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
ARMC3	219681	broad.mit.edu	36	10	23337800	23337800	+	Missense_Mutation	SNP	A	G	G			TCGA-06-0882-01	TCGA-06-0882-01	A	A								Phase_I	Unspecified				Illumina GAIIx	g.chr10:23337800A>G	uc001irm.2	+	c.1979A>G	c.(1978-1980)AAA>AGA	p.K660R		NM_173081	NP_775104	Q5W041	ARMC3_HUMAN	armadillo repeat containing 3	660							binding				0														0.473684	62.649738	62.672465	18	20	AA		KEEP	---	---	---	---	capture			Missense_Mutation	SNP	23337800	23337800	970	10	A	G	G	1	1	ARMC3	G	4	4
PTEN	5728	broad.mit.edu	36	10	89701880	89701880	+	Missense_Mutation	SNP	G	A	A			TCGA-06-0882-01	TCGA-06-0882-01	G	G								Phase_I	Unspecified				Illumina GAIIx	g.chr10:89701880G>A	uc001kfb.1	+	c.518G>A	c.(517-519)CGC>CAC	p.R173H		NM_000314	NP_000305	P60484	PTEN_HUMAN	phosphatase and tensin homolog	173	Phosphatase tensin-type.		R -> C (in endometrial hyperplasia; loss of phosphatase activity towards Ins(1,3,4,5)P4 and PtdIns(3,4,5)P3; retains ability to bind phospholipid membranes).|R -> P (loss of phosphatase activity towards Ins(1,3,4,5)P4).|R -> H (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.R173H(22)|p.R173C(5)|p.V166fs*17(3)|p.G165fs*9(3)|p.Y27_N212>Y(2)|p.G165_K342del(1)|p.G165_*404del(1)|p.R173P(1)|p.R172fs*5(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)					R173H(RL952_ENDOMETRIUM)	31	p.R173H(RL952-Tumor)	264	TCGA GBM(2;<1E-8)|TSP Lung(26;0.18)			0.333333	137.466293	141.35602	53	106	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	89701880	89701880	13192	10	G	A	A	38	38	PTEN	A	1	1
BSX	390259	broad.mit.edu	36	11	122357422	122357422	+	Nonsense_Mutation	SNP	G	T	T			TCGA-06-0882-01	TCGA-06-0882-01	G	G								Phase_I	Unspecified				Illumina GAIIx	g.chr11:122357422G>T	uc001pyn.2	-	c.168C>A	c.(166-168)TAC>TAA	p.Y56*		NM_001098169	NP_001091639	Q3C1V8	BSH_HUMAN	brain specific homeobox	56							transcription regulator activity				0		Breast(109;0.00249)|Lung NSC(97;0.0177)|all_lung(97;0.0179)|Medulloblastoma(222;0.0425)|all_neural(223;0.112)												0.25	7.088682	8.001797	4	12	GG		KEEP	---	---	---	---	capture		BRCA - Breast invasive adenocarcinoma(274;4.88e-06)|OV - Ovarian serous cystadenocarcinoma(99;0.0361)	Nonsense_Mutation	SNP	122357422	122357422	1567	11	G	T	T	44	44	BSX	T	5	3
SLC22A20	440044	broad.mit.edu	36	11	64738058	64738058	+	Missense_Mutation	SNP	C	A	A			TCGA-06-0882-01	TCGA-06-0882-01	C	C								Phase_I	Unspecified				Illumina GAIIx	g.chr11:64738058C>A	uc009yqe.1	+	c.139C>A	c.(139-141)CCC>ACC	p.P47T		NM_001004326	NP_001004326	A6NK97	S22AK_HUMAN	solute carrier family 22, member 20	45	Extracellular (Potential).				ion transport|transmembrane transport	integral to membrane	transporter activity			central_nervous_system(1)	1														0.363636	8.588621	8.771751	4	7	CC		KEEP	---	---	---	---	capture			Missense_Mutation	SNP	64738058	64738058	14948	11	C	A	A	22	22	SLC22A20	A	3	3
TIGD3	220359	broad.mit.edu	36	11	64881115	64881115	+	Missense_Mutation	SNP	C	G	G			TCGA-06-0882-01	TCGA-06-0882-01	C	C								Phase_I	Unspecified				Illumina GAIIx	g.chr11:64881115C>G	uc001odo.2	+	c.1260C>G	c.(1258-1260)GAC>GAG	p.D420E	TIGD3_uc009yqh.1_Missense_Mutation_p.D420E	NM_145719	NP_663771	Q6B0B8	TIGD3_HUMAN	tigger transposable element derived 3	420						chromosome, centromeric region|nucleus	DNA binding				0														0.310734	168.45894	174.106495	55	122	CC		KEEP	---	---	---	---	capture			Missense_Mutation	SNP	64881115	64881115	16426	11	C	G	G	17	17	TIGD3	G	3	3
MRPL21	219927	broad.mit.edu	36	11	68417462	68417462	+	Missense_Mutation	SNP	C	T	T			TCGA-06-0882-01	TCGA-06-0882-01	C	C								Phase_I	Unspecified				Illumina GAIIx	g.chr11:68417462C>T	uc001ooi.1	-	c.434G>A	c.(433-435)GGC>GAC	p.G145D	MRPL21_uc001ooh.1_Missense_Mutation_p.G60D	NM_181514	NP_852616	Q7Z2W9	RM21_HUMAN	mitochondrial ribosomal protein L21 isoform d	145					translation	mitochondrion|ribosome	RNA binding|structural constituent of ribosome				0														0.163934	14.810339	21.358575	10	51	CC		KEEP	---	---	---	---	capture	STAD - Stomach adenocarcinoma(18;0.0208)|LUAD - Lung adenocarcinoma(13;0.0713)		Missense_Mutation	SNP	68417462	68417462	10180	11	C	T	T	26	26	MRPL21	T	2	2
ITGB7	3695	broad.mit.edu	36	12	51876781	51876781	+	Missense_Mutation	SNP	C	T	T			TCGA-06-0882-01	TCGA-06-0882-01	C	C								Phase_I	Unspecified				Illumina GAIIx	g.chr12:51876781C>T	uc009zmv.1	-	c.665G>A	c.(664-666)CGC>CAC	p.R222H	ITGB7_uc001scc.1_Missense_Mutation_p.R222H	NM_000889	NP_000880	P26010	ITB7_HUMAN	integrin, beta 7	222	VWFA.|Extracellular (Potential).				cell-matrix adhesion|integrin-mediated signaling pathway|multicellular organismal development|regulation of immune response	integrin complex	identical protein binding|metal ion binding|receptor activity			ovary(3)|urinary_tract(1)|breast(1)|skin(1)	6														0.40625	33.294391	33.531711	13	19	CC		KEEP	---	---	---	---	capture			Missense_Mutation	SNP	51876781	51876781	8204	12	C	T	T	27	27	ITGB7	T	1	1
LHFP	10186	broad.mit.edu	36	13	39073282	39073282	+	Silent	SNP	G	A	A			TCGA-06-0882-01	TCGA-06-0882-01	G	G								Phase_I	Unspecified				Illumina GAIIx	g.chr13:39073282G>A	uc001uxf.1	-	c.72C>T	c.(70-72)TGC>TGT	p.C24C		NM_005780	NP_005771	Q9Y693	LHFP_HUMAN	lipoma HMGIC fusion partner	24						integral to membrane	DNA binding		HMGA2/LHFP(2)	soft_tissue(2)|lung(1)	3		Lung NSC(96;3.55e-06)|Breast(139;0.00408)|Ovarian(182;0.0107)|Prostate(109;0.0118)|Lung SC(185;0.0719)|Hepatocellular(188;0.114)								71				0.284314	137.349703	145.880828	58	146	GG		KEEP	---	---	---	---	capture		OV - Ovarian serous cystadenocarcinoma(117;6.48e-46)|Epithelial(112;8.43e-42)|all cancers(112;1.42e-36)|GBM - Glioblastoma multiforme(144;0.00187)|BRCA - Breast invasive adenocarcinoma(63;0.00886)|KIRC - Kidney renal clear cell carcinoma(186;0.048)|Kidney(163;0.0601)|LUSC - Lung squamous cell carcinoma(192;0.105)	Silent	SNP	39073282	39073282	9089	13	G	A	A	38	38	LHFP	A	1	1
SALL2	6297	broad.mit.edu	36	14	21061252	21061252	+	Missense_Mutation	SNP	G	C	C			TCGA-06-0882-01	TCGA-06-0882-01	G	G								Phase_I	Unspecified				Illumina GAIIx	g.chr14:21061252G>C	uc001wbe.1	-	c.2450C>G	c.(2449-2451)GCA>GGA	p.A817G	SALL2_uc001wbf.2_Intron|SALL2_uc001wbg.1_Intron	NM_005407	NP_005398	Q9Y467	SALL2_HUMAN	sal-like 2	817	Poly-Ala.						DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(2)|large_intestine(1)	3	all_cancers(95;0.000662)													0.272727	9.72725	10.762471	6	16	GG		KEEP	---	---	---	---	capture		GBM - Glioblastoma multiforme(265;0.0151)	Missense_Mutation	SNP	21061252	21061252	14291	14	G	C	C	46	46	SALL2	C	3	3
PLCB2	5330	broad.mit.edu	36	15	38383507	38383507	+	Missense_Mutation	SNP	G	A	A			TCGA-06-0882-01	TCGA-06-0882-01	G	G								Phase_I	Unspecified				Illumina GAIIx	g.chr15:38383507G>A	uc001zld.1	-	c.149C>T	c.(148-150)ACG>ATG	p.T50M	PLCB2_uc010bbo.1_Missense_Mutation_p.T50M|PLCB2_uc001zle.2_Missense_Mutation_p.T50M	NM_004573	NP_004564	Q00722	PLCB2_HUMAN	phospholipase C, beta 2	50					activation of phospholipase C activity|intracellular signal transduction|lipid catabolic process|phospholipid metabolic process|synaptic transmission	cytosol	calcium ion binding|phosphatidylinositol phospholipase C activity|signal transducer activity			ovary(3)|breast(3)|kidney(1)|pancreas(1)	8		all_cancers(109;9.35e-19)|all_epithelial(112;1.18e-15)|Lung NSC(122;2.45e-11)|all_lung(180;6.47e-10)|Melanoma(134;0.0574)|Ovarian(310;0.0822)|Colorectal(260;0.117)								1073				0.333333	13.171734	13.539877	5	10	GG		KEEP	---	---	---	---	capture		GBM - Glioblastoma multiforme(113;9.38e-06)|BRCA - Breast invasive adenocarcinoma(123;0.0508)	Missense_Mutation	SNP	38383507	38383507	12454	15	G	A	A	40	40	PLCB2	A	1	1
RPAP1	26015	broad.mit.edu	36	15	39597306	39597306	+	Silent	SNP	T	C	C			TCGA-06-0882-01	TCGA-06-0882-01	T	T								Phase_I	Unspecified				Illumina GAIIx	g.chr15:39597306T>C	uc001zod.1	-	c.4014A>G	c.(4012-4014)ACA>ACG	p.T1338T	RPAP1_uc001zoc.1_Silent_p.T357T	NM_015540	NP_056355	Q9BWH6	RPAP1_HUMAN	RNA polymerase II associated protein 1	1338						nucleus	DNA binding|DNA-directed RNA polymerase activity			large_intestine(1)	1		all_cancers(109;6.59e-20)|all_epithelial(112;7.67e-17)|Lung NSC(122;5.34e-11)|all_lung(180;4.17e-10)|Melanoma(134;0.0179)|Ovarian(310;0.143)|Colorectal(260;0.173)												0.273874	387.377504	412.936277	152	403	TT		KEEP	---	---	---	---	capture		OV - Ovarian serous cystadenocarcinoma(18;2.84e-17)|GBM - Glioblastoma multiforme(113;1.68e-06)|Colorectal(105;0.0163)|BRCA - Breast invasive adenocarcinoma(123;0.117)	Silent	SNP	39597306	39597306	14020	15	T	C	C	51	51	RPAP1	C	4	4
RLTPR	146206	broad.mit.edu	36	16	66240670	66240670	+	Silent	SNP	C	T	T			TCGA-06-0882-01	TCGA-06-0882-01	C	C								Phase_I	Unspecified				Illumina GAIIx	g.chr16:66240670C>T	uc002etn.1	+	c.1701C>T	c.(1699-1701)GAC>GAT	p.D567D	RLTPR_uc010cel.1_Silent_p.D560D	NM_001013838	NP_001013860	Q6F5E8	LR16C_HUMAN	RGD motif, leucine rich repeats, tropomodulin	567	LRR 12.									breast(1)	1		Acute lymphoblastic leukemia(13;3.23e-05)|all_hematologic(13;0.00251)|Ovarian(137;0.192)												0.282051	26.123759	27.779346	11	28	CC		KEEP	---	---	---	---	capture		OV - Ovarian serous cystadenocarcinoma(108;0.0146)|Epithelial(162;0.0481)|all cancers(182;0.232)	Silent	SNP	66240670	66240670	13871	16	C	T	T	19	19	RLTPR	T	1	1
DRG2	1819	broad.mit.edu	36	17	17948676	17948676	+	Missense_Mutation	SNP	A	T	T			TCGA-06-0882-01	TCGA-06-0882-01	A	A								Phase_I	Unspecified				Illumina GAIIx	g.chr17:17948676A>T	uc002gsh.1	+	c.910A>T	c.(910-912)ACA>TCA	p.T304S	DRG2_uc002gsi.1_Non-coding_Transcript|DRG2_uc002gsj.1_Missense_Mutation_p.T304S	NM_001388	NP_001379	P55039	DRG2_HUMAN	developmentally regulated GTP binding protein 2	304					signal transduction		GTP binding			ovary(1)	1	all_neural(463;0.228)													0.230769	49.240391	55.280684	21	70	AA		KEEP	---	---	---	---	capture			Missense_Mutation	SNP	17948676	17948676	4946	17	A	T	T	6	6	DRG2	T	4	4
MED24	9862	broad.mit.edu	36	17	35445061	35445061	+	Missense_Mutation	SNP	G	C	C			TCGA-06-0882-01	TCGA-06-0882-01	G	G								Phase_I	Unspecified				Illumina GAIIx	g.chr17:35445061G>C	uc002hts.1	-	c.469C>G	c.(469-471)CTG>GTG	p.L157V	MED24_uc002htt.1_Missense_Mutation_p.L132V|MED24_uc002htu.1_Missense_Mutation_p.L119V|MED24_uc010cwn.1_Missense_Mutation_p.L119V	NM_014815	NP_055630	O75448	MED24_HUMAN	mediator complex subunit 24 isoform 1	132	LXXLL motif 1.				androgen receptor signaling pathway|regulation of transcription, DNA-dependent|transcription initiation from RNA polymerase II promoter	mediator complex	ligand-dependent nuclear receptor transcription coactivator activity|receptor activity|RNA polymerase II transcription mediator activity|thyroid hormone receptor binding|transcription activator activity|vitamin D receptor binding			ovary(1)	1	Colorectal(19;0.000442)											OREG0024387	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	0.1875	8.745599	11.664951	6	26	GG		KEEP	---	---	---	---	capture			Missense_Mutation	SNP	35445061	35445061	9831	17	G	C	C	34	34	MED24	C	3	3
HOXB9	3219	broad.mit.edu	36	17	44058490	44058490	+	Missense_Mutation	SNP	G	C	C			TCGA-06-0882-01	TCGA-06-0882-01	G	G								Phase_I	Unspecified				Illumina GAIIx	g.chr17:44058490G>C	uc002inx.1	-	c.141C>G	c.(139-141)TTC>TTG	p.F47L		NM_024017	NP_076922	P17482	HXB9_HUMAN	homeobox B9	47					canonical Wnt receptor signaling pathway|cell chemotaxis	mitochondrion|nucleus	protein binding|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|transcription activator activity				0														0.25	8.219839	8.901149	3	9	GG		KEEP	---	---	---	---	capture			Missense_Mutation	SNP	44058490	44058490	7600	17	G	C	C	41	41	HOXB9	C	3	3
HOXB9	3219	broad.mit.edu	36	17	44058537	44058537	+	Nonsense_Mutation	SNP	G	A	A			TCGA-06-0882-01	TCGA-06-0882-01	G	G								Phase_I	Unspecified				Illumina GAIIx	g.chr17:44058537G>A	uc002inx.1	-	c.94C>T	c.(94-96)CAG>TAG	p.Q32*		NM_024017	NP_076922	P17482	HXB9_HUMAN	homeobox B9	32					canonical Wnt receptor signaling pathway|cell chemotaxis	mitochondrion|nucleus	protein binding|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|transcription activator activity				0														0.294118	11.868103	12.513219	5	12	GG		KEEP	---	---	---	---	capture			Nonsense_Mutation	SNP	44058537	44058537	7600	17	G	A	A	47	47	HOXB9	A	5	2
CACNG1	786	broad.mit.edu	36	17	62471463	62471463	+	Silent	SNP	C	T	T			TCGA-06-0882-01	TCGA-06-0882-01	C	C								Phase_I	Unspecified				Illumina GAIIx	g.chr17:62471463C>T	uc002jfu.1	+	c.225C>T	c.(223-225)CCC>CCT	p.P75P		NM_000727	NP_000718	Q06432	CCG1_HUMAN	voltage-dependent calcium channel gamma-1	75					muscle contraction	voltage-gated calcium channel complex	voltage-gated calcium channel activity				0	all_cancers(12;1.04e-10)|Breast(2;1.45e-16)|all_epithelial(3;4.81e-12)				Amlodipine(DB00381)|Diltiazem(DB00343)|Ibutilide(DB00308)|Lercanidipine(DB00528)|Magnesium Sulfate(DB00653)|Nimodipine(DB00393)|Nitrendipine(DB01054)|Verapamil(DB00661)									0.135135	6.354745	11.125796	5	32	CC		KEEP	---	---	---	---	capture			Silent	SNP	62471463	62471463	2672	17	C	T	T	23	23	CACNG1	T	1	1
SETBP1	26040	broad.mit.edu	36	18	40784384	40784384	+	Missense_Mutation	SNP	G	T	T			TCGA-06-0882-01	TCGA-06-0882-01	G	G								Phase_I	Unspecified				Illumina GAIIx	g.chr18:40784384G>T	uc010dni.1	+	c.919G>T	c.(919-921)GCA>TCA	p.A307S	SETBP1_uc002laz.1_Missense_Mutation_p.A307S	NM_015559	NP_056374	Q9Y6X0	SETBP_HUMAN	SET binding protein 1 isoform a	361						nucleus	DNA binding			large_intestine(1)	1														0.172662	45.208353	59.283107	24	115	GG		KEEP	---	---	---	---	capture		Colorectal(1;0.0622)|COAD - Colon adenocarcinoma(74;0.201)	Missense_Mutation	SNP	40784384	40784384	14617	18	G	T	T	34	34	SETBP1	T	3	3
LAMA1	284217	broad.mit.edu	36	18	6968310	6968310	+	Silent	SNP	C	T	T			TCGA-06-0882-01	TCGA-06-0882-01	C	C								Phase_I	Unspecified				Illumina GAIIx	g.chr18:6968310C>T	uc002knm.1	-	c.6075G>A	c.(6073-6075)ACG>ACA	p.T2025T		NM_005559	NP_005550	P25391	LAMA1_HUMAN	laminin, alpha 1 precursor	2025	Domain II and I.				axon guidance|cell adhesion|cell surface receptor linked signaling pathway|regulation of cell adhesion|regulation of cell migration|regulation of embryonic development	extracellular space|laminin-1 complex|laminin-3 complex	extracellular matrix structural constituent|receptor binding			ovary(8)|large_intestine(4)|breast(2)|pancreas(2)|central_nervous_system(1)	17		Colorectal(10;0.172)			Alteplase(DB00009)|Anistreplase(DB00029)|Reteplase(DB00015)|Tenecteplase(DB00031)					1597				0.271523	93.005036	100.117401	41	110	CC		KEEP	---	---	---	---	capture			Silent	SNP	6968310	6968310	8928	18	C	T	T	27	27	LAMA1	T	1	1
CPAMD8	27151	broad.mit.edu	36	19	16868126	16868126	+	Missense_Mutation	SNP	G	C	C			TCGA-06-0882-01	TCGA-06-0882-01	G	G								Phase_I	Unspecified				Illumina GAIIx	g.chr19:16868126G>C	uc002nfb.1	-	c.5428C>G	c.(5428-5430)CCG>GCG	p.P1810A	CPAMD8_uc002nfd.1_Missense_Mutation_p.P275A	NM_015692	NP_056507	Q8IZJ3	CPMD8_HUMAN	C3 and PZP-like, alpha-2-macroglobulin domain	1763						extracellular space|plasma membrane	serine-type endopeptidase inhibitor activity			ovary(4)|breast(4)|large_intestine(3)|pancreas(1)	12										1067				0.4	8.519946	8.628162	4	6	GG		KEEP	---	---	---	---	capture			Missense_Mutation	SNP	16868126	16868126	3933	19	G	C	C	42	42	CPAMD8	C	3	3
UNC13A	23025	broad.mit.edu	36	19	17641464	17641464	+	Missense_Mutation	SNP	T	C	C			TCGA-06-0882-01	TCGA-06-0882-01	T	T								Phase_I	Unspecified				Illumina GAIIx	g.chr19:17641464T>C	uc002nhd.1	-	c.556A>G	c.(556-558)ACG>GCG	p.T186A		NM_001080421	NP_001073890	Q9UPW8	UN13A_HUMAN	unc-13 homolog A	98					exocytosis|intracellular signal transduction	cell junction|cytoplasm|presynaptic membrane	metal ion binding			ovary(3)	3														0.666667	10.201496	10.381235	6	3	TT		KEEP	---	---	---	---	capture			Missense_Mutation	SNP	17641464	17641464	17542	19	T	C	C	58	58	UNC13A	C	4	4
MEGF8	1954	broad.mit.edu	36	19	47553408	47553408	+	Missense_Mutation	SNP	G	A	A			TCGA-06-0882-01	TCGA-06-0882-01	G	G								Phase_I	Unspecified				Illumina GAIIx	g.chr19:47553408G>A	uc002otl.2	+	c.4642G>A	c.(4642-4644)GTG>ATG	p.V1548M	MEGF8_uc002otm.2_Missense_Mutation_p.V1156M	NM_001410	NP_001401	Q7Z7M0	MEGF8_HUMAN	multiple EGF-like-domains 8	1615	Extracellular (Potential).|Kelch 8.					integral to membrane	calcium ion binding|structural molecule activity			ovary(1)	1		Prostate(69;0.00682)												0.16129	32.753195	46.265382	20	104	GG		KEEP	---	---	---	---	capture			Missense_Mutation	SNP	47553408	47553408	9852	19	G	A	A	40	40	MEGF8	A	1	1
DUXA	503835	broad.mit.edu	36	19	62361607	62361607	+	Silent	SNP	T	C	C			TCGA-06-0882-01	TCGA-06-0882-01	T	T								Phase_I	Unspecified				Illumina GAIIx	g.chr19:62361607T>C	uc002qoa.1	-	c.339A>G	c.(337-339)TTA>TTG	p.L113L		NM_001012729	NP_001012747	A6NLW8	DUXA_HUMAN	double homeobox A	113	Homeobox 2.				regulation of transcription, DNA-dependent	nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity			ovary(1)	1		Colorectal(82;5.46e-05)|all_neural(62;0.0218)|Ovarian(87;0.0822)|Renal(1328;0.157)												0.264706	135.712751	144.20968	45	125	TT		KEEP	---	---	---	---	capture		UCEC - Uterine corpus endometrioid carcinoma (67;0.168)|GBM - Glioblastoma multiforme(193;0.0123)	Silent	SNP	62361607	62361607	5020	19	T	C	C	57	57	DUXA	C	4	4
FCRL4	83417	broad.mit.edu	36	1	155817956	155817956	+	Missense_Mutation	SNP	C	T	T			TCGA-06-0882-01	TCGA-06-0882-01	C	C								Phase_I	Unspecified				Illumina GAIIx	g.chr1:155817956C>T	uc001fqw.1	-	c.1238G>A	c.(1237-1239)CGG>CAG	p.R413Q		NM_031282	NP_112572	Q96PJ5	FCRL4_HUMAN	Fc receptor-like 4	413	Cytoplasmic (Potential).					integral to membrane|plasma membrane	receptor activity			ovary(2)|kidney(1)	3	all_hematologic(112;0.0378)|Hepatocellular(266;0.178)	Prostate(1639;0.245)							p.R413Q(NCIH211-Tumor)	315				0.246914	50.96385	55.68386	20	61	CC		KEEP	---	---	---	---	capture			Missense_Mutation	SNP	155817956	155817956	6034	1	C	T	T	23	23	FCRL4	T	1	1
PAPPA2	60676	broad.mit.edu	36	1	174928036	174928036	+	Silent	SNP	T	C	C			TCGA-06-0882-01	TCGA-06-0882-01	T	T								Phase_I	Unspecified				Illumina GAIIx	g.chr1:174928036T>C	uc001gkz.1	+	c.2583T>C	c.(2581-2583)ACT>ACC	p.T861T	PAPPA2_uc009www.1_Non-coding_Transcript	NM_020318	NP_064714	Q9BXP8	PAPP2_HUMAN	pappalysin 2 isoform 1	861					cell differentiation|proteolysis|regulation of cell growth	extracellular region|intracellular|membrane	metalloendopeptidase activity|zinc ion binding			ovary(7)|central_nervous_system(5)|lung(1)|breast(1)	14														0.27193	180.756929	191.446434	62	166	TT		KEEP	---	---	---	---	capture			Silent	SNP	174928036	174928036	11850	1	T	C	C	53	53	PAPPA2	C	4	4
RAB3GAP2	25782	broad.mit.edu	36	1	218402204	218402204	+	Missense_Mutation	SNP	A	C	C			TCGA-06-0882-01	TCGA-06-0882-01	A	A								Phase_I	Unspecified				Illumina GAIIx	g.chr1:218402204A>C	uc001hme.1	-	c.3184T>G	c.(3184-3186)TTA>GTA	p.L1062V	RAB3GAP2_uc009xdv.1_Missense_Mutation_p.L1062V|RAB3GAP2_uc001hmf.1_Non-coding_Transcript|RAB3GAP2_uc001hmg.1_Missense_Mutation_p.L642V|RAB3GAP2_uc001hmh.1_Missense_Mutation_p.L6V	NM_012414	NP_036546	Q9H2M9	RBGPR_HUMAN	rab3 GTPase-activating protein, non-catalytic	1062					intracellular protein transport	cytoplasm|soluble fraction	GTPase activator activity|protein heterodimerization activity			central_nervous_system(1)	1														0.223602	88.011665	99.321855	36	125	AA		KEEP	---	---	---	---	capture		GBM - Glioblastoma multiforme(131;0.0443)	Missense_Mutation	SNP	218402204	218402204	13395	1	A	C	C	3	3	RAB3GAP2	C	4	4
C1orf177	163747	broad.mit.edu	36	1	55053226	55053226	+	Missense_Mutation	SNP	G	A	A			TCGA-06-0882-01	TCGA-06-0882-01	G	G								Phase_I	Unspecified				Illumina GAIIx	g.chr1:55053226G>A	uc001cyb.2	+	c.976G>A	c.(976-978)GTC>ATC	p.V326I	C1orf177_uc001cya.2_Missense_Mutation_p.V326I	NM_001110533	NP_001104003	Q3ZCV2	CA177_HUMAN	hypothetical protein LOC163747 isoform 2	326											0														0.265193	113.432244	122.443481	48	133	GG		KEEP	---	---	---	---	capture			Missense_Mutation	SNP	55053226	55053226	2084	1	G	A	A	40	40	C1orf177	A	1	1
USP24	23358	broad.mit.edu	36	1	55310111	55310111	+	Silent	SNP	A	G	G			TCGA-06-0882-01	TCGA-06-0882-01	A	A								Phase_I	Unspecified				Illumina GAIIx	g.chr1:55310111A>G	uc001cyg.2	-	c.7284T>C	c.(7282-7284)AGT>AGC	p.S2428S		NM_015306	NP_056121	Q9UPU5	UBP24_HUMAN	ubiquitin specific protease 24	2588					ubiquitin-dependent protein catabolic process		binding|cysteine-type peptidase activity|ubiquitin thiolesterase activity			ovary(6)|kidney(6)|breast(1)	13												OREG0013507	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	0.2	6.588081	8.264121	4	16	AA		KEEP	---	---	---	---	capture			Silent	SNP	55310111	55310111	17618	1	A	G	G	10	10	USP24	G	4	4
REM1	28954	broad.mit.edu	36	20	29533929	29533929	+	Missense_Mutation	SNP	G	A	A			TCGA-06-0882-01	TCGA-06-0882-01	G	G								Phase_I	Unspecified				Illumina GAIIx	g.chr20:29533929G>A	uc002wwa.1	+	c.602G>A	c.(601-603)CGC>CAC	p.R201H		NM_014012	NP_054731	O75628	REM1_HUMAN	RAS-like GTP-binding protein REM	201					small GTPase mediated signal transduction	membrane	calmodulin binding|GTP binding|GTPase activity			pancreas(2)	2	all_cancers(5;0.000119)|Lung NSC(7;1.32e-05)|all_lung(7;2.14e-05)|all_hematologic(12;0.158)|Ovarian(7;0.198)									265				0.196078	33.579435	42.340447	20	82	GG		KEEP	---	---	---	---	capture	Colorectal(19;0.00254)|COAD - Colon adenocarcinoma(19;0.0347)		Missense_Mutation	SNP	29533929	29533929	13691	20	G	A	A	38	38	REM1	A	1	1
ADRA1D	146	broad.mit.edu	36	20	4176691	4176691	+	Missense_Mutation	SNP	C	G	G			TCGA-06-0882-01	TCGA-06-0882-01	C	C								Phase_I	Unspecified				Illumina GAIIx	g.chr20:4176691C>G	uc002wkr.2	-	c.914G>C	c.(913-915)CGC>CCC	p.R305P		NM_000678	NP_000669	P25100	ADA1D_HUMAN	alpha-1D-adrenergic receptor	305	Cytoplasmic (By similarity).				cell proliferation|cell-cell signaling|DNA metabolic process|G-protein signaling, coupled to cAMP nucleotide second messenger|multicellular organismal development|positive regulation of cell proliferation	integral to plasma membrane	alpha1-adrenergic receptor activity				0					Alfuzosin(DB00346)|Bethanidine(DB00217)|Dapiprazole(DB00298)|Debrisoquin(DB04840)|Doxazosin(DB00590)|Guanadrel Sulfate(DB00226)|Guanethidine(DB01170)|Methotrimeprazine(DB01403)|Norepinephrine(DB00368)|Promazine(DB00420)|Propericiazine(DB01608)|Propiomazine(DB00777)|Sertindole(DB06144)|Tamsulosin(DB00706)|Terazosin(DB01162)									0.307692	7.590246	8.021972	4	9	CC		KEEP	---	---	---	---	capture			Missense_Mutation	SNP	4176691	4176691	337	20	C	G	G	27	27	ADRA1D	G	3	3
C21orf2	755	broad.mit.edu	36	21	44577377	44577377	+	Missense_Mutation	SNP	T	G	G			TCGA-06-0882-01	TCGA-06-0882-01	T	T								Phase_I	Unspecified				Illumina GAIIx	g.chr21:44577377T>G	uc002zeq.2	-	c.340A>C	c.(340-342)ACC>CCC	p.T114P	C21orf2_uc010gps.1_5'UTR|C21orf2_uc002zeo.1_Missense_Mutation_p.T73P|C21orf2_uc002zep.2_Missense_Mutation_p.T114P|C21orf2_uc002zer.2_Missense_Mutation_p.T114P	NM_004928	NP_004919	O43822	CU002_HUMAN	hypothetical protein LOC755	114	LRRCT.										0														0.470588	8.665708	8.7009	8	9	TT		KEEP	---	---	---	---	capture		Colorectal(79;0.0806)	Missense_Mutation	SNP	44577377	44577377	2203	21	T	G	G	59	59	C21orf2	G	4	4
TRPM2	7226	broad.mit.edu	36	21	44650975	44650975	+	Missense_Mutation	SNP	C	A	A			TCGA-06-0882-01	TCGA-06-0882-01	C	C								Phase_I	Unspecified				Illumina GAIIx	g.chr21:44650975C>A	uc010gpt.1	+	c.2861C>A	c.(2860-2862)GCC>GAC	p.A954D	TRPM2_uc002zet.1_Missense_Mutation_p.A954D|TRPM2_uc002zeu.1_Missense_Mutation_p.A954D|TRPM2_uc002zew.1_Missense_Mutation_p.A954D|TRPM2_uc002zex.1_Missense_Mutation_p.A740D|TRPM2_uc002zey.1_Missense_Mutation_p.A467D	NM_003307	NP_003298	O94759	TRPM2_HUMAN	transient receptor potential cation channel,	954	Helical; (Potential).					integral to plasma membrane	ADP-ribose diphosphatase activity|calcium channel activity|sodium channel activity			ovary(1)|central_nervous_system(1)|pancreas(1)	3														0.233333	14.208927	16.163006	7	23	CC		KEEP	---	---	---	---	capture			Missense_Mutation	SNP	44650975	44650975	17137	21	C	A	A	26	26	TRPM2	A	3	3
TTN	7273	broad.mit.edu	36	2	179171771	179171771	+	Missense_Mutation	SNP	C	T	T			TCGA-06-0882-01	TCGA-06-0882-01	C	C								Phase_I	Unspecified				Illumina GAIIx	g.chr2:179171771C>T	uc002umr.1	-	c.49207G>A	c.(49207-49209)GTG>ATG	p.V16403M	TTN_uc002ums.1_Missense_Mutation_p.V10098M|TTN_uc010frc.1_Missense_Mutation_p.V10031M|TTN_uc010frd.1_Missense_Mutation_p.V9906M	NM_133378	NP_596869	Q8WZ42	TITIN_HUMAN	titin isoform N2-A	17330										ovary(58)|stomach(19)|large_intestine(17)|lung(16)|skin(16)|breast(10)|pancreas(7)|kidney(4)|central_nervous_system(3)|urinary_tract(2)|upper_aerodigestive_tract(1)	153										8722				0.226974	149.902914	170.648317	69	235	CC		KEEP	---	---	---	---	capture	OV - Ovarian serous cystadenocarcinoma(117;0.023)|Epithelial(96;0.0454)|all cancers(119;0.134)		Missense_Mutation	SNP	179171771	179171771	17290	2	C	T	T	19	19	TTN	T	1	1
CPS1	1373	broad.mit.edu	36	2	211178125	211178125	+	Missense_Mutation	SNP	G	C	C			TCGA-06-0882-01	TCGA-06-0882-01	G	G								Phase_I	Unspecified				Illumina GAIIx	g.chr2:211178125G>C	uc010fur.1	+	c.1909G>C	c.(1909-1911)GAA>CAA	p.E637Q	CPS1_uc002vee.2_Missense_Mutation_p.E631Q|CPS1_uc010fus.1_Missense_Mutation_p.E180Q	NM_001122633	NP_001116105	P31327	CPSM_HUMAN	carbamoyl-phosphate synthetase 1 isoform a	631	ATP-grasp 1.				carbamoyl phosphate biosynthetic process|citrulline biosynthetic process|glutamine metabolic process|glycogen catabolic process|nitric oxide metabolic process|positive regulation of vasodilation|response to lipopolysaccharide|triglyceride catabolic process|urea cycle	mitochondrial nucleoid	ATP binding|carbamoyl-phosphate synthase (ammonia) activity			ovary(8)|central_nervous_system(3)|breast(1)	12														0.266187	105.410467	112.276154	37	102	GG		KEEP	---	---	---	---	capture		Epithelial(149;0.00697)|Lung(261;0.0521)|LUSC - Lung squamous cell carcinoma(261;0.0544)|all cancers(144;0.0843)	Missense_Mutation	SNP	211178125	211178125	3961	2	G	C	C	33	33	CPS1	C	3	3
SPEG	10290	broad.mit.edu	36	2	220057484	220057484	+	Missense_Mutation	SNP	T	G	G			TCGA-06-0882-01	TCGA-06-0882-01	T	T								Phase_I	Unspecified				Illumina GAIIx	g.chr2:220057484T>G	uc010fwg.1	+	c.7055T>G	c.(7054-7056)CTG>CGG	p.L2352R		NM_005876	NP_005867	Q15772	SPEG_HUMAN	SPEG complex locus	2352	Arg-rich.				muscle organ development|negative regulation of cell proliferation|protein phosphorylation	nucleus	ATP binding|protein serine/threonine kinase activity			ovary(4)|stomach(2)|central_nervous_system(1)	7		Renal(207;0.0183)								482				0.363636	6.387717	6.57075	4	7	TT		KEEP	---	---	---	---	capture		Epithelial(149;4.5e-10)|all cancers(144;7.93e-08)|Lung(261;0.00639)|LUSC - Lung squamous cell carcinoma(224;0.00829)|READ - Rectum adenocarcinoma(5;0.163)	Missense_Mutation	SNP	220057484	220057484	15548	2	T	G	G	55	55	SPEG	G	4	4
OTOF	9381	broad.mit.edu	36	2	26540412	26540412	+	Missense_Mutation	SNP	C	T	T			TCGA-06-0882-01	TCGA-06-0882-01	C	C								Phase_I	Unspecified				Illumina GAIIx	g.chr2:26540412C>T	uc002rhk.1	-	c.5027G>A	c.(5026-5028)CGC>CAC	p.R1676H	OTOF_uc002rhh.1_Missense_Mutation_p.R909H|OTOF_uc002rhi.1_Missense_Mutation_p.R986H|OTOF_uc002rhj.1_Missense_Mutation_p.R909H	NM_194248	NP_919224	Q9HC10	OTOF_HUMAN	otoferlin isoform a	1676	Cytoplasmic (Potential).				cellular membrane fusion|sensory perception of sound|synaptic vesicle exocytosis	basolateral plasma membrane|cell junction|cytosol|endoplasmic reticulum membrane|integral to membrane|membrane fraction|synaptic vesicle membrane	calcium ion binding			ovary(3)|breast(2)|central_nervous_system(1)|pancreas(1)	7	Acute lymphoblastic leukemia(172;0.155)|all_hematologic(175;0.215)					GBM(102;732 1451 20652 24062 31372)								0.229391	136.658586	155.396364	64	215	CC		KEEP	---	---	---	---	capture			Missense_Mutation	SNP	26540412	26540412	11715	2	C	T	T	27	27	OTOF	T	1	1
SIX3	6496	broad.mit.edu	36	2	45023258	45023258	+	Missense_Mutation	SNP	G	C	C			TCGA-06-0882-01	TCGA-06-0882-01	G	G								Phase_I	Unspecified				Illumina GAIIx	g.chr2:45023258G>C	uc002run.1	+	c.511G>C	c.(511-513)GAG>CAG	p.E171Q		NM_005413	NP_005404	O95343	SIX3_HUMAN	sine oculis homeobox homolog 3	171					visual perception	nucleus					0		all_hematologic(82;0.151)|Acute lymphoblastic leukemia(82;0.175)												0.166667	8.186349	10.713418	4	20	GG		KEEP	---	---	---	---	capture			Missense_Mutation	SNP	45023258	45023258	14843	2	G	C	C	37	37	SIX3	C	3	3
CNTN6	27255	broad.mit.edu	36	3	1402473	1402473	+	Missense_Mutation	SNP	A	G	G			TCGA-06-0882-01	TCGA-06-0882-01	A	A								Phase_I	Unspecified				Illumina GAIIx	g.chr3:1402473A>G	uc003boz.1	+	c.2696A>G	c.(2695-2697)AAA>AGA	p.K899R	CNTN6_uc003bpa.1_Missense_Mutation_p.K899R	NM_014461	NP_055276	Q9UQ52	CNTN6_HUMAN	contactin 6	899					axon guidance|cell adhesion|central nervous system development|Notch signaling pathway	anchored to membrane|plasma membrane				lung(2)|breast(2)|pancreas(1)	5		all_cancers(2;0.000164)|all_epithelial(2;0.107)								1038				0.252252	157.404926	169.771895	56	166	AA		KEEP	---	---	---	---	capture		Epithelial(13;0.000233)|all cancers(10;0.0013)|OV - Ovarian serous cystadenocarcinoma(96;0.0139)	Missense_Mutation	SNP	1402473	1402473	3783	3	A	G	G	1	1	CNTN6	G	4	4
MOBP	4336	broad.mit.edu	36	3	39518754	39518754	+	Missense_Mutation	SNP	G	C	C			TCGA-06-0882-01	TCGA-06-0882-01	G	G								Phase_I	Unspecified				Illumina GAIIx	g.chr3:39518754G>C	uc003cjv.1	+	c.190G>C	c.(190-192)GCC>CCC	p.A64P	MOBP_uc003cju.1_Missense_Mutation_p.A64P|MOBP_uc003cjw.1_Non-coding_Transcript|MOBP_uc010hht.1_Missense_Mutation_p.A64P|MOBP_uc003cjx.1_Non-coding_Transcript|MOBP_uc003cjy.1_Non-coding_Transcript	NM_182935	NP_891980	Q13875	MOBP_HUMAN	myelin-associated oligodendrocyte basic protein	64					nervous system development	nucleolus|perinuclear region of cytoplasm|soluble fraction				ovary(1)|central_nervous_system(1)	2														0.214286	6.333803	8.481605	6	22	GG		KEEP	---	---	---	---	capture		KIRC - Kidney renal clear cell carcinoma(284;0.082)|Kidney(284;0.0998)	Missense_Mutation	SNP	39518754	39518754	10079	3	G	C	C	38	38	MOBP	C	3	3
STAB1	23166	broad.mit.edu	36	3	52518939	52518939	+	Silent	SNP	C	T	T			TCGA-06-0882-01	TCGA-06-0882-01	C	C								Phase_I	Unspecified				Illumina GAIIx	g.chr3:52518939C>T	uc003dej.1	+	c.2361C>T	c.(2359-2361)GTC>GTT	p.V787V		NM_015136	NP_055951	Q9NY15	STAB1_HUMAN	stabilin 1 precursor	787	Extracellular (Potential).				cell adhesion|cell-cell signaling|defense response to bacterium|inflammatory response|negative regulation of angiogenesis|receptor-mediated endocytosis	integral to plasma membrane	bacterial cell surface binding|hyaluronic acid binding|low-density lipoprotein receptor activity|protein disulfide oxidoreductase activity|scavenger receptor activity			large_intestine(3)|pancreas(1)|breast(1)|central_nervous_system(1)|skin(1)	7														0.288889	64.928192	68.515592	26	64	CC		KEEP	---	---	---	---	capture		BRCA - Breast invasive adenocarcinoma(193;1.73e-05)|Kidney(197;0.00182)|KIRC - Kidney renal clear cell carcinoma(197;0.00205)|OV - Ovarian serous cystadenocarcinoma(275;0.0482)	Silent	SNP	52518939	52518939	15755	3	C	T	T	30	30	STAB1	T	2	2
HELT	391723	broad.mit.edu	36	4	186178811	186178811	+	Missense_Mutation	SNP	C	T	T			TCGA-06-0882-01	TCGA-06-0882-01	C	C								Phase_I	Unspecified				Illumina GAIIx	g.chr4:186178811C>T	uc003ixb.1	+	c.875C>T	c.(874-876)CCC>CTC	p.P292L	HELT_uc003ixa.2_Missense_Mutation_p.P206L	NM_001029887	NP_001025058	A6NFD8	HELT_HUMAN	HES/HEY-like transcription factor	292	Pro-rich.						DNA binding				0		all_lung(41;9.65e-12)|Lung NSC(41;1.64e-11)|Colorectal(36;0.0215)|Renal(120;0.0246)|Hepatocellular(41;0.0268)|Prostate(90;0.0283)|all_hematologic(60;0.0749)												0.272727	56.745612	60.327563	21	56	CC		KEEP	---	---	---	---	capture		all cancers(43;8.92e-26)|Epithelial(43;3.02e-23)|OV - Ovarian serous cystadenocarcinoma(60;2.59e-11)|Colorectal(24;4.79e-05)|BRCA - Breast invasive adenocarcinoma(30;7.72e-05)|GBM - Glioblastoma multiforme(59;0.000274)|COAD - Colon adenocarcinoma(29;0.000362)|STAD - Stomach adenocarcinoma(60;0.000756)|LUSC - Lung squamous cell carcinoma(40;0.00902)|READ - Rectum adenocarcinoma(43;0.155)	Missense_Mutation	SNP	186178811	186178811	7331	4	C	T	T	22	22	HELT	T	2	2
KDR	3791	broad.mit.edu	36	4	55679697	55679697	+	Nonsense_Mutation	SNP	C	T	T			TCGA-06-0882-01	TCGA-06-0882-01	C	C								Phase_I	Unspecified				Illumina GAIIx	g.chr4:55679697C>T	uc003has.1	-	c.189G>A	c.(187-189)TGG>TGA	p.W63*	KDR_uc003hat.1_Nonsense_Mutation_p.W63*	NM_002253	NP_002244	P35968	VGFR2_HUMAN	kinase insert domain receptor (a type III	63	Ig-like C2-type 1.|Extracellular (Potential).				angiogenesis|cell differentiation|interspecies interaction between organisms|positive regulation of endothelial cell migration|positive regulation of endothelial cell proliferation|positive regulation of focal adhesion assembly|positive regulation of positive chemotaxis|protein phosphorylation|regulation of cell shape	integral to plasma membrane	ATP binding|growth factor binding|Hsp90 protein binding|integrin binding|receptor signaling protein tyrosine kinase activity|vascular endothelial growth factor receptor activity			lung(9)|soft_tissue(4)|central_nervous_system(4)|large_intestine(2)|ovary(2)|kidney(1)	22	all_cancers(7;0.0255)|all_lung(4;0.00175)|Lung NSC(11;0.00384)|all_epithelial(27;0.034)|Glioma(25;0.08)|all_neural(26;0.101)				Sorafenib(DB00398)|Sunitinib(DB01268)					1022	TSP Lung(20;0.16)			0.2125	39.329733	45.442025	17	63	CC		KEEP	---	---	---	---	capture	Epithelial(7;0.189)		Nonsense_Mutation	SNP	55679697	55679697	8445	4	C	T	T	26	26	KDR	T	5	2
KDM1B	221656	broad.mit.edu	36	6	18321870	18321870	+	Missense_Mutation	SNP	C	A	A			TCGA-06-0882-01	TCGA-06-0882-01	C	C								Phase_I	Unspecified				Illumina GAIIx	g.chr6:18321870C>A	uc003nco.1	+	c.1379C>A	c.(1378-1380)GCC>GAC	p.A460D	KDM1B_uc003ncn.1_Missense_Mutation_p.A431D|KDM1B_uc003ncp.1_Missense_Mutation_p.A16D|KDM1B_uc003ncq.1_Missense_Mutation_p.A16D	NM_153042	NP_694587	Q8NB78	KDM1B_HUMAN	amine oxidase (flavin containing) domain 1	663					multicellular organismal development|oxidation-reduction process|regulation of DNA methylation|regulation of gene expression by genetic imprinting|regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	histone demethylase activity (H3-dimethyl-K4 specific)|histone demethylase activity (H3-monomethyl-K4 specific)|oxidoreductase activity|zinc ion binding				0														0.232068	248.017312	279.184166	110	364	CC		KEEP	---	---	---	---	capture			Missense_Mutation	SNP	18321870	18321870	8429	6	C	A	A	26	26	KDM1B	A	3	3
VPS52	6293	broad.mit.edu	36	6	33340583	33340583	+	Missense_Mutation	SNP	G	A	A			TCGA-06-0882-01	TCGA-06-0882-01	G	G								Phase_I	Unspecified				Illumina GAIIx	g.chr6:33340583G>A	uc003odm.1	-	c.1354C>T	c.(1354-1356)CGG>TGG	p.R452W	VPS52_uc003odn.1_Missense_Mutation_p.R263W	NM_022553	NP_072047	Q8N1B4	VPS52_HUMAN	vacuolar protein sorting 52	452					protein transport	endosome membrane|Golgi apparatus				ovary(4)	4														0.230126	132.410205	148.360201	55	184	GG		KEEP	---	---	---	---	capture			Missense_Mutation	SNP	33340583	33340583	17781	6	G	A	A	39	39	VPS52	A	1	1
PGC	5225	broad.mit.edu	36	6	41812709	41812709	+	Nonsense_Mutation	SNP	G	T	T			TCGA-06-0882-01	TCGA-06-0882-01	G	G								Phase_I	Unspecified				Illumina GAIIx	g.chr6:41812709G>T	uc003ora.1	-	c.1026C>A	c.(1024-1026)TAC>TAA	p.Y342*	TFEB_uc003oqu.1_5'Flank	NM_002630	NP_002621	P20142	PEPC_HUMAN	progastricsin (pepsinogen C)	342					digestion|proteolysis	extracellular space	aspartic-type endopeptidase activity				0	Ovarian(28;0.0355)|Colorectal(47;0.121)													0.2	6.695625	8.369041	4	16	GG		KEEP	---	---	---	---	capture	Epithelial(12;0.000132)|STAD - Stomach adenocarcinoma(11;0.000204)|Colorectal(64;0.00245)|COAD - Colon adenocarcinoma(64;0.00507)		Nonsense_Mutation	SNP	41812709	41812709	12208	6	G	T	T	36	36	PGC	T	5	3
TRIP6	7205	broad.mit.edu	36	7	100304087	100304087	+	Missense_Mutation	SNP	C	T	T			TCGA-06-0882-01	TCGA-06-0882-01	C	C								Phase_I	Unspecified				Illumina GAIIx	g.chr7:100304087C>T	uc003uww.1	+	c.398C>T	c.(397-399)ACG>ATG	p.T133M	TRIP6_uc010lhk.1_Non-coding_Transcript	NM_003302	NP_003293	Q15654	TRIP6_HUMAN	thyroid receptor-interacting protein 6	133					focal adhesion assembly|positive regulation of cell migration|regulation of transcription, DNA-dependent|release of cytoplasmic sequestered NF-kappaB|transcription, DNA-dependent	cytoplasm|cytoskeleton|focal adhesion|nucleus	identical protein binding|interleukin-1 receptor binding|kinase binding|thyroid hormone receptor binding|zinc ion binding			central_nervous_system(2)	2	Lung NSC(181;0.041)|all_lung(186;0.0581)													0.154762	34.740309	53.906419	26	142	CC		KEEP	---	---	---	---	capture			Missense_Mutation	SNP	100304087	100304087	17109	7	C	T	T	19	19	TRIP6	T	1	1
GRM8	2918	broad.mit.edu	36	7	125873456	125873456	+	Silent	SNP	G	A	A			TCGA-06-0882-01	TCGA-06-0882-01	G	G								Phase_I	Unspecified				Illumina GAIIx	g.chr7:125873456G>A	uc003vlr.2	-	c.2637C>T	c.(2635-2637)GGC>GGT	p.G879G	GRM8_uc003vls.2_3'UTR|GRM8_uc003vlt.2_Silent_p.G879G|GRM8_uc010lkz.1_Non-coding_Transcript	NM_000845	NP_000836	O00222	GRM8_HUMAN	glutamate receptor, metabotropic 8 isoform a	879	Cytoplasmic (Potential).				negative regulation of cAMP biosynthetic process|sensory perception of smell|visual perception	integral to plasma membrane				ovary(5)|pancreas(1)	6		Prostate(267;0.186)			L-Glutamic Acid(DB00142)									0.217105	135.073049	157.52597	66	238	GG		KEEP	---	---	---	---	capture			Silent	SNP	125873456	125873456	7082	7	G	A	A	38	38	GRM8	A	1	1
EPPK1	83481	broad.mit.edu	36	8	145015572	145015572	+	Missense_Mutation	SNP	G	C	C			TCGA-06-0882-01	TCGA-06-0882-01	G	G								Phase_I	Unspecified				Illumina GAIIx	g.chr8:145015572G>C	uc003zaa.1	-	c.3763C>G	c.(3763-3765)CTG>GTG	p.L1255V		NM_031308	NP_112598	P58107	EPIPL_HUMAN	epiplakin 1	1280	Plectin 22.					cytoplasm|cytoskeleton	protein binding|structural molecule activity			pancreas(1)	1	all_cancers(97;1.42e-10)|all_epithelial(106;1.99e-09)|Lung NSC(106;0.000126)|all_lung(105;0.000354)|Ovarian(258;0.0173)|Acute lymphoblastic leukemia(118;0.155)													0.212121	9.196634	11.740915	7	26	GG		KEEP	---	---	---	---	capture	OV - Ovarian serous cystadenocarcinoma(54;2.46e-41)|Epithelial(56;2.88e-40)|all cancers(56;1.82e-35)|Colorectal(110;0.055)|BRCA - Breast invasive adenocarcinoma(115;0.105)		Missense_Mutation	SNP	145015572	145015572	5383	8	G	C	C	34	34	EPPK1	C	3	3
RAB11FIP1	80223	broad.mit.edu	36	8	37851229	37851229	+	Silent	SNP	G	A	A			TCGA-06-0882-01	TCGA-06-0882-01	G	G								Phase_I	Unspecified				Illumina GAIIx	g.chr8:37851229G>A	uc003xkm.1	-	c.1584C>T	c.(1582-1584)TCC>TCT	p.S528S	RAB11FIP1_uc010lvz.1_Silent_p.S376S|RAB11FIP1_uc003xkl.1_5'Flank|RAB11FIP1_uc003xkn.1_Silent_p.S528S|RAB11FIP1_uc003xko.1_5'Flank|RAB11FIP1_uc003xkp.1_Silent_p.S376S	NM_001002814	NP_001002814	Q6WKZ4	RFIP1_HUMAN	RAB11 family interacting protein 1 isoform 3	528					protein transport	centrosome|phagocytic vesicle membrane|recycling endosome	protein binding			ovary(1)	1		Lung NSC(58;0.118)|all_lung(54;0.195)												0.246377	88.482073	96.563076	34	104	GG		KEEP	---	---	---	---	capture	LUSC - Lung squamous cell carcinoma(8;3.62e-11)		Silent	SNP	37851229	37851229	13352	8	G	A	A	35	35	RAB11FIP1	A	2	2
TMEM2	23670	broad.mit.edu	36	9	73550066	73550066	+	Missense_Mutation	SNP	G	A	A			TCGA-06-0882-01	TCGA-06-0882-01	G	G								Phase_I	Unspecified				Illumina GAIIx	g.chr9:73550066G>A	uc004aij.1	-	c.722C>T	c.(721-723)ACG>ATG	p.T241M	TMEM2_uc010mos.1_Missense_Mutation_p.T241M	NM_013390	NP_037522	Q9UHN6	TMEM2_HUMAN	transmembrane protein 2 isoform a	241	G8.					integral to membrane				ovary(2)	2		all_epithelial(88;4.56e-14)|Myeloproliferative disorder(762;0.0255)												0.214286	81.537071	95.25124	39	143	GG		KEEP	---	---	---	---	capture		GBM - Glioblastoma multiforme(74;7.45e-21)|OV - Ovarian serous cystadenocarcinoma(323;1.02e-16)	Missense_Mutation	SNP	73550066	73550066	16656	9	G	A	A	40	40	TMEM2	A	1	1
