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
CDK1	983	broad.mit.edu	37	10	62544479	62544479	+	Silent	SNP	G	C	C			TCGA-67-3773-01	TCGA-67-3773-01										Phase_I	Unspecified				Illumina GAIIx	g.chr10:62544479G>C	uc001jld.2	+	c.54G>C	c.(52-54)GTG>GTC	p.V18V	CDK1_uc010qii.1_Silent_p.V18V|CDK1_uc001jle.2_Non-coding_Transcript|CDK1_uc001jlf.2_Silent_p.V18V|CDK1_uc001jlg.2_Silent_p.V18V	NM_001786	NP_001777	P06493	CDK1_HUMAN	cell division cycle 2 isoform 1	18	ATP (By similarity).|Protein kinase.				activation of MAPK activity|activation of MAPKK activity|anaphase-promoting complex-dependent proteasomal ubiquitin-dependent protein catabolic process|anti-apoptosis|axon guidance|cell division|epidermal growth factor receptor signaling pathway|innate immune response|insulin receptor signaling pathway|mitosis|MyD88-dependent toll-like receptor signaling pathway|MyD88-independent toll-like receptor signaling pathway|nerve growth factor receptor signaling pathway|positive regulation of ubiquitin-protein ligase activity involved in mitotic cell cycle|protein localization to kinetochore|Ras protein signal transduction|regulation of transcription involved in G1/S phase of mitotic cell cycle|stress-activated MAPK cascade|Toll signaling pathway|toll-like receptor 1 signaling pathway|toll-like receptor 2 signaling pathway|toll-like receptor 3 signaling pathway|toll-like receptor 4 signaling pathway	cytosol|midbody|nucleoplasm|spindle microtubule	ATP binding|cyclin-dependent protein kinase activity|RNA polymerase II carboxy-terminal domain kinase activity			ovary(1)	1										52				0.305344	135.251273	139.678207	40	91	KEEP	---	---	---	---	capture		Silent	SNP	62544479	62544479	3253	10	G	C	C	C	613	48	CDK1	3	3
MMP1	4312	broad.mit.edu	37	11	102667829	102667829	+	Missense_Mutation	SNP	G	T	T			TCGA-67-3773-01	TCGA-67-3773-01										Phase_I	Unspecified				Illumina GAIIx	g.chr11:102667829G>T	uc001phi.2	-	c.415C>A	c.(415-417)CAA>AAA	p.Q139K	MMP1_uc010ruv.1_Missense_Mutation_p.Q73K	NM_002421	NP_002412	P03956	MMP1_HUMAN	matrix metalloproteinase 1 isoform 1	139	Metalloprotease.				blood coagulation|collagen catabolic process|interspecies interaction between organisms|leukocyte migration|proteolysis	proteinaceous extracellular matrix	calcium ion binding|metalloendopeptidase activity|zinc ion binding			ovary(1)|lung(1)	2	all_epithelial(12;0.0127)	all_neural(303;0.000318)|all_hematologic(158;0.00092)|Acute lymphoblastic leukemia(157;0.000967)	Epithelial(9;0.072)|Lung(13;0.0828)|LUSC - Lung squamous cell carcinoma(19;0.151)|all cancers(10;0.233)	OV - Ovarian serous cystadenocarcinoma(223;1.82e-07)|Epithelial(105;1.51e-06)|BRCA - Breast invasive adenocarcinoma(274;0.014)						227				0.25977	315.965203	338.702482	113	322	KEEP	---	---	---	---	capture		Missense_Mutation	SNP	102667829	102667829	10038	11	G	T	T	T	611	47	MMP1	2	2
ZBTB16	7704	broad.mit.edu	37	11	114113048	114113048	+	Missense_Mutation	SNP	G	T	T			TCGA-67-3773-01	TCGA-67-3773-01										Phase_I	Unspecified				Illumina GAIIx	g.chr11:114113048G>T	uc001pop.2	+	c.1613G>T	c.(1612-1614)CGC>CTC	p.R538L	ZBTB16_uc001poq.2_Missense_Mutation_p.R538L	NM_006006	NP_005997	Q05516	ZBT16_HUMAN	promyelocytic leukemia zinc finger protein	538	C2H2-type 5.				apoptosis|central nervous system development|mesonephros development|myeloid cell differentiation|negative regulation of myeloid cell differentiation|negative regulation of transcription, DNA-dependent	nuclear speck|PML body|transcriptional repressor complex	protein homodimerization activity|specific transcriptional repressor activity|zinc ion binding			central_nervous_system(1)	1		all_cancers(61;3.79e-18)|all_epithelial(67;2.32e-10)|all_hematologic(158;2.96e-05)|Melanoma(852;0.000362)|Acute lymphoblastic leukemia(157;0.00108)|Breast(348;0.0104)|all_neural(223;0.0294)|Prostate(24;0.0318)|Medulloblastoma(222;0.0438)		BRCA - Breast invasive adenocarcinoma(274;6.75e-06)|Epithelial(105;0.000181)|all cancers(92;0.0018)						489				0.38	57.614692	58.245667	19	31	KEEP	---	---	---	---	capture		Missense_Mutation	SNP	114113048	114113048	18112	11	G	T	T	T	494	38	ZBTB16	1	1
TECTA	7007	broad.mit.edu	37	11	120989078	120989078	+	Missense_Mutation	SNP	G	T	T			TCGA-67-3773-01	TCGA-67-3773-01										Phase_I	Unspecified				Illumina GAIIx	g.chr11:120989078G>T	uc010rzo.1	+	c.854G>T	c.(853-855)TGT>TTT	p.C285F		NM_005422	NP_005413	O75443	TECTA_HUMAN	tectorin alpha precursor	285	VWFC.				cell-matrix adhesion|sensory perception of sound	anchored to membrane|plasma membrane|proteinaceous extracellular matrix				breast(6)|ovary(2)	8	all_hematologic(175;0.208)	Breast(109;0.000766)|Medulloblastoma(222;0.0427)|all_neural(223;0.112)		BRCA - Breast invasive adenocarcinoma(274;8.04e-06)|OV - Ovarian serous cystadenocarcinoma(223;0.166)										0.191781	35.204944	41.684204	14	59	KEEP	---	---	---	---	capture		Missense_Mutation	SNP	120989078	120989078	16274	11	G	T	T	T	624	48	TECTA	2	2
GRAMD1B	57476	broad.mit.edu	37	11	123489404	123489404	+	Silent	SNP	G	T	T			TCGA-67-3773-01	TCGA-67-3773-01										Phase_I	Unspecified				Illumina GAIIx	g.chr11:123489404G>T	uc001pyw.2	+	c.1926G>T	c.(1924-1926)CTG>CTT	p.L642L	GRAMD1B_uc001pyx.2_Silent_p.L635L|GRAMD1B_uc010rzw.1_Silent_p.L591L|GRAMD1B_uc010rzx.1_Silent_p.L595L|GRAMD1B_uc001pyy.2_Silent_p.L322L	NM_020716	NP_065767	Q3KR37	GRM1B_HUMAN	GRAM domain containing 1B	635	Helical; (Potential).					integral to membrane				ovary(1)	1		Breast(109;0.00204)|Lung NSC(97;0.0177)|all_lung(97;0.0179)|Medulloblastoma(222;0.0425)|all_neural(223;0.112)		BRCA - Breast invasive adenocarcinoma(274;7.32e-06)|OV - Ovarian serous cystadenocarcinoma(99;0.0394)						1503				0.297297	31.514105	32.871342	11	26	KEEP	---	---	---	---	capture		Silent	SNP	123489404	123489404	7024	11	G	T	T	T	600	47	GRAMD1B	2	2
OR51A4	401666	broad.mit.edu	37	11	4967760	4967760	+	Missense_Mutation	SNP	A	T	T			TCGA-67-3773-01	TCGA-67-3773-01										Phase_I	Unspecified				Illumina GAIIx	g.chr11:4967760A>T	uc010qys.1	-	c.571T>A	c.(571-573)TGT>AGT	p.C191S		NM_001005329	NP_001005329	Q8NGJ6	O51A4_HUMAN	olfactory receptor, family 51, subfamily A,	191	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(2)	2		Medulloblastoma(188;0.0075)|all_neural(188;0.0577)|Breast(177;0.086)		Epithelial(150;3.22e-11)|BRCA - Breast invasive adenocarcinoma(625;0.0284)|LUSC - Lung squamous cell carcinoma(625;0.19)										0.241667	166.729962	181.337699	58	182	KEEP	---	---	---	---	capture		Missense_Mutation	SNP	4967760	4967760	11497	11	A	T	T	T	91	7	OR51A4	3	3
OR52J3	119679	broad.mit.edu	37	11	5068314	5068314	+	Missense_Mutation	SNP	G	A	A			TCGA-67-3773-01	TCGA-67-3773-01										Phase_I	Unspecified				Illumina GAIIx	g.chr11:5068314G>A	uc010qyv.1	+	c.559G>A	c.(559-561)GCA>ACA	p.A187T		NM_001001916	NP_001001916	Q8NH60	O52J3_HUMAN	olfactory receptor, family 52, subfamily J,	187	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			lung(1)	1		Medulloblastoma(188;0.00131)|all_neural(188;0.0189)|Breast(177;0.0204)		Epithelial(150;9.29e-10)|BRCA - Breast invasive adenocarcinoma(625;0.135)|LUSC - Lung squamous cell carcinoma(625;0.19)										0.327381	465.786268	479.113456	165	339	KEEP	---	---	---	---	capture		Missense_Mutation	SNP	5068314	5068314	11532	11	G	A	A	A	598	46	OR52J3	2	2
TRIM22	10346	broad.mit.edu	37	11	5730700	5730700	+	Missense_Mutation	SNP	C	T	T			TCGA-67-3773-01	TCGA-67-3773-01										Phase_I	Unspecified				Illumina GAIIx	g.chr11:5730700C>T	uc001mbr.2	+	c.1319C>T	c.(1318-1320)CCC>CTC	p.P440L	TRIM5_uc001mbq.1_Intron|TRIM22_uc009yet.1_Intron|TRIM22_uc009yes.2_Missense_Mutation_p.P436L|TRIM22_uc010qzm.1_Missense_Mutation_p.P268L|TRIM22_uc009yeu.2_Missense_Mutation_p.P251L|OR56B1_uc001mbs.1_Intron|OR56B1_uc009yev.1_Intron	NM_006074	NP_006065	Q8IYM9	TRI22_HUMAN	tripartite motif-containing 22	440	B30.2/SPRY.				immune response|interspecies interaction between organisms|protein trimerization|regulation of transcription, DNA-dependent|response to virus	Cajal body|Golgi apparatus|nuclear speck	ligase activity|sequence-specific DNA binding transcription factor activity|transcription corepressor activity|zinc ion binding				0		Medulloblastoma(188;0.00225)|Breast(177;0.0204)|all_neural(188;0.0212)		Epithelial(150;7.54e-09)|BRCA - Breast invasive adenocarcinoma(625;0.14)		GBM(104;491 2336 5222)								0.283613	398.318148	418.33633	135	341	KEEP	---	---	---	---	capture		Missense_Mutation	SNP	5730700	5730700	17040	11	C	T	T	T	286	22	TRIM22	2	2
CTNND1	1500	broad.mit.edu	37	11	57569381	57569381	+	Missense_Mutation	SNP	G	T	T			TCGA-67-3773-01	TCGA-67-3773-01										Phase_I	Unspecified				Illumina GAIIx	g.chr11:57569381G>T	uc001nmc.3	+	c.1133G>T	c.(1132-1134)CGC>CTC	p.R378L	CTNND1_uc001nlh.1_Missense_Mutation_p.R378L|CTNND1_uc001nlu.3_Missense_Mutation_p.R277L|CTNND1_uc001nlt.3_Missense_Mutation_p.R277L|CTNND1_uc001nls.3_Missense_Mutation_p.R277L|CTNND1_uc001nlw.3_Missense_Mutation_p.R277L|CTNND1_uc001nmf.3_Missense_Mutation_p.R378L|CTNND1_uc001nmd.3_Missense_Mutation_p.R324L|CTNND1_uc001nlk.3_Missense_Mutation_p.R324L|CTNND1_uc001nme.3_Missense_Mutation_p.R378L|CTNND1_uc001nll.3_Missense_Mutation_p.R324L|CTNND1_uc001nmg.3_Missense_Mutation_p.R324L|CTNND1_uc001nlj.3_Missense_Mutation_p.R324L|CTNND1_uc001nlr.3_Missense_Mutation_p.R324L|CTNND1_uc001nlp.3_Missense_Mutation_p.R324L|CTNND1_uc001nlx.3_Missense_Mutation_p.R55L|CTNND1_uc001nlz.3_Missense_Mutation_p.R55L|CTNND1_uc009ymn.2_Missense_Mutation_p.R55L|CTNND1_uc001nlm.3_Missense_Mutation_p.R378L|CTNND1_uc001nly.3_Missense_Mutation_p.R55L|CTNND1_uc001nmb.3_Missense_Mutation_p.R55L|CTNND1_uc001nma.3_Missense_Mutation_p.R55L|CTNND1_uc001nmi.3_Missense_Mutation_p.R277L|CTNND1_uc001nmh.3_Missense_Mutation_p.R378L|CTNND1_uc001nlq.3_Missense_Mutation_p.R277L|CTNND1_uc001nln.3_Missense_Mutation_p.R378L|CTNND1_uc001nli.3_Missense_Mutation_p.R378L|CTNND1_uc001nlo.3_Missense_Mutation_p.R277L|CTNND1_uc001nlv.3_Missense_Mutation_p.R277L	NM_001085458	NP_001078927	O60716	CTND1_HUMAN	catenin, delta 1 isoform 1ABC	378	ARM 1.				adherens junction organization|cell junction assembly|negative regulation of canonical Wnt receptor signaling pathway|regulation of transcription, DNA-dependent|transcription, DNA-dependent|Wnt receptor signaling pathway	cytosol|midbody|nucleus	cadherin binding|protein binding|receptor binding			breast(4)|ovary(1)|kidney(1)	6		all_epithelial(135;0.155)												0.487751	759.634228	759.691581	219	230	KEEP	---	---	---	---	capture		Missense_Mutation	SNP	57569381	57569381	4178	11	G	T	T	T	494	38	CTNND1	1	1
OR9Q2	219957	broad.mit.edu	37	11	57958720	57958720	+	Missense_Mutation	SNP	G	A	A			TCGA-67-3773-01	TCGA-67-3773-01										Phase_I	Unspecified				Illumina GAIIx	g.chr11:57958720G>A	uc010rka.1	+	c.758G>A	c.(757-759)GGC>GAC	p.G253D		NM_001005283	NP_001005283	Q8NGE9	OR9Q2_HUMAN	olfactory receptor, family 9, subfamily Q,	253	Helical; Name=6; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(2)|breast(1)|central_nervous_system(1)	4		Breast(21;0.0589)												0.379205	367.132711	371.31405	124	203	KEEP	---	---	---	---	capture		Missense_Mutation	SNP	57958720	57958720	11667	11	G	A	A	A	546	42	OR9Q2	2	2
GLYATL1	92292	broad.mit.edu	37	11	58711127	58711127	+	Missense_Mutation	SNP	C	A	A			TCGA-67-3773-01	TCGA-67-3773-01										Phase_I	Unspecified				Illumina GAIIx	g.chr11:58711127C>A	uc001nnh.1	+	c.136C>A	c.(136-138)CTG>ATG	p.L46M	GLYATL1_uc001nnf.2_De_novo_Start_OutOfFrame|GLYATL1_uc001nni.1_De_novo_Start_OutOfFrame|GLYATL1_uc001nnj.1_De_novo_Start_OutOfFrame	NM_080661	NP_542392	Q969I3	GLYL1_HUMAN	glycine-N-acyltransferase-like 1	Error:Variant_position_missing_in_Q969I3_after_alignment						mitochondrion	glycine N-acyltransferase activity			ovary(1)	1					Glycine(DB00145)									0.240741	101.838756	111.777621	39	123	KEEP	---	---	---	---	capture		Missense_Mutation	SNP	58711127	58711127	6748	11	C	A	A	A	363	28	GLYATL1	2	2
DNHD1	144132	broad.mit.edu	37	11	6588836	6588836	+	Missense_Mutation	SNP	G	A	A			TCGA-67-3773-01	TCGA-67-3773-01										Phase_I	Unspecified				Illumina GAIIx	g.chr11:6588836G>A	uc001mdw.3	+	c.12097G>A	c.(12097-12099)GAG>AAG	p.E4033K	DNHD1_uc001mea.3_Missense_Mutation_p.E302K|DNHD1_uc001meb.2_Missense_Mutation_p.E301K|DNHD1_uc001mec.2_Missense_Mutation_p.E301K|DNHD1_uc010rao.1_Missense_Mutation_p.E291K|DNHD1_uc009yfg.2_5'Flank	NM_144666	NP_653267	Q96M86	DNHD1_HUMAN	dynein heavy chain domain 1 isoform 1	4033					microtubule-based movement	dynein complex	microtubule motor activity			ovary(2)	2		Medulloblastoma(188;0.00776)|all_neural(188;0.0652)|Breast(177;0.171)		Epithelial(150;3.93e-08)|BRCA - Breast invasive adenocarcinoma(625;0.13)										0.454545	14.67303	14.692901	5	6	KEEP	---	---	---	---	capture		Missense_Mutation	SNP	6588836	6588836	4851	11	G	A	A	A	585	45	DNHD1	2	2
MYEOV	26579	broad.mit.edu	37	11	69063507	69063507	+	Missense_Mutation	SNP	C	T	T			TCGA-67-3773-01	TCGA-67-3773-01										Phase_I	Unspecified				Illumina GAIIx	g.chr11:69063507C>T	uc001oov.2	+	c.590C>T	c.(589-591)GCG>GTG	p.A197V	MYEOV_uc001oox.2_Intron|MYEOV_uc009ysl.2_Missense_Mutation_p.A197V|MYEOV_uc001oow.2_Missense_Mutation_p.A139V	NM_138768	NP_620123	Q96EZ4	MYEOV_HUMAN	myeloma overexpressed	197											0	all_lung(4;2.21e-19)|Lung NSC(4;6.13e-19)|Melanoma(5;0.00128)		LUSC - Lung squamous cell carcinoma(11;3.33e-11)|STAD - Stomach adenocarcinoma(18;0.00654)|LUAD - Lung adenocarcinoma(13;0.0713)	Kidney(183;2.99e-09)|KIRC - Kidney renal clear cell carcinoma(183;3.23e-08)|Lung(977;0.00361)|LUSC - Lung squamous cell carcinoma(976;0.0153)										0.101695	3.810893	13.144741	6	53	KEEP	---	---	---	---	capture		Missense_Mutation	SNP	69063507	69063507	10420	11	C	T	T	T	351	27	MYEOV	1	1
INPPL1	3636	broad.mit.edu	37	11	71946219	71946219	+	Silent	SNP	C	T	T			TCGA-67-3773-01	TCGA-67-3773-01										Phase_I	Unspecified				Illumina GAIIx	g.chr11:71946219C>T	uc001osf.2	+	c.2475C>T	c.(2473-2475)GTC>GTT	p.V825V	INPPL1_uc001osg.2_Silent_p.V583V	NM_001567	NP_001558	O15357	SHIP2_HUMAN	inositol polyphosphate phosphatase-like 1	825					actin filament organization|cell adhesion|endocytosis	actin cortical patch|cytosol	actin binding|SH2 domain binding|SH3 domain binding			skin(2)|ovary(1)	3														0.297872	38.530256	40.247682	14	33	KEEP	---	---	---	---	capture		Silent	SNP	71946219	71946219	8062	11	C	T	T	T	366	29	INPPL1	2	2
ANKRD42	338699	broad.mit.edu	37	11	82917155	82917155	+	Missense_Mutation	SNP	G	T	T			TCGA-67-3773-01	TCGA-67-3773-01										Phase_I	Unspecified				Illumina GAIIx	g.chr11:82917155G>T	uc001ozz.1	+	c.194G>T	c.(193-195)GGT>GTT	p.G65V	ANKRD42_uc009yvi.1_Missense_Mutation_p.G93V|ANKRD42_uc010rsv.1_Missense_Mutation_p.G93V|ANKRD42_uc001paa.2_Missense_Mutation_p.G93V|ANKRD42_uc001pab.1_Missense_Mutation_p.G93V	NM_182603	NP_872409	Q8N9B4	ANR42_HUMAN	ankyrin repeat domain 42	65	ANK 2.										0														0.319218	300.444184	309.359046	98	209	KEEP	---	---	---	---	capture		Missense_Mutation	SNP	82917155	82917155	678	11	G	T	T	T	572	44	ANKRD42	2	2
KLRC2	3822	broad.mit.edu	37	12	10584778	10584778	+	Missense_Mutation	SNP	A	G	G			TCGA-67-3773-01	TCGA-67-3773-01										Phase_I	Unspecified				Illumina GAIIx	g.chr12:10584778A>G	uc001qyk.2	-	c.511T>C	c.(511-513)TCA>CCA	p.S171P	KLRC3_uc001qyh.2_Intron|KLRC2_uc010she.1_Missense_Mutation_p.S171P	NM_002260	NP_002251	P26717	NKG2C_HUMAN	killer cell lectin-like receptor subfamily C,	171	Extracellular (Potential).|C-type lectin.				cellular defense response	integral to plasma membrane	sugar binding|transmembrane receptor activity				0														0.246753	58.287562	62.781537	19	58	KEEP	---	---	---	---	capture		Missense_Mutation	SNP	10584778	10584778	8730	12	A	G	G	G	143	11	KLRC2	4	4
KIAA1467	57613	broad.mit.edu	37	12	13229033	13229033	+	Missense_Mutation	SNP	T	A	A			TCGA-67-3773-01	TCGA-67-3773-01										Phase_I	Unspecified				Illumina GAIIx	g.chr12:13229033T>A	uc001rbi.2	+	c.1598T>A	c.(1597-1599)CTT>CAT	p.L533H	KIAA1467_uc009zhx.1_Non-coding_Transcript	NM_020853	NP_065904	A2RU67	K1467_HUMAN	hypothetical protein LOC57613	533						integral to membrane				central_nervous_system(2)|skin(1)	3		Prostate(47;0.184)		BRCA - Breast invasive adenocarcinoma(232;0.157)										0.357576	353.956483	359.852944	118	212	KEEP	---	---	---	---	capture		Missense_Mutation	SNP	13229033	13229033	8544	12	T	A	A	A	728	56	KIAA1467	3	3
KRAS	3845	broad.mit.edu	37	12	25398284	25398284	+	Missense_Mutation	SNP	C	A	A			TCGA-67-3773-01	TCGA-67-3773-01										Phase_I	Unspecified				Illumina GAIIx	g.chr12:25398284C>A	uc001rgp.1	-	c.35G>T	c.(34-36)GGT>GTT	p.G12V	KRAS_uc001rgq.1_Missense_Mutation_p.G12V|KRAS_uc001rgr.2_Non-coding_Transcript	NM_033360	NP_203524	P01116	RASK_HUMAN	c-K-ras2 protein isoform a precursor	12	GTP.		G -> D (in pancreatic carcinoma, GASC and lung carcinoma; somatic mutation).|G -> R (in lung cancer and bladder cancer; somatic mutation).|G -> S (in lung carcinoma and GASC; somatic mutation).|G -> A (in a colorectal cancer sample; somatic mutation).|G -> C (in lung carcinoma; somatic mutation).|G -> V (in lung carcinoma, pancreatic carcinoma, colon cancer and GASC; somatic mutation).		activation of MAPKK activity|axon guidance|blood coagulation|epidermal growth factor receptor signaling pathway|insulin receptor signaling pathway|leukocyte migration|nerve growth factor receptor signaling pathway|Ras protein signal transduction	plasma membrane	GTP binding|GTPase activity|protein binding	p.G12D(6894)|p.G12V(4601)|p.G12A(1119)|p.G12?(50)|p.G12F(33)|p.G12N(6)|p.G12L(5)|p.G12C(4)|p.G12I(3)|p.G12W(3)|p.G12E(2)|p.G12Y(2)|p.G12fs*3(1)|p.G12S(1)|p.G12_G13insG(1)		large_intestine(11742)|pancreas(3256)|lung(2694)|biliary_tract(514)|ovary(437)|endometrium(339)|haematopoietic_and_lymphoid_tissue(303)|stomach(179)|thyroid(145)|prostate(85)|soft_tissue(75)|small_intestine(62)|upper_aerodigestive_tract(59)|cervix(49)|urinary_tract(48)|skin(38)|breast(27)|liver(21)|testis(17)|oesophagus(15)|central_nervous_system(8)|peritoneum(5)|kidney(5)|salivary_gland(5)|thymus(5)|eye(4)|gastrointestinal_tract_(site_indeterminate)(4)|autonomic_ganglia(2)|bone(2)|genital_tract(1)|penis(1)|adrenal_gland(1)	20148	all_cancers(2;1e-35)|all_epithelial(2;1.97e-38)|all_lung(3;2.1e-23)|Lung NSC(3;1.16e-22)|Acute lymphoblastic leukemia(6;0.00231)|all_hematologic(7;0.00259)|Melanoma(3;0.0301)|Colorectal(261;0.11)|Ovarian(17;0.12)		OV - Ovarian serous cystadenocarcinoma(3;1.23e-21)|Epithelial(3;1.31e-20)|all cancers(3;5.45e-18)|STAD - Stomach adenocarcinoma(2;2.68e-05)			Pancreas(8;6 143 191 305 2070 2426 4376 10944 11745 26467 38091 50869)	G12D(HPAC_PANCREAS)|G12V(SW403_LARGE_INTESTINE)|G12D(HPAFII_PANCREAS)|G12D(PANC0403_PANCREAS)|G12D(KOPN8_HAEMATOPOIETIC_AND_LYMPHOID_TISSUE)|G12A(KMS28BM_HAEMATOPOIETIC_AND_LYMPHOID_TISSUE)|G12V(NCIH441_LUNG)|G12D(SU8686_PANCREAS)|G12D(SUIT2_PANCREAS)|G12D(PK1_PANCREAS)|G12V(KP3_PANCREAS)|G12D(PANC0813_PANCREAS)|G12A(SW1116_LARGE_INTESTINE)|G12D(LS180_LARGE_INTESTINE)|G12V(NCIH727_LUNG)|G12V(PATU8988S_PANCREAS)|G12V(CAPAN2_PANCREAS)|G12D(KP4_PANCREAS)|G12D(LS513_LARGE_INTESTINE)|G12D(SNUC2A_LARGE_INTESTINE)|G12V(SW480_LARGE_INTESTINE)|G12V(COLO668_LUNG)|G12D(COLO678_LARGE_INTESTINE)|G12V(RERFLCAD2_LUNG)|G12D(PANC0203_PANCREAS)|G12V(CFPAC1_PANCREAS)|G12V(SW900_LUNG)|G12V(LCLC97TM1_LUNG)|G12V(SW620_LARGE_INTESTINE)|G12A(MM1S_HAEMATOPOIETIC_AND_LYMPHOID_TISSUE)|G12V(SH10TC_STOMACH)|G12V(A498_KIDNEY)|G12D(PK59_PANCREAS)|G12D(HEC1A_ENDOMETRIUM)|G12D(PANC0504_PANCREAS)|G12V(SNGM_ENDOMETRIUM)|G12A(RERFLCAD1_LUNG)|G12A(KPNSI9S_AUTONOMIC_GANGLIA)|G12D(ASPC1_PANCREAS)|G12A(RPMI8226_HAEMATOPOIETIC_AND_LYMPHOID_TISSUE)|G12V(RCM1_LARGE_INTESTINE)|G12V(CORL23_LUNG)|G12D(SW1990_PANCREAS)|G12D(HEYA8_OVARY)|G12A(NCIH1573_LUNG)|G12A(NCIH2009_LUNG)|G12V(HUPT4_PANCREAS)|G12D(KARPAS620_HAEMATOPOIETIC_AND_LYMPHOID_TISSUE)|G12D(HEC50B_ENDOMETRIUM)|G12V(YAPC_PANCREAS)|G12V(NCIH2444_LUNG)|G12V(HCC56_LARGE_INTESTINE)|G12D(MCAS_OVARY)|G12V(DANG_PANCREAS)|G12V(SHP77_LUNG)|G12D(AGS_STOMACH)|G12D(SKLU1_LUNG)|G12V(QGP1_PANCREAS)|G12D(L33_PANCREAS)|G12V(PANC0327_PANCREAS)|G12D(PANC1_PANCREAS)|G12V(RKN_OVARY)|G12V(PATU8902_PANCREAS)	119	p.G12D(SNU1197-Tumor)|p.G12D(HEC1A-Tumor)|p.G12D(SKLU1-Tumor)|p.G12D(GP2D-Tumor)|p.G12A(MM1S-Tumor)|p.G12D(HCC1588-Tumor)|p.G12D(SNUC2A-Tumor)|p.G12D(SNU1033-Tumor)|p.G12A(KPNSI9S-Tumor)|p.G12A(NCIH1573-Tumor)|p.G12D(KARPAS620-Tumor)|p.G12D(KP1NL-Tumor)|p.G12D(MCAS-Tumor)|p.G12D(HPAFII-Tumor)|p.G12D(PANC04.03-Tumor)|p.G12D(PANC10.05-Tumor)|p.G12D(TGBC11TKB-Tumor)|p.G12D(LS513-Tumor)|p.G12D(SW1990-Tumor)|p.G12D(SNU601-Tumor)|p.G12A(COLO775-Tumor)|p.G12D(ASPC1-Tumor)|p.G12A(SW1116-Tumor)|p.G12D(CL40-Tumor)|p.G12D(HEC1B-Tumor)|p.G12D(LS180-Tumor)|p.G12D(HEYA8-Tumor)|p.G12D(KP1N-Tumor)|p.G12D(PK1-Tumor)|p.G12D(SU.86.86-Tumor)|p.G12A(RERFLCAD1-Tumor)|p.G12D(PANC08.13-Tumor)|p.G12D(HEC50B-Tumor)|p.G12A(NCIH2009-Tumor)|p.G12D(639V-Tumor)|p.G12D(SNU410-Tumor)|p.G12D(L3.3-Tumor)|p.G12D(SNU407-Tumor)|p.G12A(KMS28BM-Tumor)|p.G12D(PK59-Tumor)|p.G12V(SH10TC-Tumor)|p.G12D(PK45H-Tumor)|p.G12D(GSU-Tumor)|p.G12D(SNU869-Tumor)|p.G12D(HUCCT1-Tumor)|p.G12D(NCIH684-Tumor)|p.G12D(KP4-Tumor)|p.G12D(PANC02.03-Tumor)|p.G12A(RPMI8226-Tumor)|p.G12V(PANC03.27-Tumor)|p.G12D(SNU1-Tumor)|p.G12D(AGS-Tumor)|p.G12D(SNU8-Tumor)|p.G12D(T3M10-Tumor)	262	TSP Lung(1;<1E-8)|Multiple Myeloma(2;<1E-6)			0.365854	47.012252	47.66184	15	26	KEEP	---	---	---	---	capture		Missense_Mutation	SNP	25398284	25398284	8753	12	C	A	A	A	234	18	KRAS	2	2
CACNA1C	775	broad.mit.edu	37	12	2797654	2797654	+	Missense_Mutation	SNP	C	A	A			TCGA-67-3773-01	TCGA-67-3773-01										Phase_I	Unspecified				Illumina GAIIx	g.chr12:2797654C>A	uc009zdu.1	+	c.6075C>A	c.(6073-6075)AGC>AGA	p.S2025R	CACNA1C_uc009zdv.1_Missense_Mutation_p.S1939R|CACNA1C_uc001qkb.2_Missense_Mutation_p.S1942R|CACNA1C_uc001qkc.2_Missense_Mutation_p.S1961R|CACNA1C_uc001qke.2_Missense_Mutation_p.S1931R|CACNA1C_uc001qkf.2_Missense_Mutation_p.S1950R|CACNA1C_uc001qjz.2_Missense_Mutation_p.S1942R|CACNA1C_uc001qkd.2_Missense_Mutation_p.S1961R|CACNA1C_uc001qkg.2_Missense_Mutation_p.S1948R|CACNA1C_uc009zdw.1_Missense_Mutation_p.S1983R|CACNA1C_uc001qkh.2_Missense_Mutation_p.S1950R|CACNA1C_uc001qkl.2_Missense_Mutation_p.S1990R|CACNA1C_uc001qkn.2_Missense_Mutation_p.S1942R|CACNA1C_uc001qko.2_Missense_Mutation_p.S1962R|CACNA1C_uc001qkp.2_Missense_Mutation_p.S1942R|CACNA1C_uc001qkr.2_Missense_Mutation_p.S1959R|CACNA1C_uc001qku.2_Missense_Mutation_p.S1977R|CACNA1C_uc001qkq.2_Missense_Mutation_p.S1970R|CACNA1C_uc001qks.2_Missense_Mutation_p.S1942R|CACNA1C_uc001qkt.2_Missense_Mutation_p.S1961R|CACNA1C_uc001qki.1_Missense_Mutation_p.S1749R|CACNA1C_uc001qkj.1_Missense_Mutation_p.S1713R|CACNA1C_uc001qkk.1_Missense_Mutation_p.S1678R|CACNA1C_uc001qkm.1_Missense_Mutation_p.S1738R|CACNA1C_uc010sea.1_Missense_Mutation_p.S633R|CACNA1C_uc001qky.1_Missense_Mutation_p.S260R	NM_199460	NP_955630	Q13936	CAC1C_HUMAN	calcium channel, voltage-dependent, L type,	2025	Cytoplasmic (Potential).				axon guidance|calcium ion transport into cytosol|energy reserve metabolic process|regulation of insulin secretion	cytoplasm|postsynaptic density|voltage-gated calcium channel complex	calmodulin binding|voltage-gated calcium channel activity			ovary(10)|central_nervous_system(1)	11			OV - Ovarian serous cystadenocarcinoma(31;0.00256)	LUAD - Lung adenocarcinoma(1;0.134)	Ibutilide(DB00308)|Isradipine(DB00270)|Magnesium Sulfate(DB00653)|Mibefradil(DB01388)|Nicardipine(DB00622)|Verapamil(DB00661)									0.228571	18.980548	21.347564	8	27	KEEP	---	---	---	---	capture		Missense_Mutation	SNP	2797654	2797654	2656	12	C	A	A	A	337	26	CACNA1C	2	2
OR6C65	403282	broad.mit.edu	37	12	55794443	55794443	+	Missense_Mutation	SNP	T	A	A			TCGA-67-3773-01	TCGA-67-3773-01										Phase_I	Unspecified				Illumina GAIIx	g.chr12:55794443T>A	uc010spl.1	+	c.131T>A	c.(130-132)ATT>AAT	p.I44N		NM_001005518	NP_001005518	A6NJZ3	O6C65_HUMAN	olfactory receptor, family 6, subfamily C,	44	Helical; Name=1; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity				0														0.272727	17.240094	18.264383	6	16	KEEP	---	---	---	---	capture		Missense_Mutation	SNP	55794443	55794443	11605	12	T	A	A	A	676	52	OR6C65	3	3
NAV3	89795	broad.mit.edu	37	12	78542638	78542638	+	Missense_Mutation	SNP	G	T	T			TCGA-67-3773-01	TCGA-67-3773-01										Phase_I	Unspecified				Illumina GAIIx	g.chr12:78542638G>T	uc001syp.2	+	c.4724G>T	c.(4723-4725)CGG>CTG	p.R1575L	NAV3_uc001syo.2_Missense_Mutation_p.R1575L|NAV3_uc010sub.1_Missense_Mutation_p.R1061L|NAV3_uc009zsf.2_Missense_Mutation_p.R406L	NM_014903	NP_055718	Q8IVL0	NAV3_HUMAN	neuron navigator 3	1575	Potential.					nuclear outer membrane	ATP binding|nucleoside-triphosphatase activity			large_intestine(6)|ovary(5)|lung(2)|breast(1)|kidney(1)|pancreas(1)	16										1091				0.205128	42.757571	49.046595	16	62	KEEP	---	---	---	---	capture		Missense_Mutation	SNP	78542638	78542638	10581	12	G	T	T	T	507	39	NAV3	1	1
TMTC2	160335	broad.mit.edu	37	12	83251161	83251161	+	Missense_Mutation	SNP	G	T	T			TCGA-67-3773-01	TCGA-67-3773-01										Phase_I	Unspecified				Illumina GAIIx	g.chr12:83251161G>T	uc001szt.2	+	c.456G>T	c.(454-456)TTG>TTT	p.L152F	TMTC2_uc001szr.1_Missense_Mutation_p.L152F|TMTC2_uc001szs.1_Missense_Mutation_p.L152F|TMTC2_uc010suk.1_Intron	NM_152588	NP_689801	Q8N394	TMTC2_HUMAN	transmembrane and tetratricopeptide repeat	152	Helical; (Potential).					endoplasmic reticulum|integral to membrane	binding			ovary(2)	2														0.37037	185.955362	188.348573	60	102	KEEP	---	---	---	---	capture		Missense_Mutation	SNP	83251161	83251161	16802	12	G	T	T	T	594	46	TMTC2	2	2
SPATA13	221178	broad.mit.edu	37	13	24860373	24860373	+	Missense_Mutation	SNP	G	T	T			TCGA-67-3773-01	TCGA-67-3773-01										Phase_I	Unspecified				Illumina GAIIx	g.chr13:24860373G>T	uc001upd.1	+	c.2323G>T	c.(2323-2325)GTC>TTC	p.V775F	C1QTNF9_uc001upe.2_Non-coding_Transcript|SPATA13_uc001upg.1_Missense_Mutation_p.V150F|SPATA13_uc010tcy.1_Missense_Mutation_p.V96F|SPATA13_uc010tcz.1_Missense_Mutation_p.V96F|SPATA13_uc010tda.1_Missense_Mutation_p.V94F|SPATA13_uc001uph.2_Missense_Mutation_p.V72F|SPATA13_uc010tdb.1_Missense_Mutation_p.V72F|SPATA13_uc009zzz.1_5'Flank	NM_153023	NP_694568	Q96N96	SPT13_HUMAN	spermatogenesis associated 13	150	SH3.|ABR (APC-binding region) domain.				cell migration|filopodium assembly|lamellipodium assembly|regulation of cell migration|regulation of Rho protein signal transduction	cytoplasm|filopodium|lamellipodium|ruffle membrane	protein binding|Rac guanyl-nucleotide exchange factor activity			skin(2)|ovary(1)	3		all_cancers(29;4.05e-15)|all_lung(29;2.77e-14)|all_epithelial(30;7.77e-13)|Lung SC(185;0.0279)		all cancers(112;0.00616)|Epithelial(112;0.0195)|OV - Ovarian serous cystadenocarcinoma(117;0.0705)|Lung(94;0.231)										0.252212	158.563809	171.167766	57	169	KEEP	---	---	---	---	capture		Missense_Mutation	SNP	24860373	24860373	15508	13	G	T	T	T	572	44	SPATA13	2	2
NBEA	26960	broad.mit.edu	37	13	36129238	36129238	+	Silent	SNP	A	T	T			TCGA-67-3773-01	TCGA-67-3773-01										Phase_I	Unspecified				Illumina GAIIx	g.chr13:36129238A>T	uc001uvb.2	+	c.6921A>T	c.(6919-6921)GCA>GCT	p.A2307A	NBEA_uc010abi.2_Silent_p.A963A|NBEA_uc010tee.1_Silent_p.A100A|NBEA_uc010tef.1_Silent_p.A100A|NBEA_uc010teg.1_Silent_p.A100A	NM_015678	NP_056493	Q8NFP9	NBEA_HUMAN	neurobeachin	2307	BEACH.					cytosol|endomembrane system|plasma membrane|trans-Golgi network	protein binding			ovary(9)|large_intestine(2)	11		Breast(139;0.0141)|Lung SC(185;0.0548)|Prostate(109;0.207)		all cancers(112;1.93e-08)|Epithelial(112;1.62e-07)|BRCA - Breast invasive adenocarcinoma(63;0.00033)|OV - Ovarian serous cystadenocarcinoma(117;0.00109)|KIRC - Kidney renal clear cell carcinoma(186;0.00575)|Kidney(163;0.00656)|GBM - Glioblastoma multiforme(144;0.191)|Lung(94;0.199)										0.290323	26.76204	27.983434	9	22	KEEP	---	---	---	---	capture		Silent	SNP	36129238	36129238	10583	13	A	T	T	T	80	7	NBEA	3	3
ATP7B	540	broad.mit.edu	37	13	52534313	52534313	+	Missense_Mutation	SNP	T	C	C			TCGA-67-3773-01	TCGA-67-3773-01										Phase_I	Unspecified				Illumina GAIIx	g.chr13:52534313T>C	uc001vfw.2	-	c.2092A>G	c.(2092-2094)ATC>GTC	p.I698V	ATP7B_uc010adv.2_Intron|ATP7B_uc001vfx.2_Intron|ATP7B_uc001vfy.2_Missense_Mutation_p.I587V|ATP7B_uc010tgt.1_Missense_Mutation_p.I698V|ATP7B_uc010tgu.1_Missense_Mutation_p.I698V|ATP7B_uc010tgv.1_Missense_Mutation_p.I698V|ATP7B_uc001vfv.2_5'Flank|ATP7B_uc010tgs.1_Intron|ATP7B_uc010tgw.1_Intron	NM_000053	NP_000044	P35670	ATP7B_HUMAN	ATPase, Cu++ transporting, beta polypeptide	698	Helical; (Potential).				ATP biosynthetic process|cellular copper ion homeostasis|copper ion import|response to copper ion|sequestering of calcium ion	Golgi membrane|integral to plasma membrane|late endosome|mitochondrion	ATP binding|copper ion binding|copper-exporting ATPase activity|protein binding			ovary(1)|central_nervous_system(1)	2		Breast(56;0.000207)|Lung NSC(96;0.000845)|Prostate(109;0.0235)|Hepatocellular(98;0.065)|all_neural(104;0.19)		GBM - Glioblastoma multiforme(99;5.25e-08)										0.34	328.861336	335.648801	102	198	KEEP	---	---	---	---	capture		Missense_Mutation	SNP	52534313	52534313	1210	13	T	C	C	C	663	51	ATP7B	4	4
AHNAK2	113146	broad.mit.edu	37	14	105416019	105416019	+	Silent	SNP	G	A	A			TCGA-67-3773-01	TCGA-67-3773-01										Phase_I	Unspecified				Illumina GAIIx	g.chr14:105416019G>A	uc010axc.1	-	c.5769C>T	c.(5767-5769)GGC>GGT	p.G1923G	AHNAK2_uc001ypx.2_Silent_p.G1823G	NM_138420	NP_612429	Q8IVF2	AHNK2_HUMAN	AHNAK nucleoprotein 2	1923						nucleus				ovary(1)	1		all_cancers(154;0.115)|Melanoma(154;0.155)|all_epithelial(191;0.183)	all cancers(16;0.000479)|OV - Ovarian serous cystadenocarcinoma(23;0.00659)|Epithelial(46;0.0151)|GBM - Glioblastoma multiforme(11;0.116)											0.153846	11.123247	15.592766	6	33	KEEP	---	---	---	---	capture		Silent	SNP	105416019	105416019	418	14	G	A	A	A	535	42	AHNAK2	2	2
FCF1	51077	broad.mit.edu	37	14	75182766	75182766	+	Missense_Mutation	SNP	T	G	G			TCGA-67-3773-01	TCGA-67-3773-01										Phase_I	Unspecified				Illumina GAIIx	g.chr14:75182766T>G	uc001xqh.2	+	c.256T>G	c.(256-258)TTA>GTA	p.L86V	KIAA0317_uc001xqb.2_5'Flank|KIAA0317_uc010tut.1_5'Flank|KIAA0317_uc001xqc.2_5'Flank|KIAA0317_uc001xqd.1_5'Flank|FCF1_uc001xqf.1_Missense_Mutation_p.L71V|FCF1_uc001xqg.2_Non-coding_Transcript|FCF1_uc001xqi.2_Non-coding_Transcript	NM_015962	NP_057046	Q9Y324	FCF1_HUMAN	FCF1 small subunit	86	PINc.				rRNA processing	nucleolus				ovary(1)	1				BRCA - Breast invasive adenocarcinoma(234;0.0037)										0.632258	707.278006	712.042721	196	114	KEEP	---	---	---	---	capture		Missense_Mutation	SNP	75182766	75182766	6014	14	T	G	G	G	725	56	FCF1	4	4
THSD4	79875	broad.mit.edu	37	15	72037537	72037537	+	Missense_Mutation	SNP	G	A	A			TCGA-67-3773-01	TCGA-67-3773-01										Phase_I	Unspecified				Illumina GAIIx	g.chr15:72037537G>A	uc002atb.1	+	c.1999G>A	c.(1999-2001)GAG>AAG	p.E667K	THSD4_uc002ate.2_Missense_Mutation_p.E307K	NM_024817	NP_079093	Q6ZMP0	THSD4_HUMAN	thrombospondin, type I, domain containing 4	667						proteinaceous extracellular matrix	metalloendopeptidase activity			ovary(2)	2														0.383212	331.612235	334.888501	105	169	KEEP	---	---	---	---	capture		Missense_Mutation	SNP	72037537	72037537	16406	15	G	A	A	A	481	37	THSD4	1	1
LAT	27040	broad.mit.edu	37	16	28996766	28996766	+	Missense_Mutation	SNP	G	A	A			TCGA-67-3773-01	TCGA-67-3773-01										Phase_I	Unspecified				Illumina GAIIx	g.chr16:28996766G>A	uc010vdj.1	+	c.136G>A	c.(136-138)GTG>ATG	p.V46M	SPNS1_uc010byq.1_3'UTR|LAT_uc002dsb.2_Missense_Mutation_p.V10M|LAT_uc002dsd.2_Missense_Mutation_p.V10M|LAT_uc002dsc.2_Missense_Mutation_p.V10M|LAT_uc010vdk.1_Missense_Mutation_p.V10M|LAT_uc010vdl.1_Missense_Mutation_p.V10M	NM_001014989	NP_001014989	O43561	LAT_HUMAN	linker for activation of T cells isoform d	10	Helical; Signal-anchor for type III membrane protein; (Potential).				calcium-mediated signaling|integrin-mediated signaling pathway|mast cell degranulation|platelet activation|Ras protein signal transduction|regulation of T cell activation|T cell receptor signaling pathway	immunological synapse|integral to membrane|membrane raft	SH3/SH2 adaptor activity				0		Hepatocellular(780;0.244)												0.190476	9.187976	11.068482	4	17	KEEP	---	---	---	---	capture		Missense_Mutation	SNP	28996766	28996766	8967	16	G	A	A	A	520	40	LAT	1	1
GLG1	2734	broad.mit.edu	37	16	74526922	74526922	+	Silent	SNP	G	A	A			TCGA-67-3773-01	TCGA-67-3773-01										Phase_I	Unspecified				Illumina GAIIx	g.chr16:74526922G>A	uc002fcx.2	-	c.1167C>T	c.(1165-1167)AAC>AAT	p.N389N	GLG1_uc002fcy.3_Silent_p.N389N|GLG1_uc002fcw.3_Silent_p.N378N|GLG1_uc002fcz.3_Intron	NM_012201	NP_036333	Q92896	GSLG1_HUMAN	golgi apparatus protein 1 isoform 1	389	Cys-rich GLG1 5.|Extracellular (Potential).					Golgi membrane|integral to membrane	receptor binding			ovary(1)|breast(1)	2										1034				0.090909	4.134076	24.5503	11	110	KEEP	---	---	---	---	capture		Silent	SNP	74526922	74526922	6704	16	G	A	A	A	568	44	GLG1	2	2
CBFA2T3	863	broad.mit.edu	37	16	88958851	88958851	+	Missense_Mutation	SNP	G	A	A			TCGA-67-3773-01	TCGA-67-3773-01										Phase_I	Unspecified				Illumina GAIIx	g.chr16:88958851G>A	uc002fmm.1	-	c.422C>T	c.(421-423)GCA>GTA	p.A141V	CBFA2T3_uc002fml.1_Missense_Mutation_p.A55V|CBFA2T3_uc010cif.1_Missense_Mutation_p.A80V|CBFA2T3_uc002fmn.1_Missense_Mutation_p.A116V	NM_005187	NP_005178	O75081	MTG16_HUMAN	myeloid translocation gene on chromosome 16	141	Mediates localization to the nucleus (By similarity).|Mediates interaction with PDE7A (in isoform 2).				cell proliferation|granulocyte differentiation|regulation of transcription, DNA-dependent	Golgi membrane|nucleolus|nucleoplasm	protein binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			large_intestine(3)	3				BRCA - Breast invasive adenocarcinoma(80;0.0275)						305				0.272727	8.119813	8.63213	3	8	KEEP	---	---	---	---	capture		Missense_Mutation	SNP	88958851	88958851	2817	16	G	A	A	A	598	46	CBFA2T3	2	2
ZNF287	57336	broad.mit.edu	37	17	16470691	16470691	+	Missense_Mutation	SNP	C	T	T			TCGA-67-3773-01	TCGA-67-3773-01										Phase_I	Unspecified				Illumina GAIIx	g.chr17:16470691C>T	uc002gqi.2	-	c.355G>A	c.(355-357)GAA>AAA	p.E119K		NM_020653	NP_065704	Q9HBT7	ZN287_HUMAN	zinc finger protein 287	112	SCAN box.				regulation of transcription, DNA-dependent|viral reproduction	nucleus	DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding				0				UCEC - Uterine corpus endometrioid carcinoma (92;0.083)										0.207547	27.496486	31.69502	11	42	KEEP	---	---	---	---	capture		Missense_Mutation	SNP	16470691	16470691	18417	17	C	T	T	T	390	30	ZNF287	2	2
GSDMB	55876	broad.mit.edu	37	17	38066035	38066035	+	Nonsense_Mutation	SNP	G	A	A			TCGA-67-3773-01	TCGA-67-3773-01										Phase_I	Unspecified				Illumina GAIIx	g.chr17:38066035G>A	uc010cwj.2	-	c.550C>T	c.(550-552)CAG>TAG	p.Q184*	GSDMB_uc010cwi.2_5'Flank|GSDMB_uc010cwk.2_Non-coding_Transcript|GSDMB_uc010cwl.2_Non-coding_Transcript|GSDMB_uc010cwm.2_Intron|GSDMB_uc002htg.2_Nonsense_Mutation_p.Q184*|GSDMB_uc002hth.2_Nonsense_Mutation_p.Q184*|GSDMB_uc010wem.1_Nonsense_Mutation_p.Q184*	NM_001042471	NP_001035936	Q8TAX9	GSDMB_HUMAN	gasdermin B isoform 1	184						cytoplasm				breast(1)|pancreas(1)	2														0.317308	95.434359	98.522435	33	71	KEEP	---	---	---	---	capture		Nonsense_Mutation	SNP	38066035	38066035	7097	17	G	A	A	A	585	45	GSDMB	5	2
KIF2B	84643	broad.mit.edu	37	17	51902309	51902309	+	Missense_Mutation	SNP	G	T	T			TCGA-67-3773-01	TCGA-67-3773-01										Phase_I	Unspecified				Illumina GAIIx	g.chr17:51902309G>T	uc002iua.2	+	c.1915G>T	c.(1915-1917)GCC>TCC	p.A639S		NM_032559	NP_115948	Q8N4N8	KIF2B_HUMAN	kinesin family member 2B	639					blood coagulation|cell division|microtubule depolymerization|microtubule-based movement|mitotic prometaphase|regulation of chromosome segregation	condensed chromosome kinetochore|cytosol|microtubule|microtubule organizing center|nucleolus|spindle	ATP binding|microtubule motor activity			ovary(5)	5														0.344186	226.682488	231.293952	74	141	KEEP	---	---	---	---	capture		Missense_Mutation	SNP	51902309	51902309	8609	17	G	T	T	T	598	46	KIF2B	2	2
HEXDC	284004	broad.mit.edu	37	17	80399755	80399755	+	Silent	SNP	G	A	A			TCGA-67-3773-01	TCGA-67-3773-01										Phase_I	Unspecified				Illumina GAIIx	g.chr17:80399755G>A	uc002kev.3	+	c.1332G>A	c.(1330-1332)CCG>CCA	p.P444P	HEXDC_uc010diq.2_Missense_Mutation_p.R417H|HEXDC_uc002kew.2_Missense_Mutation_p.A415T|HEXDC_uc010wvm.1_Non-coding_Transcript	NM_173620	NP_775891	Q8WVB3	HEXDC_HUMAN	hexosaminidase (glycosyl hydrolase family 20,	Error:Variant_position_missing_in_Q8WVB3_after_alignment					carbohydrate metabolic process	cytoplasm|nucleus	beta-N-acetylhexosaminidase activity|cation binding			ovary(1)	1	Breast(20;0.00106)|all_neural(118;0.0804)		OV - Ovarian serous cystadenocarcinoma(97;0.0143)|BRCA - Breast invasive adenocarcinoma(99;0.0369)											0.166667	9.454777	12.616984	5	25	KEEP	---	---	---	---	capture		Silent	SNP	80399755	80399755	7358	17	G	A	A	A	483	38	HEXDC	1	1
ASXL3	80816	broad.mit.edu	37	18	31323885	31323885	+	Missense_Mutation	SNP	T	C	C			TCGA-67-3773-01	TCGA-67-3773-01										Phase_I	Unspecified				Illumina GAIIx	g.chr18:31323885T>C	uc010dmg.1	+	c.4073T>C	c.(4072-4074)GTC>GCC	p.V1358A	ASXL3_uc002kxq.2_Missense_Mutation_p.V1065A	NM_030632	NP_085135	Q9C0F0	ASXL3_HUMAN	additional sex combs like 3	1358					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	metal ion binding			ovary(2)|pancreas(1)	3												OREG0024911	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	0.262458	246.392254	261.751819	79	222	KEEP	---	---	---	---	capture		Missense_Mutation	SNP	31323885	31323885	1087	18	T	C	C	C	754	58	ASXL3	4	4
NOL4	8715	broad.mit.edu	37	18	31523045	31523045	+	Missense_Mutation	SNP	C	A	A			TCGA-67-3773-01	TCGA-67-3773-01										Phase_I	Unspecified				Illumina GAIIx	g.chr18:31523045C>A	uc010dmi.2	-	c.1526G>T	c.(1525-1527)CGT>CTT	p.R509L	NOL4_uc010xbs.1_Missense_Mutation_p.R224L|NOL4_uc002kxr.3_Missense_Mutation_p.R281L|NOL4_uc010xbt.1_Missense_Mutation_p.R435L|NOL4_uc010dmh.2_Missense_Mutation_p.R371L|NOL4_uc010xbu.1_Missense_Mutation_p.R445L|NOL4_uc002kxt.3_Intron|NOL4_uc010xbv.1_Missense_Mutation_p.R194L	NM_003787	NP_003778	O94818	NOL4_HUMAN	nucleolar protein 4	509						nucleolus	RNA binding			ovary(3)	3														0.260606	126.849222	135.408394	43	122	KEEP	---	---	---	---	capture		Missense_Mutation	SNP	31523045	31523045	10927	18	C	A	A	A	247	19	NOL4	1	1
SETBP1	26040	broad.mit.edu	37	18	42532619	42532619	+	Missense_Mutation	SNP	G	T	T			TCGA-67-3773-01	TCGA-67-3773-01										Phase_I	Unspecified				Illumina GAIIx	g.chr18:42532619G>T	uc010dni.2	+	c.3314G>T	c.(3313-3315)GGT>GTT	p.G1105V		NM_015559	NP_056374	Q9Y6X0	SETBP_HUMAN	SET binding protein 1 isoform a	1105						nucleus	DNA binding			large_intestine(1)	1				Colorectal(1;0.0622)|COAD - Colon adenocarcinoma(74;0.201)										0.302941	302.493352	314.279314	103	237	KEEP	---	---	---	---	capture		Missense_Mutation	SNP	42532619	42532619	14617	18	G	T	T	T	572	44	SETBP1	2	2
RNF165	494470	broad.mit.edu	37	18	44030342	44030342	+	Silent	SNP	C	T	T			TCGA-67-3773-01	TCGA-67-3773-01										Phase_I	Unspecified				Illumina GAIIx	g.chr18:44030342C>T	uc002lcb.1	+	c.699C>T	c.(697-699)TCC>TCT	p.S233S	RNF165_uc002lby.1_Silent_p.S166S|RNF165_uc010dnn.1_Silent_p.S29S	NM_152470	NP_689683	Q6ZSG1	RN165_HUMAN	ring finger protein 165	233							zinc ion binding				0				READ - Rectum adenocarcinoma(1;0.0873)										0.084615	3.738908	26.489236	11	119	KEEP	---	---	---	---	capture		Silent	SNP	44030342	44030342	13933	18	C	T	T	T	288	23	RNF165	1	1
CDH20	28316	broad.mit.edu	37	18	59157904	59157904	+	Missense_Mutation	SNP	C	A	A			TCGA-67-3773-01	TCGA-67-3773-01										Phase_I	Unspecified				Illumina GAIIx	g.chr18:59157904C>A	uc010dps.1	+	c.118C>A	c.(118-120)CAA>AAA	p.Q40K	CDH20_uc002lif.2_Missense_Mutation_p.Q34K	NM_031891	NP_114097	Q9HBT6	CAD20_HUMAN	cadherin 20, type 2 preproprotein	40					homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			breast(3)|ovary(1)|pancreas(1)	5		Colorectal(73;0.186)												0.115385	46.263061	91.732622	36	276	KEEP	---	---	---	---	capture		Missense_Mutation	SNP	59157904	59157904	3235	18	C	A	A	A	221	17	CDH20	2	2
PTPRM	5797	broad.mit.edu	37	18	7926632	7926632	+	Missense_Mutation	SNP	A	G	G			TCGA-67-3773-01	TCGA-67-3773-01										Phase_I	Unspecified				Illumina GAIIx	g.chr18:7926632A>G	uc010dkv.2	+	c.614A>G	c.(613-615)CAG>CGG	p.Q205R	PTPRM_uc002knn.3_Missense_Mutation_p.Q205R	NM_001105244	NP_001098714	P28827	PTPRM_HUMAN	protein tyrosine phosphatase, receptor type, M	205	Ig-like C2-type.|Extracellular (Potential).				homophilic cell adhesion|negative regulation of angiogenesis|negative regulation of endothelial cell migration|negative regulation of endothelial cell proliferation|response to drug|retina layer formation|retinal ganglion cell axon guidance	cell-cell adherens junction|integral to plasma membrane|lamellipodium|perinuclear region of cytoplasm	cadherin binding|transmembrane receptor protein tyrosine phosphatase activity			lung(3)|ovary(1)|central_nervous_system(1)	5		Colorectal(10;0.234)												0.286145	277.083522	290.709682	95	237	KEEP	---	---	---	---	capture		Missense_Mutation	SNP	7926632	7926632	13263	18	A	G	G	G	91	7	PTPRM	4	4
CYP4F3	4051	broad.mit.edu	37	19	15758117	15758117	+	Missense_Mutation	SNP	A	T	T			TCGA-67-3773-01	TCGA-67-3773-01										Phase_I	Unspecified				Illumina GAIIx	g.chr19:15758117A>T	uc002nbj.2	+	c.508A>T	c.(508-510)AGT>TGT	p.S170C	CYP4F3_uc010xok.1_Missense_Mutation_p.S170C|CYP4F3_uc010xol.1_Missense_Mutation_p.S170C|CYP4F3_uc010xom.1_Missense_Mutation_p.S21C|CYP4F3_uc002nbk.2_Missense_Mutation_p.S170C|CYP4F3_uc010xon.1_5'Flank	NM_000896	NP_000887	Q08477	CP4F3_HUMAN	cytochrome P450, family 4, subfamily F,	170					leukotriene metabolic process|oxidation-reduction process|xenobiotic metabolic process	endoplasmic reticulum membrane|integral to membrane|microsome	electron carrier activity|heme binding|leukotriene-B4 20-monooxygenase activity|oxygen binding			ovary(3)	3														0.333333	368.155011	377.084531	121	242	KEEP	---	---	---	---	capture		Missense_Mutation	SNP	15758117	15758117	4355	19	A	T	T	T	143	11	CYP4F3	3	3
CYP4F12	66002	broad.mit.edu	37	19	15789113	15789113	+	Missense_Mutation	SNP	T	A	A			TCGA-67-3773-01	TCGA-67-3773-01										Phase_I	Unspecified				Illumina GAIIx	g.chr19:15789113T>A	uc002nbl.2	+	c.241T>A	c.(241-243)TCG>ACG	p.S81T	CYP4F12_uc010xoo.1_Missense_Mutation_p.S81T|CYP4F12_uc010xop.1_Missense_Mutation_p.S81T	NM_023944	NP_076433	Q9HCS2	CP4FC_HUMAN	cytochrome P450, family 4, subfamily F,	81					oxidation-reduction process|xenobiotic metabolic process	endoplasmic reticulum membrane|integral to membrane|microsome	aromatase activity|electron carrier activity|heme binding|oxygen binding			ovary(2)|central_nervous_system(2)	4	Acute lymphoblastic leukemia(2;0.0367)													0.314286	123.451948	127.747077	44	96	KEEP	---	---	---	---	capture		Missense_Mutation	SNP	15789113	15789113	4352	19	T	A	A	A	754	58	CYP4F12	3	3
ZNF43	7594	broad.mit.edu	37	19	21991490	21991491	+	Missense_Mutation	DNP	CC	AA	AA			TCGA-67-3773-01	TCGA-67-3773-01										Phase_I	Unspecified				Illumina GAIIx	g.chr19:21991490_21991491CC>AA	uc002nqj.2	-	c.1348_1349GG>TT	c.(1348-1350)GGA>TTA	p.G450L	ZNF43_uc010ecv.2_Missense_Mutation_p.G444L|ZNF43_uc002nql.2_Missense_Mutation_p.G444L|ZNF43_uc002nqm.2_Missense_Mutation_p.G444L|ZNF43_uc002nqk.2_Missense_Mutation_p.G380L	NM_003423	NP_003414	P17038	ZNF43_HUMAN	zinc finger protein 43	450					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			large_intestine(1)|ovary(1)	2		Renal(1328;0.000219)|Hepatocellular(1079;0.121)		GBM - Glioblastoma multiforme(1328;5.97e-05)|STAD - Stomach adenocarcinoma(1328;0.0127)										0.304348	95.875494	99.806861	35	80	KEEP	---	---	---	---	capture		Missense_Mutation	DNP	21991490	21991491	18496	19	CC	AA	AA	AA	390	30	ZNF43	2	2
PAF1	54623	broad.mit.edu	37	19	39879075	39879075	+	Missense_Mutation	SNP	C	A	A			TCGA-67-3773-01	TCGA-67-3773-01										Phase_I	Unspecified				Illumina GAIIx	g.chr19:39879075C>A	uc002old.2	-	c.890G>T	c.(889-891)TGG>TTG	p.W297L	PAF1_uc002ole.1_Missense_Mutation_p.W287L|PAF1_uc010xuv.1_Non-coding_Transcript|MED29_uc010xuw.1_5'Flank|MED29_uc002olf.2_5'Flank|MED29_uc010xux.1_5'Flank	NM_019088	NP_061961	Q8N7H5	PAF1_HUMAN	Paf1, RNA polymerase II associated factor,	297					histone H2B ubiquitination|histone monoubiquitination|regulation of transcription, DNA-dependent|transcription, DNA-dependent	Cdc73/Paf1 complex	protein binding			pancreas(1)	1	all_cancers(60;9.14e-07)|all_lung(34;4.03e-08)|Lung NSC(34;4.66e-08)|all_epithelial(25;1.88e-06)|Ovarian(47;0.0512)		Epithelial(26;9.6e-28)|all cancers(26;9.14e-25)|Lung(45;0.000168)|LUSC - Lung squamous cell carcinoma(53;0.000199)											0.29703	90.008424	93.73001	30	71	KEEP	---	---	---	---	capture		Missense_Mutation	SNP	39879075	39879075	11799	19	C	A	A	A	273	21	PAF1	2	2
STAP2	55620	broad.mit.edu	37	19	4327149	4327149	+	Silent	SNP	C	A	A			TCGA-67-3773-01	TCGA-67-3773-01										Phase_I	Unspecified				Illumina GAIIx	g.chr19:4327149C>A	uc002mac.2	-	c.735G>T	c.(733-735)CTG>CTT	p.L245L	STAP2_uc002mab.2_Silent_p.L245L|STAP2_uc002mad.2_Silent_p.L138L	NM_017720	NP_060190	Q9UGK3	STAP2_HUMAN	signal transducing adaptor family member 2	245	SH2.					cytoplasm|nucleus	protein binding			central_nervous_system(1)	1		Hepatocellular(1079;0.137)		UCEC - Uterine corpus endometrioid carcinoma (162;6.64e-05)|BRCA - Breast invasive adenocarcinoma(158;0.0339)|STAD - Stomach adenocarcinoma(1328;0.18)										0.325581	42.934552	44.095506	14	29	KEEP	---	---	---	---	capture		Silent	SNP	4327149	4327149	15772	19	C	A	A	A	210	17	STAP2	2	2
LILRB1	10859	broad.mit.edu	37	19	55144063	55144063	+	Silent	SNP	C	T	T			TCGA-67-3773-01	TCGA-67-3773-01										Phase_I	Unspecified				Illumina GAIIx	g.chr19:55144063C>T	uc002qgm.2	+	c.810C>T	c.(808-810)GGC>GGT	p.G270G	LILRB1_uc010erp.1_Intron|LILRB1_uc002qgj.2_Silent_p.G270G|LILRB1_uc002qgl.2_Silent_p.G270G|LILRB1_uc002qgk.2_Silent_p.G270G|LILRB1_uc010erq.2_Silent_p.G270G|LILRB1_uc010err.2_Non-coding_Transcript	NM_001081637	NP_001075106	Q8NHL6	LIRB1_HUMAN	leukocyte immunoglobulin-like receptor,	270	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)										0.346154	79.898921	81.530017	27	51	KEEP	---	---	---	---	capture		Silent	SNP	55144063	55144063	9116	19	C	T	T	T	340	27	LILRB1	1	1
ZSCAN1	284312	broad.mit.edu	37	19	58551855	58551855	+	Missense_Mutation	SNP	G	T	T			TCGA-67-3773-01	TCGA-67-3773-01										Phase_I	Unspecified				Illumina GAIIx	g.chr19:58551855G>T	uc002qrc.1	+	c.408G>T	c.(406-408)TGG>TGT	p.W136C		NM_182572	NP_872378	Q8NBB4	ZSCA1_HUMAN	zinc finger and SCAN domain containing 1	136					regulation of transcription, DNA-dependent|viral reproduction	nucleus	DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(1)	1		Colorectal(82;5.46e-05)|all_neural(62;0.0182)|Breast(46;0.0389)|Ovarian(87;0.0443)|Renal(1328;0.157)		UCEC - Uterine corpus endometrioid carcinoma (67;0.168)|GBM - Glioblastoma multiforme(193;0.0152)										0.612245	94.355598	94.895417	30	19	KEEP	---	---	---	---	capture		Missense_Mutation	SNP	58551855	58551855	18830	19	G	T	T	T	533	41	ZSCAN1	2	2
MOV10	4343	broad.mit.edu	37	1	113217566	113217566	+	Missense_Mutation	SNP	G	T	T			TCGA-67-3773-01	TCGA-67-3773-01										Phase_I	Unspecified				Illumina GAIIx	g.chr1:113217566G>T	uc001eck.2	+	c.32G>T	c.(31-33)CGG>CTG	p.R11L	MOV10_uc001ecl.2_Missense_Mutation_p.R11L|MOV10_uc001ecn.2_Missense_Mutation_p.R11L|MOV10_uc001ecm.2_5'UTR|MOV10_uc009wgj.1_5'UTR	NM_001130079	NP_001123551	Q9HCE1	MOV10_HUMAN	Mov10, Moloney leukemia virus 10, homolog	11					mRNA cleavage involved in gene silencing by miRNA|regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasmic mRNA processing body	ATP binding|helicase activity|protein binding|RNA binding			ovary(4)	4	Lung SC(450;0.246)	all_cancers(81;3.31e-11)|all_epithelial(167;5.69e-10)|all_lung(203;3.73e-05)|Breast(1374;0.000525)|Lung NSC(69;0.000954)|Ovarian(761;0.0367)|Lung SC(238;0.114)		OV - Ovarian serous cystadenocarcinoma(397;3.99e-67)|all cancers(265;1e-62)|Epithelial(280;4.78e-61)|Lung(183;0.0234)|Colorectal(144;0.0686)|READ - Rectum adenocarcinoma(129;0.0929)|COAD - Colon adenocarcinoma(174;0.111)|LUSC - Lung squamous cell carcinoma(189;0.133)|BRCA - Breast invasive adenocarcinoma(282;0.24)										0.4	12.099769	12.186626	4	6	KEEP	---	---	---	---	capture		Missense_Mutation	SNP	113217566	113217566	10110	1	G	T	T	T	507	39	MOV10	1	1
SPAG17	200162	broad.mit.edu	37	1	118554977	118554977	+	Missense_Mutation	SNP	C	A	A			TCGA-67-3773-01	TCGA-67-3773-01										Phase_I	Unspecified				Illumina GAIIx	g.chr1:118554977C>A	uc001ehk.2	-	c.4306G>T	c.(4306-4308)GAC>TAC	p.D1436Y		NM_206996	NP_996879	Q6Q759	SPG17_HUMAN	sperm associated antigen 17	1436						cilium|flagellar axoneme|microtubule				ovary(2)|large_intestine(1)	3	Esophageal squamous(2;0.0106)	all_cancers(81;0.0204)|all_lung(203;9.46e-05)|Lung NSC(69;0.000675)|all_epithelial(167;0.01)		Lung(183;0.0858)										0.272556	395.324014	420.140967	145	387	KEEP	---	---	---	---	capture		Missense_Mutation	SNP	118554977	118554977	15482	1	C	A	A	A	416	32	SPAG17	2	2
RPTN	126638	broad.mit.edu	37	1	152128367	152128367	+	Missense_Mutation	SNP	T	A	A			TCGA-67-3773-01	TCGA-67-3773-01										Phase_I	Unspecified				Illumina GAIIx	g.chr1:152128367T>A	uc001ezs.1	-	c.1208A>T	c.(1207-1209)TAT>TTT	p.Y403F		NM_001122965	NP_001116437	Q6XPR3	RPTN_HUMAN	repetin	403	Gln-rich.					proteinaceous extracellular matrix	calcium ion binding				0														0.235038	554.141869	613.147658	216	703	KEEP	---	---	---	---	capture		Missense_Mutation	SNP	152128367	152128367	14144	1	T	A	A	A	637	49	RPTN	3	3
SPTA1	6708	broad.mit.edu	37	1	158627290	158627290	+	Missense_Mutation	SNP	C	T	T			TCGA-67-3773-01	TCGA-67-3773-01										Phase_I	Unspecified				Illumina GAIIx	g.chr1:158627290C>T	uc001fst.1	-	c.2782G>A	c.(2782-2784)GGT>AGT	p.G928S		NM_003126	NP_003117	P02549	SPTA1_HUMAN	spectrin, alpha, erythrocytic 1	928	Spectrin 10.				actin filament capping|actin filament organization|axon guidance|regulation of cell shape	cytosol|intrinsic to internal side of plasma membrane|spectrin|spectrin-associated cytoskeleton	actin filament binding|calcium ion binding|structural constituent of cytoskeleton			ovary(4)|breast(1)	5	all_hematologic(112;0.0378)													0.257426	142.582451	153.375911	52	150	KEEP	---	---	---	---	capture		Missense_Mutation	SNP	158627290	158627290	15630	1	C	T	T	T	273	21	SPTA1	2	2
IGSF8	93185	broad.mit.edu	37	1	160061677	160061677	+	Missense_Mutation	SNP	A	T	T			TCGA-67-3773-01	TCGA-67-3773-01										Phase_I	Unspecified				Illumina GAIIx	g.chr1:160061677A>T	uc001fva.2	-	c.1778T>A	c.(1777-1779)GTC>GAC	p.V593D	IGSF8_uc001fuz.2_Missense_Mutation_p.V593D|IGSF8_uc009wtf.2_Missense_Mutation_p.V593D	NM_052868	NP_443100	Q969P0	IGSF8_HUMAN	immunoglobulin superfamily, member 8	593	Helical; (Potential).				cell proliferation|cellular component movement|nervous system development|single fertilization|skeletal muscle tissue development	integral to membrane	protein binding				0	all_cancers(52;1.11e-16)|all_hematologic(112;0.093)		BRCA - Breast invasive adenocarcinoma(70;0.111)|LUSC - Lung squamous cell carcinoma(543;0.246)											0.257576	134.33317	144.879094	51	147	KEEP	---	---	---	---	capture		Missense_Mutation	SNP	160061677	160061677	7905	1	A	T	T	T	130	10	IGSF8	3	3
ASTN1	460	broad.mit.edu	37	1	176857323	176857323	+	Silent	SNP	G	T	T			TCGA-67-3773-01	TCGA-67-3773-01										Phase_I	Unspecified				Illumina GAIIx	g.chr1:176857323G>T	uc001glc.2	-	c.2958C>A	c.(2956-2958)ACC>ACA	p.T986T	ASTN1_uc001glb.1_Silent_p.T986T|ASTN1_uc001gld.1_Silent_p.T986T	NM_004319	NP_004310	O14525	ASTN1_HUMAN	astrotactin isoform 1	994					cell migration|neuron cell-cell adhesion	integral to membrane				ovary(6)|central_nervous_system(2)|large_intestine(1)|lung(1)|skin(1)	11										849				0.52381	337.333245	337.426194	99	90	KEEP	---	---	---	---	capture		Silent	SNP	176857323	176857323	1083	1	G	T	T	T	600	47	ASTN1	2	2
HSD11B1	3290	broad.mit.edu	37	1	209878375	209878376	+	Splice_Site_DNP	DNP	GG	TT	TT			TCGA-67-3773-01	TCGA-67-3773-01										Phase_I	Unspecified				Illumina GAIIx	g.chr1:209878375_209878376GG>TT	uc001hhj.2	+	c.88_splice	c.e2+1	p.E30_splice	HSD11B1_uc001hhk.2_Splice_Site_DNP_p.E30_splice	NM_181755	NP_861420			11-beta-hydroxysteroid dehydrogenase 1						glucocorticoid biosynthetic process|oxidation-reduction process	endoplasmic reticulum membrane|integral to membrane	11-beta-hydroxysteroid dehydrogenase (NADP+) activity|binding			breast(1)	1				OV - Ovarian serous cystadenocarcinoma(81;1.04e-55)|Epithelial(68;1.57e-52)|all cancers(67;1.83e-46)|Colorectal(1306;0.115)	NADH(DB00157)									0.246305	140.746226	152.642341	50	153	KEEP	---	---	---	---	capture		Splice_Site_DNP	DNP	209878375	209878376	7670	1	GG	TT	TT	TT	455	35	HSD11B1	5	2
USH2A	7399	broad.mit.edu	37	1	216074227	216074227	+	Missense_Mutation	SNP	G	A	A			TCGA-67-3773-01	TCGA-67-3773-01										Phase_I	Unspecified				Illumina GAIIx	g.chr1:216074227G>A	uc001hku.1	-	c.7321C>T	c.(7321-7323)CCC>TCC	p.P2441S		NM_206933	NP_996816	O75445	USH2A_HUMAN	usherin isoform B	2441	Extracellular (Potential).|Fibronectin type-III 11.				maintenance of organ identity|photoreceptor cell maintenance|response to stimulus|sensory perception of sound	basement membrane|cytoplasm|integral to membrane|stereocilium membrane	collagen binding			ovary(20)|kidney(1)|central_nervous_system(1)	22				OV - Ovarian serous cystadenocarcinoma(81;0.0547)|all cancers(67;0.0875)										0.270677	202.174533	214.796029	72	194	KEEP	---	---	---	---	capture		Missense_Mutation	SNP	216074227	216074227	17598	1	G	A	A	A	533	41	USH2A	2	2
DLGAP3	58512	broad.mit.edu	37	1	35369906	35369906	+	Missense_Mutation	SNP	G	A	A			TCGA-67-3773-01	TCGA-67-3773-01										Phase_I	Unspecified				Illumina GAIIx	g.chr1:35369906G>A	uc001byc.2	-	c.1079C>T	c.(1078-1080)GCC>GTC	p.A360V		NM_001080418	NP_001073887	O95886	DLGP3_HUMAN	discs, large (Drosophila) homolog-associated	360					cell-cell signaling	cell junction|postsynaptic density|postsynaptic membrane				ovary(3)	3		Myeloproliferative disorder(586;0.0393)												0.291667	134.910003	141.439452	49	119	KEEP	---	---	---	---	capture		Missense_Mutation	SNP	35369906	35369906	4741	1	G	A	A	A	546	42	DLGAP3	2	2
C1orf173	127254	broad.mit.edu	37	1	75038095	75038095	+	Missense_Mutation	SNP	G	T	T			TCGA-67-3773-01	TCGA-67-3773-01										Phase_I	Unspecified				Illumina GAIIx	g.chr1:75038095G>T	uc001dgg.2	-	c.3299C>A	c.(3298-3300)GCG>GAG	p.A1100E		NM_001002912	NP_001002912	Q5RHP9	CA173_HUMAN	hypothetical protein LOC127254	1100	Glu-rich.									ovary(3)|central_nervous_system(1)	4														0.3	418.903189	435.579967	141	329	KEEP	---	---	---	---	capture		Missense_Mutation	SNP	75038095	75038095	2081	1	G	T	T	T	494	38	C1orf173	1	1
LPPR4	9890	broad.mit.edu	37	1	99772407	99772407	+	Missense_Mutation	SNP	C	A	A			TCGA-67-3773-01	TCGA-67-3773-01										Phase_I	Unspecified				Illumina GAIIx	g.chr1:99772407C>A	uc001dse.2	+	c.2133C>A	c.(2131-2133)AGC>AGA	p.S711R	LPPR4_uc010oue.1_Missense_Mutation_p.S653R	NM_014839	NP_055654	Q7Z2D5	LPPR4_HUMAN	plasticity related gene 1	711							phosphatidate phosphatase activity			ovary(3)	3		all_epithelial(167;3.54e-06)|all_lung(203;0.00139)|Lung NSC(277;0.00202)		Epithelial(280;0.0736)|all cancers(265;0.0975)|COAD - Colon adenocarcinoma(174;0.142)|Lung(183;0.201)|Colorectal(170;0.22)										0.361446	96.530383	97.931539	30	53	KEEP	---	---	---	---	capture		Missense_Mutation	SNP	99772407	99772407	9300	1	C	A	A	A	350	27	LPPR4	1	1
GART	2618	broad.mit.edu	37	21	34883584	34883584	+	Silent	SNP	A	G	G			TCGA-67-3773-01	TCGA-67-3773-01										Phase_I	Unspecified				Illumina GAIIx	g.chr21:34883584A>G	uc002yrx.2	-	c.2289T>C	c.(2287-2289)ATT>ATC	p.I763I	GART_uc002yrz.2_Silent_p.I763I|GART_uc010gmd.2_Silent_p.I425I|GART_uc002yry.2_Silent_p.I763I	NM_000819	NP_000810	P22102	PUR2_HUMAN	phosphoribosylglycinamide formyltransferase,	763	AIRS.				'de novo' IMP biosynthetic process|purine base biosynthetic process	cytosol	ATP binding|metal ion binding|methyltransferase activity|phosphoribosylamine-glycine ligase activity|phosphoribosylformylglycinamidine cyclo-ligase activity|phosphoribosylglycinamide formyltransferase activity|protein binding			ovary(1)	1					Pemetrexed(DB00642)									0.266272	245.784792	262.474688	90	248	KEEP	---	---	---	---	capture		Silent	SNP	34883584	34883584	6507	21	A	G	G	G	60	5	GART	4	4
POFUT2	23275	broad.mit.edu	37	21	46697007	46697007	+	Missense_Mutation	SNP	C	A	A			TCGA-67-3773-01	TCGA-67-3773-01										Phase_I	Unspecified				Illumina GAIIx	g.chr21:46697007C>A	uc002zhc.2	-	c.756G>T	c.(754-756)GAG>GAT	p.E252D	POFUT2_uc002zha.2_Non-coding_Transcript|POFUT2_uc002zhb.2_Non-coding_Transcript|POFUT2_uc002zhd.2_Missense_Mutation_p.E252D	NM_133635	NP_598368	Q9Y2G5	OFUT2_HUMAN	protein O-fucosyltransferase 2 isoform C	252					fucose metabolic process	endoplasmic reticulum	peptide-O-fucosyltransferase activity				0				Colorectal(79;0.243)										0.236364	34.145239	37.640907	13	42	KEEP	---	---	---	---	capture		Missense_Mutation	SNP	46697007	46697007	12612	21	C	A	A	A	259	20	POFUT2	2	2
NPTXR	23467	broad.mit.edu	37	22	39218644	39218644	+	Silent	SNP	G	A	A			TCGA-67-3773-01	TCGA-67-3773-01										Phase_I	Unspecified				Illumina GAIIx	g.chr22:39218644G>A	uc003awk.2	-	c.1473C>T	c.(1471-1473)TTC>TTT	p.F491F		NM_014293	NP_055108	O95502	NPTXR_HUMAN	neuronal pentraxin receptor	491	Pentaxin.|Extracellular (Potential).					integral to membrane	metal ion binding			central_nervous_system(2)|skin(1)	3	Melanoma(58;0.04)					Pancreas(139;2521 3281 36965)								0.35	42.240167	43.03322	14	26	KEEP	---	---	---	---	capture		Silent	SNP	39218644	39218644	11009	22	G	A	A	A	477	37	NPTXR	1	1
WIPF1	7456	broad.mit.edu	37	2	175437101	175437101	+	Silent	SNP	T	A	A			TCGA-67-3773-01	TCGA-67-3773-01										Phase_I	Unspecified				Illumina GAIIx	g.chr2:175437101T>A	uc010fqt.1	-	c.432A>T	c.(430-432)CCA>CCT	p.P144P	WIPF1_uc002uja.2_Silent_p.P144P|WIPF1_uc002ujc.1_Silent_p.P144P|WIPF1_uc002uiy.2_Silent_p.P144P|WIPF1_uc002uiz.2_Silent_p.P144P|WIPF1_uc002ujb.1_Silent_p.P144P|WIPF1_uc010zep.1_Silent_p.P144P	NM_003387	NP_003378	O43516	WIPF1_HUMAN	WAS/WASL interacting protein family, member 1	144					actin polymerization or depolymerization|protein complex assembly	cytoplasmic membrane-bounded vesicle	actin binding|profilin binding			ovary(1)	1														0.377778	49.859382	50.450778	17	28	KEEP	---	---	---	---	capture		Silent	SNP	175437101	175437101	17941	2	T	A	A	A	808	63	WIPF1	3	3
TRPM8	79054	broad.mit.edu	37	2	234835266	234835266	+	Silent	SNP	G	A	A			TCGA-67-3773-01	TCGA-67-3773-01										Phase_I	Unspecified				Illumina GAIIx	g.chr2:234835266G>A	uc002vvh.2	+	c.84G>A	c.(82-84)GCG>GCA	p.A28A	TRPM8_uc010fyj.2_5'UTR	NM_024080	NP_076985	Q7Z2W7	TRPM8_HUMAN	transient receptor potential cation channel,	28	Cytoplasmic (Potential).					integral to membrane					0		Breast(86;0.00205)|Renal(207;0.00694)|all_lung(227;0.0129)|Lung NSC(271;0.0408)|all_hematologic(139;0.0753)|Acute lymphoblastic leukemia(138;0.224)		Epithelial(121;1.19e-17)|BRCA - Breast invasive adenocarcinoma(100;0.000139)|Lung(119;0.00758)|LUSC - Lung squamous cell carcinoma(224;0.0108)	Menthol(DB00825)					505				0.261307	145.011923	155.27038	52	147	KEEP	---	---	---	---	capture		Silent	SNP	234835266	234835266	17143	2	G	A	A	A	509	40	TRPM8	1	1
LTBP1	4052	broad.mit.edu	37	2	33572578	33572578	+	Splice_Site_SNP	SNP	G	A	A			TCGA-67-3773-01	TCGA-67-3773-01										Phase_I	Unspecified				Illumina GAIIx	g.chr2:33572578G>A	uc002ros.2	+	c.4003_splice	c.e26+1	p.D1335_splice	LTBP1_uc002rot.2_Splice_Site_SNP_p.D1009_splice|LTBP1_uc002rou.2_Splice_Site_SNP_p.D1008_splice|LTBP1_uc002rov.2_Splice_Site_SNP_p.D955_splice|LTBP1_uc010ymz.1_Splice_Site_SNP_p.D966_splice|LTBP1_uc010yna.1_Splice_Site_SNP_p.D913_splice|LTBP1_uc010ynb.1_Splice_Site_SNP_p.D232_splice	NM_206943	NP_996826			latent transforming growth factor beta binding						negative regulation of transforming growth factor beta receptor signaling pathway by extracellular sequestering of TGFbeta	proteinaceous extracellular matrix	calcium ion binding|growth factor binding|transforming growth factor beta receptor activity			ovary(3)|skin(2)|lung(1)|central_nervous_system(1)	7	all_hematologic(175;0.115)	Medulloblastoma(90;0.215)												0.302239	466.723502	485.452597	162	374	KEEP	---	---	---	---	capture		Splice_Site_SNP	SNP	33572578	33572578	9449	2	G	A	A	A	572	44	LTBP1	5	2
PPM1B	5495	broad.mit.edu	37	2	44429147	44429147	+	Missense_Mutation	SNP	A	G	G			TCGA-67-3773-01	TCGA-67-3773-01										Phase_I	Unspecified				Illumina GAIIx	g.chr2:44429147A>G	uc002rtt.2	+	c.809A>G	c.(808-810)AAT>AGT	p.N270S	PPM1B_uc002rts.2_Missense_Mutation_p.N270S|PPM1B_uc002rtu.2_Missense_Mutation_p.N270S|PPM1B_uc002rtv.2_Intron|PPM1B_uc002rtw.2_Missense_Mutation_p.N270S|PPM1B_uc002rtx.2_Missense_Mutation_p.N270S	NM_002706	NP_002697	O75688	PPM1B_HUMAN	protein phosphatase 1B isoform 1	270					protein dephosphorylation	protein serine/threonine phosphatase complex	magnesium ion binding|manganese ion binding|protein binding|protein serine/threonine phosphatase activity			kidney(1)	1		all_hematologic(82;0.151)|Acute lymphoblastic leukemia(82;0.175)												0.310811	308.795675	318.228644	92	204	KEEP	---	---	---	---	capture		Missense_Mutation	SNP	44429147	44429147	12771	2	A	G	G	G	52	4	PPM1B	4	4
PEX5L	51555	broad.mit.edu	37	3	179519752	179519752	+	Missense_Mutation	SNP	G	C	C			TCGA-67-3773-01	TCGA-67-3773-01										Phase_I	Unspecified				Illumina GAIIx	g.chr3:179519752G>C	uc003fki.1	-	c.1745C>G	c.(1744-1746)CCT>CGT	p.P582R	PEX5L_uc011bqd.1_Missense_Mutation_p.P539R|PEX5L_uc011bqe.1_Missense_Mutation_p.P390R|PEX5L_uc011bqf.1_Missense_Mutation_p.P474R|PEX5L_uc003fkj.1_Missense_Mutation_p.P547R|PEX5L_uc010hxd.1_Missense_Mutation_p.P580R|PEX5L_uc011bqg.1_Missense_Mutation_p.P558R|PEX5L_uc011bqh.1_Missense_Mutation_p.P523R	NM_016559	NP_057643	Q8IYB4	PEX5R_HUMAN	peroxisomal biogenesis factor 5-like	582					protein import into peroxisome matrix|regulation of cAMP-mediated signaling	cytosol|peroxisomal membrane	peroxisome matrix targeting signal-1 binding			ovary(3)|large_intestine(1)	4	all_cancers(143;3.94e-14)|Ovarian(172;0.0338)|Breast(254;0.183)		OV - Ovarian serous cystadenocarcinoma(80;1.75e-26)|GBM - Glioblastoma multiforme(14;0.000518)							648				0.310811	272.581626	282.022845	92	204	KEEP	---	---	---	---	capture		Missense_Mutation	SNP	179519752	179519752	12171	3	G	C	C	C	455	35	PEX5L	3	3
PLCD1	5333	broad.mit.edu	37	3	38057997	38057997	+	Missense_Mutation	SNP	C	T	T			TCGA-67-3773-01	TCGA-67-3773-01										Phase_I	Unspecified				Illumina GAIIx	g.chr3:38057997C>T	uc003chm.2	-	c.476G>A	c.(475-477)CGT>CAT	p.R159H	PLCD1_uc003chn.2_Missense_Mutation_p.R138H	NM_001130964	NP_001124436	P51178	PLCD1_HUMAN	phospholipase C, delta 1 isoform 1	138					intracellular signal transduction|lipid catabolic process|phospholipid metabolic process	cytoplasm	calcium ion binding|GTPase activating protein binding|phosphatidylinositol phospholipase C activity|signal transducer activity			skin(1)	1				KIRC - Kidney renal clear cell carcinoma(284;0.0519)|Kidney(284;0.0653)										0.147059	8.55099	12.62152	5	29	KEEP	---	---	---	---	capture		Missense_Mutation	SNP	38057997	38057997	12457	3	C	T	T	T	247	19	PLCD1	1	1
MAGI1	9223	broad.mit.edu	37	3	65479199	65479199	+	Missense_Mutation	SNP	C	A	A			TCGA-67-3773-01	TCGA-67-3773-01										Phase_I	Unspecified				Illumina GAIIx	g.chr3:65479199C>A	uc003dmn.2	-	c.538G>T	c.(538-540)GGC>TGC	p.G180C	MAGI1_uc003dmm.2_Missense_Mutation_p.G180C|MAGI1_uc003dmo.2_Missense_Mutation_p.G180C|MAGI1_uc003dmp.2_Missense_Mutation_p.G180C|MAGI1_uc010hny.2_Missense_Mutation_p.G64C|MAGI1_uc003dmr.2_Missense_Mutation_p.G180C	NM_001033057	NP_001028229	Q96QZ7	MAGI1_HUMAN	membrane associated guanylate kinase, WW and PDZ	180	Guanylate kinase-like.				cell adhesion|cell surface receptor linked signaling pathway|protein complex assembly	tight junction	ATP binding|protein C-terminus binding			kidney(1)|pancreas(1)	2		Lung NSC(201;0.0016)		BRCA - Breast invasive adenocarcinoma(55;0.00138)|KIRC - Kidney renal clear cell carcinoma(15;0.0988)|Kidney(15;0.133)										0.244318	123.240278	133.720604	43	133	KEEP	---	---	---	---	capture		Missense_Mutation	SNP	65479199	65479199	9573	3	C	A	A	A	299	23	MAGI1	1	1
EPHA6	285220	broad.mit.edu	37	3	96963011	96963011	+	Missense_Mutation	SNP	G	T	T			TCGA-67-3773-01	TCGA-67-3773-01										Phase_I	Unspecified				Illumina GAIIx	g.chr3:96963011G>T	uc010how.1	+	c.1486G>T	c.(1486-1488)GTA>TTA	p.V496L	EPHA6_uc003drp.1_Missense_Mutation_p.V496L	NM_001080448	NP_001073917	Q9UF33	EPHA6_HUMAN	EPH receptor A6 isoform a	401	Fibronectin type-III 1.|Extracellular (Potential).				protein phosphorylation|transmembrane receptor protein tyrosine kinase signaling pathway	integral to plasma membrane	ATP binding|ephrin receptor activity			central_nervous_system(3)|lung(3)|stomach(2)|breast(1)|skin(1)|ovary(1)|kidney(1)	12										480				0.347826	244.52926	249.230953	80	150	KEEP	---	---	---	---	capture		Missense_Mutation	SNP	96963011	96963011	5364	3	G	T	T	T	468	36	EPHA6	2	2
KDR	3791	broad.mit.edu	37	4	55955043	55955043	+	Missense_Mutation	SNP	C	T	T			TCGA-67-3773-01	TCGA-67-3773-01										Phase_I	Unspecified				Illumina GAIIx	g.chr4:55955043C>T	uc003has.2	-	c.3502G>A	c.(3502-3504)GCT>ACT	p.A1168T	KDR_uc003hat.1_Missense_Mutation_p.A1168T	NM_002253	NP_002244	P35968	VGFR2_HUMAN	kinase insert domain receptor precursor	1168	Cytoplasmic (Potential).				angiogenesis|cell differentiation|interspecies interaction between organisms|positive regulation of endothelial cell migration|positive regulation of endothelial cell proliferation|positive regulation of focal adhesion assembly|positive regulation of positive chemotaxis|protein phosphorylation|regulation of cell shape	integral to plasma membrane	ATP binding|growth factor binding|Hsp90 protein binding|integrin binding|receptor signaling protein tyrosine kinase activity|vascular endothelial growth factor receptor activity			lung(9)|soft_tissue(4)|central_nervous_system(4)|large_intestine(2)|ovary(2)|kidney(1)	22	all_cancers(7;0.0255)|all_lung(4;0.00175)|Lung NSC(11;0.00384)|all_epithelial(27;0.034)|Glioma(25;0.08)|all_neural(26;0.101)		Epithelial(7;0.189)		Sorafenib(DB00398)|Sunitinib(DB01268)					1022	TSP Lung(20;0.16)			0.345455	166.835507	170.310551	57	108	KEEP	---	---	---	---	capture		Missense_Mutation	SNP	55955043	55955043	8445	4	C	T	T	T	325	25	KDR	2	2
SEMA6A	57556	broad.mit.edu	37	5	115782618	115782618	+	Missense_Mutation	SNP	G	T	T			TCGA-67-3773-01	TCGA-67-3773-01										Phase_I	Unspecified				Illumina GAIIx	g.chr5:115782618G>T	uc003krx.3	-	c.2835C>A	c.(2833-2835)AGC>AGA	p.S945R	SEMA6A_uc010jck.2_Missense_Mutation_p.S928R|SEMA6A_uc011cwe.1_Missense_Mutation_p.S307R|SEMA6A_uc003krv.3_Missense_Mutation_p.S355R|SEMA6A_uc003krw.3_Missense_Mutation_p.S405R|SEMA6A_uc010jcj.2_Missense_Mutation_p.S472R	NM_020796	NP_065847	Q9H2E6	SEM6A_HUMAN	sema domain, transmembrane domain (TM), and	928	Cytoplasmic (Potential).				apoptosis|axon guidance|cell surface receptor linked signaling pathway|cytoskeleton organization|organ morphogenesis	axon|integral to membrane|plasma membrane	receptor activity			ovary(2)	2		all_cancers(142;0.00316)|all_epithelial(76;5.71e-05)|Prostate(80;0.00845)|Ovarian(225;0.0796)|Lung NSC(810;0.171)|all_lung(232;0.203)		OV - Ovarian serous cystadenocarcinoma(64;1.59e-08)|Epithelial(69;2e-08)|all cancers(49;5.7e-08)|COAD - Colon adenocarcinoma(49;0.151)										0.204301	45.770596	53.317948	19	74	KEEP	---	---	---	---	capture		Missense_Mutation	SNP	115782618	115782618	14525	5	G	T	T	T	542	42	SEMA6A	2	2
SNCAIP	9627	broad.mit.edu	37	5	121759333	121759333	+	Missense_Mutation	SNP	C	A	A			TCGA-67-3773-01	TCGA-67-3773-01										Phase_I	Unspecified				Illumina GAIIx	g.chr5:121759333C>A	uc003ksx.1	+	c.1042C>A	c.(1042-1044)CTA>ATA	p.L348I	SNCAIP_uc011cwl.1_Intron|SNCAIP_uc010jct.2_Missense_Mutation_p.L301I|SNCAIP_uc003ksw.1_Missense_Mutation_p.L301I|SNCAIP_uc003ksy.1_Intron|SNCAIP_uc003ksz.1_Intron|SNCAIP_uc010jcu.2_Intron|SNCAIP_uc011cwm.1_Intron|SNCAIP_uc003kta.1_Intron|SNCAIP_uc010jcv.1_Non-coding_Transcript|SNCAIP_uc010jcw.1_Intron|SNCAIP_uc010jcx.1_Missense_Mutation_p.L301I	NM_005460	NP_005451	Q9Y6H5	SNCAP_HUMAN	synuclein alpha interacting protein	301					cell death|dopamine metabolic process|regulation of inclusion body assembly|regulation of neurotransmitter secretion	cytoplasm|neuronal cell body|nucleolus|presynaptic membrane	protein binding			ovary(1)|pancreas(1)	2		all_cancers(142;0.00787)|Prostate(80;0.0327)	KIRC - Kidney renal clear cell carcinoma(527;0.206)	OV - Ovarian serous cystadenocarcinoma(64;0.000625)|Epithelial(69;0.00216)|all cancers(49;0.0232)										0.324074	213.275681	219.208892	70	146	KEEP	---	---	---	---	capture		Missense_Mutation	SNP	121759333	121759333	15341	5	C	A	A	A	311	24	SNCAIP	2	2
PCDHA8	56140	broad.mit.edu	37	5	140221181	140221181	+	Missense_Mutation	SNP	G	A	A			TCGA-67-3773-01	TCGA-67-3773-01										Phase_I	Unspecified				Illumina GAIIx	g.chr5:140221181G>A	uc003lhs.2	+	c.275G>A	c.(274-276)CGC>CAC	p.R92H	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_uc003lhr.1_Missense_Mutation_p.R92H	NM_018911	NP_061734	Q9Y5H6	PCDA8_HUMAN	protocadherin alpha 8 isoform 1 precursor	92	Cadherin 1.|Extracellular (Potential).				homophilic cell adhesion|nervous system development	integral to plasma membrane	calcium ion binding|protein binding				0			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)											0.164384	24.755186	32.561391	12	61	KEEP	---	---	---	---	capture		Missense_Mutation	SNP	140221181	140221181	11950	5	G	A	A	A	494	38	PCDHA8	1	1
PCDHA12	56137	broad.mit.edu	37	5	140256557	140256557	+	Silent	SNP	C	A	A			TCGA-67-3773-01	TCGA-67-3773-01										Phase_I	Unspecified				Illumina GAIIx	g.chr5:140256557C>A	uc003lic.2	+	c.1500C>A	c.(1498-1500)GGC>GGA	p.G500G	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_uc003lia.2_Intron|PCDHA12_uc011daf.1_Silent_p.G500G	NM_018903	NP_061726	Q9UN75	PCDAC_HUMAN	protocadherin alpha 12 isoform 1 precursor	500	Cadherin 5.|Extracellular (Potential).				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding|protein binding				0			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			Pancreas(113;759 1672 13322 24104 50104)								0.242424	21.403044	23.386183	8	25	KEEP	---	---	---	---	capture		Silent	SNP	140256557	140256557	11942	5	C	A	A	A	340	27	PCDHA12	1	1
RARS	5917	broad.mit.edu	37	5	167933091	167933091	+	Missense_Mutation	SNP	A	G	G			TCGA-67-3773-01	TCGA-67-3773-01										Phase_I	Unspecified				Illumina GAIIx	g.chr5:167933091A>G	uc003lzx.2	+	c.1123A>G	c.(1123-1125)ATA>GTA	p.I375V	RARS_uc011deo.1_Missense_Mutation_p.I169V	NM_002887	NP_002878	P54136	SYRC_HUMAN	arginyl-tRNA synthetase	375					arginyl-tRNA aminoacylation	cytosol|nucleus|soluble fraction	arginine-tRNA ligase activity|ATP binding|protein binding			ovary(2)	2	Renal(175;0.000159)|Lung NSC(126;0.0875)|all_lung(126;0.166)	Medulloblastoma(196;0.0208)|all_neural(177;0.0227)	Kidney(164;7.53e-05)|KIRC - Kidney renal clear cell carcinoma(164;0.000525)	all cancers(165;0.0693)|Epithelial(171;0.131)|OV - Ovarian serous cystadenocarcinoma(192;0.156)										0.260073	207.495433	221.72643	71	202	KEEP	---	---	---	---	capture		Missense_Mutation	SNP	167933091	167933091	13518	5	A	G	G	G	104	8	RARS	4	4
IRX2	153572	broad.mit.edu	37	5	2749785	2749785	+	Silent	SNP	C	A	A	rs61742405	by1000genomes	TCGA-67-3773-01	TCGA-67-3773-01										Phase_I	Unspecified				Illumina GAIIx	g.chr5:2749785C>A	uc003jda.2	-	c.366G>T	c.(364-366)ACG>ACT	p.T122T	C5orf38_uc003jdc.2_5'Flank|C5orf38_uc011cmg.1_5'Flank|C5orf38_uc011cmh.1_5'Flank|C5orf38_uc011cmi.1_5'Flank|C5orf38_uc011cmj.1_5'Flank|IRX2_uc003jdb.2_Silent_p.T122T	NM_001134222	NP_001127694	Q9BZI1	IRX2_HUMAN	iroquois homeobox 2	122	Homeobox; TALE-type.				regulation of transcription, DNA-dependent	nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|transcription regulator activity			skin(1)	1				GBM - Glioblastoma multiforme(108;0.204)										0.208333	12.698867	14.562519	5	19	KEEP	---	---	---	---	capture		Silent	SNP	2749785	2749785	8148	5	C	A	A	A	340	27	IRX2	1	1
IQGAP2	10788	broad.mit.edu	37	5	75936794	75936794	+	Nonsense_Mutation	SNP	G	T	T			TCGA-67-3773-01	TCGA-67-3773-01										Phase_I	Unspecified				Illumina GAIIx	g.chr5:75936794G>T	uc003kek.2	+	c.1960G>T	c.(1960-1962)GAG>TAG	p.E654*	IQGAP2_uc010izv.2_Nonsense_Mutation_p.E207*|IQGAP2_uc011csv.1_Intron|IQGAP2_uc003kel.2_Intron	NM_006633	NP_006624	Q13576	IQGA2_HUMAN	IQ motif containing GTPase activating protein 2	654					small GTPase mediated signal transduction	actin cytoskeleton	actin binding|calmodulin binding|GTPase inhibitor activity|Ras GTPase activator activity			ovary(6)|central_nervous_system(1)	7		all_lung(232;0.000514)|Lung NSC(167;0.00135)|Prostate(461;0.00838)|Ovarian(174;0.0149)		all cancers(79;1.38e-36)										0.284848	395.558815	416.132895	141	354	KEEP	---	---	---	---	capture		Nonsense_Mutation	SNP	75936794	75936794	8118	5	G	T	T	T	585	45	IQGAP2	5	2
VCAN	1462	broad.mit.edu	37	5	82815769	82815769	+	Silent	SNP	T	C	C			TCGA-67-3773-01	TCGA-67-3773-01										Phase_I	Unspecified				Illumina GAIIx	g.chr5:82815769T>C	uc003kii.3	+	c.1644T>C	c.(1642-1644)TAT>TAC	p.Y548Y	VCAN_uc003kij.3_Intron|VCAN_uc010jau.2_Silent_p.Y548Y|VCAN_uc003kik.3_Intron	NM_004385	NP_004376	P13611	CSPG2_HUMAN	versican isoform 1 precursor	548	GAG-alpha (glucosaminoglycan attachment domain).				cell adhesion|cell recognition|glial cell migration	extracellular space|proteinaceous extracellular matrix	calcium ion binding|hyaluronic acid binding|sugar binding			ovary(7)|skin(3)|lung(2)|central_nervous_system(1)	13		Lung NSC(167;0.0216)|all_lung(232;0.0251)|Ovarian(174;0.142)		OV - Ovarian serous cystadenocarcinoma(54;2.47e-41)|Epithelial(54;2.51e-34)|all cancers(79;5.19e-29)										0.277895	398.297105	419.377406	132	343	KEEP	---	---	---	---	capture		Silent	SNP	82815769	82815769	17703	5	T	C	C	C	660	51	VCAN	4	4
TTC37	9652	broad.mit.edu	37	5	94818288	94818288	+	Silent	SNP	T	C	C			TCGA-67-3773-01	TCGA-67-3773-01										Phase_I	Unspecified				Illumina GAIIx	g.chr5:94818288T>C	uc003klb.2	-	c.4101A>G	c.(4099-4101)AGA>AGG	p.R1367R		NM_014639	NP_055454	Q6PGP7	TTC37_HUMAN	tetratricopeptide repeat domain 37	1367							binding			ovary(3)|pancreas(1)	4														0.322388	350.181097	359.565785	108	227	KEEP	---	---	---	---	capture		Silent	SNP	94818288	94818288	17260	5	T	C	C	C	751	58	TTC37	4	4
COL12A1	1303	broad.mit.edu	37	6	75841736	75841736	+	Missense_Mutation	SNP	G	A	A			TCGA-67-3773-01	TCGA-67-3773-01										Phase_I	Unspecified				Illumina GAIIx	g.chr6:75841736G>A	uc003phs.2	-	c.5857C>T	c.(5857-5859)CGC>TGC	p.R1953C	COL12A1_uc003pht.2_Missense_Mutation_p.R789C	NM_004370	NP_004361	Q99715	COCA1_HUMAN	collagen, type XII, alpha 1 long isoform	1953	Fibronectin type-III 15.				cell adhesion|collagen fibril organization|skeletal system development	collagen type XII|extracellular space	extracellular matrix structural constituent conferring tensile strength			ovary(6)|large_intestine(1)|breast(1)	8														0.123779	58.035951	100.527726	38	269	KEEP	---	---	---	---	capture		Missense_Mutation	SNP	75841736	75841736	3807	6	G	A	A	A	481	37	COL12A1	1	1
RELN	5649	broad.mit.edu	37	7	103162494	103162494	+	Missense_Mutation	SNP	G	A	A			TCGA-67-3773-01	TCGA-67-3773-01										Phase_I	Unspecified				Illumina GAIIx	g.chr7:103162494G>A	uc003vca.2	-	c.7643C>T	c.(7642-7644)TCG>TTG	p.S2548L	RELN_uc010liz.2_Missense_Mutation_p.S2548L	NM_005045	NP_005036	P78509	RELN_HUMAN	reelin isoform a	2548					axon guidance|cell adhesion|cerebral cortex tangential migration|glial cell differentiation|neuron migration|peptidyl-tyrosine phosphorylation|positive regulation of protein kinase activity|positive regulation of small GTPase mediated signal transduction|response to pain|spinal cord patterning	cytoplasm|dendrite|extracellular space|proteinaceous extracellular matrix	metal ion binding|protein serine/threonine/tyrosine kinase activity|serine-type peptidase activity			ovary(8)|large_intestine(2)|central_nervous_system(2)|pancreas(1)|skin(1)	14				COAD - Colon adenocarcinoma(1;8.98e-05)|Colorectal(1;0.00184)		NSCLC(146;835 1944 15585 22231 52158)								0.25072	237.377715	256.959268	87	260	KEEP	---	---	---	---	capture		Missense_Mutation	SNP	103162494	103162494	13689	7	G	A	A	A	481	37	RELN	1	1
PLXNA4	91584	broad.mit.edu	37	7	132193285	132193285	+	Silent	SNP	C	A	A			TCGA-67-3773-01	TCGA-67-3773-01										Phase_I	Unspecified				Illumina GAIIx	g.chr7:132193285C>A	uc003vra.3	-	c.168G>T	c.(166-168)GTG>GTT	p.V56V	PLXNA4_uc003vrc.2_Silent_p.V56V|PLXNA4_uc003vrb.2_Silent_p.V56V	NM_020911	NP_065962	Q9HCM2	PLXA4_HUMAN	plexin A4 isoform 1	56	Extracellular (Potential).|Sema.					integral to membrane|intracellular|plasma membrane				ovary(1)	1														0.360465	96.099339	97.574255	31	55	KEEP	---	---	---	---	capture		Silent	SNP	132193285	132193285	12548	7	C	A	A	A	262	21	PLXNA4	2	2
LRGUK	136332	broad.mit.edu	37	7	133812255	133812255	+	Silent	SNP	C	T	T			TCGA-67-3773-01	TCGA-67-3773-01										Phase_I	Unspecified				Illumina GAIIx	g.chr7:133812255C>T	uc003vrm.1	+	c.135C>T	c.(133-135)CCC>CCT	p.P45P		NM_144648	NP_653249	Q96M69	LRGUK_HUMAN	leucine-rich repeats and guanylate kinase domain	45							ATP binding|kinase activity			lung(2)|kidney(1)|skin(1)	4										973				0.341615	160.065729	163.639582	55	106	KEEP	---	---	---	---	capture		Silent	SNP	133812255	133812255	9316	7	C	T	T	T	262	21	LRGUK	2	2
HTR5A	3361	broad.mit.edu	37	7	154875952	154875952	+	Missense_Mutation	SNP	G	A	A			TCGA-67-3773-01	TCGA-67-3773-01										Phase_I	Unspecified				Illumina GAIIx	g.chr7:154875952G>A	uc003wlu.1	+	c.829G>A	c.(829-831)GAG>AAG	p.E277K		NM_024012	NP_076917	P47898	5HT5A_HUMAN	5-hydroxytryptamine receptor 5A	277	Cytoplasmic (By similarity).					integral to plasma membrane	serotonin receptor activity			ovary(2)|large_intestine(1)	3	all_neural(206;0.119)	all_hematologic(28;0.0592)	OV - Ovarian serous cystadenocarcinoma(82;0.0238)	UCEC - Uterine corpus endometrioid carcinoma (81;0.171)										0.45	26.254265	26.299905	9	11	KEEP	---	---	---	---	capture		Missense_Mutation	SNP	154875952	154875952	7750	7	G	A	A	A	533	41	HTR5A	2	2
HOXA11	3207	broad.mit.edu	37	7	27222458	27222459	+	Missense_Mutation	DNP	TT	AG	AG			TCGA-67-3773-01	TCGA-67-3773-01										Phase_I	Unspecified				Illumina GAIIx	g.chr7:27222458_27222459TT>AG	uc003syx.2	-	c.898_899AA>CT	c.(898-900)AAC>CTC	p.N300L	HOXA10_uc003syw.3_5'Flank|HOXA11_uc003syy.2_Non-coding_Transcript|HOXA11AS_uc003syz.1_5'Flank	NM_005523	NP_005514	P31270	HXA11_HUMAN	homeobox A11	300	Homeobox.				branching involved in ureteric bud morphogenesis|cartilage development involved in endochondral bone morphogenesis|developmental growth|dorsal/ventral pattern formation|mesodermal cell fate specification|positive regulation of cell development|positive regulation of chondrocyte differentiation|regulation of transcription, DNA-dependent	protein-DNA complex|transcription factor complex	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|transcription regulator activity				0										18				0.212121	19.308167	21.834784	7	26	KEEP	---	---	---	---	capture		Missense_Mutation	DNP	27222458	27222459	7582	7	TT	AG	AG	AG	780	60	HOXA11	3	3
FAM188B	84182	broad.mit.edu	37	7	30821598	30821598	+	Missense_Mutation	SNP	G	T	T			TCGA-67-3773-01	TCGA-67-3773-01										Phase_I	Unspecified				Illumina GAIIx	g.chr7:30821598G>T	uc003tbt.2	+	c.189G>T	c.(187-189)AAG>AAT	p.K63N	FAM188B_uc010kwe.2_Missense_Mutation_p.K34N	NM_032222	NP_115598	Q4G0A6	F188B_HUMAN	hypothetical protein LOC84182	63											0														0.302326	77.415176	80.41628	26	60	KEEP	---	---	---	---	capture		Missense_Mutation	SNP	30821598	30821598	5725	7	G	T	T	T	451	35	FAM188B	2	2
RP1L1	94137	broad.mit.edu	37	8	10467287	10467287	+	Missense_Mutation	SNP	G	T	T			TCGA-67-3773-01	TCGA-67-3773-01										Phase_I	Unspecified				Illumina GAIIx	g.chr8:10467287G>T	uc003wtc.2	-	c.4321C>A	c.(4321-4323)CCG>ACG	p.P1441T		NM_178857	NP_849188	A6NKC6	A6NKC6_HUMAN	retinitis pigmentosa 1-like 1	1441					intracellular signal transduction					ovary(4)|breast(3)|central_nervous_system(1)	8				COAD - Colon adenocarcinoma(149;0.0811)										0.230769	21.654749	24.245437	9	30	KEEP	---	---	---	---	capture		Missense_Mutation	SNP	10467287	10467287	14012	8	G	T	T	T	546	42	RP1L1	2	2
ADCY8	114	broad.mit.edu	37	8	131792870	131792870	+	Silent	SNP	G	A	A			TCGA-67-3773-01	TCGA-67-3773-01										Phase_I	Unspecified				Illumina GAIIx	g.chr8:131792870G>A	uc003ytd.3	-	c.3522C>T	c.(3520-3522)GTC>GTT	p.V1174V	ADCY8_uc010mds.2_Silent_p.V1043V	NM_001115	NP_001106	P40145	ADCY8_HUMAN	adenylate cyclase 8	1174	Cytoplasmic (Potential).				activation of adenylate cyclase activity by G-protein signaling pathway|activation of phospholipase C activity|activation of protein kinase A activity|cellular response to glucagon stimulus|energy reserve metabolic process|inhibition of adenylate cyclase activity by G-protein signaling pathway|nerve growth factor receptor signaling pathway|synaptic transmission|transmembrane transport|water transport	integral to membrane|membrane fraction|plasma membrane	ATP binding|calcium- and calmodulin-responsive adenylate cyclase activity|metal ion binding			large_intestine(1)|central_nervous_system(1)	2	Esophageal squamous(12;0.00693)|Ovarian(258;0.00707)|Acute lymphoblastic leukemia(118;0.155)		BRCA - Breast invasive adenocarcinoma(115;0.000538)											0.260331	172.402457	184.99914	63	179	KEEP	---	---	---	---	capture		Silent	SNP	131792870	131792870	301	8	G	A	A	A	522	41	ADCY8	2	2
XPO7	23039	broad.mit.edu	37	8	21853061	21853061	+	Missense_Mutation	SNP	G	T	T			TCGA-67-3773-01	TCGA-67-3773-01										Phase_I	Unspecified				Illumina GAIIx	g.chr8:21853061G>T	uc010lti.2	+	c.2323G>T	c.(2323-2325)GCC>TCC	p.A775S	XPO7_uc003xaa.3_Missense_Mutation_p.A766S|XPO7_uc010ltk.2_Missense_Mutation_p.A767S	NM_001100161	NP_001093631	Q9UIA9	XPO7_HUMAN	exportin 7 isoform a	766					mRNA transport|protein export from nucleus|transmembrane transport	cytoplasm|nuclear pore	nuclear export signal receptor activity|protein transporter activity			ovary(1)|kidney(1)|breast(1)|central_nervous_system(1)|pancreas(1)	5				Colorectal(74;0.0187)|COAD - Colon adenocarcinoma(73;0.0724)										0.233333	18.508827	20.461948	7	23	KEEP	---	---	---	---	capture		Missense_Mutation	SNP	21853061	21853061	18032	8	G	T	T	T	442	34	XPO7	2	2
CSMD1	64478	broad.mit.edu	37	8	2944626	2944626	+	Silent	SNP	G	T	T			TCGA-67-3773-01	TCGA-67-3773-01										Phase_I	Unspecified				Illumina GAIIx	g.chr8:2944626G>T	uc011kwk.1	-	c.7470C>A	c.(7468-7470)CTC>CTA	p.L2490L	CSMD1_uc011kwj.1_Silent_p.L1819L|CSMD1_uc010lrg.2_Silent_p.L558L	NM_033225	NP_150094	Q96PZ7	CSMD1_HUMAN	CUB and Sushi multiple domains 1 precursor	2490	Sushi 14.|Extracellular (Potential).					integral to membrane				breast(20)|large_intestine(5)	25		all_cancers(1;5.7e-41)|all_epithelial(1;2.54e-36)|Lung NSC(1;7.54e-11)|all_lung(1;3.2e-10)|Hepatocellular(1;3.78e-05)|Breast(1;0.000196)|Myeloproliferative disorder(4;0.000374)|Esophageal squamous(1;0.0157)|Ovarian(12;0.091)|Renal(68;0.144)|Colorectal(14;0.234)		all cancers(1;5.03e-41)|Epithelial(1;4.78e-31)|Lung(1;1.14e-14)|LUSC - Lung squamous cell carcinoma(1;2.34e-14)|GBM - Glioblastoma multiforme(1;4.49e-10)|Colorectal(4;1.18e-07)|OV - Ovarian serous cystadenocarcinoma(1;3.2e-07)|BRCA - Breast invasive adenocarcinoma(1;6.17e-07)|COAD - Colon adenocarcinoma(4;0.000539)|READ - Rectum adenocarcinoma(4;0.00896)|Kidney(5;0.00957)|KIRC - Kidney renal clear cell carcinoma(5;0.0689)										0.144737	18.169685	27.404687	11	65	KEEP	---	---	---	---	capture		Silent	SNP	2944626	2944626	4085	8	G	T	T	T	418	33	CSMD1	2	2
SNTG1	54212	broad.mit.edu	37	8	51617263	51617264	+	Missense_Mutation	DNP	GG	TT	TT			TCGA-67-3773-01	TCGA-67-3773-01										Phase_I	Unspecified				Illumina GAIIx	g.chr8:51617263_51617264GG>TT	uc010lxy.1	+	c.1142_1143GG>TT	c.(1141-1143)TGG>TTT	p.W381F	SNTG1_uc003xqs.1_Missense_Mutation_p.W381F|SNTG1_uc010lxz.1_Missense_Mutation_p.W381F|SNTG1_uc011ldl.1_Non-coding_Transcript	NM_018967	NP_061840	Q9NSN8	SNTG1_HUMAN	syntrophin, gamma 1	381	PH.				cell communication	cytoplasm|cytoskeleton|nucleus|ruffle membrane|syntrophin complex	actin binding|protein C-terminus binding			ovary(5)	5		all_cancers(86;0.00754)|all_epithelial(80;9.76e-05)|Lung NSC(129;0.000865)|all_lung(136;0.00249)|Colorectal(162;0.22)												0.246835	107.746501	116.963647	39	119	KEEP	---	---	---	---	capture		Missense_Mutation	DNP	51617263	51617264	15374	8	GG	TT	TT	TT	611	47	SNTG1	2	2
GEM	2669	broad.mit.edu	37	8	95272446	95272446	+	Missense_Mutation	SNP	C	A	A			TCGA-67-3773-01	TCGA-67-3773-01										Phase_I	Unspecified				Illumina GAIIx	g.chr8:95272446C>A	uc003ygj.2	-	c.286G>T	c.(286-288)GCA>TCA	p.A96S	GEM_uc003ygi.2_Missense_Mutation_p.A96S	NM_005261	NP_005252	P55040	GEM_HUMAN	GTP-binding mitogen-induced T-cell protein	96					cell surface receptor linked signaling pathway|immune response|small GTPase mediated signal transduction	internal side of plasma membrane	calmodulin binding|GDP binding|GTP binding|GTPase activity|magnesium ion binding				0	Breast(36;4.65e-06)	Myeloproliferative disorder(644;0.204)	BRCA - Breast invasive adenocarcinoma(8;0.00691)			GBM(125;80 1653 28655 32188 47338)|Esophageal Squamous(19;97 579 13602 49091 51766)								0.338235	69.403052	70.9771	23	45	KEEP	---	---	---	---	capture		Missense_Mutation	SNP	95272446	95272446	6597	8	C	A	A	A	325	25	GEM	2	2
C8orf47	203111	broad.mit.edu	37	8	99102146	99102146	+	Missense_Mutation	SNP	C	T	T			TCGA-67-3773-01	TCGA-67-3773-01										Phase_I	Unspecified				Illumina GAIIx	g.chr8:99102146C>T	uc003yih.1	+	c.901C>T	c.(901-903)CCT>TCT	p.P301S		NM_173549	NP_775820	Q6P6B1	CH047_HUMAN	hypothetical protein LOC203111	301	Glu-rich.										0	Breast(36;2.31e-06)		OV - Ovarian serous cystadenocarcinoma(57;0.214)											0.276596	249.461984	264.257103	91	238	KEEP	---	---	---	---	capture		Missense_Mutation	SNP	99102146	99102146	2542	8	C	T	T	T	234	18	C8orf47	2	2
BAT2L1	84726	broad.mit.edu	37	9	134360401	134360401	+	Missense_Mutation	SNP	G	T	T			TCGA-67-3773-01	TCGA-67-3773-01										Phase_I	Unspecified				Illumina GAIIx	g.chr9:134360401G>T	uc004can.3	+	c.5632G>T	c.(5632-5634)GCT>TCT	p.A1878S	BAT2L1_uc004cao.3_Missense_Mutation_p.A1235S|BAT2L1_uc004cap.3_Missense_Mutation_p.A23S|SNORD62A_uc004caq.2_5'Flank	NM_013318	NP_037450	Q5JSZ5	PRC2B_HUMAN	HLA-B associated transcript 2-like	1878							protein binding				0														0.2	7.988306	9.663103	4	16	KEEP	---	---	---	---	capture		Missense_Mutation	SNP	134360401	134360401	1341	9	G	T	T	T	494	38	BAT2L1	1	1
PTPRD	5789	broad.mit.edu	37	9	8528763	8528763	+	Missense_Mutation	SNP	C	A	A			TCGA-67-3773-01	TCGA-67-3773-01										Phase_I	Unspecified				Illumina GAIIx	g.chr9:8528763C>A	uc003zkk.2	-	c.369G>T	c.(367-369)AGG>AGT	p.R123S	PTPRD_uc003zkp.2_Missense_Mutation_p.R123S|PTPRD_uc003zkq.2_Missense_Mutation_p.R123S|PTPRD_uc003zkr.2_Missense_Mutation_p.R123S|PTPRD_uc003zks.2_Missense_Mutation_p.R123S|PTPRD_uc003zkl.2_Missense_Mutation_p.R123S|PTPRD_uc003zkm.2_Missense_Mutation_p.R123S|PTPRD_uc003zkn.2_Missense_Mutation_p.R123S|PTPRD_uc003zko.2_Missense_Mutation_p.R123S|PTPRD_uc003zkt.1_Missense_Mutation_p.R123S	NM_002839	NP_002830	P23468	PTPRD_HUMAN	protein tyrosine phosphatase, receptor type, D	123	Extracellular (Potential).				transmembrane receptor protein tyrosine phosphatase signaling pathway	integral to plasma membrane	protein binding|transmembrane receptor protein tyrosine phosphatase activity			lung(10)|large_intestine(3)|ovary(2)|urinary_tract(1)	16		all_cancers(3;3.38e-95)|all_epithelial(3;2.84e-91)|all_lung(3;7.3e-56)|Lung NSC(3;1.82e-52)|Renal(3;3.42e-19)|all_hematologic(3;0.000134)|all_neural(3;0.00409)|Acute lymphoblastic leukemia(23;0.0069)|Melanoma(3;0.0121)|Myeloproliferative disorder(4;0.0122)|Medulloblastoma(3;0.0144)|Lung SC(3;0.0301)|Ovarian(56;0.0694)|Hepatocellular(3;0.0824)		all cancers(1;3.38e-12)|Epithelial(1;2.12e-09)|STAD - Stomach adenocarcinoma(1;1.29e-07)|KIRC - Kidney renal clear cell carcinoma(3;5.49e-07)|Kidney(3;6.36e-07)|GBM - Glioblastoma multiforme(50;9.05e-05)|Lung(1;0.000189)|BRCA - Breast invasive adenocarcinoma(1;0.00178)|LUSC - Lung squamous cell carcinoma(1;0.0115)|LUAD - Lung adenocarcinoma(58;0.119)						1253	TSP Lung(15;0.13)			0.309417	197.264843	204.498423	69	154	KEEP	---	---	---	---	capture		Missense_Mutation	SNP	8528763	8528763	13256	9	C	A	A	A	285	22	PTPRD	2	2
IL13RA2	3598	broad.mit.edu	37	X	114242517	114242517	+	Missense_Mutation	SNP	C	A	A			TCGA-67-3773-01	TCGA-67-3773-01										Phase_I	Unspecified				Illumina GAIIx	g.chrX:114242517C>A	uc004epx.2	-	c.975G>T	c.(973-975)TGG>TGT	p.W325C	IL13RA2_uc010nqd.1_Missense_Mutation_p.W325C	NM_000640	NP_000631	Q14627	I13R2_HUMAN	interleukin 13 receptor, alpha 2 precursor	325	Extracellular (Potential).|WSXWS motif.|Fibronectin type-III 3.					extracellular space|integral to membrane|soluble fraction	cytokine receptor activity			ovary(1)|lung(1)	2														0.505495	293.492912	293.497546	92	90	KEEP	---	---	---	---	capture		Missense_Mutation	SNP	114242517	114242517	7931	23	C	A	A	A	390	30	IL13RA2	2	2
GLUD2	2747	broad.mit.edu	37	X	120182373	120182374	+	Missense	DNP	GG	TT	TT			TCGA-67-3773-01	TCGA-67-3773-01										Phase_I	Unspecified				Illumina GAIIx	g.chrX:120182373G>T	uc004eto.2	+	c.835G>T	c.(835-837)GGG>TGG	p.G279W		NM_012084	NP_036216	P49448	DHE4_HUMAN	glutamate dehydrogenase 2 precursor	279					glutamate biosynthetic process|glutamate catabolic process|oxidation-reduction process	mitochondrial matrix	ADP binding|glutamate dehydrogenase|glutamate dehydrogenase activity|GTP binding|leucine binding			pancreas(1)	1					L-Glutamic Acid(DB00142)|NADH(DB00157)									0.314815	46.856395	48.503626	17	37	KEEP	---	---	---	---	capture		Missense	DNP	120182373	120182374	6745	23	GG	TT	TT	T	611	47	GLUD2	2	2
FTCD	10841	broad.mit.edu	37	21	47571590	47571591	+	Frame_Shift_Ins	INS	-	C	C			TCGA-67-3773-01	TCGA-67-3773-01										Phase_I	Unspecified				Illumina GAIIx	g.chr21:47571590_47571591insC	uc002zif.2	-	c.517_518insG	c.(517-519)GCCfs	p.A173fs	FTCD_uc002zig.2_Frame_Shift_Ins_p.A173fs|FTCD_uc002zih.2_Frame_Shift_Ins_p.A173fs|FTCD_uc010gqf.2_Frame_Shift_Ins_p.A173fs|FTCD_uc010gqg.1_Frame_Shift_Ins_p.A42fs	NM_006657	NP_006648	O95954	FTCD_HUMAN	formiminotransferase cyclodeaminase	173	Formiminotransferase N-subdomain (By similarity).				folic acid-containing compound metabolic process|histidine catabolic process	centriole|cytosol|Golgi apparatus	folic acid binding|formimidoyltetrahydrofolate cyclodeaminase activity|glutamate formimidoyltransferase activity			pancreas(1)	1	Breast(49;0.214)			Colorectal(79;0.235)	L-Glutamic Acid(DB00142)|Pyridoxal Phosphate(DB00114)|Tetrahydrofolic acid(DB00116)									0.33			2	4		---	---	---	---	capture_indel		Frame_Shift_Ins	INS	47571590	47571591	6332	21	-	C	C	C	546	42	FTCD	5	5
PRDM8	56978	broad.mit.edu	37	4	81123482	81123484	+	In_Frame_Del	DEL	GCG	-	-			TCGA-67-3773-01	TCGA-67-3773-01										Phase_I	Unspecified				Illumina GAIIx	g.chr4:81123482_81123484delGCG	uc010ijo.2	+	c.866_868delGCG	c.(865-870)AGCGGC>AGC	p.G294del	PRDM8_uc003hmb.3_In_Frame_Del_p.G294del|PRDM8_uc003hmc.3_In_Frame_Del_p.G294del	NM_020226	NP_064611	Q9NQV8	PRDM8_HUMAN	PR domain containing 8	294	Gly-rich.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0												OREG0016246	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	0.33			2	4		---	---	---	---	capture_indel		In_Frame_Del	DEL	81123482	81123484	12905	4	GCG	-	-	-	442	34	PRDM8	5	5
