Hugo_Symbol	Entrez_Gene_Id	Center	NCBI_Build	Chromosome	Start_position	End_position	Strand	Variant_Classification	Variant_Type	Reference_Allele	Tumor_Seq_Allele1	Tumor_Seq_Allele2	dbSNP_RS	dbSNP_Val_Status	Tumor_Sample_Barcode	Matched_Norm_Sample_Barcode	Match_Norm_Seq_Allele1	Match_Norm_Seq_Allele2	Tumor_Validation_Allele1	Tumor_Validation_Allele2	Match_Norm_Validation_Allele1	Match_Norm_Validation_Allele2	Verification_Status	Validation_Status	Mutation_Status	Sequencing_Phase	Sequence_Source	Validation_Method	Score	BAM_file	Sequencer	Genome_Change	Annotation_Transcript	Transcript_Strand	cDNA_Change	Codon_Change	Protein_Change	Other_Transcripts	Refseq_mRNA_Id	Refseq_prot_Id	SwissProt_acc_Id	SwissProt_entry_Id	Description	UniProt_AApos	UniProt_Region	UniProt_Site	UniProt_Natural_Variations	UniProt_Experimental_Info	GO_Biological_Process	GO_Cellular_Component	GO_Molecular_Function	COSMIC_overlapping_mutations	COSMIC_fusion_genes	COSMIC_tissue_types_affected	COSMIC_total_alterations_in_gene	Tumorscape_Amplification_Peaks	Tumorscape_Deletion_Peaks	TCGAscape_Amplification_Peaks	TCGAscape_Deletion_Peaks	DrugBank	i_ACHILLES_Top_Genes	i_CCLE_ONCOMAP_overlapping_mutations	i_CCLE_ONCOMAP_total_mutations_in_gene	i_CCLE_SEQ_overlapping_mutations	i_CCLE_SEQ_total_mutations_in_gene	MUTSIG_Significant_Genes	OREGANNO_ID	OREGANNO_Values	i_tumor_f	i_init_t_lod	i_t_lod_fstar	i_t_alt_count	i_t_ref_count	i_judgement	validation_status	validation_method	validation_tumor_sample	validation_alt_allele	dataset	Oncotatorv0393GAF20hg19Feb2011dbSNPbuild132UniProtRelease2011_6	type	classification	start	end	gene	chr	ref_allele	tum_allele1	tum_allele2	newbase	context_orig	context65	gene_name	categ	categ_ignoring_null_categ
GPR158	57512	broad.mit.edu	37	10	25885717	25885717	+	Missense_Mutation	SNP	G	A	A			TCGA-17-Z011-01	TCGA-17-Z011-01										Phase_I	Unspecified				Illumina GAIIx	g.chr10:25885717G>A	uc001isj.2	+	c.2144G>A	c.(2143-2145)CGG>CAG	p.R715Q	GPR158_uc001isk.2_Missense_Mutation_p.R90Q	NM_020752	NP_065803	Q5T848	GP158_HUMAN	G protein-coupled receptor 158 precursor	715	Cytoplasmic (Potential).					integral to membrane|plasma membrane	G-protein coupled receptor activity			ovary(4)|large_intestine(2)|pancreas(1)	7														0.333333	73.476795	75.247643	24	48	KEEP	---	---	---	---	capture		Missense_Mutation	SNP	25885717	25885717	6938	10	G	A	A	A	507	39	GPR158	1	1
PCDH15	65217	broad.mit.edu	37	10	55582503	55582503	+	Silent	SNP	T	G	G			TCGA-17-Z011-01	TCGA-17-Z011-01										Phase_I	Unspecified				Illumina GAIIx	g.chr10:55582503T>G	uc010qhy.1	-	c.5004A>C	c.(5002-5004)TCA>TCC	p.S1668S	PCDH15_uc010qhq.1_Intron|PCDH15_uc010qhr.1_Intron|PCDH15_uc010qhs.1_Intron|PCDH15_uc010qht.1_Intron|PCDH15_uc010qhu.1_Intron|PCDH15_uc001jjv.1_Intron|PCDH15_uc010qhv.1_Silent_p.S1658S|PCDH15_uc010qhw.1_Silent_p.S1621S|PCDH15_uc010qhx.1_Silent_p.S1592S|PCDH15_uc010qhz.1_Silent_p.S1663S|PCDH15_uc010qia.1_Silent_p.S1641S|PCDH15_uc001jju.1_Silent_p.S1661S|PCDH15_uc010qib.1_Silent_p.S1638S	NM_001142763	NP_001136235	Q96QU1	PCD15_HUMAN	protocadherin 15 isoform CD1-1 precursor	1661	Cytoplasmic (Potential).				equilibrioception|homophilic cell adhesion|photoreceptor cell maintenance|response to stimulus|sensory perception of sound	extracellular region|extracellular space|integral to membrane|photoreceptor outer segment|plasma membrane|stereocilium|synapse	calcium ion binding			pancreas(5)|ovary(4)	9		Melanoma(3;0.117)|Lung SC(717;0.238)								1612				0.188034	55.518698	66.147624	22	95	KEEP	---	---	---	---	capture		Silent	SNP	55582503	55582503	11931	10	T	G	G	G	652	51	PCDH15	4	4
PCDH15	65217	broad.mit.edu	37	10	56423945	56423945	+	Silent	SNP	G	T	T			TCGA-17-Z011-01	TCGA-17-Z011-01										Phase_I	Unspecified				Illumina GAIIx	g.chr10:56423945G>T	uc010qhy.1	-	c.78C>A	c.(76-78)GGC>GGA	p.G26G	PCDH15_uc010qhq.1_Silent_p.G26G|PCDH15_uc010qhr.1_Silent_p.G26G|PCDH15_uc010qhs.1_Silent_p.G26G|PCDH15_uc010qht.1_Silent_p.G26G|PCDH15_uc010qhu.1_Silent_p.G26G|PCDH15_uc001jjv.1_Silent_p.G26G|PCDH15_uc010qhv.1_Silent_p.G26G|PCDH15_uc010qhw.1_Silent_p.G26G|PCDH15_uc010qhx.1_Silent_p.G26G|PCDH15_uc010qhz.1_Silent_p.G26G|PCDH15_uc010qia.1_Silent_p.G26G|PCDH15_uc001jju.1_Silent_p.G26G|PCDH15_uc010qib.1_Silent_p.G26G|PCDH15_uc001jjw.2_Silent_p.G26G	NM_001142763	NP_001136235	Q96QU1	PCD15_HUMAN	protocadherin 15 isoform CD1-1 precursor	26					equilibrioception|homophilic cell adhesion|photoreceptor cell maintenance|response to stimulus|sensory perception of sound	extracellular region|extracellular space|integral to membrane|photoreceptor outer segment|plasma membrane|stereocilium|synapse	calcium ion binding			pancreas(5)|ovary(4)	9		Melanoma(3;0.117)|Lung SC(717;0.238)								1612				0.349206	61.332962	62.596137	22	41	KEEP	---	---	---	---	capture		Silent	SNP	56423945	56423945	11931	10	G	T	T	T	535	42	PCDH15	2	2
ZWINT	11130	broad.mit.edu	37	10	58118400	58118400	+	Missense_Mutation	SNP	C	T	T			TCGA-17-Z011-01	TCGA-17-Z011-01										Phase_I	Unspecified				Illumina GAIIx	g.chr10:58118400C>T	uc001jjx.1	-	c.709G>A	c.(709-711)GAT>AAT	p.D237N	ZWINT_uc001jjy.1_Missense_Mutation_p.D190N|ZWINT_uc001jka.1_Missense_Mutation_p.D237N|ZWINT_uc009xoy.1_Non-coding_Transcript	NM_007057	NP_008988	O95229	ZWINT_HUMAN	ZW10 interactor isoform a	237					cell division|establishment of localization in cell|mitotic cell cycle checkpoint|mitotic prometaphase|mitotic sister chromatid segregation|phosphatidylinositol-mediated signaling|spindle organization	condensed chromosome kinetochore|cytosol|nucleus	protein N-terminus binding				0														0.444444	75.093311	75.23835	24	30	KEEP	---	---	---	---	capture		Missense_Mutation	SNP	58118400	58118400	18854	10	C	T	T	T	416	32	ZWINT	2	2
LARP4B	23185	broad.mit.edu	37	10	909732	909732	+	Silent	SNP	G	A	A			TCGA-17-Z011-01	TCGA-17-Z011-01										Phase_I	Unspecified				Illumina GAIIx	g.chr10:909732G>A	uc001ifs.1	-	c.381C>T	c.(379-381)CTC>CTT	p.L127L		NM_015155	NP_055970	Q92615	LAR4B_HUMAN	La ribonucleoprotein domain family, member 4B	127							nucleotide binding|RNA binding			ovary(2)|central_nervous_system(1)	3														0.082902	0.776599	34.911341	16	177	KEEP	---	---	---	---	capture		Silent	SNP	909732	909732	8954	10	G	A	A	A	470	37	LARP4B	1	1
SPTY2D1	144108	broad.mit.edu	37	11	18637460	18637460	+	Nonsense_Mutation	SNP	G	A	A			TCGA-17-Z011-01	TCGA-17-Z011-01										Phase_I	Unspecified				Illumina GAIIx	g.chr11:18637460G>A	uc001moy.2	-	c.361C>T	c.(361-363)CGA>TGA	p.R121*	SPTY2D1_uc010rdi.1_Nonsense_Mutation_p.R121*	NM_194285	NP_919261	Q68D10	SPT2_HUMAN	SPT2, Suppressor of Ty, domain containing 1	121										breast(1)	1														0.5	77.003544	77.003544	24	24	KEEP	---	---	---	---	capture		Nonsense_Mutation	SNP	18637460	18637460	15640	11	G	A	A	A	506	39	SPTY2D1	5	1
MADD	8567	broad.mit.edu	37	11	47306739	47306739	+	Missense_Mutation	SNP	G	C	C			TCGA-17-Z011-01	TCGA-17-Z011-01										Phase_I	Unspecified				Illumina GAIIx	g.chr11:47306739G>C	uc001ner.1	+	c.2405G>C	c.(2404-2406)GGC>GCC	p.G802A	MADD_uc001neq.2_Missense_Mutation_p.G802A|MADD_uc001nev.1_Intron|MADD_uc001nes.1_Intron|MADD_uc001net.1_Missense_Mutation_p.G802A|MADD_uc009yln.1_Intron|MADD_uc001neu.1_Intron|MADD_uc001nex.2_Missense_Mutation_p.G802A|MADD_uc001nez.2_Intron|MADD_uc001new.2_Missense_Mutation_p.G802A	NM_003682	NP_003673	Q8WXG6	MADD_HUMAN	MAP-kinase activating death domain-containing	802					activation of MAPK activity|apoptosis|cell surface receptor linked signaling pathway|regulation of apoptosis|regulation of cell cycle	cytoplasm|integral to membrane|plasma membrane	death receptor binding|protein kinase activator activity|Rab guanyl-nucleotide exchange factor activity			ovary(5)|skin(3)|central_nervous_system(2)	10				Lung(87;0.182)						5				0.461538	21.449341	21.466042	6	7	KEEP	---	---	---	---	capture		Missense_Mutation	SNP	47306739	47306739	9529	11	G	C	C	C	546	42	MADD	3	3
OR4C15	81309	broad.mit.edu	37	11	55322156	55322156	+	Missense_Mutation	SNP	G	T	T			TCGA-17-Z011-01	TCGA-17-Z011-01										Phase_I	Unspecified				Illumina GAIIx	g.chr11:55322156G>T	uc010rig.1	+	c.374G>T	c.(373-375)TGC>TTC	p.C125F		NM_001001920	NP_001001920	Q8NGM1	OR4CF_HUMAN	olfactory receptor, family 4, subfamily C,	71	Helical; Name=2; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)	1														0.434211	303.791375	304.65163	99	129	KEEP	---	---	---	---	capture		Missense_Mutation	SNP	55322156	55322156	11454	11	G	T	T	T	598	46	OR4C15	2	2
OR8H3	390152	broad.mit.edu	37	11	55890174	55890174	+	Missense_Mutation	SNP	C	A	A			TCGA-17-Z011-01	TCGA-17-Z011-01										Phase_I	Unspecified				Illumina GAIIx	g.chr11:55890174C>A	uc001nii.1	+	c.326C>A	c.(325-327)ACT>AAT	p.T109N		NM_001005201	NP_001005201	Q8N146	OR8H3_HUMAN	olfactory receptor, family 8, subfamily H,	109	Helical; Name=3; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(2)	2	Esophageal squamous(21;0.00693)													0.431694	236.399428	237.143039	79	104	KEEP	---	---	---	---	capture		Missense_Mutation	SNP	55890174	55890174	11650	11	C	A	A	A	260	20	OR8H3	2	2
MAGOHB	55110	broad.mit.edu	37	12	10763255	10763255	+	Missense_Mutation	SNP	C	T	T			TCGA-17-Z011-01	TCGA-17-Z011-01										Phase_I	Unspecified				Illumina GAIIx	g.chr12:10763255C>T	uc001qyq.1	-	c.119G>A	c.(118-120)AGC>AAC	p.S40N	MAGOHB_uc001qyr.1_Non-coding_Transcript	NM_018048	NP_060518	Q96A72	MGN2_HUMAN	mago-nashi homolog B	40					mRNA processing|mRNA transport|RNA splicing	nucleus	RNA binding			breast(1)	1														0.323529	32.112412	33.052716	11	23	KEEP	---	---	---	---	capture		Missense_Mutation	SNP	10763255	10763255	9578	12	C	T	T	T	364	28	MAGOHB	2	2
ANAPC7	51434	broad.mit.edu	37	12	110819628	110819628	+	Missense_Mutation	SNP	C	A	A			TCGA-17-Z011-01	TCGA-17-Z011-01										Phase_I	Unspecified				Illumina GAIIx	g.chr12:110819628C>A	uc001tqo.2	-	c.1163G>T	c.(1162-1164)AGA>ATA	p.R388I	ANAPC7_uc001tqp.3_Missense_Mutation_p.R388I	NM_016238	NP_057322	Q9UJX3	APC7_HUMAN	anaphase-promoting complex subunit 7 isoform a	388	TPR 4.				anaphase-promoting complex-dependent proteasomal ubiquitin-dependent protein catabolic process|cell division|mitosis|mitotic cell cycle spindle assembly checkpoint|negative regulation of ubiquitin-protein ligase activity involved in mitotic cell cycle|positive regulation of ubiquitin-protein ligase activity involved in mitotic cell cycle|protein K11-linked ubiquitination	anaphase-promoting complex|cytosol|nucleoplasm	binding				0														0.078947	-0.206719	6.675511	3	35	KEEP	---	---	---	---	capture		Missense_Mutation	SNP	110819628	110819628	609	12	C	A	A	A	416	32	ANAPC7	2	2
PTPN11	5781	broad.mit.edu	37	12	112926888	112926888	+	Missense_Mutation	SNP	G	T	T			TCGA-17-Z011-01	TCGA-17-Z011-01										Phase_I	Unspecified				Illumina GAIIx	g.chr12:112926888G>T	uc001ttx.2	+	c.1508G>T	c.(1507-1509)GGG>GTG	p.G503V		NM_002834	NP_002825	Q06124	PTN11_HUMAN	protein tyrosine phosphatase, non-receptor type	507	Tyrosine-protein phosphatase.		G -> A (in JMML).|G -> R (in patients with growth retardation, pulmonic stenosis and juvenile myelomonocytic leukemia).		axon guidance|cell junction assembly|ephrin receptor signaling pathway|epidermal growth factor receptor signaling pathway|fibroblast growth factor receptor signaling pathway|insulin receptor signaling pathway|interferon-gamma-mediated signaling pathway|leukocyte migration|platelet activation|regulation of cell adhesion mediated by integrin|regulation of interferon-gamma-mediated signaling pathway|regulation of type I interferon-mediated signaling pathway|T cell costimulation|type I interferon-mediated signaling pathway	cytosol	non-membrane spanning protein tyrosine phosphatase activity|protein binding	p.G503A(14)|p.G503V(8)|p.G503E(2)|p.G503L(1)		haematopoietic_and_lymphoid_tissue(372)|lung(6)|autonomic_ganglia(2)|soft_tissue(2)|central_nervous_system(2)|large_intestine(1)|ovary(1)|NS(1)|kidney(1)	388										372				0.321814	393.03123	406.077462	149	314	KEEP	---	---	---	---	capture		Missense_Mutation	SNP	112926888	112926888	13235	12	G	T	T	T	559	43	PTPN11	2	2
PDE3A	5139	broad.mit.edu	37	12	20766498	20766498	+	Missense_Mutation	SNP	G	T	T			TCGA-17-Z011-01	TCGA-17-Z011-01										Phase_I	Unspecified				Illumina GAIIx	g.chr12:20766498G>T	uc001reh.1	+	c.1133G>T	c.(1132-1134)AGC>ATC	p.S378I		NM_000921	NP_000912	Q14432	PDE3A_HUMAN	phosphodiesterase 3A	378					lipid metabolic process|platelet activation|signal transduction	cytosol|integral to membrane	3',5'-cyclic-AMP phosphodiesterase activity|3',5'-cyclic-GMP phosphodiesterase activity|cGMP-inhibited cyclic-nucleotide phosphodiesterase activity|metal ion binding			ovary(3)	3	Esophageal squamous(101;0.125)	Breast(259;0.134)			Aminophylline(DB01223)|Amrinone(DB01427)|Anagrelide(DB00261)|Cilostazol(DB01166)|Enoximone(DB04880)|Milrinone(DB00235)|Theophylline(DB00277)									0.417391	138.373796	139.060197	48	67	KEEP	---	---	---	---	capture		Missense_Mutation	SNP	20766498	20766498	12058	12	G	T	T	T	442	34	PDE3A	2	2
ABCC9	10060	broad.mit.edu	37	12	22063913	22063913	+	Splice_Site_SNP	SNP	C	T	T			TCGA-17-Z011-01	TCGA-17-Z011-01										Phase_I	Unspecified				Illumina GAIIx	g.chr12:22063913C>T	uc001rfh.2	-	c.1012_splice	c.e7-1	p.I338_splice	ABCC9_uc001rfi.1_Splice_Site_SNP_p.I338_splice|ABCC9_uc001rfj.1_Splice_Site_SNP_p.I338_splice	NM_020297	NP_064693			ATP-binding cassette, sub-family C, member 9						defense response to virus|potassium ion import	ATP-sensitive potassium channel complex	ATP binding|ATPase activity, coupled to transmembrane movement of substances|potassium channel regulator activity|sulfonylurea receptor activity			ovary(4)	4					Adenosine triphosphate(DB00171)|Glibenclamide(DB01016)									0.344444	92.594096	94.519199	31	59	KEEP	---	---	---	---	capture		Splice_Site_SNP	SNP	22063913	22063913	60	12	C	T	T	T	416	32	ABCC9	5	2
NACA	4666	broad.mit.edu	37	12	57114590	57114590	+	Missense_Mutation	SNP	C	T	T			TCGA-17-Z011-01	TCGA-17-Z011-01										Phase_I	Unspecified				Illumina GAIIx	g.chr12:57114590C>T	uc009zoy.1	-	c.724G>A	c.(724-726)GCT>ACT	p.A242T	NACA_uc001slz.2_Intron|NACA_uc001sly.2_Intron|NACA_uc001smc.2_Intron|NACA_uc001sma.2_Missense_Mutation_p.A242T|NACA_uc001smb.2_Intron|NACA_uc010squ.1_Intron	NM_001113203	NP_001106674	Q13765	NACA_HUMAN	nascent polypeptide-associated complex alpha	17					interspecies interaction between organisms|protein transport|transcription, DNA-dependent|translation	nascent polypeptide-associated complex|nucleus	DNA binding			ovary(1)	1										449				0.124324	27.403933	52.945301	23	162	KEEP	---	---	---	---	capture		Missense_Mutation	SNP	57114590	57114590	10528	12	C	T	T	T	351	27	NACA	1	1
C3AR1	719	broad.mit.edu	37	12	8211392	8211392	+	Missense_Mutation	SNP	G	A	A			TCGA-17-Z011-01	TCGA-17-Z011-01										Phase_I	Unspecified				Illumina GAIIx	g.chr12:8211392G>A	uc001qtv.1	-	c.1390C>T	c.(1390-1392)CGT>TGT	p.R464C		NM_004054	NP_004045	Q16581	C3AR_HUMAN	complement component 3a receptor 1	464	Cytoplasmic (Potential).				blood circulation|chemotaxis|elevation of cytosolic calcium ion concentration|inflammatory response	integral to plasma membrane	C3a anaphylatoxin receptor activity|complement component C3a receptor activity|phosphatidylinositol phospholipase C activity			ovary(1)	1				Kidney(36;0.0893)										0.136585	39.236361	65.51967	28	177	KEEP	---	---	---	---	capture		Missense_Mutation	SNP	8211392	8211392	2297	12	G	A	A	A	520	40	C3AR1	1	1
LRRIQ1	84125	broad.mit.edu	37	12	85459115	85459116	+	Missense_Mutation	DNP	CT	TC	TC			TCGA-17-Z011-01	TCGA-17-Z011-01										Phase_I	Unspecified				Illumina GAIIx	g.chr12:85459115_85459116CT>TC	uc001tac.2	+	c.2467_2468CT>TC	c.(2467-2469)CTA>TCA	p.L823S	LRRIQ1_uc001tab.1_Missense_Mutation_p.L823S	NM_001079910	NP_001073379	Q96JM4	LRIQ1_HUMAN	leucine-rich repeats and IQ motif containing 1	823	LRR 1.									ovary(4)|central_nervous_system(1)	5				GBM - Glioblastoma multiforme(134;0.212)										0.273437	91.765475	97.688449	35	93	KEEP	---	---	---	---	capture		Missense_Mutation	DNP	85459115	85459116	9405	12	CT	TC	TC	TC	415	32	LRRIQ1	2	2
TUBA3C	7278	broad.mit.edu	37	13	19752442	19752442	+	Missense_Mutation	SNP	G	C	C			TCGA-17-Z011-01	TCGA-17-Z011-01										Phase_I	Unspecified				Illumina GAIIx	g.chr13:19752442G>C	uc009zzj.2	-	c.319C>G	c.(319-321)CAT>GAT	p.H107D		NM_006001	NP_005992	Q13748	TBA3C_HUMAN	tubulin, alpha 3c	107					'de novo' posttranslational protein folding|microtubule-based movement|protein polymerization	cytoplasm|microtubule	GTP binding|GTPase activity|protein binding|structural molecule activity			ovary(3)	3		all_cancers(29;1.31e-20)|all_epithelial(30;1.59e-20)|all_lung(29;6.91e-20)|Lung NSC(5;9.25e-17)|Hepatocellular(1;0.0207)|Lung SC(185;0.0262)|Ovarian(182;0.162)		all cancers(112;6.78e-06)|Epithelial(112;3.79e-05)|OV - Ovarian serous cystadenocarcinoma(117;0.00172)|Lung(94;0.0186)|LUSC - Lung squamous cell carcinoma(192;0.108)										0.243243	42.808871	47.259625	18	56	KEEP	---	---	---	---	capture		Missense_Mutation	SNP	19752442	19752442	17301	13	G	C	C	C	611	47	TUBA3C	3	3
SACS	26278	broad.mit.edu	37	13	23910183	23910183	+	Missense_Mutation	SNP	G	T	T			TCGA-17-Z011-01	TCGA-17-Z011-01										Phase_I	Unspecified				Illumina GAIIx	g.chr13:23910183G>T	uc001uon.2	-	c.7832C>A	c.(7831-7833)ACG>AAG	p.T2611K	SACS_uc001uoo.2_Missense_Mutation_p.T2464K|SACS_uc001uop.1_Intron|SACS_uc001uoq.1_Intron	NM_014363	NP_055178	Q9NZJ4	SACS_HUMAN	sacsin	2611					cell death|negative regulation of inclusion body assembly|protein folding	axon|cell body fiber|dendrite|mitochondrion|nucleus	ATP binding|chaperone binding|Hsp70 protein binding|proteasome binding			ovary(7)|upper_aerodigestive_tract(1)|large_intestine(1)|pancreas(1)|skin(1)	11		all_cancers(29;1.51e-22)|all_epithelial(30;7.82e-19)|all_lung(29;4.71e-18)|Lung SC(185;0.0225)|Breast(139;0.128)		all cancers(112;0.00197)|Epithelial(112;0.00854)|OV - Ovarian serous cystadenocarcinoma(117;0.0298)|Lung(94;0.189)						738				0.16	17.027017	22.482752	8	42	KEEP	---	---	---	---	capture		Missense_Mutation	SNP	23910183	23910183	14284	13	G	T	T	T	520	40	SACS	1	1
NDRG2	57447	broad.mit.edu	37	14	21487897	21487897	+	Missense_Mutation	SNP	T	A	A			TCGA-17-Z011-01	TCGA-17-Z011-01										Phase_I	Unspecified				Illumina GAIIx	g.chr14:21487897T>A	uc001vyy.2	-	c.617A>T	c.(616-618)GAG>GTG	p.E206V	NDRG2_uc010tll.1_Missense_Mutation_p.E202V|NDRG2_uc001vyt.2_Missense_Mutation_p.E119V|NDRG2_uc001vyu.2_Missense_Mutation_p.E163V|NDRG2_uc001vyv.2_Missense_Mutation_p.E192V|NDRG2_uc001vyw.2_Missense_Mutation_p.E192V|NDRG2_uc001vzb.2_Missense_Mutation_p.E146V|NDRG2_uc001vyx.2_Missense_Mutation_p.E206V|NDRG2_uc001vza.2_Missense_Mutation_p.E192V|NDRG2_uc001vyz.2_Missense_Mutation_p.E192V|NDRG2_uc001vzc.2_Missense_Mutation_p.E192V|NDRG2_uc001vze.2_Missense_Mutation_p.E206V|NDRG2_uc001vzd.2_Missense_Mutation_p.E206V|NDRG2_uc001vzg.2_Missense_Mutation_p.E192V|NDRG2_uc001vzf.2_Missense_Mutation_p.E192V|NDRG2_uc010aig.2_Missense_Mutation_p.E206V	NM_201540	NP_963834	Q9UN36	NDRG2_HUMAN	N-myc downstream-regulated gene 2 isoform a	206					cell differentiation|nervous system development	centrosome|cytosol|Golgi apparatus|nucleus|perinuclear region of cytoplasm				breast(1)	1	all_cancers(95;0.00185)		OV - Ovarian serous cystadenocarcinoma(11;6.85e-11)|Epithelial(56;9.49e-09)|all cancers(55;3.84e-08)	GBM - Glioblastoma multiforme(265;0.0191)										0.166667	12.397241	16.823665	7	35	KEEP	---	---	---	---	capture		Missense_Mutation	SNP	21487897	21487897	10651	14	T	A	A	A	702	54	NDRG2	3	3
RABGGTA	5875	broad.mit.edu	37	14	24737810	24737810	+	Missense_Mutation	SNP	C	T	T			TCGA-17-Z011-01	TCGA-17-Z011-01										Phase_I	Unspecified				Illumina GAIIx	g.chr14:24737810C>T	uc001wof.2	-	c.916G>A	c.(916-918)GCT>ACT	p.A306T	RABGGTA_uc001woe.2_Non-coding_Transcript|RABGGTA_uc001wog.2_Missense_Mutation_p.A306T|RABGGTA_uc001woh.2_Non-coding_Transcript|RABGGTA_uc001woi.2_Non-coding_Transcript	NM_004581	NP_004572	Q92696	PGTA_HUMAN	Rab geranylgeranyltransferase alpha	306					visual perception		Rab geranylgeranyltransferase activity|zinc ion binding				0				GBM - Glioblastoma multiforme(265;0.0184)										0.393617	102.455785	103.386292	37	57	KEEP	---	---	---	---	capture		Missense_Mutation	SNP	24737810	24737810	13426	14	C	T	T	T	325	25	RABGGTA	2	2
GATM	2628	broad.mit.edu	37	15	45660326	45660326	+	Missense_Mutation	SNP	C	A	A			TCGA-17-Z011-01	TCGA-17-Z011-01										Phase_I	Unspecified				Illumina GAIIx	g.chr15:45660326C>A	uc010uev.1	-	c.776G>T	c.(775-777)CGT>CTT	p.R259L	GATM_uc001zvb.2_Missense_Mutation_p.R77L|GATM_uc001zvc.2_Missense_Mutation_p.R206L	NM_001482	NP_001473	P50440	GATM_HUMAN	L-arginine:glycine amidinotransferase precursor	206					creatine biosynthetic process	mitochondrial inner membrane|mitochondrial intermembrane space	glycine amidinotransferase activity|protein binding				0		all_cancers(109;1.25e-09)|all_epithelial(112;5.56e-08)|Lung NSC(122;3.55e-06)|all_lung(180;2.56e-05)|Melanoma(134;0.027)		all cancers(107;4.87e-16)|GBM - Glioblastoma multiforme(94;1.97e-06)	Creatine(DB00148)|Glycine(DB00145)|L-Ornithine(DB00129)									0.324324	36.290116	37.302028	12	25	KEEP	---	---	---	---	capture		Missense_Mutation	SNP	45660326	45660326	6527	15	C	A	A	A	247	19	GATM	1	1
USP50	373509	broad.mit.edu	37	15	50836842	50836842	+	Missense_Mutation	SNP	T	C	C			TCGA-17-Z011-01	TCGA-17-Z011-01										Phase_I	Unspecified				Illumina GAIIx	g.chr15:50836842T>C	uc001zyq.3	-	c.190A>G	c.(190-192)AGC>GGC	p.S64G		NM_203494	NP_987090	E9PP86	E9PP86_HUMAN	ubiquitin specific protease 50	64					ubiquitin-dependent protein catabolic process		ubiquitin thiolesterase activity				0				all cancers(107;0.000519)|GBM - Glioblastoma multiforme(94;0.00288)										0.368421	85.082338	86.237908	28	48	KEEP	---	---	---	---	capture		Missense_Mutation	SNP	50836842	50836842	17646	15	T	C	C	C	715	55	USP50	4	4
IL16	3603	broad.mit.edu	37	15	81585074	81585074	+	Missense_Mutation	SNP	C	A	A			TCGA-17-Z011-01	TCGA-17-Z011-01										Phase_I	Unspecified				Illumina GAIIx	g.chr15:81585074C>A	uc010unp.1	+	c.1724C>A	c.(1723-1725)CCG>CAG	p.P575Q	IL16_uc002bgc.2_Non-coding_Transcript|IL16_uc010blq.1_Missense_Mutation_p.P533Q|IL16_uc002bge.3_Non-coding_Transcript|IL16_uc002bgh.3_Missense_Mutation_p.P533Q|IL16_uc002bgg.2_Missense_Mutation_p.P533Q|IL16_uc002bgi.1_5'UTR|IL16_uc002bgj.2_Missense_Mutation_p.P27Q|IL16_uc002bgk.2_5'Flank	NM_172217	NP_757366	Q14005	IL16_HUMAN	interleukin 16 isoform 2	533					immune response|interspecies interaction between organisms|regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasm|extracellular space|nucleus|plasma membrane	cytokine activity			ovary(2)|lung(1)|skin(1)	4														0.277778	51.056933	54.266728	20	52	KEEP	---	---	---	---	capture		Missense_Mutation	SNP	81585074	81585074	7934	15	C	A	A	A	299	23	IL16	1	1
SV2B	9899	broad.mit.edu	37	15	91769847	91769848	+	Missense_Mutation	DNP	CC	AA	AA			TCGA-17-Z011-01	TCGA-17-Z011-01										Phase_I	Unspecified				Illumina GAIIx	g.chr15:91769847_91769848CC>AA	uc002bqv.2	+	c.354_355CC>AA	c.(352-357)GCCCTG>GCAATG	p.L119M	SV2B_uc002bqt.2_Missense_Mutation_p.L119M|SV2B_uc010uqv.1_Intron|SV2B_uc002bqu.3_Non-coding_Transcript	NM_014848	NP_055663	Q7L1I2	SV2B_HUMAN	synaptic vesicle protein 2B homolog	119	Helical; (Potential).				neurotransmitter transport|transmembrane transport	acrosomal vesicle|cell junction|integral to membrane|synaptic vesicle membrane	transporter activity			ovary(3)|central_nervous_system(2)	5	Lung NSC(78;0.0987)|all_lung(78;0.172)		BRCA - Breast invasive adenocarcinoma(143;0.0895)											0.276923	45.619325	48.53251	18	47	KEEP	---	---	---	---	capture		Missense_Mutation	DNP	91769847	91769848	15938	15	CC	AA	AA	AA	275	22	SV2B	2	2
CLEC16A	23274	broad.mit.edu	37	16	11133665	11133665	+	Missense_Mutation	SNP	A	T	T			TCGA-17-Z011-01	TCGA-17-Z011-01										Phase_I	Unspecified				Illumina GAIIx	g.chr16:11133665A>T	uc002dao.2	+	c.1592A>T	c.(1591-1593)GAG>GTG	p.E531V	CLEC16A_uc002dan.3_Missense_Mutation_p.E513V	NM_015226	NP_056041	Q2KHT3	CL16A_HUMAN	C-type lectin domain family 16, member A	531								p.0?(1)		ovary(1)|central_nervous_system(1)	2														0.428571	40.606228	40.764191	15	20	KEEP	---	---	---	---	capture		Missense_Mutation	SNP	11133665	11133665	3637	16	A	T	T	T	143	11	CLEC16A	3	3
MYH11	4629	broad.mit.edu	37	16	15850278	15850278	+	Missense_Mutation	SNP	G	C	C			TCGA-17-Z011-01	TCGA-17-Z011-01										Phase_I	Unspecified				Illumina GAIIx	g.chr16:15850278G>C	uc002ddx.2	-	c.1690C>G	c.(1690-1692)CAG>GAG	p.Q564E	MYH11_uc002ddv.2_Missense_Mutation_p.Q564E|MYH11_uc002ddw.2_Missense_Mutation_p.Q557E|MYH11_uc002ddy.2_Missense_Mutation_p.Q557E|MYH11_uc010bvg.2_Missense_Mutation_p.Q389E|MYH11_uc002dea.1_Missense_Mutation_p.Q263E	NM_001040114	NP_001035203	P35749	MYH11_HUMAN	smooth muscle myosin heavy chain 11 isoform	557	Myosin head-like.				axon guidance|cardiac muscle fiber development|elastic fiber assembly|skeletal muscle myosin thick filament assembly|smooth muscle contraction	cytosol|melanosome|muscle myosin complex|myosin filament	actin binding|ATP binding|calmodulin binding|motor activity|structural constituent of muscle			ovary(4)|skin(2)|lung(1)	7										1257		OREG0023636	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	0.321429	28.670637	29.46074	9	19	KEEP	---	---	---	---	capture		Missense_Mutation	SNP	15850278	15850278	10426	16	G	C	C	C	598	46	MYH11	3	3
RBBP6	5930	broad.mit.edu	37	16	24581297	24581297	+	Missense_Mutation	SNP	G	A	A			TCGA-17-Z011-01	TCGA-17-Z011-01										Phase_I	Unspecified				Illumina GAIIx	g.chr16:24581297G>A	uc002dmh.2	+	c.3286G>A	c.(3286-3288)GCA>ACA	p.A1096T	RBBP6_uc010vcb.1_Missense_Mutation_p.A963T|RBBP6_uc002dmi.2_Missense_Mutation_p.A1062T|RBBP6_uc010bxr.2_Intron|RBBP6_uc002dmk.2_Missense_Mutation_p.A929T	NM_006910	NP_008841	Q7Z6E9	RBBP6_HUMAN	retinoblastoma-binding protein 6 isoform 1	1096	Interaction with RB1 (By similarity).				protein ubiquitination involved in ubiquitin-dependent protein catabolic process	chromosome|nucleolus|ubiquitin ligase complex	nucleic acid binding|protein binding|ubiquitin-protein ligase activity|zinc ion binding			ovary(3)|pancreas(1)	4				GBM - Glioblastoma multiforme(48;0.0518)										0.065217	-2.614967	6.418136	3	43	KEEP	---	---	---	---	capture		Missense_Mutation	SNP	24581297	24581297	13564	16	G	A	A	A	442	34	RBBP6	2	2
PPP4C	5531	broad.mit.edu	37	16	30094792	30094792	+	Silent	SNP	C	T	T			TCGA-17-Z011-01	TCGA-17-Z011-01										Phase_I	Unspecified				Illumina GAIIx	g.chr16:30094792C>T	uc002dwe.2	+	c.381C>T	c.(379-381)TAC>TAT	p.Y127Y	BOLA2_uc010bzb.1_Intron|PPP4C_uc002dwf.2_Silent_p.Y127Y|PPP4C_uc002dwg.2_Non-coding_Transcript|PPP4C_uc002dwh.2_Silent_p.Y48Y	NM_002720	NP_002711	P60510	PP4C_HUMAN	protein phosphatase 4, catalytic subunit	127					microtubule cytoskeleton organization	centrosome|nucleus	metal ion binding|NF-kappaB-inducing kinase activity|protein binding|protein serine/threonine phosphatase activity			skin(1)	1														0.164179	21.791774	28.959508	11	56	KEEP	---	---	---	---	capture		Silent	SNP	30094792	30094792	12838	16	C	T	T	T	246	19	PPP4C	1	1
RNF40	9810	broad.mit.edu	37	16	30779731	30779731	+	Missense_Mutation	SNP	C	G	G			TCGA-17-Z011-01	TCGA-17-Z011-01										Phase_I	Unspecified				Illumina GAIIx	g.chr16:30779731C>G	uc002dzq.2	+	c.1859C>G	c.(1858-1860)CCC>CGC	p.P620R	RNF40_uc010caa.2_Missense_Mutation_p.P620R|RNF40_uc010cab.2_Missense_Mutation_p.P520R|RNF40_uc010vfa.1_5'UTR|RNF40_uc002dzr.2_Missense_Mutation_p.P620R|RNF40_uc010vfb.1_Missense_Mutation_p.P312R|RNF40_uc010vfc.1_5'UTR	NM_014771	NP_055586	O75150	BRE1B_HUMAN	ring finger protein 40	620					histone H2B ubiquitination|histone monoubiquitination|ubiquitin-dependent protein catabolic process	nucleus|synaptosome|ubiquitin ligase complex	protein homodimerization activity|ubiquitin protein ligase binding|zinc ion binding			central_nervous_system(1)	1			Colorectal(24;0.198)											0.178571	8.05568	10.781969	5	23	KEEP	---	---	---	---	capture		Missense_Mutation	SNP	30779731	30779731	13972	16	C	G	G	G	286	22	RNF40	3	3
HEATR3	55027	broad.mit.edu	37	16	50128703	50128703	+	Missense_Mutation	SNP	A	T	T			TCGA-17-Z011-01	TCGA-17-Z011-01										Phase_I	Unspecified				Illumina GAIIx	g.chr16:50128703A>T	uc002efw.2	+	c.1598A>T	c.(1597-1599)CAG>CTG	p.Q533L	HEATR3_uc002efx.2_Missense_Mutation_p.Q447L	NM_182922	NP_891552	Q7Z4Q2	HEAT3_HUMAN	HEAT repeat containing 3	533							binding			ovary(1)	1														0.156863	28.929567	40.395541	16	86	KEEP	---	---	---	---	capture		Missense_Mutation	SNP	50128703	50128703	7312	16	A	T	T	T	91	7	HEATR3	3	3
C16orf57	79650	broad.mit.edu	37	16	58043944	58043944	+	Missense_Mutation	SNP	G	T	T			TCGA-17-Z011-01	TCGA-17-Z011-01										Phase_I	Unspecified				Illumina GAIIx	g.chr16:58043944G>T	uc002emz.2	+	c.377G>T	c.(376-378)AGT>ATT	p.S126I	C16orf57_uc010via.1_Missense_Mutation_p.S126I|C16orf57_uc002emy.2_Non-coding_Transcript|C16orf57_uc010vib.1_Missense_Mutation_p.S126I|C16orf57_uc010vic.1_Missense_Mutation_p.S75I	NM_024598	NP_078874	Q9BQ65	CP057_HUMAN	hypothetical protein LOC79650	126											0														0.242857	43.84495	48.06139	17	53	KEEP	---	---	---	---	capture		Missense_Mutation	SNP	58043944	58043944	1874	16	G	T	T	T	468	36	C16orf57	2	2
A2BP1	54715	broad.mit.edu	37	16	7645633	7645633	+	Missense_Mutation	SNP	G	T	T			TCGA-17-Z011-01	TCGA-17-Z011-01										Phase_I	Unspecified				Illumina GAIIx	g.chr16:7645633G>T	uc010uxz.1	+	c.680G>T	c.(679-681)CGT>CTT	p.R227L	A2BP1_uc010buf.1_Missense_Mutation_p.R184L|A2BP1_uc002cyr.1_Missense_Mutation_p.R183L|A2BP1_uc002cys.2_Missense_Mutation_p.R184L|A2BP1_uc002cyt.2_Missense_Mutation_p.R184L|A2BP1_uc010uya.1_Intron|A2BP1_uc002cyv.1_Missense_Mutation_p.R184L|A2BP1_uc010uyb.1_Missense_Mutation_p.R184L|A2BP1_uc002cyw.2_Missense_Mutation_p.R204L|A2BP1_uc002cyy.2_Missense_Mutation_p.R204L|A2BP1_uc002cyx.2_Missense_Mutation_p.R204L|A2BP1_uc010uyc.1_Missense_Mutation_p.R204L	NM_018723	NP_061193	Q9NWB1	RFOX1_HUMAN	ataxin 2-binding protein 1 isoform 4	184	RRM.	Interaction with RNA.			mRNA processing|RNA splicing|RNA transport	nucleus|trans-Golgi network	nucleotide binding|protein C-terminus binding|RNA binding				0		all_cancers(2;4.54e-52)|Colorectal(2;6.95e-44)|all_epithelial(2;1.15e-37)|Lung NSC(2;0.000289)|all_lung(2;0.00148)|Myeloproliferative disorder(2;0.0122)|Medulloblastoma(2;0.0354)|all_neural(2;0.0381)|all_hematologic(2;0.0749)|Renal(2;0.0758)|Melanoma(2;0.211)		Colorectal(1;3.55e-51)|COAD - Colon adenocarcinoma(2;1.92e-46)|all cancers(1;5.36e-16)|Epithelial(1;3.98e-15)|READ - Rectum adenocarcinoma(2;3.71e-05)|GBM - Glioblastoma multiforme(1;0.0499)										0.344828	153.41183	156.492502	50	95	KEEP	---	---	---	---	capture		Missense_Mutation	SNP	7645633	7645633	3	16	G	T	T	T	520	40	A2BP1	1	1
KLHDC4	54758	broad.mit.edu	37	16	87742907	87742907	+	Missense_Mutation	SNP	T	A	A			TCGA-17-Z011-01	TCGA-17-Z011-01										Phase_I	Unspecified				Illumina GAIIx	g.chr16:87742907T>A	uc002fki.2	-	c.1411A>T	c.(1411-1413)ATG>TTG	p.M471L	KLHDC4_uc002fkh.1_Non-coding_Transcript|KLHDC4_uc010cht.1_Intron|KLHDC4_uc002fkj.2_Missense_Mutation_p.M440L|KLHDC4_uc002fkk.2_Missense_Mutation_p.M290L|KLHDC4_uc002fkl.2_Missense_Mutation_p.M414L|KLHDC4_uc010chu.1_Missense_Mutation_p.M290L	NM_017566	NP_060036	Q8TBB5	KLDC4_HUMAN	kelch domain containing 4	471	Kelch 6.									pancreas(2)	2				BRCA - Breast invasive adenocarcinoma(80;0.0283)										0.342105	35.662995	36.500262	13	25	KEEP	---	---	---	---	capture		Missense_Mutation	SNP	87742907	87742907	8670	16	T	A	A	A	650	50	KLHDC4	3	3
RICH2	9912	broad.mit.edu	37	17	12823096	12823096	+	Missense_Mutation	SNP	C	G	G			TCGA-17-Z011-01	TCGA-17-Z011-01										Phase_I	Unspecified				Illumina GAIIx	g.chr17:12823096C>G	uc002gnr.3	+	c.412C>G	c.(412-414)CAG>GAG	p.Q138E	RICH2_uc010vvk.1_Missense_Mutation_p.Q138E|RICH2_uc010vvl.1_Missense_Mutation_p.Q138E|RICH2_uc002gns.3_5'UTR|RICH2_uc010vvm.1_Missense_Mutation_p.Q138E|RICH2_uc010vvn.1_Non-coding_Transcript	NM_014859	NP_055674	Q17R89	RHG44_HUMAN	Rho GTPase-activating protein RICH2	138	BAR.				regulation of small GTPase mediated signal transduction|small GTPase mediated signal transduction	cytosol	GTPase activator activity				0														0.1875	20.849488	25.237735	9	39	KEEP	---	---	---	---	capture		Missense_Mutation	SNP	12823096	12823096	13832	17	C	G	G	G	325	25	RICH2	3	3
SCARF1	8578	broad.mit.edu	37	17	1543283	1543283	+	Silent	SNP	G	C	C			TCGA-17-Z011-01	TCGA-17-Z011-01										Phase_I	Unspecified				Illumina GAIIx	g.chr17:1543283G>C	uc002fsz.1	-	c.1062C>G	c.(1060-1062)ACC>ACG	p.T354T	SCARF1_uc002fsy.1_Silent_p.T354T|SCARF1_uc002fta.1_Intron|SCARF1_uc010cjv.1_Intron	NM_003693	NP_003684	Q14162	SREC_HUMAN	scavenger receptor class F, member 1 isoform 1	354	Extracellular (Potential).|EGF-like 6.				cell adhesion|cholesterol catabolic process|neuron remodeling|positive regulation of axon regeneration|receptor-mediated endocytosis	integral to membrane	low-density lipoprotein particle binding|scavenger receptor activity				0				UCEC - Uterine corpus endometrioid carcinoma (25;0.0822)										0.304348	17.515031	18.301402	7	16	KEEP	---	---	---	---	capture		Silent	SNP	1543283	1543283	14364	17	G	C	C	C	444	35	SCARF1	3	3
LGALS9B	284194	broad.mit.edu	37	17	20361549	20361549	+	Missense_Mutation	SNP	G	T	T			TCGA-17-Z011-01	TCGA-17-Z011-01										Phase_I	Unspecified				Illumina GAIIx	g.chr17:20361549G>T	uc002gxa.1	-	c.280C>A	c.(280-282)CAG>AAG	p.Q94K	LGALS9B_uc002gwz.1_Missense_Mutation_p.Q94K|LGALS9B_uc010vzh.1_Missense_Mutation_p.Q6K	NM_001042685	NP_001036150	Q3B8N2	LEG9B_HUMAN	galectin-9 like	94	Galectin 1.						sugar binding				0														0.159091	23.472367	33.258337	14	74	KEEP	---	---	---	---	capture		Missense_Mutation	SNP	20361549	20361549	9075	17	G	T	T	T	611	47	LGALS9B	2	2
SLFN11	91607	broad.mit.edu	37	17	33690515	33690515	+	Nonsense_Mutation	SNP	G	T	T			TCGA-17-Z011-01	TCGA-17-Z011-01										Phase_I	Unspecified				Illumina GAIIx	g.chr17:33690515G>T	uc010ctp.2	-	c.312C>A	c.(310-312)TAC>TAA	p.Y104*	SLFN11_uc010ctq.2_Nonsense_Mutation_p.Y104*|SLFN11_uc002hjh.3_Nonsense_Mutation_p.Y104*|SLFN11_uc002hjg.3_Nonsense_Mutation_p.Y104*|SLFN11_uc010ctr.2_Nonsense_Mutation_p.Y104*	NM_001104588	NP_001098058	Q7Z7L1	SLN11_HUMAN	schlafen family member 11	104						nucleus	ATP binding			large_intestine(1)|ovary(1)	2		Ovarian(249;0.17)		UCEC - Uterine corpus endometrioid carcinoma (308;0.0182)										0.294118	57.574017	60.152956	20	48	KEEP	---	---	---	---	capture		Nonsense_Mutation	SNP	33690515	33690515	15230	17	G	T	T	T	620	48	SLFN11	5	2
ALOXE3	59344	broad.mit.edu	37	17	8018989	8018989	+	Missense_Mutation	SNP	C	A	A			TCGA-17-Z011-01	TCGA-17-Z011-01										Phase_I	Unspecified				Illumina GAIIx	g.chr17:8018989C>A	uc002gka.2	-	c.838G>T	c.(838-840)GAC>TAC	p.D280Y	ALOXE3_uc010cnr.2_Missense_Mutation_p.D124Y|ALOXE3_uc010vuo.1_Missense_Mutation_p.D256Y|ALOXE3_uc010vup.1_Non-coding_Transcript	NM_021628	NP_067641	Q9BYJ1	LOXE3_HUMAN	arachidonate lipoxygenase 3 isoform 2	124	Lipoxygenase.				leukotriene biosynthetic process|oxidation-reduction process		iron ion binding|lipoxygenase activity			lung(1)|central_nervous_system(1)	2														0.413333	89.22206	89.710698	31	44	KEEP	---	---	---	---	capture		Missense_Mutation	SNP	8018989	8018989	545	17	C	A	A	A	390	30	ALOXE3	2	2
SETBP1	26040	broad.mit.edu	37	18	42532248	42532248	+	Silent	SNP	A	T	T			TCGA-17-Z011-01	TCGA-17-Z011-01										Phase_I	Unspecified				Illumina GAIIx	g.chr18:42532248A>T	uc010dni.2	+	c.2943A>T	c.(2941-2943)CCA>CCT	p.P981P		NM_015559	NP_056374	Q9Y6X0	SETBP_HUMAN	SET binding protein 1 isoform a	981						nucleus	DNA binding			large_intestine(1)	1				Colorectal(1;0.0622)|COAD - Colon adenocarcinoma(74;0.201)										0.358209	150.868674	153.238658	48	86	KEEP	---	---	---	---	capture		Silent	SNP	42532248	42532248	14617	18	A	T	T	T	93	8	SETBP1	3	3
KEAP1	9817	broad.mit.edu	37	19	10610279	10610279	+	Missense_Mutation	SNP	G	A	A			TCGA-17-Z011-01	TCGA-17-Z011-01										Phase_I	Unspecified				Illumina GAIIx	g.chr19:10610279G>A	uc002moq.1	-	c.431C>T	c.(430-432)TCC>TTC	p.S144F	KEAP1_uc002mor.1_Missense_Mutation_p.S144F	NM_012289	NP_036421	Q14145	KEAP1_HUMAN	kelch-like ECH-associated protein 1	144	BTB.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	centrosome|midbody|nucleus	protein binding			breast(2)|ovary(1)|pancreas(1)	4			OV - Ovarian serous cystadenocarcinoma(20;2.71e-09)|Epithelial(33;2.32e-06)|all cancers(31;1.42e-05)											0.285714	16.040647	16.906401	6	15	KEEP	---	---	---	---	capture		Missense_Mutation	SNP	10610279	10610279	8447	19	G	A	A	A	533	41	KEAP1	2	2
ZNF98	148198	broad.mit.edu	37	19	22586297	22586297	+	Silent	SNP	C	T	T			TCGA-17-Z011-01	TCGA-17-Z011-01										Phase_I	Unspecified				Illumina GAIIx	g.chr19:22586297C>T	uc002nqt.2	-	c.48G>A	c.(46-48)AGG>AGA	p.R16R		NM_001098626	NP_001092096	A6NK75	ZNF98_HUMAN	zinc finger protein 98	16	KRAB.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(1)	1		all_cancers(12;0.0536)|all_lung(12;0.00187)|Lung NSC(12;0.0019)|all_epithelial(12;0.00542)|Hepatocellular(1079;0.244)												0.42623	81.340285	81.629893	26	35	KEEP	---	---	---	---	capture		Silent	SNP	22586297	22586297	18807	19	C	T	T	T	285	22	ZNF98	2	2
FCGBP	8857	broad.mit.edu	37	19	40366230	40366230	+	Silent	SNP	G	A	A			TCGA-17-Z011-01	TCGA-17-Z011-01										Phase_I	Unspecified				Illumina GAIIx	g.chr19:40366230G>A	uc002omp.3	-	c.14004C>T	c.(14002-14004)TGC>TGT	p.C4668C		NM_003890	NP_003881	Q9Y6R7	FCGBP_HUMAN	Fc fragment of IgG binding protein precursor	4668	VWFD 11.					extracellular region	protein binding			ovary(4)|central_nervous_system(1)	5	all_cancers(60;6.03e-06)|all_lung(34;5.58e-08)|Lung NSC(34;6.62e-08)|Ovarian(47;0.06)		Epithelial(26;6.25e-23)|all cancers(26;1.13e-20)											0.157895	4.714937	6.834094	3	16	KEEP	---	---	---	---	capture		Silent	SNP	40366230	40366230	6015	19	G	A	A	A	490	38	FCGBP	1	1
MEGF8	1954	broad.mit.edu	37	19	42856543	42856543	+	Silent	SNP	C	T	T			TCGA-17-Z011-01	TCGA-17-Z011-01										Phase_I	Unspecified				Illumina GAIIx	g.chr19:42856543C>T	uc002otl.3	+	c.3084C>T	c.(3082-3084)CCC>CCT	p.P1028P	MEGF8_uc002otm.3_Silent_p.P636P	NM_001410	NP_001401	Q7Z7M0	MEGF8_HUMAN	multiple EGF-like-domains 8	1095	Extracellular (Potential).|EGF-like 3; calcium-binding (Potential).					integral to membrane	calcium ion binding|structural molecule activity			ovary(1)	1		Prostate(69;0.00682)												0.4	6.849059	6.892784	2	3	KEEP	---	---	---	---	capture		Silent	SNP	42856543	42856543	9852	19	C	T	T	T	275	22	MEGF8	2	2
PTPRH	5794	broad.mit.edu	37	19	55696925	55696925	+	Missense_Mutation	SNP	G	T	T			TCGA-17-Z011-01	TCGA-17-Z011-01										Phase_I	Unspecified				Illumina GAIIx	g.chr19:55696925G>T	uc002qjq.2	-	c.3007C>A	c.(3007-3009)CTT>ATT	p.L1003I	PTPRH_uc010esv.2_Missense_Mutation_p.L825I	NM_002842	NP_002833	Q9HD43	PTPRH_HUMAN	protein tyrosine phosphatase, receptor type, H	1003	Cytoplasmic (Potential).|Tyrosine-protein phosphatase.				apoptosis	cytoplasm|integral to plasma membrane	protein binding|transmembrane receptor protein tyrosine phosphatase activity			ovary(2)|large_intestine(1)	3		Renal(1328;0.245)	BRCA - Breast invasive adenocarcinoma(297;0.209)	GBM - Glioblastoma multiforme(193;0.0479)										0.4	11.297461	11.38505	4	6	KEEP	---	---	---	---	capture		Missense_Mutation	SNP	55696925	55696925	13260	19	G	T	T	T	442	34	PTPRH	2	2
ZNF543	125919	broad.mit.edu	37	19	57839964	57839964	+	Missense_Mutation	SNP	G	T	T			TCGA-17-Z011-01	TCGA-17-Z011-01										Phase_I	Unspecified				Illumina GAIIx	g.chr19:57839964G>T	uc002qoi.1	+	c.1134G>T	c.(1132-1134)GAG>GAT	p.E378D		NM_213598	NP_998763	Q08ER8	ZN543_HUMAN	zinc finger protein 543	378	C2H2-type 7.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			skin(1)|pancreas(1)	2		Colorectal(82;0.000256)|all_neural(62;0.0577)|Ovarian(87;0.221)		UCEC - Uterine corpus endometrioid carcinoma (67;0.168)|GBM - Glioblastoma multiforme(193;0.0257)										0.62069	54.347119	54.71571	18	11	KEEP	---	---	---	---	capture		Missense_Mutation	SNP	57839964	57839964	18571	19	G	T	T	T	425	33	ZNF543	2	2
NOTCH2NL	388677	broad.mit.edu	37	1	145273221	145273221	+	Missense_Mutation	SNP	T	G	G			TCGA-17-Z011-01	TCGA-17-Z011-01										Phase_I	Unspecified				Illumina GAIIx	g.chr1:145273221T>G	uc001emn.3	+	c.75T>G	c.(73-75)CAT>CAG	p.H25Q	NBPF10_uc009wir.2_Intron|NBPF9_uc010oye.1_Intron|NBPF9_uc010oyf.1_Intron|NBPF9_uc010oyg.1_Intron|NBPF10_uc001emp.3_5'UTR|NOTCH2NL_uc001emm.3_Missense_Mutation_p.H25Q|NOTCH2NL_uc001emo.2_Missense_Mutation_p.H25Q|NOTCH2NL_uc010oyh.1_Non-coding_Transcript	NM_203458	NP_982283	Q7Z3S9	NT2NL_HUMAN	Notch homolog 2 N-terminal like protein	25	EGF-like 2.				cell differentiation|multicellular organismal development|Notch signaling pathway	cytoplasm|extracellular region	calcium ion binding			ovary(1)	1														0.073171	-1.624093	44.439809	18	228	KEEP	---	---	---	---	capture		Missense_Mutation	SNP	145273221	145273221	10952	1	T	G	G	G	647	50	NOTCH2NL	4	4
ACP6	51205	broad.mit.edu	37	1	147120085	147120085	+	Missense_Mutation	SNP	G	A	A			TCGA-17-Z011-01	TCGA-17-Z011-01										Phase_I	Unspecified				Illumina GAIIx	g.chr1:147120085G>A	uc001epr.2	-	c.1106C>T	c.(1105-1107)TCT>TTT	p.S369F		NM_016361	NP_057445	Q9NPH0	PPA6_HUMAN	acid phosphatase 6, lysophosphatidic precursor	369					lipid metabolic process	extracellular region|mitochondrion	acid phosphatase activity|protein binding			ovary(4)	4	all_hematologic(923;0.0276)													0.182292	76.302195	94.510501	35	157	KEEP	---	---	---	---	capture		Missense_Mutation	SNP	147120085	147120085	166	1	G	A	A	A	429	33	ACP6	2	2
ACP6	51205	broad.mit.edu	37	1	147120177	147120177	+	Silent	SNP	G	A	A			TCGA-17-Z011-01	TCGA-17-Z011-01										Phase_I	Unspecified				Illumina GAIIx	g.chr1:147120177G>A	uc001epr.2	-	c.1014C>T	c.(1012-1014)TTC>TTT	p.F338F		NM_016361	NP_057445	Q9NPH0	PPA6_HUMAN	acid phosphatase 6, lysophosphatidic precursor	338					lipid metabolic process	extracellular region|mitochondrion	acid phosphatase activity|protein binding			ovary(4)	4	all_hematologic(923;0.0276)													0.153465	55.59823	78.794491	31	171	KEEP	---	---	---	---	capture		Silent	SNP	147120177	147120177	166	1	G	A	A	A	581	45	ACP6	2	2
ACP6	51205	broad.mit.edu	37	1	147120191	147120191	+	Missense_Mutation	SNP	G	A	A			TCGA-17-Z011-01	TCGA-17-Z011-01										Phase_I	Unspecified				Illumina GAIIx	g.chr1:147120191G>A	uc001epr.2	-	c.1000C>T	c.(1000-1002)CAT>TAT	p.H334Y		NM_016361	NP_057445	Q9NPH0	PPA6_HUMAN	acid phosphatase 6, lysophosphatidic precursor	334					lipid metabolic process	extracellular region|mitochondrion	acid phosphatase activity|protein binding			ovary(4)	4	all_hematologic(923;0.0276)													0.137255	39.268021	65.248458	28	176	KEEP	---	---	---	---	capture		Missense_Mutation	SNP	147120191	147120191	166	1	G	A	A	A	585	45	ACP6	2	2
CGN	57530	broad.mit.edu	37	1	151501959	151501959	+	Missense_Mutation	SNP	G	C	C			TCGA-17-Z011-01	TCGA-17-Z011-01										Phase_I	Unspecified				Illumina GAIIx	g.chr1:151501959G>C	uc009wmw.2	+	c.2030G>C	c.(2029-2031)CGG>CCG	p.R677P		NM_020770	NP_065821	Q9P2M7	CING_HUMAN	cingulin	671	Glu-rich.|Potential.					myosin complex|tight junction	actin binding|motor activity			ovary(2)|pancreas(1)	3	Ovarian(49;0.0273)|Hepatocellular(266;0.0997)|all_hematologic(923;0.127)|Melanoma(130;0.185)		LUSC - Lung squamous cell carcinoma(543;0.181)											0.310345	24.669738	25.595952	9	20	KEEP	---	---	---	---	capture		Missense_Mutation	SNP	151501959	151501959	3436	1	G	C	C	C	507	39	CGN	3	3
CD1E	913	broad.mit.edu	37	1	158324234	158324234	+	Silent	SNP	T	G	G			TCGA-17-Z011-01	TCGA-17-Z011-01										Phase_I	Unspecified				Illumina GAIIx	g.chr1:158324234T>G	uc001fse.2	+	c.126T>G	c.(124-126)ACT>ACG	p.T42T	CD1E_uc010pid.1_Silent_p.T40T|CD1E_uc010pie.1_Intron|CD1E_uc010pif.1_Intron|CD1E_uc001fsd.2_Silent_p.T42T|CD1E_uc001fsk.2_Silent_p.T42T|CD1E_uc001fsj.2_Silent_p.T42T|CD1E_uc001fsc.2_Intron|CD1E_uc010pig.1_Intron|CD1E_uc001fsa.2_Intron|CD1E_uc001fsf.2_Silent_p.T42T|CD1E_uc001fry.2_Silent_p.T42T|CD1E_uc001fsg.2_Intron|CD1E_uc001fsh.2_Intron|CD1E_uc001fsi.2_Silent_p.T42T|CD1E_uc009wsv.2_Intron|CD1E_uc001frz.2_Silent_p.T42T|CD1E_uc009wsw.2_5'Flank	NM_030893	NP_112155	P15812	CD1E_HUMAN	CD1E antigen isoform a precursor	42					antigen processing and presentation|immune response	early endosome|Golgi membrane|integral to plasma membrane|late endosome|lysosomal lumen					0	all_hematologic(112;0.0378)													0.059574	-20.231993	27.464079	14	221	KEEP	---	---	---	---	capture		Silent	SNP	158324234	158324234	3105	1	T	G	G	G	717	56	CD1E	4	4
DUSP27	92235	broad.mit.edu	37	1	167096077	167096077	+	Missense_Mutation	SNP	C	A	A			TCGA-17-Z011-01	TCGA-17-Z011-01										Phase_I	Unspecified				Illumina GAIIx	g.chr1:167096077C>A	uc001geb.1	+	c.1709C>A	c.(1708-1710)CCC>CAC	p.P570H		NM_001080426	NP_001073895	Q5VZP5	DUS27_HUMAN	dual specificity phosphatase 27	570					protein dephosphorylation		protein tyrosine/serine/threonine phosphatase activity			ovary(3)	3														0.28	67.86495	72.154617	28	72	KEEP	---	---	---	---	capture		Missense_Mutation	SNP	167096077	167096077	5009	1	C	A	A	A	286	22	DUSP27	2	2
ARHGEF10L	55160	broad.mit.edu	37	1	17939562	17939562	+	Missense_Mutation	SNP	G	C	C			TCGA-17-Z011-01	TCGA-17-Z011-01										Phase_I	Unspecified				Illumina GAIIx	g.chr1:17939562G>C	uc001ban.2	+	c.619G>C	c.(619-621)GAC>CAC	p.D207H	ARHGEF10L_uc009vpe.1_Intron|ARHGEF10L_uc001bao.2_Intron|ARHGEF10L_uc001bap.2_Intron|ARHGEF10L_uc010ocr.1_Intron|ARHGEF10L_uc001baq.2_5'Flank	NM_018125	NP_060595	Q9HCE6	ARGAL_HUMAN	Rho guanine nucleotide exchange factor (GEF)	207					regulation of Rho protein signal transduction	cytoplasm	Rho guanyl-nucleotide exchange factor activity			large_intestine(1)|ovary(1)|pancreas(1)	3		Colorectal(325;3.46e-05)|Breast(348;0.000162)|all_lung(284;0.000337)|Lung NSC(340;0.000419)|Renal(390;0.000518)|Ovarian(437;0.00409)|Myeloproliferative disorder(586;0.0255)		UCEC - Uterine corpus endometrioid carcinoma (279;0.00598)|COAD - Colon adenocarcinoma(227;1.62e-05)|BRCA - Breast invasive adenocarcinoma(304;1.68e-05)|Kidney(64;0.000269)|KIRC - Kidney renal clear cell carcinoma(64;0.00361)|STAD - Stomach adenocarcinoma(196;0.00656)|READ - Rectum adenocarcinoma(331;0.0718)|Lung(427;0.204)										0.377049	75.013253	75.821449	23	38	KEEP	---	---	---	---	capture		Missense_Mutation	SNP	17939562	17939562	909	1	G	C	C	C	429	33	ARHGEF10L	3	3
DHX9	1660	broad.mit.edu	37	1	182822532	182822532	+	Silent	SNP	G	A	A			TCGA-17-Z011-01	TCGA-17-Z011-01										Phase_I	Unspecified				Illumina GAIIx	g.chr1:182822532G>A	uc001gpr.2	+	c.456G>A	c.(454-456)AAG>AAA	p.K152K	DHX9_uc001gps.2_5'UTR	NM_001357	NP_001348	Q08211	DHX9_HUMAN	DEAH (Asp-Glu-Ala-His) box polypeptide 9	152	Interaction with CREBBP.				CRD-mediated mRNA stabilization|nuclear mRNA splicing, via spliceosome	centrosome|CRD-mediated mRNA stability complex|nucleolus|nucleoplasm|ribonucleoprotein complex	ATP binding|ATP-dependent DNA helicase activity|ATP-dependent RNA helicase activity|DNA binding|double-stranded RNA binding|protein binding			ovary(2)	2						Colon(69;210 1162 3697 13559 39565)								0.309524	41.240708	42.554399	13	29	KEEP	---	---	---	---	capture		Silent	SNP	182822532	182822532	4695	1	G	A	A	A	451	35	DHX9	2	2
CR2	1380	broad.mit.edu	37	1	207646299	207646299	+	Missense_Mutation	SNP	A	T	T			TCGA-17-Z011-01	TCGA-17-Z011-01										Phase_I	Unspecified				Illumina GAIIx	g.chr1:207646299A>T	uc001hfv.2	+	c.1753A>T	c.(1753-1755)ACC>TCC	p.T585S	CR2_uc001hfw.2_Missense_Mutation_p.T585S|CR2_uc009xch.2_Missense_Mutation_p.T585S|CR2_uc009xci.1_Missense_Mutation_p.T70S	NM_001006658	NP_001006659	P20023	CR2_HUMAN	complement component (3d/Epstein Barr virus)	585	Sushi 9.|Extracellular (Potential).				complement activation, classical pathway|innate immune response	integral to membrane|plasma membrane	complement receptor activity|protein homodimerization activity			upper_aerodigestive_tract(1)|urinary_tract(1)|ovary(1)	3														0.323077	60.455796	62.260307	21	44	KEEP	---	---	---	---	capture		Missense_Mutation	SNP	207646299	207646299	3981	1	A	T	T	T	78	6	CR2	3	3
RAP1GAP	5909	broad.mit.edu	37	1	21938055	21938055	+	Missense_Mutation	SNP	C	A	A			TCGA-17-Z011-01	TCGA-17-Z011-01										Phase_I	Unspecified				Illumina GAIIx	g.chr1:21938055C>A	uc001bev.2	-	c.733G>T	c.(733-735)GTG>TTG	p.V245L	RAP1GAP_uc001bew.2_Missense_Mutation_p.V309L|RAP1GAP_uc001bey.2_Missense_Mutation_p.V245L|RAP1GAP_uc001bex.2_Missense_Mutation_p.V245L	NM_001145657	NP_001139129	P47736	RPGP1_HUMAN	RAP1 GTPase activating protein isoform b	245	Rap-GAP.				regulation of Ras GTPase activity|signal transduction	cytosol|Golgi membrane|membrane fraction	GTPase activator activity|GTPase activity|protein homodimerization activity|Ras GTPase binding			breast(2)|ovary(1)	3		Colorectal(325;0.000147)|Renal(390;0.000734)|Lung NSC(340;0.000861)|all_lung(284;0.000901)|Breast(348;0.012)|Myeloproliferative disorder(586;0.0393)|Ovarian(437;0.0427)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0192)|OV - Ovarian serous cystadenocarcinoma(117;2.3e-26)|COAD - Colon adenocarcinoma(152;1.59e-05)|GBM - Glioblastoma multiforme(114;2.7e-05)|BRCA - Breast invasive adenocarcinoma(304;0.000354)|STAD - Stomach adenocarcinoma(196;0.00645)|KIRC - Kidney renal clear cell carcinoma(1967;0.00862)|READ - Rectum adenocarcinoma(331;0.0625)|Lung(427;0.146)										0.469388	73.223474	73.263119	23	26	KEEP	---	---	---	---	capture		Missense_Mutation	SNP	21938055	21938055	13497	1	C	A	A	A	247	19	RAP1GAP	1	1
OR11L1	391189	broad.mit.edu	37	1	248004459	248004459	+	Missense_Mutation	SNP	A	G	G			TCGA-17-Z011-01	TCGA-17-Z011-01										Phase_I	Unspecified				Illumina GAIIx	g.chr1:248004459A>G	uc001idn.1	-	c.740T>C	c.(739-741)GTT>GCT	p.V247A		NM_001001959	NP_001001959	Q8NGX0	O11L1_HUMAN	olfactory receptor, family 11, subfamily L,	247	Helical; Name=6; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)|pancreas(1)	2	all_cancers(71;8.78e-05)|all_epithelial(71;9.15e-06)|Breast(184;0.0117)|Ovarian(71;0.0377)|all_lung(81;0.0786)|Lung NSC(105;0.0858)		OV - Ovarian serous cystadenocarcinoma(106;0.0319)											0.313043	103.660347	107.238339	36	79	KEEP	---	---	---	---	capture		Missense_Mutation	SNP	248004459	248004459	11336	1	A	G	G	G	26	2	OR11L1	4	4
HOOK1	51361	broad.mit.edu	37	1	60314856	60314856	+	Splice_Site_SNP	SNP	G	T	T			TCGA-17-Z011-01	TCGA-17-Z011-01										Phase_I	Unspecified				Illumina GAIIx	g.chr1:60314856G>T	uc009wad.2	+	c.1242_splice	c.e13+1	p.E414_splice	HOOK1_uc001czo.2_Splice_Site_SNP_p.E414_splice|HOOK1_uc001czp.2_Splice_Site_SNP|HOOK1_uc010oor.1_Splice_Site_SNP_p.E372_splice	NM_015888	NP_056972			hook homolog 1						early endosome to late endosome transport|endosome organization|endosome to lysosome transport|lysosome organization|microtubule cytoskeleton organization|multicellular organismal development|protein transport	FHF complex|microtubule	identical protein binding			ovary(1)|breast(1)	2	all_cancers(7;0.000129)													0.319149	45.410562	46.775457	15	32	KEEP	---	---	---	---	capture		Splice_Site_SNP	SNP	60314856	60314856	7574	1	G	T	T	T	572	44	HOOK1	5	2
CHD5	26038	broad.mit.edu	37	1	6185838	6185838	+	Missense_Mutation	SNP	G	T	T			TCGA-17-Z011-01	TCGA-17-Z011-01										Phase_I	Unspecified				Illumina GAIIx	g.chr1:6185838G>T	uc001amb.1	-	c.4159C>A	c.(4159-4161)CCG>ACG	p.P1387T	CHD5_uc001alz.1_Missense_Mutation_p.P244T|CHD5_uc001ama.1_Non-coding_Transcript|CHD5_uc001amc.1_Non-coding_Transcript|CHD5_uc009vlx.1_Non-coding_Transcript	NM_015557	NP_056372	Q8TDI0	CHD5_HUMAN	chromodomain helicase DNA binding protein 5	1387					chromatin assembly or disassembly|chromatin modification|regulation of transcription, DNA-dependent|transcription, DNA-dependent	chromatin|nucleus	ATP binding|ATP-dependent helicase activity|chromatin binding|DNA binding|zinc ion binding			breast(3)|central_nervous_system(3)|ovary(1)|lung(1)|pancreas(1)	9	Ovarian(185;0.0634)	all_cancers(23;5.36e-32)|all_epithelial(116;2.32e-17)|all_neural(13;3.68e-06)|all_lung(118;3.94e-06)|all_hematologic(16;2.39e-05)|Lung NSC(185;5.33e-05)|Acute lymphoblastic leukemia(12;0.000372)|Glioma(11;0.00127)|Renal(390;0.00188)|Colorectal(325;0.00342)|Breast(487;0.00373)|Hepatocellular(190;0.0218)|Myeloproliferative disorder(586;0.0393)|Ovarian(437;0.15)		Epithelial(90;3.08e-37)|GBM - Glioblastoma multiforme(13;1.36e-31)|OV - Ovarian serous cystadenocarcinoma(86;7.7e-19)|Colorectal(212;9.97e-08)|COAD - Colon adenocarcinoma(227;1.07e-05)|Kidney(185;6.16e-05)|KIRC - Kidney renal clear cell carcinoma(229;0.00109)|BRCA - Breast invasive adenocarcinoma(365;0.0012)|STAD - Stomach adenocarcinoma(132;0.00346)|READ - Rectum adenocarcinoma(331;0.0649)|Lung(427;0.193)						2304				0.311594	113.872887	118.235924	43	95	KEEP	---	---	---	---	capture		Missense_Mutation	SNP	6185838	6185838	3462	1	G	T	T	T	546	42	CHD5	2	2
ZCCHC3	85364	broad.mit.edu	37	20	279019	279019	+	Silent	SNP	G	T	T			TCGA-17-Z011-01	TCGA-17-Z011-01										Phase_I	Unspecified				Illumina GAIIx	g.chr20:279019G>T	uc002wdf.2	+	c.789G>T	c.(787-789)ACG>ACT	p.T263T	ZCCHC3_uc002wdg.2_Non-coding_Transcript	NM_033089	NP_149080	Q9NUD5	ZCHC3_HUMAN	zinc finger, CCHC domain containing 3	264							nucleic acid binding|zinc ion binding				0		all_cancers(10;0.000209)|Lung NSC(37;0.0417)|all_lung(30;0.0713)|all_epithelial(17;0.0748)|Breast(17;0.231)	OV - Ovarian serous cystadenocarcinoma(29;0.149)											0.341463	83.784807	85.601404	28	54	KEEP	---	---	---	---	capture		Silent	SNP	279019	279019	18177	20	G	T	T	T	496	39	ZCCHC3	1	1
NCOA5	57727	broad.mit.edu	37	20	44695708	44695708	+	Silent	SNP	G	A	A			TCGA-17-Z011-01	TCGA-17-Z011-01										Phase_I	Unspecified				Illumina GAIIx	g.chr20:44695708G>A	uc002xrd.2	-	c.615C>T	c.(613-615)GTC>GTT	p.V205V	NCOA5_uc002xrc.2_Silent_p.V93V|NCOA5_uc002xre.2_Silent_p.V205V	NM_020967	NP_066018	Q9HCD5	NCOA5_HUMAN	nuclear receptor coactivator 5	205					regulation of transcription, DNA-dependent|transcription, DNA-dependent|translation	nucleus	aminoacyl-tRNA ligase activity|ATP binding			central_nervous_system(1)|skin(1)	2		Myeloproliferative disorder(115;0.0122)												0.590164	334.183708	335.475741	108	75	KEEP	---	---	---	---	capture		Silent	SNP	44695708	44695708	10631	20	G	A	A	A	574	45	NCOA5	2	2
NCOA5	57727	broad.mit.edu	37	20	44695759	44695759	+	Silent	SNP	G	A	A			TCGA-17-Z011-01	TCGA-17-Z011-01										Phase_I	Unspecified				Illumina GAIIx	g.chr20:44695759G>A	uc002xrd.2	-	c.564C>T	c.(562-564)ATC>ATT	p.I188I	NCOA5_uc002xrc.2_Silent_p.I76I|NCOA5_uc002xre.2_Silent_p.I188I	NM_020967	NP_066018	Q9HCD5	NCOA5_HUMAN	nuclear receptor coactivator 5	188					regulation of transcription, DNA-dependent|transcription, DNA-dependent|translation	nucleus	aminoacyl-tRNA ligase activity|ATP binding			central_nervous_system(1)|skin(1)	2		Myeloproliferative disorder(115;0.0122)												0.544041	334.987482	335.313923	105	88	KEEP	---	---	---	---	capture		Silent	SNP	44695759	44695759	10631	20	G	A	A	A	525	41	NCOA5	2	2
NCOA5	57727	broad.mit.edu	37	20	44698859	44698859	+	Missense_Mutation	SNP	G	A	A			TCGA-17-Z011-01	TCGA-17-Z011-01										Phase_I	Unspecified				Illumina GAIIx	g.chr20:44698859G>A	uc002xrd.2	-	c.355C>T	c.(355-357)CCT>TCT	p.P119S	NCOA5_uc002xrc.2_Missense_Mutation_p.P7S|NCOA5_uc002xre.2_Missense_Mutation_p.P119S	NM_020967	NP_066018	Q9HCD5	NCOA5_HUMAN	nuclear receptor coactivator 5	119	Arg/Asp-rich (mixed charge).|Transcription repression.				regulation of transcription, DNA-dependent|transcription, DNA-dependent|translation	nucleus	aminoacyl-tRNA ligase activity|ATP binding			central_nervous_system(1)|skin(1)	2		Myeloproliferative disorder(115;0.0122)												0.491379	171.066725	171.074262	57	59	KEEP	---	---	---	---	capture		Missense_Mutation	SNP	44698859	44698859	10631	20	G	A	A	A	533	41	NCOA5	2	2
NCOA5	57727	broad.mit.edu	37	20	44698943	44698943	+	Missense_Mutation	SNP	G	A	A			TCGA-17-Z011-01	TCGA-17-Z011-01										Phase_I	Unspecified				Illumina GAIIx	g.chr20:44698943G>A	uc002xrd.2	-	c.271C>T	c.(271-273)CGT>TGT	p.R91C	NCOA5_uc002xrc.2_5'UTR|NCOA5_uc002xre.2_Missense_Mutation_p.R91C	NM_020967	NP_066018	Q9HCD5	NCOA5_HUMAN	nuclear receptor coactivator 5	91	Arg/Asp-rich (mixed charge).|Transcription repression.				regulation of transcription, DNA-dependent|transcription, DNA-dependent|translation	nucleus	aminoacyl-tRNA ligase activity|ATP binding			central_nervous_system(1)|skin(1)	2		Myeloproliferative disorder(115;0.0122)												0.502242	356.708995	356.710065	112	111	KEEP	---	---	---	---	capture		Missense_Mutation	SNP	44698943	44698943	10631	20	G	A	A	A	481	37	NCOA5	1	1
TPD52L2	7165	broad.mit.edu	37	20	62505074	62505074	+	Silent	SNP	C	T	T			TCGA-17-Z011-01	TCGA-17-Z011-01										Phase_I	Unspecified				Illumina GAIIx	g.chr20:62505074C>T	uc002ygy.2	+	c.219C>T	c.(217-219)CAC>CAT	p.H73H	TPD52L2_uc002ygz.2_Silent_p.H73H|TPD52L2_uc002yha.2_Silent_p.H73H|TPD52L2_uc002yhb.2_Silent_p.H73H|TPD52L2_uc002yhc.2_Silent_p.H73H|TPD52L2_uc002yhd.2_Silent_p.H73H|TPD52L2_uc011abk.1_Silent_p.H24H|TPD52L2_uc011abl.1_Silent_p.H50H|TPD52L2_uc002yhe.2_5'UTR	NM_199360	NP_955392	O43399	TPD54_HUMAN	tumor protein D52-like 2 isoform a	73	Potential.				regulation of cell proliferation	perinuclear region of cytoplasm	protein binding|protein homodimerization activity			ovary(1)	1	all_cancers(38;1.3e-12)|all_epithelial(29;2.23e-14)|Lung NSC(23;5.92e-10)|all_lung(23;2.08e-09)													0.166667	6.513346	8.409672	3	15	KEEP	---	---	---	---	capture		Silent	SNP	62505074	62505074	16943	20	C	T	T	T	259	20	TPD52L2	2	2
CECR1	51816	broad.mit.edu	37	22	17690382	17690382	+	Missense_Mutation	SNP	C	A	A			TCGA-17-Z011-01	TCGA-17-Z011-01										Phase_I	Unspecified				Illumina GAIIx	g.chr22:17690382C>A	uc002zmk.1	-	c.186G>T	c.(184-186)AGG>AGT	p.R62S	CECR1_uc010gqu.1_Missense_Mutation_p.R62S|CECR1_uc011agi.1_Missense_Mutation_p.R20S|CECR1_uc011agj.1_Missense_Mutation_p.R20S	NM_017424	NP_059120	Q9NZK5	CECR1_HUMAN	cat eye syndrome critical region protein 1	62	Dimerization.				adenosine catabolic process|multicellular organismal development|purine ribonucleoside monophosphate biosynthetic process	extracellular space|Golgi apparatus	adenosine deaminase activity|adenosine receptor binding|growth factor activity|heparin binding|protein homodimerization activity|proteoglycan binding|zinc ion binding			ovary(1)	1		all_epithelial(15;0.0152)|Lung NSC(13;0.0875)|all_lung(157;0.106)												0.390244	44.089955	44.522749	16	25	KEEP	---	---	---	---	capture		Missense_Mutation	SNP	17690382	17690382	3338	22	C	A	A	A	337	26	CECR1	2	2
MYH9	4627	broad.mit.edu	37	22	36737457	36737457	+	Missense_Mutation	SNP	T	A	A			TCGA-17-Z011-01	TCGA-17-Z011-01										Phase_I	Unspecified				Illumina GAIIx	g.chr22:36737457T>A	uc003apg.2	-	c.448A>T	c.(448-450)ATC>TTC	p.I150F	MYH9_uc003aph.1_Missense_Mutation_p.I14F|MYH9_uc003api.1_Missense_Mutation_p.I150F	NM_002473	NP_002464	P35579	MYH9_HUMAN	myosin, heavy polypeptide 9, non-muscle	150	Myosin head-like.				actin cytoskeleton reorganization|actin filament-based movement|angiogenesis|axon guidance|blood vessel endothelial cell migration|cytokinesis|integrin-mediated signaling pathway|leukocyte migration|membrane protein ectodomain proteolysis|monocyte differentiation|platelet formation|protein transport|regulation of cell shape	actomyosin contractile ring|cleavage furrow|cytosol|myosin complex|nucleus|ruffle|stress fiber|uropod	actin filament binding|actin-dependent ATPase activity|ADP binding|ATP binding|calmodulin binding|microfilament motor activity|protein anchor|protein homodimerization activity			breast(3)|ovary(2)|upper_aerodigestive_tract(1)|lung(1)|skin(1)|kidney(1)|pancreas(1)	10										1624				0.27551	75.183955	79.630217	27	71	KEEP	---	---	---	---	capture		Missense_Mutation	SNP	36737457	36737457	10437	22	T	A	A	A	663	51	MYH9	3	3
MKL1	57591	broad.mit.edu	37	22	40819642	40819642	+	Silent	SNP	G	A	A			TCGA-17-Z011-01	TCGA-17-Z011-01										Phase_I	Unspecified				Illumina GAIIx	g.chr22:40819642G>A	uc003ayv.1	-	c.525C>T	c.(523-525)TTC>TTT	p.F175F	MKL1_uc003ayw.1_Silent_p.F175F|MKL1_uc010gye.1_Silent_p.F175F|MKL1_uc010gyf.1_Intron	NM_020831	NP_065882	Q969V6	MKL1_HUMAN	megakaryoblastic leukemia 1 protein	175	Mediates interaction with SCAI and ACTB (By similarity).				regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasm|nucleus	actin monomer binding|nucleic acid binding|transcription coactivator activity			ovary(2)|central_nervous_system(1)	3										210				0.229885	46.454798	52.274695	20	67	KEEP	---	---	---	---	capture		Silent	SNP	40819642	40819642	9991	22	G	A	A	A	529	41	MKL1	2	2
POLDIP3	84271	broad.mit.edu	37	22	42988052	42988052	+	Silent	SNP	T	A	A			TCGA-17-Z011-01	TCGA-17-Z011-01										Phase_I	Unspecified				Illumina GAIIx	g.chr22:42988052T>A	uc011apq.1	-	c.981A>T	c.(979-981)CGA>CGT	p.R327R	POLDIP3_uc011app.1_Silent_p.R231R|POLDIP3_uc003bcu.2_Silent_p.R310R|POLDIP3_uc003bcv.2_Silent_p.R281R|POLDIP3_uc010gza.2_Non-coding_Transcript|POLDIP3_uc011apr.1_Non-coding_Transcript|POLDIP3_uc010gzb.1_Intron	NM_032311	NP_115687	Q9BY77	PDIP3_HUMAN	DNA polymerase delta interacting protein 3	310	RRM.				positive regulation of translation	cytoplasm|nuclear speck	nucleotide binding|protein binding|RNA binding				0						Ovarian(52;967 1128 5875 19997 42537)								0.320611	111.615153	115.354318	42	89	KEEP	---	---	---	---	capture		Silent	SNP	42988052	42988052	12623	22	T	A	A	A	743	58	POLDIP3	3	3
C2orf67	151050	broad.mit.edu	37	2	211018966	211018966	+	Missense_Mutation	SNP	T	A	A			TCGA-17-Z011-01	TCGA-17-Z011-01										Phase_I	Unspecified				Illumina GAIIx	g.chr2:211018966T>A	uc002vds.2	-	c.341A>T	c.(340-342)TAT>TTT	p.Y114F	C2orf67_uc002vdt.2_Missense_Mutation_p.Y114F|C2orf67_uc002vdw.2_Missense_Mutation_p.Y114F|C2orf67_uc002vdy.1_Missense_Mutation_p.Y114F|C2orf67_uc002vdv.2_Missense_Mutation_p.Y114F|C2orf67_uc002vdx.1_Missense_Mutation_p.Y114F	NM_152519	NP_689732	A0AUZ9	CB067_HUMAN	hypothetical protein LOC151050	114										ovary(3)	3		Renal(323;0.202)		Epithelial(149;0.00435)|Lung(261;0.0529)|LUSC - Lung squamous cell carcinoma(261;0.0551)|all cancers(144;0.0696)										0.325	37.869798	38.952368	13	27	KEEP	---	---	---	---	capture		Missense_Mutation	SNP	211018966	211018966	2274	2	T	A	A	A	637	49	C2orf67	3	3
DOCK10	55619	broad.mit.edu	37	2	225681357	225681357	+	Missense_Mutation	SNP	G	T	T			TCGA-17-Z011-01	TCGA-17-Z011-01										Phase_I	Unspecified				Illumina GAIIx	g.chr2:225681357G>T	uc010fwz.1	-	c.3341C>A	c.(3340-3342)CCC>CAC	p.P1114H	DOCK10_uc002vob.2_Missense_Mutation_p.P1108H|DOCK10_uc002voc.2_5'UTR	NM_014689	NP_055504	Q96BY6	DOC10_HUMAN	dedicator of cytokinesis 10	1114							GTP binding			ovary(2)	2		Renal(207;0.0113)|all_lung(227;0.0486)|Lung NSC(271;0.0653)|all_hematologic(139;0.14)		Epithelial(121;2.37e-10)|all cancers(144;2.26e-07)|Lung(261;0.0143)|LUSC - Lung squamous cell carcinoma(224;0.0178)										0.220588	36.53895	41.390695	15	53	KEEP	---	---	---	---	capture		Missense_Mutation	SNP	225681357	225681357	4869	2	G	T	T	T	559	43	DOCK10	2	2
ECEL1	9427	broad.mit.edu	37	2	233346507	233346507	+	Missense_Mutation	SNP	C	A	A			TCGA-17-Z011-01	TCGA-17-Z011-01										Phase_I	Unspecified				Illumina GAIIx	g.chr2:233346507C>A	uc002vsv.2	-	c.1849G>T	c.(1849-1851)GGC>TGC	p.G617C	ECEL1_uc010fya.1_Missense_Mutation_p.G615C|ECEL1_uc010fyb.1_Missense_Mutation_p.G324C	NM_004826	NP_004817	O95672	ECEL1_HUMAN	endothelin converting enzyme-like 1	617	Lumenal (Potential).				neuropeptide signaling pathway|proteolysis	integral to plasma membrane	metal ion binding|metalloendopeptidase activity			central_nervous_system(2)	2		all_hematologic(139;0.00793)|Renal(207;0.0112)|Acute lymphoblastic leukemia(138;0.0182)|all_lung(227;0.0449)|Lung NSC(271;0.132)		Epithelial(121;7.17e-17)|BRCA - Breast invasive adenocarcinoma(100;0.000771)|Lung(119;0.00213)|LUSC - Lung squamous cell carcinoma(224;0.00746)										0.387097	34.481296	34.830953	12	19	KEEP	---	---	---	---	capture		Missense_Mutation	SNP	233346507	233346507	5078	2	C	A	A	A	299	23	ECEL1	1	1
ILKAP	80895	broad.mit.edu	37	2	239082240	239082240	+	Missense_Mutation	SNP	C	A	A			TCGA-17-Z011-01	TCGA-17-Z011-01										Phase_I	Unspecified				Illumina GAIIx	g.chr2:239082240C>A	uc002vxv.2	-	c.891G>T	c.(889-891)CAG>CAT	p.Q297H	ILKAP_uc010zns.1_Missense_Mutation_p.Q229H|ILKAP_uc002vxw.2_Missense_Mutation_p.Q177H	NM_030768	NP_110395	Q9H0C8	ILKAP_HUMAN	integrin-linked kinase-associated protein	297	PP2C-like.					cytoplasm|protein serine/threonine phosphatase complex	metal ion binding|protein binding			ovary(3)	3		Breast(86;7.61e-05)|Renal(207;0.00183)|Ovarian(221;0.0481)|all_lung(227;0.152)|all_hematologic(139;0.158)|Melanoma(123;0.203)|Hepatocellular(293;0.244)		Epithelial(121;5.49e-24)|OV - Ovarian serous cystadenocarcinoma(60;3.93e-12)|Kidney(56;3.04e-09)|KIRC - Kidney renal clear cell carcinoma(57;6.82e-08)|BRCA - Breast invasive adenocarcinoma(100;0.00012)|Lung(119;0.00942)|LUSC - Lung squamous cell carcinoma(224;0.0163)										0.294118	13.566817	14.212681	5	12	KEEP	---	---	---	---	capture		Missense_Mutation	SNP	239082240	239082240	8015	2	C	A	A	A	259	20	ILKAP	2	2
POMC	5443	broad.mit.edu	37	2	25384268	25384268	+	Silent	SNP	G	A	A			TCGA-17-Z011-01	TCGA-17-Z011-01										Phase_I	Unspecified				Illumina GAIIx	g.chr2:25384268G>A	uc002rfy.1	-	c.486C>T	c.(484-486)AAC>AAT	p.N162N	POMC_uc002rfz.1_Silent_p.N162N|POMC_uc002rga.1_Silent_p.N162N	NM_001035256	NP_001030333	P01189	COLI_HUMAN	proopiomelanocortin preproprotein	162					cell-cell signaling|cellular nitrogen compound metabolic process|cellular pigmentation|generation of precursor metabolites and energy|hormone biosynthetic process|negative regulation of tumor necrosis factor production|neuropeptide signaling pathway|peptide hormone processing|positive regulation of gene-specific transcription from RNA polymerase II promoter|regulation of appetite|regulation of blood pressure	extracellular space|stored secretory granule	hormone activity|type 1 melanocortin receptor binding|type 3 melanocortin receptor binding|type 4 melanocortin receptor binding			ovary(1)	1	Acute lymphoblastic leukemia(172;0.155)|all_hematologic(175;0.215)				Hydrocortisone(DB00741)|Loperamide(DB00836)|Trilostane(DB01108)	Colon(110;1515 1566 8452 10082 43216)								0.25	12.066972	13.202253	5	15	KEEP	---	---	---	---	capture		Silent	SNP	25384268	25384268	12671	2	G	A	A	A	516	40	POMC	1	1
NRXN1	9378	broad.mit.edu	37	2	51255230	51255230	+	Missense_Mutation	SNP	C	A	A			TCGA-17-Z011-01	TCGA-17-Z011-01										Phase_I	Unspecified				Illumina GAIIx	g.chr2:51255230C>A	uc010fbq.2	-	c.182G>T	c.(181-183)CGC>CTC	p.R61L	NRXN1_uc002rxe.3_Missense_Mutation_p.R61L|NRXN1_uc002rxd.1_Missense_Mutation_p.R61L	NM_001135659	NP_001129131	P58400	NRX1B_HUMAN	neurexin 1 isoform alpha2 precursor	Error:Variant_position_missing_in_P58400_after_alignment					neuron cell-cell adhesion|neuronal signal transduction	cell surface|endocytic vesicle|integral to membrane|presynaptic membrane	cell adhesion molecule binding|receptor binding			ovary(2)	2		all_hematologic(82;0.152)|Acute lymphoblastic leukemia(82;0.192)	Lung(47;0.0813)|LUSC - Lung squamous cell carcinoma(58;0.116)											0.3	9.122612	9.479101	3	7	KEEP	---	---	---	---	capture		Missense_Mutation	SNP	51255230	51255230	11070	2	C	A	A	A	351	27	NRXN1	1	1
ERLEC1	27248	broad.mit.edu	37	2	54028655	54028655	+	Missense_Mutation	SNP	A	C	C			TCGA-17-Z011-01	TCGA-17-Z011-01										Phase_I	Unspecified				Illumina GAIIx	g.chr2:54028655A>C	uc002rxl.2	+	c.647A>C	c.(646-648)CAT>CCT	p.H216P	ASB3_uc002rxi.3_Intron|ERLEC1_uc002rxm.2_Missense_Mutation_p.H216P|ERLEC1_uc002rxn.2_Missense_Mutation_p.H216P	NM_015701	NP_056516	Q96DZ1	ERLEC_HUMAN	erlectin isoform 1	216					ER-associated protein catabolic process	endoplasmic reticulum lumen	glycoprotein binding|protein binding			ovary(2)	2														0.287129	87.138169	91.240297	29	72	KEEP	---	---	---	---	capture		Missense_Mutation	SNP	54028655	54028655	5424	2	A	C	C	C	104	8	ERLEC1	4	4
VAX2	25806	broad.mit.edu	37	2	71159913	71159913	+	Missense_Mutation	SNP	A	T	T			TCGA-17-Z011-01	TCGA-17-Z011-01										Phase_I	Unspecified				Illumina GAIIx	g.chr2:71159913A>T	uc002shh.2	+	c.452A>T	c.(451-453)CAG>CTG	p.Q151L		NM_012476	NP_036608	Q9UIW0	VAX2_HUMAN	ventral anterior homeobox 2	151	Homeobox.				ectoderm development|visual perception	nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|transcription regulator activity				0														0.294118	15.168472	15.813201	5	12	KEEP	---	---	---	---	capture		Missense_Mutation	SNP	71159913	71159913	17700	2	A	T	T	T	91	7	VAX2	3	3
PHLDB2	90102	broad.mit.edu	37	3	111637972	111637972	+	Missense_Mutation	SNP	A	T	T			TCGA-17-Z011-01	TCGA-17-Z011-01										Phase_I	Unspecified				Illumina GAIIx	g.chr3:111637972A>T	uc010hqa.2	+	c.1773A>T	c.(1771-1773)GAA>GAT	p.E591D	PHLDB2_uc003dyc.2_Missense_Mutation_p.E618D|PHLDB2_uc003dyd.2_Missense_Mutation_p.E591D|PHLDB2_uc003dyg.2_Missense_Mutation_p.E591D|PHLDB2_uc003dyh.2_Missense_Mutation_p.E591D|PHLDB2_uc003dyi.2_Missense_Mutation_p.E177D	NM_001134438	NP_001127910	Q86SQ0	PHLB2_HUMAN	pleckstrin homology-like domain, family B,	591	Potential.					cytoplasm|intermediate filament cytoskeleton|plasma membrane				ovary(4)	4														0.357388	297.914515	303.128995	104	187	KEEP	---	---	---	---	capture		Missense_Mutation	SNP	111637972	111637972	12276	3	A	T	T	T	37	3	PHLDB2	3	3
KIAA1407	57577	broad.mit.edu	37	3	113724677	113724677	+	Missense_Mutation	SNP	C	T	T			TCGA-17-Z011-01	TCGA-17-Z011-01										Phase_I	Unspecified				Illumina GAIIx	g.chr3:113724677C>T	uc003eax.2	-	c.1546G>A	c.(1546-1548)GGC>AGC	p.G516S	KIAA1407_uc011bin.1_Non-coding_Transcript|KIAA1407_uc011bio.1_Missense_Mutation_p.G494S|KIAA1407_uc011bip.1_Missense_Mutation_p.G503S	NM_020817	NP_065868	Q8NCU4	K1407_HUMAN	hypothetical protein LOC57577	516										ovary(2)	2														0.230769	87.118949	97.483436	36	120	KEEP	---	---	---	---	capture		Missense_Mutation	SNP	113724677	113724677	8538	3	C	T	T	T	273	21	KIAA1407	2	2
PLS1	5357	broad.mit.edu	37	3	142402908	142402909	+	Missense_Mutation	DNP	GG	TT	TT			TCGA-17-Z011-01	TCGA-17-Z011-01										Phase_I	Unspecified				Illumina GAIIx	g.chr3:142402908_142402909GG>TT	uc010huv.2	+	c.640_641GG>TT	c.(640-642)GGT>TTT	p.G214F	PLS1_uc003euz.2_Missense_Mutation_p.G214F|PLS1_uc003eva.2_Missense_Mutation_p.G214F	NM_001145319	NP_001138791	Q14651	PLSI_HUMAN	plastin 1	214	Actin-binding 1.|CH 1.					cytoplasm	actin filament binding|calcium ion binding|structural constituent of cytoskeleton				0														0.300752	114.749128	119.464925	40	93	KEEP	---	---	---	---	capture		Missense_Mutation	DNP	142402908	142402909	12533	3	GG	TT	TT	TT	611	47	PLS1	2	2
HLTF	6596	broad.mit.edu	37	3	148802652	148802652	+	Missense_Mutation	SNP	C	A	A			TCGA-17-Z011-01	TCGA-17-Z011-01										Phase_I	Unspecified				Illumina GAIIx	g.chr3:148802652C>A	uc003ewq.1	-	c.45G>T	c.(43-45)CAG>CAT	p.Q15H	HLTF_uc003ewr.1_Missense_Mutation_p.Q15H|HLTF_uc003ews.1_Missense_Mutation_p.Q15H|HLTF_uc010hve.1_Missense_Mutation_p.Q15H	NM_139048	NP_620636	Q14527	HLTF_HUMAN	helicase-like transcription factor	15					chromatin modification|transcription, DNA-dependent	nucleus	ATP binding|DNA binding|helicase activity|ligase activity|zinc ion binding				0			LUSC - Lung squamous cell carcinoma(72;0.0473)|Lung(72;0.0607)											0.272727	22.258449	23.796265	9	24	KEEP	---	---	---	---	capture		Missense_Mutation	SNP	148802652	148802652	7506	3	C	A	A	A	415	32	HLTF	2	2
GOLIM4	27333	broad.mit.edu	37	3	167750636	167750636	+	Missense_Mutation	SNP	G	A	A			TCGA-17-Z011-01	TCGA-17-Z011-01										Phase_I	Unspecified				Illumina GAIIx	g.chr3:167750636G>A	uc011bpe.1	-	c.848C>T	c.(847-849)TCT>TTT	p.S283F	GOLIM4_uc003ffe.2_Missense_Mutation_p.S283F|GOLIM4_uc011bpf.1_Missense_Mutation_p.S255F|GOLIM4_uc011bpg.1_Missense_Mutation_p.S255F	NM_014498	NP_055313	O00461	GOLI4_HUMAN	golgi integral membrane protein 4	283	Lumenal (Potential).				transport	cis-Golgi network|endocytic vesicle|endosome membrane|Golgi cisterna membrane|Golgi lumen|integral to membrane|nucleus				breast(4)	4														0.27551	68.585273	73.031957	27	71	KEEP	---	---	---	---	capture		Missense_Mutation	SNP	167750636	167750636	6839	3	G	A	A	A	429	33	GOLIM4	2	2
CLDN11	5010	broad.mit.edu	37	3	170141044	170141044	+	Missense_Mutation	SNP	G	A	A			TCGA-17-Z011-01	TCGA-17-Z011-01										Phase_I	Unspecified				Illumina GAIIx	g.chr3:170141044G>A	uc003fgx.2	+	c.320G>A	c.(319-321)CGG>CAG	p.R107Q	CLDN11_uc011bpt.1_Missense_Mutation_p.R107Q|CLDN11_uc003fgy.2_Missense_Mutation_p.R23Q	NM_005602	NP_005593	O75508	CLD11_HUMAN	claudin 11	107	Cytoplasmic (Potential).				calcium-independent cell-cell adhesion	integral to membrane|tight junction	identical protein binding|structural molecule activity			central_nervous_system(1)	1	all_cancers(22;5.62e-23)|all_epithelial(15;7.54e-28)|all_lung(20;2.51e-17)|Lung NSC(18;1.02e-16)|Ovarian(172;0.000567)|Breast(254;0.137)		Lung(28;2.71e-13)|STAD - Stomach adenocarcinoma(35;0.197)											0.090909	1.766284	9.190707	4	40	KEEP	---	---	---	---	capture		Missense_Mutation	SNP	170141044	170141044	3609	3	G	A	A	A	507	39	CLDN11	1	1
CLDN16	10686	broad.mit.edu	37	3	190122610	190122610	+	Missense_Mutation	SNP	T	C	C			TCGA-17-Z011-01	TCGA-17-Z011-01										Phase_I	Unspecified				Illumina GAIIx	g.chr3:190122610T>C	uc003fsi.2	+	c.487T>C	c.(487-489)TTT>CTT	p.F163L	CLDN16_uc010hze.2_Intron	NM_006580	NP_006571	Q9Y5I7	CLD16_HUMAN	claudin 16	163	Helical; (Potential).				calcium-independent cell-cell adhesion|cellular metal ion homeostasis|excretion	integral to membrane|tight junction	identical protein binding|magnesium ion transmembrane transporter activity|structural molecule activity			ovary(1)	1	all_cancers(143;3.61e-10)|Ovarian(172;0.0991)		Lung(62;2.23e-05)|LUSC - Lung squamous cell carcinoma(58;3.15e-05)	GBM - Glioblastoma multiforme(93;0.018)										0.328358	65.837673	67.582476	22	45	KEEP	---	---	---	---	capture		Missense_Mutation	SNP	190122610	190122610	3613	3	T	C	C	C	676	52	CLDN16	4	4
RNF168	165918	broad.mit.edu	37	3	196229919	196229919	+	Silent	SNP	C	A	A			TCGA-17-Z011-01	TCGA-17-Z011-01										Phase_I	Unspecified				Illumina GAIIx	g.chr3:196229919C>A	uc003fwq.2	-	c.126G>T	c.(124-126)TCG>TCT	p.S42S	RNF168_uc010iah.2_5'UTR	NM_152617	NP_689830	Q8IYW5	RN168_HUMAN	ring finger protein 168	42	RING-type.				double-strand break repair|histone H2A K63-linked ubiquitination|positive regulation of DNA repair|response to ionizing radiation	nucleus|ubiquitin ligase complex	chromatin binding|histone binding|ubiquitin binding|ubiquitin-protein ligase activity|zinc ion binding				0	all_cancers(143;1e-08)|Ovarian(172;0.0634)|Breast(254;0.206)		Epithelial(36;5.25e-24)|all cancers(36;5.47e-22)|OV - Ovarian serous cystadenocarcinoma(49;1.76e-18)|LUSC - Lung squamous cell carcinoma(58;1.51e-06)|Lung(62;1.95e-06)	GBM - Glioblastoma multiforme(46;0.00348)										0.4375	105.617107	105.88849	35	45	KEEP	---	---	---	---	capture		Silent	SNP	196229919	196229919	13936	3	C	A	A	A	392	31	RNF168	1	1
SCN10A	6336	broad.mit.edu	37	3	38793872	38793872	+	Missense_Mutation	SNP	T	A	A			TCGA-17-Z011-01	TCGA-17-Z011-01										Phase_I	Unspecified				Illumina GAIIx	g.chr3:38793872T>A	uc003ciq.2	-	c.1593A>T	c.(1591-1593)GAA>GAT	p.E531D		NM_006514	NP_006505	Q9Y5Y9	SCNAA_HUMAN	sodium channel, voltage-gated, type X, alpha	531					sensory perception	voltage-gated sodium channel complex				ovary(5)|large_intestine(1)|kidney(1)|skin(1)	8				KIRC - Kidney renal clear cell carcinoma(284;0.0769)|Kidney(284;0.0945)	Benzocaine(DB01086)|Bupivacaine(DB00297)|Chloroprocaine(DB01161)|Cocaine(DB00907)|Dibucaine(DB00527)|Dyclonine(DB00645)|Hexylcaine(DB00473)|Levobupivacaine(DB01002)|Lidocaine(DB00281)|Mepivacaine(DB00961)|Oxybuprocaine(DB00892)|Procaine(DB00721)|Proparacaine(DB00807)|Ropivacaine(DB00296)									0.404762	47.965482	48.298682	17	25	KEEP	---	---	---	---	capture		Missense_Mutation	SNP	38793872	38793872	14394	3	T	A	A	A	829	64	SCN10A	3	3
METTL14	57721	broad.mit.edu	37	4	119626964	119626964	+	Missense_Mutation	SNP	A	G	G			TCGA-17-Z011-01	TCGA-17-Z011-01										Phase_I	Unspecified				Illumina GAIIx	g.chr4:119626964A>G	uc003icf.2	+	c.1054A>G	c.(1054-1056)ACA>GCA	p.T352A	METTL14_uc003icg.2_Missense_Mutation_p.T314A	NM_020961	NP_066012	Q9HCE5	MTL14_HUMAN	methyltransferase like 14	352						nucleus	mRNA (2'-O-methyladenosine-N6-)-methyltransferase activity				0														0.340426	100.966039	103.0842	32	62	KEEP	---	---	---	---	capture		Missense_Mutation	SNP	119626964	119626964	9888	4	A	G	G	G	182	14	METTL14	4	4
APBB2	323	broad.mit.edu	37	4	40832537	40832537	+	Silent	SNP	A	G	G			TCGA-17-Z011-01	TCGA-17-Z011-01										Phase_I	Unspecified				Illumina GAIIx	g.chr4:40832537A>G	uc003gvn.2	-	c.1587T>C	c.(1585-1587)TTT>TTC	p.F529F	APBB2_uc010ifu.2_Silent_p.F100F|APBB2_uc003gvm.2_Silent_p.F507F|APBB2_uc003gvl.2_Silent_p.F528F|APBB2_uc003gvk.2_5'UTR	NM_173075	NP_775098	Q92870	APBB2_HUMAN	amyloid beta A4 precursor protein-binding,	528	PID 1.				cell cycle arrest|intracellular signal transduction|negative regulation of cell growth|negative regulation of S phase of mitotic cell cycle|regulation of transcription, DNA-dependent	growth cone|lamellipodium|membrane|nucleus|synapse	beta-amyloid binding|transcription factor binding			ovary(2)|large_intestine(1)	3						Ovarian(3;20 75 16686 49997)								0.330097	105.617943	108.251735	34	69	KEEP	---	---	---	---	capture		Silent	SNP	40832537	40832537	771	4	A	G	G	G	115	9	APBB2	4	4
SLC4A4	8671	broad.mit.edu	37	4	72205152	72205152	+	Nonsense_Mutation	SNP	C	T	T			TCGA-17-Z011-01	TCGA-17-Z011-01										Phase_I	Unspecified				Illumina GAIIx	g.chr4:72205152C>T	uc010iic.2	+	c.319C>T	c.(319-321)CAG>TAG	p.Q107*	SLC4A4_uc003hfy.2_Nonsense_Mutation_p.Q107*|SLC4A4_uc010iib.2_Nonsense_Mutation_p.Q107*|SLC4A4_uc003hfz.2_Nonsense_Mutation_p.Q107*|SLC4A4_uc003hgc.3_Nonsense_Mutation_p.Q63*|SLC4A4_uc003hga.2_5'UTR|SLC4A4_uc003hgb.3_Nonsense_Mutation_p.Q63*	NM_001134742	NP_001128214	Q9Y6R1	S4A4_HUMAN	solute carrier family 4, sodium bicarbonate	107	Cytoplasmic (Potential).					basolateral plasma membrane|integral to plasma membrane	inorganic anion exchanger activity|protein binding|sodium:bicarbonate symporter activity			ovary(3)|kidney(1)	4			Lung(101;0.0739)|LUSC - Lung squamous cell carcinoma(112;0.225)											0.277778	110.897025	118.101321	45	117	KEEP	---	---	---	---	capture		Nonsense_Mutation	SNP	72205152	72205152	15153	4	C	T	T	T	377	29	SLC4A4	5	2
CDKL2	8999	broad.mit.edu	37	4	76525509	76525509	+	Silent	SNP	C	T	T			TCGA-17-Z011-01	TCGA-17-Z011-01										Phase_I	Unspecified				Illumina GAIIx	g.chr4:76525509C>T	uc011cbp.1	-	c.840G>A	c.(838-840)GAG>GAA	p.E280E	CDKL2_uc003hiq.2_Silent_p.E280E|CDKL2_uc010iix.1_Non-coding_Transcript	NM_003948	NP_003939	Q92772	CDKL2_HUMAN	cyclin-dependent kinase-like 2	280	Protein kinase.				protein phosphorylation|sex differentiation|signal transduction	cytoplasm|nucleus	ATP binding|cyclin-dependent protein kinase activity			ovary(2)|breast(2)	4			Lung(101;0.0973)|LUSC - Lung squamous cell carcinoma(112;0.122)							284				0.365385	57.509659	58.339037	19	33	KEEP	---	---	---	---	capture		Silent	SNP	76525509	76525509	3283	4	C	T	T	T	363	28	CDKL2	2	2
DMP1	1758	broad.mit.edu	37	4	88584103	88584103	+	Silent	SNP	A	T	T			TCGA-17-Z011-01	TCGA-17-Z011-01										Phase_I	Unspecified				Illumina GAIIx	g.chr4:88584103A>T	uc003hqv.2	+	c.1173A>T	c.(1171-1173)ACA>ACT	p.T391T	DMP1_uc003hqw.2_Silent_p.T375T	NM_004407	NP_004398	Q13316	DMP1_HUMAN	dentin matrix acidic phosphoprotein 1 isoform 1	391					biomineral tissue development|ossification	cytoplasm|nucleus|proteinaceous extracellular matrix	calcium ion binding|integrin binding			pancreas(1)	1		Hepatocellular(203;0.114)|all_hematologic(202;0.21)|Acute lymphoblastic leukemia(40;0.227)		OV - Ovarian serous cystadenocarcinoma(123;0.000516)										0.256173	205.317692	222.766572	83	241	KEEP	---	---	---	---	capture		Silent	SNP	88584103	88584103	4763	4	A	T	T	T	67	6	DMP1	3	3
MARCH6	10299	broad.mit.edu	37	5	10426547	10426547	+	Missense_Mutation	SNP	C	T	T			TCGA-17-Z011-01	TCGA-17-Z011-01										Phase_I	Unspecified				Illumina GAIIx	g.chr5:10426547C>T	uc003jet.1	+	c.2419C>T	c.(2419-2421)CGT>TGT	p.R807C	MARCH6_uc011cmu.1_Missense_Mutation_p.R759C|MARCH6_uc003jeu.1_Missense_Mutation_p.R505C|MARCH6_uc011cmv.1_Missense_Mutation_p.R702C	NM_005885	NP_005876	O60337	MARH6_HUMAN	membrane-associated ring finger (C3HC4) 6	807	Cytoplasmic (Potential).				protein K48-linked ubiquitination	integral to endoplasmic reticulum membrane	ubiquitin conjugating enzyme binding|ubiquitin-protein ligase activity|zinc ion binding				0														0.165354	162.810178	216.775615	84	424	KEEP	---	---	---	---	capture		Missense_Mutation	SNP	10426547	10426547	9688	5	C	T	T	T	403	31	MARCH6	1	1
APC	324	broad.mit.edu	37	5	112175324	112175324	+	Nonsense_Mutation	SNP	G	T	T			TCGA-17-Z011-01	TCGA-17-Z011-01										Phase_I	Unspecified				Illumina GAIIx	g.chr5:112175324G>T	uc010jby.2	+	c.4033G>T	c.(4033-4035)GAA>TAA	p.E1345*	APC_uc011cvt.1_Nonsense_Mutation_p.E1327*|APC_uc003kpz.3_Nonsense_Mutation_p.E1345*|APC_uc003kpy.3_Nonsense_Mutation_p.E1345*|APC_uc010jbz.2_Nonsense_Mutation_p.E1062*|APC_uc010jca.2_Nonsense_Mutation_p.E645*	NM_001127511	NP_001120983	P25054	APC_HUMAN	adenomatous polyposis coli	1345	Ser-rich.				canonical Wnt receptor signaling pathway|cell adhesion|cell cycle arrest|cell migration|cellular component disassembly involved in apoptosis|cytokinesis after mitosis|mitotic cell cycle spindle assembly checkpoint|negative regulation of canonical Wnt receptor signaling pathway|negative regulation of cyclin-dependent protein kinase activity|negative regulation of microtubule depolymerization|positive regulation of apoptosis|positive regulation of cell migration|positive regulation of protein catabolic process|positive regulation of pseudopodium assembly|protein complex assembly|regulation of attachment of spindle microtubules to kinetochore|response to DNA damage stimulus|tight junction assembly	adherens junction|APC-Axin-1-beta-catenin complex|Axin-APC-beta-catenin-GSK3B complex|beta-catenin destruction complex|centrosome|cytosol|kinetochore|lamellipodium|lateral plasma membrane|nucleus|ruffle membrane|tight junction	beta-catenin binding|gamma-catenin binding|microtubule plus-end binding|protein kinase binding|protein kinase regulator activity	p.E1345*(3)|p.S1335fs*70(1)|p.K1192fs*3(1)|p.?(1)		large_intestine(2012)|stomach(123)|soft_tissue(55)|small_intestine(34)|pancreas(25)|breast(23)|urinary_tract(20)|lung(18)|thyroid(18)|liver(13)|central_nervous_system(10)|ovary(9)|upper_aerodigestive_tract(6)|adrenal_gland(6)|NS(5)|bone(5)|skin(4)|prostate(4)|endometrium(3)|kidney(1)|oesophagus(1)|biliary_tract(1)	2396		all_cancers(142;3.01e-27)|all_epithelial(76;2.3e-18)|all_hematologic(541;4.32e-09)|Ovarian(225;1.78e-06)|Lung NSC(167;0.000195)|Breast(839;0.000231)|all_lung(232;0.000247)|Colorectal(10;0.000355)|Prostate(80;0.00133)		OV - Ovarian serous cystadenocarcinoma(64;1.09e-113)|Epithelial(69;3.79e-112)|all cancers(49;1.67e-104)|BRCA - Breast invasive adenocarcinoma(61;0.00136)|COAD - Colon adenocarcinoma(37;0.00155)|Colorectal(14;0.00191)		NSCLC(107;854 1218 9699 17025 28335 47076 52975)|Esophageal Squamous(32;282 584 32991 36563 39392 49665 50115)		12		629	TSP Lung(16;0.13)			0.515625	98.469595	98.48293	33	31	KEEP	---	---	---	---	capture		Nonsense_Mutation	SNP	112175324	112175324	773	5	G	T	T	T	429	33	APC	5	2
COMMD10	51397	broad.mit.edu	37	5	115428253	115428253	+	Missense_Mutation	SNP	C	A	A			TCGA-17-Z011-01	TCGA-17-Z011-01										Phase_I	Unspecified				Illumina GAIIx	g.chr5:115428253C>A	uc003krt.1	+	c.255C>A	c.(253-255)CAC>CAA	p.H85Q		NM_016144	NP_057228	Q9Y6G5	COMDA_HUMAN	COMM domain containing 10	85							protein binding			ovary(1)	1		all_cancers(142;0.0834)|all_epithelial(76;0.00314)|Prostate(80;0.0102)|Ovarian(225;0.232)		OV - Ovarian serous cystadenocarcinoma(64;4.3e-07)|Epithelial(69;8.06e-07)|all cancers(49;4.06e-05)										0.464286	85.046411	85.108465	26	30	KEEP	---	---	---	---	capture		Missense_Mutation	SNP	115428253	115428253	3853	5	C	A	A	A	220	17	COMMD10	2	2
ACSL6	23305	broad.mit.edu	37	5	131310521	131310521	+	Nonsense_Mutation	SNP	C	T	T			TCGA-17-Z011-01	TCGA-17-Z011-01										Phase_I	Unspecified				Illumina GAIIx	g.chr5:131310521C>T	uc003kvx.1	-	c.998G>A	c.(997-999)TGG>TAG	p.W333*	ACSL6_uc003kvv.1_Non-coding_Transcript|ACSL6_uc003kvy.1_Intron|ACSL6_uc003kwb.2_Nonsense_Mutation_p.W298*|ACSL6_uc010jdo.1_Nonsense_Mutation_p.W308*|ACSL6_uc003kvz.1_Intron|ACSL6_uc003kwa.1_Intron|ACSL6_uc003kvw.1_5'Flank|ACSL6_uc010jdn.1_Intron|ACSL6_uc010jdp.1_Intron	NM_015256	NP_056071	Q9UKU0	ACSL6_HUMAN	acyl-CoA synthetase long-chain family member 6	308	Cytoplasmic (Potential).				fatty acid metabolic process|long-chain fatty-acyl-CoA biosynthetic process|triglyceride biosynthetic process	endoplasmic reticulum membrane|integral to membrane|microsome|mitochondrial outer membrane|peroxisomal membrane|plasma membrane	ATP binding|long-chain fatty acid-CoA ligase activity			ovary(1)	1		all_cancers(142;0.107)|Breast(839;0.198)|Lung NSC(810;0.216)|all_lung(232;0.248)	KIRC - Kidney renal clear cell carcinoma(527;0.0186)|Kidney(363;0.0365)							264				0.333333	19.521383	20.036311	7	14	KEEP	---	---	---	---	capture		Nonsense_Mutation	SNP	131310521	131310521	182	5	C	T	T	T	273	21	ACSL6	5	2
IRX4	50805	broad.mit.edu	37	5	1879616	1879616	+	Splice_Site_SNP	SNP	A	T	T			TCGA-17-Z011-01	TCGA-17-Z011-01										Phase_I	Unspecified				Illumina GAIIx	g.chr5:1879616A>T	uc003jcz.2	-	c.736_splice	c.e4+1	p.E246_splice	IRX4_uc011cmf.1_Splice_Site_SNP_p.E107_splice	NM_016358	NP_057442			iroquois homeobox 4						heart development|regulation of transcription, DNA-dependent	nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|transcription regulator activity				0				GBM - Glioblastoma multiforme(108;0.242)										0.3	7.621538	7.978704	3	7	KEEP	---	---	---	---	capture		Splice_Site_SNP	SNP	1879616	1879616	8150	5	A	T	T	T	78	6	IRX4	5	3
DAB2	1601	broad.mit.edu	37	5	39382954	39382954	+	Silent	SNP	C	A	A			TCGA-17-Z011-01	TCGA-17-Z011-01										Phase_I	Unspecified				Illumina GAIIx	g.chr5:39382954C>A	uc003jlx.2	-	c.1107G>T	c.(1105-1107)TCG>TCT	p.S369S	DAB2_uc003jlw.2_Silent_p.S348S	NM_001343	NP_001334	P98082	DAB2_HUMAN	disabled homolog 2	369					cell proliferation|negative regulation of canonical Wnt receptor signaling pathway|negative regulation of protein binding|negative regulation of transcription, DNA-dependent|positive regulation of proteasomal ubiquitin-dependent protein catabolic process|positive regulation of protein phosphorylation|positive regulation of transcription, DNA-dependent|positive regulation of Wnt receptor signaling pathway, planar cell polarity pathway	clathrin coated vesicle membrane|coated pit	protein C-terminus binding			kidney(2)|skin(1)	3	all_lung(31;0.000197)		Epithelial(62;0.137)											0.333333	95.002314	97.51849	34	68	KEEP	---	---	---	---	capture		Silent	SNP	39382954	39382954	4384	5	C	A	A	A	340	27	DAB2	1	1
HCN1	348980	broad.mit.edu	37	5	45262664	45262664	+	Silent	SNP	G	A	A			TCGA-17-Z011-01	TCGA-17-Z011-01										Phase_I	Unspecified				Illumina GAIIx	g.chr5:45262664G>A	uc003jok.2	-	c.2032C>T	c.(2032-2034)CTG>TTG	p.L678L		NM_021072	NP_066550	O60741	HCN1_HUMAN	hyperpolarization activated cyclic	678	Cytoplasmic (Potential).					integral to membrane	cAMP binding|sodium channel activity|voltage-gated potassium channel activity			ovary(1)	1														0.34375	32.914598	33.60502	11	21	KEEP	---	---	---	---	capture		Silent	SNP	45262664	45262664	7278	5	G	A	A	A	451	35	HCN1	2	2
SEMA5A	9037	broad.mit.edu	37	5	9052051	9052051	+	Missense_Mutation	SNP	C	A	A			TCGA-17-Z011-01	TCGA-17-Z011-01										Phase_I	Unspecified				Illumina GAIIx	g.chr5:9052051C>A	uc003jek.2	-	c.2779G>T	c.(2779-2781)GGC>TGC	p.G927C		NM_003966	NP_003957	Q13591	SEM5A_HUMAN	semaphorin 5A precursor	927	Extracellular (Potential).|TSP type-1 7.				cell adhesion|cell-cell signaling	integral to membrane|plasma membrane				ovary(1)|central_nervous_system(1)	2														0.272727	14.139133	15.164375	6	16	KEEP	---	---	---	---	capture		Missense_Mutation	SNP	9052051	9052051	14523	5	C	A	A	A	286	22	SEMA5A	2	2
CENPW	387103	broad.mit.edu	37	6	126661425	126661425	+	Silent	SNP	G	T	T			TCGA-17-Z011-01	TCGA-17-Z011-01										Phase_I	Unspecified				Illumina GAIIx	g.chr6:126661425G>T	uc003qao.2	+	c.6G>T	c.(4-6)GCG>GCT	p.A2A	CENPW_uc003qap.3_Non-coding_Transcript	NM_001012507	NP_001012525	Q5EE01	CENPW_HUMAN	hypothetical protein LOC387103	2						chromosome, centromeric region|nucleus	DNA binding				0														0.349057	95.549122	97.676792	37	69	KEEP	---	---	---	---	capture		Silent	SNP	126661425	126661425	3377	6	G	T	T	T	483	38	CENPW	1	1
NMBR	4829	broad.mit.edu	37	6	142399730	142399730	+	Missense_Mutation	SNP	T	G	G			TCGA-17-Z011-01	TCGA-17-Z011-01										Phase_I	Unspecified				Illumina GAIIx	g.chr6:142399730T>G	uc003qiu.2	-	c.733A>C	c.(733-735)AAT>CAT	p.N245H		NM_002511	NP_002502	P28336	NMBR_HUMAN	neuromedin B receptor	245	Cytoplasmic (Potential).				activation of phospholipase C activity by G-protein coupled receptor protein signaling pathway coupled to IP3 second messenger	cytoplasm|integral to plasma membrane	bombesin receptor activity			central_nervous_system(3)	3	Breast(32;0.155)			OV - Ovarian serous cystadenocarcinoma(155;9.93e-06)|GBM - Glioblastoma multiforme(68;0.0013)										0.5	62.945627	62.945627	18	18	KEEP	---	---	---	---	capture		Missense_Mutation	SNP	142399730	142399730	10890	6	T	G	G	G	819	63	NMBR	4	4
TEAD3	7005	broad.mit.edu	37	6	35444189	35444189	+	Missense_Mutation	SNP	G	A	A			TCGA-17-Z011-01	TCGA-17-Z011-01										Phase_I	Unspecified				Illumina GAIIx	g.chr6:35444189G>A	uc003oku.3	-	c.616C>T	c.(616-618)CCC>TCC	p.P206S	TEAD3_uc003okt.2_Missense_Mutation_p.P95S|TEAD3_uc010jvx.2_Missense_Mutation_p.P146S	NM_003214	NP_003205	Q99594	TEAD3_HUMAN	TEA domain family member 3	206	Pro-rich.|Transcriptional activation (Potential).				female pregnancy|hippo signaling cascade		DNA binding|protein binding|RNA polymerase II transcription factor activity|sequence-specific DNA binding transcription factor activity			ovary(1)	1														0.651515	134.879319	136.200868	43	23	KEEP	---	---	---	---	capture		Missense_Mutation	SNP	35444189	35444189	16267	6	G	A	A	A	559	43	TEAD3	2	2
MCM3	4172	broad.mit.edu	37	6	52132735	52132735	+	Missense_Mutation	SNP	C	A	A			TCGA-17-Z011-01	TCGA-17-Z011-01										Phase_I	Unspecified				Illumina GAIIx	g.chr6:52132735C>A	uc003pan.1	-	c.2000G>T	c.(1999-2001)CGA>CTA	p.R667L	MCM3_uc011dwu.1_Missense_Mutation_p.R621L	NM_002388	NP_002379	P25205	MCM3_HUMAN	minichromosome maintenance complex component 3	667					cell cycle checkpoint|DNA strand elongation involved in DNA replication|DNA-dependent DNA replication initiation|G1/S transition of mitotic cell cycle|M/G1 transition of mitotic cell cycle|S phase of mitotic cell cycle	alpha DNA polymerase:primase complex|centrosome|MCM complex|perinuclear region of cytoplasm	ATP binding|DNA binding|helicase activity|protein binding			ovary(1)|lung(1)|skin(1)	3	Lung NSC(77;0.0931)													0.75	68.186225	69.775817	21	7	KEEP	---	---	---	---	capture		Missense_Mutation	SNP	52132735	52132735	9776	6	C	A	A	A	403	31	MCM3	1	1
ACTL6B	51412	broad.mit.edu	37	7	100253210	100253210	+	Splice_Site_SNP	SNP	C	A	A			TCGA-17-Z011-01	TCGA-17-Z011-01										Phase_I	Unspecified				Illumina GAIIx	g.chr7:100253210C>A	uc003uvy.2	-	c.103_splice	c.e3-1	p.A35_splice	ACTL6B_uc003uvz.2_Splice_Site_SNP	NM_016188	NP_057272			actin-like 6B						chromatin modification|nervous system development|regulation of transcription, DNA-dependent|transcription, DNA-dependent	nBAF complex|SWI/SNF complex	ATP binding|protein binding|structural constituent of cytoskeleton			ovary(1)	1	Lung NSC(181;0.035)|all_lung(186;0.0509)|Esophageal squamous(72;0.0817)													0.2	10.059306	12.153713	5	20	KEEP	---	---	---	---	capture		Splice_Site_SNP	SNP	100253210	100253210	200	7	C	A	A	A	312	24	ACTL6B	5	2
NAPEPLD	222236	broad.mit.edu	37	7	102760088	102760088	+	Missense_Mutation	SNP	C	T	T			TCGA-17-Z011-01	TCGA-17-Z011-01										Phase_I	Unspecified				Illumina GAIIx	g.chr7:102760088C>T	uc011klj.1	-	c.1096G>A	c.(1096-1098)GAG>AAG	p.E366K	NAPEPLD_uc003vbc.2_Missense_Mutation_p.E293K|NAPEPLD_uc003vbd.2_Missense_Mutation_p.E293K|NAPEPLD_uc003vbe.2_Non-coding_Transcript	NM_198990	NP_945341	Q6IQ20	NAPEP_HUMAN	N-acyl phosphatidylethanolamine phospholipase D	293					phospholipid catabolic process	membrane	metal ion binding				0														0.113636	10.884253	23.845881	10	78	KEEP	---	---	---	---	capture		Missense_Mutation	SNP	102760088	102760088	10559	7	C	T	T	T	416	32	NAPEPLD	2	2
POM121L12	285877	broad.mit.edu	37	7	53104222	53104222	+	Missense_Mutation	SNP	G	T	T			TCGA-17-Z011-01	TCGA-17-Z011-01										Phase_I	Unspecified				Illumina GAIIx	g.chr7:53104222G>T	uc003tpz.2	+	c.858G>T	c.(856-858)GAG>GAT	p.E286D		NM_182595	NP_872401	Q8N7R1	P1L12_HUMAN	POM121 membrane glycoprotein-like 12	286											0														0.484375	95.62097	95.63459	31	33	KEEP	---	---	---	---	capture		Missense_Mutation	SNP	53104222	53104222	12669	7	G	T	T	T	451	35	POM121L12	2	2
CSMD3	114788	broad.mit.edu	37	8	113518959	113518959	+	Missense_Mutation	SNP	G	C	C			TCGA-17-Z011-01	TCGA-17-Z011-01										Phase_I	Unspecified				Illumina GAIIx	g.chr8:113518959G>C	uc003ynu.2	-	c.4856C>G	c.(4855-4857)ACC>AGC	p.T1619S	CSMD3_uc003yns.2_Missense_Mutation_p.T891S|CSMD3_uc003ynt.2_Missense_Mutation_p.T1579S|CSMD3_uc011lhx.1_Missense_Mutation_p.T1515S	NM_198123	NP_937756	Q7Z407	CSMD3_HUMAN	CUB and Sushi multiple domains 3 isoform 1	1619	Extracellular (Potential).|CUB 9.					integral to membrane|plasma membrane				ovary(20)|lung(11)|kidney(8)|large_intestine(6)|skin(3)|central_nervous_system(2)|urinary_tract(1)|breast(1)	52										2888	TCGA Ovarian(7;0.080)			0.284768	130.905706	137.158362	43	108	KEEP	---	---	---	---	capture		Missense_Mutation	SNP	113518959	113518959	4087	8	G	C	C	C	572	44	CSMD3	3	3
DLC1	10395	broad.mit.edu	37	8	12952701	12952701	+	Missense_Mutation	SNP	C	T	T			TCGA-17-Z011-01	TCGA-17-Z011-01										Phase_I	Unspecified				Illumina GAIIx	g.chr8:12952701C>T	uc003wwm.2	-	c.3221G>A	c.(3220-3222)AGT>AAT	p.S1074N	DLC1_uc003wwk.1_Missense_Mutation_p.S637N|DLC1_uc003wwl.1_Missense_Mutation_p.S671N|DLC1_uc011kxx.1_Missense_Mutation_p.S563N	NM_182643	NP_872584	Q96QB1	RHG07_HUMAN	deleted in liver cancer 1 isoform 1	1074					actin cytoskeleton organization|activation of caspase activity|focal adhesion assembly|forebrain development|heart morphogenesis|hindbrain morphogenesis|induction of apoptosis|negative regulation of cell migration|negative regulation of cell proliferation|negative regulation of Rho protein signal transduction|negative regulation of stress fiber assembly|neural tube closure|positive regulation of protein dephosphorylation|regulation of cell shape|small GTPase mediated signal transduction	caveola|cytosol|focal adhesion|nucleus	Rho GTPase activator activity|SH2 domain binding			ovary(3)|pancreas(2)|lung(1)|kidney(1)	7										739				0.357143	87.123817	88.634937	30	54	KEEP	---	---	---	---	capture		Missense_Mutation	SNP	12952701	12952701	4730	8	C	T	T	T	260	20	DLC1	2	2
PLEC	5339	broad.mit.edu	37	8	144993686	144993686	+	Missense_Mutation	SNP	C	T	T			TCGA-17-Z011-01	TCGA-17-Z011-01										Phase_I	Unspecified				Illumina GAIIx	g.chr8:144993686C>T	uc003zaf.1	-	c.10714G>A	c.(10714-10716)GGC>AGC	p.G3572S	PLEC_uc003zab.1_Missense_Mutation_p.G3435S|PLEC_uc003zac.1_Missense_Mutation_p.G3439S|PLEC_uc003zad.2_Missense_Mutation_p.G3435S|PLEC_uc003zae.1_Missense_Mutation_p.G3403S|PLEC_uc003zag.1_Missense_Mutation_p.G3413S|PLEC_uc003zah.2_Missense_Mutation_p.G3421S|PLEC_uc003zaj.2_Missense_Mutation_p.G3462S	NM_201380	NP_958782	Q15149	PLEC_HUMAN	plectin isoform 1	3572	Plectin 14.|Globular 2.				cellular component disassembly involved in apoptosis|hemidesmosome assembly	cytosol|focal adhesion|intermediate filament cytoskeleton|sarcolemma	actin binding|structural constituent of muscle|structural constituent of muscle			large_intestine(2)|ovary(2)|pancreas(2)|central_nervous_system(1)	7														0.32	23.396988	24.113574	8	17	KEEP	---	---	---	---	capture		Missense_Mutation	SNP	144993686	144993686	12478	8	C	T	T	T	299	23	PLEC	1	1
CSGALNACT1	55790	broad.mit.edu	37	8	19362892	19362892	+	Missense_Mutation	SNP	T	C	C			TCGA-17-Z011-01	TCGA-17-Z011-01										Phase_I	Unspecified				Illumina GAIIx	g.chr8:19362892T>C	uc011kyn.1	-	c.454A>G	c.(454-456)ACT>GCT	p.T152A	CSGALNACT1_uc011kyo.1_Missense_Mutation_p.T152A|CSGALNACT1_uc003wzg.2_Non-coding_Transcript|CSGALNACT1_uc011kyp.1_Missense_Mutation_p.T151A|CSGALNACT1_uc003wzh.2_Non-coding_Transcript	NM_001130518	NP_001123990	Q8TDX6	CGAT1_HUMAN	chondroitin sulfate	152	Lumenal (Potential).				anatomical structure morphogenesis|cell proliferation|cell recognition|chondroitin sulfate biosynthetic process|chondroitin sulfate proteoglycan biosynthetic process, polysaccharide chain biosynthetic process|dermatan sulfate proteoglycan biosynthetic process|extracellular matrix organization|heparan sulfate proteoglycan biosynthetic process, polysaccharide chain biosynthetic process|heparin biosynthetic process|nervous system development|UDP-glucuronate metabolic process|UDP-N-acetylgalactosamine metabolic process	Golgi cisterna membrane|integral to Golgi membrane|soluble fraction	glucuronosyl-N-acetylgalactosaminyl-proteoglycan 4-beta-N-acetylgalactosaminyltransferase activity|glucuronosyltransferase activity|glucuronylgalactosylproteoglycan 4-beta-N-acetylgalactosaminyltransferase activity|metal ion binding|peptidoglycan glycosyltransferase activity			central_nervous_system(2)|ovary(1)	3				Colorectal(111;0.182)										0.365854	95.537007	96.830978	30	52	KEEP	---	---	---	---	capture		Missense_Mutation	SNP	19362892	19362892	4079	8	T	C	C	C	741	57	CSGALNACT1	4	4
GGH	8836	broad.mit.edu	37	8	63948311	63948311	+	Missense_Mutation	SNP	C	T	T			TCGA-17-Z011-01	TCGA-17-Z011-01										Phase_I	Unspecified				Illumina GAIIx	g.chr8:63948311C>T	uc003xuw.2	-	c.128G>A	c.(127-129)TGC>TAC	p.C43Y		NM_003878	NP_003869	Q92820	GGH_HUMAN	gamma-glutamyl hydrolase precursor	43	Gamma-glutamyl hydrolase.				glutamine metabolic process	extracellular space|lysosome|melanosome	gamma-glutamyl-peptidase activity				0	Breast(64;0.0716)	all_cancers(86;0.189)|Lung NSC(129;0.0324)|all_lung(136;0.0593)|all_epithelial(80;0.131)			Folic Acid(DB00158)|L-Glutamic Acid(DB00142)									0.297619	64.140489	67.217616	25	59	KEEP	---	---	---	---	capture		Missense_Mutation	SNP	63948311	63948311	6625	8	C	T	T	T	325	25	GGH	2	2
FAM164A	51101	broad.mit.edu	37	8	79609710	79609710	+	Silent	SNP	G	A	A			TCGA-17-Z011-01	TCGA-17-Z011-01										Phase_I	Unspecified				Illumina GAIIx	g.chr8:79609710G>A	uc003ybd.2	+	c.573G>A	c.(571-573)CCG>CCA	p.P191P		NM_016010	NP_057094	Q96GY0	F164A_HUMAN	hypothetical protein LOC51101	191										ovary(1)	1														0.306122	82.44251	85.711467	30	68	KEEP	---	---	---	---	capture		Silent	SNP	79609710	79609710	5682	8	G	A	A	A	483	38	FAM164A	1	1
KCNS2	3788	broad.mit.edu	37	8	99440881	99440881	+	Missense_Mutation	SNP	C	T	T			TCGA-17-Z011-01	TCGA-17-Z011-01										Phase_I	Unspecified				Illumina GAIIx	g.chr8:99440881C>T	uc003yin.2	+	c.674C>T	c.(673-675)CCT>CTT	p.P225L		NM_020697	NP_065748	Q9ULS6	KCNS2_HUMAN	potassium voltage-gated channel,	225	Extracellular (Potential).					voltage-gated potassium channel complex	voltage-gated potassium channel activity			ovary(1)	1	Breast(36;2.4e-06)		OV - Ovarian serous cystadenocarcinoma(57;0.0448)			Pancreas(138;844 2489 9202 24627)								0.2375	52.390302	57.422574	19	61	KEEP	---	---	---	---	capture		Missense_Mutation	SNP	99440881	99440881	8394	8	C	T	T	T	312	24	KCNS2	2	2
MPDZ	8777	broad.mit.edu	37	9	13126768	13126768	+	Missense_Mutation	SNP	G	T	T			TCGA-17-Z011-01	TCGA-17-Z011-01										Phase_I	Unspecified				Illumina GAIIx	g.chr9:13126768G>T	uc010mhy.2	-	c.4468C>A	c.(4468-4470)CAG>AAG	p.Q1490K	MPDZ_uc003zky.3_Missense_Mutation_p.Q52K|MPDZ_uc010mib.2_Missense_Mutation_p.Q195K|MPDZ_uc010mhx.2_Missense_Mutation_p.Q312K|MPDZ_uc011lmm.1_Missense_Mutation_p.Q349K|MPDZ_uc003zkz.3_Missense_Mutation_p.Q183K|MPDZ_uc010mhz.2_Missense_Mutation_p.Q1457K|MPDZ_uc011lmn.1_Missense_Mutation_p.Q1457K|MPDZ_uc003zlb.3_Missense_Mutation_p.Q1490K|MPDZ_uc010mia.1_Missense_Mutation_p.Q1490K	NM_003829	NP_003820	O75970	MPDZ_HUMAN	multiple PDZ domain protein	1490	PDZ 9.				interspecies interaction between organisms	apical plasma membrane|dendrite|postsynaptic density|postsynaptic membrane|synaptosome|tight junction	protein C-terminus binding			ovary(5)|central_nervous_system(1)	6				GBM - Glioblastoma multiforme(50;2.03e-06)										0.43299	120.829744	121.21042	42	55	KEEP	---	---	---	---	capture		Missense_Mutation	SNP	13126768	13126768	10114	9	G	T	T	T	585	45	MPDZ	2	2
TOR1A	1861	broad.mit.edu	37	9	132585000	132585000	+	Missense_Mutation	SNP	C	A	A			TCGA-17-Z011-01	TCGA-17-Z011-01										Phase_I	Unspecified				Illumina GAIIx	g.chr9:132585000C>A	uc004byl.2	-	c.304G>T	c.(304-306)GGG>TGG	p.G102W	TOR1A_uc004bym.2_Non-coding_Transcript|TOR1A_uc004byn.2_Missense_Mutation_p.G102W	NM_000113	NP_000104	O14656	TOR1A_HUMAN	torsin A precursor	102	ATP.				chaperone mediated protein folding requiring cofactor|response to unfolded protein	endoplasmic reticulum lumen|nuclear membrane	ATP binding|serine-type endopeptidase activity|unfolded protein binding			central_nervous_system(1)	1		Ovarian(14;0.00556)												0.4	76.193648	76.716579	24	36	KEEP	---	---	---	---	capture		Missense_Mutation	SNP	132585000	132585000	16913	9	C	A	A	A	299	23	TOR1A	1	1
RANBP6	26953	broad.mit.edu	37	9	6013939	6013939	+	Nonsense_Mutation	SNP	C	A	A			TCGA-17-Z011-01	TCGA-17-Z011-01										Phase_I	Unspecified				Illumina GAIIx	g.chr9:6013939C>A	uc003zjr.2	-	c.1669G>T	c.(1669-1671)GAA>TAA	p.E557*	RANBP6_uc011lmf.1_Nonsense_Mutation_p.E205*|RANBP6_uc003zjs.2_Nonsense_Mutation_p.E145*	NM_012416	NP_036548	O60518	RNBP6_HUMAN	RAN binding protein 6	557					protein transport	cytoplasm|nucleus	binding			ovary(3)	3		Acute lymphoblastic leukemia(23;0.158)		GBM - Glioblastoma multiforme(50;0.00522)|Lung(218;0.101)										0.409091	50.738977	51.057372	18	26	KEEP	---	---	---	---	capture		Nonsense_Mutation	SNP	6013939	6013939	13491	9	C	A	A	A	390	30	RANBP6	5	2
AGTPBP1	23287	broad.mit.edu	37	9	88247825	88247825	+	Silent	SNP	T	C	C			TCGA-17-Z011-01	TCGA-17-Z011-01										Phase_I	Unspecified				Illumina GAIIx	g.chr9:88247825T>C	uc011lte.1	-	c.1803A>G	c.(1801-1803)CTA>CTG	p.L601L	AGTPBP1_uc004aod.3_Silent_p.L215L|AGTPBP1_uc011ltc.1_Silent_p.L487L|AGTPBP1_uc011ltd.1_Silent_p.L589L|AGTPBP1_uc010mqc.2_Silent_p.L549L	NM_015239	NP_056054	Q9UPW5	CBPC1_HUMAN	ATP/GTP binding protein 1	589					C-terminal protein deglutamylation|cerebellar Purkinje cell differentiation|eye photoreceptor cell differentiation|mitochondrion organization|neuromuscular process|olfactory bulb development|protein side chain deglutamylation|proteolysis	cytosol|mitochondrion|nucleus	metallocarboxypeptidase activity|tubulin binding|zinc ion binding			ovary(4)|large_intestine(2)	6														0.368421	46.557423	47.128626	14	24	KEEP	---	---	---	---	capture		Silent	SNP	88247825	88247825	403	9	T	C	C	C	678	53	AGTPBP1	4	4
BTK	695	broad.mit.edu	37	X	100609683	100609683	+	Splice_Site_SNP	SNP	C	A	A			TCGA-17-Z011-01	TCGA-17-Z011-01										Phase_I	Unspecified				Illumina GAIIx	g.chrX:100609683C>A	uc010nno.2	-	c.1669_splice	c.e16-1	p.A557_splice	BTK_uc004ehf.2_Splice_Site_SNP_p.A23_splice|BTK_uc010nnh.2_Intron|BTK_uc010nni.2_Intron|BTK_uc004ehe.2_Splice_Site_SNP|BTK_uc010nnj.2_Intron|BTK_uc010nnk.2_Intron|BTK_uc010nnl.2_Intron|BTK_uc010nnm.2_Splice_Site_SNP_p.A93_splice|BTK_uc004ehg.2_Splice_Site_SNP_p.A523_splice|BTK_uc010nnn.2_Splice_Site_SNP_p.A347_splice|BTK_uc004ehh.1_Splice_Site_SNP	NM_000061	NP_000052			Bruton agammaglobulinemia tyrosine kinase						calcium-mediated signaling|induction of apoptosis by extracellular signals|mesoderm development	cytosol|membrane raft|nucleus|plasma membrane	ATP binding|identical protein binding|metal ion binding|non-membrane spanning protein tyrosine kinase activity|phosphatidylinositol-3,4,5-trisphosphate binding			central_nervous_system(2)|ovary(1)|lung(1)	4										247				0.693878	219.526804	222.808276	68	30	KEEP	---	---	---	---	capture		Splice_Site_SNP	SNP	100609683	100609683	1591	23	C	A	A	A	312	24	BTK	5	2
XG	7499	broad.mit.edu	37	X	2712625	2712625	+	Silent	SNP	C	A	A			TCGA-17-Z011-01	TCGA-17-Z011-01										Phase_I	Unspecified				Illumina GAIIx	g.chrX:2712625C>A	uc004cqp.2	+	c.303C>A	c.(301-303)CCC>CCA	p.P101P	XG_uc011mhg.1_Silent_p.P101P	NM_001141919	NP_001135391	P55808	XG_HUMAN	XG glycoprotein isoform 2 precursor	101	Extracellular (Potential).					integral to membrane				ovary(1)	1		all_cancers(21;9e-05)|all_epithelial(21;6.22e-06)|all_lung(23;0.000597)|Lung NSC(23;0.00901)|Lung SC(21;0.186)												0.6875	35.129553	35.629863	11	5	KEEP	---	---	---	---	capture		Silent	SNP	2712625	2712625	18008	23	C	A	A	A	262	21	XG	2	2
STS	412	broad.mit.edu	37	X	7177623	7177623	+	Missense_Mutation	SNP	G	T	T			TCGA-17-Z011-01	TCGA-17-Z011-01										Phase_I	Unspecified				Illumina GAIIx	g.chrX:7177623G>T	uc004cry.3	+	c.631G>T	c.(631-633)GTG>TTG	p.V211L		NM_000351	NP_000342	P08842	STS_HUMAN	steryl-sulfatase precursor	211	Cytoplasmic.				female pregnancy|steroid catabolic process	endoplasmic reticulum membrane|endosome|Golgi apparatus|integral to membrane|lysosome|microsome|plasma membrane	metal ion binding|steryl-sulfatase activity			central_nervous_system(1)	1		Colorectal(8;0.0136)|Medulloblastoma(8;0.184)			Estrone(DB00655)									0.515625	105.978701	105.992667	33	31	KEEP	---	---	---	---	capture		Missense_Mutation	SNP	7177623	7177623	15852	23	G	T	T	T	520	40	STS	1	1
SEPHS1	22929	broad.mit.edu	37	10	13371759	13371762	+	Frame_Shift_Del	DEL	AGCA	-	-			TCGA-17-Z011-01	TCGA-17-Z011-01										Phase_I	Unspecified				Illumina GAIIx	g.chr10:13371759_13371762delAGCA	uc001imk.2	-	c.587_590delTGCT	c.(586-591)GTGCTGfs	p.V196fs	SEPHS1_uc001imh.2_Frame_Shift_Del_p.V120fs|SEPHS1_uc010qbs.1_Frame_Shift_Del_p.V148fs|SEPHS1_uc001imi.2_Frame_Shift_Del_p.V196fs|SEPHS1_uc001imj.2_Frame_Shift_Del_p.V196fs|SEPHS1_uc010qbt.1_Frame_Shift_Del_p.V129fs|SEPHS1_uc009xje.2_Frame_Shift_Del_p.V196fs	NM_012247	NP_036379	P49903	SPS1_HUMAN	selenophosphate synthetase 1	196_197					protein modification process		ATP binding|GTP binding|selenide, water dikinase activity				0														0.33			4	8		---	---	---	---	capture_indel		Frame_Shift_Del	DEL	13371759	13371762	14540	10	AGCA	-	-	-	91	7	SEPHS1	5	5
TCEB3C	162699	broad.mit.edu	37	18	44549025	44549026	+	Frame_Shift_Ins	INS	-	GC	GC			TCGA-17-Z011-01	TCGA-17-Z011-01										Phase_I	Unspecified				Illumina GAIIx	g.chr18:44549025_44549026insGC	uc010dnr.2	-	c.1273_1274insGC	c.(1273-1275)CAGfs	p.Q425fs	KATNAL2_uc010dnq.1_Intron|KATNAL2_uc002lco.2_Intron|KATNAL2_uc002lcp.3_Intron	NM_001100817	NP_001094287	Q8NG57	ELOA3_HUMAN	transcription elongation factor B polypeptide	425	Activation domain (By similarity).				regulation of transcription, DNA-dependent|transcription, DNA-dependent	integral to membrane|nucleus	DNA binding|transcription regulator activity				0														0.57			4	3		---	---	---	---	capture_indel		Frame_Shift_Ins	INS	44549025	44549026	16209	18	-	GC	GC	GC	715	55	TCEB3C	5	5
PIAS4	51588	broad.mit.edu	37	19	4028742	4028742	+	Frame_Shift_Del	DEL	G	-	-			TCGA-17-Z011-01	TCGA-17-Z011-01										Phase_I	Unspecified				Illumina GAIIx	g.chr19:4028742_4028742delG	uc002lzg.2	+	c.697_697delG	c.(697-699)GGGfs	p.G233fs		NM_015897	NP_056981	Q8N2W9	PIAS4_HUMAN	protein inhibitor of activated STAT, 4	233	PINIT.				positive regulation of protein sumoylation|transcription, DNA-dependent|Wnt receptor signaling pathway	cytoplasm|PML body	DNA binding|SUMO ligase activity|transcription repressor activity|ubiquitin protein ligase binding|zinc ion binding			pancreas(1)	1				UCEC - Uterine corpus endometrioid carcinoma (162;6.64e-05)|BRCA - Breast invasive adenocarcinoma(158;0.00461)|STAD - Stomach adenocarcinoma(1328;0.18)										0.33			2	4		---	---	---	---	capture_indel		Frame_Shift_Del	DEL	4028742	4028742	12302	19	G	-	-	-	507	39	PIAS4	5	5
BBC3	27113	broad.mit.edu	37	19	47725018	47725019	+	Frame_Shift_Ins	INS	-	C	C			TCGA-17-Z011-01	TCGA-17-Z011-01										Phase_I	Unspecified				Illumina GAIIx	g.chr19:47725018_47725019insC	uc010xyl.1	-	c.725_726insG	c.(724-726)GGCfs	p.G242fs	BBC3_uc002pgf.3_3'UTR|BBC3_uc010eky.2_3'UTR|BBC3_uc010ekz.2_Frame_Shift_Ins_p.G82fs	NM_001127240	NP_001120712	Q9BXH1	BBC3_HUMAN	BCL2 binding component 3 isoform 1	Error:Variant_position_missing_in_Q9BXH1_after_alignment					activation of caspase activity|activation of pro-apoptotic gene products|cellular response to hypoxia|determination of adult lifespan|DNA damage response, signal transduction by p53 class mediator resulting in induction of apoptosis|negative regulation of growth|positive regulation of protein homooligomerization|positive regulation of release of cytochrome c from mitochondria|positive regulation of thymocyte apoptosis|protein insertion into mitochondrial membrane involved in induction of apoptosis|reduction of endoplasmic reticulum calcium ion concentration|release of cytochrome c from mitochondria|release of sequestered calcium ion into cytosol	cytosol|mitochondrial outer membrane	protein binding|protein binding				0		all_cancers(25;1.13e-05)|all_lung(116;0.000192)|all_epithelial(76;0.000274)|Lung NSC(112;0.000446)|all_neural(266;0.0652)|Ovarian(192;0.15)		all cancers(93;0.000179)|OV - Ovarian serous cystadenocarcinoma(262;0.00029)|Epithelial(262;0.0103)|GBM - Glioblastoma multiforme(486;0.0234)										0.38			3	5		---	---	---	---	capture_indel		Frame_Shift_Ins	INS	47725018	47725019	1354	19	-	C	C	C	587	46	BBC3	5	5
RGS12	6002	broad.mit.edu	37	4	3424168	3424168	+	Frame_Shift_Del	DEL	C	-	-			TCGA-17-Z011-01	TCGA-17-Z011-01										Phase_I	Unspecified				Illumina GAIIx	g.chr4:3424168_3424168delC	uc003ggw.2	+	c.2904_2904delC	c.(2902-2904)CTCfs	p.L968fs	RGS12_uc003ggv.2_Frame_Shift_Del_p.L968fs|RGS12_uc003ggy.1_Frame_Shift_Del_p.L366fs|RGS12_uc003ggz.2_Frame_Shift_Del_p.L320fs|RGS12_uc010icu.1_Frame_Shift_Del_p.L167fs|RGS12_uc011bvs.1_Frame_Shift_Del_p.L310fs|RGS12_uc003gha.2_Frame_Shift_Del_p.L310fs|RGS12_uc010icv.2_Frame_Shift_Del_p.L167fs|RGS12_uc003ghb.2_Frame_Shift_Del_p.L167fs	NM_198229	NP_937872	O14924	RGS12_HUMAN	regulator of G-protein signalling 12 isoform 1	968	RBD 1.					condensed nuclear chromosome|cytoplasm|plasma membrane	GTPase activator activity|receptor signaling protein activity			skin(1)	1				UCEC - Uterine corpus endometrioid carcinoma (64;0.168)										0.33			2	4		---	---	---	---	capture_indel		Frame_Shift_Del	DEL	3424168	3424168	13769	4	C	-	-	-	379	30	RGS12	5	5
PRIM2	5558	broad.mit.edu	37	6	57512930	57512931	+	Splice_Site_Ins	INS	-	GT	GT			TCGA-17-Z011-01	TCGA-17-Z011-01										Phase_I	Unspecified				Illumina GAIIx	g.chr6:57512930_57512931insGT	uc003pdx.2	+	c.1767_splice	c.e17+1			NM_000947	NP_000938			DNA primase polypeptide 2						DNA replication, synthesis of RNA primer|DNA strand elongation involved in DNA replication|DNA-dependent DNA replication initiation|G1/S transition of mitotic cell cycle|M/G1 transition of mitotic cell cycle|S phase of mitotic cell cycle|telomere maintenance via recombination|telomere maintenance via semi-conservative replication	alpha DNA polymerase:primase complex|nucleoplasm	4 iron, 4 sulfur cluster binding|DNA binding|DNA primase activity|metal ion binding				0				Colorectal(6;0.041)|READ - Rectum adenocarcinoma(7;0.193)										0.33			4	8		---	---	---	---	capture_indel		Splice_Site_Ins	INS	57512930	57512931	12934	6	-	GT	GT	GT	443	35	PRIM2	5	5
