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	Tumor_Sample_UUID	Matched_Norm_Sample_UUID	Genome_Change	Annotation_Transcript	Transcript_Strand	Transcript_Exon	Transcript_Position	cDNA_Change	Codon_Change	Protein_Change	Other_Transcripts	Refseq_mRNA_Id	Refseq_prot_Id	SwissProt_acc_Id	SwissProt_entry_Id	Description	UniProt_AApos	UniProt_Region	UniProt_Site	UniProt_Natural_Variations	UniProt_Experimental_Info	GO_Biological_Process	GO_Cellular_Component	GO_Molecular_Function	COSMIC_overlapping_mutations	COSMIC_fusion_genes	COSMIC_tissue_types_affected	COSMIC_total_alterations_in_gene	Tumorscape_Amplification_Peaks	Tumorscape_Deletion_Peaks	TCGAscape_Amplification_Peaks	TCGAscape_Deletion_Peaks	DrugBank	ref_context	gc_content	CCLE_ONCOMAP_overlapping_mutations	CCLE_ONCOMAP_total_mutations_in_gene	CGC_Mutation_Type	CGC_Translocation_Partner	CGC_Tumor_Types_Somatic	CGC_Tumor_Types_Germline	CGC_Other_Diseases	DNARepairGenes_Role	FamilialCancerDatabase_Syndromes	MUTSIG_Published_Results	OREGANNO_ID	OREGANNO_Values	t_alt_count	t_ref_count	validation_status	validation_method	validation_tumor_sample	validation_alt_allele	pox	qox	pox_cutoff	isArtifactMode	oxoGCut
RAP1GAP	5909	broad.mit.edu	37	1	21928276	21928276	+	Missense_Mutation	SNP	G	A	A			TCGA-BJ-A0Z0-01A-11D-A10S-08	TCGA-BJ-A0Z0-10A-01D-A10S-08									Somatic	Phase_I	Capture				Illumina GAIIx	ae1da8dd-8775-4fda-b7c0-0b6b132507b9	21f02008-1bd8-4ea7-8191-2a5332832fc6	g.chr1:21928276G>A	uc001bex.2	-	20	1811	c.1553C>T	c.(1552-1554)GCT>GTT	p.A518V	RAP1GAP_uc001bev.2_Missense_Mutation_p.A603V|RAP1GAP_uc001bew.2_Missense_Mutation_p.A582V|RAP1GAP_uc001bey.2_Missense_Mutation_p.A544V	NM_002885	NP_002876	P47736	RPGP1_HUMAN	RAP1 GTPase activating protein isoform c	518					regulation of Ras GTPase activity|signal transduction	cytosol|Golgi membrane|membrane fraction	GTPase activator activity|GTPase activity|protein homodimerization activity|Ras GTPase binding			breast(2)|ovary(1)	3		Colorectal(325;0.000147)|Renal(390;0.000734)|Lung NSC(340;0.000861)|all_lung(284;0.000901)|Breast(348;0.012)|Myeloproliferative disorder(586;0.0393)|Ovarian(437;0.0427)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0192)|OV - Ovarian serous cystadenocarcinoma(117;2.3e-26)|COAD - Colon adenocarcinoma(152;1.59e-05)|GBM - Glioblastoma multiforme(114;2.7e-05)|BRCA - Breast invasive adenocarcinoma(304;0.000354)|STAD - Stomach adenocarcinoma(196;0.00645)|KIRC - Kidney renal clear cell carcinoma(1967;0.00862)|READ - Rectum adenocarcinoma(331;0.0625)|Lung(427;0.146)		CTTCTGACCAGCCGGAGGGCT	0.667000													12	65					0	0	0.387290	0	0
ZMYM1	79830	broad.mit.edu	37	1	35579878	35579878	+	Nonsense_Mutation	SNP	T	A	A			TCGA-BJ-A0Z0-01A-11D-A10S-08	TCGA-BJ-A0Z0-10A-01D-A10S-08									Somatic	Phase_I	Capture				Illumina GAIIx	ae1da8dd-8775-4fda-b7c0-0b6b132507b9	21f02008-1bd8-4ea7-8191-2a5332832fc6	g.chr1:35579878T>A	uc001bym.2	+	11	2595	c.2447T>A	c.(2446-2448)TTA>TAA	p.L816*	ZMYM1_uc001byn.2_Nonsense_Mutation_p.L816*|ZMYM1_uc010ohu.1_Nonsense_Mutation_p.L797*|ZMYM1_uc001byo.2_Nonsense_Mutation_p.L456*|ZMYM1_uc009vut.2_Nonsense_Mutation_p.L741*	NM_024772	NP_079048	Q5SVZ6	ZMYM1_HUMAN	zinc finger, MYM domain containing 1	816						nucleus	nucleic acid binding|protein dimerization activity|zinc ion binding				0		Myeloproliferative disorder(586;0.0255)|all_neural(195;0.0887)				GATCGTACATTACTATCTGTG	0.343000													4	121					0	0	0.150653	0	0
HEYL	26508	broad.mit.edu	37	1	40092678	40092678	+	Missense_Mutation	SNP	G	A	A	rs139668981	byFrequency	TCGA-BJ-A0Z0-01A-11D-A10S-08	TCGA-BJ-A0Z0-10A-01D-A10S-08									Somatic	Phase_I	Capture				Illumina GAIIx	ae1da8dd-8775-4fda-b7c0-0b6b132507b9	21f02008-1bd8-4ea7-8191-2a5332832fc6	g.chr1:40092678G>A	uc001cdp.2	-	5	539	c.488C>T	c.(487-489)TCG>TTG	p.S163L	HEYL_uc010oiw.1_Missense_Mutation_p.S135L	NM_014571	NP_055386	Q9NQ87	HEYL_HUMAN	hairy/enhancer-of-split related with YRPW	163	Pro-rich.				multicellular organismal development|Notch signaling pathway|regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding			ovary(1)	1	Lung NSC(20;3.81e-06)|Ovarian(52;0.00769)|all_hematologic(146;0.0501)|Acute lymphoblastic leukemia(166;0.074)	Myeloproliferative disorder(586;0.0255)	OV - Ovarian serous cystadenocarcinoma(33;1.1e-18)|Epithelial(16;2.77e-17)|all cancers(16;5.64e-16)|LUSC - Lung squamous cell carcinoma(16;0.000261)|Lung(16;0.000457)			GGGCGTGGGCGAAGGCTCCAT	0.652000													40	51					0	0	0.864702	0	0
ADAM15	8751	broad.mit.edu	37	1	155029547	155029547	+	Missense_Mutation	SNP	C	T	T			TCGA-BJ-A0Z0-01A-11D-A10S-08	TCGA-BJ-A0Z0-10A-01D-A10S-08									Somatic	Phase_I	Capture				Illumina GAIIx	ae1da8dd-8775-4fda-b7c0-0b6b132507b9	21f02008-1bd8-4ea7-8191-2a5332832fc6	g.chr1:155029547C>T	uc001fgr.1	+	11	1219	c.1118C>T	c.(1117-1119)GCC>GTC	p.A373V	ADAM15_uc001fgq.1_Missense_Mutation_p.A58V|ADAM15_uc010pet.1_Missense_Mutation_p.A357V|ADAM15_uc010peu.1_Missense_Mutation_p.A390V|ADAM15_uc001fgt.1_Missense_Mutation_p.A373V|ADAM15_uc010pev.1_Missense_Mutation_p.A383V|ADAM15_uc001fgs.1_Missense_Mutation_p.A373V|ADAM15_uc001fgu.1_Missense_Mutation_p.A373V|ADAM15_uc001fgw.1_Missense_Mutation_p.A373V|ADAM15_uc001fgv.1_Missense_Mutation_p.A373V|ADAM15_uc001fgx.1_Missense_Mutation_p.A373V|ADAM15_uc001fgz.1_RNA|ADAM15_uc001fgy.1_RNA|ADAM15_uc001fha.1_RNA|ADAM15_uc001fhb.1_5'Flank	NM_207197	NP_997080	Q13444	ADA15_HUMAN	a disintegrin and metalloproteinase domain 15	373	Peptidase M12B.|Extracellular (Potential).				angiogenesis|cell-matrix adhesion|collagen catabolic process|proteolysis	acrosomal vesicle|adherens junction|endomembrane system|flagellum|integral to membrane	metalloendopeptidase activity|SH3 domain binding|zinc ion binding			central_nervous_system(3)|skin(2)|ovary(1)	6	all_epithelial(22;1.43e-30)|all_lung(78;6.64e-28)|all_hematologic(923;0.0359)|Hepatocellular(266;0.0877)		BRCA - Breast invasive adenocarcinoma(34;0.000434)			CCAGCCCCAGCCAAGACCTGC	0.642000													13	52					0	0	0.479597	0	0
TROVE2	6738	broad.mit.edu	37	1	193038698	193038698	+	Missense_Mutation	SNP	A	G	G			TCGA-BJ-A0Z0-01A-11D-A10S-08	TCGA-BJ-A0Z0-10A-01D-A10S-08									Somatic	Phase_I	Capture				Illumina GAIIx	ae1da8dd-8775-4fda-b7c0-0b6b132507b9	21f02008-1bd8-4ea7-8191-2a5332832fc6	g.chr1:193038698A>G	uc001gss.2	+	2	689	c.514A>G	c.(514-516)AAA>GAA	p.K172E	TROVE2_uc001gst.1_Intron|TROVE2_uc001gsu.1_Intron|TROVE2_uc001gsv.1_Missense_Mutation_p.K172E|TROVE2_uc001gsw.2_Missense_Mutation_p.K172E|TROVE2_uc009wyp.2_Missense_Mutation_p.K172E|TROVE2_uc009wyq.2_Missense_Mutation_p.K172E|TROVE2_uc001gsx.1_Missense_Mutation_p.K172E	NM_004600	NP_004591	P10155	RO60_HUMAN	TROVE domain family, member 2 isoform 2	172	TROVE.				transcription from RNA polymerase III promoter	cytoplasm|nucleus|ribonucleoprotein complex	protein binding|RNA binding				0						TACAAAATATAAACAGAGAAA	0.458000													43	110					0	0	0.840704	0	0
PTEN	5728	broad.mit.edu	37	10	89692932	89692932	+	Nonsense_Mutation	SNP	T	A	A			TCGA-BJ-A0Z0-01A-11D-A10S-08	TCGA-BJ-A0Z0-10A-01D-A10S-08									Somatic	Phase_I	Capture				Illumina GAIIx	ae1da8dd-8775-4fda-b7c0-0b6b132507b9	21f02008-1bd8-4ea7-8191-2a5332832fc6	g.chr10:89692932T>A	uc001kfb.2	+	6	1447	c.416T>A	c.(415-417)TTA>TAA	p.L139*		NM_000314	NP_000305	P60484	PTEN_HUMAN	phosphatase and tensin homolog	139	Phosphatase tensin-type.				activation of mitotic anaphase-promoting complex activity|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 cyclin-dependent protein kinase activity involved in G1/S|negative regulation of focal adhesion assembly|negative regulation of G1/S transition of mitotic cell cycle|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 protein ubiquitination involved in ubiquitin-dependent protein catabolic process|positive regulation of sequence-specific DNA binding transcription factor activity|protein stabilization|regulation of neuron projection development|T cell receptor signaling pathway	cytosol|internal side of plasma membrane|PML body	anaphase-promoting complex binding|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.L139*(6)|p.R55fs*1(4)|p.L139fs*40(2)|p.?(2)|p.Y27fs*1(2)|p.Y27_N212>Y(2)|p.L139fs*7(1)|p.A121_F145del(1)|p.I135fs*6(1)|p.L139F(1)|p.F56fs*2(1)		endometrium(831)|central_nervous_system(657)|skin(121)|haematopoietic_and_lymphoid_tissue(101)|large_intestine(99)|prostate(97)|breast(73)|lung(65)|ovary(58)|thyroid(29)|stomach(29)|upper_aerodigestive_tract(25)|cervix(24)|liver(20)|vulva(17)|kidney(15)|NS(14)|soft_tissue(13)|urinary_tract(12)|eye(8)|pancreas(6)|salivary_gland(5)|bone(5)|biliary_tract(4)|autonomic_ganglia(2)|meninges(2)|testis(1)|oesophagus(1)	2334		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)	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)		TGTGCATATTTATTACATCGG	0.383000		31	D|Mis|N|F|S		glioma| prostate|endometrial	harmartoma|glioma| prostate|endometrial			Proteus_syndrome|Cowden_syndrome|Juvenile_Polyposis|Hereditary_Mixed_Polyposis_Syndrome_type_1|Bannayan-Riley-Ruvalcaba_syndrome	HNSCC(9;0.0022)|TCGA GBM(2;<1E-08)|TSP Lung(26;0.18)			20	66					0	0	0.575678	0	0
Unknown	0	broad.mit.edu	37	10	134648162	134648162	+	Missense_Mutation	SNP	C	T	T			TCGA-BJ-A0Z0-01A-11D-A10S-08	TCGA-BJ-A0Z0-10A-01D-A10S-08									Somatic	Phase_I	Capture				Illumina GAIIx	ae1da8dd-8775-4fda-b7c0-0b6b132507b9	21f02008-1bd8-4ea7-8191-2a5332832fc6	g.chr10:134648162C>T	uc010qux.1	-	40	6040	c.6040G>A	c.(6040-6042)GCC>ACC	p.A2014T		NM_017609	NP_060079			Homo sapiens cDNA, FLJ17989.																		CAGTACCTGGCCTTGGAGAGG	0.637000													4	20					0	0	0.307466	0	0
TRIM6-TRIM34	445372	broad.mit.edu	37	11	5653565	5653565	+	Missense_Mutation	SNP	G	C	C			TCGA-BJ-A0Z0-01A-11D-A10S-08	TCGA-BJ-A0Z0-10A-01D-A10S-08									Somatic	Phase_I	Capture				Illumina GAIIx	ae1da8dd-8775-4fda-b7c0-0b6b132507b9	21f02008-1bd8-4ea7-8191-2a5332832fc6	g.chr11:5653565G>C	uc001mbf.2	+	8	1310	c.1066G>C	c.(1066-1068)GCT>CCT	p.A356P	HBG2_uc001mak.1_Intron|TRIM34_uc001mbh.2_Missense_Mutation_p.A2P|TRIM34_uc009yeq.2_5'UTR|TRIM34_uc001mbi.2_Missense_Mutation_p.A2P|TRIM34_uc001mbj.2_Missense_Mutation_p.A2P	NM_001003819	NP_001003819	B2RNG4	B2RNG4_HUMAN	tripartite motif-containing 6 and tripartite	356						intracellular	zinc ion binding			ovary(1)	1		Medulloblastoma(188;0.00225)|Breast(177;0.0204)|all_neural(188;0.0212)		Epithelial(150;1.01e-08)|BRCA - Breast invasive adenocarcinoma(625;0.145)		CAGTGCAATGGCTTCAAAAAT	0.517000											OREG0003725	type=REGULATORY REGION|Gene=TRIM34|Dataset=Stanford ENCODE Dataset|EvidenceSubtype=Transient transfection luciferase assay	23	124					0	0	0.624587	0	0
FANCF	2188	broad.mit.edu	37	11	22646539	22646539	+	Missense_Mutation	SNP	A	C	C			TCGA-BJ-A0Z0-01A-11D-A10S-08	TCGA-BJ-A0Z0-10A-01D-A10S-08									Somatic	Phase_I	Capture				Illumina GAIIx	ae1da8dd-8775-4fda-b7c0-0b6b132507b9	21f02008-1bd8-4ea7-8191-2a5332832fc6	g.chr11:22646539A>C	uc001mql.1	-	1	849	c.818T>G	c.(817-819)GTC>GGC	p.V273G		NM_022725	NP_073562	Q9NPI8	FANCF_HUMAN	Fanconi anemia, complementation group F	273					DNA repair	nucleoplasm	protein binding			skin(1)	1						ACCCAGATAGACAGGAGACAG	0.552000			N|F			AML|leukemia		Direct_reversal_of_damage|Involved_in_tolerance_or_repair_of_DNA_crosslinks	Fanconi_Anemia		OREG0020844	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	5	133					0	0	0.217242	0	0
SNORD116-16	100033428	broad.mit.edu	37	15	25327830	25327830	+	5'Flank	SNP	G	A	A			TCGA-BJ-A0Z0-01A-11D-A10S-08	TCGA-BJ-A0Z0-10A-01D-A10S-08									Somatic	Phase_I	Capture				Illumina GAIIx	ae1da8dd-8775-4fda-b7c0-0b6b132507b9	21f02008-1bd8-4ea7-8191-2a5332832fc6	g.chr15:25327830G>A	uc001yya.2	+						SNORD116-4_uc001yxh.1_RNA|SNORD116-4_uc001yxm.1_RNA|IPW_uc001yxn.3_RNA|SNORD116-28_uc001yxy.2_RNA|IPW_uc001yyb.3_5'Flank|SNORD116-19_uc001yyc.2_5'Flank|uc001yyd.2_5'Flank|SNORD116-18_uc010ayk.2_5'Flank	NR_003331				Homo sapiens small nucleolar RNA, C/D box 116-16 (SNORD116-16), non-coding RNA.												0						GGACATGTGTGGTGTGGGCTT	0.498000													10	13					0	0	0.335167	0	0
AGBL1	123624	broad.mit.edu	37	15	86697783	86697783	+	Missense_Mutation	SNP	G	T	T			TCGA-BJ-A0Z0-01A-11D-A10S-08	TCGA-BJ-A0Z0-10A-01D-A10S-08									Somatic	Phase_I	Capture				Illumina GAIIx	ae1da8dd-8775-4fda-b7c0-0b6b132507b9	21f02008-1bd8-4ea7-8191-2a5332832fc6	g.chr15:86697783G>T	uc002blz.1	+	3	327	c.247G>T	c.(247-249)GCC>TCC	p.A83S		NM_152336	NP_689549	Q96MI9	CBPC4_HUMAN	ATP/GTP binding protein-like 1	83					C-terminal protein deglutamylation|protein side chain deglutamylation|proteolysis	cytosol	metallocarboxypeptidase activity|tubulin binding|zinc ion binding				0						GCGTGTGTTTGCCTCCAGTGG	0.522000													6	42					3.09899e-07	3.25016e-07	0.307466	1	0
FAM169B	283777	broad.mit.edu	37	15	98982901	98982901	+	Missense_Mutation	SNP	C	T	T			TCGA-BJ-A0Z0-01A-11D-A10S-08	TCGA-BJ-A0Z0-10A-01D-A10S-08									Somatic	Phase_I	Capture				Illumina GAIIx	ae1da8dd-8775-4fda-b7c0-0b6b132507b9	21f02008-1bd8-4ea7-8191-2a5332832fc6	g.chr15:98982901C>T	uc002buk.1	-	7	788	c.538G>A	c.(538-540)GCA>ACA	p.A180T		NM_182562	NP_872368	Q8N8A8	F169B_HUMAN	hypothetical protein LOC283777	180											0						GGCTGCCCTGCCAGCCCGGCA	0.587000													12	50					0	0	0.411799	0	0
Unknown	0	broad.mit.edu	37	16	33020702	33020702	+	IGR	SNP	T	G	G			TCGA-BJ-A0Z0-01A-11D-A10S-08	TCGA-BJ-A0Z0-10A-01D-A10S-08									Somatic	Phase_I	Capture				Illumina GAIIx	ae1da8dd-8775-4fda-b7c0-0b6b132507b9	21f02008-1bd8-4ea7-8191-2a5332832fc6	g.chr16:33020702T>G								SLC6A10P (124239 upstream) : MIR1826 (944806 downstream)																							GGGGGGTCCCTGAGACTGTCC	0.582000													59	137					0	0	0.870114	0	0
SNTB2	6645	broad.mit.edu	37	16	69279566	69279566	+	Silent	SNP	G	A	A	rs143099113		TCGA-BJ-A0Z0-01A-11D-A10S-08	TCGA-BJ-A0Z0-10A-01D-A10S-08									Somatic	Phase_I	Capture				Illumina GAIIx	ae1da8dd-8775-4fda-b7c0-0b6b132507b9	21f02008-1bd8-4ea7-8191-2a5332832fc6	g.chr16:69279566G>A	uc002ewu.2	+	2	662	c.642G>A	c.(640-642)CCG>CCA	p.P214P		NM_006750	NP_006741	Q13425	SNTB2_HUMAN	basic beta 2 syntrophin	214	PH 1.					cell junction|dystrophin-associated glycoprotein complex|membrane fraction|microtubule|transport vesicle membrane	actin binding|calmodulin binding|protein binding				0		Ovarian(137;0.101)		OV - Ovarian serous cystadenocarcinoma(108;0.208)		CAGATCTGCCGTGGGAAGGTG	0.448000													107	263					0	0	0.870114	0	0
TCEB3B	51224	broad.mit.edu	37	18	44560437	44560437	+	Missense_Mutation	SNP	C	T	T			TCGA-BJ-A0Z0-01A-11D-A10S-08	TCGA-BJ-A0Z0-10A-01D-A10S-08									Somatic	Phase_I	Capture				Illumina GAIIx	ae1da8dd-8775-4fda-b7c0-0b6b132507b9	21f02008-1bd8-4ea7-8191-2a5332832fc6	g.chr18:44560437C>T	uc002lcr.1	-	1	1552	c.1199G>A	c.(1198-1200)GGA>GAA	p.G400E	KATNAL2_uc010dnq.1_Intron|KATNAL2_uc002lco.2_Intron|KATNAL2_uc002lcp.3_Intron	NM_016427	NP_057511	Q8IYF1	ELOA2_HUMAN	elongin A2	400					regulation of transcription elongation, DNA-dependent|transcription from RNA polymerase II promoter	integral to membrane|nucleus	DNA binding			ovary(2)|large_intestine(1)|pancreas(1)	4						GGCAGATTTTCCAGTCTTTTT	0.478000													50	164					0	0	0.870114	0	0
ZNF565	147929	broad.mit.edu	37	19	36674128	36674128	+	Missense_Mutation	SNP	C	G	G			TCGA-BJ-A0Z0-01A-11D-A10S-08	TCGA-BJ-A0Z0-10A-01D-A10S-08									Somatic	Phase_I	Capture				Illumina GAIIx	ae1da8dd-8775-4fda-b7c0-0b6b132507b9	21f02008-1bd8-4ea7-8191-2a5332832fc6	g.chr19:36674128C>G	uc002odn.2	-	5	848	c.740G>C	c.(739-741)GGT>GCT	p.G247A	ZNF565_uc010ees.2_Missense_Mutation_p.G182A|ZNF565_uc002odo.2_Missense_Mutation_p.G247A	NM_152477	NP_689690	Q8N9K5	ZN565_HUMAN	zinc finger protein 565	247					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(1)|skin(1)	2	Esophageal squamous(110;0.162)		LUSC - Lung squamous cell carcinoma(66;0.206)			AGGTTTGACACCAGTATGAAG	0.438000													10	111					0	0	0.361761	0	0
FCGBP	8857	broad.mit.edu	37	19	40366101	40366101	+	Silent	SNP	T	C	C			TCGA-BJ-A0Z0-01A-11D-A10S-08	TCGA-BJ-A0Z0-10A-01D-A10S-08									Somatic	Phase_I	Capture				Illumina GAIIx	ae1da8dd-8775-4fda-b7c0-0b6b132507b9	21f02008-1bd8-4ea7-8191-2a5332832fc6	g.chr19:40366101T>C	uc002omp.3	-	30	14141	c.14133A>G	c.(14131-14133)GCA>GCG	p.A4711A		NM_003890	NP_003881	Q9Y6R7	FCGBP_HUMAN	Fc fragment of IgG binding protein precursor	4711						extracellular region	protein binding			ovary(4)|skin(4)|central_nervous_system(1)	9	all_cancers(60;6.03e-06)|all_lung(34;5.58e-08)|Lung NSC(34;6.62e-08)|Ovarian(47;0.06)		Epithelial(26;6.25e-23)|all cancers(26;1.13e-20)			AGGTAGCCACTGCAGGACAGA	0.672000													22	33					0	0	0.639603	0	0
PPP2R1A	5518	broad.mit.edu	37	19	52719096	52719096	+	Missense_Mutation	SNP	T	A	A			TCGA-BJ-A0Z0-01A-11D-A10S-08	TCGA-BJ-A0Z0-10A-01D-A10S-08									Somatic	Phase_I	Capture				Illumina GAIIx	ae1da8dd-8775-4fda-b7c0-0b6b132507b9	21f02008-1bd8-4ea7-8191-2a5332832fc6	g.chr19:52719096T>A	uc002pyp.2	+	7	1031	c.872T>A	c.(871-873)ATG>AAG	p.M291K	PPP2R1A_uc010ydk.1_Missense_Mutation_p.M236K|PPP2R1A_uc010epm.1_Missense_Mutation_p.M331K|PPP2R1A_uc002pyq.2_Missense_Mutation_p.M112K	NM_014225	NP_055040	P30153	2AAA_HUMAN	alpha isoform of regulatory subunit A, protein	291	PP2A subunit B binding.|HEAT 8.|Polyoma small and medium T antigens Binding.				ceramide metabolic process|chromosome segregation|G2/M transition of mitotic cell cycle|inactivation of MAPK activity|induction of apoptosis|negative regulation of cell growth|negative regulation of tyrosine phosphorylation of Stat3 protein|protein complex assembly|protein dephosphorylation|regulation of cell adhesion|regulation of cell differentiation|regulation of DNA replication|regulation of transcription, DNA-dependent|regulation of Wnt receptor signaling pathway|response to organic substance|RNA splicing|second-messenger-mediated signaling	chromosome, centromeric region|cytosol|membrane|microtubule cytoskeleton|mitochondrion|nucleus|protein phosphatase type 2A complex|soluble fraction	antigen binding|protein heterodimerization activity|protein phosphatase type 2A regulator activity			endometrium(31)|ovary(28)|lung(2)|breast(2)|skin(1)|kidney(1)|pancreas(1)	66				GBM - Glioblastoma multiforme(134;0.00456)|OV - Ovarian serous cystadenocarcinoma(262;0.015)		cagaacCTGATGAAAGACTGT	0.522000			Mis		clear cell ovarian carcinoma								4	137					0	0	0.150653	0	0
WASH2P	375260	broad.mit.edu	37	2	114356239	114356239	+	Silent	SNP	T	C	C			TCGA-BJ-A0Z0-01A-11D-A10S-08	TCGA-BJ-A0Z0-10A-01D-A10S-08									Somatic	Phase_I	Capture				Illumina GAIIx	ae1da8dd-8775-4fda-b7c0-0b6b132507b9	21f02008-1bd8-4ea7-8191-2a5332832fc6	g.chr2:114356239T>C	uc002tkh.2	+	6	775	c.717T>C	c.(715-717)CGT>CGC	p.R239R	WASH2P_uc002tka.2_RNA|WASH2P_uc002tkb.2_RNA|WASH2P_uc002tkd.2_RNA	NM_182905	NP_878908			WAS protein family homolog 1												0						CCTTTGCCCGTGTGTCAGACT	0.642000													3	11					0	0	0.248553	0	0
CLK1	1195	broad.mit.edu	37	2	201719735	201719735	+	Missense_Mutation	SNP	C	A	A			TCGA-BJ-A0Z0-01A-11D-A10S-08	TCGA-BJ-A0Z0-10A-01D-A10S-08									Somatic	Phase_I	Capture				Illumina GAIIx	ae1da8dd-8775-4fda-b7c0-0b6b132507b9	21f02008-1bd8-4ea7-8191-2a5332832fc6	g.chr2:201719735C>A	uc002uwe.2	-	10	1313	c.1132G>T	c.(1132-1134)GTA>TTA	p.V378L	CLK1_uc002uwd.2_Missense_Mutation_p.V201L|CLK1_uc010zhi.1_Missense_Mutation_p.V420L|CLK1_uc002uwf.2_Missense_Mutation_p.V152L|CLK1_uc002uwg.2_Missense_Mutation_p.V227L|CLK1_uc010fsv.2_Intron	NM_004071	NP_004062	P49759	CLK1_HUMAN	CDC-like kinase 1 isoform 1	378	Protein kinase.				cell proliferation	nucleus	ATP binding|non-membrane spanning protein tyrosine kinase activity|protein serine/threonine kinase activity			pancreas(2)	2						ACTGGAAATACGGTAAACCCA	0.388000													48	80					9.72345e-25	1.07207e-24	0.870114	1	0
NCAPH2	29781	broad.mit.edu	37	22	50961303	50961303	+	Missense_Mutation	SNP	G	T	T			TCGA-BJ-A0Z0-01A-11D-A10S-08	TCGA-BJ-A0Z0-10A-01D-A10S-08									Somatic	Phase_I	Capture				Illumina GAIIx	ae1da8dd-8775-4fda-b7c0-0b6b132507b9	21f02008-1bd8-4ea7-8191-2a5332832fc6	g.chr22:50961303G>T	uc003blr.3	+	18	1601	c.1479G>T	c.(1477-1479)CAG>CAT	p.Q493H	NCAPH2_uc003blv.2_Missense_Mutation_p.Q493H|NCAPH2_uc010hbb.2_Intron|NCAPH2_uc003blu.3_RNA|NCAPH2_uc003bls.3_RNA|NCAPH2_uc003blt.3_RNA|NCAPH2_uc003blw.3_RNA|NCAPH2_uc003blx.3_Missense_Mutation_p.Q494H|NCAPH2_uc003bly.3_RNA	NM_152299	NP_689512	Q6IBW4	CNDH2_HUMAN	kleisin beta isoform 2	493					chromosome condensation	chromosome|nucleus				ovary(1)|skin(1)	2		all_cancers(38;4.58e-14)|all_epithelial(38;1.12e-12)|all_lung(38;3.07e-05)|Breast(42;6.27e-05)|Lung NSC(38;0.000813)|Ovarian(80;0.0221)|Hepatocellular(38;0.0691)|Lung SC(80;0.113)		BRCA - Breast invasive adenocarcinoma(115;0.212)		AGCTGAGCCAGCGCATCAGGG	0.647000													5	59					5.9392e-07	6.08061e-07	0.217242	1	0
SDHAP2	727956	broad.mit.edu	37	3	195410687	195410687	+	Missense_Mutation	SNP	T	A	A	rs6583274	by1000genomes	TCGA-BJ-A0Z0-01A-11D-A10S-08	TCGA-BJ-A0Z0-10A-01D-A10S-08									Somatic	Phase_I	Capture				Illumina GAIIx	ae1da8dd-8775-4fda-b7c0-0b6b132507b9	21f02008-1bd8-4ea7-8191-2a5332832fc6	g.chr3:195410687T>A	uc003fuw.2	+	13	1778	c.584T>A	c.(583-585)GTG>GAG	p.V195E	SDHAP2_uc003fuv.2_RNA					SubName: Full=cDNA FLJ16373 fis, clone THYMU3000269, highly similar to Succinate dehydrogenase (ubiquinone) flavoprotein subunit, mitochondrial (EC 1.3.5.1);												0						CCCTTTGAGGTGCACTGGAGG	0.567000													5	28					0	0	0.217242	0	0
SDHAP2	727956	broad.mit.edu	37	3	195410689	195410689	+	Missense_Mutation	SNP	C	T	T	rs6583275	by1000genomes	TCGA-BJ-A0Z0-01A-11D-A10S-08	TCGA-BJ-A0Z0-10A-01D-A10S-08									Somatic	Phase_I	Capture				Illumina GAIIx	ae1da8dd-8775-4fda-b7c0-0b6b132507b9	21f02008-1bd8-4ea7-8191-2a5332832fc6	g.chr3:195410689C>T	uc003fuw.2	+	13	1780	c.586C>T	c.(586-588)CAC>TAC	p.H196Y	SDHAP2_uc003fuv.2_RNA					SubName: Full=cDNA FLJ16373 fis, clone THYMU3000269, highly similar to Succinate dehydrogenase (ubiquinone) flavoprotein subunit, mitochondrial (EC 1.3.5.1);												0						CTTTGAGGTGCACTGGAGGAA	0.567000													5	29					0	0	0.217242	0	0
N4BP2	55728	broad.mit.edu	37	4	40113746	40113746	+	Missense_Mutation	SNP	A	G	G			TCGA-BJ-A0Z0-01A-11D-A10S-08	TCGA-BJ-A0Z0-10A-01D-A10S-08									Somatic	Phase_I	Capture				Illumina GAIIx	ae1da8dd-8775-4fda-b7c0-0b6b132507b9	21f02008-1bd8-4ea7-8191-2a5332832fc6	g.chr4:40113746A>G	uc003guy.3	+	6	1879	c.1541A>G	c.(1540-1542)GAT>GGT	p.D514G	N4BP2_uc010ifq.2_Missense_Mutation_p.D434G|N4BP2_uc010ifr.2_Missense_Mutation_p.D434G	NM_018177	NP_060647	Q86UW6	N4BP2_HUMAN	Nedd4 binding protein 2	514						cytoplasm	ATP binding|ATP-dependent polydeoxyribonucleotide 5'-hydroxyl-kinase activity|endonuclease activity|protein binding			lung(3)|breast(2)|kidney(2)|ovary(1)	8						ATAATTATAGATAATACAAAC	0.274000													124	133					0	0	0.870114	0	0
MUC7	4589	broad.mit.edu	37	4	71339788	71339788	+	Missense_Mutation	SNP	T	C	C	rs10613758		TCGA-BJ-A0Z0-01A-11D-A10S-08	TCGA-BJ-A0Z0-10A-01D-A10S-08									Somatic	Phase_I	Capture				Illumina GAIIx	ae1da8dd-8775-4fda-b7c0-0b6b132507b9	21f02008-1bd8-4ea7-8191-2a5332832fc6	g.chr4:71339788T>C	uc011cat.1	+	3	338	c.50T>C	c.(49-51)TTC>TCC	p.F17S	MUC7_uc011cau.1_Missense_Mutation_p.F17S|MUC7_uc003hfj.2_Missense_Mutation_p.F17S	NM_001145006	NP_001138478	Q8TAX7	MUC7_HUMAN	mucin 7, secreted precursor	17						extracellular region	protein binding			ovary(2)|central_nervous_system(1)|skin(1)	4			Lung(101;0.211)			AGTGCTTGCTTCTCGGTAAGT	0.388000													49	97					0	0	0.870114	0	0
SHROOM3	57619	broad.mit.edu	37	4	77660335	77660335	+	Missense_Mutation	SNP	G	C	C			TCGA-BJ-A0Z0-01A-11D-A10S-08	TCGA-BJ-A0Z0-10A-01D-A10S-08									Somatic	Phase_I	Capture				Illumina GAIIx	ae1da8dd-8775-4fda-b7c0-0b6b132507b9	21f02008-1bd8-4ea7-8191-2a5332832fc6	g.chr4:77660335G>C	uc011cbx.1	+	5	1962	c.1009G>C	c.(1009-1011)GCC>CCC	p.A337P	SHROOM3_uc011cbz.1_Missense_Mutation_p.A161P|SHROOM3_uc003hkf.1_Missense_Mutation_p.A212P|SHROOM3_uc003hkg.2_Missense_Mutation_p.A115P	NM_020859	NP_065910	Q8TF72	SHRM3_HUMAN	shroom family member 3 protein	337					apical protein localization|cell morphogenesis|cellular pigment accumulation|pattern specification process|regulation of cell shape	adherens junction|apical junction complex|apical plasma membrane|cytoplasm|microtubule	actin binding			skin(2)|ovary(1)	3			Lung(101;0.0903)			GGAGGCCCGAGCCTCAGCAAA	0.552000													48	95					0	0	0.870114	0	0
SHROOM3	57619	broad.mit.edu	37	4	77661752	77661752	+	Missense_Mutation	SNP	A	T	T			TCGA-BJ-A0Z0-01A-11D-A10S-08	TCGA-BJ-A0Z0-10A-01D-A10S-08									Somatic	Phase_I	Capture				Illumina GAIIx	ae1da8dd-8775-4fda-b7c0-0b6b132507b9	21f02008-1bd8-4ea7-8191-2a5332832fc6	g.chr4:77661752A>T	uc011cbx.1	+	5	3379	c.2426A>T	c.(2425-2427)TAT>TTT	p.Y809F	SHROOM3_uc011cbz.1_Missense_Mutation_p.Y633F|SHROOM3_uc003hkf.1_Missense_Mutation_p.Y684F|SHROOM3_uc003hkg.2_Missense_Mutation_p.Y587F	NM_020859	NP_065910	Q8TF72	SHRM3_HUMAN	shroom family member 3 protein	809					apical protein localization|cell morphogenesis|cellular pigment accumulation|pattern specification process|regulation of cell shape	adherens junction|apical junction complex|apical plasma membrane|cytoplasm|microtubule	actin binding			skin(2)|ovary(1)	3			Lung(101;0.0903)			GGCCATAACTATAGGCCCCAC	0.552000													29	80					0	0	0.717897	0	0
SEC24B	10427	broad.mit.edu	37	4	110454843	110454843	+	Splice_Site	SNP	T	A	A			TCGA-BJ-A0Z0-01A-11D-A10S-08	TCGA-BJ-A0Z0-10A-01D-A10S-08									Somatic	Phase_I	Capture				Illumina GAIIx	ae1da8dd-8775-4fda-b7c0-0b6b132507b9	21f02008-1bd8-4ea7-8191-2a5332832fc6	g.chr4:110454843T>A	uc003hzk.2	+	22	3643	c.3588_splice	c.e22+2	p.M1196_splice	SEC24B_uc003hzl.2_Splice_Site_p.M1161_splice|SEC24B_uc011cfp.1_Splice_Site_p.M1226_splice|SEC24B_uc011cfq.1_Splice_Site_p.M1195_splice|SEC24B_uc011cfr.1_Splice_Site_p.M1160_splice	NM_006323	NP_006314	O95487	SC24B_HUMAN	SEC24 (S. cerevisiae) homolog B isoform a						COPII vesicle coating|intracellular protein transport|post-translational protein modification|protein N-linked glycosylation via asparagine	COPII vesicle coat|cytosol|endoplasmic reticulum membrane|Golgi membrane|perinuclear region of cytoplasm	protein binding|transporter activity|zinc ion binding			ovary(2)|large_intestine(1)	3		Hepatocellular(203;0.217)		OV - Ovarian serous cystadenocarcinoma(123;3.03e-05)		CAGAAAATGGTCAGTAGATTT	0.229000													27	188					0	0	0.681144	0	0
MAP3K1	4214	broad.mit.edu	37	5	56181836	56181836	+	Missense_Mutation	SNP	C	G	G			TCGA-BJ-A0Z0-01A-11D-A10S-08	TCGA-BJ-A0Z0-10A-01D-A10S-08									Somatic	Phase_I	Capture				Illumina GAIIx	ae1da8dd-8775-4fda-b7c0-0b6b132507b9	21f02008-1bd8-4ea7-8191-2a5332832fc6	g.chr5:56181836C>G	uc003jqw.3	+	17	4561	c.4060C>G	c.(4060-4062)CTC>GTC	p.L1354V		NM_005921	NP_005912	Q13233	M3K1_HUMAN	mitogen-activated protein kinase kinase kinase	1354	Protein kinase.				cellular response to mechanical stimulus|innate immune response|MyD88-dependent toll-like receptor signaling pathway|Toll signaling pathway|toll-like receptor 1 signaling pathway|toll-like receptor 2 signaling pathway|toll-like receptor 4 signaling pathway	cytosol	ATP binding|zinc ion binding			ovary(1)|skin(1)	2		Lung NSC(810;4.65e-05)|Prostate(74;0.0132)|Breast(144;0.0321)|Ovarian(174;0.223)		OV - Ovarian serous cystadenocarcinoma(10;6.08e-40)		TGAACAGTTACTCCGTGGCCT	0.338000													3	139					0	0	0.115264	0	0
BDP1	55814	broad.mit.edu	37	5	70805633	70805633	+	Missense_Mutation	SNP	T	C	C			TCGA-BJ-A0Z0-01A-11D-A10S-08	TCGA-BJ-A0Z0-10A-01D-A10S-08									Somatic	Phase_I	Capture				Illumina GAIIx	ae1da8dd-8775-4fda-b7c0-0b6b132507b9	21f02008-1bd8-4ea7-8191-2a5332832fc6	g.chr5:70805633T>C	uc003kbp.1	+	17	2977	c.2714T>C	c.(2713-2715)ATG>ACG	p.M905T	BDP1_uc003kbn.1_Missense_Mutation_p.M905T|BDP1_uc003kbo.2_Missense_Mutation_p.M905T	NM_018429	NP_060899	A6H8Y1	BDP1_HUMAN	transcription factor-like nuclear regulator	905	2.|9 X 55 AA repeats of G-R-R-X-I-S-P-X-E-N- G-X-E-E-V-K-P-X-X-E-M-E-T-D-L-K-X-T-G-R- E-X-X-X-R-E-K-T-X-E-X-X-D-A-X-E-E-I-D-X- D-L-E-E-T.				regulation of transcription, DNA-dependent|transcription from RNA polymerase III promoter	nucleoplasm	DNA binding			skin(2)	2		Lung NSC(167;0.000422)|Prostate(74;0.00815)|Ovarian(174;0.0176)|Breast(144;0.198)		OV - Ovarian serous cystadenocarcinoma(47;5.28e-56)|Epithelial(20;2.31e-50)		CTGAAAGCAATGGGAAGAGAG	0.418000													32	86					0	0	0.760397	0	0
PCDHB1	29930	broad.mit.edu	37	5	140433491	140433491	+	Missense_Mutation	SNP	G	T	T			TCGA-BJ-A0Z0-01A-11D-A10S-08	TCGA-BJ-A0Z0-10A-01D-A10S-08									Somatic	Phase_I	Capture				Illumina GAIIx	ae1da8dd-8775-4fda-b7c0-0b6b132507b9	21f02008-1bd8-4ea7-8191-2a5332832fc6	g.chr5:140433491G>T	uc003lik.1	+	1	2513	c.2436G>T	c.(2434-2436)CAG>CAT	p.Q812H		NM_013340	NP_037472	Q9Y5F3	PCDB1_HUMAN	protocadherin beta 1 precursor	812	Cytoplasmic (Potential).				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding				0			KIRC - Kidney renal clear cell carcinoma(527;0.00185)|Kidney(363;0.00339)			GCCATGACCAGGTATCTGATG	0.418000													31	139					6.04164e-23	6.49477e-23	0.750413	1	0
GEMIN5	25929	broad.mit.edu	37	5	154280951	154280951	+	Missense_Mutation	SNP	T	A	A			TCGA-BJ-A0Z0-01A-11D-A10S-08	TCGA-BJ-A0Z0-10A-01D-A10S-08									Somatic	Phase_I	Capture				Illumina GAIIx	ae1da8dd-8775-4fda-b7c0-0b6b132507b9	21f02008-1bd8-4ea7-8191-2a5332832fc6	g.chr5:154280951T>A	uc003lvx.3	-	21	3045	c.2962A>T	c.(2962-2964)ATC>TTC	p.I988F	GEMIN5_uc011ddk.1_Missense_Mutation_p.I987F	NM_015465	NP_056280	Q8TEQ6	GEMI5_HUMAN	gemin 5	988					ncRNA metabolic process|protein complex assembly|spliceosomal snRNP assembly	Cajal body|cytosol|spliceosomal complex	protein binding|snRNA binding			skin(2)|ovary(1)	3	Renal(175;0.00488)	Medulloblastoma(196;0.0354)|all_neural(177;0.147)	KIRC - Kidney renal clear cell carcinoma(527;0.00112)			ACTTTGTGGATGGAAAGTAGG	0.453000													85	103					0	0	0.870114	0	0
TBC1D9B	23061	broad.mit.edu	37	5	179302050	179302050	+	Missense_Mutation	SNP	G	A	A			TCGA-BJ-A0Z0-01A-11D-A10S-08	TCGA-BJ-A0Z0-10A-01D-A10S-08									Somatic	Phase_I	Capture				Illumina GAIIx	ae1da8dd-8775-4fda-b7c0-0b6b132507b9	21f02008-1bd8-4ea7-8191-2a5332832fc6	g.chr5:179302050G>A	uc003mlh.2	-	12	2075	c.2038C>T	c.(2038-2040)CCC>TCC	p.P680S	TBC1D9B_uc003mli.2_Missense_Mutation_p.P680S|TBC1D9B_uc003mlj.2_Missense_Mutation_p.P680S|TBC1D9B_uc011dgv.1_5'Flank	NM_198868	NP_942568	Q66K14	TBC9B_HUMAN	TBC1 domain family, member 9B (with GRAM domain)	680	Helical; (Potential).|Rab-GAP TBC.					integral to membrane|intracellular	calcium ion binding|Rab GTPase activator activity			breast(1)|skin(1)	2	all_cancers(89;0.000197)|all_epithelial(37;6.84e-05)|Renal(175;0.000159)|Lung NSC(126;0.00136)|all_lung(126;0.00243)	all_cancers(40;0.0236)|Medulloblastoma(196;0.00498)|all_neural(177;0.0138)	Kidney(164;2.23e-05)|KIRC - Kidney renal clear cell carcinoma(164;0.000178)			CTCTCGAAGGGCATGACGCTG	0.602000													4	130					0	0	0.150653	0	0
C7orf30	115416	broad.mit.edu	37	7	23349054	23349054	+	Silent	SNP	T	C	C			TCGA-BJ-A0Z0-01A-11D-A10S-08	TCGA-BJ-A0Z0-10A-01D-A10S-08									Somatic	Phase_I	Capture				Illumina GAIIx	ae1da8dd-8775-4fda-b7c0-0b6b132507b9	21f02008-1bd8-4ea7-8191-2a5332832fc6	g.chr7:23349054T>C	uc003swd.1	+	4	629	c.597T>C	c.(595-597)TAT>TAC	p.Y199Y	C7orf30_uc003swe.2_RNA	NM_138446	NP_612455	Q96EH3	CG030_HUMAN	hypothetical protein LOC115416	199						mitochondrion					0			GBM - Glioblastoma multiforme(13;0.154)			TACGTTCTTATGATGACCAGT	0.403000													12	154					0	0	0.435327	0	0
PRKDC	5591	broad.mit.edu	37	8	48749054	48749054	+	Missense_Mutation	SNP	C	T	T			TCGA-BJ-A0Z0-01A-11D-A10S-08	TCGA-BJ-A0Z0-10A-01D-A10S-08									Somatic	Phase_I	Capture				Illumina GAIIx	ae1da8dd-8775-4fda-b7c0-0b6b132507b9	21f02008-1bd8-4ea7-8191-2a5332832fc6	g.chr8:48749054C>T	uc003xqi.2	-	59	7853	c.7796G>A	c.(7795-7797)AGT>AAT	p.S2599N	PRKDC_uc003xqj.2_Missense_Mutation_p.S2599N|PRKDC_uc011ldh.1_Intron	NM_006904	NP_008835	P78527	PRKDC_HUMAN	protein kinase, DNA-activated, catalytic	2599	KIP-binding.				cellular response to insulin stimulus|double-strand break repair via nonhomologous end joining|peptidyl-serine phosphorylation|positive regulation of transcription from RNA polymerase II promoter	DNA-dependent protein kinase-DNA ligase 4 complex|transcription factor complex	ATP binding|DNA binding|DNA-dependent protein kinase activity|transcription factor binding			lung(12)|central_nervous_system(9)|ovary(6)|skin(4)|large_intestine(3)	34		all_cancers(86;0.0336)|all_epithelial(80;0.00111)|Lung NSC(129;0.00363)|all_lung(136;0.00391)				GAGAACAGTACTTCGGAAACG	0.463000								NHEJ					3	26					0	0	0.150653	0	0
ENPP2	5168	broad.mit.edu	37	8	120575209	120575209	+	Missense_Mutation	SNP	C	T	T			TCGA-BJ-A0Z0-01A-11D-A10S-08	TCGA-BJ-A0Z0-10A-01D-A10S-08									Somatic	Phase_I	Capture				Illumina GAIIx	ae1da8dd-8775-4fda-b7c0-0b6b132507b9	21f02008-1bd8-4ea7-8191-2a5332832fc6	g.chr8:120575209C>T	uc003yot.1	-	24	2395	c.2309G>A	c.(2308-2310)AGC>AAC	p.S770N	ENPP2_uc011lic.1_Missense_Mutation_p.S308N|ENPP2_uc003yor.1_Missense_Mutation_p.S405N|ENPP2_uc003yos.1_Missense_Mutation_p.S822N|ENPP2_uc010mdd.1_Missense_Mutation_p.S795N	NM_001040092	NP_001035181	Q13822	ENPP2_HUMAN	autotaxin isoform 2 preproprotein	770					cellular component movement|chemotaxis|G-protein coupled receptor protein signaling pathway|immune response|phosphate metabolic process|phosphatidylcholine catabolic process|regulation of cell migration	extracellular space|integral to plasma membrane	alkylglycerophosphoethanolamine phosphodiesterase activity|calcium ion binding|lysophospholipase activity|nucleic acid binding|nucleotide diphosphatase activity|phosphodiesterase I activity|polysaccharide binding|scavenger receptor activity|transcription factor binding|zinc ion binding			ovary(2)|central_nervous_system(2)|upper_aerodigestive_tract(1)|large_intestine(1)|kidney(1)	7	Lung NSC(37;5.03e-06)|Ovarian(258;0.0249)|Hepatocellular(40;0.161)		STAD - Stomach adenocarcinoma(47;0.00185)			GGTGATGATGCTGTAGTAGTG	0.507000													8	68					0	0	0.307466	0	0
TG	7038	broad.mit.edu	37	8	133894135	133894135	+	Silent	SNP	T	C	C			TCGA-BJ-A0Z0-01A-11D-A10S-08	TCGA-BJ-A0Z0-10A-01D-A10S-08									Somatic	Phase_I	Capture				Illumina GAIIx	ae1da8dd-8775-4fda-b7c0-0b6b132507b9	21f02008-1bd8-4ea7-8191-2a5332832fc6	g.chr8:133894135T>C	uc003ytw.2	+	6	707	c.666T>C	c.(664-666)AGT>AGC	p.S222S		NM_003235	NP_003226	P01266	THYG_HUMAN	thyroglobulin precursor	222	Thyroglobulin type-1 3.				hormone biosynthetic process|signal transduction|thyroid gland development|thyroid hormone generation	extracellular space	hormone activity			ovary(8)|breast(4)|pancreas(1)|central_nervous_system(1)|skin(1)	15	Ovarian(258;0.00438)|Acute lymphoblastic leukemia(118;0.155)	Myeloproliferative disorder(644;0.00878)|Acute lymphoblastic leukemia(644;0.0559)|Breast(495;0.0735)	BRCA - Breast invasive adenocarcinoma(115;0.000701)	KIRC - Kidney renal clear cell carcinoma(542;0.0546)		TGACCTTCAGTTCCTTCCAGA	0.483000													44	87					0	0	0.870114	0	0
SLC27A4	10999	broad.mit.edu	37	9	131112771	131112771	+	Missense_Mutation	SNP	G	A	A			TCGA-BJ-A0Z0-01A-11D-A10S-08	TCGA-BJ-A0Z0-10A-01D-A10S-08									Somatic	Phase_I	Capture				Illumina GAIIx	ae1da8dd-8775-4fda-b7c0-0b6b132507b9	21f02008-1bd8-4ea7-8191-2a5332832fc6	g.chr9:131112771G>A	uc004but.2	+	6	1078	c.794G>A	c.(793-795)CGC>CAC	p.R265H	SLC27A4_uc004buu.2_Intron	NM_005094	NP_005085	Q6P1M0	S27A4_HUMAN	solute carrier family 27 (fatty acid	265					long-chain fatty acid transport|transmembrane transport	integral to membrane	fatty acid transporter activity|nucleotide binding|protein binding				0						AGGTATTACCGCATGGCTGCC	0.627000													4	59					0	0	0.150653	0	0
PTEN	5728	broad.mit.edu	37	10	89711928	89711928	+	Frame_Shift_Del	DEL	A	-	-			TCGA-BJ-A0Z0-01A-11D-A10S-08	TCGA-BJ-A0Z0-10A-01D-A10S-08									Somatic	Phase_I	Capture				Illumina GAIIx	ae1da8dd-8775-4fda-b7c0-0b6b132507b9	21f02008-1bd8-4ea7-8191-2a5332832fc6	g.chr10:89711928delA	uc001kfb.2	+	7	1577	c.546delA	c.(544-546)TTAfs	p.L182fs		NM_000314	NP_000305	P60484	PTEN_HUMAN	phosphatase and tensin homolog	182	Phosphatase tensin-type.				activation of mitotic anaphase-promoting complex activity|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 cyclin-dependent protein kinase activity involved in G1/S|negative regulation of focal adhesion assembly|negative regulation of G1/S transition of mitotic cell cycle|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 protein ubiquitination involved in ubiquitin-dependent protein catabolic process|positive regulation of sequence-specific DNA binding transcription factor activity|protein stabilization|regulation of neuron projection development|T cell receptor signaling pathway	cytosol|internal side of plasma membrane|PML body	anaphase-promoting complex binding|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.R55fs*1(4)|p.V166fs*17(3)|p.?(3)|p.G165fs*9(3)|p.L182fs*16(2)|p.Y27fs*1(2)|p.Y27_N212>Y(2)|p.G165_K342del(1)|p.G165_*404del(1)|p.K183fs*7(1)|p.L182F(1)|p.V175fs*3(1)|p.L182*(1)		endometrium(831)|central_nervous_system(657)|skin(121)|haematopoietic_and_lymphoid_tissue(101)|large_intestine(99)|prostate(97)|breast(73)|lung(65)|ovary(58)|thyroid(29)|stomach(29)|upper_aerodigestive_tract(25)|cervix(24)|liver(20)|vulva(17)|kidney(15)|NS(14)|soft_tissue(13)|urinary_tract(12)|eye(8)|pancreas(6)|salivary_gland(5)|bone(5)|biliary_tract(4)|autonomic_ganglia(2)|meninges(2)|testis(1)|oesophagus(1)	2334		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)	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)		GCTACCTGTTAAAGAATCATC	0.388		31	D|Mis|N|F|S		glioma| prostate|endometrial	harmartoma|glioma| prostate|endometrial			Proteus_syndrome|Cowden_syndrome|Juvenile_Polyposis|Hereditary_Mixed_Polyposis_Syndrome_type_1|Bannayan-Riley-Ruvalcaba_syndrome	HNSCC(9;0.0022)|TCGA GBM(2;<1E-08)|TSP Lung(26;0.18)			87	77	---	---	---	---					
Unknown	0	broad.mit.edu	37	12	24737258	24737263	+	5'Flank	DEL	CCCCCA	-	-			TCGA-BJ-A0Z0-01A-11D-A10S-08	TCGA-BJ-A0Z0-10A-01D-A10S-08									Somatic	Phase_I	Capture				Illumina GAIIx	ae1da8dd-8775-4fda-b7c0-0b6b132507b9	21f02008-1bd8-4ea7-8191-2a5332832fc6	g.chr12:24737258_24737263delCCCCCA	uc001rgb.1	-											Homo sapiens cDNA FLJ32894 fis, clone TESTI2004994.																		CTTCGATTAGcccccacccccacccc	0.432													3	6	---	---	---	---					
Unknown	0	broad.mit.edu	37	12	91035326	91035369	+	IGR	DEL	GTTGGAAGGAAGGCAGGAAGGCAGGAAGACAGGGAGGGAGGGAA	-	-	rs61476716	by1000genomes	TCGA-BJ-A0Z0-01A-11D-A10S-08	TCGA-BJ-A0Z0-10A-01D-A10S-08									Somatic	Phase_I	Capture				Illumina GAIIx	ae1da8dd-8775-4fda-b7c0-0b6b132507b9	21f02008-1bd8-4ea7-8191-2a5332832fc6	g.chr12:91035326_91035369delGTTGGAAGGAAGGCAGGAAGGCAGGAAGACAGGGAGGGAGGGAA								LOC338758 (929598 upstream) : C12orf12 (310624 downstream)																							aggaaggaaggttggaaggaaggcaggaaggcaggaagacagggagggagggaagaaggaagga	0.123													3	3	---	---	---	---					
Unknown	0	broad.mit.edu	37	13	110078785	110078788	+	IGR	DEL	TCCT	-	-			TCGA-BJ-A0Z0-01A-11D-A10S-08	TCGA-BJ-A0Z0-10A-01D-A10S-08									Somatic	Phase_I	Capture				Illumina GAIIx	ae1da8dd-8775-4fda-b7c0-0b6b132507b9	21f02008-1bd8-4ea7-8191-2a5332832fc6	g.chr13:110078785_110078788delTCCT								MYO16 (218430 upstream) : IRS2 (327398 downstream)																							cctccctccctcctccttccttcc	0.196													2	4	---	---	---	---					
Unknown	0	broad.mit.edu	37	16	9250235	9250236	+	IGR	INS	-	T	T			TCGA-BJ-A0Z0-01A-11D-A10S-08	TCGA-BJ-A0Z0-10A-01D-A10S-08									Somatic	Phase_I	Capture				Illumina GAIIx	ae1da8dd-8775-4fda-b7c0-0b6b132507b9	21f02008-1bd8-4ea7-8191-2a5332832fc6	g.chr16:9250235_9250236insT								C16orf72 (36690 upstream) : GRIN2A (597031 downstream)																							GAGGTCCTTTATTTTTTTTTTT	0.376													4	5	---	---	---	---					
KBTBD10	10324	broad.mit.edu	37	2	170366496	170366496	+	Frame_Shift_Del	DEL	A	-	-			TCGA-BJ-A0Z0-01A-11D-A10S-08	TCGA-BJ-A0Z0-10A-01D-A10S-08									Somatic	Phase_I	Capture				Illumina GAIIx	ae1da8dd-8775-4fda-b7c0-0b6b132507b9	21f02008-1bd8-4ea7-8191-2a5332832fc6	g.chr2:170366496delA	uc002ueu.1	+	1	285	c.208delA	c.(208-210)AAAfs	p.K70fs	KBTBD10_uc010zdh.1_Intron	NM_006063	NP_006054	O60662	KBTBA_HUMAN	kelch repeat and BTB (POZ) domain containing 10	70	BTB.				striated muscle contraction	centrosome|nucleolus|plasma membrane|pseudopodium|ruffle					0						TGATGAGGCGAAAAAAAAGGA	0.388													11	244	---	---	---	---					
Unknown	0	broad.mit.edu	37	2	176088045	176088045	+	IGR	DEL	T	-	-			TCGA-BJ-A0Z0-01A-11D-A10S-08	TCGA-BJ-A0Z0-10A-01D-A10S-08									Somatic	Phase_I	Capture				Illumina GAIIx	ae1da8dd-8775-4fda-b7c0-0b6b132507b9	21f02008-1bd8-4ea7-8191-2a5332832fc6	g.chr2:176088045delT								ATP5G3 (41555 upstream) : KIAA1715 (702365 downstream)																							tctttctttcttttctttctt	0.035													2	4	---	---	---	---					
RFPL3	10738	broad.mit.edu	37	22	32752978	32752979	+	5'Flank	INS	-	G	G			TCGA-BJ-A0Z0-01A-11D-A10S-08	TCGA-BJ-A0Z0-10A-01D-A10S-08									Somatic	Phase_I	Capture				Illumina GAIIx	ae1da8dd-8775-4fda-b7c0-0b6b132507b9	21f02008-1bd8-4ea7-8191-2a5332832fc6	g.chr22:32752978_32752979insG	uc003amj.2	+						RFPL3_uc010gwn.2_Intron	NM_001098535	NP_001092005	O75679	RFPL3_HUMAN	ret finger protein-like 3 isoform 1								zinc ion binding			ovary(1)	1						GGCTGGCCTGTGGGTGGGCGAG	0.624													4	9	---	---	---	---					
ANKS1A	23294	broad.mit.edu	37	6	34985798	34985820	+	Frame_Shift_Del	DEL	CTAGAGAAGTCACCCTCCTTCGC	-	-	rs2820236	byFrequency	TCGA-BJ-A0Z0-01A-11D-A10S-08	TCGA-BJ-A0Z0-10A-01D-A10S-08									Somatic	Phase_I	Capture				Illumina GAIIx	ae1da8dd-8775-4fda-b7c0-0b6b132507b9	21f02008-1bd8-4ea7-8191-2a5332832fc6	g.chr6:34985798_34985820delCTAGAGAAGTCACCCTCCTTCGC	uc003ojx.3	+	11	2114_2136	c.1972_1994delCTAGAGAAGTCACCCTCCTTCGC	c.(1972-1995)CTAGAGAAGTCACCCTCCTTCGCCfs	p.L658fs	ANKS1A_uc011dss.1_Intron|ANKS1A_uc011dst.1_Frame_Shift_Del_p.L198fs|ANKS1A_uc010jvp.1_Intron	NM_015245	NP_056060	Q92625	ANS1A_HUMAN	ankyrin repeat and sterile alpha motif domain	658_665						cytoplasm	protein binding			ovary(3)|upper_aerodigestive_tract(1)	4						GAAGAAAAGGCTAGAGAAGTCACCCTCCTTCGCCTCGGAGTGG	0.596													37	277	---	---	---	---					
Unknown	0	broad.mit.edu	37	8	26290434	26290435	+	IGR	INS	-	A	A	rs114412722		TCGA-BJ-A0Z0-01A-11D-A10S-08	TCGA-BJ-A0Z0-10A-01D-A10S-08									Somatic	Phase_I	Capture				Illumina GAIIx	ae1da8dd-8775-4fda-b7c0-0b6b132507b9	21f02008-1bd8-4ea7-8191-2a5332832fc6	g.chr8:26290434_26290435insA								BNIP3L (19790 upstream) : PNMA2 (71761 downstream)																							TTGAAGTCTTCAAAAAAAAAAA	0.322													6	4	---	---	---	---					
