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
KRT75	9119	broad.mit.edu	37	12	52826917	52826917	+	Silent	SNP	C	C	T			TCGA-RY-A83Y-01A-11D-A36O-08	TCGA-RY-A83Y-10A-01D-A367-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	ccd64d5e-ef83-4d59-afee-255bf044af2e	4a4dbfc4-a72d-4c24-ba49-b7ceb25c9b18	g.chr12:52826917C>T	ENST00000252245.5	-	2	838	c.618G>A	c.(616-618)gaG>gaA	p.E206E		NM_004693.2	NP_004684.2	O95678	K2C75_HUMAN	keratin 75	206	Coil 1B.|Rod.					keratin filament	structural molecule activity			central_nervous_system(1)|endometrium(1)|kidney(1)|large_intestine(13)|lung(10)|prostate(1)|skin(1)	28				BRCA - Breast invasive adenocarcinoma(357;0.192)		GCCGTCGGAGCTCACTGGTAT	0.552000													50	68					0	0	1	0	0
HIVEP2	3097	broad.mit.edu	37	6	143091825	143091825	+	Missense_Mutation	SNP	T	T	C			TCGA-RY-A83Y-01A-11D-A36O-08	TCGA-RY-A83Y-10A-01D-A367-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	ccd64d5e-ef83-4d59-afee-255bf044af2e	4a4dbfc4-a72d-4c24-ba49-b7ceb25c9b18	g.chr6:143091825T>C	ENST00000367603.2	-	5	4793	c.4051A>G	c.(4051-4053)Aca>Gca	p.T1351A	HIVEP2_ENST00000012134.2_Missense_Mutation_p.T1351A|HIVEP2_ENST00000367604.1_Missense_Mutation_p.T1351A	NM_006734.3	NP_006725.3	P31629	ZEP2_HUMAN	human immunodeficiency virus type I enhancer binding protein 2	1351					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			NS(2)|breast(4)|central_nervous_system(6)|endometrium(7)|haematopoietic_and_lymphoid_tissue(2)|kidney(7)|large_intestine(19)|lung(35)|ovary(4)|prostate(6)|skin(4)|stomach(1)|upper_aerodigestive_tract(2)|urinary_tract(1)	100				OV - Ovarian serous cystadenocarcinoma(155;1.61e-05)|GBM - Glioblastoma multiforme(68;0.0102)		GAAATGCTTGTGTACATGACA	0.498000													5	73					0	0	1	0	0
TTN	7273	broad.mit.edu	37	2	179463526	179463526	+	Missense_Mutation	SNP	C	C	T			TCGA-RY-A83Y-01A-11D-A36O-08	TCGA-RY-A83Y-10A-01D-A367-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	ccd64d5e-ef83-4d59-afee-255bf044af2e	4a4dbfc4-a72d-4c24-ba49-b7ceb25c9b18	g.chr2:179463526C>T	ENST00000589042.1	-	291	57135	c.56911G>A	c.(56911-56913)Gtg>Atg	p.V18971M	TTN_ENST00000342992.6_Missense_Mutation_p.V16403M|TTN-AS1_ENST00000589830.1_RNA|TTN-AS1_ENST00000586452.1_RNA|TTN-AS1_ENST00000419746.1_RNA|TTN-AS1_ENST00000585451.1_RNA|TTN-AS1_ENST00000592750.1_RNA|TTN_ENST00000342175.6_Missense_Mutation_p.V10098M|TTN-AS1_ENST00000590807.1_RNA|TTN-AS1_ENST00000589907.1_RNA|TTN_ENST00000591111.1_Missense_Mutation_p.V17330M|TTN-AS1_ENST00000589234.1_RNA|TTN_ENST00000359218.5_Missense_Mutation_p.V10031M|TTN_ENST00000460472.2_Missense_Mutation_p.V9906M|TTN-AS1_ENST00000456053.1_RNA|TTN-AS1_ENST00000592630.1_RNA	NM_001267550.1	NP_001254479.1	Q8WZ42	TITIN_HUMAN	titin	17330	Fibronectin type-III 37.						ATP binding|nucleic acid binding|protein serine/threonine kinase activity|protein tyrosine kinase activity			NS(24)|autonomic_ganglia(1)|breast(64)|central_nervous_system(14)|cervix(14)|endometrium(96)|haematopoietic_and_lymphoid_tissue(16)|kidney(91)|large_intestine(303)|liver(1)|lung(595)|ovary(58)|pancreas(17)|prostate(38)|skin(60)|stomach(29)|upper_aerodigestive_tract(1)|urinary_tract(26)	1448			OV - Ovarian serous cystadenocarcinoma(117;0.023)|Epithelial(96;0.0454)|all cancers(119;0.134)			GCTGGACCCACGCCAGCAGCA	0.428000													73	96					0	0	1	0	0
AUTS2	26053	broad.mit.edu	37	7	70231294	70231294	+	Missense_Mutation	SNP	A	A	G			TCGA-RY-A83Y-01A-11D-A36O-08	TCGA-RY-A83Y-10A-01D-A367-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	ccd64d5e-ef83-4d59-afee-255bf044af2e	4a4dbfc4-a72d-4c24-ba49-b7ceb25c9b18	g.chr7:70231294A>G	ENST00000342771.4	+	9	1984	c.1663A>G	c.(1663-1665)Atc>Gtc	p.I555V	AUTS2_ENST00000406775.2_Missense_Mutation_p.I555V	NM_015570.2	NP_056385.1	Q8WXX7	AUTS2_HUMAN	autism susceptibility candidate 2	555										breast(2)|central_nervous_system(2)|endometrium(6)|haematopoietic_and_lymphoid_tissue(1)|kidney(2)|large_intestine(12)|lung(14)|ovary(4)|prostate(2)|skin(4)|urinary_tract(1)	50		all_cancers(73;0.0264)|all_epithelial(88;0.0198)|Lung NSC(55;0.0599)|all_lung(88;0.093)		LUSC - Lung squamous cell carcinoma(90;0.082)|Lung(90;0.186)		ACCCACCGCCATCATGCCGAC	0.617000													27	32					0	0	1	0	0
CDKN2C	1031	broad.mit.edu	37	1	51439739	51439739	+	Nonsense_Mutation	SNP	G	G	T			TCGA-RY-A83Y-01A-11D-A36O-08	TCGA-RY-A83Y-10A-01D-A367-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	ccd64d5e-ef83-4d59-afee-255bf044af2e	4a4dbfc4-a72d-4c24-ba49-b7ceb25c9b18	g.chr1:51439739G>T	ENST00000262662.1	+	4	2338	c.304G>T	c.(304-306)Gaa>Taa	p.E102*	CDKN2C_ENST00000396148.1_Nonsense_Mutation_p.E102*|CDKN2C_ENST00000371761.3_Nonsense_Mutation_p.E102*			P42773	CDN2C_HUMAN	cyclin-dependent kinase inhibitor 2C (p18, inhibits CDK4)	102					cell cycle arrest|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|regulation of cyclin-dependent protein kinase activity	cytosol|nucleus	cyclin-dependent protein kinase inhibitor activity|protein kinase binding	p.0?(11)|p.?(1)		central_nervous_system(8)|haematopoietic_and_lymphoid_tissue(5)|kidney(2)|large_intestine(2)|lung(2)|ovary(2)|prostate(1)|thyroid(1)	23				GBM - Glioblastoma multiforme(3;3.61e-13)|all cancers(3;0.00151)		CGAGGATAATGAAGGGAACCT	0.532000			D		"""glioma, MM"""								29	9					4.22769e-11	4.33339e-11	1	1	0
OR1G1	8390	broad.mit.edu	37	17	3029996	3029996	+	Missense_Mutation	SNP	T	T	C			TCGA-RY-A83Y-01A-11D-A36O-08	TCGA-RY-A83Y-10A-01D-A367-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	ccd64d5e-ef83-4d59-afee-255bf044af2e	4a4dbfc4-a72d-4c24-ba49-b7ceb25c9b18	g.chr17:3029996T>C	ENST00000328890.2	-	1	879	c.850A>G	c.(850-852)Atg>Gtg	p.M284V		NM_003555.1	NP_003546.1	P47890	OR1G1_HUMAN	olfactory receptor, family 1, subfamily G, member 1	284					sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			kidney(1)|large_intestine(4)|lung(3)|skin(3)	11						GGATTCAACATTGGAGTTACC	0.428000													4	63					0	0	1	0	0
AGPAT9	84803	broad.mit.edu	37	4	84519288	84519288	+	Missense_Mutation	SNP	G	G	A			TCGA-RY-A83Y-01A-11D-A36O-08	TCGA-RY-A83Y-10A-01D-A367-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	ccd64d5e-ef83-4d59-afee-255bf044af2e	4a4dbfc4-a72d-4c24-ba49-b7ceb25c9b18	g.chr4:84519288G>A	ENST00000395226.2	+	11	1299	c.1081G>A	c.(1081-1083)Gcc>Acc	p.A361T	AGPAT9_ENST00000264409.4_Missense_Mutation_p.A361T	NM_001256421.1	NP_001243350.1	Q53EU6	GPAT3_HUMAN	1-acylglycerol-3-phosphate O-acyltransferase 9	361					phospholipid biosynthetic process|regulation of TOR signaling cascade|triglyceride biosynthetic process	endoplasmic reticulum membrane|integral to membrane	glycerol-3-phosphate O-acyltransferase activity			endometrium(1)|kidney(1)|large_intestine(4)|lung(4)|skin(3)	13		Hepatocellular(203;0.114)				GACCAGCTGGGCCATCGTCTG	0.453000													32	50					0	0	1	0	0
ATP5B	506	broad.mit.edu	37	12	57037371	57037371	+	Splice_Site	SNP	C	C	T			TCGA-RY-A83Y-01A-11D-A36O-08	TCGA-RY-A83Y-10A-01D-A367-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	ccd64d5e-ef83-4d59-afee-255bf044af2e	4a4dbfc4-a72d-4c24-ba49-b7ceb25c9b18	g.chr12:57037371C>T	ENST00000262030.3	-	5	658	c.608G>A	c.(607-609)gGg>gAg	p.G203E	ATP5B_ENST00000552919.1_Splice_Site_p.G203E	NM_001686.3	NP_001677.2	P06576	ATPB_HUMAN	ATP synthase, H+ transporting, mitochondrial F1 complex, beta polypeptide	203					angiogenesis|ATP hydrolysis coupled proton transport|regulation of intracellular pH|respiratory electron transport chain	cell surface|mitochondrial nucleoid|mitochondrial proton-transporting ATP synthase, catalytic core|plasma membrane	ATP binding|eukaryotic cell surface binding|hydrogen ion transporting ATP synthase activity, rotational mechanism|hydrogen-exporting ATPase activity, phosphorylative mechanism|MHC class I protein binding|proton-transporting ATPase activity, rotational mechanism			breast(1)|endometrium(3)|kidney(2)|large_intestine(3)|lung(5)|ovary(1)|prostate(1)|skin(1)|upper_aerodigestive_tract(1)|urinary_tract(1)	19						ACCAAAAAGCCCTATAAGAGG	0.393000													27	42					0	0	1	0	0
MAN1A1	4121	broad.mit.edu	37	6	119510998	119510998	+	Silent	SNP	G	G	A			TCGA-RY-A83Y-01A-11D-A36O-08	TCGA-RY-A83Y-10A-01D-A367-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	ccd64d5e-ef83-4d59-afee-255bf044af2e	4a4dbfc4-a72d-4c24-ba49-b7ceb25c9b18	g.chr6:119510998G>A	ENST00000368468.3	-	10	1818	c.1377C>T	c.(1375-1377)atC>atT	p.I459I		NM_005907.3	NP_005898.2	P33908	MA1A1_HUMAN	mannosidase, alpha, class 1A, member 1	459					post-translational protein modification|protein N-linked glycosylation via asparagine	endoplasmic reticulum|ER-Golgi intermediate compartment|Golgi membrane|integral to membrane|membrane fraction	calcium ion binding|mannosyl-oligosaccharide 1,2-alpha-mannosidase activity	p.I459I(2)		central_nervous_system(1)|endometrium(2)|large_intestine(6)|lung(8)|ovary(2)|prostate(2)|skin(3)	24		all_epithelial(87;0.173)		OV - Ovarian serous cystadenocarcinoma(136;0.0612)|GBM - Glioblastoma multiforme(226;0.0702)|all cancers(137;0.115)		TCCACTCTGCGATATAAGTTA	0.498000													7	50					0	0	1	0	0
CASKIN2	57513	broad.mit.edu	37	17	73498194	73498194	+	Silent	SNP	T	T	C			TCGA-RY-A83Y-01A-11D-A36O-08	TCGA-RY-A83Y-10A-01D-A367-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	ccd64d5e-ef83-4d59-afee-255bf044af2e	4a4dbfc4-a72d-4c24-ba49-b7ceb25c9b18	g.chr17:73498194T>C	ENST00000321617.3	-	18	3547	c.2961A>G	c.(2959-2961)tcA>tcG	p.S987S	CASKIN2_ENST00000433559.2_Silent_p.S905S	NM_020753.3	NP_065804.2	Q8WXE0	CSKI2_HUMAN	CASK interacting protein 2	987	Pro-rich.					cytoplasm				endometrium(1)|kidney(3)|lung(7)|ovary(2)|pancreas(1)|prostate(1)|skin(2)|urinary_tract(1)	18	all_cancers(13;3.15e-09)|all_epithelial(9;5.78e-10)|Breast(9;5.8e-10)|all_lung(278;0.246)		all cancers(21;4.57e-07)|Epithelial(20;2.92e-06)|Lung(188;0.0809)|LUSC - Lung squamous cell carcinoma(166;0.154)			TAACAGTGTCTGATTCCGTGA	0.677000													18	22					0	0	1	0	0
UBE2W	55284	broad.mit.edu	37	8	74737473	74737473	+	Missense_Mutation	SNP	T	T	C			TCGA-RY-A83Y-01A-11D-A36O-08	TCGA-RY-A83Y-10A-01D-A367-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	ccd64d5e-ef83-4d59-afee-255bf044af2e	4a4dbfc4-a72d-4c24-ba49-b7ceb25c9b18	g.chr8:74737473T>C	ENST00000517608.1	-	3	206	c.206A>G	c.(205-207)gAc>gGc	p.D69G	UBE2W_ENST00000602593.1_Missense_Mutation_p.D40G|UBE2W_ENST00000602969.1_Missense_Mutation_p.D51G|UBE2W_ENST00000453587.2_Missense_Mutation_p.D40G|UBE2W_ENST00000419880.3_Missense_Mutation_p.D80G|RP11-463D19.2_ENST00000358757.5_Missense_Mutation_p.D40G	NM_018299.4	NP_060769.4	Q96B02	UBE2W_HUMAN	ubiquitin-conjugating enzyme E2W (putative)	40					protein K11-linked ubiquitination|protein monoubiquitination		ATP binding|protein binding|ubiquitin-protein ligase activity			kidney(1)|lung(1)	2	Breast(64;0.0311)		Epithelial(68;0.0235)|all cancers(69;0.0687)|BRCA - Breast invasive adenocarcinoma(89;0.069)			ACCTTCCATGTCTACAATCCA	0.373000													6	2					0	0	1	0	0
SEMA7A	8482	broad.mit.edu	37	15	74708176	74708176	+	Missense_Mutation	SNP	C	C	T			TCGA-RY-A83Y-01A-11D-A36O-08	TCGA-RY-A83Y-10A-01D-A367-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	ccd64d5e-ef83-4d59-afee-255bf044af2e	4a4dbfc4-a72d-4c24-ba49-b7ceb25c9b18	g.chr15:74708176C>T	ENST00000261918.4	-	8	1500	c.952G>A	c.(952-954)Gac>Aac	p.D318N	SEMA7A_ENST00000543145.2_Missense_Mutation_p.D304N|SEMA7A_ENST00000542748.1_Missense_Mutation_p.D153N	NM_003612.3	NP_003603.1	O75326	SEM7A_HUMAN	semaphorin 7A, GPI membrane anchor (John Milton Hagen blood group)	318	Sema.				axon guidance|immune response|inflammatory response|integrin-mediated signaling pathway|positive regulation of axon extension|positive regulation of ERK1 and ERK2 cascade|positive regulation of macrophage cytokine production|regulation of inflammatory response	anchored to membrane|external side of plasma membrane	receptor activity			breast(3)|central_nervous_system(1)|endometrium(6)|haematopoietic_and_lymphoid_tissue(4)|large_intestine(3)|lung(12)|upper_aerodigestive_tract(1)	30						ACCCTGGTGTCCCTCCACTGG	0.592000													8	22					0	0	1	0	0
NTRK3	4916	broad.mit.edu	37	15	88576211	88576211	+	Missense_Mutation	SNP	T	T	C			TCGA-RY-A83Y-01A-11D-A36O-08	TCGA-RY-A83Y-10A-01D-A367-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	ccd64d5e-ef83-4d59-afee-255bf044af2e	4a4dbfc4-a72d-4c24-ba49-b7ceb25c9b18	g.chr15:88576211T>C	ENST00000394480.2	-	14	1783	c.1462A>G	c.(1462-1464)Atc>Gtc	p.I488V	NTRK3_ENST00000355254.2_Missense_Mutation_p.I488V|NTRK3_ENST00000317501.3_Missense_Mutation_p.I488V|NTRK3_ENST00000558676.1_Missense_Mutation_p.I480V|NTRK3_ENST00000542733.2_Missense_Mutation_p.I390V|NTRK3_ENST00000557856.1_Missense_Mutation_p.I480V|NTRK3_ENST00000357724.2_Missense_Mutation_p.I480V|NTRK3_ENST00000360948.2_Missense_Mutation_p.I488V|NTRK3_ENST00000558306.1_5'UTR|NTRK3_ENST00000540489.2_Missense_Mutation_p.I488V	NM_001243101.1|NM_002530.3	NP_001230030.1|NP_002521.2	Q16288	NTRK3_HUMAN	neurotrophic tyrosine kinase, receptor, type 3						transmembrane receptor protein tyrosine kinase signaling pathway	integral to plasma membrane	ATP binding|transmembrane receptor protein tyrosine kinase activity		ETV6/NTRK3(238)	breast(3)|central_nervous_system(3)|endometrium(6)|kidney(1)|large_intestine(22)|lung(63)|ovary(6)|pancreas(3)|prostate(1)|skin(4)|stomach(5)|upper_aerodigestive_tract(2)	119			BRCA - Breast invasive adenocarcinoma(143;0.211)			GGCGTGGTGATGCCGTGGTTG	0.607000			T	ETV6	"""congenital fibrosarcoma, Secretory breast """					TSP Lung(13;0.10)			18	13					0	0	1	0	0
KLHL10	317719	broad.mit.edu	37	17	40001799	40001799	+	Missense_Mutation	SNP	T	T	C			TCGA-RY-A83Y-01A-11D-A36O-08	TCGA-RY-A83Y-10A-01D-A367-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	ccd64d5e-ef83-4d59-afee-255bf044af2e	4a4dbfc4-a72d-4c24-ba49-b7ceb25c9b18	g.chr17:40001799T>C	ENST00000293303.4	+	3	1259	c.1106T>C	c.(1105-1107)gTg>gCg	p.V369A		NM_152467.3	NP_689680.2	Q6JEL2	KLH10_HUMAN	kelch-like family member 10	369						cytoplasm				breast(1)|central_nervous_system(1)|endometrium(3)|kidney(2)|large_intestine(5)|lung(7)|ovary(1)|skin(4)|stomach(1)|upper_aerodigestive_tract(1)	26		Breast(137;0.000162)				TGGCATCAGGTGGCCCCGATG	0.438000													38	74					0	0	1	0	0
ZFHX4	79776	broad.mit.edu	37	8	77761931	77761931	+	Missense_Mutation	SNP	G	G	C			TCGA-RY-A83Y-01A-11D-A36O-08	TCGA-RY-A83Y-10A-01D-A367-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	ccd64d5e-ef83-4d59-afee-255bf044af2e	4a4dbfc4-a72d-4c24-ba49-b7ceb25c9b18	g.chr8:77761931G>C	ENST00000521891.2	+	8	4277	c.3829G>C	c.(3829-3831)Gag>Cag	p.E1277Q	ZFHX4_ENST00000518282.1_Missense_Mutation_p.E1251Q|ZFHX4_ENST00000455469.2_Missense_Mutation_p.E1232Q|ZFHX4_ENST00000050961.6_Missense_Mutation_p.E1232Q	NM_024721.4	NP_078997.4	Q86UP3	ZFHX4_HUMAN	zinc finger homeobox 4	1232						nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			NS(3)|breast(11)|central_nervous_system(1)|endometrium(36)|haematopoietic_and_lymphoid_tissue(2)|kidney(15)|large_intestine(66)|liver(2)|lung(245)|ovary(11)|pancreas(3)|prostate(11)|skin(7)|upper_aerodigestive_tract(13)|urinary_tract(6)	432			BRCA - Breast invasive adenocarcinoma(89;0.0895)			AGACTGTGTGGAGAAGCTGCT	0.428000										HNSCC(33;0.089)			3	32					0	0	1	0	0
SMARCD2	6603	broad.mit.edu	37	17	61911857	61911857	+	Missense_Mutation	SNP	G	G	A			TCGA-RY-A83Y-01A-11D-A36O-08	TCGA-RY-A83Y-10A-01D-A367-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	ccd64d5e-ef83-4d59-afee-255bf044af2e	4a4dbfc4-a72d-4c24-ba49-b7ceb25c9b18	g.chr17:61911857G>A	ENST00000448276.2	-	7	1163	c.898C>T	c.(898-900)Ctc>Ttc	p.L300F	SMARCD2_ENST00000225742.9_Missense_Mutation_p.L225F|SMARCD2_ENST00000323347.10_Missense_Mutation_p.L252F	NM_001098426.1	NP_001091896.1	Q92925	SMRD2_HUMAN	SWI/SNF related, matrix associated, actin dependent regulator of chromatin, subfamily d, member 2	300					chromatin modification|regulation of transcription from RNA polymerase II promoter|transcription, DNA-dependent	SWI/SNF complex	protein binding|transcription coactivator activity			central_nervous_system(1)|endometrium(4)|kidney(1)|large_intestine(1)|lung(1)	8						ATGAGCAGGAGGGTGCACTTG	0.602000											OREG0024642	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	41	83					0	0	1	0	0
IDH1	3417	broad.mit.edu	37	2	209113112	209113112	+	Missense_Mutation	SNP	C	C	T	rs121913500		TCGA-RY-A83Y-01A-11D-A36O-08	TCGA-RY-A83Y-10A-01D-A367-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	ccd64d5e-ef83-4d59-afee-255bf044af2e	4a4dbfc4-a72d-4c24-ba49-b7ceb25c9b18	g.chr2:209113112C>T	ENST00000415913.1	-	4	776	c.395G>A	c.(394-396)cGt>cAt	p.R132H	IDH1_ENST00000446179.1_Missense_Mutation_p.R132H|IDH1_ENST00000345146.2_Missense_Mutation_p.R132H	NM_001282387.1	NP_001269316.1	O75874	IDHC_HUMAN	isocitrate dehydrogenase 1 (NADP+), soluble	132			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).|R -> G (in a glioma sample; glioblastoma multiforme; somatic mutation).|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 -> 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).		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(2774)|p.R132L(59)|p.R132V(1)|p.G131_R132>VL(1)		NS(1)|autonomic_ganglia(2)|biliary_tract(24)|bone(237)|central_nervous_system(3764)|endometrium(3)|haematopoietic_and_lymphoid_tissue(794)|kidney(2)|large_intestine(7)|lung(7)|prostate(6)|skin(5)|soft_tissue(12)|thyroid(22)|urinary_tract(1)	4887				Epithelial(149;0.0322)|LUSC - Lung squamous cell carcinoma(261;0.0711)|Lung(261;0.136)		ATAAGCATGACGACCTATGAT	0.393000			Mis		gliobastoma								32	47					0	0	1	0	0
ACSL6	23305	broad.mit.edu	37	5	131309076	131309076	+	Silent	SNP	G	G	A			TCGA-RY-A83Y-01A-11D-A36O-08	TCGA-RY-A83Y-10A-01D-A367-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	ccd64d5e-ef83-4d59-afee-255bf044af2e	4a4dbfc4-a72d-4c24-ba49-b7ceb25c9b18	g.chr5:131309076G>A	ENST00000379264.2	-	12	1194	c.1086C>T	c.(1084-1086)caC>caT	p.H362H	ACSL6_ENST00000544770.1_Silent_p.H246H|ACSL6_ENST00000379246.1_Silent_p.H348H|ACSL6_ENST00000379249.3_Silent_p.H337H|ACSL6_ENST00000379240.1_Silent_p.H337H|ACSL6_ENST00000379244.1_Silent_p.H337H|ACSL6_ENST00000379255.1_Intron|ACSL6_ENST00000357096.1_Intron|ACSL6_ENST00000296869.4_Silent_p.H362H|ACSL6_ENST00000543479.1_Silent_p.H337H|ACSL6_ENST00000379272.2_Silent_p.H352H|ACSL6_ENST00000431707.1_Silent_p.H317H	NM_001009185.2	NP_001009185.1	Q9UKU0	ACSL6_HUMAN	acyl-CoA synthetase long-chain family member 6	337					fatty acid metabolic process|long-chain fatty-acyl-CoA biosynthetic process|triglyceride biosynthetic process	endoplasmic reticulum membrane|integral to membrane|microsome|mitochondrial outer membrane|peroxisomal membrane|plasma membrane	ATP binding|long-chain fatty acid-CoA ligase activity			NS(1)|breast(1)|endometrium(2)|kidney(4)|large_intestine(8)|lung(12)|ovary(1)|prostate(1)|skin(4)|upper_aerodigestive_tract(1)	35		all_cancers(142;0.107)|Breast(839;0.198)|Lung NSC(810;0.216)|all_lung(232;0.248)	KIRC - Kidney renal clear cell carcinoma(527;0.0186)|Kidney(363;0.0365)			CACGCCCTCCGTGGCAATAGA	0.552000													21	14					0	0	1	0	0
FAM71B	153745	broad.mit.edu	37	5	156593091	156593091	+	Missense_Mutation	SNP	C	C	T			TCGA-RY-A83Y-01A-11D-A36O-08	TCGA-RY-A83Y-10A-01D-A367-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	ccd64d5e-ef83-4d59-afee-255bf044af2e	4a4dbfc4-a72d-4c24-ba49-b7ceb25c9b18	g.chr5:156593091C>T	ENST00000302938.4	-	1	184	c.89G>A	c.(88-90)cGa>cAa	p.R30Q		NM_130899.2	NP_570969.2	Q8TC56	FA71B_HUMAN	family with sequence similarity 71, member B	30						nucleus				NS(3)|breast(1)|central_nervous_system(3)|cervix(1)|endometrium(2)|kidney(5)|large_intestine(10)|lung(32)|ovary(4)|pancreas(1)|prostate(1)|skin(3)|upper_aerodigestive_tract(2)	68	Renal(175;0.00212)	Medulloblastoma(196;0.0523)|all_neural(177;0.21)	Kidney(164;0.000171)|KIRC - Kidney renal clear cell carcinoma(164;0.000785)			GTACAATTGTCGTTGCAGGTC	0.403000													8	128					0	0	1	0	0
HAO2	51179	broad.mit.edu	37	1	119934802	119934802	+	Nonsense_Mutation	SNP	C	C	T			TCGA-RY-A83Y-01A-11D-A36O-08	TCGA-RY-A83Y-10A-01D-A367-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	ccd64d5e-ef83-4d59-afee-255bf044af2e	4a4dbfc4-a72d-4c24-ba49-b7ceb25c9b18	g.chr1:119934802C>T	ENST00000361035.4	+	7	1163	c.880C>T	c.(880-882)Cga>Tga	p.R294*	HAO2_ENST00000325945.3_Nonsense_Mutation_p.R281*			Q9NYQ3	HAOX2_HUMAN	hydroxyacid oxidase 2 (long chain)	281	FMN hydroxy acid dehydrogenase.			LGA -> HED (in Ref. 2; AAF14000).	fatty acid alpha-oxidation	peroxisome	(S)-2-hydroxy-acid oxidase activity	p.R281*(1)		breast(1)|endometrium(6)|kidney(2)|large_intestine(5)|lung(10)|ovary(2)|skin(2)|upper_aerodigestive_tract(2)	30	all_neural(166;0.187)	all_lung(203;1.06e-06)|Lung NSC(69;7.5e-06)|all_epithelial(167;0.000284)		Lung(183;0.0155)|LUSC - Lung squamous cell carcinoma(189;0.0856)		TGGCGGGGTCCGAACTGGCAA	0.527000													24	4					0	0	1	0	0
MYL5	4636	broad.mit.edu	37	4	672778	672778	+	Missense_Mutation	SNP	G	G	C			TCGA-RY-A83Y-01A-11D-A36O-08	TCGA-RY-A83Y-10A-01D-A367-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	ccd64d5e-ef83-4d59-afee-255bf044af2e	4a4dbfc4-a72d-4c24-ba49-b7ceb25c9b18	g.chr4:672778G>C	ENST00000506838.1	+	4	2544	c.20G>C	c.(19-21)gGc>gCc	p.G7A	MYL5_ENST00000505477.1_Missense_Mutation_p.G7A|MYL5_ENST00000511290.1_Missense_Mutation_p.G7A|MYL5_ENST00000400159.2_Missense_Mutation_p.G48A			Q02045	MYL5_HUMAN	myosin, light chain 5, regulatory	48					regulation of muscle contraction	muscle myosin complex	calcium ion binding|structural constituent of muscle			endometrium(1)|kidney(1)|lung(1)	3						AACCGAGATGGCTTCATTGAC	0.627000													27	66					0	0	1	0	0
RPL26L1	51121	broad.mit.edu	37	5	172395514	172395514	+	Missense_Mutation	SNP	A	A	G			TCGA-RY-A83Y-01A-11D-A36O-08	TCGA-RY-A83Y-10A-01D-A367-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	ccd64d5e-ef83-4d59-afee-255bf044af2e	4a4dbfc4-a72d-4c24-ba49-b7ceb25c9b18	g.chr5:172395514A>G	ENST00000521476.1	+	3	345	c.221A>G	c.(220-222)tAc>tGc	p.Y74C	RPL26L1_ENST00000519239.1_Missense_Mutation_p.Y74C|RPL26L1_ENST00000519974.1_Missense_Mutation_p.Y74C|RPL26L1_ENST00000265100.2_Missense_Mutation_p.Y74C			Q9UNX3	RL26L_HUMAN	ribosomal protein L26-like 1	74					endocrine pancreas development|translational elongation|translational termination|viral transcription	cytosol|large ribosomal subunit	structural constituent of ribosome			breast(1)|endometrium(1)|kidney(1)|lung(2)|prostate(1)|urinary_tract(1)	7	Renal(175;0.000159)|Lung NSC(126;0.00344)|all_lung(126;0.00594)	Medulloblastoma(196;0.0208)|all_neural(177;0.0416)	Kidney(164;7.24e-05)|KIRC - Kidney renal clear cell carcinoma(164;0.000516)			GTCCAGGTGTACAGAAAGAAA	0.478000													5	174					0	0	1	0	0
TDRD7	23424	broad.mit.edu	37	9	100204054	100204054	+	Missense_Mutation	SNP	G	G	A			TCGA-RY-A83Y-01A-11D-A36O-08	TCGA-RY-A83Y-10A-01D-A367-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	ccd64d5e-ef83-4d59-afee-255bf044af2e	4a4dbfc4-a72d-4c24-ba49-b7ceb25c9b18	g.chr9:100204054G>A	ENST00000355295.4	+	6	1047	c.752G>A	c.(751-753)gGc>gAc	p.G251D	TDRD7_ENST00000422139.2_Missense_Mutation_p.G177D	NM_014290.2	NP_055105.2	Q8NHU6	TDRD7_HUMAN	tudor domain containing 7	251	Lotus/OST-HTH 2.				lens fiber cell differentiation|lens morphogenesis in camera-type eye|posttranscriptional regulation of gene expression|spermatogenesis	chromatoid body	mRNA binding			endometrium(3)|kidney(4)|large_intestine(6)|lung(8)|ovary(2)|pancreas(1)|prostate(2)|stomach(1)|upper_aerodigestive_tract(1)|urinary_tract(1)	29		Acute lymphoblastic leukemia(62;0.158)				CATAACAATGGCATTTGGATA	0.343000													28	55					0	0	1	0	0
PCDH7	5099	broad.mit.edu	37	4	30921804	30921804	+	Silent	SNP	G	G	A			TCGA-RY-A83Y-01A-11D-A36O-08	TCGA-RY-A83Y-10A-01D-A367-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	ccd64d5e-ef83-4d59-afee-255bf044af2e	4a4dbfc4-a72d-4c24-ba49-b7ceb25c9b18	g.chr4:30921804G>A	ENST00000543491.1	+	2	3204	c.3204G>A	c.(3202-3204)gtG>gtA	p.V1068V	PCDH7_ENST00000509925.1_3'UTR			O60245	PCDH7_HUMAN	protocadherin 7	0					homophilic cell adhesion	integral to plasma membrane	calcium ion binding			NS(1)|breast(2)|endometrium(1)|haematopoietic_and_lymphoid_tissue(2)|kidney(5)|large_intestine(8)|liver(1)|lung(26)|ovary(2)|prostate(2)|skin(3)|upper_aerodigestive_tract(2)	55						TTTCTGTTGTGAGTCAGCCTC	0.428000													19	39					0	0	1	0	0
PYGL	5836	broad.mit.edu	37	14	51382685	51382685	+	Nonsense_Mutation	SNP	C	C	T			TCGA-RY-A83Y-01A-11D-A36O-08	TCGA-RY-A83Y-10A-01D-A367-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	ccd64d5e-ef83-4d59-afee-255bf044af2e	4a4dbfc4-a72d-4c24-ba49-b7ceb25c9b18	g.chr14:51382685C>T	ENST00000216392.7	-	10	1429	c.1097G>A	c.(1096-1098)tGg>tAg	p.W366*	PYGL_ENST00000532462.1_Nonsense_Mutation_p.W366*|PYGL_ENST00000544180.2_Nonsense_Mutation_p.W332*	NM_002863.4	NP_002854.3	P06737	PYGL_HUMAN	phosphorylase, glycogen, liver	366					glucose homeostasis|glucose metabolic process|glycogen catabolic process	cytosol|soluble fraction	AMP binding|ATP binding|bile acid binding|drug binding|glucose binding|glycogen phosphorylase activity|protein homodimerization activity|purine base binding|pyridoxal phosphate binding			NS(1)|central_nervous_system(2)|cervix(1)|endometrium(1)|kidney(1)|large_intestine(7)|lung(8)|prostate(1)|skin(3)	25	all_epithelial(31;0.00825)|Breast(41;0.148)				Adenosine monophosphate(DB00131)|Pyridoxal Phosphate(DB00114)|Riboflavin(DB00140)	GGTGAGCTCCCATGCCTGGGG	0.632000													23	32					0	0	1	0	0
RASGRP1	10125	broad.mit.edu	37	15	38793398	38793398	+	Missense_Mutation	SNP	G	G	T			TCGA-RY-A83Y-01A-11D-A36O-08	TCGA-RY-A83Y-10A-01D-A367-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	ccd64d5e-ef83-4d59-afee-255bf044af2e	4a4dbfc4-a72d-4c24-ba49-b7ceb25c9b18	g.chr15:38793398G>T	ENST00000310803.5	-	13	1806	c.1629C>A	c.(1627-1629)aaC>aaA	p.N543K	RASGRP1_ENST00000450598.2_Missense_Mutation_p.N508K|RASGRP1_ENST00000539159.1_Missense_Mutation_p.N495K|RASGRP1_ENST00000558164.1_Missense_Mutation_p.N508K|RASGRP1_ENST00000559830.1_Missense_Mutation_p.N508K|RASGRP1_ENST00000561180.1_Missense_Mutation_p.N594K	NM_001128602.1|NM_005739.3	NP_001122074.1|NP_005730.2	O95267	GRP1_HUMAN	RAS guanyl releasing protein 1 (calcium and DAG-regulated)	543					cell differentiation|platelet activation|Ras protein signal transduction|regulation of small GTPase mediated signal transduction	cytosol|endoplasmic reticulum membrane|Golgi membrane|membrane fraction|plasma membrane	calcium ion binding|guanyl-nucleotide exchange factor activity|lipid binding|protein binding			breast(1)|central_nervous_system(1)|endometrium(2)|kidney(1)|large_intestine(8)|lung(2)|ovary(1)|skin(1)|upper_aerodigestive_tract(2)|urinary_tract(1)	20		all_cancers(109;6.38e-17)|all_epithelial(112;5.51e-15)|Lung NSC(122;2.12e-11)|all_lung(180;5.63e-10)|Melanoma(134;0.0574)		GBM - Glioblastoma multiforme(113;1.97e-07)|BRCA - Breast invasive adenocarcinoma(123;0.00248)		TCTCTTGGAAGTTGTGAGGAA	0.522000													25	34					4.72057e-08	4.72057e-08	1	1	0
FUBP1	8880	broad.mit.edu	37	1	78429797	78429797	+	Nonsense_Mutation	SNP	G	G	A			TCGA-RY-A83Y-01A-11D-A36O-08	TCGA-RY-A83Y-10A-01D-A367-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	ccd64d5e-ef83-4d59-afee-255bf044af2e	4a4dbfc4-a72d-4c24-ba49-b7ceb25c9b18	g.chr1:78429797G>A	ENST00000370767.1	-	12	1078	c.991C>T	c.(991-993)Cga>Tga	p.R331*	FUBP1_ENST00000436586.2_Nonsense_Mutation_p.R352*|FUBP1_ENST00000370768.2_Nonsense_Mutation_p.R331*			Q96AE4	FUBP1_HUMAN	far upstream element (FUSE) binding protein 1	331	KH 3.				transcription from RNA polymerase II promoter	nucleus	protein binding|RNA binding|sequence-specific DNA binding transcription factor activity|single-stranded DNA binding			central_nervous_system(7)|haematopoietic_and_lymphoid_tissue(2)|large_intestine(4)|lung(1)|upper_aerodigestive_tract(3)	17						TGTTGACATCGGTCTGGAGGT	0.323000			"""F, N"""		oligodendroglioma								48	18					0	0	1	0	0
ARHGAP25	9938	broad.mit.edu	37	2	69046419	69046419	+	Nonsense_Mutation	SNP	C	C	T			TCGA-RY-A83Y-01A-11D-A36O-08	TCGA-RY-A83Y-10A-01D-A367-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	ccd64d5e-ef83-4d59-afee-255bf044af2e	4a4dbfc4-a72d-4c24-ba49-b7ceb25c9b18	g.chr2:69046419C>T	ENST00000295381.3	+	9	1584	c.1165C>T	c.(1165-1167)Cga>Tga	p.R389*	ARHGAP25_ENST00000409030.3_Nonsense_Mutation_p.R382*|ARHGAP25_ENST00000409202.3_Nonsense_Mutation_p.R390*|ARHGAP25_ENST00000409220.1_Nonsense_Mutation_p.R383*|ARHGAP25_ENST00000479844.1_Nonsense_Mutation_p.R83*|ARHGAP25_ENST00000497079.1_Nonsense_Mutation_p.R383*|ARHGAP25_ENST00000467265.1_Nonsense_Mutation_p.R350*	NM_001007231.2	NP_001007232.2	P42331	RHG25_HUMAN	Rho GTPase activating protein 25	389					regulation of small GTPase mediated signal transduction|small GTPase mediated signal transduction	cytosol	GTPase activator activity			breast(3)|endometrium(5)|kidney(2)|large_intestine(11)|lung(20)|ovary(3)|prostate(1)|skin(5)|stomach(1)|urinary_tract(1)	52						TGAAGACCTCCGAATTTCTAG	0.532000													36	48					0	0	1	0	0
MAPKBP1	23005	broad.mit.edu	37	15	42107938	42107938	+	Silent	SNP	G	G	A	rs143874014		TCGA-RY-A83Y-01A-11D-A36O-08	TCGA-RY-A83Y-10A-01D-A367-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	ccd64d5e-ef83-4d59-afee-255bf044af2e	4a4dbfc4-a72d-4c24-ba49-b7ceb25c9b18	g.chr15:42107938G>A	ENST00000457542.2	+	12	1720	c.1434G>A	c.(1432-1434)tcG>tcA	p.S478S	MAPKBP1_ENST00000514566.1_Silent_p.S478S|MAPKBP1_ENST00000456763.2_Silent_p.S484S|MAPKBP1_ENST00000221214.6_Silent_p.S361S|MAPKBP1_ENST00000260357.7_Silent_p.S317S	NM_014994.2	NP_055809.2	O60336	MABP1_HUMAN	mitogen-activated protein kinase binding protein 1	484										breast(6)|central_nervous_system(5)|endometrium(5)|haematopoietic_and_lymphoid_tissue(1)|kidney(3)|large_intestine(14)|lung(11)|ovary(1)|pancreas(1)|prostate(2)|skin(4)|upper_aerodigestive_tract(2)|urinary_tract(1)	56		all_cancers(109;7.71e-14)|all_epithelial(112;5.15e-12)|Lung NSC(122;3.74e-08)|all_lung(180;1.81e-07)|Melanoma(134;0.0262)		OV - Ovarian serous cystadenocarcinoma(18;3.95e-17)|GBM - Glioblastoma multiforme(94;5.71e-07)|Lung(196;0.0436)|BRCA - Breast invasive adenocarcinoma(123;0.203)|LUSC - Lung squamous cell carcinoma(244;0.225)		GCATCCGCTCGGTGTGTGTCA	0.597000													18	19					0	0	1	0	0
PLA2G4E	123745	broad.mit.edu	37	15	42298316	42298316	+	Missense_Mutation	SNP	C	C	T			TCGA-RY-A83Y-01A-11D-A36O-08	TCGA-RY-A83Y-10A-01D-A367-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	ccd64d5e-ef83-4d59-afee-255bf044af2e	4a4dbfc4-a72d-4c24-ba49-b7ceb25c9b18	g.chr15:42298316C>T	ENST00000399518.3	-	4	883	c.397G>A	c.(397-399)Gtg>Atg	p.V133M	PLA2G4E_ENST00000413860.2_Missense_Mutation_p.V104M	NM_001206670.1	NP_001193599.1	Q3MJ16	PA24E_HUMAN	phospholipase A2, group IVE	115	C2.				phospholipid catabolic process	cytosol|lysosomal membrane	metal ion binding|phospholipase A2 activity			NS(2)|central_nervous_system(1)|endometrium(3)|kidney(1)|large_intestine(4)|lung(2)|ovary(1)|prostate(1)|stomach(1)	16		all_cancers(109;8.09e-13)|all_epithelial(112;2.03e-11)|Lung NSC(122;2.17e-07)|all_lung(180;8.79e-07)|Melanoma(134;0.0273)		OV - Ovarian serous cystadenocarcinoma(18;7.61e-18)|GBM - Glioblastoma multiforme(94;3.07e-06)		AACTCTAGCACGTTCTAGGGG	0.507000													25	39					0	0	1	0	0
PCDHA2	56146	broad.mit.edu	37	5	140176522	140176522	+	Missense_Mutation	SNP	C	C	T			TCGA-RY-A83Y-01A-11D-A36O-08	TCGA-RY-A83Y-10A-01D-A367-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	ccd64d5e-ef83-4d59-afee-255bf044af2e	4a4dbfc4-a72d-4c24-ba49-b7ceb25c9b18	g.chr5:140176522C>T	ENST00000526136.1	+	1	1973	c.1973C>T	c.(1972-1974)gCg>gTg	p.A658V	PCDHA2_ENST00000378132.1_Missense_Mutation_p.A658V|PCDHA1_ENST00000504120.2_Intron|PCDHA2_ENST00000520672.2_Missense_Mutation_p.A658V|PCDHA1_ENST00000394633.3_Intron	NM_018905.2	NP_061728.1														NS(1)|breast(1)|endometrium(10)|haematopoietic_and_lymphoid_tissue(2)|kidney(2)|large_intestine(16)|lung(26)|ovary(4)|prostate(6)|skin(2)|upper_aerodigestive_tract(1)	71			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			GGCGAACCAGCGTTGACAGCC	0.662000													42	65					0	0	1	0	0
PLEKHG6	55200	broad.mit.edu	37	12	6425456	6425456	+	Silent	SNP	C	C	T			TCGA-RY-A83Y-01A-11D-A36O-08	TCGA-RY-A83Y-10A-01D-A367-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	ccd64d5e-ef83-4d59-afee-255bf044af2e	4a4dbfc4-a72d-4c24-ba49-b7ceb25c9b18	g.chr12:6425456C>T	ENST00000449001.2	+	6	1040	c.546C>T	c.(544-546)agC>agT	p.S182S	PLEKHG6_ENST00000396988.3_Silent_p.S214S|PLEKHG6_ENST00000536531.1_Silent_p.S214S|PLEKHG6_ENST00000011684.7_Silent_p.S214S	NM_001144857.1	NP_001138329.1	Q3KR16	PKHG6_HUMAN	pleckstrin homology domain containing, family G (with RhoGef domain) member 6	214	DH.				regulation of Rho protein signal transduction	cleavage furrow|cytoplasm|spindle pole	GTPase activator activity|Rho guanyl-nucleotide exchange factor activity			autonomic_ganglia(1)|breast(1)|central_nervous_system(1)|kidney(3)|large_intestine(4)|lung(6)|ovary(1)|prostate(2)|skin(4)	23						ATGTCCCCAGCCTGATTCGAA	0.622000													5	0					0	0	1	0	0
CHPF2	54480	broad.mit.edu	37	7	150932567	150932567	+	Missense_Mutation	SNP	C	C	T	rs56366346	by1000genomes	TCGA-RY-A83Y-01A-11D-A36O-08	TCGA-RY-A83Y-10A-01D-A367-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	ccd64d5e-ef83-4d59-afee-255bf044af2e	4a4dbfc4-a72d-4c24-ba49-b7ceb25c9b18	g.chr7:150932567C>T	ENST00000035307.2	+	2	2210	c.697C>T	c.(697-699)Cgg>Tgg	p.R233W	CHPF2_ENST00000495645.1_Missense_Mutation_p.R225W	NM_019015.1	NP_061888.1	Q9P2E5	CHPF2_HUMAN	chondroitin polymerizing factor 2	233						Golgi cisterna membrane|integral to membrane	N-acetylgalactosaminyl-proteoglycan 3-beta-glucuronosyltransferase activity			breast(1)|endometrium(2)|large_intestine(3)|lung(3)|ovary(4)|prostate(1)|skin(3)	17						CCTGTTGTCACGGAGTCTCCT	0.602000													42	68					0	0	1	0	0
KIF15	56992	broad.mit.edu	37	3	44879796	44879796	+	Silent	SNP	T	T	C			TCGA-RY-A83Y-01A-11D-A36O-08	TCGA-RY-A83Y-10A-01D-A367-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	ccd64d5e-ef83-4d59-afee-255bf044af2e	4a4dbfc4-a72d-4c24-ba49-b7ceb25c9b18	g.chr3:44879796T>C	ENST00000326047.4	+	27	3350	c.3201T>C	c.(3199-3201)caT>caC	p.H1067H	KIF15_ENST00000425755.1_Silent_p.H702H	NM_020242.2	NP_064627.1	Q9NS87	KIF15_HUMAN	kinesin family member 15	1067					blood coagulation|cell proliferation|microtubule-based movement|mitosis	centrosome|cytosol|microtubule|plus-end kinesin complex|spindle	ATP binding|DNA binding|microtubule motor activity			breast(1)|cervix(1)|endometrium(4)|kidney(2)|large_intestine(7)|liver(2)|lung(9)|ovary(1)|prostate(4)|urinary_tract(5)	36				BRCA - Breast invasive adenocarcinoma(193;0.0099)|KIRC - Kidney renal clear cell carcinoma(197;0.0564)|Kidney(197;0.0707)		ACCTGGCTCATGCCACTGAGC	0.468000													19	22					0	0	1	0	0
CPXCR1	53336	broad.mit.edu	37	X	88008826	88008826	+	Silent	SNP	A	A	G			TCGA-RY-A83Y-01A-11D-A36O-08	TCGA-RY-A83Y-10A-01D-A367-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	ccd64d5e-ef83-4d59-afee-255bf044af2e	4a4dbfc4-a72d-4c24-ba49-b7ceb25c9b18	g.chrX:88008826A>G	ENST00000276127.4	+	3	670	c.411A>G	c.(409-411)tcA>tcG	p.S137S	CPXCR1_ENST00000373111.1_Silent_p.S137S	NM_033048.5	NP_149037	Q8N123	CPXCR_HUMAN	CPX chromosome region, candidate 1	137						intracellular	zinc ion binding			NS(1)|cervix(1)|kidney(1)|large_intestine(11)|liver(1)|lung(20)|ovary(3)|upper_aerodigestive_tract(2)	40						TTTCAACTTCATGGAGAGTCC	0.388000													26	9					0	0	1	0	0
FBXO2	26232	broad.mit.edu	37	1	11710604	11710604	+	Frame_Shift_Del	DEL	C	C	-			TCGA-RY-A83Y-01A-11D-A36O-08	TCGA-RY-A83Y-10A-01D-A367-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	ccd64d5e-ef83-4d59-afee-255bf044af2e	4a4dbfc4-a72d-4c24-ba49-b7ceb25c9b18	g.chr1:11710604delC	ENST00000354287.4	-	2	651	c.310delG	c.(310-312)gagfs	p.E106fs		NM_012168.5	NP_036300.2	Q9UK22	FBX2_HUMAN	F-box protein 2	106					glycoprotein catabolic process|SCF-dependent proteasomal ubiquitin-dependent protein catabolic process	cytosol|endoplasmic reticulum|membrane|microsome|SCF ubiquitin ligase complex	sugar binding|ubiquitin-protein ligase activity			kidney(1)|large_intestine(1)|lung(4)	6	Ovarian(185;0.249)	Lung NSC(185;9.37e-06)|all_lung(284;1.39e-05)|Renal(390;0.000147)|Breast(348;0.00093)|Colorectal(325;0.00205)|Hepatocellular(190;0.00913)|Ovarian(437;0.00965)|Myeloproliferative disorder(586;0.0255)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0228)|BRCA - Breast invasive adenocarcinoma(304;1.88e-06)|Colorectal(212;4.88e-06)|COAD - Colon adenocarcinoma(227;0.000241)|Kidney(185;0.000722)|KIRC - Kidney renal clear cell carcinoma(229;0.00258)|STAD - Stomach adenocarcinoma(313;0.0072)|Lung(427;0.0146)|LUSC - Lung squamous cell carcinoma(448;0.0228)|READ - Rectum adenocarcinoma(331;0.0649)		CGCTCCTCCTCCACGCCGCCC	0.697													2	4	---	---	---	---					
CCT7	10574	broad.mit.edu	37	2	73474935	73474936	+	Frame_Shift_Ins	INS	-	-	AA			TCGA-RY-A83Y-01A-11D-A36O-08	TCGA-RY-A83Y-10A-01D-A367-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	ccd64d5e-ef83-4d59-afee-255bf044af2e	4a4dbfc4-a72d-4c24-ba49-b7ceb25c9b18	g.chr2:73474935_73474936insAA	ENST00000539919.1	+	8	903_904	c.532_533insAA	c.(532-534)tacfs	p.Y178fs	CCT7_ENST00000540468.1_Frame_Shift_Ins_p.Y135fs|CCT7_ENST00000538797.1_Frame_Shift_Ins_p.Y94fs|CCT7_ENST00000398422.2_Frame_Shift_Ins_p.Y18fs|CCT7_ENST00000258091.5_Frame_Shift_Ins_p.Y222fs|CCT7_ENST00000537131.1_Frame_Shift_Ins_p.Y122fs|CCT7_ENST00000473786.1_3'UTR	NM_001166285.1	NP_001159757.1	Q99832	TCPH_HUMAN	chaperonin containing TCP1, subunit 7 (eta)	222					'de novo' posttranslational protein folding		ATP binding|unfolded protein binding			breast(1)|cervix(1)|endometrium(1)|lung(3)|stomach(1)	7						GACTTTCTCTTACGCTGGGTTT	0.381													25	40	---	---	---	---					
NIPBL	25836	broad.mit.edu	37	5	37051937	37051937	+	Frame_Shift_Del	DEL	G	G	-			TCGA-RY-A83Y-01A-11D-A36O-08	TCGA-RY-A83Y-10A-01D-A367-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	ccd64d5e-ef83-4d59-afee-255bf044af2e	4a4dbfc4-a72d-4c24-ba49-b7ceb25c9b18	g.chr5:37051937delG	ENST00000282516.8	+	41	7510	c.7011delG	c.(7009-7011)aagfs	p.K2337fs	NIPBL_ENST00000448238.2_Frame_Shift_Del_p.K2337fs	NM_015384.4|NM_133433.3	NP_056199.2|NP_597677.2	Q6KC79	NIPBL_HUMAN	Nipped-B homolog (Drosophila)	2337					brain development|cellular protein localization|cellular response to X-ray|cognition|developmental growth|ear morphogenesis|embryonic arm morphogenesis|embryonic digestive tract morphogenesis|external genitalia morphogenesis|eye morphogenesis|face morphogenesis|gall bladder development|maintenance of mitotic sister chromatid cohesion|metanephros development|negative regulation of transcription from RNA polymerase II promoter|outflow tract morphogenesis|positive regulation of histone deacetylation|regulation of developmental growth|regulation of embryonic development|regulation of hair cycle|response to DNA damage stimulus|sensory perception of sound|uterus morphogenesis	SMC loading complex	chromo shadow domain binding|histone deacetylase binding|protein C-terminus binding|protein N-terminus binding			autonomic_ganglia(1)|breast(4)|endometrium(9)|kidney(22)|large_intestine(21)|liver(1)|lung(47)|ovary(7)|pancreas(1)|prostate(1)|skin(7)|upper_aerodigestive_tract(3)|urinary_tract(4)	128	all_lung(31;0.000447)|Hepatocellular(1;0.108)		Epithelial(62;0.072)|COAD - Colon adenocarcinoma(61;0.14)|all cancers(62;0.191)|Colorectal(62;0.202)			TGCGGAACAAGGCTGATCAGC	0.318													36	54	---	---	---	---					
LCP2	3937	broad.mit.edu	37	5	169695476	169695476	+	Frame_Shift_Del	DEL	G	G	-			TCGA-RY-A83Y-01A-11D-A36O-08	TCGA-RY-A83Y-10A-01D-A367-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	ccd64d5e-ef83-4d59-afee-255bf044af2e	4a4dbfc4-a72d-4c24-ba49-b7ceb25c9b18	g.chr5:169695476delG	ENST00000046794.5	-	8	1149	c.534delC	c.(532-534)cccfs	p.P178fs		NM_005565.3	NP_005556.1	Q13094	LCP2_HUMAN	lymphocyte cytosolic protein 2 (SH2 domain containing leukocyte protein of 76kDa)	178					immune response|platelet activation|T cell receptor signaling pathway|transmembrane receptor protein tyrosine kinase signaling pathway	cytosol	protein binding			cervix(1)|endometrium(1)|kidney(3)|large_intestine(4)|lung(12)|ovary(1)|upper_aerodigestive_tract(1)	23	Renal(175;0.000159)|Lung NSC(126;0.0221)|all_lung(126;0.0337)	Medulloblastoma(196;0.0109)|all_neural(177;0.0146)	Kidney(164;7.53e-05)|KIRC - Kidney renal clear cell carcinoma(164;0.000525)	OV - Ovarian serous cystadenocarcinoma(192;0.247)		TTTTCCCAGAGGGGGGCCGGT	0.652											OREG0017023	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	2	4	---	---	---	---					
ZAN	7455	broad.mit.edu	37	7	100369721	100369721	+	RNA	DEL	T	T	-			TCGA-RY-A83Y-01A-11D-A36O-08	TCGA-RY-A83Y-10A-01D-A367-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	ccd64d5e-ef83-4d59-afee-255bf044af2e	4a4dbfc4-a72d-4c24-ba49-b7ceb25c9b18	g.chr7:100369721delT	ENST00000542585.1	+	0	5573				ZAN_ENST00000546292.1_RNA|ZAN_ENST00000449052.1_RNA|ZAN_ENST00000349350.6_RNA|ZAN_ENST00000538115.1_RNA|ZAN_ENST00000546213.1_RNA|ZAN_ENST00000443370.1_RNA|ZAN_ENST00000421100.1_RNA|ZAN_ENST00000348028.3_RNA|ZAN_ENST00000427578.1_RNA	NM_003386.1	NP_003377.1	Q9Y493	ZAN_HUMAN	zonadhesin (gene/pseudogene)						binding of sperm to zona pellucida|cell-cell adhesion	integral to membrane|plasma membrane				NS(2)|breast(3)|central_nervous_system(3)|endometrium(21)|kidney(6)|large_intestine(18)|lung(60)|ovary(4)|pancreas(3)|prostate(5)|skin(8)|stomach(3)|upper_aerodigestive_tract(3)	139	Lung NSC(181;0.041)|all_lung(186;0.0581)		STAD - Stomach adenocarcinoma(171;0.19)			ctctaaattcttttttttttt	0.532													2	4	---	---	---	---					
LOC101928451	101928451	broad.mit.edu	37	7	128210234	128210235	+	RNA	INS	-	-	TT	rs57917869		TCGA-RY-A83Y-01A-11D-A36O-08	TCGA-RY-A83Y-10A-01D-A367-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	ccd64d5e-ef83-4d59-afee-255bf044af2e	4a4dbfc4-a72d-4c24-ba49-b7ceb25c9b18	g.chr7:128210234_128210235insTT	ENST00000605862.1	+	0	189																											agttttagttcttTTTTTTTTT	0.441													3	5	---	---	---	---					
ZBTB5	9925	broad.mit.edu	37	9	37440681	37440682	+	Frame_Shift_Del	DEL	AG	AG	-			TCGA-RY-A83Y-01A-11D-A36O-08	TCGA-RY-A83Y-10A-01D-A367-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	ccd64d5e-ef83-4d59-afee-255bf044af2e	4a4dbfc4-a72d-4c24-ba49-b7ceb25c9b18	g.chr9:37440681_37440682delAG	ENST00000307750.4	-	2	2055_2056	c.1867_1868delCT	c.(1867-1869)ctgfs	p.L623fs		NM_014872.2	NP_055687.1	O15062	ZBTB5_HUMAN	zinc finger and BTB domain containing 5	623					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			NS(1)|kidney(1)|large_intestine(1)|lung(2)|ovary(2)|prostate(1)	8				GBM - Glioblastoma multiforme(29;0.00733)|Lung(182;0.226)		TGTCAAAGTCAGAAAAGTTTTG	0.470													32	65	---	---	---	---					
AC002331.1	0	broad.mit.edu	37	16	26599065	26599068	+	RNA	DEL	ACAG	ACAG	-	rs71134607		TCGA-RY-A83Y-01A-11D-A36O-08	TCGA-RY-A83Y-10A-01D-A367-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	ccd64d5e-ef83-4d59-afee-255bf044af2e	4a4dbfc4-a72d-4c24-ba49-b7ceb25c9b18	g.chr16:26599065_26599068delACAG	ENST00000443373.1	-	0	104																											ACATACAGACacagacagacagac	0.353													2	4	---	---	---	---					
KIAA0753	9851	broad.mit.edu	37	17	6524258	6524259	+	Frame_Shift_Del	DEL	CA	CA	-			TCGA-RY-A83Y-01A-11D-A36O-08	TCGA-RY-A83Y-10A-01D-A367-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	ccd64d5e-ef83-4d59-afee-255bf044af2e	4a4dbfc4-a72d-4c24-ba49-b7ceb25c9b18	g.chr17:6524258_6524259delCA	ENST00000361413.3	-	7	1522_1523	c.1164_1165delTG	c.(1162-1167)agtgaafs	p.SE388fs	KIAA0753_ENST00000542606.1_Frame_Shift_Del_p.SE89fs|KIAA0753_ENST00000572370.1_Frame_Shift_Del_p.SE89fs	NM_014804.2	NP_055619.2	Q2KHM9	K0753_HUMAN	KIAA0753	388						centrosome				endometrium(4)|large_intestine(11)|lung(5)|prostate(4)	24				COAD - Colon adenocarcinoma(228;0.157)		CTCCGAATTTCACTGAAACATT	0.441													43	79	---	---	---	---					
CIC	23152	broad.mit.edu	37	19	42794540	42794550	+	Frame_Shift_Del	DEL	TTCCTCCTCAG	TTCCTCCTCAG	-			TCGA-RY-A83Y-01A-11D-A36O-08	TCGA-RY-A83Y-10A-01D-A367-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	ccd64d5e-ef83-4d59-afee-255bf044af2e	4a4dbfc4-a72d-4c24-ba49-b7ceb25c9b18	g.chr19:42794540_42794550delTTCCTCCTCAG	ENST00000572681.2	+	11	4415_4425	c.4347_4357delTTCCTCCTCAG	c.(4345-4359)gcttcctcctcagccfs	p.ASSSA1449fs	CIC_ENST00000575354.2_Frame_Shift_Del_p.ASSSA540fs|CIC_ENST00000160740.3_Frame_Shift_Del_p.ASSSA540fs			Q96RK0	CIC_HUMAN	capicua transcriptional repressor	540					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|protein binding			autonomic_ganglia(1)|breast(5)|central_nervous_system(32)|endometrium(10)|kidney(2)|large_intestine(7)|lung(9)|ovary(7)|prostate(3)|skin(3)|upper_aerodigestive_tract(1)|urinary_tract(2)	82		Prostate(69;0.00682)				CCTCGCCTGCTTCCTCCTCAGCCTCGGCAGC	0.687			"""Mis, F, S"""		oligodendroglioma								26	11	---	---	---	---					
FERMT1	55612	broad.mit.edu	37	20	6078223	6078223	+	Frame_Shift_Del	DEL	A	A	-			TCGA-RY-A83Y-01A-11D-A36O-08	TCGA-RY-A83Y-10A-01D-A367-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	ccd64d5e-ef83-4d59-afee-255bf044af2e	4a4dbfc4-a72d-4c24-ba49-b7ceb25c9b18	g.chr20:6078223delA	ENST00000217289.4	-	7	1693	c.905delT	c.(904-906)ttafs	p.L302fs	FERMT1_ENST00000536936.1_Frame_Shift_Del_p.L45fs	NM_017671.4	NP_060141.3	Q9BQL6	FERM1_HUMAN	fermitin family member 1	302	FERM.				cell adhesion|establishment of epithelial cell polarity|keratinocyte migration|keratinocyte proliferation	cytosol|focal adhesion|ruffle membrane	binding			NS(1)|endometrium(2)|haematopoietic_and_lymphoid_tissue(1)|kidney(1)|large_intestine(3)|lung(3)|ovary(1)|pancreas(1)|prostate(2)|skin(2)	17						AATTTCTTCTAAGAGAATGGC	0.403													43	54	---	---	---	---					
