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	TCGAscape_Amplification_Peaks	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_judgement	validation_status	validation_method	validation_tumor_sample	validation_alt_allele	dataset	Oncotatorv0393GAF20hg19Feb2011dbSNPbuild132UniProtRelease2011_6	type	classification	start	end	gene	chr	ref_allele	tum_allele1	tum_allele2	newbase	context_orig	context65	gene_name	categ	categ_ignoring_null_categ
DHTKD1	55526	broad.mit.edu	37	10	12136103	12136103	+	Silent	SNP	C	T	T			TCGA-17-Z032-01	TCGA-17-Z032-01										Phase_I	Unspecified				Illumina GAIIx	g.chr10:12136103C>T	uc001ild.3	+	c.1191C>T	c.(1189-1191)GTC>GTT	p.V397V		NM_018706	NP_061176	Q96HY7	DHTK1_HUMAN	dehydrogenase E1 and transketolase domain	397					glycolysis|oxidation-reduction process	mitochondrion	oxoglutarate dehydrogenase (succinyl-transferring) activity|thiamine pyrophosphate binding			ovary(1)|central_nervous_system(1)	2		Renal(717;0.228)	BRCA - Breast invasive adenocarcinoma(52;0.188)											0.058252	-8.83747	12.235271	6	97	KEEP	---	---	---	---	capture		Silent	SNP	12136103	12136103	4679	10	C	T	T	T	366	29	DHTKD1	2	2
ACADSB	36	broad.mit.edu	37	10	124793961	124793961	+	Silent	SNP	A	T	T			TCGA-17-Z032-01	TCGA-17-Z032-01										Phase_I	Unspecified				Illumina GAIIx	g.chr10:124793961A>T	uc001lhb.2	+	c.132A>T	c.(130-132)ATA>ATT	p.I44I	ACADSB_uc010qub.1_5'UTR	NM_001609	NP_001600	P45954	ACDSB_HUMAN	acyl-Coenzyme A dehydrogenase, short/branched	44					branched chain family amino acid catabolic process|fatty acid metabolic process|oxidation-reduction process	mitochondrial matrix	flavin adenine dinucleotide binding			ovary(1)|central_nervous_system(1)	2		all_neural(114;0.0765)|Colorectal(57;0.102)|all_lung(145;0.11)|Lung NSC(174;0.163)		Colorectal(40;0.0811)|COAD - Colon adenocarcinoma(40;0.0835)	L-Isoleucine(DB00167)									0.576923	95.371609	95.645347	30	22	KEEP	---	---	---	---	capture		Silent	SNP	124793961	124793961	116	10	A	T	T	T	163	13	ACADSB	3	3
GPR123	84435	broad.mit.edu	37	10	134896057	134896057	+	Silent	SNP	C	T	T			TCGA-17-Z032-01	TCGA-17-Z032-01										Phase_I	Unspecified				Illumina GAIIx	g.chr10:134896057C>T	uc001llw.2	+	c.1143C>T	c.(1141-1143)GCC>GCT	p.A381A		GPR123		Q86SQ6	GP123_HUMAN	RecName: Full=Probable G-protein coupled receptor 123;	Error:Variant_position_missing_in_Q86SQ6_after_alignment						integral to membrane|plasma membrane	G-protein coupled receptor activity				0		all_cancers(35;1.8e-10)|all_epithelial(44;8.95e-09)|Lung NSC(174;0.000845)|all_lung(145;0.00144)|all_neural(114;0.0299)|Colorectal(31;0.0585)|Melanoma(40;0.123)|Glioma(114;0.203)		OV - Ovarian serous cystadenocarcinoma(35;9.16e-06)|Epithelial(32;1.21e-05)|all cancers(32;1.63e-05)										0.285714	6.147389	6.435628	2	5	KEEP	---	---	---	---	capture		Silent	SNP	134896057	134896057	6911	10	C	T	T	T	300	24	GPR123	2	2
C10orf71	118461	broad.mit.edu	37	10	50532115	50532115	+	Missense_Mutation	SNP	C	T	T			TCGA-17-Z032-01	TCGA-17-Z032-01										Phase_I	Unspecified				Illumina GAIIx	g.chr10:50532115C>T	uc010qgp.1	+	c.1525C>T	c.(1525-1527)CGT>TGT	p.R509C		NM_199459	NP_955629	Q711Q0	CJ071_HUMAN	hypothetical protein LOC118461 isoform 2	509											0														0.061404	-8.804632	14.030873	7	107	KEEP	---	---	---	---	capture		Missense_Mutation	SNP	50532115	50532115	1651	10	C	T	T	T	351	27	C10orf71	1	1
TET1	80312	broad.mit.edu	37	10	70446350	70446350	+	Missense_Mutation	SNP	G	A	A			TCGA-17-Z032-01	TCGA-17-Z032-01										Phase_I	Unspecified				Illumina GAIIx	g.chr10:70446350G>A	uc001jok.3	+	c.5290G>A	c.(5290-5292)GAG>AAG	p.E1764K		NM_030625	NP_085128	Q8NFU7	TET1_HUMAN	CXXC finger 6	1764					DNA demethylation|inner cell mass cell differentiation|oxidation-reduction process|stem cell maintenance	nucleus	iron ion binding|methylcytosine dioxygenase activity|oxidoreductase activity, acting on single donors with incorporation of molecular oxygen, incorporation of two atoms of oxygen|structure-specific DNA binding|zinc ion binding			ovary(5)	5										280				0.426966	115.594155	116.01574	38	51	KEEP	---	---	---	---	capture		Missense_Mutation	SNP	70446350	70446350	16296	10	G	A	A	A	429	33	TET1	2	2
PTEN	5728	broad.mit.edu	37	10	89711906	89711906	+	Missense_Mutation	SNP	T	A	A			TCGA-17-Z032-01	TCGA-17-Z032-01										Phase_I	Unspecified				Illumina GAIIx	g.chr10:89711906T>A	uc001kfb.2	+	c.524T>A	c.(523-525)GTG>GAG	p.V175E		NM_000314	NP_000305	P60484	PTEN_HUMAN	phosphatase and tensin homolog	175	Phosphatase tensin-type.				apoptosis|canonical Wnt receptor signaling pathway|cell proliferation|central nervous system development|induction of apoptosis|inositol phosphate dephosphorylation|negative regulation of cell migration|negative regulation of focal adhesion assembly|negative regulation of protein kinase B signaling cascade|negative regulation of protein phosphorylation|nerve growth factor receptor signaling pathway|phosphatidylinositol dephosphorylation|phosphatidylinositol-mediated signaling|positive regulation of sequence-specific DNA binding transcription factor activity|protein stabilization|regulation of cyclin-dependent protein kinase activity|regulation of neuron projection development|T cell receptor signaling pathway	cytosol|internal side of plasma membrane|PML body	enzyme binding|inositol-1,3,4,5-tetrakisphosphate 3-phosphatase activity|lipid binding|magnesium ion binding|PDZ domain binding|phosphatidylinositol-3,4,5-trisphosphate 3-phosphatase activity|phosphatidylinositol-3,4-bisphosphate 3-phosphatase activity|phosphatidylinositol-3-phosphatase activity|protein serine/threonine phosphatase activity|protein tyrosine phosphatase activity|protein tyrosine/serine/threonine phosphatase activity	p.V166fs*17(3)|p.G165fs*9(3)|p.Y27_N212>Y(2)|p.G165_K342del(1)|p.G165_*404del(1)|p.V175fs*3(1)|p.R172fs*5(1)		endometrium(831)|central_nervous_system(654)|skin(119)|haematopoietic_and_lymphoid_tissue(101)|prostate(97)|large_intestine(90)|breast(67)|lung(63)|ovary(58)|thyroid(29)|stomach(29)|upper_aerodigestive_tract(25)|cervix(21)|liver(20)|vulva(17)|kidney(15)|NS(14)|soft_tissue(12)|urinary_tract(12)|eye(8)|pancreas(6)|salivary_gland(5)|bone(5)|biliary_tract(4)|autonomic_ganglia(2)|meninges(2)|testis(1)|oesophagus(1)	2308		all_cancers(4;3.61e-31)|all_epithelial(4;3.96e-23)|Prostate(4;8.12e-23)|Breast(4;0.000111)|Melanoma(5;0.00146)|all_hematologic(4;0.00227)|Colorectal(252;0.00494)|all_neural(4;0.00513)|Acute lymphoblastic leukemia(4;0.0116)|Glioma(4;0.0274)|all_lung(38;0.132)	KIRC - Kidney renal clear cell carcinoma(1;0.214)	UCEC - Uterine corpus endometrioid carcinoma (6;0.000228)|all cancers(1;4.16e-84)|GBM - Glioblastoma multiforme(1;7.77e-49)|Epithelial(1;7.67e-41)|OV - Ovarian serous cystadenocarcinoma(1;6.22e-15)|BRCA - Breast invasive adenocarcinoma(1;1.1e-06)|Lung(2;3.18e-06)|Colorectal(12;4.88e-06)|LUSC - Lung squamous cell carcinoma(2;4.97e-06)|COAD - Colon adenocarcinoma(12;1.13e-05)|Kidney(1;0.000288)|KIRC - Kidney renal clear cell carcinoma(1;0.00037)|STAD - Stomach adenocarcinoma(243;0.218)				31		264	TCGA GBM(2;<1E-8)|TSP Lung(26;0.18)			0.145161	32.669807	47.68675	18	106	KEEP	---	---	---	---	capture		Missense_Mutation	SNP	89711906	89711906	13192	10	T	A	A	A	767	59	PTEN	3	3
CYP2C19	1557	broad.mit.edu	37	10	96602692	96602692	+	Missense_Mutation	SNP	G	A	A			TCGA-17-Z032-01	TCGA-17-Z032-01										Phase_I	Unspecified				Illumina GAIIx	g.chr10:96602692G>A	uc010qnz.1	+	c.1060G>A	c.(1060-1062)GAG>AAG	p.E354K	CYP2C19_uc010qny.1_Missense_Mutation_p.E332K	NM_000769	NP_000760	P33261	CP2CJ_HUMAN	cytochrome P450, family 2, subfamily C,	354					exogenous drug catabolic process|heterocycle metabolic process|monoterpenoid metabolic process|oxidation-reduction process|steroid metabolic process|xenobiotic metabolic process	endoplasmic reticulum membrane|microsome	(S)-limonene 6-monooxygenase activity|(S)-limonene 7-monooxygenase activity|4-hydroxyacetophenone monooxygenase activity|electron carrier activity|enzyme binding|heme binding|oxygen binding|steroid hydroxylase activity			ovary(4)|central_nervous_system(1)	5		Colorectal(252;0.09)		all cancers(201;6.02e-07)|KIRC - Kidney renal clear cell carcinoma(50;0.0672)|Kidney(138;0.0838)	Adinazolam(DB00546)|Aminophenazone(DB01424)|Amitriptyline(DB00321)|Amoxicillin(DB01060)|Arformoterol(DB01274)|Bortezomib(DB00188)|Carisoprodol(DB00395)|Chlorzoxazone(DB00356)|Cilostazol(DB01166)|Citalopram(DB00215)|Clarithromycin(DB01211)|Clobazam(DB00349)|Desipramine(DB01151)|Desloratadine(DB00967)|Diclofenac(DB00586)|Diltiazem(DB00343)|Efavirenz(DB00625)|Esomeprazole(DB00736)|Famotidine(DB00927)|Felbamate(DB00949)|Finasteride(DB01216)|Flunitrazepam(DB01544)|Fluvoxamine(DB00176)|Formoterol(DB00983)|Fosphenytoin(DB01320)|Guanfacine(DB01018)|Imipramine(DB00458)|Indomethacin(DB00328)|Ketoconazole(DB01026)|Lansoprazole(DB00448)|Lapatinib(DB01259)|Loratadine(DB00455)|Melatonin(DB01065)|Mephenytoin(DB00532)|Methadone(DB00333)|Methylphenobarbital(DB00849)|Moclobemide(DB01171)|Modafinil(DB00745)|Nelfinavir(DB00220)|Nicardipine(DB00622)|Nilutamide(DB00665)|Norgestrel(DB00506)|Omeprazole(DB00338)|Oxcarbazepine(DB00776)|Pantoprazole(DB00213)|Pentamidine(DB00738)|Phenobarbital(DB01174)|Phenytoin(DB00252)|Primidone(DB00794)|Progesterone(DB00396)|Proguanil(DB01131)|Promazine(DB00420)|Quinidine(DB00908)|Rabeprazole(DB01129)|Ranitidine(DB00863)|Ritonavir(DB00503)|Selegiline(DB01037)|Sertraline(DB01104)|Temazepam(DB00231)|Teniposide(DB00444)|Terfenadine(DB00342)|Thalidomide(DB01041)|Thioridazine(DB00679)|Ticlopidine(DB00208)|Tolbutamide(DB01124)|Topiramate(DB00273)|Tranylcypromine(DB00752)|Troglitazone(DB00197)|Troleandomycin(DB01361)|Voriconazole(DB00582)									0.06383	-5.28765	13.28022	6	88	KEEP	---	---	---	---	capture		Missense_Mutation	SNP	96602692	96602692	4331	10	G	A	A	A	481	37	CYP2C19	1	1
CNTN5	53942	broad.mit.edu	37	11	100170119	100170120	+	Missense_Mutation	DNP	GC	AA	AA			TCGA-17-Z032-01	TCGA-17-Z032-01										Phase_I	Unspecified				Illumina GAIIx	g.chr11:100170119_100170120GC>AA	uc001pga.2	+	c.2611_2612GC>AA	c.(2611-2613)GCT>AAT	p.A871N	CNTN5_uc001pfz.2_Missense_Mutation_p.A871N|CNTN5_uc001pgb.2_Missense_Mutation_p.A797N|CNTN5_uc010ruk.1_Missense_Mutation_p.A142N	NM_014361	NP_055176	O94779	CNTN5_HUMAN	contactin 5 isoform long	871					cell adhesion	anchored to membrane|plasma membrane	protein binding			skin(3)|ovary(2)|pancreas(2)|breast(1)	8		all_hematologic(158;1.22e-05)|Acute lymphoblastic leukemia(157;3.81e-05)|Melanoma(852;0.219)		BRCA - Breast invasive adenocarcinoma(274;0.00146)|KIRC - Kidney renal clear cell carcinoma(183;0.156)|Kidney(183;0.196)					p.A871P(GCT-Tumor)|p.A871P(NCIH1944-Tumor)|p.A871P(NCIH1568-Tumor)|p.A871P(VMRCRCW-Tumor)	1117				0.526316	96.851182	96.88536	30	27	KEEP	---	---	---	---	capture		Missense_Mutation	DNP	100170119	100170120	3782	11	GC	AA	AA	AA	442	34	CNTN5	2	2
OR4D5	219875	broad.mit.edu	37	11	123810832	123810832	+	Missense_Mutation	SNP	G	T	T			TCGA-17-Z032-01	TCGA-17-Z032-01										Phase_I	Unspecified				Illumina GAIIx	g.chr11:123810832G>T	uc001pzk.1	+	c.509G>T	c.(508-510)GGG>GTG	p.G170V		NM_001001965	NP_001001965	Q8NGN0	OR4D5_HUMAN	olfactory receptor, family 4, subfamily D,	170	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)	1		Breast(109;0.00867)|Medulloblastoma(222;0.0523)|Lung NSC(97;0.118)|all_lung(97;0.126)|all_neural(223;0.22)		BRCA - Breast invasive adenocarcinoma(274;4.88e-06)|OV - Ovarian serous cystadenocarcinoma(99;0.0399)										0.526316	117.19409	117.239316	40	36	KEEP	---	---	---	---	capture		Missense_Mutation	SNP	123810832	123810832	11464	11	G	T	T	T	559	43	OR4D5	2	2
TPH1	7166	broad.mit.edu	37	11	18042606	18042606	+	Nonsense_Mutation	SNP	C	A	A			TCGA-17-Z032-01	TCGA-17-Z032-01										Phase_I	Unspecified				Illumina GAIIx	g.chr11:18042606C>A	uc001mnp.2	-	c.1267G>T	c.(1267-1269)GAG>TAG	p.E423*	TPH1_uc009yhe.2_Non-coding_Transcript	NM_004179	NP_004170	P17752	TPH1_HUMAN	tryptophan hydroxylase 1	423					aromatic amino acid family metabolic process|hormone biosynthetic process|oxidation-reduction process|serotonin biosynthetic process	cytosol	amino acid binding|iron ion binding|tryptophan 5-monooxygenase activity				0					L-Tryptophan(DB00150)|Tetrahydrobiopterin(DB00360)					206				0.031915	-51.277073	16.307485	9	273	KEEP	---	---	---	---	capture		Nonsense_Mutation	SNP	18042606	18042606	16945	11	C	A	A	A	377	29	TPH1	5	2
ALX4	60529	broad.mit.edu	37	11	44296990	44296990	+	Silent	SNP	G	A	A			TCGA-17-Z032-01	TCGA-17-Z032-01										Phase_I	Unspecified				Illumina GAIIx	g.chr11:44296990G>A	uc001myb.2	-	c.685C>T	c.(685-687)CTG>TTG	p.L229L		NM_021926	NP_068745	Q9H161	ALX4_HUMAN	aristaless-like homeobox 4	229	Homeobox.				hair follicle development		transcription regulator activity				0														0.282799	263.133656	277.668235	97	246	KEEP	---	---	---	---	capture		Silent	SNP	44296990	44296990	561	11	G	A	A	A	438	34	ALX4	2	2
OR51L1	119682	broad.mit.edu	37	11	5020850	5020850	+	Nonsense_Mutation	SNP	C	G	G			TCGA-17-Z032-01	TCGA-17-Z032-01										Phase_I	Unspecified				Illumina GAIIx	g.chr11:5020850C>G	uc010qyu.1	+	c.638C>G	c.(637-639)TCA>TGA	p.S213*		NM_001004755	NP_001004755	Q8NGJ5	O51L1_HUMAN	olfactory receptor, family 51, subfamily L,	213	Helical; Name=5; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity				0		Medulloblastoma(188;0.0061)|all_neural(188;0.0479)|Breast(177;0.086)		Epithelial(150;1.75e-11)|BRCA - Breast invasive adenocarcinoma(625;0.0285)|LUSC - Lung squamous cell carcinoma(625;0.19)										0.105263	15.615608	33.268766	12	102	KEEP	---	---	---	---	capture		Nonsense_Mutation	SNP	5020850	5020850	11512	11	C	G	G	G	377	29	OR51L1	5	3
OR10AG1	282770	broad.mit.edu	37	11	55735807	55735807	+	Missense_Mutation	SNP	C	A	A			TCGA-17-Z032-01	TCGA-17-Z032-01										Phase_I	Unspecified				Illumina GAIIx	g.chr11:55735807C>A	uc010rit.1	-	c.133G>T	c.(133-135)GCT>TCT	p.A45S		NM_001005491	NP_001005491	Q8NH19	O10AG_HUMAN	olfactory receptor, family 10, subfamily AG,	45	Cytoplasmic (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity				0	Esophageal squamous(21;0.0137)													0.358209	73.483932	74.669043	24	43	KEEP	---	---	---	---	capture		Missense_Mutation	SNP	55735807	55735807	11303	11	C	A	A	A	351	27	OR10AG1	1	1
OR1S2	219958	broad.mit.edu	37	11	57970918	57970919	+	Nonsense_Mutation	DNP	CC	AT	AT			TCGA-17-Z032-01	TCGA-17-Z032-01										Phase_I	Unspecified				Illumina GAIIx	g.chr11:57970918_57970919CC>AT	uc010rkb.1	-	c.735_736GG>AT	c.(733-738)CAGGGA>CAATGA	p.G246*		NM_001004459	NP_001004459	Q8NGQ3	OR1S2_HUMAN	olfactory receptor, family 1, subfamily S,	246	Cytoplasmic (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)	1		Breast(21;0.0589)												0.268293	57.111719	61.087254	22	60	KEEP	---	---	---	---	capture		Nonsense_Mutation	DNP	57970918	57970919	11379	11	CC	AT	AT	AT	286	22	OR1S2	5	2
OR1S1	219959	broad.mit.edu	37	11	57983165	57983165	+	Missense_Mutation	SNP	C	T	T			TCGA-17-Z032-01	TCGA-17-Z032-01										Phase_I	Unspecified				Illumina GAIIx	g.chr11:57983165C>T	uc010rkc.1	+	c.949C>T	c.(949-951)CTC>TTC	p.L317F		NM_001004458	NP_001004458	Q8NH92	OR1S1_HUMAN	olfactory receptor, family 1, subfamily S,	317	Cytoplasmic (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			breast(1)	1		Breast(21;0.0589)												0.349593	120.687741	123.142913	43	80	KEEP	---	---	---	---	capture		Missense_Mutation	SNP	57983165	57983165	11378	11	C	T	T	T	364	28	OR1S1	2	2
OR52E4	390081	broad.mit.edu	37	11	5906390	5906391	+	Missense_Mutation	DNP	CC	AA	AA			TCGA-17-Z032-01	TCGA-17-Z032-01										Phase_I	Unspecified				Illumina GAIIx	g.chr11:5906390_5906391CC>AA	uc010qzs.1	+	c.868_869CC>AA	c.(868-870)CCT>AAT	p.P290N	TRIM5_uc001mbq.1_Intron	NM_001005165	NP_001005165	Q8NGH9	O52E4_HUMAN	olfactory receptor, family 52, subfamily E,	290	Helical; Name=7; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(2)	2		Medulloblastoma(188;0.00776)|all_neural(188;0.0652)|Breast(177;0.114)		Epithelial(150;1.24e-08)|BRCA - Breast invasive adenocarcinoma(625;0.135)										0.357143	104.994542	106.757548	35	63	KEEP	---	---	---	---	capture		Missense_Mutation	DNP	5906390	5906391	11526	11	CC	AA	AA	AA	286	22	OR52E4	2	2
OR4D10	390197	broad.mit.edu	37	11	59245666	59245666	+	Missense_Mutation	SNP	T	G	G			TCGA-17-Z032-01	TCGA-17-Z032-01										Phase_I	Unspecified				Illumina GAIIx	g.chr11:59245666T>G	uc001nnz.1	+	c.764T>G	c.(763-765)ATC>AGC	p.I255S		NM_001004705	NP_001004705	Q8NGI6	OR4DA_HUMAN	olfactory receptor, family 4, subfamily D,	255	Helical; Name=6; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(2)	2														0.354086	296.154489	300.975852	91	166	KEEP	---	---	---	---	capture		Missense_Mutation	SNP	59245666	59245666	11461	11	T	G	G	G	650	50	OR4D10	4	4
C11orf9	745	broad.mit.edu	37	11	61539137	61539137	+	Silent	SNP	G	A	A			TCGA-17-Z032-01	TCGA-17-Z032-01										Phase_I	Unspecified				Illumina GAIIx	g.chr11:61539137G>A	uc001nsc.1	+	c.906G>A	c.(904-906)CCG>CCA	p.P302P	C11orf9_uc001nse.1_Silent_p.P293P	NM_001127392	NP_001120864	Q9Y2G1	MRF_HUMAN	myelin gene regulatory factor isoform 2	302	NDT80.|Pro-rich.				central nervous system myelination|positive regulation of myelination|positive regulation of transcription, DNA-dependent	integral to membrane|nucleus	DNA binding|sequence-specific DNA binding transcription factor activity			breast(1)	1														0.442105	119.537622	119.814357	42	53	KEEP	---	---	---	---	capture		Silent	SNP	61539137	61539137	1711	11	G	A	A	A	483	38	C11orf9	1	1
FADS2	9415	broad.mit.edu	37	11	61608169	61608169	+	Missense_Mutation	SNP	T	C	C			TCGA-17-Z032-01	TCGA-17-Z032-01										Phase_I	Unspecified				Illumina GAIIx	g.chr11:61608169T>C	uc001nsl.1	+	c.590T>C	c.(589-591)GTC>GCC	p.V197A	FADS2_uc001nsj.2_Missense_Mutation_p.V175A|FADS2_uc010rlo.1_Missense_Mutation_p.V166A|FADS2_uc001nsk.2_Missense_Mutation_p.V197A	NM_004265	NP_004256	O95864	FADS2_HUMAN	fatty acid desaturase 2	197	Cytoplasmic (Potential).				electron transport chain|transport|unsaturated fatty acid biosynthetic process	endoplasmic reticulum membrane|integral to plasma membrane|membrane fraction	heme binding			ovary(1)|pancreas(1)	2					Alpha-Linolenic Acid(DB00132)									0.347826	143.567783	146.42978	48	90	KEEP	---	---	---	---	capture		Missense_Mutation	SNP	61608169	61608169	5563	11	T	C	C	C	754	58	FADS2	4	4
MLEC	9761	broad.mit.edu	37	12	121131964	121131964	+	Missense_Mutation	SNP	G	T	T			TCGA-17-Z032-01	TCGA-17-Z032-01										Phase_I	Unspecified				Illumina GAIIx	g.chr12:121131964G>T	uc001tyy.1	+	c.306G>T	c.(304-306)GAG>GAT	p.E102D		NM_014730	NP_055545	Q14165	MLEC_HUMAN	malectin precursor	102	Lumenal (Potential).				post-translational protein modification|protein folding|protein N-linked glycosylation via asparagine	endoplasmic reticulum membrane|integral to membrane	carbohydrate binding			ovary(1)	1														0.065217	-2.615101	6.418054	3	43	KEEP	---	---	---	---	capture		Missense_Mutation	SNP	121131964	121131964	10003	12	G	T	T	T	438	34	MLEC	2	2
LRP6	4040	broad.mit.edu	37	12	12339962	12339962	+	Missense_Mutation	SNP	T	C	C			TCGA-17-Z032-01	TCGA-17-Z032-01										Phase_I	Unspecified				Illumina GAIIx	g.chr12:12339962T>C	uc001rah.3	-	c.739A>G	c.(739-741)ATT>GTT	p.I247V	BCL2L14_uc001raf.1_Intron|LRP6_uc010shl.1_Missense_Mutation_p.I247V	NM_002336	NP_002327	O75581	LRP6_HUMAN	low density lipoprotein receptor-related protein	247	Extracellular (Potential).|Beta-propeller 1.|LDL-receptor class B 5.				cellular response to cholesterol|negative regulation of protein phosphorylation|negative regulation of protein serine/threonine kinase activity|negative regulation of smooth muscle cell apoptosis|neural crest formation|positive regulation of canonical Wnt receptor signaling pathway|positive regulation of cell cycle|positive regulation of gene-specific transcription from RNA polymerase II promoter|positive regulation of sequence-specific DNA binding transcription factor activity|positive regulation of Wnt receptor signaling pathway involved in dorsal/ventral axis specification|Wnt receptor signaling pathway involved in dorsal/ventral axis specification	cell surface|cytoplasmic vesicle|endoplasmic reticulum|integral to membrane|plasma membrane	coreceptor activity|frizzled binding|kinase inhibitor activity|low-density lipoprotein receptor activity|protein homodimerization activity|toxin transporter activity|Wnt-protein binding			skin(2)|ovary(1)|lung(1)|kidney(1)	5		Prostate(47;0.0865)								618				0.076923	-5.932241	13.348113	8	96	KEEP	---	---	---	---	capture		Missense_Mutation	SNP	12339962	12339962	9335	12	T	C	C	C	663	51	LRP6	4	4
DDX11	1663	broad.mit.edu	37	12	31236920	31236920	+	Silent	SNP	G	A	A			TCGA-17-Z032-01	TCGA-17-Z032-01										Phase_I	Unspecified				Illumina GAIIx	g.chr12:31236920G>A	uc001rjt.1	+	c.318G>A	c.(316-318)AGG>AGA	p.R106R	DDX11_uc010sjw.1_Silent_p.R106R|DDX11_uc010sjx.1_Non-coding_Transcript|DDX11_uc001rjr.1_Silent_p.R106R|DDX11_uc001rjs.1_Silent_p.R106R|DDX11_uc001rju.1_5'UTR|DDX11_uc001rjv.1_Silent_p.R106R|DDX11_uc001rjw.1_Silent_p.R80R	NM_152438	NP_689651	Q96FC9	DDX11_HUMAN	DEAD/H (Asp-Glu-Ala-Asp/His) box polypeptide 11	106	Helicase ATP-binding.				G2/M transition of mitotic cell cycle|interspecies interaction between organisms|mitotic sister chromatid segregation|positive regulation of cell proliferation|S phase of mitotic cell cycle|sister chromatid cohesion	midbody|nuclear chromatin|nucleolus|spindle pole	ATP binding|ATP-dependent DNA helicase activity|DNA binding|protein binding|RNA binding			breast(3)	3	all_cancers(9;1.77e-11)|all_lung(12;6.21e-11)|all_epithelial(9;6.49e-11)|Lung NSC(12;1.06e-08)|Acute lymphoblastic leukemia(23;0.0122)|all_hematologic(23;0.0429)|Lung SC(12;0.0592)|Esophageal squamous(101;0.233)										Multiple Myeloma(12;0.14)			0.440678	74.744729	74.924869	26	33	KEEP	---	---	---	---	capture		Silent	SNP	31236920	31236920	4514	12	G	A	A	A	542	42	DDX11	2	2
ACVR1B	91	broad.mit.edu	37	12	52377796	52377796	+	Nonsense_Mutation	SNP	G	A	A			TCGA-17-Z032-01	TCGA-17-Z032-01										Phase_I	Unspecified				Illumina GAIIx	g.chr12:52377796G>A	uc010snn.1	+	c.948G>A	c.(946-948)TGG>TGA	p.W316*	ACVR1B_uc001rzl.2_Nonsense_Mutation_p.W275*|ACVR1B_uc001rzm.2_Nonsense_Mutation_p.W275*|ACVR1B_uc001rzn.2_Nonsense_Mutation_p.W275*	NM_004302	NP_004293	P36896	ACV1B_HUMAN	activin A receptor, type IB isoform a precursor	275	Protein kinase.|Cytoplasmic (Potential).				G1/S transition of mitotic cell cycle|induction of apoptosis|negative regulation of cell growth|peptidyl-threonine phosphorylation|positive regulation of activin receptor signaling pathway|positive regulation of erythrocyte differentiation|protein autophosphorylation|transmembrane receptor protein serine/threonine kinase signaling pathway	cell surface	activin receptor activity, type I|ATP binding|metal ion binding|SMAD binding|transforming growth factor beta receptor activity|ubiquitin protein ligase binding	p.W275*(1)		pancreas(4)|ovary(1)|lung(1)|kidney(1)	7				BRCA - Breast invasive adenocarcinoma(357;0.104)	Adenosine triphosphate(DB00171)					117				0.407407	31.117006	31.319956	11	16	KEEP	---	---	---	---	capture		Nonsense_Mutation	SNP	52377796	52377796	222	12	G	A	A	A	533	41	ACVR1B	5	2
DCN	1634	broad.mit.edu	37	12	91572168	91572168	+	Silent	SNP	G	A	A			TCGA-17-Z032-01	TCGA-17-Z032-01										Phase_I	Unspecified				Illumina GAIIx	g.chr12:91572168G>A	uc001tbs.2	-	c.162C>T	c.(160-162)TGC>TGT	p.C54C	DCN_uc001tbo.2_Silent_p.C54C|DCN_uc001tbp.2_Silent_p.C54C|DCN_uc001tbq.2_Silent_p.C54C|DCN_uc001tbr.2_Silent_p.C54C|DCN_uc001tbt.2_Silent_p.C54C|DCN_uc001tbu.2_Silent_p.C54C	NM_133503	NP_598010	P07585	PGS2_HUMAN	decorin isoform a preproprotein	54	Cys-rich.				organ morphogenesis	extracellular space				central_nervous_system(2)|ovary(1)|lung(1)	4												OREG0022021	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	0.042373	-16.815646	9.705184	5	113	KEEP	---	---	---	---	capture		Silent	SNP	91572168	91572168	4468	12	G	A	A	A	542	42	DCN	2	2
DCUN1D2	55208	broad.mit.edu	37	13	114128538	114128538	+	Silent	SNP	G	A	A			TCGA-17-Z032-01	TCGA-17-Z032-01										Phase_I	Unspecified				Illumina GAIIx	g.chr13:114128538G>A	uc001vtr.1	-	c.421C>T	c.(421-423)CTG>TTG	p.L141L	DCUN1D2_uc001vts.1_Non-coding_Transcript|DCUN1D2_uc010agw.1_Silent_p.L8L	NM_001014283	NP_001014305	Q6PH85	DCNL2_HUMAN	DCN1, defective in cullin neddylation 1, domain	141	DCUN1.										0	Lung NSC(43;0.0161)|all_neural(89;0.0337)|Hepatocellular(20;0.0877)|Medulloblastoma(90;0.163)|Lung SC(71;0.218)	all_cancers(25;0.0395)|all_epithelial(44;0.011)|all_lung(25;0.0271)|Lung NSC(25;0.0977)|Breast(118;0.188)	all cancers(43;0.029)|GBM - Glioblastoma multiforme(44;0.234)											0.061611	-15.206808	27.138602	13	198	KEEP	---	---	---	---	capture		Silent	SNP	114128538	114128538	4485	13	G	A	A	A	425	33	DCUN1D2	2	2
AP1G2	8906	broad.mit.edu	37	14	24032623	24032623	+	Missense_Mutation	SNP	C	T	T			TCGA-17-Z032-01	TCGA-17-Z032-01										Phase_I	Unspecified				Illumina GAIIx	g.chr14:24032623C>T	uc001wkl.2	-	c.1376G>A	c.(1375-1377)CGC>CAC	p.R459H	AP1G2_uc001wkj.2_Missense_Mutation_p.R78H|AP1G2_uc001wkk.3_Missense_Mutation_p.R387H|AP1G2_uc001wkn.2_Missense_Mutation_p.R78H|AP1G2_uc001wkp.1_Non-coding_Transcript|AP1G2_uc010tnp.1_Missense_Mutation_p.R459H	NM_003917	NP_003908	O75843	AP1G2_HUMAN	adaptor-related protein complex 1, gamma 2	459					interspecies interaction between organisms|intracellular protein transport|vesicle-mediated transport	AP-1 adaptor complex|endosome membrane	protein binding|protein transporter activity			ovary(1)	1	all_cancers(95;0.000251)			GBM - Glioblastoma multiforme(265;0.00672)								OREG0022605	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	0.269231	17.320035	18.565504	7	19	KEEP	---	---	---	---	capture		Missense_Mutation	SNP	24032623	24032623	743	14	C	T	T	T	351	27	AP1G2	1	1
FOXG1	2290	broad.mit.edu	37	14	29237817	29237817	+	Silent	SNP	G	A	A			TCGA-17-Z032-01	TCGA-17-Z032-01										Phase_I	Unspecified				Illumina GAIIx	g.chr14:29237817G>A	uc001wqe.2	+	c.1332G>A	c.(1330-1332)TCG>TCA	p.S444S		NM_005249	NP_005240	P55316	FOXG1_HUMAN	forkhead box G1	444					axon midline choice point recognition|central nervous system neuron development|dorsal/ventral pattern formation|embryo development ending in birth or egg hatching|hindbrain development|inner ear morphogenesis|negative regulation of gene-specific transcription from RNA polymerase II promoter|negative regulation of neuron differentiation|nose development|positive regulation of cell cycle|positive regulation of neuroblast proliferation|positive regulation of transcription from RNA polymerase II promoter|regulation of mitotic cell cycle|regulation of sequence-specific DNA binding transcription factor activity|sensory cilium assembly|tissue development	transcription factor complex	DNA bending activity|double-stranded DNA binding|promoter binding|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			ovary(2)|lung(1)	3			LUAD - Lung adenocarcinoma(48;0.011)|Lung(238;0.0575)	GBM - Glioblastoma multiforme(265;0.00413)										0.113208	5.916748	13.738337	6	47	KEEP	---	---	---	---	capture		Silent	SNP	29237817	29237817	6252	14	G	A	A	A	483	38	FOXG1	1	1
C14orf104	55172	broad.mit.edu	37	14	50101405	50101405	+	Silent	SNP	G	T	T			TCGA-17-Z032-01	TCGA-17-Z032-01										Phase_I	Unspecified				Illumina GAIIx	g.chr14:50101405G>T	uc001wws.3	-	c.463C>A	c.(463-465)CGG>AGG	p.R155R	SDCCAG1_uc010anj.1_Intron|C14orf104_uc001wwt.3_Silent_p.R155R	NM_018139	NP_060609	Q9NVR5	KTU_HUMAN	kintoun isoform 1	155					axonemal dynein complex assembly|ciliary cell motility|flagellar cell motility	cytoplasm					0	all_epithelial(31;0.0021)|Breast(41;0.0124)													0.363636	23.895828	24.254991	8	14	KEEP	---	---	---	---	capture		Silent	SNP	50101405	50101405	1784	14	G	T	T	T	506	39	C14orf104	1	1
SYNE2	23224	broad.mit.edu	37	14	64518664	64518664	+	Missense_Mutation	SNP	G	C	C			TCGA-17-Z032-01	TCGA-17-Z032-01										Phase_I	Unspecified				Illumina GAIIx	g.chr14:64518664G>C	uc001xgl.2	+	c.8033G>C	c.(8032-8034)GGA>GCA	p.G2678A	SYNE2_uc001xgm.2_Missense_Mutation_p.G2678A	NM_182914	NP_878918	Q8WXH0	SYNE2_HUMAN	spectrin repeat containing, nuclear envelope 2	2678	Cytoplasmic (Potential).				centrosome localization|cytoskeletal anchoring at nuclear membrane|nuclear migration along microfilament|positive regulation of cell migration	cytoskeleton|filopodium membrane|focal adhesion|integral to membrane|lamellipodium membrane|mitochondrial part|nuclear outer membrane|nucleoplasm|sarcoplasmic reticulum membrane|SUN-KASH complex|Z disc	actin binding|protein binding			ovary(8)|breast(4)|central_nervous_system(1)|pancreas(1)	14				all cancers(60;0.00153)|OV - Ovarian serous cystadenocarcinoma(108;0.00444)|BRCA - Breast invasive adenocarcinoma(234;0.0681)										0.1	22.059836	54.015592	20	180	KEEP	---	---	---	---	capture		Missense_Mutation	SNP	64518664	64518664	15967	14	G	C	C	C	533	41	SYNE2	3	3
TRIP11	9321	broad.mit.edu	37	14	92470887	92470887	+	Missense_Mutation	SNP	T	A	A			TCGA-17-Z032-01	TCGA-17-Z032-01										Phase_I	Unspecified				Illumina GAIIx	g.chr14:92470887T>A	uc001xzy.2	-	c.3433A>T	c.(3433-3435)ACT>TCT	p.T1145S	TRIP11_uc010auf.1_Missense_Mutation_p.T881S	NM_004239	NP_004230	Q15643	TRIPB_HUMAN	thyroid hormone receptor interactor 11	1145	Potential.				transcription from RNA polymerase II promoter	cytoskeleton|Golgi apparatus|membrane|nucleus	protein binding|transcription coactivator activity			ovary(6)|kidney(2)|central_nervous_system(1)|breast(1)|skin(1)	11				COAD - Colon adenocarcinoma(157;0.223)		Ovarian(84;609 1888 9852 42686)				1481				0.269231	18.813952	20.063223	7	19	KEEP	---	---	---	---	capture		Missense_Mutation	SNP	92470887	92470887	17105	14	T	A	A	A	767	59	TRIP11	3	3
RYR3	6263	broad.mit.edu	37	15	33878260	33878260	+	Silent	SNP	G	A	A			TCGA-17-Z032-01	TCGA-17-Z032-01										Phase_I	Unspecified				Illumina GAIIx	g.chr15:33878260G>A	uc001zhi.2	+	c.1731G>A	c.(1729-1731)GCG>GCA	p.A577A	RYR3_uc010bar.2_Silent_p.A577A	NM_001036	NP_001027	Q15413	RYR3_HUMAN	ryanodine receptor 3	577	Cytoplasmic (By similarity).				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)		all cancers(64;8.95e-12)|GBM - Glioblastoma multiforme(186;0.00109)|BRCA - Breast invasive adenocarcinoma(123;0.0363)										0.202532	39.769113	46.251104	16	63	KEEP	---	---	---	---	capture		Silent	SNP	33878260	33878260	14250	15	G	A	A	A	496	39	RYR3	1	1
MGA	23269	broad.mit.edu	37	15	42052641	42052641	+	Nonsense_Mutation	SNP	G	T	T			TCGA-17-Z032-01	TCGA-17-Z032-01										Phase_I	Unspecified				Illumina GAIIx	g.chr15:42052641G>T	uc010ucy.1	+	c.7312G>T	c.(7312-7314)GAA>TAA	p.E2438*	MGA_uc010ucz.1_Nonsense_Mutation_p.E2229*|MGA_uc010uda.1_Nonsense_Mutation_p.E1054*	NM_001164273	NP_001157745	Q8IWI9	MGAP_HUMAN	MAX-interacting protein isoform 1	2399	Helix-loop-helix motif.				regulation of transcription, DNA-dependent	MLL1 complex	DNA binding|sequence-specific DNA binding transcription factor activity|transcription regulator activity			ovary(6)|kidney(3)|upper_aerodigestive_tract(1)|skin(1)	11		all_cancers(109;0.00356)|all_epithelial(112;0.0413)|all_lung(180;0.18)|Ovarian(310;0.238)		OV - Ovarian serous cystadenocarcinoma(18;1.41e-18)|GBM - Glioblastoma multiforme(113;2.15e-06)|COAD - Colon adenocarcinoma(120;0.031)|Lung(196;0.0721)|BRCA - Breast invasive adenocarcinoma(123;0.0964)|Colorectal(105;0.0998)|LUSC - Lung squamous cell carcinoma(244;0.235)						606				0.514019	165.132873	165.151641	55	52	KEEP	---	---	---	---	capture		Nonsense_Mutation	SNP	42052641	42052641	9930	15	G	T	T	T	585	45	MGA	5	2
SHF	90525	broad.mit.edu	37	15	45464514	45464514	+	Missense_Mutation	SNP	G	T	T			TCGA-17-Z032-01	TCGA-17-Z032-01										Phase_I	Unspecified				Illumina GAIIx	g.chr15:45464514G>T	uc001zuy.2	-	c.796C>A	c.(796-798)CAG>AAG	p.Q266K	SHF_uc010uen.1_Missense_Mutation_p.Q82K|SHF_uc010ueo.1_Missense_Mutation_p.Q82K|SHF_uc010uep.1_Missense_Mutation_p.Q82K|SHF_uc010ueq.1_Missense_Mutation_p.Q82K|SHF_uc010uer.1_Intron|SHF_uc010ues.1_Missense_Mutation_p.Q129K|SHF_uc010uet.1_Missense_Mutation_p.Q82K|SHF_uc010ueu.1_Missense_Mutation_p.Q129K	NM_138356	NP_612365	B3KTY1	B3KTY1_HUMAN	Src homology 2 domain containing F	266										ovary(1)	1		all_cancers(109;8.13e-11)|all_epithelial(112;6.29e-09)|Lung NSC(122;3.57e-06)|all_lung(180;2.56e-05)|Melanoma(134;0.027)		all cancers(107;4.1e-16)|GBM - Glioblastoma multiforme(94;5.98e-06)										0.061224	-3.517911	6.334049	3	46	KEEP	---	---	---	---	capture		Missense_Mutation	SNP	45464514	45464514	14769	15	G	T	T	T	611	47	SHF	2	2
WDR72	256764	broad.mit.edu	37	15	54015037	54015037	+	Missense_Mutation	SNP	G	C	C			TCGA-17-Z032-01	TCGA-17-Z032-01										Phase_I	Unspecified				Illumina GAIIx	g.chr15:54015037G>C	uc002acj.2	-	c.222C>G	c.(220-222)TTC>TTG	p.F74L	WDR72_uc010bfi.1_Missense_Mutation_p.F74L	NM_182758	NP_877435	Q3MJ13	WDR72_HUMAN	WD repeat domain 72	74	WD 2.									lung(1)	1				all cancers(107;0.0511)										0.098039	15.605634	40.348812	15	138	KEEP	---	---	---	---	capture		Missense_Mutation	SNP	54015037	54015037	17895	15	G	C	C	C	425	33	WDR72	3	3
AKAP13	11214	broad.mit.edu	37	15	86270342	86270342	+	Missense_Mutation	SNP	G	C	C			TCGA-17-Z032-01	TCGA-17-Z032-01										Phase_I	Unspecified				Illumina GAIIx	g.chr15:86270342G>C	uc002blu.1	+	c.6880G>C	c.(6880-6882)GAA>CAA	p.E2294Q	AKAP13_uc002blv.1_Missense_Mutation_p.E2290Q|AKAP13_uc010bnf.1_Missense_Mutation_p.E911Q|AKAP13_uc002blw.1_Missense_Mutation_p.E755Q|AKAP13_uc002blx.1_Missense_Mutation_p.E535Q	NM_006738	NP_006729	Q12802	AKP13_HUMAN	A-kinase anchor protein 13 isoform 1	2290	Interaction with ESR1.|PH.				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|membrane|membrane fraction|nucleus	cAMP-dependent protein kinase activity|metal ion binding|protein binding|Rho guanyl-nucleotide exchange factor activity|signal transducer activity			central_nervous_system(3)|kidney(2)|urinary_tract(1)|ovary(1)|liver(1)	8						Melanoma(94;603 1453 3280 32295 32951)								0.202128	97.944676	113.440344	38	150	KEEP	---	---	---	---	capture		Missense_Mutation	SNP	86270342	86270342	452	15	G	C	C	C	429	33	AKAP13	3	3
KIF7	374654	broad.mit.edu	37	15	90188652	90188652	+	Silent	SNP	C	A	A			TCGA-17-Z032-01	TCGA-17-Z032-01										Phase_I	Unspecified				Illumina GAIIx	g.chr15:90188652C>A	uc002bof.2	-	c.1953G>T	c.(1951-1953)GCG>GCT	p.A651A	KIF7_uc010upw.1_Silent_p.A138A	NM_198525	NP_940927	Q2M1P5	KIF7_HUMAN	kinesin family member 7	651					microtubule-based movement|negative regulation of smoothened signaling pathway|positive regulation of smoothened signaling pathway	cilium	ATP binding|microtubule motor activity|protein binding			ovary(1)	1	Lung NSC(78;0.0237)|all_lung(78;0.0478)		BRCA - Breast invasive adenocarcinoma(143;0.128)											0.442478	162.241871	162.566206	50	63	KEEP	---	---	---	---	capture		Silent	SNP	90188652	90188652	8620	15	C	A	A	A	288	23	KIF7	1	1
E4F1	1877	broad.mit.edu	37	16	2278466	2278466	+	Missense_Mutation	SNP	G	T	T			TCGA-17-Z032-01	TCGA-17-Z032-01										Phase_I	Unspecified				Illumina GAIIx	g.chr16:2278466G>T	uc002cpm.2	+	c.251G>T	c.(250-252)CGG>CTG	p.R84L	E4F1_uc010bsi.2_Missense_Mutation_p.R84L|E4F1_uc010bsj.2_Missense_Mutation_p.R84L	NM_004424	NP_004415	Q66K89	E4F1_HUMAN	p120E4F	84	Required for ubiquitin ligase activity.				cell division|cell proliferation|interspecies interaction between organisms|mitosis|regulation of growth|regulation of transcription, DNA-dependent	cytoplasm|nucleoplasm	DNA binding|ligase activity|protein binding|sequence-specific DNA binding transcription factor activity|transcription coactivator activity|transcription corepressor activity|zinc ion binding			ovary(1)	1														0.25	5.84768	6.301093	2	6	KEEP	---	---	---	---	capture		Missense_Mutation	SNP	2278466	2278466	5060	16	G	T	T	T	507	39	E4F1	1	1
CCDC135	84229	broad.mit.edu	37	16	57741439	57741439	+	Missense_Mutation	SNP	C	G	G			TCGA-17-Z032-01	TCGA-17-Z032-01										Phase_I	Unspecified				Illumina GAIIx	g.chr16:57741439C>G	uc002emi.2	+	c.926C>G	c.(925-927)TCG>TGG	p.S309W	CCDC135_uc002emj.2_Missense_Mutation_p.S309W|CCDC135_uc002emk.2_Missense_Mutation_p.S244W	NM_032269	NP_115645	Q8IY82	CC135_HUMAN	coiled-coil domain containing 135	309						cytoplasm				central_nervous_system(1)	1														0.5	7.3501	7.350099	2	2	KEEP	---	---	---	---	capture		Missense_Mutation	SNP	57741439	57741439	2889	16	C	G	G	G	403	31	CCDC135	3	3
AGRP	181	broad.mit.edu	37	16	67517006	67517006	+	Silent	SNP	G	C	C			TCGA-17-Z032-01	TCGA-17-Z032-01										Phase_I	Unspecified				Illumina GAIIx	g.chr16:67517006G>C	uc002etg.1	-	c.138C>G	c.(136-138)GGC>GGG	p.G46G	ATP6V0D1_uc002ete.1_5'Flank|ATP6V0D1_uc010vjo.1_5'Flank	NM_001138	NP_001129	O00253	AGRP_HUMAN	agouti related protein homolog isoform 1	46					hormone-mediated signaling pathway|neuropeptide signaling pathway|regulation of feeding behavior	extracellular space|Golgi lumen	neuropeptide hormone activity				0		Acute lymphoblastic leukemia(13;0.00263)|all_hematologic(13;0.0274)|Ovarian(137;0.0563)		OV - Ovarian serous cystadenocarcinoma(108;0.0717)|Epithelial(162;0.16)										0.264368	58.465058	62.849865	23	64	KEEP	---	---	---	---	capture		Silent	SNP	67517006	67517006	401	16	G	C	C	C	535	42	AGRP	3	3
HYDIN	54768	broad.mit.edu	37	16	71054178	71054178	+	Missense_Mutation	SNP	T	C	C	rs117718337	by1000genomes	TCGA-17-Z032-01	TCGA-17-Z032-01										Phase_I	Unspecified				Illumina GAIIx	g.chr16:71054178T>C	uc002ezr.2	-	c.3229A>G	c.(3229-3231)ATA>GTA	p.I1077V		NM_032821	NP_116210	Q4G0P3	HYDIN_HUMAN	hydrocephalus inducing isoform a	1077										ovary(1)	1		Ovarian(137;0.0654)												0.060976	-4.492671	12.010623	5	77	KEEP	---	---	---	---	capture		Missense_Mutation	SNP	71054178	71054178	7767	16	T	C	C	C	663	51	HYDIN	4	4
MYH1	4619	broad.mit.edu	37	17	10417174	10417174	+	Silent	SNP	G	A	A			TCGA-17-Z032-01	TCGA-17-Z032-01										Phase_I	Unspecified				Illumina GAIIx	g.chr17:10417174G>A	uc002gmo.2	-	c.705C>T	c.(703-705)AAC>AAT	p.N235N		NM_005963	NP_005954	P12882	MYH1_HUMAN	myosin, heavy chain 1, skeletal muscle, adult	235	Myosin head-like.					muscle myosin complex|myofibril|myosin filament	actin binding|ATP binding|calmodulin binding|motor activity			ovary(10)|breast(3)|kidney(1)|skin(1)	15										585				0.363636	127.783308	129.755891	44	77	KEEP	---	---	---	---	capture		Silent	SNP	10417174	10417174	10424	17	G	A	A	A	516	40	MYH1	1	1
MYH3	4621	broad.mit.edu	37	17	10542452	10542452	+	Nonsense_Mutation	SNP	T	A	A			TCGA-17-Z032-01	TCGA-17-Z032-01										Phase_I	Unspecified				Illumina GAIIx	g.chr17:10542452T>A	uc002gmq.1	-	c.3157A>T	c.(3157-3159)AAA>TAA	p.K1053*		NM_002470	NP_002461	P11055	MYH3_HUMAN	myosin, heavy chain 3, skeletal muscle,	1053	Potential.				muscle filament sliding|muscle organ development	cytosol|myofibril|myosin filament	actin binding|ATP binding|calmodulin binding|microfilament motor activity			ovary(4)|central_nervous_system(1)|pancreas(1)	6														0.313953	74.193072	76.84254	27	59	KEEP	---	---	---	---	capture		Nonsense_Mutation	SNP	10542452	10542452	10431	17	T	A	A	A	819	63	MYH3	5	3
BLMH	642	broad.mit.edu	37	17	28599790	28599790	+	Missense_Mutation	SNP	T	A	A			TCGA-17-Z032-01	TCGA-17-Z032-01										Phase_I	Unspecified				Illumina GAIIx	g.chr17:28599790T>A	uc002hez.1	-	c.929A>T	c.(928-930)AAG>ATG	p.K310M	BLMH_uc010wbn.1_Missense_Mutation_p.K223M	NM_000386	NP_000377	Q13867	BLMH_HUMAN	bleomycin hydrolase	310					proteolysis	cytoplasm|nucleus	aminopeptidase activity|carboxypeptidase activity|cysteine-type endopeptidase activity|protein binding			ovary(1)	1						Pancreas(127;628 1772 12912 33293 36203)								0.353448	118.48643	120.662939	41	75	KEEP	---	---	---	---	capture		Missense_Mutation	SNP	28599790	28599790	1471	17	T	A	A	A	728	56	BLMH	3	3
WNT9B	7484	broad.mit.edu	37	17	44950115	44950115	+	Missense_Mutation	SNP	G	A	A			TCGA-17-Z032-01	TCGA-17-Z032-01										Phase_I	Unspecified				Illumina GAIIx	g.chr17:44950115G>A	uc002ikw.1	+	c.310G>A	c.(310-312)GGC>AGC	p.G104S	WNT9B_uc002ikx.1_Missense_Mutation_p.G104S	NM_003396	NP_003387	O14905	WNT9B_HUMAN	wingless-type MMTV integration site family,	104					anterior/posterior pattern formation|axis specification|branching involved in ureteric bud morphogenesis|canonical Wnt receptor signaling pathway|cell-cell signaling|cellular response to retinoic acid|collecting duct development|cornea development in camera-type eye|endoderm development|establishment of planar polarity involved in nephron morphogenesis|kidney rudiment formation|male genitalia development|mesonephric duct formation|metanephric tubule development|negative regulation of gene-specific transcription from RNA polymerase II promoter|neuron differentiation|palate development|regulation of mesenchymal to epithelial transition involved in metanephros morphogenesis|uterus morphogenesis|Wnt receptor signaling pathway, calcium modulating pathway|Wnt receptor signaling pathway, planar cell polarity pathway	extracellular space|plasma membrane|proteinaceous extracellular matrix	extracellular matrix structural constituent|G-protein-coupled receptor binding				0			BRCA - Breast invasive adenocarcinoma(9;0.0257)											0.27027	27.141794	28.898162	10	27	KEEP	---	---	---	---	capture		Missense_Mutation	SNP	44950115	44950115	17973	17	G	A	A	A	559	43	WNT9B	2	2
WIPI1	55062	broad.mit.edu	37	17	66423293	66423293	+	Missense_Mutation	SNP	G	A	A			TCGA-17-Z032-01	TCGA-17-Z032-01										Phase_I	Unspecified				Illumina GAIIx	g.chr17:66423293G>A	uc010dey.2	-	c.1175C>T	c.(1174-1176)TCA>TTA	p.S392L	WIPI1_uc002jhd.3_Non-coding_Transcript|WIPI1_uc010wqo.1_Missense_Mutation_p.S310L|WIPI1_uc002jhe.3_Non-coding_Transcript|MIR635_hsa-mir-635|MI0003650_5'Flank	NM_017983	NP_060453	Q5MNZ9	WIPI1_HUMAN	WD repeat domain, phosphoinositide interacting	392					macroautophagy|vesicle targeting, trans-Golgi to endosome	autophagic vacuole membrane|clathrin-coated vesicle|cytosol|endosome membrane|PAS complex|pre-autophagosomal structure membrane|trans-Golgi network	androgen receptor binding|estrogen receptor binding|phosphatidylinositol-3,5-bisphosphate binding|phosphatidylinositol-3-phosphate binding				0														0.095238	0.481688	10.932562	6	57	KEEP	---	---	---	---	capture		Missense_Mutation	SNP	66423293	66423293	17944	17	G	A	A	A	585	45	WIPI1	2	2
TTYH2	94015	broad.mit.edu	37	17	72256305	72256305	+	Missense_Mutation	SNP	C	T	T			TCGA-17-Z032-01	TCGA-17-Z032-01										Phase_I	Unspecified				Illumina GAIIx	g.chr17:72256305C>T	uc002jkc.2	+	c.1562C>T	c.(1561-1563)GCG>GTG	p.A521V	TTYH2_uc010wqw.1_Missense_Mutation_p.A500V|TTYH2_uc002jkd.2_Missense_Mutation_p.A200V	NM_032646	NP_116035	Q9BSA4	TTYH2_HUMAN	tweety 2 isoform 1	521	Cytoplasmic (Potential).					chloride channel complex|plasma membrane	chloride channel activity|protein binding			ovary(3)|large_intestine(1)	4														0.091667	4.241535	24.391454	11	109	KEEP	---	---	---	---	capture		Missense_Mutation	SNP	72256305	72256305	17295	17	C	T	T	T	351	27	TTYH2	1	1
MBD1	4152	broad.mit.edu	37	18	47803524	47803524	+	Missense_Mutation	SNP	C	T	T			TCGA-17-Z032-01	TCGA-17-Z032-01										Phase_I	Unspecified				Illumina GAIIx	g.chr18:47803524C>T	uc010xdi.1	-	c.239G>A	c.(238-240)GGC>GAC	p.G80D	MBD1_uc002lef.2_5'Flank|MBD1_uc002leg.2_Missense_Mutation_p.G54D|MBD1_uc010dow.1_Missense_Mutation_p.G54D|MBD1_uc002leh.3_Missense_Mutation_p.G54D|MBD1_uc002len.2_Missense_Mutation_p.G54D|MBD1_uc002lei.3_Missense_Mutation_p.G54D|MBD1_uc002lej.3_Missense_Mutation_p.G54D|MBD1_uc002lek.3_Missense_Mutation_p.G54D|MBD1_uc002lel.3_Missense_Mutation_p.G54D|MBD1_uc002lem.3_Missense_Mutation_p.G54D|MBD1_uc010xdj.1_Missense_Mutation_p.G54D|MBD1_uc010xdk.1_Missense_Mutation_p.G54D|MBD1_uc010dox.1_Missense_Mutation_p.G54D|MBD1_uc002leo.2_Missense_Mutation_p.G54D	NM_015846	NP_056671	Q9UIS9	MBD1_HUMAN	methyl-CpG binding domain protein 1 isoform 1	54	MBD.				negative regulation of transcription, DNA-dependent|transcription from RNA polymerase II promoter	chromosome|nuclear speck	methyl-CpG binding|protein binding|sequence-specific DNA binding transcription factor activity|transcription corepressor activity|transcription repressor activity|zinc ion binding			ovary(1)|central_nervous_system(1)	2														0.301887	42.918586	44.754292	16	37	KEEP	---	---	---	---	capture		Missense_Mutation	SNP	47803524	47803524	9726	18	C	T	T	T	338	26	MBD1	2	2
PHLPP1	23239	broad.mit.edu	37	18	60645538	60645538	+	Missense_Mutation	SNP	G	A	A			TCGA-17-Z032-01	TCGA-17-Z032-01										Phase_I	Unspecified				Illumina GAIIx	g.chr18:60645538G>A	uc002lis.2	+	c.2492G>A	c.(2491-2493)GGC>GAC	p.G831D		NM_194449	NP_919431	O60346	PHLP1_HUMAN	PH domain and leucine rich repeat protein	1343	PP2C-like.				apoptosis|nerve growth factor receptor signaling pathway|phosphatidylinositol-mediated signaling	cytosol|membrane|nucleus	metal ion binding|protein serine/threonine phosphatase activity				0														0.564103	66.149334	66.288423	22	17	KEEP	---	---	---	---	capture		Missense_Mutation	SNP	60645538	60645538	12278	18	G	A	A	A	546	42	PHLPP1	2	2
SERPINB10	5273	broad.mit.edu	37	18	61600405	61600405	+	Silent	SNP	C	T	T			TCGA-17-Z032-01	TCGA-17-Z032-01										Phase_I	Unspecified				Illumina GAIIx	g.chr18:61600405C>T	uc010xev.1	+	c.757C>T	c.(757-759)CTA>TTA	p.L253L	SERPINB10_uc010xew.1_Silent_p.L253L	NM_005024	NP_005015	P48595	SPB10_HUMAN	serine (or cysteine) proteinase inhibitor, clade	253						cytoplasm|nucleus	serine-type endopeptidase inhibitor activity			lung(1)|kidney(1)	2		Esophageal squamous(42;0.131)												0.555556	280.388049	280.798487	85	68	KEEP	---	---	---	---	capture		Silent	SNP	61600405	61600405	14585	18	C	T	T	T	259	20	SERPINB10	2	2
ZNF407	55628	broad.mit.edu	37	18	72343705	72343705	+	Missense_Mutation	SNP	T	G	G			TCGA-17-Z032-01	TCGA-17-Z032-01										Phase_I	Unspecified				Illumina GAIIx	g.chr18:72343705T>G	uc002llw.2	+	c.730T>G	c.(730-732)TTT>GTT	p.F244V	ZNF407_uc010xfc.1_Missense_Mutation_p.F244V|ZNF407_uc010dqu.1_Missense_Mutation_p.F244V|ZNF407_uc002llu.2_Missense_Mutation_p.F243V	NM_017757	NP_060227	Q9C0G0	ZN407_HUMAN	zinc finger protein 407 isoform 1	244	C2H2-type 3.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(2)	2		Esophageal squamous(42;0.131)|Prostate(75;0.173)		BRCA - Breast invasive adenocarcinoma(31;0.184)										0.486957	177.689649	177.706853	56	59	KEEP	---	---	---	---	capture		Missense_Mutation	SNP	72343705	72343705	18480	18	T	G	G	G	728	56	ZNF407	4	4
CACNA1A	773	broad.mit.edu	37	19	13325397	13325397	+	Silent	SNP	G	A	A			TCGA-17-Z032-01	TCGA-17-Z032-01										Phase_I	Unspecified				Illumina GAIIx	g.chr19:13325397G>A	uc002mwy.3	-	c.5757C>T	c.(5755-5757)GAC>GAT	p.D1919D	CACNA1A_uc010xnd.1_Silent_p.D625D|CACNA1A_uc002mwx.3_Silent_p.D625D|CACNA1A_uc010dzc.2_Silent_p.D1445D|CACNA1A_uc010dze.2_Silent_p.D1920D|CACNA1A_uc002mwv.3_Silent_p.D436D	NM_001127222	NP_001120694	O00555	CAC1A_HUMAN	calcium channel, alpha 1A subunit isoform 4	1920	Cytoplasmic (Potential).				cell death|elevation of cytosolic calcium ion concentration|energy reserve metabolic process|membrane depolarization|regulation of insulin secretion	cytoplasm|nucleus	syntaxin binding			large_intestine(2)	2			OV - Ovarian serous cystadenocarcinoma(19;5.07e-21)		Bepridil(DB01244)|Cinnarizine(DB00568)|Loperamide(DB00836)|Nisoldipine(DB00401)|Pregabalin(DB00230)									0.371429	37.565649	38.074072	13	22	KEEP	---	---	---	---	capture		Silent	SNP	13325397	13325397	2654	19	G	A	A	A	516	40	CACNA1A	1	1
RASAL3	64926	broad.mit.edu	37	19	15572099	15572099	+	Silent	SNP	T	C	C			TCGA-17-Z032-01	TCGA-17-Z032-01										Phase_I	Unspecified				Illumina GAIIx	g.chr19:15572099T>C	uc002nbe.2	-	c.474A>G	c.(472-474)CGA>CGG	p.R158R		NM_022904	NP_075055	Q86YV0	RASL3_HUMAN	RAS protein activator like 3	158					negative regulation of Ras protein signal transduction|signal transduction	cytoplasm|intrinsic to internal side of plasma membrane	Ras GTPase activator activity				0														0.1	2.603724	7.397368	3	27	KEEP	---	---	---	---	capture		Silent	SNP	15572099	15572099	13526	19	T	C	C	C	795	62	RASAL3	4	4
ZNF14	7561	broad.mit.edu	37	19	19822504	19822504	+	Missense_Mutation	SNP	T	A	A			TCGA-17-Z032-01	TCGA-17-Z032-01										Phase_I	Unspecified				Illumina GAIIx	g.chr19:19822504T>A	uc002nnk.1	-	c.1586A>T	c.(1585-1587)AAG>ATG	p.K529M		NM_021030	NP_066358	P17017	ZNF14_HUMAN	zinc finger protein 14	529					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(3)	3		Renal(1328;0.0474)												0.320755	96.213441	99.238355	34	72	KEEP	---	---	---	---	capture		Missense_Mutation	SNP	19822504	19822504	18319	19	T	A	A	A	728	56	ZNF14	3	3
DOT1L	84444	broad.mit.edu	37	19	2210653	2210653	+	Missense_Mutation	SNP	G	T	T			TCGA-17-Z032-01	TCGA-17-Z032-01										Phase_I	Unspecified				Illumina GAIIx	g.chr19:2210653G>T	uc002lvb.3	+	c.1150G>T	c.(1150-1152)GCC>TCC	p.A384S	DOT1L_uc002lvc.1_5'Flank	NM_032482	NP_115871	Q8TEK3	DOT1L_HUMAN	DOT1-like, histone H3 methyltransferase	384						nucleus	DNA binding|histone-lysine N-methyltransferase activity|protein binding			pancreas(2)|upper_aerodigestive_tract(1)|lung(1)	4		Hepatocellular(1079;0.137)		UCEC - Uterine corpus endometrioid carcinoma (162;6.64e-05)|OV - Ovarian serous cystadenocarcinoma(105;1.09e-113)|Epithelial(107;3.79e-112)|all cancers(105;1.67e-104)|BRCA - Breast invasive adenocarcinoma(158;0.00136)|STAD - Stomach adenocarcinoma(1328;0.18)										0.344828	26.138686	26.756499	10	19	KEEP	---	---	---	---	capture		Missense_Mutation	SNP	2210653	2210653	4893	19	G	T	T	T	442	34	DOT1L	2	2
ZNF257	113835	broad.mit.edu	37	19	22271775	22271775	+	Missense_Mutation	SNP	C	A	A			TCGA-17-Z032-01	TCGA-17-Z032-01										Phase_I	Unspecified				Illumina GAIIx	g.chr19:22271775C>A	uc010ecx.2	+	c.1223C>A	c.(1222-1224)GCT>GAT	p.A408D	ZNF257_uc010ecy.2_Missense_Mutation_p.A376D	NM_033468	NP_258429	Q9Y2Q1	ZN257_HUMAN	zinc finger protein 257	408	C2H2-type 9; degenerate.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0		all_lung(12;0.0961)|Lung NSC(12;0.103)												0.103448	2.602738	7.143942	3	26	KEEP	---	---	---	---	capture		Missense_Mutation	SNP	22271775	22271775	18391	19	C	A	A	A	364	28	ZNF257	2	2
ZNF98	148198	broad.mit.edu	37	19	22574562	22574562	+	Missense_Mutation	SNP	C	A	A			TCGA-17-Z032-01	TCGA-17-Z032-01										Phase_I	Unspecified				Illumina GAIIx	g.chr19:22574562C>A	uc002nqt.2	-	c.1475G>T	c.(1474-1476)TGT>TTT	p.C492F		NM_001098626	NP_001092096	A6NK75	ZNF98_HUMAN	zinc finger protein 98	492	C2H2-type 12.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(1)	1		all_cancers(12;0.0536)|all_lung(12;0.00187)|Lung NSC(12;0.0019)|all_epithelial(12;0.00542)|Hepatocellular(1079;0.244)												0.046512	-10.276637	8.58666	4	82	KEEP	---	---	---	---	capture		Missense_Mutation	SNP	22574562	22574562	18807	19	C	A	A	A	221	17	ZNF98	2	2
TSHZ3	57616	broad.mit.edu	37	19	31770628	31770628	+	Missense_Mutation	SNP	G	A	A			TCGA-17-Z032-01	TCGA-17-Z032-01										Phase_I	Unspecified				Illumina GAIIx	g.chr19:31770628G>A	uc002nsy.3	-	c.71C>T	c.(70-72)GCC>GTC	p.A24V		NM_020856	NP_065907	Q63HK5	TSH3_HUMAN	zinc finger protein 537	24					regulation of respiratory gaseous exchange by neurological system process|regulation of transcription, DNA-dependent	growth cone|nucleus	chromatin binding|protein binding|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|transcription repressor activity|zinc ion binding			ovary(4)|pancreas(1)|lung(1)|skin(1)	7	Esophageal squamous(110;0.226)													0.327273	46.729028	48.185573	18	37	KEEP	---	---	---	---	capture		Missense_Mutation	SNP	31770628	31770628	17176	19	G	A	A	A	546	42	TSHZ3	2	2
UBA2	10054	broad.mit.edu	37	19	34925867	34925867	+	Missense_Mutation	SNP	C	G	G			TCGA-17-Z032-01	TCGA-17-Z032-01										Phase_I	Unspecified				Illumina GAIIx	g.chr19:34925867C>G	uc002nvk.2	+	c.453C>G	c.(451-453)ATC>ATG	p.I151M	UBA2_uc010xrx.1_Missense_Mutation_p.I24M|UBA2_uc002nvl.2_Missense_Mutation_p.I55M	NM_005499	NP_005490	Q9UBT2	SAE2_HUMAN	SUMO-1 activating enzyme subunit 2	151					protein sumoylation	nucleus	ATP binding|enzyme activator activity|ligase activity|metal ion binding|protein heterodimerization activity|SUMO activating enzyme activity			ovary(1)	1	Esophageal squamous(110;0.162)		LUSC - Lung squamous cell carcinoma(66;0.211)											0.333333	9.822105	10.043458	3	6	KEEP	---	---	---	---	capture		Missense_Mutation	SNP	34925867	34925867	17385	19	C	G	G	G	369	29	UBA2	3	3
ZNF461	92283	broad.mit.edu	37	19	37129906	37129906	+	Silent	SNP	C	T	T			TCGA-17-Z032-01	TCGA-17-Z032-01										Phase_I	Unspecified				Illumina GAIIx	g.chr19:37129906C>T	uc002oem.2	-	c.1341G>A	c.(1339-1341)GGG>GGA	p.G447G	ZNF461_uc002oen.2_Silent_p.G416G|ZNF461_uc010xtj.1_Silent_p.G424G	NM_153257	NP_694989	Q8TAF7	ZN461_HUMAN	gonadotropin inducible transcription repressor	447	C2H2-type 9.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0	Esophageal squamous(110;0.198)		COAD - Colon adenocarcinoma(19;0.0454)|Colorectal(19;0.065)											0.049383	-9.470634	7.994801	4	77	KEEP	---	---	---	---	capture		Silent	SNP	37129906	37129906	18518	19	C	T	T	T	379	30	ZNF461	2	2
ZNF567	163081	broad.mit.edu	37	19	37210537	37210537	+	Missense_Mutation	SNP	C	T	T			TCGA-17-Z032-01	TCGA-17-Z032-01										Phase_I	Unspecified				Illumina GAIIx	g.chr19:37210537C>T	uc010xtl.1	+	c.911C>T	c.(910-912)ACA>ATA	p.T304I	ZNF567_uc002oeo.1_Missense_Mutation_p.T304I|ZNF567_uc010xtk.1_Missense_Mutation_p.T304I|ZNF567_uc002oep.3_Missense_Mutation_p.T273I|ZNF567_uc002oeq.1_Missense_Mutation_p.T273I	NM_152603	NP_689816	Q8N184	ZN567_HUMAN	zinc finger protein 567	304					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0	Esophageal squamous(110;0.198)		COAD - Colon adenocarcinoma(19;0.0454)|Colorectal(19;0.065)											0.321429	48.627915	50.215225	18	38	KEEP	---	---	---	---	capture		Missense_Mutation	SNP	37210537	37210537	18593	19	C	T	T	T	221	17	ZNF567	2	2
MEIS3	56917	broad.mit.edu	37	19	47910197	47910197	+	Silent	SNP	C	T	T			TCGA-17-Z032-01	TCGA-17-Z032-01										Phase_I	Unspecified				Illumina GAIIx	g.chr19:47910197C>T	uc002pgq.2	-	c.1269G>A	c.(1267-1269)CAG>CAA	p.Q423Q	MEIS3_uc010xyp.1_Non-coding_Transcript|MEIS3_uc002pgo.2_Silent_p.Q141Q|MEIS3_uc002pgp.2_Silent_p.Q174Q|MEIS3_uc002pgr.2_Silent_p.Q210Q|MEIS3_uc002pgt.2_Silent_p.Q325Q|MEIS3_uc002pgu.2_Silent_p.Q342Q|MEIS3_uc002pgv.2_Silent_p.Q371Q|MEIS3_uc002pgs.2_Silent_p.Q388Q|MEIS3_uc010eld.2_Silent_p.Q388Q	NM_001009813	NP_001009813	Q99687	MEIS3_HUMAN	Meis1, myeloid ecotropic viral integration site	342					regulation of transcription, DNA-dependent	nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity				0		all_cancers(25;1.65e-09)|all_epithelial(76;9.95e-08)|all_lung(116;7.27e-07)|Lung NSC(112;1.6e-06)|Ovarian(192;0.0139)|all_neural(266;0.026)|Breast(70;0.0503)		all cancers(93;0.000198)|OV - Ovarian serous cystadenocarcinoma(262;0.000439)|Epithelial(262;0.0113)|GBM - Glioblastoma multiforme(486;0.0223)										0.545455	19.350515	19.370227	6	5	KEEP	---	---	---	---	capture		Silent	SNP	47910197	47910197	9858	19	C	T	T	T	363	28	MEIS3	2	2
CACNG8	59283	broad.mit.edu	37	19	54466466	54466466	+	Missense_Mutation	SNP	A	T	T			TCGA-17-Z032-01	TCGA-17-Z032-01										Phase_I	Unspecified				Illumina GAIIx	g.chr19:54466466A>T	uc002qcs.1	+	c.67A>T	c.(67-69)ACG>TCG	p.T23S		NM_031895	NP_114101	Q8WXS5	CCG8_HUMAN	voltage-dependent calcium channel gamma-8	24	Helical; (Potential).				regulation of alpha-amino-3-hydroxy-5-methyl-4-isoxazole propionate selective glutamate receptor activity|synaptic transmission	alpha-amino-3-hydroxy-5-methyl-4-isoxazolepropionic acid selective glutamate receptor complex|endocytic vesicle membrane|postsynaptic density|voltage-gated calcium channel complex	voltage-gated calcium channel activity				0	all_cancers(19;0.0385)|all_epithelial(19;0.0207)|all_lung(19;0.145)|Lung NSC(19;0.168)|Ovarian(34;0.19)			GBM - Glioblastoma multiforme(134;0.162)										0.384615	13.474958	13.625492	5	8	KEEP	---	---	---	---	capture		Missense_Mutation	SNP	54466466	54466466	2679	19	A	T	T	T	130	10	CACNG8	3	3
LILRB1	10859	broad.mit.edu	37	19	55144077	55144077	+	Missense_Mutation	SNP	C	A	A	rs61737881		TCGA-17-Z032-01	TCGA-17-Z032-01										Phase_I	Unspecified				Illumina GAIIx	g.chr19:55144077C>A	uc002qgm.2	+	c.824C>A	c.(823-825)GCT>GAT	p.A275D	LILRB1_uc010erp.1_Intron|LILRB1_uc002qgj.2_Missense_Mutation_p.A275D|LILRB1_uc002qgl.2_Missense_Mutation_p.A275D|LILRB1_uc002qgk.2_Missense_Mutation_p.A275D|LILRB1_uc010erq.2_Missense_Mutation_p.A275D|LILRB1_uc010err.2_Non-coding_Transcript	NM_001081637	NP_001075106	Q8NHL6	LIRB1_HUMAN	leukocyte immunoglobulin-like receptor,	275	Ig-like C2-type 3.|Extracellular (Potential).				regulation of immune response|response to virus	integral to membrane|plasma membrane	protein phosphatase 1 binding|receptor activity			large_intestine(1)|ovary(1)	2				GBM - Glioblastoma multiforme(193;0.0188)										0.306667	60.294108	62.79545	23	52	KEEP	---	---	---	---	capture		Missense_Mutation	SNP	55144077	55144077	9116	19	C	A	A	A	364	28	LILRB1	2	2
ZNF154	7710	broad.mit.edu	37	19	58213862	58213862	+	Missense_Mutation	SNP	T	A	A			TCGA-17-Z032-01	TCGA-17-Z032-01										Phase_I	Unspecified				Illumina GAIIx	g.chr19:58213862T>A	uc010euf.2	-	c.455A>T	c.(454-456)CAG>CTG	p.Q152L	ZNF776_uc002qpx.2_Intron|ZNF154_uc002qpy.2_Non-coding_Transcript	NM_001085384	NP_001078853	Q13106	ZN154_HUMAN	zinc finger protein 154	152	C2H2-type 2; degenerate.				regulation of transcription, DNA-dependent	nucleus	DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding				0		Colorectal(82;5.46e-05)|all_neural(62;0.0218)|Breast(46;0.0389)|Ovarian(87;0.0443)|Renal(1328;0.157)		UCEC - Uterine corpus endometrioid carcinoma (67;0.168)|GBM - Glioblastoma multiforme(193;0.0257)										0.300733	356.854526	371.36861	123	286	KEEP	---	---	---	---	capture		Missense_Mutation	SNP	58213862	58213862	18326	19	T	A	A	A	715	55	ZNF154	3	3
ZSCAN18	65982	broad.mit.edu	37	19	58601464	58601464	+	Silent	SNP	G	A	A			TCGA-17-Z032-01	TCGA-17-Z032-01										Phase_I	Unspecified				Illumina GAIIx	g.chr19:58601464G>A	uc010yht.1	-	c.339C>T	c.(337-339)TAC>TAT	p.Y113Y	ZSCAN18_uc002qrj.3_Silent_p.Y57Y|ZSCAN18_uc010yhs.1_Intron|ZSCAN18_uc002qri.2_Silent_p.Y57Y|ZSCAN18_uc002qrh.2_Silent_p.Y57Y|ZSCAN18_uc002qrk.1_Silent_p.Y57Y|ZSCAN18_uc002qrl.2_Silent_p.Y57Y	NM_001145542	NP_001139014	Q8TBC5	ZSC18_HUMAN	zinc finger and SCAN domain containing 18	57	SCAN box.				regulation of transcription, DNA-dependent|viral reproduction	nucleus	DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding				0		Colorectal(82;0.000256)|all_neural(62;0.0412)|Breast(46;0.114)|Ovarian(87;0.156)		UCEC - Uterine corpus endometrioid carcinoma (67;0.168)|GBM - Glioblastoma multiforme(193;0.0152)										0.2	8.287841	9.962813	4	16	KEEP	---	---	---	---	capture		Silent	SNP	58601464	58601464	18834	19	G	A	A	A	568	44	ZSCAN18	2	2
MTOR	2475	broad.mit.edu	37	1	11288885	11288885	+	Missense_Mutation	SNP	C	T	T			TCGA-17-Z032-01	TCGA-17-Z032-01										Phase_I	Unspecified				Illumina GAIIx	g.chr1:11288885C>T	uc001asd.2	-	c.2870G>A	c.(2869-2871)CGG>CAG	p.R957Q		NM_004958	NP_004949	P42345	MTOR_HUMAN	FK506 binding protein 12-rapamycin associated	957					cell growth|cellular response to hypoxia|insulin receptor signaling pathway|nerve growth factor receptor signaling pathway|peptidyl-serine phosphorylation|phosphatidylinositol-mediated signaling|protein autophosphorylation|protein catabolic process|response to amino acid stimulus|response to nutrient|T cell costimulation|TOR signaling cascade	endoplasmic reticulum membrane|Golgi membrane|lysosome|mitochondrial outer membrane|phosphatidylinositol 3-kinase complex|PML body|TORC1 complex|TORC2 complex	ATP binding|phosphoprotein binding|protein serine/threonine kinase activity			central_nervous_system(7)|ovary(4)|kidney(3)|large_intestine(2)|skin(2)|lung(1)	19										1389				0.353333	158.635232	161.478105	53	97	KEEP	---	---	---	---	capture		Missense_Mutation	SNP	11288885	11288885	10347	1	C	T	T	T	299	23	MTOR	1	1
PTCHD2	57540	broad.mit.edu	37	1	11591085	11591085	+	Missense_Mutation	SNP	C	T	T			TCGA-17-Z032-01	TCGA-17-Z032-01										Phase_I	Unspecified				Illumina GAIIx	g.chr1:11591085C>T	uc001ash.3	+	c.3224C>T	c.(3223-3225)CCT>CTT	p.P1075L		NM_020780	NP_065831	Q9P2K9	PTHD2_HUMAN	patched domain containing 2	1075	Extracellular (Potential).				cholesterol homeostasis|regulation of lipid transport|smoothened signaling pathway	endoplasmic reticulum|integral to membrane|nuclear membrane	hedgehog receptor activity			ovary(2)|pancreas(1)|breast(1)|skin(1)	5	Ovarian(185;0.249)	Lung NSC(185;4.16e-05)|all_lung(284;4.76e-05)|Renal(390;0.000147)|Breast(348;0.00093)|Colorectal(325;0.00205)|Hepatocellular(190;0.00913)|Ovarian(437;0.00965)|Myeloproliferative disorder(586;0.0255)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0228)|Colorectal(212;3.13e-07)|COAD - Colon adenocarcinoma(227;4.83e-05)|BRCA - Breast invasive adenocarcinoma(304;0.000325)|Kidney(185;0.000877)|KIRC - Kidney renal clear cell carcinoma(229;0.00273)|STAD - Stomach adenocarcinoma(313;0.00766)|READ - Rectum adenocarcinoma(331;0.0549)										0.304348	60.247757	62.605103	21	48	KEEP	---	---	---	---	capture		Missense_Mutation	SNP	11591085	11591085	13187	1	C	T	T	T	312	24	PTCHD2	2	2
HIST2H2BF	440689	broad.mit.edu	37	1	149783681	149783681	+	Silent	SNP	G	A	A			TCGA-17-Z032-01	TCGA-17-Z032-01										Phase_I	Unspecified				Illumina GAIIx	g.chr1:149783681G>A	uc010pbk.1	-	c.198C>T	c.(196-198)TTC>TTT	p.F66F	HIST2H2BF_uc010pbj.1_Silent_p.F66F|HIST2H2BF_uc001esr.2_Silent_p.F66F	NM_001024599	NP_001019770	Q5QNW6	H2B2F_HUMAN	histone cluster 2, H2bf isoform a	66					nucleosome assembly	nucleosome|nucleus	DNA binding				0	Breast(34;0.0124)|all_hematologic(923;0.127)													0.201183	154.540656	182.574266	68	270	KEEP	---	---	---	---	capture		Silent	SNP	149783681	149783681	7467	1	G	A	A	A	477	37	HIST2H2BF	1	1
HRNR	388697	broad.mit.edu	37	1	152192046	152192046	+	Missense_Mutation	SNP	T	G	G			TCGA-17-Z032-01	TCGA-17-Z032-01										Phase_I	Unspecified				Illumina GAIIx	g.chr1:152192046T>G	uc001ezt.1	-	c.2059A>C	c.(2059-2061)AGC>CGC	p.S687R		NM_001009931	NP_001009931	Q86YZ3	HORN_HUMAN	hornerin	687	7.				keratinization		calcium ion binding|protein binding			ovary(1)	1	Hepatocellular(266;0.0877)|Melanoma(130;0.116)|all_hematologic(923;0.127)		LUSC - Lung squamous cell carcinoma(543;0.206)											0.21831	72.644688	83.032957	31	111	KEEP	---	---	---	---	capture		Missense_Mutation	SNP	152192046	152192046	7653	1	T	G	G	G	728	56	HRNR	4	4
ASH1L	55870	broad.mit.edu	37	1	155451020	155451020	+	Missense_Mutation	SNP	G	C	C			TCGA-17-Z032-01	TCGA-17-Z032-01										Phase_I	Unspecified				Illumina GAIIx	g.chr1:155451020G>C	uc009wqq.2	-	c.1641C>G	c.(1639-1641)TTC>TTG	p.F547L	ASH1L_uc001fkt.2_Missense_Mutation_p.F547L|ASH1L_uc009wqr.1_Missense_Mutation_p.F547L	NM_018489	NP_060959	Q9NR48	ASH1L_HUMAN	absent, small, or homeotic 1-like	547					cell-cell signaling|DNA packaging|regulation of transcription, DNA-dependent|transcription from RNA polymerase II promoter	chromosome|Golgi apparatus|nucleus|tight junction	DNA binding|histone-lysine N-methyltransferase activity|RNA polymerase II transcription factor activity|zinc ion binding			ovary(2)|kidney(1)|central_nervous_system(1)|pancreas(1)	5	Hepatocellular(266;0.0997)|all_neural(408;0.129)|all_hematologic(923;0.145)		Epithelial(20;1.74e-08)|all cancers(21;3.29e-08)|BRCA - Breast invasive adenocarcinoma(34;0.021)											0.085106	7.181592	31.818144	12	129	KEEP	---	---	---	---	capture		Missense_Mutation	SNP	155451020	155451020	1060	1	G	C	C	C	581	45	ASH1L	3	3
TTC24	164118	broad.mit.edu	37	1	156554994	156554994	+	Missense_Mutation	SNP	C	T	T			TCGA-17-Z032-01	TCGA-17-Z032-01										Phase_I	Unspecified				Illumina GAIIx	g.chr1:156554994C>T	uc009wsc.1	+	c.587C>T	c.(586-588)CCG>CTG	p.P196L		NM_001105669	NP_001099139	A2A3L6	TTC24_HUMAN	tetratricopeptide repeat domain 24	476							binding			pancreas(1)	1	all_hematologic(923;0.088)|Hepatocellular(266;0.158)													0.178218	40.793346	50.635086	18	83	KEEP	---	---	---	---	capture		Missense_Mutation	SNP	156554994	156554994	17246	1	C	T	T	T	299	23	TTC24	1	1
RCSD1	92241	broad.mit.edu	37	1	167666482	167666482	+	Missense_Mutation	SNP	G	T	T			TCGA-17-Z032-01	TCGA-17-Z032-01										Phase_I	Unspecified				Illumina GAIIx	g.chr1:167666482G>T	uc001gem.2	+	c.621G>T	c.(619-621)TTG>TTT	p.L207F	RCSD1_uc010pli.1_Missense_Mutation_p.L177F	NM_052862	NP_443094	Q6JBY9	CPZIP_HUMAN	RCSD domain containing 1	207										ovary(2)|central_nervous_system(2)|skin(1)	5	all_hematologic(923;0.215)													0.251969	159.755245	173.97025	64	190	KEEP	---	---	---	---	capture		Missense_Mutation	SNP	167666482	167666482	13654	1	G	T	T	T	594	46	RCSD1	2	2
SELP	6403	broad.mit.edu	37	1	169582862	169582862	+	Missense_Mutation	SNP	G	A	A			TCGA-17-Z032-01	TCGA-17-Z032-01										Phase_I	Unspecified				Illumina GAIIx	g.chr1:169582862G>A	uc001ggi.3	-	c.551C>T	c.(550-552)TCC>TTC	p.S184F	SELP_uc001ggh.2_Missense_Mutation_p.S19F|SELP_uc009wvr.2_Missense_Mutation_p.S184F	NM_003005	NP_002996	P16109	LYAM3_HUMAN	selectin P precursor	184	Extracellular (Potential).|EGF-like.				defense response to Gram-negative bacterium|platelet activation|platelet degranulation|positive regulation of platelet activation|response to lipopolysaccharide	external side of plasma membrane|extracellular space|integral to plasma membrane|membrane fraction|platelet alpha granule membrane|platelet dense granule membrane|soluble fraction	fucose binding|glycosphingolipid binding|heparin binding|lipopolysaccharide binding|oligosaccharide binding|sialic acid binding			ovary(2)	2	all_hematologic(923;0.208)				Clopidogrel(DB00758)|Heparin(DB01109)|Tirofiban(DB00775)									0.073171	-2.619632	20.417987	9	114	KEEP	---	---	---	---	capture		Missense_Mutation	SNP	169582862	169582862	14505	1	G	A	A	A	533	41	SELP	2	2
RABGAP1L	9910	broad.mit.edu	37	1	174200395	174200395	+	Silent	SNP	A	G	G			TCGA-17-Z032-01	TCGA-17-Z032-01										Phase_I	Unspecified				Illumina GAIIx	g.chr1:174200395A>G	uc001gjx.2	+	c.444A>G	c.(442-444)GAA>GAG	p.E148E	RABGAP1L_uc009wwq.1_Silent_p.E148E|RABGAP1L_uc001gjw.2_Silent_p.E111E	NM_014857	NP_055672	Q5R372	RBG1L_HUMAN	RAB GTPase activating protein 1-like isoform A	148	PID.				regulation of protein localization	early endosome|Golgi apparatus|nucleus	Rab GTPase activator activity			ovary(2)|lung(1)|kidney(1)	4														0.283333	366.765521	384.461404	119	301	KEEP	---	---	---	---	capture		Silent	SNP	174200395	174200395	13424	1	A	G	G	G	37	3	RABGAP1L	4	4
PIGR	5284	broad.mit.edu	37	1	207110868	207110868	+	Missense_Mutation	SNP	A	G	G			TCGA-17-Z032-01	TCGA-17-Z032-01										Phase_I	Unspecified				Illumina GAIIx	g.chr1:207110868A>G	uc001hez.2	-	c.617T>C	c.(616-618)GTC>GCC	p.V206A	PIGR_uc009xbz.2_Missense_Mutation_p.V206A	NM_002644	NP_002635	P01833	PIGR_HUMAN	polymeric immunoglobulin receptor precursor	206	Ig-like V-type 2.|Extracellular (Potential).					extracellular region|integral to plasma membrane	protein binding			ovary(1)|central_nervous_system(1)	2														0.205882	53.122215	61.299942	21	81	KEEP	---	---	---	---	capture		Missense_Mutation	SNP	207110868	207110868	12321	1	A	G	G	G	130	10	PIGR	4	4
EIF4G3	8672	broad.mit.edu	37	1	21226345	21226345	+	Missense_Mutation	SNP	G	C	C			TCGA-17-Z032-01	TCGA-17-Z032-01										Phase_I	Unspecified				Illumina GAIIx	g.chr1:21226345G>C	uc001bef.2	-	c.1673C>G	c.(1672-1674)TCT>TGT	p.S558C	EIF4G3_uc010odi.1_Missense_Mutation_p.S163C|EIF4G3_uc010odj.1_Missense_Mutation_p.S558C|EIF4G3_uc009vpz.2_Missense_Mutation_p.S279C|EIF4G3_uc001bec.2_Missense_Mutation_p.S559C|EIF4G3_uc001bed.2_Missense_Mutation_p.S559C|EIF4G3_uc001bee.2_Missense_Mutation_p.S565C	NM_003760	NP_003751	O43432	IF4G3_HUMAN	eukaryotic translation initiation factor 4	559					interspecies interaction between organisms|regulation of translational initiation|RNA metabolic process	eukaryotic translation initiation factor 4F complex	protein binding|RNA cap binding|translation initiation factor activity				0		all_lung(284;2.61e-06)|Lung NSC(340;2.81e-06)|Colorectal(325;3.46e-05)|Renal(390;9.67e-05)|Breast(348;0.00149)|Ovarian(437;0.00338)|Myeloproliferative disorder(586;0.0256)		UCEC - Uterine corpus endometrioid carcinoma (279;0.023)|COAD - Colon adenocarcinoma(152;5.42e-05)|BRCA - Breast invasive adenocarcinoma(304;0.000327)|GBM - Glioblastoma multiforme(114;0.000696)|Kidney(64;0.0018)|STAD - Stomach adenocarcinoma(196;0.00644)|KIRC - Kidney renal clear cell carcinoma(64;0.0185)|READ - Rectum adenocarcinoma(331;0.124)|Lung(427;0.191)										0.050279	-15.081956	23.301497	9	170	KEEP	---	---	---	---	capture		Missense_Mutation	SNP	21226345	21226345	5229	1	G	C	C	C	429	33	EIF4G3	3	3
CENPF	1063	broad.mit.edu	37	1	214826278	214826278	+	Silent	SNP	C	T	T			TCGA-17-Z032-01	TCGA-17-Z032-01										Phase_I	Unspecified				Illumina GAIIx	g.chr1:214826278C>T	uc001hkm.2	+	c.8268C>T	c.(8266-8268)CTC>CTT	p.L2756L		NM_016343	NP_057427	P49454	CENPF_HUMAN	centromere protein F	2852	Potential.|Sufficient for self-association.|Sufficient for centromere localization.				cell differentiation|cell division|cell proliferation|DNA replication|G2 phase of mitotic cell cycle|kinetochore assembly|metaphase plate congression|mitotic cell cycle spindle assembly checkpoint|mitotic prometaphase|muscle organ development|negative regulation of transcription, DNA-dependent|protein transport|regulation of G2/M transition of mitotic cell cycle|regulation of striated muscle tissue development|response to drug	condensed chromosome outer kinetochore|cytosol|midbody|nuclear envelope|nuclear matrix|perinuclear region of cytoplasm|spindle pole	chromatin binding|dynein binding|protein C-terminus binding|protein homodimerization activity|transcription factor binding			ovary(6)|central_nervous_system(4)|large_intestine(2)	12				all cancers(67;0.00836)|OV - Ovarian serous cystadenocarcinoma(81;0.00855)|GBM - Glioblastoma multiforme(131;0.0694)|Epithelial(68;0.0833)		Colon(80;575 1284 11000 14801 43496)								0.038911	-41.382003	17.645369	10	247	KEEP	---	---	---	---	capture		Silent	SNP	214826278	214826278	3364	1	C	T	T	T	366	29	CENPF	2	2
HLX	3142	broad.mit.edu	37	1	221057861	221057861	+	Missense_Mutation	SNP	G	A	A			TCGA-17-Z032-01	TCGA-17-Z032-01										Phase_I	Unspecified				Illumina GAIIx	g.chr1:221057861G>A	uc001hmv.3	+	c.1282G>A	c.(1282-1284)GGC>AGC	p.G428S		NM_021958	NP_068777	Q14774	HLX_HUMAN	H2.0-like homeobox	428	Ser-rich.				cell differentiation|regulation of transcription, DNA-dependent	nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|transcription regulator activity			ovary(2)	2				GBM - Glioblastoma multiforme(131;0.00914)										0.48	38.8048	38.813038	12	13	KEEP	---	---	---	---	capture		Missense_Mutation	SNP	221057861	221057861	7507	1	G	A	A	A	507	39	HLX	1	1
OR6F1	343169	broad.mit.edu	37	1	247875704	247875704	+	Missense_Mutation	SNP	C	A	A			TCGA-17-Z032-01	TCGA-17-Z032-01										Phase_I	Unspecified				Illumina GAIIx	g.chr1:247875704C>A	uc001idj.1	-	c.354G>T	c.(352-354)ATG>ATT	p.M118I		NM_001005286	NP_001005286	Q8NGZ6	OR6F1_HUMAN	olfactory receptor, family 6, subfamily F,	118	Helical; Name=3; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity				0	all_cancers(71;3.24e-05)|all_epithelial(71;1.3e-05)|Breast(184;0.0149)|Ovarian(71;0.0377)|all_lung(81;0.0662)|Lung NSC(105;0.0724)		OV - Ovarian serous cystadenocarcinoma(106;0.0168)											0.246269	83.61309	91.464432	33	101	KEEP	---	---	---	---	capture		Missense_Mutation	SNP	247875704	247875704	11611	1	C	A	A	A	273	21	OR6F1	2	2
TRIM58	25893	broad.mit.edu	37	1	248039301	248039301	+	Missense_Mutation	SNP	A	T	T			TCGA-17-Z032-01	TCGA-17-Z032-01										Phase_I	Unspecified				Illumina GAIIx	g.chr1:248039301A>T	uc001ido.2	+	c.971A>T	c.(970-972)AAC>ATC	p.N324I	OR2W3_uc001idp.1_5'UTR	NM_015431	NP_056246	Q8NG06	TRI58_HUMAN	tripartite motif-containing 58	324	B30.2/SPRY.					intracellular	zinc ion binding			ovary(1)|lung(1)|central_nervous_system(1)|pancreas(1)	4	all_cancers(71;0.000139)|all_epithelial(71;1.58e-05)|Breast(184;0.0117)|Ovarian(71;0.0377)|all_lung(81;0.127)|Lung NSC(105;0.136)	all_cancers(173;0.0286)	OV - Ovarian serous cystadenocarcinoma(106;0.0319)											0.307087	205.466152	213.888271	78	176	KEEP	---	---	---	---	capture		Missense_Mutation	SNP	248039301	248039301	17077	1	A	T	T	T	26	2	TRIM58	3	3
OR2W3	343171	broad.mit.edu	37	1	248059181	248059181	+	Missense_Mutation	SNP	C	G	G			TCGA-17-Z032-01	TCGA-17-Z032-01										Phase_I	Unspecified				Illumina GAIIx	g.chr1:248059181C>G	uc001idp.1	+	c.293C>G	c.(292-294)GCC>GGC	p.A98G	OR2W3_uc010pzb.1_Missense_Mutation_p.A98G	NM_001001957	NP_001001957	Q7Z3T1	OR2W3_HUMAN	olfactory receptor, family 2, subfamily W,	98	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)|breast(1)|pancreas(1)	3	all_cancers(71;0.000139)|all_epithelial(71;1.58e-05)|Breast(184;0.0117)|Ovarian(71;0.0377)|all_lung(81;0.127)|Lung NSC(105;0.136)		OV - Ovarian serous cystadenocarcinoma(106;0.0319)											0.238579	119.622637	131.925516	47	150	KEEP	---	---	---	---	capture		Missense_Mutation	SNP	248059181	248059181	11439	1	C	G	G	G	338	26	OR2W3	3	3
OR2AK2	391191	broad.mit.edu	37	1	248129382	248129382	+	Missense_Mutation	SNP	C	A	A			TCGA-17-Z032-01	TCGA-17-Z032-01										Phase_I	Unspecified				Illumina GAIIx	g.chr1:248129382C>A	uc010pzd.1	+	c.749C>A	c.(748-750)GCA>GAA	p.A250E	OR2L13_uc001ids.2_Intron	NM_001004491	NP_001004491	Q8NG84	O2AK2_HUMAN	olfactory receptor, family 2, subfamily AK,	250	Cytoplasmic (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)|breast(1)	2	all_cancers(71;0.000139)|all_epithelial(71;1.58e-05)|Breast(184;0.0117)|Ovarian(71;0.0377)|all_lung(81;0.127)|Lung NSC(105;0.136)		OV - Ovarian serous cystadenocarcinoma(106;0.0152)			Melanoma(45;390 1181 23848 28461 41504)								0.241026	118.939471	130.863421	47	148	KEEP	---	---	---	---	capture		Missense_Mutation	SNP	248129382	248129382	11392	1	C	A	A	A	325	25	OR2AK2	2	2
OR2L3	391192	broad.mit.edu	37	1	248224035	248224035	+	Missense_Mutation	SNP	C	A	A			TCGA-17-Z032-01	TCGA-17-Z032-01										Phase_I	Unspecified				Illumina GAIIx	g.chr1:248224035C>A	uc001idx.1	+	c.52C>A	c.(52-54)CCA>ACA	p.P18T	OR2L13_uc001ids.2_Intron	NM_001004687	NP_001004687	Q8NG85	OR2L3_HUMAN	olfactory receptor, family 2, subfamily L,	18	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity				0	all_cancers(71;0.000149)|all_epithelial(71;1.27e-05)|Breast(184;0.00909)|Ovarian(71;0.0377)|all_lung(81;0.127)|Lung NSC(105;0.136)		OV - Ovarian serous cystadenocarcinoma(106;0.0278)											0.221978	249.846024	282.193631	101	354	KEEP	---	---	---	---	capture		Missense_Mutation	SNP	248224035	248224035	11414	1	C	A	A	A	286	22	OR2L3	2	2
CCDC27	148870	broad.mit.edu	37	1	3677865	3677865	+	Silent	SNP	G	T	T			TCGA-17-Z032-01	TCGA-17-Z032-01										Phase_I	Unspecified				Illumina GAIIx	g.chr1:3677865G>T	uc001akv.2	+	c.732G>T	c.(730-732)CTG>CTT	p.L244L		NM_152492	NP_689705	Q2M243	CCD27_HUMAN	coiled-coil domain containing 27	244	Potential.										0	all_cancers(77;0.0385)|Ovarian(185;0.0634)|Lung NSC(156;0.21)|all_lung(157;0.218)	all_epithelial(116;5.52e-17)|all_lung(118;1.04e-06)|Lung NSC(185;0.000214)|Renal(390;0.00357)|Breast(487;0.00446)|Hepatocellular(190;0.0218)|Lung SC(97;0.0367)|Myeloproliferative disorder(586;0.0393)|Ovarian(437;0.127)		Epithelial(90;1.11e-38)|OV - Ovarian serous cystadenocarcinoma(86;1.35e-22)|GBM - Glioblastoma multiforme(42;3.46e-16)|Colorectal(212;1.17e-05)|COAD - Colon adenocarcinoma(227;5.76e-05)|Kidney(185;0.00036)|BRCA - Breast invasive adenocarcinoma(365;0.000696)|KIRC - Kidney renal clear cell carcinoma(229;0.00558)|STAD - Stomach adenocarcinoma(132;0.00645)|Lung(427;0.203)										0.069767	-1.411673	6.808118	3	40	KEEP	---	---	---	---	capture		Silent	SNP	3677865	3677865	2923	1	G	T	T	T	600	47	CCDC27	2	2
DGCR2	9993	broad.mit.edu	37	22	19044613	19044613	+	Missense_Mutation	SNP	T	A	A			TCGA-17-Z032-01	TCGA-17-Z032-01										Phase_I	Unspecified				Illumina GAIIx	g.chr22:19044613T>A	uc002zoq.1	-	c.688A>T	c.(688-690)AAC>TAC	p.N230Y	DGCR2_uc002zor.1_Missense_Mutation_p.N6Y|DGCR2_uc011agr.1_Missense_Mutation_p.N186Y	NM_005137	NP_005128	P98153	IDD_HUMAN	integral membrane protein DGCR2 precursor	230	Extracellular (Potential).|C-type lectin.				cell adhesion|organ morphogenesis	integral to membrane	receptor activity|sugar binding			large_intestine(1)	1	Colorectal(54;0.0993)													0.30303	26.936855	28.080017	10	23	KEEP	---	---	---	---	capture		Missense_Mutation	SNP	19044613	19044613	4640	22	T	A	A	A	819	63	DGCR2	3	3
TUBGCP6	85378	broad.mit.edu	37	22	50660228	50660228	+	Missense_Mutation	SNP	C	A	A			TCGA-17-Z032-01	TCGA-17-Z032-01										Phase_I	Unspecified				Illumina GAIIx	g.chr22:50660228C>A	uc003bkb.1	-	c.2560G>T	c.(2560-2562)GCC>TCC	p.A854S	TUBGCP6_uc003bka.1_5'UTR|TUBGCP6_uc010har.1_Missense_Mutation_p.A846S|TUBGCP6_uc010has.1_Non-coding_Transcript|TUBGCP6_uc010hat.1_Missense_Mutation_p.A50S	NM_020461	NP_065194	Q96RT7	GCP6_HUMAN	tubulin, gamma complex associated protein 6	854					G2/M transition of mitotic cell cycle|microtubule nucleation	cytosol|gamma-tubulin ring complex|microtubule|spindle pole	microtubule binding			ovary(2)|central_nervous_system(2)	4		all_cancers(38;5.79e-13)|all_epithelial(38;1.71e-11)|all_lung(38;3.89e-05)|Breast(42;0.000523)|Lung NSC(38;0.000992)|Ovarian(80;0.0221)|Hepatocellular(38;0.0691)|Lung SC(80;0.113)		LUAD - Lung adenocarcinoma(64;0.109)|BRCA - Breast invasive adenocarcinoma(115;0.21)										0.09375	1.699417	7.009178	3	29	KEEP	---	---	---	---	capture		Missense_Mutation	SNP	50660228	50660228	17325	22	C	A	A	A	325	25	TUBGCP6	2	2
ROCK2	9475	broad.mit.edu	37	2	11375869	11375869	+	Silent	SNP	G	A	A			TCGA-17-Z032-01	TCGA-17-Z032-01										Phase_I	Unspecified				Illumina GAIIx	g.chr2:11375869G>A	uc002rbd.1	-	c.682C>T	c.(682-684)CTA>TTA	p.L228L		NM_004850	NP_004841	O75116	ROCK2_HUMAN	Rho-associated, coiled-coil containing protein	228	Protein kinase.				axon guidance|cytokinesis|intracellular signal transduction|protein phosphorylation	cytosol|plasma membrane	ATP binding|metal ion binding|protein binding|protein serine/threonine kinase activity|structural molecule activity			skin(2)|stomach(1)	3	all_hematologic(175;0.127)|Acute lymphoblastic leukemia(172;0.155)			Epithelial(75;0.137)|OV - Ovarian serous cystadenocarcinoma(76;0.162)						587				0.256545	132.05422	142.346687	49	142	KEEP	---	---	---	---	capture		Silent	SNP	11375869	11375869	13997	2	G	A	A	A	425	33	ROCK2	2	2
POTEF	728378	broad.mit.edu	37	2	130832621	130832621	+	Silent	SNP	G	T	T			TCGA-17-Z032-01	TCGA-17-Z032-01										Phase_I	Unspecified				Illumina GAIIx	g.chr2:130832621G>T	uc010fmh.2	-	c.2424C>A	c.(2422-2424)GCC>GCA	p.A808A		NM_001099771	NP_001093241	A5A3E0	POTEF_HUMAN	prostate, ovary, testis expressed protein on	808	Actin-like.					cell cortex	ATP binding			ovary(2)|skin(1)	3														0.340909	173.476287	177.399087	60	116	KEEP	---	---	---	---	capture		Silent	SNP	130832621	130832621	12695	2	G	T	T	T	600	47	POTEF	2	2
IFIH1	64135	broad.mit.edu	37	2	163174589	163174589	+	Missense_Mutation	SNP	G	C	C			TCGA-17-Z032-01	TCGA-17-Z032-01										Phase_I	Unspecified				Illumina GAIIx	g.chr2:163174589G>C	uc002uce.2	-	c.229C>G	c.(229-231)CGG>GGG	p.R77G	IFIH1_uc002ucf.2_Missense_Mutation_p.R77G	NM_022168	NP_071451	Q9BYX4	IFIH1_HUMAN	interferon induced with helicase C domain 1	77	CARD 1.				innate immune response|interspecies interaction between organisms|negative regulation of type I interferon production|regulation of apoptosis|response to virus	cytosol|nucleus	ATP binding|DNA binding|helicase activity|protein binding|ribonucleoprotein binding|RNA binding|zinc ion binding			ovary(1)	1														0.059701	-3.650628	9.930597	4	63	KEEP	---	---	---	---	capture		Missense_Mutation	SNP	163174589	163174589	7821	2	G	C	C	C	480	37	IFIH1	3	3
COL4A4	1286	broad.mit.edu	37	2	227924919	227924919	+	Silent	SNP	C	T	T			TCGA-17-Z032-01	TCGA-17-Z032-01										Phase_I	Unspecified				Illumina GAIIx	g.chr2:227924919C>T	uc010zlt.1	-	c.2097G>A	c.(2095-2097)CTG>CTA	p.L699L		NM_000092	NP_000083	P53420	CO4A4_HUMAN	alpha 4 type IV collagen precursor	699	Triple-helical region.				axon guidance|glomerular basement membrane development	basal lamina|collagen type IV	extracellular matrix structural constituent|protein binding			ovary(5)|central_nervous_system(3)|breast(1)|pancreas(1)	10		Renal(207;0.00844)|all_lung(227;0.0187)|Lung NSC(271;0.0879)|all_hematologic(139;0.21)|Esophageal squamous(248;0.242)		Epithelial(121;6.7e-11)|all cancers(144;5.39e-08)|Lung(261;0.0132)|LUSC - Lung squamous cell carcinoma(224;0.0181)										0.134831	16.634271	28.145098	12	77	KEEP	---	---	---	---	capture		Silent	SNP	227924919	227924919	3831	2	C	T	T	T	366	29	COL4A4	2	2
ITM2C	81618	broad.mit.edu	37	2	231740344	231740344	+	Missense_Mutation	SNP	G	C	C			TCGA-17-Z032-01	TCGA-17-Z032-01										Phase_I	Unspecified				Illumina GAIIx	g.chr2:231740344G>C	uc002vqz.2	+	c.271G>C	c.(271-273)GAT>CAT	p.D91H	ITM2C_uc002vra.2_Missense_Mutation_p.D44H|ITM2C_uc002vrb.2_Missense_Mutation_p.D91H|ITM2C_uc002vrc.2_5'UTR|ITM2C_uc002vrd.2_5'UTR	NM_030926	NP_112188	Q9NQX7	ITM2C_HUMAN	integral membrane protein 2C isoform 1	91					negative regulation of neuron projection development|neuron differentiation	Golgi apparatus|integral to membrane|lysosomal membrane|perinuclear region of cytoplasm	beta-amyloid binding				0		Renal(207;0.0112)|all_lung(227;0.0741)|all_hematologic(139;0.0748)|Acute lymphoblastic leukemia(138;0.167)|Lung NSC(271;0.204)		Epithelial(121;8.47e-12)|all cancers(144;3.44e-09)|LUSC - Lung squamous cell carcinoma(224;0.0115)|Lung(119;0.0142)										0.357143	95.927404	97.437112	30	54	KEEP	---	---	---	---	capture		Missense_Mutation	SNP	231740344	231740344	8218	2	G	C	C	C	429	33	ITM2C	3	3
TRAF3IP1	26146	broad.mit.edu	37	2	239234519	239234519	+	Silent	SNP	C	T	T			TCGA-17-Z032-01	TCGA-17-Z032-01										Phase_I	Unspecified				Illumina GAIIx	g.chr2:239234519C>T	uc002vye.2	+	c.262C>T	c.(262-264)CTG>TTG	p.L88L	TRAF3IP1_uc002vyf.2_Silent_p.L88L	NM_015650	NP_056465	Q8TDR0	MIPT3_HUMAN	TNF receptor-associated factor 3 interacting	88	Abolishes microtubules-binding when missing.					cytoplasm|cytoskeleton	protein binding			ovary(1)	1		all_epithelial(40;3.22e-10)|Breast(86;0.000523)|Renal(207;0.00571)|Ovarian(221;0.156)|all_hematologic(139;0.182)		Epithelial(121;9.92e-24)|OV - Ovarian serous cystadenocarcinoma(60;7.85e-12)|Kidney(56;3.21e-09)|KIRC - Kidney renal clear cell carcinoma(57;1.01e-07)|BRCA - Breast invasive adenocarcinoma(100;7.72e-05)|Lung(119;0.00942)|LUSC - Lung squamous cell carcinoma(224;0.0184)										0.153846	13.071737	19.02773	8	44	KEEP	---	---	---	---	capture		Silent	SNP	239234519	239234519	16984	2	C	T	T	T	259	20	TRAF3IP1	2	2
FANCL	55120	broad.mit.edu	37	2	58387257	58387257	+	Missense_Mutation	SNP	G	C	C			TCGA-17-Z032-01	TCGA-17-Z032-01										Phase_I	Unspecified				Illumina GAIIx	g.chr2:58387257G>C	uc002rzx.3	-	c.1093C>G	c.(1093-1095)CCA>GCA	p.P365A	FANCL_uc002rzw.3_Missense_Mutation_p.P360A|FANCL_uc010fce.2_Missense_Mutation_p.P332A|FANCL_uc010fcf.1_Missense_Mutation_p.P301A	NM_001114636	NP_001108108	Q9NW38	FANCL_HUMAN	Fanconi anemia, complementation group L isoform	360	RING-type.				DNA repair	cytoplasm|nucleoplasm	ubiquitin-protein ligase activity|zinc ion binding			ovary(2)	2										286				0.245902	43.995167	47.580715	15	46	KEEP	---	---	---	---	capture		Missense_Mutation	SNP	58387257	58387257	5906	2	G	C	C	C	533	41	FANCL	3	3
KIAA1841	84542	broad.mit.edu	37	2	61361278	61361278	+	Missense_Mutation	SNP	A	G	G			TCGA-17-Z032-01	TCGA-17-Z032-01										Phase_I	Unspecified				Illumina GAIIx	g.chr2:61361278A>G	uc002say.2	+	c.2035A>G	c.(2035-2037)AAA>GAA	p.K679E		NM_032506	NP_115895	Q6NSI8	K1841_HUMAN	KIAA1841 protein isoform b	Error:Variant_position_missing_in_Q6NSI8_after_alignment											0			Epithelial(17;0.193)											0.068966	-0.646298	10.488752	4	54	KEEP	---	---	---	---	capture		Missense_Mutation	SNP	61361278	61361278	8572	2	A	G	G	G	65	5	KIAA1841	4	4
TMSB10	9168	broad.mit.edu	37	2	85133174	85133174	+	Silent	SNP	C	G	G			TCGA-17-Z032-01	TCGA-17-Z032-01										Phase_I	Unspecified				Illumina GAIIx	g.chr2:85133174C>G	uc002sow.1	+	c.33C>G	c.(31-33)GCC>GCG	p.A11A		NM_021103	NP_066926	P63313	TYB10_HUMAN	thymosin, beta 10	11					actin cytoskeleton organization|sequestering of actin monomers	cytoplasm|cytoskeleton	actin binding				0														0.270833	35.652521	37.926976	13	35	KEEP	---	---	---	---	capture		Silent	SNP	85133174	85133174	16795	2	C	G	G	G	262	21	TMSB10	3	3
ADAM17	6868	broad.mit.edu	37	2	9683351	9683351	+	Missense_Mutation	SNP	G	A	A			TCGA-17-Z032-01	TCGA-17-Z032-01										Phase_I	Unspecified				Illumina GAIIx	g.chr2:9683351G>A	uc002qzu.2	-	c.161C>T	c.(160-162)TCG>TTG	p.S54L	ADAM17_uc010ewy.2_Missense_Mutation_p.S54L|ADAM17_uc010ewz.2_Missense_Mutation_p.S54L|ADAM17_uc010exb.1_Missense_Mutation_p.S54L|ADAM17_uc002qzv.2_Missense_Mutation_p.S54L	NM_003183	NP_003174	P78536	ADA17_HUMAN	a disintegrin and metalloprotease domain 17	54					B cell differentiation|cell adhesion mediated by integrin|epidermal growth factor receptor signaling pathway|epidermal growth factor receptor transactivation by G-protein coupled receptor signaling pathway|germinal center formation|membrane protein intracellular domain proteolysis|negative regulation of interleukin-8 production|nerve growth factor receptor signaling pathway|neutrophil mediated immunity|Notch signaling pathway|PMA-inducible membrane protein ectodomain proteolysis|positive regulation of cell growth|positive regulation of cell proliferation|positive regulation of chemokine production|positive regulation of cyclin-dependent protein kinase activity involved in G1/S|positive regulation of protein phosphorylation|positive regulation of T cell chemotaxis|positive regulation of transforming growth factor beta receptor signaling pathway|regulation of mast cell apoptosis|response to drug|response to high density lipoprotein particle stimulus|response to hypoxia|response to lipopolysaccharide|spleen development|T cell differentiation in thymus|wound healing, spreading of epidermal cells	actin cytoskeleton|apical plasma membrane|cell surface|cytoplasm|integral to plasma membrane|membrane raft	integrin binding|interleukin-6 receptor binding|metalloendopeptidase activity|PDZ domain binding|SH3 domain binding|zinc ion binding			kidney(1)	1	all_hematologic(175;0.127)|Acute lymphoblastic leukemia(172;0.155)			Epithelial(75;0.225)						267				0.046296	-13.010542	10.69872	5	103	KEEP	---	---	---	---	capture		Missense_Mutation	SNP	9683351	9683351	239	2	G	A	A	A	481	37	ADAM17	1	1
KCNH8	131096	broad.mit.edu	37	3	19574962	19574962	+	Silent	SNP	C	T	T			TCGA-17-Z032-01	TCGA-17-Z032-01										Phase_I	Unspecified				Illumina GAIIx	g.chr3:19574962C>T	uc003cbk.1	+	c.2695C>T	c.(2695-2697)CTG>TTG	p.L899L	KCNH8_uc010hex.1_Silent_p.L360L	NM_144633	NP_653234	Q96L42	KCNH8_HUMAN	potassium voltage-gated channel, subfamily H,	899	Cytoplasmic (Potential).				regulation of transcription, DNA-dependent	integral to membrane	two-component sensor activity			ovary(1)	1						NSCLC(124;1625 1765 8018 24930 42026)								0.054348	-8.704161	10.556022	5	87	KEEP	---	---	---	---	capture		Silent	SNP	19574962	19574962	8343	3	C	T	T	T	415	32	KCNH8	2	2
GOLGA4	2803	broad.mit.edu	37	3	37365369	37365369	+	Silent	SNP	C	T	T			TCGA-17-Z032-01	TCGA-17-Z032-01										Phase_I	Unspecified				Illumina GAIIx	g.chr3:37365369C>T	uc003cgw.2	+	c.2058C>T	c.(2056-2058)TTC>TTT	p.F686F	GOLGA4_uc010hgr.1_Silent_p.F225F|GOLGA4_uc003cgv.2_Silent_p.F664F|GOLGA4_uc010hgs.2_Intron|GOLGA4_uc003cgx.2_Silent_p.F545F	NM_002078	NP_002069	Q13439	GOGA4_HUMAN	golgi autoantigen, golgin subfamily a, 4	664	Potential.|Glu-rich.				vesicle-mediated transport	Golgi membrane|trans-Golgi network				ovary(2)|breast(1)|central_nervous_system(1)	4														0.086207	1.628066	11.691314	5	53	KEEP	---	---	---	---	capture		Silent	SNP	37365369	37365369	6824	3	C	T	T	T	389	30	GOLGA4	2	2
CTNNB1	1499	broad.mit.edu	37	3	41266113	41266113	+	Missense_Mutation	SNP	C	T	T			TCGA-17-Z032-01	TCGA-17-Z032-01										Phase_I	Unspecified				Illumina GAIIx	g.chr3:41266113C>T	uc010hia.1	+	c.110C>T	c.(109-111)TCT>TTT	p.S37F	CTNNB1_uc003ckp.2_Missense_Mutation_p.S37F|CTNNB1_uc003ckq.2_Missense_Mutation_p.S37F|CTNNB1_uc003ckr.2_Missense_Mutation_p.S37F|CTNNB1_uc011azf.1_Missense_Mutation_p.S30F|CTNNB1_uc011azg.1_Intron	NM_001904	NP_001895	P35222	CTNB1_HUMAN	beta-catenin	37			S -> C (in PTR, hepatoblastoma and ovarian cancer).|SG -> W (in hepatocellular carcinoma).|S -> F (in PTR).|S -> A (in MDB and hepatocellular carcinoma; enhances transactivation of target genes).|S -> Y (in hepatocellular carcinoma).		adherens junction assembly|androgen receptor signaling pathway|branching involved in ureteric bud morphogenesis|canonical Wnt receptor signaling pathway involved in negative regulation of apoptosis|canonical Wnt receptor signaling pathway involved in positive regulation of epithelial to mesenchymal transition|cell-cell adhesion|cell-matrix adhesion|cellular component disassembly involved in apoptosis|cellular response to growth factor stimulus|cellular response to indole-3-methanol|central nervous system vasculogenesis|cytoskeletal anchoring at plasma membrane|determination of dorsal/ventral asymmetry|dorsal/ventral axis specification|ectoderm development|embryonic axis specification|embryonic foregut morphogenesis|endodermal cell fate commitment|endothelial tube morphogenesis|epithelial to mesenchymal transition|gastrulation with mouth forming second|glial cell fate determination|hair follicle morphogenesis|hair follicle placode formation|hindbrain development|liver development|lung cell differentiation|lung induction|lung-associated mesenchyme development|male genitalia development|mesenchymal cell proliferation involved in lung development|mesenchymal to epithelial transition involved in metanephros morphogenesis|negative regulation of cell proliferation|negative regulation of chondrocyte differentiation|negative regulation of heart induction by canonical Wnt receptor signaling pathway|negative regulation of osteoclast differentiation|negative regulation of transcription from RNA polymerase II promoter|nephron tubule formation|odontogenesis of dentine-containing tooth|oocyte development|pancreas development|patterning of blood vessels|positive regulation of anti-apoptosis|positive regulation of apoptosis|positive regulation of branching involved in lung morphogenesis|positive regulation of epithelial cell proliferation involved in prostate gland development|positive regulation of fibroblast growth factor receptor signaling pathway|positive regulation of gene-specific transcription from RNA polymerase II promoter|positive regulation of heparan sulfate proteoglycan biosynthetic process|positive regulation of I-kappaB kinase/NF-kappaB cascade|positive regulation of MAPKKK cascade|positive regulation of muscle cell differentiation|positive regulation of osteoblast differentiation|protein localization at cell surface|proximal/distal pattern formation|regulation of angiogenesis|regulation of calcium ion import|regulation of centriole-centriole cohesion|regulation of centromeric sister chromatid cohesion|regulation of fibroblast proliferation|regulation of protein localization at cell surface|regulation of smooth muscle cell proliferation|regulation of T cell proliferation|renal inner medulla development|renal outer medulla development|renal vesicle formation|response to drug|response to estradiol stimulus|Schwann cell proliferation|smooth muscle cell differentiation|synapse organization|synaptic vesicle transport|T cell differentiation in thymus|thymus development|trachea formation	APC-Axin-1-beta-catenin complex|Axin-APC-beta-catenin-GSK3B complex|beta-catenin-TCF7L2 complex|catenin complex|cell cortex|cell-substrate adherens junction|centrosome|dendritic shaft|desmosome|fascia adherens|internal side of plasma membrane|lamellipodium|lateral plasma membrane|microvillus membrane|perinuclear region of cytoplasm|protein-DNA complex|synapse|transcription factor complex|Z disc|zonula adherens	alpha-catenin binding|androgen receptor binding|cadherin binding|estrogen receptor binding|I-SMAD binding|ion channel binding|promoter binding|protein binding|protein C-terminus binding|protein kinase binding|protein phosphatase binding|R-SMAD binding|RPTP-like protein binding|signal transducer activity|specific RNA polymerase II transcription factor activity|structural molecule activity|transcription coactivator activity|transcription repressor activity	p.S37F(145)|p.S37C(122)|p.A5_A80del(74)|p.S37Y(23)|p.H24_S47del(18)|p.A5_Q143del(7)|p.A5_A80>D(7)|p.Q28_H134del(5)|p.W25_I140del(5)|p.V22_L139>V(4)|p.V22_G38del(3)|p.A5_Q72del(2)|p.A20_Q143del(2)|p.T3_A126del(2)|p.A5_R90del(2)|p.E9_S47del(2)|p.M8_G50del(2)|p.A5fs*7(2)|p.D6_A43del(2)|p.A5_D144>D(2)|p.V22_G80>NNNNN(2)|p.A5_T42del(2)|p.D6_K133del(2)|p.M5_N141>D(2)|p.W25_A80del(2)|p.?(2)|p.D17_P128del(2)|p.A20_R151del(2)|p.E9_A80del(2)|p.K19_Y142>V(2)|p.D17_A126del(2)|p.W25_H36del(2)|p.A20_L148del(2)|p.V22_A80del(2)|p.L7_I140del(2)|p.E9_I140del(2)|p.A20_Q72del(2)|p.D6_I140del(2)|p.L10_N141del(2)|p.A5_Y142>D(2)|p.Q28_I140del(2)|p.M1_T42del(2)|p.S23_I140del(2)|p.A5_Q143>E(1)|p.A13_R151del(1)|p.H36_E53>L(1)|p.M14_S45del(1)|p.A20_N141del(1)|p.M1_A87del(1)|p.D11_Y142>H(1)|p.D32_S47del(1)|p.I35_K170del(1)|p.H24_G38del(1)|p.S37P(1)|p.I35_T41del(1)|p.I35_G38del(1)|p.Y30_A97del(1)|p.V22_T102del(1)|p.A20_A80del(1)|p.V22_S71>A(1)|p.Q28_A43del(1)|p.A5_T59del(1)|p.M1_V173del(1)|p.E15_I140>V(1)|p.S23_A39del(1)|p.H24_M131del(1)|p.A21_A80del(1)|p.D32fs*9(1)|p.A5_T40del(1)|p.A5_E54del(1)|p.S23_S33del(1)|p.S33_S37del(1)|p.M8_A80del(1)|p.P16_K133del(1)|p.V22_Y64del(1)|p.G34_S37del(1)|p.Q28_Q61del(1)|p.A20_S111del(1)|p.Y30_T40del(1)|p.GIHS34?(1)|p.S37_G38>W(1)|p.Y30_A80del(1)		liver(787)|soft_tissue(609)|large_intestine(228)|endometrium(222)|kidney(172)|stomach(157)|central_nervous_system(127)|ovary(101)|skin(97)|pancreas(91)|pituitary(81)|haematopoietic_and_lymphoid_tissue(57)|thyroid(55)|adrenal_gland(49)|biliary_tract(41)|lung(33)|prostate(24)|bone(20)|small_intestine(17)|cervix(9)|parathyroid(9)|urinary_tract(8)|breast(7)|oesophagus(5)|NS(3)|pleura(2)|upper_aerodigestive_tract(2)|salivary_gland(2)|eye(1)	3016				KIRC - Kidney renal clear cell carcinoma(284;0.0028)|Kidney(284;0.00294)	Lithium(DB01356)	Colon(6;3 56 14213 18255)	S37F(HUTU80_SMALL_INTESTINE)|S37C(SNU398_LIVER)|S37C(JHUEM2_ENDOMETRIUM)	15	p.S37C(SNU398-Tumor)|p.S37C(JHUEM2-Tumor)	237				0.259259	19.01204	20.429581	7	20	KEEP	---	---	---	---	capture		Missense_Mutation	SNP	41266113	41266113	4175	3	C	T	T	T	416	32	CTNNB1	2	2
CNTN3	5067	broad.mit.edu	37	3	74334529	74334529	+	Silent	SNP	C	G	G			TCGA-17-Z032-01	TCGA-17-Z032-01										Phase_I	Unspecified				Illumina GAIIx	g.chr3:74334529C>G	uc003dpm.1	-	c.2631G>C	c.(2629-2631)ACG>ACC	p.T877T		NM_020872	NP_065923	Q9P232	CNTN3_HUMAN	contactin 3 precursor	877	Fibronectin type-III 3.				cell adhesion	anchored to membrane|plasma membrane	protein binding			breast(3)|ovary(1)	4		Lung NSC(201;0.138)|Lung SC(41;0.21)		Epithelial(33;0.00212)|BRCA - Breast invasive adenocarcinoma(55;0.00258)|LUSC - Lung squamous cell carcinoma(21;0.00461)|Lung(16;0.01)										0.077586	-4.62361	37.724831	18	214	KEEP	---	---	---	---	capture		Silent	SNP	74334529	74334529	3780	3	C	G	G	G	288	23	CNTN3	3	3
CCDC110	256309	broad.mit.edu	37	4	186379522	186379522	+	Missense_Mutation	SNP	G	A	A			TCGA-17-Z032-01	TCGA-17-Z032-01										Phase_I	Unspecified				Illumina GAIIx	g.chr4:186379522G>A	uc003ixu.3	-	c.2219C>T	c.(2218-2220)ACT>ATT	p.T740I	CCDC110_uc003ixv.3_Missense_Mutation_p.T703I|CCDC110_uc011ckt.1_Missense_Mutation_p.T740I	NM_152775	NP_689988	Q8TBZ0	CC110_HUMAN	coiled-coil domain containing 110 isoform a	740	Potential.					nucleus					0		all_lung(41;1.3e-11)|Lung NSC(41;2.25e-11)|Melanoma(20;7.86e-05)|Renal(120;0.0246)|Hepatocellular(41;0.0268)|Prostate(90;0.0283)|Colorectal(36;0.0381)|all_hematologic(60;0.0749)		OV - Ovarian serous cystadenocarcinoma(60;1.13e-10)|BRCA - Breast invasive adenocarcinoma(30;8.01e-05)|GBM - Glioblastoma multiforme(59;0.00014)|STAD - Stomach adenocarcinoma(60;0.000777)|LUSC - Lung squamous cell carcinoma(40;0.00921)|COAD - Colon adenocarcinoma(29;0.0105)|READ - Rectum adenocarcinoma(43;0.164)										0.357143	15.470878	15.722647	5	9	KEEP	---	---	---	---	capture		Missense_Mutation	SNP	186379522	186379522	2867	4	G	A	A	A	468	36	CCDC110	2	2
EVC	2121	broad.mit.edu	37	4	5720978	5720978	+	Missense_Mutation	SNP	G	C	C			TCGA-17-Z032-01	TCGA-17-Z032-01										Phase_I	Unspecified				Illumina GAIIx	g.chr4:5720978G>C	uc003gil.1	+	c.178G>C	c.(178-180)GAC>CAC	p.D60H	EVC_uc003gim.1_Non-coding_Transcript	NM_153717	NP_714928	P57679	EVC_HUMAN	Ellis van Creveld syndrome protein	60					muscle organ development	integral to membrane				ovary(1)	1		Myeloproliferative disorder(84;0.117)												0.321839	174.937698	179.843128	56	118	KEEP	---	---	---	---	capture		Missense_Mutation	SNP	5720978	5720978	5478	4	G	C	C	C	429	33	EVC	3	3
MEGF10	84466	broad.mit.edu	37	5	126738350	126738350	+	Missense_Mutation	SNP	G	A	A			TCGA-17-Z032-01	TCGA-17-Z032-01										Phase_I	Unspecified				Illumina GAIIx	g.chr5:126738350G>A	uc003kuh.3	+	c.893G>A	c.(892-894)TGC>TAC	p.C298Y	MEGF10_uc010jdc.1_Missense_Mutation_p.C298Y|MEGF10_uc010jdd.1_Missense_Mutation_p.C298Y|MEGF10_uc003kui.3_Missense_Mutation_p.C298Y	NM_032446	NP_115822	Q96KG7	MEG10_HUMAN	multiple EGF-like-domains 10 precursor	298	Extracellular (Potential).|Necessary for interaction with AP2M1, self-assembly and formation of the irregular, mosaic-like adhesion pattern.|EGF-like 5.				cell adhesion|phagocytosis	basolateral plasma membrane|cell projection|integral to membrane|phagocytic cup				ovary(4)	4		Prostate(80;0.165)	KIRC - Kidney renal clear cell carcinoma(527;0.0268)|Kidney(363;0.0488)	OV - Ovarian serous cystadenocarcinoma(64;0.0657)|Epithelial(69;0.123)										0.340659	84.591948	86.636539	31	60	KEEP	---	---	---	---	capture		Missense_Mutation	SNP	126738350	126738350	9849	5	G	A	A	A	598	46	MEGF10	2	2
PCDHA11	56138	broad.mit.edu	37	5	140249780	140249780	+	Silent	SNP	C	T	T			TCGA-17-Z032-01	TCGA-17-Z032-01										Phase_I	Unspecified				Illumina GAIIx	g.chr5:140249780C>T	uc003lia.2	+	c.1092C>T	c.(1090-1092)CCC>CCT	p.P364P	PCDHA1_uc003lha.2_Intron|PCDHA1_uc003lhb.2_Intron|PCDHA2_uc003lhd.2_Intron|PCDHA3_uc003lhf.2_Intron|PCDHA4_uc003lhi.2_Intron|PCDHA4_uc003lhh.1_Intron|PCDHA5_uc003lhk.1_Intron|PCDHA5_uc003lhl.2_Intron|PCDHA6_uc003lhn.2_Intron|PCDHA6_uc003lho.2_Intron|PCDHA7_uc003lhq.2_Intron|PCDHA8_uc003lhs.2_Intron|PCDHA9_uc003lhu.2_Intron|PCDHA10_uc003lhw.2_Intron|PCDHA10_uc003lhx.2_Intron|PCDHA11_uc011dae.1_Silent_p.P364P	NM_018902	NP_061725	Q9Y5I1	PCDAB_HUMAN	protocadherin alpha 11 isoform 1 precursor	364	Cadherin 4.|Extracellular (Potential).				homophilic cell adhesion|nervous system development	integral to plasma membrane	calcium ion binding|protein binding			breast(1)	1			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)											0.357143	71.454629	72.713252	25	45	KEEP	---	---	---	---	capture		Silent	SNP	140249780	140249780	11941	5	C	T	T	T	262	21	PCDHA11	2	2
PPARGC1B	133522	broad.mit.edu	37	5	149212595	149212595	+	Missense_Mutation	SNP	C	T	T			TCGA-17-Z032-01	TCGA-17-Z032-01										Phase_I	Unspecified				Illumina GAIIx	g.chr5:149212595C>T	uc003lrc.2	+	c.959C>T	c.(958-960)TCC>TTC	p.S320F	PPARGC1B_uc003lrb.1_Missense_Mutation_p.S320F|PPARGC1B_uc003lrd.2_Missense_Mutation_p.S281F|PPARGC1B_uc003lrf.2_Missense_Mutation_p.S299F|PPARGC1B_uc003lre.1_Missense_Mutation_p.S299F	NM_133263	NP_573570	Q86YN6	PRGC2_HUMAN	peroxisome proliferator-activated receptor	320					estrogen receptor signaling pathway|positive regulation of transcription from RNA polymerase II promoter|transcription, DNA-dependent	mediator complex	AF-2 domain binding|estrogen receptor binding|ligand-dependent nuclear receptor transcription coactivator activity|nucleotide binding|receptor activator activity|RNA binding|RNA polymerase II transcription mediator activity				0			KIRC - Kidney renal clear cell carcinoma(527;0.000962)|Kidney(363;0.00147)											0.088889	1.565359	9.24889	4	41	KEEP	---	---	---	---	capture		Missense_Mutation	SNP	149212595	149212595	12731	5	C	T	T	T	390	30	PPARGC1B	2	2
SH3PXD2B	285590	broad.mit.edu	37	5	171765474	171765474	+	Missense_Mutation	SNP	G	A	A			TCGA-17-Z032-01	TCGA-17-Z032-01										Phase_I	Unspecified				Illumina GAIIx	g.chr5:171765474G>A	uc003mbr.2	-	c.2635C>T	c.(2635-2637)CGG>TGG	p.R879W		NM_001017995	NP_001017995	A1X283	SPD2B_HUMAN	SH3 and PX domains 2B	879	SH3 4.				adipose tissue development|bone development|cell communication|cell differentiation|eye development|heart development|podosome assembly	cell junction|cell projection|cytoplasm|podosome	phosphatidylinositol-3,5-bisphosphate binding|phosphatidylinositol-3-phosphate binding|phosphatidylinositol-5-phosphate binding|SH2 domain binding			ovary(3)	3	Renal(175;0.000159)|Lung NSC(126;0.011)|all_lung(126;0.0175)	Medulloblastoma(196;0.0207)|all_neural(177;0.0625)	Kidney(164;7.24e-05)|KIRC - Kidney renal clear cell carcinoma(164;0.000516)											0.128205	7.649897	12.901145	5	34	KEEP	---	---	---	---	capture		Missense_Mutation	SNP	171765474	171765474	14749	5	G	A	A	A	506	39	SH3PXD2B	1	1
GRM6	2916	broad.mit.edu	37	5	178418427	178418427	+	Silent	SNP	G	A	A			TCGA-17-Z032-01	TCGA-17-Z032-01										Phase_I	Unspecified				Illumina GAIIx	g.chr5:178418427G>A	uc003mjr.2	-	c.855C>T	c.(853-855)ATC>ATT	p.I285I	GRM6_uc010jla.1_5'Flank|GRM6_uc003mjs.1_5'Flank	NM_000843	NP_000834	O15303	GRM6_HUMAN	glutamate receptor, metabotropic 6 precursor	285	Extracellular (Potential).				detection of visible light|visual perception	integral to plasma membrane				ovary(2)|breast(1)|pancreas(1)	4	all_cancers(89;0.000828)|Renal(175;0.000159)|all_epithelial(37;0.000167)|Lung NSC(126;0.00199)|all_lung(126;0.00351)	all_cancers(40;0.0156)|all_neural(177;0.00409)|Medulloblastoma(196;0.00498)|all_hematologic(541;0.21)	Kidney(164;2.23e-05)|KIRC - Kidney renal clear cell carcinoma(164;0.000178)	all cancers(165;0.245)										0.052632	-13.34355	10.768727	6	108	KEEP	---	---	---	---	capture		Silent	SNP	178418427	178418427	7080	5	G	A	A	A	577	45	GRM6	2	2
SLC45A2	51151	broad.mit.edu	37	5	33984667	33984667	+	Missense_Mutation	SNP	C	T	T			TCGA-17-Z032-01	TCGA-17-Z032-01										Phase_I	Unspecified				Illumina GAIIx	g.chr5:33984667C>T	uc003jid.2	-	c.22G>A	c.(22-24)GCT>ACT	p.A8T	SLC45A2_uc003jie.2_Missense_Mutation_p.A8T|SLC45A2_uc003jif.3_Missense_Mutation_p.A8T|SLC45A2_uc011coe.1_Missense_Mutation_p.A8T	NM_016180	NP_057264	Q9UMX9	S45A2_HUMAN	membrane-associated transporter protein isoform	8	Cytoplasmic (Potential).				melanin biosynthetic process|response to stimulus|transmembrane transport|visual perception	integral to membrane|melanosome membrane				ovary(2)	2						Ovarian(31;380 859 8490 22203 49048)								0.284946	133.202189	140.922168	53	133	KEEP	---	---	---	---	capture		Missense_Mutation	SNP	33984667	33984667	15138	5	C	T	T	T	338	26	SLC45A2	2	2
RICTOR	253260	broad.mit.edu	37	5	38967494	38967494	+	Missense_Mutation	SNP	C	T	T			TCGA-17-Z032-01	TCGA-17-Z032-01										Phase_I	Unspecified				Illumina GAIIx	g.chr5:38967494C>T	uc003jlo.2	-	c.1096G>A	c.(1096-1098)GAT>AAT	p.D366N	RICTOR_uc003jlp.2_Missense_Mutation_p.D366N|RICTOR_uc010ivf.2_Missense_Mutation_p.D81N	NM_152756	NP_689969	Q6R327	RICTR_HUMAN	rapamycin-insensitive companion of mTOR	366					actin cytoskeleton reorganization|embryo development|nerve growth factor receptor signaling pathway|phosphatidylinositol-mediated signaling|positive regulation of TOR signaling cascade|regulation of protein kinase B signaling cascade|T cell costimulation	cytosol|TORC2 complex	protein binding			ovary(3)|skin(2)|kidney(1)|central_nervous_system(1)	7	all_lung(31;0.000396)									698				0.053333	-6.565976	9.229734	4	71	KEEP	---	---	---	---	capture		Missense_Mutation	SNP	38967494	38967494	13833	5	C	T	T	T	416	32	RICTOR	2	2
BRD9	65980	broad.mit.edu	37	5	876252	876252	+	Silent	SNP	G	A	A			TCGA-17-Z032-01	TCGA-17-Z032-01										Phase_I	Unspecified				Illumina GAIIx	g.chr5:876252G>A	uc003jbq.2	-	c.1347C>T	c.(1345-1347)GGC>GGT	p.G449G	BRD9_uc003jbl.2_Silent_p.G333G|BRD9_uc003jbm.2_Non-coding_Transcript|BRD9_uc003jbn.2_Non-coding_Transcript|BRD9_uc011cmb.1_Silent_p.G396G|BRD9_uc003jbo.2_Silent_p.G353G|BRD9_uc003jbp.2_Silent_p.G110G|BRD9_uc011cmc.1_Non-coding_Transcript	NM_023924	NP_076413	Q9H8M2	BRD9_HUMAN	bromodomain containing 9 isoform 1	449							nucleic acid binding				0			Epithelial(17;0.00202)|OV - Ovarian serous cystadenocarcinoma(19;0.00353)|all cancers(22;0.00815)|Lung(60;0.185)											0.505263	146.695643	146.697956	48	47	KEEP	---	---	---	---	capture		Silent	SNP	876252	876252	1538	5	G	A	A	A	483	38	BRD9	1	1
LAMA2	3908	broad.mit.edu	37	6	129637259	129637259	+	Missense_Mutation	SNP	A	G	G			TCGA-17-Z032-01	TCGA-17-Z032-01										Phase_I	Unspecified				Illumina GAIIx	g.chr6:129637259A>G	uc003qbn.2	+	c.4001A>G	c.(4000-4002)TAT>TGT	p.Y1334C	LAMA2_uc003qbo.2_Missense_Mutation_p.Y1334C	NM_000426	NP_000417	P24043	LAMA2_HUMAN	laminin alpha 2 subunit isoform a precursor	1334	Laminin IV type A 2.				cell adhesion|muscle organ development|regulation of cell adhesion|regulation of cell migration|regulation of embryonic development	laminin-1 complex	receptor binding|structural molecule activity			ovary(8)|breast(1)	9				OV - Ovarian serous cystadenocarcinoma(136;0.178)|all cancers(137;0.245)										0.113924	12.720925	24.329713	9	70	KEEP	---	---	---	---	capture		Missense_Mutation	SNP	129637259	129637259	8929	6	A	G	G	G	208	16	LAMA2	4	4
UNC93A	54346	broad.mit.edu	37	6	167705029	167705029	+	Missense_Mutation	SNP	C	T	T			TCGA-17-Z032-01	TCGA-17-Z032-01										Phase_I	Unspecified				Illumina GAIIx	g.chr6:167705029C>T	uc003qvq.2	+	c.52C>T	c.(52-54)CTC>TTC	p.L18F	UNC93A_uc003qvr.2_Missense_Mutation_p.L18F	NM_018974	NP_061847	Q86WB7	UN93A_HUMAN	unc-93 homolog A isoform 1	18	Helical; (Potential).					integral to membrane|plasma membrane					0		Breast(66;7.62e-05)|Ovarian(120;0.105)		OV - Ovarian serous cystadenocarcinoma(33;2.22e-20)|BRCA - Breast invasive adenocarcinoma(81;6.17e-07)|GBM - Glioblastoma multiforme(31;0.00492)										0.137931	20.040992	31.070868	12	75	KEEP	---	---	---	---	capture		Missense_Mutation	SNP	167705029	167705029	17555	6	C	T	T	T	416	32	UNC93A	2	2
HIST1H3G	8355	broad.mit.edu	37	6	26271336	26271336	+	Missense_Mutation	SNP	G	C	C			TCGA-17-Z032-01	TCGA-17-Z032-01										Phase_I	Unspecified				Illumina GAIIx	g.chr6:26271336G>C	uc003nhi.2	-	c.277C>G	c.(277-279)CTG>GTG	p.L93V	HIST1H2BI_uc003nhk.2_5'Flank	NM_003534	NP_003525	P68431	H31_HUMAN	H3 histone family, member H	93					blood coagulation|nucleosome assembly|regulation of gene silencing|S phase	nucleoplasm|nucleosome	DNA binding|protein binding				0														0.356164	224.876421	228.873113	78	141	KEEP	---	---	---	---	capture		Missense_Mutation	SNP	26271336	26271336	7446	6	G	C	C	C	451	35	HIST1H3G	3	3
HLA-DQB1	3119	broad.mit.edu	37	6	32632627	32632627	+	Silent	SNP	C	T	T	rs1130389	by1000genomes	TCGA-17-Z032-01	TCGA-17-Z032-01										Phase_I	Unspecified				Illumina GAIIx	g.chr6:32632627C>T	uc003obv.2	-	c.327G>A	c.(325-327)ACG>ACA	p.T109T	HLA-DQB1_uc010juc.1_Silent_p.T64T|HLA-DQB1_uc003obw.2_Silent_p.T109T|HLA-DQB1_uc011dqd.1_Silent_p.T109T|HLA-DQB1_uc011dqe.1_Silent_p.T109T	NM_002123	NP_002114	P01920	DQB1_HUMAN	major histocompatibility complex, class II, DQ	109	Extracellular (Potential).|Beta-1.				antigen processing and presentation of peptide or polysaccharide antigen via MHC class II|interferon-gamma-mediated signaling pathway|T cell costimulation|T cell receptor signaling pathway	endoplasmic reticulum membrane|endosome membrane|Golgi apparatus|integral to membrane|lysosomal membrane|MHC class II protein complex	MHC class II receptor activity				0					Insulin Glargine recombinant(DB00047)|Insulin Lyspro recombinant(DB00046)|Insulin recombinant(DB00030)|Insulin, porcine(DB00071)	Esophageal Squamous(151;720 1825 15000 40336 43415)								0.058824	-4.839542	9.006119	4	64	KEEP	---	---	---	---	capture		Silent	SNP	32632627	32632627	7497	6	C	T	T	T	288	23	HLA-DQB1	1	1
CRISP2	7180	broad.mit.edu	37	6	49667525	49667525	+	Missense_Mutation	SNP	C	T	T			TCGA-17-Z032-01	TCGA-17-Z032-01										Phase_I	Unspecified				Illumina GAIIx	g.chr6:49667525C>T	uc003ozm.2	-	c.263G>A	c.(262-264)CGC>CAC	p.R88H	CRISP2_uc003ozq.2_Missense_Mutation_p.R88H|CRISP2_uc003ozl.2_Missense_Mutation_p.R88H|CRISP2_uc003ozn.2_Missense_Mutation_p.R88H|CRISP2_uc003ozr.2_Missense_Mutation_p.R88H|CRISP2_uc003ozo.2_Missense_Mutation_p.R88H|CRISP2_uc003ozp.2_Missense_Mutation_p.R88H	NM_003296	NP_003287	P16562	CRIS2_HUMAN	cysteine-rich secretory protein 2 precursor	88						extracellular space					0	Lung NSC(77;0.0161)		KIRC - Kidney renal clear cell carcinoma(2;0.106)|Kidney(12;0.156)											0.166667	5.815043	7.710412	3	15	KEEP	---	---	---	---	capture		Missense_Mutation	SNP	49667525	49667525	4019	6	C	T	T	T	351	27	CRISP2	1	1
ANKRD6	22881	broad.mit.edu	37	6	90322046	90322046	+	Missense_Mutation	SNP	G	A	A			TCGA-17-Z032-01	TCGA-17-Z032-01										Phase_I	Unspecified				Illumina GAIIx	g.chr6:90322046G>A	uc003pni.3	+	c.473G>A	c.(472-474)CGC>CAC	p.R158H	ANKRD6_uc003pne.3_Missense_Mutation_p.R158H|ANKRD6_uc003pnf.3_Missense_Mutation_p.R158H|ANKRD6_uc011dzy.1_Missense_Mutation_p.R158H|ANKRD6_uc010kcd.2_Missense_Mutation_p.R125H|LYRM2_uc010kce.1_Intron|LYRM2_uc003png.2_Intron|ANKRD6_uc003pnh.3_5'UTR	NM_014942	NP_055757	Q9Y2G4	ANKR6_HUMAN	ankyrin repeat domain 6	158	ANK 5.						protein binding			ovary(2)|pancreas(1)	3		all_cancers(76;1.22e-09)|Prostate(29;1.16e-10)|Acute lymphoblastic leukemia(125;1.49e-10)|all_hematologic(105;7.79e-07)|all_epithelial(107;1.83e-05)|Lung NSC(302;0.239)		BRCA - Breast invasive adenocarcinoma(108;0.0209)										0.444444	12.199886	12.223876	4	5	KEEP	---	---	---	---	capture		Missense_Mutation	SNP	90322046	90322046	693	6	G	A	A	A	494	38	ANKRD6	1	1
HBP1	26959	broad.mit.edu	37	7	106826354	106826354	+	Silent	SNP	T	C	C			TCGA-17-Z032-01	TCGA-17-Z032-01										Phase_I	Unspecified				Illumina GAIIx	g.chr7:106826354T>C	uc011klv.1	+	c.537T>C	c.(535-537)CAT>CAC	p.H179H	HBP1_uc003vdy.2_Silent_p.H169H|HBP1_uc003vdz.2_Silent_p.H169H|HBP1_uc003vea.2_Silent_p.H169H|HBP1_uc003veb.1_Silent_p.H169H	NM_012257	NP_036389	O60381	HBP1_HUMAN	HMG-box transcription factor 1	169					cell cycle arrest|regulation of transcription, DNA-dependent|transcription, DNA-dependent|Wnt receptor signaling pathway	nucleus	DNA binding				0														0.037915	-30.285092	18.447825	8	203	KEEP	---	---	---	---	capture		Silent	SNP	106826354	106826354	7267	7	T	C	C	C	673	52	HBP1	4	4
KCND2	3751	broad.mit.edu	37	7	120373017	120373017	+	Silent	SNP	G	C	C			TCGA-17-Z032-01	TCGA-17-Z032-01										Phase_I	Unspecified				Illumina GAIIx	g.chr7:120373017G>C	uc003vjj.1	+	c.1176G>C	c.(1174-1176)CTG>CTC	p.L392L		NM_012281	NP_036413	Q9NZV8	KCND2_HUMAN	potassium voltage-gated channel, Shal-related	392	Helical; Name=Segment S6; (Potential).				regulation of action potential|synaptic transmission	cell surface|dendritic spine	metal ion binding			ovary(2)|central_nervous_system(2)	4	all_neural(327;0.117)													0.072993	-0.654166	50.875664	20	254	KEEP	---	---	---	---	capture		Silent	SNP	120373017	120373017	8324	7	G	C	C	C	574	45	KCND2	3	3
POT1	25913	broad.mit.edu	37	7	124511045	124511045	+	Missense_Mutation	SNP	A	T	T			TCGA-17-Z032-01	TCGA-17-Z032-01										Phase_I	Unspecified				Illumina GAIIx	g.chr7:124511045A>T	uc003vlm.2	-	c.175T>A	c.(175-177)TGC>AGC	p.C59S	POT1_uc011koe.1_Non-coding_Transcript|POT1_uc003vlk.2_Non-coding_Transcript|POT1_uc003vll.2_Non-coding_Transcript|POT1_uc003vlo.2_Intron|POT1_uc003vln.2_Non-coding_Transcript	NM_015450	NP_056265	Q9NUX5	POTE1_HUMAN	protection of telomeres 1 isoform 1	59					DNA duplex unwinding|negative regulation of telomere maintenance via telomerase|positive regulation of DNA strand elongation|positive regulation of helicase activity|positive regulation of telomerase activity|positive regulation of telomere maintenance via telomerase|telomere capping|telomere formation via telomerase|telomere maintenance via telomerase	nuclear telomere cap complex|nucleoplasm	DEAD/H-box RNA helicase binding|single-stranded telomeric DNA binding|telomerase inhibitor activity			central_nervous_system(1)	1						Esophageal Squamous(149;1032 1141 16047 36610 40540 42429 44687 51642)								0.421875	82.113956	82.454821	27	37	KEEP	---	---	---	---	capture		Missense_Mutation	SNP	124511045	124511045	12689	7	A	T	T	T	65	5	POT1	3	3
OR2A12	346525	broad.mit.edu	37	7	143792758	143792758	+	Missense_Mutation	SNP	G	T	T			TCGA-17-Z032-01	TCGA-17-Z032-01										Phase_I	Unspecified				Illumina GAIIx	g.chr7:143792758G>T	uc011kty.1	+	c.558G>T	c.(556-558)TTG>TTT	p.L186F		NM_001004135	NP_001004135	Q8NGT7	O2A12_HUMAN	olfactory receptor, family 2, subfamily A,	186	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(2)|central_nervous_system(1)	3	Melanoma(164;0.0783)													0.361371	333.085104	338.524932	116	205	KEEP	---	---	---	---	capture		Missense_Mutation	SNP	143792758	143792758	11381	7	G	T	T	T	607	47	OR2A12	2	2
GIMAP5	55340	broad.mit.edu	37	7	150439289	150439289	+	Nonsense_Mutation	SNP	T	A	A			TCGA-17-Z032-01	TCGA-17-Z032-01										Phase_I	Unspecified				Illumina GAIIx	g.chr7:150439289T>A	uc003whr.1	+	c.62T>A	c.(61-63)TTG>TAG	p.L21*	GIMAP5_uc010lpu.2_5'UTR	NM_018384	NP_060854	Q96F15	GIMA5_HUMAN	GTPase, IMAP family member 5	21	Cytoplasmic (Potential).					integral to membrane|mitochondrial outer membrane	GTP binding			ovary(1)|central_nervous_system(1)	2			OV - Ovarian serous cystadenocarcinoma(82;0.0145)	UCEC - Uterine corpus endometrioid carcinoma (81;0.168)										0.10274	12.015155	34.974172	15	131	KEEP	---	---	---	---	capture		Nonsense_Mutation	SNP	150439289	150439289	6650	7	T	A	A	A	819	63	GIMAP5	5	3
HDAC9	9734	broad.mit.edu	37	7	18705897	18705897	+	Missense_Mutation	SNP	A	G	G			TCGA-17-Z032-01	TCGA-17-Z032-01										Phase_I	Unspecified				Illumina GAIIx	g.chr7:18705897A>G	uc003sui.2	+	c.1529A>G	c.(1528-1530)GAA>GGA	p.E510G	HDAC9_uc003sue.2_Missense_Mutation_p.E507G|HDAC9_uc011jyd.1_Missense_Mutation_p.E507G|HDAC9_uc003suh.2_Missense_Mutation_p.E507G|HDAC9_uc003suj.2_Missense_Mutation_p.E466G|HDAC9_uc011jya.1_Missense_Mutation_p.E504G|HDAC9_uc003sua.1_Missense_Mutation_p.E485G|HDAC9_uc011jyb.1_Missense_Mutation_p.E463G|HDAC9_uc003sud.1_Missense_Mutation_p.E507G|HDAC9_uc011jyc.1_Missense_Mutation_p.E466G|HDAC9_uc003suf.1_Missense_Mutation_p.E538G|HDAC9_uc010kud.1_Missense_Mutation_p.E510G|HDAC9_uc011jye.1_Missense_Mutation_p.E479G|HDAC9_uc011jyf.1_Missense_Mutation_p.E430G|HDAC9_uc010kue.1_Intron	NM_178425	NP_848512	Q9UKV0	HDAC9_HUMAN	histone deacetylase 9 isoform 5	507					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)							OREG0017877	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	0.389262	377.768785	380.956612	116	182	KEEP	---	---	---	---	capture		Missense_Mutation	SNP	18705897	18705897	7297	7	A	G	G	G	117	9	HDAC9	4	4
ZFPM2	23414	broad.mit.edu	37	8	106814178	106814178	+	Missense_Mutation	SNP	C	T	T			TCGA-17-Z032-01	TCGA-17-Z032-01										Phase_I	Unspecified				Illumina GAIIx	g.chr8:106814178C>T	uc003ymd.2	+	c.1868C>T	c.(1867-1869)ACA>ATA	p.T623I	ZFPM2_uc011lhs.1_Missense_Mutation_p.T354I	NM_012082	NP_036214	Q8WW38	FOG2_HUMAN	zinc finger protein, multitype 2	623					blood coagulation|transcription, DNA-dependent	nucleoplasm	DNA binding|RNA polymerase II transcription factor activity|transcription corepressor activity|transcription repressor activity|zinc ion binding			ovary(4)|large_intestine(1)	5			OV - Ovarian serous cystadenocarcinoma(57;8.28e-08)											0.346667	138.446666	141.563633	52	98	KEEP	---	---	---	---	capture		Missense_Mutation	SNP	106814178	106814178	18248	8	C	T	T	T	221	17	ZFPM2	2	2
CSMD3	114788	broad.mit.edu	37	8	113256648	113256648	+	Missense_Mutation	SNP	C	G	G			TCGA-17-Z032-01	TCGA-17-Z032-01										Phase_I	Unspecified				Illumina GAIIx	g.chr8:113256648C>G	uc003ynu.2	-	c.10377G>C	c.(10375-10377)TGG>TGC	p.W3459C	CSMD3_uc003yns.2_Missense_Mutation_p.W2661C|CSMD3_uc003ynt.2_Missense_Mutation_p.W3419C|CSMD3_uc011lhx.1_Missense_Mutation_p.W3290C	NM_198123	NP_937756	Q7Z407	CSMD3_HUMAN	CUB and Sushi multiple domains 3 isoform 1	3459	Extracellular (Potential).|Sushi 28.					integral to membrane|plasma membrane				ovary(20)|lung(11)|kidney(8)|large_intestine(6)|skin(3)|central_nervous_system(2)|urinary_tract(1)|breast(1)	52										2888	TCGA Ovarian(7;0.080)			0.051282	-12.5374	20.716106	8	148	KEEP	---	---	---	---	capture		Missense_Mutation	SNP	113256648	113256648	4087	8	C	G	G	G	390	30	CSMD3	3	3
CSMD3	114788	broad.mit.edu	37	8	113358405	113358405	+	Silent	SNP	C	A	A			TCGA-17-Z032-01	TCGA-17-Z032-01										Phase_I	Unspecified				Illumina GAIIx	g.chr8:113358405C>A	uc003ynu.2	-	c.6363G>T	c.(6361-6363)GTG>GTT	p.V2121V	CSMD3_uc003yns.2_Silent_p.V1323V|CSMD3_uc003ynt.2_Silent_p.V2081V|CSMD3_uc011lhx.1_Silent_p.V2017V	NM_198123	NP_937756	Q7Z407	CSMD3_HUMAN	CUB and Sushi multiple domains 3 isoform 1	2121	Extracellular (Potential).|CUB 12.					integral to membrane|plasma membrane				ovary(20)|lung(11)|kidney(8)|large_intestine(6)|skin(3)|central_nervous_system(2)|urinary_tract(1)|breast(1)	52										2888	TCGA Ovarian(7;0.080)			0.311927	94.006259	97.441252	34	75	KEEP	---	---	---	---	capture		Silent	SNP	113358405	113358405	4087	8	C	A	A	A	366	29	CSMD3	2	2
EIF3H	8667	broad.mit.edu	37	8	117768021	117768022	+	Nonsense_Mutation	DNP	CC	AT	AT			TCGA-17-Z032-01	TCGA-17-Z032-01										Phase_I	Unspecified				Illumina GAIIx	g.chr8:117768021_117768022CC>AT	uc003yob.2	-	c.57_58GG>AT	c.(55-60)AAGGAA>AAATAA	p.E20*	EIF3H_uc003yoa.2_Nonsense_Mutation_p.E6*|EIF3H_uc011lhz.1_Nonsense_Mutation_p.E6*	NM_003756	NP_003747	O15372	EIF3H_HUMAN	eukaryotic translation initiation factor 3,	6					regulation of translational initiation	cytosol|eukaryotic translation initiation factor 3 complex	protein binding|translation initiation factor activity				0	all_cancers(13;3.98e-22)|Lung NSC(37;0.000183)|Ovarian(258;0.0172)									241				0.38	51.41265	52.044154	19	31	KEEP	---	---	---	---	capture		Nonsense_Mutation	DNP	117768021	117768022	5209	8	CC	AT	AT	AT	390	30	EIF3H	5	2
IKBKB	3551	broad.mit.edu	37	8	42174363	42174363	+	Nonsense_Mutation	SNP	G	T	T			TCGA-17-Z032-01	TCGA-17-Z032-01										Phase_I	Unspecified				Illumina GAIIx	g.chr8:42174363G>T	uc003xow.1	+	c.1066G>T	c.(1066-1068)GAA>TAA	p.E356*	IKBKB_uc003xov.2_Nonsense_Mutation_p.E356*|IKBKB_uc010lxh.1_Nonsense_Mutation_p.E251*|IKBKB_uc011lco.1_Non-coding_Transcript|IKBKB_uc010lxj.1_Nonsense_Mutation_p.E133*|IKBKB_uc003xox.1_Nonsense_Mutation_p.E77*|IKBKB_uc011lcp.1_Non-coding_Transcript|IKBKB_uc011lcq.1_Nonsense_Mutation_p.E354*|IKBKB_uc010lxi.1_Non-coding_Transcript|IKBKB_uc011lcr.1_Nonsense_Mutation_p.E297*	NM_001556	NP_001547	O14920	IKKB_HUMAN	inhibitor of nuclear factor kappa B kinase beta	356					anti-apoptosis|innate immune response|MyD88-dependent toll-like receptor signaling pathway|MyD88-independent toll-like receptor signaling pathway|nerve growth factor receptor signaling pathway|positive regulation of I-kappaB kinase/NF-kappaB cascade|positive regulation of NF-kappaB transcription factor activity|protein phosphorylation|T cell receptor signaling pathway|Toll signaling pathway|toll-like receptor 1 signaling pathway|toll-like receptor 2 signaling pathway|toll-like receptor 3 signaling pathway|toll-like receptor 4 signaling pathway	CD40 receptor complex|cytosol|internal side of plasma membrane|membrane raft	ATP binding|identical protein binding|IkappaB kinase activity|transcription activator activity	p.E356*(1)		breast(3)|ovary(2)|lung(1)|skin(1)	7	all_cancers(6;1.42e-24)|all_epithelial(6;1.02e-25)|all_lung(13;6.21e-12)|Lung NSC(13;1.04e-10)|Ovarian(28;0.00769)|Prostate(17;0.0119)|Colorectal(14;0.0468)|Lung SC(25;0.211)	all_lung(54;0.000434)|Lung NSC(58;0.00161)|Hepatocellular(245;0.0524)|Renal(179;0.0822)|Esophageal squamous(32;0.0954)	BRCA - Breast invasive adenocarcinoma(8;1.37e-10)|Colorectal(10;0.00102)|OV - Ovarian serous cystadenocarcinoma(14;0.00168)|Lung(22;0.00467)|LUSC - Lung squamous cell carcinoma(45;0.024)|COAD - Colon adenocarcinoma(11;0.0264)		Arsenic trioxide(DB01169)|Auranofin(DB00995)					402				0.473684	26.672681	26.684205	9	10	KEEP	---	---	---	---	capture		Nonsense_Mutation	SNP	42174363	42174363	7912	8	G	T	T	T	533	41	IKBKB	5	2
PRDM14	63978	broad.mit.edu	37	8	70978723	70978723	+	Missense_Mutation	SNP	A	T	T			TCGA-17-Z032-01	TCGA-17-Z032-01										Phase_I	Unspecified				Illumina GAIIx	g.chr8:70978723A>T	uc003xym.2	-	c.930T>A	c.(928-930)CAT>CAA	p.H310Q		NM_024504	NP_078780	Q9GZV8	PRD14_HUMAN	PR domain containing 14	310	SET.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(3)	3	Breast(64;0.193)		Epithelial(68;0.00508)|all cancers(69;0.0259)|OV - Ovarian serous cystadenocarcinoma(28;0.0405)			NSCLC(129;99 1813 5906 40656 46114)								0.373626	106.930623	108.205562	34	57	KEEP	---	---	---	---	capture		Missense_Mutation	SNP	70978723	70978723	12897	8	A	T	T	T	50	4	PRDM14	3	3
FREM1	158326	broad.mit.edu	37	9	14859371	14859371	+	Silent	SNP	G	A	A			TCGA-17-Z032-01	TCGA-17-Z032-01										Phase_I	Unspecified				Illumina GAIIx	g.chr9:14859371G>A	uc003zlm.2	-	c.441C>T	c.(439-441)TTC>TTT	p.F147F	FREM1_uc010mic.2_Non-coding_Transcript	NM_144966	NP_659403	Q5H8C1	FREM1_HUMAN	FRAS1 related extracellular matrix 1 precursor	147					cell communication|multicellular organismal development	basement membrane|integral to membrane	metal ion binding|sugar binding			ovary(2)|breast(2)|pancreas(1)	5				GBM - Glioblastoma multiforme(50;3.53e-06)										0.076923	-5.794122	34.70612	17	204	KEEP	---	---	---	---	capture		Silent	SNP	14859371	14859371	6291	9	G	A	A	A	581	45	FREM1	2	2
C9orf41	138199	broad.mit.edu	37	9	77598775	77598775	+	Nonsense_Mutation	SNP	C	A	A			TCGA-17-Z032-01	TCGA-17-Z032-01										Phase_I	Unspecified				Illumina GAIIx	g.chr9:77598775C>A	uc004ajq.2	-	c.1138G>T	c.(1138-1140)GAA>TAA	p.E380*		NM_152420	NP_689633	Q8N4J0	CI041_HUMAN	hypothetical protein LOC138199	380										ovary(1)	1														0.093023	1.765389	8.931797	4	39	KEEP	---	---	---	---	capture		Nonsense_Mutation	SNP	77598775	77598775	2597	9	C	A	A	A	416	32	C9orf41	5	2
FLJ46321	389763	broad.mit.edu	37	9	84609298	84609298	+	Missense_Mutation	SNP	G	T	T			TCGA-17-Z032-01	TCGA-17-Z032-01										Phase_I	Unspecified				Illumina GAIIx	g.chr9:84609298G>T	uc004amn.2	+	c.3913G>T	c.(3913-3915)GAT>TAT	p.D1305Y		NM_001001670	NP_001001670	Q6ZQQ2	F75D1_HUMAN	hypothetical protein LOC389763	1305						integral to membrane					0														0.073171	-1.196815	6.473993	3	38	KEEP	---	---	---	---	capture		Missense_Mutation	SNP	84609298	84609298	6174	9	G	T	T	T	585	45	FLJ46321	2	2
XIAP	331	broad.mit.edu	37	X	123020085	123020085	+	Nonsense_Mutation	SNP	C	A	A			TCGA-17-Z032-01	TCGA-17-Z032-01										Phase_I	Unspecified				Illumina GAIIx	g.chrX:123020085C>A	uc010nqu.2	+	c.573C>A	c.(571-573)TAC>TAA	p.Y191*	XIAP_uc004etx.2_Nonsense_Mutation_p.Y191*|XIAP_uc010nqv.2_Intron	NM_001167	NP_001158	P98170	XIAP_HUMAN	baculoviral IAP repeat-containing protein 4	191	BIR 2.				anti-apoptosis|apoptosis|induction of apoptosis by intracellular signals|response to DNA damage stimulus	cytosol	caspase inhibitor activity|ligase activity|protein binding|zinc ion binding			ovary(1)|lung(1)	2										93				0.192982	22.987101	28.008754	11	46	KEEP	---	---	---	---	capture		Nonsense_Mutation	SNP	123020085	123020085	18009	23	C	A	A	A	220	17	XIAP	5	2
ODZ1	10178	broad.mit.edu	37	X	123805640	123805640	+	Missense_Mutation	SNP	C	A	A			TCGA-17-Z032-01	TCGA-17-Z032-01										Phase_I	Unspecified				Illumina GAIIx	g.chrX:123805640C>A	uc010nqy.2	-	c.1061G>T	c.(1060-1062)GGA>GTA	p.G354V	ODZ1_uc011muj.1_Missense_Mutation_p.G353V|ODZ1_uc004euj.2_Missense_Mutation_p.G354V	NM_001163278	NP_001156750	Q9UKZ4	TEN1_HUMAN	odz, odd Oz/ten-m homolog 1 isoform 1	354	Extracellular (Potential).				immune response|negative regulation of cell proliferation|nervous system development|signal transduction	extracellular region	heparin binding			ovary(11)|breast(4)|large_intestine(2)|pancreas(2)|upper_aerodigestive_tract(1)|lung(1)|skin(1)	22										623				0.085174	1.873306	57.21598	27	290	KEEP	---	---	---	---	capture		Missense_Mutation	SNP	123805640	123805640	11239	23	C	A	A	A	390	30	ODZ1	2	2
FMR1	2332	broad.mit.edu	37	X	147010237	147010237	+	Missense_Mutation	SNP	C	T	T			TCGA-17-Z032-01	TCGA-17-Z032-01										Phase_I	Unspecified				Illumina GAIIx	g.chrX:147010237C>T	uc010nst.2	+	c.331C>T	c.(331-333)CGT>TGT	p.R111C	FMR1_uc011mwz.1_Missense_Mutation_p.R111C|FMR1_uc004fcj.2_Missense_Mutation_p.R111C|FMR1_uc004fck.3_Missense_Mutation_p.R111C|FMR1_uc004fcl.3_De_novo_Start_OutOfFrame|FMR1_uc011mxa.1_5'Flank	NM_002024	NP_002015	Q06787	FMR1_HUMAN	fragile X mental retardation 1	111					mRNA transport|negative regulation of translational initiation	cytoplasm|mRNA cap binding complex|nucleolus|nucleoplasm|soluble fraction	mRNA binding|protein binding			ovary(2)|pancreas(1)	3	Acute lymphoblastic leukemia(192;6.56e-05)													0.329412	233.710125	240.289741	84	171	KEEP	---	---	---	---	capture		Missense_Mutation	SNP	147010237	147010237	6202	23	C	T	T	T	247	19	FMR1	1	1
RPL10	6134	broad.mit.edu	37	X	153628150	153628150	+	Missense_Mutation	SNP	A	C	C			TCGA-17-Z032-01	TCGA-17-Z032-01										Phase_I	Unspecified				Illumina GAIIx	g.chrX:153628150A>C	uc004fkm.2	+	c.197A>C	c.(196-198)GAG>GCG	p.E66A	RPL10_uc004fko.2_Missense_Mutation_p.E66A|RPL10_uc004fkn.1_Missense_Mutation_p.E66A|RPL10_uc004fkp.1_Missense_Mutation_p.E66A|RPL10_uc004fkq.1_Non-coding_Transcript|RPL10_uc004fkr.1_5'UTR|SNORA70_uc010nux.1_5'Flank	NM_006013	NP_006004	P27635	RL10_HUMAN	ribosomal protein L10	66					endocrine pancreas development|translational elongation|translational termination|viral transcription	cytosolic large ribosomal subunit|endoplasmic reticulum	structural constituent of ribosome				0	all_cancers(53;3.7e-16)|all_epithelial(53;2.97e-10)|all_lung(58;1.84e-07)|Lung NSC(58;5.84e-07)|all_hematologic(71;2.45e-06)|Acute lymphoblastic leukemia(192;6.56e-05)|Breast(217;0.176)													0.139535	10.220873	15.618154	6	37	KEEP	---	---	---	---	capture		Missense_Mutation	SNP	153628150	153628150	14033	23	A	C	C	C	143	11	RPL10	4	4
ZBED1	9189	broad.mit.edu	37	X	2407351	2407351	+	Silent	SNP	G	A	A			TCGA-17-Z032-01	TCGA-17-Z032-01										Phase_I	Unspecified				Illumina GAIIx	g.chrX:2407351G>A	uc004cqg.2	-	c.1410C>T	c.(1408-1410)AAC>AAT	p.N470N	DHRSX_uc004cqf.3_Intron|ZBED1_uc004cqh.1_Silent_p.N470N	NM_004729	NP_004720	O96006	ZBED1_HUMAN	zinc finger, BED-type containing 1	470						nuclear chromosome	DNA binding|metal ion binding|protein dimerization activity|transposase activity				0		all_cancers(21;4.28e-07)|all_epithelial(21;2.07e-08)|all_lung(23;2.81e-05)|Lung NSC(23;0.000693)|Lung SC(21;0.122)												0.060345	-7.857673	15.564694	7	109	KEEP	---	---	---	---	capture		Silent	SNP	2407351	2407351	18101	23	G	A	A	A	516	40	ZBED1	1	1
FAM47B	170062	broad.mit.edu	37	X	34961804	34961804	+	Nonsense_Mutation	SNP	G	T	T			TCGA-17-Z032-01	TCGA-17-Z032-01										Phase_I	Unspecified				Illumina GAIIx	g.chrX:34961804G>T	uc004ddi.1	+	c.856G>T	c.(856-858)GAG>TAG	p.E286*		NM_152631	NP_689844	Q8NA70	FA47B_HUMAN	hypothetical protein LOC170062	286	Pro-rich.									ovary(3)|breast(1)	4														0.294915	218.376001	229.440659	87	208	KEEP	---	---	---	---	capture		Nonsense_Mutation	SNP	34961804	34961804	5791	23	G	T	T	T	533	41	FAM47B	5	2
GATA1	2623	broad.mit.edu	37	X	48650256	48650256	+	Missense_Mutation	SNP	C	G	G			TCGA-17-Z032-01	TCGA-17-Z032-01										Phase_I	Unspecified				Illumina GAIIx	g.chrX:48650256C>G	uc004dkq.3	+	c.226C>G	c.(226-228)CAG>GAG	p.Q76E		NM_002049	NP_002040	P15976	GATA1_HUMAN	GATA binding protein 1	76					blood coagulation|regulation of transcription from RNA polymerase II promoter	nuclear membrane|nucleolus|nucleoplasm	sequence-specific DNA binding transcription factor activity|zinc ion binding	p.V74fs*60(1)|p.?(1)|p.Q76E(1)		haematopoietic_and_lymphoid_tissue(213)|lung(2)	215						Pancreas(9;429 505 11287 29617)				37				0.342679	361.051068	368.070959	110	211	KEEP	---	---	---	---	capture		Missense_Mutation	SNP	48650256	48650256	6517	23	C	G	G	G	377	29	GATA1	3	3
NLGN4X	57502	broad.mit.edu	37	X	5811257	5811257	+	Silent	SNP	C	A	A			TCGA-17-Z032-01	TCGA-17-Z032-01										Phase_I	Unspecified				Illumina GAIIx	g.chrX:5811257C>A	uc010ndi.2	-	c.2163G>T	c.(2161-2163)TCG>TCT	p.S721S	NLGN4X_uc004crp.2_Silent_p.S704S|NLGN4X_uc010ndh.2_Silent_p.S684S|NLGN4X_uc004crq.2_Silent_p.S684S|NLGN4X_uc004crr.2_Silent_p.S684S|NLGN4X_uc010ndj.2_Silent_p.S684S	NM_181332	NP_851849	Q8N0W4	NLGNX_HUMAN	X-linked neuroligin 4 precursor	684	Helical; (Potential).				brainstem development|cell adhesion|cell-cell junction organization|cerebellum development|male courtship behavior|positive regulation of organ growth|regulation of excitatory postsynaptic membrane potential|regulation of synaptic transmission|social behavior|synapse assembly|territorial aggressive behavior|vocalization behavior	cell surface|dendrite|integral to plasma membrane|synapse	carboxylesterase activity|chloride ion binding|neurexin binding|protein homodimerization activity			large_intestine(1)|skin(1)	2														0.262009	158.635043	170.34499	60	169	KEEP	---	---	---	---	capture		Silent	SNP	5811257	5811257	10867	23	C	A	A	A	340	27	NLGN4X	1	1
NLGN4X	57502	broad.mit.edu	37	X	5811550	5811550	+	Missense_Mutation	SNP	C	A	A			TCGA-17-Z032-01	TCGA-17-Z032-01										Phase_I	Unspecified				Illumina GAIIx	g.chrX:5811550C>A	uc010ndi.2	-	c.1870G>T	c.(1870-1872)GTG>TTG	p.V624L	NLGN4X_uc004crp.2_Missense_Mutation_p.V607L|NLGN4X_uc010ndh.2_Missense_Mutation_p.V587L|NLGN4X_uc004crq.2_Missense_Mutation_p.V587L|NLGN4X_uc004crr.2_Missense_Mutation_p.V587L|NLGN4X_uc010ndj.2_Missense_Mutation_p.V587L	NM_181332	NP_851849	Q8N0W4	NLGNX_HUMAN	X-linked neuroligin 4 precursor	587	Extracellular (Potential).				brainstem development|cell adhesion|cell-cell junction organization|cerebellum development|male courtship behavior|positive regulation of organ growth|regulation of excitatory postsynaptic membrane potential|regulation of synaptic transmission|social behavior|synapse assembly|territorial aggressive behavior|vocalization behavior	cell surface|dendrite|integral to plasma membrane|synapse	carboxylesterase activity|chloride ion binding|neurexin binding|protein homodimerization activity			large_intestine(1)|skin(1)	2														0.306122	290.141493	301.643827	105	238	KEEP	---	---	---	---	capture		Missense_Mutation	SNP	5811550	5811550	10867	23	C	A	A	A	260	20	NLGN4X	2	2
KLHL4	56062	broad.mit.edu	37	X	86887308	86887308	+	Missense_Mutation	SNP	G	C	C			TCGA-17-Z032-01	TCGA-17-Z032-01										Phase_I	Unspecified				Illumina GAIIx	g.chrX:86887308G>C	uc004efa.2	+	c.1423G>C	c.(1423-1425)GAT>CAT	p.D475H	KLHL4_uc004efb.2_Missense_Mutation_p.D475H	NM_057162	NP_476503	Q9C0H6	KLHL4_HUMAN	kelch-like 4 isoform 2	475	Kelch 1.					cytoplasm|microtubule cytoskeleton|nucleolus	actin binding			ovary(2)|lung(1)|breast(1)|central_nervous_system(1)	5														0.055046	-8.339358	14.380844	6	103	KEEP	---	---	---	---	capture		Missense_Mutation	SNP	86887308	86887308	8705	23	G	C	C	C	585	45	KLHL4	3	3
FAM133A	286499	broad.mit.edu	37	X	92964563	92964563	+	Missense_Mutation	SNP	G	C	C			TCGA-17-Z032-01	TCGA-17-Z032-01										Phase_I	Unspecified				Illumina GAIIx	g.chrX:92964563G>C	uc004efr.1	+	c.145G>C	c.(145-147)GAA>CAA	p.E49Q		NM_173698	NP_775969	Q8N9E0	F133A_HUMAN	hypothetical protein LOC286499	49	Lys-rich.										0														0.101266	8.339348	20.872015	8	71	KEEP	---	---	---	---	capture		Missense_Mutation	SNP	92964563	92964563	5640	23	G	C	C	C	429	33	FAM133A	3	3
CNNM1	26507	broad.mit.edu	37	10	101089521	101089522	+	Frame_Shift_Ins	INS	-	C	C			TCGA-17-Z032-01	TCGA-17-Z032-01										Phase_I	Unspecified				Illumina GAIIx	g.chr10:101089521_101089522insC	uc010qpi.1	+	c.377_378insC	c.(376-378)CGCfs	p.R126fs	CNNM1_uc009xwe.2_Frame_Shift_Ins_p.R126fs|CNNM1_uc001kpp.3_Frame_Shift_Ins_p.R126fs|CNNM1_uc009xwf.2_Frame_Shift_Ins_p.R126fs	NM_020348	NP_065081	Q9NRU3	CNNM1_HUMAN	cyclin M1	126					ion transport	integral to membrane|plasma membrane					0		Colorectal(252;0.234)		Epithelial(162;6.82e-10)|all cancers(201;5.62e-08)										0.43			3	4		---	---	---	---	capture_indel		Frame_Shift_Ins	INS	101089521	101089522	3750	10	-	C	C	C	494	38	CNNM1	5	5
PLA2G4E	123745	broad.mit.edu	37	15	42302338	42302338	+	Frame_Shift_Del	DEL	A	-	-	rs28736629	by1000genomes	TCGA-17-Z032-01	TCGA-17-Z032-01										Phase_I	Unspecified				Illumina GAIIx	g.chr15:42302338_42302338delA	uc001zow.1	-	c.108_108delT	c.(106-108)GGTfs	p.G36fs		NM_001080490	NP_001073959	C9JK77	C9JK77_HUMAN	phospholipase A2, group 4E	36					phospholipid catabolic process						0		all_cancers(109;8.09e-13)|all_epithelial(112;2.03e-11)|Lung NSC(122;2.17e-07)|all_lung(180;8.79e-07)|Melanoma(134;0.0273)		OV - Ovarian serous cystadenocarcinoma(18;7.61e-18)|GBM - Glioblastoma multiforme(94;3.07e-06)										0.31			9	20		---	---	---	---	capture_indel		Frame_Shift_Del	DEL	42302338	42302338	12431	15	A	-	-	-	67	6	PLA2G4E	5	5
LGALS9B	284194	broad.mit.edu	37	17	20370782	20370783	+	Frame_Shift_Ins	INS	-	TC	TC	rs67161709		TCGA-17-Z032-01	TCGA-17-Z032-01										Phase_I	Unspecified				Illumina GAIIx	g.chr17:20370782_20370783insTC	uc002gxa.1	-	c.1_2insGA	c.(1-3)ATGfs	p.M1fs	LGALS9B_uc002gwz.1_Frame_Shift_Ins_p.M1fs|LGALS9B_uc010vzh.1_De_novo_Start_OutOfFrame	NM_001042685	NP_001036150	Q3B8N2	LEG9B_HUMAN	galectin-9 like	1							sugar binding				0														0.33			2	4		---	---	---	---	capture_indel		Frame_Shift_Ins	INS	20370782	20370783	9075	17	-	TC	TC	TC	104	8	LGALS9B	5	5
TTLL10	254173	broad.mit.edu	37	1	1116222	1116223	+	Frame_Shift_Ins	INS	-	G	G			TCGA-17-Z032-01	TCGA-17-Z032-01										Phase_I	Unspecified				Illumina GAIIx	g.chr1:1116222_1116223insG	uc001acy.2	+	c.737_738insG	c.(736-738)CCGfs	p.P246fs	TTLL10_uc010nyg.1_Frame_Shift_Ins_p.P246fs|TTLL10_uc001acz.1_Frame_Shift_Ins_p.P173fs	NM_001130045	NP_001123517	Q6ZVT0	TTL10_HUMAN	tubulin tyrosine ligase-like family, member 10	246	TTL.				protein modification process		ATP binding|tubulin-tyrosine ligase activity			large_intestine(1)	1	all_cancers(77;0.00164)|all_epithelial(69;0.000959)|all_lung(157;0.00963)|Lung NSC(156;0.0232)|Ovarian(185;0.0634)	all_epithelial(116;9.48e-15)|all_lung(118;9.67e-07)|Lung NSC(185;5.59e-05)|Renal(390;0.00571)|Breast(487;0.0183)|Hepatocellular(190;0.0268)|Myeloproliferative disorder(586;0.028)|Ovarian(437;0.127)|Lung SC(97;0.217)		Epithelial(90;4.75e-36)|OV - Ovarian serous cystadenocarcinoma(86;5.82e-22)|Colorectal(212;3.94e-05)|COAD - Colon adenocarcinoma(227;4.22e-05)|Kidney(185;0.00227)|BRCA - Breast invasive adenocarcinoma(365;0.00461)|STAD - Stomach adenocarcinoma(132;0.00644)|KIRC - Kidney renal clear cell carcinoma(229;0.0339)|Lung(427;0.199)										0.38			3	5		---	---	---	---	capture_indel		Frame_Shift_Ins	INS	1116222	1116223	17278	1	-	G	G	G	299	23	TTLL10	5	5
CELSR1	9620	broad.mit.edu	37	22	46773101	46773101	+	Frame_Shift_Del	DEL	C	-	-			TCGA-17-Z032-01	TCGA-17-Z032-01										Phase_I	Unspecified				Illumina GAIIx	g.chr22:46773101_46773101delC	uc003bhw.1	-	c.7441_7441delG	c.(7441-7443)GCAfs	p.A2481fs	CELSR1_uc011arc.1_Frame_Shift_Del_p.A802fs	NM_014246	NP_055061	Q9NYQ6	CELR1_HUMAN	cadherin EGF LAG seven-pass G-type receptor 1	2481	Helical; Name=1; (Potential).				central nervous system development|homophilic cell adhesion|neural tube closure|neuropeptide signaling pathway	integral to plasma membrane	calcium ion binding|G-protein coupled receptor activity|protein dimerization activity			pancreas(2)|skin(1)	3		Ovarian(80;0.00142)|Breast(42;0.00296)|all_neural(38;0.0416)|Colorectal(5;0.0766)		UCEC - Uterine corpus endometrioid carcinoma (28;0.00643)|BRCA - Breast invasive adenocarcinoma(115;0.171)										0.33			2	4		---	---	---	---	capture_indel		Frame_Shift_Del	DEL	46773101	46773101	3354	22	C	-	-	-	338	26	CELSR1	5	5
DNAH6	1768	broad.mit.edu	37	2	84752795	84752796	+	Frame_Shift_Ins	INS	-	A	A			TCGA-17-Z032-01	TCGA-17-Z032-01										Phase_I	Unspecified				Illumina GAIIx	g.chr2:84752795_84752796insA	uc010fgb.2	+	c.332_333insA	c.(331-333)GCAfs	p.A111fs	DNAH6_uc002soo.2_5'UTR|DNAH6_uc002sop.2_Intron	NM_001370	NP_001361	Q9C0G6	DYH6_HUMAN	dynein, axonemal, heavy polypeptide 6	111	Stem (By similarity).				microtubule-based movement	cilium axoneme|cytoplasm|dynein complex|microtubule	ATP binding|ATPase activity|microtubule motor activity			central_nervous_system(1)	1														0.33			2	4		---	---	---	---	capture_indel		Frame_Shift_Ins	INS	84752795	84752796	4788	2	-	A	A	A	325	25	DNAH6	5	5
GPC2	221914	broad.mit.edu	37	7	99769524	99769525	+	Frame_Shift_Ins	INS	-	G	G			TCGA-17-Z032-01	TCGA-17-Z032-01										Phase_I	Unspecified				Illumina GAIIx	g.chr7:99769524_99769525insG	uc003utv.2	-	c.1047_1048insC	c.(1045-1050)CCCGACfs	p.P349fs	GPC2_uc010lgr.2_Non-coding_Transcript	NM_152742	NP_689955	Q8N158	GPC2_HUMAN	glypican 2 precursor	349_350						anchored to membrane|endoplasmic reticulum|extracellular space|plasma membrane|proteinaceous extracellular matrix	heparan sulfate proteoglycan binding			breast(1)|pancreas(1)	2	Lung NSC(181;0.0181)|all_lung(186;0.0284)|Esophageal squamous(72;0.0439)													0.38			3	5		---	---	---	---	capture_indel		Frame_Shift_Ins	INS	99769524	99769525	6872	7	-	G	G	G	403	31	GPC2	5	5
