - Rectum adenocarcinoma(7;0.193)		TTTGAGGTAACGAGACTTTCAC	0.347													4	2	---	---	---	---	
TRPV5	56302	broad.mit.edu	37	7	142605706	142605706	+	Frame_Shift_Del	DEL	C	-	-			TCGA-18-3412-01A-01D-0983-08	TCGA-18-3412-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	84aca315-8380-4625-887f-a8b3c704c0a9	b5823b9b-ba3a-4d06-aae3-85a682d458f5	g.chr7:142605706delC	uc003wby.1	-	15	2428	c.2164delG	c.(2164-2166)GATfs	p.D722fs		NM_019841	NP_062815	Q9NQA5	TRPV5_HUMAN	transient receptor potential cation channel,	722	Cytoplasmic (Potential).|Involved in Ca(2+)-dependent inactivation (By similarity).				protein tetramerization	apical plasma membrane|integral to plasma membrane	calcium channel activity			ovary(3)|central_nervous_system(2)|skin(1)	6	Melanoma(164;0.059)					TCCTCTCCATCCCCCTCACTA	0.572													39	29	---	---	---	---	
Unknown	0	broad.mit.edu	37	8	37593487	37593487	+	Frame_Shift_Del	DEL	A	-	-	rs112819064		TCGA-18-3412-01A-01D-0983-08	TCGA-18-3412-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	84aca315-8380-4625-887f-a8b3c704c0a9	b5823b9b-ba3a-4d06-aae3-85a682d458f5	g.chr8:37593487delA	uc003xkb.1	-	2	878	c.529delT	c.(529-531)TCTfs	p.S177fs	ERLIN2_uc003xkc.3_5'Flank|ERLIN2_uc003xkd.2_5'Flank|ERLIN2_uc003xke.3_5'Flank|ERLIN2_uc003xkf.3_5'Flank|ERLIN2_uc003xkg.2_5'Flank					SubName: Full=Putative uncharacterized protein ENSP00000328874;																		TCAAGGAGAGAAAAAAAAAAA	0.199													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	9	68412339	68412339	+	RNA	DEL	A	-	-			TCGA-18-3412-01A-01D-0983-08	TCGA-18-3412-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	84aca315-8380-4625-887f-a8b3c704c0a9	b5823b9b-ba3a-4d06-aae3-85a682d458f5	g.chr9:68412339delA	uc004aew.1	+	2		c.501delA			uc004aex.2_5'Flank					Homo sapiens cDNA, FLJ98602.																		ACCTTTACAGAGGGCAAAGAA	0.542													4	2	---	---	---	---	
