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
CCDC18	343099	broad.mit.edu	37	1	93646284	93646284	+	Missense_Mutation	SNP	T	C	C			TCGA-CS-4942-01A-01D-1468-08	TCGA-CS-4942-10A-01D-1468-08									Somatic	Phase_I	Capture				Illumina GAIIx	ee5832e7-577c-4507-a4fd-a70646fabc24	f2b83686-8044-4e74-9554-8b4d3c40b2b2	g.chr1:93646284T>C	uc001dpq.2	+	1	365	c.197T>C	c.(196-198)TTC>TCC	p.F66S	TMED5_uc001dpn.2_5'Flank|TMED5_uc001dpo.2_5'Flank|TMED5_uc001dpp.2_5'Flank	NM_206886	NP_996769	Q5T9S5	CCD18_HUMAN	sarcoma antigen NY-SAR-41	Error:Variant_position_missing_in_Q5T9S5_after_alignment										ovary(2)|breast(2)|pancreas(1)	5		all_lung(203;0.00196)|Lung NSC(277;0.00903)|Melanoma(281;0.099)|all_neural(321;0.185)|Glioma(108;0.203)		all cancers(265;0.00166)|GBM - Glioblastoma multiforme(16;0.00551)|Epithelial(280;0.0967)		CCGCGGCGGTTCGAATTCTGT	0.706000													2	14					0	0	0.115264	0	0
ASPM	259266	broad.mit.edu	37	1	197072215	197072215	+	Missense_Mutation	SNP	C	G	G			TCGA-CS-4942-01A-01D-1468-08	TCGA-CS-4942-10A-01D-1468-08									Somatic	Phase_I	Capture				Illumina GAIIx	ee5832e7-577c-4507-a4fd-a70646fabc24	f2b83686-8044-4e74-9554-8b4d3c40b2b2	g.chr1:197072215C>G	uc001gtu.2	-	18	6423	c.6166G>C	c.(6166-6168)GCT>CCT	p.A2056P	ASPM_uc001gtv.2_Intron|ASPM_uc001gtw.3_Intron	NM_018136	NP_060606	Q8IZT6	ASPM_HUMAN	asp (abnormal spindle)-like, microcephaly	2056	IQ 15.				mitosis	cytoplasm|nucleus	calmodulin binding			ovary(4)|central_nervous_system(2)	6						GTTTTGTAAGCTCTGTATTTA	0.343000													95	193					0	0	0.870114	0	0
CEP170	9859	broad.mit.edu	37	1	243328278	243328278	+	Missense_Mutation	SNP	C	T	T			TCGA-CS-4942-01A-01D-1468-08	TCGA-CS-4942-10A-01D-1468-08									Somatic	Phase_I	Capture				Illumina GAIIx	ee5832e7-577c-4507-a4fd-a70646fabc24	f2b83686-8044-4e74-9554-8b4d3c40b2b2	g.chr1:243328278C>T	uc001hzs.2	-	13	3392	c.2984G>A	c.(2983-2985)CGT>CAT	p.R995H	CEP170_uc001hzt.2_Missense_Mutation_p.R897H|CEP170_uc001hzu.2_Missense_Mutation_p.R897H|CEP170_uc001hzv.1_Missense_Mutation_p.R373H	NM_014812	NP_055627	Q5SW79	CE170_HUMAN	centrosomal protein 170kDa isoform alpha	995	Targeting to microtubules.					centriole|microtubule|spindle				ovary(1)|haematopoietic_and_lymphoid_tissue(1)	2	all_neural(11;0.101)	all_cancers(173;0.003)	all cancers(7;5.81e-06)|GBM - Glioblastoma multiforme(7;0.000443)|OV - Ovarian serous cystadenocarcinoma(106;0.0101)			ATCTGTGGAACGACTTTTTGT	0.408000													14	105					0	0	0.639603	0	0
OR6F1	343169	broad.mit.edu	37	1	247875530	247875530	+	Missense_Mutation	SNP	G	T	T	rs144069302		TCGA-CS-4942-01A-01D-1468-08	TCGA-CS-4942-10A-01D-1468-08									Somatic	Phase_I	Capture				Illumina GAIIx	ee5832e7-577c-4507-a4fd-a70646fabc24	f2b83686-8044-4e74-9554-8b4d3c40b2b2	g.chr1:247875530G>T	uc001idj.1	-	1	528	c.528C>A	c.(526-528)CAC>CAA	p.H176Q		NM_001005286	NP_001005286	Q8NGZ6	OR6F1_HUMAN	olfactory receptor, family 6, subfamily F,	176	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity				0	all_cancers(71;3.24e-05)|all_epithelial(71;1.3e-05)|Breast(184;0.0149)|Ovarian(71;0.0377)|all_lung(81;0.0662)|Lung NSC(105;0.0724)		OV - Ovarian serous cystadenocarcinoma(106;0.0168)			CACAGAAGAAGTGGTTGATGG	0.577000													6	166					0.00198382	0.00206161	0.248553	1	0
OR2W3	343171	broad.mit.edu	37	1	248058977	248058977	+	Missense_Mutation	SNP	T	C	C			TCGA-CS-4942-01A-01D-1468-08	TCGA-CS-4942-10A-01D-1468-08									Somatic	Phase_I	Capture				Illumina GAIIx	ee5832e7-577c-4507-a4fd-a70646fabc24	f2b83686-8044-4e74-9554-8b4d3c40b2b2	g.chr1:248058977T>C	uc001idp.1	+	3	358	c.89T>C	c.(88-90)GTC>GCC	p.V30A	OR2W3_uc010pzb.1_Missense_Mutation_p.V30A	NM_001001957	NP_001001957	Q7Z3T1	OR2W3_HUMAN	olfactory receptor, family 2, subfamily W,	30	Helical; Name=1; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)|breast(1)|pancreas(1)	3	all_cancers(71;0.000139)|all_epithelial(71;1.58e-05)|Breast(184;0.0117)|Ovarian(71;0.0377)|all_lung(81;0.127)|Lung NSC(105;0.136)		OV - Ovarian serous cystadenocarcinoma(106;0.0319)			CTCTTTGTGGTCATCCTGATC	0.567000													3	155					0	0	0.115264	0	0
SYNPO2L	79933	broad.mit.edu	37	10	75406654	75406654	+	Missense_Mutation	SNP	A	G	G			TCGA-CS-4942-01A-01D-1468-08	TCGA-CS-4942-10A-01D-1468-08									Somatic	Phase_I	Capture				Illumina GAIIx	ee5832e7-577c-4507-a4fd-a70646fabc24	f2b83686-8044-4e74-9554-8b4d3c40b2b2	g.chr10:75406654A>G	uc001jut.3	-	4	2908	c.2756T>C	c.(2755-2757)ATC>ACC	p.I919T	SYNPO2L_uc001jus.3_Missense_Mutation_p.I695T	NM_001114133	NP_001107605	Q9H987	SYP2L_HUMAN	synaptopodin 2-like isoform a	919	Pro-rich.					cytoplasm|cytoskeleton	actin binding			ovary(1)	1	Prostate(51;0.0112)					TGTTCTCCAGATGGGCTCATC	0.652000													30	40					0	0	0.796494	0	0
LRIT1	26103	broad.mit.edu	37	10	86001161	86001161	+	Missense_Mutation	SNP	G	A	A			TCGA-CS-4942-01A-01D-1468-08	TCGA-CS-4942-10A-01D-1468-08									Somatic	Phase_I	Capture				Illumina GAIIx	ee5832e7-577c-4507-a4fd-a70646fabc24	f2b83686-8044-4e74-9554-8b4d3c40b2b2	g.chr10:86001161G>A	uc001kcz.1	-	1	57	c.35C>T	c.(34-36)GCC>GTC	p.A12V		NM_015613	NP_056428	Q9P2V4	LRIT1_HUMAN	retina specific protein PAL	12						integral to endoplasmic reticulum membrane					0						CCACGCAAGGGCCAAGAGCCA	0.677000													6	19					0	0	0.278610	0	0
F2	2147	broad.mit.edu	37	11	46760818	46760818	+	Missense_Mutation	SNP	C	T	T			TCGA-CS-4942-01A-01D-1468-08	TCGA-CS-4942-10A-01D-1468-08									Somatic	Phase_I	Capture				Illumina GAIIx	ee5832e7-577c-4507-a4fd-a70646fabc24	f2b83686-8044-4e74-9554-8b4d3c40b2b2	g.chr11:46760818C>T	uc001ndf.3	+	14	1772	c.1729C>T	c.(1729-1731)CCC>TCC	p.P577S	F2_uc001ndg.3_RNA	NM_000506	NP_000497	P00734	THRB_HUMAN	coagulation factor II preproprotein	577	Peptidase S1.				activation of caspase activity|acute-phase response|blood coagulation, intrinsic pathway|cell surface receptor linked signaling pathway|cytosolic calcium ion homeostasis|fibrinolysis|leukocyte migration|negative regulation of astrocyte differentiation|negative regulation of fibrinolysis|negative regulation of platelet activation|negative regulation of proteolysis|peptidyl-glutamic acid carboxylation|platelet activation|positive regulation of collagen biosynthetic process|positive regulation of protein phosphorylation|positive regulation of reactive oxygen species metabolic process|positive regulation of release of sequestered calcium ion into cytosol|post-translational protein modification|proteolysis|STAT protein import into nucleus|tyrosine phosphorylation of STAT protein	cytosol|endoplasmic reticulum lumen|extracellular space|Golgi lumen|plasma membrane|soluble fraction	calcium ion binding|growth factor activity|serine-type endopeptidase activity|thrombospondin receptor activity			ovary(3)	3		all_lung(304;0.000414)|Lung NSC(402;0.0011)		BRCA - Breast invasive adenocarcinoma(625;0.146)	Antihemophilic Factor(DB00025)|Argatroban(DB00278)|Bivalirudin(DB00006)|Coagulation Factor IX(DB00100)|Drotrecogin alfa(DB00055)|Enoxaparin(DB01225)|Heparin(DB01109)|Lepirudin(DB00001)|Menadione(DB00170)|Proflavine(DB01123)|Simvastatin(DB00641)|Suramin(DB04786)|Warfarin(DB00682)|Ximelagatran(DB04898)	TCTTCAGAGCCCCTTTAACAA	0.478000													51	95					0	0	0.870114	0	0
WNT11	7481	broad.mit.edu	37	11	75902837	75902837	+	Missense_Mutation	SNP	G	A	A			TCGA-CS-4942-01A-01D-1468-08	TCGA-CS-4942-10A-01D-1468-08									Somatic	Phase_I	Capture				Illumina GAIIx	ee5832e7-577c-4507-a4fd-a70646fabc24	f2b83686-8044-4e74-9554-8b4d3c40b2b2	g.chr11:75902837G>A	uc001oxe.2	-	4	784	c.661C>T	c.(661-663)CGC>TGC	p.R221C	WNT11_uc001oxf.1_Missense_Mutation_p.R221C	NM_004626	NP_004617	O96014	WNT11_HUMAN	wingless-type MMTV integration site family,	221					adrenal gland development|anterior/posterior pattern formation|artery morphogenesis|axis specification|bone mineralization|cellular response to retinoic acid|cloacal septation|embryonic skeletal system development|endoderm development|lung-associated mesenchyme development|mesonephric duct development|negative regulation of apoptosis|negative regulation of canonical Wnt receptor signaling pathway|negative regulation of cartilage development|negative regulation of cell growth|negative regulation of cell migration|negative regulation of transcription, DNA-dependent|neuroendocrine cell differentiation|neuron differentiation|osteoblast differentiation|outflow tract morphogenesis|palate development|positive regulation of cell migration|positive regulation of protein kinase C signaling cascade|positive regulation of stress fiber assembly|positive regulation of transcription, DNA-dependent|positive regulation of transforming growth factor-beta2 production|protein localization at cell surface|protein phosphorylation|tight junction assembly|ureteric bud morphogenesis|ventricular septum morphogenesis|Wnt receptor signaling pathway, calcium modulating pathway	cytoplasm|extracellular space|plasma membrane|proteinaceous extracellular matrix	G-protein-coupled receptor binding|protein kinase activator activity|Ras GTPase activator activity|transcription regulatory region DNA binding			lung(1)|skin(1)	2						CAGCAGGTGCGGATGGAGCAG	0.637000													4	89					0	0	0.150653	0	0
DGKH	160851	broad.mit.edu	37	13	42763202	42763202	+	Silent	SNP	C	T	T			TCGA-CS-4942-01A-01D-1468-08	TCGA-CS-4942-10A-01D-1468-08									Somatic	Phase_I	Capture				Illumina GAIIx	ee5832e7-577c-4507-a4fd-a70646fabc24	f2b83686-8044-4e74-9554-8b4d3c40b2b2	g.chr13:42763202C>T	uc001uyl.1	+	15	1690	c.1669C>T	c.(1669-1671)CTG>TTG	p.L557L	DGKH_uc010tfh.1_Silent_p.L557L|DGKH_uc001uym.1_Silent_p.L557L|DGKH_uc010tfi.1_Silent_p.L312L|DGKH_uc010tfj.1_Silent_p.L412L|DGKH_uc001uyn.1_RNA|DGKH_uc001uyo.1_Silent_p.L412L|DGKH_uc001uyp.2_RNA	NM_178009	NP_821077	Q86XP1	DGKH_HUMAN	diacylglycerol kinase, eta isoform 2	557					activation of protein kinase C activity by G-protein coupled receptor protein signaling pathway|intracellular signal transduction|platelet activation|protein oligomerization	endosome|plasma membrane	ATP binding|diacylglycerol kinase activity|metal ion binding			ovary(2)	2		Lung NSC(96;1.02e-05)|Prostate(109;0.0168)|Lung SC(185;0.0262)|Breast(139;0.0709)|Hepatocellular(98;0.114)		OV - Ovarian serous cystadenocarcinoma(117;5.88e-05)|GBM - Glioblastoma multiforme(144;0.000935)|BRCA - Breast invasive adenocarcinoma(63;0.109)		GCTCGAACAACTGCTGCAGGC	0.463000													6	112					0	0	0.278610	0	0
UPF3A	65110	broad.mit.edu	37	13	115047559	115047559	+	Silent	SNP	C	T	T			TCGA-CS-4942-01A-01D-1468-08	TCGA-CS-4942-10A-01D-1468-08									Somatic	Phase_I	Capture				Illumina GAIIx	ee5832e7-577c-4507-a4fd-a70646fabc24	f2b83686-8044-4e74-9554-8b4d3c40b2b2	g.chr13:115047559C>T	uc001vup.2	+	2	308	c.271C>T	c.(271-273)CTG>TTG	p.L91L	UPF3A_uc010tkn.1_Silent_p.L91L|UPF3A_uc001vuq.2_Silent_p.L91L|UPF3A_uc001vus.2_RNA|UPF3A_uc001vur.2_RNA	NM_023011	NP_075387	Q9H1J1	REN3A_HUMAN	UPF3 regulator of nonsense transcripts homolog A	91	Required for interaction with UPF2.				mRNA transport|nuclear-transcribed mRNA catabolic process, nonsense-mediated decay|positive regulation of translation	cytoplasm|nucleus|plasma membrane	nucleocytoplasmic transporter activity|nucleotide binding|protein binding|RNA binding			skin(1)	1	Lung NSC(43;0.00299)|all_neural(89;0.0337)|Medulloblastoma(90;0.163)|Lung SC(71;0.218)	all_cancers(25;0.0191)|all_epithelial(44;0.00716)|all_lung(25;0.0173)|Lung NSC(25;0.0634)|Breast(118;0.238)	BRCA - Breast invasive adenocarcinoma(86;0.0886)	OV - Ovarian serous cystadenocarcinoma(48;0.195)|Epithelial(10;0.2)		GCTGCGCCCGCTGCCAGCACA	0.731000													2	4					0	0	0.115264	0	0
ACOT2	10965	broad.mit.edu	37	14	74036497	74036497	+	Missense_Mutation	SNP	A	G	G			TCGA-CS-4942-01A-01D-1468-08	TCGA-CS-4942-10A-01D-1468-08									Somatic	Phase_I	Capture				Illumina GAIIx	ee5832e7-577c-4507-a4fd-a70646fabc24	f2b83686-8044-4e74-9554-8b4d3c40b2b2	g.chr14:74036497A>G	uc001xon.3	+	1	726	c.553A>G	c.(553-555)ACG>GCG	p.T185A	ACOT1_uc010tuc.1_Intron|ACOT2_uc001xom.2_Intron	NM_006821	NP_006812	P49753	ACOT2_HUMAN	acyl-CoA thioesterase 2	185					acyl-CoA metabolic process|long-chain fatty acid metabolic process|very long-chain fatty acid metabolic process	mitochondrion	carboxylesterase activity|palmitoyl-CoA hydrolase activity|protein binding			skin(1)	1				BRCA - Breast invasive adenocarcinoma(234;0.0033)|OV - Ovarian serous cystadenocarcinoma(108;0.0639)		GCTGTGCCAGACGCGGCACGA	0.736000													2	0					0	0	0.115264	0	0
LOC645752	645752	broad.mit.edu	37	15	78212571	78212571	+	Translation_Start_Site	SNP	G	A	A			TCGA-CS-4942-01A-01D-1468-08	TCGA-CS-4942-10A-01D-1468-08									Somatic	Phase_I	Capture				Illumina GAIIx	ee5832e7-577c-4507-a4fd-a70646fabc24	f2b83686-8044-4e74-9554-8b4d3c40b2b2	g.chr15:78212571G>A	uc010bky.2	-	8	668	c.-96C>T	c.(-98--94)CACGT>CATGT			NR_027024				SubName: Full=GOLGA6 protein; Flags: Fragment;												0						CCTGTGTCACGTGTGCGTTCA	0.572000													4	48					0	0	0.217242	0	0
C16orf71	146562	broad.mit.edu	37	16	4786629	4786629	+	Missense_Mutation	SNP	C	G	G			TCGA-CS-4942-01A-01D-1468-08	TCGA-CS-4942-10A-01D-1468-08									Somatic	Phase_I	Capture				Illumina GAIIx	ee5832e7-577c-4507-a4fd-a70646fabc24	f2b83686-8044-4e74-9554-8b4d3c40b2b2	g.chr16:4786629C>G	uc002cxn.2	+	2	576	c.114C>G	c.(112-114)GAC>GAG	p.D38E	ANKS3_uc002cxj.1_5'Flank|ANKS3_uc002cxk.2_5'Flank|ANKS3_uc002cxl.2_5'Flank|ANKS3_uc010uxs.1_5'Flank|ANKS3_uc002cxm.2_5'Flank	NM_139170	NP_631909	Q8IYS4	CP071_HUMAN	hypothetical protein LOC146562	38										central_nervous_system(1)	1						CGTCTCTGGACTCAGACTCCC	0.592000													6	138					0	0	0.217242	0	0
RABEP2	79874	broad.mit.edu	37	16	28922261	28922261	+	Missense_Mutation	SNP	C	T	T			TCGA-CS-4942-01A-01D-1468-08	TCGA-CS-4942-10A-01D-1468-08									Somatic	Phase_I	Capture				Illumina GAIIx	ee5832e7-577c-4507-a4fd-a70646fabc24	f2b83686-8044-4e74-9554-8b4d3c40b2b2	g.chr16:28922261C>T	uc002drq.2	-	7	1085	c.1037G>A	c.(1036-1038)CGG>CAG	p.R346Q	uc010vct.1_Intron|RABEP2_uc010vdf.1_Missense_Mutation_p.R275Q|RABEP2_uc010byn.2_Missense_Mutation_p.R314Q|RABEP2_uc002drr.2_Missense_Mutation_p.R346Q	NM_024816	NP_079092	Q9H5N1	RABE2_HUMAN	rabaptin, RAB GTPase binding effector protein 2	346	Potential.				endocytosis|protein transport	early endosome	growth factor activity|GTPase activator activity			ovary(1)|breast(1)|skin(1)	3						TTGCAGGGTCCGCAGCAGCTG	0.677000													4	51					0	0	0.184627	0	0
TP53	7157	broad.mit.edu	37	17	7577114	7577114	+	Missense_Mutation	SNP	C	A	A			TCGA-CS-4942-01A-01D-1468-08	TCGA-CS-4942-10A-01D-1468-08									Somatic	Phase_I	Capture				Illumina GAIIx	ee5832e7-577c-4507-a4fd-a70646fabc24	f2b83686-8044-4e74-9554-8b4d3c40b2b2	g.chr17:7577114C>A	uc002gim.2	-	8	1018	c.824G>T	c.(823-825)TGT>TTT	p.C275F	TP53_uc002gig.1_Intron|TP53_uc002gih.2_Missense_Mutation_p.C275F|TP53_uc010cne.1_5'Flank|TP53_uc010cnf.1_Missense_Mutation_p.C143F|TP53_uc010cng.1_Missense_Mutation_p.C143F|TP53_uc002gii.1_Missense_Mutation_p.C143F|TP53_uc010cnh.1_Missense_Mutation_p.C275F|TP53_uc010cni.1_Missense_Mutation_p.C275F|TP53_uc002gij.2_Missense_Mutation_p.C275F	NM_001126112	NP_001119584	P04637	P53_HUMAN	tumor protein p53 isoform a	275	Interaction with DNA.||Interaction with E4F1.|Interaction with HIPK1 (By similarity).|Interaction with AXIN1 (By similarity).		C -> S (in sporadic cancers; somatic mutation).|C -> G (in sporadic cancers; somatic mutation).|C -> F (in sporadic cancers; somatic mutation).|C -> W (in sporadic cancers; somatic mutation).|C -> Y (in LFS; germline mutation and in sporadic cancers; somatic mutation).|C -> R (in sporadic cancers; somatic mutation).		activation of caspase activity by cytochrome c|base-excision repair|blood coagulation|cell cycle arrest|cell differentiation|cell proliferation|cellular protein localization|cellular response to drug|cellular response to glucose starvation|cellular response to hypoxia|cellular response to ionizing radiation|cellular response to UV|determination of adult lifespan|DNA damage response, signal transduction by p53 class mediator resulting in cell cycle arrest|DNA damage response, signal transduction by p53 class mediator resulting in induction of apoptosis|DNA damage response, signal transduction by p53 class mediator resulting in transcription of p21 class mediator|ER overload response|interspecies interaction between organisms|negative regulation of apoptosis|negative regulation of cell growth|negative regulation of cell proliferation|negative regulation of helicase activity|negative regulation of transcription from RNA polymerase II promoter|negative regulation of transcription from RNA polymerase II promoter|nucleotide-excision repair|oxidative stress-induced premature senescence|positive regulation of histone deacetylation|positive regulation of neuron apoptosis|positive regulation of peptidyl-tyrosine phosphorylation|positive regulation of reactive oxygen species metabolic process|positive regulation of thymocyte apoptosis|positive regulation of transcription from RNA polymerase II promoter|positive regulation of transcription from RNA polymerase II promoter|protein localization|protein tetramerization|Ras protein signal transduction|regulation of mitochondrial membrane permeability|replicative senescence|response to antibiotic|response to gamma radiation|response to X-ray	cytoplasm|cytosol|endoplasmic reticulum|insoluble fraction|mitochondrion|nuclear chromatin|nuclear matrix|nucleolus|nucleus|PML body|protein complex|replication fork	ATP binding|chaperone binding|chromatin binding|copper ion binding|damaged DNA binding|DNA strand annealing activity|histone acetyltransferase binding|p53 binding|protease binding|protein binding|protein heterodimerization activity|protein kinase binding|protein N-terminus binding|protein phosphatase 2A binding|RNA polymerase II transcription factor binding|sequence-specific DNA binding transcription factor activity|transcription regulatory region DNA binding|transcription regulatory region DNA binding|transcription repressor activity|ubiquitin protein ligase binding|zinc ion binding	p.C275Y(44)|p.C275F(34)|p.C275G(7)|p.C275W(7)|p.0?(7)|p.C275R(6)|p.C275C(4)|p.C275fs*70(2)|p.C275fs*31(2)|p.?(2)|p.C275S(2)|p.R273_C275delRVC(1)|p.C275_A276ins10(1)|p.V274_P278del(1)|p.C275*(1)|p.F270_D281del12(1)|p.C275_R283delCACPGRDRR(1)|p.L265_K305del41(1)|p.S269fs*21(1)|p.C275fs*67(1)|p.V272_K292del21(1)|p.C275fs*20(1)|p.A276fs*29(1)		large_intestine(4656)|breast(2429)|upper_aerodigestive_tract(2212)|lung(2028)|ovary(1592)|oesophagus(1462)|haematopoietic_and_lymphoid_tissue(1228)|stomach(1136)|urinary_tract(1114)|central_nervous_system(1085)|liver(805)|skin(694)|pancreas(375)|biliary_tract(247)|soft_tissue(209)|prostate(194)|endometrium(150)|bone(102)|vulva(79)|kidney(79)|cervix(68)|thyroid(54)|salivary_gland(43)|adrenal_gland(37)|peritoneum(33)|eye(24)|thymus(21)|genital_tract(16)|autonomic_ganglia(16)|small_intestine(14)|testis(11)|penis(10)|vagina(6)|meninges(5)|pituitary(4)|pleura(3)|gastrointestinal_tract_(site_indeterminate)(1)|NS(1)|Fallopian tube(1)|placenta(1)	22245		all_cancers(10;1.01e-06)|Myeloproliferative disorder(207;0.0122)|Prostate(122;0.081)		GBM - Glioblastoma multiforme(2;1.59e-06)|READ - Rectum adenocarcinoma(115;0.174)		AGGACAGGCACAAACACGCAC	0.552000		111	Mis|N|F		breast|colorectal|lung|sarcoma|adrenocortical|glioma|multiple other tumour types	breast|sarcoma|adrenocortical carcinoma|glioma|multiple other tumour types		Other_conserved_DNA_damage_response_genes	Hereditary_Adrenocortical_Cancer|Endometrial_Cancer_Familial_Clustering_of|Hereditary_Breast-Ovarian_Cancer_non-BRCA1/2|Li-Fraumeni_syndrome|Osteosarcoma_Familial_Clustering_of	HNSCC(1;<9.43e-08)|TCGA GBM(1;<1E-08)|TSP Lung(2;<1E-08)|TCGA Ovarian(1;<1.89e-07)|Multiple Myeloma(5;0.019)			52	11					1.17475e-09	1.27065e-09	0.870114	1	0
YES1	7525	broad.mit.edu	37	18	756710	756710	+	Missense_Mutation	SNP	A	G	G			TCGA-CS-4942-01A-01D-1468-08	TCGA-CS-4942-10A-01D-1468-08									Somatic	Phase_I	Capture				Illumina GAIIx	ee5832e7-577c-4507-a4fd-a70646fabc24	f2b83686-8044-4e74-9554-8b4d3c40b2b2	g.chr18:756710A>G	uc002kky.2	-	2	339	c.118T>C	c.(118-120)TCA>CCA	p.S40P	YES1_uc002kkz.2_Missense_Mutation_p.S40P	NM_005433	NP_005424	P07947	YES_HUMAN	viral oncogene yes-1 homolog 1	40					blood coagulation|leukocyte migration|regulation of vascular permeability|T cell costimulation	cytosol|plasma membrane	ATP binding|ion channel binding|non-membrane spanning protein tyrosine kinase activity			lung(2)|ovary(1)	3					Dasatinib(DB01254)	GGACATGGTGACACTGTAGTG	0.453000													108	174					0	0	0.870114	0	0
WDR18	57418	broad.mit.edu	37	19	991974	991974	+	Silent	SNP	C	T	T			TCGA-CS-4942-01A-01D-1468-08	TCGA-CS-4942-10A-01D-1468-08									Somatic	Phase_I	Capture				Illumina GAIIx	ee5832e7-577c-4507-a4fd-a70646fabc24	f2b83686-8044-4e74-9554-8b4d3c40b2b2	g.chr19:991974C>T	uc002lqm.1	+	8	977	c.951C>T	c.(949-951)GCC>GCT	p.A317A	WDR18_uc002lqn.1_RNA|WDR18_uc010drx.1_Silent_p.A280A|WDR18_uc010dry.1_Silent_p.A317A	NM_024100	NP_077005	Q9BV38	WDR18_HUMAN	WD repeat domain 18	317										skin(1)	1		Acute lymphoblastic leukemia(61;2.53e-14)|all_hematologic(61;8.18e-10)|Lung NSC(49;1.04e-05)|all_lung(49;1.53e-05)|Breast(49;9.42e-05)|Hepatocellular(1079;0.137)		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)		CCAATGCCGCCATCCTGCTGG	0.488000													3	9					0	0	0.115264	0	0
KRTCAP3	200634	broad.mit.edu	37	2	27665528	27665528	+	Silent	SNP	C	T	T			TCGA-CS-4942-01A-01D-1468-08	TCGA-CS-4942-10A-01D-1468-08									Somatic	Phase_I	Capture				Illumina GAIIx	ee5832e7-577c-4507-a4fd-a70646fabc24	f2b83686-8044-4e74-9554-8b4d3c40b2b2	g.chr2:27665528C>T	uc002rks.2	+	2	128	c.111C>T	c.(109-111)GCC>GCT	p.A37A	KRTCAP3_uc010ylr.1_Silent_p.A37A|KRTCAP3_uc002rkt.2_Silent_p.A19A	NM_173853	NP_776252	Q53RY4	KCP3_HUMAN	keratinocyte associated protein 3	37	Helical; (Potential).					integral to membrane					0	Acute lymphoblastic leukemia(172;0.155)					TGCTGGGGGCCGTGCTGCATG	0.672000													12	21					0	0	0.457914	0	0
POLR1A	25885	broad.mit.edu	37	2	86316951	86316951	+	Silent	SNP	G	A	A			TCGA-CS-4942-01A-01D-1468-08	TCGA-CS-4942-10A-01D-1468-08									Somatic	Phase_I	Capture				Illumina GAIIx	ee5832e7-577c-4507-a4fd-a70646fabc24	f2b83686-8044-4e74-9554-8b4d3c40b2b2	g.chr2:86316951G>A	uc002sqs.2	-	4	913	c.534C>T	c.(532-534)GGC>GGT	p.G178G	POLR1A_uc002sqv.2_Silent_p.G178G	NM_015425	NP_056240	O95602	RPA1_HUMAN	DNA-directed RNA polymerase I A	178					termination of RNA polymerase I transcription|transcription elongation from RNA polymerase I promoter|transcription initiation from RNA polymerase I promoter	DNA-directed RNA polymerase I complex|nucleoplasm	DNA binding|DNA-directed RNA polymerase activity|protein binding|zinc ion binding			ovary(2)|skin(1)	3						TCACATGTGCGCCCTGGGACC	0.458000													40	86					0	0	0.864702	0	0
SLC9A4	389015	broad.mit.edu	37	2	103149082	103149082	+	Missense_Mutation	SNP	A	G	G			TCGA-CS-4942-01A-01D-1468-08	TCGA-CS-4942-10A-01D-1468-08									Somatic	Phase_I	Capture				Illumina GAIIx	ee5832e7-577c-4507-a4fd-a70646fabc24	f2b83686-8044-4e74-9554-8b4d3c40b2b2	g.chr2:103149082A>G	uc002tbz.3	+	12	2789	c.2332A>G	c.(2332-2334)ACA>GCA	p.T778A		NM_001011552	NP_001011552	Q6AI14	SL9A4_HUMAN	solute carrier family 9 (sodium/hydrogen	778	Cytoplasmic (Potential).				regulation of pH	apical plasma membrane|basolateral plasma membrane|integral to membrane	sodium:hydrogen antiporter activity			skin(2)|central_nervous_system(1)	3						GTCGAGGTGGACAGCTGACCA	0.502000													13	23					0	0	0.457914	0	0
RGPD4	285190	broad.mit.edu	37	2	108496508	108496508	+	Missense_Mutation	SNP	A	T	T			TCGA-CS-4942-01A-01D-1468-08	TCGA-CS-4942-10A-01D-1468-08									Somatic	Phase_I	Capture				Illumina GAIIx	ee5832e7-577c-4507-a4fd-a70646fabc24	f2b83686-8044-4e74-9554-8b4d3c40b2b2	g.chr2:108496508A>T	uc010ywk.1	+	21	5091	c.5009A>T	c.(5008-5010)AAC>ATC	p.N1670I	RGPD4_uc002tdu.2_Missense_Mutation_p.N857I|RGPD4_uc010ywl.1_RNA	NM_182588	NP_872394	Q7Z3J3	RGPD4_HUMAN	RANBP2-like and GRIP domain containing 4	1670					intracellular transport		binding			skin(2)	2						GATCACTTAAACGGCCTGCTT	0.453000													16	275					0	0	0.539581	0	0
ACTR3	10096	broad.mit.edu	37	2	114699855	114699855	+	Silent	SNP	C	T	T			TCGA-CS-4942-01A-01D-1468-08	TCGA-CS-4942-10A-01D-1468-08									Somatic	Phase_I	Capture				Illumina GAIIx	ee5832e7-577c-4507-a4fd-a70646fabc24	f2b83686-8044-4e74-9554-8b4d3c40b2b2	g.chr2:114699855C>T	uc002tkx.1	+	8	1097	c.777C>T	c.(775-777)ATC>ATT	p.I259I	ACTR3_uc010yyc.1_Silent_p.I197I|ACTR3_uc010yyd.1_Silent_p.I208I	NM_005721	NP_005712	P61158	ARP3_HUMAN	ARP3 actin-related protein 3 homolog	259					cellular component movement|cilium morphogenesis	Arp2/3 protein complex	actin binding|ATP binding			skin(1)	1						ATACTGGAATCAATGCTATCT	0.328000													55	77					0	0	0.870114	0	0
IDH1	3417	broad.mit.edu	37	2	209113112	209113112	+	Missense_Mutation	SNP	C	T	T	rs121913500		TCGA-CS-4942-01A-01D-1468-08	TCGA-CS-4942-10A-01D-1468-08									Somatic	Phase_I	Capture				Illumina GAIIx	ee5832e7-577c-4507-a4fd-a70646fabc24	f2b83686-8044-4e74-9554-8b4d3c40b2b2	g.chr2:209113112C>T	uc002vcs.2	-	4	641	c.395G>A	c.(394-396)CGT>CAT	p.R132H	IDH1_uc002vct.2_Missense_Mutation_p.R132H|IDH1_uc002vcu.2_Missense_Mutation_p.R132H	NM_005896	NP_005887	O75874	IDHC_HUMAN	isocitrate dehydrogenase 1 (NADP+), soluble	132		Substrate.	R -> G (in a glioma sample; glioblastoma multiforme; somatic mutation).|R -> L (in a glioma sample; glioblastoma multiforme; somatic mutation; abolishes magnesium binding and alters enzyme activity so that isocitrate is no longer converted to alpha-ketoglutarate but instead alpha-ketoglutarate is converted to R(-)-2-hydroxyglutarate).|R -> S (in a glioma sample; glioblastoma multiforme; somatic mutation; abolishes magnesium binding and alters enzyme activity so that isocitrate is no longer converted to alpha-ketoglutarate but instead alpha-ketoglutarate is converted to R(-)-2-hydroxyglutarate).|R -> H (in a glioma sample; glioblastoma multiforme; somatic mutation; abolishes magnesium binding and alters enzyme activity so that isocitrate is no longer converted to alpha-ketoglutarate but instead alpha-ketoglutarate is converted to R(-)-2-hydroxyglutarate).|R -> C (in colorectal cancer and glioma samples; glioblastoma multiforme; somatic mutation; abolishes magnesium binding and alters enzyme activity so that isocitrate is no longer converted to alpha- ketoglutarate but instead alpha- ketoglutarate is converted to R(-)-2- hydroxyglutarate).		2-oxoglutarate metabolic process|cellular lipid metabolic process|glyoxylate cycle|isocitrate metabolic process|NADPH regeneration|tricarboxylic acid cycle	cytosol|peroxisomal matrix	isocitrate dehydrogenase (NADP+) activity|magnesium ion binding|NAD binding|protein homodimerization activity	p.R132H(2023)|p.R132C(344)|p.R132?(210)|p.R132G(117)|p.R132S(79)|p.R132L(58)|p.R132V(1)|p.G131_R132>VL(1)		central_nervous_system(2156)|haematopoietic_and_lymphoid_tissue(606)|bone(74)|thyroid(22)|large_intestine(4)|skin(2)|prostate(2)|autonomic_ganglia(1)|soft_tissue(1)	2868				Epithelial(149;0.0322)|LUSC - Lung squamous cell carcinoma(261;0.0711)|Lung(261;0.136)		ATAAGCATGACGACCTATGAT	0.393000			Mis		gliobastoma 								33	70					0	0	0.769981	0	0
GGT3P	2679	broad.mit.edu	37	22	18778640	18778640	+	RNA	SNP	T	C	C			TCGA-CS-4942-01A-01D-1468-08	TCGA-CS-4942-10A-01D-1468-08									Somatic	Phase_I	Capture				Illumina GAIIx	ee5832e7-577c-4507-a4fd-a70646fabc24	f2b83686-8044-4e74-9554-8b4d3c40b2b2	g.chr22:18778640T>C	uc011ago.1	-	2		c.180A>G			GGT3P_uc011agp.1_RNA|GGT3P_uc002zob.1_RNA					Homo sapiens cDNA clone IMAGE:5761295, **** WARNING: chimeric clone ****.												0						GGTTGTCAGGTTCCTTGGAGG	0.632000													4	28					0	0	0.217242	0	0
RPL23AP82	284942	broad.mit.edu	37	22	51237140	51237140	+	RNA	SNP	G	C	C			TCGA-CS-4942-01A-01D-1468-08	TCGA-CS-4942-10A-01D-1468-08									Somatic	Phase_I	Capture				Illumina GAIIx	ee5832e7-577c-4507-a4fd-a70646fabc24	f2b83686-8044-4e74-9554-8b4d3c40b2b2	g.chr22:51237140G>C	uc003bni.2	+	4		c.595G>C			RPL23AP82_uc003bns.2_RNA|RPL23AP82_uc010hbj.2_RNA	NR_026981				Homo sapiens cDNA FLJ75396 complete cds.												0						CAAAGCGAAGGCTTTAAAGGC	0.463000													7	78					0	0	0.361761	0	0
LAMB2	3913	broad.mit.edu	37	3	49159715	49159715	+	Silent	SNP	G	A	A			TCGA-CS-4942-01A-01D-1468-08	TCGA-CS-4942-10A-01D-1468-08									Somatic	Phase_I	Capture				Illumina GAIIx	ee5832e7-577c-4507-a4fd-a70646fabc24	f2b83686-8044-4e74-9554-8b4d3c40b2b2	g.chr3:49159715G>A	uc003cwe.2	-	28	4961	c.4662C>T	c.(4660-4662)CAC>CAT	p.H1554H	USP19_uc003cvz.3_5'Flank|USP19_uc011bcg.1_5'Flank|USP19_uc003cwb.2_5'Flank|USP19_uc003cwd.1_5'Flank|USP19_uc011bch.1_5'Flank|USP19_uc011bci.1_5'Flank	NM_002292	NP_002283	P55268	LAMB2_HUMAN	laminin, beta 2 precursor	1554	Domain I.				cell adhesion	laminin-11 complex|laminin-3 complex	structural molecule activity			ovary(3)	3				BRCA - Breast invasive adenocarcinoma(193;8.01e-05)|Kidney(197;0.00219)|KIRC - Kidney renal clear cell carcinoma(197;0.00245)		CACCCGCCAGGTGCTGGATCT	0.597000													34	71					0	0	0.827153	0	0
POC1A	25886	broad.mit.edu	37	3	52159164	52159164	+	Missense_Mutation	SNP	C	T	T			TCGA-CS-4942-01A-01D-1468-08	TCGA-CS-4942-10A-01D-1468-08									Somatic	Phase_I	Capture				Illumina GAIIx	ee5832e7-577c-4507-a4fd-a70646fabc24	f2b83686-8044-4e74-9554-8b4d3c40b2b2	g.chr3:52159164C>T	uc003dcu.2	-	8	1165	c.847G>A	c.(847-849)GGG>AGG	p.G283R	POC1A_uc003dcv.2_Missense_Mutation_p.G245R|POC1A_uc003dcw.2_Missense_Mutation_p.G283R	NM_015426	NP_056241	Q8NBT0	POC1A_HUMAN	WD repeat domain 51A isoform 1	283	WD 7.					centriole|microtubule basal body					0						AAATACTCCCCCGTTCTTGAA	0.433000													31	76					0	0	0.788014	0	0
TBC1D9	23158	broad.mit.edu	37	4	141578954	141578954	+	Missense_Mutation	SNP	T	C	C			TCGA-CS-4942-01A-01D-1468-08	TCGA-CS-4942-10A-01D-1468-08									Somatic	Phase_I	Capture				Illumina GAIIx	ee5832e7-577c-4507-a4fd-a70646fabc24	f2b83686-8044-4e74-9554-8b4d3c40b2b2	g.chr4:141578954T>C	uc010ioj.2	-	12	2206	c.1934A>G	c.(1933-1935)GAC>GGC	p.D645G		NM_015130	NP_055945	Q6ZT07	TBCD9_HUMAN	TBC1 domain family, member 9 (with GRAM domain)	645	Rab-GAP TBC.					intracellular	calcium ion binding|Rab GTPase activator activity			ovary(1)	1	all_hematologic(180;0.162)	Medulloblastoma(177;0.00498)				GACACCTTGGTCCACCAGTGC	0.502000													96	154					0	0	0.870114	0	0
GLRB	2743	broad.mit.edu	37	4	158065079	158065079	+	Missense_Mutation	SNP	A	G	G			TCGA-CS-4942-01A-01D-1468-08	TCGA-CS-4942-10A-01D-1468-08									Somatic	Phase_I	Capture				Illumina GAIIx	ee5832e7-577c-4507-a4fd-a70646fabc24	f2b83686-8044-4e74-9554-8b4d3c40b2b2	g.chr4:158065079A>G	uc003ipj.2	+	8	1074	c.872A>G	c.(871-873)AAC>AGC	p.N291S		NM_000824	NP_000815	P48167	GLRB_HUMAN	glycine receptor, beta isoform A precursor	291					nervous system development|neuropeptide signaling pathway|startle response	cell junction|chloride channel complex|integral to plasma membrane|postsynaptic membrane	extracellular-glycine-gated chloride channel activity|protein binding|receptor activity			skin(2)	2	all_hematologic(180;0.24)	Renal(120;0.0458)		KIRC - Kidney renal clear cell carcinoma(143;0.0564)|COAD - Colon adenocarcinoma(41;0.0642)|Kidney(143;0.0707)	Glycine(DB00145)	TTCTGGATCAACCCGGACGCG	0.488000													11	166					0	0	0.387290	0	0
CDC20B	166979	broad.mit.edu	37	5	54436230	54436230	+	Silent	SNP	G	A	A			TCGA-CS-4942-01A-01D-1468-08	TCGA-CS-4942-10A-01D-1468-08									Somatic	Phase_I	Capture				Illumina GAIIx	ee5832e7-577c-4507-a4fd-a70646fabc24	f2b83686-8044-4e74-9554-8b4d3c40b2b2	g.chr5:54436230G>A	uc003jpo.1	-	5	667	c.492C>T	c.(490-492)TGC>TGT	p.C164C	CDC20B_uc003jpn.1_Silent_p.C164C|CDC20B_uc010ivu.1_Silent_p.C164C|CDC20B_uc010ivv.1_Silent_p.C164C|CDC20B_uc003jpp.2_RNA	NM_152623	NP_689836	Q86Y33	CD20B_HUMAN	CDC20 cell division cycle 20 homolog B isoform	164											0		Lung NSC(810;0.000744)|Breast(144;0.159)|Prostate(74;0.194)	LUSC - Lung squamous cell carcinoma(15;0.225)			GTTGTTTTAGGCATTTCTGAA	0.333000													26	63					0	0	0.693898	0	0
PIK3R1	5295	broad.mit.edu	37	5	67575480	67575480	+	Missense_Mutation	SNP	G	A	A			TCGA-CS-4942-01A-01D-1468-08	TCGA-CS-4942-10A-01D-1468-08									Somatic	Phase_I	Capture				Illumina GAIIx	ee5832e7-577c-4507-a4fd-a70646fabc24	f2b83686-8044-4e74-9554-8b4d3c40b2b2	g.chr5:67575480G>A	uc003jva.2	+	5	1113	c.553G>A	c.(553-555)GCT>ACT	p.A185T	PIK3R1_uc003jvb.2_Missense_Mutation_p.A185T	NM_181523	NP_852664	P27986	P85A_HUMAN	phosphoinositide-3-kinase, regulatory subunit 1	185	Rho-GAP.				epidermal growth factor receptor signaling pathway|fibroblast growth factor receptor signaling pathway|growth hormone receptor signaling pathway|insulin receptor signaling pathway|insulin-like growth factor receptor signaling pathway|interspecies interaction between organisms|leukocyte migration|nerve growth factor receptor signaling pathway|phosphatidylinositol 3-kinase cascade|phosphatidylinositol phosphorylation|phosphatidylinositol-mediated signaling|platelet activation|positive regulation of establishment of protein localization in plasma membrane|positive regulation of glucose import|T cell costimulation|T cell receptor signaling pathway	1-phosphatidylinositol-4-phosphate 3-kinase, class IA complex	1-phosphatidylinositol binding|ErbB-3 class receptor binding|insulin binding|insulin receptor binding|insulin receptor substrate binding|insulin-like growth factor receptor binding|phosphatidylinositol 3-kinase regulator activity|protein phosphatase binding	p.?(1)		endometrium(34)|central_nervous_system(27)|large_intestine(20)|breast(7)|ovary(5)|haematopoietic_and_lymphoid_tissue(3)|lung(2)|urinary_tract(1)|skin(1)|pancreas(1)	101		Lung NSC(167;1.99e-05)|Prostate(74;0.00308)|Ovarian(174;0.00473)|Colorectal(97;0.0176)		OV - Ovarian serous cystadenocarcinoma(47;3.76e-51)|Lung(70;0.0211)	Isoproterenol(DB01064)	TTTGGCTGACGCTTTCAAACG	0.383000			Mis|F|O		gliobastoma|ovarian|colorectal					TCGA GBM(4;<1E-08)			20	174					0	0	0.667858	0	0
HLA-DRA	3122	broad.mit.edu	37	6	32410420	32410420	+	Missense_Mutation	SNP	C	A	A			TCGA-CS-4942-01A-01D-1468-08	TCGA-CS-4942-10A-01D-1468-08									Somatic	Phase_I	Capture				Illumina GAIIx	ee5832e7-577c-4507-a4fd-a70646fabc24	f2b83686-8044-4e74-9554-8b4d3c40b2b2	g.chr6:32410420C>A	uc003obh.2	+	2	359	c.278C>A	c.(277-279)GCC>GAC	p.A93D	HLA-DRA_uc003obi.2_Missense_Mutation_p.A93D	NM_019111	NP_061984	P01903	DRA_HUMAN	major histocompatibility complex, class II, DR	93	Extracellular (Potential).|Alpha-1.				antigen processing and presentation of peptide or polysaccharide antigen via MHC class II|interferon-gamma-mediated signaling pathway|T cell costimulation|T cell receptor signaling pathway	endoplasmic reticulum membrane|Golgi apparatus|integral to plasma membrane|late endosome membrane|lysosomal membrane|MHC class II protein complex	MHC class II receptor activity			ovary(1)|skin(1)	2						GTGGACAAAGCCAACCTGGAA	0.493000									T-cell_Lymphoma_(Cutaneous)__Familial_Clustering_of|Kaposi_Sarcoma_Familial_Clustering_of				80	147					2.08937e-45	2.30702e-45	0.870114	1	0
DNAH8	1769	broad.mit.edu	37	6	38885723	38885723	+	Missense_Mutation	SNP	T	C	C			TCGA-CS-4942-01A-01D-1468-08	TCGA-CS-4942-10A-01D-1468-08									Somatic	Phase_I	Capture				Illumina GAIIx	ee5832e7-577c-4507-a4fd-a70646fabc24	f2b83686-8044-4e74-9554-8b4d3c40b2b2	g.chr6:38885723T>C	uc003ooe.1	+	68	10280	c.9680T>C	c.(9679-9681)CTG>CCG	p.L3227P	uc003oof.1_Intron	NM_001371	NP_001362			dynein, axonemal, heavy polypeptide 8											skin(8)|ovary(7)|lung(2)|large_intestine(1)|central_nervous_system(1)|kidney(1)|pancreas(1)	21						ACAGGATTCCTGTGGAGCCTT	0.343000													3	124					0	0	0.115264	0	0
ZNF292	23036	broad.mit.edu	37	6	87964677	87964677	+	Missense_Mutation	SNP	C	T	T			TCGA-CS-4942-01A-01D-1468-08	TCGA-CS-4942-10A-01D-1468-08									Somatic	Phase_I	Capture				Illumina GAIIx	ee5832e7-577c-4507-a4fd-a70646fabc24	f2b83686-8044-4e74-9554-8b4d3c40b2b2	g.chr6:87964677C>T	uc003plm.3	+	8	1371	c.1330C>T	c.(1330-1332)CCA>TCA	p.P444S		NM_015021	NP_055836	O60281	ZN292_HUMAN	zinc finger protein 292	444					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(4)	4		all_cancers(76;3.82e-09)|Prostate(29;1.34e-10)|Acute lymphoblastic leukemia(125;2.17e-10)|all_hematologic(105;1.08e-06)|all_epithelial(107;5.31e-05)		BRCA - Breast invasive adenocarcinoma(108;0.0199)		GCCCTTTGATCCAGAATTCTG	0.378000													3	73					0	0	0.115264	0	0
FRMD1	79981	broad.mit.edu	37	6	168479688	168479688	+	Silent	SNP	T	C	C			TCGA-CS-4942-01A-01D-1468-08	TCGA-CS-4942-10A-01D-1468-08									Somatic	Phase_I	Capture				Illumina GAIIx	ee5832e7-577c-4507-a4fd-a70646fabc24	f2b83686-8044-4e74-9554-8b4d3c40b2b2	g.chr6:168479688T>C	uc003qwo.3	-	1	152	c.87A>G	c.(85-87)GAA>GAG	p.E29E		NM_024919	NP_079195	Q8N878	FRMD1_HUMAN	FERM domain containing 1 isoform 1	29						cytoskeleton	binding			ovary(1)	1		Breast(66;1.07e-05)|Ovarian(120;0.0728)		Epithelial(4;7.7e-30)|OV - Ovarian serous cystadenocarcinoma(33;5.82e-22)|BRCA - Breast invasive adenocarcinoma(4;1.38e-10)|GBM - Glioblastoma multiforme(31;0.000756)		CAGGACTGGGTTCCATACATC	0.652000													4	102					0	0	0.150653	0	0
PDE1C	5137	broad.mit.edu	37	7	31877484	31877484	+	Missense_Mutation	SNP	G	A	A			TCGA-CS-4942-01A-01D-1468-08	TCGA-CS-4942-10A-01D-1468-08									Somatic	Phase_I	Capture				Illumina GAIIx	ee5832e7-577c-4507-a4fd-a70646fabc24	f2b83686-8044-4e74-9554-8b4d3c40b2b2	g.chr7:31877484G>A	uc003tcm.1	-	10	1551	c.1082C>T	c.(1081-1083)GCC>GTC	p.A361V	PDE1C_uc003tcn.1_Missense_Mutation_p.A361V|PDE1C_uc003tco.1_Missense_Mutation_p.A421V|PDE1C_uc003tcr.2_Missense_Mutation_p.A361V|PDE1C_uc003tcs.2_Missense_Mutation_p.A361V	NM_005020	NP_005011	Q14123	PDE1C_HUMAN	phosphodiesterase 1C	361	Catalytic (By similarity).				activation of phospholipase C activity|nerve growth factor receptor signaling pathway	cytosol	calmodulin binding|calmodulin-dependent cyclic-nucleotide phosphodiesterase activity|metal ion binding			skin(3)|central_nervous_system(1)	4			GBM - Glioblastoma multiforme(11;0.216)			GCACACTTACGCTTCTGGCTG	0.428000													86	248					0	0	0.870114	0	0
MYL10	93408	broad.mit.edu	37	7	101256959	101256959	+	Missense_Mutation	SNP	G	T	T	rs141873317	byFrequency	TCGA-CS-4942-01A-01D-1468-08	TCGA-CS-4942-10A-01D-1468-08									Somatic	Phase_I	Capture				Illumina GAIIx	ee5832e7-577c-4507-a4fd-a70646fabc24	f2b83686-8044-4e74-9554-8b4d3c40b2b2	g.chr7:101256959G>T	uc003uyr.2	-	7	743	c.565C>A	c.(565-567)CGC>AGC	p.R189S		NM_138403	NP_612412	Q9BUA6	MYL10_HUMAN	myosin, light chain 10, regulatory	189	EF-hand 2.					mitochondrion	calcium ion binding			ovary(1)|breast(1)	2						TCACTGAAGCGGTCTGCCTGG	0.552000													4	118					0.00024832	0.000263219	0.150653	1	0
BMP1	649	broad.mit.edu	37	8	22049614	22049614	+	Missense_Mutation	SNP	A	G	G			TCGA-CS-4942-01A-01D-1468-08	TCGA-CS-4942-10A-01D-1468-08									Somatic	Phase_I	Capture				Illumina GAIIx	ee5832e7-577c-4507-a4fd-a70646fabc24	f2b83686-8044-4e74-9554-8b4d3c40b2b2	g.chr8:22049614A>G	uc003xbg.2	+	9	1374	c.1130A>G	c.(1129-1131)TAC>TGC	p.Y377C	BMP1_uc003xba.2_Missense_Mutation_p.Y377C|BMP1_uc003xbb.2_Missense_Mutation_p.Y377C|BMP1_uc003xbe.2_RNA|BMP1_uc003xbc.2_Missense_Mutation_p.Y126C|BMP1_uc003xbd.2_RNA|BMP1_uc003xbf.2_Missense_Mutation_p.Y126C|BMP1_uc011kzc.1_Missense_Mutation_p.Y126C|BMP1_uc003xbh.2_RNA|BMP1_uc003xbi.2_RNA	NM_006129	NP_006120	P13497	BMP1_HUMAN	bone morphogenetic protein 1 isoform 3	377	CUB 1.				cartilage condensation|cell differentiation|lipid metabolic process|lipoprotein metabolic process|ossification|positive regulation of cartilage development|proteolysis	extracellular space	calcium ion binding|cytokine activity|growth factor activity|metalloendopeptidase activity|zinc ion binding			ovary(2)|breast(1)	3				Colorectal(74;0.00229)|COAD - Colon adenocarcinoma(73;0.0661)|READ - Rectum adenocarcinoma(644;0.11)		CTGTGCTGGTACGACTATGTG	0.607000													3	121					0	0	0.150653	0	0
GRIN3A	116443	broad.mit.edu	37	9	104499941	104499941	+	Silent	SNP	C	T	T			TCGA-CS-4942-01A-01D-1468-08	TCGA-CS-4942-10A-01D-1468-08									Somatic	Phase_I	Capture				Illumina GAIIx	ee5832e7-577c-4507-a4fd-a70646fabc24	f2b83686-8044-4e74-9554-8b4d3c40b2b2	g.chr9:104499941C>T	uc004bbp.1	-	1	922	c.321G>A	c.(319-321)CCG>CCA	p.P107P	GRIN3A_uc004bbq.1_Silent_p.P107P	NM_133445	NP_597702	Q8TCU5	NMD3A_HUMAN	glutamate receptor, ionotropic,	107	Extracellular (Potential).				response to ethanol	cell junction|N-methyl-D-aspartate selective glutamate receptor complex|neuron projection|neuronal cell body|outer membrane-bounded periplasmic space|postsynaptic density|postsynaptic membrane	extracellular-glutamate-gated ion channel activity|glycine binding|identical protein binding|N-methyl-D-aspartate selective glutamate receptor activity|protein phosphatase 2A binding			ovary(4)|pancreas(1)|central_nervous_system(1)|skin(1)	7		Acute lymphoblastic leukemia(62;0.0568)			Acamprosate(DB00659)|Chloroprocaine(DB01161)|Dextromethorphan(DB00514)|Ethanol(DB00898)|Ethopropazine(DB00392)|Felbamate(DB00949)|Ketamine(DB01221)|L-Glutamic Acid(DB00142)|Memantine(DB01043)|Meperidine(DB00454)|Methadone(DB00333)|Orphenadrine(DB01173)|Procaine(DB00721)|Riluzole(DB00740)	GGGAGCCCGGCGGCCCCCGGC	0.751000													8	6					0	0	0.335167	0	0
KAL1	3730	broad.mit.edu	37	X	8555923	8555923	+	Missense_Mutation	SNP	T	C	C			TCGA-CS-4942-01A-01D-1468-08	TCGA-CS-4942-10A-01D-1468-08									Somatic	Phase_I	Capture				Illumina GAIIx	ee5832e7-577c-4507-a4fd-a70646fabc24	f2b83686-8044-4e74-9554-8b4d3c40b2b2	g.chrX:8555923T>C	uc004csf.2	-	5	788	c.638A>G	c.(637-639)GAG>GGG	p.E213G		NM_000216	NP_000207	P23352	KALM_HUMAN	Kallmann syndrome 1 protein precursor	213	Fibronectin type-III 1.				axon guidance|cell adhesion|cellular component movement	extracellular space|plasma membrane|proteinaceous extracellular matrix	extracellular matrix structural constituent|heparin binding|serine-type endopeptidase inhibitor activity			ovary(3)|pancreas(1)	4						GATCACAGGCTCAATAGAAAT	0.468000													19	22					0	0	0.575678	0	0
BCOR	54880	broad.mit.edu	37	X	39923699	39923699	+	Missense_Mutation	SNP	C	T	T			TCGA-CS-4942-01A-01D-1468-08	TCGA-CS-4942-10A-01D-1468-08									Somatic	Phase_I	Capture				Illumina GAIIx	ee5832e7-577c-4507-a4fd-a70646fabc24	f2b83686-8044-4e74-9554-8b4d3c40b2b2	g.chrX:39923699C>T	uc004den.3	-	7	3684	c.3392G>A	c.(3391-3393)CGG>CAG	p.R1131Q	BCOR_uc004dep.3_Missense_Mutation_p.R1131Q|BCOR_uc004deo.3_Missense_Mutation_p.R1113Q|BCOR_uc010nhb.2_5'Flank|BCOR_uc004dem.3_Missense_Mutation_p.R1131Q	NM_001123385	NP_001116857	Q6W2J9	BCOR_HUMAN	BCL-6 interacting corepressor isoform c	1131					heart development|histone H2A monoubiquitination|negative regulation of bone mineralization|negative regulation of histone H3-K36 methylation|negative regulation of histone H3-K4 methylation|negative regulation of tooth mineralization|negative regulation of transcription from RNA polymerase II promoter|odontogenesis|palate development|specification of axis polarity|transcription, DNA-dependent	nucleus	heat shock protein binding|histone deacetylase binding|transcription corepressor activity|transcription factor binding|transcription regulatory region DNA binding			ovary(2)|kidney(1)|central_nervous_system(1)	4						CCTGTCCACCCGGAGGGTGGG	0.607000													29	60					0	0	0.729181	0	0
ZNF41	7592	broad.mit.edu	37	X	47307253	47307253	+	Missense_Mutation	SNP	T	G	G			TCGA-CS-4942-01A-01D-1468-08	TCGA-CS-4942-10A-01D-1468-08									Somatic	Phase_I	Capture				Illumina GAIIx	ee5832e7-577c-4507-a4fd-a70646fabc24	f2b83686-8044-4e74-9554-8b4d3c40b2b2	g.chrX:47307253T>G	uc004dhs.3	-	4	2109	c.2042A>C	c.(2041-2043)GAC>GCC	p.D681A	ZNF41_uc004dhu.3_Missense_Mutation_p.D673A|ZNF41_uc004dht.3_Missense_Mutation_p.D553A|ZNF41_uc004dhv.3_Missense_Mutation_p.D649A|ZNF41_uc004dhw.3_Missense_Mutation_p.D641A|ZNF41_uc004dhy.3_Missense_Mutation_p.D639A|ZNF41_uc004dhx.3_Missense_Mutation_p.D639A|ZNF41_uc011mlm.1_Missense_Mutation_p.D553A	NM_153380	NP_700359	P51814	ZNF41_HUMAN	zinc finger protein 41	681	C2H2-type 14.					nucleus	DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(3)	3		all_lung(315;0.000129)				TTTCCCACAGTCGCTGCATTC	0.468000													3	130					0	0	0.115264	0	0
USP51	158880	broad.mit.edu	37	X	55514658	55514658	+	Missense_Mutation	SNP	A	G	G			TCGA-CS-4942-01A-01D-1468-08	TCGA-CS-4942-10A-01D-1468-08									Somatic	Phase_I	Capture				Illumina GAIIx	ee5832e7-577c-4507-a4fd-a70646fabc24	f2b83686-8044-4e74-9554-8b4d3c40b2b2	g.chrX:55514658A>G	uc004dun.1	-	2	794	c.715T>C	c.(715-717)TGT>CGT	p.C239R	USP51_uc011moo.1_Intron	NM_201286	NP_958443	Q70EK9	UBP51_HUMAN	ubiquitin specific protease 51	239	UBP-type.				ubiquitin-dependent protein catabolic process		cysteine-type peptidase activity|ubiquitin thiolesterase activity|zinc ion binding			ovary(1)|lung(1)|breast(1)	3						TGGGTACTACATACGTGACAG	0.453000													42	70					0	0	0.840704	0	0
FRMD7	90167	broad.mit.edu	37	X	131216497	131216497	+	Missense_Mutation	SNP	A	G	G			TCGA-CS-4942-01A-01D-1468-08	TCGA-CS-4942-10A-01D-1468-08									Somatic	Phase_I	Capture				Illumina GAIIx	ee5832e7-577c-4507-a4fd-a70646fabc24	f2b83686-8044-4e74-9554-8b4d3c40b2b2	g.chrX:131216497A>G	uc004ewn.2	-	9	977	c.799T>C	c.(799-801)TTC>CTC	p.F267L	FRMD7_uc011muy.1_Missense_Mutation_p.F252L	NM_194277	NP_919253	Q6ZUT3	FRMD7_HUMAN	FERM domain containing 7	267	FERM.				regulation of neuron projection development	cytoskeleton|growth cone|neuronal cell body	binding			skin(1)	1	Acute lymphoblastic leukemia(192;0.000127)					GTCTTCCAGAAAGCCTTGCAG	0.463000													140	259					0	0	0.870114	0	0
NBPF10	100132406	broad.mit.edu	37	1	145328401	145328406	+	In_Frame_Del	DEL	GAAGAC	-	-			TCGA-CS-4942-01A-01D-1468-08	TCGA-CS-4942-10A-01D-1468-08									Somatic	Phase_I	Capture				Illumina GAIIx	ee5832e7-577c-4507-a4fd-a70646fabc24	f2b83686-8044-4e74-9554-8b4d3c40b2b2	g.chr1:145328401_145328406delGAAGAC	uc001end.3	+	35	4509_4514	c.4474_4479delGAAGAC	c.(4474-4479)GAAGACdel	p.ED1494del	NBPF10_uc009wir.2_Intron|NBPF9_uc010oye.1_Intron|NBPF10_uc001emp.3_Intron|NBPF10_uc010oyi.1_Intron|NBPF10_uc010oyk.1_Intron|NBPF10_uc010oyl.1_Intron|NBPF10_uc001enc.2_Intron|NBPF10_uc010oym.1_Intron|NBPF10_uc010oyn.1_Intron|NBPF10_uc010oyo.1_Intron|NBPF10_uc010oyp.1_Intron	NM_001039703	NP_001034792	A6NDV3	A6NDV3_HUMAN	hypothetical protein LOC100132406	1419_1420											0	all_hematologic(923;0.032)			Colorectal(1306;1.36e-07)|KIRC - Kidney renal clear cell carcinoma(1967;0.00258)		AGAAGAGGAAGAAGACGAAGACCAAG	0.466													3	3	---	---	---	---					
Unknown	0	broad.mit.edu	37	1	243251423	243251423	+	RNA	DEL	A	-	-			TCGA-CS-4942-01A-01D-1468-08	TCGA-CS-4942-10A-01D-1468-08									Somatic	Phase_I	Capture				Illumina GAIIx	ee5832e7-577c-4507-a4fd-a70646fabc24	f2b83686-8044-4e74-9554-8b4d3c40b2b2	g.chr1:243251423delA	uc001hzq.1	-	8		c.1209delT								Homo sapiens cDNA FLJ52610 complete cds.																		actccatctcaaaaaaaaaaa	0.179													3	5	---	---	---	---					
ZNF16	7564	broad.mit.edu	37	8	146156188	146156191	+	Frame_Shift_Del	DEL	CAAG	-	-			TCGA-CS-4942-01A-01D-1468-08	TCGA-CS-4942-10A-01D-1468-08									Somatic	Phase_I	Capture				Illumina GAIIx	ee5832e7-577c-4507-a4fd-a70646fabc24	f2b83686-8044-4e74-9554-8b4d3c40b2b2	g.chr8:146156188_146156191delCAAG	uc003zet.2	-	4	2169_2172	c.1982_1985delCTTG	c.(1981-1986)GCTTGTfs	p.A661fs	ZNF16_uc003zeu.2_Frame_Shift_Del_p.A661fs	NM_001029976	NP_001025147	P17020	ZNF16_HUMAN	zinc finger protein 16	661_662	C2H2-type 17.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(5)	5	all_cancers(97;8.72e-12)|all_epithelial(106;1.07e-10)|Lung NSC(106;7.18e-05)|all_lung(105;0.00021)|Ovarian(258;0.0173)|Acute lymphoblastic leukemia(118;0.155)	Acute lymphoblastic leukemia(644;0.136)	Epithelial(56;3.45e-38)|all cancers(56;3.04e-33)|BRCA - Breast invasive adenocarcinoma(115;0.0424)|Colorectal(110;0.055)	GBM - Glioblastoma multiforme(99;0.02)|KIRC - Kidney renal clear cell carcinoma(644;0.0486)		GGCTTTCCCACAAGCAGCACAGTC	0.525													13	227	---	---	---	---					
ATRX	546	broad.mit.edu	37	X	76854942	76854942	+	Frame_Shift_Del	DEL	C	-	-			TCGA-CS-4942-01A-01D-1468-08	TCGA-CS-4942-10A-01D-1468-08									Somatic	Phase_I	Capture				Illumina GAIIx	ee5832e7-577c-4507-a4fd-a70646fabc24	f2b83686-8044-4e74-9554-8b4d3c40b2b2	g.chrX:76854942delC	uc004ecp.3	-	25	6126	c.5894delG	c.(5893-5895)GGTfs	p.G1965fs	ATRX_uc004ecq.3_Frame_Shift_Del_p.G1927fs|ATRX_uc004eco.3_Frame_Shift_Del_p.G1750fs	NM_000489	NP_000480	P46100	ATRX_HUMAN	transcriptional regulator ATRX isoform 1	1965					DNA methylation|DNA recombination|DNA repair|regulation of transcription, DNA-dependent	nuclear heterochromatin	ATP binding|chromo shadow domain binding|DNA binding|DNA helicase activity|zinc ion binding			haematopoietic_and_lymphoid_tissue(14)|pancreas(12)|lung(1)|breast(1)|skin(1)|kidney(1)	30					Phosphatidylserine(DB00144)	TCCTTCACCACCTCCCCGAGA	0.388			Mis|F|N		Pancreatic neuroendocrine tumors		ATR-X (alpha thalassemia/mental retardation) syndrome						308	498	---	---	---	---					
