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
TCF7L2	6934	broad.mit.edu	36	10	114700581	114700581	+	Missense_Mutation	SNP	G	C	C			TCGA-14-1453-01	TCGA-14-1453-01	G	G								Phase_I	Unspecified				Illumina GAIIx	g.chr10:114700581G>C	uc001lae.2	+	c.76G>C	c.(76-78)GAA>CAA	p.E26Q	TCF7L2_uc001lac.2_Missense_Mutation_p.E26Q|TCF7L2_uc001lag.2_Missense_Mutation_p.E26Q|TCF7L2_uc001lad.2_Missense_Mutation_p.E26Q|TCF7L2_uc001laf.2_Missense_Mutation_p.E26Q	NM_030756	NP_110383	Q9NQB0	TF7L2_HUMAN	transcription factor 7-like 2	26	CTNNB1-binding (By similarity).			E->A: Abolishes CTNNB1 binding; when associated with A-24; A-28 and A-29.	anti-apoptosis|blood vessel development|canonical Wnt receptor signaling pathway involved in positive regulation of epithelial to mesenchymal transition|cell cycle arrest|cell proliferation|fat cell differentiation|glucose homeostasis|maintenance of DNA repeat elements|myoblast cell fate commitment|negative regulation of canonical Wnt receptor signaling pathway|negative regulation of gene-specific transcription from RNA polymerase II promoter|negative regulation of sequence-specific DNA binding transcription factor activity|pancreas development|positive regulation of gene-specific transcription from RNA polymerase II promoter|positive regulation of heparan sulfate proteoglycan biosynthetic process|positive regulation of insulin secretion|positive regulation of protein binding|positive regulation of protein export from nucleus|positive regulation of protein kinase B signaling cascade|regulation of hormone metabolic process|regulation of smooth muscle cell proliferation|response to glucose stimulus	beta-catenin-TCF7L2 complex|PML body|protein-DNA complex	armadillo repeat domain binding|beta-catenin binding|gamma-catenin binding|nuclear hormone receptor binding|promoter binding|protein kinase binding|RNA polymerase II transcription factor activity|sequence-specific DNA binding transcription factor activity|specific transcriptional repressor activity|transcription factor binding			large_intestine(3)|ovary(1)	4		Breast(234;0.058)|Colorectal(252;0.0615)		Epithelial(162;0.00554)|all cancers(201;0.02)										0.8	120.424802	123.776022	32	8	GG		KEEP	---	---	---	---	capture			Missense_Mutation	SNP	114700581	114700581	16224	10	G	C	C	37	37	TCF7L2	C	3	3
UCMA	221044	broad.mit.edu	36	10	13304123	13304123	+	Missense_Mutation	SNP	G	C	C			TCGA-14-1453-01	TCGA-14-1453-01	G	G								Phase_I	Unspecified				Illumina GAIIx	g.chr10:13304123G>C	uc001imd.1	-	c.403C>G	c.(403-405)CGC>GGC	p.R135G		NM_145314	NP_660357	Q8WVF2	UCMA_HUMAN	chromosome 10 open reading frame 49	135						proteinaceous extracellular matrix					0														0.88	158.833444	165.915161	44	6	GG		KEEP	---	---	---	---	capture			Missense_Mutation	SNP	13304123	13304123	17484	10	G	C	C	39	39	UCMA	C	3	3
HTR3B	9177	broad.mit.edu	36	11	113318958	113318958	+	Silent	SNP	G	C	C			TCGA-14-1453-01	TCGA-14-1453-01	G	G								Phase_I	Unspecified				Illumina GAIIx	g.chr11:113318958G>C	uc001pok.1	+	c.741G>C	c.(739-741)CTG>CTC	p.L247L	HTR3B_uc001pol.1_Silent_p.L236L	NM_006028	NP_006019	O95264	5HT3B_HUMAN	5-hydroxytryptamine (serotonin) receptor 3B	247	Helical; Name=1; (Potential).				synaptic transmission	integral to plasma membrane|postsynaptic membrane	serotonin receptor activity|serotonin-activated cation-selective channel activity				0		all_cancers(61;6.81e-18)|all_epithelial(67;6.67e-11)|all_hematologic(158;4.67e-05)|Melanoma(852;0.000316)|Acute lymphoblastic leukemia(157;0.000976)|Breast(348;0.0101)|Prostate(24;0.0154)|all_neural(223;0.0281)|Medulloblastoma(222;0.0425)		BRCA - Breast invasive adenocarcinoma(274;3.04e-06)|Epithelial(105;1.98e-05)|all cancers(92;0.000201)|OV - Ovarian serous cystadenocarcinoma(223;0.151)										0.415094	220.720954	221.722025	66	93	GG		KEEP	---	---	---	---	capture			Silent	SNP	113318958	113318958	7745	11	G	C	C	45	45	HTR3B	C	3	3
COPB1	1315	broad.mit.edu	36	11	14457838	14457838	+	Splice_Site_SNP	SNP	T	A	A			TCGA-14-1453-01	TCGA-14-1453-01	T	T								Phase_I	Unspecified				Illumina GAIIx	g.chr11:14457838T>A	uc001mlg.1	-	c.e11_splice_site			COPB1_uc001mlh.1_Splice_Site_SNP|COPB1_uc001mli.1_Splice_Site_SNP	NM_016451	NP_057535			coatomer protein complex, subunit beta 1						COPI coating of Golgi vesicle|interspecies interaction between organisms|intra-Golgi vesicle-mediated transport|intracellular protein transport|retrograde vesicle-mediated transport, Golgi to ER	COPI vesicle coat|cytosol	protein binding|structural molecule activity			ovary(1)|central_nervous_system(1)	2														0.227273	9.156679	10.595817	5	17	TT		KEEP	---	---	---	---	capture			Splice_Site_SNP	SNP	14457838	14457838	3866	11	T	A	A	53	53	COPB1	A	5	4
ZNF215	7762	broad.mit.edu	36	11	6933970	6933970	+	Nonsense_Mutation	SNP	C	T	T			TCGA-14-1453-01	TCGA-14-1453-01	C	C								Phase_I	Unspecified				Illumina GAIIx	g.chr11:6933970C>T	uc001mey.1	+	c.1186C>T	c.(1186-1188)CGA>TGA	p.R396*	ZNF215_uc001mez.1_Intron	NM_013250	NP_037382	Q9UL58	ZN215_HUMAN	zinc finger protein 215	396	C2H2-type 1.				regulation of transcription, DNA-dependent|viral reproduction	nucleus	DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding				0				Epithelial(150;6.33e-08)|BRCA - Breast invasive adenocarcinoma(625;0.134)										0.642857	122.414967	123.421674	36	20	CC		KEEP	---	---	---	---	capture			Nonsense_Mutation	SNP	6933970	6933970	18362	11	C	T	T	31	31	ZNF215	T	5	1
ATXN2	6311	broad.mit.edu	36	12	110440549	110440549	+	Missense_Mutation	SNP	T	C	C			TCGA-14-1453-01	TCGA-14-1453-01	T	T								Phase_I	Unspecified				Illumina GAIIx	g.chr12:110440549T>C	uc001tsj.1	-	c.1532A>G	c.(1531-1533)CAG>CGG	p.Q511R	ATXN2_uc001tsh.1_Missense_Mutation_p.Q246R|ATXN2_uc001tsi.1_Missense_Mutation_p.Q222R|ATXN2_uc001tsk.1_Non-coding_Transcript|ATXN2_uc001tsm.1_Missense_Mutation_p.Q246R	NM_002973	NP_002964	Q99700	ATX2_HUMAN	ataxin 2	511					cell death|cytoplasmic mRNA processing body assembly|regulation of translation|RNA metabolic process|RNA transport|stress granule assembly	nucleus|perinuclear region of cytoplasm|polysome|stress granule|trans-Golgi network	protein C-terminus binding|RNA binding			ovary(1)|breast(1)	2														0.352941	84.12604	85.746206	30	55	TT		KEEP	---	---	---	---	capture			Missense_Mutation	SNP	110440549	110440549	1231	12	T	C	C	55	55	ATXN2	C	4	4
CLEC6A	93978	broad.mit.edu	36	12	8503487	8503487	+	Missense_Mutation	SNP	C	T	T			TCGA-14-1453-01	TCGA-14-1453-01	C	C								Phase_I	Unspecified				Illumina GAIIx	g.chr12:8503487C>T	uc001qum.1	+	c.149C>T	c.(148-150)ACT>ATT	p.T50I		NM_001007033	NP_001007034	Q6EIG7	CLC6A_HUMAN	dectin-2	50	Extracellular (Potential).				defense response to fungus|innate immune response|positive regulation of cytokine secretion|positive regulation of I-kappaB kinase/NF-kappaB cascade	integral to membrane	sugar binding			breast(1)	1	Lung SC(5;0.184)													0.451807	235.109883	235.444709	75	91	CC		KEEP	---	---	---	---	capture			Missense_Mutation	SNP	8503487	8503487	3658	12	C	T	T	20	20	CLEC6A	T	2	2
NALCN	259232	broad.mit.edu	36	13	100827334	100827334	+	Missense_Mutation	SNP	C	T	T			TCGA-14-1453-01	TCGA-14-1453-01	C	C								Phase_I	Unspecified				Illumina GAIIx	g.chr13:100827334C>T	uc001vox.1	-	c.450G>A	c.(448-450)ATG>ATA	p.M150I	NALCN_uc001voy.2_5'UTR|NALCN_uc001voz.1_Missense_Mutation_p.M150I|NALCN_uc001vpa.1_Missense_Mutation_p.M150I	NM_052867	NP_443099	Q8IZF0	NALCN_HUMAN	voltage gated channel like 1	150	Helical; Voltage-sensor; Name=S4 of repeat I; (Potential).					integral to membrane	sodium channel activity|voltage-gated ion channel activity			ovary(8)|breast(4)|central_nervous_system(1)|pancreas(1)	14	all_neural(89;0.0438)|Medulloblastoma(90;0.163)|Lung SC(71;0.184)													0.439394	81.747292	81.9612	29	37	CC		KEEP	---	---	---	---	capture			Missense_Mutation	SNP	100827334	100827334	10544	13	C	T	T	29	29	NALCN	T	2	2
ATP10A	57194	broad.mit.edu	36	15	23577288	23577288	+	Missense_Mutation	SNP	G	A	A			TCGA-14-1453-01	TCGA-14-1453-01	G	G								Phase_I	Unspecified				Illumina GAIIx	g.chr15:23577288G>A	uc010ayu.1	-	c.625C>T	c.(625-627)CGG>TGG	p.R209W		NM_024490	NP_077816	O60312	AT10A_HUMAN	ATPase, class V, type 10A	209	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)						877				0.40625	40.869819	41.115266	13	19	GG		KEEP	---	---	---	---	capture			Missense_Mutation	SNP	23577288	23577288	1135	15	G	A	A	38	38	ATP10A	A	1	1
TGM5	9333	broad.mit.edu	36	15	41314393	41314393	+	Missense_Mutation	SNP	A	C	C			TCGA-14-1453-01	TCGA-14-1453-01	A	A								Phase_I	Unspecified				Illumina GAIIx	g.chr15:41314393A>C	uc001zrd.1	-	c.1741T>G	c.(1741-1743)TAT>GAT	p.Y581D	TGM5_uc001zrc.1_Missense_Mutation_p.Y238D|TGM5_uc001zre.1_Missense_Mutation_p.Y499D	NM_201631	NP_963925	O43548	TGM5_HUMAN	transglutaminase 5 isoform 1	581					epidermis development|peptide cross-linking	cytoplasm	acyltransferase activity|metal ion binding|protein-glutamine gamma-glutamyltransferase activity			central_nervous_system(1)	1		all_cancers(109;1.37e-14)|all_epithelial(112;1.26e-12)|Lung NSC(122;2.46e-08)|all_lung(180;2.75e-07)|Melanoma(134;0.0476)|Colorectal(260;0.216)		GBM - Glioblastoma multiforme(94;4e-07)	L-Glutamine(DB00130)									0.5	155.244875	155.244875	50	50	AA		KEEP	---	---	---	---	capture			Missense_Mutation	SNP	41314393	41314393	16361	15	A	C	C	15	15	TGM5	C	4	4
SV2B	9899	broad.mit.edu	36	15	89612778	89612778	+	Missense_Mutation	SNP	G	A	A			TCGA-14-1453-01	TCGA-14-1453-01	G	G								Phase_I	Unspecified				Illumina GAIIx	g.chr15:89612778G>A	uc002bqv.1	+	c.1312G>A	c.(1312-1314)GCC>ACC	p.A438T	SV2B_uc002bqt.1_Missense_Mutation_p.A438T|SV2B_uc002bqu.2_Non-coding_Transcript	NM_014848	NP_055663	Q7L1I2	SV2B_HUMAN	synaptic vesicle protein 2B homolog	438	Extracellular (Potential).				neurotransmitter transport|transmembrane transport	acrosomal vesicle|cell junction|integral to membrane|synaptic vesicle membrane	transporter activity			ovary(3)|central_nervous_system(2)	5	Lung NSC(78;0.0987)|all_lung(78;0.172)		BRCA - Breast invasive adenocarcinoma(143;0.0895)											0.463466	710.496707	711.053785	222	257	GG		KEEP	---	---	---	---	capture			Missense_Mutation	SNP	89612778	89612778	15938	15	G	A	A	38	38	SV2B	A	1	1
MYH11	4629	broad.mit.edu	36	16	15765173	15765173	+	Silent	SNP	C	T	T			TCGA-14-1453-01	TCGA-14-1453-01	C	C								Phase_I	Unspecified				Illumina GAIIx	g.chr16:15765173C>T	uc002ddx.1	-	c.1131G>A	c.(1129-1131)GCG>GCA	p.A377A	MYH11_uc002ddv.1_Silent_p.A377A|MYH11_uc002ddw.1_Silent_p.A370A|MYH11_uc002ddy.1_Silent_p.A370A|MYH11_uc010bvg.1_Silent_p.A202A|MYH11_uc002dea.1_Silent_p.A76A	NM_001040114	NP_001035203	P35749	MYH11_HUMAN	smooth muscle myosin heavy chain 11 isoform	370	Myosin head-like.				axon guidance|cardiac muscle fiber development|elastic fiber assembly|skeletal muscle myosin thick filament assembly|smooth muscle contraction	cytosol|melanosome|muscle myosin complex|myosin filament	actin binding|ATP binding|calmodulin binding|motor activity|structural constituent of muscle			ovary(4)|skin(2)|lung(1)	7										1257				0.360231	370.966065	376.939051	125	222	CC		KEEP	---	---	---	---	capture			Silent	SNP	15765173	15765173	10426	16	C	T	T	19	19	MYH11	T	1	1
MYLPF	29895	broad.mit.edu	36	16	30294991	30294991	+	Missense_Mutation	SNP	C	T	T			TCGA-14-1453-01	TCGA-14-1453-01	C	C								Phase_I	Unspecified				Illumina GAIIx	g.chr16:30294991C>T	uc002dxv.1	+	c.121C>T	c.(121-123)CGT>TGT	p.R41C		NM_013292	NP_037424	Q96A32	MLRS_HUMAN	myosin light chain 2	41	|EF-hand 1.				skeletal muscle tissue development	muscle myosin complex	calcium ion binding|motor activity|structural constituent of muscle				0			Colorectal(24;0.193)											0.416667	31.946023	32.091448	10	14	CC		KEEP	---	---	---	---	capture			Missense_Mutation	SNP	30294991	30294991	10455	16	C	T	T	23	23	MYLPF	T	1	1
CREBBP	1387	broad.mit.edu	36	16	3728618	3728618	+	Missense_Mutation	SNP	C	T	T			TCGA-14-1453-01	TCGA-14-1453-01	C	C								Phase_I	Unspecified				Illumina GAIIx	g.chr16:3728618C>T	uc002cvv.1	-	c.4337G>A	c.(4336-4338)CGC>CAC	p.R1446H	CREBBP_uc002cvw.1_Missense_Mutation_p.R1408H	NM_004380	NP_004371	Q92793	CBP_HUMAN	CREB binding protein isoform a	1446	Cys/His-rich.				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			ovary(6)|skin(2)|pancreas(1)|lung(1)	10		Ovarian(90;0.0266)		OV - Ovarian serous cystadenocarcinoma(1;3.54e-05)					p.R1446H(SNU81-Tumor)|p.R1446L(NUDHL1-Tumor)	748				0.367647	78.792043	79.825056	25	43	CC		KEEP	---	---	---	---	capture			Missense_Mutation	SNP	3728618	3728618	4000	16	C	T	T	27	27	CREBBP	T	1	1
KARS	3735	broad.mit.edu	36	16	74227183	74227183	+	Missense_Mutation	SNP	A	G	G			TCGA-14-1453-01	TCGA-14-1453-01	A	A								Phase_I	Unspecified				Illumina GAIIx	g.chr16:74227183A>G	uc002fer.1	-	c.775T>C	c.(775-777)TAC>CAC	p.Y259H	KARS_uc002feq.1_Missense_Mutation_p.Y231H|KARS_uc002fes.1_Missense_Mutation_p.Y75H|KARS_uc010cgz.1_Missense_Mutation_p.Y75H	NM_005548	NP_005539	Q15046	SYK_HUMAN	lysyl-tRNA synthetase isoform 2	231					interspecies interaction between organisms|lysyl-tRNA aminoacylation|tRNA processing	cytosol|extracellular region|mitochondrial matrix|nucleus|plasma membrane|soluble fraction	ATP binding|lysine-tRNA ligase activity|metal ion binding|tRNA binding			ovary(2)	2					L-Lysine(DB00123)									0.268116	108.617081	115.313498	37	101	AA		KEEP	---	---	---	---	capture			Missense_Mutation	SNP	74227183	74227183	8284	16	A	G	G	16	16	KARS	G	4	4
FMNL1	752	broad.mit.edu	36	17	40666399	40666399	+	Missense_Mutation	SNP	C	T	T			TCGA-14-1453-01	TCGA-14-1453-01	C	C								Phase_I	Unspecified				Illumina GAIIx	g.chr17:40666399C>T	uc002iin.1	+	c.353C>T	c.(352-354)ACG>ATG	p.T118M	FMNL1_uc002iio.2_Missense_Mutation_p.T63M|FMNL1_uc002iip.1_Missense_Mutation_p.T112M	NM_005892	NP_005883	O95466	FMNL_HUMAN	formin-like 1	118	GBD/FH3.				actin cytoskeleton organization		actin binding|Rho GTPase binding			pancreas(1)	1						GBM(164;1247 1997 8702 11086 51972)								0.892857	86.695035	90.982116	25	3	CC		KEEP	---	---	---	---	capture			Missense_Mutation	SNP	40666399	40666399	6193	17	C	T	T	19	19	FMNL1	T	1	1
C17orf47	284083	broad.mit.edu	36	17	53974251	53974251	+	Missense_Mutation	SNP	C	G	G			TCGA-14-1453-01	TCGA-14-1453-01	C	C								Phase_I	Unspecified				Illumina GAIIx	g.chr17:53974251C>G	uc002iwq.1	-	c.1637G>C	c.(1636-1638)TGT>TCT	p.C546S		NM_001038704	NP_001033793	Q8NEP4	CQ047_HUMAN	hypothetical protein LOC284083	546										breast(1)	1	Medulloblastoma(34;0.127)|all_neural(34;0.237)													0.978261	347.960034	352.331806	90	2	CC		KEEP	---	---	---	---	capture			Missense_Mutation	SNP	53974251	53974251	1914	17	C	G	G	17	17	C17orf47	G	3	3
BPTF	2186	broad.mit.edu	36	17	63374736	63374736	+	Missense_Mutation	SNP	G	A	A			TCGA-14-1453-01	TCGA-14-1453-01	G	G								Phase_I	Unspecified				Illumina GAIIx	g.chr17:63374736G>A	uc002jgf.1	+	c.7778G>A	c.(7777-7779)CGG>CAG	p.R2593Q	BPTF_uc002jge.1_Missense_Mutation_p.R2576Q|BPTF_uc002jgg.1_Missense_Mutation_p.R250Q|BPTF_uc002jgh.2_Missense_Mutation_p.R52Q	NM_182641	NP_872579	Q12830	BPTF_HUMAN	bromodomain PHD finger transcription factor	2719	Potential.				brain development|chromatin remodeling|negative regulation of transcription from RNA polymerase II promoter|positive regulation of gene-specific transcription|transcription, DNA-dependent	cytoplasm|NURF complex	sequence-specific DNA binding|transcription factor binding|transcription regulator activity|zinc ion binding			ovary(2)	2	all_cancers(12;6e-11)		BRCA - Breast invasive adenocarcinoma(8;7.48e-08)|Colorectal(3;0.0984)|LUSC - Lung squamous cell carcinoma(166;0.24)											0.95	67.787129	69.83553	19	1	GG		KEEP	---	---	---	---	capture			Missense_Mutation	SNP	63374736	63374736	1523	17	G	A	A	39	39	BPTF	A	1	1
ZNF208	7757	broad.mit.edu	36	19	21946305	21946305	+	Missense_Mutation	SNP	G	A	A			TCGA-14-1453-01	TCGA-14-1453-01	G	G								Phase_I	Unspecified				Illumina GAIIx	g.chr19:21946305G>A	uc002nqp.1	-	c.2987C>T	c.(2986-2988)ACG>ATG	p.T996M	ZNF208_uc002nqo.1_Intron	NM_007153	NP_009084			zinc finger protein 208											ovary(5)	5		all_lung(12;0.0961)|Lung NSC(12;0.103)												0.425	52.769061	52.965204	17	23	GG		KEEP	---	---	---	---	capture			Missense_Mutation	SNP	21946305	21946305	18357	19	G	A	A	40	40	ZNF208	A	1	1
PLEKHG2	64857	broad.mit.edu	36	19	44597845	44597845	+	Silent	SNP	C	T	T			TCGA-14-1453-01	TCGA-14-1453-01	C	C								Phase_I	Unspecified				Illumina GAIIx	g.chr19:44597845C>T	uc002oli.2	+	c.279C>T	c.(277-279)GGC>GGT	p.G93G	PLEKHG2_uc002olj.2_Silent_p.G135G|PLEKHG2_uc010ego.1_Silent_p.G93G	NM_022835	NP_073746	Q9H7P9	PKHG2_HUMAN	common-site lymphoma/leukemia guanine nucleotide	135	DH.				apoptosis|induction of apoptosis by extracellular signals|nerve growth factor receptor signaling pathway|regulation of Rho protein signal transduction|small GTPase mediated signal transduction	cytosol	Rho guanyl-nucleotide exchange factor activity			pancreas(1)|breast(1)|skin(1)	3	all_cancers(60;3.08e-07)|all_lung(34;2.66e-08)|Lung NSC(34;3e-08)|all_epithelial(25;6.57e-07)|Ovarian(47;0.0569)		Epithelial(26;2.92e-26)|all cancers(26;2.01e-23)|Lung(45;0.000499)|LUSC - Lung squamous cell carcinoma(53;0.000657)											0.571429	25.600492	25.662566	8	6	CC		KEEP	---	---	---	---	capture			Silent	SNP	44597845	44597845	12495	19	C	T	T	27	27	PLEKHG2	T	1	1
ZNF699	374879	broad.mit.edu	36	19	9274138	9274138	+	Missense_Mutation	SNP	C	G	G			TCGA-14-1453-01	TCGA-14-1453-01	C	C								Phase_I	Unspecified				Illumina GAIIx	g.chr19:9274138C>G	uc002mlc.1	-	c.91G>C	c.(91-93)GAG>CAG	p.E31Q		NM_198535	NP_940937	Q32M78	ZN699_HUMAN	zinc finger protein 699	31	KRAB.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0														0.349206	140.464322	142.991525	44	82	CC		KEEP	---	---	---	---	capture			Missense_Mutation	SNP	9274138	9274138	18696	19	C	G	G	30	30	ZNF699	G	3	3
HFE2	148738	broad.mit.edu	36	1	144127801	144127801	+	Missense_Mutation	SNP	G	C	C			TCGA-14-1453-01	TCGA-14-1453-01	G	G								Phase_I	Unspecified				Illumina GAIIx	g.chr1:144127801G>C	uc001eni.2	+	c.789G>C	c.(787-789)TTG>TTC	p.L263F	HFE2_uc001enk.2_Missense_Mutation_p.L150F|HFE2_uc001enj.2_Missense_Mutation_p.L37F|HFE2_uc001enl.2_Missense_Mutation_p.L37F|HFE2_uc009wis.1_Missense_Mutation_p.L37F	NM_213653	NP_660320	Q6ZVN8	RGMC_HUMAN	hemojuvelin isoform a precursor	263					axon guidance	anchored to membrane				ovary(1)	1	all_hematologic(18;0.0187)|Acute lymphoblastic leukemia(18;0.0786)													0.491892	304.816631	304.827278	91	94	GG		KEEP	---	---	---	---	capture			Missense_Mutation	SNP	144127801	144127801	7365	1	G	C	C	48	48	HFE2	C	3	3
FLG	2312	broad.mit.edu	36	1	150541929	150541929	+	Silent	SNP	C	T	T			TCGA-14-1453-01	TCGA-14-1453-01	C	C								Phase_I	Unspecified				Illumina GAIIx	g.chr1:150541929C>T	uc001ezu.1	-	c.12057G>A	c.(12055-12057)GCG>GCA	p.A4019A		NM_002016	NP_002007	P20930	FILA_HUMAN	filaggrin	4019					keratinocyte differentiation	cytoplasmic membrane-bounded vesicle|intermediate filament	calcium ion binding|structural molecule activity			ovary(9)	9	Hepatocellular(266;0.0877)|Melanoma(130;0.116)|all_hematologic(923;0.127)		LUSC - Lung squamous cell carcinoma(543;0.206)											0.438202	126.016714	126.312132	39	50	CC		KEEP	---	---	---	---	capture			Silent	SNP	150541929	150541929	6160	1	C	T	T	19	19	FLG	T	1	1
CRNN	49860	broad.mit.edu	36	1	150651253	150651253	+	Silent	SNP	C	T	T			TCGA-14-1453-01	TCGA-14-1453-01	C	C								Phase_I	Unspecified				Illumina GAIIx	g.chr1:150651253C>T	uc001ezx.1	-	c.81G>A	c.(79-81)GCG>GCA	p.A27A		NM_016190	NP_057274	Q9UBG3	CRNN_HUMAN	cornulin	27					cell-cell adhesion|response to heat	cytoplasm|membrane	calcium ion binding			ovary(2)	2	Hepatocellular(266;0.0877)|all_hematologic(923;0.127)|Melanoma(130;0.242)		LUSC - Lung squamous cell carcinoma(543;0.206)											0.409091	328.749632	330.655265	108	156	CC		KEEP	---	---	---	---	capture			Silent	SNP	150651253	150651253	4031	1	C	T	T	27	27	CRNN	T	1	1
CACNA1E	777	broad.mit.edu	36	1	180034097	180034097	+	Missense_Mutation	SNP	C	G	G			TCGA-14-1453-01	TCGA-14-1453-01	C	C								Phase_I	Unspecified				Illumina GAIIx	g.chr1:180034097C>G	uc001gow.1	+	c.6317C>G	c.(6316-6318)ACC>AGC	p.T2106S	CACNA1E_uc009wxs.1_Missense_Mutation_p.T1994S|CACNA1E_uc009wxt.1_Missense_Mutation_p.T1375S	NM_000721	NP_000712	Q15878	CAC1E_HUMAN	calcium channel, voltage-dependent, R type,	2149	Cytoplasmic (Potential).				energy reserve metabolic process|membrane depolarization|synaptic transmission	voltage-gated calcium channel complex	voltage-gated calcium channel activity			ovary(3)|central_nervous_system(2)|pancreas(1)	6														0.413793	39.995396	40.18349	12	17	CC		KEEP	---	---	---	---	capture			Missense_Mutation	SNP	180034097	180034097	2658	1	C	G	G	18	18	CACNA1E	G	3	3
PTPRU	10076	broad.mit.edu	36	1	29479231	29479231	+	Missense_Mutation	SNP	C	T	T			TCGA-14-1453-01	TCGA-14-1453-01	C	C								Phase_I	Unspecified				Illumina GAIIx	g.chr1:29479231C>T	uc001bru.1	+	c.1859C>T	c.(1858-1860)GCG>GTG	p.A620V	PTPRU_uc001brv.1_Missense_Mutation_p.A620V|PTPRU_uc001brw.1_Missense_Mutation_p.A620V|PTPRU_uc009vtq.1_Missense_Mutation_p.A620V|PTPRU_uc009vtr.1_Missense_Mutation_p.A620V	NM_005704	NP_005695	Q92729	PTPRU_HUMAN	protein tyrosine phosphatase, receptor type, U	620	Extracellular (Potential).|Fibronectin type-III 4.				canonical Wnt receptor signaling pathway|cell differentiation|negative regulation of cell migration|negative regulation of cell proliferation|negative regulation of transcription, DNA-dependent|protein localization at cell surface|transmembrane receptor protein tyrosine phosphatase signaling pathway	cell-cell junction|integral to plasma membrane	beta-catenin binding|transmembrane receptor protein tyrosine phosphatase activity			large_intestine(3)|ovary(1)|kidney(1)|central_nervous_system(1)	6		Colorectal(325;0.000399)|Lung NSC(340;0.00953)|all_lung(284;0.0112)|Breast(348;0.0126)|all_neural(195;0.0199)|Myeloproliferative disorder(586;0.0255)|Ovarian(437;0.0563)|Medulloblastoma(700;0.123)		Colorectal(126;6.99e-07)|COAD - Colon adenocarcinoma(152;3.18e-05)|STAD - Stomach adenocarcinoma(196;0.0234)|READ - Rectum adenocarcinoma(331;0.0686)|BRCA - Breast invasive adenocarcinoma(304;0.0871)					p.A620V(HEC108-Tumor)	874				0.255319	32.481441	35.031372	12	35	CC		KEEP	---	---	---	---	capture			Missense_Mutation	SNP	29479231	29479231	13271	1	C	T	T	27	27	PTPRU	T	1	1
ELAVL4	1996	broad.mit.edu	36	1	50433943	50433943	+	Missense_Mutation	SNP	A	T	T			TCGA-14-1453-01	TCGA-14-1453-01	A	A								Phase_I	Unspecified				Illumina GAIIx	g.chr1:50433943A>T	uc001csa.2	+	c.683A>T	c.(682-684)AAC>ATC	p.N228I	ELAVL4_uc001cry.2_Missense_Mutation_p.N214I|ELAVL4_uc001crz.2_Missense_Mutation_p.N211I|ELAVL4_uc001csc.2_Missense_Mutation_p.N211I|ELAVL4_uc001csb.1_Missense_Mutation_p.N211I|ELAVL4_uc009vyu.1_Missense_Mutation_p.N216I	NM_021952	NP_068771	P26378	ELAV4_HUMAN	ELAV-like 4 isoform 1	211	RRM 2.				mRNA processing		AU-rich element binding|mRNA 3'-UTR binding|nucleotide binding			ovary(1)|pancreas(1)	2														0.278689	44.04695	46.736086	17	44	AA		KEEP	---	---	---	---	capture			Missense_Mutation	SNP	50433943	50433943	5243	1	A	T	T	2	2	ELAVL4	T	4	4
NPHP4	261734	broad.mit.edu	36	1	5930799	5930799	+	Missense_Mutation	SNP	C	T	T			TCGA-14-1453-01	TCGA-14-1453-01	C	C								Phase_I	Unspecified				Illumina GAIIx	g.chr1:5930799C>T	uc001alq.1	-	c.910G>A	c.(910-912)GTT>ATT	p.V304I	NPHP4_uc001als.1_Non-coding_Transcript|NPHP4_uc009vlt.1_Non-coding_Transcript|NPHP4_uc001alt.1_Non-coding_Transcript	NM_015102	NP_055917	O75161	NPHP4_HUMAN	nephroretinin	304					actin cytoskeleton organization|cell-cell adhesion|signal transduction|visual behavior	cilium|membrane|microtubule basal body	protein binding|structural molecule activity			pancreas(1)	1	Ovarian(185;0.0634)	all_cancers(23;7.53e-41)|all_epithelial(116;3.96e-23)|all_lung(118;5.12e-09)|all_hematologic(16;5.45e-07)|Lung NSC(185;5.49e-07)|all_neural(13;3.21e-06)|Acute lymphoblastic leukemia(12;3.44e-05)|Breast(487;0.000601)|Renal(390;0.0007)|Colorectal(325;0.00113)|Hepatocellular(190;0.00213)|Glioma(11;0.00223)|Myeloproliferative disorder(586;0.0256)|Ovarian(437;0.04)|Lung SC(97;0.128)|Medulloblastoma(700;0.213)		Epithelial(90;1.69e-36)|GBM - Glioblastoma multiforme(13;5.07e-29)|OV - Ovarian serous cystadenocarcinoma(86;1.05e-19)|Colorectal(212;4.54e-07)|COAD - Colon adenocarcinoma(227;3.14e-05)|Kidney(185;0.00012)|BRCA - Breast invasive adenocarcinoma(365;0.00102)|KIRC - Kidney renal clear cell carcinoma(229;0.00179)|STAD - Stomach adenocarcinoma(132;0.00472)|READ - Rectum adenocarcinoma(331;0.0649)										0.5	26.304904	26.304904	8	8	CC		KEEP	---	---	---	---	capture			Missense_Mutation	SNP	5930799	5930799	10985	1	C	T	T	19	19	NPHP4	T	1	1
ATRN	8455	broad.mit.edu	36	20	3532805	3532805	+	Nonsense_Mutation	SNP	G	T	T			TCGA-14-1453-01	TCGA-14-1453-01	G	G								Phase_I	Unspecified				Illumina GAIIx	g.chr20:3532805G>T	uc002wim.1	+	c.3697G>T	c.(3697-3699)GAG>TAG	p.E1233*	ATRN_uc002wil.1_Nonsense_Mutation_p.E1233*	NM_139321	NP_647537	O75882	ATRN_HUMAN	attractin isoform 1	1233	Extracellular (Potential).				inflammatory response	extracellular space|integral to plasma membrane	receptor activity|sugar binding			ovary(1)|breast(1)	2														0.25	49.658054	54.206261	20	60	GG		KEEP	---	---	---	---	capture			Nonsense_Mutation	SNP	3532805	3532805	1225	20	G	T	T	41	41	ATRN	T	5	3
INPP5J	27124	broad.mit.edu	36	22	29854301	29854301	+	Silent	SNP	C	T	T			TCGA-14-1453-01	TCGA-14-1453-01	C	C								Phase_I	Unspecified				Illumina GAIIx	g.chr22:29854301C>T	uc003aju.2	+	c.2001C>T	c.(1999-2001)TAC>TAT	p.Y667Y	INPP5J_uc003ajw.2_Silent_p.Y103Y|INPP5J_uc003ajv.2_Silent_p.Y300Y|INPP5J_uc003ajs.2_Silent_p.Y300Y|INPP5J_uc010gwg.1_Silent_p.Y232Y|INPP5J_uc003ajt.2_Silent_p.Y299Y|INPP5J_uc003ajx.1_Silent_p.Y32Y|INPP5J_uc003ajy.1_Silent_p.Y32Y|INPP5J_uc003ajz.1_Silent_p.Y107Y	NM_001002837	NP_001002837	Q15735	PI5PA_HUMAN	phosphatidylinositol (4,5) bisphosphate	667	Catalytic (Potential).					cytoplasm|ruffle	inositol 1,3,4,5-tetrakisphosphate 5-phosphatase activity|inositol-1,4,5-trisphosphate 5-phosphatase activity|inositol-polyphosphate 5-phosphatase activity|SH3 domain binding			skin(1)	1														0.416667	14.772598	14.845415	5	7	CC		KEEP	---	---	---	---	capture			Silent	SNP	29854301	29854301	8060	22	C	T	T	19	19	INPP5J	T	1	1
PKDREJ	10343	broad.mit.edu	36	22	45031801	45031801	+	Missense_Mutation	SNP	C	T	T			TCGA-14-1453-01	TCGA-14-1453-01	C	C								Phase_I	Unspecified				Illumina GAIIx	g.chr22:45031801C>T	uc003bhh.1	-	c.6083G>A	c.(6082-6084)CGG>CAG	p.R2028Q		NM_006071	NP_006062	Q9NTG1	PKDRE_HUMAN	receptor for egg jelly-like protein precursor	2028	Extracellular (Potential).				acrosome reaction|neuropeptide signaling pathway	integral to membrane	calcium ion binding|ion channel activity			breast(3)|ovary(2)	5		Ovarian(80;0.00965)|all_neural(38;0.0416)		UCEC - Uterine corpus endometrioid carcinoma (28;0.00459)										0.408451	89.861526	90.381404	29	42	CC		KEEP	---	---	---	---	capture			Missense_Mutation	SNP	45031801	45031801	12395	22	C	T	T	23	23	PKDREJ	T	1	1
SCN1A	6323	broad.mit.edu	36	2	166606071	166606071	+	Silent	SNP	A	G	G			TCGA-14-1453-01	TCGA-14-1453-01	A	A								Phase_I	Unspecified				Illumina GAIIx	g.chr2:166606071A>G	uc010fpj.1	-	c.2298T>C	c.(2296-2298)TGT>TGC	p.C766C	SCN1A_uc002udo.2_Silent_p.C646C|SCN1A_uc010fpk.1_Silent_p.C618C	NM_006920	NP_008851	P35498	SCN1A_HUMAN	sodium channel, voltage-gated, type I, alpha	777	Helical; Name=S1 of repeat II; (By similarity).|II.					voltage-gated sodium channel complex	voltage-gated sodium channel activity			ovary(6)|large_intestine(1)	7					Lamotrigine(DB00555)|Levetiracetam(DB01202)|Phenacemide(DB01121)|Phenytoin(DB00252)|Topiramate(DB00273)|Zonisamide(DB00909)									0.505618	160.481604	160.484155	45	44	AA		KEEP	---	---	---	---	capture			Silent	SNP	166606071	166606071	14396	2	A	G	G	14	14	SCN1A	G	4	4
XIRP2	129446	broad.mit.edu	36	2	167807363	167807363	+	Silent	SNP	A	C	C			TCGA-14-1453-01	TCGA-14-1453-01	A	A								Phase_I	Unspecified				Illumina GAIIx	g.chr2:167807363A>C	uc002udx.1	+	c.1215A>C	c.(1213-1215)TCA>TCC	p.S405S	XIRP2_uc010fpn.1_Intron|XIRP2_uc010fpo.1_Intron|XIRP2_uc010fpp.1_Intron|XIRP2_uc002udy.2_Silent_p.S230S|XIRP2_uc010fpq.1_Silent_p.S183S|XIRP2_uc010fpr.1_Intron	NM_152381	NP_689594	A4UGR9	XIRP2_HUMAN	xin actin-binding repeat containing 2 isoform 1	230					actin cytoskeleton organization	cell junction	actin binding			ovary(6)|pancreas(1)|skin(1)	8														0.463235	202.403675	202.564431	63	73	AA		KEEP	---	---	---	---	capture			Silent	SNP	167807363	167807363	18011	2	A	C	C	7	7	XIRP2	C	4	4
TTN	7273	broad.mit.edu	36	2	179165850	179165850	+	Missense_Mutation	SNP	G	A	A			TCGA-14-1453-01	TCGA-14-1453-01	G	G								Phase_I	Unspecified				Illumina GAIIx	g.chr2:179165850G>A	uc002umr.1	-	c.51538C>T	c.(51538-51540)CGG>TGG	p.R17180W	TTN_uc002ums.1_Missense_Mutation_p.R10875W|TTN_uc010frc.1_Missense_Mutation_p.R10808W|TTN_uc010frd.1_Missense_Mutation_p.R10683W	NM_133378	NP_596869	Q8WZ42	TITIN_HUMAN	titin isoform N2-A	18107										ovary(58)|stomach(19)|large_intestine(17)|lung(16)|skin(16)|breast(10)|pancreas(7)|kidney(4)|central_nervous_system(3)|urinary_tract(2)|upper_aerodigestive_tract(1)	153			OV - Ovarian serous cystadenocarcinoma(117;0.023)|Epithelial(96;0.0454)|all cancers(119;0.134)							8722				0.92093	684.511405	723.398944	198	17	GG		KEEP	---	---	---	---	capture			Missense_Mutation	SNP	179165850	179165850	17290	2	G	A	A	37	37	TTN	A	1	1
FRZB	2487	broad.mit.edu	36	2	183407918	183407918	+	Missense_Mutation	SNP	C	T	T			TCGA-14-1453-01	TCGA-14-1453-01	C	C								Phase_I	Unspecified				Illumina GAIIx	g.chr2:183407918C>T	uc002upa.1	-	c.881G>A	c.(880-882)CGT>CAT	p.R294H		NM_001463	NP_001454	Q92765	SFRP3_HUMAN	frizzled-related protein	294	NTR.				brain development|cochlea morphogenesis|gonad development|mammary gland involution|negative regulation of canonical Wnt receptor signaling pathway|negative regulation of cartilage development|negative regulation of cell growth|negative regulation of cell proliferation|negative regulation of hepatocyte differentiation|positive regulation of apoptosis|positive regulation of fat cell differentiation|regulation of gene-specific transcription from RNA polymerase II promoter|skeletal system development|vasculature development|Wnt receptor signaling pathway	cytoplasm|extracellular space|membrane	PDZ domain binding|Wnt receptor activity|Wnt-protein binding			ovary(2)|central_nervous_system(1)	3			OV - Ovarian serous cystadenocarcinoma(117;0.109)|Epithelial(96;0.231)											0.840909	251.59867	261.341012	74	14	CC		KEEP	---	---	---	---	capture			Missense_Mutation	SNP	183407918	183407918	6315	2	C	T	T	19	19	FRZB	T	1	1
APOB	338	broad.mit.edu	36	2	21085428	21085428	+	Missense_Mutation	SNP	G	A	A			TCGA-14-1453-01	TCGA-14-1453-01	G	G								Phase_I	Unspecified				Illumina GAIIx	g.chr2:21085428G>A	uc002red.1	-	c.7817C>T	c.(7816-7818)GCT>GTT	p.A2606V		NM_000384	NP_000375	P04114	APOB_HUMAN	apolipoprotein B precursor	2606					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|very-low-density lipoprotein particle assembly	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)|central_nervous_system(3)|large_intestine(2)|pancreas(1)|skin(1)	18	Acute lymphoblastic leukemia(172;0.155)|all_hematologic(175;0.215)				Atorvastatin(DB01076)									0.335165	172.97643	177.373137	61	121	GG		KEEP	---	---	---	---	capture			Missense_Mutation	SNP	21085428	21085428	796	2	G	A	A	34	34	APOB	A	2	2
VIT	5212	broad.mit.edu	36	2	36823779	36823779	+	Missense_Mutation	SNP	G	A	A			TCGA-14-1453-01	TCGA-14-1453-01	G	G								Phase_I	Unspecified				Illumina GAIIx	g.chr2:36823779G>A	uc002rpl.1	+	c.151G>A	c.(151-153)GGA>AGA	p.G51R	VIT_uc002rpk.2_Missense_Mutation_p.G44R|VIT_uc002rpm.1_Missense_Mutation_p.G44R|VIT_uc010ezv.1_Missense_Mutation_p.G44R|VIT_uc010ezw.1_Missense_Mutation_p.G44R	NM_053276	NP_444506	Q6UXI7	VITRN_HUMAN	vitrin	51	LCCL.					proteinaceous extracellular matrix				ovary(1)|pancreas(1)	2		all_hematologic(82;0.248)												0.255639	96.693143	103.891918	34	99	GG		KEEP	---	---	---	---	capture			Missense_Mutation	SNP	36823779	36823779	17738	2	G	A	A	39	39	VIT	A	1	1
CEBPZ	10153	broad.mit.edu	36	2	37282429	37282429	+	Silent	SNP	A	T	T			TCGA-14-1453-01	TCGA-14-1453-01	A	A								Phase_I	Unspecified				Illumina GAIIx	g.chr2:37282429A>T	uc002rpz.1	-	c.3147T>A	c.(3145-3147)ACT>ACA	p.T1049T		NM_005760	NP_005751	Q03701	CEBPZ_HUMAN	CCAAT/enhancer binding protein zeta	1049					regulation of transcription, DNA-dependent|transcription from RNA polymerase II promoter	nucleus	DNA binding			pancreas(1)	1		all_hematologic(82;0.21)												0.214286	7.02582	9.152721	6	22	AA		KEEP	---	---	---	---	capture			Silent	SNP	37282429	37282429	3337	2	A	T	T	15	15	CEBPZ	T	4	4
ATR	545	broad.mit.edu	36	3	143742498	143742498	+	Silent	SNP	C	T	T			TCGA-14-1453-01	TCGA-14-1453-01	C	C								Phase_I	Unspecified				Illumina GAIIx	g.chr3:143742498C>T	uc003eux.2	-	c.3519G>A	c.(3517-3519)AAG>AAA	p.K1173K		NM_001184	NP_001175	Q13535	ATR_HUMAN	ataxia telangiectasia and Rad3 related protein	1173					cell cycle|cellular response to gamma radiation|cellular response to UV|DNA damage checkpoint|DNA repair|DNA replication|multicellular organismal development|negative regulation of DNA replication|peptidyl-serine phosphorylation|positive regulation of DNA damage response, signal transduction by p53 class mediator|protein autophosphorylation|replicative senescence	PML body	ATP binding|DNA binding|MutLalpha complex binding|MutSalpha complex binding|protein serine/threonine kinase activity			lung(5)|breast(4)|ovary(3)|skin(2)|stomach(1)|central_nervous_system(1)|liver(1)	17										936				0.113821	15.956497	34.053362	14	109	CC		KEEP	---	---	---	---	capture			Silent	SNP	143742498	143742498	1223	3	C	T	T	32	32	ATR	T	2	2
APOD	347	broad.mit.edu	36	3	196782077	196782077	+	Missense_Mutation	SNP	G	A	A			TCGA-14-1453-01	TCGA-14-1453-01	G	G								Phase_I	Unspecified				Illumina GAIIx	g.chr3:196782077G>A	uc003fur.1	-	c.178C>T	c.(178-180)CGC>TGC	p.R60C		NM_001647	NP_001638	P05090	APOD_HUMAN	apolipoprotein D precursor	60					lipid metabolic process	extracellular space	lipid binding|lipid transporter activity|protein binding			ovary(2)	2	all_cancers(143;1.8e-08)|Ovarian(172;0.0634)	Lung NSC(153;0.191)	Epithelial(36;1e-21)|all cancers(36;9.02e-20)|OV - Ovarian serous cystadenocarcinoma(49;1.6e-18)|Lung(62;0.000104)|LUSC - Lung squamous cell carcinoma(58;0.000128)	GBM - Glioblastoma multiforme(46;1.66e-05)										0.411638	605.358739	608.517495	191	273	GG		KEEP	---	---	---	---	capture			Missense_Mutation	SNP	196782077	196782077	812	3	G	A	A	40	40	APOD	A	1	1
XYLB	9942	broad.mit.edu	36	3	38383304	38383304	+	Missense_Mutation	SNP	G	A	A			TCGA-14-1453-01	TCGA-14-1453-01	G	G								Phase_I	Unspecified				Illumina GAIIx	g.chr3:38383304G>A	uc003cic.1	+	c.509G>A	c.(508-510)CGT>CAT	p.R170H	XYLB_uc003cid.1_Missense_Mutation_p.R92H	NM_005108	NP_005099	O75191	XYLB_HUMAN	xylulokinase homolog	170					D-xylose metabolic process|generation of precursor metabolites and energy|xylulose catabolic process		ATP binding|xylulokinase activity			ovary(1)	1				KIRC - Kidney renal clear cell carcinoma(284;0.00372)|Kidney(284;0.00405)										0.52	253.058027	253.110651	78	72	GG		KEEP	---	---	---	---	capture			Missense_Mutation	SNP	38383304	38383304	18045	3	G	A	A	40	40	XYLB	A	1	1
SCN11A	11280	broad.mit.edu	36	3	38888094	38888094	+	Missense_Mutation	SNP	C	G	G			TCGA-14-1453-01	TCGA-14-1453-01	C	C								Phase_I	Unspecified				Illumina GAIIx	g.chr3:38888094C>G	uc010hhm.1	-	c.3605G>C	c.(3604-3606)GGA>GCA	p.G1202A		NM_014139	NP_054858	Q9UI33	SCNBA_HUMAN	sodium channel, voltage-gated, type XI, alpha	1202	Helical; Name=S5 of repeat III; (By similarity).|III.				response to drug	voltage-gated sodium channel complex	voltage-gated sodium channel activity			ovary(1)|pancreas(1)|skin(1)	3				Kidney(284;0.00202)|KIRC - Kidney renal clear cell carcinoma(284;0.00226)	Cocaine(DB00907)									0.428571	78.893202	79.141925	24	32	CC		KEEP	---	---	---	---	capture			Missense_Mutation	SNP	38888094	38888094	14395	3	C	G	G	30	30	SCN11A	G	3	3
CCR3	1232	broad.mit.edu	36	3	46282275	46282275	+	Missense_Mutation	SNP	C	T	T			TCGA-14-1453-01	TCGA-14-1453-01	C	C								Phase_I	Unspecified				Illumina GAIIx	g.chr3:46282275C>T	uc003cpl.1	+	c.721C>T	c.(721-723)CTC>TTC	p.L241F	CCR3_uc003cpg.1_Missense_Mutation_p.L208F|CCR3_uc003cpi.1_Missense_Mutation_p.L208F|CCR3_uc003cpj.1_Missense_Mutation_p.L208F|CCR3_uc003cpk.1_Missense_Mutation_p.L229F|CCR3_uc010hjb.1_Missense_Mutation_p.L226F|CCR3_uc010hjc.1_Missense_Mutation_p.L208F	NM_178329	NP_847899	P51677	CCR3_HUMAN	CC chemokine receptor 3	208	Helical; Name=5; (Potential).				cell adhesion|cellular defense response|chemotaxis|elevation of cytosolic calcium ion concentration|G-protein signaling, coupled to cAMP nucleotide second messenger|inflammatory response|interspecies interaction between organisms|positive regulation of angiogenesis	integral to plasma membrane				ovary(2)|kidney(1)	3				BRCA - Breast invasive adenocarcinoma(193;0.00119)|KIRC - Kidney renal clear cell carcinoma(197;0.0183)|Kidney(197;0.0216)						19				0.385542	93.782496	94.734671	32	51	CC		KEEP	---	---	---	---	capture			Missense_Mutation	SNP	46282275	46282275	3069	3	C	T	T	32	32	CCR3	T	2	2
IL17RD	54756	broad.mit.edu	36	3	57119344	57119344	+	Missense_Mutation	SNP	C	G	G			TCGA-14-1453-01	TCGA-14-1453-01	C	C								Phase_I	Unspecified				Illumina GAIIx	g.chr3:57119344C>G	uc003dil.1	-	c.346G>C	c.(346-348)GAG>CAG	p.E116Q	IL17RD_uc003dik.1_Missense_Mutation_p.E92Q|IL17RD_uc010hna.1_5'UTR	NM_017563	NP_060033	Q8NFM7	I17RD_HUMAN	interleukin 17 receptor D	116	Extracellular (Potential).					Golgi membrane|integral to membrane|plasma membrane	receptor activity				0				KIRC - Kidney renal clear cell carcinoma(284;0.0173)|Kidney(284;0.0204)						213				0.434146	308.648815	309.423464	89	116	CC		KEEP	---	---	---	---	capture			Missense_Mutation	SNP	57119344	57119344	7943	3	C	G	G	30	30	IL17RD	G	3	3
ADH1C	126	broad.mit.edu	36	4	100480782	100480782	+	Missense_Mutation	SNP	G	A	A			TCGA-14-1453-01	TCGA-14-1453-01	G	G								Phase_I	Unspecified				Illumina GAIIx	g.chr4:100480782G>A	uc003huu.1	-	c.937C>T	c.(937-939)CGC>TGC	p.R313C		NM_000669	NP_000660	P00326	ADH1G_HUMAN	alcohol dehydrogenase 1C, gamma polypeptide	313					ethanol oxidation|xenobiotic metabolic process	cytosol	alcohol dehydrogenase (NAD) activity|zinc ion binding				0				OV - Ovarian serous cystadenocarcinoma(123;1.08e-07)	Fomepizole(DB01213)|NADH(DB00157)									0.310195	408.668886	423.455917	143	318	GG		KEEP	---	---	---	---	capture			Missense_Mutation	SNP	100480782	100480782	310	4	G	A	A	40	40	ADH1C	A	1	1
MED28	80306	broad.mit.edu	36	4	17234446	17234446	+	Missense_Mutation	SNP	A	C	C			TCGA-14-1453-01	TCGA-14-1453-01	A	A								Phase_I	Unspecified				Illumina GAIIx	g.chr4:17234446A>C	uc003gpi.1	+	c.464A>C	c.(463-465)GAC>GCC	p.D155A	MED28_uc003gpj.2_Non-coding_Transcript	NM_025205	NP_079481	Q9H204	MED28_HUMAN	mediator complex subunit 28	155					regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasm|membrane|nucleus	actin binding				0														0.258065	66.957035	71.891272	24	69	AA		KEEP	---	---	---	---	capture			Missense_Mutation	SNP	17234446	17234446	9835	4	A	C	C	10	10	MED28	C	4	4
ADAM29	11086	broad.mit.edu	36	4	176134293	176134293	+	Missense_Mutation	SNP	C	G	G			TCGA-14-1453-01	TCGA-14-1453-01	C	C								Phase_I	Unspecified				Illumina GAIIx	g.chr4:176134293C>G	uc003iuc.1	+	c.1042C>G	c.(1042-1044)CGT>GGT	p.R348G	ADAM29_uc003iud.1_Missense_Mutation_p.R348G|ADAM29_uc003iue.1_Missense_Mutation_p.R348G|ADAM29_uc010irr.1_Missense_Mutation_p.R348G	NM_014269	NP_055084	Q9UKF5	ADA29_HUMAN	ADAM metallopeptidase domain 29 preproprotein	348	Peptidase M12B.|Extracellular (Potential).				proteolysis|spermatogenesis	integral to plasma membrane	metalloendopeptidase activity|zinc ion binding			ovary(3)|large_intestine(2)|central_nervous_system(2)|skin(2)|pancreas(1)	10		Breast(14;0.00908)|Melanoma(52;0.00951)|Prostate(90;0.00996)|Renal(120;0.0183)|all_hematologic(60;0.107)|all_neural(102;0.164)		all cancers(43;3.08e-19)|Epithelial(43;6.24e-18)|OV - Ovarian serous cystadenocarcinoma(60;1.78e-09)|STAD - Stomach adenocarcinoma(60;0.00303)|GBM - Glioblastoma multiforme(59;0.0106)|LUSC - Lung squamous cell carcinoma(193;0.0286)		Ovarian(140;1727 1835 21805 25838 41440)				106				0.312849	531.149657	547.867405	168	369	CC		KEEP	---	---	---	---	capture			Missense_Mutation	SNP	176134293	176134293	248	4	C	G	G	31	31	ADAM29	G	3	3
CDS1	1040	broad.mit.edu	36	4	85774059	85774059	+	Missense_Mutation	SNP	T	G	G			TCGA-14-1453-01	TCGA-14-1453-01	T	T								Phase_I	Unspecified				Illumina GAIIx	g.chr4:85774059T>G	uc003hpb.1	+	c.665T>G	c.(664-666)CTG>CGG	p.L222R	CDS1_uc010ike.1_Missense_Mutation_p.L26R	NM_001263	NP_001254	Q92903	CDS1_HUMAN	CDP-diacylglycerol synthase 1	222					signal transduction|visual perception	endoplasmic reticulum membrane|integral to membrane	diacylglycerol cholinephosphotransferase activity|phosphatidate cytidylyltransferase activity			large_intestine(2)|ovary(1)|breast(1)	4		Hepatocellular(203;0.114)		OV - Ovarian serous cystadenocarcinoma(123;0.00101)										0.543568	442.733317	443.130037	131	110	TT		KEEP	---	---	---	---	capture			Missense_Mutation	SNP	85774059	85774059	3306	4	T	G	G	55	55	CDS1	G	4	4
PCDHA1	56147	broad.mit.edu	36	5	140147913	140147913	+	Silent	SNP	G	A	A			TCGA-14-1453-01	TCGA-14-1453-01	G	G								Phase_I	Unspecified				Illumina GAIIx	g.chr5:140147913G>A	uc003lhb.1	+	c.1854G>A	c.(1852-1854)GCG>GCA	p.A618A	PCDHA1_uc003lha.1_Intron|PCDHA1_uc003lgz.1_Silent_p.A618A	NM_018900	NP_061723	Q9Y5I3	PCDA1_HUMAN	protocadherin alpha 1 isoform 1 precursor	618	Cadherin 6.|Extracellular (Potential).				homophilic cell adhesion|nervous system development	extracellular region|integral to plasma membrane	calcium ion binding|protein binding				0			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)											0.545455	55.346071	55.404917	18	15	GG		KEEP	---	---	---	---	capture			Silent	SNP	140147913	140147913	11939	5	G	A	A	38	38	PCDHA1	A	1	1
FAM153B	202134	broad.mit.edu	36	5	175462872	175462872	+	Missense_Mutation	SNP	A	T	T			TCGA-14-1453-01	TCGA-14-1453-01	A	A								Phase_I	Unspecified				Illumina GAIIx	g.chr5:175462872A>T	uc003mdk.1	+	c.701A>T	c.(700-702)TAC>TTC	p.Y234F	FAM153B_uc010jjz.1_Missense_Mutation_p.Y23F	NM_001079529	NP_001072997	P0C7A2	F153B_HUMAN	hypothetical protein LOC202134	234										ovary(1)	1	all_cancers(89;0.00406)|Renal(175;0.000269)|Lung NSC(126;0.0103)|all_lung(126;0.0164)	Medulloblastoma(196;0.0208)|all_neural(177;0.0416)|all_hematologic(541;0.214)	Kidney(164;3.85e-05)|KIRC - Kidney renal clear cell carcinoma(164;0.000183)	Kidney(146;0.0965)										0.219577	202.938096	230.306809	83	295	AA		KEEP	---	---	---	---	capture			Missense_Mutation	SNP	175462872	175462872	5659	5	A	T	T	14	14	FAM153B	T	4	4
RASGEF1C	255426	broad.mit.edu	36	5	179478415	179478415	+	Missense_Mutation	SNP	G	A	A			TCGA-14-1453-01	TCGA-14-1453-01	G	G								Phase_I	Unspecified				Illumina GAIIx	g.chr5:179478415G>A	uc003mlq.1	-	c.965C>T	c.(964-966)ACG>ATG	p.T322M	RASGEF1C_uc003mlr.1_Missense_Mutation_p.T322M|RASGEF1C_uc003mlp.2_Missense_Mutation_p.T171M	NM_175062	NP_778232	Q8N431	RGF1C_HUMAN	RasGEF domain family, member 1C	322	Ras-GEF.				regulation of small GTPase mediated signal transduction|small GTPase mediated signal transduction	intracellular	guanyl-nucleotide exchange factor activity			ovary(1)	1	all_cancers(89;3.44e-05)|all_epithelial(37;1.22e-05)|Renal(175;0.000269)|Lung NSC(126;0.00199)|all_lung(126;0.00351)|Breast(19;0.137)	all_cancers(40;0.0242)|Medulloblastoma(196;0.00498)|all_neural(177;0.0137)	Kidney(164;2.23e-05)|KIRC - Kidney renal clear cell carcinoma(164;0.000178)											0.307692	10.492805	10.922969	4	9	GG		KEEP	---	---	---	---	capture			Missense_Mutation	SNP	179478415	179478415	13532	5	G	A	A	40	40	RASGEF1C	A	1	1
PIK3R1	5295	broad.mit.edu	36	5	67625050	67625050	+	Missense_Mutation	SNP	G	T	T			TCGA-14-1453-01	TCGA-14-1453-01	G	G								Phase_I	Unspecified				Illumina GAIIx	g.chr5:67625050G>T	uc003jva.1	+	c.1282G>T	c.(1282-1284)GTA>TTA	p.V428L	PIK3R1_uc003jvb.1_Missense_Mutation_p.V428L|PIK3R1_uc003jvc.1_Missense_Mutation_p.V128L|PIK3R1_uc003jvd.1_Missense_Mutation_p.V158L|PIK3R1_uc003jve.1_Missense_Mutation_p.V107L	NM_181523	NP_852664	P27986	P85A_HUMAN	phosphoinositide-3-kinase, regulatory subunit 1	428	SH2 1.				epidermal growth factor receptor signaling pathway|fibroblast growth factor receptor signaling pathway|growth hormone receptor signaling pathway|insulin receptor signaling pathway|insulin-like growth factor receptor signaling pathway|interspecies interaction between organisms|leukocyte migration|nerve growth factor receptor signaling pathway|phosphatidylinositol 3-kinase cascade|phosphatidylinositol phosphorylation|phosphatidylinositol-mediated signaling|platelet activation|positive regulation of establishment of protein localization in plasma membrane|positive regulation of glucose import|T cell costimulation|T cell receptor signaling pathway	1-phosphatidylinositol-4-phosphate 3-kinase, class IA complex	1-phosphatidylinositol binding|ErbB-3 class receptor binding|insulin binding|insulin receptor binding|insulin receptor substrate binding|insulin-like growth factor receptor binding|phosphatidylinositol 3-kinase regulator activity|protein phosphatase binding	p.?(1)		endometrium(34)|central_nervous_system(27)|large_intestine(20)|breast(5)|ovary(5)|haematopoietic_and_lymphoid_tissue(3)|lung(2)|urinary_tract(1)|skin(1)|pancreas(1)	99		Lung NSC(167;1.99e-05)|Prostate(74;0.00308)|Ovarian(174;0.00473)|Colorectal(97;0.0176)		OV - Ovarian serous cystadenocarcinoma(47;3.76e-51)|Lung(70;0.0211)	Isoproterenol(DB01064)					370	TCGA GBM(4;<1E-8)			0.388889	90.284629	91.06319	28	44	GG		KEEP	---	---	---	---	capture			Missense_Mutation	SNP	67625050	67625050	12342	5	G	T	T	36	36	PIK3R1	T	3	3
HDAC9	9734	broad.mit.edu	36	7	18842111	18842111	+	Missense_Mutation	SNP	C	T	T			TCGA-14-1453-01	TCGA-14-1453-01	C	C								Phase_I	Unspecified				Illumina GAIIx	g.chr7:18842111C>T	uc003sui.1	+	c.2650C>T	c.(2650-2652)CCC>TCC	p.P884S	HDAC9_uc003sue.1_Missense_Mutation_p.P881S|HDAC9_uc003suh.1_Missense_Mutation_p.P881S|HDAC9_uc003suj.1_Missense_Mutation_p.P840S|HDAC9_uc003suk.1_Missense_Mutation_p.P129S	NM_178425	NP_848512	Q9UKV0	HDAC9_HUMAN	histone deacetylase 9 isoform 5	881	Histone deacetylase.				B cell differentiation|cellular response to insulin stimulus|heart development|histone H3 deacetylation|histone H4 deacetylation|inflammatory response|negative regulation of gene-specific transcription from RNA polymerase II promoter|negative regulation of transcription, DNA-dependent|peptidyl-lysine deacetylation|positive regulation of cell migration involved in sprouting angiogenesis|regulation of skeletal muscle fiber development|transcription, DNA-dependent	cytoplasm|histone deacetylase complex|histone methyltransferase complex|transcription factor complex	histone deacetylase activity (H3-K16 specific)|histone deacetylase binding|histone deacetylase binding|NAD-dependent histone deacetylase activity (H3-K14 specific)|NAD-dependent histone deacetylase activity (H3-K9 specific)|NAD-dependent histone deacetylase activity (H4-K16 specific)|protein binding|protein kinase C binding|repressing transcription factor binding|specific transcriptional repressor activity|transcription corepressor activity|transcription repressor activity			lung(2)|central_nervous_system(2)|kidney(1)	5	all_lung(11;0.187)				Valproic Acid(DB00313)									0.272931	327.147532	347.923965	122	325	CC		KEEP	---	---	---	---	capture			Missense_Mutation	SNP	18842111	18842111	7297	7	C	T	T	30	30	HDAC9	T	2	2
GNA12	2768	broad.mit.edu	36	7	2801138	2801138	+	Missense_Mutation	SNP	T	C	C			TCGA-14-1453-01	TCGA-14-1453-01	T	T								Phase_I	Unspecified				Illumina GAIIx	g.chr7:2801138T>C	uc003smu.1	-	c.475A>G	c.(475-477)AGG>GGG	p.R159G	GNA12_uc003smt.1_Missense_Mutation_p.R100G	NM_007353	NP_031379	Q03113	GNA12_HUMAN	guanine nucleotide binding protein (G protein)	159					G-protein signaling, coupled to cAMP nucleotide second messenger|platelet activation|Rho protein signal transduction	brush border membrane|heterotrimeric G-protein complex	D5 dopamine receptor binding|G-protein beta/gamma-subunit complex binding|GTP binding|GTPase activity|signal transducer activity			ovary(1)	1		Ovarian(82;0.0112)		OV - Ovarian serous cystadenocarcinoma(56;1.02e-13)										0.100719	14.471896	36.569436	14	125	TT		KEEP	---	---	---	---	capture			Missense_Mutation	SNP	2801138	2801138	6769	7	T	C	C	54	54	GNA12	C	4	4
CCDC132	55610	broad.mit.edu	36	7	92825576	92825576	+	Silent	SNP	G	A	A			TCGA-14-1453-01	TCGA-14-1453-01	G	G								Phase_I	Unspecified				Illumina GAIIx	g.chr7:92825576G>A	uc003umo.1	+	c.2787G>A	c.(2785-2787)ACG>ACA	p.T929T	CCDC132_uc003ump.1_Silent_p.T899T|CCDC132_uc003umq.1_Non-coding_Transcript|CCDC132_uc003umr.1_Non-coding_Transcript	NM_017667	NP_060137	Q96JG6	CC132_HUMAN	coiled-coil domain containing 132 isoform a	929											0	all_cancers(62;2.64e-11)|all_epithelial(64;1.4e-10)|Breast(17;0.000675)|Lung NSC(181;0.0618)|all_lung(186;0.0837)		STAD - Stomach adenocarcinoma(171;0.000302)											0.223464	100.524594	113.097694	40	139	GG		KEEP	---	---	---	---	capture			Silent	SNP	92825576	92825576	2887	7	G	A	A	37	37	CCDC132	A	1	1
DOCK5	80005	broad.mit.edu	36	8	25157175	25157175	+	Missense_Mutation	SNP	C	A	A			TCGA-14-1453-01	TCGA-14-1453-01	C	C								Phase_I	Unspecified				Illumina GAIIx	g.chr8:25157175C>A	uc003xeg.1	+	c.112C>A	c.(112-114)CTG>ATG	p.L38M	DOCK5_uc003xef.2_Missense_Mutation_p.L38M|DOCK5_uc010luf.1_Non-coding_Transcript	NM_024940	NP_079216	Q9H7D0	DOCK5_HUMAN	dedicator of cytokinesis 5	38	SH3.					cytoplasm	GTP binding|GTPase binding|guanyl-nucleotide exchange factor activity			ovary(3)	3		all_cancers(63;0.0361)|Ovarian(32;0.000711)|all_epithelial(46;0.0153)|Hepatocellular(4;0.115)|Prostate(55;0.13)|Breast(100;0.143)		UCEC - Uterine corpus endometrioid carcinoma (27;0.0267)|Epithelial(17;1.07e-11)|Colorectal(74;0.0276)|COAD - Colon adenocarcinoma(73;0.0828)		Pancreas(145;34 1887 3271 10937 30165)								0.443425	925.559646	927.383033	290	364	CC		KEEP	---	---	---	---	capture			Missense_Mutation	SNP	25157175	25157175	4874	8	C	A	A	24	24	DOCK5	A	3	3
LMX1B	4010	broad.mit.edu	36	9	128495664	128495664	+	Missense_Mutation	SNP	G	A	A			TCGA-14-1453-01	TCGA-14-1453-01	G	G								Phase_I	Unspecified				Illumina GAIIx	g.chr9:128495664G>A	uc004bqj.2	+	c.713G>A	c.(712-714)CGC>CAC	p.R238H	LMX1B_uc004bqi.2_Missense_Mutation_p.R238H	NM_002316	NP_002307	O60663	LMX1B_HUMAN	LIM homeobox transcription factor 1, beta	238	Homeobox.				dorsal/ventral pattern formation|in utero embryonic development	nucleus	protein binding|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|transcription regulator activity|zinc ion binding				0						Pancreas(110;1796 2278 18357 20466)								0.473684	28.973556	28.985011	9	10	GG		KEEP	---	---	---	---	capture			Missense_Mutation	SNP	128495664	128495664	9191	9	G	A	A	38	38	LMX1B	A	1	1
MSL3	10943	broad.mit.edu	36	X	11691859	11691859	+	Missense_Mutation	SNP	A	G	G			TCGA-14-1453-01	TCGA-14-1453-01	A	A								Phase_I	Unspecified				Illumina GAIIx	g.chrX:11691859A>G	uc004cuw.1	+	c.789A>G	c.(787-789)ATA>ATG	p.I263M	MSL3_uc004cuv.1_Missense_Mutation_p.I263M|MSL3_uc004cux.1_Missense_Mutation_p.I204M|MSL3_uc004cuy.1_Missense_Mutation_p.I97M	NM_078629	NP_006791	Q8N5Y2	MS3L1_HUMAN	male-specific lethal 3-like 1 isoform a	263					chromatin assembly or disassembly|histone H4-K16 acetylation|multicellular organismal development|regulation of transcription, DNA-dependent|transcription from RNA polymerase II promoter	chromatin|MSL complex	chromatin binding|DNA binding|methylated histone residue binding|sequence-specific DNA binding transcription factor activity			ovary(1)	1														0.916667	159.792379	167.901616	44	4	AA		KEEP	---	---	---	---	capture			Missense_Mutation	SNP	11691859	11691859	10272	23	A	G	G	13	13	MSL3	G	4	4
SSX1	6756	broad.mit.edu	36	X	48008233	48008233	+	Missense_Mutation	SNP	G	A	A			TCGA-14-1453-01	TCGA-14-1453-01	G	G								Phase_I	Unspecified				Illumina GAIIx	g.chrX:48008233G>A	uc004djb.1	+	c.403G>A	c.(403-405)GAT>AAT	p.D135N		NM_005635	NP_005626	Q16384	SSX1_HUMAN	synovial sarcoma, X breakpoint 1	135					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	nucleic acid binding|transcription corepressor activity		SS18/SSX1(1145)	soft_tissue(1145)	1145						Esophageal Squamous(175;994 1982 2214 6527 18857)				150				0.940367	712.127767	743.846135	205	13	GG		KEEP	---	---	---	---	capture			Missense_Mutation	SNP	48008233	48008233	15719	23	G	A	A	37	37	SSX1	A	1	1
CACNA1F	778	broad.mit.edu	36	X	48974673	48974673	+	Missense_Mutation	SNP	A	T	T			TCGA-14-1453-01	TCGA-14-1453-01	A	A								Phase_I	Unspecified				Illumina GAIIx	g.chrX:48974673A>T	uc004dnb.1	-	c.316T>A	c.(316-318)TGC>AGC	p.C106S	CACNA1F_uc010nip.1_Missense_Mutation_p.C106S	NM_005183	NP_005174	O60840	CAC1F_HUMAN	calcium channel, voltage-dependent, L type,	106	I.|Helical; Name=S1 of repeat I; (Potential).				axon guidance|detection of light stimulus involved in visual perception	voltage-gated calcium channel complex	protein binding|voltage-gated calcium channel activity			breast(3)|ovary(1)|kidney(1)|skin(1)	6					Verapamil(DB00661)					279				0.857143	20.464587	21.313886	6	1	AA		KEEP	---	---	---	---	capture			Missense_Mutation	SNP	48974673	48974673	2659	23	A	T	T	7	7	CACNA1F	T	4	4
VAMP2	6844	broad.mit.edu	36	17	8006385	8006386	+	Frame_Shift_Ins	INS	-	G	G			TCGA-14-1453-01	TCGA-14-1453-01										Phase_I	Unspecified				Illumina GAIIx	g.chr17:8006385_8006386insG	uc010cnt.1	-	c.29_30insC	c.(28-30)CCTfs	p.P10fs		NM_014232	NP_055047	P63027	VAMP2_HUMAN	vesicle-associated membrane protein 2	10	Cytoplasmic (Potential).				energy reserve metabolic process|glutamate secretion|post-Golgi vesicle-mediated transport|regulation of insulin secretion	cell junction|clathrin sculpted gamma-aminobutyric acid transport vesicle membrane|clathrin sculpted glutamate transport vesicle membrane|clathrin sculpted monoamine transport vesicle membrane|endocytic vesicle membrane|integral to plasma membrane|synaptic vesicle membrane|synaptosome					0					Botulinum Toxin Type B(DB00042)									0.33			3	6				---	---	---	---	capture_indel			Frame_Shift_Ins	INS	8006385	8006386	17678	17	-	G	G	7	7	VAMP2	G	5	5
PARP10	84875	broad.mit.edu	36	8	145129969	145129970	+	Splice_Site_Ins	INS	-	G	G			TCGA-14-1453-01	TCGA-14-1453-01										Phase_I	Unspecified				Illumina GAIIx	g.chr8:145129969_145129970insG	uc003zal.2	-	c.e8_splice_site			PARP10_uc003zak.2_Splice_Site_Ins|PARP10_uc003zam.2_Splice_Site_Ins	NM_032789	NP_116178			poly (ADP-ribose) polymerase family, member 10							Golgi apparatus|nucleolus	NAD+ ADP-ribosyltransferase activity|nucleotide binding			ovary(1)|pancreas(1)	2	all_cancers(97;8.2e-11)|all_epithelial(106;1.1e-09)|Lung NSC(106;5.89e-05)|all_lung(105;0.000174)|Ovarian(258;0.0173)|Acute lymphoblastic leukemia(118;0.155)		OV - Ovarian serous cystadenocarcinoma(54;1.31e-40)|Epithelial(56;1.16e-39)|all cancers(56;6.43e-35)|Colorectal(110;0.055)|BRCA - Breast invasive adenocarcinoma(115;0.105)											0.33			2	4				---	---	---	---	capture_indel			Splice_Site_Ins	INS	145129969	145129970	11872	8	-	G	G	55	55	PARP10	G	5	5
