Hugo_Symbol	Entrez_Gene_Id	Center	NCBI_Build	Chromosome	Start_position	End_position	Strand	Variant_Classification	Variant_Type	Reference_Allele	Tumor_Seq_Allele1	Tumor_Seq_Allele2	dbSNP_RS	dbSNP_Val_Status	Tumor_Sample_Barcode	Matched_Norm_Sample_Barcode	Match_Norm_Seq_Allele1	Match_Norm_Seq_Allele2	Tumor_Validation_Allele1	Tumor_Validation_Allele2	Match_Norm_Validation_Allele1	Match_Norm_Validation_Allele2	Verification_Status	Validation_Status	Mutation_Status	Sequencing_Phase	Sequence_Source	Validation_Method	Score	BAM_file	Sequencer	Genome_Change	Annotation_Transcript	Transcript_Strand	cDNA_Change	Codon_Change	Protein_Change	Other_Transcripts	Refseq_mRNA_Id	Refseq_prot_Id	SwissProt_acc_Id	SwissProt_entry_Id	Description	UniProt_AApos	UniProt_Region	UniProt_Site	UniProt_Natural_Variations	UniProt_Experimental_Info	GO_Biological_Process	GO_Cellular_Component	GO_Molecular_Function	COSMIC_overlapping_mutations	COSMIC_fusion_genes	COSMIC_tissue_types_affected	COSMIC_total_alterations_in_gene	Tumorscape_Amplification_Peaks	Tumorscape_Deletion_Peaks	i_TCGAscape_Amplification_Peaks	i_TCGAscape_Deletion_Peaks	DrugBank	i_ACHILLES_Top_Genes	i_CCLE_ONCOMAP_overlapping_mutations	i_CCLE_ONCOMAP_total_mutations_in_gene	i_CCLE_SEQ_overlapping_mutations	i_CCLE_SEQ_total_mutations_in_gene	MUTSIG_Significant_Genes	OREGANNO_ID	OREGANNO_Values	i_tumor_f	i_init_t_lod	i_t_lod_fstar	i_t_alt_count	i_t_ref_count	i_normal_best_gt	i_failure_reasons	i_judgement	validation_status	validation_method	validation_tumor_sample	validation_alt_allele	dataset	TCGAscape_Amplification_Peaks	TCGAscape_Deletion_Peaks	type	classification	start	end	gene	chr	ref_allele	tum_allele1	tum_allele2	context_orig	context65	gene_name	newbase	categ	categ_ignoring_null_categ
CUBN	8029	broad.mit.edu	36	10	16910845	16910845	+	Missense_Mutation	SNP	C	T	T			TCGA-32-1986-01	TCGA-32-1986-01	C	C								Phase_I	Unspecified				Illumina GAIIx	g.chr10:16910845C>T	uc001ioo.1	-	c.10729G>A	c.(10729-10731)GCC>ACC	p.A3577T		NM_001081	NP_001072	O60494	CUBN_HUMAN	cubilin	3577	CUB 27.				cholesterol metabolic process|cobalamin transport|hormone biosynthetic process|lipoprotein metabolic process|receptor-mediated endocytosis|tissue homeostasis|vitamin D metabolic process	brush border membrane|cytosol|endosome membrane|extrinsic to external side of plasma membrane|lysosomal lumen|lysosomal membrane	calcium ion binding|cobalamin binding|protein homodimerization activity|receptor activity|transporter activity			ovary(9)|breast(4)|pancreas(2)|large_intestine(1)|central_nervous_system(1)|kidney(1)	18					Cyanocobalamin(DB00115)|Hydroxocobalamin(DB00200)				p.A3577T(HEC59-Tumor)	2704		OREG0020047	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	0.484536	133.319929	133.339522	47	50	CC		KEEP	---	---	---	---	capture			Missense_Mutation	SNP	16910845	16910845	4211	10	C	T	T	27	27	CUBN	T	1	1
GJD4	219770	broad.mit.edu	36	10	35936767	35936767	+	Missense_Mutation	SNP	G	C	C			TCGA-32-1986-01	TCGA-32-1986-01	G	G								Phase_I	Unspecified				Illumina GAIIx	g.chr10:35936767G>C	uc001iyy.1	+	c.320G>C	c.(319-321)GGC>GCC	p.G107A		NM_153368	NP_699199	Q96KN9	CXD4_HUMAN	connexin40.1	107	Cytoplasmic (Potential).				cell communication	connexon complex|integral to membrane				large_intestine(2)|central_nervous_system(1)|pancreas(1)	4														0.25	6.678256	8.618888	8	24	GG		KEEP	---	---	---	---	capture			Missense_Mutation	SNP	35936767	35936767	6687	10	G	C	C	42	42	GJD4	C	3	3
CD3G	917	broad.mit.edu	36	11	117728377	117728377	+	Missense_Mutation	SNP	C	A	A			TCGA-32-1986-01	TCGA-32-1986-01	C	C								Phase_I	Unspecified				Illumina GAIIx	g.chr11:117728377C>A	uc001psu.2	+	c.532C>A	c.(532-534)CAG>AAG	p.Q178K	CD3G_uc009zaa.1_Missense_Mutation_p.Q118K	NM_000073	NP_000064	P09693	CD3G_HUMAN	CD3G antigen, gamma polypeptide precursor	178	Cytoplasmic (Potential).				establishment or maintenance of cell polarity|protein complex assembly|protein transport|regulation of apoptosis|T cell activation|T cell costimulation|T cell receptor signaling pathway	integral to plasma membrane|T cell receptor complex	protein heterodimerization activity|receptor signaling complex scaffold activity|T cell receptor binding|transmembrane receptor activity				0	all_hematologic(175;0.046)	Medulloblastoma(222;0.0425)|Breast(348;0.181)|all_hematologic(192;0.196)|all_neural(223;0.234)												0.281385	174.270905	184.196092	65	166	CC		KEEP	---	---	---	---	capture		BRCA - Breast invasive adenocarcinoma(274;3.04e-05)	Missense_Mutation	SNP	117728377	117728377	3141	11	C	A	A	21	21	CD3G	A	3	3
OR52M1	119772	broad.mit.edu	36	11	4523393	4523393	+	Missense_Mutation	SNP	C	T	T			TCGA-32-1986-01	TCGA-32-1986-01	C	C								Phase_I	Unspecified				Illumina GAIIx	g.chr11:4523393C>T	uc001lzb.1	+	c.397C>T	c.(397-399)CGT>TGT	p.R133C		NM_001004137	NP_001004137	Q8NGK5	O52M1_HUMAN	olfactory receptor, family 52, subfamily M,	133	Cytoplasmic (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity				0		Medulloblastoma(188;0.0075)|Breast(177;0.0461)|all_neural(188;0.0577)												0.302326	106.3771	110.876585	39	90	CC		KEEP	---	---	---	---	capture		Epithelial(150;8.45e-12)|BRCA - Breast invasive adenocarcinoma(625;0.0285)|LUSC - Lung squamous cell carcinoma(625;0.19)	Missense_Mutation	SNP	4523393	4523393	11536	11	C	T	T	19	19	OR52M1	T	1	1
OR4S2	219431	broad.mit.edu	36	11	55175727	55175727	+	Missense_Mutation	SNP	C	T	T			TCGA-32-1986-01	TCGA-32-1986-01	C	C								Phase_I	Unspecified				Illumina GAIIx	g.chr11:55175727C>T	uc001nhs.1	+	c.772C>T	c.(772-774)CGC>TGC	p.R258C		NM_001004059	NP_001004059	Q8NH73	OR4S2_HUMAN	olfactory receptor, family 4, subfamily S,	258	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)|skin(1)	2		all_epithelial(135;0.0748)												0.323432	260.8535	269.234886	98	205	CC		KEEP	---	---	---	---	capture			Missense_Mutation	SNP	55175727	55175727	11493	11	C	T	T	27	27	OR4S2	T	1	1
SLC25A45	283130	broad.mit.edu	36	11	64900517	64900517	+	Silent	SNP	G	A	A			TCGA-32-1986-01	TCGA-32-1986-01	G	G								Phase_I	Unspecified				Illumina GAIIx	g.chr11:64900517G>A	uc001odp.1	-	c.804C>T	c.(802-804)CGC>CGT	p.R268R	SLC25A45_uc009yqi.1_Silent_p.R206R|SLC25A45_uc001odq.1_Silent_p.R244R|SLC25A45_uc001odr.1_Silent_p.R268R|SLC25A45_uc001ods.1_Silent_p.R226R|SLC25A45_uc001odt.1_Silent_p.R226R	NM_001077241	NP_001070709	Q8N413	S2545_HUMAN	solute carrier family 25, member 45 isoform b	268	Helical; Name=6; (Potential).|Solcar 3.				transmembrane transport	integral to membrane|mitochondrial inner membrane	binding				0														0.236842	43.768691	48.540481	18	58	GG		KEEP	---	---	---	---	capture			Silent	SNP	64900517	64900517	15007	11	G	A	A	38	38	SLC25A45	A	1	1
SPTBN2	6712	broad.mit.edu	36	11	66213166	66213166	+	Missense_Mutation	SNP	T	C	C			TCGA-32-1986-01	TCGA-32-1986-01	T	T								Phase_I	Unspecified				Illumina GAIIx	g.chr11:66213166T>C	uc001ojd.1	-	c.6011A>G	c.(6010-6012)GAG>GGG	p.E2004G	SPTBN2_uc001ojc.1_5'Flank	NM_006946	NP_008877	O15020	SPTN2_HUMAN	spectrin, beta, non-erythrocytic 2	2004	Spectrin 16.				actin filament capping|axon guidance|cell death|vesicle-mediated transport	cytosol|spectrin	actin binding|structural constituent of cytoskeleton			large_intestine(1)|pancreas(1)|central_nervous_system(1)|skin(1)	4														0.307692	7.456353	7.909549	4	9	TT		KEEP	---	---	---	---	capture			Missense_Mutation	SNP	66213166	66213166	15634	11	T	C	C	54	54	SPTBN2	C	4	4
RPH3A	22895	broad.mit.edu	36	12	111813171	111813171	+	Nonsense_Mutation	SNP	C	A	A			TCGA-32-1986-01	TCGA-32-1986-01	C	C								Phase_I	Unspecified				Illumina GAIIx	g.chr12:111813171C>A	uc001ttz.1	+	c.1755C>A	c.(1753-1755)TAC>TAA	p.Y585*	RPH3A_uc001tty.1_Nonsense_Mutation_p.Y581*|RPH3A_uc009zwe.1_Nonsense_Mutation_p.Y580*|RPH3A_uc001tua.1_Nonsense_Mutation_p.Y345*	NM_014954	NP_055769	Q9Y2J0	RP3A_HUMAN	rabphilin 3A homolog isoform 2	585	C2 2.				intracellular protein transport	cell junction|synaptic vesicle	Rab GTPase binding|transporter activity|zinc ion binding			ovary(3)|central_nervous_system(1)|skin(1)	5														0.153846	7.183363	10.161939	4	22	CC		KEEP	---	---	---	---	capture		BRCA - Breast invasive adenocarcinoma(302;0.00453)	Nonsense_Mutation	SNP	111813171	111813171	14030	12	C	A	A	20	20	RPH3A	A	5	3
TAOK3	51347	broad.mit.edu	36	12	117084158	117084158	+	Missense_Mutation	SNP	C	T	T			TCGA-32-1986-01	TCGA-32-1986-01	C	C								Phase_I	Unspecified				Illumina GAIIx	g.chr12:117084158C>T	uc001twx.1	-	c.1957G>A	c.(1957-1959)GAC>AAC	p.D653N	TAOK3_uc001twy.2_Missense_Mutation_p.D653N|TAOK3_uc001twv.1_Missense_Mutation_p.D193N|TAOK3_uc001tww.1_Missense_Mutation_p.D483N	NM_016281	NP_057365	Q9H2K8	TAOK3_HUMAN	TAO kinase 3	653					MAPKKK cascade|negative regulation of JNK cascade|positive regulation of JNK cascade|protein autophosphorylation	mitochondrion|plasma membrane	ATP binding|protein kinase inhibitor activity|protein serine/threonine kinase activity			lung(5)|central_nervous_system(1)	6	all_neural(191;0.0804)|Medulloblastoma(191;0.0922)									500				0.262376	139.289636	149.603674	53	149	CC		KEEP	---	---	---	---	capture			Missense_Mutation	SNP	117084158	117084158	16070	12	C	T	T	31	31	TAOK3	T	1	1
FAM60A	58516	broad.mit.edu	36	12	31342345	31342345	+	Missense_Mutation	SNP	C	T	T			TCGA-32-1986-01	TCGA-32-1986-01	C	C								Phase_I	Unspecified				Illumina GAIIx	g.chr12:31342345C>T	uc001rkc.1	-	c.136G>A	c.(136-138)GCT>ACT	p.A46T	FAM60A_uc001rkb.1_Missense_Mutation_p.A21T|FAM60A_uc001rkd.1_Missense_Mutation_p.A21T|FAM60A_uc001rke.1_Missense_Mutation_p.A21T	NM_021238	NP_067061	Q9NP50	FA60A_HUMAN	family with sequence similarity 60, member A	21											0	all_cancers(9;5.22e-13)|all_epithelial(9;4e-13)|all_lung(12;1.2e-11)|Lung NSC(12;2.17e-09)|Acute lymphoblastic leukemia(23;0.0122)|all_hematologic(23;0.0207)|Lung SC(12;0.0592)|Esophageal squamous(101;0.162)													0.17004	85.597527	111.040994	42	205	CC		KEEP	---	---	---	---	capture			Missense_Mutation	SNP	31342345	31342345	5818	12	C	T	T	28	28	FAM60A	T	2	2
C12orf5	57103	broad.mit.edu	36	12	4331955	4331955	+	Missense_Mutation	SNP	T	C	C			TCGA-32-1986-01	TCGA-32-1986-01	T	T								Phase_I	Unspecified				Illumina GAIIx	g.chr12:4331955T>C	uc001qmp.1	+	c.650T>C	c.(649-651)TTA>TCA	p.L217S		NM_020375	NP_065108	Q9NQ88	TIGAR_HUMAN	TP53-induced glycolysis and apoptosis regulator	217						intracellular	fructose-2,6-bisphosphate 2-phosphatase activity			skin(1)	1						Colon(1;100 192 35375 49454 52532)								0.12931	12.732572	28.286198	15	101	TT		KEEP	---	---	---	---	capture	all cancers(3;1.15e-07)|Colorectal(7;0.00165)|OV - Ovarian serous cystadenocarcinoma(31;0.00596)|COAD - Colon adenocarcinoma(12;0.0229)|GBM - Glioblastoma multiforme(3;0.0266)|STAD - Stomach adenocarcinoma(119;0.206)		Missense_Mutation	SNP	4331955	4331955	1738	12	T	C	C	61	61	C12orf5	C	4	4
NANOG	79923	broad.mit.edu	36	12	7836934	7836934	+	Silent	SNP	C	T	T			TCGA-32-1986-01	TCGA-32-1986-01	C	C								Phase_I	Unspecified				Illumina GAIIx	g.chr12:7836934C>T	uc009zfy.1	+	c.273C>T	c.(271-273)GTC>GTT	p.V91V		NM_024865	NP_079141	Q9H9S0	NANOG_HUMAN	Nanog homeobox	91					cell proliferation|embryo development|regulation of transcription, DNA-dependent|somatic stem cell maintenance	nucleolus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|transcription regulator activity				0														0.435897	153.405432	153.824966	51	66	CC		KEEP	---	---	---	---	capture		Kidney(36;0.0872)	Silent	SNP	7836934	7836934	10546	12	C	T	T	30	30	NANOG	T	2	2
FRMD6	122786	broad.mit.edu	36	14	51249003	51249003	+	Missense_Mutation	SNP	G	T	T			TCGA-32-1986-01	TCGA-32-1986-01	G	G								Phase_I	Unspecified				Illumina GAIIx	g.chr14:51249003G>T	uc001wzd.1	+	c.833G>T	c.(832-834)GGA>GTA	p.G278V	FRMD6_uc001wzb.1_Missense_Mutation_p.G270V|FRMD6_uc001wzc.1_Missense_Mutation_p.G270V|FRMD6_uc001wze.1_Missense_Mutation_p.G201V	NM_152330	NP_689543	Q96NE9	FRMD6_HUMAN	FERM domain containing 6	278	FERM.					cytoskeleton|mitochondrion|plasma membrane	binding			ovary(1)|central_nervous_system(1)	2	all_epithelial(31;0.0163)|Breast(41;0.089)													0.241071	64.574977	71.422028	27	85	GG		KEEP	---	---	---	---	capture			Missense_Mutation	SNP	51249003	51249003	6304	14	G	T	T	41	41	FRMD6	T	3	3
GPR135	64582	broad.mit.edu	36	14	59000331	59000331	+	Missense_Mutation	SNP	T	C	C			TCGA-32-1986-01	TCGA-32-1986-01	T	T								Phase_I	Unspecified				Illumina GAIIx	g.chr14:59000331T>C	uc010apj.1	-	c.1367A>G	c.(1366-1368)GAC>GGC	p.D456G	GPR135_uc001xed.2_Non-coding_Transcript	NM_022571	NP_072093	Q8IZ08	GP135_HUMAN	G protein-coupled receptor 135	456	Cytoplasmic (Potential).					integral to membrane|plasma membrane	G-protein coupled receptor activity				0														0.222222	6.411045	7.786023	4	14	TT		KEEP	---	---	---	---	capture		OV - Ovarian serous cystadenocarcinoma(108;0.134)	Missense_Mutation	SNP	59000331	59000331	6918	14	T	C	C	58	58	GPR135	C	4	4
PLEKHH1	57475	broad.mit.edu	36	14	67096150	67096150	+	Missense_Mutation	SNP	A	C	C			TCGA-32-1986-01	TCGA-32-1986-01	A	A								Phase_I	Unspecified				Illumina GAIIx	g.chr14:67096150A>C	uc001xjl.1	+	c.412A>C	c.(412-414)AAG>CAG	p.K138Q		NM_020715	NP_065766	Q9ULM0	PKHH1_HUMAN	pleckstrin homology domain containing, family H	138	Potential.					cytoskeleton	binding				0														0.266667	11.693732	12.431006	4	11	AA		KEEP	---	---	---	---	capture		all cancers(60;0.000771)|OV - Ovarian serous cystadenocarcinoma(108;0.00502)|BRCA - Breast invasive adenocarcinoma(234;0.011)	Missense_Mutation	SNP	67096150	67096150	12502	14	A	C	C	5	5	PLEKHH1	C	4	4
FBLN5	10516	broad.mit.edu	36	14	91473151	91473151	+	Missense_Mutation	SNP	G	A	A			TCGA-32-1986-01	TCGA-32-1986-01	G	G								Phase_I	Unspecified				Illumina GAIIx	g.chr14:91473151G>A	uc010aue.1	-	c.395C>T	c.(394-396)CCG>CTG	p.P132L	FBLN5_uc010aud.1_Missense_Mutation_p.P96L|FBLN5_uc001xzx.2_Missense_Mutation_p.P91L	NM_006329	NP_006320	Q9UBX5	FBLN5_HUMAN	fibulin 5 precursor	91					cell-matrix adhesion|elastic fiber assembly|protein localization at cell surface|regulation of removal of superoxide radicals	extracellular space|proteinaceous extracellular matrix|soluble fraction	calcium ion binding|integrin binding|protein C-terminus binding			ovary(3)|lung(1)|skin(1)	5		all_cancers(154;0.0722)							p.P132L(IPC298-Tumor)	478				0.297521	100.351659	104.787618	36	85	GG		KEEP	---	---	---	---	capture			Missense_Mutation	SNP	91473151	91473151	5936	14	G	A	A	39	39	FBLN5	A	1	1
TMCO5A	145942	broad.mit.edu	36	15	36021214	36021214	+	Silent	SNP	C	T	T			TCGA-32-1986-01	TCGA-32-1986-01	C	C								Phase_I	Unspecified				Illumina GAIIx	g.chr15:36021214C>T	uc001zjw.1	+	c.495C>T	c.(493-495)CTC>CTT	p.L165L	TMCO5A_uc001zjv.1_Silent_p.L165L|TMCO5A_uc010bbc.1_Silent_p.L165L	NM_152453	NP_689666	Q8N6Q1	TMC5A_HUMAN	transmembrane and coiled-coil domains 5A	165	Potential.					integral to membrane				central_nervous_system(1)	1														0.345865	138.907674	141.698644	46	87	CC		KEEP	---	---	---	---	capture			Silent	SNP	36021214	36021214	16529	15	C	T	T	32	32	TMCO5A	T	2	2
MAP1A	4130	broad.mit.edu	36	15	41604098	41604098	+	Silent	SNP	T	C	C			TCGA-32-1986-01	TCGA-32-1986-01	T	T								Phase_I	Unspecified				Illumina GAIIx	g.chr15:41604098T>C	uc001zrt.1	+	c.3135T>C	c.(3133-3135)GCT>GCC	p.A1045A		NM_002373	NP_002364	P78559	MAP1A_HUMAN	microtubule-associated protein 1A	1045						cytoplasm|microtubule|microtubule associated complex	protein binding|structural molecule activity			ovary(3)|breast(3)|pancreas(2)	8		all_cancers(109;1.03e-14)|all_epithelial(112;2.23e-12)|Lung NSC(122;2.76e-08)|all_lung(180;3.1e-07)|Melanoma(134;0.0476)|Colorectal(260;0.215)			Estramustine(DB01196)									0.310345	90.337337	94.066676	36	80	TT		KEEP	---	---	---	---	capture		GBM - Glioblastoma multiforme(94;3.05e-06)	Silent	SNP	41604098	41604098	9610	15	T	C	C	55	55	MAP1A	C	4	4
SENP8	123228	broad.mit.edu	36	15	70219168	70219168	+	Silent	SNP	C	T	T			TCGA-32-1986-01	TCGA-32-1986-01	C	C								Phase_I	Unspecified				Illumina GAIIx	g.chr15:70219168C>T	uc002atp.1	+	c.150C>T	c.(148-150)CAC>CAT	p.H50H	SENP8_uc010bir.1_Silent_p.H50H	NM_145204	NP_660205	Q96LD8	SENP8_HUMAN	SUMO/sentrin specific peptidase family member 8	50	Protease.				proteolysis		cysteine-type peptidase activity|protein binding			ovary(1)	1														0.243902	174.92307	192.06648	70	217	CC		KEEP	---	---	---	---	capture			Silent	SNP	70219168	70219168	14538	15	C	T	T	19	19	SENP8	T	1	1
LRRK1	79705	broad.mit.edu	36	15	99346511	99346511	+	Missense_Mutation	SNP	C	T	T			TCGA-32-1986-01	TCGA-32-1986-01	C	C								Phase_I	Unspecified				Illumina GAIIx	g.chr15:99346511C>T	uc002bwr.1	+	c.583C>T	c.(583-585)CGC>TGC	p.R195C	LRRK1_uc002bwq.1_Missense_Mutation_p.R195C	NM_024652	NP_078928	Q38SD2	LRRK1_HUMAN	leucine-rich repeat kinase 1	195	ANK 4.				protein phosphorylation|small GTPase mediated signal transduction	mitochondrion	ATP binding|GTP binding|metal ion binding|protein binding|protein serine/threonine kinase activity			ovary(4)|lung(4)|central_nervous_system(3)|large_intestine(1)	12	Melanoma(26;0.00505)|Lung NSC(78;0.00793)|all_lung(78;0.0094)									1100				0.296875	50.91287	53.267077	19	45	CC		KEEP	---	---	---	---	capture	OV - Ovarian serous cystadenocarcinoma(32;0.000932)|LUSC - Lung squamous cell carcinoma(107;0.187)|Lung(145;0.23)		Missense_Mutation	SNP	99346511	99346511	9408	15	C	T	T	27	27	LRRK1	T	1	1
LRRC29	26231	broad.mit.edu	36	16	65799426	65799426	+	Missense_Mutation	SNP	C	A	A			TCGA-32-1986-01	TCGA-32-1986-01	C	C								Phase_I	Unspecified				Illumina GAIIx	g.chr16:65799426C>A	uc002esd.1	-	c.354G>T	c.(352-354)TTG>TTT	p.L118F	LRRC29_uc002ese.1_Missense_Mutation_p.L118F|LRRC29_uc002esf.1_Missense_Mutation_p.L118F|LRRC29_uc002esg.2_Missense_Mutation_p.L118F	NM_012163	NP_036295	Q8WV35	LRC29_HUMAN	F-box and leucine-rich repeat protein 9	118	LRR 4.										0		Ovarian(137;0.0563)												0.3	7.220427	7.578241	3	7	CC		KEEP	---	---	---	---	capture		OV - Ovarian serous cystadenocarcinoma(108;0.000691)|Epithelial(162;0.00462)|all cancers(182;0.0434)	Missense_Mutation	SNP	65799426	65799426	9358	16	C	A	A	21	21	LRRC29	A	3	3
CDH13	1012	broad.mit.edu	36	16	82261947	82261947	+	Missense_Mutation	SNP	G	A	A			TCGA-32-1986-01	TCGA-32-1986-01	G	G								Phase_I	Unspecified				Illumina GAIIx	g.chr16:82261947G>A	uc002fgx.1	+	c.1153G>A	c.(1153-1155)GTT>ATT	p.V385I		NM_001257	NP_001248	P55290	CAD13_HUMAN	cadherin 13 preproprotein	385	Cadherin 3.				adherens junction organization|calcium-dependent cell-cell adhesion|cell junction assembly|endothelial cell migration|homophilic cell adhesion|keratinocyte proliferation|lamellipodium assembly|localization within membrane|low-density lipoprotein particle mediated signaling|negative regulation of cell adhesion|negative regulation of cell proliferation|positive regulation of calcium-mediated signaling|positive regulation of cell migration|positive regulation of cell-matrix adhesion|positive regulation of endothelial cell proliferation|positive regulation of positive chemotaxis|positive regulation of smooth muscle cell proliferation|positive regulation of survival gene product expression|Rac protein signal transduction|regulation of endocytosis|regulation of epidermal growth factor receptor signaling pathway|Rho protein signal transduction|sprouting angiogenesis	anchored to membrane|caveola|extracellular space|integral to membrane|neuron projection	adiponectin binding|cadherin binding|calcium ion binding|low-density lipoprotein particle binding			large_intestine(1)	1		all_cancers(2;1.34e-11)|all_epithelial(2;4.3e-09)												0.301471	117.923481	122.709709	41	95	GG		KEEP	---	---	---	---	capture		COAD - Colon adenocarcinoma(5;0.0268)	Missense_Mutation	SNP	82261947	82261947	3228	16	G	A	A	36	36	CDH13	A	2	2
MYO15A	51168	broad.mit.edu	36	17	17966155	17966155	+	Missense_Mutation	SNP	C	T	T			TCGA-32-1986-01	TCGA-32-1986-01	C	C								Phase_I	Unspecified				Illumina GAIIx	g.chr17:17966155C>T	uc010cpt.1	+	c.3316C>T	c.(3316-3318)CGG>TGG	p.R1106W	MYO15A_uc010cpu.1_Missense_Mutation_p.R1106W	NM_016239	NP_057323	Q9UKN7	MYO15_HUMAN	myosin XV	1106	Myosin head-like.				sensory perception of sound	cytoplasm|myosin complex|stereocilium	actin binding|ATP binding|calmodulin binding|motor activity			ovary(2)|pancreas(1)|breast(1)|central_nervous_system(1)|skin(1)	6	all_neural(463;0.228)													0.322034	95.150011	98.449622	38	80	CC		KEEP	---	---	---	---	capture			Missense_Mutation	SNP	17966155	17966155	10458	17	C	T	T	19	19	MYO15A	T	1	1
SMCR7	125170	broad.mit.edu	36	17	18108688	18108688	+	Missense_Mutation	SNP	T	C	C			TCGA-32-1986-01	TCGA-32-1986-01	T	T								Phase_I	Unspecified				Illumina GAIIx	g.chr17:18108688T>C	uc002gst.1	+	c.1250T>C	c.(1249-1251)CTG>CCG	p.L417P	SMCR7_uc002gsu.1_3'UTR|SMCR7_uc002gsv.1_Missense_Mutation_p.L417P	NM_139162	NP_683684	Q96C03	SMCR7_HUMAN	Smith-Magenis syndrome chromosome region,	417						integral to membrane	protein binding				0	all_neural(463;0.228)													0.206897	9.215791	11.55018	6	23	TT		KEEP	---	---	---	---	capture			Missense_Mutation	SNP	18108688	18108688	15288	17	T	C	C	55	55	SMCR7	C	4	4
NF1	4763	broad.mit.edu	36	17	26580290	26580290	+	Missense_Mutation	SNP	T	C	C			TCGA-32-1986-01	TCGA-32-1986-01	T	T								Phase_I	Unspecified				Illumina GAIIx	g.chr17:26580290T>C	uc002hgg.1	+	c.2531T>C	c.(2530-2532)CTT>CCT	p.L844P	NF1_uc002hgh.1_Missense_Mutation_p.L844P|NF1_uc002hgi.1_5'UTR|NF1_uc010csn.1_Missense_Mutation_p.L704P	NM_001042492	NP_001035957	P21359	NF1_HUMAN	neurofibromin isoform 1	844			L -> F (in NF1).|L -> P (in NF1).|L -> R (in NF1; sporadic).		actin cytoskeleton organization|adrenal gland development|artery morphogenesis|camera-type eye morphogenesis|cerebral cortex development|collagen fibril organization|forebrain astrocyte development|forebrain morphogenesis|heart development|liver development|MAPKKK cascade|metanephros development|myelination in peripheral nervous system|negative regulation of cell migration|negative regulation of endothelial cell proliferation|negative regulation of MAP kinase activity|negative regulation of MAPKKK cascade|negative regulation of neuroblast proliferation|negative regulation of oligodendrocyte differentiation|negative regulation of transcription factor import into nucleus|osteoblast differentiation|phosphatidylinositol 3-kinase cascade|pigmentation|positive regulation of adenylate cyclase activity|positive regulation of neuron apoptosis|Ras protein signal transduction|regulation of blood vessel endothelial cell migration|regulation of bone resorption|response to hypoxia|smooth muscle tissue development|spinal cord development|sympathetic nervous system development|visual learning|wound healing	axon|cytoplasm|dendrite|intrinsic to internal side of plasma membrane|nucleus	protein binding|Ras GTPase activator activity	p.?(3)		soft_tissue(155)|central_nervous_system(56)|large_intestine(27)|lung(19)|haematopoietic_and_lymphoid_tissue(13)|ovary(12)|autonomic_ganglia(7)|skin(3)|stomach(2)|breast(2)|thyroid(1)|prostate(1)|kidney(1)|pancreas(1)	300		all_cancers(10;1.29e-12)|all_epithelial(10;0.00347)|all_hematologic(16;0.00556)|Acute lymphoblastic leukemia(14;0.00593)|Breast(31;0.014)|Myeloproliferative disorder(56;0.0255)|all_lung(9;0.0321)|Lung NSC(157;0.0659)								847	TCGA GBM(6;<1E-8)|TSP Lung(7;0.0071)|TCGA Ovarian(3;0.0088)			0.333333	64.18369	65.657882	20	40	TT		KEEP	---	---	---	---	capture		UCEC - Uterine corpus endometrioid carcinoma (4;4.38e-05)|all cancers(4;1.64e-26)|Epithelial(4;9.15e-23)|OV - Ovarian serous cystadenocarcinoma(4;3.58e-21)|GBM - Glioblastoma multiforme(4;0.00146)	Missense_Mutation	SNP	26580290	26580290	10756	17	T	C	C	56	56	NF1	C	4	4
SLFN11	91607	broad.mit.edu	36	17	30705014	30705014	+	Missense_Mutation	SNP	C	G	G			TCGA-32-1986-01	TCGA-32-1986-01	C	C								Phase_I	Unspecified				Illumina GAIIx	g.chr17:30705014C>G	uc010ctp.1	-	c.1376G>C	c.(1375-1377)TGT>TCT	p.C459S	SLFN11_uc010ctq.1_Missense_Mutation_p.C459S|SLFN11_uc002hjh.2_Missense_Mutation_p.C459S|SLFN11_uc002hjg.2_Missense_Mutation_p.C459S|SLFN11_uc010ctr.1_Missense_Mutation_p.C459S	NM_001104588	NP_689483	Q7Z7L1	SLN11_HUMAN	schlafen family member 11	459						nucleus	ATP binding			large_intestine(1)|ovary(1)	2		Ovarian(249;0.17)												0.26506	68.129975	72.258757	22	61	CC		KEEP	---	---	---	---	capture		UCEC - Uterine corpus endometrioid carcinoma (308;0.0182)	Missense_Mutation	SNP	30705014	30705014	15230	17	C	G	G	17	17	SLFN11	G	3	3
KRT34	3885	broad.mit.edu	36	17	36789167	36789167	+	Silent	SNP	G	A	A			TCGA-32-1986-01	TCGA-32-1986-01	G	G								Phase_I	Unspecified				Illumina GAIIx	g.chr17:36789167G>A	uc002hwm.1	-	c.966C>T	c.(964-966)AAC>AAT	p.N322N		NM_021013	NP_066293	O76011	KRT34_HUMAN	keratin 34	322	Rod.|Coil 2.				epidermis development	intermediate filament	protein binding|structural molecule activity			central_nervous_system(1)	1		Breast(137;0.000496)												0.202381	75.162556	88.980648	34	134	GG		KEEP	---	---	---	---	capture			Silent	SNP	36789167	36789167	8786	17	G	A	A	40	40	KRT34	A	1	1
NKG7	4818	broad.mit.edu	36	19	56567483	56567483	+	Missense_Mutation	SNP	G	A	A			TCGA-32-1986-01	TCGA-32-1986-01	G	G								Phase_I	Unspecified				Illumina GAIIx	g.chr19:56567483G>A	uc002pwj.1	-	c.119C>T	c.(118-120)TCG>TTG	p.S40L	NKG7_uc002pwk.1_Missense_Mutation_p.S40L	NM_005601	NP_005592	Q16617	NKG7_HUMAN	natural killer cell group 7 sequence	40						integral to plasma membrane				central_nervous_system(1)	1		all_neural(266;0.0199)												0.290179	167.713155	176.537505	65	159	GG		KEEP	---	---	---	---	capture		GBM - Glioblastoma multiforme(134;0.000211)|OV - Ovarian serous cystadenocarcinoma(262;0.00979)	Missense_Mutation	SNP	56567483	56567483	10844	19	G	A	A	37	37	NKG7	A	1	1
TDRD10	126668	broad.mit.edu	36	1	152746380	152746380	+	Silent	SNP	G	C	C			TCGA-32-1986-01	TCGA-32-1986-01	G	G								Phase_I	Unspecified				Illumina GAIIx	g.chr1:152746380G>C	uc009wow.1	+	c.42G>C	c.(40-42)CTG>CTC	p.L14L	TDRD10_uc001ffd.1_Silent_p.L14L	NM_001098475	NP_001091945	Q5VZ19	TDR10_HUMAN	tudor domain containing 10 isoform a	14							nucleotide binding|RNA binding			ovary(1)	1	all_lung(78;1.72e-29)|Lung NSC(65;2.96e-27)|Hepatocellular(266;0.0877)|all_hematologic(923;0.088)													0.279412	59.296975	62.271479	19	49	GG		KEEP	---	---	---	---	capture	LUSC - Lung squamous cell carcinoma(543;0.185)		Silent	SNP	152746380	152746380	16257	1	G	C	C	48	48	TDRD10	C	3	3
OBSCN	84033	broad.mit.edu	36	1	226511081	226511081	+	Silent	SNP	G	A	A			TCGA-32-1986-01	TCGA-32-1986-01	G	G								Phase_I	Unspecified				Illumina GAIIx	g.chr1:226511081G>A	uc009xez.1	+	c.4416G>A	c.(4414-4416)GAG>GAA	p.E1472E	OBSCN_uc001hsn.1_Silent_p.E1472E	NM_001098623	NP_001092093	Q5VST9	OBSCN_HUMAN	obscurin, cytoskeletal calmodulin and	1472	Ig-like 15.				apoptosis|cell differentiation|induction of apoptosis by extracellular signals|multicellular organismal development|nerve growth factor receptor signaling pathway|protein phosphorylation|regulation of Rho protein signal transduction|small GTPase mediated signal transduction	cytosol|M band|Z disc	ATP binding|metal ion binding|protein binding|protein serine/threonine kinase activity|protein tyrosine kinase activity|Rho guanyl-nucleotide exchange factor activity|structural constituent of muscle|titin binding			large_intestine(7)|breast(5)|ovary(4)|skin(2)|stomach(1)|central_nervous_system(1)|pancreas(1)	21		Prostate(94;0.0405)								4006				0.304348	37.526523	39.101575	14	32	GG		KEEP	---	---	---	---	capture			Silent	SNP	226511081	226511081	11217	1	G	A	A	35	35	OBSCN	A	2	2
KIAA0562	9731	broad.mit.edu	36	1	3736284	3736284	+	Silent	SNP	G	A	A			TCGA-32-1986-01	TCGA-32-1986-01	G	G								Phase_I	Unspecified				Illumina GAIIx	g.chr1:3736284G>A	uc001aky.1	-	c.1974C>T	c.(1972-1974)AAC>AAT	p.N658N		NM_014704	NP_055519	O60308	K0562_HUMAN	glycine-, glutamate-,	658							binding				0	all_cancers(77;0.0395)|Ovarian(185;0.0634)|all_lung(157;0.222)|Lung NSC(156;0.227)	all_epithelial(116;3.96e-21)|all_lung(118;2.74e-08)|Lung NSC(185;6.4e-06)|Breast(487;0.00066)|Renal(390;0.00121)|Hepatocellular(190;0.00335)|Myeloproliferative disorder(586;0.0255)|Ovarian(437;0.031)|Lung SC(97;0.0548)|Medulloblastoma(700;0.212)												0.241611	168.974736	187.108901	72	226	GG		KEEP	---	---	---	---	capture		Epithelial(90;6.85e-39)|OV - Ovarian serous cystadenocarcinoma(86;1.59e-22)|GBM - Glioblastoma multiforme(42;3.16e-16)|Colorectal(212;2.01e-05)|COAD - Colon adenocarcinoma(227;7.99e-05)|BRCA - Breast invasive adenocarcinoma(365;0.000389)|Kidney(185;0.000513)|STAD - Stomach adenocarcinoma(132;0.00709)|KIRC - Kidney renal clear cell carcinoma(229;0.00714)|Lung(427;0.137)	Silent	SNP	3736284	3736284	8491	1	G	A	A	48	48	KIAA0562	A	2	2
C8B	732	broad.mit.edu	36	1	57190316	57190316	+	Missense_Mutation	SNP	G	A	A			TCGA-32-1986-01	TCGA-32-1986-01	G	G								Phase_I	Unspecified				Illumina GAIIx	g.chr1:57190316G>A	uc001cyp.1	-	c.659C>T	c.(658-660)ACG>ATG	p.T220M		NM_000066	NP_000057	P07358	CO8B_HUMAN	complement component 8, beta polypeptide	220	MACPF.				complement activation, alternative pathway|complement activation, classical pathway|cytolysis	membrane attack complex				central_nervous_system(2)|large_intestine(1)|ovary(1)	4														0.305419	164.38596	171.301795	62	141	GG		KEEP	---	---	---	---	capture			Missense_Mutation	SNP	57190316	57190316	2526	1	G	A	A	40	40	C8B	A	1	1
ITCH	83737	broad.mit.edu	36	20	32445298	32445298	+	Missense_Mutation	SNP	A	G	G			TCGA-32-1986-01	TCGA-32-1986-01	A	A								Phase_I	Unspecified				Illumina GAIIx	g.chr20:32445298A>G	uc010geu.1	+	c.20A>G	c.(19-21)CAA>CGA	p.Q7R	ITCH_uc002xak.2_Missense_Mutation_p.Q7R	NM_031483	NP_113671	Q96J02	ITCH_HUMAN	itchy homolog E3 ubiquitin protein ligase	7	C2.				apoptosis|entry of virus into host cell|inflammatory response|innate immune response|negative regulation of apoptosis|negative regulation of defense response to virus|negative regulation of JNK cascade|negative regulation of NF-kappaB transcription factor activity|negative regulation of type I interferon production|protein K29-linked ubiquitination|protein K48-linked ubiquitination|protein K63-linked ubiquitination|protein ubiquitination involved in ubiquitin-dependent protein catabolic process|regulation of cell growth|regulation of protein deubiquitination|response to virus	cytosol|nucleus|plasma membrane	CXCR chemokine receptor binding|ribonucleoprotein binding|ubiquitin-protein ligase activity				0														0.25614	177.444621	192.815209	73	212	AA		KEEP	---	---	---	---	capture			Missense_Mutation	SNP	32445298	32445298	8172	20	A	G	G	5	5	ITCH	G	4	4
HNF4A	3172	broad.mit.edu	36	20	42490418	42490418	+	Missense_Mutation	SNP	C	T	T			TCGA-32-1986-01	TCGA-32-1986-01	C	C								Phase_I	Unspecified				Illumina GAIIx	g.chr20:42490418C>T	uc002xma.1	+	c.1159C>T	c.(1159-1161)CAC>TAC	p.H387Y	HNF4A_uc002xlu.1_Missense_Mutation_p.H365Y|HNF4A_uc002xlv.1_Missense_Mutation_p.H365Y|HNF4A_uc002xlz.1_Missense_Mutation_p.H387Y|HNF4A_uc010ggq.1_Missense_Mutation_p.H380Y	NM_000457	NP_000448	P41235	HNF4A_HUMAN	hepatocyte nuclear factor 4 alpha isoform b	387					blood coagulation|endocrine pancreas development|glucose homeostasis|negative regulation of cell growth|negative regulation of cell proliferation|ornithine metabolic process|phospholipid homeostasis|positive regulation of cholesterol homeostasis|positive regulation of gene-specific transcription from RNA polymerase II promoter|regulation of growth hormone receptor signaling pathway|regulation of insulin secretion|regulation of transcription from RNA polymerase II promoter by nuclear hormone receptor|response to glucose stimulus|triglyceride homeostasis|xenobiotic metabolic process	cytoplasm	activating transcription factor binding|promoter binding|protein homodimerization activity|receptor binding|RNA polymerase II core promoter proximal region sequence-specific DNA binding transcription factor activity involved in positive regulation of transcription|steroid hormone receptor activity|zinc ion binding			ovary(1)|lung(1)|skin(1)	3		Myeloproliferative disorder(115;0.0122)				Colon(79;2 1269 8820 14841 52347)								0.219298	56.735327	64.997366	25	89	CC		KEEP	---	---	---	---	capture	COAD - Colon adenocarcinoma(18;0.00189)		Missense_Mutation	SNP	42490418	42490418	7545	20	C	T	T	21	21	HNF4A	T	2	2
KCNB1	3745	broad.mit.edu	36	20	47531953	47531953	+	Missense_Mutation	SNP	G	A	A			TCGA-32-1986-01	TCGA-32-1986-01	G	G								Phase_I	Unspecified				Illumina GAIIx	g.chr20:47531953G>A	uc002xur.1	-	c.472C>T	c.(472-474)CGG>TGG	p.R158W	KCNB1_uc002xus.1_Missense_Mutation_p.R158W	NM_004975	NP_004966	Q14721	KCNB1_HUMAN	potassium voltage-gated channel, Shab-related	158	Cytoplasmic (Potential).				energy reserve metabolic process|regulation of insulin secretion	voltage-gated potassium channel complex	protein binding|voltage-gated potassium channel activity			pancreas(1)	1														0.27027	124.612786	133.393774	50	135	GG		KEEP	---	---	---	---	capture	BRCA - Breast invasive adenocarcinoma(12;0.000405)|COAD - Colon adenocarcinoma(4;0.14)|Colorectal(8;0.166)		Missense_Mutation	SNP	47531953	47531953	8317	20	G	A	A	38	38	KCNB1	A	1	1
SLC7A4	6545	broad.mit.edu	36	22	19715741	19715741	+	Missense_Mutation	SNP	T	C	C			TCGA-32-1986-01	TCGA-32-1986-01	T	T								Phase_I	Unspecified				Illumina GAIIx	g.chr22:19715741T>C	uc002zud.1	-	c.361A>G	c.(361-363)AAT>GAT	p.N121D	SLC7A4_uc002zue.1_Missense_Mutation_p.N121D	NM_004173	NP_004164	O43246	CTR4_HUMAN	solute carrier family 7 (cationic amino acid	121	Helical; (Potential).				cellular amino acid metabolic process	integral to membrane	basic amino acid transmembrane transporter activity			ovary(1)|lung(1)	2	all_cancers(11;2.85e-22)|Lung NSC(8;4.21e-14)|all_lung(8;6.08e-13)|Melanoma(16;0.000465)|Ovarian(15;0.0028)|Colorectal(54;0.0968)	Lung SC(17;0.0262)			L-Arginine(DB00125)|L-Lysine(DB00123)|L-Ornithine(DB00129)									0.173913	8.090654	10.395765	4	19	TT		KEEP	---	---	---	---	capture	LUSC - Lung squamous cell carcinoma(15;0.000204)|Lung(15;0.00494)|Epithelial(17;0.195)		Missense_Mutation	SNP	19715741	19715741	15196	22	T	C	C	62	62	SLC7A4	C	4	4
C22orf23	84645	broad.mit.edu	36	22	36671036	36671036	+	Missense_Mutation	SNP	C	T	T			TCGA-32-1986-01	TCGA-32-1986-01	C	C								Phase_I	Unspecified				Illumina GAIIx	g.chr22:36671036C>T	uc003auj.1	-	c.440G>A	c.(439-441)CGA>CAA	p.R147Q	C22orf23_uc003auk.1_Missense_Mutation_p.R147Q	NM_032561	NP_115950	Q9BZE7	EVG1_HUMAN	hypothetical protein LOC84645	147											0	Melanoma(58;0.045)													0.445205	193.453655	193.835272	65	81	CC		KEEP	---	---	---	---	capture			Missense_Mutation	SNP	36671036	36671036	2217	22	C	T	T	31	31	C22orf23	T	1	1
MARCO	8685	broad.mit.edu	36	2	119448610	119448610	+	Silent	SNP	G	A	A			TCGA-32-1986-01	TCGA-32-1986-01	G	G								Phase_I	Unspecified				Illumina GAIIx	g.chr2:119448610G>A	uc002tln.1	+	c.612G>A	c.(610-612)GCG>GCA	p.A204A		NM_006770	NP_006761	Q9UEW3	MARCO_HUMAN	macrophage receptor with collagenous structure	204	Collagen-like.|Extracellular (Potential).				cell surface receptor linked signaling pathway|innate immune response	collagen|integral to plasma membrane	pattern recognition receptor activity|scavenger receptor activity			ovary(3)|central_nervous_system(1)	4						GBM(8;18 374 7467 11269 32796)								0.290909	44.977844	47.131933	16	39	GG		KEEP	---	---	---	---	capture			Silent	SNP	119448610	119448610	9694	2	G	A	A	39	39	MARCO	A	1	1
C2orf80	389073	broad.mit.edu	36	2	208745012	208745012	+	Silent	SNP	C	T	T			TCGA-32-1986-01	TCGA-32-1986-01	C	C								Phase_I	Unspecified				Illumina GAIIx	g.chr2:208745012C>T	uc002vcr.1	-	c.399G>A	c.(397-399)TTG>TTA	p.L133L		NM_001099334	NP_001092804	Q0P641	CB080_HUMAN	hypothetical protein LOC389073	133											0														0.220588	193.188764	222.480822	90	318	CC		KEEP	---	---	---	---	capture			Silent	SNP	208745012	208745012	2287	2	C	T	T	25	25	C2orf80	T	2	2
RNF168	165918	broad.mit.edu	36	3	197698814	197698814	+	Missense_Mutation	SNP	T	G	G			TCGA-32-1986-01	TCGA-32-1986-01	T	T								Phase_I	Unspecified				Illumina GAIIx	g.chr3:197698814T>G	uc003fwq.1	-	c.411A>C	c.(409-411)GAA>GAC	p.E137D	RNF168_uc010iah.1_5'UTR	NM_152617	NP_689830	Q8IYW5	RN168_HUMAN	ring finger protein 168	137	Glu-rich.				double-strand break repair|histone H2A K63-linked ubiquitination|positive regulation of DNA repair|response to ionizing radiation	nucleus|ubiquitin ligase complex	chromatin binding|histone binding|ubiquitin binding|ubiquitin-protein ligase activity|zinc ion binding				0	all_cancers(143;1e-08)|Ovarian(172;0.0634)|Breast(254;0.206)													0.264822	170.742499	183.450878	67	186	TT		KEEP	---	---	---	---	capture	Epithelial(36;5.25e-24)|all cancers(36;5.47e-22)|OV - Ovarian serous cystadenocarcinoma(49;1.76e-18)|LUSC - Lung squamous cell carcinoma(58;1.51e-06)|Lung(62;1.95e-06)	GBM - Glioblastoma multiforme(46;0.00348)	Missense_Mutation	SNP	197698814	197698814	13936	3	T	G	G	56	56	RNF168	G	4	4
FHDC1	85462	broad.mit.edu	36	4	154116584	154116584	+	Silent	SNP	A	G	G			TCGA-32-1986-01	TCGA-32-1986-01	A	A								Phase_I	Unspecified				Illumina GAIIx	g.chr4:154116584A>G	uc003inf.2	+	c.2691A>G	c.(2689-2691)TCA>TCG	p.S897S		NM_033393	NP_203751	Q9C0D6	FHDC1_HUMAN	FH2 domain containing 1	897					actin cytoskeleton organization		actin binding			large_intestine(1)|ovary(1)	2	all_hematologic(180;0.093)													0.275	58.207879	61.861437	22	58	AA		KEEP	---	---	---	---	capture			Silent	SNP	154116584	154116584	6114	4	A	G	G	7	7	FHDC1	G	4	4
SLC4A4	8671	broad.mit.edu	36	4	72616652	72616652	+	Missense_Mutation	SNP	C	A	A	rs16846517	by-cluster,by-frequency,by-hapmap	TCGA-32-1986-01	TCGA-32-1986-01	C	C								Phase_I	Unspecified				Illumina GAIIx	g.chr4:72616652C>A	uc003hfy.1	+	c.2176C>A	c.(2176-2178)CTG>ATG	p.L726M	SLC4A4_uc010iib.1_Missense_Mutation_p.L726M|SLC4A4_uc003hfz.1_Missense_Mutation_p.L726M|SLC4A4_uc010iic.1_Missense_Mutation_p.L726M|SLC4A4_uc003hgc.2_Missense_Mutation_p.L682M|SLC4A4_uc010iid.1_De_novo_Start_InFrame	NM_001098484	NP_001091954	Q9Y6R1	S4A4_HUMAN	solute carrier family 4, sodium bicarbonate	726	Helical; (Potential).					basolateral plasma membrane|integral to plasma membrane	inorganic anion exchanger activity|protein binding|sodium:bicarbonate symporter activity			ovary(3)|kidney(1)	4														0.149533	28.233104	40.840098	16	91	CC		KEEP	---	---	---	---	capture	Lung(101;0.0739)|LUSC - Lung squamous cell carcinoma(112;0.225)		Missense_Mutation	SNP	72616652	72616652	15153	4	C	A	A	20	20	SLC4A4	A	3	3
PPEF2	5470	broad.mit.edu	36	4	77030162	77030162	+	Missense_Mutation	SNP	G	A	A			TCGA-32-1986-01	TCGA-32-1986-01	G	G								Phase_I	Unspecified				Illumina GAIIx	g.chr4:77030162G>A	uc003hix.1	-	c.389C>T	c.(388-390)GCC>GTC	p.A130V	PPEF2_uc003hiy.1_Non-coding_Transcript|PPEF2_uc003hiz.1_Missense_Mutation_p.A130V	NM_006239	NP_006230	O14830	PPE2_HUMAN	serine/threonine protein phosphatase with	130	Catalytic.				detection of stimulus involved in sensory perception|protein dephosphorylation|visual perception	cytoplasm|photoreceptor inner segment|photoreceptor outer segment	calcium ion binding|iron ion binding|manganese ion binding|protein binding|protein serine/threonine phosphatase activity			ovary(2)|lung(1)|central_nervous_system(1)	4						NSCLC(105;1359 1603 15961 44567 47947)								0.221154	106.731693	121.623335	46	162	GG		KEEP	---	---	---	---	capture	Lung(101;0.0809)|LUSC - Lung squamous cell carcinoma(112;0.0934)		Missense_Mutation	SNP	77030162	77030162	12738	4	G	A	A	42	42	PPEF2	A	2	2
DND1	373863	broad.mit.edu	36	5	140031270	140031270	+	Nonsense_Mutation	SNP	C	T	T			TCGA-32-1986-01	TCGA-32-1986-01	C	C								Phase_I	Unspecified				Illumina GAIIx	g.chr5:140031270C>T	uc003lgt.1	-	c.854G>A	c.(853-855)TGG>TAG	p.W285*		NM_194249	NP_919225	Q8IYX4	DND1_HUMAN	dead end homolog 1	285					multicellular organismal development|negative regulation of gene silencing by miRNA	cytoplasm|nucleus	AU-rich element binding|nucleotide binding				0														0.235294	8.089577	9.180984	4	13	CC		KEEP	---	---	---	---	capture	KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)		Nonsense_Mutation	SNP	140031270	140031270	4849	5	C	T	T	21	21	DND1	T	5	2
PCDHB7	56129	broad.mit.edu	36	5	140533792	140533792	+	Missense_Mutation	SNP	G	A	A			TCGA-32-1986-01	TCGA-32-1986-01	G	G								Phase_I	Unspecified				Illumina GAIIx	g.chr5:140533792G>A	uc003lit.1	+	c.1192G>A	c.(1192-1194)GAA>AAA	p.E398K		NM_018940	NP_061763	Q9Y5E2	PCDB7_HUMAN	protocadherin beta 7 precursor	398	Extracellular (Potential).|Cadherin 4.				calcium-dependent cell-cell adhesion|homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			ovary(3)|central_nervous_system(1)	4														0.247191	54.108344	59.284905	22	67	GG		KEEP	---	---	---	---	capture	KIRC - Kidney renal clear cell carcinoma(527;0.00185)|Kidney(363;0.00339)		Missense_Mutation	SNP	140533792	140533792	11967	5	G	A	A	37	37	PCDHB7	A	1	1
GABRG2	2566	broad.mit.edu	36	5	161457281	161457281	+	Missense_Mutation	SNP	C	A	A			TCGA-32-1986-01	TCGA-32-1986-01	C	C								Phase_I	Unspecified				Illumina GAIIx	g.chr5:161457281C>A	uc010jjc.1	+	c.387C>A	c.(385-387)AAC>AAA	p.N129K	GABRG2_uc003lyy.2_Missense_Mutation_p.N129K|GABRG2_uc003lyz.2_Missense_Mutation_p.N129K	NM_198903	NP_944493	P18507	GBRG2_HUMAN	gamma-aminobutyric acid A receptor, gamma 2	129	Extracellular (Probable).				gamma-aminobutyric acid signaling pathway	cell junction|chloride channel complex|integral to plasma membrane|postsynaptic membrane	benzodiazepine receptor activity|chloride channel activity|extracellular ligand-gated ion channel activity|GABA-A receptor activity|protein binding			ovary(4)	4	Renal(175;0.000319)	Medulloblastoma(196;0.0208)|all_neural(177;0.0672)												0.236967	127.140811	140.484124	50	161	CC		KEEP	---	---	---	---	capture	Kidney(164;7.83e-05)|KIRC - Kidney renal clear cell carcinoma(164;0.000525)	all cancers(165;0.0734)|OV - Ovarian serous cystadenocarcinoma(192;0.135)|Epithelial(171;0.136)	Missense_Mutation	SNP	161457281	161457281	6423	5	C	A	A	17	17	GABRG2	A	3	3
FAM26E	254228	broad.mit.edu	36	6	116943808	116943808	+	Missense_Mutation	SNP	C	T	T	rs35398770	unknown	TCGA-32-1986-01	TCGA-32-1986-01	C	C								Phase_I	Unspecified				Illumina GAIIx	g.chr6:116943808C>T	uc003pwy.1	+	c.893C>T	c.(892-894)ACG>ATG	p.T298M		NM_153711	NP_714922	Q8N5C1	FA26E_HUMAN	hypothetical protein LOC254228	298						integral to membrane					0		all_cancers(87;0.0608)|all_epithelial(87;0.05)|Colorectal(196;0.234)												0.224138	123.595003	139.810719	52	180	CC		KEEP	---	---	---	---	capture		GBM - Glioblastoma multiforme(226;0.0242)|all cancers(137;0.0419)|OV - Ovarian serous cystadenocarcinoma(136;0.0671)|Epithelial(106;0.212)	Missense_Mutation	SNP	116943808	116943808	5770	6	C	T	T	19	19	FAM26E	T	1	1
GLP1R	2740	broad.mit.edu	36	6	39132237	39132237	+	Silent	SNP	T	C	C			TCGA-32-1986-01	TCGA-32-1986-01	T	T								Phase_I	Unspecified				Illumina GAIIx	g.chr6:39132237T>C	uc003ooj.2	+	c.165T>C	c.(163-165)CCT>CCC	p.P55P	GLP1R_uc003ooh.2_Non-coding_Transcript|GLP1R_uc003ooi.2_Non-coding_Transcript	NM_002062	NP_002053	P43220	GLP1R_HUMAN	glucagon-like peptide 1 receptor	55	Extracellular (Potential).				activation of adenylate cyclase activity|cAMP-mediated signaling|elevation of cytosolic calcium ion concentration|energy reserve metabolic process|regulation of insulin secretion	integral to membrane|plasma membrane	glucagon receptor activity|peptide receptor activity, G-protein coupled			lung(1)|pancreas(1)	2					Exenatide(DB01276)|Glucagon recombinant(DB00040)									0.227273	6.877785	10.313076	10	34	TT		KEEP	---	---	---	---	capture			Silent	SNP	39132237	39132237	6720	6	T	C	C	54	54	GLP1R	C	4	4
MDN1	23195	broad.mit.edu	36	6	90459560	90459560	+	Missense_Mutation	SNP	C	G	G			TCGA-32-1986-01	TCGA-32-1986-01	C	C								Phase_I	Unspecified				Illumina GAIIx	g.chr6:90459560C>G	uc003pnn.1	-	c.9910G>C	c.(9910-9912)GAT>CAT	p.D3304H		NM_014611	NP_055426	Q9NU22	MDN1_HUMAN	MDN1, midasin homolog	3304					protein complex assembly|regulation of protein complex assembly	nucleus	ATP binding|ATPase activity|unfolded protein binding			ovary(8)	8		all_cancers(76;1.47e-06)|Acute lymphoblastic leukemia(125;2.23e-10)|Prostate(29;5.55e-10)|all_hematologic(105;2.42e-06)|all_epithelial(107;0.00246)												0.277778	10.749564	11.502906	5	13	CC		KEEP	---	---	---	---	capture		BRCA - Breast invasive adenocarcinoma(108;0.0193)	Missense_Mutation	SNP	90459560	90459560	9804	6	C	G	G	30	30	MDN1	G	3	3
CALD1	800	broad.mit.edu	36	7	134203040	134203040	+	Missense_Mutation	SNP	C	T	T			TCGA-32-1986-01	TCGA-32-1986-01	C	C								Phase_I	Unspecified				Illumina GAIIx	g.chr7:134203040C>T	uc003vrz.1	+	c.16C>T	c.(16-18)CGT>TGT	p.R6C	CALD1_uc003vry.2_Missense_Mutation_p.R6C|CALD1_uc003vsa.1_Missense_Mutation_p.R6C|CALD1_uc003vsb.1_Missense_Mutation_p.R6C|CALD1_uc010lmm.1_Missense_Mutation_p.R6C	NM_033138	NP_149129	Q05682	CALD1_HUMAN	caldesmon 1 isoform 1	6					cellular component movement|muscle contraction	cytosol|focal adhesion|myofibril	actin binding|calmodulin binding|myosin binding|tropomyosin binding				0														0.145161	14.23432	21.744299	9	53	CC		KEEP	---	---	---	---	capture			Missense_Mutation	SNP	134203040	134203040	2697	7	C	T	T	27	27	CALD1	T	1	1
MGAM	8972	broad.mit.edu	36	7	141394056	141394056	+	Missense_Mutation	SNP	G	A	A			TCGA-32-1986-01	TCGA-32-1986-01	G	G								Phase_I	Unspecified				Illumina GAIIx	g.chr7:141394056G>A	uc003vwy.1	+	c.2501G>A	c.(2500-2502)CGA>CAA	p.R834Q		NM_004668	NP_004659	O43451	MGA_HUMAN	maltase-glucoamylase	834	Lumenal (Potential).|Maltase.				polysaccharide digestion|starch catabolic process	apical plasma membrane|integral to membrane	carbohydrate binding|glucan 1,4-alpha-glucosidase activity|maltose alpha-glucosidase activity			ovary(2)	2	Melanoma(164;0.0272)				Acarbose(DB00284)|Miglitol(DB00491)|Voglibose(DB04878)									0.138298	20.429622	32.305655	13	81	GG		KEEP	---	---	---	---	capture			Missense_Mutation	SNP	141394056	141394056	9931	7	G	A	A	37	37	MGAM	A	1	1
PCLO	27445	broad.mit.edu	36	7	82602565	82602565	+	Missense_Mutation	SNP	T	C	C			TCGA-32-1986-01	TCGA-32-1986-01	T	T								Phase_I	Unspecified				Illumina GAIIx	g.chr7:82602565T>C	uc003uhx.2	-	c.2237A>G	c.(2236-2238)AAG>AGG	p.K746R	PCLO_uc003uhv.2_Missense_Mutation_p.K746R	NM_033026	NP_149015	Q9Y6V0	PCLO_HUMAN	piccolo isoform 1	692	Pro-rich.				cytoskeleton organization|synaptic vesicle exocytosis	cell junction|cytoskeleton|synaptic vesicle	calcium ion binding|calcium-dependent phospholipid binding|profilin binding|transporter activity|zinc ion binding			ovary(7)	7														0.150442	73.002154	99.463726	34	192	TT		KEEP	---	---	---	---	capture			Missense_Mutation	SNP	82602565	82602565	12003	7	T	C	C	56	56	PCLO	C	4	4
GRM3	2913	broad.mit.edu	36	7	86253591	86253591	+	Missense_Mutation	SNP	C	T	T			TCGA-32-1986-01	TCGA-32-1986-01	C	C								Phase_I	Unspecified				Illumina GAIIx	g.chr7:86253591C>T	uc003uid.1	+	c.547C>T	c.(547-549)CGC>TGC	p.R183C	GRM3_uc010lef.1_Missense_Mutation_p.R181C|GRM3_uc010leg.1_Missense_Mutation_p.R55C|GRM3_uc010leh.1_Intron	NM_000840	NP_000831	Q14832	GRM3_HUMAN	glutamate receptor, metabotropic 3 precursor	183	Extracellular (Potential).				synaptic transmission	integral to plasma membrane				ovary(3)|central_nervous_system(2)	5	Esophageal squamous(14;0.0058)|all_lung(186;0.132)|Lung NSC(181;0.142)				Acamprosate(DB00659)|Nicotine(DB00184)	GBM(52;969 1098 3139 52280)								0.190141	174.070587	212.286552	81	345	CC		KEEP	---	---	---	---	capture			Missense_Mutation	SNP	86253591	86253591	7077	7	C	T	T	27	27	GRM3	T	1	1
EPPK1	83481	broad.mit.edu	36	8	145016253	145016253	+	Missense_Mutation	SNP	T	G	G			TCGA-32-1986-01	TCGA-32-1986-01	T	T								Phase_I	Unspecified				Illumina GAIIx	g.chr8:145016253T>G	uc003zaa.1	-	c.3082A>C	c.(3082-3084)ACC>CCC	p.T1028P		NM_031308	NP_112598	P58107	EPIPL_HUMAN	epiplakin 1	1053	Plectin 20.					cytoplasm|cytoskeleton	protein binding|structural molecule activity			pancreas(1)	1	all_cancers(97;1.42e-10)|all_epithelial(106;1.99e-09)|Lung NSC(106;0.000126)|all_lung(105;0.000354)|Ovarian(258;0.0173)|Acute lymphoblastic leukemia(118;0.155)													0.470588	12.565125	12.586567	8	9	TT		KEEP	---	---	---	---	capture	OV - Ovarian serous cystadenocarcinoma(54;2.46e-41)|Epithelial(56;2.88e-40)|all cancers(56;1.82e-35)|Colorectal(110;0.055)|BRCA - Breast invasive adenocarcinoma(115;0.105)		Missense_Mutation	SNP	145016253	145016253	5383	8	T	G	G	59	59	EPPK1	G	4	4
CDCA2	157313	broad.mit.edu	36	8	25375582	25375582	+	Missense_Mutation	SNP	C	T	T			TCGA-32-1986-01	TCGA-32-1986-01	C	C								Phase_I	Unspecified				Illumina GAIIx	g.chr8:25375582C>T	uc003xep.1	+	c.328C>T	c.(328-330)CGG>TGG	p.R110W	PPP2R2A_uc003xek.1_Intron|CDCA2_uc003xeq.1_Missense_Mutation_p.R95W	NM_152562	NP_689775	Q69YH5	CDCA2_HUMAN	cell division cycle associated 2	110					cell division|mitosis	cytoplasm|nucleus					0		all_cancers(63;0.0378)|Ovarian(32;0.000878)|all_epithelial(46;0.0162)|Breast(100;0.0164)|Prostate(55;0.191)												0.257143	114.814629	124.157292	45	130	CC		KEEP	---	---	---	---	capture		UCEC - Uterine corpus endometrioid carcinoma (27;0.022)|Epithelial(17;1.37e-11)|Colorectal(74;0.0129)|COAD - Colon adenocarcinoma(73;0.0443)	Missense_Mutation	SNP	25375582	25375582	3215	8	C	T	T	31	31	CDCA2	T	1	1
DNM1	1759	broad.mit.edu	36	9	130049500	130049500	+	Missense_Mutation	SNP	C	G	G			TCGA-32-1986-01	TCGA-32-1986-01	C	C								Phase_I	Unspecified				Illumina GAIIx	g.chr9:130049500C>G	uc010mxv.1	+	c.1807C>G	c.(1807-1809)CTG>GTG	p.L603V	DNM1_uc010mxs.1_Missense_Mutation_p.L603V|DNM1_uc010mxt.1_3'UTR|DNM1_uc010mxu.1_3'UTR|DNM1_uc004bub.1_5'UTR|DNM1_uc004buc.1_Missense_Mutation_p.L70V|DNM1_uc004bud.2_Non-coding_Transcript|MIR199B_hsa-mir-199b|MI0000282_5'Flank	NM_004408	NP_004399	Q05193	DYN1_HUMAN	dynamin 1 isoform 1	603	PH.				receptor-mediated endocytosis	microtubule	GTP binding|GTPase activity|motor activity			ovary(2)	2						GBM(113;146 1575 2722 28670 29921)								0.333333	8.917885	9.31363	5	10	CC		KEEP	---	---	---	---	capture			Missense_Mutation	SNP	130049500	130049500	4853	9	C	G	G	28	28	DNM1	G	3	3
EXOSC2	23404	broad.mit.edu	36	9	132559031	132559031	+	Missense_Mutation	SNP	G	C	C			TCGA-32-1986-01	TCGA-32-1986-01	G	G								Phase_I	Unspecified				Illumina GAIIx	g.chr9:132559031G>C	uc004bzu.2	+	c.32G>C	c.(31-33)CGC>CCC	p.R11P		NM_014285	NP_055100	Q13868	EXOS2_HUMAN	exosome component 2	11					exonucleolytic nuclear-transcribed mRNA catabolic process involved in deadenylation-dependent decay|positive regulation of cell growth|rRNA processing	cytosol|exosome (RNase complex)|nucleolus	3'-5'-exoribonuclease activity|7S RNA binding|protein binding			ovary(1)	1		Acute lymphoblastic leukemia(5;0.0508)|all_hematologic(13;0.0588)				Pancreas(134;1683 1824 10118 27928 31640)								0.222222	8.118839	10.060909	6	21	GG		KEEP	---	---	---	---	capture		OV - Ovarian serous cystadenocarcinoma(145;0.000324)	Missense_Mutation	SNP	132559031	132559031	5508	9	G	C	C	38	38	EXOSC2	C	3	3
SARDH	1757	broad.mit.edu	36	9	135587530	135587530	+	Missense_Mutation	SNP	G	C	C			TCGA-32-1986-01	TCGA-32-1986-01	G	G								Phase_I	Unspecified				Illumina GAIIx	g.chr9:135587530G>C	uc004cep.2	-	c.346C>G	c.(346-348)CTG>GTG	p.L116V	SARDH_uc004ceo.1_Missense_Mutation_p.L116V	NM_007101	NP_009032	Q9UL12	SARDH_HUMAN	sarcosine dehydrogenase precursor	116					glycine catabolic process|oxidation-reduction process	mitochondrial matrix	aminomethyltransferase activity|sarcosine dehydrogenase activity				0														0.185185	6.366396	8.875919	5	22	GG		KEEP	---	---	---	---	capture		OV - Ovarian serous cystadenocarcinoma(145;3.21e-07)|Epithelial(140;2.37e-06)|all cancers(34;2.75e-05)	Missense_Mutation	SNP	135587530	135587530	14322	9	G	C	C	34	34	SARDH	C	3	3
ACRC	93953	broad.mit.edu	36	X	70747349	70747349	+	Missense_Mutation	SNP	C	T	T			TCGA-32-1986-01	TCGA-32-1986-01	C	C								Phase_I	Unspecified				Illumina GAIIx	g.chrX:70747349C>T	uc004eae.1	+	c.1705C>T	c.(1705-1707)CGC>TGC	p.R569C		NM_052957	NP_443189	Q96QF7	ACRC_HUMAN	ACRC protein	569						nucleus				ovary(3)	3	Renal(35;0.156)													0.551724	48.504054	48.572502	16	13	CC		KEEP	---	---	---	---	capture			Missense_Mutation	SNP	70747349	70747349	172	23	C	T	T	27	27	ACRC	T	1	1
