Hugo_Symbol	Entrez_Gene_Id	Center	NCBI_Build	Chromosome	Start_position	End_position	Strand	Variant_Classification	Variant_Type	Reference_Allele	Tumor_Seq_Allele1	Tumor_Seq_Allele2	dbSNP_RS	dbSNP_Val_Status	Tumor_Sample_Barcode	Matched_Norm_Sample_Barcode	Match_Norm_Seq_Allele1	Match_Norm_Seq_Allele2	Tumor_Validation_Allele1	Tumor_Validation_Allele2	Match_Norm_Validation_Allele1	Match_Norm_Validation_Allele2	Verification_Status	Validation_Status	Mutation_Status	Sequencing_Phase	Sequence_Source	Validation_Method	Score	BAM_file	Sequencer	Genome_Change	Annotation_Transcript	Transcript_Strand	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	i_TCGAscape_Amplification_Peaks	i_TCGAscape_Deletion_Peaks	DrugBank	i_ACHILLES_Top_Genes	i_CCLE_ONCOMAP_overlapping_mutations	i_CCLE_ONCOMAP_total_mutations_in_gene	i_CCLE_SEQ_overlapping_mutations	i_CCLE_SEQ_total_mutations_in_gene	MUTSIG_Significant_Genes	OREGANNO_ID	OREGANNO_Values	i_tumor_f	i_init_t_lod	i_t_lod_fstar	i_t_alt_count	i_t_ref_count	i_normal_best_gt	i_failure_reasons	i_judgement	validation_status	validation_method	validation_tumor_sample	validation_alt_allele	dataset	TCGAscape_Amplification_Peaks	TCGAscape_Deletion_Peaks	type	classification	start	end	gene	chr	ref_allele	tum_allele1	tum_allele2	context_orig	context65	gene_name	newbase	categ	categ_ignoring_null_categ
DOCK1	1793	broad.mit.edu	36	10	129121678	129121678	+	Missense_Mutation	SNP	G	T	T			TCGA-06-0152-01	TCGA-06-0152-01	G	G								Phase_I	Unspecified				Illumina GAIIx	g.chr10:129121678G>T	uc001ljt.1	+	c.4993G>T	c.(4993-4995)GAC>TAC	p.D1665Y	DOCK1_uc009yaq.1_Missense_Mutation_p.D660Y	NM_001380	NP_001371	Q14185	DOCK1_HUMAN	dedicator of cytokinesis 1	1665					apoptosis|axon guidance|blood coagulation|integrin-mediated signaling pathway|phagocytosis, engulfment|small GTPase mediated signal transduction	cytosol|membrane	GTP binding|GTPase activator activity|GTPase binding|guanyl-nucleotide exchange factor activity|SH3 domain binding	p.D1665Y(1)		central_nervous_system(4)|ovary(2)|lung(1)|breast(1)|kidney(1)	9		all_epithelial(44;2.3e-07)|all_lung(145;0.00466)|Lung NSC(174;0.00685)|Colorectal(57;0.0107)|Renal(717;0.0113)|Breast(234;0.0492)|all_neural(114;0.108)|all_hematologic(284;0.14)												0.5625	106.00213	106.219496	36	28	GG		KEEP	---	---	---	---	capture		BRCA - Breast invasive adenocarcinoma(275;0.0221)|Colorectal(40;0.115)	Missense_Mutation	SNP	129121678	129121678	4868	10	G	T	T	37	37	DOCK1	T	3	3
KIAA1462	57608	broad.mit.edu	36	10	30355413	30355413	+	Missense_Mutation	SNP	G	C	C			TCGA-06-0152-01	TCGA-06-0152-01	G	G								Phase_I	Unspecified				Illumina GAIIx	g.chr10:30355413G>C	uc009xle.1	-	c.3670C>G	c.(3670-3672)CCA>GCA	p.P1224A	KIAA1462_uc001iuz.2_Missense_Mutation_p.P1086A|KIAA1462_uc001iux.2_Missense_Mutation_p.P1224A|KIAA1462_uc001iuy.2_Intron	NM_020848	NP_065899	Q9P266	K1462_HUMAN	hypothetical protein LOC57608	1224										ovary(4)	4														0.649485	425.07521	428.894852	126	68	GG		KEEP	---	---	---	---	capture			Missense_Mutation	SNP	30355413	30355413	8543	10	G	C	C	43	43	KIAA1462	C	3	3
NELL1	4745	broad.mit.edu	36	11	20906535	20906535	+	Missense_Mutation	SNP	C	T	T			TCGA-06-0152-01	TCGA-06-0152-01	C	C								Phase_I	Unspecified				Illumina GAIIx	g.chr11:20906535C>T	uc009yid.1	+	c.1015C>T	c.(1015-1017)CCT>TCT	p.P339S	NELL1_uc001mqe.1_Missense_Mutation_p.P311S|NELL1_uc001mqf.1_Missense_Mutation_p.P311S	NM_006157	NP_006148	Q92832	NELL1_HUMAN	nel-like 1 isoform 1 precursor	311	VWFC 1.				cell adhesion|nervous system development	extracellular region	calcium ion binding|structural molecule activity			ovary(2)|large_intestine(1)	3														0.4	183.422939	184.690577	58	87	CC		KEEP	---	---	---	---	capture			Missense_Mutation	SNP	20906535	20906535	10732	11	C	T	T	22	22	NELL1	T	2	2
PACS1	55690	broad.mit.edu	36	11	65744699	65744699	+	Missense_Mutation	SNP	G	A	A			TCGA-06-0152-01	TCGA-06-0152-01	G	G								Phase_I	Unspecified				Illumina GAIIx	g.chr11:65744699G>A	uc001oha.1	+	c.1060G>A	c.(1060-1062)GTG>ATG	p.V354M		NM_018026	NP_060496	Q6VY07	PACS1_HUMAN	phosphofurin acidic cluster sorting protein 1	354	Potential.				interspecies interaction between organisms|regulation of defense response to virus by virus|viral reproduction	cytosol	protein binding			ovary(6)	6														0.233766	40.807377	45.80513	18	59	GG		KEEP	---	---	---	---	capture			Missense_Mutation	SNP	65744699	65744699	11788	11	G	A	A	48	48	PACS1	A	2	2
B3GNT1	11041	broad.mit.edu	36	11	65871165	65871165	+	Missense_Mutation	SNP	C	G	G			TCGA-06-0152-01	TCGA-06-0152-01	C	C								Phase_I	Unspecified				Illumina GAIIx	g.chr11:65871165C>G	uc001ohr.1	-	c.428G>C	c.(427-429)AGC>ACC	p.S143T	BRMS1_uc001ohp.1_5'Flank|BRMS1_uc001oho.1_5'Flank	NM_006876	NP_006867	O43505	B3GN1_HUMAN	UDP-GlcNAc:betaGal	143	Lumenal (Potential).				poly-N-acetyllactosamine biosynthetic process	integral to Golgi membrane	N-acetyllactosaminide beta-1,3-N-acetylglucosaminyltransferase activity				0														0.333333	6.720329	6.942571	3	6	CC		KEEP	---	---	---	---	capture			Missense_Mutation	SNP	65871165	65871165	1277	11	C	G	G	28	28	B3GNT1	G	3	3
TMEM132D	121256	broad.mit.edu	36	12	128260150	128260150	+	Silent	SNP	G	A	A			TCGA-06-0152-01	TCGA-06-0152-01	G	G								Phase_I	Unspecified				Illumina GAIIx	g.chr12:128260150G>A	uc009zyl.1	-	c.1311C>T	c.(1309-1311)ATC>ATT	p.I437I		NM_133448	NP_597705	Q14C87	T132D_HUMAN	transmembrane protein 132D	437	Extracellular (Potential).					integral to membrane				ovary(10)|pancreas(2)	12	all_neural(191;0.101)|Medulloblastoma(191;0.163)	all_epithelial(31;0.0934)|Breast(359;0.133)												0.386555	129.108738	130.454915	46	73	GG		KEEP	---	---	---	---	capture		OV - Ovarian serous cystadenocarcinoma(86;0.000288)|Epithelial(86;0.0116)|all cancers(50;0.0246)	Silent	SNP	128260150	128260150	16579	12	G	A	A	41	41	TMEM132D	A	2	2
PRMT8	56341	broad.mit.edu	36	12	3520208	3520208	+	Missense_Mutation	SNP	G	T	T			TCGA-06-0152-01	TCGA-06-0152-01	G	G								Phase_I	Unspecified				Illumina GAIIx	g.chr12:3520208G>T	uc001qmf.1	+	c.251G>T	c.(250-252)GGG>GTG	p.G84V	PRMT8_uc009zed.1_Missense_Mutation_p.G75V|PRMT8_uc009zee.1_Non-coding_Transcript	NM_019854	NP_062828	Q9NR22	ANM8_HUMAN	HMT1 hnRNP methyltransferase-like 4	84					regulation of protein binding	cytoplasm|plasma membrane	histone-arginine N-methyltransferase activity|protein heterodimerization activity|protein homodimerization activity|protein-arginine omega-N asymmetric methyltransferase activity|protein-arginine omega-N monomethyltransferase activity			ovary(3)	3														0.39185	364.391238	367.662694	125	194	GG		KEEP	---	---	---	---	capture	OV - Ovarian serous cystadenocarcinoma(31;0.0109)|COAD - Colon adenocarcinoma(12;0.0264)		Missense_Mutation	SNP	3520208	3520208	12985	12	G	T	T	43	43	PRMT8	T	3	3
MTUS2	23281	broad.mit.edu	36	13	28497308	28497308	+	Missense_Mutation	SNP	T	C	C			TCGA-06-0152-01	TCGA-06-0152-01	T	T								Phase_I	Unspecified				Illumina GAIIx	g.chr13:28497308T>C	uc001usl.2	+	c.503T>C	c.(502-504)GTT>GCT	p.V168A		NM_001033602	NP_001028774	Q5JR59	MTUS2_HUMAN	hypothetical protein LOC23281 isoform a	158						cytoplasm|microtubule	microtubule binding|protein homodimerization activity				0										344				0.190083	57.153745	68.021858	23	98	TT		KEEP	---	---	---	---	capture			Missense_Mutation	SNP	28497308	28497308	10359	13	T	C	C	60	60	MTUS2	C	4	4
SLITRK6	84189	broad.mit.edu	36	13	85268527	85268527	+	Missense_Mutation	SNP	T	G	G			TCGA-06-0152-01	TCGA-06-0152-01	T	T								Phase_I	Unspecified				Illumina GAIIx	g.chr13:85268527T>G	uc001vll.1	-	c.118A>C	c.(118-120)AAA>CAA	p.K40Q	SLITRK6_uc010afe.1_5'Flank|SLITRK6_uc010aff.1_Missense_Mutation_p.K40Q	NM_032229	NP_115605	Q9H5Y7	SLIK6_HUMAN	slit and trk like 6	40	LRRNT 1.|Extracellular (Potential).					integral to membrane				large_intestine(1)|ovary(1)|central_nervous_system(1)	3	all_neural(89;0.117)|Medulloblastoma(90;0.163)													0.416667	152.486231	153.132889	45	63	TT		KEEP	---	---	---	---	capture		GBM - Glioblastoma multiforme(99;0.0456)	Missense_Mutation	SNP	85268527	85268527	15245	13	T	G	G	64	64	SLITRK6	G	4	4
FOXA1	3169	broad.mit.edu	36	14	37130648	37130648	+	Silent	SNP	G	A	A			TCGA-06-0152-01	TCGA-06-0152-01	G	G								Phase_I	Unspecified				Illumina GAIIx	g.chr14:37130648G>A	uc001wuf.1	-	c.1092C>T	c.(1090-1092)CCC>CCT	p.P364P		NM_004496	NP_004487	P55317	FOXA1_HUMAN	forkhead box A1	364					chromatin remodeling|embryo development|epithelial cell maturation involved in prostate gland development|epithelial tube branching involved in lung morphogenesis|epithelial-mesenchymal signaling involved in prostate gland development|glucose homeostasis|lung epithelial cell differentiation|negative regulation of gene-specific transcription from RNA polymerase II promoter|negative regulation of survival gene product expression|neuron fate specification|pattern specification process|positive regulation of estrogen receptor signaling pathway|positive regulation of gene-specific transcription from RNA polymerase II promoter|positive regulation of mitotic cell cycle|positive regulation of neuron differentiation|positive regulation of sequence-specific DNA binding transcription factor activity|prostate gland epithelium morphogenesis|prostate gland stromal morphogenesis|response to estradiol stimulus|secretory columnal luminar epithelial cell differentiation involved in prostate glandular acinus development	transcription factor complex	DNA bending activity|double-stranded DNA binding|promoter binding|protein domain specific binding|RNA polymerase II core promoter proximal region sequence-specific DNA binding transcription factor activity involved in positive regulation of transcription|sequence-specific enhancer binding RNA polymerase II transcription factor activity|specific RNA polymerase II transcription factor activity|specific transcriptional repressor activity|transcription activator activity|transcription factor binding				0	Breast(36;0.0954)|Esophageal squamous(585;0.164)|Hepatocellular(127;0.213)													0.333333	11.770142	12.139084	5	10	GG		KEEP	---	---	---	---	capture	Lung(238;5.41e-07)|LUAD - Lung adenocarcinoma(48;2.48e-05)|Epithelial(34;0.0454)|LUSC - Lung squamous cell carcinoma(13;0.0917)|all cancers(34;0.0925)|BRCA - Breast invasive adenocarcinoma(188;0.239)	GBM - Glioblastoma multiforme(112;0.0222)	Silent	SNP	37130648	37130648	6231	14	G	A	A	39	39	FOXA1	A	1	1
SIPA1L1	26037	broad.mit.edu	36	14	71125339	71125339	+	Missense_Mutation	SNP	C	T	T			TCGA-06-0152-01	TCGA-06-0152-01	C	C								Phase_I	Unspecified				Illumina GAIIx	g.chr14:71125339C>T	uc001xms.1	+	c.997C>T	c.(997-999)CAC>TAC	p.H333Y	SIPA1L1_uc001xmt.1_Missense_Mutation_p.H333Y|SIPA1L1_uc001xmu.1_Missense_Mutation_p.H333Y|SIPA1L1_uc001xmv.1_Missense_Mutation_p.H333Y	NM_015556	NP_056371	O43166	SI1L1_HUMAN	signal-induced proliferation-associated 1 like	333					actin cytoskeleton reorganization|activation of Rap GTPase activity|regulation of dendritic spine morphogenesis	cell junction|cytoplasm|dendritic spine|postsynaptic density|postsynaptic membrane|synaptosome	GTPase activator activity			ovary(3)|breast(1)	4														0.302703	155.826112	162.256578	56	129	CC		KEEP	---	---	---	---	capture		all cancers(60;0.00169)|BRCA - Breast invasive adenocarcinoma(234;0.00912)|OV - Ovarian serous cystadenocarcinoma(108;0.0109)	Missense_Mutation	SNP	71125339	71125339	14824	14	C	T	T	21	21	SIPA1L1	T	2	2
FAM181A	90050	broad.mit.edu	36	14	93464441	93464441	+	Silent	SNP	C	T	T			TCGA-06-0152-01	TCGA-06-0152-01	C	C								Phase_I	Unspecified				Illumina GAIIx	g.chr14:93464441C>T	uc001ybz.1	+	c.243C>T	c.(241-243)AGC>AGT	p.S81S	C14orf86_uc001yby.1_5'Flank|FAM181A_uc010aus.1_Silent_p.S19S|FAM181A_uc001yca.1_Silent_p.S19S	NM_138344	NP_612353	Q8N9Y4	F181A_HUMAN	hypothetical protein LOC90050	81											0														0.375	90.077405	91.274783	33	55	CC		KEEP	---	---	---	---	capture			Silent	SNP	93464441	93464441	5715	14	C	T	T	27	27	FAM181A	T	1	1
SERPINA11	256394	broad.mit.edu	36	14	93984256	93984256	+	Silent	SNP	C	T	T			TCGA-06-0152-01	TCGA-06-0152-01	C	C								Phase_I	Unspecified				Illumina GAIIx	g.chr14:93984256C>T	uc001ydd.1	-	c.609G>A	c.(607-609)ACG>ACA	p.T203T		NM_001080451	NP_001073920	Q86U17	SPA11_HUMAN	serpin peptidase inhibitor, clade A (alpha-1	203					regulation of proteolysis	extracellular region	serine-type endopeptidase inhibitor activity			kidney(1)	1														0.370192	217.337753	220.41048	77	131	CC		KEEP	---	---	---	---	capture		COAD - Colon adenocarcinoma(157;0.211)	Silent	SNP	93984256	93984256	14576	14	C	T	T	19	19	SERPINA11	T	1	1
RYR3	6263	broad.mit.edu	36	15	31865243	31865243	+	Missense_Mutation	SNP	G	T	T			TCGA-06-0152-01	TCGA-06-0152-01	G	G								Phase_I	Unspecified				Illumina GAIIx	g.chr15:31865243G>T	uc001zhi.1	+	c.9357G>T	c.(9355-9357)GAG>GAT	p.E3119D	RYR3_uc010bar.1_Missense_Mutation_p.E3119D	NM_001036	NP_001027	Q15413	RYR3_HUMAN	ryanodine receptor 3	3119					cellular calcium ion homeostasis	integral to membrane	calcium ion binding|receptor activity|ryanodine-sensitive calcium-release channel activity			ovary(5)|central_nervous_system(4)|lung(1)	10		all_lung(180;7.18e-09)												0.170984	61.541348	81.313442	33	160	GG		KEEP	---	---	---	---	capture		all cancers(64;8.95e-12)|GBM - Glioblastoma multiforme(186;0.00109)|BRCA - Breast invasive adenocarcinoma(123;0.0363)	Missense_Mutation	SNP	31865243	31865243	14250	15	G	T	T	36	36	RYR3	T	3	3
TYRO3	7301	broad.mit.edu	36	15	39647743	39647743	+	Missense_Mutation	SNP	G	A	A			TCGA-06-0152-01	TCGA-06-0152-01	G	G								Phase_I	Unspecified				Illumina GAIIx	g.chr15:39647743G>A	uc001zof.1	+	c.998G>A	c.(997-999)CGC>CAC	p.R333H		NM_006293	NP_006284	Q06418	TYRO3_HUMAN	TYRO3 protein tyrosine kinase	333	Fibronectin type-III 2.|Extracellular (Potential).					integral to plasma membrane	ATP binding|receptor signaling protein tyrosine kinase activity|transmembrane receptor protein tyrosine kinase activity			ovary(3)|lung(2)|central_nervous_system(1)	6		all_cancers(109;7.33e-15)|all_epithelial(112;2.8e-12)|Lung NSC(122;3.48e-08)|all_lung(180;1.71e-07)|Melanoma(134;0.0262)								1052				0.40678	137.675898	138.572228	48	70	GG		KEEP	---	---	---	---	capture		OV - Ovarian serous cystadenocarcinoma(18;3.31e-18)|GBM - Glioblastoma multiforme(113;9.31e-07)|BRCA - Breast invasive adenocarcinoma(123;0.117)	Missense_Mutation	SNP	39647743	39647743	17371	15	G	A	A	38	38	TYRO3	A	1	1
CCDC33	80125	broad.mit.edu	36	15	72341956	72341956	+	Missense_Mutation	SNP	C	T	T			TCGA-06-0152-01	TCGA-06-0152-01	C	C								Phase_I	Unspecified				Illumina GAIIx	g.chr15:72341956C>T	uc002axo.1	+	c.308C>T	c.(307-309)GCA>GTA	p.A103V		NM_025055	NP_079331	Q8N5R6	CCD33_HUMAN	coiled-coil domain containing 33 isoform 1	306	C2.						protein binding			ovary(3)	3														0.393939	35.965905	36.291458	13	20	CC		KEEP	---	---	---	---	capture			Missense_Mutation	SNP	72341956	72341956	2928	15	C	T	T	25	25	CCDC33	T	2	2
BCL2A1	597	broad.mit.edu	36	15	78050188	78050188	+	Missense_Mutation	SNP	G	A	A			TCGA-06-0152-01	TCGA-06-0152-01	G	G								Phase_I	Unspecified				Illumina GAIIx	g.chr15:78050188G>A	uc002bfc.2	-	c.329C>T	c.(328-330)CCG>CTG	p.P110L	BCL2A1_uc002bfd.2_Missense_Mutation_p.P110L	NM_004049	NP_004040	Q16548	B2LA1_HUMAN	BCL2-related protein A1 isoform 1	110					anti-apoptosis|apoptosis	cytoplasm	protein binding			pancreas(1)	1										46				0.144695	79.981581	117.749815	45	266	GG		KEEP	---	---	---	---	capture			Missense_Mutation	SNP	78050188	78050188	1387	15	G	A	A	39	39	BCL2A1	A	1	1
ALPK3	57538	broad.mit.edu	36	15	83201207	83201207	+	Missense_Mutation	SNP	C	A	A			TCGA-06-0152-01	TCGA-06-0152-01	C	C								Phase_I	Unspecified				Illumina GAIIx	g.chr15:83201207C>A	uc002ble.1	+	c.2840C>A	c.(2839-2841)GCG>GAG	p.A947E		NM_020778	NP_065829	Q96L96	ALPK3_HUMAN	alpha-kinase 3	947					heart development|protein phosphorylation	nucleus	ATP binding|protein serine/threonine kinase activity			ovary(3)|lung(2)|breast(1)|central_nervous_system(1)|skin(1)	8									p.A947V(HEC108-Tumor)	343				0.355	214.818827	218.50232	71	129	CC		KEEP	---	---	---	---	capture	BRCA - Breast invasive adenocarcinoma(143;0.0587)		Missense_Mutation	SNP	83201207	83201207	549	15	C	A	A	27	27	ALPK3	A	3	3
PEX11A	8800	broad.mit.edu	36	15	88027688	88027688	+	Missense_Mutation	SNP	C	T	T			TCGA-06-0152-01	TCGA-06-0152-01	C	C								Phase_I	Unspecified				Illumina GAIIx	g.chr15:88027688C>T	uc002boi.1	-	c.668G>A	c.(667-669)GGA>GAA	p.G223E		NM_003847	NP_003838	O75192	PX11A_HUMAN	peroxisomal biogenesis factor 11 alpha	223	Helical; (Potential).				cellular lipid metabolic process|peroxisome fission|signal transduction	integral to peroxisomal membrane					0	Lung NSC(78;0.0237)|all_lung(78;0.0478)													0.363158	599.260875	608.656168	207	363	CC		KEEP	---	---	---	---	capture	KIRC - Kidney renal clear cell carcinoma(17;0.0286)|Kidney(142;0.0514)|BRCA - Breast invasive adenocarcinoma(143;0.128)		Missense_Mutation	SNP	88027688	88027688	12159	15	C	T	T	30	30	PEX11A	T	2	2
PKD1	5310	broad.mit.edu	36	16	2098519	2098519	+	Missense_Mutation	SNP	A	C	C			TCGA-06-0152-01	TCGA-06-0152-01	A	A								Phase_I	Unspecified				Illumina GAIIx	g.chr16:2098519A>C	uc002cos.1	-	c.6650T>G	c.(6649-6651)GTG>GGG	p.V2217G	PKD1_uc002cot.1_Missense_Mutation_p.V2217G	NM_001009944	NP_001009944	P98161	PKD1_HUMAN	polycystin 1 isoform 1 precursor	2217	Extracellular (Potential).|REJ.				calcium-independent cell-matrix adhesion|homophilic cell adhesion|neuropeptide signaling pathway	basolateral plasma membrane|integral to plasma membrane	protein domain specific binding|sugar binding			central_nervous_system(1)	1														0.444444	8.421246	8.506629	8	10	AA		KEEP	---	---	---	---	capture			Missense_Mutation	SNP	2098519	2098519	12387	16	A	C	C	6	6	PKD1	C	4	4
ALG1	56052	broad.mit.edu	36	16	5068839	5068839	+	Missense_Mutation	SNP	G	A	A			TCGA-06-0152-01	TCGA-06-0152-01	G	G								Phase_I	Unspecified				Illumina GAIIx	g.chr16:5068839G>A	uc002cyn.1	+	c.821G>A	c.(820-822)CGT>CAT	p.R274H	ALG1_uc002cyj.1_Missense_Mutation_p.R163H|ALG1_uc002cym.1_Missense_Mutation_p.R274H|ALG1_uc010bue.1_Missense_Mutation_p.R163H	NM_019109	NP_061982	Q9BT22	ALG1_HUMAN	beta-1,4-mannosyltransferase	274	Lumenal (Potential).				dolichol-linked oligosaccharide biosynthetic process|lipopolysaccharide biosynthetic process|post-translational protein modification|protein N-linked glycosylation via asparagine	endoplasmic reticulum membrane|integral to membrane	chitobiosyldiphosphodolichol beta-mannosyltransferase activity			ovary(1)	1		Ovarian(90;0.0164)												0.5	91.579109	91.579109	33	33	GG		KEEP	---	---	---	---	capture			Missense_Mutation	SNP	5068839	5068839	513	16	G	A	A	40	40	ALG1	A	1	1
TAX1BP3	30851	broad.mit.edu	36	17	3513834	3513834	+	Missense_Mutation	SNP	C	T	T			TCGA-06-0152-01	TCGA-06-0152-01	C	C								Phase_I	Unspecified				Illumina GAIIx	g.chr17:3513834C>T	uc002fwc.1	-	c.332G>A	c.(331-333)CGG>CAG	p.R111Q	P2RX5_uc002fwd.1_Non-coding_Transcript|TAX1BP3_uc002fwe.1_3'UTR	NM_014604	NP_055419	O14907	TX1B3_HUMAN	Tax1 (human T-cell leukemia virus type I)	111	PDZ.				activation of Cdc42 GTPase activity|negative regulation of protein localization at cell surface|negative regulation of Wnt receptor signaling pathway|Rho protein signal transduction|Wnt receptor signaling pathway	cytoplasm|nucleus	protein C-terminus binding				0														0.210526	8.916161	10.36972	4	15	CC		KEEP	---	---	---	---	capture		COAD - Colon adenocarcinoma(5;0.0761)	Missense_Mutation	SNP	3513834	3513834	16117	17	C	T	T	23	23	TAX1BP3	T	1	1
ENO3	2027	broad.mit.edu	36	17	4801001	4801001	+	Missense_Mutation	SNP	G	A	A			TCGA-06-0152-01	TCGA-06-0152-01	G	G								Phase_I	Unspecified				Illumina GAIIx	g.chr17:4801001G>A	uc002gab.2	+	c.1240G>A	c.(1240-1242)GAG>AAG	p.E414K	ENO3_uc002gac.2_Missense_Mutation_p.E414K	NM_053013	NP_443739	P13929	ENOB_HUMAN	enolase 3	414					gluconeogenesis|glycolysis	phosphopyruvate hydratase complex	magnesium ion binding|phosphopyruvate hydratase activity			ovary(1)	1												OREG0024110	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	0.431111	290.648499	291.577427	97	128	GG		KEEP	---	---	---	---	capture			Missense_Mutation	SNP	4801001	4801001	5316	17	G	A	A	37	37	ENO3	A	1	1
ALOX12B	242	broad.mit.edu	36	17	7925202	7925202	+	Silent	SNP	G	A	A			TCGA-06-0152-01	TCGA-06-0152-01	G	G								Phase_I	Unspecified				Illumina GAIIx	g.chr17:7925202G>A	uc002gjy.1	-	c.381C>T	c.(379-381)CCC>CCT	p.P127P		NM_001139	NP_001130	O75342	LX12B_HUMAN	arachidonate 12-lipoxygenase, 12R type	127	Lipoxygenase.				epidermis development|leukotriene biosynthetic process|oxidation-reduction process		arachidonate 12-lipoxygenase activity|iron ion binding|lipoxygenase activity				0											Multiple Myeloma(8;0.094)			0.185567	40.593708	49.582166	18	79	GG		KEEP	---	---	---	---	capture			Silent	SNP	7925202	7925202	540	17	G	A	A	39	39	ALOX12B	A	1	1
FAM59A	64762	broad.mit.edu	36	18	28144190	28144190	+	Silent	SNP	G	A	A			TCGA-06-0152-01	TCGA-06-0152-01	G	G								Phase_I	Unspecified				Illumina GAIIx	g.chr18:28144190G>A	uc002kxl.1	-	c.357C>T	c.(355-357)CGC>CGT	p.R119R	FAM59A_uc002kxk.1_Silent_p.R119R	NM_022751	NP_073588	Q9H706	FA59A_HUMAN	hypothetical protein LOC64762	119	CABIT.									ovary(1)	1														0.37234	299.403754	303.44017	105	177	GG		KEEP	---	---	---	---	capture			Silent	SNP	28144190	28144190	5814	18	G	A	A	38	38	FAM59A	A	1	1
SERPINB5	5268	broad.mit.edu	36	18	59307636	59307636	+	Missense_Mutation	SNP	C	T	T			TCGA-06-0152-01	TCGA-06-0152-01	C	C								Phase_I	Unspecified				Illumina GAIIx	g.chr18:59307636C>T	uc002liz.2	+	c.383C>T	c.(382-384)ACG>ATG	p.T128M	SERPINB5_uc002liy.2_Missense_Mutation_p.T128M	NM_002639	NP_002630	P36952	SPB5_HUMAN	serine (or cysteine) proteinase inhibitor, clade	128					cellular component movement|regulation of proteolysis	cytoplasm|extracellular space	protein binding|serine-type endopeptidase inhibitor activity			ovary(1)	1														0.263636	73.13786	78.686911	29	81	CC		KEEP	---	---	---	---	capture			Missense_Mutation	SNP	59307636	59307636	14592	18	C	T	T	19	19	SERPINB5	T	1	1
TIMM50	92609	broad.mit.edu	36	19	44663239	44663239	+	Missense_Mutation	SNP	A	C	C			TCGA-06-0152-01	TCGA-06-0152-01	A	A								Phase_I	Unspecified				Illumina GAIIx	g.chr19:44663239A>C	uc002olu.1	+	c.215A>C	c.(214-216)CAC>CCC	p.H72P	TIMM50_uc002olt.1_Non-coding_Transcript	NM_001001563	NP_001001563	Q3ZCQ8	TIM50_HUMAN	translocase of inner mitochondrial membrane 50	47	Mitochondrial matrix (Potential).				mitochondrial membrane organization|protein transport|release of cytochrome c from mitochondria|transmembrane transport	integral to membrane|mitochondrial inner membrane presequence translocase complex|nuclear speck	interleukin-2 receptor binding|protein serine/threonine phosphatase activity|protein tyrosine phosphatase activity|ribonucleoprotein binding|RNA binding			ovary(1)	1	all_cancers(60;4.04e-06)|all_lung(34;1.77e-07)|Lung NSC(34;2.09e-07)|all_epithelial(25;1.13e-05)|Ovarian(47;0.159)													0.285714	7.293616	8.196605	6	15	AA		KEEP	---	---	---	---	capture	Epithelial(26;5.89e-26)|all cancers(26;1.96e-23)|LUSC - Lung squamous cell carcinoma(53;0.000657)		Missense_Mutation	SNP	44663239	44663239	16442	19	A	C	C	6	6	TIMM50	C	4	4
PSG7	5676	broad.mit.edu	36	19	48121765	48121765	+	Missense_Mutation	SNP	C	A	A			TCGA-06-0152-01	TCGA-06-0152-01	C	C								Phase_I	Unspecified				Illumina GAIIx	g.chr19:48121765C>A	uc002ovl.2	-	c.1243G>T	c.(1243-1245)GAC>TAC	p.D415Y	PSG10_uc002ouv.1_Intron|PSG6_uc002ovi.2_Intron|PSG3_uc002ouf.1_Intron|PSG7_uc002ous.1_Non-coding_Transcript|PSG7_uc002out.1_Missense_Mutation_p.A141S|PSG11_uc002ouw.1_Missense_Mutation_p.A328S|PSG6_uc002ovh.1_Intron|PSG11_uc002ovk.1_Missense_Mutation_p.D328Y	NM_002783	NP_002774	Q13046	PSG7_HUMAN	pregnancy specific beta-1-glycoprotein 7	415					female pregnancy	extracellular region					0		Prostate(69;0.00682)												0.391858	458.655278	462.682964	154	239	CC		KEEP	---	---	---	---	capture			Missense_Mutation	SNP	48121765	48121765	13113	19	C	A	A	21	21	PSG7	A	3	3
TMC4	147798	broad.mit.edu	36	19	59361011	59361011	+	Missense_Mutation	SNP	T	G	G			TCGA-06-0152-01	TCGA-06-0152-01	T	T								Phase_I	Unspecified				Illumina GAIIx	g.chr19:59361011T>G	uc010erf.1	-	c.917A>C	c.(916-918)GAC>GCC	p.D306A	TMC4_uc002qdn.1_5'Flank|TMC4_uc002qdo.1_Missense_Mutation_p.D300A	NM_144686	NP_653287	Q7Z404	TMC4_HUMAN	transmembrane channel-like 4 isoform 2	306	Extracellular (Potential).					integral to membrane				pancreas(1)	1	all_cancers(19;0.0065)|all_epithelial(19;0.00348)|all_lung(19;0.0175)|Lung NSC(19;0.0325)|Ovarian(34;0.19)													0.322581	32.070536	32.920622	10	21	TT		KEEP	---	---	---	---	capture			Missense_Mutation	SNP	59361011	59361011	16517	19	T	G	G	58	58	TMC4	G	4	4
NLRP9	338321	broad.mit.edu	36	19	60936202	60936202	+	Silent	SNP	G	A	A			TCGA-06-0152-01	TCGA-06-0152-01	G	G								Phase_I	Unspecified				Illumina GAIIx	g.chr19:60936202G>A	uc002qly.1	-	c.807C>T	c.(805-807)TCC>TCT	p.S269S		NM_176820	NP_789790	Q7RTR0	NALP9_HUMAN	NLR family, pyrin domain containing 9	269	NACHT.					cytoplasm	ATP binding			ovary(2)|skin(2)|breast(1)	5		Colorectal(82;0.000133)|Ovarian(87;0.133)												0.322314	119.183294	122.575147	39	82	GG		KEEP	---	---	---	---	capture		GBM - Glioblastoma multiforme(193;0.123)	Silent	SNP	60936202	60936202	10887	19	G	A	A	35	35	NLRP9	A	2	2
MUC16	94025	broad.mit.edu	36	19	8928989	8928989	+	Missense_Mutation	SNP	A	G	G			TCGA-06-0152-01	TCGA-06-0152-01	A	A								Phase_I	Unspecified				Illumina GAIIx	g.chr19:8928989A>G	uc002mkp.1	-	c.19457T>C	c.(19456-19458)TTG>TCG	p.L6486S		NM_024690	NP_078966	Q8WXI7	MUC16_HUMAN	mucin 16	6488	Thr-rich.|Extracellular (Potential).				cell adhesion	extracellular space|extrinsic to membrane|integral to membrane|plasma membrane	protein binding			ovary(15)|large_intestine(1)|pancreas(1)|breast(1)|skin(1)	19														0.346821	159.338088	162.925822	60	113	AA		KEEP	---	---	---	---	capture			Missense_Mutation	SNP	8928989	8928989	10367	19	A	G	G	5	5	MUC16	G	4	4
DNAJC16	23341	broad.mit.edu	36	1	15761404	15761404	+	Silent	SNP	A	C	C			TCGA-06-0152-01	TCGA-06-0152-01	A	A								Phase_I	Unspecified				Illumina GAIIx	g.chr1:15761404A>C	uc001aws.1	+	c.1335A>C	c.(1333-1335)TCA>TCC	p.S445S	DNAJC16_uc001awr.1_Silent_p.S445S|DNAJC16_uc001awt.1_Silent_p.S133S|DNAJC16_uc001awu.2_Non-coding_Transcript	NM_015291	NP_056106	Q9Y2G8	DJC16_HUMAN	DnaJ (Hsp40) homolog, subfamily C, member 16	445	Cytoplasmic (Potential).				cell redox homeostasis|protein folding	integral to membrane	heat shock protein binding|unfolded protein binding			urinary_tract(1)|lung(1)|kidney(1)	3		Colorectal(325;0.00108)|Renal(390;0.00145)|Breast(348;0.00173)|all_lung(284;0.00459)|Lung NSC(340;0.00499)|Myeloproliferative disorder(586;0.0393)|Ovarian(437;0.0798)												0.657459	350.683542	354.625833	119	62	AA		KEEP	---	---	---	---	capture		UCEC - Uterine corpus endometrioid carcinoma (279;0.0228)|Colorectal(212;9.18e-07)|COAD - Colon adenocarcinoma(227;4.5e-05)|BRCA - Breast invasive adenocarcinoma(304;0.000133)|KIRC - Kidney renal clear cell carcinoma(229;0.00262)|STAD - Stomach adenocarcinoma(313;0.00774)|READ - Rectum adenocarcinoma(331;0.0657)	Silent	SNP	15761404	15761404	4818	1	A	C	C	7	7	DNAJC16	C	4	4
OR10J1	26476	broad.mit.edu	36	1	157677027	157677027	+	Silent	SNP	G	A	A			TCGA-06-0152-01	TCGA-06-0152-01	G	G								Phase_I	Unspecified				Illumina GAIIx	g.chr1:157677027G>A	uc001ftt.1	+	c.855G>A	c.(853-855)TCG>TCA	p.S285S		NM_012351	NP_036483	P30954	O10J1_HUMAN	olfactory receptor, family 10, subfamily J,	285	Helical; Name=7; (Potential).				sensory perception of smell|single fertilization	integral to plasma membrane	olfactory receptor activity			ovary(1)	1	all_hematologic(112;0.0429)													0.681818	515.930713	522.399984	150	70	GG		KEEP	---	---	---	---	capture			Silent	SNP	157677027	157677027	11316	1	G	A	A	39	39	OR10J1	A	1	1
SLC9A11	284525	broad.mit.edu	36	1	171771623	171771623	+	Missense_Mutation	SNP	A	C	C			TCGA-06-0152-01	TCGA-06-0152-01	A	A								Phase_I	Unspecified				Illumina GAIIx	g.chr1:171771623A>C	uc001giz.1	-	c.1744T>G	c.(1744-1746)TGT>GGT	p.C582G	SLC9A11_uc009wwe.1_Missense_Mutation_p.C140G	NM_178527	NP_848622	Q5TAH2	S9A11_HUMAN	solute carrier family 9, member 11	582					sodium ion transport	integral to membrane	solute:hydrogen antiporter activity			ovary(2)	2														0.272152	134.060437	141.451091	43	115	AA		KEEP	---	---	---	---	capture			Missense_Mutation	SNP	171771623	171771623	15208	1	A	C	C	5	5	SLC9A11	C	4	4
AIDA	64853	broad.mit.edu	36	1	220927622	220927622	+	Missense_Mutation	SNP	G	C	C			TCGA-06-0152-01	TCGA-06-0152-01	G	G								Phase_I	Unspecified				Illumina GAIIx	g.chr1:220927622G>C	uc001hnn.1	-	c.291C>G	c.(289-291)ATC>ATG	p.I97M	AIDA_uc001hno.1_Non-coding_Transcript	NM_022831	NP_073742	Q96BJ3	AIDA_HUMAN	axin interactor, dorsalization associated	97					dorsal/ventral pattern formation|negative regulation of JNK cascade|negative regulation of JUN kinase activity|regulation of protein homodimerization activity						0														0.79402	922.811186	946.941717	239	62	GG		KEEP	---	---	---	---	capture			Missense_Mutation	SNP	220927622	220927622	426	1	G	C	C	41	41	AIDA	C	3	3
CSMD2	114784	broad.mit.edu	36	1	33840719	33840719	+	Missense_Mutation	SNP	T	C	C			TCGA-06-0152-01	TCGA-06-0152-01	T	T								Phase_I	Unspecified				Illumina GAIIx	g.chr1:33840719T>C	uc001bxm.1	-	c.6547A>G	c.(6547-6549)AAC>GAC	p.N2183D	CSMD2_uc001bxn.1_Missense_Mutation_p.N2185D|CSMD2_uc001bxo.1_Missense_Mutation_p.N1056D	NM_052896	NP_443128	Q7Z408	CSMD2_HUMAN	CUB and Sushi multiple domains 2	2185	Extracellular (Potential).|CUB 13.					integral to membrane|plasma membrane	protein binding			ovary(5)|pancreas(1)	6		Myeloproliferative disorder(586;0.0294)|all_neural(195;0.249)												0.315789	10.290319	10.895313	6	13	TT		KEEP	---	---	---	---	capture			Missense_Mutation	SNP	33840719	33840719	4086	1	T	C	C	62	62	CSMD2	C	4	4
DOCK7	85440	broad.mit.edu	36	1	62766414	62766414	+	Nonsense_Mutation	SNP	G	C	C			TCGA-06-0152-01	TCGA-06-0152-01	G	G								Phase_I	Unspecified				Illumina GAIIx	g.chr1:62766414G>C	uc001daq.1	-	c.3932C>G	c.(3931-3933)TCA>TGA	p.S1311*	DOCK7_uc001dap.1_Nonsense_Mutation_p.S1280*|DOCK7_uc001dam.1_Nonsense_Mutation_p.S491*|DOCK7_uc001dan.1_Nonsense_Mutation_p.S1172*|DOCK7_uc001dao.1_Nonsense_Mutation_p.S1172*	NM_033407	NP_212132	Q96N67	DOCK7_HUMAN	dedicator of cytokinesis 7	1311					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														0.113636	31.172805	57.085074	20	156	GG		KEEP	---	---	---	---	capture			Nonsense_Mutation	SNP	62766414	62766414	4876	1	G	C	C	45	45	DOCK7	C	5	3
SSTR4	6754	broad.mit.edu	36	20	22964952	22964952	+	Missense_Mutation	SNP	G	T	T			TCGA-06-0152-01	TCGA-06-0152-01	G	G								Phase_I	Unspecified				Illumina GAIIx	g.chr20:22964952G>T	uc002wsr.2	+	c.832G>T	c.(832-834)GTG>TTG	p.V278L		NM_001052	NP_001043	P31391	SSR4_HUMAN	somatostatin receptor 4	278	Helical; Name=6; (Potential).				G-protein signaling, coupled to cyclic nucleotide second messenger|negative regulation of cell proliferation	integral to plasma membrane	somatostatin receptor activity				0	Colorectal(13;0.0518)|Lung NSC(19;0.0542)|all_lung(19;0.118)					Esophageal Squamous(15;850 1104 16640)								0.212766	66.25012	76.945333	30	111	GG		KEEP	---	---	---	---	capture			Missense_Mutation	SNP	22964952	22964952	15716	20	G	T	T	44	44	SSTR4	T	3	3
PREX1	57580	broad.mit.edu	36	20	46677865	46677865	+	Missense_Mutation	SNP	G	A	A			TCGA-06-0152-01	TCGA-06-0152-01	G	G								Phase_I	Unspecified				Illumina GAIIx	g.chr20:46677865G>A	uc002xtw.1	-	c.4810C>T	c.(4810-4812)CGG>TGG	p.R1604W	PREX1_uc002xtv.1_Missense_Mutation_p.R901W	NM_020820	NP_065871	Q8TCU6	PREX1_HUMAN	phosphatidylinositol-3,4,	1604					actin filament polymerization|apoptosis|induction of apoptosis by extracellular signals|nerve growth factor receptor signaling pathway|neutrophil activation|small GTPase mediated signal transduction|superoxide metabolic process	cytosol|plasma membrane	enzyme binding|phospholipid binding|Rho GTPase activator activity|Rho guanyl-nucleotide exchange factor activity			lung(3)|ovary(2)|pancreas(1)	6														0.239437	39.145636	43.542853	17	54	GG		KEEP	---	---	---	---	capture	BRCA - Breast invasive adenocarcinoma(12;0.0135)|Colorectal(8;0.198)		Missense_Mutation	SNP	46677865	46677865	12919	20	G	A	A	40	40	PREX1	A	1	1
KCNG1	3755	broad.mit.edu	36	20	49054551	49054551	+	Missense_Mutation	SNP	C	T	T			TCGA-06-0152-01	TCGA-06-0152-01	C	C								Phase_I	Unspecified				Illumina GAIIx	g.chr20:49054551C>T	uc002xwa.2	-	c.974G>A	c.(973-975)CGT>CAT	p.R325H		NM_002237	NP_002228	Q9UIX4	KCNG1_HUMAN	potassium voltage-gated channel, subfamily G,	325						voltage-gated potassium channel complex	voltage-gated potassium channel activity			ovary(1)|central_nervous_system(1)	2														0.272727	7.219936	7.732266	3	8	CC		KEEP	---	---	---	---	capture			Missense_Mutation	SNP	49054551	49054551	8332	20	C	T	T	19	19	KCNG1	T	1	1
PLCB1	23236	broad.mit.edu	36	20	8300082	8300082	+	Silent	SNP	C	T	T			TCGA-06-0152-01	TCGA-06-0152-01	C	C								Phase_I	Unspecified				Illumina GAIIx	g.chr20:8300082C>T	uc002wnb.1	+	c.231C>T	c.(229-231)CAC>CAT	p.H77H	PLCB1_uc010gbv.1_Silent_p.H77H|PLCB1_uc002wmz.1_Silent_p.H77H|PLCB1_uc002wna.1_Silent_p.H77H	NM_015192	NP_056007	Q9NQ66	PLCB1_HUMAN	phosphoinositide-specific phospholipase C beta 1	77					activation of meiosis involved in egg activation|CD24 biosynthetic process|cerebral cortex development|G1 phase|G2/M transition of mitotic cell cycle|glutamate signaling pathway|insulin-like growth factor receptor signaling pathway|interleukin-1-mediated signaling pathway|interleukin-12-mediated signaling pathway|interleukin-15-mediated signaling pathway|intracellular signal transduction|lipid catabolic process|memory|muscarinic acetylcholine receptor signaling pathway|negative regulation of gene-specific transcription|negative regulation of monocyte extravasation|phosphatidylinositol metabolic process|positive regulation of acrosome reaction|positive regulation of developmental growth|positive regulation of embryonic development|positive regulation of gene-specific transcription|positive regulation of interleukin-12 production|positive regulation of JNK cascade|positive regulation of myoblast differentiation|regulation of fertilization|regulation of G-protein coupled receptor protein signaling pathway|synaptic transmission	cytosol|nuclear chromatin|nuclear speck	calcium ion binding|calmodulin binding|enzyme binding|GTPase activator activity|phosphatidylinositol phospholipase C activity|phosphatidylinositol-4,5-bisphosphate binding|protein homodimerization activity|signal transducer activity|transcription repressor activity			ovary(4)|breast(3)|lung(1)	8														0.224806	69.227927	78.189675	29	100	CC		KEEP	---	---	---	---	capture			Silent	SNP	8300082	8300082	12453	20	C	T	T	19	19	PLCB1	T	1	1
CACNA1I	8911	broad.mit.edu	36	22	38408522	38408522	+	Missense_Mutation	SNP	G	A	A			TCGA-06-0152-01	TCGA-06-0152-01	G	G								Phase_I	Unspecified				Illumina GAIIx	g.chr22:38408522G>A	uc003ayc.1	+	c.5740G>A	c.(5740-5742)GTC>ATC	p.V1914I	CACNA1I_uc003ayd.1_Missense_Mutation_p.V1879I|CACNA1I_uc003aye.2_Missense_Mutation_p.V1829I|CACNA1I_uc003ayf.2_Missense_Mutation_p.V1794I	NM_021096	NP_066919	Q9P0X4	CAC1I_HUMAN	calcium channel, voltage-dependent, T type,	1914	Cytoplasmic (Potential).				axon guidance|signal transduction	voltage-gated calcium channel complex	low voltage-gated calcium channel activity|protein binding			breast(1)|central_nervous_system(1)	2	Melanoma(58;0.0749)				Flunarizine(DB04841)|Paramethadione(DB00617)|Verapamil(DB00661)									0.666667	130.8634	132.411699	42	21	GG		KEEP	---	---	---	---	capture			Missense_Mutation	SNP	38408522	38408522	2662	22	G	A	A	40	40	CACNA1I	A	1	1
FEZ2	9637	broad.mit.edu	36	2	36664024	36664024	+	Missense_Mutation	SNP	A	C	C			TCGA-06-0152-01	TCGA-06-0152-01	A	A								Phase_I	Unspecified				Illumina GAIIx	g.chr2:36664024A>C	uc002rpg.1	-	c.468T>G	c.(466-468)GAT>GAG	p.D156E	FEZ2_uc002rpe.1_5'Flank|FEZ2_uc002rpf.1_5'UTR|FEZ2_uc002rph.1_Missense_Mutation_p.D156E|FEZ2_uc002rpi.1_Missense_Mutation_p.D11E|FEZ2_uc002rpj.1_Missense_Mutation_p.D156E	NM_001042548	NP_001036013	Q9UHY8	FEZ2_HUMAN	zygin 2 isoform 2	156					axon guidance|signal transduction		protein binding			ovary(1)	1		all_hematologic(82;0.21)												0.280303	110.421733	116.147434	37	95	AA		KEEP	---	---	---	---	capture			Missense_Mutation	SNP	36664024	36664024	6061	2	A	C	C	8	8	FEZ2	C	4	4
CD8A	925	broad.mit.edu	36	2	86866567	86866567	+	Missense_Mutation	SNP	G	A	A			TCGA-06-0152-01	TCGA-06-0152-01	G	G								Phase_I	Unspecified				Illumina GAIIx	g.chr2:86866567G>A	uc002srt.1	-	c.695C>T	c.(694-696)GCG>GTG	p.A232V	RMND5A_uc002srs.2_Intron|CD8A_uc002sru.1_Missense_Mutation_p.A195V|CD8A_uc002srv.1_Missense_Mutation_p.A232V	NM_001768	NP_001759	P01732	CD8A_HUMAN	CD8 antigen alpha polypeptide isoform 1	232	Cytoplasmic (Potential).				antigen processing and presentation|regulation of immune response|transmembrane receptor protein tyrosine kinase signaling pathway	extracellular region|integral to plasma membrane|T cell receptor complex	coreceptor activity|MHC class I protein binding			ovary(1)	1														0.257778	138.5377	150.507566	58	167	GG		KEEP	---	---	---	---	capture			Missense_Mutation	SNP	86866567	86866567	3172	2	G	A	A	38	38	CD8A	A	1	1
TRIM43	129868	broad.mit.edu	36	2	95625886	95625886	+	Missense_Mutation	SNP	A	T	T			TCGA-06-0152-01	TCGA-06-0152-01	A	A								Phase_I	Unspecified				Illumina GAIIx	g.chr2:95625886A>T	uc002suv.1	+	c.717A>T	c.(715-717)AAA>AAT	p.K239N		NM_138800	NP_620155	Q96BQ3	TRI43_HUMAN	tripartite motif-containing 43	239						intracellular	zinc ion binding			ovary(1)	1														0.545455	38.401943	38.441528	12	10	AA		KEEP	---	---	---	---	capture			Missense_Mutation	SNP	95625886	95625886	17062	2	A	T	T	2	2	TRIM43	T	4	4
DLEC1	9940	broad.mit.edu	36	3	38079261	38079261	+	Silent	SNP	G	A	A			TCGA-06-0152-01	TCGA-06-0152-01	G	G								Phase_I	Unspecified				Illumina GAIIx	g.chr3:38079261G>A	uc003chp.1	+	c.1059G>A	c.(1057-1059)CCG>CCA	p.P353P	DLEC1_uc003cho.1_Silent_p.P353P|DLEC1_uc010hgv.1_Silent_p.P353P|DLEC1_uc010hgw.1_Silent_p.P52P|DLEC1_uc003chq.1_Non-coding_Transcript	NM_007337	NP_031363	Q9Y238	DLEC1_HUMAN	deleted in lung and esophageal cancer 1 isoform	353					negative regulation of cell proliferation	cytoplasm				ovary(2)|pancreas(2)|central_nervous_system(2)|breast(1)|skin(1)	8														0.235294	59.746833	66.284014	24	78	GG		KEEP	---	---	---	---	capture		KIRC - Kidney renal clear cell carcinoma(284;0.0664)|Kidney(284;0.0827)	Silent	SNP	38079261	38079261	4732	3	G	A	A	37	37	DLEC1	A	1	1
ULK4	54986	broad.mit.edu	36	3	41928081	41928081	+	Missense_Mutation	SNP	T	G	G			TCGA-06-0152-01	TCGA-06-0152-01	T	T								Phase_I	Unspecified				Illumina GAIIx	g.chr3:41928081T>G	uc003ckv.2	-	c.971A>C	c.(970-972)AAA>ACA	p.K324T	ULK4_uc003ckw.2_Missense_Mutation_p.K324T|ULK4_uc003ckx.1_Missense_Mutation_p.K324T	NM_017886	NP_060356	Q96C45	ULK4_HUMAN	unc-51-like kinase 4	324					protein phosphorylation		ATP binding|protein serine/threonine kinase activity				0										538				0.262069	113.385723	120.810368	38	107	TT		KEEP	---	---	---	---	capture		KIRC - Kidney renal clear cell carcinoma(284;0.214)	Missense_Mutation	SNP	41928081	41928081	17536	3	T	G	G	64	64	ULK4	G	4	4
LRBA	987	broad.mit.edu	36	4	152008310	152008310	+	Missense_Mutation	SNP	C	T	T			TCGA-06-0152-01	TCGA-06-0152-01	C	C								Phase_I	Unspecified				Illumina GAIIx	g.chr4:152008310C>T	uc010ipj.1	-	c.2729G>A	c.(2728-2730)CGT>CAT	p.R910H	LRBA_uc003ilu.2_Missense_Mutation_p.R910H	NM_006726	NP_006717	P50851	LRBA_HUMAN	LPS-responsive vesicle trafficking, beach and	910						endoplasmic reticulum|Golgi apparatus|integral to membrane|lysosome|plasma membrane	protein binding			ovary(3)|breast(3)	6	all_hematologic(180;0.151)													0.462963	147.937102	148.066325	50	58	CC		KEEP	---	---	---	---	capture			Missense_Mutation	SNP	152008310	152008310	9304	4	C	T	T	19	19	LRBA	T	1	1
PCDHGB3	56102	broad.mit.edu	36	5	140732286	140732286	+	Missense_Mutation	SNP	G	A	A			TCGA-06-0152-01	TCGA-06-0152-01	G	G								Phase_I	Unspecified				Illumina GAIIx	g.chr5:140732286G>A	uc003ljw.1	+	c.2141G>A	c.(2140-2142)CGC>CAC	p.R714H	PCDHGA1_uc003lji.1_Intron|PCDHGA2_uc003ljk.1_Intron|PCDHGA3_uc010jfx.1_Intron|PCDHGA3_uc003ljm.1_Intron|PCDHGB1_uc003ljo.1_Intron|PCDHGA4_uc003ljq.1_Intron|PCDHGB2_uc003ljs.1_Intron|PCDHGA5_uc003lju.1_Intron|PCDHGA6_uc003ljy.1_5'Flank|PCDHGB3_uc003ljv.1_Missense_Mutation_p.R714H|PCDHGA6_uc003ljx.1_5'Flank	NM_018924	NP_061747	Q9Y5G1	PCDGF_HUMAN	protocadherin gamma subfamily B, 3 isoform 1	714	Cytoplasmic (Potential).				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding				0														0.298969	75.439844	78.941914	29	68	GG		KEEP	---	---	---	---	capture	KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)		Missense_Mutation	SNP	140732286	140732286	11984	5	G	A	A	38	38	PCDHGB3	A	1	1
FLT4	2324	broad.mit.edu	36	5	179980803	179980803	+	Silent	SNP	G	A	A			TCGA-06-0152-01	TCGA-06-0152-01	G	G								Phase_I	Unspecified				Illumina GAIIx	g.chr5:179980803G>A	uc003mlz.2	-	c.2076C>T	c.(2074-2076)AGC>AGT	p.S692S	FLT4_uc003mma.2_Silent_p.S692S|FLT4_uc003mmb.1_Silent_p.S225S	NM_182925	NP_891555	P35916	VGFR3_HUMAN	fms-related tyrosine kinase 4 isoform 1	692	Ig-like C2-type 7.|Extracellular (Potential).				positive regulation of cell proliferation|protein phosphorylation	integral to plasma membrane	ATP binding|protein binding|vascular endothelial growth factor receptor activity			lung(3)|ovary(1)|central_nervous_system(1)|kidney(1)|skin(1)	7	all_cancers(89;2.21e-05)|all_epithelial(37;5.29e-06)|Renal(175;0.000159)|Lung NSC(126;0.00199)|all_lung(126;0.00351)|Breast(19;0.114)	all_cancers(40;0.00245)|Medulloblastoma(196;0.0133)|all_neural(177;0.0199)|all_hematologic(541;0.163)|Ovarian(839;0.238)			Sorafenib(DB00398)|Sunitinib(DB01268)	Colon(97;1075 1466 27033 27547 35871)				2638				0.394495	121.904132	122.964908	43	66	GG		KEEP	---	---	---	---	capture	Kidney(164;2.23e-05)|KIRC - Kidney renal clear cell carcinoma(164;0.000178)	all cancers(165;0.134)	Silent	SNP	179980803	179980803	6186	5	G	A	A	38	38	FLT4	A	1	1
SEC63	11231	broad.mit.edu	36	6	108332599	108332599	+	Missense_Mutation	SNP	T	G	G			TCGA-06-0152-01	TCGA-06-0152-01	T	T								Phase_I	Unspecified				Illumina GAIIx	g.chr6:108332599T>G	uc003psc.2	-	c.981A>C	c.(979-981)AAA>AAC	p.K327N	SEC63_uc003psb.2_Missense_Mutation_p.K187N	NM_007214	NP_009145	Q9UGP8	SEC63_HUMAN	SEC63-like protein	327	SEC63 1.|Cytoplasmic (Potential).				protein folding|protein targeting to membrane	endoplasmic reticulum membrane|integral to membrane	heat shock protein binding|receptor activity|unfolded protein binding			ovary(1)|skin(1)	2		all_cancers(87;5.35e-06)|Acute lymphoblastic leukemia(125;2.66e-08)|all_hematologic(75;1.13e-06)|all_epithelial(87;0.00225)|Colorectal(196;0.0294)												0.444444	442.896532	443.688875	132	165	TT		KEEP	---	---	---	---	capture		BRCA - Breast invasive adenocarcinoma(108;0.0079)|Epithelial(106;0.0356)|all cancers(137;0.0525)|OV - Ovarian serous cystadenocarcinoma(136;0.054)	Missense_Mutation	SNP	108332599	108332599	14491	6	T	G	G	64	64	SEC63	G	4	4
GPR126	57211	broad.mit.edu	36	6	142778630	142778630	+	Silent	SNP	T	C	C			TCGA-06-0152-01	TCGA-06-0152-01	T	T								Phase_I	Unspecified				Illumina GAIIx	g.chr6:142778630T>C	uc010khe.1	+	c.2674T>C	c.(2674-2676)TTG>CTG	p.L892L	GPR126_uc010khc.1_Silent_p.L892L|GPR126_uc010khd.1_Silent_p.L864L|GPR126_uc010khf.1_Silent_p.L864L	NM_198569	NP_940971	Q86SQ4	GP126_HUMAN	G protein-coupled receptor 126 beta 1	892	Cytoplasmic (Potential).				neuropeptide signaling pathway	integral to membrane|plasma membrane	G-protein coupled receptor activity			ovary(1)	1	Breast(32;0.176)													0.38843	153.007218	154.323619	47	74	TT		KEEP	---	---	---	---	capture		OV - Ovarian serous cystadenocarcinoma(155;9.33e-06)|GBM - Glioblastoma multiforme(68;0.00121)	Silent	SNP	142778630	142778630	6914	6	T	C	C	52	52	GPR126	C	4	4
GRM4	2914	broad.mit.edu	36	6	34112351	34112351	+	Missense_Mutation	SNP	C	T	T			TCGA-06-0152-01	TCGA-06-0152-01	C	C								Phase_I	Unspecified				Illumina GAIIx	g.chr6:34112351C>T	uc003oir.2	-	c.1514G>A	c.(1513-1515)CGG>CAG	p.R505Q	GRM4_uc010jvh.1_Missense_Mutation_p.R505Q|GRM4_uc010jvi.1_Missense_Mutation_p.R197Q|GRM4_uc010jvj.1_Missense_Mutation_p.R389Q|GRM4_uc003oio.1_Missense_Mutation_p.R197Q|GRM4_uc003oip.1_Non-coding_Transcript|GRM4_uc003oiq.1_Missense_Mutation_p.R372Q	NM_000841	NP_000832	Q14833	GRM4_HUMAN	glutamate receptor, metabotropic 4	505	Extracellular (Potential).				activation of MAPK activity|inhibition of adenylate cyclase activity by metabotropic glutamate receptor signaling pathway|neuroprotection|neurotransmitter secretion|positive regulation of MAPKKK cascade	cytoplasmic vesicle|integral to plasma membrane	G-protein coupled receptor activity|glutamate receptor activity			ovary(1)	1					L-Glutamic Acid(DB00142)									0.333333	85.730272	87.939199	30	60	CC		KEEP	---	---	---	---	capture			Missense_Mutation	SNP	34112351	34112351	7078	6	C	T	T	23	23	GRM4	T	1	1
DNAH8	1769	broad.mit.edu	36	6	39065795	39065795	+	Silent	SNP	G	A	A			TCGA-06-0152-01	TCGA-06-0152-01	G	G								Phase_I	Unspecified				Illumina GAIIx	g.chr6:39065795G>A	uc003ooe.1	+	c.12432G>A	c.(12430-12432)CCG>CCA	p.P4144P		NM_001371	NP_001362	Q96JB1	DYH8_HUMAN	dynein, axonemal, heavy polypeptide 8	4144					ciliary or flagellar motility|microtubule-based movement	axonemal dynein complex|cilium axoneme|cytoplasm|microtubule	ATP binding|ATPase activity|microtubule motor activity			ovary(6)|skin(5)|lung(2)|large_intestine(1)|central_nervous_system(1)|kidney(1)|pancreas(1)	17										2979				0.32967	252.765552	259.781888	90	183	GG		KEEP	---	---	---	---	capture			Silent	SNP	39065795	39065795	4790	6	G	A	A	40	40	DNAH8	A	1	1
OPN5	221391	broad.mit.edu	36	6	47871159	47871159	+	Silent	SNP	C	T	T			TCGA-06-0152-01	TCGA-06-0152-01	C	C								Phase_I	Unspecified				Illumina GAIIx	g.chr6:47871159C>T	uc003ozc.1	+	c.657C>T	c.(655-657)TAC>TAT	p.Y219Y	OPN5_uc003ozd.1_Silent_p.Y54Y	NM_181744	NP_001025222	Q6U736	OPN5_HUMAN	opsin 5 isoform 1	219	Cytoplasmic (Potential).				phototransduction|protein-chromophore linkage|visual perception	integral to membrane	G-protein coupled receptor activity|photoreceptor activity			ovary(1)	1						Melanoma(28;740 973 10870 42660 45347)								0.333333	168.836945	173.559833	64	128	CC		KEEP	---	---	---	---	capture			Silent	SNP	47871159	47871159	11289	6	C	T	T	19	19	OPN5	T	1	1
PKHD1	5314	broad.mit.edu	36	6	51997697	51997697	+	Missense_Mutation	SNP	G	A	A			TCGA-06-0152-01	TCGA-06-0152-01	G	G								Phase_I	Unspecified				Illumina GAIIx	g.chr6:51997697G>A	uc003pah.1	-	c.4870C>T	c.(4870-4872)CGG>TGG	p.R1624W	PKHD1_uc003pai.1_Missense_Mutation_p.R1624W	NM_138694	NP_619639	P08F94	PKHD1_HUMAN	fibrocystin isoform 1	1624	Extracellular (Potential).|IPT/TIG 11.		R -> W (in ARPKD).		cell-cell adhesion|cilium assembly|homeostatic process|kidney development|negative regulation of cellular component movement	anchored to external side of plasma membrane|apical plasma membrane|integral to membrane|microtubule basal body	protein binding|receptor activity	p.R1624W(1)		ovary(12)|large_intestine(5)|central_nervous_system(3)	20	Lung NSC(77;0.0605)								p.R1624W(HS934.T-Tumor)	1537				0.38676	338.201084	341.411328	111	176	GG		KEEP	---	---	---	---	capture			Missense_Mutation	SNP	51997697	51997697	12396	6	G	A	A	39	39	PKHD1	A	1	1
OOEP	441161	broad.mit.edu	36	6	74136111	74136111	+	Silent	SNP	C	T	T			TCGA-06-0152-01	TCGA-06-0152-01	C	C								Phase_I	Unspecified				Illumina GAIIx	g.chr6:74136111C>T	uc003pgu.2	-	c.126G>A	c.(124-126)CCG>CCA	p.P42P	OOEP_uc003pgv.2_Intron	NM_001080507	NP_001073976	A6NGQ2	OOEP_HUMAN	oocyte expressed protein homolog	42						cytoplasm					0														0.307292	163.349422	169.709056	59	133	CC		KEEP	---	---	---	---	capture			Silent	SNP	74136111	74136111	11276	6	C	T	T	23	23	OOEP	T	1	1
FILIP1	27145	broad.mit.edu	36	6	76081345	76081345	+	Nonsense_Mutation	SNP	G	T	T			TCGA-06-0152-01	TCGA-06-0152-01	G	G								Phase_I	Unspecified				Illumina GAIIx	g.chr6:76081345G>T	uc010kbe.1	-	c.932C>A	c.(931-933)TCG>TAG	p.S311*	FILIP1_uc003phy.1_Nonsense_Mutation_p.S308*|FILIP1_uc003pia.1_Nonsense_Mutation_p.S308*|FILIP1_uc003phz.1_Nonsense_Mutation_p.S209*|FILIP1_uc003pib.1_Nonsense_Mutation_p.S60*	NM_015687	NP_056502	Q7Z7B0	FLIP1_HUMAN	filamin A interacting protein 1	308	Potential.										0														0.342391	174.331434	178.387389	63	121	GG		KEEP	---	---	---	---	capture			Nonsense_Mutation	SNP	76081345	76081345	6132	6	G	T	T	37	37	FILIP1	T	5	3
UFSP1	402682	broad.mit.edu	36	7	100324771	100324771	+	Missense_Mutation	SNP	C	G	G			TCGA-06-0152-01	TCGA-06-0152-01	C	C								Phase_I	Unspecified				Illumina GAIIx	g.chr7:100324771C>G	uc003uxc.2	-	c.58G>C	c.(58-60)GCC>CCC	p.A20P		NM_001015072	NP_001015072	Q6NVU6	UFSP1_HUMAN	inactive Ufm1-specific protease 1	20											0	Lung NSC(181;0.041)|all_lung(186;0.0581)													0.181818	7.693714	9.781142	4	18	CC		KEEP	---	---	---	---	capture			Missense_Mutation	SNP	100324771	100324771	17495	7	C	G	G	26	26	UFSP1	G	3	3
RELN	5649	broad.mit.edu	36	7	103125586	103125586	+	Missense_Mutation	SNP	C	T	T			TCGA-06-0152-01	TCGA-06-0152-01	C	C								Phase_I	Unspecified				Illumina GAIIx	g.chr7:103125586C>T	uc003vca.1	-	c.1093G>A	c.(1093-1095)GAC>AAC	p.D365N	RELN_uc010liz.1_Missense_Mutation_p.D365N	NM_005045	NP_005036	P78509	RELN_HUMAN	reelin isoform a	365					axon guidance|cell adhesion|cerebral cortex tangential migration|glial cell differentiation|neuron migration|peptidyl-tyrosine phosphorylation|positive regulation of protein kinase activity|positive regulation of small GTPase mediated signal transduction|response to pain|spinal cord patterning	cytoplasm|dendrite|extracellular space|proteinaceous extracellular matrix	metal ion binding|protein serine/threonine/tyrosine kinase activity|serine-type peptidase activity			ovary(8)|large_intestine(2)|central_nervous_system(2)|pancreas(1)|skin(1)	14						NSCLC(146;835 1944 15585 22231 52158)								0.183761	88.080348	110.045838	43	191	CC		KEEP	---	---	---	---	capture		COAD - Colon adenocarcinoma(1;8.98e-05)|Colorectal(1;0.00184)	Missense_Mutation	SNP	103125586	103125586	13689	7	C	T	T	31	31	RELN	T	1	1
KEL	3792	broad.mit.edu	36	7	142365148	142365148	+	Missense_Mutation	SNP	G	T	T			TCGA-06-0152-01	TCGA-06-0152-01	G	G								Phase_I	Unspecified				Illumina GAIIx	g.chr7:142365148G>T	uc003wcb.1	-	c.560C>A	c.(559-561)TCC>TAC	p.S187Y		NM_000420	NP_000411	P23276	KELL_HUMAN	Kell blood group, metallo-endopeptidase	187	Extracellular (Potential).				proteolysis|vasoconstriction	integral to membrane|plasma membrane	metal ion binding|metalloendopeptidase activity|protein binding			ovary(3)|central_nervous_system(1)	4	Melanoma(164;0.059)													0.337079	75.113176	77.207243	30	59	GG		KEEP	---	---	---	---	capture			Missense_Mutation	SNP	142365148	142365148	8448	7	G	T	T	41	41	KEL	T	3	3
CLCN1	1180	broad.mit.edu	36	7	142746523	142746523	+	Missense_Mutation	SNP	C	G	G			TCGA-06-0152-01	TCGA-06-0152-01	C	C								Phase_I	Unspecified				Illumina GAIIx	g.chr7:142746523C>G	uc003wcr.1	+	c.1457C>G	c.(1456-1458)CCT>CGT	p.P486R		NM_000083	NP_000074	P35523	CLCN1_HUMAN	chloride channel 1, skeletal muscle	486	Helical; (By similarity).|Selectivity filter part_3 (By similarity).				muscle contraction	chloride channel complex|integral to plasma membrane	voltage-gated chloride channel activity			ovary(1)|breast(1)|central_nervous_system(1)	3	Melanoma(164;0.205)													0.139759	98.131011	150.209678	58	357	CC		KEEP	---	---	---	---	capture			Missense_Mutation	SNP	142746523	142746523	3598	7	C	G	G	24	24	CLCN1	G	3	3
PLEC	5339	broad.mit.edu	36	8	145069753	145069753	+	Missense_Mutation	SNP	A	C	C			TCGA-06-0152-01	TCGA-06-0152-01	A	A								Phase_I	Unspecified				Illumina GAIIx	g.chr8:145069753A>C	uc003zaf.1	-	c.6743T>G	c.(6742-6744)GTG>GGG	p.V2248G	PLEC_uc003zag.1_Missense_Mutation_p.V2089G|PLEC_uc003zah.1_Missense_Mutation_p.V2097G|PLEC_uc003zai.1_Missense_Mutation_p.V2138G|PLEC_uc003zaj.1_Missense_Mutation_p.V2138G|PLEC_uc003zab.1_Missense_Mutation_p.V2111G|PLEC_uc003zac.1_Missense_Mutation_p.V2115G|PLEC_uc003zad.1_Missense_Mutation_p.V2111G|PLEC_uc003zae.1_Missense_Mutation_p.V2079G	NM_201380	NP_958782	Q15149	PLEC_HUMAN	plectin 1 isoform 6	2248	Central fibrous rod domain.|Potential.				cellular component disassembly involved in apoptosis|hemidesmosome assembly	cytosol|focal adhesion|intermediate filament cytoskeleton|sarcolemma	actin binding|structural constituent of muscle|structural constituent of muscle			large_intestine(2)|ovary(2)|pancreas(2)|central_nervous_system(1)	7														0.3125	7.83497	8.357213	5	11	AA		KEEP	---	---	---	---	capture			Missense_Mutation	SNP	145069753	145069753	12478	8	A	C	C	6	6	PLEC	C	4	4
ARHGEF10	9639	broad.mit.edu	36	8	1793675	1793675	+	Silent	SNP	C	A	A			TCGA-06-0152-01	TCGA-06-0152-01	C	C								Phase_I	Unspecified				Illumina GAIIx	g.chr8:1793675C>A	uc003wpr.1	+	c.180C>A	c.(178-180)GCC>GCA	p.A60A	ARHGEF10_uc003wpq.1_Silent_p.A84A|ARHGEF10_uc003wps.1_Silent_p.A60A|ARHGEF10_uc003wpt.2_5'Flank|ARHGEF10_uc010lrd.1_5'Flank|ARHGEF10_uc003wpu.2_5'Flank	NM_014629	NP_055444	O15013	ARHGA_HUMAN	Rho guanine nucleotide exchange factor 10	84					regulation of Rho protein signal transduction	intracellular	Rho guanyl-nucleotide exchange factor activity			large_intestine(1)	1		Colorectal(14;3.46e-05)|Renal(68;0.000518)|Ovarian(12;0.00409)|Myeloproliferative disorder(644;0.0255)|Hepatocellular(245;0.0834)								2844				0.219512	17.26991	20.232269	9	32	CC		KEEP	---	---	---	---	capture		COAD - Colon adenocarcinoma(149;1.62e-05)|BRCA - Breast invasive adenocarcinoma(11;1.68e-05)|KIRC - Kidney renal clear cell carcinoma(542;0.00361)|READ - Rectum adenocarcinoma(644;0.0718)	Silent	SNP	1793675	1793675	908	8	C	A	A	22	22	ARHGEF10	A	3	3
TRIM55	84675	broad.mit.edu	36	8	67224647	67224647	+	Nonsense_Mutation	SNP	G	T	T			TCGA-06-0152-01	TCGA-06-0152-01	G	G								Phase_I	Unspecified				Illumina GAIIx	g.chr8:67224647G>T	uc003xvv.1	+	c.817G>T	c.(817-819)GAA>TAA	p.E273*	TRIM55_uc003xvu.1_Nonsense_Mutation_p.E273*|TRIM55_uc003xvw.1_Nonsense_Mutation_p.E273*|TRIM55_uc003xvx.1_Intron	NM_184085	NP_908973	Q9BYV6	TRI55_HUMAN	tripartite motif-containing 55 isoform 1	273	COS.					cytoplasm|microtubule|nucleus	signal transducer activity|zinc ion binding			ovary(1)|central_nervous_system(1)|skin(1)	3		Lung NSC(129;0.138)|all_lung(136;0.221)												0.455357	146.805788	147.000963	51	61	GG		KEEP	---	---	---	---	capture	Epithelial(68;0.0136)|all cancers(69;0.0582)|BRCA - Breast invasive adenocarcinoma(89;0.0628)|OV - Ovarian serous cystadenocarcinoma(28;0.0904)		Nonsense_Mutation	SNP	67224647	67224647	17075	8	G	T	T	33	33	TRIM55	T	5	3
RRS1	23212	broad.mit.edu	36	8	67504344	67504344	+	Missense_Mutation	SNP	C	G	G			TCGA-06-0152-01	TCGA-06-0152-01	C	C								Phase_I	Unspecified				Illumina GAIIx	g.chr8:67504344C>G	uc003xwa.1	+	c.424C>G	c.(424-426)CGG>GGG	p.R142G	ADHFE1_uc003xwb.2_5'Flank|ADHFE1_uc003xwd.2_5'Flank|ADHFE1_uc003xwe.2_5'Flank|ADHFE1_uc003xwc.2_5'Flank|ADHFE1_uc003xwf.2_5'Flank	NM_015169	NP_055984	Q15050	RRS1_HUMAN	homolog of yeast ribosome biogenesis regulatory	142					mitotic metaphase plate congression|ribosome biogenesis	condensed nuclear chromosome|nucleolus					0		Lung NSC(129;0.197)												0.357143	8.020912	8.29301	5	9	CC		KEEP	---	---	---	---	capture	Epithelial(68;0.0391)|all cancers(69;0.0898)|BRCA - Breast invasive adenocarcinoma(89;0.111)|OV - Ovarian serous cystadenocarcinoma(28;0.226)		Missense_Mutation	SNP	67504344	67504344	14172	8	C	G	G	27	27	RRS1	G	3	3
SOHLH1	402381	broad.mit.edu	36	9	137726728	137726728	+	Silent	SNP	C	T	T			TCGA-06-0152-01	TCGA-06-0152-01	C	C								Phase_I	Unspecified				Illumina GAIIx	g.chr9:137726728C>T	uc010nbe.1	-	c.864G>A	c.(862-864)GCG>GCA	p.A288A	SOHLH1_uc004cgl.1_Silent_p.A288A	NM_001101677	NP_001095147	Q5JUK2	SOLH1_HUMAN	spermatogenesis and oogenesis specific basic	288					cell differentiation|multicellular organismal development|oogenesis|regulation of transcription, DNA-dependent|spermatogenesis|transcription, DNA-dependent	cytoplasm|nucleus	DNA binding|transcription regulator activity			breast(1)|central_nervous_system(1)	2		Myeloproliferative disorder(178;0.0511)												0.315789	14.942426	15.51633	6	13	CC		KEEP	---	---	---	---	capture		OV - Ovarian serous cystadenocarcinoma(145;1.66e-07)|Epithelial(140;1.11e-06)|all cancers(34;6.45e-05)	Silent	SNP	137726728	137726728	15423	9	C	T	T	27	27	SOHLH1	T	1	1
PGM5	5239	broad.mit.edu	36	9	70269909	70269909	+	Missense_Mutation	SNP	G	A	A			TCGA-06-0152-01	TCGA-06-0152-01	G	G								Phase_I	Unspecified				Illumina GAIIx	g.chr9:70269909G>A	uc004agr.1	+	c.1124G>A	c.(1123-1125)CGT>CAT	p.R375H		NM_021965	NP_068800	Q15124	PGM5_HUMAN	phosphoglucomutase 5	375					cell adhesion|cellular calcium ion homeostasis|glucose metabolic process	costamere|dystrophin-associated glycoprotein complex|focal adhesion|intercalated disc|internal side of plasma membrane|sarcolemma|spot adherens junction|stress fiber|Z disc	intramolecular transferase activity, phosphotransferases|magnesium ion binding|structural molecule activity			ovary(1)|pancreas(1)	2														0.348485	258.619514	263.968554	92	172	GG		KEEP	---	---	---	---	capture			Missense_Mutation	SNP	70269909	70269909	12224	9	G	A	A	40	40	PGM5	A	1	1
GPR101	83550	broad.mit.edu	36	X	135941201	135941201	+	Missense_Mutation	SNP	T	G	G			TCGA-06-0152-01	TCGA-06-0152-01	T	T								Phase_I	Unspecified				Illumina GAIIx	g.chrX:135941201T>G	uc004faj.1	-	c.299A>C	c.(298-300)AAC>ACC	p.N100T		NM_054021	NP_473362	Q96P66	GP101_HUMAN	G protein-coupled receptor 101	100	Extracellular (Potential).					integral to membrane|plasma membrane	G-protein coupled receptor activity			ovary(3)|lung(1)	4	Acute lymphoblastic leukemia(192;0.000127)													0.294118	7.708527	8.396017	5	12	TT		KEEP	---	---	---	---	capture			Missense_Mutation	SNP	135941201	135941201	6896	23	T	G	G	60	60	GPR101	G	4	4
SLC27A1	376497	broad.mit.edu	36	19	17442407	17442408	+	Frame_Shift_Del	DEL	CT	-	-			TCGA-06-0152-01	TCGA-06-0152-01										Phase_I	Unspecified				Illumina GAIIx	g.chr19:17442407_17442408delCT	uc002ngu.1	+	c.58_59delCT	c.(58-60)CTGfs	p.L20fs	SLC27A1_uc002ngt.1_5'UTR	NM_198580	NP_940982	Q6PCB7	S27A1_HUMAN	solute carrier family 27, member 1	20	Helical; (Potential).				cardiolipin biosynthetic process|fatty acid metabolic process|long-chain fatty acid transport|negative regulation of phospholipid biosynthetic process|phosphatidic acid biosynthetic process|phosphatidylcholine biosynthetic process|phosphatidylethanolamine biosynthetic process|phosphatidylinositol biosynthetic process|phosphatidylserine biosynthetic process|transmembrane transport	endomembrane system|integral to membrane	fatty acid transporter activity|nucleotide binding				0														0.47			7	8				---	---	---	---	capture_indel			Frame_Shift_Del	DEL	17442407	17442408	15022	19	CT	-	-	28	28	SLC27A1	-	5	5
HMCN1	83872	broad.mit.edu	36	1	184284567	184284568	+	Frame_Shift_Ins	INS	-	A	A			TCGA-06-0152-01	TCGA-06-0152-01										Phase_I	Unspecified				Illumina GAIIx	g.chr1:184284567_184284568insA	uc001grq.1	+	c.6550_6551insA	c.(6550-6552)GAAfs	p.E2184fs		NM_031935	NP_114141	Q96RW7	HMCN1_HUMAN	hemicentin 1	2184	Ig-like C2-type 19.			E -> EK (in Ref. 1).	bioluminescence|protein-chromophore linkage|response to stimulus|visual perception	basement membrane	calcium ion binding			ovary(22)	22														0.53			59	53				---	---	---	---	capture_indel			Frame_Shift_Ins	INS	184284567	184284568	7511	1	-	A	A	45	45	HMCN1	A	5	5
DIMT1L	27292	broad.mit.edu	36	5	61722462	61722462	+	Frame_Shift_Del	DEL	G	-	-			TCGA-06-0152-01	TCGA-06-0152-01										Phase_I	Unspecified				Illumina GAIIx	g.chr5:61722462_61722462delG	uc003jta.1	-	c.897_897delC	c.(895-897)ATCfs	p.I299fs		NM_014473	NP_055288	Q9UNQ2	DIMT1_HUMAN	dimethyladenosine transferase	299				Missing (in Ref. 2; AAH02841).		nucleolus	RNA binding|rRNA (adenine-N6,N6-)-dimethyltransferase activity			central_nervous_system(1)	1		Lung NSC(810;8.94e-06)|Prostate(74;0.0235)|Ovarian(174;0.051)|Breast(144;0.077)		Lung(70;0.122)										0.38			93	153				---	---	---	---	capture_indel			Frame_Shift_Del	DEL	61722462	61722462	4702	5	G	-	-	45	45	DIMT1L	-	5	5
GOLGA2	2801	broad.mit.edu	36	9	130060640	130060642	+	In_Frame_Del	DEL	TCC	-	-			TCGA-06-0152-01	TCGA-06-0152-01										Phase_I	Unspecified				Illumina GAIIx	g.chr9:130060640_130060642delTCC	uc004bug.1	-	c.2085_2087delGGA	c.(2083-2088)GAGGAT>GAT	p.E695del	GOLGA2_uc010mxw.1_Intron|GOLGA2_uc004buh.1_In_Frame_Del_p.E180del	NM_004486	NP_004477	Q08379	GOGA2_HUMAN	Golgi autoantigen, golgin subfamily a, 2	707	Potential.|Poly-Glu.					Golgi cisterna membrane	protein binding			ovary(1)	1														0.33			3	6				---	---	---	---	capture_indel			In_Frame_Del	DEL	130060640	130060642	6821	9	TCC	-	-	50	50	GOLGA2	-	5	5
