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
SORCS3	22986	broad.mit.edu	36	10	106889174	106889174	+	Silent	SNP	C	T	T			TCGA-06-0879-01	TCGA-06-0879-01	C	C								Phase_I	Unspecified				Illumina GAIIx	g.chr10:106889174C>T	uc001kyi.1	+	c.1242C>T	c.(1240-1242)TAC>TAT	p.Y414Y		NM_014978	NP_055793	Q9UPU3	SORC3_HUMAN	VPS10 domain receptor protein SORCS 3	414	Lumenal (Potential).					integral to membrane	neuropeptide receptor activity			ovary(6)|central_nervous_system(1)	7		Colorectal(252;0.134)|Breast(234;0.142)|Lung NSC(174;0.191)				NSCLC(116;1497 1690 7108 13108 14106)								0.552239	236.060894	236.379177	74	60	CC		KEEP	---	---	---	---	capture		Epithelial(162;1.58e-07)|all cancers(201;1.02e-05)|BRCA - Breast invasive adenocarcinoma(275;0.0628)	Silent	SNP	106889174	106889174	15432	10	C	T	T	19	19	SORCS3	T	1	1
CALML5	51806	broad.mit.edu	36	10	5531186	5531186	+	Silent	SNP	C	T	T			TCGA-06-0879-01	TCGA-06-0879-01	C	C								Phase_I	Unspecified				Illumina GAIIx	g.chr10:5531186C>T	uc001iic.1	-	c.216G>A	c.(214-216)GCG>GCA	p.A72A		NM_017422	NP_059118	Q9NZT1	CALL5_HUMAN	calmodulin-like 5	72	EF-hand 2.				epidermis development|signal transduction		calcium ion binding|protein binding				0						GBM(149;1055 3356 43077)								0.46875	45.025301	45.052115	15	17	CC		KEEP	---	---	---	---	capture			Silent	SNP	5531186	5531186	2706	10	C	T	T	23	23	CALML5	T	1	1
FDXACB1	91893	broad.mit.edu	36	11	111254970	111254970	+	Missense_Mutation	SNP	T	G	G			TCGA-06-0879-01	TCGA-06-0879-01	T	T								Phase_I	Unspecified				Illumina GAIIx	g.chr11:111254970T>G	uc001pmc.2	-	c.97A>C	c.(97-99)ACC>CCC	p.T33P	FDXACB1_uc009yyi.1_5'UTR|C11orf1_uc001pmd.1_5'Flank|C11orf1_uc001pme.1_5'Flank	NM_138378	NP_612387	Q9BRP7	FDXA1_HUMAN	ferredoxin-fold anticodon binding domain	33					phenylalanyl-tRNA aminoacylation|tRNA processing		ATP binding|magnesium ion binding|phenylalanine-tRNA ligase activity|tRNA binding				0												OREG0021330	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	0.294118	7.51298	8.96265	10	24	TT		KEEP	---	---	---	---	capture			Missense_Mutation	SNP	111254970	111254970	6043	11	T	G	G	59	59	FDXACB1	G	4	4
CCDC81	60494	broad.mit.edu	36	11	85801149	85801149	+	Missense_Mutation	SNP	A	G	G			TCGA-06-0879-01	TCGA-06-0879-01	A	A								Phase_I	Unspecified				Illumina GAIIx	g.chr11:85801149A>G	uc001pbx.1	+	c.1291A>G	c.(1291-1293)AGT>GGT	p.S431G	CCDC81_uc001pbw.1_Missense_Mutation_p.S341G|CCDC81_uc001pby.1_Missense_Mutation_p.S166G	NM_021827	NP_068599	Q6ZN84	CCD81_HUMAN	coiled-coil domain containing 81	431											0		Acute lymphoblastic leukemia(157;5.51e-06)|all_hematologic(158;0.00535)												0.403614	220.790776	222.139528	67	99	AA		KEEP	---	---	---	---	capture			Missense_Mutation	SNP	85801149	85801149	2979	11	A	G	G	11	11	CCDC81	G	4	4
RIMBP2	23504	broad.mit.edu	36	12	129492650	129492650	+	Silent	SNP	C	T	T			TCGA-06-0879-01	TCGA-06-0879-01	C	C								Phase_I	Unspecified				Illumina GAIIx	g.chr12:129492650C>T	uc001uil.2	-	c.1149G>A	c.(1147-1149)ACG>ACA	p.T383T	RIMBP2_uc001uim.2_Silent_p.T291T|RIMBP2_uc001uin.1_Silent_p.T42T	NM_015347	NP_056162	O15034	RIMB2_HUMAN	RIM-binding protein 2	383						cell junction|synapse				ovary(3)|large_intestine(2)|central_nervous_system(2)|pancreas(1)	8	all_neural(191;0.101)|Medulloblastoma(191;0.163)	all_epithelial(31;0.213)												0.513274	172.065272	172.083476	58	55	CC		KEEP	---	---	---	---	capture		OV - Ovarian serous cystadenocarcinoma(86;4.29e-06)|all cancers(50;4.56e-05)|Epithelial(86;5.41e-05)	Silent	SNP	129492650	129492650	13838	12	C	T	T	27	27	RIMBP2	T	1	1
ANKRD52	283373	broad.mit.edu	36	12	54932105	54932105	+	Missense_Mutation	SNP	T	C	C			TCGA-06-0879-01	TCGA-06-0879-01	T	T								Phase_I	Unspecified				Illumina GAIIx	g.chr12:54932105T>C	uc001skm.2	-	c.1553A>G	c.(1552-1554)GAC>GGC	p.D518G		NM_173595	NP_775866	Q8NB46	ANR52_HUMAN	ankyrin repeat domain 52	518	ANK 15.						protein binding			ovary(2)	2														0.202128	25.366139	33.426241	19	75	TT		KEEP	---	---	---	---	capture			Missense_Mutation	SNP	54932105	54932105	686	12	T	C	C	58	58	ANKRD52	C	4	4
GLI1	2735	broad.mit.edu	36	12	56149530	56149530	+	Missense_Mutation	SNP	C	T	T			TCGA-06-0879-01	TCGA-06-0879-01	C	C								Phase_I	Unspecified				Illumina GAIIx	g.chr12:56149530C>T	uc001snx.1	+	c.1358C>T	c.(1357-1359)TCC>TTC	p.S453F		NM_005269	NP_005260	P08151	GLI1_HUMAN	glioma-associated oncogene homolog 1	453					epidermal cell differentiation|negative regulation of canonical Wnt receptor signaling pathway|osteoblast differentiation|positive regulation of DNA replication|positive regulation of gene-specific transcription|positive regulation of smoothened signaling pathway|positive regulation of transcription from RNA polymerase II promoter	cytosol|nucleus	promoter binding|transcription activator activity|zinc ion binding			ovary(4)|breast(3)|skin(3)|central_nervous_system(1)|urinary_tract(1)|kidney(1)|pancreas(1)	14						Pancreas(157;841 1936 10503 41495 50368)				277				0.308943	100.801375	104.804106	38	85	CC		KEEP	---	---	---	---	capture	GBM - Glioblastoma multiforme(3;3.99e-32)		Missense_Mutation	SNP	56149530	56149530	6705	12	C	T	T	30	30	GLI1	T	2	2
CAND1	55832	broad.mit.edu	36	12	65977514	65977514	+	Missense_Mutation	SNP	G	T	T			TCGA-06-0879-01	TCGA-06-0879-01	G	G								Phase_I	Unspecified				Illumina GAIIx	g.chr12:65977514G>T	uc001stn.2	+	c.552G>T	c.(550-552)TTG>TTT	p.L184F	CAND1_uc001sto.2_5'Flank	NM_018448	NP_060918	Q86VP6	CAND1_HUMAN	TIP120 protein	184	HEAT 5.				cell differentiation|negative regulation of catalytic activity|protein ubiquitination|regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus|ubiquitin ligase complex	protein binding			central_nervous_system(1)	1														0.390879	337.908992	341.117468	120	187	GG		KEEP	---	---	---	---	capture	GBM - Glioblastoma multiforme(1;1.13e-10)|Lung(24;0.000342)|LUSC - Lung squamous cell carcinoma(43;0.196)	GBM - Glioblastoma multiforme(28;0.0279)	Missense_Mutation	SNP	65977514	65977514	2732	12	G	T	T	45	45	CAND1	T	3	3
MGAT4C	25834	broad.mit.edu	36	12	84898190	84898190	+	Missense_Mutation	SNP	G	A	A			TCGA-06-0879-01	TCGA-06-0879-01	G	G								Phase_I	Unspecified				Illumina GAIIx	g.chr12:84898190G>A	uc001tai.2	-	c.445C>T	c.(445-447)CGT>TGT	p.R149C	MGAT4C_uc001tah.2_Missense_Mutation_p.R149C|MGAT4C_uc001tal.2_Missense_Mutation_p.R149C|MGAT4C_uc001taj.2_Missense_Mutation_p.R149C|MGAT4C_uc001tak.2_Missense_Mutation_p.R149C	NM_013244	NP_037376	Q9UBM8	MGT4C_HUMAN	UDP-N-acetylglucosamine: alpha-1,3-D-mannoside	149	Lumenal (Potential).				post-translational protein modification|protein N-linked glycosylation via asparagine	Golgi membrane|integral to membrane	alpha-1,3-mannosylglycoprotein 4-beta-N-acetylglucosaminyltransferase activity|metal ion binding			ovary(3)	3														0.364162	173.874761	176.684108	63	110	GG		KEEP	---	---	---	---	capture			Missense_Mutation	SNP	84898190	84898190	9937	12	G	A	A	38	38	MGAT4C	A	1	1
PROZ	8858	broad.mit.edu	36	13	112860988	112860988	+	Missense_Mutation	SNP	G	A	A			TCGA-06-0879-01	TCGA-06-0879-01	G	G								Phase_I	Unspecified				Illumina GAIIx	g.chr13:112860988G>A	uc010agr.1	+	c.13G>A	c.(13-15)GTC>ATC	p.V5I	PROZ_uc001vta.1_Missense_Mutation_p.V5I	NM_003891	NP_003882	P22891	PROZ_HUMAN	protein Z, vitamin K-dependent plasma	5					blood coagulation|peptidyl-glutamic acid carboxylation|post-translational protein modification|proteolysis	endoplasmic reticulum lumen|extracellular region|Golgi lumen	calcium ion binding|serine-type endopeptidase activity				0	all_lung(23;0.000374)|Lung NSC(43;0.0107)|Lung SC(71;0.0753)|all_neural(89;0.0804)|Hepatocellular(20;0.0877)|Medulloblastoma(90;0.163)	all_lung(25;0.216)			Menadione(DB00170)									0.4	30.988208	31.251808	12	18	GG		KEEP	---	---	---	---	capture	all cancers(43;0.104)		Missense_Mutation	SNP	112860988	112860988	13005	13	G	A	A	40	40	PROZ	A	1	1
MTUS2	23281	broad.mit.edu	36	13	28498822	28498822	+	Missense_Mutation	SNP	G	T	T			TCGA-06-0879-01	TCGA-06-0879-01	G	G								Phase_I	Unspecified				Illumina GAIIx	g.chr13:28498822G>T	uc001usl.2	+	c.2017G>T	c.(2017-2019)GTT>TTT	p.V673F		NM_001033602	NP_001028774	Q5JR59	MTUS2_HUMAN	hypothetical protein LOC23281 isoform a	663	Mediates interaction with MAPRE1.					cytoplasm|microtubule	microtubule binding|protein homodimerization activity				0										344				0.284091	67.403161	71.048398	25	63	GG		KEEP	---	---	---	---	capture			Missense_Mutation	SNP	28498822	28498822	10359	13	G	T	T	44	44	MTUS2	T	3	3
ARL11	115761	broad.mit.edu	36	13	49102953	49102953	+	Silent	SNP	G	A	A			TCGA-06-0879-01	TCGA-06-0879-01	G	G								Phase_I	Unspecified				Illumina GAIIx	g.chr13:49102953G>A	uc001vdf.1	+	c.369G>A	c.(367-369)AAG>AAA	p.K123K	ARL11_uc010adi.1_Silent_p.K123K	NM_138450	NP_612459	Q969Q4	ARL11_HUMAN	ADP-ribosylation factor-like 11	123	GTP (By similarity).				small GTPase mediated signal transduction	intracellular	GTP binding|protein binding				0		Lung NSC(96;2.1e-05)|Breast(56;0.00015)|Prostate(109;0.00174)|Hepatocellular(98;0.0207)|Myeloproliferative disorder(33;0.163)|Lung SC(185;0.187)|all_neural(104;0.19)												0.390244	180.492491	182.212316	64	100	GG		KEEP	---	---	---	---	capture	KIRC - Kidney renal clear cell carcinoma(9;0.119)|Kidney(9;0.169)	GBM - Glioblastoma multiforme(99;1.67e-09)	Silent	SNP	49102953	49102953	942	13	G	A	A	34	34	ARL11	A	2	2
BTBD7	55727	broad.mit.edu	36	14	92781988	92781988	+	Missense_Mutation	SNP	G	C	C			TCGA-06-0879-01	TCGA-06-0879-01	G	G								Phase_I	Unspecified				Illumina GAIIx	g.chr14:92781988G>C	uc001ybo.1	-	c.2519C>G	c.(2518-2520)GCT>GGT	p.A840G	BTBD7_uc010aur.1_Missense_Mutation_p.A365G|BTBD7_uc001ybp.1_Missense_Mutation_p.A489G	NM_001002860	NP_001002860	Q9P203	BTBD7_HUMAN	BTB (POZ) domain containing 7 isoform 1	840										pancreas(1)	1		all_cancers(154;0.08)												0.307692	7.976061	8.416723	4	9	GG		KEEP	---	---	---	---	capture		Epithelial(152;0.196)|COAD - Colon adenocarcinoma(157;0.212)|all cancers(159;0.223)	Missense_Mutation	SNP	92781988	92781988	1580	14	G	C	C	34	34	BTBD7	C	3	3
PPP4R4	57718	broad.mit.edu	36	14	93773725	93773725	+	Nonsense_Mutation	SNP	C	T	T			TCGA-06-0879-01	TCGA-06-0879-01	C	C								Phase_I	Unspecified				Illumina GAIIx	g.chr14:93773725C>T	uc001ycs.1	+	c.802C>T	c.(802-804)CGA>TGA	p.R268*		NM_058237	NP_478144	Q6NUP7	PP4R4_HUMAN	HEAT-like repeat-containing protein isoform 1	268	HEAT 2.					cytoplasm|protein serine/threonine phosphatase complex	protein binding				0														0.344262	232.923661	238.151639	84	160	CC		KEEP	---	---	---	---	capture			Nonsense_Mutation	SNP	93773725	93773725	12841	14	C	T	T	19	19	PPP4R4	T	5	1
AQR	9716	broad.mit.edu	36	15	32954243	32954243	+	Missense_Mutation	SNP	A	G	G			TCGA-06-0879-01	TCGA-06-0879-01	A	A								Phase_I	Unspecified				Illumina GAIIx	g.chr15:32954243A>G	uc001ziv.1	-	c.3352T>C	c.(3352-3354)TCT>CCT	p.S1118P		NM_014691	NP_055506	O60306	AQR_HUMAN	aquarius	1118					nuclear mRNA splicing, via spliceosome	catalytic step 2 spliceosome	RNA binding			large_intestine(1)	1		Lung NSC(122;8.7e-10)|all_lung(180;1.47e-08)												0.28934	168.298819	176.132324	57	140	AA		KEEP	---	---	---	---	capture		all cancers(64;4.34e-18)|GBM - Glioblastoma multiforme(113;4.59e-07)|BRCA - Breast invasive adenocarcinoma(123;0.0283)	Missense_Mutation	SNP	32954243	32954243	846	15	A	G	G	10	10	AQR	G	4	4
KIAA1024	23251	broad.mit.edu	36	15	77537118	77537118	+	Missense_Mutation	SNP	T	C	C			TCGA-06-0879-01	TCGA-06-0879-01	T	T								Phase_I	Unspecified				Illumina GAIIx	g.chr15:77537118T>C	uc002bew.1	+	c.1574T>C	c.(1573-1575)CTT>CCT	p.L525P		NM_015206	NP_056021	Q9UPX6	K1024_HUMAN	hypothetical protein LOC23251	525						integral to membrane				pancreas(2)|ovary(1)|central_nervous_system(1)	4														0.324324	113.163749	116.202904	36	75	TT		KEEP	---	---	---	---	capture			Missense_Mutation	SNP	77537118	77537118	8512	15	T	C	C	56	56	KIAA1024	C	4	4
SLC7A5	8140	broad.mit.edu	36	16	86430814	86430814	+	Missense_Mutation	SNP	C	A	A			TCGA-06-0879-01	TCGA-06-0879-01	C	C								Phase_I	Unspecified				Illumina GAIIx	g.chr16:86430814C>A	uc002fkm.1	-	c.934G>T	c.(934-936)GCC>TCC	p.A312S		NM_003486	NP_003477	Q01650	LAT1_HUMAN	solute carrier family 7 (cationic amino acid	312					blood coagulation|cell differentiation|cellular amino acid metabolic process|ion transport|leukocyte migration|nervous system development	apical plasma membrane|cytosol|integral to membrane	neutral amino acid transmembrane transporter activity|peptide antigen binding				0														0.485714	99.251527	99.263611	34	36	CC		KEEP	---	---	---	---	capture		BRCA - Breast invasive adenocarcinoma(80;0.049)	Missense_Mutation	SNP	86430814	86430814	15197	16	C	A	A	26	26	SLC7A5	A	3	3
PITPNC1	26207	broad.mit.edu	36	17	62959435	62959435	+	Missense_Mutation	SNP	G	A	A			TCGA-06-0879-01	TCGA-06-0879-01	G	G								Phase_I	Unspecified				Illumina GAIIx	g.chr17:62959435G>A	uc002jgc.1	+	c.104G>A	c.(103-105)CGG>CAG	p.R35Q	PITPNC1_uc002jgb.1_Missense_Mutation_p.R35Q	NM_012417	NP_036549	Q9UKF7	PITC1_HUMAN	phosphatidylinositol transfer protein,	35					signal transduction	cytoplasm	lipid binding|phosphatidylinositol transporter activity|protein binding			skin(1)	1	all_cancers(12;3.03e-10)													0.228571	19.984444	22.347718	8	27	GG		KEEP	---	---	---	---	capture	BRCA - Breast invasive adenocarcinoma(8;2.08e-08)|Colorectal(3;0.198)		Missense_Mutation	SNP	62959435	62959435	12373	17	G	A	A	39	39	PITPNC1	A	1	1
PLSCR3	57048	broad.mit.edu	36	17	7237311	7237311	+	Missense_Mutation	SNP	C	T	T			TCGA-06-0879-01	TCGA-06-0879-01	C	C								Phase_I	Unspecified				Illumina GAIIx	g.chr17:7237311C>T	uc002ggm.1	-	c.383G>A	c.(382-384)CGT>CAT	p.R128H	PLSCR3_uc002ggl.2_Missense_Mutation_p.R128H|PLSCR3_uc002ggq.1_Intron|PLSCR3_uc002ggn.1_Missense_Mutation_p.R128H|PLSCR3_uc002ggo.1_Missense_Mutation_p.R128H|PLSCR3_uc002ggp.1_Intron|PLSCR3_uc002ggr.1_Missense_Mutation_p.R128H|PLSCR3_uc010cmg.1_Missense_Mutation_p.R128H	NM_020360	NP_065093	Q9NRY6	PLS3_HUMAN	phospholipid scramblase 3	128	Cytoplasmic (By similarity).				phospholipid scrambling	integral to membrane|plasma membrane	calcium ion binding|calcium-dependent protein binding|phospholipid scramblase activity|SH3 domain binding				0		Prostate(122;0.173)												0.194444	13.006522	16.141314	7	29	CC		KEEP	---	---	---	---	capture			Missense_Mutation	SNP	7237311	7237311	12537	17	C	T	T	19	19	PLSCR3	T	1	1
ZNF91	7644	broad.mit.edu	36	19	23334059	23334059	+	Missense_Mutation	SNP	G	A	A			TCGA-06-0879-01	TCGA-06-0879-01	G	G								Phase_I	Unspecified				Illumina GAIIx	g.chr19:23334059G>A	uc002nre.1	-	c.3562C>T	c.(3562-3564)CCC>TCC	p.P1188S	ZNF91_uc002nrd.1_5'Flank	NM_003430	NP_003421	Q05481	ZNF91_HUMAN	zinc finger protein 91	1188					regulation of transcription, DNA-dependent	nucleus	DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding				0		all_lung(12;0.0349)|Lung NSC(12;0.0538)|all_epithelial(12;0.0611)												0.235294	19.481469	21.661225	8	26	GG		KEEP	---	---	---	---	capture			Missense_Mutation	SNP	23334059	23334059	18804	19	G	A	A	44	44	ZNF91	A	2	2
PSG1	5669	broad.mit.edu	36	19	48067758	48067758	+	Splice_Site_SNP	SNP	C	T	T			TCGA-06-0879-01	TCGA-06-0879-01	C	C								Phase_I	Unspecified				Illumina GAIIx	g.chr19:48067758C>T	uc010eio.1	-	c.709_splice	c.e3+1	p.P237_splice	PSG10_uc002ouv.1_Intron|PSG3_uc002ouf.1_Intron|PSG1_uc002oug.1_Splice_Site_SNP_p.P237_splice|PSG1_uc002oun.1_Splice_Site_SNP|PSG7_uc002ous.1_Intron|PSG7_uc002out.1_Intron|PSG11_uc002ouw.1_Intron|PSG1_uc002our.1_Splice_Site_SNP_p.P237_splice|PSG1_uc002oux.1_Splice_Site_SNP_p.P166_splice|PSG1_uc002ouy.1_Splice_Site_SNP_p.H237_splice|PSG1_uc002ouz.1_Splice_Site_SNP_p.P237_splice|PSG1_uc002ova.1_Intron|PSG1_uc002ovb.2_Splice_Site_SNP_p.P237_splice|PSG1_uc002ovc.2_Intron|PSG1_uc002ovd.1_Splice_Site_SNP_p.P237_splice	NM_006905	NP_008836			pregnancy specific beta-1-glycoprotein 1						female pregnancy	extracellular region				ovary(2)	2		Prostate(69;0.00682)												0.230216	370.556531	416.919351	160	535	CC		KEEP	---	---	---	---	capture			Splice_Site_SNP	SNP	48067758	48067758	13106	19	C	T	T	19	19	PSG1	T	5	1
MYH14	79784	broad.mit.edu	36	19	55420672	55420672	+	Missense_Mutation	SNP	C	G	G			TCGA-06-0879-01	TCGA-06-0879-01	C	C								Phase_I	Unspecified				Illumina GAIIx	g.chr19:55420672C>G	uc010enu.1	+	c.736C>G	c.(736-738)CTG>GTG	p.L246V	MYH14_uc002prq.1_Missense_Mutation_p.L246V|MYH14_uc002prr.1_Missense_Mutation_p.L238V	NM_001077186	NP_001070654	Q7Z406	MYH14_HUMAN	myosin, heavy chain 14 isoform 1	238	Myosin head-like.				axon guidance|regulation of cell shape	myosin complex	actin binding|ATP binding|calmodulin binding|motor activity			central_nervous_system(1)	1		all_neural(266;0.0571)|Ovarian(192;0.0728)												0.285714	7.485405	8.068964	4	10	CC		KEEP	---	---	---	---	capture		OV - Ovarian serous cystadenocarcinoma(262;0.00389)|GBM - Glioblastoma multiforme(134;0.0195)	Missense_Mutation	SNP	55420672	55420672	10428	19	C	G	G	28	28	MYH14	G	3	3
POLD1	5424	broad.mit.edu	36	19	55602245	55602245	+	Splice_Site_SNP	SNP	T	G	G			TCGA-06-0879-01	TCGA-06-0879-01	T	T								Phase_I	Unspecified				Illumina GAIIx	g.chr19:55602245T>G	uc010eny.1	+	c.1686_splice	c.e12+2	p.Q562_splice	POLD1_uc002psb.2_Splice_Site_SNP_p.Q562_splice|POLD1_uc002psc.2_Splice_Site_SNP_p.Q562_splice|POLD1_uc010enx.1_Splice_Site_SNP	NM_002691	NP_002682			polymerase (DNA directed), delta 1, catalytic						base-excision repair, gap-filling|DNA replication proofreading|DNA replication, removal of RNA primer|DNA synthesis involved in DNA repair|nucleotide-excision repair, DNA gap filling|regulation of mitotic cell cycle|response to UV|S phase of mitotic cell cycle|telomere maintenance via recombination|telomere maintenance via semi-conservative replication|transcription-coupled nucleotide-excision repair	delta DNA polymerase complex|nucleoplasm|nucleotide-excision repair complex	3'-5'-exodeoxyribonuclease activity|chromatin binding|DNA binding|DNA-directed DNA polymerase activity|metal ion binding|nucleotide binding|protein binding			central_nervous_system(1)	1		all_neural(266;0.0571)												0.16	6.684417	9.437113	4	21	TT		KEEP	---	---	---	---	capture		OV - Ovarian serous cystadenocarcinoma(262;0.00794)|GBM - Glioblastoma multiforme(134;0.0195)	Splice_Site_SNP	SNP	55602245	55602245	12618	19	T	G	G	58	58	POLD1	G	5	4
POLRMT	5442	broad.mit.edu	36	19	573193	573193	+	Missense_Mutation	SNP	C	A	A			TCGA-06-0879-01	TCGA-06-0879-01	C	C								Phase_I	Unspecified				Illumina GAIIx	g.chr19:573193C>A	uc002lpf.1	-	c.1807G>T	c.(1807-1809)GTC>TTC	p.V603F		NM_005035	NP_005026	O00411	RPOM_HUMAN	mitochondrial DNA-directed RNA polymerase	603					transcription initiation from mitochondrial promoter	mitochondrial nucleoid	DNA binding|DNA-directed RNA polymerase activity|protein binding			pancreas(1)	1		all_epithelial(18;2.78e-22)|Acute lymphoblastic leukemia(61;2.53e-14)|all_hematologic(61;8.18e-10)|Lung NSC(49;3.55e-06)|all_lung(49;5.41e-06)|Breast(49;4.08e-05)|Hepatocellular(1079;0.137)|Renal(1328;0.228)												0.222222	7.489381	8.768729	4	14	CC		KEEP	---	---	---	---	capture		UCEC - Uterine corpus endometrioid carcinoma (162;6.64e-05)|OV - Ovarian serous cystadenocarcinoma(105;1.09e-113)|Epithelial(107;3.79e-112)|all cancers(105;1.67e-104)|BRCA - Breast invasive adenocarcinoma(158;0.00136)|STAD - Stomach adenocarcinoma(1328;0.18)	Missense_Mutation	SNP	573193	573193	12666	19	C	A	A	17	17	POLRMT	A	3	3
PPP1R12C	54776	broad.mit.edu	36	19	60315877	60315877	+	Silent	SNP	C	T	T			TCGA-06-0879-01	TCGA-06-0879-01	C	C								Phase_I	Unspecified				Illumina GAIIx	g.chr19:60315877C>T	uc002qix.1	-	c.420G>A	c.(418-420)GTG>GTA	p.V140V	PPP1R12C_uc002qiy.1_Silent_p.V140V	NM_017607	NP_060077	Q9BZL4	PP12C_HUMAN	protein phosphatase 1, regulatory subunit 12C	140	ANK 2.					cytoplasm				central_nervous_system(1)	1														0.245989	111.420065	122.366426	46	141	CC		KEEP	---	---	---	---	capture	BRCA - Breast invasive adenocarcinoma(297;0.209)	GBM - Glioblastoma multiforme(193;0.0449)	Silent	SNP	60315877	60315877	12791	19	C	T	T	21	21	PPP1R12C	T	2	2
ELAVL1	1994	broad.mit.edu	36	19	7934639	7934639	+	Missense_Mutation	SNP	G	A	A			TCGA-06-0879-01	TCGA-06-0879-01	G	G								Phase_I	Unspecified				Illumina GAIIx	g.chr19:7934639G>A	uc002mjb.1	-	c.709C>T	c.(709-711)CCA>TCA	p.P237S		NM_001419	NP_001410	Q15717	ELAV1_HUMAN	ELAV-like 1	237					3'-UTR-mediated mRNA stabilization|multicellular organismal development	cytoplasm|nucleoplasm	identical protein binding|mRNA binding|nucleotide binding				0										113				0.261905	81.815485	88.280253	33	93	GG		KEEP	---	---	---	---	capture			Missense_Mutation	SNP	7934639	7934639	5240	19	G	A	A	42	42	ELAVL1	A	2	2
COL11A1	1301	broad.mit.edu	36	1	103117974	103117974	+	Silent	SNP	A	G	G			TCGA-06-0879-01	TCGA-06-0879-01	A	A								Phase_I	Unspecified				Illumina GAIIx	g.chr1:103117974A>G	uc001dum.1	-	c.5163T>C	c.(5161-5163)AAT>AAC	p.N1721N	COL11A1_uc001duk.1_Silent_p.N905N|COL11A1_uc001dul.1_Silent_p.N1709N|COL11A1_uc001dun.1_Silent_p.N1670N|COL11A1_uc009weh.1_Silent_p.N1593N	NM_080629	NP_542196	P12107	COBA1_HUMAN	alpha 1 type XI collagen isoform B	1709	Fibrillar collagen NC1.				collagen fibril organization|detection of mechanical stimulus involved in sensory perception of sound|visual perception	collagen type XI	extracellular matrix binding|extracellular matrix structural constituent|protein binding, bridging			ovary(6)|breast(3)|central_nervous_system(1)|pancreas(1)	11		all_epithelial(167;2.52e-07)|all_lung(203;3.11e-05)|Lung NSC(277;6.61e-05)|Breast(1374;0.181)												0.191489	59.349861	71.884958	27	114	AA		KEEP	---	---	---	---	capture		Lung(183;0.186)|all cancers(265;0.242)|Epithelial(280;0.248)	Silent	SNP	103117974	103117974	3805	1	A	G	G	4	4	COL11A1	G	4	4
SLC6A17	388662	broad.mit.edu	36	1	110542262	110542262	+	Silent	SNP	A	G	G			TCGA-06-0879-01	TCGA-06-0879-01	A	A								Phase_I	Unspecified				Illumina GAIIx	g.chr1:110542262A>G	uc009wfq.1	+	c.1857A>G	c.(1855-1857)GCA>GCG	p.A619A		NM_001010898	NP_001010898	Q9H1V8	S6A17_HUMAN	solute carrier family 6, member 17	619	Helical; Name=12; (Potential).				alanine transport|glycine transport|leucine transport|proline transport	cell junction|integral to plasma membrane|synaptic vesicle membrane	neurotransmitter:sodium symporter activity			ovary(1)|pancreas(1)	2		all_cancers(81;9.9e-06)|all_epithelial(167;3.24e-06)|all_lung(203;0.000116)|Lung NSC(277;0.000233)												0.328358	62.339081	64.083179	22	45	AA		KEEP	---	---	---	---	capture		Lung(183;0.0282)|Epithelial(280;0.0372)|all cancers(265;0.0378)|Colorectal(144;0.0438)|LUSC - Lung squamous cell carcinoma(189;0.151)|COAD - Colon adenocarcinoma(174;0.151)	Silent	SNP	110542262	110542262	15177	1	A	G	G	6	6	SLC6A17	G	4	4
FLG	2312	broad.mit.edu	36	1	150549747	150549747	+	Silent	SNP	G	A	A			TCGA-06-0879-01	TCGA-06-0879-01	G	G								Phase_I	Unspecified				Illumina GAIIx	g.chr1:150549747G>A	uc001ezu.1	-	c.4239C>T	c.(4237-4239)CAC>CAT	p.H1413H		NM_002016	NP_002007	P20930	FILA_HUMAN	filaggrin	1413	Ser-rich.				keratinocyte differentiation	cytoplasmic membrane-bounded vesicle|intermediate filament	calcium ion binding|structural molecule activity			ovary(9)	9	Hepatocellular(266;0.0877)|Melanoma(130;0.116)|all_hematologic(923;0.127)													0.379898	620.716302	628.12827	223	364	GG		KEEP	---	---	---	---	capture	LUSC - Lung squamous cell carcinoma(543;0.206)		Silent	SNP	150549747	150549747	6160	1	G	A	A	40	40	FLG	A	1	1
NCF2	4688	broad.mit.edu	36	1	181808943	181808943	+	Silent	SNP	C	T	T			TCGA-06-0879-01	TCGA-06-0879-01	C	C								Phase_I	Unspecified				Illumina GAIIx	g.chr1:181808943C>T	uc001gqj.2	-	c.609G>A	c.(607-609)ACG>ACA	p.T203T	NCF2_uc001gqk.2_Silent_p.T203T	NM_000433	NP_001121123	P19878	NCF2_HUMAN	neutrophil cytosolic factor 2	203					cellular defense response|innate immune response|respiratory burst|superoxide anion generation	NADPH oxidase complex|nucleolus	electron carrier activity|protein C-terminus binding			ovary(3)	3														0.369775	339.133346	343.770979	115	196	CC		KEEP	---	---	---	---	capture			Silent	SNP	181808943	181808943	10616	1	C	T	T	23	23	NCF2	T	1	1
GALNT2	2590	broad.mit.edu	36	1	228380623	228380623	+	Missense_Mutation	SNP	G	C	C			TCGA-06-0879-01	TCGA-06-0879-01	G	G								Phase_I	Unspecified				Illumina GAIIx	g.chr1:228380623G>C	uc001htt.1	+	c.163G>C	c.(163-165)GAC>CAC	p.D55H		NM_004481	NP_004472	Q10471	GALT2_HUMAN	polypeptide N-acetylgalactosaminyltransferase 2	55	Lumenal (Potential).				immunoglobulin biosynthetic process|protein O-linked glycosylation via serine|protein O-linked glycosylation via threonine	extracellular region|Golgi cisterna membrane|integral to Golgi membrane|perinuclear region of cytoplasm	manganese ion binding|polypeptide N-acetylgalactosaminyltransferase activity|sugar binding			ovary(2)	2	Breast(184;0.193)|Ovarian(103;0.249)	all_cancers(173;0.156)|Prostate(94;0.179)												0.372093	101.377139	102.61349	32	54	GG		KEEP	---	---	---	---	capture			Missense_Mutation	SNP	228380623	228380623	6477	1	G	C	C	33	33	GALNT2	C	3	3
LGALS8	3964	broad.mit.edu	36	1	234771619	234771619	+	Missense_Mutation	SNP	A	G	G			TCGA-06-0879-01	TCGA-06-0879-01	A	A								Phase_I	Unspecified				Illumina GAIIx	g.chr1:234771619A>G	uc001hxw.1	+	c.508A>G	c.(508-510)ATA>GTA	p.I170V	LGALS8_uc001hxy.1_Missense_Mutation_p.I170V|LGALS8_uc001hxz.1_Missense_Mutation_p.I170V|LGALS8_uc009xgg.1_Non-coding_Transcript|LGALS8_uc001hya.1_Missense_Mutation_p.I170V|LGALS8_uc001hyb.1_Missense_Mutation_p.I170V|LGALS8_uc001hyc.1_Intron	NM_201545	NP_963839	O00214	LEG8_HUMAN	galectin-8 isoform a	170						cytoplasm|extracellular space	sugar binding			ovary(1)	1	Ovarian(103;0.0634)|Breast(184;0.221)	all_cancers(173;0.0253)|Prostate(94;0.174)												0.45	88.019412	88.149808	27	33	AA		KEEP	---	---	---	---	capture	OV - Ovarian serous cystadenocarcinoma(106;0.00117)		Missense_Mutation	SNP	234771619	234771619	9073	1	A	G	G	12	12	LGALS8	G	4	4
VN1R5	317705	broad.mit.edu	36	1	245486135	245486135	+	Missense_Mutation	SNP	A	G	G			TCGA-06-0879-01	TCGA-06-0879-01	A	A								Phase_I	Unspecified				Illumina GAIIx	g.chr1:245486135A>G	uc001icn.1	+	c.139A>G	c.(139-141)ATC>GTC	p.I47V		NM_173858	NP_776257	Q7Z5H4	VN1R5_HUMAN	vomeronasal 1 receptor 5	47	Cytoplasmic (Potential).				response to pheromone	integral to membrane|plasma membrane	pheromone receptor activity				0	all_cancers(71;5.7e-05)|all_epithelial(71;1.03e-05)|Breast(184;0.0226)|Ovarian(71;0.0377)|all_lung(81;0.0607)|Lung NSC(105;0.0661)	all_cancers(173;0.0314)				GBM(98;63 1399 4825 21305 33017)								0.391837	307.76498	310.268258	96	149	AA		KEEP	---	---	---	---	capture	OV - Ovarian serous cystadenocarcinoma(106;0.00854)		Missense_Mutation	SNP	245486135	245486135	17748	1	A	G	G	4	4	VN1R5	G	4	4
OR2T27	403239	broad.mit.edu	36	1	246880106	246880106	+	Missense_Mutation	SNP	C	T	T	rs1782239	unknown	TCGA-06-0879-01	TCGA-06-0879-01	C	C								Phase_I	Unspecified				Illumina GAIIx	g.chr1:246880106C>T	uc001iet.1	-	c.703G>A	c.(703-705)GGA>AGA	p.G235R		NM_001001824	NP_001001824	Q8NH04	O2T27_HUMAN	olfactory receptor, family 2, subfamily T,	235	Cytoplasmic (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity				0	all_cancers(71;1.15e-05)|all_epithelial(71;5.29e-06)|Breast(184;0.00909)|Ovarian(71;0.0377)|all_lung(81;0.089)|Lung NSC(105;0.0969)|Melanoma(84;0.199)	all_cancers(173;0.237)												0.150943	13.569547	19.753105	8	45	CC		KEEP	---	---	---	---	capture	OV - Ovarian serous cystadenocarcinoma(106;0.0265)		Missense_Mutation	SNP	246880106	246880106	11427	1	C	T	T	22	22	OR2T27	T	2	2
SMPDL3B	27293	broad.mit.edu	36	1	28157672	28157672	+	Silent	SNP	G	A	A			TCGA-06-0879-01	TCGA-06-0879-01	G	G								Phase_I	Unspecified				Illumina GAIIx	g.chr1:28157672G>A	uc001bpg.1	+	c.1104G>A	c.(1102-1104)CCG>CCA	p.P368P	XKR8_uc001bph.1_5'Flank	NM_014474	NP_055289	Q92485	ASM3B_HUMAN	acid sphingomyelinase-like phosphodiesterase 3B	368					sphingomyelin catabolic process	extracellular space	hydrolase activity, acting on glycosyl bonds|sphingomyelin phosphodiesterase activity			ovary(3)	3		Colorectal(325;3.46e-05)|all_lung(284;0.000414)|Lung NSC(340;0.000431)|Renal(390;0.00121)|Breast(348;0.00345)|Ovarian(437;0.00503)|all_neural(195;0.0208)|Myeloproliferative disorder(586;0.0255)												0.14966	38.374715	55.658687	22	125	GG		KEEP	---	---	---	---	capture		UCEC - Uterine corpus endometrioid carcinoma (279;0.0419)|OV - Ovarian serous cystadenocarcinoma(117;5.68e-24)|Colorectal(126;1.65e-08)|COAD - Colon adenocarcinoma(152;1.7e-06)|KIRC - Kidney renal clear cell carcinoma(1967;0.00273)|STAD - Stomach adenocarcinoma(196;0.00303)|BRCA - Breast invasive adenocarcinoma(304;0.00587)|READ - Rectum adenocarcinoma(331;0.055)	Silent	SNP	28157672	28157672	15309	1	G	A	A	39	39	SMPDL3B	A	1	1
BRDT	676	broad.mit.edu	36	1	92252394	92252394	+	Missense_Mutation	SNP	C	A	A			TCGA-06-0879-01	TCGA-06-0879-01	C	C								Phase_I	Unspecified				Illumina GAIIx	g.chr1:92252394C>A	uc001dok.2	+	c.2819C>A	c.(2818-2820)ACA>AAA	p.T940K	BRDT_uc001dol.2_Missense_Mutation_p.T940K|BRDT_uc009wdf.1_Missense_Mutation_p.T867K|BRDT_uc001dom.2_Missense_Mutation_p.T940K	NM_207189	NP_997072	Q58F21	BRDT_HUMAN	testis-specific bromodomain protein	940					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	protein serine/threonine kinase activity|transcription coactivator activity			stomach(1)|ovary(1)|lung(1)	3		all_lung(203;0.00531)|Lung NSC(277;0.0194)								576				0.408163	61.590846	61.951951	20	29	CC		KEEP	---	---	---	---	capture		all cancers(265;0.0228)|Epithelial(280;0.133)	Missense_Mutation	SNP	92252394	92252394	1539	1	C	A	A	17	17	BRDT	A	3	3
SLC4A11	83959	broad.mit.edu	36	20	3157652	3157652	+	Missense_Mutation	SNP	A	C	C			TCGA-06-0879-01	TCGA-06-0879-01	A	A								Phase_I	Unspecified				Illumina GAIIx	g.chr20:3157652A>C	uc002wig.1	-	c.2072T>G	c.(2071-2073)GTG>GGG	p.V691G	SLC4A11_uc002wih.1_Non-coding_Transcript	NM_032034	NP_114423	Q8NBS3	S4A11_HUMAN	solute carrier family 4 member 11	691	Membrane (bicarbonate transporter).				cellular cation homeostasis|fluid transport|phosphoenolpyruvate-dependent sugar phosphotransferase system	basolateral plasma membrane|integral to membrane	bicarbonate transmembrane transporter activity|borate transmembrane transporter activity|hydrogen ion channel activity|inorganic anion exchanger activity|sodium channel activity|sugar:hydrogen symporter activity			ovary(1)	1						NSCLC(190;922 2139 10266 10292 38692)								0.375	8.531992	8.791106	6	10	AA		KEEP	---	---	---	---	capture			Missense_Mutation	SNP	3157652	3157652	15149	20	A	C	C	6	6	SLC4A11	C	4	4
PREX1	57580	broad.mit.edu	36	20	46742669	46742669	+	Silent	SNP	C	T	T			TCGA-06-0879-01	TCGA-06-0879-01	C	C								Phase_I	Unspecified				Illumina GAIIx	g.chr20:46742669C>T	uc002xtw.1	-	c.984G>A	c.(982-984)AGG>AGA	p.R328R		NM_020820	NP_065871	Q8TCU6	PREX1_HUMAN	phosphatidylinositol-3,4,	328	PH.				actin filament polymerization|apoptosis|induction of apoptosis by extracellular signals|nerve growth factor receptor signaling pathway|neutrophil activation|small GTPase mediated signal transduction|superoxide metabolic process	cytosol|plasma membrane	enzyme binding|phospholipid binding|Rho GTPase activator activity|Rho guanyl-nucleotide exchange factor activity			lung(3)|ovary(2)|pancreas(1)	6														0.186957	97.186631	118.300909	43	187	CC		KEEP	---	---	---	---	capture	BRCA - Breast invasive adenocarcinoma(12;0.0135)|Colorectal(8;0.198)		Silent	SNP	46742669	46742669	12919	20	C	T	T	22	22	PREX1	T	2	2
B3GALT5	10317	broad.mit.edu	36	21	39955073	39955073	+	Missense_Mutation	SNP	T	G	G			TCGA-06-0879-01	TCGA-06-0879-01	T	T								Phase_I	Unspecified				Illumina GAIIx	g.chr21:39955073T>G	uc002yyb.1	+	c.717T>G	c.(715-717)ATT>ATG	p.I239M	B3GALT5_uc002yye.2_Missense_Mutation_p.I239M|B3GALT5_uc002yyi.1_Missense_Mutation_p.I239M|B3GALT5_uc002yyj.1_Missense_Mutation_p.I239M|B3GALT5_uc002yyk.1_Missense_Mutation_p.I239M|B3GALT5_uc002yyl.1_Missense_Mutation_p.I239M|B3GALT5_uc002yym.1_Missense_Mutation_p.I239M|B3GALT5_uc010gon.1_Missense_Mutation_p.I239M	NM_033173	NP_149363	Q9Y2C3	B3GT5_HUMAN	UDP-Gal:betaGlcNAc beta	239	Lumenal (Potential).				protein glycosylation	endoplasmic reticulum|Golgi membrane|integral to membrane	UDP-galactose:beta-N-acetylglucosamine beta-1,3-galactosyltransferase activity				0		Prostate(19;2.55e-06)												0.348548	266.443667	271.314841	84	157	TT		KEEP	---	---	---	---	capture			Missense_Mutation	SNP	39955073	39955073	1271	21	T	G	G	61	61	B3GALT5	G	4	4
TPTE	7179	broad.mit.edu	36	21	9928858	9928858	+	Missense_Mutation	SNP	C	A	A			TCGA-06-0879-01	TCGA-06-0879-01	C	C								Phase_I	Unspecified				Illumina GAIIx	g.chr21:9928858C>A	uc002yip.1	-	c.1574G>T	c.(1573-1575)AGA>ATA	p.R525I	TPTE_uc002yiq.1_Missense_Mutation_p.R507I|TPTE_uc002yir.1_Missense_Mutation_p.R487I|TPTE_uc010gkv.1_Missense_Mutation_p.R387I|TPTE_uc002yis.1_Non-coding_Transcript	NM_199261	NP_954870	P56180	TPTE_HUMAN	transmembrane phosphatase with tensin homology	525	C2 tensin-type.				signal transduction	integral to membrane	ion channel activity|protein tyrosine phosphatase activity|protein tyrosine/serine/threonine phosphatase activity			ovary(2)|lung(1)|breast(1)|skin(1)	5														0.147059	30.802532	47.086398	20	116	CC		KEEP	---	---	---	---	capture	Colorectal(6;3.44e-05)|COAD - Colon adenocarcinoma(6;0.00727)|READ - Rectum adenocarcinoma(6;0.0723)	UCEC - Uterine corpus endometrioid carcinoma (6;0.0974)|all cancers(6;2.54e-22)|Epithelial(6;4.21e-19)|OV - Ovarian serous cystadenocarcinoma(6;1.16e-09)|BRCA - Breast invasive adenocarcinoma(6;7.72e-05)|Lung(8;0.000189)|LUSC - Lung squamous cell carcinoma(6;0.00379)|GBM - Glioblastoma multiforme(6;0.00391)|Kidney(17;0.0773)|LUAD - Lung adenocarcinoma(8;0.247)	Missense_Mutation	SNP	9928858	9928858	16974	21	C	A	A	32	32	TPTE	A	3	3
NEFH	4744	broad.mit.edu	36	22	28216168	28216168	+	Missense_Mutation	SNP	G	C	C			TCGA-06-0879-01	TCGA-06-0879-01	G	G								Phase_I	Unspecified				Illumina GAIIx	g.chr22:28216168G>C	uc003afo.1	+	c.2539G>C	c.(2539-2541)GCC>CCC	p.A847P	NEFH_uc003afp.2_5'UTR	NM_021076	NP_066554	P12036	NFH_HUMAN	neurofilament, heavy polypeptide 200kDa	853	Tail.				cell death|nervous system development	neurofilament					0														0.263158	7.872513	8.834985	5	14	GG		KEEP	---	---	---	---	capture			Missense_Mutation	SNP	28216168	28216168	10713	22	G	C	C	34	34	NEFH	C	3	3
GTSE1	51512	broad.mit.edu	36	22	45086794	45086794	+	Silent	SNP	G	A	A			TCGA-06-0879-01	TCGA-06-0879-01	G	G								Phase_I	Unspecified				Illumina GAIIx	g.chr22:45086794G>A	uc003bhk.1	+	c.798G>A	c.(796-798)CCG>CCA	p.P266P		NM_016426	NP_057510	Q9NYZ3	GTSE1_HUMAN	G-2 and S-phase expressed 1	266					DNA damage response, signal transduction by p53 class mediator resulting in cell cycle arrest|G2 phase of mitotic cell cycle|microtubule-based process	cytoplasmic microtubule				ovary(1)	1		Ovarian(80;0.00965)|all_neural(38;0.0416)				GBM(153;542 1915 12487 29016 50495)				471				0.488372	132.75036	132.76032	42	44	GG		KEEP	---	---	---	---	capture		UCEC - Uterine corpus endometrioid carcinoma (28;0.00462)	Silent	SNP	45086794	45086794	7165	22	G	A	A	39	39	GTSE1	A	1	1
SCN1A	6323	broad.mit.edu	36	2	166556117	166556117	+	Nonsense_Mutation	SNP	T	A	A			TCGA-06-0879-01	TCGA-06-0879-01	T	T								Phase_I	Unspecified				Illumina GAIIx	g.chr2:166556117T>A	uc010fpj.1	-	c.5881A>T	c.(5881-5883)AAA>TAA	p.K1961*		NM_006920	NP_008851	P35498	SCN1A_HUMAN	sodium channel, voltage-gated, type I, alpha	1972						voltage-gated sodium channel complex	voltage-gated sodium channel activity			ovary(6)|large_intestine(1)	7					Lamotrigine(DB00555)|Levetiracetam(DB01202)|Phenacemide(DB01121)|Phenytoin(DB00252)|Topiramate(DB00273)|Zonisamide(DB00909)									0.347518	123.908563	126.858872	49	92	TT		KEEP	---	---	---	---	capture			Nonsense_Mutation	SNP	166556117	166556117	14396	2	T	A	A	64	64	SCN1A	A	5	4
HOXD13	3239	broad.mit.edu	36	2	176666269	176666269	+	Nonsense_Mutation	SNP	C	A	A			TCGA-06-0879-01	TCGA-06-0879-01	C	C								Phase_I	Unspecified				Illumina GAIIx	g.chr2:176666269C>A	uc002ukf.1	+	c.405C>A	c.(403-405)TAC>TAA	p.Y135*		NM_000523	NP_000514	P35453	HXD13_HUMAN	homeobox D13	135					skeletal system development|transcription from RNA polymerase II promoter	nucleus	sequence-specific DNA binding|transcription regulator activity				0										34				0.1875	6.531302	7.982309	3	13	CC		KEEP	---	---	---	---	capture	OV - Ovarian serous cystadenocarcinoma(117;0.0207)|Epithelial(96;0.18)	Colorectal(32;0.0526)|READ - Rectum adenocarcinoma(9;0.0678)	Nonsense_Mutation	SNP	176666269	176666269	7614	2	C	A	A	20	20	HOXD13	A	5	3
OSBPL6	114880	broad.mit.edu	36	2	178962107	178962107	+	Missense_Mutation	SNP	G	A	A			TCGA-06-0879-01	TCGA-06-0879-01	G	G								Phase_I	Unspecified				Illumina GAIIx	g.chr2:178962107G>A	uc002uly.1	+	c.2357G>A	c.(2356-2358)TGC>TAC	p.C786Y	OSBPL6_uc002ulx.1_Missense_Mutation_p.C761Y|OSBPL6_uc002ulz.1_Missense_Mutation_p.C725Y|OSBPL6_uc002uma.1_Missense_Mutation_p.C765Y	NM_145739	NP_665682	Q9BZF3	OSBL6_HUMAN	oxysterol-binding protein-like protein 6 isoform	761					lipid transport		lipid binding			pancreas(1)	1														0.303571	89.603311	93.462457	34	78	GG		KEEP	---	---	---	---	capture	OV - Ovarian serous cystadenocarcinoma(117;0.00578)|Epithelial(96;0.00847)|all cancers(119;0.0335)		Missense_Mutation	SNP	178962107	178962107	11692	2	G	A	A	46	46	OSBPL6	A	2	2
TTN	7273	broad.mit.edu	36	2	179342769	179342769	+	Missense_Mutation	SNP	C	A	A			TCGA-06-0879-01	TCGA-06-0879-01	C	C								Phase_I	Unspecified				Illumina GAIIx	g.chr2:179342769C>A	uc002umr.1	-	c.8784G>T	c.(8782-8784)AAG>AAT	p.K2928N	TTN_uc002ums.1_Missense_Mutation_p.K2882N|TTN_uc010frc.1_Missense_Mutation_p.K2882N|TTN_uc010frd.1_Missense_Mutation_p.K2882N|TTN_uc002unb.1_Missense_Mutation_p.K2928N	NM_133378	NP_596869	Q8WZ42	TITIN_HUMAN	titin isoform N2-A	2928										ovary(58)|stomach(19)|large_intestine(17)|lung(16)|skin(16)|breast(10)|pancreas(7)|kidney(4)|central_nervous_system(3)|urinary_tract(2)|upper_aerodigestive_tract(1)	153										8722				0.320988	345.188215	356.726905	130	275	CC		KEEP	---	---	---	---	capture	OV - Ovarian serous cystadenocarcinoma(117;0.023)|Epithelial(96;0.0454)|all cancers(119;0.134)		Missense_Mutation	SNP	179342769	179342769	17290	2	C	A	A	32	32	TTN	A	3	3
ZSWIM2	151112	broad.mit.edu	36	2	187401074	187401074	+	Missense_Mutation	SNP	C	G	G			TCGA-06-0879-01	TCGA-06-0879-01	C	C								Phase_I	Unspecified				Illumina GAIIx	g.chr2:187401074C>G	uc002upu.1	-	c.1784G>C	c.(1783-1785)AGT>ACT	p.S595T		NM_182521	NP_872327	Q8NEG5	ZSWM2_HUMAN	zinc finger, SWIM domain containing 2	595					apoptosis		zinc ion binding			ovary(2)	2														0.405172	153.503791	154.415299	47	69	CC		KEEP	---	---	---	---	capture	OV - Ovarian serous cystadenocarcinoma(117;0.0274)|Epithelial(96;0.164)		Missense_Mutation	SNP	187401074	187401074	18845	2	C	G	G	20	20	ZSWIM2	G	3	3
FAM126B	285172	broad.mit.edu	36	2	201554686	201554686	+	Missense_Mutation	SNP	C	T	T			TCGA-06-0879-01	TCGA-06-0879-01	C	C								Phase_I	Unspecified				Illumina GAIIx	g.chr2:201554686C>T	uc002uwt.1	-	c.1145G>A	c.(1144-1146)CGT>CAT	p.R382H	FAM126B_uc002uwu.1_Missense_Mutation_p.R356H|FAM126B_uc002uwv.1_Missense_Mutation_p.R382H	NM_173822	NP_776183	Q8IXS8	F126B_HUMAN	hypothetical protein LOC285172	382						intracellular				ovary(1)	1														0.35	113.715222	116.096598	42	78	CC		KEEP	---	---	---	---	capture			Missense_Mutation	SNP	201554686	201554686	5627	2	C	T	T	19	19	FAM126B	T	1	1
CHRNG	1146	broad.mit.edu	36	2	233113630	233113630	+	Silent	SNP	C	T	T			TCGA-06-0879-01	TCGA-06-0879-01	C	C								Phase_I	Unspecified				Illumina GAIIx	g.chr2:233113630C>T	uc002vsx.1	+	c.315C>T	c.(313-315)ACC>ACT	p.T105T	CHRNG_uc010fyd.1_Silent_p.T105T|CHRNG_uc010fye.1_Silent_p.T105T	NM_005199	NP_005190	P07510	ACHG_HUMAN	cholinergic receptor, nicotinic, gamma	105	Extracellular (Potential).				muscle contraction	cell junction|postsynaptic membrane	acetylcholine receptor activity				0		all_hematologic(139;0.00793)|Renal(207;0.0112)|Acute lymphoblastic leukemia(138;0.0182)|all_lung(227;0.0449)|Lung NSC(271;0.132)												0.320755	44.650022	46.166172	17	36	CC		KEEP	---	---	---	---	capture		Epithelial(121;6.39e-16)|BRCA - Breast invasive adenocarcinoma(100;0.00079)|LUSC - Lung squamous cell carcinoma(224;0.00757)|Lung(119;0.0086)	Silent	SNP	233113630	233113630	3530	2	C	T	T	21	21	CHRNG	T	2	2
TEKT4	150483	broad.mit.edu	36	2	94901436	94901436	+	Missense_Mutation	SNP	G	A	A			TCGA-06-0879-01	TCGA-06-0879-01	G	G								Phase_I	Unspecified				Illumina GAIIx	g.chr2:94901436G>A	uc002stw.1	+	c.385G>A	c.(385-387)GCC>ACC	p.A129T	TEKT4_uc010fhr.1_Non-coding_Transcript	NM_144705	NP_653306	Q8WW24	TEKT4_HUMAN	tektin 4	129	Potential.				cell projection organization|microtubule cytoskeleton organization	cilium axoneme|flagellar axoneme|microtubule				ovary(1)|breast(1)	2														0.32	16.481597	17.206644	8	17	GG		KEEP	---	---	---	---	capture			Missense_Mutation	SNP	94901436	94901436	16282	2	G	A	A	38	38	TEKT4	A	1	1
PLXND1	23129	broad.mit.edu	36	3	130807519	130807519	+	Missense_Mutation	SNP	G	C	C			TCGA-06-0879-01	TCGA-06-0879-01	G	G								Phase_I	Unspecified				Illumina GAIIx	g.chr3:130807519G>C	uc003emx.2	-	c.654C>G	c.(652-654)AGC>AGG	p.S218R		NM_015103	NP_055918	Q9Y4D7	PLXD1_HUMAN	plexin D1	218	Extracellular (Potential).|Sema.				axon guidance	integral to membrane|intracellular|plasma membrane				large_intestine(1)	1						Ovarian(97;366 1484 3738 22084 39045)								0.428571	6.320227	6.351992	3	4	GG		KEEP	---	---	---	---	capture			Missense_Mutation	SNP	130807519	130807519	12553	3	G	C	C	34	34	PLXND1	C	3	3
ATP2C1	27032	broad.mit.edu	36	3	132155397	132155397	+	Missense_Mutation	SNP	A	G	G			TCGA-06-0879-01	TCGA-06-0879-01	A	A								Phase_I	Unspecified				Illumina GAIIx	g.chr3:132155397A>G	uc003ens.1	+	c.574A>G	c.(574-576)ACA>GCA	p.T192A	ATP2C1_uc003enk.1_Missense_Mutation_p.T176A|ATP2C1_uc003enl.1_Missense_Mutation_p.T192A|ATP2C1_uc003enn.1_Missense_Mutation_p.T176A|ATP2C1_uc003enm.1_Missense_Mutation_p.T192A|ATP2C1_uc003eno.1_Missense_Mutation_p.T192A|ATP2C1_uc003enp.1_Missense_Mutation_p.T192A|ATP2C1_uc003enq.1_Missense_Mutation_p.T192A|ATP2C1_uc003enr.1_Missense_Mutation_p.T192A|ATP2C1_uc003ent.1_Missense_Mutation_p.T192A	NM_001001486	NP_001001486	P98194	AT2C1_HUMAN	calcium-transporting ATPase 2C1 isoform 1d	192	Cytoplasmic (By similarity).				actin cytoskeleton reorganization|ATP biosynthetic process|calcium-dependent cell-cell adhesion|cellular calcium ion homeostasis|cellular manganese ion homeostasis|epidermis development|Golgi calcium ion homeostasis|Golgi calcium ion transport|positive regulation of I-kappaB kinase/NF-kappaB cascade	Golgi apparatus|Golgi membrane|integral to membrane|trans-Golgi network	ATP binding|ATP binding|calcium ion binding|calcium-transporting ATPase activity|manganese ion binding|manganese-transporting ATPase activity|metal ion binding|signal transducer activity			skin(1)	1					Arsenic trioxide(DB01169)|Desflurane(DB01189)|Enflurane(DB00228)|Halothane(DB01159)|Isoflurane(DB00753)|Methoxyflurane(DB01028)|Miconazole(DB01110)|Sevoflurane(DB01236)	Esophageal Squamous(99;456 1443 27647 34099 42636)								0.359116	197.931363	201.090888	65	116	AA		KEEP	---	---	---	---	capture			Missense_Mutation	SNP	132155397	132155397	1162	3	A	G	G	10	10	ATP2C1	G	4	4
SLC6A6	6533	broad.mit.edu	36	3	14484603	14484603	+	Missense_Mutation	SNP	C	A	A			TCGA-06-0879-01	TCGA-06-0879-01	C	C								Phase_I	Unspecified				Illumina GAIIx	g.chr3:14484603C>A	uc003byq.1	+	c.975C>A	c.(973-975)GAC>GAA	p.D325E	SLC6A6_uc010heg.1_Missense_Mutation_p.D325E|SLC6A6_uc003byr.1_Intron	NM_003043	NP_003034	P31641	SC6A6_HUMAN	solute carrier family 6 (neurotransmitter	325					cellular amino acid metabolic process	integral to plasma membrane	amino acid transmembrane transporter activity|neurotransmitter:sodium symporter activity|taurine:sodium symporter activity			ovary(1)	1												OREG0015421	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	0.378049	277.702184	280.917005	93	153	CC		KEEP	---	---	---	---	capture			Missense_Mutation	SNP	14484603	14484603	15185	3	C	A	A	20	20	SLC6A6	A	3	3
AADACL2	344752	broad.mit.edu	36	3	152957864	152957864	+	Missense_Mutation	SNP	C	T	T			TCGA-06-0879-01	TCGA-06-0879-01	C	C								Phase_I	Unspecified				Illumina GAIIx	g.chr3:152957864C>T	uc003ezc.1	+	c.932C>T	c.(931-933)ACC>ATC	p.T311I	AADACL2_uc010hvn.1_Missense_Mutation_p.T120I	NM_207365	NP_997248	Q6P093	ADCL2_HUMAN	arylacetamide deacetylase-like 2	333						extracellular region|integral to membrane	carboxylesterase activity				0														0.326007	249.790584	257.117734	89	184	CC		KEEP	---	---	---	---	capture	LUSC - Lung squamous cell carcinoma(72;0.0394)|Lung(72;0.0813)		Missense_Mutation	SNP	152957864	152957864	12	3	C	T	T	18	18	AADACL2	T	2	2
ITPR1	3708	broad.mit.edu	36	3	4691846	4691846	+	Missense_Mutation	SNP	G	A	A			TCGA-06-0879-01	TCGA-06-0879-01	G	G								Phase_I	Unspecified				Illumina GAIIx	g.chr3:4691846G>A	uc003bqa.2	+	c.2693G>A	c.(2692-2694)TGT>TAT	p.C898Y	ITPR1_uc010hca.1_Missense_Mutation_p.C883Y|ITPR1_uc010hcb.1_Missense_Mutation_p.C883Y	NM_001099952	NP_001093422	Q14643	ITPR1_HUMAN	inositol 1,4,5-triphosphate receptor, type 1	898	Cytoplasmic (Potential).				activation of phospholipase C activity|cell death|energy reserve metabolic process|nerve growth factor receptor signaling pathway|platelet activation|regulation of insulin secretion|response to hypoxia	endoplasmic reticulum membrane|integral to membrane|platelet dense granule membrane|platelet dense tubular network membrane	calcium ion transmembrane transporter activity|inositol 1,4,5-trisphosphate-sensitive calcium-release channel activity|intracellular ligand-gated calcium channel activity|phosphatidylinositol binding|protein binding			ovary(4)|breast(2)|large_intestine(1)|kidney(1)|liver(1)|skin(1)|pancreas(1)	11										2114				0.37234	97.295856	98.643417	35	59	GG		KEEP	---	---	---	---	capture		Epithelial(13;0.0199)|OV - Ovarian serous cystadenocarcinoma(96;0.0361)|all cancers(10;0.0982)	Missense_Mutation	SNP	4691846	4691846	8224	3	G	A	A	48	48	ITPR1	A	2	2
FBN2	2201	broad.mit.edu	36	5	127756796	127756796	+	Missense_Mutation	SNP	C	T	T			TCGA-06-0879-01	TCGA-06-0879-01	C	C								Phase_I	Unspecified				Illumina GAIIx	g.chr5:127756796C>T	uc003kuu.1	-	c.1396G>A	c.(1396-1398)GGC>AGC	p.G466S		NM_001999	NP_001990	P35556	FBN2_HUMAN	fibrillin 2 precursor	466					bone trabecula formation|negative regulation of transforming growth factor beta receptor signaling pathway by extracellular sequestering of TGFbeta|positive regulation of bone mineralization|positive regulation of osteoblast differentiation	microfibril	calcium ion binding|extracellular matrix structural constituent			ovary(8)|large_intestine(4)|kidney(1)|pancreas(1)	14		all_cancers(142;0.0216)|Prostate(80;0.0551)								1552				0.381643	213.983789	216.52265	79	128	CC		KEEP	---	---	---	---	capture	KIRC - Kidney renal clear cell carcinoma(527;0.0268)|Kidney(363;0.0488)	OV - Ovarian serous cystadenocarcinoma(64;0.0821)|Epithelial(69;0.146)	Missense_Mutation	SNP	127756796	127756796	5939	5	C	T	T	21	21	FBN2	T	2	2
PCDHB3	56132	broad.mit.edu	36	5	140462127	140462127	+	Silent	SNP	G	A	A			TCGA-06-0879-01	TCGA-06-0879-01	G	G								Phase_I	Unspecified				Illumina GAIIx	g.chr5:140462127G>A	uc003lio.1	+	c.1710G>A	c.(1708-1710)GCG>GCA	p.A570A		NM_018937	NP_061760	Q9Y5E6	PCDB3_HUMAN	protocadherin beta 3 precursor	570	Extracellular (Potential).|Cadherin 6.				calcium-dependent cell-cell adhesion|homophilic cell adhesion|synapse assembly|synaptic transmission	integral to plasma membrane	calcium ion binding			ovary(1)|pancreas(1)	2														0.333333	86.916418	89.547738	36	72	GG		KEEP	---	---	---	---	capture	KIRC - Kidney renal clear cell carcinoma(527;0.00185)|Kidney(363;0.00339)		Silent	SNP	140462127	140462127	11963	5	G	A	A	38	38	PCDHB3	A	1	1
PCDHB13	56123	broad.mit.edu	36	5	140574541	140574541	+	Missense_Mutation	SNP	C	T	T			TCGA-06-0879-01	TCGA-06-0879-01	C	C								Phase_I	Unspecified				Illumina GAIIx	g.chr5:140574541C>T	uc003lja.1	+	c.662C>T	c.(661-663)CCG>CTG	p.P221L		NM_018933	NP_061756	Q9Y5F0	PCDBD_HUMAN	protocadherin beta 13 precursor	221	Cadherin 2.|Extracellular (Potential).				calcium-dependent cell-cell adhesion|homophilic cell adhesion|synapse assembly|synaptic transmission	integral to membrane|plasma membrane	calcium ion binding	p.P221L(1)		ovary(1)	1														0.115	25.88342	55.093277	23	177	CC		KEEP	---	---	---	---	capture	KIRC - Kidney renal clear cell carcinoma(527;0.00185)|Kidney(363;0.00339)		Missense_Mutation	SNP	140574541	140574541	11958	5	C	T	T	23	23	PCDHB13	T	1	1
PCDHGA9	56107	broad.mit.edu	36	5	140763132	140763132	+	Silent	SNP	C	T	T			TCGA-06-0879-01	TCGA-06-0879-01	C	C								Phase_I	Unspecified				Illumina GAIIx	g.chr5:140763132C>T	uc003lkh.1	+	c.429C>T	c.(427-429)AAC>AAT	p.N143N	PCDHGA1_uc003lji.1_Intron|PCDHGA2_uc003ljk.1_Intron|PCDHGA3_uc010jfx.1_Intron|PCDHGA3_uc003ljm.1_Intron|PCDHGB1_uc003ljo.1_Intron|PCDHGA4_uc003ljq.1_Intron|PCDHGB2_uc003ljs.1_Intron|PCDHGA5_uc003lju.1_Intron|PCDHGB3_uc003ljw.1_Intron|PCDHGA6_uc003ljy.1_Intron|PCDHGA7_uc003lka.1_Intron|PCDHGB4_uc003lkc.1_Intron|PCDHGA8_uc003lkd.1_Intron|PCDHGB5_uc003lkf.1_Intron|PCDHGA9_uc003lkg.1_Silent_p.N143N	NM_018921	NP_061744	Q9Y5G4	PCDG9_HUMAN	protocadherin gamma subfamily A, 9 isoform 1	143	Extracellular (Potential).|Cadherin 2.				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding				0														0.385621	168.70803	170.455225	59	94	CC		KEEP	---	---	---	---	capture	KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)		Silent	SNP	140763132	140763132	11981	5	C	T	T	19	19	PCDHGA9	T	1	1
AFAP1L1	134265	broad.mit.edu	36	5	148667317	148667317	+	Missense_Mutation	SNP	G	A	A			TCGA-06-0879-01	TCGA-06-0879-01	G	G								Phase_I	Unspecified				Illumina GAIIx	g.chr5:148667317G>A	uc003lqh.1	+	c.695G>A	c.(694-696)CGT>CAT	p.R232H	AFAP1L1_uc003lqg.2_Missense_Mutation_p.R232H|AFAP1L1_uc010jgy.1_Missense_Mutation_p.R232H	NM_152406	NP_689619	Q8TED9	AF1L1_HUMAN	actin filament associated protein 1-like 1	232	PH 1.						protein binding			breast(1)|pancreas(1)	2														0.289474	56.138068	59.14628	22	54	GG		KEEP	---	---	---	---	capture	KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)		Missense_Mutation	SNP	148667317	148667317	355	5	G	A	A	40	40	AFAP1L1	A	1	1
TMEM200A	114801	broad.mit.edu	36	6	130804356	130804356	+	Missense_Mutation	SNP	G	A	A			TCGA-06-0879-01	TCGA-06-0879-01	G	G								Phase_I	Unspecified				Illumina GAIIx	g.chr6:130804356G>A	uc003qca.1	+	c.1096G>A	c.(1096-1098)GGA>AGA	p.G366R	TMEM200A_uc010kfh.1_Missense_Mutation_p.G366R|TMEM200A_uc010kfi.1_Missense_Mutation_p.G366R|TMEM200A_uc003qcb.1_Missense_Mutation_p.G366R|TMEM200A_uc010kfj.1_Missense_Mutation_p.G366R	NM_052913	NP_443145	Q86VY9	T200A_HUMAN	transmembrane protein 200A	366	Cytoplasmic (Potential).					integral to membrane				ovary(1)	1									p.G366R(SKUT1-Tumor)	66				0.336283	111.729666	114.353479	38	75	GG		KEEP	---	---	---	---	capture		GBM - Glioblastoma multiforme(226;0.0139)|OV - Ovarian serous cystadenocarcinoma(155;0.12)	Missense_Mutation	SNP	130804356	130804356	16658	6	G	A	A	39	39	TMEM200A	A	1	1
MDN1	23195	broad.mit.edu	36	6	90444051	90444051	+	Silent	SNP	G	A	A			TCGA-06-0879-01	TCGA-06-0879-01	G	G								Phase_I	Unspecified				Illumina GAIIx	g.chr6:90444051G>A	uc003pnn.1	-	c.12498C>T	c.(12496-12498)AGC>AGT	p.S4166S		NM_014611	NP_055426	Q9NU22	MDN1_HUMAN	MDN1, midasin homolog	4166					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)												0.352113	130.493591	133.237994	50	92	GG		KEEP	---	---	---	---	capture		BRCA - Breast invasive adenocarcinoma(108;0.0193)	Silent	SNP	90444051	90444051	9804	6	G	A	A	38	38	MDN1	A	1	1
KEL	3792	broad.mit.edu	36	7	142359722	142359722	+	Missense_Mutation	SNP	G	T	T			TCGA-06-0879-01	TCGA-06-0879-01	G	G								Phase_I	Unspecified				Illumina GAIIx	g.chr7:142359722G>T	uc003wcb.1	-	c.1199C>A	c.(1198-1200)CCC>CAC	p.P400H		NM_000420	NP_000411	P23276	KELL_HUMAN	Kell blood group, metallo-endopeptidase	400	Extracellular (Potential).				proteolysis|vasoconstriction	integral to membrane|plasma membrane	metal ion binding|metalloendopeptidase activity|protein binding			ovary(3)|central_nervous_system(1)	4	Melanoma(164;0.059)													0.236607	122.169396	136.370718	53	171	GG		KEEP	---	---	---	---	capture			Missense_Mutation	SNP	142359722	142359722	8448	7	G	T	T	43	43	KEL	T	3	3
ABP1	26	broad.mit.edu	36	7	150189120	150189120	+	Missense_Mutation	SNP	G	A	A			TCGA-06-0879-01	TCGA-06-0879-01	G	G								Phase_I	Unspecified				Illumina GAIIx	g.chr7:150189120G>A	uc003wia.1	+	c.2203G>A	c.(2203-2205)GTG>ATG	p.V735M	ABP1_uc003why.1_Missense_Mutation_p.V716M|ABP1_uc003whz.1_Missense_Mutation_p.V716M	NM_001091	NP_001082	P19801	ABP1_HUMAN	amiloride binding protein 1 precursor	716					amine metabolic process|oxidation-reduction process	extracellular space|peroxisome	copper ion binding|diamine oxidase activity|heparin binding|histamine oxidase activity|methylputrescine oxidase activity|primary amine oxidase activity|propane-1,3-diamine oxidase activity|quinone binding			ovary(2)|breast(2)	4	all_neural(206;0.219)				Amiloride(DB00594)|Spermine(DB00127)	Pancreas(195;1227 3054 24912 28503)								0.253807	121.760055	132.596732	50	147	GG		KEEP	---	---	---	---	capture	OV - Ovarian serous cystadenocarcinoma(82;0.0121)	UCEC - Uterine corpus endometrioid carcinoma (81;0.168)	Missense_Mutation	SNP	150189120	150189120	99	7	G	A	A	40	40	ABP1	A	1	1
DOCK5	80005	broad.mit.edu	36	8	25272413	25272413	+	Silent	SNP	C	T	T			TCGA-06-0879-01	TCGA-06-0879-01	C	C								Phase_I	Unspecified				Illumina GAIIx	g.chr8:25272413C>T	uc003xeg.1	+	c.2868C>T	c.(2866-2868)TGC>TGT	p.C956C	DOCK5_uc010luf.1_Non-coding_Transcript|DOCK5_uc003xei.1_Silent_p.C526C|DOCK5_uc003xej.1_Non-coding_Transcript|DOCK5_uc003xeh.1_Silent_p.C670C	NM_024940	NP_079216	Q9H7D0	DOCK5_HUMAN	dedicator of cytokinesis 5	956						cytoplasm	GTP binding|GTPase binding|guanyl-nucleotide exchange factor activity			ovary(3)	3		all_cancers(63;0.0361)|Ovarian(32;0.000711)|all_epithelial(46;0.0153)|Hepatocellular(4;0.115)|Prostate(55;0.13)|Breast(100;0.143)				Pancreas(145;34 1887 3271 10937 30165)								0.183673	10.861093	15.46619	9	40	CC		KEEP	---	---	---	---	capture		UCEC - Uterine corpus endometrioid carcinoma (27;0.0267)|Epithelial(17;1.07e-11)|Colorectal(74;0.0276)|COAD - Colon adenocarcinoma(73;0.0828)	Silent	SNP	25272413	25272413	4874	8	C	T	T	25	25	DOCK5	T	2	2
DOCK5	80005	broad.mit.edu	36	8	25281649	25281649	+	Silent	SNP	C	T	T			TCGA-06-0879-01	TCGA-06-0879-01	C	C								Phase_I	Unspecified				Illumina GAIIx	g.chr8:25281649C>T	uc003xeg.1	+	c.3249C>T	c.(3247-3249)ATC>ATT	p.I1083I	DOCK5_uc010luf.1_Non-coding_Transcript|DOCK5_uc003xei.1_Silent_p.I653I|DOCK5_uc003xej.1_Non-coding_Transcript|DOCK5_uc003xeh.1_Silent_p.I797I	NM_024940	NP_079216	Q9H7D0	DOCK5_HUMAN	dedicator of cytokinesis 5	1083						cytoplasm	GTP binding|GTPase binding|guanyl-nucleotide exchange factor activity			ovary(3)	3		all_cancers(63;0.0361)|Ovarian(32;0.000711)|all_epithelial(46;0.0153)|Hepatocellular(4;0.115)|Prostate(55;0.13)|Breast(100;0.143)				Pancreas(145;34 1887 3271 10937 30165)								0.28125	24.261428	25.63757	9	23	CC		KEEP	---	---	---	---	capture		UCEC - Uterine corpus endometrioid carcinoma (27;0.0267)|Epithelial(17;1.07e-11)|Colorectal(74;0.0276)|COAD - Colon adenocarcinoma(73;0.0828)	Silent	SNP	25281649	25281649	4874	8	C	T	T	31	31	DOCK5	T	1	1
AFF2	2334	broad.mit.edu	36	X	147880516	147880516	+	Missense_Mutation	SNP	G	A	A			TCGA-06-0879-01	TCGA-06-0879-01	G	G								Phase_I	Unspecified				Illumina GAIIx	g.chrX:147880516G>A	uc004fcp.1	+	c.3884G>A	c.(3883-3885)CGC>CAC	p.R1295H	AFF2_uc004fcq.1_Missense_Mutation_p.R1285H|AFF2_uc004fcr.1_Missense_Mutation_p.R1256H|AFF2_uc004fcs.1_Missense_Mutation_p.R1260H	NM_002025	NP_002016	P51816	AFF2_HUMAN	fragile X mental retardation 2	1295					brain development|mRNA processing|regulation of RNA splicing|RNA splicing	nuclear speck	G-quadruplex RNA binding|protein binding			ovary(3)|pancreas(2)	5	Acute lymphoblastic leukemia(192;6.56e-05)													0.698925	419.006482	425.579389	130	56	GG		KEEP	---	---	---	---	capture			Missense_Mutation	SNP	147880516	147880516	358	23	G	A	A	38	38	AFF2	A	1	1
SLC35E4	339665	broad.mit.edu	36	22	29362455	29362455	+	Frame_Shift_Del	DEL	G	-	-			TCGA-06-0879-01	TCGA-06-0879-01										Phase_I	Unspecified				Illumina GAIIx	g.chr22:29362455_29362455delG	uc003ais.1	+	c.18_18delG	c.(16-18)CCGfs	p.P6fs	SLC35E4_uc003ait.2_5'UTR	NM_001001479	NP_001001479	Q6ICL7	S35E4_HUMAN	solute carrier family 35, member E4	6						integral to membrane					0														0.33			2	4				---	---	---	---	capture_indel			Frame_Shift_Del	DEL	29362455	29362455	15084	22	G	-	-	39	39	SLC35E4	-	5	5
TAF1B	9014	broad.mit.edu	36	2	9907022	9907022	+	Frame_Shift_Del	DEL	A	-	-			TCGA-06-0879-01	TCGA-06-0879-01										Phase_I	Unspecified				Illumina GAIIx	g.chr2:9907022_9907022delA	uc002qzz.1	+	c.187_187delA	c.(187-189)AAAfs	p.K63fs	TAF1B_uc010exc.1_Frame_Shift_Del_p.K63fs|TAF1B_uc002qzy.2_Frame_Shift_Del_p.K63fs|TAF1B_uc010exd.1_5'UTR	NM_005680	NP_005671	Q53T94	TAF1B_HUMAN	TBP-associated factor 1B	63					regulation of transcription, DNA-dependent|termination of RNA polymerase I transcription|transcription elongation from RNA polymerase I promoter|transcription initiation from RNA polymerase I promoter	nucleoplasm	DNA binding|sequence-specific DNA binding transcription factor activity			ovary(1)|breast(1)|pancreas(1)	3	all_hematologic(175;0.127)|Acute lymphoblastic leukemia(172;0.155)													0.36			4	7				---	---	---	---	capture_indel			Frame_Shift_Del	DEL	9907022	9907022	16041	2	A	-	-	13	13	TAF1B	-	5	5
