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
FGFR2	2263	broad.mit.edu	36	10	123288210	123288210	+	Missense_Mutation	SNP	G	T	T			TCGA-02-0033-01	TCGA-02-0033-01	G	G								Phase_I	Unspecified				Illumina GAIIx	g.chr10:123288210G>T	uc009xzo.1	-	c.634C>A	c.(634-636)CAG>AAG	p.Q212K	FGFR2_uc009xzp.1_Missense_Mutation_p.Q212K|FGFR2_uc009xzq.1_Missense_Mutation_p.Q231K|FGFR2_uc001lfj.2_Missense_Mutation_p.Q116K|FGFR2_uc001lfm.1_Missense_Mutation_p.Q142K|FGFR2_uc009xzr.1_Missense_Mutation_p.Q231K|FGFR2_uc009xzs.1_Missense_Mutation_p.Q116K|FGFR2_uc001lfn.2_Non-coding_Transcript|FGFR2_uc009xzt.1_Missense_Mutation_p.Q142K|FGFR2_uc001lfo.1_Missense_Mutation_p.Q231K	NM_022970	NP_075259	P21802	FGFR2_HUMAN	fibroblast growth factor receptor 2 isoform 2	212	Ig-like C2-type 2.|Extracellular (Potential).				angiogenesis|axonogenesis|bone mineralization|bone morphogenesis|branch elongation involved in salivary gland morphogenesis|branching involved in embryonic placenta morphogenesis|branching morphogenesis of a nerve|bud elongation involved in lung branching|cell fate commitment|cell growth|cell-cell signaling|cellular response to protein stimulus|embryonic digestive tract morphogenesis|embryonic pattern specification|epithelial cell proliferation involved in salivary gland morphogenesis|fibroblast growth factor receptor signaling pathway involved in hemopoiesis|fibroblast growth factor receptor signaling pathway involved in mammary gland specification|fibroblast growth factor receptor signaling pathway involved in negative regulation of apoptosis in bone marrow|fibroblast growth factor receptor signaling pathway involved in orbitofrontal cortex development|fibroblast growth factor receptor signaling pathway involved in positive regulation of cell proliferation in bone marrow|hair follicle morphogenesis|insulin receptor signaling pathway|lacrimal gland development|lateral sprouting from an epithelium|limb bud formation|lung alveolus development|lung lobe morphogenesis|lung-associated mesenchyme development|mammary gland bud formation|membranous septum morphogenesis|mesenchymal cell differentiation involved in lung development|mesenchymal cell proliferation involved in lung development|midbrain development|multicellular organism growth|negative regulation of gene-specific transcription from RNA polymerase II promoter|odontogenesis|organ growth|otic vesicle formation|outflow tract septum morphogenesis|positive regulation of canonical Wnt receptor signaling pathway|positive regulation of cardiac muscle cell proliferation|positive regulation of cell cycle|positive regulation of cell division|positive regulation of epithelial cell proliferation involved in lung morphogenesis|positive regulation of ERK1 and ERK2 cascade|positive regulation of gene-specific transcription from RNA polymerase II promoter|positive regulation of mesenchymal cell proliferation|post-embryonic development|prostate epithelial cord arborization involved in prostate glandular acinus morphogenesis|prostate epithelial cord elongation|protein phosphorylation|pyramidal neuron development|regulation of branching involved in prostate gland morphogenesis|regulation of cell fate commitment|regulation of fibroblast growth factor receptor signaling pathway|regulation of multicellular organism growth|regulation of smooth muscle cell differentiation|regulation of smoothened signaling pathway|squamous basal epithelial stem cell differentiation involved in prostate gland acinus development|ureteric bud development|ventricular cardiac muscle tissue morphogenesis|ventricular zone neuroblast division	cell cortex|cell surface|excitatory synapse|extracellular region|integral to membrane|nucleus|plasma membrane	ATP binding|fibroblast growth factor binding|fibroblast growth factor binding|fibroblast growth factor receptor activity|heparin binding|protein binding	p.Q212K(1)		endometrium(39)|skin(28)|lung(7)|ovary(4)|cervix(2)|stomach(2)|breast(2)|soft_tissue(1)|central_nervous_system(1)	86		Lung NSC(174;0.0841)|all_lung(145;0.106)|all_neural(114;0.107)			Palifermin(DB00039)			5		350				0.346774	122.988444	125.558127	43	81	GG		KEEP	---	---	---	---	capture	STAD - Stomach adenocarcinoma(1;7.52e-05)|all cancers(1;0.0722)	all cancers(201;9.73e-05)|GBM - Glioblastoma multiforme(135;0.0845)	Missense_Mutation	SNP	123288210	123288210	6103	10	G	T	T	47	47	FGFR2	T	3	3
ADARB2	105	broad.mit.edu	36	10	1395297	1395297	+	Missense_Mutation	SNP	C	T	T			TCGA-02-0033-01	TCGA-02-0033-01	C	C								Phase_I	Unspecified				Illumina GAIIx	g.chr10:1395297C>T	uc009xhq.1	-	c.1003G>A	c.(1003-1005)GCA>ACA	p.A335T		NM_018702	NP_061172	Q9NS39	RED2_HUMAN	adenosine deaminase, RNA-specific, B2	335	DRBM 2.				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				0.384615	14.292182	14.43642	5	8	CC		KEEP	---	---	---	---	capture		all cancers(11;0.0224)|GBM - Glioblastoma multiforme(2;0.0414)|Epithelial(11;0.165)	Missense_Mutation	SNP	1395297	1395297	284	10	C	T	T	27	27	ADARB2	T	1	1
PFKP	5214	broad.mit.edu	36	10	3141644	3141644	+	Missense_Mutation	SNP	G	C	C			TCGA-02-0033-01	TCGA-02-0033-01	G	G								Phase_I	Unspecified				Illumina GAIIx	g.chr10:3141644G>C	uc001igp.1	+	c.1061G>C	c.(1060-1062)CGC>CCC	p.R354P	PFKP_uc001igq.1_Missense_Mutation_p.R346P|PFKP_uc009xhr.1_Missense_Mutation_p.R316P|PFKP_uc009xhs.1_Missense_Mutation_p.R138P|PFKP_uc009xht.1_Missense_Mutation_p.R92P	NM_002627	NP_002618	Q01813	K6PP_HUMAN	phosphofructokinase, platelet	354					glycolysis	6-phosphofructokinase complex	6-phosphofructokinase activity|ATP binding|metal ion binding|protein binding			ovary(1)|lung(1)	2														0.444444	12.807528	12.8808	8	10	GG		KEEP	---	---	---	---	capture		GBM - Glioblastoma multiforme(1;0.000975)|all cancers(11;0.00351)|Epithelial(11;0.142)	Missense_Mutation	SNP	3141644	3141644	12188	10	G	C	C	38	38	PFKP	C	3	3
OR51B5	282763	broad.mit.edu	36	11	5321313	5321313	+	Missense_Mutation	SNP	G	C	C			TCGA-02-0033-01	TCGA-02-0033-01	G	G								Phase_I	Unspecified				Illumina GAIIx	g.chr11:5321313G>C	uc001map.1	-	c.18C>G	c.(16-18)AGC>AGG	p.S6R	HBG2_uc001mak.1_Intron|HBE1_uc001mam.1_Intron|OR51B5_uc001maq.1_Missense_Mutation_p.S6R	NM_001005567	NP_001005567	Q9H339	O51B5_HUMAN	olfactory receptor, family 51, subfamily B,	6	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity				0		Medulloblastoma(188;0.0075)|all_neural(188;0.0572)|Breast(177;0.0675)												0.175	6.583924	10.619382	7	33	GG		KEEP	---	---	---	---	capture		Epithelial(150;3.05e-09)|BRCA - Breast invasive adenocarcinoma(625;0.135)	Missense_Mutation	SNP	5321313	5321313	11501	11	G	C	C	34	34	OR51B5	C	3	3
SLC22A9	114571	broad.mit.edu	36	11	62897792	62897792	+	Missense_Mutation	SNP	C	T	T			TCGA-02-0033-01	TCGA-02-0033-01	C	C								Phase_I	Unspecified				Illumina GAIIx	g.chr11:62897792C>T	uc001nww.1	+	c.607C>T	c.(607-609)CGC>TGC	p.R203C	SLC22A9_uc001nwx.1_Intron	NM_080866	NP_543142	Q8IVM8	S22A9_HUMAN	solute carrier family 22 (organic anion/cation	203	Extracellular (Potential).				transmembrane transport	integral to membrane				breast(2)|large_intestine(1)	3														0.182119	108.041866	136.714486	55	247	CC		KEEP	---	---	---	---	capture			Missense_Mutation	SNP	62897792	62897792	14958	11	C	T	T	19	19	SLC22A9	T	1	1
ACADS	35	broad.mit.edu	36	12	119661063	119661063	+	Missense_Mutation	SNP	G	A	A			TCGA-02-0033-01	TCGA-02-0033-01	G	G								Phase_I	Unspecified				Illumina GAIIx	g.chr12:119661063G>A	uc001tza.2	+	c.991G>A	c.(991-993)GCT>ACT	p.A331T	ACADS_uc001tzb.2_Missense_Mutation_p.A212T	NM_000017	NP_000008	P16219	ACADS_HUMAN	short-chain acyl-CoA dehydrogenase precursor	331						mitochondrial matrix	butyryl-CoA dehydrogenase activity			central_nervous_system(2)	2	all_neural(191;0.0684)|Medulloblastoma(191;0.0922)	Lung NSC(355;0.163)			NADH(DB00157)									0.16129	41.554604	58.426314	25	130	GG		KEEP	---	---	---	---	capture			Missense_Mutation	SNP	119661063	119661063	115	12	G	A	A	38	38	ACADS	A	1	1
WDR66	144406	broad.mit.edu	36	12	120922164	120922164	+	Missense_Mutation	SNP	G	A	A			TCGA-02-0033-01	TCGA-02-0033-01	G	G								Phase_I	Unspecified				Illumina GAIIx	g.chr12:120922164G>A	uc009zxk.1	+	c.3166G>A	c.(3166-3168)GGT>AGT	p.G1056S		NM_144668	NP_653269	Q8TBY9	WDR66_HUMAN	WD repeat domain 66	1056							calcium ion binding			ovary(1)	1	all_neural(191;0.0496)|Medulloblastoma(191;0.0922)					Esophageal Squamous(85;849 1794 49757 52143)								0.164384	47.609148	63.225386	24	122	GG		KEEP	---	---	---	---	capture		OV - Ovarian serous cystadenocarcinoma(86;0.000155)|Epithelial(86;0.000634)|BRCA - Breast invasive adenocarcinoma(302;0.248)	Missense_Mutation	SNP	120922164	120922164	17890	12	G	A	A	39	39	WDR66	A	1	1
ATF7	11016	broad.mit.edu	36	12	52211806	52211806	+	Missense_Mutation	SNP	C	G	G			TCGA-02-0033-01	TCGA-02-0033-01	C	C								Phase_I	Unspecified				Illumina GAIIx	g.chr12:52211806C>G	uc001sdy.1	-	c.949G>C	c.(949-951)GCC>CCC	p.A317P	ATF7_uc001sdz.1_Missense_Mutation_p.A306P	NM_006856	NP_006847	P17544	ATF7_HUMAN	activating transcription factor 7 isoform 2	317					interspecies interaction between organisms|regulation of transcription, DNA-dependent	cytoplasm|nuclear periphery|nucleoplasm	protein dimerization activity|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(1)	1														0.3	6.616533	6.976952	3	7	CC		KEEP	---	---	---	---	capture			Missense_Mutation	SNP	52211806	52211806	1105	12	C	G	G	25	25	ATF7	G	3	3
ANKRD52	283373	broad.mit.edu	36	12	54925565	54925565	+	Missense_Mutation	SNP	G	A	A			TCGA-02-0033-01	TCGA-02-0033-01	G	G								Phase_I	Unspecified				Illumina GAIIx	g.chr12:54925565G>A	uc001skm.2	-	c.2267C>T	c.(2266-2268)ACG>ATG	p.T756M		NM_173595	NP_775866	Q8NB46	ANR52_HUMAN	ankyrin repeat domain 52	756	ANK 22.						protein binding			ovary(2)	2														0.121951	8.764078	20.344998	10	72	GG		KEEP	---	---	---	---	capture			Missense_Mutation	SNP	54925565	54925565	686	12	G	A	A	40	40	ANKRD52	A	1	1
TNFSF11	8600	broad.mit.edu	36	13	42078986	42078986	+	Missense_Mutation	SNP	C	T	T			TCGA-02-0033-01	TCGA-02-0033-01	C	C								Phase_I	Unspecified				Illumina GAIIx	g.chr13:42078986C>T	uc001uyu.1	+	c.886C>T	c.(886-888)CCC>TCC	p.P296S	TNFSF11_uc001uyt.1_Missense_Mutation_p.P223S	NM_003701	NP_143026	O14788	TNF11_HUMAN	tumor necrosis factor ligand superfamily, member	296	Extracellular (Potential).				immune response|monocyte chemotaxis|osteoclast differentiation|positive regulation of bone resorption|positive regulation of corticotropin-releasing hormone secretion|positive regulation of ERK1 and ERK2 cascade via TNFSF11-mediated signaling|positive regulation of fever generation by positive regulation of prostaglandin secretion|positive regulation of homotypic cell-cell adhesion|positive regulation of NF-kappaB transcription factor activity|positive regulation of osteoclast differentiation|positive regulation of T cell activation|tumor necrosis factor-mediated signaling pathway	cytoplasm|extracellular space|integral to plasma membrane	cytokine activity|receptor activity|tumor necrosis factor receptor binding				0		Lung NSC(96;1.11e-05)|Breast(139;0.00868)|Prostate(109;0.0181)|Lung SC(185;0.0262)|Hepatocellular(98;0.114)								113				0.291667	174.078512	182.519883	63	153	CC		KEEP	---	---	---	---	capture		OV - Ovarian serous cystadenocarcinoma(117;0.000249)|GBM - Glioblastoma multiforme(144;0.00119)|BRCA - Breast invasive adenocarcinoma(63;0.073)	Missense_Mutation	SNP	42078986	42078986	16843	13	C	T	T	22	22	TNFSF11	T	2	2
RB1	5925	broad.mit.edu	36	13	47931968	47931968	+	Nonsense_Mutation	SNP	C	T	T			TCGA-02-0033-01	TCGA-02-0033-01	C	C								Phase_I	Unspecified				Illumina GAIIx	g.chr13:47931968C>T	uc001vcb.1	+	c.2104C>T	c.(2104-2106)CAA>TAA	p.Q702*		NM_000321	NP_000312	P06400	RB_HUMAN	retinoblastoma 1	702	Pocket; binds T and E1A.|Domain B.				androgen receptor signaling pathway|cell cycle arrest|chromatin remodeling|G1 phase of mitotic cell cycle|interspecies interaction between organisms|maintenance of mitotic sister chromatid cohesion|mitotic cell cycle G1/S transition checkpoint|myoblast differentiation|negative regulation of cell growth|negative regulation of protein kinase activity|negative regulation of S phase of mitotic cell cycle|negative regulation of sequence-specific DNA binding transcription factor activity|positive regulation of mitotic metaphase/anaphase transition|protein localization to chromosome, centromeric region|Ras protein signal transduction|regulation of centromere complex assembly|regulation of cohesin localization to chromatin|regulation of lipid kinase activity|regulation of transcription involved in G1/S phase of mitotic cell cycle|S phase of mitotic cell cycle|sister chromatid biorientation	chromatin|PML body|Rb-E2F complex|SWI/SNF complex	androgen receptor binding|DNA binding|kinase binding|phosphoprotein binding|sequence-specific DNA binding transcription factor activity|transcription coactivator activity|transcription factor binding|transcription repressor activity|ubiquitin protein ligase binding	p.Q702*(2)|p.Q702K(1)|p.?(1)		lung(93)|eye(89)|central_nervous_system(47)|bone(22)|breast(20)|urinary_tract(17)|haematopoietic_and_lymphoid_tissue(14)|ovary(10)|soft_tissue(8)|prostate(8)|skin(7)|endometrium(5)|cervix(3)|liver(3)|salivary_gland(2)|stomach(2)|oesophagus(1)|adrenal_gland(1)|kidney(1)|gastrointestinal_tract_(site_indeterminate)(1)|pituitary(1)	355		all_cancers(8;6.9e-71)|all_epithelial(8;4.61e-22)|Acute lymphoblastic leukemia(8;1.1e-21)|all_hematologic(8;2.3e-21)|all_lung(13;1.51e-09)|Lung NSC(96;7.03e-07)|Breast(56;1.53e-05)|Prostate(109;0.000493)|Myeloproliferative disorder(33;0.0179)|Hepatocellular(98;0.0207)|all_neural(104;0.0227)|Glioma(44;0.0286)|Lung SC(185;0.0301)			Insulin Glargine recombinant(DB00047)|Insulin Lyspro recombinant(DB00046)|Insulin recombinant(DB00030)|Insulin, porcine(DB00071)			6	p.Q702*(HT1376-Tumor)	568	TCGA GBM(7;6.82e-08)|TSP Lung(12;0.097)|TCGA Ovarian(6;0.080)			0.24	42.508255	47.139155	18	57	CC		KEEP	---	---	---	---	capture		GBM - Glioblastoma multiforme(2;9.98e-18)|LUSC - Lung squamous cell carcinoma(3;0.013)	Nonsense_Mutation	SNP	47931968	47931968	13559	13	C	T	T	21	21	RB1	T	5	2
YLPM1	56252	broad.mit.edu	36	14	74300249	74300249	+	Missense_Mutation	SNP	C	G	G			TCGA-02-0033-01	TCGA-02-0033-01	C	C								Phase_I	Unspecified				Illumina GAIIx	g.chr14:74300249C>G	uc001xqj.2	+	c.304C>G	c.(304-306)CCG>GCG	p.P102A		NM_019589	NP_062535	P49750	YLPM1_HUMAN	YLP motif containing 1	102	Pro-rich.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nuclear speck				ovary(2)|pancreas(1)	3														0.333333	6.902363	7.084543	3	6	CC		KEEP	---	---	---	---	capture	KIRC - Kidney renal clear cell carcinoma(43;0.238)	BRCA - Breast invasive adenocarcinoma(234;0.00162)	Missense_Mutation	SNP	74300249	74300249	18069	14	C	G	G	26	26	YLPM1	G	3	3
HCN4	10021	broad.mit.edu	36	15	71401959	71401959	+	Silent	SNP	C	T	T			TCGA-02-0033-01	TCGA-02-0033-01	C	C								Phase_I	Unspecified				Illumina GAIIx	g.chr15:71401959C>T	uc002avp.1	-	c.3528G>A	c.(3526-3528)GGG>GGA	p.G1176G		NM_005477	NP_005468	Q9Y3Q4	HCN4_HUMAN	hyperpolarization activated cyclic	1176	Cytoplasmic (Potential).				blood circulation|muscle contraction	integral to membrane	cAMP binding|protein binding|sodium channel activity|voltage-gated potassium channel activity			ovary(5)|liver(1)	6														0.172414	9.759381	12.697919	5	24	CC		KEEP	---	---	---	---	capture		COAD - Colon adenocarcinoma(1;0.142)	Silent	SNP	71401959	71401959	7281	15	C	T	T	22	22	HCN4	T	2	2
COMMD4	54939	broad.mit.edu	36	15	73417770	73417770	+	Missense_Mutation	SNP	C	G	G			TCGA-02-0033-01	TCGA-02-0033-01	C	C								Phase_I	Unspecified				Illumina GAIIx	g.chr15:73417770C>G	uc002azy.1	+	c.97C>G	c.(97-99)CTC>GTC	p.L33V	COMMD4_uc002azz.1_Missense_Mutation_p.L33V|COMMD4_uc002baa.1_Missense_Mutation_p.L33V	NM_017828	NP_060298	Q9H0A8	COMD4_HUMAN	COMM domain containing 4	33						cytoplasm	protein binding				0														0.5	9.496908	9.496908	4	4	CC		KEEP	---	---	---	---	capture			Missense_Mutation	SNP	73417770	73417770	3856	15	C	G	G	28	28	COMMD4	G	3	3
ACSM5	54988	broad.mit.edu	36	16	20346628	20346628	+	Silent	SNP	G	A	A	rs12922063	unknown	TCGA-02-0033-01	TCGA-02-0033-01	G	G								Phase_I	Unspecified				Illumina GAIIx	g.chr16:20346628G>A	uc002dhe.1	+	c.939G>A	c.(937-939)CCG>CCA	p.P313P		NM_017888	NP_060358	Q6NUN0	ACSM5_HUMAN	acyl-CoA synthetase medium-chain family member	313					fatty acid metabolic process	mitochondrial matrix	ATP binding|butyrate-CoA ligase activity|GTP binding|metal ion binding			ovary(2)	2														0.116176	90.43092	189.084442	79	601	GG		KEEP	---	---	---	---	capture			Silent	SNP	20346628	20346628	188	16	G	A	A	37	37	ACSM5	A	1	1
ITGAD	3681	broad.mit.edu	36	16	31316691	31316691	+	Silent	SNP	G	A	A			TCGA-02-0033-01	TCGA-02-0033-01	G	G								Phase_I	Unspecified				Illumina GAIIx	g.chr16:31316691G>A	uc010cap.1	+	c.387G>A	c.(385-387)TCG>TCA	p.S129S	ITGAD_uc002ebv.1_Silent_p.S129S|ITGAD_uc002ebw.1_5'UTR	NM_005353	NP_005344	Q13349	ITAD_HUMAN	integrin, alpha D precursor	129	FG-GAP 2.|Extracellular (Potential).				cell-cell adhesion|cell-matrix adhesion|immune response|integrin-mediated signaling pathway	integrin complex	receptor activity			skin(1)	1														0.176471	23.459584	30.167024	12	56	GG		KEEP	---	---	---	---	capture			Silent	SNP	31316691	31316691	8188	16	G	A	A	38	38	ITGAD	A	1	1
CETP	1071	broad.mit.edu	36	16	55564744	55564744	+	Missense_Mutation	SNP	G	A	A			TCGA-02-0033-01	TCGA-02-0033-01	G	G								Phase_I	Unspecified				Illumina GAIIx	g.chr16:55564744G>A	uc002eki.2	+	c.751G>A	c.(751-753)GGT>AGT	p.G251S	CETP_uc002ekj.2_Intron	NM_000078	NP_000069	P11597	CETP_HUMAN	cholesteryl ester transfer protein, plasma	251					cholesterol homeostasis|cholesterol metabolic process|high-density lipoprotein particle remodeling|lipoprotein metabolic process|low-density lipoprotein particle remodeling|negative regulation of macrophage derived foam cell differentiation|phosphatidylcholine metabolic process|phospholipid homeostasis|receptor-mediated endocytosis|regulation of cholesterol efflux|reverse cholesterol transport|triglyceride homeostasis|triglyceride metabolic process|very-low-density lipoprotein particle remodeling	high-density lipoprotein particle|vesicle	cholesterol binding|cholesterol transporter activity|phosphatidylcholine binding|phospholipid transporter activity|triglyceride binding			central_nervous_system(1)	1														0.214765	72.925127	84.127758	32	117	GG		KEEP	---	---	---	---	capture			Missense_Mutation	SNP	55564744	55564744	3410	16	G	A	A	43	43	CETP	A	2	2
CHMP1A	5119	broad.mit.edu	36	16	88239867	88239867	+	Missense_Mutation	SNP	C	G	G			TCGA-02-0033-01	TCGA-02-0033-01	C	C								Phase_I	Unspecified				Illumina GAIIx	g.chr16:88239867C>G	uc002fnv.1	-	c.679G>C	c.(679-681)GCA>CCA	p.A227P	CHMP1A_uc002fnt.1_Missense_Mutation_p.A122P|CHMP1A_uc002fnu.1_3'UTR	NM_001083314	NP_001076783	Q9HD42	CHM1A_HUMAN	chromatin modifying protein 1A isoform 1	Error:Variant_position_missing_in_Q9HD42_after_alignment					cell division|gene silencing|mitotic chromosome condensation|negative regulation of S phase of mitotic cell cycle|negative regulation of transcription by glucose|protein transport|transcription, DNA-dependent|vesicle-mediated transport	condensed nuclear chromosome|early endosome|endomembrane system|endosome membrane|microtubule organizing center|nuclear matrix	metallopeptidase activity|protein domain specific binding|zinc ion binding				0		all_lung(18;3.07e-05)|all_hematologic(23;0.0256)												0.272727	7.119982	7.632315	3	8	CC		KEEP	---	---	---	---	capture		BRCA - Breast invasive adenocarcinoma(80;0.048)	Missense_Mutation	SNP	88239867	88239867	3486	16	C	G	G	26	26	CHMP1A	G	3	3
FLII	2314	broad.mit.edu	36	17	18094998	18094998	+	Missense_Mutation	SNP	T	C	C			TCGA-02-0033-01	TCGA-02-0033-01	T	T								Phase_I	Unspecified				Illumina GAIIx	g.chr17:18094998T>C	uc002gsr.1	-	c.1655A>G	c.(1654-1656)GAG>GGG	p.E552G	FLII_uc002gsq.1_Missense_Mutation_p.E423G|FLII_uc010cpy.1_Missense_Mutation_p.E541G|FLII_uc002gss.1_Missense_Mutation_p.E551G	NM_002018	NP_002009	Q13045	FLII_HUMAN	flightless I homolog	552	Interaction with ACTL6A.|Gelsolin-like 1.				multicellular organismal development|muscle contraction|regulation of transcription, DNA-dependent|transcription, DNA-dependent	centrosome|nucleus	actin binding			central_nervous_system(1)	1	all_neural(463;0.228)													0.233333	8.401968	10.488681	7	23	TT		KEEP	---	---	---	---	capture			Missense_Mutation	SNP	18094998	18094998	6163	17	T	C	C	54	54	FLII	C	4	4
NF1	4763	broad.mit.edu	36	17	26610175	26610175	+	Splice_Site_SNP	SNP	G	A	A			TCGA-02-0033-01	TCGA-02-0033-01	G	G								Phase_I	Unspecified				Illumina GAIIx	g.chr17:26610175G>A	uc002hgg.1	+	c.4333_splice	c.e33-1	p.I1445_splice	NF1_uc002hgh.1_Splice_Site_SNP_p.I1424_splice|NF1_uc002hgi.1_Splice_Site_SNP_p.I457_splice	NM_001042492	NP_001035957			neurofibromin isoform 1						actin cytoskeleton organization|adrenal gland development|artery morphogenesis|camera-type eye morphogenesis|cerebral cortex development|collagen fibril organization|forebrain astrocyte development|forebrain morphogenesis|heart development|liver development|MAPKKK cascade|metanephros development|myelination in peripheral nervous system|negative regulation of cell migration|negative regulation of endothelial cell proliferation|negative regulation of MAP kinase activity|negative regulation of MAPKKK cascade|negative regulation of neuroblast proliferation|negative regulation of oligodendrocyte differentiation|negative regulation of transcription factor import into nucleus|osteoblast differentiation|phosphatidylinositol 3-kinase cascade|pigmentation|positive regulation of adenylate cyclase activity|positive regulation of neuron apoptosis|Ras protein signal transduction|regulation of blood vessel endothelial cell migration|regulation of bone resorption|response to hypoxia|smooth muscle tissue development|spinal cord development|sympathetic nervous system development|visual learning|wound healing	axon|cytoplasm|dendrite|intrinsic to internal side of plasma membrane|nucleus	protein binding|Ras GTPase activator activity	p.?(2)		soft_tissue(155)|central_nervous_system(56)|large_intestine(27)|lung(19)|haematopoietic_and_lymphoid_tissue(13)|ovary(12)|autonomic_ganglia(7)|skin(3)|stomach(2)|breast(2)|thyroid(1)|prostate(1)|kidney(1)|pancreas(1)	300		all_cancers(10;1.29e-12)|all_epithelial(10;0.00347)|all_hematologic(16;0.00556)|Acute lymphoblastic leukemia(14;0.00593)|Breast(31;0.014)|Myeloproliferative disorder(56;0.0255)|all_lung(9;0.0321)|Lung NSC(157;0.0659)							(SNU81-Tumor)	847	TCGA GBM(6;<1E-8)|TSP Lung(7;0.0071)|TCGA Ovarian(3;0.0088)			0.285714	35.5819	37.312836	12	30	GG		KEEP	---	---	---	---	capture		UCEC - Uterine corpus endometrioid carcinoma (4;4.38e-05)|all cancers(4;1.64e-26)|Epithelial(4;9.15e-23)|OV - Ovarian serous cystadenocarcinoma(4;3.58e-21)|GBM - Glioblastoma multiforme(4;0.00146)	Splice_Site_SNP	SNP	26610175	26610175	10756	17	G	A	A	33	33	NF1	A	5	2
BZRAP1	9256	broad.mit.edu	36	17	53737780	53737780	+	Silent	SNP	C	A	A			TCGA-02-0033-01	TCGA-02-0033-01	C	C								Phase_I	Unspecified				Illumina GAIIx	g.chr17:53737780C>A	uc002ivx.2	-	c.5400G>T	c.(5398-5400)GTG>GTT	p.V1800V	BZRAP1_uc010dcs.1_Silent_p.V1740V|BZRAP1_uc002ivv.1_5'Flank|BZRAP1_uc002ivw.1_Silent_p.V32V	NM_004758	NP_004749	O95153	RIMB1_HUMAN	peripheral benzodiazepine receptor-associated	1800	SH3 3.					mitochondrion	benzodiazepine receptor binding				0	Medulloblastoma(34;0.127)|all_neural(34;0.237)													0.275362	101.905446	108.167165	38	100	CC		KEEP	---	---	---	---	capture			Silent	SNP	53737780	53737780	1611	17	C	A	A	17	17	BZRAP1	A	3	3
ITGB4	3691	broad.mit.edu	36	17	71241289	71241289	+	Silent	SNP	C	T	T			TCGA-02-0033-01	TCGA-02-0033-01	C	C								Phase_I	Unspecified				Illumina GAIIx	g.chr17:71241289C>T	uc002jpg.1	+	c.1578C>T	c.(1576-1578)TAC>TAT	p.Y526Y	ITGB4_uc002jph.1_Silent_p.Y526Y|ITGB4_uc010dgo.1_Silent_p.Y526Y|ITGB4_uc002jpi.2_Silent_p.Y526Y|ITGB4_uc010dgp.1_Silent_p.Y526Y|ITGB4_uc002jpj.1_Silent_p.Y526Y	NM_000213	NP_000204	P16144	ITB4_HUMAN	integrin beta 4 isoform 1 precursor	526	II.|Extracellular (Potential).|Cysteine-rich tandem repeats.				cell communication|cell-matrix adhesion|hemidesmosome assembly|integrin-mediated signaling pathway|multicellular organismal development	integrin complex	protein binding|receptor activity			lung(4)	4	all_cancers(13;1.5e-07)									754				0.226891	61.76781	69.913127	27	92	CC		KEEP	---	---	---	---	capture	all cancers(21;8.32e-07)|Epithelial(20;1.92e-06)|BRCA - Breast invasive adenocarcinoma(9;0.00194)|Lung(188;0.132)|LUSC - Lung squamous cell carcinoma(166;0.154)		Silent	SNP	71241289	71241289	8201	17	C	T	T	19	19	ITGB4	T	1	1
TP53	7157	broad.mit.edu	36	17	7518263	7518263	+	Missense_Mutation	SNP	C	T	T	rs11540652	by-hapmap	TCGA-02-0033-01	TCGA-02-0033-01	C	C								Phase_I	Unspecified				Illumina GAIIx	g.chr17:7518263C>T	uc002gim.2	-	c.743G>A	c.(742-744)CGG>CAG	p.R248Q	TP53_uc002gig.1_Missense_Mutation_p.R248Q|TP53_uc002gih.1_Missense_Mutation_p.R248Q|TP53_uc010cne.1_5'Flank|TP53_uc010cnf.1_Missense_Mutation_p.R116Q|TP53_uc010cng.1_Missense_Mutation_p.R116Q|TP53_uc002gii.1_Missense_Mutation_p.R116Q|TP53_uc010cnh.1_Missense_Mutation_p.R248Q|TP53_uc010cni.1_Missense_Mutation_p.R248Q|TP53_uc002gij.2_Missense_Mutation_p.R248Q|TP53_uc010cnj.1_Non-coding_Transcript|TP53_uc002gin.2_Missense_Mutation_p.R155Q|TP53_uc002gio.2_Missense_Mutation_p.R116Q	NM_001126112	NP_001119584	P04637	P53_HUMAN	tumor protein p53 isoform a	248	|Interaction with HIPK1 (By similarity).|Interacts with the 53BP2 SH3 domain.|Interaction with AXIN1 (By similarity).		R -> W (in LFS; germline mutation and in sporadic cancers; somatic mutation).|R -> P (in sporadic cancers; somatic mutation).|R -> G (in sporadic cancers; somatic mutation).|R -> L (in sporadic cancers; somatic mutation).|NR -> KW (in sporadic cancers; somatic mutation).|R -> C (in a sporadic cancer; somatic mutation).|NR -> IP (in a sporadic cancer; somatic mutation).		activation of caspase activity by cytochrome c|base-excision repair|blood coagulation|cell cycle arrest|cell differentiation|cell proliferation|cellular protein localization|cellular response to drug|cellular response to glucose starvation|cellular response to hypoxia|cellular response to ionizing radiation|cellular response to UV|determination of adult lifespan|DNA damage response, signal transduction by p53 class mediator resulting in cell cycle arrest|DNA damage response, signal transduction by p53 class mediator resulting in induction of apoptosis|DNA damage response, signal transduction by p53 class mediator resulting in transcription of p21 class mediator|ER overload response|interspecies interaction between organisms|negative regulation of apoptosis|negative regulation of cell growth|negative regulation of cell proliferation|negative regulation of gene-specific transcription from RNA polymerase II promoter|negative regulation of helicase activity|negative regulation of transcription from RNA polymerase II promoter|nucleotide-excision repair|oxidative stress-induced premature senescence|positive regulation of gene-specific transcription from RNA polymerase II promoter|positive regulation of histone deacetylation|positive regulation of neuron apoptosis|positive regulation of peptidyl-tyrosine phosphorylation|positive regulation of reactive oxygen species metabolic process|positive regulation of thymocyte apoptosis|positive regulation of transcription from RNA polymerase II promoter|protein localization|protein tetramerization|Ras protein signal transduction|regulation of mitochondrial membrane permeability|replicative senescence|response to antibiotic|response to gamma radiation|response to X-ray	chromatin|cytoplasm|cytosol|endoplasmic reticulum|insoluble fraction|mitochondrion|nuclear matrix|nucleolus|nucleus|PML body|protein complex|replication fork	ATP binding|chaperone binding|chromatin binding|copper ion binding|damaged DNA binding|DNA strand annealing activity|histone acetyltransferase binding|p53 binding|promoter binding|promoter binding|protease binding|protein heterodimerization activity|protein kinase binding|protein N-terminus binding|protein phosphatase 2A binding|sequence-specific DNA binding transcription factor activity|specific transcriptional repressor activity|transcription activator activity|transcription factor binding|ubiquitin protein ligase binding|zinc ion binding	p.R248Q(503)|p.R248L(63)|p.R248P(11)|p.0?(6)|p.N247_R248delNR(2)|p.M246_P250delMNRRP(2)|p.R248_P250delRRP(1)|p.N247_R249delNRR(1)|p.N247_P250delNRRP(1)|p.R249fs*96(1)|p.R248C(1)|p.G245fs*14(1)|p.N247_R248>IP(1)		large_intestine(4614)|breast(2344)|upper_aerodigestive_tract(2150)|lung(1958)|ovary(1559)|oesophagus(1462)|haematopoietic_and_lymphoid_tissue(1212)|stomach(1127)|urinary_tract(1113)|central_nervous_system(1072)|liver(805)|skin(693)|pancreas(370)|biliary_tract(247)|soft_tissue(209)|prostate(192)|endometrium(150)|bone(102)|vulva(79)|kidney(79)|cervix(68)|thyroid(54)|salivary_gland(41)|adrenal_gland(37)|peritoneum(33)|eye(24)|thymus(21)|genital_tract(16)|autonomic_ganglia(16)|small_intestine(14)|testis(11)|penis(10)|vagina(6)|meninges(5)|pituitary(4)|pleura(3)|gastrointestinal_tract_(site_indeterminate)(1)|NS(1)|Fallopian tube(1)|placenta(1)	21904		all_cancers(10;1.01e-06)|Myeloproliferative disorder(207;0.0122)|Prostate(122;0.081)				Pancreas(47;798 1329 9957 10801)	R248Q(KASUMI1_HAEMATOPOIETIC_AND_LYMPHOID_TISSUE)|R248Q(HS683_CENTRAL_NERVOUS_SYSTEM)|R248Q(NAMALWA_HAEMATOPOIETIC_AND_LYMPHOID_TISSUE)|R248Q(HCC1143_BREAST)|R248Q(BL41_HAEMATOPOIETIC_AND_LYMPHOID_TISSUE)|R248Q(SKUT1_SOFT_TISSUE)|R248Q(HSC4_UPPER_AERODIGESTIVE_TRACT)|R248Q(HEC1A_ENDOMETRIUM)|R248Q(SF295_CENTRAL_NERVOUS_SYSTEM)|R248Q(KOPN8_HAEMATOPOIETIC_AND_LYMPHOID_TISSUE)|R248Q(NUDHL1_HAEMATOPOIETIC_AND_LYMPHOID_TISSUE)|R248Q(WSUDLCL2_HAEMATOPOIETIC_AND_LYMPHOID_TISSUE)|R248Q(NCIN87_STOMACH)|R248Q(P12ICHIKAWA_HAEMATOPOIETIC_AND_LYMPHOID_TISSUE)|R248Q(DB_HAEMATOPOIETIC_AND_LYMPHOID_TISSUE)|R248Q(RT112_URINARY_TRACT)|R248Q(PF382_HAEMATOPOIETIC_AND_LYMPHOID_TISSUE)|R248Q(PANC0203_PANCREAS)|R248Q(EM2_HAEMATOPOIETIC_AND_LYMPHOID_TISSUE)|R248Q(SEM_HAEMATOPOIETIC_AND_LYMPHOID_TISSUE)|R248Q(CI1_HAEMATOPOIETIC_AND_LYMPHOID_TISSUE)|R248Q(MOLM6_HAEMATOPOIETIC_AND_LYMPHOID_TISSUE)|R248Q(NIHOVCAR3_OVARY)|R248Q(CA46_HAEMATOPOIETIC_AND_LYMPHOID_TISSUE)|R248Q(SUPT1_HAEMATOPOIETIC_AND_LYMPHOID_TISSUE)|R248Q(SW1463_LARGE_INTESTINE)|R248Q(HCC70_BREAST)|R248Q(KYSE150_OESOPHAGUS)|R248Q(NB4_HAEMATOPOIETIC_AND_LYMPHOID_TISSUE)|R248Q(NCIH211_LUNG)|R248Q(KYO1_HAEMATOPOIETIC_AND_LYMPHOID_TISSUE)|R248Q(PC14_LUNG)	111	p.R248L(NCIH211-Tumor)|p.R248L(NB4-Tumor)|p.R248L(PC14-Tumor)|p.R248L(KYO1-Tumor)|p.R248L(PCM6-Tumor)|p.R248L(NUDHL1-Tumor)|p.R248L(BL41-Tumor)|p.R248Q(FADU-Tumor)|p.R248L(CI1-Tumor)|p.R248L(SW1463-Tumor)|p.R248L(COLO699-Tumor)|p.R248L(HS683-Tumor)|p.R248*(DB-Tumor)|p.R248L(HCC1143-Tumor)|p.R248L(NCIN87-Tumor)|p.R248A(SF126-Tumor)|p.R248L(PANC02.03-Tumor)|p.R248L(HEC1B-Tumor)|p.R248L(PECAPJ15-Tumor)|p.R248L(LNCAPCLONEFGC-Tumor)|p.R248L(NIHOVCAR3-Tumor)|p.R248L(NUDUL1-Tumor)|p.R248L(ONCODG1-Tumor)|p.R248L(RT112-Tumor)|p.R248L(SF295-Tumor)|p.R248L(P12ICHIKAWA-Tumor)|p.R248L(DND41-Tumor)|p.R248Q(SBC5-Tumor)|p.R248L(KOPN8-Tumor)|p.R248L(KASUMI1-Tumor)|p.R248L(EM2-Tumor)|p.R248L(SKUT1-Tumor)|p.R248L(NCCSTCK140-Tumor)|p.R248L(TE6-Tumor)|p.R248L(MOLM6-Tumor)|p.R248L(SEM-Tumor)|p.R248L(NAMALWA-Tumor)|p.R248L(CA46-Tumor)|p.R248L(639V-Tumor)|p.R248L(SKM1-Tumor)|p.R248Q(NCIH1573-Tumor)|p.R248Q(NCIH1618-Tumor)|p.R248L(HCC70-Tumor)|p.R248L(WSUDLCL2-Tumor)|p.R248L(HEC1A-Tumor)|p.R248L(KYSE150-Tumor)|p.R248L(HSC4-Tumor)|p.R248L(CL40-Tumor)	690	TCGA GBM(1;<1E-8)|TSP Lung(2;<1E-8)|TCGA Ovarian(1;<1.89e-07)|Multiple Myeloma(5;0.019)			0.241935	37.899459	41.661646	15	47	CC		KEEP	---	---	---	---	capture		GBM - Glioblastoma multiforme(2;1.59e-06)|READ - Rectum adenocarcinoma(115;0.174)	Missense_Mutation	SNP	7518263	7518263	16923	17	C	T	T	23	23	TP53	T	1	1
C18orf45	85019	broad.mit.edu	36	18	19143647	19143647	+	Silent	SNP	C	T	T			TCGA-02-0033-01	TCGA-02-0033-01	C	C								Phase_I	Unspecified				Illumina GAIIx	g.chr18:19143647C>T	uc002kuf.1	-	c.825G>A	c.(823-825)ACG>ACA	p.T275T	C18orf45_uc002kue.1_Non-coding_Transcript|C18orf45_uc002kug.1_Non-coding_Transcript|C18orf45_uc002kuh.1_Non-coding_Transcript	NM_032933	NP_116322	Q24JQ0	CR045_HUMAN	hypothetical protein LOC85019	275	Helical; (Potential).					integral to membrane					0	all_cancers(21;0.000238)|all_epithelial(16;5.29e-06)|Lung NSC(20;0.00925)|Colorectal(14;0.0202)|all_lung(20;0.0255)|Ovarian(20;0.127)													0.168675	59.493718	76.750429	28	138	CC		KEEP	---	---	---	---	capture			Silent	SNP	19143647	19143647	1964	18	C	T	T	23	23	C18orf45	T	1	1
ZNF99	7652	broad.mit.edu	36	19	22732485	22732485	+	Missense_Mutation	SNP	A	T	T			TCGA-02-0033-01	TCGA-02-0033-01	A	A								Phase_I	Unspecified				Illumina GAIIx	g.chr19:22732485A>T	uc002nqx.1	-	c.1793T>A	c.(1792-1794)TTC>TAC	p.F598Y		NM_001080409	NP_001073878	A8MXY4	ZNF99_HUMAN	zinc finger protein 99	598	C2H2-type 16.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(1)	1		Lung NSC(12;0.0207)|all_lung(12;0.0214)|all_epithelial(12;0.102)												0.232558	88.90706	100.177374	40	132	AA		KEEP	---	---	---	---	capture			Missense_Mutation	SNP	22732485	22732485	18808	19	A	T	T	9	9	ZNF99	T	4	4
THOP1	7064	broad.mit.edu	36	19	2764256	2764256	+	Silent	SNP	C	G	G			TCGA-02-0033-01	TCGA-02-0033-01	C	C								Phase_I	Unspecified				Illumina GAIIx	g.chr19:2764256C>G	uc002lwj.1	+	c.2052C>G	c.(2050-2052)CCC>CCG	p.P684P	THOP1_uc002lwk.1_Silent_p.P253P	NM_003249	NP_003240	P52888	THOP1_HUMAN	thimet oligopeptidase 1	684					proteolysis	cytoplasm	metal ion binding|metalloendopeptidase activity|protein binding			ovary(2)|central_nervous_system(1)	3														0.222222	9.964879	11.865244	6	21	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)	Silent	SNP	2764256	2764256	16399	19	C	G	G	23	23	THOP1	G	3	3
KIAA0355	9710	broad.mit.edu	36	19	39510877	39510877	+	Missense_Mutation	SNP	A	G	G			TCGA-02-0033-01	TCGA-02-0033-01	A	A								Phase_I	Unspecified				Illumina GAIIx	g.chr19:39510877A>G	uc002nvd.2	+	c.1085A>G	c.(1084-1086)GAC>GGC	p.D362G		NM_014686	NP_055501	O15063	K0355_HUMAN	hypothetical protein LOC9710	362										ovary(1)	1	Esophageal squamous(110;0.162)													0.208791	47.586671	54.723071	19	72	AA		KEEP	---	---	---	---	capture			Missense_Mutation	SNP	39510877	39510877	8477	19	A	G	G	10	10	KIAA0355	G	4	4
DPF1	8193	broad.mit.edu	36	19	43404920	43404920	+	Missense_Mutation	SNP	G	A	A			TCGA-02-0033-01	TCGA-02-0033-01	G	G								Phase_I	Unspecified				Illumina GAIIx	g.chr19:43404920G>A	uc002ohp.1	-	c.329C>T	c.(328-330)ACG>ATG	p.T110M	DPF1_uc002ohl.1_Missense_Mutation_p.T72M|DPF1_uc002ohm.1_Missense_Mutation_p.T72M|DPF1_uc002ohn.1_Missense_Mutation_p.T17M|DPF1_uc002oho.1_Missense_Mutation_p.T110M	NM_004647	NP_004638	Q92782	DPF1_HUMAN	D4, zinc and double PHD fingers family 1 isoform	99					induction of apoptosis|nervous system development|regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasm|nBAF complex	zinc ion binding				0	all_cancers(60;1.24e-06)													0.138614	39.767209	65.269153	28	174	GG		KEEP	---	---	---	---	capture	Lung(45;0.000246)|LUSC - Lung squamous cell carcinoma(53;0.000292)		Missense_Mutation	SNP	43404920	43404920	4900	19	G	A	A	40	40	DPF1	A	1	1
LIN9	286826	broad.mit.edu	36	1	224493403	224493403	+	Silent	SNP	G	A	A			TCGA-02-0033-01	TCGA-02-0033-01	G	G								Phase_I	Unspecified				Illumina GAIIx	g.chr1:224493403G>A	uc001hqa.1	-	c.1185C>T	c.(1183-1185)CCC>CCT	p.P395P	LIN9_uc001hqb.1_Silent_p.P360P|LIN9_uc001hqc.1_Silent_p.P327P|LIN9_uc009xel.1_Silent_p.P360P	NM_173083	NP_775106	Q5TKA1	LIN9_HUMAN	lin-9 homolog	379	Potential.				cell cycle|DNA replication	nucleoplasm					0	Breast(184;0.158)					Ovarian(197;1696 2974 11248 14117)								0.188312	67.579099	81.585091	29	125	GG		KEEP	---	---	---	---	capture		GBM - Glioblastoma multiforme(131;0.131)	Silent	SNP	224493403	224493403	9140	1	G	A	A	47	47	LIN9	A	2	2
TAF4	6874	broad.mit.edu	36	20	60015170	60015170	+	Missense_Mutation	SNP	C	T	T			TCGA-02-0033-01	TCGA-02-0033-01	C	C								Phase_I	Unspecified				Illumina GAIIx	g.chr20:60015170C>T	uc002ybs.1	-	c.2014G>A	c.(2014-2016)GCG>ACG	p.A672T		NM_003185	NP_003176	O00268	TAF4_HUMAN	TBP-associated factor 4	672	TAFH.				interspecies interaction between organisms|transcription elongation from RNA polymerase II promoter|transcription initiation from RNA polymerase II promoter|viral reproduction	cytoplasm|MLL1 complex|transcription factor TFIID complex|transcription factor TFTC complex	DNA binding|general RNA polymerase II transcription factor activity|protein binding|sequence-specific DNA binding transcription factor activity|transcription activator activity|transcription coactivator activity|transcription initiation factor activity			ovary(2)|pancreas(1)	3	Breast(26;1e-08)													0.243902	46.26408	51.096401	20	62	CC		KEEP	---	---	---	---	capture	BRCA - Breast invasive adenocarcinoma(19;3.1e-07)		Missense_Mutation	SNP	60015170	60015170	16047	20	C	T	T	27	27	TAF4	T	1	1
KRTAP6-3	337968	broad.mit.edu	36	21	30886650	30886650	+	Silent	SNP	C	A	A			TCGA-02-0033-01	TCGA-02-0033-01	C	C								Phase_I	Unspecified				Illumina GAIIx	g.chr21:30886650C>A	uc002yom.1	+	c.15C>A	c.(13-15)ACC>ACA	p.T5T		NM_181605	NP_853636			keratin associated protein 6-3												0														0.16	22.049463	30.307469	12	63	CC		KEEP	---	---	---	---	capture			Silent	SNP	30886650	30886650	8893	21	C	A	A	21	21	KRTAP6-3	A	3	3
ALG12	79087	broad.mit.edu	36	22	48693360	48693360	+	Missense_Mutation	SNP	C	A	A			TCGA-02-0033-01	TCGA-02-0033-01	C	C								Phase_I	Unspecified				Illumina GAIIx	g.chr22:48693360C>A	uc003biy.1	-	c.58G>T	c.(58-60)GTA>TTA	p.V20L		NM_024105	NP_077010	Q9BV10	ALG12_HUMAN	alpha-1,6-mannosyltransferase ALG12	20	Helical; (Potential).				dolichol-linked oligosaccharide biosynthetic process|GPI anchor biosynthetic process|post-translational protein modification|protein folding|protein N-linked glycosylation via asparagine	integral to membrane|intrinsic to endoplasmic reticulum membrane	alpha-1,6-mannosyltransferase activity				0		all_cancers(38;8.58e-10)|all_epithelial(38;1.15e-08)|all_lung(38;0.000109)|Lung NSC(38;0.0018)|Breast(42;0.00191)|Ovarian(80;0.0164)|Lung SC(80;0.164)												0.1875	10.362163	13.267232	6	26	CC		KEEP	---	---	---	---	capture		BRCA - Breast invasive adenocarcinoma(115;0.199)|LUAD - Lung adenocarcinoma(64;0.247)	Missense_Mutation	SNP	48693360	48693360	517	22	C	A	A	19	19	ALG12	A	3	3
IRS1	3667	broad.mit.edu	36	2	227370416	227370416	+	Missense_Mutation	SNP	G	A	A			TCGA-02-0033-01	TCGA-02-0033-01	G	G								Phase_I	Unspecified				Illumina GAIIx	g.chr2:227370416G>A	uc002voh.2	-	c.1283C>T	c.(1282-1284)TCG>TTG	p.S428L	IRS1_uc010fxb.1_Missense_Mutation_p.S428L	NM_005544	NP_005535	P35568	IRS1_HUMAN	insulin receptor substrate 1	428	Ser-rich.				fibroblast growth factor receptor signaling pathway|glucose homeostasis|insulin receptor signaling pathway|negative regulation of insulin receptor signaling pathway|negative regulation of insulin secretion|nerve growth factor receptor signaling pathway|phosphatidylinositol 3-kinase cascade|phosphatidylinositol-mediated signaling|positive regulation of fatty acid beta-oxidation|positive regulation of glucose import|positive regulation of glycogen biosynthetic process|positive regulation of insulin receptor signaling pathway|positive regulation of phosphatidylinositol 3-kinase activity	caveola|cytosol|insulin receptor complex|microsome|nucleus	insulin receptor binding|insulin-like growth factor receptor binding|phosphatidylinositol 3-kinase binding|protein kinase C binding|SH2 domain binding|transmembrane receptor protein tyrosine kinase adaptor activity	p.S428L(1)		central_nervous_system(4)|lung(3)|ovary(1)|pancreas(1)	9		Renal(207;0.023)|all_lung(227;0.0994)|all_hematologic(139;0.118)|Esophageal squamous(248;0.23)								143		OREG0015248	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	0.172973	60.997031	79.689153	32	153	GG		KEEP	---	---	---	---	capture		Epithelial(121;3.03e-11)|all cancers(144;2.42e-08)|Lung(261;0.00712)|LUSC - Lung squamous cell carcinoma(224;0.0137)	Missense_Mutation	SNP	227370416	227370416	8144	2	G	A	A	37	37	IRS1	A	1	1
SLC9A10	285335	broad.mit.edu	36	3	113370460	113370460	+	Missense_Mutation	SNP	C	T	T			TCGA-02-0033-01	TCGA-02-0033-01	C	C								Phase_I	Unspecified				Illumina GAIIx	g.chr3:113370460C>T	uc003dyu.1	-	c.3191G>A	c.(3190-3192)CGA>CAA	p.R1064Q	SLC9A10_uc010hqc.1_Missense_Mutation_p.R1016Q	NM_183061	NP_898884	Q4G0N8	S9A10_HUMAN	sperm-specific sodium proton exchanger	1064					cell differentiation|multicellular organismal development|sodium ion transport|spermatogenesis	cilium|flagellar membrane|integral to membrane	solute:hydrogen antiporter activity			ovary(3)|breast(2)	5														0.215768	122.066864	140.036159	52	189	CC		KEEP	---	---	---	---	capture			Missense_Mutation	SNP	113370460	113370460	15207	3	C	T	T	31	31	SLC9A10	T	1	1
HLTF	6596	broad.mit.edu	36	3	150286805	150286805	+	Nonsense_Mutation	SNP	C	T	T			TCGA-02-0033-01	TCGA-02-0033-01	C	C								Phase_I	Unspecified				Illumina GAIIx	g.chr3:150286805C>T	uc003ewq.1	-	c.9G>A	c.(7-9)TGG>TGA	p.W3*	HLTF_uc003ewr.1_Nonsense_Mutation_p.W3*|HLTF_uc003ews.1_Nonsense_Mutation_p.W3*|HLTF_uc010hve.1_Nonsense_Mutation_p.W3*	NM_139048	NP_620636	Q14527	HLTF_HUMAN	helicase-like transcription factor	3					chromatin modification|transcription, DNA-dependent	nucleus	ATP binding|DNA binding|helicase activity|ligase activity|zinc ion binding				0														0.1875	6.614937	8.078448	3	13	CC		KEEP	---	---	---	---	capture	LUSC - Lung squamous cell carcinoma(72;0.0473)|Lung(72;0.0607)		Nonsense_Mutation	SNP	150286805	150286805	7506	3	C	T	T	30	30	HLTF	T	5	2
PIK3CA	5290	broad.mit.edu	36	3	180418776	180418776	+	Missense_Mutation	SNP	G	A	A			TCGA-02-0033-01	TCGA-02-0033-01	G	G								Phase_I	Unspecified				Illumina GAIIx	g.chr3:180418776G>A	uc003fjk.1	+	c.1624G>A	c.(1624-1626)GAA>AAA	p.E542K		NM_006218	NP_006209	P42336	PK3CA_HUMAN	phosphoinositide-3-kinase, catalytic, alpha	542			E -> V (in cancer).|E -> K (in KERSEB; shows an increase in lipid kinase activity; oncogenic in vivo).|E -> Q (in cancer).		epidermal growth factor receptor signaling pathway|fibroblast growth factor receptor signaling pathway|insulin receptor signaling pathway|leukocyte migration|nerve growth factor receptor signaling pathway|phosphatidylinositol-mediated signaling|platelet activation|T cell costimulation|T cell receptor signaling pathway		1-phosphatidylinositol-3-kinase activity|ATP binding|phosphatidylinositol-4,5-bisphosphate 3-kinase activity	p.E542K(471)|p.E542Q(6)		breast(1506)|large_intestine(749)|endometrium(244)|urinary_tract(195)|ovary(136)|skin(112)|stomach(89)|thyroid(77)|central_nervous_system(69)|lung(61)|upper_aerodigestive_tract(48)|haematopoietic_and_lymphoid_tissue(27)|cervix(25)|biliary_tract(22)|liver(20)|oesophagus(17)|pancreas(11)|penis(8)|pituitary(8)|autonomic_ganglia(4)|kidney(2)|prostate(2)|meninges(1)|eye(1)|NS(1)|soft_tissue(1)|bone(1)	3437	all_cancers(143;1.19e-17)|Ovarian(172;0.00769)|Breast(254;0.155)					Colon(199;1504 1750 3362 26421 31210 32040)	E542K(SW948_LARGE_INTESTINE)|E542K(T84_LARGE_INTESTINE)|E542K(CAL51_BREAST)|E542K(JHUEM1_ENDOMETRIUM)|E542K(NCIH1341_LUNG)|E542K(VMCUB1_URINARY_TRACT)|E542K(BT483_BREAST)|E542K(HGC27_STOMACH)|E542K(IM95_STOMACH)	57	p.E542K(SW948-Tumor)|p.E542K(T84-Tumor)|p.E542K(BT483-Tumor)|p.E542K(IM95-Tumor)|p.E542K(SNU601-Tumor)|p.E542K(VMCUB1-Tumor)|p.E542K(NCIH1341-Tumor)|p.E542K(CAL51-Tumor)|p.E542K(HGC27-Tumor)	621	TCGA GBM(8;5.49e-07)			0.155039	34.708496	49.381895	20	109	GG		KEEP	---	---	---	---	capture	OV - Ovarian serous cystadenocarcinoma(80;9.59e-28)|GBM - Glioblastoma multiforme(14;0.003)|BRCA - Breast invasive adenocarcinoma(182;0.0282)		Missense_Mutation	SNP	180418776	180418776	12337	3	G	A	A	45	45	PIK3CA	A	2	2
IFRD2	7866	broad.mit.edu	36	3	50301900	50301900	+	Missense_Mutation	SNP	A	G	G			TCGA-02-0033-01	TCGA-02-0033-01	A	A								Phase_I	Unspecified				Illumina GAIIx	g.chr3:50301900A>G	uc003czb.1	-	c.1259T>C	c.(1258-1260)ATC>ACC	p.I420T	IFRD2_uc003cza.1_Missense_Mutation_p.I254T	NM_006764	NP_006755	Q12894	IFRD2_HUMAN	interferon-related developmental regulator 2	318							binding			ovary(1)|lung(1)	2														0.571429	8.285952	8.315195	4	3	AA		KEEP	---	---	---	---	capture		BRCA - Breast invasive adenocarcinoma(193;0.000272)|KIRC - Kidney renal clear cell carcinoma(197;0.00544)|Kidney(197;0.00607)	Missense_Mutation	SNP	50301900	50301900	7855	3	A	G	G	12	12	IFRD2	G	4	4
PCDHA1	56147	broad.mit.edu	36	5	140148093	140148093	+	Silent	SNP	G	A	A			TCGA-02-0033-01	TCGA-02-0033-01	G	G								Phase_I	Unspecified				Illumina GAIIx	g.chr5:140148093G>A	uc003lhb.1	+	c.2034G>A	c.(2032-2034)GCG>GCA	p.A678A	PCDHA1_uc003lha.1_Intron|PCDHA1_uc003lgz.1_Silent_p.A678A	NM_018900	NP_061723	Q9Y5I3	PCDA1_HUMAN	protocadherin alpha 1 isoform 1 precursor	678	Cadherin 6.|Extracellular (Potential).				homophilic cell adhesion|nervous system development	extracellular region|integral to plasma membrane	calcium ion binding|protein binding				0														0.22449	46.901452	53.741029	22	76	GG		KEEP	---	---	---	---	capture	KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)		Silent	SNP	140148093	140148093	11939	5	G	A	A	40	40	PCDHA1	A	1	1
HRH2	3274	broad.mit.edu	36	5	175042969	175042969	+	Missense_Mutation	SNP	G	A	A			TCGA-02-0033-01	TCGA-02-0033-01	G	G								Phase_I	Unspecified				Illumina GAIIx	g.chr5:175042969G>A	uc003mdc.2	+	c.127G>A	c.(127-129)GTG>ATG	p.V43M	HRH2_uc003mdd.1_Missense_Mutation_p.V43M|HRH2_uc010jjx.1_Missense_Mutation_p.V43M	NM_022304	NP_071640	P25021	HRH2_HUMAN	histamine receptor H2 isoform 2	43	Helical; Name=1; (Potential).				G-protein signaling, coupled to cyclic nucleotide second messenger|immune response	integral to plasma membrane	histamine receptor activity			ovary(1)	1	all_cancers(89;0.00805)|Renal(175;0.000269)|Lung NSC(126;0.00419)|all_lung(126;0.00711)	Medulloblastoma(196;0.0208)|all_neural(177;0.0277)|all_hematologic(541;0.214)			Betazole(DB00272)|Cimetidine(DB00501)|Doxepin(DB01142)|Epinastine(DB00751)|Famotidine(DB00927)|Histamine Phosphate(DB00667)|Nizatidine(DB00585)|Ranitidine(DB00863)									0.196825	122.972314	149.880111	62	253	GG		KEEP	---	---	---	---	capture	Kidney(164;3.85e-05)|KIRC - Kidney renal clear cell carcinoma(164;0.000183)	Colorectal(1;0.0154)|COAD - Colon adenocarcinoma(1;0.149)	Missense_Mutation	SNP	175042969	175042969	7648	5	G	A	A	40	40	HRH2	A	1	1
UNC5CL	222643	broad.mit.edu	36	6	41108805	41108805	+	Silent	SNP	G	A	A			TCGA-02-0033-01	TCGA-02-0033-01	G	G								Phase_I	Unspecified				Illumina GAIIx	g.chr6:41108805G>A	uc003opi.1	-	c.745C>T	c.(745-747)CTG>TTG	p.L249L		NM_173561	NP_775832	Q8IV45	UN5CL_HUMAN	unc-5 homolog C-like	249	Cytoplasmic (Potential).|Interaction with RELA and NFKB1.				signal transduction	cytoplasm|integral to membrane				ovary(2)	2	Ovarian(28;0.0418)|Colorectal(47;0.196)													0.190476	9.101409	10.971638	4	17	GG		KEEP	---	---	---	---	capture			Silent	SNP	41108805	41108805	17552	6	G	A	A	34	34	UNC5CL	A	2	2
ANKRD6	22881	broad.mit.edu	36	6	90378746	90378746	+	Missense_Mutation	SNP	A	C	C			TCGA-02-0033-01	TCGA-02-0033-01	A	A								Phase_I	Unspecified				Illumina GAIIx	g.chr6:90378746A>C	uc003pni.2	+	c.452A>C	c.(451-453)AAC>ACC	p.N151T	ANKRD6_uc003pne.2_Missense_Mutation_p.N151T|ANKRD6_uc003pnf.2_Missense_Mutation_p.N151T|ANKRD6_uc010kcd.1_Missense_Mutation_p.N118T|LYRM2_uc010kce.1_Intron|LYRM2_uc003png.2_Intron|ANKRD6_uc003pnh.2_5'UTR	NM_014942	NP_055757	Q9Y2G4	ANKR6_HUMAN	ankyrin repeat domain 6	151	ANK 5.						protein binding			ovary(2)|pancreas(1)	3		all_cancers(76;1.22e-09)|Prostate(29;1.16e-10)|Acute lymphoblastic leukemia(125;1.49e-10)|all_hematologic(105;7.79e-07)|all_epithelial(107;1.83e-05)|Lung NSC(302;0.239)												0.333333	6.619915	6.842364	3	6	AA		KEEP	---	---	---	---	capture		BRCA - Breast invasive adenocarcinoma(108;0.0209)	Missense_Mutation	SNP	90378746	90378746	693	6	A	C	C	2	2	ANKRD6	C	4	4
PDIA4	9601	broad.mit.edu	36	7	148334058	148334058	+	Silent	SNP	G	A	A			TCGA-02-0033-01	TCGA-02-0033-01	G	G								Phase_I	Unspecified				Illumina GAIIx	g.chr7:148334058G>A	uc003wff.2	-	c.1152C>T	c.(1150-1152)GCC>GCT	p.A384A		NM_004911	NP_004902	P13667	PDIA4_HUMAN	protein disulfide isomerase-associated 4	384					cell redox homeostasis|glycerol ether metabolic process|protein secretion	endoplasmic reticulum lumen|melanosome	electron carrier activity|protein binding|protein disulfide isomerase activity|protein disulfide oxidoreductase activity			ovary(1)	1	Melanoma(164;0.15)											OREG0018420	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	0.147059	15.899189	24.047465	10	58	GG		KEEP	---	---	---	---	capture	OV - Ovarian serous cystadenocarcinoma(82;0.00385)		Silent	SNP	148334058	148334058	12091	7	G	A	A	47	47	PDIA4	A	2	2
SEMA3C	10512	broad.mit.edu	36	7	80384014	80384014	+	Missense_Mutation	SNP	C	A	A			TCGA-02-0033-01	TCGA-02-0033-01	C	C								Phase_I	Unspecified				Illumina GAIIx	g.chr7:80384014C>A	uc003uhj.1	-	c.20G>T	c.(19-21)TGC>TTC	p.C7F		NM_006379	NP_006370	Q99985	SEM3C_HUMAN	semaphorin 3C	7					immune response|response to drug	membrane	receptor activity			ovary(1)	1														0.123077	40.301565	76.462464	32	228	CC		KEEP	---	---	---	---	capture			Missense_Mutation	SNP	80384014	80384014	14512	7	C	A	A	25	25	SEMA3C	A	3	3
ZDHHC2	51201	broad.mit.edu	36	8	17117219	17117219	+	Silent	SNP	A	G	G			TCGA-02-0033-01	TCGA-02-0033-01	A	A								Phase_I	Unspecified				Illumina GAIIx	g.chr8:17117219A>G	uc003wxe.1	+	c.1053A>G	c.(1051-1053)AAA>AAG	p.K351K		NM_016353	NP_057437	Q9UIJ5	ZDHC2_HUMAN	zinc finger, DHHC-type containing 2	351						integral to membrane	acyltransferase activity|zinc ion binding				0														0.272727	17.441142	18.464768	6	16	AA		KEEP	---	---	---	---	capture		Colorectal(111;0.0697)|COAD - Colon adenocarcinoma(73;0.244)	Silent	SNP	17117219	17117219	18198	8	A	G	G	4	4	ZDHHC2	G	4	4
FBXO16	157574	broad.mit.edu	36	8	28377241	28377241	+	Missense_Mutation	SNP	G	T	T			TCGA-02-0033-01	TCGA-02-0033-01	G	G								Phase_I	Unspecified				Illumina GAIIx	g.chr8:28377241G>T	uc003xgw.1	-	c.110C>A	c.(109-111)ACA>AAA	p.T37K	ZNF395_uc003xgt.1_5'UTR|FBXO16_uc003xgu.1_Missense_Mutation_p.T50K|FBXO16_uc003xgv.1_Missense_Mutation_p.T37K	NM_172366	NP_758954	Q8IX29	FBX16_HUMAN	F-box only protein 16	50										ovary(1)	1		Ovarian(32;2.06e-05)												0.227273	62.584489	70.131437	25	85	GG		KEEP	---	---	---	---	capture		KIRC - Kidney renal clear cell carcinoma(542;0.121)|Kidney(114;0.144)|Colorectal(74;0.249)	Missense_Mutation	SNP	28377241	28377241	5966	8	G	T	T	48	48	FBXO16	T	3	3
EGFL7	51162	broad.mit.edu	36	9	138684548	138684548	+	Silent	SNP	C	T	T			TCGA-02-0033-01	TCGA-02-0033-01	C	C								Phase_I	Unspecified				Illumina GAIIx	g.chr9:138684548C>T	uc004cid.1	+	c.516C>T	c.(514-516)GAC>GAT	p.D172D	EGFL7_uc004cif.1_Silent_p.D172D|EGFL7_uc004cig.1_Non-coding_Transcript|EGFL7_uc010nbp.1_Silent_p.D172D|EGFL7_uc004cie.1_Silent_p.D172D|EGFL7_uc004cih.1_Silent_p.D172D|MIR126_hsa-mir-126|MI0000471_5'Flank	NM_201446	NP_958854	Q9UHF1	EGFL7_HUMAN	EGF-like-domain, multiple 7	172	EGF-like 2; calcium-binding (Potential).				angiogenesis|vasculogenesis		calcium ion binding			ovary(1)	1	all_cancers(76;0.109)	Myeloproliferative disorder(178;0.0511)												0.159091	11.815338	16.673645	7	37	CC		KEEP	---	---	---	---	capture		OV - Ovarian serous cystadenocarcinoma(145;9.87e-06)|Epithelial(140;0.000123)	Silent	SNP	138684548	138684548	5153	9	C	T	T	19	19	EGFL7	T	1	1
C9orf25	203259	broad.mit.edu	36	9	34391054	34391054	+	Missense_Mutation	SNP	C	T	T			TCGA-02-0033-01	TCGA-02-0033-01	C	C								Phase_I	Unspecified				Illumina GAIIx	g.chr9:34391054C>T	uc003zuj.1	-	c.415G>A	c.(415-417)GAC>AAC	p.D139N	C9orf25_uc003zuk.1_Missense_Mutation_p.D128N|C9orf25_uc003zul.2_Missense_Mutation_p.D127N	NM_147202	NP_671735	Q8IW50	CI025_HUMAN	hypothetical protein LOC203259	156											0	all_epithelial(49;0.244)													0.183486	41.234332	51.483866	20	89	CC		KEEP	---	---	---	---	capture	LUSC - Lung squamous cell carcinoma(29;0.0107)	GBM - Glioblastoma multiforme(74;0.0858)	Missense_Mutation	SNP	34391054	34391054	2591	9	C	T	T	31	31	C9orf25	T	1	1
MICALCL	84953	broad.mit.edu	36	11	12272963	12272965	+	In_Frame_Del	DEL	CTA	-	-			TCGA-02-0033-01	TCGA-02-0033-01										Phase_I	Unspecified				Illumina GAIIx	g.chr11:12272963_12272965delCTA	uc001mkg.1	+	c.1409_1411delCTA	c.(1408-1413)CCTACA>CCA	p.T471del		NM_032867	NP_116256	Q6ZW33	MICLK_HUMAN	MICAL C-terminal like	471					cell differentiation|multicellular organismal development|spermatogenesis	cytoplasm	mitogen-activated protein kinase binding				0				Epithelial(150;0.00177)										0.47			7	8				---	---	---	---	capture_indel			In_Frame_Del	DEL	12272963	12272965	9962	11	CTA	-	-	24	24	MICALCL	-	5	5
PEX11G	92960	broad.mit.edu	36	19	7448216	7448217	+	Frame_Shift_Ins	INS	-	C	C			TCGA-02-0033-01	TCGA-02-0033-01										Phase_I	Unspecified				Illumina GAIIx	g.chr19:7448216_7448217insC	uc002mgk.1	-	c.597_598insG	c.(595-600)CTGCCCfs	p.L199fs	PEX11G_uc002mgl.1_Frame_Shift_Ins_p.L129fs	NM_080662	NP_542393	Q96HA9	PX11C_HUMAN	peroxisomal biogenesis factor 11 gamma	199_200	Lumenal (Potential).					integral to membrane|peroxisomal membrane					0														0.33			3	6				---	---	---	---	capture_indel			Frame_Shift_Ins	INS	7448216	7448217	12161	19	-	C	C	42	42	PEX11G	C	5	5
