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
HPSE2	60495	broad.mit.edu	36	10	100239856	100239856	+	Missense_Mutation	SNP	G	T	T			TCGA-41-3392-01	TCGA-41-3392-01	G	G								Phase_I	Unspecified				Illumina GAIIx	g.chr10:100239856G>T	uc001kpn.1	-	c.1408C>A	c.(1408-1410)CCT>ACT	p.P470T	HPSE2_uc009xwc.1_Missense_Mutation_p.P460T|HPSE2_uc001kpo.1_Missense_Mutation_p.P402T|HPSE2_uc009xwd.1_Missense_Mutation_p.P348T	NM_021828	NP_068600	Q8WWQ2	HPSE2_HUMAN	heparanase 2	470					carbohydrate metabolic process	intracellular|membrane	cation binding|heparanase activity			ovary(1)	1														0.207317	32.974216	39.456263	17	65	GG		KEEP	---	---	---	---	capture		Epithelial(162;1.8e-09)|all cancers(201;4.72e-07)	Missense_Mutation	SNP	100239856	100239856	7637	10	G	T	T	42	42	HPSE2	T	3	3
ADARB2	105	broad.mit.edu	36	10	1253025	1253025	+	Silent	SNP	G	A	A			TCGA-41-3392-01	TCGA-41-3392-01	G	G								Phase_I	Unspecified				Illumina GAIIx	g.chr10:1253025G>A	uc009xhq.1	-	c.1548C>T	c.(1546-1548)CGC>CGT	p.R516R		NM_018702	NP_061172	Q9NS39	RED2_HUMAN	adenosine deaminase, RNA-specific, B2	516	A to I editase.				mRNA processing	mitochondrion|nucleus	adenosine deaminase activity|double-stranded RNA binding|metal ion binding|single-stranded RNA binding			large_intestine(2)|central_nervous_system(1)	3		all_epithelial(10;0.059)|Colorectal(49;0.0815)								191				0.75	25.531781	26.198301	9	3	GG		KEEP	---	---	---	---	capture		all cancers(11;0.0224)|GBM - Glioblastoma multiforme(2;0.0414)|Epithelial(11;0.165)	Silent	SNP	1253025	1253025	284	10	G	A	A	38	38	ADARB2	A	1	1
CEP164	22897	broad.mit.edu	36	11	116758846	116758846	+	Missense_Mutation	SNP	A	C	C			TCGA-41-3392-01	TCGA-41-3392-01	A	A								Phase_I	Unspecified				Illumina GAIIx	g.chr11:116758846A>C	uc001prc.1	+	c.1702A>C	c.(1702-1704)ACC>CCC	p.T568P	CEP164_uc001prb.1_Missense_Mutation_p.T571P|CEP164_uc001prf.1_Non-coding_Transcript|CEP164_uc009yzp.1_Non-coding_Transcript|CEP164_uc001prg.1_5'Flank	NM_014956	NP_055771	Q9UPV0	CE164_HUMAN	centrosomal protein 164kDa	568	Glu-rich.				cell division|DNA repair|G2/M transition of mitotic cell cycle|mitosis	centriole|cytosol|nucleus				ovary(1)|central_nervous_system(1)	2	all_hematologic(175;0.0487)	Breast(348;0.00908)|Medulloblastoma(222;0.0425)|all_hematologic(192;0.196)|all_neural(223;0.234)												0.2	6.749541	8.863723	5	20	AA		KEEP	---	---	---	---	capture		BRCA - Breast invasive adenocarcinoma(274;4e-05)|Epithelial(105;0.0008)	Missense_Mutation	SNP	116758846	116758846	3382	11	A	C	C	6	6	CEP164	C	4	4
OR5B17	219965	broad.mit.edu	36	11	57882728	57882728	+	Missense_Mutation	SNP	T	C	C			TCGA-41-3392-01	TCGA-41-3392-01	T	T								Phase_I	Unspecified				Illumina GAIIx	g.chr11:57882728T>C	uc001nmr.1	-	c.391A>G	c.(391-393)ACC>GCC	p.T131A		NM_001005489	NP_001005489	Q8NGF7	OR5BH_HUMAN	olfactory receptor, family 5, subfamily B,	131	Cytoplasmic (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(2)	2	Esophageal squamous(5;0.0027)	Breast(21;0.0778)												0.340426	101.805105	103.953482	32	62	TT		KEEP	---	---	---	---	capture			Missense_Mutation	SNP	57882728	57882728	11559	11	T	C	C	57	57	OR5B17	C	4	4
CD6	923	broad.mit.edu	36	11	60543319	60543319	+	Missense_Mutation	SNP	C	G	G			TCGA-41-3392-01	TCGA-41-3392-01	C	C								Phase_I	Unspecified				Illumina GAIIx	g.chr11:60543319C>G	uc001nqq.1	+	c.1960C>G	c.(1960-1962)CCT>GCT	p.P654A	CD6_uc001nqr.1_Missense_Mutation_p.P587A|CD6_uc001nqs.1_Non-coding_Transcript|CD6_uc001nqt.1_Missense_Mutation_p.P578A	NM_006725	NP_006716	P30203	CD6_HUMAN	CD6 molecule	654	Cytoplasmic (Potential).				cell adhesion	cell surface|integral to plasma membrane	scavenger receptor activity			pancreas(1)	1						Pancreas(169;904 2017 4767 38890 42505)								0.333333	48.610617	49.717336	15	30	CC		KEEP	---	---	---	---	capture			Missense_Mutation	SNP	60543319	60543319	3156	11	C	G	G	26	26	CD6	G	3	3
C12orf51	283450	broad.mit.edu	36	12	111105327	111105327	+	Missense_Mutation	SNP	C	G	G			TCGA-41-3392-01	TCGA-41-3392-01	C	C								Phase_I	Unspecified				Illumina GAIIx	g.chr12:111105327C>G	uc009zwc.1	-	c.9640G>C	c.(9640-9642)GTG>CTG	p.V3214L		NM_001109662	NP_001103132			chromosome 12 open reading frame 51											ovary(1)	1														0.357143	346.339735	351.365581	100	180	CC		KEEP	---	---	---	---	capture			Missense_Mutation	SNP	111105327	111105327	1740	12	C	G	G	19	19	C12orf51	G	3	3
CALCOCO1	57658	broad.mit.edu	36	12	52403792	52403792	+	Missense_Mutation	SNP	C	T	T			TCGA-41-3392-01	TCGA-41-3392-01	C	C								Phase_I	Unspecified				Illumina GAIIx	g.chr12:52403792C>T	uc001sef.1	-	c.302G>A	c.(301-303)CGA>CAA	p.R101Q	CALCOCO1_uc009znd.1_Missense_Mutation_p.R101Q|CALCOCO1_uc001seg.1_Intron|CALCOCO1_uc001seh.1_Missense_Mutation_p.R101Q	NM_020898	NP_065949	Q9P1Z2	CACO1_HUMAN	coiled-coil transcriptional coactivator isoform	101	N-terminal AD (CTNNB1 binding site) (By similarity).				steroid hormone receptor signaling pathway|transcription, DNA-dependent|Wnt receptor signaling pathway	cytoplasm	armadillo repeat domain binding|beta-catenin binding|ligand-dependent nuclear receptor transcription coactivator activity|protein C-terminus binding|sequence-specific DNA binding|transcription regulatory region DNA binding			ovary(1)	1														0.38806	76.03869	76.772811	26	41	CC		KEEP	---	---	---	---	capture			Missense_Mutation	SNP	52403792	52403792	2693	12	C	T	T	31	31	CALCOCO1	T	1	1
HOXC11	3227	broad.mit.edu	36	12	52655359	52655359	+	Silent	SNP	C	T	T			TCGA-41-3392-01	TCGA-41-3392-01	C	C								Phase_I	Unspecified				Illumina GAIIx	g.chr12:52655359C>T	uc001sem.1	+	c.810C>T	c.(808-810)AAC>AAT	p.N270N		NM_014212	NP_055027	O43248	HXC11_HUMAN	homeobox C11	270	Homeobox.				endoderm development|regulation of transcription, DNA-dependent	nucleus	RNA polymerase II transcription factor activity|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity				0										53				0.373494	86.093482	87.263712	31	52	CC		KEEP	---	---	---	---	capture			Silent	SNP	52655359	52655359	7602	12	C	T	T	18	18	HOXC11	T	2	2
OR6C4	341418	broad.mit.edu	36	12	54231858	54231858	+	Missense_Mutation	SNP	A	G	G			TCGA-41-3392-01	TCGA-41-3392-01	A	A								Phase_I	Unspecified				Illumina GAIIx	g.chr12:54231858A>G	uc001shc.1	+	c.581A>G	c.(580-582)GAA>GGA	p.E194G		NM_001005494	NP_001005494	Q8NGE1	OR6C4_HUMAN	olfactory receptor, family 6, subfamily C,	194	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity				0														0.35625	190.137783	193.047322	57	103	AA		KEEP	---	---	---	---	capture			Missense_Mutation	SNP	54231858	54231858	11603	12	A	G	G	9	9	OR6C4	G	4	4
B4GALNT1	2583	broad.mit.edu	36	12	56306841	56306841	+	Missense_Mutation	SNP	G	A	A			TCGA-41-3392-01	TCGA-41-3392-01	G	G								Phase_I	Unspecified				Illumina GAIIx	g.chr12:56306841G>A	uc001spg.1	-	c.1555C>T	c.(1555-1557)CGG>TGG	p.R519W		NM_001478	NP_001469	Q00973	B4GN1_HUMAN	beta-1,4-N-acetyl-galactosaminyl transferase 1	519	Lumenal (Potential).				lipid glycosylation	integral to Golgi membrane|membrane fraction	(N-acetylneuraminyl)-galactosylglucosylceramide N-acetylgalactosaminyltransferase activity				0	Melanoma(17;0.122)													0.386047	262.279305	264.725161	83	132	GG		KEEP	---	---	---	---	capture	BRCA - Breast invasive adenocarcinoma(9;0.109)		Missense_Mutation	SNP	56306841	56306841	1287	12	G	A	A	39	39	B4GALNT1	A	1	1
PHLDA1	22822	broad.mit.edu	36	12	74710680	74710680	+	Missense_Mutation	SNP	G	A	A			TCGA-41-3392-01	TCGA-41-3392-01	G	G								Phase_I	Unspecified				Illumina GAIIx	g.chr12:74710680G>A	uc001sxu.1	-	c.1109C>T	c.(1108-1110)CCG>CTG	p.P370L	PHLDA1_uc009zsd.1_Missense_Mutation_p.P370L	NM_007350	NP_031376	Q8WV24	PHLA1_HUMAN	pleckstrin homology-like domain, family A,	370	14 X 2 AA repeats of P-H.				apoptosis	cytoplasmic vesicle membrane|nucleolus|plasma membrane	protein binding				0		Colorectal(145;0.09)												0.5	45.749138	45.749138	14	14	GG		KEEP	---	---	---	---	capture			Missense_Mutation	SNP	74710680	74710680	12272	12	G	A	A	39	39	PHLDA1	A	1	1
CLYBL	171425	broad.mit.edu	36	13	99223264	99223264	+	Missense_Mutation	SNP	A	C	C			TCGA-41-3392-01	TCGA-41-3392-01	A	A								Phase_I	Unspecified				Illumina GAIIx	g.chr13:99223264A>C	uc001vok.1	+	c.248A>C	c.(247-249)AAG>ACG	p.K83T		NM_206808	NP_996531	Q8N0X4	CLYBL_HUMAN	citrate lyase beta like	83					cellular aromatic compound metabolic process	citrate lyase complex|mitochondrion	citrate (pro-3S)-lyase activity|metal ion binding				0	all_neural(89;0.0837)|Medulloblastoma(90;0.18)|Lung SC(71;0.184)													0.575221	190.359334	190.912623	65	48	AA		KEEP	---	---	---	---	capture			Missense_Mutation	SNP	99223264	99223264	3711	13	A	C	C	3	3	CLYBL	C	4	4
OR11G2	390439	broad.mit.edu	36	14	19735529	19735529	+	Silent	SNP	C	G	G			TCGA-41-3392-01	TCGA-41-3392-01	C	C								Phase_I	Unspecified				Illumina GAIIx	g.chr14:19735529C>G	uc001vwq.1	+	c.195C>G	c.(193-195)CTC>CTG	p.L65L		NM_001005503	NP_001005503	Q8NGC1	O11G2_HUMAN	olfactory receptor, family 11, subfamily G,	65	Helical; Name=1; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)	1	all_cancers(95;0.00108)													0.223529	53.979387	59.9522	19	66	CC		KEEP	---	---	---	---	capture	Epithelial(56;9.76e-07)|all cancers(55;5.61e-06)	GBM - Glioblastoma multiforme(265;0.0144)	Silent	SNP	19735529	19735529	11331	14	C	G	G	32	32	OR11G2	G	3	3
ADAM20	8748	broad.mit.edu	36	14	70059268	70059268	+	Missense_Mutation	SNP	A	T	T			TCGA-41-3392-01	TCGA-41-3392-01	A	A								Phase_I	Unspecified				Illumina GAIIx	g.chr14:70059268A>T	uc001xme.1	-	c.2110T>A	c.(2110-2112)TGC>AGC	p.C704S	ADAM20_uc010ard.1_Missense_Mutation_p.C704S	NM_003814	NP_003805	O43506	ADA20_HUMAN	ADAM metallopeptidase domain 20 preproprotein	654	EGF-like.|Extracellular (Potential).				proteolysis|single fertilization	integral to membrane	metalloendopeptidase activity|zinc ion binding			skin(1)	1														0.322511	434.22709	447.142872	149	313	AA		KEEP	---	---	---	---	capture	KIRC - Kidney renal clear cell carcinoma(12;0.133)|Kidney(31;0.188)	all cancers(60;0.00294)|BRCA - Breast invasive adenocarcinoma(234;0.00668)|OV - Ovarian serous cystadenocarcinoma(108;0.0344)	Missense_Mutation	SNP	70059268	70059268	243	14	A	T	T	7	7	ADAM20	T	4	4
RASGRF1	5923	broad.mit.edu	36	15	77083213	77083213	+	Missense_Mutation	SNP	G	A	A			TCGA-41-3392-01	TCGA-41-3392-01	G	G								Phase_I	Unspecified				Illumina GAIIx	g.chr15:77083213G>A	uc002beq.1	-	c.2483C>T	c.(2482-2484)GCG>GTG	p.A828V	RASGRF1_uc002beo.1_Missense_Mutation_p.A44V|RASGRF1_uc002bep.1_Missense_Mutation_p.A673V|RASGRF1_uc010blm.1_Missense_Mutation_p.A737V|RASGRF1_uc002ber.2_Missense_Mutation_p.A812V	NM_002891	NP_002882	Q13972	RGRF1_HUMAN	Ras protein-specific guanine	830					activation of Rac GTPase activity|apoptosis|induction of apoptosis by extracellular signals|long-term memory|nerve growth factor receptor signaling pathway|neuron projection development|regulation of Rac protein signal transduction|small GTPase mediated signal transduction|synaptic transmission	cytosol|growth cone|plasma membrane|synaptosome	Rho guanyl-nucleotide exchange factor activity			skin(2)|ovary(1)|central_nervous_system(1)	4									p.A828V(SKUT1-Tumor)	694				0.493976	122.871131	122.873754	41	42	GG		KEEP	---	---	---	---	capture			Missense_Mutation	SNP	77083213	77083213	13533	15	G	A	A	38	38	RASGRF1	A	1	1
PHLPP2	23035	broad.mit.edu	36	16	70246761	70246761	+	Missense_Mutation	SNP	C	T	T			TCGA-41-3392-01	TCGA-41-3392-01	C	C								Phase_I	Unspecified				Illumina GAIIx	g.chr16:70246761C>T	uc002fax.1	-	c.2468G>A	c.(2467-2469)CGA>CAA	p.R823Q	PHLPP2_uc002fav.2_Non-coding_Transcript|PHLPP2_uc010cgf.1_Missense_Mutation_p.R756Q	NM_015020	NP_055835	Q6ZVD8	PHLP2_HUMAN	PH domain and leucine rich repeat protein	823	PP2C-like.					cytoplasm|membrane|nucleus	metal ion binding|phosphoprotein phosphatase activity			central_nervous_system(1)	1														0.48954	358.793245	358.814834	117	122	CC		KEEP	---	---	---	---	capture			Missense_Mutation	SNP	70246761	70246761	12279	16	C	T	T	31	31	PHLPP2	T	1	1
CDH15	1013	broad.mit.edu	36	16	87784223	87784223	+	Silent	SNP	G	A	A			TCGA-41-3392-01	TCGA-41-3392-01	G	G								Phase_I	Unspecified				Illumina GAIIx	g.chr16:87784223G>A	uc002fmt.1	+	c.1050G>A	c.(1048-1050)GCG>GCA	p.A350A		NM_004933	NP_004924	P55291	CAD15_HUMAN	cadherin 15 preproprotein	350	Cadherin 3.|Extracellular (Potential).				adherens junction organization|cell junction assembly|homophilic cell adhesion|muscle cell differentiation|positive regulation of muscle cell differentiation	integral to membrane|plasma membrane	calcium ion binding				0														0.391304	26.089735	26.32065	9	14	GG		KEEP	---	---	---	---	capture		BRCA - Breast invasive adenocarcinoma(80;0.0261)	Silent	SNP	87784223	87784223	3229	16	G	A	A	39	39	CDH15	A	1	1
XAF1	54739	broad.mit.edu	36	17	6604544	6604544	+	Missense_Mutation	SNP	C	G	G			TCGA-41-3392-01	TCGA-41-3392-01	C	C								Phase_I	Unspecified				Illumina GAIIx	g.chr17:6604544C>G	uc002gdn.1	+	c.321C>G	c.(319-321)AGC>AGG	p.S107R	XAF1_uc010clr.1_Missense_Mutation_p.S107R|XAF1_uc002gdm.1_Missense_Mutation_p.S47R|XAF1_uc002gdo.1_Missense_Mutation_p.S88R|XAF1_uc002gdp.1_Missense_Mutation_p.A85G|XAF1_uc002gdq.1_Intron|XAF1_uc002gdr.1_Missense_Mutation_p.A66G	NM_017523	NP_059993	Q6GPH4	XAF1_HUMAN	XIAP associated factor 1 isoform 1	107					apoptosis|type I interferon-mediated signaling pathway	mitochondrion|nucleus	zinc ion binding				0														0.3	6.306755	6.673771	3	7	CC		KEEP	---	---	---	---	capture			Missense_Mutation	SNP	6604544	6604544	17993	17	C	G	G	26	26	XAF1	G	3	3
CARD14	79092	broad.mit.edu	36	17	75772412	75772412	+	Missense_Mutation	SNP	G	A	A			TCGA-41-3392-01	TCGA-41-3392-01	G	G								Phase_I	Unspecified				Illumina GAIIx	g.chr17:75772412G>A	uc002jxw.1	+	c.455G>A	c.(454-456)CGG>CAG	p.R152Q	CARD14_uc002jxt.1_Non-coding_Transcript|CARD14_uc002jxv.2_Missense_Mutation_p.R152Q	NM_024110	NP_077015	Q9BXL6	CAR14_HUMAN	caspase recruitment domain protein 14 isoform 1	152	Potential.				activation of NF-kappaB-inducing kinase activity|positive regulation of protein phosphorylation|regulation of apoptosis	aggresome|cytoplasm|plasma membrane	CARD domain binding			ovary(4)|skin(1)	5	all_neural(118;0.0952)									565				0.4	6.349044	6.392764	2	3	GG		KEEP	---	---	---	---	capture	OV - Ovarian serous cystadenocarcinoma(97;0.017)|BRCA - Breast invasive adenocarcinoma(99;0.0908)		Missense_Mutation	SNP	75772412	75772412	2765	17	G	A	A	39	39	CARD14	A	1	1
BAIAP2	10458	broad.mit.edu	36	17	76695215	76695215	+	Silent	SNP	C	T	T			TCGA-41-3392-01	TCGA-41-3392-01	C	C								Phase_I	Unspecified				Illumina GAIIx	g.chr17:76695215C>T	uc002jze.1	+	c.1512C>T	c.(1510-1512)TAC>TAT	p.Y504Y	BAIAP2_uc002jyz.2_Silent_p.Y471Y|BAIAP2_uc002jza.1_Silent_p.Y471Y|BAIAP2_uc002jzb.1_Silent_p.Y228Y|BAIAP2_uc002jzc.1_Silent_p.Y472Y|BAIAP2_uc002jzd.1_Silent_p.Y471Y|BAIAP2_uc002jzf.1_Silent_p.Y471Y|BAIAP2_uc002jzg.1_Silent_p.Y471Y|BAIAP2_uc002jzh.1_Silent_p.Y472Y	NM_006340	NP_006331	Q9UQB8	BAIP2_HUMAN	BAI1-associated protein 2 isoform 3	471					axonogenesis|filopodium assembly|insulin receptor signaling pathway|regulation of actin cytoskeleton organization|response to bacterium	cell junction|cytoskeleton|cytosol|filopodium|nucleus|ruffle	cytoskeletal adaptor activity|proline-rich region binding|protein C-terminus binding|SH3 domain binding				0	all_neural(118;0.101)													0.44898	60.229394	60.341689	22	27	CC		KEEP	---	---	---	---	capture	BRCA - Breast invasive adenocarcinoma(99;0.0228)|OV - Ovarian serous cystadenocarcinoma(97;0.0524)		Silent	SNP	76695215	76695215	1322	17	C	T	T	19	19	BAIAP2	T	1	1
FECH	2235	broad.mit.edu	36	18	53381198	53381198	+	Missense_Mutation	SNP	T	C	C			TCGA-41-3392-01	TCGA-41-3392-01	T	T								Phase_I	Unspecified				Illumina GAIIx	g.chr18:53381198T>C	uc002lgp.2	-	c.629A>G	c.(628-630)AAT>AGT	p.N210S	FECH_uc002lgq.2_Missense_Mutation_p.N204S|FECH_uc002lgr.2_Missense_Mutation_p.N62S	NM_001012515	NP_001012533	P22830	HEMH_HUMAN	ferrochelatase isoform a precursor	204					generation of precursor metabolites and energy|heme biosynthetic process|protoporphyrinogen IX metabolic process|response to light stimulus	mitochondrial inner membrane|mitochondrial matrix	2 iron, 2 sulfur cluster binding|ferrochelatase activity|ferrous iron binding|protein binding			central_nervous_system(1)	1		Colorectal(73;0.227)												0.294118	51.305977	53.239758	15	36	TT		KEEP	---	---	---	---	capture			Missense_Mutation	SNP	53381198	53381198	6045	18	T	C	C	52	52	FECH	C	4	4
CYP4F8	11283	broad.mit.edu	36	19	15589930	15589930	+	Silent	SNP	C	T	T			TCGA-41-3392-01	TCGA-41-3392-01	C	C								Phase_I	Unspecified				Illumina GAIIx	g.chr19:15589930C>T	uc002nbi.1	+	c.318C>T	c.(316-318)ATC>ATT	p.I106I		NM_007253	NP_009184	P98187	CP4F8_HUMAN	cytochrome P450, family 4, subfamily F,	106					oxidation-reduction process|prostaglandin metabolic process|xenobiotic metabolic process	endoplasmic reticulum membrane|integral to membrane|microsome	alkane 1-monooxygenase activity|aromatase activity|electron carrier activity|heme binding|oxygen binding|protein binding			large_intestine(1)	1														0.434524	221.451019	222.078654	73	95	CC		KEEP	---	---	---	---	capture			Silent	SNP	15589930	15589930	4356	19	C	T	T	31	31	CYP4F8	T	1	1
KCNA7	3743	broad.mit.edu	36	19	54265281	54265281	+	Missense_Mutation	SNP	C	T	T			TCGA-41-3392-01	TCGA-41-3392-01	C	C								Phase_I	Unspecified				Illumina GAIIx	g.chr19:54265281C>T	uc002pmg.1	-	c.1222G>A	c.(1222-1224)GAA>AAA	p.E408K		NM_031886	NP_114092	Q96RP8	KCNA7_HUMAN	potassium voltage-gated channel, shaker-related	408						voltage-gated potassium channel complex	voltage-gated potassium channel activity			central_nervous_system(1)	1		all_lung(116;1.7e-06)|Lung NSC(112;3.55e-06)|all_epithelial(76;3.83e-06)|all_neural(266;0.0189)|Ovarian(192;0.0261)				Colon(74;686 1235 3793 23366 48562)								0.302632	62.805543	65.443031	23	53	CC		KEEP	---	---	---	---	capture		all cancers(93;0.000397)|OV - Ovarian serous cystadenocarcinoma(262;0.000519)|GBM - Glioblastoma multiforme(486;0.00541)|Epithelial(262;0.0441)	Missense_Mutation	SNP	54265281	54265281	8313	19	C	T	T	31	31	KCNA7	T	1	1
UBE4B	10277	broad.mit.edu	36	1	10143872	10143872	+	Nonsense_Mutation	SNP	C	T	T			TCGA-41-3392-01	TCGA-41-3392-01	C	C								Phase_I	Unspecified				Illumina GAIIx	g.chr1:10143872C>T	uc001aqs.2	+	c.3139C>T	c.(3139-3141)CGA>TGA	p.R1047*	UBE4B_uc001aqr.2_Nonsense_Mutation_p.R918*	NM_001105562	NP_001099032	O95155	UBE4B_HUMAN	ubiquitination factor E4B isoform 1	1047					apoptosis|protein ubiquitination involved in ubiquitin-dependent protein catabolic process|response to UV	cytoplasm|ubiquitin ligase complex	enzyme binding			ovary(2)|skin(1)	3		all_lung(284;1.13e-05)|Lung NSC(185;1.74e-05)|Renal(390;0.000147)|Breast(348;0.00093)|Colorectal(325;0.00205)|Hepatocellular(190;0.00913)|Ovarian(437;0.0228)|Myeloproliferative disorder(586;0.0255)												0.29661	93.281184	97.645335	35	83	CC		KEEP	---	---	---	---	capture		UCEC - Uterine corpus endometrioid carcinoma (279;0.0268)|Colorectal(212;1.42e-07)|COAD - Colon adenocarcinoma(227;2.77e-05)|BRCA - Breast invasive adenocarcinoma(304;0.000435)|Kidney(185;0.000482)|KIRC - Kidney renal clear cell carcinoma(229;0.00164)|STAD - Stomach adenocarcinoma(132;0.0117)|READ - Rectum adenocarcinoma(331;0.046)	Nonsense_Mutation	SNP	10143872	10143872	17441	1	C	T	T	27	27	UBE4B	T	5	1
GJA8	2703	broad.mit.edu	36	1	145846835	145846835	+	Silent	SNP	C	T	T			TCGA-41-3392-01	TCGA-41-3392-01	C	C								Phase_I	Unspecified				Illumina GAIIx	g.chr1:145846835C>T	uc001epu.1	+	c.129C>T	c.(127-129)TTC>TTT	p.F43F	NBPF11_uc009wjd.1_Intron|NBPF11_uc009wje.1_Intron|GJA8_uc009wjl.1_Silent_p.F43F	NM_005267	NP_005258	P48165	CXA8_HUMAN	connexin 50	43	Helical; (Potential).				cell communication|visual perception	connexon complex|integral to plasma membrane	channel activity			ovary(2)|large_intestine(2)|breast(1)	5	all_hematologic(923;0.0276)					Melanoma(76;1255 1795 8195 52096)								0.5	173.584029	173.584029	57	57	CC		KEEP	---	---	---	---	capture			Silent	SNP	145846835	145846835	6673	1	C	T	T	31	31	GJA8	T	1	1
FLG	2312	broad.mit.edu	36	1	150545439	150545439	+	Silent	SNP	G	A	A			TCGA-41-3392-01	TCGA-41-3392-01	G	G								Phase_I	Unspecified				Illumina GAIIx	g.chr1:150545439G>A	uc001ezu.1	-	c.8547C>T	c.(8545-8547)GAC>GAT	p.D2849D		NM_002016	NP_002007	P20930	FILA_HUMAN	filaggrin	2849	Ser-rich.|Filaggrin 17.				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)													0.169364	278.422027	374.376771	157	770	GG		KEEP	---	---	---	---	capture	LUSC - Lung squamous cell carcinoma(543;0.206)		Silent	SNP	150545439	150545439	6160	1	G	A	A	40	40	FLG	A	1	1
CACNA1S	779	broad.mit.edu	36	1	199313716	199313716	+	Silent	SNP	G	T	T			TCGA-41-3392-01	TCGA-41-3392-01	G	G								Phase_I	Unspecified				Illumina GAIIx	g.chr1:199313716G>T	uc001gvv.1	-	c.1533C>A	c.(1531-1533)ATC>ATA	p.I511I		NM_000069	NP_000060	Q13698	CAC1S_HUMAN	calcium channel, voltage-dependent, L type,	511	Helical; Name=S3 of repeat II; (Potential).|II.				axon guidance	I band|T-tubule|voltage-gated calcium channel complex	high voltage-gated calcium channel activity			ovary(3)|central_nervous_system(1)	4					Magnesium Sulfate(DB00653)|Verapamil(DB00661)									0.233766	38.525714	43.511748	18	59	GG		KEEP	---	---	---	---	capture			Silent	SNP	199313716	199313716	2663	1	G	T	T	41	41	CACNA1S	T	3	3
REN	5972	broad.mit.edu	36	1	202396361	202396361	+	Missense_Mutation	SNP	G	A	A			TCGA-41-3392-01	TCGA-41-3392-01	G	G								Phase_I	Unspecified				Illumina GAIIx	g.chr1:202396361G>A	uc001haq.1	-	c.442C>T	c.(442-444)CGC>TGC	p.R148C		NM_000537	NP_000528	P00797	RENI_HUMAN	renin preproprotein	148					angiotensin maturation|regulation of MAPKKK cascade	extracellular space|membrane	aspartic-type endopeptidase activity			central_nervous_system(1)	1	all_cancers(21;0.00965)|Breast(84;0.116)|all_epithelial(62;0.157)				Aliskiren(DB01258)|Remikiren(DB00212)									0.333333	83.652909	85.789711	29	58	GG		KEEP	---	---	---	---	capture	KIRC - Kidney renal clear cell carcinoma(13;0.0584)|Kidney(21;0.0934)|BRCA - Breast invasive adenocarcinoma(75;0.109)		Missense_Mutation	SNP	202396361	202396361	13693	1	G	A	A	39	39	REN	A	1	1
RASSF5	83593	broad.mit.edu	36	1	204826807	204826807	+	Silent	SNP	T	G	G			TCGA-41-3392-01	TCGA-41-3392-01	T	T								Phase_I	Unspecified				Illumina GAIIx	g.chr1:204826807T>G	uc001hed.1	+	c.1131T>G	c.(1129-1131)CTT>CTG	p.L377L	RASSF5_uc001hec.1_3'UTR|RASSF5_uc001hee.1_3'UTR|RASSF5_uc001hef.1_Silent_p.L224L|RASSF5_uc001heg.1_3'UTR	NM_182663	NP_872604	Q8WWW0	RASF5_HUMAN	Ras association (RalGDS/AF-6) domain family 5	377	SARAH.				apoptosis|intracellular signal transduction	cytoplasm|microtubule	metal ion binding|protein binding			ovary(1)	1	Breast(84;0.183)					GBM(162;656 1984 11916 22872 31529)								0.20354	123.203974	141.670073	46	180	TT		KEEP	---	---	---	---	capture	BRCA - Breast invasive adenocarcinoma(75;0.166)		Silent	SNP	204826807	204826807	13550	1	T	G	G	62	62	RASSF5	G	4	4
IRF6	3664	broad.mit.edu	36	1	208030607	208030607	+	Missense_Mutation	SNP	C	T	T			TCGA-41-3392-01	TCGA-41-3392-01	C	C								Phase_I	Unspecified				Illumina GAIIx	g.chr1:208030607C>T	uc001hhq.1	-	c.916G>A	c.(916-918)GTC>ATC	p.V306I	IRF6_uc009xct.1_Missense_Mutation_p.V306I	NM_006147	NP_006138	O14896	IRF6_HUMAN	interferon regulatory factor 6	306					cell cycle arrest|interferon-gamma-mediated signaling pathway|mammary gland epithelial cell differentiation|negative regulation of cell proliferation|positive regulation of transcription, DNA-dependent|type I interferon-mediated signaling pathway	cytoplasm|nucleus	DNA binding|protein binding|sequence-specific DNA binding transcription factor activity			ovary(2)	2														0.415094	125.075458	125.743807	44	62	CC		KEEP	---	---	---	---	capture		OV - Ovarian serous cystadenocarcinoma(81;0.0351)	Missense_Mutation	SNP	208030607	208030607	8137	1	C	T	T	18	18	IRF6	T	2	2
OR2T12	127064	broad.mit.edu	36	1	246524810	246524810	+	Missense_Mutation	SNP	G	A	A			TCGA-41-3392-01	TCGA-41-3392-01	G	G								Phase_I	Unspecified				Illumina GAIIx	g.chr1:246524810G>A	uc001iee.1	-	c.694C>T	c.(694-696)CGC>TGC	p.R232C		NM_001004692	NP_001004692	Q8NG77	O2T12_HUMAN	olfactory receptor, family 2, subfamily T,	232	Cytoplasmic (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)	1	all_cancers(71;0.000108)|all_epithelial(71;1.03e-05)|Breast(184;0.00909)|Ovarian(71;0.0377)|all_lung(81;0.127)|Lung NSC(105;0.136)													0.527778	184.071438	184.143762	57	51	GG		KEEP	---	---	---	---	capture	OV - Ovarian serous cystadenocarcinoma(106;0.0201)		Missense_Mutation	SNP	246524810	246524810	11425	1	G	A	A	39	39	OR2T12	A	1	1
FRRS1	391059	broad.mit.edu	36	1	99949087	99949087	+	Missense_Mutation	SNP	G	C	C			TCGA-41-3392-01	TCGA-41-3392-01	G	G								Phase_I	Unspecified				Illumina GAIIx	g.chr1:99949087G>C	uc001dsh.1	-	c.1487C>G	c.(1486-1488)GCG>GGG	p.A496G		NM_001013660	NP_001013682	Q6ZNA5	FRRS1_HUMAN	stromal cell derived factor receptor 2 homolog	496	Helical; Name=5; (Potential).|Cytochrome b561.				electron transport chain|transport	integral to membrane	ferric-chelate reductase activity|metal ion binding				0		all_epithelial(167;2.09e-06)|all_lung(203;0.000435)|Lung NSC(277;0.00201)												0.315789	6.394791	7.059799	6	13	GG		KEEP	---	---	---	---	capture		Epithelial(280;0.0718)|all cancers(265;0.126)|COAD - Colon adenocarcinoma(174;0.148)|Lung(183;0.206)	Missense_Mutation	SNP	99949087	99949087	6310	1	G	C	C	38	38	FRRS1	C	3	3
PTPRT	11122	broad.mit.edu	36	20	40534413	40534413	+	Missense_Mutation	SNP	G	A	A			TCGA-41-3392-01	TCGA-41-3392-01	G	G								Phase_I	Unspecified				Illumina GAIIx	g.chr20:40534413G>A	uc010ggj.1	-	c.1357C>T	c.(1357-1359)CGC>TGC	p.R453C	PTPRT_uc002xkg.1_Missense_Mutation_p.R453C	NM_133170	NP_573400	O14522	PTPRT_HUMAN	protein tyrosine phosphatase, receptor type, T	453	Extracellular (Potential).|Fibronectin type-III 2.		R -> C (in a gastric cancer).		homophilic cell adhesion|transmembrane receptor protein tyrosine kinase signaling pathway	cell surface|integral to membrane|plasma membrane	alpha-catenin binding|beta-catenin binding|cadherin binding|delta-catenin binding|gamma-catenin binding|protein tyrosine phosphatase activity|receptor activity			ovary(7)|lung(5)|skin(2)	14		Myeloproliferative disorder(115;0.00452)|Lung NSC(126;0.0573)|all_lung(126;0.0783)								646				0.415254	140.759024	141.497231	49	69	GG		KEEP	---	---	---	---	capture			Missense_Mutation	SNP	40534413	40534413	13270	20	G	A	A	38	38	PTPRT	A	1	1
SLC13A3	64849	broad.mit.edu	36	20	44637722	44637722	+	Missense_Mutation	SNP	G	C	C			TCGA-41-3392-01	TCGA-41-3392-01	G	G								Phase_I	Unspecified				Illumina GAIIx	g.chr20:44637722G>C	uc002xsf.1	-	c.1229C>G	c.(1228-1230)ACA>AGA	p.T410R	SLC13A3_uc002xsg.1_Missense_Mutation_p.T363R|SLC13A3_uc010gho.1_Missense_Mutation_p.T328R|SLC13A3_uc010ghn.1_Missense_Mutation_p.T379R	NM_022829	NP_073740	Q8WWT9	S13A3_HUMAN	solute carrier family 13 member 3 isoform a	410	Cytoplasmic (Potential).					integral to membrane|plasma membrane	high affinity sodium:dicarboxylate symporter activity			ovary(1)	1		Myeloproliferative disorder(115;0.0122)			Succinic acid(DB00139)									0.727273	30.905274	31.417328	8	3	GG		KEEP	---	---	---	---	capture			Missense_Mutation	SNP	44637722	44637722	14888	20	G	C	C	48	48	SLC13A3	C	3	3
KRTAP10-1	386677	broad.mit.edu	36	21	44783909	44783909	+	Missense_Mutation	SNP	C	T	T			TCGA-41-3392-01	TCGA-41-3392-01	C	C								Phase_I	Unspecified				Illumina GAIIx	g.chr21:44783909C>T	uc002zfh.1	-	c.553G>A	c.(553-555)GTG>ATG	p.V185M	C21orf29_uc002zfe.1_Intron|C21orf29_uc010gpv.1_Intron	NM_198691	NP_941964	P60331	KR101_HUMAN	keratin associated protein 10-1	185	16.|24 X 5 AA repeats of C-C-X(3).					keratin filament					0														0.335106	169.884671	174.399069	63	125	CC		KEEP	---	---	---	---	capture			Missense_Mutation	SNP	44783909	44783909	8820	21	C	T	T	19	19	KRTAP10-1	T	1	1
COL6A2	1292	broad.mit.edu	36	21	46356709	46356709	+	Missense_Mutation	SNP	C	G	G			TCGA-41-3392-01	TCGA-41-3392-01	C	C								Phase_I	Unspecified				Illumina GAIIx	g.chr21:46356709C>G	uc002zia.1	+	c.504C>G	c.(502-504)AGC>AGG	p.S168R	COL6A2_uc002zhy.1_Missense_Mutation_p.S168R|COL6A2_uc002zhz.1_Missense_Mutation_p.S168R|COL6A2_uc002zib.1_Intron	NM_001849	NP_001840	P12110	CO6A2_HUMAN	alpha 2 type VI collagen isoform 2C2 precursor	168	VWFA 1.|Nonhelical region.				axon guidance|cell-cell adhesion|extracellular matrix organization|protein heterotrimerization	collagen|extracellular space|protein complex	extracellular matrix structural constituent|protein binding, bridging			central_nervous_system(7)|ovary(1)	8	Breast(49;0.245)													0.266667	6.387828	7.13671	4	11	CC		KEEP	---	---	---	---	capture		Colorectal(79;0.0303)|READ - Rectum adenocarcinoma(84;0.0649)	Missense_Mutation	SNP	46356709	46356709	3838	21	C	G	G	26	26	COL6A2	G	3	3
CABIN1	23523	broad.mit.edu	36	22	22769394	22769394	+	Missense_Mutation	SNP	A	G	G			TCGA-41-3392-01	TCGA-41-3392-01	A	A								Phase_I	Unspecified				Illumina GAIIx	g.chr22:22769394A>G	uc002zzi.1	+	c.374A>G	c.(373-375)AAC>AGC	p.N125S	CABIN1_uc002zzj.1_Missense_Mutation_p.N125S|CABIN1_uc002zzl.1_Missense_Mutation_p.N125S|CABIN1_uc010guk.1_Missense_Mutation_p.N80S|CABIN1_uc002zzk.1_Missense_Mutation_p.N80S	NM_012295	NP_036427	Q9Y6J0	CABIN_HUMAN	calcineurin binding protein 1	125	TPR 3.				cell surface receptor linked signaling pathway|chromatin modification	nucleus	protein phosphatase inhibitor activity			ovary(2)|central_nervous_system(1)|pancreas(1)	4														0.464646	165.463991	165.568961	46	53	AA		KEEP	---	---	---	---	capture			Missense_Mutation	SNP	22769394	22769394	2644	22	A	G	G	2	2	CABIN1	G	4	4
NEB	4703	broad.mit.edu	36	2	152289104	152289104	+	Nonsense_Mutation	SNP	C	T	T			TCGA-41-3392-01	TCGA-41-3392-01	C	C								Phase_I	Unspecified				Illumina GAIIx	g.chr2:152289104C>T	uc010fnx.1	-	c.528G>A	c.(526-528)TGG>TGA	p.W176*		NM_004543	NP_004534	P20929	NEBU_HUMAN	nebulin	176	Nebulin 3.				muscle filament sliding|muscle organ development|regulation of actin filament length|somatic muscle development	actin cytoskeleton|cytosol|Z disc	actin binding|structural constituent of muscle			ovary(8)|large_intestine(5)|breast(3)|central_nervous_system(1)|skin(1)|pancreas(1)	19														0.323529	31.813278	32.753129	11	23	CC		KEEP	---	---	---	---	capture		BRCA - Breast invasive adenocarcinoma(221;0.219)	Nonsense_Mutation	SNP	152289104	152289104	10701	2	C	T	T	22	22	NEB	T	5	2
C2orf83	56918	broad.mit.edu	36	2	228184536	228184536	+	Missense_Mutation	SNP	T	A	A			TCGA-41-3392-01	TCGA-41-3392-01	T	T								Phase_I	Unspecified				Illumina GAIIx	g.chr2:228184536T>A	uc002vph.1	-	c.271A>T	c.(271-273)ATT>TTT	p.I91F	C2orf83_uc010fxg.1_Non-coding_Transcript	NM_020161	NP_064546	Q53S99	CB083_HUMAN	hypothetical protein LOC56918	91						membrane	folic acid binding|reduced folate carrier activity				0														0.107143	14.433592	31.568994	12	100	TT		KEEP	---	---	---	---	capture			Missense_Mutation	SNP	228184536	228184536	2290	2	T	A	A	51	51	C2orf83	A	4	4
WDR92	116143	broad.mit.edu	36	2	68211906	68211906	+	Missense_Mutation	SNP	C	G	G			TCGA-41-3392-01	TCGA-41-3392-01	C	C								Phase_I	Unspecified				Illumina GAIIx	g.chr2:68211906C>G	uc002see.1	-	c.1042G>C	c.(1042-1044)GTA>CTA	p.V348L	WDR92_uc002sed.1_Intron	NM_138458	NP_612467	Q96MX6	WDR92_HUMAN	monad	348	WD 6.				apoptosis|histone lysine methylation		methylated histone residue binding				0														0.090498	18.021492	55.402115	20	201	CC		KEEP	---	---	---	---	capture			Missense_Mutation	SNP	68211906	68211906	17913	2	C	G	G	20	20	WDR92	G	3	3
TTC31	64427	broad.mit.edu	36	2	74564007	74564007	+	Missense_Mutation	SNP	C	T	T			TCGA-41-3392-01	TCGA-41-3392-01	C	C								Phase_I	Unspecified				Illumina GAIIx	g.chr2:74564007C>T	uc002slt.1	+	c.91C>T	c.(91-93)CTT>TTT	p.L31F	CCDC142_uc002slo.1_5'Flank|CCDC142_uc002slq.1_5'Flank|CCDC142_uc002slr.1_5'Flank|TTC31_uc002sls.1_5'UTR|TTC31_uc002slu.1_5'UTR	NM_022492	NP_071937	Q49AM3	TTC31_HUMAN	tetratricopeptide repeat domain 31	31							binding				0												OREG0014719	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	0.254098	80.264868	86.961661	31	91	CC		KEEP	---	---	---	---	capture			Missense_Mutation	SNP	74564007	74564007	17255	2	C	T	T	20	20	TTC31	T	2	2
PLCL2	23228	broad.mit.edu	36	3	17027415	17027415	+	Missense_Mutation	SNP	A	T	T			TCGA-41-3392-01	TCGA-41-3392-01	A	A								Phase_I	Unspecified				Illumina GAIIx	g.chr3:17027415A>T	uc003cbc.2	+	c.1195A>T	c.(1195-1197)ATT>TTT	p.I399F	PLCL2_uc010het.1_Missense_Mutation_p.H126L	NM_015184	NP_055999	Q9UPR0	PLCL2_HUMAN	phospholipase C-like 2 isoform 2	525	PI-PLC X-box.				intracellular signal transduction|lipid metabolic process	cytoplasm	calcium ion binding|phosphatidylinositol phospholipase C activity|signal transducer activity			ovary(1)|lung(1)	2														0.392857	139.175984	140.301474	44	68	AA		KEEP	---	---	---	---	capture			Missense_Mutation	SNP	17027415	17027415	12466	3	A	T	T	8	8	PLCL2	T	4	4
TNFSF10	8743	broad.mit.edu	36	3	173723847	173723847	+	Missense_Mutation	SNP	C	A	A			TCGA-41-3392-01	TCGA-41-3392-01	C	C								Phase_I	Unspecified				Illumina GAIIx	g.chr3:173723847C>A	uc003fid.1	-	c.22G>T	c.(22-24)GGG>TGG	p.G8W	TNFSF10_uc003fie.1_Missense_Mutation_p.G8W|TNFSF10_uc010hwu.1_Non-coding_Transcript	NM_003810	NP_003801	P50591	TNF10_HUMAN	tumor necrosis factor (ligand) superfamily,	8	Cytoplasmic (Potential).				activation of caspase activity|activation of pro-apoptotic gene products|cell-cell signaling|immune response|induction of apoptosis by extracellular signals|positive regulation of I-kappaB kinase/NF-kappaB cascade|signal transduction	extracellular space|integral to plasma membrane|soluble fraction	cytokine activity|metal ion binding|tumor necrosis factor receptor binding			skin(1)	1	Ovarian(172;0.00197)|Breast(254;0.158)									52				0.319672	100.995303	104.513556	39	83	CC		KEEP	---	---	---	---	capture	Lung(28;1.67e-15)|LUSC - Lung squamous cell carcinoma(14;1.48e-14)|STAD - Stomach adenocarcinoma(35;0.235)		Missense_Mutation	SNP	173723847	173723847	16842	3	C	A	A	22	22	TNFSF10	A	3	3
MUC4	4585	broad.mit.edu	36	3	197000459	197000459	+	Missense_Mutation	SNP	C	T	T			TCGA-41-3392-01	TCGA-41-3392-01	C	C								Phase_I	Unspecified				Illumina GAIIx	g.chr3:197000459C>T	uc010hzt.1	-	c.2387G>A	c.(2386-2388)CGA>CAA	p.R796Q	MUC4_uc003fvo.1_Intron|MUC4_uc003fvp.1_Intron|MUC4_uc010hzu.1_Missense_Mutation_p.R678Q	NM_018406	NP_060876	Q99102	MUC4_HUMAN	mucin 4 isoform a	801	Ser-rich.				cell-matrix adhesion	integral to plasma membrane|proteinaceous extracellular matrix	ErbB-2 class receptor binding|extracellular matrix constituent, lubricant activity				0	all_cancers(143;1.11e-08)|Ovarian(172;0.0634)|Breast(254;0.206)	Lung NSC(153;0.191)												0.413793	163.215331	164.167545	60	85	CC		KEEP	---	---	---	---	capture	Epithelial(36;3.72e-24)|all cancers(36;6.22e-22)|OV - Ovarian serous cystadenocarcinoma(49;1.1e-18)|Lung(62;4.65e-05)|LUSC - Lung squamous cell carcinoma(58;5.31e-05)	GBM - Glioblastoma multiforme(46;2.37e-05)	Missense_Mutation	SNP	197000459	197000459	10372	3	C	T	T	31	31	MUC4	T	1	1
SEC22C	9117	broad.mit.edu	36	3	42577659	42577659	+	Silent	SNP	C	G	G			TCGA-41-3392-01	TCGA-41-3392-01	C	C								Phase_I	Unspecified				Illumina GAIIx	g.chr3:42577659C>G	uc003clj.1	-	c.480G>C	c.(478-480)GTG>GTC	p.V160V	SEC22C_uc003clh.1_Silent_p.V160V|SEC22C_uc010hic.1_Silent_p.V160V|SEC22C_uc003cli.1_Silent_p.V160V	NM_032970	NP_116752	Q9BRL7	SC22C_HUMAN	SEC22 vesicle trafficking protein homolog C	160	Cytoplasmic (Potential).				ER to Golgi vesicle-mediated transport|protein transport	endoplasmic reticulum membrane|integral to membrane					0														0.439716	193.827653	194.274639	62	79	CC		KEEP	---	---	---	---	capture		KIRC - Kidney renal clear cell carcinoma(284;0.222)	Silent	SNP	42577659	42577659	14476	3	C	G	G	21	21	SEC22C	G	3	3
ARIH2	10425	broad.mit.edu	36	3	48940236	48940236	+	Missense_Mutation	SNP	G	T	T			TCGA-41-3392-01	TCGA-41-3392-01	G	G								Phase_I	Unspecified				Illumina GAIIx	g.chr3:48940236G>T	uc003cvb.1	+	c.241G>T	c.(241-243)GCT>TCT	p.A81S	ARIH2_uc003cvc.1_Missense_Mutation_p.A81S|ARIH2_uc003cvd.1_Missense_Mutation_p.A81S|ARIH2_uc003cve.1_Missense_Mutation_p.A81S|ARIH2_uc003cvf.1_5'UTR|ARIH2_uc010hkl.1_Missense_Mutation_p.A81S	NM_006321	NP_006312	O95376	ARI2_HUMAN	ariadne homolog 2	81					developmental cell growth|hemopoietic stem cell proliferation|protein K48-linked ubiquitination|protein K63-linked ubiquitination|protein ubiquitination involved in ubiquitin-dependent protein catabolic process	cytoplasm|nucleus	nucleic acid binding|protein binding|ubiquitin-protein ligase activity|zinc ion binding			ovary(1)	1														0.289474	88.423625	92.955359	33	81	GG		KEEP	---	---	---	---	capture		BRCA - Breast invasive adenocarcinoma(193;9.42e-05)|Kidney(197;0.00258)|KIRC - Kidney renal clear cell carcinoma(197;0.00269)	Missense_Mutation	SNP	48940236	48940236	939	3	G	T	T	34	34	ARIH2	T	3	3
ROBO2	6092	broad.mit.edu	36	3	77229886	77229886	+	Silent	SNP	G	A	A			TCGA-41-3392-01	TCGA-41-3392-01	G	G								Phase_I	Unspecified				Illumina GAIIx	g.chr3:77229886G>A	uc003dpy.2	+	c.93G>A	c.(91-93)CCG>CCA	p.P31P		NM_002942	NP_002933	Q9HCK4	ROBO2_HUMAN	roundabout, axon guidance receptor, homolog 2	31	Ig-like C2-type 1.|Extracellular (Potential).				apoptosis involved in luteolysis|axon midline choice point recognition|cellular response to hormone stimulus|homophilic cell adhesion|metanephros development|negative regulation of negative chemotaxis|negative regulation of synaptogenesis|olfactory bulb interneuron development|positive regulation of axonogenesis|retinal ganglion cell axon guidance|ureteric bud development	axolemma|cell surface|integral to membrane	axon guidance receptor activity|identical protein binding			lung(5)|ovary(1)|large_intestine(1)|liver(1)	8										1049				0.192308	9.860173	12.159233	5	21	GG		KEEP	---	---	---	---	capture		Epithelial(33;0.00199)|LUSC - Lung squamous cell carcinoma(21;0.008)|BRCA - Breast invasive adenocarcinoma(55;0.00884)|Lung(72;0.0183)|KIRC - Kidney renal clear cell carcinoma(39;0.0832)|Kidney(39;0.103)	Silent	SNP	77229886	77229886	13993	3	G	A	A	38	38	ROBO2	A	1	1
TADA3	10474	broad.mit.edu	36	3	9800867	9800867	+	Silent	SNP	G	A	A			TCGA-41-3392-01	TCGA-41-3392-01	G	G								Phase_I	Unspecified				Illumina GAIIx	g.chr3:9800867G>A	uc003bsx.1	-	c.951C>T	c.(949-951)CGC>CGT	p.R317R	TADA3_uc003bsw.1_Silent_p.R146R|TADA3_uc010hcn.1_Silent_p.R317R|TADA3_uc003bsy.1_Silent_p.R317R	NM_006354	NP_006345	O75528	TADA3_HUMAN	transcriptional adaptor 3-like isoform a	317					estrogen receptor signaling pathway|histone H3 acetylation|positive regulation of transcription, DNA-dependent|regulation of transcription from RNA polymerase II promoter	Ada2/Gcn5/Ada3 transcription activator complex|STAGA complex|transcription factor TFTC complex	ligand-dependent nuclear receptor binding|protein domain specific binding|sequence-specific DNA binding transcription factor activity				0														0.470588	92.588211	92.639887	32	36	GG		KEEP	---	---	---	---	capture			Silent	SNP	9800867	9800867	16033	3	G	A	A	46	46	TADA3	A	2	2
CPEB2	132864	broad.mit.edu	36	4	14669936	14669936	+	Missense_Mutation	SNP	G	A	A			TCGA-41-3392-01	TCGA-41-3392-01	G	G								Phase_I	Unspecified				Illumina GAIIx	g.chr4:14669936G>A	uc003gnk.1	+	c.1297G>A	c.(1297-1299)GAT>AAT	p.D433N	CPEB2_uc003gni.1_Missense_Mutation_p.D425N|CPEB2_uc003gnj.1_Missense_Mutation_p.D395N|CPEB2_uc003gnl.1_Missense_Mutation_p.D406N|CPEB2_uc003gnm.1_Missense_Mutation_p.D403N|CPEB2_uc003gnn.1_Missense_Mutation_p.D398N	NM_182485	NP_872291	Q7Z5Q1	CPEB2_HUMAN	cytoplasmic polyadenylation element binding	425					regulation of translation	cytoplasm	nucleotide binding|RNA binding				0														0.116279	20.063889	45.003286	20	152	GG		KEEP	---	---	---	---	capture			Missense_Mutation	SNP	14669936	14669936	3939	4	G	A	A	45	45	CPEB2	A	2	2
MFSD10	10227	broad.mit.edu	36	4	2905146	2905146	+	Missense_Mutation	SNP	C	A	A			TCGA-41-3392-01	TCGA-41-3392-01	C	C								Phase_I	Unspecified				Illumina GAIIx	g.chr4:2905146C>A	uc003gfw.1	-	c.214G>T	c.(214-216)GCC>TCC	p.A72S	MFSD10_uc003gfv.1_5'Flank|MFSD10_uc003gfx.1_5'UTR|MFSD10_uc003gfy.1_Non-coding_Transcript|MFSD10_uc003gfz.1_Missense_Mutation_p.A72S|MFSD10_uc003gga.1_Missense_Mutation_p.A72S|MFSD10_uc003ggb.1_Missense_Mutation_p.A72S|MFSD10_uc003ggc.1_Missense_Mutation_p.A72S|C4orf10_uc003ggd.1_5'Flank|C4orf10_uc003gge.1_5'Flank|C4orf10_uc003ggg.1_5'Flank|C4orf10_uc003ggh.2_5'Flank	NM_001120	NP_001111	Q14728	MFS10_HUMAN	major facilitator superfamily domain containing	72					apoptosis	integral to membrane	tetracycline transporter activity				0														0.235294	7.0863	8.181274	4	13	CC		KEEP	---	---	---	---	capture		UCEC - Uterine corpus endometrioid carcinoma (64;0.163)	Missense_Mutation	SNP	2905146	2905146	9918	4	C	A	A	25	25	MFSD10	A	3	3
GABRA4	2557	broad.mit.edu	36	4	46673880	46673880	+	Missense_Mutation	SNP	C	T	T			TCGA-41-3392-01	TCGA-41-3392-01	C	C								Phase_I	Unspecified				Illumina GAIIx	g.chr4:46673880C>T	uc003gxg.1	-	c.532G>A	c.(532-534)GAT>AAT	p.D178N		NM_000809	NP_000800	P48169	GBRA4_HUMAN	gamma-aminobutyric acid A receptor, alpha 4	178	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			ovary(2)|breast(1)	3					Alprazolam(DB00404)|Ethchlorvynol(DB00189)|Flunitrazepam(DB01544)|Flurazepam(DB00690)|Lorazepam(DB00186)|Meprobamate(DB00371)|Midazolam(DB00683)	Ovarian(6;283 369 8234 12290 33402)								0.463768	99.793402	99.872315	32	37	CC		KEEP	---	---	---	---	capture			Missense_Mutation	SNP	46673880	46673880	6414	4	C	T	T	30	30	GABRA4	T	2	2
SLC10A4	201780	broad.mit.edu	36	4	48185428	48185428	+	Silent	SNP	C	T	T			TCGA-41-3392-01	TCGA-41-3392-01	C	C								Phase_I	Unspecified				Illumina GAIIx	g.chr4:48185428C>T	uc003gyc.1	+	c.1029C>T	c.(1027-1029)CTC>CTT	p.L343L	ZAR1_uc003gyd.1_5'Flank	NM_152679	NP_689892	Q96EP9	NTCP4_HUMAN	solute carrier family 10 (sodium/bile acid	343	Cytoplasmic (Potential).					integral to membrane	bile acid:sodium symporter activity			central_nervous_system(1)	1														0.382775	242.948201	245.467477	80	129	CC		KEEP	---	---	---	---	capture			Silent	SNP	48185428	48185428	14871	4	C	T	T	32	32	SLC10A4	T	2	2
SH3TC1	54436	broad.mit.edu	36	4	8284629	8284629	+	Missense_Mutation	SNP	T	A	A			TCGA-41-3392-01	TCGA-41-3392-01	T	T								Phase_I	Unspecified				Illumina GAIIx	g.chr4:8284629T>A	uc003gkv.2	+	c.2977T>A	c.(2977-2979)TGC>AGC	p.C993S	SH3TC1_uc003gkw.2_Missense_Mutation_p.C917S|SH3TC1_uc003gkx.2_Non-coding_Transcript|SH3TC1_uc003gky.1_Non-coding_Transcript	NM_018986	NP_061859	Q8TE82	S3TC1_HUMAN	SH3 domain and tetratricopeptide repeats 1	993							binding			large_intestine(2)|pancreas(1)	3						NSCLC(145;2298 2623 35616 37297)								0.4	115.4931	116.418967	42	63	TT		KEEP	---	---	---	---	capture			Missense_Mutation	SNP	8284629	8284629	14753	4	T	A	A	59	59	SH3TC1	A	4	4
DNAH5	1767	broad.mit.edu	36	5	13939073	13939073	+	Missense_Mutation	SNP	C	T	T			TCGA-41-3392-01	TCGA-41-3392-01	C	C								Phase_I	Unspecified				Illumina GAIIx	g.chr5:13939073C>T	uc003jfd.2	-	c.2743G>A	c.(2743-2745)GCA>ACA	p.A915T		NM_001369	NP_001360	Q8TE73	DYH5_HUMAN	dynein, axonemal, heavy chain 5	915	Stem (By similarity).				microtubule-based movement	cilium axoneme|cytoplasm|microtubule	ATP binding|ATPase activity|microtubule motor activity			ovary(14)|breast(1)|central_nervous_system(1)|pancreas(1)	17	Lung NSC(4;0.00476)													0.256637	81.719112	87.788336	29	84	CC		KEEP	---	---	---	---	capture			Missense_Mutation	SNP	13939073	13939073	4787	5	C	T	T	24	24	DNAH5	T	2	2
CD14	929	broad.mit.edu	36	5	139992414	139992414	+	Silent	SNP	T	A	A			TCGA-41-3392-01	TCGA-41-3392-01	T	T								Phase_I	Unspecified				Illumina GAIIx	g.chr5:139992414T>A	uc003lgi.1	-	c.339A>T	c.(337-339)CTA>CTT	p.L113L	CD14_uc003lgj.1_Silent_p.L113L	NM_000591	NP_001035110	P08571	CD14_HUMAN	CD14 antigen precursor	113	LRR 2.				apoptosis|cellular response to lipopolysaccharide|cellular response to lipoteichoic acid|inflammatory response|innate immune response|phagocytosis|positive regulation of tumor necrosis factor production|Toll signaling pathway	anchored to membrane|plasma membrane	lipopolysaccharide binding|lipoteichoic acid binding|opsonin receptor activity|peptidoglycan receptor activity				0														0.385714	72.11133	72.911201	27	43	TT		KEEP	---	---	---	---	capture	KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)		Silent	SNP	139992414	139992414	3091	5	T	A	A	53	53	CD14	A	4	4
ODZ2	57451	broad.mit.edu	36	5	167352755	167352755	+	Silent	SNP	G	A	A			TCGA-41-3392-01	TCGA-41-3392-01	G	G								Phase_I	Unspecified				Illumina GAIIx	g.chr5:167352755G>A	uc010jjd.1	+	c.1176G>A	c.(1174-1176)GCG>GCA	p.A392A	ODZ2_uc003lzq.1_Silent_p.A271A|ODZ2_uc003lzr.2_Silent_p.A201A	NM_001122679	NP_001116151			odz, odd Oz/ten-m homolog 2											ovary(6)|central_nervous_system(4)	10	Renal(175;0.00124)|Lung NSC(126;0.136)|all_lung(126;0.242)	Medulloblastoma(196;0.0241)|all_neural(177;0.026)												0.408451	83.884883	84.397607	29	42	GG		KEEP	---	---	---	---	capture	Kidney(164;7.53e-05)|KIRC - Kidney renal clear cell carcinoma(164;0.000525)	all cancers(165;0.0444)|OV - Ovarian serous cystadenocarcinoma(192;0.0694)|Epithelial(171;0.124)	Silent	SNP	167352755	167352755	11240	5	G	A	A	40	40	ODZ2	A	1	1
SLIT3	6586	broad.mit.edu	36	5	168082545	168082545	+	Silent	SNP	G	T	T			TCGA-41-3392-01	TCGA-41-3392-01	G	G								Phase_I	Unspecified				Illumina GAIIx	g.chr5:168082545G>T	uc010jjg.1	-	c.2382C>A	c.(2380-2382)ACC>ACA	p.T794T	SLIT3_uc003mab.1_Silent_p.T794T	NM_003062	NP_003053	O75094	SLIT3_HUMAN	slit homolog 3	794	LRR 18.				apoptosis involved in luteolysis|axon extension involved in axon guidance|cellular response to hormone stimulus|negative chemotaxis|negative regulation of cell growth|negative regulation of chemokine-mediated signaling pathway|response to cortisol stimulus|Roundabout signaling pathway	extracellular space|mitochondrion	calcium ion binding|Roundabout binding			ovary(3)	3	Renal(175;0.000159)|Lung NSC(126;0.0174)|all_lung(126;0.0392)	Medulloblastoma(196;0.0399)|all_neural(177;0.0966)				Ovarian(29;311 847 10864 17279 24903)								0.261438	96.807591	104.706539	40	113	GG		KEEP	---	---	---	---	capture	Kidney(164;7.53e-05)|KIRC - Kidney renal clear cell carcinoma(164;0.000525)		Silent	SNP	168082545	168082545	15239	5	G	T	T	35	35	SLIT3	T	3	3
CD164	8763	broad.mit.edu	36	6	109796781	109796781	+	Missense_Mutation	SNP	C	A	A			TCGA-41-3392-01	TCGA-41-3392-01	C	C								Phase_I	Unspecified				Illumina GAIIx	g.chr6:109796781C>A	uc003pte.1	-	c.560G>T	c.(559-561)TGC>TTC	p.C187F	CD164_uc003ptd.1_Intron|CD164_uc003ptf.1_Missense_Mutation_p.C168F|CD164_uc010kdn.1_Missense_Mutation_p.C174F	NM_006016	NP_006007	Q04900	MUC24_HUMAN	CD164 molecule, sialomucin isoform 1	187	Cytoplasmic (Potential).				hemopoiesis|heterophilic cell-cell adhesion|immune response|muscle organ development|negative regulation of cell adhesion|negative regulation of cell proliferation|signal transduction	endosome membrane|extracellular region|integral to plasma membrane|lysosomal membrane	protein binding				0		all_cancers(87;4.65e-22)|all_epithelial(87;2.54e-20)|all_lung(197;1.6e-05)|Lung NSC(302;2.92e-05)|Colorectal(196;3.46e-05)|Ovarian(999;0.0175)												0.146341	9.82229	14.752269	6	35	CC		KEEP	---	---	---	---	capture		Epithelial(106;7.83e-46)|all cancers(137;1.15e-45)|OV - Ovarian serous cystadenocarcinoma(136;2.89e-26)|BRCA - Breast invasive adenocarcinoma(108;0.00128)|GBM - Glioblastoma multiforme(226;0.16)	Missense_Mutation	SNP	109796781	109796781	3096	6	C	A	A	25	25	CD164	A	3	3
MAS1L	116511	broad.mit.edu	36	6	29563282	29563282	+	Missense_Mutation	SNP	G	A	A			TCGA-41-3392-01	TCGA-41-3392-01	G	G								Phase_I	Unspecified				Illumina GAIIx	g.chr6:29563282G>A	uc003nmm.1	-	c.377C>T	c.(376-378)TCG>TTG	p.S126L		NM_052967	NP_443199	P35410	MAS1L_HUMAN	MAS1 oncogene-like	126	Helical; Name=2; (Potential).					cytoplasm|integral to membrane|nucleus|plasma membrane	G-protein coupled receptor activity			ovary(5)	5						NSCLC(153;755 1987 3859 11251 32945)								0.353659	84.653417	86.200517	29	53	GG		KEEP	---	---	---	---	capture			Missense_Mutation	SNP	29563282	29563282	9705	6	G	A	A	37	37	MAS1L	A	1	1
SKIV2L	6499	broad.mit.edu	36	6	32045106	32045106	+	Missense_Mutation	SNP	C	T	T			TCGA-41-3392-01	TCGA-41-3392-01	C	C								Phase_I	Unspecified				Illumina GAIIx	g.chr6:32045106C>T	uc003nyn.1	+	c.3470C>T	c.(3469-3471)ACG>ATG	p.T1157M	STK19_uc003nyt.1_5'Flank|STK19_uc010jtm.1_5'Flank|STK19_uc003nyv.1_5'Flank|STK19_uc003nyw.1_5'Flank|STK19_uc010jtn.1_5'Flank	NM_006929	NP_008860	Q15477	SKIV2_HUMAN	superkiller viralicidic activity 2-like homolog	1157						nucleus	ATP binding|ATP-dependent RNA helicase activity|protein binding|RNA binding			ovary(1)|large_intestine(1)|breast(1)|central_nervous_system(1)	4														0.434211	94.158106	94.44545	33	43	CC		KEEP	---	---	---	---	capture			Missense_Mutation	SNP	32045106	32045106	14854	6	C	T	T	19	19	SKIV2L	T	1	1
HLA-DQB1	3119	broad.mit.edu	36	6	32740637	32740637	+	Missense_Mutation	SNP	C	G	G	rs9274389	by-cluster	TCGA-41-3392-01	TCGA-41-3392-01	C	C								Phase_I	Unspecified				Illumina GAIIx	g.chr6:32740637C>G	uc003obv.2	-	c.295G>C	c.(295-297)GTC>CTC	p.V99L	HLA-DQB1_uc010juc.1_Missense_Mutation_p.V54L|HLA-DQB1_uc003obw.2_Missense_Mutation_p.V99L	NM_002123	NP_002114	P01920	DQB1_HUMAN	major histocompatibility complex, class II, DQ	99	Extracellular (Potential).|Beta-1.		V -> I (in allele DQB1*02:01, allele DQB1*02:02, allele DQB1*02:03, allele DQB1*02:04, allele DQB1*02:05, allele DQB1*03:06, allele DQB1*03:25, allele DQB1*04:01, allele DQB1*04:02, allele DQB1*04:03, allele DQB1*05:04, allele DQB1*06:01 and allele DQB1*06:35).|V -> D (in allele DQB1*03:13).		antigen processing and presentation of peptide or polysaccharide antigen via MHC class II|interferon-gamma-mediated signaling pathway|T cell costimulation|T cell receptor signaling pathway	endoplasmic reticulum membrane|endosome membrane|Golgi apparatus|integral to membrane|lysosomal membrane|MHC class II protein complex	MHC class II receptor activity				0					Insulin Glargine recombinant(DB00047)|Insulin Lyspro recombinant(DB00046)|Insulin recombinant(DB00030)|Insulin, porcine(DB00071)	Esophageal Squamous(151;720 1825 15000 40336 43415)								0.166667	6.413147	8.309638	3	15	CC		KEEP	---	---	---	---	capture			Missense_Mutation	SNP	32740637	32740637	7497	6	C	G	G	20	20	HLA-DQB1	G	3	3
AHCYL2	23382	broad.mit.edu	36	7	128827418	128827418	+	Missense_Mutation	SNP	G	A	A			TCGA-41-3392-01	TCGA-41-3392-01	G	G								Phase_I	Unspecified				Illumina GAIIx	g.chr7:128827418G>A	uc003vou.1	+	c.875G>A	c.(874-876)TGT>TAT	p.C292Y	AHCYL2_uc003vot.1_Missense_Mutation_p.C291Y|AHCYL2_uc003vov.1_Missense_Mutation_p.C189Y	NM_015328	NP_056143	Q96HN2	SAHH3_HUMAN	S-adenosylhomocysteine hydrolase-like 2 isoform	292					one-carbon metabolic process		adenosylhomocysteinase activity			ovary(2)	2						Pancreas(160;1736 1964 29875 40941 45605)								0.174721	86.85921	113.716251	47	222	GG		KEEP	---	---	---	---	capture			Missense_Mutation	SNP	128827418	128827418	414	7	G	A	A	48	48	AHCYL2	A	2	2
DYNC1I1	1780	broad.mit.edu	36	7	95502906	95502906	+	Missense_Mutation	SNP	G	A	A			TCGA-41-3392-01	TCGA-41-3392-01	G	G								Phase_I	Unspecified				Illumina GAIIx	g.chr7:95502906G>A	uc003uoc.2	+	c.1321G>A	c.(1321-1323)GCT>ACT	p.A441T	DYNC1I1_uc003uob.1_Missense_Mutation_p.A404T|DYNC1I1_uc003uod.2_Missense_Mutation_p.A424T|DYNC1I1_uc003uoe.2_Missense_Mutation_p.A421T|DYNC1I1_uc010lfl.1_Missense_Mutation_p.A430T	NM_004411	NP_004402	O14576	DC1I1_HUMAN	dynein, cytoplasmic 1, intermediate chain 1	441	WD 4.				vesicle transport along microtubule	condensed chromosome kinetochore|cytoplasmic dynein complex|microtubule|perinuclear region of cytoplasm|spindle pole	microtubule binding|microtubule motor activity			ovary(3)|kidney(1)	4	all_cancers(62;9.39e-10)|all_epithelial(64;2.28e-09)|Lung NSC(181;0.165)|all_lung(186;0.191)													0.156818	121.80975	171.248862	69	371	GG		KEEP	---	---	---	---	capture	STAD - Stomach adenocarcinoma(171;0.0957)		Missense_Mutation	SNP	95502906	95502906	5028	7	G	A	A	38	38	DYNC1I1	A	1	1
MORN5	254956	broad.mit.edu	36	9	123976652	123976652	+	Missense_Mutation	SNP	G	A	A			TCGA-41-3392-01	TCGA-41-3392-01	G	G								Phase_I	Unspecified				Illumina GAIIx	g.chr9:123976652G>A	uc004blw.1	+	c.364G>A	c.(364-366)GAT>AAT	p.D122N		NM_198469	NP_940871	Q5VZ52	MORN5_HUMAN	MORN repeat containing 5	122											0														0.107692	13.054514	32.898114	14	116	GG		KEEP	---	---	---	---	capture			Missense_Mutation	SNP	123976652	123976652	10103	9	G	A	A	37	37	MORN5	A	1	1
PLXNB3	5365	broad.mit.edu	36	X	152686186	152686186	+	Missense_Mutation	SNP	C	A	A			TCGA-41-3392-01	TCGA-41-3392-01	C	C								Phase_I	Unspecified				Illumina GAIIx	g.chrX:152686186C>A	uc004fii.1	+	c.710C>A	c.(709-711)GCC>GAC	p.A237D	PLXNB3_uc010nuk.1_Missense_Mutation_p.A260D	NM_005393	NP_005384	Q9ULL4	PLXB3_HUMAN	plexin B3	237	Extracellular (Potential).|Sema.				axon guidance	integral to membrane|intracellular|plasma membrane	protein binding|receptor activity			lung(1)	1	all_hematologic(71;4.25e-06)|all_lung(58;3.83e-05)|Lung NSC(58;5.54e-05)|Acute lymphoblastic leukemia(192;6.56e-05)													0.272727	7.220172	7.732352	3	8	CC		KEEP	---	---	---	---	capture			Missense_Mutation	SNP	152686186	152686186	12551	23	C	A	A	26	26	PLXNB3	A	3	3
DNASE1L1	1774	broad.mit.edu	36	X	153286608	153286608	+	Missense_Mutation	SNP	C	G	G			TCGA-41-3392-01	TCGA-41-3392-01	C	C								Phase_I	Unspecified				Illumina GAIIx	g.chrX:153286608C>G	uc004fks.1	-	c.146G>C	c.(145-147)CGC>CCC	p.R49P	DNASE1L1_uc004fkt.1_Missense_Mutation_p.R49P|DNASE1L1_uc004fku.1_Missense_Mutation_p.R49P|DNASE1L1_uc004fkv.1_Missense_Mutation_p.R49P|DNASE1L1_uc004fkw.1_Missense_Mutation_p.R49P	NM_006730	NP_006721	P49184	DNSL1_HUMAN	deoxyribonuclease I-like 1 precursor	49					DNA catabolic process	endoplasmic reticulum	DNA binding|endodeoxyribonuclease activity, producing 5'-phosphomonoesters				0	all_cancers(53;3.7e-16)|all_epithelial(53;2.97e-10)|all_lung(58;1.84e-07)|Lung NSC(58;5.84e-07)|all_hematologic(71;2.45e-06)|Acute lymphoblastic leukemia(192;6.56e-05)|Breast(217;0.176)													0.333333	9.155298	9.93129	9	18	CC		KEEP	---	---	---	---	capture			Missense_Mutation	SNP	153286608	153286608	4844	23	C	G	G	27	27	DNASE1L1	G	3	3
HERC2	8924	broad.mit.edu	36	15	26188147	26188148	+	Frame_Shift_Ins	INS	-	C	C			TCGA-41-3392-01	TCGA-41-3392-01										Phase_I	Unspecified				Illumina GAIIx	g.chr15:26188147_26188148insC	uc001zbj.1	-	c.1287_1288insG	c.(1285-1290)GGGTTAfs	p.G429fs	HERC2_uc010ayw.1_Intron|HERC2_uc001zbl.1_Frame_Shift_Ins_p.G124fs	NM_004667	NP_004658	O95714	HERC2_HUMAN	hect domain and RLD 2	429_430					DNA repair|intracellular protein transport|protein ubiquitination involved in ubiquitin-dependent protein catabolic process|regulation of mitotic metaphase/anaphase transition	anaphase-promoting complex	guanyl-nucleotide exchange factor activity|heme binding|protein binding|ubiquitin-protein ligase activity|zinc ion binding			ovary(4)|lung(4)|skin(2)|central_nervous_system(1)	11		all_lung(180;1.3e-11)|Breast(32;0.000194)|Colorectal(260;0.227)		all cancers(64;3.93e-09)|Epithelial(43;9.99e-08)|BRCA - Breast invasive adenocarcinoma(123;0.0271)|GBM - Glioblastoma multiforme(186;0.0497)|Lung(196;0.199)						1580				0.76			47	15				---	---	---	---	capture_indel			Frame_Shift_Ins	INS	26188147	26188148	7341	15	-	C	C	2	2	HERC2	C	5	5
MAPK8IP2	23542	broad.mit.edu	36	22	49389205	49389206	+	Frame_Shift_Del	DEL	GC	-	-			TCGA-41-3392-01	TCGA-41-3392-01										Phase_I	Unspecified				Illumina GAIIx	g.chr22:49389205_49389206delGC	uc003bmx.1	+	c.611_612delGC	c.(610-612)TGCfs	p.C204fs	MAPK8IP2_uc003bmy.1_Frame_Shift_Del_p.C177fs	NM_012324	NP_036456	Q13387	JIP2_HUMAN	mitogen-activated protein kinase 8 interacting	204	JNK-binding domain (JBD).				behavioral fear response|dendrite morphogenesis|MAPKKK cascade|nonassociative learning|positive regulation of anti-apoptosis|regulation of excitatory postsynaptic membrane potential|regulation of JNK cascade|regulation of receptor activity|regulation of synaptic transmission, glutamatergic|signal complex assembly|social behavior	cytoplasm|postsynaptic density	beta-amyloid binding|kinesin binding|MAP-kinase scaffold activity|protein kinase activator activity|protein kinase binding			large_intestine(2)|central_nervous_system(1)	3		all_cancers(38;8.8e-15)|all_epithelial(38;1.12e-12)|all_lung(38;3.07e-05)|Breast(42;6.27e-05)|Lung NSC(38;0.000813)|Ovarian(80;0.0221)|Hepatocellular(38;0.0691)|Lung SC(80;0.113)		OV - Ovarian serous cystadenocarcinoma(4;1.28e-70)|Epithelial(4;3.46e-65)|GBM - Glioblastoma multiforme(4;4.83e-06)|Lung(4;0.125)|BRCA - Breast invasive adenocarcinoma(115;0.205)|LUAD - Lung adenocarcinoma(64;0.247)						297				0.33			2	4				---	---	---	---	capture_indel			Frame_Shift_Del	DEL	49389205	49389206	9668	22	GC	-	-	46	46	MAPK8IP2	-	5	5
LFNG	3955	broad.mit.edu	36	7	2526428	2526428	+	Frame_Shift_Del	DEL	C	-	-			TCGA-41-3392-01	TCGA-41-3392-01										Phase_I	Unspecified				Illumina GAIIx	g.chr7:2526428_2526428delC	uc003smf.1	+	c.407_407delC	c.(406-408)ACCfs	p.T136fs	LFNG_uc003smg.1_Frame_Shift_Del_p.T136fs	NM_001040167	NP_001035257	Q8NES3	LFNG_HUMAN	lunatic fringe isoform a	136	Lumenal (Potential).				organ morphogenesis	extracellular region|integral to Golgi membrane	O-fucosylpeptide 3-beta-N-acetylglucosaminyltransferase activity				0		Ovarian(82;0.0112)		OV - Ovarian serous cystadenocarcinoma(56;2.54e-14)										0.34			22	42				---	---	---	---	capture_indel			Frame_Shift_Del	DEL	2526428	2526428	9062	7	C	-	-	18	18	LFNG	-	5	5
EDA	1896	broad.mit.edu	36	X	68752961	68752962	+	Frame_Shift_Ins	INS	-	G	G			TCGA-41-3392-01	TCGA-41-3392-01										Phase_I	Unspecified				Illumina GAIIx	g.chrX:68752961_68752962insG	uc004dxs.1	+	c.84_85insG	c.(82-87)GGCGGGfs	p.G28fs	EDA_uc004dxn.1_Frame_Shift_Ins_p.G28fs|EDA_uc004dxm.1_Frame_Shift_Ins_p.G28fs|EDA_uc004dxp.1_Frame_Shift_Ins_p.G28fs|EDA_uc004dxq.1_Frame_Shift_Ins_p.G28fs|EDA_uc004dxr.1_Frame_Shift_Ins_p.G28fs|EDA_uc004dxl.1_Frame_Shift_Ins_p.G28fs	NM_001399	NP_001390	Q92838	EDA_HUMAN	ectodysplasin A isoform EDA-A1	28_29	Cytoplasmic (Potential).				cell differentiation|ectoderm development|immune response|positive regulation of NF-kappaB transcription factor activity|signal transduction	collagen|cytoskeleton|membrane fraction	tumor necrosis factor receptor binding			ovary(2)|large_intestine(1)	3														0.35			11	20				---	---	---	---	capture_indel			Frame_Shift_Ins	INS	68752961	68752962	5090	23	-	G	G	27	27	EDA	G	5	5
