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	isArtifactMode	oxoGCut
PER3	8863	broad.mit.edu	37	1	7902814	7902814	+	Nonstop_Mutation	SNP	G	C	C			TCGA-BA-6873-01A-11D-1870-08	TCGA-BA-6873-10A-01D-1870-08									Somatic	Phase_I	Capture				Illumina GAIIx	f65b842c-257e-4ac7-a155-23d3ac12d41c	f976fe92-00c7-45c7-8acd-32cf2ae2e9e4	g.chr1:7902814G>C	uc001aoo.2	+	21	3780	c.3605G>C	c.(3604-3606)TGA>TCA	p.*1202S	PER3_uc001aop.2_Nonstop_Mutation_p.*1211S|PER3_uc010nzw.1_Nonstop_Mutation_p.*891S	NM_016831	NP_058515	P56645	PER3_HUMAN	period 3	1202					regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasm|nucleus	signal transducer activity			ovary(1)|pancreas(1)|skin(1)	3	Ovarian(185;0.0634)|all_lung(157;0.178)	all_epithelial(116;9.35e-21)|all_lung(118;7.57e-07)|Lung NSC(185;4.52e-06)|Renal(390;0.000147)|Breast(487;0.00086)|Colorectal(325;0.000959)|Hepatocellular(190;0.00825)|Ovarian(437;0.0253)|Myeloproliferative disorder(586;0.0255)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0234)|all cancers(8;8.58e-70)|GBM - Glioblastoma multiforme(8;1.81e-35)|Colorectal(212;2.06e-07)|COAD - Colon adenocarcinoma(227;1.92e-05)|Kidney(185;7.18e-05)|BRCA - Breast invasive adenocarcinoma(304;0.000472)|STAD - Stomach adenocarcinoma(132;0.00118)|KIRC - Kidney renal clear cell carcinoma(229;0.00122)|READ - Rectum adenocarcinoma(331;0.0649)		GACAGCTGTTGAGTGACTGTG	0.438000													24	77					0	0	0	0
EPHA2	1969	broad.mit.edu	37	1	16462185	16462185	+	Nonsense_Mutation	SNP	G	A	A			TCGA-BA-6873-01A-11D-1870-08	TCGA-BA-6873-10A-01D-1870-08									Somatic	Phase_I	Capture				Illumina GAIIx	f65b842c-257e-4ac7-a155-23d3ac12d41c	f976fe92-00c7-45c7-8acd-32cf2ae2e9e4	g.chr1:16462185G>A	uc001aya.1	-	6	1530	c.1393C>T	c.(1393-1395)CGA>TGA	p.R465*	EPHA2_uc010oca.1_Nonsense_Mutation_p.R465*	NM_004431	NP_004422	P29317	EPHA2_HUMAN	ephrin receptor EphA2 precursor	465	Extracellular (Potential).|Fibronectin type-III 2.				activation of Rac GTPase activity|angiogenesis|apoptosis|cell chemotaxis|negative regulation of protein kinase B signaling cascade|positive regulation of establishment of protein localization in plasma membrane|protein kinase B signaling cascade|regulation of blood vessel endothelial cell migration|regulation of cell adhesion mediated by integrin|regulation of lamellipodium assembly|response to growth factor stimulus	focal adhesion|integral to plasma membrane|lamellipodium membrane|ruffle membrane	ATP binding|ephrin receptor activity|protein binding			lung(3)|central_nervous_system(3)|stomach(2)|ovary(2)	10		Colorectal(325;3.46e-05)|Breast(348;0.000278)|Lung NSC(340;0.000419)|Renal(390;0.000518)|all_lung(284;0.000567)|Ovarian(437;0.0221)|Myeloproliferative disorder(586;0.0255)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0181)|Colorectal(212;3.63e-07)|COAD - Colon adenocarcinoma(227;2.25e-05)|BRCA - Breast invasive adenocarcinoma(304;9.58e-05)|Kidney(64;0.000175)|KIRC - Kidney renal clear cell carcinoma(64;0.00261)|STAD - Stomach adenocarcinoma(313;0.00669)|READ - Rectum adenocarcinoma(331;0.0649)	Dasatinib(DB01254)	TTCCACACTCGGCTCTGCTGC	0.662000													35	36					0	0	0	0
KIAA0754	643314	broad.mit.edu	37	1	39879889	39879889	+	Missense_Mutation	SNP	G	A	A			TCGA-BA-6873-01A-11D-1870-08	TCGA-BA-6873-10A-01D-1870-08									Somatic	Phase_I	Capture				Illumina GAIIx	f65b842c-257e-4ac7-a155-23d3ac12d41c	f976fe92-00c7-45c7-8acd-32cf2ae2e9e4	g.chr1:39879889G>A	uc009vvt.1	+	1	4714	c.3952G>A	c.(3952-3954)GTG>ATG	p.V1318M	MACF1_uc010ois.1_Intron|MACF1_uc001cda.1_Intron|MACF1_uc001cdc.1_Intron|MACF1_uc010oiu.1_Intron	NM_015038	NP_055853	O94854	K0754_HUMAN	hypothetical protein LOC643314	1182	Ala-rich.										0	Lung NSC(20;5.57e-06)|Ovarian(52;0.00769)|Acute lymphoblastic leukemia(166;0.074)	Myeloproliferative disorder(586;0.0393)	OV - Ovarian serous cystadenocarcinoma(33;7.78e-19)|Epithelial(16;1.73e-17)|all cancers(16;2.49e-16)|LUSC - Lung squamous cell carcinoma(16;0.00146)|Lung(16;0.00204)			CACCCCAGAGGTGCCTGCCAT	0.627000													6	37					0	0	0	0
PTPRF	5792	broad.mit.edu	37	1	44069439	44069439	+	Silent	SNP	G	A	A			TCGA-BA-6873-01A-11D-1870-08	TCGA-BA-6873-10A-01D-1870-08									Somatic	Phase_I	Capture				Illumina GAIIx	f65b842c-257e-4ac7-a155-23d3ac12d41c	f976fe92-00c7-45c7-8acd-32cf2ae2e9e4	g.chr1:44069439G>A	uc001cjr.2	+	16	2956	c.2616G>A	c.(2614-2616)AAG>AAA	p.K872K	PTPRF_uc001cjs.2_Silent_p.K863K|PTPRF_uc001cju.2_Intron|PTPRF_uc009vwt.2_Silent_p.K432K|PTPRF_uc001cjv.2_Silent_p.K332K|PTPRF_uc001cjw.2_Silent_p.K98K	NM_002840	NP_002831	P10586	PTPRF_HUMAN	protein tyrosine phosphatase, receptor type, F	872	Extracellular (Potential).|Fibronectin type-III 6.				transmembrane receptor protein tyrosine phosphatase signaling pathway	integral to plasma membrane	transmembrane receptor protein tyrosine phosphatase activity			ovary(4)|skin(3)|lung(1)|kidney(1)|central_nervous_system(1)	10	all_hematologic(146;0.0958)|Acute lymphoblastic leukemia(166;0.155)	Myeloproliferative disorder(586;0.0333)				ATTTCGGCAAGGATGACCAGC	0.632000													18	89					0	0	0	0
TAL1	6886	broad.mit.edu	37	1	47691450	47691450	+	Silent	SNP	G	A	A			TCGA-BA-6873-01A-11D-1870-08	TCGA-BA-6873-10A-01D-1870-08									Somatic	Phase_I	Capture				Illumina GAIIx	f65b842c-257e-4ac7-a155-23d3ac12d41c	f976fe92-00c7-45c7-8acd-32cf2ae2e9e4	g.chr1:47691450G>A	uc001cqx.2	-	2	688	c.111C>T	c.(109-111)GTC>GTT	p.V37V	TAL1_uc009vyq.2_5'Flank|TAL1_uc001cqy.2_Silent_p.V37V|TAL1_uc001cra.1_Intron|TAL1_uc001cqz.1_Intron	NM_003189	NP_003180	P17542	TAL1_HUMAN	T-cell acute lymphocytic leukemia 1	37					basophil differentiation|cell fate commitment|cell proliferation|embryonic hemopoiesis|erythrocyte differentiation|megakaryocyte differentiation|positive regulation of cell division|positive regulation of chromatin assembly or disassembly|positive regulation of erythrocyte differentiation|positive regulation of mitotic cell cycle|positive regulation of protein complex assembly|positive regulation of transcription from RNA polymerase II promoter	nuclear chromatin	E-box binding|histone deacetylase binding|sequence-specific DNA binding transcription factor activity			lung(1)	1						TCTCCTTGGCGACGCCGTTCA	0.562000			T	TRD@|SIL	lymphoblastic leukemia/biphasic								11	27					0	0	0	0
SGIP1	84251	broad.mit.edu	37	1	67105475	67105475	+	Missense_Mutation	SNP	G	A	A			TCGA-BA-6873-01A-11D-1870-08	TCGA-BA-6873-10A-01D-1870-08									Somatic	Phase_I	Capture				Illumina GAIIx	f65b842c-257e-4ac7-a155-23d3ac12d41c	f976fe92-00c7-45c7-8acd-32cf2ae2e9e4	g.chr1:67105475G>A	uc001dcr.2	+	5	404	c.187G>A	c.(187-189)GCA>ACA	p.A63T		NM_032291	NP_115667	Q9BQI5	SGIP1_HUMAN	SH3-domain GRB2-like (endophilin) interacting	63					positive regulation of energy homeostasis|positive regulation of feeding behavior|positive regulation of receptor-mediated endocytosis|response to dietary excess	AP-2 adaptor complex	microtubule binding|phospholipid binding|SH3 domain binding			ovary(3)	3						AAGCAATGGGGCACCAAATGG	0.289000													14	53					0	0	0	0
PSRC1	84722	broad.mit.edu	37	1	109824422	109824422	+	Missense_Mutation	SNP	C	T	T	rs114022452	byFrequency	TCGA-BA-6873-01A-11D-1870-08	TCGA-BA-6873-10A-01D-1870-08									Somatic	Phase_I	Capture				Illumina GAIIx	f65b842c-257e-4ac7-a155-23d3ac12d41c	f976fe92-00c7-45c7-8acd-32cf2ae2e9e4	g.chr1:109824422C>T	uc001dxg.2	-	4	460	c.338G>A	c.(337-339)CGG>CAG	p.R113Q	PSRC1_uc001dxb.2_5'UTR|PSRC1_uc001dxc.2_Missense_Mutation_p.R113Q|PSRC1_uc001dxd.2_Missense_Mutation_p.R113Q|PSRC1_uc001dxe.2_Missense_Mutation_p.R113Q|PSRC1_uc001dxf.2_Missense_Mutation_p.R113Q|PSRC1_uc001dxh.2_Missense_Mutation_p.R113Q|PSRC1_uc001dxi.2_Missense_Mutation_p.R113Q|PSRC1_uc001dxj.2_Missense_Mutation_p.R113Q	NM_001032290	NP_001027461	Q6PGN9	PSRC1_HUMAN	proline/serine-rich coiled-coil 1 isoform c	113	4 X 4 AA repeats of P-X-X-P.				cell division|microtubule bundle formation|mitotic metaphase plate congression|negative regulation of cell growth|positive regulation of microtubule polymerization|positive regulation of transcription, DNA-dependent|regulation of mitotic spindle organization	cytosol|midbody|spindle pole	microtubule binding				0		all_epithelial(167;0.000114)|all_lung(203;0.000321)|Lung NSC(277;0.000626)|Breast(1374;0.244)		Colorectal(144;0.0286)|Lung(183;0.0658)|COAD - Colon adenocarcinoma(174;0.112)|Epithelial(280;0.188)|all cancers(265;0.213)		GGTCTCCCGCCGAGGACTGGG	0.672000													32	53					0	0	0	0
NTRK1	4914	broad.mit.edu	37	1	156845368	156845368	+	Silent	SNP	T	C	C			TCGA-BA-6873-01A-11D-1870-08	TCGA-BA-6873-10A-01D-1870-08									Somatic	Phase_I	Capture				Illumina GAIIx	f65b842c-257e-4ac7-a155-23d3ac12d41c	f976fe92-00c7-45c7-8acd-32cf2ae2e9e4	g.chr1:156845368T>C	uc001fqh.1	+	12	1467	c.1411T>C	c.(1411-1413)TTG>CTG	p.L471L	NTRK1_uc001fqf.1_Silent_p.L435L|NTRK1_uc009wsi.1_Silent_p.L170L|NTRK1_uc001fqi.1_Silent_p.L465L|NTRK1_uc009wsk.1_Silent_p.L465L	NM_002529	NP_002520	P04629	NTRK1_HUMAN	neurotrophic tyrosine kinase, receptor, type 1	471	Cytoplasmic (Potential).|Interaction with SQSTM1 (By similarity).				activation of adenylate cyclase activity|activation of MAPKK activity|activation of phospholipase C activity|cell differentiation|nerve growth factor receptor signaling pathway|nervous system development|phosphatidylinositol-mediated signaling|Ras protein signal transduction	endosome|integral to plasma membrane	ATP binding|neurotrophin receptor activity|transmembrane receptor protein serine/threonine kinase activity|transmembrane receptor protein tyrosine kinase activity			lung(9)|ovary(6)|stomach(1)|central_nervous_system(1)	17	all_hematologic(923;0.0839)|Hepatocellular(266;0.158)				Imatinib(DB00619)	TTTCATGACATTGGGTGGCAG	0.607000			T	TPM3|TPR|TFG	papillary thyroid					TSP Lung(10;0.080)			15	78					0	0	0	0
HHIPL2	79802	broad.mit.edu	37	1	222696022	222696022	+	Missense_Mutation	SNP	C	T	T			TCGA-BA-6873-01A-11D-1870-08	TCGA-BA-6873-10A-01D-1870-08									Somatic	Phase_I	Capture				Illumina GAIIx	f65b842c-257e-4ac7-a155-23d3ac12d41c	f976fe92-00c7-45c7-8acd-32cf2ae2e9e4	g.chr1:222696022C>T	uc001hnh.1	-	9	2154	c.2096G>A	c.(2095-2097)AGG>AAG	p.R699K		NM_024746	NP_079022	Q6UWX4	HIPL2_HUMAN	HHIP-like 2 precursor	699					carbohydrate metabolic process	extracellular region	oxidoreductase activity, acting on the CH-OH group of donors, quinone or similar compound as acceptor|quinone binding			ovary(1)	1				GBM - Glioblastoma multiforme(131;0.0185)		GCTCTTCCTCCTCTTGCCCTG	0.567000													103	269					0	0	0	0
HHIPL2	79802	broad.mit.edu	37	1	222721186	222721186	+	Silent	SNP	G	A	A			TCGA-BA-6873-01A-11D-1870-08	TCGA-BA-6873-10A-01D-1870-08									Somatic	Phase_I	Capture				Illumina GAIIx	f65b842c-257e-4ac7-a155-23d3ac12d41c	f976fe92-00c7-45c7-8acd-32cf2ae2e9e4	g.chr1:222721186G>A	uc001hnh.1	-	1	259	c.201C>T	c.(199-201)TTC>TTT	p.F67F		NM_024746	NP_079022	Q6UWX4	HIPL2_HUMAN	HHIP-like 2 precursor	67					carbohydrate metabolic process	extracellular region	oxidoreductase activity, acting on the CH-OH group of donors, quinone or similar compound as acceptor|quinone binding			ovary(1)	1				GBM - Glioblastoma multiforme(131;0.0185)		CACAGCAGCCGAAGGACTCAT	0.567000													23	40					0	0	0	0
OR2M4	26245	broad.mit.edu	37	1	248402849	248402849	+	Silent	SNP	C	T	T			TCGA-BA-6873-01A-11D-1870-08	TCGA-BA-6873-10A-01D-1870-08									Somatic	Phase_I	Capture				Illumina GAIIx	f65b842c-257e-4ac7-a155-23d3ac12d41c	f976fe92-00c7-45c7-8acd-32cf2ae2e9e4	g.chr1:248402849C>T	uc010pzh.1	+	1	619	c.619C>T	c.(619-621)CTA>TTA	p.L207L		NM_017504	NP_059974	Q96R27	OR2M4_HUMAN	olfactory receptor, family 2, subfamily M,	207	Helical; Name=5; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			breast(2)	2	all_cancers(71;0.000124)|all_epithelial(71;1.03e-05)|Breast(184;0.00909)|Ovarian(71;0.0377)|all_lung(81;0.127)|Lung NSC(105;0.136)		OV - Ovarian serous cystadenocarcinoma(106;0.0245)			TGTGGTAATGCTAATCTTTCC	0.433000													12	78					0	0	0	0
PTCHD3	374308	broad.mit.edu	37	10	27702779	27702779	+	Missense_Mutation	SNP	A	C	C			TCGA-BA-6873-01A-11D-1870-08	TCGA-BA-6873-10A-01D-1870-08									Somatic	Phase_I	Capture				Illumina GAIIx	f65b842c-257e-4ac7-a155-23d3ac12d41c	f976fe92-00c7-45c7-8acd-32cf2ae2e9e4	g.chr10:27702779A>C	uc001itu.2	-	1	519	c.401T>G	c.(400-402)GTG>GGG	p.V134G		NM_001034842	NP_001030014	Q3KNS1	PTHD3_HUMAN	patched domain containing 3	134					spermatid development	integral to membrane	hedgehog receptor activity			ovary(2)|pancreas(1)|skin(1)	4						GTGCGCGCCCACCTGCCACCC	0.672000													5	32					0	0	0	0
CCAR1	55749	broad.mit.edu	37	10	70525798	70525798	+	Missense_Mutation	SNP	G	C	C			TCGA-BA-6873-01A-11D-1870-08	TCGA-BA-6873-10A-01D-1870-08									Somatic	Phase_I	Capture				Illumina GAIIx	f65b842c-257e-4ac7-a155-23d3ac12d41c	f976fe92-00c7-45c7-8acd-32cf2ae2e9e4	g.chr10:70525798G>C	uc001joo.2	+	17	2379	c.2260G>C	c.(2260-2262)GAC>CAC	p.D754H	CCAR1_uc001jol.1_RNA|CCAR1_uc001jom.1_Missense_Mutation_p.D559H|CCAR1_uc009xpx.1_Missense_Mutation_p.D728H|CCAR1_uc001jon.1_Missense_Mutation_p.D700H|CCAR1_uc010qiz.1_Missense_Mutation_p.D739H|CCAR1_uc010qja.1_Missense_Mutation_p.D739H|CCAR1_uc010qjb.1_RNA	NM_018237	NP_060707	Q8IX12	CCAR1_HUMAN	cell-cycle and apoptosis regulatory protein 1	754	Glu-rich.				apoptosis|cell cycle|nuclear mRNA splicing, via spliceosome|regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleoplasm|perinuclear region of cytoplasm	calcium ion binding|nucleic acid binding|protein binding			ovary(6)|large_intestine(1)	7						TGTCCTATTGGACTACAGATT	0.274000													19	53					0	0	0	0
HELLS	3070	broad.mit.edu	37	10	96336456	96336456	+	Missense_Mutation	SNP	G	A	A			TCGA-BA-6873-01A-11D-1870-08	TCGA-BA-6873-10A-01D-1870-08									Somatic	Phase_I	Capture				Illumina GAIIx	f65b842c-257e-4ac7-a155-23d3ac12d41c	f976fe92-00c7-45c7-8acd-32cf2ae2e9e4	g.chr10:96336456G>A	uc001kjt.2	+	10	1031	c.926G>A	c.(925-927)CGT>CAT	p.R309H	HELLS_uc001kjs.2_Missense_Mutation_p.R293H|HELLS_uc009xul.2_Missense_Mutation_p.R309H|HELLS_uc009xum.2_Missense_Mutation_p.R309H|HELLS_uc009xun.2_Missense_Mutation_p.R185H|HELLS_uc009xuo.2_Missense_Mutation_p.R309H|HELLS_uc001kju.2_5'UTR|HELLS_uc009xup.2_RNA|HELLS_uc009xuq.2_Missense_Mutation_p.R171H|HELLS_uc009xur.2_RNA	NM_018063	NP_060533	Q9NRZ9	HELLS_HUMAN	helicase, lymphoid-specific	309	Helicase ATP-binding.				cell division|centromeric heterochromatin formation|lymphocyte proliferation|maintenance of DNA methylation|methylation-dependent chromatin silencing|mitosis|transcription, DNA-dependent	centromeric heterochromatin|nucleus	ATP binding|DNA binding|helicase activity			ovary(1)|kidney(1)	2		Colorectal(252;0.0429)		all cancers(201;2.13e-05)		CAGGAGGAACGTCAAAAATTG	0.333000													5	38					0	0	0	0
SORCS3	22986	broad.mit.edu	37	10	106907398	106907398	+	Silent	SNP	C	T	T	rs147429425	by1000genomes	TCGA-BA-6873-01A-11D-1870-08	TCGA-BA-6873-10A-01D-1870-08									Somatic	Phase_I	Capture				Illumina GAIIx	f65b842c-257e-4ac7-a155-23d3ac12d41c	f976fe92-00c7-45c7-8acd-32cf2ae2e9e4	g.chr10:106907398C>T	uc001kyi.1	+	9	1553	c.1326C>T	c.(1324-1326)GAC>GAT	p.D442D		NM_014978	NP_055793	Q9UPU3	SORC3_HUMAN	VPS10 domain receptor protein SORCS 3 precursor	442	Lumenal (Potential).					integral to membrane	neuropeptide receptor activity			ovary(6)|skin(3)|central_nervous_system(1)	10		Colorectal(252;0.134)|Breast(234;0.142)|Lung NSC(174;0.191)		Epithelial(162;1.58e-07)|all cancers(201;1.02e-05)|BRCA - Breast invasive adenocarcinoma(275;0.0628)		TCAGTACAGACGAGAACCAAG	0.473000													19	58					0	0	0	0
VAX1	11023	broad.mit.edu	37	10	118896029	118896029	+	Missense_Mutation	SNP	C	T	T			TCGA-BA-6873-01A-11D-1870-08	TCGA-BA-6873-10A-01D-1870-08									Somatic	Phase_I	Capture				Illumina GAIIx	f65b842c-257e-4ac7-a155-23d3ac12d41c	f976fe92-00c7-45c7-8acd-32cf2ae2e9e4	g.chr10:118896029C>T	uc009xyx.2	-	2	628	c.383G>A	c.(382-384)CGC>CAC	p.R128H	VAX1_uc001ldb.1_Missense_Mutation_p.R128H	NM_001112704	NP_001106175	Q5SQQ9	VAX1_HUMAN	ventral anterior homeobox 1 isoform a	128	Homeobox.					nucleus	sequence-specific DNA binding			ovary(2)	2				all cancers(201;0.0108)		GGTCCTCTCGCGGCCCACCAC	0.667000													15	40					0	0	0	0
CTBP2	1488	broad.mit.edu	37	10	126678151	126678151	+	Missense_Mutation	SNP	T	C	C			TCGA-BA-6873-01A-11D-1870-08	TCGA-BA-6873-10A-01D-1870-08									Somatic	Phase_I	Capture				Illumina GAIIx	f65b842c-257e-4ac7-a155-23d3ac12d41c	f976fe92-00c7-45c7-8acd-32cf2ae2e9e4	g.chr10:126678151T>C	uc009yak.2	-	11	1561	c.1274A>G	c.(1273-1275)CAA>CGA	p.Q425R	CTBP2_uc009yal.2_Missense_Mutation_p.Q425R|CTBP2_uc001lif.3_Missense_Mutation_p.Q425R|CTBP2_uc001lih.3_Missense_Mutation_p.Q425R|CTBP2_uc001lid.3_Missense_Mutation_p.Q493R|CTBP2_uc001lie.3_Missense_Mutation_p.Q965R	NM_001329	NP_001320	P56545	CTBP2_HUMAN	C-terminal binding protein 2 isoform 1	425					negative regulation of cell proliferation|negative regulation of transcription, DNA-dependent|transcription, DNA-dependent|viral genome replication|white fat cell differentiation	cell junction|synapse|transcriptional repressor complex	NAD binding|oxidoreductase activity, acting on the CH-OH group of donors, NAD or NADP as acceptor|protein binding				0		all_lung(145;0.0132)|Lung NSC(174;0.0193)|all_neural(114;0.116)|Colorectal(57;0.173)		Colorectal(40;0.00572)|COAD - Colon adenocarcinoma(40;0.0127)|GBM - Glioblastoma multiforme(135;0.147)		AGAGGGCGCTTGGGAAGGATG	0.567000													4	116					0	0	0	0
Unknown	0	broad.mit.edu	37	11	43284502	43284502	+	RNA	SNP	C	T	T			TCGA-BA-6873-01A-11D-1870-08	TCGA-BA-6873-10A-01D-1870-08									Somatic	Phase_I	Capture				Illumina GAIIx	f65b842c-257e-4ac7-a155-23d3ac12d41c	f976fe92-00c7-45c7-8acd-32cf2ae2e9e4	g.chr11:43284502C>T	uc001mxe.1	-	2		c.434G>A								Homo sapiens cDNA FLJ44864 fis, clone BRALZ2013621, moderately similar to Heterogeneous nuclear ribonucleoprotein K.																		ATGAGGACAGCATTCCCGGAA	0.408000													12	12					0	0	0	0
FOLH1B	219595	broad.mit.edu	37	11	89395322	89395322	+	Translation_Start_Site	SNP	C	T	T			TCGA-BA-6873-01A-11D-1870-08	TCGA-BA-6873-10A-01D-1870-08									Somatic	Phase_I	Capture				Illumina GAIIx	f65b842c-257e-4ac7-a155-23d3ac12d41c	f976fe92-00c7-45c7-8acd-32cf2ae2e9e4	g.chr11:89395322C>T	uc001pda.2	+	2	433	c.-93C>T	c.(-95--91)TACGC>TATGC			NM_153696	NP_710163	Q9HBA9	FOH1B_HUMAN	folate hydrolase 1B						proteolysis	cytoplasm	dipeptidase activity|metal ion binding|metallopeptidase activity			ovary(3)|skin(2)|central_nervous_system(1)	6						TTTCAGAATACGCTTATAGGC	0.328000													5	56					0	0	0	0
GPR162	27239	broad.mit.edu	37	12	6935885	6935885	+	Missense_Mutation	SNP	C	T	T			TCGA-BA-6873-01A-11D-1870-08	TCGA-BA-6873-10A-01D-1870-08									Somatic	Phase_I	Capture				Illumina GAIIx	f65b842c-257e-4ac7-a155-23d3ac12d41c	f976fe92-00c7-45c7-8acd-32cf2ae2e9e4	g.chr12:6935885C>T	uc001qqw.1	+	5	1818	c.1283C>T	c.(1282-1284)TCC>TTC	p.S428F	LEPREL2_uc001qqz.1_5'Flank|LEPREL2_uc001qra.1_5'Flank|LEPREL2_uc001qrb.1_5'Flank|GPR162_uc001qqx.1_Missense_Mutation_p.S144F|GPR162_uc009zfd.1_Missense_Mutation_p.S124F|GPR162_uc001qqy.1_Intron	NM_019858	NP_062832	Q16538	GP162_HUMAN	G protein-coupled receptor 162 isoform 2	428	Cytoplasmic (Potential).					integral to membrane|plasma membrane	G-protein coupled receptor activity			ovary(1)|central_nervous_system(1)|pancreas(1)	3						GAACCAGGCTCCTTCCTGCAC	0.612000													86	143					0	0	0	0
ACCN2	41	broad.mit.edu	37	12	50475373	50475373	+	Missense_Mutation	SNP	G	A	A			TCGA-BA-6873-01A-11D-1870-08	TCGA-BA-6873-10A-01D-1870-08									Somatic	Phase_I	Capture				Illumina GAIIx	f65b842c-257e-4ac7-a155-23d3ac12d41c	f976fe92-00c7-45c7-8acd-32cf2ae2e9e4	g.chr12:50475373G>A	uc001rvw.2	+	12	1757	c.1528G>A	c.(1528-1530)GCT>ACT	p.A510T	ACCN2_uc001rvv.2_Missense_Mutation_p.A556T|ACCN2_uc009zln.2_Missense_Mutation_p.A301T|ACCN2_uc009zlo.2_Missense_Mutation_p.A510T	NM_001095	NP_001086	P78348	ACCN2_HUMAN	amiloride-sensitive cation channel 2, neuronal	510	Cytoplasmic (By similarity).				calcium ion transport|response to pH|signal transduction	integral to plasma membrane	ligand-gated sodium channel activity|protein binding			ovary(1)	1					Amiloride(DB00594)	GATGACATACGCTGCCAACAT	0.642000													5	48					0	0	0	0
BEST3	144453	broad.mit.edu	37	12	70049468	70049468	+	Missense_Mutation	SNP	C	G	G			TCGA-BA-6873-01A-11D-1870-08	TCGA-BA-6873-10A-01D-1870-08									Somatic	Phase_I	Capture				Illumina GAIIx	f65b842c-257e-4ac7-a155-23d3ac12d41c	f976fe92-00c7-45c7-8acd-32cf2ae2e9e4	g.chr12:70049468C>G	uc001svg.2	-	10	1453	c.1226G>C	c.(1225-1227)AGA>ACA	p.R409T	BEST3_uc001svd.1_Intron|BEST3_uc001sve.1_Intron|BEST3_uc001svf.2_Missense_Mutation_p.R196T|BEST3_uc010stm.1_Missense_Mutation_p.R303T	NM_032735	NP_116124	Q8N1M1	BEST3_HUMAN	vitelliform macular dystrophy 2-like 3 isoform	409	Cytoplasmic (Potential).					chloride channel complex|plasma membrane	chloride channel activity				0	Breast(13;2.31e-06)|Esophageal squamous(21;0.187)		Lung(24;0.000278)|OV - Ovarian serous cystadenocarcinoma(12;0.0019)|STAD - Stomach adenocarcinoma(21;0.00694)			GCTTCTTCTTCTGGGGCTGGA	0.552000													65	102					0	0	0	0
ATXN2	6311	broad.mit.edu	37	12	111895024	111895024	+	Silent	SNP	A	G	G			TCGA-BA-6873-01A-11D-1870-08	TCGA-BA-6873-10A-01D-1870-08									Somatic	Phase_I	Capture				Illumina GAIIx	f65b842c-257e-4ac7-a155-23d3ac12d41c	f976fe92-00c7-45c7-8acd-32cf2ae2e9e4	g.chr12:111895024A>G	uc001tsj.2	-	22	3672	c.3510T>C	c.(3508-3510)CCT>CCC	p.P1170P	ATXN2_uc001tsh.2_Silent_p.P905P|ATXN2_uc001tsi.2_Silent_p.P863P|ATXN2_uc001tsk.2_RNA|ATXN2_uc001tsg.2_Silent_p.P358P|ATXN2_uc001tsl.1_Silent_p.P171P	NM_002973	NP_002964	Q99700	ATX2_HUMAN	ataxin 2	1170					cell death|cytoplasmic mRNA processing body assembly|regulation of translation|RNA metabolic process|RNA transport|stress granule assembly	nucleus|perinuclear region of cytoplasm|polysome|stress granule|trans-Golgi network	protein C-terminus binding|RNA binding			ovary(1)|breast(1)	2						TTACCTGAACAGGACTGGGTG	0.537000													3	40					0	0	0	0
OASL	8638	broad.mit.edu	37	12	121465598	121465598	+	Missense_Mutation	SNP	C	T	T			TCGA-BA-6873-01A-11D-1870-08	TCGA-BA-6873-10A-01D-1870-08									Somatic	Phase_I	Capture				Illumina GAIIx	f65b842c-257e-4ac7-a155-23d3ac12d41c	f976fe92-00c7-45c7-8acd-32cf2ae2e9e4	g.chr12:121465598C>T	uc001tzj.1	-	4	686	c.680G>A	c.(679-681)AGA>AAA	p.R227K	OASL_uc001tzk.1_Intron	NM_003733	NP_003724	Q15646	OASL_HUMAN	2'-5'-oligoadenylate synthetase-like isoform a	227					interferon-gamma-mediated signaling pathway|type I interferon-mediated signaling pathway	cytoplasm|nucleolus	ATP binding|DNA binding|double-stranded RNA binding|thyroid hormone receptor binding|transferase activity			skin(1)	1	all_neural(191;0.0684)|Medulloblastoma(191;0.0922)					CAGATTGGCTCTGGGGGACCT	0.398000													25	39					0	0	0	0
DCT	1638	broad.mit.edu	37	13	95112446	95112446	+	Missense_Mutation	SNP	T	C	C			TCGA-BA-6873-01A-11D-1870-08	TCGA-BA-6873-10A-01D-1870-08									Somatic	Phase_I	Capture				Illumina GAIIx	f65b842c-257e-4ac7-a155-23d3ac12d41c	f976fe92-00c7-45c7-8acd-32cf2ae2e9e4	g.chr13:95112446T>C	uc001vlv.3	-	6	1505	c.1078A>G	c.(1078-1080)ACT>GCT	p.T360A	DCT_uc010afh.2_Missense_Mutation_p.T360A	NM_001922	NP_001913	P40126	TYRP2_HUMAN	dopachrome tautomerase isoform 1	360	Lumenal, melanosome (Potential).				epidermis development|melanin biosynthetic process from tyrosine	cytosol|integral to membrane|melanosome membrane|microsome	copper ion binding|dopachrome isomerase activity|oxidoreductase activity			ovary(2)|upper_aerodigestive_tract(1)|central_nervous_system(1)|pancreas(1)	5	all_neural(89;0.0684)|Medulloblastoma(90;0.163)	all_cancers(2;3.71e-42)|all_epithelial(2;3.76e-31)|all_lung(2;5.16e-14)|Lung NSC(4;1.33e-13)|Breast(118;0.0013)|Hepatocellular(115;0.00886)|Renal(2;0.00988)		COAD - Colon adenocarcinoma(199;7.07e-05)|GBM - Glioblastoma multiforme(99;0.000472)		GAATCCAGAGTCCCATCTGCT	0.408000													8	26					0	0	0	0
NPAS3	64067	broad.mit.edu	37	14	34269100	34269100	+	Silent	SNP	C	T	T	rs148867285		TCGA-BA-6873-01A-11D-1870-08	TCGA-BA-6873-10A-01D-1870-08									Somatic	Phase_I	Capture				Illumina GAIIx	f65b842c-257e-4ac7-a155-23d3ac12d41c	f976fe92-00c7-45c7-8acd-32cf2ae2e9e4	g.chr14:34269100C>T	uc001wru.2	+	12	1651	c.1587C>T	c.(1585-1587)GAC>GAT	p.D529D	NPAS3_uc001wrs.2_Silent_p.D516D|NPAS3_uc001wrt.2_Silent_p.D497D|NPAS3_uc001wrv.2_Silent_p.D499D	NM_173159	NP_071406	Q8IXF0	NPAS3_HUMAN	neuronal PAS domain protein 3 isoform 3	529					regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasm|nucleus	DNA binding|signal transducer activity			ovary(1)|skin(1)	2	Breast(36;0.0102)|Hepatocellular(127;0.133)		LUAD - Lung adenocarcinoma(48;0.00169)|Lung(238;0.00968)	GBM - Glioblastoma multiforme(1;1.31e-09)|all cancers(1;0.000112)|OV - Ovarian serous cystadenocarcinoma(311;0.115)		GCGACAGCGACGACAGCTTCG	0.637000													27	43					0	0	0	0
PAPLN	89932	broad.mit.edu	37	14	73721248	73721248	+	Missense_Mutation	SNP	C	T	T	rs143213374		TCGA-BA-6873-01A-11D-1870-08	TCGA-BA-6873-10A-01D-1870-08									Somatic	Phase_I	Capture				Illumina GAIIx	f65b842c-257e-4ac7-a155-23d3ac12d41c	f976fe92-00c7-45c7-8acd-32cf2ae2e9e4	g.chr14:73721248C>T	uc010ttx.1	+	12	1493	c.1330C>T	c.(1330-1332)CGG>TGG	p.R444W	PAPLN_uc001xnw.3_Missense_Mutation_p.R417W|PAPLN_uc010arl.2_RNA|PAPLN_uc010ttw.1_RNA|PAPLN_uc010tty.1_Missense_Mutation_p.R444W	NM_173462	NP_775733	O95428	PPN_HUMAN	papilin	444	TSP type-1 4.					proteinaceous extracellular matrix	metalloendopeptidase activity|serine-type endopeptidase inhibitor activity|zinc ion binding			ovary(1)|central_nervous_system(1)|skin(1)	3				BRCA - Breast invasive adenocarcinoma(234;0.00394)|OV - Ovarian serous cystadenocarcinoma(108;0.0468)		CGTTGGCGTCCGGAAGCGGAG	0.622000													58	211					0	0	0	0
TRAF3	7187	broad.mit.edu	37	14	103357700	103357700	+	Silent	SNP	C	T	T			TCGA-BA-6873-01A-11D-1870-08	TCGA-BA-6873-10A-01D-1870-08									Somatic	Phase_I	Capture				Illumina GAIIx	f65b842c-257e-4ac7-a155-23d3ac12d41c	f976fe92-00c7-45c7-8acd-32cf2ae2e9e4	g.chr14:103357700C>T	uc001ymc.1	+	9	1118	c.765C>T	c.(763-765)TCC>TCT	p.S255S	TRAF3_uc001yme.1_Silent_p.S230S|TRAF3_uc001ymd.1_Silent_p.S255S|TRAF3_uc010txy.1_Intron	NM_145725	NP_663777	Q13114	TRAF3_HUMAN	TNF receptor-associated factor 3 isoform 1	255					apoptosis|induction of apoptosis|negative regulation of NF-kappaB transcription factor activity|negative regulation of type I interferon production|regulation of defense response to virus|regulation of interferon-beta production|regulation of proteolysis|toll-like receptor signaling pathway|tumor necrosis factor-mediated signaling pathway	CD40 receptor complex|cytosol|endosome|internal side of plasma membrane|mitochondrion	signal transducer activity|ubiquitin-protein ligase activity|zinc ion binding			ovary(1)|lung(1)|breast(1)	3		all_cancers(154;7.87e-06)|all_epithelial(191;0.0024)		Epithelial(152;9.92e-24)|all cancers(159;2.23e-21)|OV - Ovarian serous cystadenocarcinoma(161;7.85e-12)|Colorectal(3;0.0971)		AGGCCAGCTCCGCCGTGCAGC	0.557000													7	35					0	0	0	0
ADAM6	8755	broad.mit.edu	37	14	106237563	106237563	+	RNA	SNP	C	G	G			TCGA-BA-6873-01A-11D-1870-08	TCGA-BA-6873-10A-01D-1870-08									Somatic	Phase_I	Capture				Illumina GAIIx	f65b842c-257e-4ac7-a155-23d3ac12d41c	f976fe92-00c7-45c7-8acd-32cf2ae2e9e4	g.chr14:106237563C>G	uc010tyt.1	-	3611		c.57320G>C			uc001yrs.2_Intron|uc001yrt.2_Intron|uc001yrw.1_Intron|uc001yrx.1_Intron|uc001yrz.1_Intron|uc001yse.2_Intron|uc001ysf.2_Intron|uc001ysh.1_RNA|uc001ysi.1_RNA					Parts of antibodies, mostly variable regions.												0						GAGTAGAGTCCTGAGGACTGT	0.617000													13	99					0	0	0	0
WHAMML1	339005	broad.mit.edu	37	15	23205094	23205094	+	RNA	SNP	G	A	A			TCGA-BA-6873-01A-11D-1870-08	TCGA-BA-6873-10A-01D-1870-08									Somatic	Phase_I	Capture				Illumina GAIIx	f65b842c-257e-4ac7-a155-23d3ac12d41c	f976fe92-00c7-45c7-8acd-32cf2ae2e9e4	g.chr15:23205094G>A	uc001yvg.2	-	2		c.701C>T			WHAMML1_uc010ayc.2_RNA|WHAMML1_uc010ayd.2_RNA|WHAMML1_uc010aye.1_RNA	NR_003521				Homo sapiens mRNA; cDNA DKFZp313L2232 (from clone DKFZp313L2232).												0						AGTACTGGAAGAACGTGGTTG	0.373000													3	28					0	0	0	0
WHAMML1	339005	broad.mit.edu	37	15	23205098	23205098	+	RNA	SNP	G	A	A	rs146035894	by1000genomes	TCGA-BA-6873-01A-11D-1870-08	TCGA-BA-6873-10A-01D-1870-08									Somatic	Phase_I	Capture				Illumina GAIIx	f65b842c-257e-4ac7-a155-23d3ac12d41c	f976fe92-00c7-45c7-8acd-32cf2ae2e9e4	g.chr15:23205098G>A	uc001yvg.2	-	2		c.697C>T			WHAMML1_uc010ayc.2_RNA|WHAMML1_uc010ayd.2_RNA|WHAMML1_uc010aye.1_RNA	NR_003521				Homo sapiens mRNA; cDNA DKFZp313L2232 (from clone DKFZp313L2232).												0						CTGGAAGAACGTGGTTGCCAC	0.373000													4	30					0	0	0	0
WHAMML1	339005	broad.mit.edu	37	15	23205108	23205108	+	RNA	SNP	C	T	T			TCGA-BA-6873-01A-11D-1870-08	TCGA-BA-6873-10A-01D-1870-08									Somatic	Phase_I	Capture				Illumina GAIIx	f65b842c-257e-4ac7-a155-23d3ac12d41c	f976fe92-00c7-45c7-8acd-32cf2ae2e9e4	g.chr15:23205108C>T	uc001yvg.2	-	2		c.687G>A			WHAMML1_uc010ayc.2_RNA|WHAMML1_uc010ayd.2_RNA|WHAMML1_uc010aye.1_RNA	NR_003521				Homo sapiens mRNA; cDNA DKFZp313L2232 (from clone DKFZp313L2232).												0						GTGGTTGCCACGGTAACTAAT	0.393000													4	32					0	0	0	0
LOC645752	645752	broad.mit.edu	37	15	78211241	78211241	+	Missense_Mutation	SNP	T	A	A			TCGA-BA-6873-01A-11D-1870-08	TCGA-BA-6873-10A-01D-1870-08									Somatic	Phase_I	Capture				Illumina GAIIx	f65b842c-257e-4ac7-a155-23d3ac12d41c	f976fe92-00c7-45c7-8acd-32cf2ae2e9e4	g.chr15:78211241T>A	uc010bky.2	-	11	1290	c.526A>T	c.(526-528)AGG>TGG	p.R176W		NR_027024				SubName: Full=GOLGA6 protein; Flags: Fragment;												0						TCCCACAGCCTCTTTTCCTGC	0.572000													101	260					0	0	0	0
ATP2A3	489	broad.mit.edu	37	17	3851149	3851149	+	Missense_Mutation	SNP	C	T	T			TCGA-BA-6873-01A-11D-1870-08	TCGA-BA-6873-10A-01D-1870-08									Somatic	Phase_I	Capture				Illumina GAIIx	f65b842c-257e-4ac7-a155-23d3ac12d41c	f976fe92-00c7-45c7-8acd-32cf2ae2e9e4	g.chr17:3851149C>T	uc002fxb.1	-	8	782	c.631G>A	c.(631-633)GGC>AGC	p.G211S	ATP2A3_uc002fwx.1_Missense_Mutation_p.G211S|ATP2A3_uc002fwy.1_Missense_Mutation_p.G211S|ATP2A3_uc002fwz.1_Missense_Mutation_p.G211S|ATP2A3_uc002fxa.1_Missense_Mutation_p.G211S|ATP2A3_uc002fxc.1_Missense_Mutation_p.G211S|ATP2A3_uc002fxd.1_Missense_Mutation_p.G211S	NM_174955	NP_777615	Q93084	AT2A3_HUMAN	ATPase, Ca++ transporting, ubiquitous isoform b	211	Cytoplasmic (By similarity).				ATP biosynthetic process|platelet activation	integral to membrane|nuclear membrane|platelet dense tubular network membrane|sarcoplasmic reticulum membrane	ATP binding|calcium-transporting ATPase activity|metal ion binding|protein binding			ovary(3)|breast(1)|central_nervous_system(1)	5				LUAD - Lung adenocarcinoma(1115;0.000692)|Lung(3;0.0766)		ATATTGGTGCCCTGGCCAGGG	0.607000													6	36					0	0	0	0
TP53	7157	broad.mit.edu	37	17	7578271	7578271	+	Missense_Mutation	SNP	T	A	A			TCGA-BA-6873-01A-11D-1870-08	TCGA-BA-6873-10A-01D-1870-08									Somatic	Phase_I	Capture				Illumina GAIIx	f65b842c-257e-4ac7-a155-23d3ac12d41c	f976fe92-00c7-45c7-8acd-32cf2ae2e9e4	g.chr17:7578271T>A	uc002gim.2	-	6	772	c.578A>T	c.(577-579)CAT>CTT	p.H193L	TP53_uc002gig.1_Missense_Mutation_p.H193L|TP53_uc002gih.2_Missense_Mutation_p.H193L|TP53_uc010cne.1_5'Flank|TP53_uc010cnf.1_Missense_Mutation_p.H61L|TP53_uc010cng.1_Missense_Mutation_p.H61L|TP53_uc002gii.1_Missense_Mutation_p.H61L|TP53_uc010cnh.1_Missense_Mutation_p.H193L|TP53_uc010cni.1_Missense_Mutation_p.H193L|TP53_uc002gij.2_Missense_Mutation_p.H193L|TP53_uc010cnj.1_Intron|TP53_uc002gin.2_Missense_Mutation_p.H100L|TP53_uc002gio.2_Missense_Mutation_p.H61L|TP53_uc010vug.1_Missense_Mutation_p.H154L	NM_001126112	NP_001119584	P04637	P53_HUMAN	tumor protein p53 isoform a	193	Required for interaction with FBXO42.||Interaction with HIPK1 (By similarity).|Interaction with AXIN1 (By similarity).		H -> D (in sporadic cancers; somatic mutation).|H -> Q (in sporadic cancers; somatic mutation).|H -> Y (in sporadic cancers; somatic mutation).|QH -> HN (in a sporadic cancer; somatic mutation).|H -> N (in sporadic cancers; somatic mutation).|QH -> HY (in a sporadic cancer; somatic mutation).|H -> L (in sporadic cancers; somatic mutation).|H -> P (in sporadic cancers; somatic mutation).|H -> R (in LFS; germline mutation and 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.H193R(67)|p.H193L(31)|p.H193Y(26)|p.H193P(12)|p.0?(7)|p.H193D(7)|p.H193N(4)|p.A189_V197delAPPQHLIRV(4)|p.H193fs*16(3)|p.H193H(2)|p.P191fs*53(2)|p.K164_P219del(1)|p.P191fs*15(1)|p.P191fs*6(1)|p.H100L(1)|p.H61L(1)|p.H193_I195delHLI(1)|p.H193_I195>AP(1)|p.A189fs*53(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)		TCGGATAAGATGCTGAGGAGG	0.562000		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)			13	29					0	0	0	0
PTPRM	5797	broad.mit.edu	37	18	7926657	7926657	+	Silent	SNP	G	A	A			TCGA-BA-6873-01A-11D-1870-08	TCGA-BA-6873-10A-01D-1870-08									Somatic	Phase_I	Capture				Illumina GAIIx	f65b842c-257e-4ac7-a155-23d3ac12d41c	f976fe92-00c7-45c7-8acd-32cf2ae2e9e4	g.chr18:7926657G>A	uc002knn.3	+	5	1142	c.639G>A	c.(637-639)GTG>GTA	p.V213V	PTPRM_uc010dkv.2_Silent_p.V213V	NM_002845	NP_002836	P28827	PTPRM_HUMAN	protein tyrosine phosphatase, receptor type, M	213	Ig-like C2-type.|Extracellular (Potential).				homophilic cell adhesion|negative regulation of angiogenesis|negative regulation of endothelial cell migration|negative regulation of endothelial cell proliferation|response to drug|retina layer formation|retinal ganglion cell axon guidance	cell-cell adherens junction|integral to plasma membrane|lamellipodium|perinuclear region of cytoplasm	cadherin binding|transmembrane receptor protein tyrosine phosphatase activity			lung(3)|ovary(2)|central_nervous_system(1)	6		Colorectal(10;0.234)				GCAGGACCGTGGCAGGAGACA	0.522000													9	97					0	0	0	0
WDR18	57418	broad.mit.edu	37	19	989771	989771	+	Missense_Mutation	SNP	G	A	A			TCGA-BA-6873-01A-11D-1870-08	TCGA-BA-6873-10A-01D-1870-08									Somatic	Phase_I	Capture				Illumina GAIIx	f65b842c-257e-4ac7-a155-23d3ac12d41c	f976fe92-00c7-45c7-8acd-32cf2ae2e9e4	g.chr19:989771G>A	uc002lqm.1	+	3	357	c.331G>A	c.(331-333)GGG>AGG	p.G111R	WDR18_uc002lqn.1_RNA|WDR18_uc010drx.1_Missense_Mutation_p.G74R|WDR18_uc010dry.1_Missense_Mutation_p.G111R	NM_024100	NP_077005	Q9BV38	WDR18_HUMAN	WD repeat domain 18	111	WD 2.									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)		GGTCTCCACCGGGAACCTTCT	0.632000													18	79					0	0	0	0
ZNF426	79088	broad.mit.edu	37	19	9643595	9643595	+	Missense_Mutation	SNP	T	A	A			TCGA-BA-6873-01A-11D-1870-08	TCGA-BA-6873-10A-01D-1870-08									Somatic	Phase_I	Capture				Illumina GAIIx	f65b842c-257e-4ac7-a155-23d3ac12d41c	f976fe92-00c7-45c7-8acd-32cf2ae2e9e4	g.chr19:9643595T>A	uc002mlq.2	-	6	515	c.251A>T	c.(250-252)CAG>CTG	p.Q84L	ZNF426_uc010dws.2_Missense_Mutation_p.Q46L	NM_024106	NP_077011	Q9BUY5	ZN426_HUMAN	zinc finger protein 426	84	KRAB.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(1)	1						TTTGATGATCTGACCTCCTGA	0.413000													24	119					0	0	0	0
ZSWIM4	65249	broad.mit.edu	37	19	13941278	13941278	+	Missense_Mutation	SNP	C	T	T			TCGA-BA-6873-01A-11D-1870-08	TCGA-BA-6873-10A-01D-1870-08									Somatic	Phase_I	Capture				Illumina GAIIx	f65b842c-257e-4ac7-a155-23d3ac12d41c	f976fe92-00c7-45c7-8acd-32cf2ae2e9e4	g.chr19:13941278C>T	uc002mxh.1	+	13	2573	c.2384C>T	c.(2383-2385)GCG>GTG	p.A795V	ZSWIM4_uc010xng.1_Missense_Mutation_p.A718V	NM_023072	NP_075560	Q9H7M6	ZSWM4_HUMAN	zinc finger, SWIM-type containing 4	795							zinc ion binding			central_nervous_system(2)	2			OV - Ovarian serous cystadenocarcinoma(19;2.94e-23)|Epithelial(5;4.58e-19)			GTGCTGGACGCGGCGGCCGGC	0.697000													64	81					0	0	0	0
RPSAP58	388524	broad.mit.edu	37	19	24010294	24010294	+	Missense_Mutation	SNP	C	G	G			TCGA-BA-6873-01A-11D-1870-08	TCGA-BA-6873-10A-01D-1870-08									Somatic	Phase_I	Capture				Illumina GAIIx	f65b842c-257e-4ac7-a155-23d3ac12d41c	f976fe92-00c7-45c7-8acd-32cf2ae2e9e4	g.chr19:24010294C>G	uc002nrn.2	+	4	754	c.331C>G	c.(331-333)CAG>GAG	p.Q111E		NM_002295	NP_002286			ribosomal protein SA												0						CTTCACTAACCAGATCCAGGC	0.567000													3	44					0	0	0	0
ZNF507	22847	broad.mit.edu	37	19	32844652	32844652	+	Missense_Mutation	SNP	G	A	A			TCGA-BA-6873-01A-11D-1870-08	TCGA-BA-6873-10A-01D-1870-08									Somatic	Phase_I	Capture				Illumina GAIIx	f65b842c-257e-4ac7-a155-23d3ac12d41c	f976fe92-00c7-45c7-8acd-32cf2ae2e9e4	g.chr19:32844652G>A	uc002nte.2	+	3	1188	c.916G>A	c.(916-918)GTC>ATC	p.V306I	ZNF507_uc002ntc.2_Missense_Mutation_p.V306I|ZNF507_uc010xrn.1_Missense_Mutation_p.V306I|ZNF507_uc002ntd.2_Missense_Mutation_p.V306I	NM_001136156	NP_001129628	Q8TCN5	ZN507_HUMAN	zinc finger protein 507	306					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(1)|pancreas(1)|kidney(1)|central_nervous_system(1)|skin(1)	5	Esophageal squamous(110;0.162)					CGATGCAGTCGTCATTGCTAT	0.478000													19	177					0	0	0	0
BCKDHA	593	broad.mit.edu	37	19	41920002	41920002	+	Missense_Mutation	SNP	G	A	A			TCGA-BA-6873-01A-11D-1870-08	TCGA-BA-6873-10A-01D-1870-08									Somatic	Phase_I	Capture				Illumina GAIIx	f65b842c-257e-4ac7-a155-23d3ac12d41c	f976fe92-00c7-45c7-8acd-32cf2ae2e9e4	g.chr19:41920002G>A	uc002oqq.2	+	4	453	c.424G>A	c.(424-426)GTG>ATG	p.V142M	CYP2F1_uc010xvw.1_Intron|BCKDHA_uc002oqm.3_Missense_Mutation_p.V176M|BCKDHA_uc002oqp.1_Missense_Mutation_p.V34M|BCKDHA_uc002oqr.2_Missense_Mutation_p.V142M|BCKDHA_uc010xvz.1_Missense_Mutation_p.V120M	NM_000709	NP_000700	P12694	ODBA_HUMAN	branched chain keto acid dehydrogenase E1, alpha	142					branched chain family amino acid catabolic process	mitochondrial alpha-ketoglutarate dehydrogenase complex	3-methyl-2-oxobutanoate dehydrogenase (2-methylpropanoyl-transferring) activity|alpha-ketoacid dehydrogenase activity|carboxy-lyase activity|metal ion binding|protein binding				0						GGGCACGCACGTGGGGAGTGC	0.617000													16	83					0	0	0	0
ERF	2077	broad.mit.edu	37	19	42754040	42754040	+	Silent	SNP	G	A	A			TCGA-BA-6873-01A-11D-1870-08	TCGA-BA-6873-10A-01D-1870-08									Somatic	Phase_I	Capture				Illumina GAIIx	f65b842c-257e-4ac7-a155-23d3ac12d41c	f976fe92-00c7-45c7-8acd-32cf2ae2e9e4	g.chr19:42754040G>A	uc002ote.3	-	3	470	c.312C>T	c.(310-312)TAC>TAT	p.Y104Y	ERF_uc002otd.3_5'UTR	NM_006494	NP_006485	P50548	ERF_HUMAN	Ets2 repressor factor	104	ETS.				cell proliferation|regulation of transcription from RNA polymerase II promoter	nucleus	ligand-regulated transcription factor activity|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|transcription corepressor activity			lung(1)|kidney(1)|central_nervous_system(1)|skin(1)	4		Prostate(69;0.00682)				AATTGAACTTGTAGGTGAACC	0.488000													30	134					0	0	0	0
NLRP2	55655	broad.mit.edu	37	19	55489152	55489152	+	Missense_Mutation	SNP	G	A	A			TCGA-BA-6873-01A-11D-1870-08	TCGA-BA-6873-10A-01D-1870-08									Somatic	Phase_I	Capture				Illumina GAIIx	f65b842c-257e-4ac7-a155-23d3ac12d41c	f976fe92-00c7-45c7-8acd-32cf2ae2e9e4	g.chr19:55489152G>A	uc002qij.2	+	4	444	c.358G>A	c.(358-360)GTG>ATG	p.V120M	NLRP2_uc010yfp.1_Missense_Mutation_p.V97M|NLRP2_uc010esn.2_Intron|NLRP2_uc010eso.2_Missense_Mutation_p.V120M|NLRP2_uc010esp.2_Missense_Mutation_p.V120M	NM_017852	NP_060322	Q9NX02	NALP2_HUMAN	NLR family, pyrin domain containing 2	120					apoptosis|positive regulation of caspase activity|positive regulation of interleukin-1 beta secretion	cytoplasm	ATP binding|Pyrin domain binding			ovary(1)|skin(1)	2			BRCA - Breast invasive adenocarcinoma(297;0.163)	GBM - Glioblastoma multiforme(193;0.028)		ACCTCTAGACGTGGACGAAAT	0.542000													31	62					0	0	0	0
ZNF814	730051	broad.mit.edu	37	19	58385762	58385762	+	Silent	SNP	C	G	G			TCGA-BA-6873-01A-11D-1870-08	TCGA-BA-6873-10A-01D-1870-08									Somatic	Phase_I	Capture				Illumina GAIIx	f65b842c-257e-4ac7-a155-23d3ac12d41c	f976fe92-00c7-45c7-8acd-32cf2ae2e9e4	g.chr19:58385762C>G	uc002qqo.2	-	3	1268	c.996G>C	c.(994-996)TCG>TCC	p.S332S	ZNF814_uc002qqk.2_Intron|ZNF814_uc010yhl.1_Intron	NM_001144989	NP_001138461	B7Z6K7	ZN814_HUMAN	zinc finger protein 814	332	C2H2-type 5.				regulation of transcription, DNA-dependent	intracellular	nucleic acid binding|zinc ion binding				0						ATTTGCTAAACGATTTCCCAC	0.358000													2	2					0	0	0	0
PSME4	23198	broad.mit.edu	37	2	54120868	54120868	+	Silent	SNP	T	C	C			TCGA-BA-6873-01A-11D-1870-08	TCGA-BA-6873-10A-01D-1870-08									Somatic	Phase_I	Capture				Illumina GAIIx	f65b842c-257e-4ac7-a155-23d3ac12d41c	f976fe92-00c7-45c7-8acd-32cf2ae2e9e4	g.chr2:54120868T>C	uc002rxp.2	-	35	4037	c.3981A>G	c.(3979-3981)TCA>TCG	p.S1327S	PSME4_uc010yop.1_Silent_p.S1213S|PSME4_uc010yoq.1_RNA|PSME4_uc010fbu.1_Silent_p.S702S|PSME4_uc010fbv.1_Silent_p.S471S	NM_014614	NP_055429	Q14997	PSME4_HUMAN	proteasome (prosome, macropain) activator	1327					anaphase-promoting complex-dependent proteasomal ubiquitin-dependent protein catabolic process|apoptosis|cell differentiation|DNA damage response, signal transduction by p53 class mediator resulting in cell cycle arrest|M/G1 transition of mitotic cell cycle|mRNA metabolic process|multicellular organismal development|positive regulation of ubiquitin-protein ligase activity involved in mitotic cell cycle|regulation of apoptosis|regulation of cellular amino acid metabolic process|S phase of mitotic cell cycle|spermatogenesis|viral reproduction	nuclear speck|proteasome complex	binding			ovary(2)|breast(2)|pancreas(1)	5			Lung(47;0.125)|LUSC - Lung squamous cell carcinoma(58;0.181)			TGTCTTCTAATGATAGAAAAG	0.289000													8	30					0	0	0	0
TFCP2L1	29842	broad.mit.edu	37	2	121981961	121981961	+	Missense_Mutation	SNP	C	T	T			TCGA-BA-6873-01A-11D-1870-08	TCGA-BA-6873-10A-01D-1870-08									Somatic	Phase_I	Capture				Illumina GAIIx	f65b842c-257e-4ac7-a155-23d3ac12d41c	f976fe92-00c7-45c7-8acd-32cf2ae2e9e4	g.chr2:121981961C>T	uc002tmx.2	-	15	1489	c.1396G>A	c.(1396-1398)GAG>AAG	p.E466K	TFCP2L1_uc010flr.2_Missense_Mutation_p.E401K|TFCP2L1_uc010flq.2_RNA	NM_014553	NP_055368	Q9NZI6	TF2L1_HUMAN	LBP-9	466					female pregnancy|steroid biosynthetic process	mitochondrion|nucleolus	DNA binding|sequence-specific DNA binding transcription factor activity|transcription corepressor activity			pancreas(2)|ovary(1)	3	Renal(3;0.01)					TCATTGCTCTCAGCTGCAAGA	0.517000													17	32					0	0	0	0
LOC440905	440905	broad.mit.edu	37	2	130786002	130786002	+	RNA	SNP	G	A	A	rs34238944		TCGA-BA-6873-01A-11D-1870-08	TCGA-BA-6873-10A-01D-1870-08									Somatic	Phase_I	Capture				Illumina GAIIx	f65b842c-257e-4ac7-a155-23d3ac12d41c	f976fe92-00c7-45c7-8acd-32cf2ae2e9e4	g.chr2:130786002G>A	uc002tpz.2	-	11		c.2866C>T			LOC440905_uc002tpy.1_RNA	NR_026758				Homo sapiens cDNA FLJ43933 fis, clone TESTI4013685.												0						ATATGGCCTCGTCAAAGCTCT	0.468000													3	15					0	0	0	0
NCRNA00164	554226	broad.mit.edu	37	2	132905790	132905790	+	RNA	SNP	C	G	G			TCGA-BA-6873-01A-11D-1870-08	TCGA-BA-6873-10A-01D-1870-08									Somatic	Phase_I	Capture				Illumina GAIIx	f65b842c-257e-4ac7-a155-23d3ac12d41c	f976fe92-00c7-45c7-8acd-32cf2ae2e9e4	g.chr2:132905790C>G	uc002tti.3	-	7		c.1101G>C			NCRNA00164_uc002ttj.3_RNA	NR_027019				Homo sapiens non-protein coding RNA 164, mRNA (cDNA clone IMAGE:5169389), with apparent retained intron.												0						GGTGTTCCTTCAGATGTTCCT	0.443000													6	24					0	0	0	0
GPR155	151556	broad.mit.edu	37	2	175301127	175301127	+	Missense_Mutation	SNP	G	A	A			TCGA-BA-6873-01A-11D-1870-08	TCGA-BA-6873-10A-01D-1870-08									Somatic	Phase_I	Capture				Illumina GAIIx	f65b842c-257e-4ac7-a155-23d3ac12d41c	f976fe92-00c7-45c7-8acd-32cf2ae2e9e4	g.chr2:175301127G>A	uc002uit.2	-	17	2721	c.2330C>T	c.(2329-2331)TCT>TTT	p.S777F	GPR155_uc002uiu.2_Missense_Mutation_p.S777F|GPR155_uc002uiv.2_Missense_Mutation_p.S777F|GPR155_uc010fqs.2_Missense_Mutation_p.S749F	NM_001033045	NP_001028217	Q7Z3F1	GP155_HUMAN	G protein-coupled receptor 155 isoform 9	777	DEP.				intracellular signal transduction|transmembrane transport	integral to membrane				ovary(1)	1						AGTTCCAGCAGAAGTCTTTGC	0.473000													33	62					0	0	0	0
HOXD13	3239	broad.mit.edu	37	2	176958165	176958165	+	Missense_Mutation	SNP	G	T	T			TCGA-BA-6873-01A-11D-1870-08	TCGA-BA-6873-10A-01D-1870-08									Somatic	Phase_I	Capture				Illumina GAIIx	f65b842c-257e-4ac7-a155-23d3ac12d41c	f976fe92-00c7-45c7-8acd-32cf2ae2e9e4	g.chr2:176958165G>T	uc002ukf.1	+	1	634	c.547G>T	c.(547-549)GTG>TTG	p.V183L		NM_000523	NP_000514	P35453	HXD13_HUMAN	homeobox D13	183					skeletal system development|transcription from RNA polymerase II promoter	nucleus	sequence-specific DNA binding			lung(1)	1			OV - Ovarian serous cystadenocarcinoma(117;0.0207)|Epithelial(96;0.18)	Colorectal(32;0.0526)|READ - Rectum adenocarcinoma(9;0.0678)		GGCCAACGAGGTGCCAGCGCG	0.627000			T	NUP98	AML*								12	53					0.00010058	0.000104603	1	0
CASP8	841	broad.mit.edu	37	2	202131411	202131411	+	Nonsense_Mutation	SNP	C	T	T			TCGA-BA-6873-01A-11D-1870-08	TCGA-BA-6873-10A-01D-1870-08									Somatic	Phase_I	Capture				Illumina GAIIx	f65b842c-257e-4ac7-a155-23d3ac12d41c	f976fe92-00c7-45c7-8acd-32cf2ae2e9e4	g.chr2:202131411C>T	uc002uxr.1	+	3	411	c.202C>T	c.(202-204)CGA>TGA	p.R68*	CASP8_uc010ftc.1_Nonsense_Mutation_p.R68*|CASP8_uc002uxo.1_Nonsense_Mutation_p.R68*|CASP8_uc002uxp.1_Nonsense_Mutation_p.R68*|CASP8_uc002uxq.1_Nonsense_Mutation_p.R68*|CASP8_uc002uxs.1_Nonsense_Mutation_p.R68*|CASP8_uc002uxt.1_Nonsense_Mutation_p.R127*|CASP8_uc002uxu.1_RNA|CASP8_uc010ftd.1_Intron|CASP8_uc002uxv.1_Nonsense_Mutation_p.R68*|CASP8_uc002uxw.1_Nonsense_Mutation_p.R68*|CASP8_uc002uxy.1_Nonsense_Mutation_p.R68*|CASP8_uc002uxx.1_Nonsense_Mutation_p.R68*|CASP8_uc010ftf.2_Nonsense_Mutation_p.R68*	NM_033355	NP_203519	Q14790	CASP8_HUMAN	caspase 8 isoform B precursor	68	DED 1.				activation of caspase activity|activation of pro-apoptotic gene products|cellular component disassembly involved in apoptosis|cellular response to mechanical stimulus|induction of apoptosis by extracellular signals|induction of apoptosis by intracellular signals|positive regulation of I-kappaB kinase/NF-kappaB cascade|proteolysis involved in cellular protein catabolic process|response to tumor necrosis factor	centrosome|cytosol|mitochondrial outer membrane	cysteine-type endopeptidase activity|protein binding|protein binding			upper_aerodigestive_tract(2)|ovary(1)|breast(1)|skin(1)	5						GCTGCTCTTCCGAATTAATAG	0.453000										HNSCC(4;0.00038)			16	49					0	0	0	0
IDH1	3417	broad.mit.edu	37	2	209108281	209108281	+	Missense_Mutation	SNP	C	T	T			TCGA-BA-6873-01A-11D-1870-08	TCGA-BA-6873-10A-01D-1870-08									Somatic	Phase_I	Capture				Illumina GAIIx	f65b842c-257e-4ac7-a155-23d3ac12d41c	f976fe92-00c7-45c7-8acd-32cf2ae2e9e4	g.chr2:209108281C>T	uc002vcs.2	-	6	814	c.568G>A	c.(568-570)GAA>AAA	p.E190K	IDH1_uc002vct.2_Missense_Mutation_p.E190K|IDH1_uc002vcu.2_Missense_Mutation_p.E190K	NM_005896	NP_005887	O75874	IDHC_HUMAN	isocitrate dehydrogenase 1 (NADP+), soluble	190					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			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)		GCAAAATCTTCAATTGACTTA	0.408000			Mis		gliobastoma 								28	40					0	0	0	0
C20orf46	55321	broad.mit.edu	37	20	1161909	1161909	+	Silent	SNP	C	T	T	rs139413230		TCGA-BA-6873-01A-11D-1870-08	TCGA-BA-6873-10A-01D-1870-08									Somatic	Phase_I	Capture				Illumina GAIIx	f65b842c-257e-4ac7-a155-23d3ac12d41c	f976fe92-00c7-45c7-8acd-32cf2ae2e9e4	g.chr20:1161909C>T	uc010gaa.1	-	3	573	c.354G>A	c.(352-354)CCG>CCA	p.P118P	C20orf46_uc002weq.1_Silent_p.P118P	NM_018354	NP_060824	Q9NUR3	CT046_HUMAN	hypothetical protein LOC55321	118						integral to membrane	protein binding			ovary(1)	1						CATAATCCACCGGGCGGCTCA	0.627000													22	94					0	0	0	0
FRG1B	284802	broad.mit.edu	37	20	29625877	29625877	+	Missense_Mutation	SNP	G	A	A	rs7266938	by1000genomes	TCGA-BA-6873-01A-11D-1870-08	TCGA-BA-6873-10A-01D-1870-08									Somatic	Phase_I	Capture				Illumina GAIIx	f65b842c-257e-4ac7-a155-23d3ac12d41c	f976fe92-00c7-45c7-8acd-32cf2ae2e9e4	g.chr20:29625877G>A	uc010ztl.1	+	2	63	c.31G>A	c.(31-33)GCC>ACC	p.A11T	FRG1B_uc002wvm.1_RNA|FRG1B_uc010ztj.1_RNA|FRG1B_uc010gdr.1_RNA|FRG1B_uc010ztk.1_Intron					Homo sapiens cDNA FLJ32537 fis, clone SMINT2000400, highly similar to Homo sapiens FRG1 mRNA.												0						GTACAGAATCGCCCTGAAATC	0.353000													5	76					0	0	0	0
SPATA2	9825	broad.mit.edu	37	20	48524766	48524766	+	Missense_Mutation	SNP	C	A	A	rs150565930		TCGA-BA-6873-01A-11D-1870-08	TCGA-BA-6873-10A-01D-1870-08									Somatic	Phase_I	Capture				Illumina GAIIx	f65b842c-257e-4ac7-a155-23d3ac12d41c	f976fe92-00c7-45c7-8acd-32cf2ae2e9e4	g.chr20:48524766C>A	uc010gie.2	-	2	612	c.262G>T	c.(262-264)GCC>TCC	p.A88S	SPATA2_uc002xuw.2_Missense_Mutation_p.A88S|SPATA2_uc010zyn.1_Intron	NM_001135773	NP_001129245	Q9UM82	SPAT2_HUMAN	spermatogenesis associated 2	88					cell differentiation|multicellular organismal development|spermatogenesis	cytoplasm|nucleus				central_nervous_system(1)|skin(1)	2	Hepatocellular(150;0.133)		BRCA - Breast invasive adenocarcinoma(9;4.03e-06)			ATGCTGAAGGCGCCGTGCAGA	0.577000													46	98					3.21987e-24	3.56241e-24	1	0
SON	6651	broad.mit.edu	37	21	34922496	34922496	+	Missense_Mutation	SNP	C	G	G			TCGA-BA-6873-01A-11D-1870-08	TCGA-BA-6873-10A-01D-1870-08									Somatic	Phase_I	Capture				Illumina GAIIx	f65b842c-257e-4ac7-a155-23d3ac12d41c	f976fe92-00c7-45c7-8acd-32cf2ae2e9e4	g.chr21:34922496C>G	uc002yse.1	+	3	1008	c.959C>G	c.(958-960)CCA>CGA	p.P320R	SON_uc002ysb.1_Missense_Mutation_p.P320R|SON_uc002ysc.2_Missense_Mutation_p.P320R|SON_uc002ysd.2_5'UTR|SON_uc002ysf.1_Intron|SON_uc002ysg.2_5'Flank	NM_138927	NP_620305	P18583	SON_HUMAN	SON DNA-binding protein isoform F	320					anti-apoptosis|cytokinesis|mRNA processing|regulation of cell cycle|regulation of RNA splicing|RNA splicing|spindle pole body separation	nuclear speck	DNA binding|double-stranded RNA binding			ovary(4)|skin(2)	6						TACCCTGAGCCAAGCACATCA	0.468000											OREG0003564	type=REGULATORY REGION|Gene=AK074269|Dataset=Stanford ENCODE Dataset|EvidenceSubtype=Transient transfection luciferase assay	13	104					0	0	0	0
FAM3B	54097	broad.mit.edu	37	21	42710379	42710379	+	Missense_Mutation	SNP	A	G	G			TCGA-BA-6873-01A-11D-1870-08	TCGA-BA-6873-10A-01D-1870-08									Somatic	Phase_I	Capture				Illumina GAIIx	f65b842c-257e-4ac7-a155-23d3ac12d41c	f976fe92-00c7-45c7-8acd-32cf2ae2e9e4	g.chr21:42710379A>G	uc002yzb.1	+	3	384	c.238A>G	c.(238-240)AGC>GGC	p.S80G	FAM3B_uc002yza.2_RNA|FAM3B_uc002yzc.1_Missense_Mutation_p.S32G|FAM3B_uc002yzd.1_Missense_Mutation_p.S103G|FAM3B_uc011aeq.1_Missense_Mutation_p.S94G	NM_058186	NP_478066	P58499	FAM3B_HUMAN	family with sequence similarity 3, member B	80					apoptosis|insulin secretion	extracellular space	cytokine activity				0		Prostate(19;1.57e-07)|all_epithelial(19;0.0404)				CAGGTTACTCAGCGGAGGTGG	0.458000													4	123					0	0	0	0
COL6A1	1291	broad.mit.edu	37	21	47409674	47409674	+	Silent	SNP	A	G	G			TCGA-BA-6873-01A-11D-1870-08	TCGA-BA-6873-10A-01D-1870-08									Somatic	Phase_I	Capture				Illumina GAIIx	f65b842c-257e-4ac7-a155-23d3ac12d41c	f976fe92-00c7-45c7-8acd-32cf2ae2e9e4	g.chr21:47409674A>G	uc002zhu.1	+	11	1014	c.912A>G	c.(910-912)AAA>AAG	p.K304K		NM_001848	NP_001839	P12109	CO6A1_HUMAN	collagen, type VI, alpha 1 precursor	304	Triple-helical region.				axon guidance|cell adhesion|protein heterotrimerization	collagen type VI|protein complex	platelet-derived growth factor binding			ovary(1)	1	all_hematologic(128;0.24)			Colorectal(79;0.0265)|READ - Rectum adenocarcinoma(84;0.0649)	Palifermin(DB00039)	AGGGAGAAAAAGGGAGCCGTG	0.637000													3	115					0	0	0	0
SFI1	9814	broad.mit.edu	37	22	31979944	31979944	+	Silent	SNP	C	G	G			TCGA-BA-6873-01A-11D-1870-08	TCGA-BA-6873-10A-01D-1870-08									Somatic	Phase_I	Capture				Illumina GAIIx	f65b842c-257e-4ac7-a155-23d3ac12d41c	f976fe92-00c7-45c7-8acd-32cf2ae2e9e4	g.chr22:31979944C>G	uc003ale.2	+	13	1725	c.1332C>G	c.(1330-1332)GCC>GCG	p.A444A	SFI1_uc003ald.1_Silent_p.A420A|SFI1_uc003alf.2_Silent_p.A413A|SFI1_uc003alg.2_Silent_p.A362A|SFI1_uc011alp.1_Silent_p.A362A|SFI1_uc011alq.1_Silent_p.A389A|SFI1_uc003alh.2_RNA|SFI1_uc010gwi.2_RNA	NM_001007467	NP_001007468	A8K8P3	SFI1_HUMAN	spindle assembly associated Sfi1 homolog isoform	444					G2/M transition of mitotic cell cycle	centriole|cytosol				central_nervous_system(1)	1						TGCATGCTGCCTGGGACCACT	0.517000													62	123					0	0	0	0
TNRC6B	23112	broad.mit.edu	37	22	40669448	40669448	+	Silent	SNP	C	T	T			TCGA-BA-6873-01A-11D-1870-08	TCGA-BA-6873-10A-01D-1870-08									Somatic	Phase_I	Capture				Illumina GAIIx	f65b842c-257e-4ac7-a155-23d3ac12d41c	f976fe92-00c7-45c7-8acd-32cf2ae2e9e4	g.chr22:40669448C>T	uc011aor.1	+	7	3196	c.2985C>T	c.(2983-2985)GAC>GAT	p.D995D	TNRC6B_uc003aym.2_Silent_p.D248D|TNRC6B_uc003ayn.3_Silent_p.D942D|TNRC6B_uc003ayo.2_Silent_p.D799D	NM_001162501	NP_001155973	Q9UPQ9	TNR6B_HUMAN	trinucleotide repeat containing 6B isoform 1	995					gene silencing by RNA|regulation of translation	cytoplasmic mRNA processing body	nucleotide binding|RNA binding				0						CTATGCAAGACGGCTGGGGGG	0.483000													5	6					0	0	0	0
PANX2	56666	broad.mit.edu	37	22	50615649	50615649	+	Missense_Mutation	SNP	G	A	A			TCGA-BA-6873-01A-11D-1870-08	TCGA-BA-6873-10A-01D-1870-08									Somatic	Phase_I	Capture				Illumina GAIIx	f65b842c-257e-4ac7-a155-23d3ac12d41c	f976fe92-00c7-45c7-8acd-32cf2ae2e9e4	g.chr22:50615649G>A	uc003bjn.3	+	2	508	c.508G>A	c.(508-510)GAG>AAG	p.E170K	PANX2_uc003bjp.3_Missense_Mutation_p.E36K|PANX2_uc003bjo.3_Missense_Mutation_p.E170K	NM_052839	NP_443071	Q96RD6	PANX2_HUMAN	pannexin 2 isoform 1	170	Cytoplasmic (Potential).				protein hexamerization|synaptic transmission	gap junction|integral to membrane	gap junction hemi-channel activity|ion channel activity			breast(1)	1		all_cancers(38;1.14e-10)|all_epithelial(38;2.12e-09)|all_lung(38;7.01e-05)|Breast(42;0.000523)|Lung NSC(38;0.0018)|Ovarian(80;0.0365)|Lung SC(80;0.113)		LUAD - Lung adenocarcinoma(64;0.105)		CCGGGCGGCCGAGGGCCGCGC	0.662000													4	10					0	0	0	0
ITPR1	3708	broad.mit.edu	37	3	4725969	4725969	+	Missense_Mutation	SNP	G	A	A			TCGA-BA-6873-01A-11D-1870-08	TCGA-BA-6873-10A-01D-1870-08									Somatic	Phase_I	Capture				Illumina GAIIx	f65b842c-257e-4ac7-a155-23d3ac12d41c	f976fe92-00c7-45c7-8acd-32cf2ae2e9e4	g.chr3:4725969G>A	uc003bqa.2	+	29	3824	c.3476G>A	c.(3475-3477)GGA>GAA	p.G1159E	ITPR1_uc010hca.1_Missense_Mutation_p.G1144E|ITPR1_uc011asu.1_Intron|ITPR1_uc003bqc.2_Missense_Mutation_p.G90E	NM_001099952	NP_001093422	Q14643	ITPR1_HUMAN	inositol 1,4,5-triphosphate receptor, type 1	1168	Cytoplasmic (Potential).				activation of phospholipase C activity|cell death|energy reserve metabolic process|nerve growth factor receptor signaling pathway|platelet activation|regulation of insulin secretion|response to hypoxia	endoplasmic reticulum membrane|integral to membrane|platelet dense granule membrane|platelet dense tubular network membrane	calcium ion transmembrane transporter activity|inositol 1,4,5-trisphosphate-sensitive calcium-release channel activity|intracellular ligand-gated calcium channel activity|phosphatidylinositol binding|protein binding			lung(7)|breast(5)|ovary(4)|large_intestine(1)|liver(1)|skin(1)|kidney(1)|pancreas(1)	21				Epithelial(13;0.0199)|OV - Ovarian serous cystadenocarcinoma(96;0.0361)|all cancers(10;0.0982)		TTCTAGGAGGGAAATAACAAG	0.433000													3	14					0	0	0	0
LRRFIP2	9209	broad.mit.edu	37	3	37095356	37095356	+	Missense_Mutation	SNP	G	C	C			TCGA-BA-6873-01A-11D-1870-08	TCGA-BA-6873-10A-01D-1870-08									Somatic	Phase_I	Capture				Illumina GAIIx	f65b842c-257e-4ac7-a155-23d3ac12d41c	f976fe92-00c7-45c7-8acd-32cf2ae2e9e4	g.chr3:37095356G>C	uc003cgp.2	-	29	2575	c.2152C>G	c.(2152-2154)CTG>GTG	p.L718V	MLH1_uc011aye.1_Intron|LRRFIP2_uc011ayf.1_Missense_Mutation_p.L500V|LRRFIP2_uc003cgr.2_Missense_Mutation_p.L421V|LRRFIP2_uc003cgs.3_Missense_Mutation_p.L421V|LRRFIP2_uc003cgt.3_Missense_Mutation_p.L397V	NM_006309	NP_006300	Q9Y608	LRRF2_HUMAN	leucine rich repeat (in FLII) interacting	718					Wnt receptor signaling pathway		LRR domain binding			ovary(1)	1						TGCTGGGCCAGAAGTGCTGTC	0.532000													36	77					0	0	0	0
KIAA1524	57650	broad.mit.edu	37	3	108288376	108288376	+	Missense_Mutation	SNP	G	T	T			TCGA-BA-6873-01A-11D-1870-08	TCGA-BA-6873-10A-01D-1870-08									Somatic	Phase_I	Capture				Illumina GAIIx	f65b842c-257e-4ac7-a155-23d3ac12d41c	f976fe92-00c7-45c7-8acd-32cf2ae2e9e4	g.chr3:108288376G>T	uc003dxb.3	-	9	1242	c.973C>A	c.(973-975)CCA>ACA	p.P325T	KIAA1524_uc010hpv.1_5'Flank|KIAA1524_uc003dxc.1_Missense_Mutation_p.P166T|KIAA1524_uc010hpw.1_Missense_Mutation_p.P166T	NM_020890	NP_065941	Q8TCG1	CIP2A_HUMAN	p90 autoantigen	325						cytoplasm|integral to membrane	protein binding			ovary(2)|central_nervous_system(1)	3						CTGCCAGGTGGAGACTGTTCA	0.458000													6	25					1.06961e-07	1.1351e-07	1	0
PLSCR4	57088	broad.mit.edu	37	3	145912935	145912935	+	Missense_Mutation	SNP	C	T	T			TCGA-BA-6873-01A-11D-1870-08	TCGA-BA-6873-10A-01D-1870-08									Somatic	Phase_I	Capture				Illumina GAIIx	f65b842c-257e-4ac7-a155-23d3ac12d41c	f976fe92-00c7-45c7-8acd-32cf2ae2e9e4	g.chr3:145912935C>T	uc010huy.2	-	8	1250	c.921G>A	c.(919-921)ATG>ATA	p.M307I	PLSCR4_uc010huz.2_Missense_Mutation_p.M307I|PLSCR4_uc003evt.3_Missense_Mutation_p.M307I|PLSCR4_uc010hva.2_Missense_Mutation_p.M217I|PLSCR4_uc003evu.3_Missense_Mutation_p.M202I	NM_001128305	NP_001121777	Q9NRQ2	PLS4_HUMAN	phospholipid scramblase 4 isoform a	307	Helical; (Potential).				blood coagulation|phospholipid scrambling	integral to membrane	calcium ion binding|phospholipid scramblase activity|SH3 domain binding				0						CTCCAAAAATCATGGCTTTCA	0.353000													6	49					0	0	0	0
MED12L	116931	broad.mit.edu	37	3	151082800	151082800	+	Silent	SNP	T	C	C			TCGA-BA-6873-01A-11D-1870-08	TCGA-BA-6873-10A-01D-1870-08									Somatic	Phase_I	Capture				Illumina GAIIx	f65b842c-257e-4ac7-a155-23d3ac12d41c	f976fe92-00c7-45c7-8acd-32cf2ae2e9e4	g.chr3:151082800T>C	uc003eyp.2	+	20	2924	c.2886T>C	c.(2884-2886)TAT>TAC	p.Y962Y	MED12L_uc011bnz.1_Silent_p.Y822Y|P2RY12_uc011boa.1_Intron|P2RY12_uc003eyx.1_Intron|MED12L_uc003eyy.1_Silent_p.Y125Y	NM_053002	NP_443728	Q86YW9	MD12L_HUMAN	mediator of RNA polymerase II transcription,	962					regulation of transcription from RNA polymerase II promoter|transcription, DNA-dependent	mediator complex				ovary(4)|large_intestine(1)|central_nervous_system(1)|skin(1)	7			LUSC - Lung squamous cell carcinoma(72;0.0394)|Lung(72;0.0517)			AAACCATATATAATAACGTGA	0.353000													68	246					0	0	0	0
ENPEP	2028	broad.mit.edu	37	4	111441470	111441470	+	Missense_Mutation	SNP	C	T	T			TCGA-BA-6873-01A-11D-1870-08	TCGA-BA-6873-10A-01D-1870-08									Somatic	Phase_I	Capture				Illumina GAIIx	f65b842c-257e-4ac7-a155-23d3ac12d41c	f976fe92-00c7-45c7-8acd-32cf2ae2e9e4	g.chr4:111441470C>T	uc003iab.3	+	10	2017	c.1675C>T	c.(1675-1677)CGC>TGC	p.R559C		NM_001977	NP_001968	Q07075	AMPE_HUMAN	glutamyl aminopeptidase	559	Extracellular (Potential).				cell migration|cell proliferation|cell-cell signaling|proteolysis	integral to plasma membrane	aminopeptidase activity|metalloexopeptidase activity|zinc ion binding			skin(3)|ovary(1)|breast(1)	5		Hepatocellular(203;0.217)		OV - Ovarian serous cystadenocarcinoma(123;0.0031)	L-Glutamic Acid(DB00142)	CACACAGAAACGCTTTTTGTT	0.448000													34	30					0	0	0	0
FAT1	2195	broad.mit.edu	37	4	187539564	187539564	+	Nonsense_Mutation	SNP	G	A	A			TCGA-BA-6873-01A-11D-1870-08	TCGA-BA-6873-10A-01D-1870-08									Somatic	Phase_I	Capture				Illumina GAIIx	f65b842c-257e-4ac7-a155-23d3ac12d41c	f976fe92-00c7-45c7-8acd-32cf2ae2e9e4	g.chr4:187539564G>A	uc003izf.2	-	10	8364	c.8176C>T	c.(8176-8178)CGA>TGA	p.R2726*		NM_005245	NP_005236	Q14517	FAT1_HUMAN	FAT tumor suppressor 1 precursor	2726	Extracellular (Potential).|Cadherin 25.				actin filament organization|anatomical structure morphogenesis|cell migration|cell-cell signaling|establishment or maintenance of cell polarity|homophilic cell adhesion	cell-cell junction|integral to plasma membrane|nucleus|perinuclear region of cytoplasm	calcium ion binding|protein binding			ovary(10)|central_nervous_system(1)|pancreas(1)	12						TGTTCTGCTCGGATGAGATCT	0.453000										HNSCC(5;0.00058)			70	65					0	0	0	0
CEP72	55722	broad.mit.edu	37	5	637680	637680	+	Nonsense_Mutation	SNP	C	G	G			TCGA-BA-6873-01A-11D-1870-08	TCGA-BA-6873-10A-01D-1870-08									Somatic	Phase_I	Capture				Illumina GAIIx	f65b842c-257e-4ac7-a155-23d3ac12d41c	f976fe92-00c7-45c7-8acd-32cf2ae2e9e4	g.chr5:637680C>G	uc003jbf.2	+	7	1025	c.953C>G	c.(952-954)TCA>TGA	p.S318*	CEP72_uc011clz.1_RNA	NM_018140	NP_060610	Q9P209	CEP72_HUMAN	centrosomal protein 72 kDa	318					G2/M transition of mitotic cell cycle|gamma-tubulin complex localization|spindle organization	centrosome|cytosol				ovary(1)	1			Epithelial(17;0.000339)|all cancers(22;0.00137)|OV - Ovarian serous cystadenocarcinoma(19;0.00153)|Lung(60;0.0863)			TTGGATTTGTCAGGAGAAATG	0.552000													15	108					0	0	0	0
DHX29	54505	broad.mit.edu	37	5	54603304	54603304	+	Missense_Mutation	SNP	G	A	A			TCGA-BA-6873-01A-11D-1870-08	TCGA-BA-6873-10A-01D-1870-08									Somatic	Phase_I	Capture				Illumina GAIIx	f65b842c-257e-4ac7-a155-23d3ac12d41c	f976fe92-00c7-45c7-8acd-32cf2ae2e9e4	g.chr5:54603304G>A	uc003jpx.2	-	1	218	c.98C>T	c.(97-99)GCC>GTC	p.A33V	SKIV2L2_uc003jpy.3_5'Flank|SKIV2L2_uc011cqi.1_5'Flank|DHX29_uc010ivw.2_RNA	NM_019030	NP_061903	Q7Z478	DHX29_HUMAN	DEAH (Asp-Glu-Ala-His) box polypeptide 29	33	Ala-rich.						ATP binding|ATP-dependent helicase activity|translation initiation factor activity			ovary(2)|central_nervous_system(1)|skin(1)	4		Lung NSC(810;4.08e-05)|Breast(144;0.0544)|Prostate(74;0.183)				GGCCTCCCCGGCAATTCCAGC	0.662000													41	157					0	0	0	0
Unknown	0	broad.mit.edu	37	5	79655242	79655242	+	Missense_Mutation	SNP	C	T	T			TCGA-BA-6873-01A-11D-1870-08	TCGA-BA-6873-10A-01D-1870-08									Somatic	Phase_I	Capture				Illumina GAIIx	f65b842c-257e-4ac7-a155-23d3ac12d41c	f976fe92-00c7-45c7-8acd-32cf2ae2e9e4	g.chr5:79655242C>T	uc003kgo.2	-	1	666	c.503G>A	c.(502-504)CGT>CAT	p.R168H						SubName: Full=Putative uncharacterized protein; Flags: Fragment;																		accacctccacgaccaccacc	0.214000													4	42					0	0	0	0
KIF4B	285643	broad.mit.edu	37	5	154394891	154394891	+	Missense_Mutation	SNP	C	T	T			TCGA-BA-6873-01A-11D-1870-08	TCGA-BA-6873-10A-01D-1870-08									Somatic	Phase_I	Capture				Illumina GAIIx	f65b842c-257e-4ac7-a155-23d3ac12d41c	f976fe92-00c7-45c7-8acd-32cf2ae2e9e4	g.chr5:154394891C>T	uc010jih.1	+	1	1632	c.1472C>T	c.(1471-1473)GCG>GTG	p.A491V		NM_001099293	NP_001092763	Q2VIQ3	KIF4B_HUMAN	kinesin family member 4B	491	Potential.				axon guidance|blood coagulation|microtubule-based movement	cytosol|microtubule|nuclear matrix	ATP binding|DNA binding|microtubule motor activity			ovary(1)	1	Renal(175;0.00488)	Medulloblastoma(196;0.0523)	KIRC - Kidney renal clear cell carcinoma(527;0.00112)			ATTGATACTGCGGTAGAAGAA	0.443000													16	114					0	0	0	0
ZNF454	285676	broad.mit.edu	37	5	178369801	178369801	+	Silent	SNP	C	A	A			TCGA-BA-6873-01A-11D-1870-08	TCGA-BA-6873-10A-01D-1870-08									Somatic	Phase_I	Capture				Illumina GAIIx	f65b842c-257e-4ac7-a155-23d3ac12d41c	f976fe92-00c7-45c7-8acd-32cf2ae2e9e4	g.chr5:178369801C>A	uc003mjo.1	+	2	280	c.9C>A	c.(7-9)GTC>GTA	p.V3V	ZNF454_uc010jkz.1_Silent_p.V3V|ZNF454_uc003mjp.2_Missense_Mutation_p.Q39K	NM_182594	NP_872400	Q8N9F8	ZN454_HUMAN	zinc finger protein 454	3					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(2)|lung(1)	3	all_cancers(89;0.000904)|Renal(175;0.000159)|all_epithelial(37;0.000167)|Lung NSC(126;0.00199)|all_lung(126;0.00351)	all_cancers(40;0.225)|all_neural(177;0.00802)|Medulloblastoma(196;0.0145)|all_hematologic(541;0.248)	Kidney(164;2.23e-05)|KIRC - Kidney renal clear cell carcinoma(164;0.000178)	all cancers(165;0.234)		GAATGGCTGTCAGCCACCTGC	0.537000													7	65					5.18039e-06	5.44203e-06	1	0
BTNL8	79908	broad.mit.edu	37	5	180335650	180335650	+	Missense_Mutation	SNP	C	A	A			TCGA-BA-6873-01A-11D-1870-08	TCGA-BA-6873-10A-01D-1870-08									Somatic	Phase_I	Capture				Illumina GAIIx	f65b842c-257e-4ac7-a155-23d3ac12d41c	f976fe92-00c7-45c7-8acd-32cf2ae2e9e4	g.chr5:180335650C>A	uc003mmp.2	+	2	348	c.114C>A	c.(112-114)TTC>TTA	p.F38L	BTNL8_uc003mmq.2_Missense_Mutation_p.F38L|BTNL8_uc011dhg.1_Intron|BTNL8_uc010jll.2_Missense_Mutation_p.F38L|BTNL8_uc010jlm.2_Intron|BTNL8_uc011dhh.1_5'Flank	NM_001040462	NP_001035552	Q6UX41	BTNL8_HUMAN	butyrophilin-like 8 isoform 2 precursor	38	Extracellular (Potential).|Ig-like V-type 1.					integral to membrane				upper_aerodigestive_tract(1)|skin(1)	2	all_cancers(89;3.37e-05)|all_epithelial(37;3.77e-06)|Renal(175;0.000159)|Lung NSC(126;0.00211)|all_lung(126;0.00371)|Breast(19;0.114)	all_cancers(40;0.0801)|Medulloblastoma(196;0.0392)|all_neural(177;0.0529)|all_hematologic(541;0.191)	Kidney(164;2.23e-05)|KIRC - Kidney renal clear cell carcinoma(164;0.000178)			ACGCAGCATTCTCCTGTTTCC	0.552000													37	70					2.47872e-24	2.77191e-24	1	0
RREB1	6239	broad.mit.edu	37	6	7230732	7230732	+	Silent	SNP	G	A	A			TCGA-BA-6873-01A-11D-1870-08	TCGA-BA-6873-10A-01D-1870-08									Somatic	Phase_I	Capture				Illumina GAIIx	f65b842c-257e-4ac7-a155-23d3ac12d41c	f976fe92-00c7-45c7-8acd-32cf2ae2e9e4	g.chr6:7230732G>A	uc003mxc.2	+	10	2790	c.2400G>A	c.(2398-2400)GCG>GCA	p.A800A	RREB1_uc003mxb.2_Silent_p.A800A|RREB1_uc010jnx.2_Silent_p.A800A	NM_001003698	NP_001003698	Q92766	RREB1_HUMAN	ras responsive element binding protein 1 isoform	800	C2H2-type 11.				multicellular organismal development|positive regulation of transcription, DNA-dependent|Ras protein signal transduction|transcription from RNA polymerase II promoter	cytoplasm|nuclear speck	DNA binding|zinc ion binding			ovary(4)|large_intestine(2)|pancreas(2)|skin(2)|breast(1)	11	Ovarian(93;0.0398)	all_hematologic(90;0.0384)|Prostate(151;0.191)				CCGCGTTCGCGGCCAAGCGCA	0.711000													4	19					0	0	0	0
TAAR2	9287	broad.mit.edu	37	6	132938773	132938773	+	Missense_Mutation	SNP	T	G	G			TCGA-BA-6873-01A-11D-1870-08	TCGA-BA-6873-10A-01D-1870-08									Somatic	Phase_I	Capture				Illumina GAIIx	f65b842c-257e-4ac7-a155-23d3ac12d41c	f976fe92-00c7-45c7-8acd-32cf2ae2e9e4	g.chr6:132938773T>G	uc003qdl.1	-	2	572	c.572A>C	c.(571-573)TAT>TCT	p.Y191S	TAAR2_uc010kfr.1_Missense_Mutation_p.Y146S	NM_001033080	NP_001028252	Q9P1P5	TAAR2_HUMAN	trace amine associated receptor 2 isoform 1	191	Extracellular (Potential).					plasma membrane	G-protein coupled receptor activity			ovary(1)	1	Breast(56;0.135)			OV - Ovarian serous cystadenocarcinoma(155;0.00608)|GBM - Glioblastoma multiforme(226;0.0151)		CAAGATGTCATAGCCCTCTAT	0.493000													8	80					0	0	0	0
ABCA13	154664	broad.mit.edu	37	7	48314202	48314202	+	Missense_Mutation	SNP	C	T	T			TCGA-BA-6873-01A-11D-1870-08	TCGA-BA-6873-10A-01D-1870-08									Somatic	Phase_I	Capture				Illumina GAIIx	f65b842c-257e-4ac7-a155-23d3ac12d41c	f976fe92-00c7-45c7-8acd-32cf2ae2e9e4	g.chr7:48314202C>T	uc003toq.2	+	17	4964	c.4939C>T	c.(4939-4941)CAT>TAT	p.H1647Y	ABCA13_uc010kyr.2_Missense_Mutation_p.H1150Y	NM_152701	NP_689914	Q86UQ4	ABCAD_HUMAN	ATP binding cassette, sub-family A (ABC1),	1647					transport	integral to membrane	ATP binding|ATPase activity			ovary(5)|central_nervous_system(4)|skin(1)	10						GCCTGTAGTTCATCACACTAG	0.373000													60	137					0	0	0	0
WBSCR17	64409	broad.mit.edu	37	7	70885987	70885987	+	Missense_Mutation	SNP	G	T	T			TCGA-BA-6873-01A-11D-1870-08	TCGA-BA-6873-10A-01D-1870-08									Somatic	Phase_I	Capture				Illumina GAIIx	f65b842c-257e-4ac7-a155-23d3ac12d41c	f976fe92-00c7-45c7-8acd-32cf2ae2e9e4	g.chr7:70885987G>T	uc003tvy.2	+	5	858	c.858G>T	c.(856-858)CAG>CAT	p.Q286H	WBSCR17_uc003tvz.2_5'UTR	NM_022479	NP_071924	Q6IS24	GLTL3_HUMAN	UDP-GalNAc:polypeptide	286	Lumenal (Potential).					Golgi membrane|integral to membrane	polypeptide N-acetylgalactosaminyltransferase activity|sugar binding			skin(3)|upper_aerodigestive_tract(1)|ovary(1)|pancreas(1)|central_nervous_system(1)	7		all_cancers(73;0.2)|Lung NSC(55;0.094)|all_lung(88;0.125)				TTGAGGTGCAGCGGTACGAGA	0.582000													37	133					1.90571e-15	2.06452e-15	1	0
PCLO	27445	broad.mit.edu	37	7	82785646	82785646	+	Missense_Mutation	SNP	C	T	T			TCGA-BA-6873-01A-11D-1870-08	TCGA-BA-6873-10A-01D-1870-08									Somatic	Phase_I	Capture				Illumina GAIIx	f65b842c-257e-4ac7-a155-23d3ac12d41c	f976fe92-00c7-45c7-8acd-32cf2ae2e9e4	g.chr7:82785646C>T	uc003uhx.2	-	2	600	c.311G>A	c.(310-312)CGT>CAT	p.R104H	PCLO_uc003uhv.2_Missense_Mutation_p.R104H	NM_033026	NP_149015	Q9Y6V0	PCLO_HUMAN	piccolo isoform 1	104					cytoskeleton organization|synaptic vesicle exocytosis	cell junction|cytoskeleton|synaptic vesicle	calcium ion binding|calcium-dependent phospholipid binding|profilin binding|transporter activity			ovary(7)	7						TTGAGCTGGACGCCCAGGGTC	0.428000													9	43					0	0	0	0
CSMD1	64478	broad.mit.edu	37	8	3565950	3565950	+	Missense_Mutation	SNP	T	C	C			TCGA-BA-6873-01A-11D-1870-08	TCGA-BA-6873-10A-01D-1870-08									Somatic	Phase_I	Capture				Illumina GAIIx	f65b842c-257e-4ac7-a155-23d3ac12d41c	f976fe92-00c7-45c7-8acd-32cf2ae2e9e4	g.chr8:3565950T>C	uc011kwk.1	-	7	1385	c.995A>G	c.(994-996)CAT>CGT	p.H332R		NM_033225	NP_150094	Q96PZ7	CSMD1_HUMAN	CUB and Sushi multiple domains 1 precursor	332	Extracellular (Potential).					integral to membrane				breast(20)|large_intestine(5)	25		all_cancers(1;5.7e-41)|all_epithelial(1;2.54e-36)|Lung NSC(1;7.54e-11)|all_lung(1;3.2e-10)|Hepatocellular(1;3.78e-05)|Breast(1;0.000196)|Myeloproliferative disorder(4;0.000374)|Esophageal squamous(1;0.0157)|Ovarian(12;0.091)|Renal(68;0.144)|Colorectal(14;0.234)		all cancers(1;5.03e-41)|Epithelial(1;4.78e-31)|Lung(1;1.14e-14)|LUSC - Lung squamous cell carcinoma(1;2.34e-14)|GBM - Glioblastoma multiforme(1;4.49e-10)|Colorectal(4;1.18e-07)|OV - Ovarian serous cystadenocarcinoma(1;3.2e-07)|BRCA - Breast invasive adenocarcinoma(1;6.17e-07)|COAD - Colon adenocarcinoma(4;0.000539)|READ - Rectum adenocarcinoma(4;0.00896)|Kidney(5;0.00957)|KIRC - Kidney renal clear cell carcinoma(5;0.0689)		AGAGTTTTTATGGCTTCCATC	0.463000													18	32					0	0	0	0
TTPA	7274	broad.mit.edu	37	8	63973923	63973923	+	Missense_Mutation	SNP	G	A	A			TCGA-BA-6873-01A-11D-1870-08	TCGA-BA-6873-10A-01D-1870-08									Somatic	Phase_I	Capture				Illumina GAIIx	f65b842c-257e-4ac7-a155-23d3ac12d41c	f976fe92-00c7-45c7-8acd-32cf2ae2e9e4	g.chr8:63973923G>A	uc003xux.1	-	5	757	c.725C>T	c.(724-726)CCT>CTT	p.P242L		NM_000370	NP_000361	P49638	TTPA_HUMAN	tocopherol (alpha) transfer protein	242	CRAL-TRIO.				lipid metabolic process		transporter activity|vitamin E binding				0	Breast(64;0.0716)	all_cancers(86;0.145)|Lung NSC(129;0.0324)|all_lung(136;0.0593)|all_epithelial(80;0.123)			Vitamin E(DB00163)	ATATTCCAGAGGAAGAATGTC	0.393000													8	74					0	0	0	0
CDKN2A	1029	broad.mit.edu	37	9	21971120	21971120	+	Nonsense_Mutation	SNP	G	A	A	rs121913388		TCGA-BA-6873-01A-11D-1870-08	TCGA-BA-6873-10A-01D-1870-08									Somatic	Phase_I	Capture				Illumina GAIIx	f65b842c-257e-4ac7-a155-23d3ac12d41c	f976fe92-00c7-45c7-8acd-32cf2ae2e9e4	g.chr9:21971120G>A	uc003zpk.2	-	2	450	c.238C>T	c.(238-240)CGA>TGA	p.R80*	MTAP_uc003zpi.1_Intron|CDKN2A_uc003zpj.2_3'UTR|CDKN2A_uc010miu.2_RNA|CDKN2A_uc003zpl.2_Missense_Mutation_p.P135L	NM_000077	NP_000068	P42771	CD2A1_HUMAN	cyclin-dependent kinase inhibitor 2A isoform 1	80	ANK 3.		R -> P (in CMM2; loss of CDK4 binding).|R -> L (in a head and neck tumor).		cell cycle arrest|cell cycle checkpoint|G1 phase of mitotic cell cycle|G1/S transition of mitotic cell cycle|induction of apoptosis|negative regulation of cell growth|negative regulation of cell proliferation|negative regulation of cell-matrix adhesion|negative regulation of cyclin-dependent protein kinase activity|negative regulation of NF-kappaB transcription factor activity|positive regulation of macrophage apoptosis|positive regulation of smooth muscle cell apoptosis|Ras protein signal transduction|replicative senescence	cytosol|nucleus	cyclin-dependent protein kinase inhibitor activity|NF-kappaB binding|protein binding|protein binding|protein kinase binding	p.0?(1112)|p.R80*(88)|p.?(13)|p.R80Q(2)|p.P135L(2)|p.T79fs*37(1)|p.L65fs*38(1)|p.R80fs*66(1)|p.A76fs*64(1)|p.T79fs*65(1)|p.E61_L94del(1)|p.A68fs*3(1)|p.R80fs*34(1)|p.R80?(1)|p.R80L(1)		haematopoietic_and_lymphoid_tissue(647)|skin(419)|upper_aerodigestive_tract(414)|central_nervous_system(381)|lung(325)|pancreas(244)|oesophagus(230)|urinary_tract(225)|pleura(94)|liver(91)|soft_tissue(79)|bone(77)|ovary(76)|biliary_tract(71)|stomach(46)|breast(46)|kidney(39)|NS(28)|thyroid(24)|cervix(23)|meninges(18)|genital_tract(15)|endometrium(13)|prostate(11)|autonomic_ganglia(10)|salivary_gland(10)|large_intestine(9)|adrenal_gland(6)|eye(4)|vulva(2)|small_intestine(1)	3678		all_cancers(5;0)|Acute lymphoblastic leukemia(3;0)|all_hematologic(3;0)|all_epithelial(2;2.37e-290)|Lung NSC(2;1.26e-139)|all_lung(2;4.48e-131)|Glioma(2;3.26e-60)|all_neural(2;2.1e-52)|Renal(3;1.07e-46)|Esophageal squamous(3;3.83e-46)|Melanoma(2;2.74e-34)|Breast(3;1.14e-11)|Ovarian(3;0.000128)|Hepatocellular(5;0.00162)|Colorectal(97;0.172)		all cancers(2;0)|GBM - Glioblastoma multiforme(3;0)|Lung(2;4.07e-74)|Epithelial(2;1.08e-61)|LUSC - Lung squamous cell carcinoma(2;3.82e-48)|LUAD - Lung adenocarcinoma(2;4.56e-26)|OV - Ovarian serous cystadenocarcinoma(39;7.64e-10)|BRCA - Breast invasive adenocarcinoma(2;5.01e-09)|STAD - Stomach adenocarcinoma(4;4.63e-07)|Kidney(2;5.79e-07)|KIRC - Kidney renal clear cell carcinoma(2;7.27e-07)|COAD - Colon adenocarcinoma(8;5.15e-05)		TGCACGGGTCGGGTGAGAGTG	0.726000	R80*(MEWO_SKIN)|R80*(HSC4_UPPER_AERODIGESTIVE_TRACT)	17							Uveal_Melanoma_Familial|Familial_Malignant_Melanoma_and_Tumors_of_the_Nervous_System|Hereditary_Melanoma	HNSCC(2;<9.43e_08)|TSP Lung(5;3.83e-07)			24	8					0	0	0	0
OR13C8	138802	broad.mit.edu	37	9	107332319	107332319	+	Missense_Mutation	SNP	C	A	A			TCGA-BA-6873-01A-11D-1870-08	TCGA-BA-6873-10A-01D-1870-08									Somatic	Phase_I	Capture				Illumina GAIIx	f65b842c-257e-4ac7-a155-23d3ac12d41c	f976fe92-00c7-45c7-8acd-32cf2ae2e9e4	g.chr9:107332319C>A	uc011lvo.1	+	1	871	c.871C>A	c.(871-873)CTT>ATT	p.L291I		NM_001004483	NP_001004483	Q8NGS7	O13C8_HUMAN	olfactory receptor, family 13, subfamily C,	291	Helical; Name=7; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)|skin(1)	2						GACTCCCATGCTTAATCCTCT	0.408000													20	68					8.04996e-18	8.81258e-18	1	0
FRMPD4	9758	broad.mit.edu	37	X	12736856	12736856	+	Missense_Mutation	SNP	T	G	G			TCGA-BA-6873-01A-11D-1870-08	TCGA-BA-6873-10A-01D-1870-08									Somatic	Phase_I	Capture				Illumina GAIIx	f65b842c-257e-4ac7-a155-23d3ac12d41c	f976fe92-00c7-45c7-8acd-32cf2ae2e9e4	g.chrX:12736856T>G	uc004cuz.1	+	16	4417	c.3911T>G	c.(3910-3912)TTT>TGT	p.F1304C	FRMPD4_uc011mij.1_Missense_Mutation_p.F1296C	NM_014728	NP_055543	Q14CM0	FRPD4_HUMAN	FERM and PDZ domain containing 4	1304					positive regulation of synapse structural plasticity	cytoskeleton|dendritic spine	phosphatidylinositol-4,5-bisphosphate binding|protein binding			central_nervous_system(5)|ovary(3)|skin(2)|large_intestine(1)|lung(1)|pancreas(1)	13						GAACCCCTGTTTGGCACATTG	0.507000													72	67					0	0	0	0
CACNA1F	778	broad.mit.edu	37	X	49089767	49089767	+	Missense_Mutation	SNP	G	A	A			TCGA-BA-6873-01A-11D-1870-08	TCGA-BA-6873-10A-01D-1870-08									Somatic	Phase_I	Capture				Illumina GAIIx	f65b842c-257e-4ac7-a155-23d3ac12d41c	f976fe92-00c7-45c7-8acd-32cf2ae2e9e4	g.chrX:49089767G>A	uc004dnb.2	-	1	67	c.5C>T	c.(4-6)TCG>TTG	p.S2L	CACNA1F_uc010nip.2_Missense_Mutation_p.S2L|CCDC22_uc011mna.1_5'Flank|CCDC22_uc004dnc.1_5'Flank|CCDC22_uc004dnd.1_5'Flank	NM_005183	NP_005174	O60840	CAC1F_HUMAN	calcium channel, voltage-dependent, L type,	2	Cytoplasmic (Potential).				axon guidance|detection of light stimulus involved in visual perception	voltage-gated calcium channel complex	protein binding|voltage-gated calcium channel activity			breast(3)|ovary(1)|kidney(1)|skin(1)	6					Verapamil(DB00661)	TTCAGATTCCGACATCTTTCT	0.577000													23	13					0	0	0	0
MAST2	23139	broad.mit.edu	37	1	46494559	46494559	+	Frame_Shift_Del	DEL	T	-	-			TCGA-BA-6873-01A-11D-1870-08	TCGA-BA-6873-10A-01D-1870-08									Somatic	Phase_I	Capture				Illumina GAIIx	f65b842c-257e-4ac7-a155-23d3ac12d41c	f976fe92-00c7-45c7-8acd-32cf2ae2e9e4	g.chr1:46494559delT	uc001cov.2	+	18	2455	c.2172delT	c.(2170-2172)CCTfs	p.P724fs	MAST2_uc001cow.2_Frame_Shift_Del_p.P724fs|MAST2_uc001coy.1_Frame_Shift_Del_p.P398fs|MAST2_uc001coz.1_Frame_Shift_Del_p.P609fs|MAST2_uc001cpa.2_RNA	NM_015112	NP_055927	Q6P0Q8	MAST2_HUMAN	microtubule associated serine/threonine kinase	724	Protein kinase.				regulation of interleukin-12 biosynthetic process|spermatid differentiation	cytoplasm|cytoskeleton|plasma membrane	ATP binding|magnesium ion binding|phosphatase binding|protein serine/threonine kinase activity			ovary(5)|lung(3)|stomach(2)|breast(1)	11	Acute lymphoblastic leukemia(166;0.155)|Lung SC(450;0.184)					GCTGCGTCCCTTTTTTTGGAG	0.552													---	---	---							
Unknown	0	broad.mit.edu	37	10	86535366	86535366	+	IGR	DEL	T	-	-	rs71013354		TCGA-BA-6873-01A-11D-1870-08	TCGA-BA-6873-10A-01D-1870-08									Somatic	Phase_I	Capture				Illumina GAIIx	f65b842c-257e-4ac7-a155-23d3ac12d41c	f976fe92-00c7-45c7-8acd-32cf2ae2e9e4	g.chr10:86535366delT								FAM190B (257090 upstream) : GRID1 (823946 downstream)																							tttctttttcttttttttttt	0.000													---	---	---							
ADRBK1	156	broad.mit.edu	37	11	67044804	67044804	+	Frame_Shift_Del	DEL	T	-	-			TCGA-BA-6873-01A-11D-1870-08	TCGA-BA-6873-10A-01D-1870-08									Somatic	Phase_I	Capture				Illumina GAIIx	f65b842c-257e-4ac7-a155-23d3ac12d41c	f976fe92-00c7-45c7-8acd-32cf2ae2e9e4	g.chr11:67044804delT	uc009yrn.1	+	2	441	c.175delT	c.(175-177)TTTfs	p.F59fs	ADRBK1_uc009yrm.1_Frame_Shift_Del_p.F59fs	NM_001619	NP_001610	P25098	ARBK1_HUMAN	beta-adrenergic receptor kinase 1	59	RGS.|N-terminal.				activation of phospholipase C activity|cardiac muscle contraction|desensitization of G-protein coupled receptor protein signaling pathway|muscarinic acetylcholine receptor signaling pathway|negative regulation of striated muscle contraction|negative regulation of the force of heart contraction by chemical signal|nerve growth factor receptor signaling pathway|peptidyl-serine phosphorylation|positive regulation of catecholamine secretion|tachykinin receptor signaling pathway	cytosol|soluble fraction	alpha-2A adrenergic receptor binding|ATP binding|beta-adrenergic receptor kinase activity|Edg-2 lysophosphatidic acid receptor binding|G-protein coupled receptor kinase activity|signal transducer activity			large_intestine(1)	1			BRCA - Breast invasive adenocarcinoma(15;2.26e-06)		Adenosine triphosphate(DB00171)	TGAGAAGATCTTTTCCCAGAA	0.607													---	---	---							
LCAT	3931	broad.mit.edu	37	16	67974104	67974112	+	In_Frame_Del	DEL	GCCCACGCC	-	-	rs112299487		TCGA-BA-6873-01A-11D-1870-08	TCGA-BA-6873-10A-01D-1870-08									Somatic	Phase_I	Capture				Illumina GAIIx	f65b842c-257e-4ac7-a155-23d3ac12d41c	f976fe92-00c7-45c7-8acd-32cf2ae2e9e4	g.chr16:67974104_67974112delGCCCACGCC	uc002euy.1	-	6	1029_1037	c.1018_1026delGGCGTGGGC	c.(1018-1026)GGCGTGGGCdel	p.GVG340del		NM_000229	NP_000220	P04180	LCAT_HUMAN	lecithin-cholesterol acyltransferase precursor	340_342					cholesterol esterification|cholesterol homeostasis|cholesterol metabolic process|high-density lipoprotein particle remodeling|phosphatidylcholine biosynthetic process|reverse cholesterol transport|very-low-density lipoprotein particle remodeling	high-density lipoprotein particle	apolipoprotein A-I binding|phosphatidylcholine-sterol O-acyltransferase activity				0		Ovarian(137;0.0563)		OV - Ovarian serous cystadenocarcinoma(108;0.00418)|Epithelial(162;0.0183)|all cancers(182;0.12)		GCGTGGGCAGGCCCACGCCGTAAAGACAG	0.608													---	---	---							
NFAT5	10725	broad.mit.edu	37	16	69727514	69727515	+	Frame_Shift_Del	DEL	CT	-	-	rs148486602		TCGA-BA-6873-01A-11D-1870-08	TCGA-BA-6873-10A-01D-1870-08									Somatic	Phase_I	Capture				Illumina GAIIx	f65b842c-257e-4ac7-a155-23d3ac12d41c	f976fe92-00c7-45c7-8acd-32cf2ae2e9e4	g.chr16:69727514_69727515delCT	uc002exm.1	+	12	4940_4941	c.3732_3733delCT	c.(3730-3735)AACTCTfs	p.N1244fs	NFAT5_uc002exi.2_Frame_Shift_Del_p.N1168fs|NFAT5_uc002exj.1_Frame_Shift_Del_p.N1168fs|NFAT5_uc002exk.1_Frame_Shift_Del_p.N1168fs|NFAT5_uc002exl.1_Frame_Shift_Del_p.N1262fs|NFAT5_uc002exn.1_Frame_Shift_Del_p.N1261fs|NFAT5_uc002exo.1_RNA	NM_006599	NP_006590	O94916	NFAT5_HUMAN	nuclear factor of activated T-cells 5 isoform c	1244_1245					excretion|signal transduction|transcription from RNA polymerase II promoter	nucleus	DNA binding|sequence-specific DNA binding transcription factor activity				0						TGCAGAGTAACTCTCCATCCCA	0.361													---	---	---							
TP53	7157	broad.mit.edu	37	17	7578384	7578401	+	In_Frame_Del	DEL	GCAGCGCTCATGGTGGGG	-	-	rs138525931	by1000genomes	TCGA-BA-6873-01A-11D-1870-08	TCGA-BA-6873-10A-01D-1870-08									Somatic	Phase_I	Capture				Illumina GAIIx	f65b842c-257e-4ac7-a155-23d3ac12d41c	f976fe92-00c7-45c7-8acd-32cf2ae2e9e4	g.chr17:7578384_7578401delGCAGCGCTCATGGTGGGG	uc002gim.2	-	5	723_740	c.529_546delCCCCACCATGAGCGCTGC	c.(529-546)CCCCACCATGAGCGCTGCdel	p.PHHERC177del	TP53_uc002gig.1_In_Frame_Del_p.PHHERC177del|TP53_uc002gih.2_In_Frame_Del_p.PHHERC177del|TP53_uc010cne.1_5'Flank|TP53_uc010cnf.1_In_Frame_Del_p.PHHERC45del|TP53_uc010cng.1_In_Frame_Del_p.PHHERC45del|TP53_uc002gii.1_In_Frame_Del_p.PHHERC45del|TP53_uc010cnh.1_In_Frame_Del_p.PHHERC177del|TP53_uc010cni.1_In_Frame_Del_p.PHHERC177del|TP53_uc002gij.2_In_Frame_Del_p.PHHERC177del|TP53_uc010cnj.1_RNA|TP53_uc002gin.2_In_Frame_Del_p.PHHERC84del|TP53_uc002gio.2_In_Frame_Del_p.PHHERC45del|TP53_uc010vug.1_In_Frame_Del_p.PHHERC138del	NM_001126112	NP_001119584	P04637	P53_HUMAN	tumor protein p53 isoform a	177_182	Required for interaction with FBXO42.||Interaction with HIPK1 (By similarity).|Interaction with AXIN1 (By similarity).		C -> R (in sporadic cancers; somatic mutation).|C -> S (in sporadic cancers; somatic mutation).|C -> Y (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.H179R(98)|p.H179Y(74)|p.H179L(31)|p.R181H(20)|p.H179Q(17)|p.P177L(17)|p.P177R(15)|p.R181P(14)|p.H179N(13)|p.E180*(13)|p.R181C(13)|p.H178fs*69(10)|p.H179D(10)|p.P177P(10)|p.H178Y(8)|p.P177_C182delPHHERC(8)|p.P177S(8)|p.C182S(8)|p.0?(7)|p.H178P(6)|p.E180K(5)|p.H178fs*3(5)|p.H178Q(5)|p.C182*(5)|p.H178D(4)|p.C176_R181delCPHHER(3)|p.H179P(3)|p.H178N(3)|p.P177H(3)|p.E180D(3)|p.R175_E180delRCPHHE(3)|p.R181L(3)|p.R174fs*24(3)|p.H179fs*68(2)|p.H179H(2)|p.R174fs*1(2)|p.H178H(2)|p.P177fs*3(2)|p.C182Y(2)|p.C182C(2)|p.C182R(2)|p.R181R(2)|p.V173fs*59(2)|p.V173fs*69(1)|p.R175_H178>X(1)|p.E180G(1)|p.E180fs*67(1)|p.E180Q(1)|p.R174fs*70(1)|p.E171_H179delEVVRRCPHH(1)|p.H178fs*6(1)|p.H178L(1)|p.R174fs*3(1)|p.V172_E180delVVRRCPHHE(1)|p.R174_H179delRRCPHH(1)|p.E171fs*1(1)|p.H179del(1)|p.P177fs*4(1)|p.H168fs*69(1)|p.E180>DGRCPHQ(1)|p.H178del(1)|p.P177I(1)|p.E180_S183del(1)|p.P177T(1)|p.K164_P219del(1)|p.R49P(1)|p.E171fs*61(1)|p.V173fs*23(1)|p.C176_P177delCP(1)|p.P177fs*69(1)|p.R42fs*24(1)|p.R88P(1)|p.C182fs*4(1)|p.R174_E180>K(1)|p.P177_E180delPHHE(1)|p.C182fs*65(1)|p.C176fs*65(1)|p.R181G(1)|p.C176fs*68(1)|p.R174_H178>S(1)|p.R181>XXXXXXX(1)|p.H178_H179>QY(1)|p.?(1)|p.R81fs*24(1)|p.P177_H179delPHH(1)|p.E180fs*6(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)		CGCTATCTGAGCAGCGCTCATGGTGGGGGCAGCGCCTC	0.638		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)			---	---	---							
Unknown	0	broad.mit.edu	37	17	10750142	10750143	+	IGR	INS	-	GGT	GGT	rs147945880	by1000genomes	TCGA-BA-6873-01A-11D-1870-08	TCGA-BA-6873-10A-01D-1870-08									Somatic	Phase_I	Capture				Illumina GAIIx	f65b842c-257e-4ac7-a155-23d3ac12d41c	f976fe92-00c7-45c7-8acd-32cf2ae2e9e4	g.chr17:10750142_10750143insGGT								PIRT (8724 upstream) : SHISA6 (394597 downstream)																							gagatggaggcggtggtggtgg	0.000													---	---	---							
CCDC144A	9720	broad.mit.edu	37	17	16631037	16631038	+	Frame_Shift_Del	DEL	AG	-	-			TCGA-BA-6873-01A-11D-1870-08	TCGA-BA-6873-10A-01D-1870-08									Somatic	Phase_I	Capture				Illumina GAIIx	f65b842c-257e-4ac7-a155-23d3ac12d41c	f976fe92-00c7-45c7-8acd-32cf2ae2e9e4	g.chr17:16631037_16631038delAG	uc002gqk.1	+	9	2164_2165	c.2088_2089delAG	c.(2086-2091)AAAGAGfs	p.K696fs	CCDC144A_uc002gql.1_Frame_Shift_Del_p.K166fs|LOC162632_uc010cpj.1_RNA	NM_014695	NP_055510	A2RUR9	C144A_HUMAN	coiled-coil domain containing 144A	696_697	Potential.										0						AATGGGAGAAAGAGCTGTACGA	0.302													---	---	---							
Unknown	0	broad.mit.edu	37	22	16909977	16909981	+	IGR	DEL	CAAAA	-	-	rs111736616		TCGA-BA-6873-01A-11D-1870-08	TCGA-BA-6873-10A-01D-1870-08									Somatic	Phase_I	Capture				Illumina GAIIx	f65b842c-257e-4ac7-a155-23d3ac12d41c	f976fe92-00c7-45c7-8acd-32cf2ae2e9e4	g.chr22:16909977_16909981delCAAAA								OR11H1 (460173 upstream) : CCT8L2 (161667 downstream)																							ATGGCTCTGTCAAAATAAACAAAAT	0.322													---	---	---							
PARP14	54625	broad.mit.edu	37	3	122418601	122418602	+	Frame_Shift_Ins	INS	-	A	A			TCGA-BA-6873-01A-11D-1870-08	TCGA-BA-6873-10A-01D-1870-08									Somatic	Phase_I	Capture				Illumina GAIIx	f65b842c-257e-4ac7-a155-23d3ac12d41c	f976fe92-00c7-45c7-8acd-32cf2ae2e9e4	g.chr3:122418601_122418602insA	uc003efq.3	+	6	1259_1260	c.1200_1201insA	c.(1198-1203)GTCAACfs	p.V400fs	PARP14_uc010hrk.2_RNA|PARP14_uc003efr.2_Frame_Shift_Ins_p.V117fs|PARP14_uc003efs.1_Frame_Shift_Ins_p.V117fs	NM_017554	NP_060024	Q460N5	PAR14_HUMAN	poly (ADP-ribose) polymerase family, member 14	400_401					regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasm|nucleus|plasma membrane	NAD+ ADP-ribosyltransferase activity			ovary(2)|breast(2)|lung(1)|pancreas(1)	6				GBM - Glioblastoma multiforme(114;0.0531)		AATATAAAGTCAACCCAATTAA	0.406													---	---	---							
Unknown	0	broad.mit.edu	37	6	25261990	25261990	+	5'Flank	DEL	A	-	-	rs150117437		TCGA-BA-6873-01A-11D-1870-08	TCGA-BA-6873-10A-01D-1870-08									Somatic	Phase_I	Capture				Illumina GAIIx	f65b842c-257e-4ac7-a155-23d3ac12d41c	f976fe92-00c7-45c7-8acd-32cf2ae2e9e4	g.chr6:25261990delA	uc003nex.3	-											Homo sapiens cDNA clone IMAGE:5297808.																		TGGACtatttaaaaaaaaaaa	0.179													---	---	---							
NOTCH1	4851	broad.mit.edu	37	9	139412704	139412704	+	Frame_Shift_Del	DEL	G	-	-			TCGA-BA-6873-01A-11D-1870-08	TCGA-BA-6873-10A-01D-1870-08									Somatic	Phase_I	Capture				Illumina GAIIx	f65b842c-257e-4ac7-a155-23d3ac12d41c	f976fe92-00c7-45c7-8acd-32cf2ae2e9e4	g.chr9:139412704delG	uc004chz.2	-	7	1140	c.1140delC	c.(1138-1140)CCCfs	p.P380fs		NM_017617	NP_060087	P46531	NOTC1_HUMAN	notch1 preproprotein	380	Extracellular (Potential).|EGF-like 10.				aortic valve morphogenesis|immune response|negative regulation of BMP signaling pathway|negative regulation of cell-substrate adhesion|negative regulation of myoblast differentiation|negative regulation of osteoblast differentiation|negative regulation of transcription, DNA-dependent|Notch receptor processing	cytosol|endoplasmic reticulum lumen|extracellular region|Golgi lumen|integral to membrane|nucleoplasm|plasma membrane	calcium ion binding|protein binding|receptor activity			haematopoietic_and_lymphoid_tissue(791)|upper_aerodigestive_tract(29)|lung(13)|central_nervous_system(10)|breast(9)|large_intestine(1)|skin(1)|oesophagus(1)|pancreas(1)	856	all_cancers(76;0.223)	Myeloproliferative disorder(178;0.0511)		OV - Ovarian serous cystadenocarcinoma(145;5.34e-06)|Epithelial(140;7.77e-06)		CCTCGTTACAGGGGTTGCTGA	0.677			T|Mis|O	TRB@	T-ALL					HNSCC(8;0.001)			---	---	---							
