Hugo_Symbol	Entrez_Gene_Id	Center	NCBI_Build	Chromosome	Start_position	End_position	Strand	Variant_Classification	Variant_Type	Reference_Allele	Tumor_Seq_Allele1	Tumor_Seq_Allele2	dbSNP_RS	dbSNP_Val_Status	Tumor_Sample_Barcode	Matched_Norm_Sample_Barcode	Match_Norm_Seq_Allele1	Match_Norm_Seq_Allele2	Tumor_Validation_Allele1	Tumor_Validation_Allele2	Match_Norm_Validation_Allele1	Match_Norm_Validation_Allele2	Verification_Status	Validation_Status	Mutation_Status	Sequencing_Phase	Sequence_Source	Validation_Method	Score	BAM_file	Sequencer	Tumor_Sample_UUID	Matched_Norm_Sample_UUID	Genome_Change	Annotation_Transcript	Transcript_Strand	Transcript_Exon	Transcript_Position	cDNA_Change	Codon_Change	Protein_Change	Other_Transcripts	Refseq_mRNA_Id	Refseq_prot_Id	SwissProt_acc_Id	SwissProt_entry_Id	Description	UniProt_AApos	UniProt_Region	UniProt_Site	UniProt_Natural_Variations	UniProt_Experimental_Info	GO_Biological_Process	GO_Cellular_Component	GO_Molecular_Function	COSMIC_overlapping_mutations	COSMIC_fusion_genes	COSMIC_tissue_types_affected	COSMIC_total_alterations_in_gene	Tumorscape_Amplification_Peaks	Tumorscape_Deletion_Peaks	TCGAscape_Amplification_Peaks	TCGAscape_Deletion_Peaks	DrugBank	ref_context	gc_content	CCLE_ONCOMAP_overlapping_mutations	CCLE_ONCOMAP_total_mutations_in_gene	CGC_Mutation_Type	CGC_Translocation_Partner	CGC_Tumor_Types_Somatic	CGC_Tumor_Types_Germline	CGC_Other_Diseases	DNARepairGenes_Role	FamilialCancerDatabase_Syndromes	MUTSIG_Published_Results	OREGANNO_ID	OREGANNO_Values	t_alt_count	t_ref_count	validation_status	validation_method	validation_tumor_sample	validation_alt_allele	pox	qox	pox_cutoff	isArtifactMode	oxoGCut
TRIM33	51592	broad.mit.edu	37	1	114968295	114968295	+	Missense_Mutation	SNP	C	T	T			TCGA-HT-7880-01A-11D-2395-08	TCGA-HT-7880-10A-01D-2396-08									Somatic	Phase_I	Capture				Illumina GAIIx	a061c9f4-52fe-4b46-8e9f-0fcc76dbc1c8	8838112e-a2bd-4211-b5f9-990637c86c8c	g.chr1:114968295C>T	uc001eew.2	-	9	1555	c.1471G>A	c.(1471-1473)GTA>ATA	p.V491I	TRIM33_uc010owr.1_Intron|TRIM33_uc010ows.1_Missense_Mutation_p.V99I|TRIM33_uc001eex.2_Missense_Mutation_p.V491I	NM_015906	NP_056990	Q9UPN9	TRI33_HUMAN	tripartite motif-containing 33 protein isoform	491					negative regulation of BMP signaling pathway|negative regulation of transcription, DNA-dependent|protein ubiquitination|regulation of transforming growth factor beta receptor signaling pathway|transcription, DNA-dependent	nucleus	co-SMAD binding|DNA binding|ligase activity|R-SMAD binding|zinc ion binding			lung(4)|central_nervous_system(3)|large_intestine(1)|breast(1)|skin(1)|ovary(1)	11	all_epithelial(7;0.000132)|all_lung(7;0.00106)|Lung SC(450;0.184)	all_cancers(81;3.03e-08)|all_epithelial(167;3.24e-08)|all_lung(203;9.97e-06)|Lung NSC(69;1.74e-05)		Lung(183;0.0234)|Colorectal(144;0.0686)|COAD - Colon adenocarcinoma(174;0.111)|all cancers(265;0.112)|Epithelial(280;0.124)|LUSC - Lung squamous cell carcinoma(189;0.133)		TGCCCAACTACAACATTAGGA	0.368000			T	RET	papillary thyroid								14	141					0	0	1	0	0
PTPN14	5784	broad.mit.edu	37	1	214557534	214557534	+	Missense_Mutation	SNP	G	A	A			TCGA-HT-7880-01A-11D-2395-08	TCGA-HT-7880-10A-01D-2396-08									Somatic	Phase_I	Capture				Illumina GAIIx	a061c9f4-52fe-4b46-8e9f-0fcc76dbc1c8	8838112e-a2bd-4211-b5f9-990637c86c8c	g.chr1:214557534G>A	uc001hkk.1	-	13	1935	c.1664C>T	c.(1663-1665)ACG>ATG	p.T555M	PTPN14_uc010pty.1_Missense_Mutation_p.T456M	NM_005401	NP_005392	Q15678	PTN14_HUMAN	protein tyrosine phosphatase, non-receptor type	555					lymphangiogenesis	cytoplasm|cytoskeleton	protein tyrosine phosphatase activity|receptor tyrosine kinase binding			breast(2)|ovary(1)|kidney(1)|skin(1)	5				OV - Ovarian serous cystadenocarcinoma(81;0.00181)|all cancers(67;0.00194)|Epithelial(68;0.0157)|GBM - Glioblastoma multiforme(131;0.155)		CATGTGGGCCGTGCTGTAGTT	0.637000													9	121					0	0	1	0	0
LOC100130331	100130331	broad.mit.edu	37	1	238090615	238090615	+	RNA	SNP	T	C	C	rs2790341	byFrequency	TCGA-HT-7880-01A-11D-2395-08	TCGA-HT-7880-10A-01D-2396-08									Somatic	Phase_I	Capture				Illumina GAIIx	a061c9f4-52fe-4b46-8e9f-0fcc76dbc1c8	8838112e-a2bd-4211-b5f9-990637c86c8c	g.chr1:238090615T>C	uc010pyc.1	+	12		c.2121T>C				NR_027247				Homo sapiens mRNA; cDNA DKFZp434B2115 (from clone DKFZp434B2115).												0						TCAGGGTCACTCACACGGTGC	0.622000													4	42					0	0	1	0	0
LOC650368	650368	broad.mit.edu	37	11	3427845	3427845	+	RNA	SNP	C	T	T			TCGA-HT-7880-01A-11D-2395-08	TCGA-HT-7880-10A-01D-2396-08									Somatic	Phase_I	Capture				Illumina GAIIx	a061c9f4-52fe-4b46-8e9f-0fcc76dbc1c8	8838112e-a2bd-4211-b5f9-990637c86c8c	g.chr11:3427845C>T	uc010qxs.1	+	9		c.838C>T			LOC650368_uc001lxx.2_RNA|LOC650368_uc001lxy.2_RNA	NR_024248				Homo sapiens cDNA FLJ41654 fis, clone FEBRA2025463, weakly  similar to Homo sapiens HMT-1 mRNA for beta-1,4 mannosyltransferase.												0						CTTCAAGTGGCAGGAGCAGAA	0.587000													5	49					0	0	1	0	0
RPL13AP20	387841	broad.mit.edu	37	12	13028751	13028751	+	Missense_Mutation	SNP	G	C	C			TCGA-HT-7880-01A-11D-2395-08	TCGA-HT-7880-10A-01D-2396-08									Somatic	Phase_I	Capture				Illumina GAIIx	a061c9f4-52fe-4b46-8e9f-0fcc76dbc1c8	8838112e-a2bd-4211-b5f9-990637c86c8c	g.chr12:13028751G>C	uc010sho.1	+	1	341	c.319G>C	c.(319-321)GGC>CGC	p.G107R		NR_003932				SubName: Full=Ribosomal protein L13a variant; Flags: Fragment;												0						GGTGTTTGACGGCATCCCACC	0.612000													3	18					0	0	1	0	0
FAH	2184	broad.mit.edu	37	15	80452128	80452128	+	Nonsense_Mutation	SNP	C	T	T			TCGA-HT-7880-01A-11D-2395-08	TCGA-HT-7880-10A-01D-2396-08									Somatic	Phase_I	Capture				Illumina GAIIx	a061c9f4-52fe-4b46-8e9f-0fcc76dbc1c8	8838112e-a2bd-4211-b5f9-990637c86c8c	g.chr15:80452128C>T	uc002bfj.2	+	4	305	c.223C>T	c.(223-225)CAG>TAG	p.Q75*	FAH_uc002bfk.1_Nonsense_Mutation_p.Q75*|FAH_uc002bfm.1_Nonsense_Mutation_p.Q75*|FAH_uc002bfn.1_Nonsense_Mutation_p.Q5*|FAH_uc010unl.1_Nonsense_Mutation_p.Q75*|FAH_uc002bfl.1_Nonsense_Mutation_p.Q75*	NM_000137	NP_000128	P16930	FAAA_HUMAN	fumarylacetoacetase	75					L-phenylalanine catabolic process|tyrosine catabolic process	cytosol	fumarylacetoacetase activity|metal ion binding				0						GGGCCTGGGTCAGGCTGCCTG	0.527000									Tyrosinemia_type_1				7	118					0	0	1	0	0
TP53	7157	broad.mit.edu	37	17	7577545	7577545	+	Missense_Mutation	SNP	T	C	C			TCGA-HT-7880-01A-11D-2395-08	TCGA-HT-7880-10A-01D-2396-08									Somatic	Phase_I	Capture				Illumina GAIIx	a061c9f4-52fe-4b46-8e9f-0fcc76dbc1c8	8838112e-a2bd-4211-b5f9-990637c86c8c	g.chr17:7577545T>C	uc002gim.2	-	7	930	c.736A>G	c.(736-738)ATG>GTG	p.M246V	TP53_uc002gig.1_Missense_Mutation_p.M246V|TP53_uc002gih.2_Missense_Mutation_p.M246V|TP53_uc010cne.1_5'Flank|TP53_uc010cnf.1_Missense_Mutation_p.M114V|TP53_uc010cng.1_Missense_Mutation_p.M114V|TP53_uc002gii.1_Missense_Mutation_p.M114V|TP53_uc010cnh.1_Missense_Mutation_p.M246V|TP53_uc010cni.1_Missense_Mutation_p.M246V|TP53_uc002gij.2_Missense_Mutation_p.M246V|TP53_uc010cnj.1_RNA|TP53_uc002gin.2_Missense_Mutation_p.M153V|TP53_uc002gio.2_Missense_Mutation_p.M114V	NM_001126112	NP_001119584	P04637	P53_HUMAN	tumor protein p53 isoform a	246	|Interaction with HIPK1 (By similarity).|Interacts with the 53BP2 SH3 domain.|Interaction with AXIN1 (By similarity).		M -> R (in sporadic cancers; somatic mutation).|M -> K (in sporadic cancers; somatic mutation).|M -> T (in sporadic cancers; somatic mutation).|M -> L (in sporadic cancers; somatic mutation).|M -> I (in sporadic cancers; somatic mutation).|M -> V (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.M246V(28)|p.M246I(24)|p.M246R(10)|p.M246K(8)|p.0?(7)|p.M246T(6)|p.M246L(2)|p.M246fs*1(2)|p.M246_P250delMNRRP(2)|p.G244fs*17(1)|p.C242fs*98(1)|p.G245fs*17(1)|p.C242_M246>L(1)|p.C238_M246delCNSSCMGGM(1)|p.G245fs*14(1)|p.G245fs*16(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)		CTCCGGTTCATGCCGCCCATG	0.577000		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)			9	91					0	0	1	0	0
KCNS3	3790	broad.mit.edu	37	2	18112215	18112215	+	Splice_Site	SNP	A	T	T			TCGA-HT-7880-01A-11D-2395-08	TCGA-HT-7880-10A-01D-2396-08									Somatic	Phase_I	Capture				Illumina GAIIx	a061c9f4-52fe-4b46-8e9f-0fcc76dbc1c8	8838112e-a2bd-4211-b5f9-990637c86c8c	g.chr2:18112215A>T	uc002rcv.2	+	3	393	c.-58_splice	c.e3-2		KCNS3_uc002rcw.2_Splice_Site	NM_002252	NP_002243	Q9BQ31	KCNS3_HUMAN	potassium voltage-gated channel						energy reserve metabolic process|regulation of insulin secretion	Golgi apparatus|voltage-gated potassium channel complex	delayed rectifier potassium channel activity|potassium channel regulator activity			ovary(4)	4	Acute lymphoblastic leukemia(172;0.155)|all_hematologic(175;0.158)					TGCTCTTTCCAGGTGCAGCCT	0.502000													4	48					0	0	1	0	0
WASH2P	375260	broad.mit.edu	37	2	114355998	114355998	+	Missense_Mutation	SNP	C	G	G			TCGA-HT-7880-01A-11D-2395-08	TCGA-HT-7880-10A-01D-2396-08									Somatic	Phase_I	Capture				Illumina GAIIx	a061c9f4-52fe-4b46-8e9f-0fcc76dbc1c8	8838112e-a2bd-4211-b5f9-990637c86c8c	g.chr2:114355998C>G	uc002tkh.2	+	5	674	c.616C>G	c.(616-618)CAC>GAC	p.H206D	WASH2P_uc002tka.2_RNA|WASH2P_uc002tkb.2_RNA|WASH2P_uc002tkd.2_RNA	NM_182905	NP_878908			WAS protein family homolog 1												0						CCAAGGTGGGCACTTGATGTC	0.612000													3	12					0	0	1	0	0
IDH1	3417	broad.mit.edu	37	2	209113112	209113112	+	Missense_Mutation	SNP	C	T	T	rs121913500		TCGA-HT-7880-01A-11D-2395-08	TCGA-HT-7880-10A-01D-2396-08									Somatic	Phase_I	Capture				Illumina GAIIx	a061c9f4-52fe-4b46-8e9f-0fcc76dbc1c8	8838112e-a2bd-4211-b5f9-990637c86c8c	g.chr2:209113112C>T	uc002vcs.2	-	4	641	c.395G>A	c.(394-396)CGT>CAT	p.R132H	IDH1_uc002vct.2_Missense_Mutation_p.R132H|IDH1_uc002vcu.2_Missense_Mutation_p.R132H	NM_005896	NP_005887	O75874	IDHC_HUMAN	isocitrate dehydrogenase 1 (NADP+), soluble	132		Substrate.	R -> G (in a glioma sample; glioblastoma multiforme; somatic mutation).|R -> L (in a glioma sample; glioblastoma multiforme; somatic mutation; abolishes magnesium binding and alters enzyme activity so that isocitrate is no longer converted to alpha-ketoglutarate but instead alpha-ketoglutarate is converted to R(-)-2-hydroxyglutarate).|R -> S (in a glioma sample; glioblastoma multiforme; somatic mutation; abolishes magnesium binding and alters enzyme activity so that isocitrate is no longer converted to alpha-ketoglutarate but instead alpha-ketoglutarate is converted to R(-)-2-hydroxyglutarate).|R -> H (in a glioma sample; glioblastoma multiforme; somatic mutation; abolishes magnesium binding and alters enzyme activity so that isocitrate is no longer converted to alpha-ketoglutarate but instead alpha-ketoglutarate is converted to R(-)-2-hydroxyglutarate).|R -> C (in colorectal cancer and glioma samples; glioblastoma multiforme; somatic mutation; abolishes magnesium binding and alters enzyme activity so that isocitrate is no longer converted to alpha- ketoglutarate but instead alpha- ketoglutarate is converted to R(-)-2- hydroxyglutarate).		2-oxoglutarate metabolic process|cellular lipid metabolic process|glyoxylate cycle|isocitrate metabolic process|NADPH regeneration|tricarboxylic acid cycle	cytosol|peroxisomal matrix	isocitrate dehydrogenase (NADP+) activity|magnesium ion binding|NAD binding|protein homodimerization activity	p.R132H(2023)|p.R132C(344)|p.R132?(210)|p.R132G(117)|p.R132S(79)|p.R132L(58)|p.R132V(1)|p.G131_R132>VL(1)		central_nervous_system(2156)|haematopoietic_and_lymphoid_tissue(606)|bone(74)|thyroid(22)|large_intestine(4)|skin(2)|prostate(2)|autonomic_ganglia(1)|soft_tissue(1)	2868				Epithelial(149;0.0322)|LUSC - Lung squamous cell carcinoma(261;0.0711)|Lung(261;0.136)		ATAAGCATGACGACCTATGAT	0.393000			Mis		gliobastoma 								23	66					0	0	1	0	0
OSBPL10	114884	broad.mit.edu	37	3	31710198	31710198	+	Missense_Mutation	SNP	T	C	C			TCGA-HT-7880-01A-11D-2395-08	TCGA-HT-7880-10A-01D-2396-08									Somatic	Phase_I	Capture				Illumina GAIIx	a061c9f4-52fe-4b46-8e9f-0fcc76dbc1c8	8838112e-a2bd-4211-b5f9-990637c86c8c	g.chr3:31710198T>C	uc003cev.2	-	11	2413	c.2032A>G	c.(2032-2034)ACC>GCC	p.T678A	OSBPL10_uc003ceu.1_Missense_Mutation_p.T435A|OSBPL10_uc011axf.1_Missense_Mutation_p.T614A	NM_017784	NP_060254	Q9BXB5	OSB10_HUMAN	oxysterol-binding protein-like protein 10	678					lipid transport		lipid binding			skin(1)	1				STAD - Stomach adenocarcinoma(1;0.00406)		GGCAGTGTGGTTGTGTCGATG	0.493000													12	112					0	0	1	0	0
SRP19	6728	broad.mit.edu	37	5	112227799	112227799	+	Missense_Mutation	SNP	A	G	G	rs712665	by1000genomes	TCGA-HT-7880-01A-11D-2395-08	TCGA-HT-7880-10A-01D-2396-08									Somatic	Phase_I	Capture				Illumina GAIIx	a061c9f4-52fe-4b46-8e9f-0fcc76dbc1c8	8838112e-a2bd-4211-b5f9-990637c86c8c	g.chr5:112227799A>G	uc011cvv.1	+	4	793	c.538A>G	c.(538-540)AGT>GGT	p.S180G	SRP19_uc011cvu.1_Missense_Mutation_p.S165G|REEP5_uc011cvw.1_Intron|REEP5_uc003kqe.1_Intron|REEP5_uc011cvx.1_Intron|REEP5_uc011cvy.1_Intron|REEP5_uc011cvz.1_Intron			P09132	SRP19_HUMAN	SubName: Full=Zinc finger (CCCH type), RNA-binding motif and serine/arginine rich 2;	Error:Variant_position_missing_in_P09132_after_alignment					response to drug|SRP-dependent cotranslational protein targeting to membrane	cytosol|mitochondrion|nucleolus|signal recognition particle, endoplasmic reticulum targeting	7S RNA binding				0		all_cancers(142;0.00328)|all_epithelial(76;6.39e-05)|Prostate(80;0.00174)|Colorectal(10;0.00372)|Ovarian(225;0.156)		Epithelial(69;1.7e-09)|OV - Ovarian serous cystadenocarcinoma(64;1.17e-08)|all cancers(49;3.96e-07)|Colorectal(14;0.0056)|COAD - Colon adenocarcinoma(37;0.0104)		TTTAGAAAATAGTACCACATG	0.328000													6	86					0	0	1	0	0
Unknown	0	broad.mit.edu	37	7	64035106	64035106	+	RNA	SNP	T	C	C	rs77213048	by1000genomes	TCGA-HT-7880-01A-11D-2395-08	TCGA-HT-7880-10A-01D-2396-08									Somatic	Phase_I	Capture				Illumina GAIIx	a061c9f4-52fe-4b46-8e9f-0fcc76dbc1c8	8838112e-a2bd-4211-b5f9-990637c86c8c	g.chr7:64035106T>C	uc003ttc.1	+	1		c.34T>C								Homo sapiens cDNA FLJ43440 fis, clone OCBBF2030517.																		GCTCCAGGTCTTTTCTTCTCT	0.567000													3	23					0	0	1	0	0
ADAM9	8754	broad.mit.edu	37	8	38912008	38912008	+	Missense_Mutation	SNP	A	C	C			TCGA-HT-7880-01A-11D-2395-08	TCGA-HT-7880-10A-01D-2396-08									Somatic	Phase_I	Capture				Illumina GAIIx	a061c9f4-52fe-4b46-8e9f-0fcc76dbc1c8	8838112e-a2bd-4211-b5f9-990637c86c8c	g.chr8:38912008A>C	uc003xmr.2	+	13	1389	c.1311A>C	c.(1309-1311)GAA>GAC	p.E437D	ADAM9_uc011lcf.1_RNA|ADAM9_uc011lcg.1_RNA|ADAM9_uc010lwr.2_RNA|ADAM9_uc003xms.2_5'Flank	NM_003816	NP_003807	Q13443	ADAM9_HUMAN	ADAM metallopeptidase domain 9 isoform 1	437	Extracellular (Potential).|Disintegrin.				activation of MAPKK activity|cell-cell adhesion mediated by integrin|cell-matrix adhesion|keratinocyte differentiation|monocyte activation|PMA-inducible membrane protein ectodomain proteolysis|PMA-inducible membrane protein ectodomain proteolysis|positive regulation of cell adhesion mediated by integrin|positive regulation of keratinocyte migration|positive regulation of macrophage fusion|positive regulation of membrane protein ectodomain proteolysis|positive regulation of protein secretion|response to calcium ion|response to glucocorticoid stimulus|response to hydrogen peroxide|response to manganese ion|response to tumor necrosis factor|transforming growth factor beta receptor signaling pathway	extracellular space|extracellular space|integral to membrane|intrinsic to external side of plasma membrane	collagen binding|integrin binding|laminin binding|metalloendopeptidase activity|protein kinase C binding|SH3 domain binding|zinc ion binding			ovary(1)|central_nervous_system(1)	2		all_lung(54;0.00292)|Lung NSC(58;0.0115)|Hepatocellular(245;0.0153)	LUSC - Lung squamous cell carcinoma(45;2.74e-07)			AGGAATGTGAATTGGACCCTT	0.363000													5	74					0	0	1	0	0
ATRX	546	broad.mit.edu	37	X	76937900	76937900	+	Nonsense_Mutation	SNP	T	A	A			TCGA-HT-7880-01A-11D-2395-08	TCGA-HT-7880-10A-01D-2396-08									Somatic	Phase_I	Capture				Illumina GAIIx	a061c9f4-52fe-4b46-8e9f-0fcc76dbc1c8	8838112e-a2bd-4211-b5f9-990637c86c8c	g.chrX:76937900T>A	uc004ecp.3	-	9	3080	c.2848A>T	c.(2848-2850)AAA>TAA	p.K950*	ATRX_uc004ecq.3_Nonsense_Mutation_p.K912*|ATRX_uc004eco.3_Nonsense_Mutation_p.K735*|ATRX_uc004ecr.2_Nonsense_Mutation_p.K882*|ATRX_uc010nlx.1_Nonsense_Mutation_p.K921*|ATRX_uc010nly.1_Nonsense_Mutation_p.K895*	NM_000489	NP_000480	P46100	ATRX_HUMAN	transcriptional regulator ATRX isoform 1	950					DNA methylation|DNA recombination|DNA repair|regulation of transcription, DNA-dependent	nuclear heterochromatin	ATP binding|chromo shadow domain binding|DNA binding|DNA helicase activity|zinc ion binding			haematopoietic_and_lymphoid_tissue(14)|pancreas(12)|lung(1)|breast(1)|skin(1)|kidney(1)	30					Phosphatidylserine(DB00144)	GTTTTGGTTTTGAGATGCTTG	0.358000			Mis|F|N		Pancreatic neuroendocrine tumors		ATR-X (alpha thalassemia/mental retardation) syndrome						24	143					0	0	1	0	0
ATRX	546	broad.mit.edu	37	X	76938788	76938788	+	Silent	SNP	G	T	T			TCGA-HT-7880-01A-11D-2395-08	TCGA-HT-7880-10A-01D-2396-08									Somatic	Phase_I	Capture				Illumina GAIIx	a061c9f4-52fe-4b46-8e9f-0fcc76dbc1c8	8838112e-a2bd-4211-b5f9-990637c86c8c	g.chrX:76938788G>T	uc004ecp.3	-	9	2192	c.1960C>A	c.(1960-1962)CGA>AGA	p.R654R	ATRX_uc004ecq.3_Silent_p.R616R|ATRX_uc004eco.3_Silent_p.R439R|ATRX_uc004ecr.2_Silent_p.R586R|ATRX_uc010nlx.1_Silent_p.R625R|ATRX_uc010nly.1_Silent_p.R599R	NM_000489	NP_000480	P46100	ATRX_HUMAN	transcriptional regulator ATRX isoform 1	654					DNA methylation|DNA recombination|DNA repair|regulation of transcription, DNA-dependent	nuclear heterochromatin	ATP binding|chromo shadow domain binding|DNA binding|DNA helicase activity|zinc ion binding			haematopoietic_and_lymphoid_tissue(14)|pancreas(12)|lung(1)|breast(1)|skin(1)|kidney(1)	30					Phosphatidylserine(DB00144)	GGGGATCTTCGAAGATCAGAT	0.393000			Mis|F|N		Pancreatic neuroendocrine tumors		ATR-X (alpha thalassemia/mental retardation) syndrome						38	152					1.36161e-19	1.36161e-19	1	1	0
AFF2	2334	broad.mit.edu	37	X	148037448	148037448	+	Missense_Mutation	SNP	A	G	G			TCGA-HT-7880-01A-11D-2395-08	TCGA-HT-7880-10A-01D-2396-08									Somatic	Phase_I	Capture				Illumina GAIIx	a061c9f4-52fe-4b46-8e9f-0fcc76dbc1c8	8838112e-a2bd-4211-b5f9-990637c86c8c	g.chrX:148037448A>G	uc004fcp.2	+	11	2352	c.1873A>G	c.(1873-1875)ACA>GCA	p.T625A	AFF2_uc004fcq.2_Missense_Mutation_p.T615A|AFF2_uc004fcr.2_Missense_Mutation_p.T586A|AFF2_uc011mxb.1_Missense_Mutation_p.T590A|AFF2_uc004fcs.2_Missense_Mutation_p.T592A|AFF2_uc011mxc.1_Missense_Mutation_p.T266A	NM_002025	NP_002016	P51816	AFF2_HUMAN	fragile X mental retardation 2	625					brain development|mRNA processing|regulation of RNA splicing|RNA splicing	nuclear speck	G-quadruplex RNA binding|protein binding			ovary(3)|pancreas(2)	5	Acute lymphoblastic leukemia(192;6.56e-05)					GTCTCAAAGGACAATTGGGAA	0.443000													22	63					0	0	1	0	0
OR2T2	401992	broad.mit.edu	37	1	248616705	248616711	+	Frame_Shift_Del	DEL	TGCTGCG	-	-			TCGA-HT-7880-01A-11D-2395-08	TCGA-HT-7880-10A-01D-2396-08									Somatic	Phase_I	Capture				Illumina GAIIx	a061c9f4-52fe-4b46-8e9f-0fcc76dbc1c8	8838112e-a2bd-4211-b5f9-990637c86c8c	g.chr1:248616705_248616711delTGCTGCG	uc001iek.1	+	1	607_613	c.607_613delTGCTGCG	c.(607-615)TGCTGCGTGfs	p.C203fs		NM_001004136	NP_001004136	Q6IF00	OR2T2_HUMAN	olfactory receptor, family 2, subfamily T,	203_205	Helical; Name=5; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			skin(1)	1	all_cancers(71;0.000108)|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;0.0265)			GATGTATGCCTGCTGCGTGCTGATGCT	0.527													7	49	---	---	---	---					
PPTC7	160760	broad.mit.edu	37	12	111020740	111020742	+	In_Frame_Del	DEL	CGC	-	-			TCGA-HT-7880-01A-11D-2395-08	TCGA-HT-7880-10A-01D-2396-08									Somatic	Phase_I	Capture				Illumina GAIIx	a061c9f4-52fe-4b46-8e9f-0fcc76dbc1c8	8838112e-a2bd-4211-b5f9-990637c86c8c	g.chr12:111020740_111020742delCGC	uc001trh.1	-	1	323_325	c.95_97delGCG	c.(94-99)GGCGAC>GAC	p.G32del		NM_139283	NP_644812	Q8NI37	PPTC7_HUMAN	T-cell activation protein phosphatase 2C	32	Gly-rich.						metal ion binding|phosphoprotein phosphatase activity				0						AGTCCGTAGTcgccgccgccgcc	0.611													2	4	---	---	---	---					
NF1	4763	broad.mit.edu	37	17	29562657	29562660	+	Frame_Shift_Del	DEL	TGTT	-	-			TCGA-HT-7880-01A-11D-2395-08	TCGA-HT-7880-10A-01D-2396-08									Somatic	Phase_I	Capture				Illumina GAIIx	a061c9f4-52fe-4b46-8e9f-0fcc76dbc1c8	8838112e-a2bd-4211-b5f9-990637c86c8c	g.chr17:29562657_29562660delTGTT	uc002hgg.2	+	28	4070_4073	c.3737_3740delTGTT	c.(3736-3741)CTGTTTfs	p.L1246fs	NF1_uc002hgh.2_Frame_Shift_Del_p.L1246fs|NF1_uc010csn.1_Frame_Shift_Del_p.L1106fs|NF1_uc002hgi.1_Frame_Shift_Del_p.L279fs	NM_001042492	NP_001035957	P21359	NF1_HUMAN	neurofibromin isoform 1	1246_1247	Ras-GAP.				actin cytoskeleton organization|adrenal gland development|artery morphogenesis|camera-type eye morphogenesis|cerebral cortex development|collagen fibril organization|forebrain astrocyte development|forebrain morphogenesis|heart development|liver development|MAPKKK cascade|metanephros development|myelination in peripheral nervous system|negative regulation of cell migration|negative regulation of endothelial cell proliferation|negative regulation of MAP kinase activity|negative regulation of MAPKKK cascade|negative regulation of neuroblast proliferation|negative regulation of oligodendrocyte differentiation|negative regulation of transcription factor import into nucleus|osteoblast differentiation|phosphatidylinositol 3-kinase cascade|pigmentation|positive regulation of adenylate cyclase activity|positive regulation of neuron apoptosis|Ras protein signal transduction|regulation of blood vessel endothelial cell migration|regulation of bone resorption|response to hypoxia|smooth muscle tissue development|spinal cord development|sympathetic nervous system development|visual learning|wound healing	axon|cytoplasm|dendrite|intrinsic to internal side of plasma membrane|nucleus	protein binding|Ras GTPase activator activity	p.?(2)		soft_tissue(159)|central_nervous_system(56)|lung(28)|large_intestine(27)|haematopoietic_and_lymphoid_tissue(18)|ovary(18)|autonomic_ganglia(12)|breast(3)|skin(3)|stomach(2)|thyroid(1)|prostate(1)|kidney(1)|pancreas(1)	330		all_cancers(10;1.29e-12)|all_epithelial(10;0.00347)|all_hematologic(16;0.00556)|Acute lymphoblastic leukemia(14;0.00593)|Breast(31;0.014)|Myeloproliferative disorder(56;0.0255)|all_lung(9;0.0321)|Lung NSC(157;0.0659)		UCEC - Uterine corpus endometrioid carcinoma (4;4.38e-05)|all cancers(4;1.64e-26)|Epithelial(4;9.15e-23)|OV - Ovarian serous cystadenocarcinoma(4;3.58e-21)|GBM - Glioblastoma multiforme(4;0.00146)		CTGGTTACTCTGTTTGATTCTCGG	0.412			D|Mis|N|F|S|O		neurofibroma|glioma	neurofibroma|glioma			Neurofibromatosis_type_1	TCGA GBM(6;<1E-08)|TSP Lung(7;0.0071)|TCGA Ovarian(3;0.0088)			33	314	---	---	---	---					
