Hugo_Symbol	Entrez_Gene_Id	Center	NCBI_Build	Chromosome	Start_position	End_position	Strand	Variant_Classification	Variant_Type	Reference_Allele	Tumor_Seq_Allele1	Tumor_Seq_Allele2	dbSNP_RS	dbSNP_Val_Status	Tumor_Sample_Barcode	Matched_Norm_Sample_Barcode	Match_Norm_Seq_Allele1	Match_Norm_Seq_Allele2	Tumor_Validation_Allele1	Tumor_Validation_Allele2	Match_Norm_Validation_Allele1	Match_Norm_Validation_Allele2	Verification_Status	Validation_Status	Mutation_Status	Sequencing_Phase	Sequence_Source	Validation_Method	Score	BAM_file	Sequencer	Genome_Change	Annotation_Transcript	Transcript_Strand	cDNA_Change	Codon_Change	Protein_Change	Other_Transcripts	Refseq_mRNA_Id	Refseq_prot_Id	SwissProt_acc_Id	SwissProt_entry_Id	Description	UniProt_AApos	UniProt_Region	UniProt_Site	UniProt_Natural_Variations	UniProt_Experimental_Info	GO_Biological_Process	GO_Cellular_Component	GO_Molecular_Function	COSMIC_overlapping_mutations	COSMIC_fusion_genes	COSMIC_tissue_types_affected	COSMIC_total_alterations_in_gene	Tumorscape_Amplification_Peaks	Tumorscape_Deletion_Peaks	i_TCGAscape_Amplification_Peaks	i_TCGAscape_Deletion_Peaks	DrugBank	i_ACHILLES_Top_Genes	i_CCLE_ONCOMAP_overlapping_mutations	i_CCLE_ONCOMAP_total_mutations_in_gene	i_CCLE_SEQ_overlapping_mutations	i_CCLE_SEQ_total_mutations_in_gene	MUTSIG_Significant_Genes	OREGANNO_ID	OREGANNO_Values	i_tumor_f	i_init_t_lod	i_t_lod_fstar	i_t_alt_count	i_t_ref_count	i_normal_best_gt	i_failure_reasons	i_judgement	validation_status	validation_method	validation_tumor_sample	validation_alt_allele	dataset	TCGAscape_Amplification_Peaks	TCGAscape_Deletion_Peaks	type	classification	start	end	gene	chr	ref_allele	tum_allele1	tum_allele2	context_orig	context65	gene_name	newbase	categ	categ_ignoring_null_categ
PTEN	5728	broad.mit.edu	36	10	89680785	89680785	+	Missense_Mutation	SNP	G	A	A			TCGA-28-2502-01	TCGA-28-2502-01	G	G								Phase_I	Unspecified				Illumina GAIIx	g.chr10:89680785G>A	uc001kfb.1	+	c.212G>A	c.(211-213)TGT>TAT	p.C71Y		NM_000314	NP_000305	P60484	PTEN_HUMAN	phosphatase and tensin homolog	71	Phosphatase tensin-type.		C -> Y (in CD; loss of phosphatase activity towards Ins(1,3,4,5)P4).		apoptosis|canonical Wnt receptor signaling pathway|cell proliferation|central nervous system development|induction of apoptosis|inositol phosphate dephosphorylation|negative regulation of cell migration|negative regulation of focal adhesion assembly|negative regulation of protein kinase B signaling cascade|negative regulation of protein phosphorylation|nerve growth factor receptor signaling pathway|phosphatidylinositol dephosphorylation|phosphatidylinositol-mediated signaling|positive regulation of sequence-specific DNA binding transcription factor activity|protein stabilization|regulation of cyclin-dependent protein kinase activity|regulation of neuron projection development|T cell receptor signaling pathway	cytosol|internal side of plasma membrane|PML body	enzyme binding|inositol-1,3,4,5-tetrakisphosphate 3-phosphatase activity|lipid binding|magnesium ion binding|PDZ domain binding|phosphatidylinositol-3,4,5-trisphosphate 3-phosphatase activity|phosphatidylinositol-3,4-bisphosphate 3-phosphatase activity|phosphatidylinositol-3-phosphatase activity|protein serine/threonine phosphatase activity|protein tyrosine phosphatase activity|protein tyrosine/serine/threonine phosphatase activity	p.L70fs*7(4)|p.C71Y(2)|p.Y27_N212>Y(2)|p.C71fs*6(1)|p.F56fs*2(1)|p.C71W(1)		endometrium(831)|central_nervous_system(654)|skin(119)|haematopoietic_and_lymphoid_tissue(101)|prostate(97)|large_intestine(90)|breast(67)|lung(63)|ovary(58)|thyroid(29)|stomach(29)|upper_aerodigestive_tract(25)|cervix(21)|liver(20)|vulva(17)|kidney(15)|NS(14)|soft_tissue(12)|urinary_tract(12)|eye(8)|pancreas(6)|salivary_gland(5)|bone(5)|biliary_tract(4)|autonomic_ganglia(2)|meninges(2)|testis(1)|oesophagus(1)	2308		all_cancers(4;3.61e-31)|all_epithelial(4;3.96e-23)|Prostate(4;8.12e-23)|Breast(4;0.000111)|Melanoma(5;0.00146)|all_hematologic(4;0.00227)|Colorectal(252;0.00494)|all_neural(4;0.00513)|Acute lymphoblastic leukemia(4;0.0116)|Glioma(4;0.0274)|all_lung(38;0.132)						31		264	TCGA GBM(2;<1E-8)|TSP Lung(26;0.18)			0.297297	56.116299	58.837808	22	52	GG		KEEP	---	---	---	---	capture	KIRC - Kidney renal clear cell carcinoma(1;0.214)	UCEC - Uterine corpus endometrioid carcinoma (6;0.000228)|all cancers(1;4.16e-84)|GBM - Glioblastoma multiforme(1;7.77e-49)|Epithelial(1;7.67e-41)|OV - Ovarian serous cystadenocarcinoma(1;6.22e-15)|BRCA - Breast invasive adenocarcinoma(1;1.1e-06)|Lung(2;3.18e-06)|Colorectal(12;4.88e-06)|LUSC - Lung squamous cell carcinoma(2;4.97e-06)|COAD - Colon adenocarcinoma(12;1.13e-05)|Kidney(1;0.000288)|KIRC - Kidney renal clear cell carcinoma(1;0.00037)|STAD - Stomach adenocarcinoma(243;0.218)	Missense_Mutation	SNP	89680785	89680785	13192	10	G	A	A	48	48	PTEN	A	2	2
MMP3	4314	broad.mit.edu	36	11	102218643	102218643	+	Missense_Mutation	SNP	G	A	A			TCGA-28-2502-01	TCGA-28-2502-01	G	G								Phase_I	Unspecified				Illumina GAIIx	g.chr11:102218643G>A	uc001phj.1	-	c.320C>T	c.(319-321)CCG>CTG	p.P107L		NM_002422	NP_002413	P08254	MMP3_HUMAN	matrix metalloproteinase 3 preproprotein	107					collagen catabolic process|proteolysis	extracellular space|proteinaceous extracellular matrix	calcium ion binding|metalloendopeptidase activity|zinc ion binding			lung(1)|kidney(1)	2		all_hematologic(158;0.00092)|Acute lymphoblastic leukemia(157;0.000967)			Marimastat(DB00786)|Simvastatin(DB00641)									0.432836	182.834132	183.360227	58	76	GG		KEEP	---	---	---	---	capture		BRCA - Breast invasive adenocarcinoma(274;0.0142)	Missense_Mutation	SNP	102218643	102218643	10057	11	G	A	A	39	39	MMP3	A	1	1
RERGL	79785	broad.mit.edu	36	12	18128745	18128745	+	Missense_Mutation	SNP	C	T	T	rs61757396	unknown	TCGA-28-2502-01	TCGA-28-2502-01	C	C								Phase_I	Unspecified				Illumina GAIIx	g.chr12:18128745C>T	uc001rdq.1	-	c.308G>A	c.(307-309)CGG>CAG	p.R103Q	RERGL_uc001rdr.1_Missense_Mutation_p.R102Q	NM_024730	NP_079006	Q9H628	RERGL_HUMAN	RERG/RAS-like	103	Small GTPase-like.				signal transduction	membrane	GTP binding|GTPase activity				0														0.120603	23.069871	51.183482	24	175	CC		KEEP	---	---	---	---	capture			Missense_Mutation	SNP	18128745	18128745	13702	12	C	T	T	23	23	RERGL	T	1	1
KDM5A	5927	broad.mit.edu	36	12	287145	287145	+	Silent	SNP	C	T	T			TCGA-28-2502-01	TCGA-28-2502-01	C	C								Phase_I	Unspecified				Illumina GAIIx	g.chr12:287145C>T	uc001qif.1	-	c.3666G>A	c.(3664-3666)AGG>AGA	p.R1222R	KDM5A_uc001qie.1_Silent_p.R1222R	NM_001042603	NP_001036068	P29375	KDM5A_HUMAN	retinoblastoma binding protein 2 isoform 1	1222					chromatin modification|multicellular organismal development|oxidation-reduction process|positive regulation of transcription, DNA-dependent|transcription from RNA polymerase II promoter	cytoplasm|nucleolus	DNA binding|oxidoreductase activity, acting on single donors with incorporation of molecular oxygen, incorporation of two atoms of oxygen|sequence-specific DNA binding transcription factor activity|transcription activator activity|zinc ion binding			skin(2)|ovary(1)	3										958				0.269841	81.787792	87.815747	34	92	CC		KEEP	---	---	---	---	capture			Silent	SNP	287145	287145	8439	12	C	T	T	26	26	KDM5A	T	2	2
GALNT8	26290	broad.mit.edu	36	12	4725006	4725006	+	Silent	SNP	A	C	C			TCGA-28-2502-01	TCGA-28-2502-01	A	A								Phase_I	Unspecified				Illumina GAIIx	g.chr12:4725006A>C	uc001qne.1	+	c.1011A>C	c.(1009-1011)GCA>GCC	p.A337A		NM_017417	NP_059113	Q9NY28	GALT8_HUMAN	polypeptide N-acetylgalactosaminyltransferase 8	337	Lumenal (Potential).		A -> V.			Golgi membrane|integral to membrane	polypeptide N-acetylgalactosaminyltransferase activity|sugar binding			ovary(1)|pancreas(1)	2						Colon(108;631 1558 7270 20097 39846)								0.172414	21.221037	27.102973	10	48	AA		KEEP	---	---	---	---	capture			Silent	SNP	4725006	4725006	6483	12	A	C	C	6	6	GALNT8	C	4	4
ZNF385A	25946	broad.mit.edu	36	12	53064574	53064574	+	Missense_Mutation	SNP	G	C	C			TCGA-28-2502-01	TCGA-28-2502-01	G	G								Phase_I	Unspecified				Illumina GAIIx	g.chr12:53064574G>C	uc001sfy.2	-	c.52C>G	c.(52-54)CCC>GCC	p.P18A	ZNF385A_uc009zno.1_Non-coding_Transcript|ZNF385A_uc001sfw.1_5'UTR|ZNF385A_uc001sfx.1_5'UTR|ZNF385A_uc001sfz.2_Missense_Mutation_p.P18A	NM_015481	NP_056296	Q96PM9	Z385A_HUMAN	zinc finger protein 385A isoform c	340					regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasm|nucleolus	DNA binding|protein binding|zinc ion binding			ovary(1)	1														0.555556	8.660999	8.672549	5	4	GG		KEEP	---	---	---	---	capture			Missense_Mutation	SNP	53064574	53064574	18468	12	G	C	C	42	42	ZNF385A	C	3	3
LMO7	4008	broad.mit.edu	36	13	75199191	75199191	+	Missense_Mutation	SNP	G	A	A			TCGA-28-2502-01	TCGA-28-2502-01	G	G								Phase_I	Unspecified				Illumina GAIIx	g.chr13:75199191G>A	uc001vjs.1	+	c.322G>A	c.(322-324)GTC>ATC	p.V108I	LMO7_uc001vjt.1_Missense_Mutation_p.V56I	NM_005358	NP_005349	Q8WWI1	LMO7_HUMAN	LIM domain only 7 isoform 1	108	CH.					cytoplasm|nucleus|ubiquitin ligase complex	ubiquitin-protein ligase activity|zinc ion binding			large_intestine(2)	2		Breast(118;0.0992)												0.320988	70.220526	72.526733	26	55	GG		KEEP	---	---	---	---	capture		GBM - Glioblastoma multiforme(99;0.0109)	Missense_Mutation	SNP	75199191	75199191	9184	13	G	A	A	40	40	LMO7	A	1	1
RYR3	6263	broad.mit.edu	36	15	31642363	31642363	+	Nonsense_Mutation	SNP	C	T	T			TCGA-28-2502-01	TCGA-28-2502-01	C	C								Phase_I	Unspecified				Illumina GAIIx	g.chr15:31642363C>T	uc001zhi.1	+	c.1006C>T	c.(1006-1008)CGA>TGA	p.R336*	RYR3_uc010bar.1_Nonsense_Mutation_p.R336*	NM_001036	NP_001027	Q15413	RYR3_HUMAN	ryanodine receptor 3	336	Cytoplasmic (By similarity).				cellular calcium ion homeostasis	integral to membrane	calcium ion binding|receptor activity|ryanodine-sensitive calcium-release channel activity			ovary(5)|central_nervous_system(4)|lung(1)	10		all_lung(180;7.18e-09)												0.275862	77.085738	82.311367	32	84	CC		KEEP	---	---	---	---	capture		all cancers(64;8.95e-12)|GBM - Glioblastoma multiforme(186;0.00109)|BRCA - Breast invasive adenocarcinoma(123;0.0363)	Nonsense_Mutation	SNP	31642363	31642363	14250	15	C	T	T	27	27	RYR3	T	5	1
EXD1	161829	broad.mit.edu	36	15	39275441	39275441	+	Missense_Mutation	SNP	T	G	G			TCGA-28-2502-01	TCGA-28-2502-01	T	T								Phase_I	Unspecified				Illumina GAIIx	g.chr15:39275441T>G	uc001znk.1	-	c.447A>C	c.(445-447)GAA>GAC	p.E149D		NM_152596	NP_689809	Q8NHP7	EXD1_HUMAN	exonuclease 3'-5' domain containing 1	149					nucleobase, nucleoside, nucleotide and nucleic acid metabolic process	intracellular	3'-5' exonuclease activity|nucleic acid binding			ovary(1)	1														0.276074	123.800377	131.161314	45	118	TT		KEEP	---	---	---	---	capture			Missense_Mutation	SNP	39275441	39275441	5490	15	T	G	G	56	56	EXD1	G	4	4
CLCN7	1186	broad.mit.edu	36	16	1447257	1447257	+	Missense_Mutation	SNP	T	C	C	rs71726965	unknown	TCGA-28-2502-01	TCGA-28-2502-01	T	T								Phase_I	Unspecified				Illumina GAIIx	g.chr16:1447257T>C	uc002clv.2	-	c.821A>G	c.(820-822)AAG>AGG	p.K274R	CLCN7_uc002clw.2_Missense_Mutation_p.K250R	NM_001287	NP_001278	P51798	CLCN7_HUMAN	chloride channel 7 isoform a	274						integral to membrane|lysosomal membrane	antiporter activity|ATP binding|voltage-gated chloride channel activity			ovary(1)	1		Hepatocellular(780;0.0893)												0.305882	84.52049	87.375502	26	59	TT		KEEP	---	---	---	---	capture			Missense_Mutation	SNP	1447257	1447257	3604	16	T	C	C	56	56	CLCN7	C	4	4
SETD1A	9739	broad.mit.edu	36	16	30884634	30884634	+	Missense_Mutation	SNP	C	G	G			TCGA-28-2502-01	TCGA-28-2502-01	C	C								Phase_I	Unspecified				Illumina GAIIx	g.chr16:30884634C>G	uc002ead.1	+	c.1931C>G	c.(1930-1932)CCT>CGT	p.P644R		NM_014712	NP_055527	O15047	SET1A_HUMAN	SET domain containing 1A	644	Pro-rich.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	chromosome|nuclear speck|Set1C/COMPASS complex	histone-lysine N-methyltransferase activity|nucleotide binding|protein binding|RNA binding			ovary(2)	2														0.310345	43.395623	45.274338	18	40	CC		KEEP	---	---	---	---	capture			Missense_Mutation	SNP	30884634	30884634	14618	16	C	G	G	24	24	SETD1A	G	3	3
ITGAM	3684	broad.mit.edu	36	16	31184264	31184264	+	Missense_Mutation	SNP	G	C	C			TCGA-28-2502-01	TCGA-28-2502-01	G	G								Phase_I	Unspecified				Illumina GAIIx	g.chr16:31184264G>C	uc002ebr.1	+	c.182G>C	c.(181-183)GGC>GCC	p.G61A	ITGAM_uc002ebq.1_Missense_Mutation_p.G61A	NM_000632	NP_000623	P11215	ITAM_HUMAN	integrin alpha M precursor	61	FG-GAP 1.|Extracellular (Potential).				blood coagulation|cell adhesion|integrin-mediated signaling pathway|leukocyte migration	integrin complex	glycoprotein binding|receptor activity			kidney(1)	1														0.454545	9.778929	9.797015	5	6	GG		KEEP	---	---	---	---	capture			Missense_Mutation	SNP	31184264	31184264	8191	16	G	C	C	42	42	ITGAM	C	3	3
MTSS1L	92154	broad.mit.edu	36	16	69255702	69255702	+	Silent	SNP	C	A	A			TCGA-28-2502-01	TCGA-28-2502-01	C	C								Phase_I	Unspecified				Illumina GAIIx	g.chr16:69255702C>A	uc002ezj.1	-	c.1623G>T	c.(1621-1623)GGG>GGT	p.G541G		NM_138383	NP_612392	Q765P7	MTSSL_HUMAN	metastasis suppressor 1-like	541					filopodium assembly|signal transduction		actin binding|cytoskeletal adaptor activity|SH3 domain binding			central_nervous_system(1)	1														0.315789	6.887648	7.495283	6	13	CC		KEEP	---	---	---	---	capture			Silent	SNP	69255702	69255702	10356	16	C	A	A	26	26	MTSS1L	A	3	3
KRT36	8689	broad.mit.edu	36	17	36898121	36898121	+	Missense_Mutation	SNP	C	T	T			TCGA-28-2502-01	TCGA-28-2502-01	C	C								Phase_I	Unspecified				Illumina GAIIx	g.chr17:36898121C>T	uc002hwt.1	-	c.599G>A	c.(598-600)CGT>CAT	p.R200H		NM_003771	NP_003762	O76013	KRT36_HUMAN	keratin 36	200	Rod.|Coil 1B.					intermediate filament	protein binding|structural constituent of epidermis				0		Breast(137;0.000286)												0.272727	66.302914	70.899235	27	72	CC		KEEP	---	---	---	---	capture			Missense_Mutation	SNP	36898121	36898121	8788	17	C	T	T	19	19	KRT36	T	1	1
ABCA10	10349	broad.mit.edu	36	17	64724084	64724084	+	Nonsense_Mutation	SNP	C	A	A			TCGA-28-2502-01	TCGA-28-2502-01	C	C								Phase_I	Unspecified				Illumina GAIIx	g.chr17:64724084C>A	uc010dfa.1	-	c.541G>T	c.(541-543)GGA>TGA	p.G181*	ABCA10_uc010dfb.1_5'Flank|ABCA10_uc010dfc.1_Nonsense_Mutation_p.G73*	NM_080282	NP_525021	Q8WWZ4	ABCAA_HUMAN	ATP-binding cassette, sub-family A, member 10	181					transport	integral to membrane	ATP binding|ATPase activity			ovary(2)|central_nervous_system(1)	3	Breast(10;6.95e-12)													0.202247	105.509462	127.502432	54	213	CC		KEEP	---	---	---	---	capture			Nonsense_Mutation	SNP	64724084	64724084	30	17	C	A	A	22	22	ABCA10	A	5	3
CCDC105	126402	broad.mit.edu	36	19	14993710	14993710	+	Silent	SNP	G	A	A			TCGA-28-2502-01	TCGA-28-2502-01	G	G								Phase_I	Unspecified				Illumina GAIIx	g.chr19:14993710G>A	uc002nae.1	+	c.1230G>A	c.(1228-1230)CCG>CCA	p.P410P		NM_173482	NP_775753	Q8IYK2	CC105_HUMAN	coiled-coil domain containing 105	410					microtubule cytoskeleton organization	microtubule				ovary(1)	1														0.283186	90.456767	95.224828	32	81	GG		KEEP	---	---	---	---	capture			Silent	SNP	14993710	14993710	2860	19	G	A	A	39	39	CCDC105	A	1	1
CYP4F22	126410	broad.mit.edu	36	19	15509391	15509391	+	Missense_Mutation	SNP	G	A	A			TCGA-28-2502-01	TCGA-28-2502-01	G	G								Phase_I	Unspecified				Illumina GAIIx	g.chr19:15509391G>A	uc002nbh.2	+	c.467G>A	c.(466-468)CGT>CAT	p.R156H		NM_173483	NP_775754	Q6NT55	CP4FN_HUMAN	cytochrome P450, family 4, subfamily F,	156					oxidation-reduction process	endoplasmic reticulum membrane|microsome	electron carrier activity|heme binding|monooxygenase activity			pancreas(1)	1														0.221106	97.529359	111.753096	44	155	GG		KEEP	---	---	---	---	capture			Missense_Mutation	SNP	15509391	15509391	4354	19	G	A	A	40	40	CYP4F22	A	1	1
ZNF556	80032	broad.mit.edu	36	19	2828814	2828814	+	Silent	SNP	G	A	A			TCGA-28-2502-01	TCGA-28-2502-01	G	G								Phase_I	Unspecified				Illumina GAIIx	g.chr19:2828814G>A	uc002lwp.1	+	c.858G>A	c.(856-858)CCG>CCA	p.P286P	ZNF556_uc002lwq.2_Silent_p.P285P	NM_024967	NP_079243	Q9HAH1	ZN556_HUMAN	zinc finger protein 556	286					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0														0.162963	39.018835	53.553823	22	113	GG		KEEP	---	---	---	---	capture		UCEC - Uterine corpus endometrioid carcinoma (162;6.64e-05)|OV - Ovarian serous cystadenocarcinoma(105;1.09e-113)|Epithelial(107;3.79e-112)|all cancers(105;1.67e-104)|BRCA - Breast invasive adenocarcinoma(158;0.00136)|STAD - Stomach adenocarcinoma(1328;0.18)	Silent	SNP	2828814	2828814	18582	19	G	A	A	40	40	ZNF556	A	1	1
FFAR2	2867	broad.mit.edu	36	19	40632826	40632826	+	Silent	SNP	C	T	T			TCGA-28-2502-01	TCGA-28-2502-01	C	C								Phase_I	Unspecified				Illumina GAIIx	g.chr19:40632826C>T	uc002nzg.2	+	c.370C>T	c.(370-372)CTG>TTG	p.L124L	FFAR2_uc010eea.1_Silent_p.L124L	NM_005306	NP_005297	O15552	FFAR2_HUMAN	free fatty acid receptor 2	124	Cytoplasmic (Potential).					integral to plasma membrane	G-protein coupled receptor activity|lipid binding			central_nervous_system(1)	1	all_lung(56;1.89e-08)|Lung NSC(56;2.9e-08)|Esophageal squamous(110;0.162)					GBM(40;139 809 9833 23358 48736)				34				0.229508	68.632672	76.820325	28	94	CC		KEEP	---	---	---	---	capture	LUSC - Lung squamous cell carcinoma(66;0.0724)		Silent	SNP	40632826	40632826	6065	19	C	T	T	32	32	FFAR2	T	2	2
MTOR	2475	broad.mit.edu	36	1	11110770	11110770	+	Missense_Mutation	SNP	C	T	T			TCGA-28-2502-01	TCGA-28-2502-01	C	C								Phase_I	Unspecified				Illumina GAIIx	g.chr1:11110770C>T	uc001asd.1	-	c.5911G>A	c.(5911-5913)GCC>ACC	p.A1971T	MTOR_uc001asc.1_Missense_Mutation_p.A176T	NM_004958	NP_004949	P42345	MTOR_HUMAN	FK506 binding protein 12-rapamycin associated	1971	FAT.				cell growth|cellular response to hypoxia|insulin receptor signaling pathway|nerve growth factor receptor signaling pathway|peptidyl-serine phosphorylation|phosphatidylinositol-mediated signaling|protein autophosphorylation|protein catabolic process|response to amino acid stimulus|response to nutrient|T cell costimulation|TOR signaling cascade	endoplasmic reticulum membrane|Golgi membrane|lysosome|mitochondrial outer membrane|phosphatidylinositol 3-kinase complex|PML body|TORC1 complex|TORC2 complex	ATP binding|phosphoprotein binding|protein serine/threonine kinase activity			central_nervous_system(7)|ovary(4)|kidney(3)|large_intestine(2)|skin(2)|lung(1)	19										1389				0.15625	43.983623	61.862443	25	135	CC		KEEP	---	---	---	---	capture			Missense_Mutation	SNP	11110770	11110770	10347	1	C	T	T	26	26	MTOR	T	2	2
ADAM30	11085	broad.mit.edu	36	1	120239696	120239696	+	Missense_Mutation	SNP	G	A	A			TCGA-28-2502-01	TCGA-28-2502-01	G	G								Phase_I	Unspecified				Illumina GAIIx	g.chr1:120239696G>A	uc001eij.1	-	c.787C>T	c.(787-789)CGC>TGC	p.R263C		NM_021794	NP_068566	Q9UKF2	ADA30_HUMAN	ADAM metallopeptidase domain 30 preproprotein	263	Peptidase M12B.|Extracellular (Potential).				proteolysis	integral to membrane	metalloendopeptidase activity|zinc ion binding			ovary(2)|lung(1)	3	all_cancers(5;7.07e-10)|all_epithelial(5;1.62e-10)|all_neural(166;0.153)|Breast(55;0.234)	all_lung(203;1.55e-06)|Lung NSC(69;1.04e-05)|all_epithelial(167;0.00138)												0.264706	136.062211	146.269305	54	150	GG		KEEP	---	---	---	---	capture		Lung(183;0.0204)|LUSC - Lung squamous cell carcinoma(189;0.117)	Missense_Mutation	SNP	120239696	120239696	249	1	G	A	A	40	40	ADAM30	A	1	1
FLG	2312	broad.mit.edu	36	1	150543682	150543682	+	Missense_Mutation	SNP	C	T	T			TCGA-28-2502-01	TCGA-28-2502-01	C	C								Phase_I	Unspecified				Illumina GAIIx	g.chr1:150543682C>T	uc001ezu.1	-	c.10304G>A	c.(10303-10305)CGT>CAT	p.R3435H		NM_002016	NP_002007	P20930	FILA_HUMAN	filaggrin	3435	Ser-rich.				keratinocyte differentiation	cytoplasmic membrane-bounded vesicle|intermediate filament	calcium ion binding|structural molecule activity			ovary(9)	9	Hepatocellular(266;0.0877)|Melanoma(130;0.116)|all_hematologic(923;0.127)													0.243942	360.134453	397.116619	151	468	CC		KEEP	---	---	---	---	capture	LUSC - Lung squamous cell carcinoma(543;0.206)		Missense_Mutation	SNP	150543682	150543682	6160	1	C	T	T	19	19	FLG	T	1	1
C1QC	714	broad.mit.edu	36	1	22846550	22846550	+	Missense_Mutation	SNP	C	T	T			TCGA-28-2502-01	TCGA-28-2502-01	C	C								Phase_I	Unspecified				Illumina GAIIx	g.chr1:22846550C>T	uc001bgc.2	+	c.425C>T	c.(424-426)GCG>GTG	p.A142V	C1QC_uc001bga.2_Missense_Mutation_p.A142V|C1QC_uc001bgb.1_Missense_Mutation_p.A142V	NM_172369	NP_758957	P02747	C1QC_HUMAN	complement component 1, q subcomponent, C chain	142	C1q.				complement activation, classical pathway|innate immune response|negative regulation of granulocyte differentiation|negative regulation of macrophage differentiation	collagen					0		Colorectal(325;3.46e-05)|Lung NSC(340;6.55e-05)|all_lung(284;9.87e-05)|Renal(390;0.000219)|Breast(348;0.00262)|Ovarian(437;0.00308)|Myeloproliferative disorder(586;0.0255)			Abciximab(DB00054)|Adalimumab(DB00051)|Alefacept(DB00092)|Alemtuzumab(DB00087)|Basiliximab(DB00074)|Bevacizumab(DB00112)|Cetuximab(DB00002)|Daclizumab(DB00111)|Efalizumab(DB00095)|Etanercept(DB00005)|Gemtuzumab ozogamicin(DB00056)|Ibritumomab(DB00078)|Immune globulin(DB00028)|Muromonab(DB00075)|Natalizumab(DB00108)|Palivizumab(DB00110)|Rituximab(DB00073)|Tositumomab(DB00081)|Trastuzumab(DB00072)	Ovarian(26;671 750 8290 29071 43278)								0.240385	56.248803	62.630138	25	79	CC		KEEP	---	---	---	---	capture		UCEC - Uterine corpus endometrioid carcinoma (279;0.0227)|OV - Ovarian serous cystadenocarcinoma(117;6.21e-27)|Colorectal(126;1.5e-07)|COAD - Colon adenocarcinoma(152;1.12e-05)|GBM - Glioblastoma multiforme(114;1.61e-05)|BRCA - Breast invasive adenocarcinoma(304;0.000538)|KIRC - Kidney renal clear cell carcinoma(1967;0.00269)|STAD - Stomach adenocarcinoma(196;0.00644)|READ - Rectum adenocarcinoma(331;0.0649)|Lung(427;0.196)	Missense_Mutation	SNP	22846550	22846550	2024	1	C	T	T	27	27	C1QC	T	1	1
SPOCD1	90853	broad.mit.edu	36	1	32052176	32052176	+	Missense_Mutation	SNP	C	T	T			TCGA-28-2502-01	TCGA-28-2502-01	C	C								Phase_I	Unspecified				Illumina GAIIx	g.chr1:32052176C>T	uc001bts.1	-	c.1346G>A	c.(1345-1347)AGG>AAG	p.R449K	SPOCD1_uc001btu.2_Missense_Mutation_p.R449K|SPOCD1_uc001btv.2_Intron	NM_144569	NP_653170	Q6ZMY3	SPOC1_HUMAN	SPOC domain containing 1	449										ovary(5)|breast(1)	6		Myeloproliferative disorder(586;0.0393)|all_neural(195;0.186)|Ovarian(437;0.199)												0.245763	154.530594	168.422704	58	178	CC		KEEP	---	---	---	---	capture		STAD - Stomach adenocarcinoma(196;0.18)	Missense_Mutation	SNP	32052176	32052176	15591	1	C	T	T	24	24	SPOCD1	T	2	2
LPAR3	23566	broad.mit.edu	36	1	85104062	85104062	+	Silent	SNP	G	A	A			TCGA-28-2502-01	TCGA-28-2502-01	G	G								Phase_I	Unspecified				Illumina GAIIx	g.chr1:85104062G>A	uc001dkl.2	-	c.330C>T	c.(328-330)GAC>GAT	p.D110D	LPAR3_uc009wcj.1_Silent_p.D110D	NM_012152	NP_036284	Q9UBY5	LPAR3_HUMAN	lysophosphatidic acid receptor 3	110	Helical; Name=3; (Potential).				G-protein signaling, coupled to cyclic nucleotide second messenger|synaptic transmission	integral to plasma membrane|intracellular membrane-bounded organelle				ovary(2)	2														0.280952	282.475107	300.589386	118	302	GG		KEEP	---	---	---	---	capture			Silent	SNP	85104062	85104062	9279	1	G	A	A	48	48	LPAR3	A	2	2
WDR63	126820	broad.mit.edu	36	1	85336801	85336801	+	Missense_Mutation	SNP	C	G	G			TCGA-28-2502-01	TCGA-28-2502-01	C	C								Phase_I	Unspecified				Illumina GAIIx	g.chr1:85336801C>G	uc001dkt.1	+	c.1351C>G	c.(1351-1353)CCT>GCT	p.P451A	WDR63_uc009wcl.1_Missense_Mutation_p.P412A	NM_145172	NP_660155	Q8IWG1	WDR63_HUMAN	WD repeat domain 63	451										ovary(2)	2														0.243094	130.710314	141.598767	44	137	CC		KEEP	---	---	---	---	capture		all cancers(265;0.00391)|Epithelial(280;0.00922)|Colorectal(170;0.166)	Missense_Mutation	SNP	85336801	85336801	17887	1	C	G	G	26	26	WDR63	G	3	3
ZNF831	128611	broad.mit.edu	36	20	57200097	57200097	+	Missense_Mutation	SNP	G	A	A			TCGA-28-2502-01	TCGA-28-2502-01	G	G								Phase_I	Unspecified				Illumina GAIIx	g.chr20:57200097G>A	uc002yan.1	+	c.628G>A	c.(628-630)GGG>AGG	p.G210R		NM_178457	NP_848552	Q5JPB2	ZN831_HUMAN	zinc finger protein 831	210						intracellular	nucleic acid binding|zinc ion binding			ovary(1)|skin(1)	2	all_lung(29;0.0085)													0.238636	49.232766	54.723124	21	67	GG		KEEP	---	---	---	---	capture			Missense_Mutation	SNP	57200097	57200097	18784	20	G	A	A	39	39	ZNF831	A	1	1
IFNGR2	3460	broad.mit.edu	36	21	33721136	33721136	+	Missense_Mutation	SNP	T	C	C			TCGA-28-2502-01	TCGA-28-2502-01	T	T								Phase_I	Unspecified				Illumina GAIIx	g.chr21:33721136T>C	uc002yrq.2	+	c.545T>C	c.(544-546)TTT>TCT	p.F182S	IFNGR2_uc002yrp.2_Missense_Mutation_p.F163S|IFNGR2_uc010gma.1_Missense_Mutation_p.F84S|IFNGR2_uc002yrr.2_Missense_Mutation_p.F84S	NM_005534	NP_005525	P38484	INGR2_HUMAN	interferon gamma receptor 2 precursor	163	Extracellular (Potential).|Fibronectin type-III 2.				regulation of interferon-gamma-mediated signaling pathway|response to virus	endoplasmic reticulum|integral to plasma membrane	interferon-gamma receptor activity				0					Interferon gamma-1b(DB00033)									0.22439	394.651641	437.559612	138	477	TT		KEEP	---	---	---	---	capture			Missense_Mutation	SNP	33721136	33721136	7851	21	T	C	C	64	64	IFNGR2	C	4	4
UBASH3A	53347	broad.mit.edu	36	21	42709734	42709734	+	Missense_Mutation	SNP	G	C	C			TCGA-28-2502-01	TCGA-28-2502-01	G	G								Phase_I	Unspecified				Illumina GAIIx	g.chr21:42709734G>C	uc002zbe.1	+	c.782G>C	c.(781-783)AGC>ACC	p.S261T	UBASH3A_uc002zbf.1_Missense_Mutation_p.S223T|UBASH3A_uc010gpc.1_Non-coding_Transcript|UBASH3A_uc010gpd.1_Non-coding_Transcript|UBASH3A_uc010gpe.1_Missense_Mutation_p.S223T	NM_018961	NP_061834	P57075	UBS3A_HUMAN	ubiquitin associated and SH3 domain containing,	261						cytosol|nucleus				ovary(3)	3														0.25	7.651069	8.803746	5	15	GG		KEEP	---	---	---	---	capture			Missense_Mutation	SNP	42709734	42709734	17396	21	G	C	C	34	34	UBASH3A	C	3	3
BPIL2	254240	broad.mit.edu	36	22	31158360	31158360	+	Silent	SNP	G	A	A			TCGA-28-2502-01	TCGA-28-2502-01	G	G								Phase_I	Unspecified				Illumina GAIIx	g.chr22:31158360G>A	uc003amn.1	-	c.1149C>T	c.(1147-1149)TTC>TTT	p.F383F	BPIL2_uc010gwo.1_Intron	NM_174932	NP_777592	Q8NFQ6	BPIL2_HUMAN	bactericidal/permeability-increasing	383						extracellular region	lipopolysaccharide binding|phospholipid binding			ovary(1)	1														0.202703	32.598438	38.662029	15	59	GG		KEEP	---	---	---	---	capture			Silent	SNP	31158360	31158360	1520	22	G	A	A	37	37	BPIL2	A	1	1
CDC42EP1	11135	broad.mit.edu	36	22	36294328	36294328	+	Missense_Mutation	SNP	A	C	C			TCGA-28-2502-01	TCGA-28-2502-01	A	A								Phase_I	Unspecified				Illumina GAIIx	g.chr22:36294328A>C	uc003asz.2	+	c.731A>C	c.(730-732)AAC>ACC	p.N244T		NM_152243	NP_689449	Q00587	BORG5_HUMAN	CDC42 effector protein 1	244	4.|8 X 7 AA tandem repeats of [PT]-[AT]-A- [ENT]-[PT]-[PTS]-[AG].				positive regulation of pseudopodium assembly|regulation of cell shape	actin cytoskeleton|endomembrane system|Golgi apparatus|plasma membrane	protein binding				0	Melanoma(58;0.0574)													0.333333	8.451267	8.829694	5	10	AA		KEEP	---	---	---	---	capture			Missense_Mutation	SNP	36294328	36294328	3203	22	A	C	C	2	2	CDC42EP1	C	4	4
MGAT3	4248	broad.mit.edu	36	22	38213897	38213897	+	Missense_Mutation	SNP	T	G	G			TCGA-28-2502-01	TCGA-28-2502-01	T	T								Phase_I	Unspecified				Illumina GAIIx	g.chr22:38213897T>G	uc003axv.2	+	c.599T>G	c.(598-600)GTG>GGG	p.V200G	MGAT3_uc010gxy.1_Missense_Mutation_p.V200G	NM_002409	NP_002400	Q09327	MGAT3_HUMAN	mannosyl (beta-1,4-)-glycoprotein	200	Lumenal (Potential).				post-translational protein modification|protein N-linked glycosylation via asparagine	Golgi membrane|integral to membrane	beta-1,4-mannosylglycoprotein 4-beta-N-acetylglucosaminyltransferase activity				0	Melanoma(58;0.04)													0.307692	7.582984	8.01924	4	9	TT		KEEP	---	---	---	---	capture			Missense_Mutation	SNP	38213897	38213897	9934	22	T	G	G	59	59	MGAT3	G	4	4
MEI1	150365	broad.mit.edu	36	22	40521406	40521406	+	Missense_Mutation	SNP	G	C	C			TCGA-28-2502-01	TCGA-28-2502-01	G	G								Phase_I	Unspecified				Illumina GAIIx	g.chr22:40521406G>C	uc003baz.1	+	c.3580G>C	c.(3580-3582)GGT>CGT	p.G1194R	LOC339674_uc003bba.1_Intron|MEI1_uc003bbb.1_Missense_Mutation_p.G580R|MEI1_uc003bbc.1_Missense_Mutation_p.G562R|MEI1_uc010gym.1_Missense_Mutation_p.G527R|MEI1_uc003bbd.1_Intron|MEI1_uc010gyn.1_Non-coding_Transcript|MEI1_uc003bbe.1_Non-coding_Transcript|MEI1_uc003bbf.2_Missense_Mutation_p.G208R|MEI1_uc003bbg.2_Intron	NM_152513	NP_689726	Q5TIA1	MEI1_HUMAN	meiosis defective 1	1194							binding			skin(1)	1														0.201923	45.616125	54.202935	21	83	GG		KEEP	---	---	---	---	capture			Missense_Mutation	SNP	40521406	40521406	9854	22	G	C	C	43	43	MEI1	C	3	3
PANX2	56666	broad.mit.edu	36	22	48959659	48959659	+	Silent	SNP	C	T	T			TCGA-28-2502-01	TCGA-28-2502-01	C	C								Phase_I	Unspecified				Illumina GAIIx	g.chr22:48959659C>T	uc003bjn.2	+	c.1860C>T	c.(1858-1860)AAC>AAT	p.N620N	PANX2_uc003bjo.2_Silent_p.N610N|PANX2_uc003bjp.2_Silent_p.N486N	NM_052839	NP_443071	Q96RD6	PANX2_HUMAN	pannexin 2	620	Cytoplasmic (Potential).				protein hexamerization|synaptic transmission	gap junction|integral to membrane	gap junction hemi-channel activity|ion channel activity			breast(1)	1		all_cancers(38;1.14e-10)|all_epithelial(38;2.12e-09)|all_lung(38;7.01e-05)|Breast(42;0.000523)|Lung NSC(38;0.0018)|Ovarian(80;0.0365)|Lung SC(80;0.113)												0.4	27.546235	27.764355	10	15	CC		KEEP	---	---	---	---	capture		LUAD - Lung adenocarcinoma(64;0.105)	Silent	SNP	48959659	48959659	11838	22	C	T	T	19	19	PANX2	T	1	1
GLI2	2736	broad.mit.edu	36	2	121463653	121463653	+	Silent	SNP	C	G	G			TCGA-28-2502-01	TCGA-28-2502-01	C	C								Phase_I	Unspecified				Illumina GAIIx	g.chr2:121463653C>G	uc010flp.1	+	c.3693C>G	c.(3691-3693)GGC>GGG	p.G1231G	GLI2_uc002tmq.1_Intron|GLI2_uc002tmr.1_Intron|GLI2_uc002tmt.2_Silent_p.G903G|GLI2_uc002tmu.2_Silent_p.G886G	NM_005270	NP_005261	P10070	GLI2_HUMAN	GLI-Kruppel family member GLI2	1231					axon guidance|branching morphogenesis of a tube|cell proliferation|cerebellar cortex morphogenesis|developmental growth|embryonic digestive tract development|epidermal cell differentiation|floor plate formation|heart development|hindgut morphogenesis|kidney development|lung development|negative regulation of transcription from RNA polymerase II promoter|odontogenesis of dentine-containing tooth|osteoblast development|osteoblast differentiation|pituitary gland development|positive regulation of DNA replication|positive regulation of T cell differentiation in thymus|positive regulation of transcription from RNA polymerase II promoter|proximal/distal pattern formation|skeletal system development|smoothened signaling pathway involved in ventral spinal cord interneuron specification|spinal cord ventral commissure morphogenesis	nucleus|nucleus	protein binding|sequence-specific DNA binding transcription factor activity|transcription activator activity|zinc ion binding			ovary(7)|central_nervous_system(1)	8	Renal(3;0.0496)	Prostate(154;0.0623)								376				0.222222	6.886789	8.168912	4	14	CC		KEEP	---	---	---	---	capture			Silent	SNP	121463653	121463653	6706	2	C	G	G	25	25	GLI2	G	3	3
SOX11	6664	broad.mit.edu	36	2	5751176	5751176	+	Missense_Mutation	SNP	C	G	G			TCGA-28-2502-01	TCGA-28-2502-01	C	C								Phase_I	Unspecified				Illumina GAIIx	g.chr2:5751176C>G	uc002qyj.1	+	c.872C>G	c.(871-873)GCG>GGG	p.A291G		NM_003108	NP_003099	P35716	SOX11_HUMAN	SRY-box 11	291						cytoplasm|nucleolus	DNA binding|translation factor activity, nucleic acid binding			central_nervous_system(3)	3	Acute lymphoblastic leukemia(172;0.155)|all_hematologic(175;0.191)									14				0.444444	7.887217	7.926793	4	5	CC		KEEP	---	---	---	---	capture		OV - Ovarian serous cystadenocarcinoma(76;0.132)	Missense_Mutation	SNP	5751176	5751176	15442	2	C	G	G	27	27	SOX11	G	3	3
GPR128	84873	broad.mit.edu	36	3	101848249	101848249	+	Silent	SNP	T	C	C			TCGA-28-2502-01	TCGA-28-2502-01	T	T								Phase_I	Unspecified				Illumina GAIIx	g.chr3:101848249T>C	uc003duc.1	+	c.1257T>C	c.(1255-1257)GCT>GCC	p.A419A		NM_032787	NP_116176	Q96K78	GP128_HUMAN	G protein-coupled receptor 128	419	GPS.|Extracellular (Potential).				neuropeptide signaling pathway	integral to membrane|plasma membrane	G-protein coupled receptor activity			ovary(3)	3						Pancreas(87;185 1975 7223 18722)								0.259259	91.05835	98.148365	35	100	TT		KEEP	---	---	---	---	capture			Silent	SNP	101848249	101848249	6915	3	T	C	C	55	55	GPR128	C	4	4
CASR	846	broad.mit.edu	36	3	123485822	123485822	+	Silent	SNP	C	T	T			TCGA-28-2502-01	TCGA-28-2502-01	C	C								Phase_I	Unspecified				Illumina GAIIx	g.chr3:123485822C>T	uc003eew.2	+	c.2361C>T	c.(2359-2361)ATC>ATT	p.I787I	CASR_uc003eev.2_Silent_p.I777I	NM_000388	NP_000379	P41180	CASR_HUMAN	calcium-sensing receptor	777	Helical; Name=5; (Potential).				anatomical structure morphogenesis|calcium ion import|cellular calcium ion homeostasis|chemosensory behavior|detection of calcium ion|ossification	integral to plasma membrane	G-protein coupled receptor activity|phosphatidylinositol phospholipase C activity			ovary(4)	4					Cinacalcet(DB01012)									0.267606	46.86916	50.284494	19	52	CC		KEEP	---	---	---	---	capture		GBM - Glioblastoma multiforme(114;0.226)	Silent	SNP	123485822	123485822	2801	3	C	T	T	31	31	CASR	T	1	1
FBLN2	2199	broad.mit.edu	36	3	13654190	13654190	+	Missense_Mutation	SNP	G	A	A			TCGA-28-2502-01	TCGA-28-2502-01	G	G								Phase_I	Unspecified				Illumina GAIIx	g.chr3:13654190G>A	uc003bya.1	+	c.3466G>A	c.(3466-3468)GCG>ACG	p.A1156T	FBLN2_uc003byb.1_Missense_Mutation_p.A1109T	NM_001004019	NP_001004019	P98095	FBLN2_HUMAN	fibulin 2 isoform a precursor	1109	Domain III.					proteinaceous extracellular matrix	calcium ion binding|extracellular matrix structural constituent			ovary(1)	1														0.25	27.879585	30.605301	12	36	GG		KEEP	---	---	---	---	capture	UCEC - Uterine corpus endometrioid carcinoma (1;0.00416)		Missense_Mutation	SNP	13654190	13654190	5935	3	G	A	A	38	38	FBLN2	A	1	1
SCN10A	6336	broad.mit.edu	36	3	38808612	38808612	+	Missense_Mutation	SNP	G	A	A			TCGA-28-2502-01	TCGA-28-2502-01	G	G								Phase_I	Unspecified				Illumina GAIIx	g.chr3:38808612G>A	uc003ciq.1	-	c.322C>T	c.(322-324)CGG>TGG	p.R108W		NM_006514	NP_006505	Q9Y5Y9	SCNAA_HUMAN	sodium channel, voltage-gated, type X, alpha	108					sensory perception	voltage-gated sodium channel complex				ovary(5)|large_intestine(1)|kidney(1)|skin(1)	8					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)									0.227723	160.829687	181.436287	69	234	GG		KEEP	---	---	---	---	capture		KIRC - Kidney renal clear cell carcinoma(284;0.0769)|Kidney(284;0.0945)	Missense_Mutation	SNP	38808612	38808612	14394	3	G	A	A	37	37	SCN10A	A	1	1
INTS12	57117	broad.mit.edu	36	4	106823737	106823737	+	Missense_Mutation	SNP	C	T	T			TCGA-28-2502-01	TCGA-28-2502-01	C	C								Phase_I	Unspecified				Illumina GAIIx	g.chr4:106823737C>T	uc003hxw.1	-	c.991G>A	c.(991-993)GTG>ATG	p.V331M	INTS12_uc010ilr.1_Missense_Mutation_p.V331M	NM_020395	NP_065128	Q96CB8	INT12_HUMAN	integrator complex subunit 12	331	Ser-rich.				snRNA processing	integrator complex	protein binding|zinc ion binding				0														0.247159	202.133005	222.628492	87	265	CC		KEEP	---	---	---	---	capture		OV - Ovarian serous cystadenocarcinoma(123;5.12e-07)	Missense_Mutation	SNP	106823737	106823737	8078	4	C	T	T	17	17	INTS12	T	2	2
UGT2B28	54490	broad.mit.edu	36	4	70181500	70181500	+	Missense_Mutation	SNP	G	T	T			TCGA-28-2502-01	TCGA-28-2502-01	G	G								Phase_I	Unspecified				Illumina GAIIx	g.chr4:70181500G>T	uc003hej.1	+	c.693G>T	c.(691-693)AAG>AAT	p.K231N	UGT2B28_uc010ihr.1_Missense_Mutation_p.K231N	NM_053039	NP_444267	Q9BY64	UDB28_HUMAN	UDP glucuronosyltransferase 2 family,	231					xenobiotic metabolic process	endoplasmic reticulum membrane|integral to membrane|microsome	glucuronosyltransferase activity				0					Flunitrazepam(DB01544)									0.205479	103.343367	120.96842	45	174	GG		KEEP	---	---	---	---	capture			Missense_Mutation	SNP	70181500	70181500	17518	4	G	T	T	36	36	UGT2B28	T	3	3
CDH18	1016	broad.mit.edu	36	5	19579837	19579837	+	Missense_Mutation	SNP	A	T	T			TCGA-28-2502-01	TCGA-28-2502-01	A	A								Phase_I	Unspecified				Illumina GAIIx	g.chr5:19579837A>T	uc003jgc.1	-	c.1288T>A	c.(1288-1290)TTT>ATT	p.F430I	CDH18_uc003jgd.1_Missense_Mutation_p.F430I|CDH18_uc010iua.1_Missense_Mutation_p.F430I|CDH18_uc010itz.1_Missense_Mutation_p.F430I	NM_004934	NP_004925	Q13634	CAD18_HUMAN	cadherin 18, type 2 preproprotein	430	Extracellular (Potential).|Cadherin 4.				adherens junction organization|cell junction assembly|homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			ovary(5)|large_intestine(1)	6	Lung NSC(1;0.00734)|all_lung(1;0.0197)													0.25641	80.497336	86.790825	30	87	AA		KEEP	---	---	---	---	capture			Missense_Mutation	SNP	19579837	19579837	3232	5	A	T	T	4	4	CDH18	T	4	4
MAP1B	4131	broad.mit.edu	36	5	71526588	71526588	+	Silent	SNP	A	G	G			TCGA-28-2502-01	TCGA-28-2502-01	A	A								Phase_I	Unspecified				Illumina GAIIx	g.chr5:71526588A>G	uc003kbw.2	+	c.1650A>G	c.(1648-1650)AAA>AAG	p.K550K	MAP1B_uc010iyw.1_Silent_p.K567K|MAP1B_uc010iyx.1_Silent_p.K424K|MAP1B_uc010iyy.1_Silent_p.K424K	NM_005909	NP_005900	P46821	MAP1B_HUMAN	microtubule-associated protein 1B	550						microtubule|microtubule associated complex	structural molecule activity			large_intestine(2)|ovary(1)|central_nervous_system(1)|pancreas(1)	5		Lung NSC(167;0.00202)|Ovarian(174;0.0175)|Prostate(461;0.142)|Breast(144;0.198)				Melanoma(17;367 822 11631 31730 47712)								0.277778	47.3045	49.701885	15	39	AA		KEEP	---	---	---	---	capture		OV - Ovarian serous cystadenocarcinoma(47;7.99e-54)	Silent	SNP	71526588	71526588	9611	5	A	G	G	2	2	MAP1B	G	4	4
SYNE1	23345	broad.mit.edu	36	6	152569169	152569169	+	Missense_Mutation	SNP	G	A	A			TCGA-28-2502-01	TCGA-28-2502-01	G	G								Phase_I	Unspecified				Illumina GAIIx	g.chr6:152569169G>A	uc010kiw.1	-	c.22846C>T	c.(22846-22848)CGG>TGG	p.R7616W	SYNE1_uc003qor.2_Missense_Mutation_p.R516W|SYNE1_uc010kiv.1_Missense_Mutation_p.R2140W|SYNE1_uc003qos.2_Missense_Mutation_p.R2140W|SYNE1_uc003qot.2_Missense_Mutation_p.R7545W|SYNE1_uc003qou.2_Missense_Mutation_p.R7616W	NM_182961	NP_892006	Q8NF91	SYNE1_HUMAN	spectrin repeat containing, nuclear envelope 1	7616	Cytoplasmic (Potential).				cell death|cytoskeletal anchoring at nuclear membrane|Golgi organization|muscle cell differentiation|nuclear matrix anchoring at nuclear membrane	cytoskeleton|Golgi apparatus|integral to membrane|nuclear outer membrane|postsynaptic membrane|sarcomere|SUN-KASH complex	actin binding|lamin binding			central_nervous_system(15)|ovary(8)|large_intestine(5)|pancreas(2)	30		Ovarian(120;0.0955)												0.183673	53.051721	66.845679	27	120	GG		KEEP	---	---	---	---	capture	BRCA - Breast invasive adenocarcinoma(37;0.243)	OV - Ovarian serous cystadenocarcinoma(155;2.24e-10)	Missense_Mutation	SNP	152569169	152569169	15966	6	G	A	A	38	38	SYNE1	A	1	1
UNC93A	54346	broad.mit.edu	36	6	167629557	167629557	+	Missense_Mutation	SNP	C	T	T			TCGA-28-2502-01	TCGA-28-2502-01	C	C								Phase_I	Unspecified				Illumina GAIIx	g.chr6:167629557C>T	uc003qvq.1	+	c.317C>T	c.(316-318)CCG>CTG	p.P106L	UNC93A_uc003qvr.1_Missense_Mutation_p.P106L	NM_018974	NP_061847	Q86WB7	UN93A_HUMAN	unc-93 homolog A isoform 1	106	Helical; (Potential).					integral to membrane|plasma membrane					0		Breast(66;7.62e-05)|Ovarian(120;0.105)												0.242604	99.411542	109.611088	41	128	CC		KEEP	---	---	---	---	capture		OV - Ovarian serous cystadenocarcinoma(33;2.22e-20)|BRCA - Breast invasive adenocarcinoma(81;6.17e-07)|GBM - Glioblastoma multiforme(31;0.00492)	Missense_Mutation	SNP	167629557	167629557	17555	6	C	T	T	23	23	UNC93A	T	1	1
HIST1H2BA	255626	broad.mit.edu	36	6	25835335	25835335	+	Missense_Mutation	SNP	C	T	T			TCGA-28-2502-01	TCGA-28-2502-01	C	C								Phase_I	Unspecified				Illumina GAIIx	g.chr6:25835335C>T	uc003nfd.1	+	c.220C>T	c.(220-222)CGT>TGT	p.R74C	HIST1H2AA_uc003nfc.1_5'Flank	NM_170610	NP_733759	Q96A08	H2B1A_HUMAN	histone cluster 1, H2ba	74					nucleosome assembly	nucleosome|nucleus	DNA binding			kidney(1)	1														0.317881	127.759156	132.204611	48	103	CC		KEEP	---	---	---	---	capture			Missense_Mutation	SNP	25835335	25835335	7425	6	C	T	T	27	27	HIST1H2BA	T	1	1
MICB	4277	broad.mit.edu	36	6	31582116	31582116	+	Silent	SNP	C	T	T			TCGA-28-2502-01	TCGA-28-2502-01	C	C								Phase_I	Unspecified				Illumina GAIIx	g.chr6:31582116C>T	uc003ntn.2	+	c.543C>T	c.(541-543)CGC>CGT	p.R181R	MICB_uc003nto.2_Silent_p.R138R	NM_005931	NP_005922	Q29980	MICB_HUMAN	MHC class I polypeptide-related sequence B	181	Extracellular (Potential).				antigen processing and presentation|cytolysis|gamma-delta T cell activation|immune response|immune response-activating cell surface receptor signaling pathway|interspecies interaction between organisms|negative regulation of defense response to virus by host|response to heat|response to oxidative stress|response to retinoic acid	integral to plasma membrane|MHC class I protein complex	natural killer cell lectin-like receptor binding				0														0.309524	66.919581	69.63485	26	58	CC		KEEP	---	---	---	---	capture			Silent	SNP	31582116	31582116	9965	6	C	T	T	27	27	MICB	T	1	1
MEP1A	4224	broad.mit.edu	36	6	46905114	46905114	+	Missense_Mutation	SNP	G	A	A			TCGA-28-2502-01	TCGA-28-2502-01	G	G								Phase_I	Unspecified				Illumina GAIIx	g.chr6:46905114G>A	uc010jzh.1	+	c.991G>A	c.(991-993)GAG>AAG	p.E331K		NM_005588	NP_005579	Q16819	MEP1A_HUMAN	meprin A, alpha	331	Extracellular (Potential).|MAM.				digestion|proteolysis	extracellular space|integral to plasma membrane|soluble fraction	metalloendopeptidase activity|zinc ion binding			pancreas(2)|ovary(1)	3														0.218341	109.836234	126.575132	50	179	GG		KEEP	---	---	---	---	capture	Lung(136;0.192)		Missense_Mutation	SNP	46905114	46905114	9864	6	G	A	A	41	41	MEP1A	A	2	2
GPR116	221395	broad.mit.edu	36	6	46953955	46953955	+	Missense_Mutation	SNP	C	A	A			TCGA-28-2502-01	TCGA-28-2502-01	C	C								Phase_I	Unspecified				Illumina GAIIx	g.chr6:46953955C>A	uc003oyo.2	-	c.1183G>T	c.(1183-1185)GGT>TGT	p.G395C	GPR116_uc003oyp.2_Intron|GPR116_uc003oyq.2_Missense_Mutation_p.G395C|GPR116_uc010jzi.1_Missense_Mutation_p.G67C|GPR116_uc003oyr.2_Missense_Mutation_p.G395C	NM_001098518	NP_056049	Q8IZF2	GP116_HUMAN	G-protein coupled receptor 116	395	Ig-like 2.|Extracellular (Potential).				neuropeptide signaling pathway	integral to membrane|plasma membrane	G-protein coupled receptor activity			central_nervous_system(1)	1						NSCLC(59;410 1274 8751 36715 50546)								0.177515	58.142505	74.701669	30	139	CC		KEEP	---	---	---	---	capture	Lung(136;0.192)		Missense_Mutation	SNP	46953955	46953955	6907	6	C	A	A	22	22	GPR116	A	3	3
MUC17	140453	broad.mit.edu	36	7	100483080	100483080	+	Silent	SNP	C	T	T			TCGA-28-2502-01	TCGA-28-2502-01	C	C								Phase_I	Unspecified				Illumina GAIIx	g.chr7:100483080C>T	uc003uxp.1	+	c.13197C>T	c.(13195-13197)GTC>GTT	p.V4399V	MUC17_uc010lho.1_Non-coding_Transcript	NM_001040105	NP_001035194	Q685J3	MUC17_HUMAN	mucin 17	4399	Helical; (Potential).					extracellular region|integral to membrane|plasma membrane	extracellular matrix constituent, lubricant activity			ovary(14)|breast(3)|lung(2)	19	Lung NSC(181;0.136)|all_lung(186;0.182)													0.215278	70.651623	81.422869	31	113	CC		KEEP	---	---	---	---	capture			Silent	SNP	100483080	100483080	10368	7	C	T	T	31	31	MUC17	T	1	1
OR2A1	346528	broad.mit.edu	36	7	143560577	143560577	+	Missense_Mutation	SNP	G	A	A			TCGA-28-2502-01	TCGA-28-2502-01	G	G								Phase_I	Unspecified				Illumina GAIIx	g.chr7:143560577G>A	uc003wea.1	-	c.293C>T	c.(292-294)ACG>ATG	p.T98M		NM_001005287	NP_001001802	Q8NGT9	OR2A1_HUMAN	olfactory receptor, family 2, subfamily A,	98	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity				0	Melanoma(164;0.14)													0.511364	138.487843	138.498295	45	43	GG		KEEP	---	---	---	---	capture			Missense_Mutation	SNP	143560577	143560577	11380	7	G	A	A	40	40	OR2A1	A	1	1
NOBOX	135935	broad.mit.edu	36	7	143729463	143729463	+	Silent	SNP	G	A	A			TCGA-28-2502-01	TCGA-28-2502-01	G	G								Phase_I	Unspecified				Illumina GAIIx	g.chr7:143729463G>A	uc003wen.1	-	c.453C>T	c.(451-453)ACC>ACT	p.T151T		NM_001080413	NP_001073882			NOBOX oogenesis homeobox											ovary(1)	1	Melanoma(164;0.14)													0.182692	37.470588	47.298671	19	85	GG		KEEP	---	---	---	---	capture			Silent	SNP	143729463	143729463	10915	7	G	A	A	39	39	NOBOX	A	1	1
SDK1	221935	broad.mit.edu	36	7	4120409	4120409	+	Missense_Mutation	SNP	T	C	C			TCGA-28-2502-01	TCGA-28-2502-01	T	T								Phase_I	Unspecified				Illumina GAIIx	g.chr7:4120409T>C	uc003smx.1	+	c.3800T>C	c.(3799-3801)GTG>GCG	p.V1267A	SDK1_uc010kso.1_Missense_Mutation_p.V543A	NM_152744	NP_689957	Q7Z5N4	SDK1_HUMAN	sidekick 1 isoform 1	1267	Fibronectin type-III 6.				cell adhesion	integral to membrane				large_intestine(3)|ovary(2)	5		all_cancers(1;0.127)|Ovarian(82;0.0177)|Myeloproliferative disorder(862;0.194)												0.2	10.940385	13.447364	6	24	TT		KEEP	---	---	---	---	capture		UCEC - Uterine corpus endometrioid carcinoma (126;0.121)|OV - Ovarian serous cystadenocarcinoma(56;9.65e-15)	Missense_Mutation	SNP	4120409	4120409	14454	7	T	C	C	59	59	SDK1	C	4	4
EGFR	1956	broad.mit.edu	36	7	55200574	55200574	+	Silent	SNP	C	T	T			TCGA-28-2502-01	TCGA-28-2502-01	C	C								Phase_I	Unspecified				Illumina GAIIx	g.chr7:55200574C>T	uc003tqk.1	+	c.1830C>T	c.(1828-1830)TAC>TAT	p.Y610Y	EGFR_uc003tqi.1_Silent_p.Y610Y|EGFR_uc003tqj.1_Silent_p.Y610Y|EGFR_uc010kzg.1_Silent_p.Y565Y|EGFR_uc003tqn.1_Non-coding_Transcript	NM_005228	NP_005219	P00533	EGFR_HUMAN	epidermal growth factor receptor isoform a	610	Extracellular (Potential).				activation of phospholipase A2 activity by calcium-mediated signaling|activation of phospholipase C activity|axon guidance|cell proliferation|cell-cell adhesion|negative regulation of apoptosis|negative regulation of epidermal growth factor receptor signaling pathway|ossification|positive regulation of catenin import into nucleus|positive regulation of cell migration|positive regulation of cyclin-dependent protein kinase activity involved in G1/S|positive regulation of epithelial cell proliferation|positive regulation of MAP kinase activity|positive regulation of nitric oxide biosynthetic process|positive regulation of phosphorylation|positive regulation of protein kinase B signaling cascade|protein autophosphorylation|protein insertion into membrane|regulation of nitric-oxide synthase activity|regulation of peptidyl-tyrosine phosphorylation|response to stress|response to UV-A	basolateral plasma membrane|endoplasmic reticulum membrane|endosome|extracellular space|Golgi membrane|integral to membrane|nuclear membrane|Shc-EGFR complex	actin filament binding|ATP binding|double-stranded DNA binding|epidermal growth factor receptor activity|identical protein binding|MAP/ERK kinase kinase activity|protein heterodimerization activity|protein phosphatase binding|receptor signaling protein tyrosine kinase activity			lung(8200)|central_nervous_system(103)|upper_aerodigestive_tract(37)|prostate(32)|ovary(31)|thyroid(23)|breast(11)|peritoneum(9)|oesophagus(9)|salivary_gland(9)|large_intestine(8)|stomach(6)|urinary_tract(6)|skin(5)|adrenal_gland(5)|kidney(4)|soft_tissue(4)|bone(3)|NS(2)|haematopoietic_and_lymphoid_tissue(2)|thymus(2)|liver(2)|eye(1)|pancreas(1)	8515	all_cancers(1;1.57e-46)|all_epithelial(1;5.62e-37)|Lung NSC(1;9.29e-25)|all_lung(1;4.39e-23)|Esophageal squamous(2;7.55e-08)|Breast(14;0.0318)				Cetuximab(DB00002)|Erlotinib(DB00530)|Gefitinib(DB00317)|Lapatinib(DB01259)|Lidocaine(DB00281)|Panitumumab(DB01269)|Trastuzumab(DB00072)			8	p.Y610Y(SJSA1-Tumor)|p.Y610Y(NCIH1648-Tumor)	608	TCGA GBM(3;<1E-8)|TSP Lung(4;<1E-8)			0.125828	19.748194	40.298692	19	132	CC		KEEP	---	---	---	---	capture	GBM - Glioblastoma multiforme(1;0)|all cancers(1;2.19e-314)|Lung(13;4.65e-05)|LUSC - Lung squamous cell carcinoma(13;0.000168)|STAD - Stomach adenocarcinoma(5;0.00164)|Epithelial(13;0.0607)		Silent	SNP	55200574	55200574	5156	7	C	T	T	19	19	EGFR	T	1	1
ASAP1	50807	broad.mit.edu	36	8	131209465	131209465	+	Missense_Mutation	SNP	C	T	T			TCGA-28-2502-01	TCGA-28-2502-01	C	C								Phase_I	Unspecified				Illumina GAIIx	g.chr8:131209465C>T	uc003yta.1	-	c.1271G>A	c.(1270-1272)CGT>CAT	p.R424H	ASAP1_uc003ysz.1_Missense_Mutation_p.R235H	NM_018482	NP_060952	Q9ULH1	ASAP1_HUMAN	development and differentiation enhancing factor	424					cilium morphogenesis|filopodium assembly|regulation of ARF GTPase activity|signal transduction	cytoplasm|membrane	ARF GTPase activator activity|cytoskeletal adaptor activity|SH3 domain binding|zinc ion binding			ovary(4)	4														0.181818	40.440549	50.898362	20	90	CC		KEEP	---	---	---	---	capture			Missense_Mutation	SNP	131209465	131209465	1028	8	C	T	T	19	19	ASAP1	T	1	1
TNKS	8658	broad.mit.edu	36	8	9450989	9450989	+	Missense_Mutation	SNP	A	C	C			TCGA-28-2502-01	TCGA-28-2502-01	A	A								Phase_I	Unspecified				Illumina GAIIx	g.chr8:9450989A>C	uc003wss.1	+	c.130A>C	c.(130-132)ACC>CCC	p.T44P		NM_003747	NP_003738	O95271	TNKS1_HUMAN	tankyrase, TRF1-interacting ankyrin-related	44					mitotic spindle organization|mRNA transport|negative regulation of DNA binding|peptidyl-serine phosphorylation|peptidyl-threonine phosphorylation|positive regulation of telomere maintenance via telomerase|protein auto-ADP-ribosylation|protein localization to chromosome, telomeric region|protein poly-ADP-ribosylation|protein transport|spindle assembly|transmembrane transport	chromosome, centromeric region|Golgi membrane|microsome|nuclear chromosome, telomeric region|nuclear membrane|nuclear pore|pericentriolar material	NAD+ ADP-ribosyltransferase activity|protein binding|zinc ion binding			ovary(1)|kidney(1)	2														0.294118	7.250032	7.908087	5	12	AA		KEEP	---	---	---	---	capture		COAD - Colon adenocarcinoma(149;0.0467)	Missense_Mutation	SNP	9450989	9450989	16860	8	A	C	C	6	6	TNKS	C	4	4
COL27A1	85301	broad.mit.edu	36	9	116054724	116054724	+	Missense_Mutation	SNP	G	A	A			TCGA-28-2502-01	TCGA-28-2502-01	G	G								Phase_I	Unspecified				Illumina GAIIx	g.chr9:116054724G>A	uc004bih.1	+	c.3064G>A	c.(3064-3066)GTG>ATG	p.V1022M	COL27A1_uc004bii.1_Non-coding_Transcript	NM_032888	NP_116277	Q8IZC6	CORA1_HUMAN	collagen, type XXVII, alpha 1	1022	Pro-rich.|Collagen-like 7.|Triple-helical region.				cell adhesion		extracellular matrix structural constituent			ovary(3)	3														0.217391	108.613333	125.497295	50	180	GG		KEEP	---	---	---	---	capture			Missense_Mutation	SNP	116054724	116054724	3823	9	G	A	A	40	40	COL27A1	A	1	1
SARDH	1757	broad.mit.edu	36	9	135587530	135587530	+	Missense_Mutation	SNP	G	C	C			TCGA-28-2502-01	TCGA-28-2502-01	G	G								Phase_I	Unspecified				Illumina GAIIx	g.chr9:135587530G>C	uc004cep.2	-	c.346C>G	c.(346-348)CTG>GTG	p.L116V	SARDH_uc004ceo.1_Missense_Mutation_p.L116V	NM_007101	NP_009032	Q9UL12	SARDH_HUMAN	sarcosine dehydrogenase precursor	116					glycine catabolic process|oxidation-reduction process	mitochondrial matrix	aminomethyltransferase activity|sarcosine dehydrogenase activity				0														0.285714	13.235455	14.429486	8	20	GG		KEEP	---	---	---	---	capture		OV - Ovarian serous cystadenocarcinoma(145;3.21e-07)|Epithelial(140;2.37e-06)|all cancers(34;2.75e-05)	Missense_Mutation	SNP	135587530	135587530	14322	9	G	C	C	34	34	SARDH	C	3	3
LCN12	286256	broad.mit.edu	36	9	138966628	138966628	+	Missense_Mutation	SNP	T	G	G			TCGA-28-2502-01	TCGA-28-2502-01	T	T								Phase_I	Unspecified				Illumina GAIIx	g.chr9:138966628T>G	uc004ckb.1	+	c.28T>G	c.(28-30)TGG>GGG	p.W10G	LCN12_uc004ckc.2_Missense_Mutation_p.W10G	NM_178536	NP_848631	Q6JVE5	LCN12_HUMAN	lipocalcin 12	10					lipid metabolic process	extracellular region	binding|transporter activity				0	all_cancers(76;0.11)	Myeloproliferative disorder(178;0.0511)												0.4	8.08919	8.178667	4	6	TT		KEEP	---	---	---	---	capture	STAD - Stomach adenocarcinoma(284;0.19)	OV - Ovarian serous cystadenocarcinoma(145;7.8e-06)|Epithelial(140;0.000106)	Missense_Mutation	SNP	138966628	138966628	9006	9	T	G	G	59	59	LCN12	G	4	4
FAM47B	170062	broad.mit.edu	36	X	34872030	34872030	+	Silent	SNP	G	A	A			TCGA-28-2502-01	TCGA-28-2502-01	G	G								Phase_I	Unspecified				Illumina GAIIx	g.chrX:34872030G>A	uc004ddi.1	+	c.1161G>A	c.(1159-1161)CCG>CCA	p.P387P		NM_152631	NP_689844	Q8NA70	FA47B_HUMAN	hypothetical protein LOC170062	387										ovary(3)|breast(1)	4														0.58	90.7817	91.06112	29	21	GG		KEEP	---	---	---	---	capture			Silent	SNP	34872030	34872030	5791	23	G	A	A	38	38	FAM47B	A	1	1
