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_alt_allele	validation_method	validation_status	validation_tumor_sample	pox	qox	pox_cutoff	isArtifactMode	oxoGCut
ADAMTS2	9509	broad.mit.edu	37	5	178552090	178552090	+	Missense_Mutation	SNP	C	C	T			TCGA-SR-A6MX-06A-11D-A35I-08	TCGA-SR-A6MX-10A-01D-A35G-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	8ec6403c-ac62-411c-83b9-7ec554a54d89	99e20de7-1106-4a42-a936-dfcc7017ed47	g.chr5:178552090C>T	ENST00000251582.7	-	19	2943	c.2842G>A	c.(2842-2844)Gac>Aac	p.D948N		NM_014244.4	NP_055059.2	O95450	ATS2_HUMAN	ADAM metallopeptidase with thrombospondin type 1 motif, 2	948	TSP type-1 3.				collagen catabolic process	proteinaceous extracellular matrix	metalloendopeptidase activity|zinc ion binding			breast(1)|cervix(1)|endometrium(4)|haematopoietic_and_lymphoid_tissue(1)|kidney(6)|large_intestine(15)|lung(31)|ovary(1)|pancreas(3)|prostate(2)|skin(7)	72	all_cancers(89;0.000456)|all_epithelial(37;0.000138)|Renal(175;0.000159)|Lung NSC(126;0.00184)|all_lung(126;0.00326)	all_cancers(40;0.00604)|all_neural(177;0.00411)|Medulloblastoma(196;0.00508)|Lung NSC(249;0.0569)|all_lung(500;0.129)|all_hematologic(541;0.211)	Kidney(164;2.23e-05)|KIRC - Kidney renal clear cell carcinoma(164;0.000178)	GBM - Glioblastoma multiforme(465;0.0473)		GTGGTGTTGTCGTGTAGCGGC	0.692000													4	196					0	0	1	0	0
PAX1	5075	broad.mit.edu	37	20	21689898	21689898	+	Silent	SNP	C	C	T			TCGA-SR-A6MX-06A-11D-A35I-08	TCGA-SR-A6MX-10A-01D-A35G-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	8ec6403c-ac62-411c-83b9-7ec554a54d89	99e20de7-1106-4a42-a936-dfcc7017ed47	g.chr20:21689898C>T	ENST00000398485.2	+	4	1152	c.1098C>T	c.(1096-1098)ccC>ccT	p.P366P	PAX1_ENST00000460221.1_3'UTR|PAX1_ENST00000444366.2_Silent_p.P342P	NM_001257096.1|NM_006192.4	NP_001244025.1|NP_006183.2	P15863	PAX1_HUMAN	paired box 1	366					regulation of transcription, DNA-dependent|skeletal system development|transcription from RNA polymerase II promoter	nucleus	DNA binding			autonomic_ganglia(1)|cervix(1)|endometrium(3)|kidney(3)|large_intestine(2)|lung(21)|prostate(3)|skin(1)|upper_aerodigestive_tract(3)	38						GCTTTCTCCCCGCCTGCGCCT	0.711000													42	62					0	0	1	0	0
UNC79	57578	broad.mit.edu	37	14	94170982	94170982	+	Missense_Mutation	SNP	G	G	A			TCGA-SR-A6MX-06A-11D-A35I-08	TCGA-SR-A6MX-10A-01D-A35G-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	8ec6403c-ac62-411c-83b9-7ec554a54d89	99e20de7-1106-4a42-a936-dfcc7017ed47	g.chr14:94170982G>A	ENST00000553484.1	+	50	7897	c.7743G>A	c.(7741-7743)atG>atA	p.M2581I	UNC79_ENST00000256339.4_Missense_Mutation_p.M2382I|UNC79_ENST00000393151.2_Missense_Mutation_p.M2559I|UNC79_ENST00000555664.1_Missense_Mutation_p.M2520I			Q9P2D8	UNC79_HUMAN	unc-79 homolog (C. elegans)	2559						integral to membrane				breast(3)|cervix(2)|endometrium(10)|kidney(7)|large_intestine(18)|liver(1)|lung(64)|ovary(1)|prostate(5)|skin(3)|urinary_tract(4)	118						TGATACCTATGTGGTTGCCAA	0.438000													7	120					0	0	1	0	0
GLI3	2737	broad.mit.edu	37	7	42004585	42004585	+	Silent	SNP	G	G	A			TCGA-SR-A6MX-06A-11D-A35I-08	TCGA-SR-A6MX-10A-01D-A35G-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	8ec6403c-ac62-411c-83b9-7ec554a54d89	99e20de7-1106-4a42-a936-dfcc7017ed47	g.chr7:42004585G>A	ENST00000395925.3	-	15	4170	c.4086C>T	c.(4084-4086)agC>agT	p.S1362S	GLI3_ENST00000479210.1_5'UTR	NM_000168.5	NP_000159.3	P10071	GLI3_HUMAN	GLI family zinc finger 3	1362					negative regulation of alpha-beta T cell differentiation|negative regulation of canonical Wnt receptor signaling pathway|negative regulation of smoothened signaling pathway|negative regulation of transcription from RNA polymerase II promoter|negative thymic T cell selection|positive regulation of alpha-beta T cell differentiation|positive regulation of transcription from RNA polymerase II promoter|thymocyte apoptosis	cilium|cytosol|nucleolus	beta-catenin binding|histone acetyltransferase binding|histone deacetylase binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			NS(2)|biliary_tract(1)|breast(4)|central_nervous_system(2)|endometrium(12)|kidney(7)|large_intestine(25)|lung(49)|ovary(3)|pancreas(1)|prostate(2)|skin(1)|upper_aerodigestive_tract(1)|urinary_tract(2)	112						CTGGCAGGCAGCTCTCTGGCC	0.652000									Pallister-Hall syndrome;Greig Cephalopolysyndactyly				25	25					0	0	1	0	0
MUC16	94025	broad.mit.edu	37	19	9020016	9020016	+	Nonsense_Mutation	SNP	G	G	T			TCGA-SR-A6MX-06A-11D-A35I-08	TCGA-SR-A6MX-10A-01D-A35G-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	8ec6403c-ac62-411c-83b9-7ec554a54d89	99e20de7-1106-4a42-a936-dfcc7017ed47	g.chr19:9020016G>T	ENST00000397910.4	-	21	37682	c.37479C>A	c.(37477-37479)taC>taA	p.Y12493*		NM_024690.2	NP_078966.2	Q8WXI7	MUC16_HUMAN	mucin 16, cell surface associated	12495	SEA 3.				cell adhesion	extracellular space|extrinsic to membrane|integral to membrane|plasma membrane	protein binding			NS(9)|autonomic_ganglia(1)|breast(26)|central_nervous_system(11)|cervix(1)|endometrium(46)|haematopoietic_and_lymphoid_tissue(5)|kidney(35)|large_intestine(91)|liver(1)|lung(278)|ovary(17)|pancreas(2)|prostate(17)|skin(18)|soft_tissue(1)|stomach(8)|upper_aerodigestive_tract(16)|urinary_tract(7)	590						TGTCCAGGGTGTAGGGGCCCA	0.512000													24	239					1.68575e-08	1.73132e-08	1	1	0
GPR162	27239	broad.mit.edu	37	12	6935934	6935934	+	Silent	SNP	C	C	T			TCGA-SR-A6MX-06A-11D-A35I-08	TCGA-SR-A6MX-10A-01D-A35G-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	8ec6403c-ac62-411c-83b9-7ec554a54d89	99e20de7-1106-4a42-a936-dfcc7017ed47	g.chr12:6935934C>T	ENST00000311268.3	+	5	2119	c.1332C>T	c.(1330-1332)gcC>gcT	p.A444A	GPR162_ENST00000428545.2_Silent_p.A160A|GPR162_ENST00000382315.3_Silent_p.A140A	NM_019858.1	NP_062832.1	Q16538	GP162_HUMAN	G protein-coupled receptor 162	444						integral to membrane|plasma membrane	G-protein coupled receptor activity			NS(1)|central_nervous_system(1)|endometrium(2)|kidney(1)|large_intestine(3)|lung(5)|ovary(2)|pancreas(2)|skin(1)	18						TCCTCCCAGCCCAGAGCCGGG	0.612000													7	39					0	0	1	0	0
MPDZ	8777	broad.mit.edu	37	9	13190215	13190215	+	Silent	SNP	T	T	C			TCGA-SR-A6MX-06A-11D-A35I-08	TCGA-SR-A6MX-10A-01D-A35G-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	8ec6403c-ac62-411c-83b9-7ec554a54d89	99e20de7-1106-4a42-a936-dfcc7017ed47	g.chr9:13190215T>C	ENST00000319217.7	-	16	2299	c.2052A>G	c.(2050-2052)acA>acG	p.T684T	MPDZ_ENST00000381015.4_Silent_p.T684T|MPDZ_ENST00000447879.1_Silent_p.T684T|MPDZ_ENST00000541718.1_Silent_p.T684T|MPDZ_ENST00000536827.1_Silent_p.T684T|MPDZ_ENST00000381022.2_Silent_p.T684T|MPDZ_ENST00000546205.1_Silent_p.T684T	NM_001261406.1	NP_001248335.1	O75970	MPDZ_HUMAN	multiple PDZ domain protein	684					interspecies interaction between organisms	apical plasma membrane|dendrite|postsynaptic density|postsynaptic membrane|synaptosome|tight junction	protein C-terminus binding			NS(1)|breast(2)|central_nervous_system(1)|endometrium(7)|haematopoietic_and_lymphoid_tissue(4)|kidney(2)|large_intestine(14)|lung(15)|ovary(5)|prostate(7)|stomach(1)|urinary_tract(2)	61				GBM - Glioblastoma multiforme(50;2.03e-06)		GAACCTCTTCTGTACTCTGAC	0.488000													4	18					0	0	1	0	0
CYP19A1	1588	broad.mit.edu	37	15	51503017	51503017	+	Missense_Mutation	SNP	A	A	C			TCGA-SR-A6MX-06A-11D-A35I-08	TCGA-SR-A6MX-10A-01D-A35G-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	8ec6403c-ac62-411c-83b9-7ec554a54d89	99e20de7-1106-4a42-a936-dfcc7017ed47	g.chr15:51503017A>C	ENST00000396402.1	-	10	1653	c.1500T>G	c.(1498-1500)tgT>tgG	p.C500W	CYP19A1_ENST00000260433.2_Missense_Mutation_p.C500W|RP11-108K3.1_ENST00000559909.1_lincRNA|CYP19A1_ENST00000559878.1_Missense_Mutation_p.C500W|CYP19A1_ENST00000396404.4_Missense_Mutation_p.C500W	NM_000103.3	NP_000094.2	P11511	CP19A_HUMAN	cytochrome P450, family 19, subfamily A, polypeptide 1	500					estrogen biosynthetic process|xenobiotic metabolic process	endoplasmic reticulum membrane|membrane fraction	aromatase activity|electron carrier activity|heme binding|oxygen binding|steroid hydroxylase activity			endometrium(1)|kidney(4)|large_intestine(9)|lung(11)|prostate(2)|skin(3)|stomach(1)|upper_aerodigestive_tract(2)	33				all cancers(107;0.000372)|GBM - Glioblastoma multiforme(94;0.0128)	Aminoglutethimide(DB00357)|Anastrozole(DB01217)|Conjugated Estrogens(DB00286)|Danazol(DB01406)|Diethylstilbestrol(DB00255)|Exemestane(DB00990)|Letrozole(DB01006)|Testolactone(DB00894)|Testosterone(DB00624)	AGTGTTCCAGACACCTGTCTG	0.448000													5	181					0	0	1	0	0
LOC220729	220729	broad.mit.edu	37	3	197348646	197348646	+	RNA	SNP	T	T	C	rs138265355	by1000genomes	TCGA-SR-A6MX-06A-11D-A35I-08	TCGA-SR-A6MX-10A-01D-A35G-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	8ec6403c-ac62-411c-83b9-7ec554a54d89	99e20de7-1106-4a42-a936-dfcc7017ed47	g.chr3:197348646T>C	ENST00000418868.1	-	0	613					NR_003266.2																						TGGGCCTGCCTGCCCTTTCCA	0.532000													4	48					0	0	1	0	0
GABRA4	2557	broad.mit.edu	37	4	46967155	46967155	+	Missense_Mutation	SNP	G	G	T	rs41301813		TCGA-SR-A6MX-06A-11D-A35I-08	TCGA-SR-A6MX-10A-01D-A35G-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	8ec6403c-ac62-411c-83b9-7ec554a54d89	99e20de7-1106-4a42-a936-dfcc7017ed47	g.chr4:46967155G>T	ENST00000264318.3	-	8	1948	c.966C>A	c.(964-966)ttC>ttA	p.F322L		NM_000809.3|NM_001204266.1|NM_001204267.1	NP_000800.2|NP_001191195.1|NP_001191196.1	P48169	GBRA4_HUMAN	gamma-aminobutyric acid (GABA) A receptor, alpha 4	322					gamma-aminobutyric acid signaling pathway	cell junction|chloride channel complex|integral to plasma membrane|postsynaptic membrane	benzodiazepine receptor activity|chloride channel activity|extracellular ligand-gated ion channel activity|GABA-A receptor activity			NS(2)|breast(1)|central_nervous_system(1)|endometrium(3)|haematopoietic_and_lymphoid_tissue(1)|kidney(2)|large_intestine(9)|lung(17)|ovary(2)|prostate(3)|skin(1)|upper_aerodigestive_tract(2)|urinary_tract(1)	45					Alprazolam(DB00404)|Ethchlorvynol(DB00189)|Flunitrazepam(DB01544)|Flurazepam(DB00690)|Lorazepam(DB00186)|Meprobamate(DB00371)|Midazolam(DB00683)	AGACAGCTATGAACCAGTCCA	0.433000													32	50					1.22384e-17	1.36782e-17	1	1	0
FAM86JP	100125556	broad.mit.edu	37	3	125647387	125647387	+	RNA	SNP	G	G	A			TCGA-SR-A6MX-06A-11D-A35I-08	TCGA-SR-A6MX-10A-01D-A35G-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	8ec6403c-ac62-411c-83b9-7ec554a54d89	99e20de7-1106-4a42-a936-dfcc7017ed47	g.chr3:125647387G>A	ENST00000485843.1	+	0	532					NR_024251.1																						ACCAGAAACTGTTTCCCTATG	0.502000													4	85					0	0	1	0	0
TMPRSS11D	9407	broad.mit.edu	37	4	68693212	68693212	+	Missense_Mutation	SNP	G	G	A			TCGA-SR-A6MX-06A-11D-A35I-08	TCGA-SR-A6MX-10A-01D-A35G-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	8ec6403c-ac62-411c-83b9-7ec554a54d89	99e20de7-1106-4a42-a936-dfcc7017ed47	g.chr4:68693212G>A	ENST00000283916.6	-	8	817	c.719C>T	c.(718-720)gCc>gTc	p.A240V	TMPRSS11D_ENST00000545541.1_Missense_Mutation_p.A123V|RP11-453E17.1_ENST00000500538.2_RNA	NM_004262.2	NP_004253.1	O60235	TM11D_HUMAN	transmembrane protease, serine 11D	240	Peptidase S1.				proteolysis|respiratory gaseous exchange	extracellular region|integral to plasma membrane	serine-type endopeptidase activity			cervix(1)|haematopoietic_and_lymphoid_tissue(1)|kidney(3)|large_intestine(4)|lung(10)|ovary(1)|skin(1)|upper_aerodigestive_tract(2)	23						ACCAGACGTGGCAATCCAGTC	0.308000													3	40					0	0	1	0	0
SRRM2	23524	broad.mit.edu	37	16	2818182	2818182	+	Silent	SNP	G	G	C	rs149616150	byFrequency	TCGA-SR-A6MX-06A-11D-A35I-08	TCGA-SR-A6MX-10A-01D-A35G-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	8ec6403c-ac62-411c-83b9-7ec554a54d89	99e20de7-1106-4a42-a936-dfcc7017ed47	g.chr16:2818182G>C	ENST00000301740.8	+	11	8202	c.7653G>C	c.(7651-7653)tcG>tcC	p.S2551S	SRRM2_ENST00000574593.1_3'UTR	NM_016333.3	NP_057417.3	Q9UQ35	SRRM2_HUMAN	serine/arginine repetitive matrix 2	2551	Ser-rich.					Cajal body|catalytic step 2 spliceosome|nuclear speck	C2H2 zinc finger domain binding|protein N-terminus binding|RNA binding			breast(3)|central_nervous_system(1)|cervix(3)|endometrium(10)|haematopoietic_and_lymphoid_tissue(1)|kidney(6)|large_intestine(20)|lung(34)|ovary(6)|pancreas(3)|prostate(2)|skin(6)|upper_aerodigestive_tract(3)|urinary_tract(7)	105						cgtcgtcgtcgtcctcctcct	0.577000													15	11					0	0	1	0	0
CA12	771	broad.mit.edu	37	15	63637696	63637696	+	Missense_Mutation	SNP	C	C	T			TCGA-SR-A6MX-06A-11D-A35I-08	TCGA-SR-A6MX-10A-01D-A35G-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	8ec6403c-ac62-411c-83b9-7ec554a54d89	99e20de7-1106-4a42-a936-dfcc7017ed47	g.chr15:63637696C>T	ENST00000178638.3	-	4	849	c.409G>A	c.(409-411)Gga>Aga	p.G137R	CA12_ENST00000422263.2_Missense_Mutation_p.G77R|CA12_ENST00000344366.3_Missense_Mutation_p.G137R	NM_001218.3	NP_001209.1	O43570	CAH12_HUMAN	carbonic anhydrase XII	137					one-carbon metabolic process	integral to membrane	carbonate dehydratase activity|zinc ion binding			breast(1)|endometrium(2)|kidney(1)|large_intestine(3)|liver(1)|lung(4)|ovary(1)|prostate(1)|skin(2)	16					Acetazolamide(DB00819)	AAGTGCTGTCCGCTGACGGTG	0.642000													8	17					0	0	1	0	0
PSG8	440533	broad.mit.edu	37	19	43268092	43268092	+	Missense_Mutation	SNP	C	C	G			TCGA-SR-A6MX-06A-11D-A35I-08	TCGA-SR-A6MX-10A-01D-A35G-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	8ec6403c-ac62-411c-83b9-7ec554a54d89	99e20de7-1106-4a42-a936-dfcc7017ed47	g.chr19:43268092C>G	ENST00000404209.4	-	2	502	c.406G>C	c.(406-408)Gga>Cga	p.G136R	PSG8_ENST00000306511.4_Missense_Mutation_p.G136R|PSG8_ENST00000401467.2_Missense_Mutation_p.G136R|PSG8_ENST00000406636.3_Intron	NM_001130167.1	NP_001123639.1	Q9UQ74	PSG8_HUMAN	pregnancy specific beta-1-glycoprotein 8	136	Ig-like V-type.					extracellular region				breast(1)|cervix(1)|endometrium(3)|kidney(2)|large_intestine(9)|lung(19)|prostate(1)|skin(3)|upper_aerodigestive_tract(1)	40		Prostate(69;0.00899)				GTGAAATGTCCAGTTACTCCT	0.488000													106	260					0	0	1	0	0
CHST10	9486	broad.mit.edu	37	2	101010155	101010155	+	Missense_Mutation	SNP	C	C	T			TCGA-SR-A6MX-06A-11D-A35I-08	TCGA-SR-A6MX-10A-01D-A35G-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	8ec6403c-ac62-411c-83b9-7ec554a54d89	99e20de7-1106-4a42-a936-dfcc7017ed47	g.chr2:101010155C>T	ENST00000264249.3	-	7	1008	c.623G>A	c.(622-624)cGg>cAg	p.R208Q	CHST10_ENST00000542617.1_Missense_Mutation_p.R256Q|CHST10_ENST00000409701.1_Missense_Mutation_p.R208Q	NM_004854.4	NP_004845.1	O43529	CHSTA_HUMAN	carbohydrate sulfotransferase 10	208					carbohydrate biosynthetic process|cell adhesion	Golgi membrane|integral to membrane|membrane fraction				breast(1)|endometrium(1)|large_intestine(9)|lung(4)|ovary(1)	16						AGGCTCAAACCGGGGATTGTG	0.408000													27	31					0	0	1	0	0
HABP2	3026	broad.mit.edu	37	10	115340448	115340448	+	Missense_Mutation	SNP	C	C	G			TCGA-SR-A6MX-06A-11D-A35I-08	TCGA-SR-A6MX-10A-01D-A35G-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	8ec6403c-ac62-411c-83b9-7ec554a54d89	99e20de7-1106-4a42-a936-dfcc7017ed47	g.chr10:115340448C>G	ENST00000351270.3	+	8	931	c.835C>G	c.(835-837)Cag>Gag	p.Q279E	HABP2_ENST00000542051.1_Missense_Mutation_p.Q253E|HABP2_ENST00000541666.1_Missense_Mutation_p.Q279E	NM_004132.3	NP_004123.1	Q14520	HABP2_HUMAN	hyaluronan binding protein 2	279					cell adhesion|proteolysis	extracellular space	glycosaminoglycan binding|serine-type endopeptidase activity			breast(2)|endometrium(1)|kidney(1)|large_intestine(5)|lung(8)|ovary(2)|skin(2)|upper_aerodigestive_tract(2)	23		Colorectal(252;0.0233)|Breast(234;0.0672)		Epithelial(162;0.00319)|all cancers(201;0.0112)		CTGCTCAGCCCAGGGTAAAGG	0.527000													27	35					0	0	1	0	0
ZKSCAN5	23660	broad.mit.edu	37	7	99129144	99129144	+	Missense_Mutation	SNP	G	G	A	rs4729542		TCGA-SR-A6MX-06A-11D-A35I-08	TCGA-SR-A6MX-10A-01D-A35G-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	8ec6403c-ac62-411c-83b9-7ec554a54d89	99e20de7-1106-4a42-a936-dfcc7017ed47	g.chr7:99129144G>A	ENST00000394170.2	+	7	2043	c.1792G>A	c.(1792-1794)Gtc>Atc	p.V598I	ZKSCAN5_ENST00000451158.1_Missense_Mutation_p.V598I|ZKSCAN5_ENST00000326775.5_Missense_Mutation_p.V598I	NM_014569.3	NP_055384.1	Q9Y2L8	ZKSC5_HUMAN	zinc finger with KRAB and SCAN domains 5	598					viral reproduction	nucleus	DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			breast(3)|endometrium(1)|kidney(1)|large_intestine(6)|lung(6)|ovary(1)|prostate(1)|skin(1)|urinary_tract(1)	21	all_cancers(62;2.54e-08)|all_epithelial(64;2.55e-09)|Lung NSC(181;0.0053)|all_lung(186;0.00895)|Esophageal squamous(72;0.0166)					GCATCAGCGCGTCCACACAGG	0.517000													13	14					0	0	1	0	0
GAA	2548	broad.mit.edu	37	17	78083827	78083827	+	Silent	SNP	C	C	T			TCGA-SR-A6MX-06A-11D-A35I-08	TCGA-SR-A6MX-10A-01D-A35G-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	8ec6403c-ac62-411c-83b9-7ec554a54d89	99e20de7-1106-4a42-a936-dfcc7017ed47	g.chr17:78083827C>T	ENST00000302262.3	+	9	1629	c.1410C>T	c.(1408-1410)aaC>aaT	p.N470N	GAA_ENST00000390015.3_Silent_p.N470N	NM_000152.3	NP_000143.2	P10253	LYAG_HUMAN	glucosidase, alpha; acid	470					cardiac muscle contraction|diaphragm contraction|glycogen catabolic process|lysosome organization|tongue morphogenesis|vacuolar sequestering|ventricular cardiac muscle tissue morphogenesis	lysosomal membrane	carbohydrate binding|maltose alpha-glucosidase activity			autonomic_ganglia(1)|central_nervous_system(1)|endometrium(2)|haematopoietic_and_lymphoid_tissue(2)|kidney(2)|lung(6)|ovary(2)|prostate(2)|skin(1)|stomach(1)|upper_aerodigestive_tract(1)	21	all_neural(118;0.117)		OV - Ovarian serous cystadenocarcinoma(97;0.0292)|BRCA - Breast invasive adenocarcinoma(99;0.139)		Acarbose(DB00284)	TCATCACCAACGAGACCGGCC	0.667000													22	55					0	0	1	0	0
CSTB	1476	broad.mit.edu	37	21	45194196	45194196	+	Missense_Mutation	SNP	C	C	T	rs147307021		TCGA-SR-A6MX-06A-11D-A35I-08	TCGA-SR-A6MX-10A-01D-A35G-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	8ec6403c-ac62-411c-83b9-7ec554a54d89	99e20de7-1106-4a42-a936-dfcc7017ed47	g.chr21:45194196C>T	ENST00000291568.5	-	3	359	c.184G>A	c.(184-186)Gag>Aag	p.E62K		NM_000100.3	NP_000091.1	P04080	CYTB_HUMAN	cystatin B (stefin B)	62						cytoplasm|nucleolus	cysteine-type endopeptidase inhibitor activity|protease binding			lung(1)|prostate(1)	2				STAD - Stomach adenocarcinoma(101;0.168)		ACGAAGTCCTCGTCGCCGACG	0.547000													18	77					0	0	1	0	0
TRHDE	29953	broad.mit.edu	37	12	73046874	73046874	+	Missense_Mutation	SNP	T	T	A			TCGA-SR-A6MX-06A-11D-A35I-08	TCGA-SR-A6MX-10A-01D-A35G-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	8ec6403c-ac62-411c-83b9-7ec554a54d89	99e20de7-1106-4a42-a936-dfcc7017ed47	g.chr12:73046874T>A	ENST00000261180.4	+	17	2883	c.2787T>A	c.(2785-2787)aaT>aaA	p.N929K		NM_013381.2	NP_037513.1	Q9UKU6	TRHDE_HUMAN	thyrotropin-releasing hormone degrading enzyme	929					cell-cell signaling|proteolysis|signal transduction	integral to plasma membrane	aminopeptidase activity|metallopeptidase activity|zinc ion binding			NS(1)|autonomic_ganglia(1)|breast(2)|endometrium(8)|kidney(3)|large_intestine(13)|lung(38)|ovary(2)|skin(4)|soft_tissue(1)|upper_aerodigestive_tract(3)|urinary_tract(3)	79						TAGCTCGAAATCCACATGGTC	0.353000													24	50					0	0	1	0	0
SETDB1	9869	broad.mit.edu	37	1	150933428	150933428	+	Missense_Mutation	SNP	C	C	A			TCGA-SR-A6MX-06A-11D-A35I-08	TCGA-SR-A6MX-10A-01D-A35G-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	8ec6403c-ac62-411c-83b9-7ec554a54d89	99e20de7-1106-4a42-a936-dfcc7017ed47	g.chr1:150933428C>A	ENST00000271640.5	+	16	3080	c.2890C>A	c.(2890-2892)Cct>Act	p.P964T	SETDB1_ENST00000368969.4_Missense_Mutation_p.P964T	NM_001145415.1|NM_012432.3	NP_001138887.1|NP_036564.3	Q15047	SETB1_HUMAN	SET domain, bifurcated 1	964	SET.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	chromosome|Golgi apparatus|nucleus|plasma membrane	DNA binding|histone-lysine N-methyltransferase activity|protein binding|zinc ion binding			NS(1)|large_intestine(5)|ovary(3)|skin(2)|upper_aerodigestive_tract(1)	12	all_lung(15;9e-35)|Lung NSC(24;3.45e-31)|Lung SC(34;0.00471)|Ovarian(49;0.0167)|all_hematologic(923;0.0597)|Hepatocellular(266;0.108)|Melanoma(130;0.185)		UCEC - Uterine corpus endometrioid carcinoma (35;0.0486)|BRCA - Breast invasive adenocarcinoma(12;0.0152)|LUSC - Lung squamous cell carcinoma(543;0.211)			TCCCTCAATCCCTGTAGGTGG	0.547000													4	114					1	1	1	1	0
SETD2	29072	broad.mit.edu	37	3	47103836	47103836	+	Splice_Site	SNP	G	G	C			TCGA-SR-A6MX-06A-11D-A35I-08	TCGA-SR-A6MX-10A-01D-A35G-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	8ec6403c-ac62-411c-83b9-7ec554a54d89	99e20de7-1106-4a42-a936-dfcc7017ed47	g.chr3:47103836G>C	ENST00000409792.3	-	14	6152	c.6109_splice	c.e14-1	p.T2037_splice	SETD2_ENST00000492397.1_5'UTR	NM_014159.6	NP_054878.5	Q9BYW2	SETD2_HUMAN	SET domain containing 2	2037					regulation of transcription, DNA-dependent|transcription, DNA-dependent	chromosome|nucleus	DNA binding|histone-lysine N-methyltransferase activity|oxidoreductase activity|transition metal ion binding			breast(6)|central_nervous_system(5)|endometrium(4)|kidney(63)|large_intestine(18)|lung(26)|ovary(6)|prostate(2)|skin(3)|soft_tissue(1)|stomach(2)|urinary_tract(5)	141		Acute lymphoblastic leukemia(5;0.0169)		BRCA - Breast invasive adenocarcinoma(193;0.000302)|KIRC - Kidney renal clear cell carcinoma(197;0.00732)|Kidney(197;0.00844)		TCGTTCAGTTGCTAAGGGAAA	0.393000			"""N, F, S, Mis"""		clear cell renal carcinoma								61	97					0	0	1	0	0
FKBP9	11328	broad.mit.edu	37	7	33020059	33020059	+	Missense_Mutation	SNP	G	G	C			TCGA-SR-A6MX-06A-11D-A35I-08	TCGA-SR-A6MX-10A-01D-A35G-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	8ec6403c-ac62-411c-83b9-7ec554a54d89	99e20de7-1106-4a42-a936-dfcc7017ed47	g.chr7:33020059G>C	ENST00000242209.4	+	5	956	c.787G>C	c.(787-789)Gag>Cag	p.E263Q	FKBP9_ENST00000489038.1_3'UTR|FKBP9_ENST00000538336.1_Missense_Mutation_p.E316Q|FKBP9_ENST00000490776.2_Missense_Mutation_p.E31Q|AVL9_ENST00000404479.1_Intron|FKBP9_ENST00000538443.1_Missense_Mutation_p.E125Q	NM_007270.3	NP_009201.2	O95302	FKBP9_HUMAN	FK506 binding protein 9, 63 kDa	263					protein folding	endoplasmic reticulum|membrane	calcium ion binding|FK506 binding|peptidyl-prolyl cis-trans isomerase activity			central_nervous_system(13)|cervix(1)|endometrium(1)|haematopoietic_and_lymphoid_tissue(1)|kidney(5)|large_intestine(6)|lung(9)|ovary(2)|upper_aerodigestive_tract(1)	39			GBM - Glioblastoma multiforme(11;0.0156)			CATTTCCATTGAGAACAAGGT	0.468000													58	80					0	0	1	0	0
SEPT7	989	broad.mit.edu	37	7	35930362	35930362	+	Silent	SNP	T	T	C			TCGA-SR-A6MX-06A-11D-A35I-08	TCGA-SR-A6MX-10A-01D-A35G-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	8ec6403c-ac62-411c-83b9-7ec554a54d89	99e20de7-1106-4a42-a936-dfcc7017ed47	g.chr7:35930362T>C	ENST00000494488.2	+	10	915	c.915T>C	c.(913-915)taT>taC	p.Y305Y	SEPT7_ENST00000399034.2_Silent_p.Y320Y|SEPT7_ENST00000435235.1_Silent_p.Y266Y|SEPT7_ENST00000399035.3_Silent_p.Y318Y|SEPT7_ENST00000432293.2_Intron|SEPT7_ENST00000350320.6_Silent_p.Y318Y			Q16181	SEPT7_HUMAN	septin 7	319					cilium morphogenesis|cytokinesis|mitosis|protein heterooligomerization|regulation of embryonic cell shape	cilium axoneme|cleavage furrow|condensed chromosome kinetochore|midbody|nucleus|septin complex|spindle|stress fiber	GTP binding|protein binding|structural molecule activity	p.Y320Y(3)		central_nervous_system(1)|endometrium(1)|kidney(2)|large_intestine(2)|lung(7)|prostate(1)	14						CTGTGACTTATAATGGAGTTG	0.323000													3	18					0	0	1	0	0
LRP2	4036	broad.mit.edu	37	2	170055361	170055361	+	Missense_Mutation	SNP	C	C	T	rs142214474		TCGA-SR-A6MX-06A-11D-A35I-08	TCGA-SR-A6MX-10A-01D-A35G-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	8ec6403c-ac62-411c-83b9-7ec554a54d89	99e20de7-1106-4a42-a936-dfcc7017ed47	g.chr2:170055361C>T	ENST00000263816.3	-	45	8798	c.8513G>A	c.(8512-8514)cGc>cAc	p.R2838H		NM_004525.2	NP_004516.2	P98164	LRP2_HUMAN	low density lipoprotein receptor-related protein 2	2838	LDL-receptor class A 19.				hormone biosynthetic process|protein glycosylation|receptor-mediated endocytosis|vitamin D metabolic process	coated pit|integral to membrane|lysosome	calcium ion binding|receptor activity|SH3 domain binding			biliary_tract(1)|breast(16)|central_nervous_system(6)|cervix(2)|endometrium(24)|haematopoietic_and_lymphoid_tissue(2)|kidney(17)|large_intestine(70)|liver(1)|lung(117)|ovary(19)|pancreas(1)|prostate(2)|skin(17)|upper_aerodigestive_tract(7)|urinary_tract(13)	315				STAD - Stomach adenocarcinoma(1183;0.000766)|COAD - Colon adenocarcinoma(177;0.0101)	Gentamicin(DB00798)|Insulin Glargine recombinant(DB00047)|Insulin Lyspro recombinant(DB00046)|Insulin recombinant(DB00030)|Insulin, porcine(DB00071)|Urokinase(DB00013)	CAAATAAACGCGAGGAATACA	0.358000													3	19					0	0	1	0	0
TGDS	23483	broad.mit.edu	37	13	95235377	95235377	+	Missense_Mutation	SNP	C	C	T			TCGA-SR-A6MX-06A-11D-A35I-08	TCGA-SR-A6MX-10A-01D-A35G-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	8ec6403c-ac62-411c-83b9-7ec554a54d89	99e20de7-1106-4a42-a936-dfcc7017ed47	g.chr13:95235377C>T	ENST00000261296.5	-	5	547	c.427G>A	c.(427-429)Gat>Aat	p.D143N	TGDS_ENST00000498294.1_5'UTR	NM_014305.2	NP_055120.1	O95455	TGDS_HUMAN	TDP-glucose 4,6-dehydratase	143					cellular metabolic process		coenzyme binding|dTDP-glucose 4,6-dehydratase activity|protein binding			endometrium(1)|kidney(1)|large_intestine(1)|lung(4)|skin(1)	8	all_neural(89;0.0684)|Medulloblastoma(90;0.163)					TATACTTCATCTGTGCTGACA	0.373000													29	56					0	0	1	0	0
FAM86JP	100125556	broad.mit.edu	37	3	125647396	125647396	+	RNA	SNP	T	T	C			TCGA-SR-A6MX-06A-11D-A35I-08	TCGA-SR-A6MX-10A-01D-A35G-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	8ec6403c-ac62-411c-83b9-7ec554a54d89	99e20de7-1106-4a42-a936-dfcc7017ed47	g.chr3:125647396T>C	ENST00000485843.1	+	0	541					NR_024251.1																						TGTTTCCCTATGAAGAGCACT	0.502000													5	88					0	0	1	0	0
MRVI1	10335	broad.mit.edu	37	11	10647542	10647542	+	Missense_Mutation	SNP	G	G	A			TCGA-SR-A6MX-06A-11D-A35I-08	TCGA-SR-A6MX-10A-01D-A35G-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	8ec6403c-ac62-411c-83b9-7ec554a54d89	99e20de7-1106-4a42-a936-dfcc7017ed47	g.chr11:10647542G>A	ENST00000547195.1	-	8	1566	c.1066C>T	c.(1066-1068)Cgg>Tgg	p.R356W	MRVI1_ENST00000558540.1_Missense_Mutation_p.R132W|MRVI1_ENST00000545852.1_Missense_Mutation_p.R132W|MRVI1_ENST00000421747.1_Missense_Mutation_p.R438W|MRVI1_ENST00000552103.1_Missense_Mutation_p.R356W|MRVI1_ENST00000424001.1_Missense_Mutation_p.R132W|MRVI1_ENST00000423302.2_Missense_Mutation_p.R447W|MRVI1_ENST00000541483.1_Intron|MRVI1_ENST00000534266.2_Missense_Mutation_p.R132W|MRVI1_ENST00000436272.1_Missense_Mutation_p.R420W|MRVI1_ENST00000527509.2_Missense_Mutation_p.R356W|MRVI1_ENST00000531107.1_Missense_Mutation_p.R439W	NM_001100163.2|NM_001206881.1	NP_001093633.1|NP_001193810.1	Q9Y6F6	MRVI1_HUMAN	murine retrovirus integration site 1 homolog	420					platelet activation	endoplasmic reticulum membrane|integral to membrane|perinuclear region of cytoplasm|platelet dense tubular network membrane|sarcoplasmic reticulum				central_nervous_system(2)|cervix(1)|endometrium(4)|kidney(2)|large_intestine(5)|lung(4)|ovary(2)|prostate(2)	22				all cancers(16;2.68e-07)|Epithelial(150;3.04e-07)|BRCA - Breast invasive adenocarcinoma(625;0.0723)		TTCTGCATCCGCACGGGCTGC	0.602000													3	30					0	0	1	0	0
PMF1	11243	broad.mit.edu	37	1	156182938	156182939	+	Frame_Shift_Del	DEL	TT	TT	-			TCGA-SR-A6MX-06A-11D-A35I-08	TCGA-SR-A6MX-10A-01D-A35G-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	8ec6403c-ac62-411c-83b9-7ec554a54d89	99e20de7-1106-4a42-a936-dfcc7017ed47	g.chr1:156182938_156182939delTT	ENST00000368277.3	+	1	141_142	c.132_133delTT	c.(130-135)acttfs	p.TF44fs	PMF1_ENST00000565805.1_Frame_Shift_Del_p.TF44fs|PMF1_ENST00000567140.1_Frame_Shift_Del_p.TF44fs|PMF1-BGLAP_ENST00000490491.1_Frame_Shift_Del_p.TF44fs|PMF1_ENST00000466489.1_3'UTR|PMF1_ENST00000368279.3_Frame_Shift_Del_p.TF44fs|PMF1-BGLAP_ENST00000368276.4_Frame_Shift_Del_p.TF44fs|PMF1_ENST00000368273.4_Frame_Shift_Del_p.TF44fs|PMF1-BGLAP_ENST00000320139.5_Frame_Shift_Del_p.TF44fs	NM_007221.3	NP_009152.2			polyamine-modulated factor 1											kidney(1)|large_intestine(2)|lung(3)	6	Hepatocellular(266;0.158)					TGGTGGACACTTTTCTTCAGAA	0.599													24	50	---	---	---	---					
TPTE2P1	646405	broad.mit.edu	37	13	25527490	25527491	+	RNA	INS	-	-	AAAAAG			TCGA-SR-A6MX-06A-11D-A35I-08	TCGA-SR-A6MX-10A-01D-A35G-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	8ec6403c-ac62-411c-83b9-7ec554a54d89	99e20de7-1106-4a42-a936-dfcc7017ed47	g.chr13:25527490_25527491insAAAAAG	ENST00000429698.1	-	0	282																											AGGAAGGTTCTAAAAAAAATTT	0.252													4	4	---	---	---	---					
NUDT11	55190	broad.mit.edu	37	X	51239296	51239309	+	Translation_Start_Site	DEL	TCCTCGAGGCAGCC	TCCTCGAGGCAGCC	-	rs78182391		TCGA-SR-A6MX-06A-11D-A35I-08	TCGA-SR-A6MX-10A-01D-A35G-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	8ec6403c-ac62-411c-83b9-7ec554a54d89	99e20de7-1106-4a42-a936-dfcc7017ed47	g.chrX:51239296_51239309delTCCTCGAGGCAGCC	ENST00000375992.3	-	0	139_152					NM_018159.3	NP_060629.2	Q96G61	NUD11_HUMAN	nudix (nucleoside diphosphate linked moiety X)-type motif 11							cytoplasm	diphosphoinositol-polyphosphate diphosphatase activity|metal ion binding	p.?(5)		breast(1)|central_nervous_system(1)|endometrium(1)|large_intestine(1)|lung(2)|prostate(1)|upper_aerodigestive_tract(2)	9	Ovarian(276;0.236)					TTGCACTTCATCCTCGAGGCAGCCTCCTCGAGGC	0.692										HNSCC(48;0.14)			4	7	---	---	---	---					
ATRX	546	broad.mit.edu	37	X	76777841	76777841	+	Frame_Shift_Del	DEL	G	G	-			TCGA-SR-A6MX-06A-11D-A35I-08	TCGA-SR-A6MX-10A-01D-A35G-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	8ec6403c-ac62-411c-83b9-7ec554a54d89	99e20de7-1106-4a42-a936-dfcc7017ed47	g.chrX:76777841delG	ENST00000373344.5	-	32	7089	c.6875delC	c.(6874-6876)cafs	p.P2292fs	ATRX_ENST00000395603.3_Frame_Shift_Del_p.P2254fs|ATRX_ENST00000480283.1_5'UTR	NM_000489.3	NP_000480.2	P46100	ATRX_HUMAN	alpha thalassemia/mental retardation syndrome X-linked	2292					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			bone(1)|breast(6)|central_nervous_system(31)|cervix(2)|endometrium(7)|haematopoietic_and_lymphoid_tissue(15)|kidney(14)|large_intestine(1)|liver(1)|lung(40)|ovary(2)|pancreas(13)|prostate(5)|skin(2)|upper_aerodigestive_tract(3)|urinary_tract(2)	145					Phosphatidylserine(DB00144)	GGTCCCAGTTGGTATGTTGAA	0.383			"""Mis, F, N"""		"""Pancreatic neuroendocrine tumors, paediatric GBM"""		ATR-X (alpha thalassemia/mental retardation) syndrome						47	25	---	---	---	---