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
TRIM24	8805	broad.mit.edu	37	7	138263957	138263957	+	Silent	SNP	T	T	C			TCGA-RY-A840-01A-11D-A36O-08	TCGA-RY-A840-10A-01D-A367-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	f91848fc-8730-434f-acab-791488ffe5eb	2a99e03f-024c-4750-81e0-7bcf3014ef3c	g.chr7:138263957T>C	ENST00000343526.4	+	15	2480	c.2265T>C	c.(2263-2265)taT>taC	p.Y755Y	TRIM24_ENST00000415680.2_Silent_p.Y721Y			O15164	TIF1A_HUMAN	tripartite motif containing 24	755	Nuclear receptor binding site (NRBS).				cellular response to estrogen stimulus|protein catabolic process|regulation of apoptosis|regulation of protein stability|transcription from RNA polymerase II promoter	cytoplasm	chromatin binding|estrogen response element binding|histone acetyl-lysine binding|p53 binding|transcription coactivator activity|ubiquitin-protein ligase activity|zinc ion binding			breast(2)|central_nervous_system(5)|endometrium(1)|haematopoietic_and_lymphoid_tissue(1)|kidney(4)|large_intestine(7)|lung(12)|ovary(2)|skin(2)|stomach(1)|upper_aerodigestive_tract(3)	40						AGGCCAATTATCCAAGAAGCA	0.398000													37	47					0	0	1	0	0
ACSM2B	348158	broad.mit.edu	37	16	20576155	20576155	+	Nonsense_Mutation	SNP	G	G	A			TCGA-RY-A840-01A-11D-A36O-08	TCGA-RY-A840-10A-01D-A367-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	f91848fc-8730-434f-acab-791488ffe5eb	2a99e03f-024c-4750-81e0-7bcf3014ef3c	g.chr16:20576155G>A	ENST00000329697.6	-	2	181	c.13C>T	c.(13-15)Cga>Tga	p.R5*	ACSM2B_ENST00000565322.1_Intron|ACSM2B_ENST00000567001.1_Nonsense_Mutation_p.R5*|ACSM2B_ENST00000565232.1_Nonsense_Mutation_p.R5*|ACSM2B_ENST00000414188.2_Nonsense_Mutation_p.R5*	NM_001105069.1	NP_001098539.1	Q68CK6	ACS2B_HUMAN	acyl-CoA synthetase medium-chain family member 2B	5					fatty acid metabolic process|xenobiotic metabolic process	mitochondrial matrix	ATP binding|butyrate-CoA ligase activity|CoA-ligase activity|metal ion binding	p.R5*(1)		breast(4)|central_nervous_system(2)|endometrium(5)|kidney(2)|large_intestine(4)|lung(33)|ovary(1)|prostate(1)|skin(5)	57						TGAACTTTTCGCAGCCAATGC	0.493000													31	27					0	0	1	0	0
CCDC106	29903	broad.mit.edu	37	19	56160918	56160918	+	Missense_Mutation	SNP	A	A	C			TCGA-RY-A840-01A-11D-A36O-08	TCGA-RY-A840-10A-01D-A367-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	f91848fc-8730-434f-acab-791488ffe5eb	2a99e03f-024c-4750-81e0-7bcf3014ef3c	g.chr19:56160918A>C	ENST00000586790.1	+	3	1185	c.281A>C	c.(280-282)gAc>gCc	p.D94A	CCDC106_ENST00000591578.1_Missense_Mutation_p.D94A|CCDC106_ENST00000591241.1_Missense_Mutation_p.D59A|CCDC106_ENST00000308964.3_Missense_Mutation_p.D94A|CCDC106_ENST00000588740.1_Missense_Mutation_p.D94A			Q9BWC9	CC106_HUMAN	coiled-coil domain containing 106	94						nucleus				endometrium(2)|large_intestine(3)|lung(5)|skin(1)	11		Colorectal(82;0.00403)|Ovarian(87;0.133)	BRCA - Breast invasive adenocarcinoma(297;0.18)	GBM - Glioblastoma multiforme(193;0.105)		TGCCAGCTGGACAAATTCATC	0.602000													10	3					0	0	1	0	0
TSSC2	0	broad.mit.edu	37	11	3427845	3427845	+	RNA	SNP	C	C	T			TCGA-RY-A840-01A-11D-A36O-08	TCGA-RY-A840-10A-01D-A367-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	f91848fc-8730-434f-acab-791488ffe5eb	2a99e03f-024c-4750-81e0-7bcf3014ef3c	g.chr11:3427845C>T	ENST00000529482.1	+	0	962																											CTTCAAGTGGCAGGAGCAGAA	0.587000													5	50					0	0	1	0	0
COL13A1	1305	broad.mit.edu	37	10	71690264	71690264	+	Missense_Mutation	SNP	G	G	A			TCGA-RY-A840-01A-11D-A36O-08	TCGA-RY-A840-10A-01D-A367-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	f91848fc-8730-434f-acab-791488ffe5eb	2a99e03f-024c-4750-81e0-7bcf3014ef3c	g.chr10:71690264G>A	ENST00000356340.3	+	28	2142	c.1606G>A	c.(1606-1608)Gga>Aga	p.G536R	COL13A1_ENST00000522165.1_Missense_Mutation_p.G517R|COL13A1_ENST00000357811.3_Missense_Mutation_p.G514R|COL13A1_ENST00000398969.3_Missense_Mutation_p.G479R|COL13A1_ENST00000398974.3_Missense_Mutation_p.G524R|COL13A1_ENST00000354547.3_Missense_Mutation_p.G514R|COL13A1_ENST00000520133.1_Missense_Mutation_p.G485R|COL13A1_ENST00000398968.3_Missense_Mutation_p.G517R|COL13A1_ENST00000398978.3_Missense_Mutation_p.G536R|COL13A1_ENST00000517713.1_Missense_Mutation_p.G514R|COL13A1_ENST00000398966.3_Missense_Mutation_p.G514R|COL13A1_ENST00000398964.3_Missense_Mutation_p.G507R|COL13A1_ENST00000520267.1_Missense_Mutation_p.G479R|COL13A1_ENST00000398973.3_Missense_Mutation_p.G536R|COL13A1_ENST00000398972.3_Missense_Mutation_p.G536R|COL13A1_ENST00000398971.3_Missense_Mutation_p.G536R			Q5TAT6	CODA1_HUMAN	collagen, type XIII, alpha 1	536	Triple-helical region 3 (COL3).				cell differentiation|cell-cell adhesion|cell-matrix adhesion|endochondral ossification|morphogenesis of a branching structure	collagen type XIII|integral to membrane	extracellular matrix structural constituent|heparin binding|protein binding			endometrium(5)|large_intestine(3)|lung(15)|ovary(1)|prostate(2)|skin(1)|urinary_tract(1)	28					Atorvastatin(DB01076)|Simvastatin(DB00641)	AGGGAGCCCAGGAGAGAAGGG	0.632000													14	11					0	0	1	0	0
KRTAP10-8	386681	broad.mit.edu	37	21	46032420	46032420	+	Missense_Mutation	SNP	G	G	C	rs143687357		TCGA-RY-A840-01A-11D-A36O-08	TCGA-RY-A840-10A-01D-A367-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	f91848fc-8730-434f-acab-791488ffe5eb	2a99e03f-024c-4750-81e0-7bcf3014ef3c	g.chr21:46032420G>C	ENST00000334662.2	+	1	425	c.403G>C	c.(403-405)Gtg>Ctg	p.V135L	TSPEAR_ENST00000323084.4_Intron	NM_198695.2	NP_941968.2	P60410	KR108_HUMAN	keratin associated protein 10-8	135	19 X 5 AA repeats of C-C-X(3).					keratin filament				breast(2)|endometrium(3)|haematopoietic_and_lymphoid_tissue(1)|large_intestine(2)|lung(8)|skin(1)	17						CGTGTGCTGCGTGTCCATCTG	0.632000													79	102					0	0	1	0	0
GML	2765	broad.mit.edu	37	8	143922564	143922564	+	Missense_Mutation	SNP	C	C	T	rs138790796	by1000genomes	TCGA-RY-A840-01A-11D-A36O-08	TCGA-RY-A840-10A-01D-A367-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	f91848fc-8730-434f-acab-791488ffe5eb	2a99e03f-024c-4750-81e0-7bcf3014ef3c	g.chr8:143922564C>T	ENST00000220940.1	+	3	194	c.104C>T	c.(103-105)gCg>gTg	p.A35V		NM_002066.2	NP_002057.1	Q99445	GML_HUMAN	glycosylphosphatidylinositol anchored molecule like	35	UPAR/Ly6.				apoptosis|DNA damage response, signal transduction by p53 class mediator resulting in cell cycle arrest|negative regulation of cell proliferation	anchored to membrane|extrinsic to membrane|plasma membrane				NS(1)|central_nervous_system(2)|endometrium(1)|large_intestine(6)|lung(8)	18	all_cancers(97;4.26e-11)|all_epithelial(106;1.85e-08)|Lung NSC(106;0.000274)|all_lung(105;0.000755)|Medulloblastoma(13;0.00276)|all_neural(13;0.00559)|Ovarian(258;0.0254)|Acute lymphoblastic leukemia(118;0.155)					CATGACTGTGCGGTCATAAAT	0.463000													4	130					0	0	1	0	0
FAM65C	140876	broad.mit.edu	37	20	49236599	49236599	+	Missense_Mutation	SNP	G	G	A	rs148432777		TCGA-RY-A840-01A-11D-A36O-08	TCGA-RY-A840-10A-01D-A367-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	f91848fc-8730-434f-acab-791488ffe5eb	2a99e03f-024c-4750-81e0-7bcf3014ef3c	g.chr20:49236599G>A	ENST00000327979.2	-	3	592	c.181C>T	c.(181-183)Cgg>Tgg	p.R61W	FAM65C_ENST00000045083.2_Missense_Mutation_p.R61W|FAM65C_ENST00000535356.1_Missense_Mutation_p.R65W			Q96MK2	FA65C_HUMAN	family with sequence similarity 65, member C	61										endometrium(6)|haematopoietic_and_lymphoid_tissue(1)|large_intestine(1)|liver(1)|lung(12)|ovary(3)|prostate(1)|skin(2)|upper_aerodigestive_tract(1)|urinary_tract(1)	29						GACCCCTTCCGCAGCGTGCCG	0.547000													56	59					0	0	1	0	0
STX3	6809	broad.mit.edu	37	11	59564807	59564807	+	Silent	SNP	T	T	C			TCGA-RY-A840-01A-11D-A36O-08	TCGA-RY-A840-10A-01D-A367-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	f91848fc-8730-434f-acab-791488ffe5eb	2a99e03f-024c-4750-81e0-7bcf3014ef3c	g.chr11:59564807T>C	ENST00000535361.1	+	9	1274	c.727T>C	c.(727-729)Ttg>Ctg	p.L243L	STX3_ENST00000337979.4_Silent_p.L280L|STX3_ENST00000529177.1_Intron|STX3_ENST00000437946.2_Intron|STX3_ENST00000300150.7_Silent_p.L249L			Q13277	STX3_HUMAN	syntaxin 3	280	t-SNARE coiled-coil homology.				cellular response to oxidative stress|intracellular protein transport|neuron projection development|neurotransmitter transport	apical plasma membrane|azurophil granule|cell-cell junction|growth cone|integral to membrane|plasma membrane enriched fraction|SNARE complex|specific granule	arachidonic acid binding|SNAP receptor activity			endometrium(1)|haematopoietic_and_lymphoid_tissue(1)|kidney(1)|large_intestine(4)|lung(3)|ovary(2)|skin(1)	13						CATTTTAGCATTGATTATTGG	0.388000													8	81					0	0	1	0	0
CPAMD8	27151	broad.mit.edu	37	19	17015311	17015311	+	Missense_Mutation	SNP	G	G	A			TCGA-RY-A840-01A-11D-A36O-08	TCGA-RY-A840-10A-01D-A367-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	f91848fc-8730-434f-acab-791488ffe5eb	2a99e03f-024c-4750-81e0-7bcf3014ef3c	g.chr19:17015311G>A	ENST00000443236.1	-	31	4251	c.4220C>T	c.(4219-4221)aCa>aTa	p.T1407I		NM_015692.2	NP_056507.2	Q8IZJ3	CPMD8_HUMAN	C3 and PZP-like, alpha-2-macroglobulin domain containing 8	1360						extracellular space|plasma membrane	serine-type endopeptidase inhibitor activity			breast(11)|central_nervous_system(3)|cervix(1)|endometrium(11)|haematopoietic_and_lymphoid_tissue(1)|kidney(6)|large_intestine(17)|lung(14)|ovary(7)|pancreas(2)|prostate(4)|skin(5)	82						GCTCAAGAATGTGCCCTTGTC	0.582000													25	36					0	0	1	0	0
SCAMP3	10067	broad.mit.edu	37	1	155226515	155226515	+	Missense_Mutation	SNP	C	C	T			TCGA-RY-A840-01A-11D-A36O-08	TCGA-RY-A840-10A-01D-A367-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	f91848fc-8730-434f-acab-791488ffe5eb	2a99e03f-024c-4750-81e0-7bcf3014ef3c	g.chr1:155226515C>T	ENST00000355379.3	-	7	1047	c.769G>A	c.(769-771)Gcc>Acc	p.A257T	SCAMP3_ENST00000302631.3_Missense_Mutation_p.A283T|SCAMP3_ENST00000472397.1_5'UTR	NM_052837.2	NP_443069.1	O14828	SCAM3_HUMAN	secretory carrier membrane protein 3	283					post-Golgi vesicle-mediated transport|protein transport	integral to membrane				breast(1)|endometrium(3)|large_intestine(3)|lung(7)|ovary(4)|urinary_tract(1)	19	all_lung(78;2.32e-23)|Hepatocellular(266;0.0877)|all_hematologic(923;0.088)		Epithelial(20;3.72e-10)|all cancers(21;1.19e-09)|BRCA - Breast invasive adenocarcinoma(34;0.000752)|LUSC - Lung squamous cell carcinoma(543;0.193)			AAGAGCAGGGCGACCAGCAGC	0.582000													16	30					0	0	1	0	0
NEDD8	4738	broad.mit.edu	37	14	24687634	24687634	+	Silent	SNP	G	G	A			TCGA-RY-A840-01A-11D-A36O-08	TCGA-RY-A840-10A-01D-A367-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	f91848fc-8730-434f-acab-791488ffe5eb	2a99e03f-024c-4750-81e0-7bcf3014ef3c	g.chr14:24687634G>A	ENST00000250495.5	-	2	208	c.22C>T	c.(22-24)Ctg>Ttg	p.L8L	NEDD8_ENST00000524927.1_Silent_p.L8L|NEDD8-MDP1_ENST00000604306.1_5'UTR|NEDD8-MDP1_ENST00000534348.1_Silent_p.L8L	NM_006156.2	NP_006147.1			neural precursor cell expressed, developmentally down-regulated 8											breast(1)|central_nervous_system(1)|large_intestine(1)|lung(2)	5				GBM - Glioblastoma multiforme(265;0.0186)		TTTCCGGTCAGCGTCTGAAAC	0.423000													3	23					0	0	1	0	0
IDH1	3417	broad.mit.edu	37	2	209113112	209113112	+	Missense_Mutation	SNP	C	C	T	rs121913500		TCGA-RY-A840-01A-11D-A36O-08	TCGA-RY-A840-10A-01D-A367-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	f91848fc-8730-434f-acab-791488ffe5eb	2a99e03f-024c-4750-81e0-7bcf3014ef3c	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			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								27	59					0	0	1	0	0
FGD2	221472	broad.mit.edu	37	6	36989372	36989372	+	Missense_Mutation	SNP	G	G	A			TCGA-RY-A840-01A-11D-A36O-08	TCGA-RY-A840-10A-01D-A367-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	f91848fc-8730-434f-acab-791488ffe5eb	2a99e03f-024c-4750-81e0-7bcf3014ef3c	g.chr6:36989372G>A	ENST00000274963.8	+	12	1489	c.1318G>A	c.(1318-1320)Gag>Aag	p.E440K		NM_173558.3	NP_775829.2	Q7Z6J4	FGD2_HUMAN	FYVE, RhoGEF and PH domain containing 2	440					actin cytoskeleton organization|apoptosis|filopodium assembly|induction of apoptosis by extracellular signals|nerve growth factor receptor signaling pathway|regulation of Cdc42 GTPase activity|regulation of cell shape|small GTPase mediated signal transduction	cytoskeleton|cytosol|early endosome membrane|Golgi apparatus|lamellipodium|nucleus|ruffle membrane	metal ion binding|Rho guanyl-nucleotide exchange factor activity|small GTPase binding			central_nervous_system(1)|endometrium(6)|large_intestine(5)|lung(7)|ovary(1)|pancreas(1)|prostate(3)|upper_aerodigestive_tract(1)	25						AGACATCCAGGAGCAGGAGGT	0.557000											OREG0017395	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	9	9					0	0	1	0	0
ANO7	50636	broad.mit.edu	37	2	242135327	242135327	+	Missense_Mutation	SNP	G	G	A			TCGA-RY-A840-01A-11D-A36O-08	TCGA-RY-A840-10A-01D-A367-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	f91848fc-8730-434f-acab-791488ffe5eb	2a99e03f-024c-4750-81e0-7bcf3014ef3c	g.chr2:242135327G>A	ENST00000402530.3	+	4	638	c.535G>A	c.(535-537)Gca>Aca	p.A179T	ANO7_ENST00000402430.3_Intron|ANO7_ENST00000274979.8_Intron	NM_001001666.3	NP_001001666.1	Q6IWH7	ANO7_HUMAN	anoctamin 7	0						cell junction|chloride channel complex|cytosol	chloride channel activity			NS(1)|central_nervous_system(1)|endometrium(3)|large_intestine(5)|lung(14)|pancreas(2)|prostate(1)|skin(3)|urinary_tract(2)	32						TGACCTTGCCGCATGAGGCCT	0.632000													12	15					0	0	1	0	0
KRTAP4-9	100132386	broad.mit.edu	37	17	39261693	39261693	+	Missense_Mutation	SNP	A	A	T	rs113059833	by1000genomes	TCGA-RY-A840-01A-11D-A36O-08	TCGA-RY-A840-10A-01D-A367-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	f91848fc-8730-434f-acab-791488ffe5eb	2a99e03f-024c-4750-81e0-7bcf3014ef3c	g.chr17:39261693A>T	ENST00000391415.1	+	1	110	c.53A>T	c.(52-54)gAc>gTc	p.D18V		NM_001146041.1	NP_001139513.1	Q9BYQ8	KRA49_HUMAN	keratin associated protein 4-9	18						keratin filament		p.D18V(1)		central_nervous_system(1)|endometrium(6)|haematopoietic_and_lymphoid_tissue(1)|kidney(2)|lung(1)|urinary_tract(3)	14						TGCGGCCAAGACCTCTGTCAG	0.627000													5	31					0	0	1	0	0
TNFAIP8	25816	broad.mit.edu	37	5	118728917	118728917	+	Silent	SNP	C	C	T			TCGA-RY-A840-01A-11D-A36O-08	TCGA-RY-A840-10A-01D-A367-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	f91848fc-8730-434f-acab-791488ffe5eb	2a99e03f-024c-4750-81e0-7bcf3014ef3c	g.chr5:118728917C>T	ENST00000504771.2	+	2	2215	c.438C>T	c.(436-438)caC>caT	p.H146H	TNFAIP8_ENST00000274456.6_Silent_p.H136H|TNFAIP8_ENST00000504642.1_Silent_p.H148H|TNFAIP8_ENST00000503646.1_Silent_p.H146H|TNFAIP8_ENST00000415806.2_3'UTR|TNFAIP8_ENST00000513374.1_Silent_p.H158H	NM_014350.2	NP_055165.2	O95379	TFIP8_HUMAN	tumor necrosis factor, alpha-induced protein 8	146					anti-apoptosis|apoptosis|negative regulation of anti-apoptosis	cytoplasm	caspase inhibitor activity|protein binding			ovary(1)	1		all_cancers(142;0.0317)|Prostate(80;0.111)|Breast(839;0.231)		Epithelial(69;4.63e-83)|OV - Ovarian serous cystadenocarcinoma(64;1.39e-82)|all cancers(49;4.88e-75)|GBM - Glioblastoma multiforme(465;0.00338)|BRCA - Breast invasive adenocarcinoma(61;0.0148)|COAD - Colon adenocarcinoma(49;0.0829)		TTCAGCGCCACCTCACTGCCA	0.408000													34	57					0	0	1	0	0
ZNF733P	0	broad.mit.edu	37	7	62752443	62752443	+	RNA	SNP	G	G	C			TCGA-RY-A840-01A-11D-A36O-08	TCGA-RY-A840-10A-01D-A367-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	f91848fc-8730-434f-acab-791488ffe5eb	2a99e03f-024c-4750-81e0-7bcf3014ef3c	g.chr7:62752443G>C	ENST00000331425.6	-	0	992					NR_003952.1																						CTTATGTCTAGTAAGGTTTGA	0.438000													7	23					0	0	1	0	0
CDH4	1002	broad.mit.edu	37	20	60427938	60427938	+	Silent	SNP	C	C	T	rs146532439	byFrequency	TCGA-RY-A840-01A-11D-A36O-08	TCGA-RY-A840-10A-01D-A367-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	f91848fc-8730-434f-acab-791488ffe5eb	2a99e03f-024c-4750-81e0-7bcf3014ef3c	g.chr20:60427938C>T	ENST00000360469.5	+	6	949	c.861C>T	c.(859-861)gaC>gaT	p.D287D	CDH4_ENST00000543233.1_Silent_p.D213D	NM_001794.3	NP_001785.2	P55283	CADH4_HUMAN	cadherin 4, type 1, R-cadherin (retinal)	287	Cadherin 2.				adherens junction organization|cell junction assembly		calcium ion binding			NS(2)|breast(2)|cervix(1)|endometrium(9)|haematopoietic_and_lymphoid_tissue(1)|kidney(3)|large_intestine(17)|liver(2)|lung(25)|ovary(2)|prostate(1)|skin(7)|upper_aerodigestive_tract(1)|urinary_tract(1)	74			BRCA - Breast invasive adenocarcinoma(19;2.36e-08)			GCTCCGTGGACGAGGGCTCCA	0.597000													43	86					0	0	1	0	0
FCRL2	79368	broad.mit.edu	37	1	157737385	157737385	+	Silent	SNP	C	C	T			TCGA-RY-A840-01A-11D-A36O-08	TCGA-RY-A840-10A-01D-A367-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	f91848fc-8730-434f-acab-791488ffe5eb	2a99e03f-024c-4750-81e0-7bcf3014ef3c	g.chr1:157737385C>T	ENST00000469986.1	-	1	179	c.39G>A	c.(37-39)agG>agA	p.R13R	FCRL2_ENST00000392274.3_Intron|FCRL2_ENST00000361516.3_Intron|FCRL2_ENST00000368181.4_Intron			Q96LA5	FCRL2_HUMAN	Fc receptor-like 2	0					cell-cell signaling	integral to membrane|plasma membrane|soluble fraction	receptor activity|SH3/SH2 adaptor activity			central_nervous_system(2)|cervix(1)|endometrium(3)|kidney(2)|large_intestine(7)|lung(29)|ovary(1)|pancreas(1)|prostate(3)|skin(2)	51	all_hematologic(112;0.0378)		LUSC - Lung squamous cell carcinoma(543;0.24)			CAGCAAAGGGCCTGGCCCCAT	0.448000													47	39					0	0	1	0	0
ZFHX3	463	broad.mit.edu	37	16	72821618	72821618	+	Silent	SNP	A	A	G	rs112443847		TCGA-RY-A840-01A-11D-A36O-08	TCGA-RY-A840-10A-01D-A367-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	f91848fc-8730-434f-acab-791488ffe5eb	2a99e03f-024c-4750-81e0-7bcf3014ef3c	g.chr16:72821618A>G	ENST00000268489.5	-	10	11229	c.10557T>C	c.(10555-10557)ggT>ggC	p.G3519G	AC004943.1_ENST00000584072.1_RNA|ZFHX3_ENST00000397992.5_Silent_p.G2605G	NM_006885.3	NP_008816.3	Q15911	ZFHX3_HUMAN	zinc finger homeobox 3	3519	Poly-Gly.				muscle organ development|negative regulation of myoblast differentiation|negative regulation of transcription from RNA polymerase II promoter|negative regulation of transcription, DNA-dependent|positive regulation of myoblast differentiation	transcription factor complex	enzyme binding|sequence-specific DNA binding|sequence-specific enhancer binding RNA polymerase II transcription factor activity|transcription regulatory region DNA binding|zinc ion binding	p.G3519G(3)		NS(3)|breast(7)|cervix(2)|endometrium(18)|haematopoietic_and_lymphoid_tissue(5)|kidney(8)|large_intestine(22)|liver(1)|lung(46)|ovary(5)|pancreas(1)|prostate(15)|skin(6)|stomach(1)|upper_aerodigestive_tract(2)|urinary_tract(11)	153		Ovarian(137;0.13)				cgccgccgccaccgccgccgc	0.716000													3	38					0	0	1	0	0
FAM3B	54097	broad.mit.edu	37	21	42694893	42694893	+	Silent	SNP	C	C	G			TCGA-RY-A840-01A-11D-A36O-08	TCGA-RY-A840-10A-01D-A367-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	f91848fc-8730-434f-acab-791488ffe5eb	2a99e03f-024c-4750-81e0-7bcf3014ef3c	g.chr21:42694893C>G	ENST00000398652.3	+	3	246	c.180C>G	c.(178-180)gcC>gcG	p.A60A	FAM3B_ENST00000398647.3_Intron|FAM3B_ENST00000479810.2_3'UTR|FAM3B_ENST00000398646.3_Silent_p.A44A|FAM3B_ENST00000357985.2_Silent_p.A21A			P58499	FAM3B_HUMAN	family with sequence similarity 3, member B	21					apoptosis|insulin secretion	extracellular space	cytokine activity			central_nervous_system(2)|endometrium(1)|lung(2)	5		Prostate(19;1.57e-07)|all_epithelial(19;0.0404)				CCTTGTGTGCCTGGTATTCGG	0.607000													35	36					0	0	1	0	0
GRIN1	2902	broad.mit.edu	37	9	140062230	140062230	+	Missense_Mutation	SNP	A	A	G			TCGA-RY-A840-01A-11D-A36O-08	TCGA-RY-A840-10A-01D-A367-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	f91848fc-8730-434f-acab-791488ffe5eb	2a99e03f-024c-4750-81e0-7bcf3014ef3c	g.chr9:140062230A>G	ENST00000315048.3	+	20	3802	c.2705A>G	c.(2704-2706)tAc>tGc	p.Y902C	GRIN1_ENST00000371553.3_Missense_Mutation_p.Y923C|GRIN1_ENST00000371555.4_3'UTR|GRIN1_ENST00000371550.4_3'UTR|GRIN1_ENST00000371560.3_Missense_Mutation_p.Y886C|GRIN1_ENST00000371561.3_3'UTR|GRIN1_ENST00000371559.4_Missense_Mutation_p.Y865C|GRIN1_ENST00000371546.4_3'UTR			Q05586	NMDZ1_HUMAN	glutamate receptor, ionotropic, N-methyl D-aspartate 1	0					ionotropic glutamate receptor signaling pathway|positive regulation of transcription from RNA polymerase II promoter|regulation of excitatory postsynaptic membrane potential|response to ethanol|visual learning	cell junction|N-methyl-D-aspartate selective glutamate receptor complex|outer membrane-bounded periplasmic space|postsynaptic density|postsynaptic membrane|synaptic vesicle|synaptosome	calcium ion binding|calmodulin binding|extracellular-glutamate-gated ion channel activity|glutamate binding|glycine binding			NS(1)|breast(1)|endometrium(1)|kidney(1)|lung(7)|prostate(1)|skin(1)|upper_aerodigestive_tract(1)|urinary_tract(1)	15	all_cancers(76;0.0926)		STAD - Stomach adenocarcinoma(284;0.0878)	OV - Ovarian serous cystadenocarcinoma(145;6.87e-05)|Epithelial(140;0.00095)	L-Glutamic Acid(DB00142)|Orphenadrine(DB01173)	TTGCAGCAGTACCATCCCACT	0.682000													3	39					0	0	1	0	0
HLA-V	0	broad.mit.edu	37	6	29761676	29761676	+	RNA	SNP	C	C	G			TCGA-RY-A840-01A-11D-A36O-08	TCGA-RY-A840-10A-01D-A367-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	f91848fc-8730-434f-acab-791488ffe5eb	2a99e03f-024c-4750-81e0-7bcf3014ef3c	g.chr6:29761676C>G	ENST00000457107.1	+	0	902																											gagagggtttcatattcaaga	0.493000													3	20					0	0	1	0	0
LRRK1	79705	broad.mit.edu	37	15	101528897	101528897	+	Silent	SNP	G	G	A			TCGA-RY-A840-01A-11D-A36O-08	TCGA-RY-A840-10A-01D-A367-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	f91848fc-8730-434f-acab-791488ffe5eb	2a99e03f-024c-4750-81e0-7bcf3014ef3c	g.chr15:101528897G>A	ENST00000284395.5	+	6	883	c.483G>A	c.(481-483)ggG>ggA	p.G161G	LRRK1_ENST00000388948.3_Silent_p.G164G|LRRK1_ENST00000532029.2_Silent_p.G164G			Q38SD2	LRRK1_HUMAN	leucine-rich repeat kinase 1	164					small GTPase mediated signal transduction	mitochondrion	ATP binding|GTP binding|metal ion binding|protein binding|protein serine/threonine kinase activity			breast(2)|central_nervous_system(6)|endometrium(12)|haematopoietic_and_lymphoid_tissue(2)|kidney(5)|large_intestine(14)|lung(25)|ovary(4)|prostate(1)|skin(1)	72	Melanoma(26;0.00505)|Lung NSC(78;0.00793)|all_lung(78;0.0094)		OV - Ovarian serous cystadenocarcinoma(32;0.000932)|LUSC - Lung squamous cell carcinoma(107;0.187)|Lung(145;0.23)			GCCAGCGAGGGCACCTGGGGG	0.627000													56	57					0	0	1	0	0
LCP1	3936	broad.mit.edu	37	13	46717525	46717525	+	Missense_Mutation	SNP	G	G	A			TCGA-RY-A840-01A-11D-A36O-08	TCGA-RY-A840-10A-01D-A367-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	f91848fc-8730-434f-acab-791488ffe5eb	2a99e03f-024c-4750-81e0-7bcf3014ef3c	g.chr13:46717525G>A	ENST00000398576.2	-	15	1656	c.1268C>T	c.(1267-1269)gCc>gTc	p.A423V	LCP1_ENST00000323076.2_Missense_Mutation_p.A423V			P13796	PLSL_HUMAN	lymphocyte cytosolic protein 1 (L-plastin)	423	Actin-binding 2.|CH 3.				regulation of intracellular protein transport|T cell activation involved in immune response	cell junction|cytosol|ruffle membrane	calcium ion binding			breast(2)|kidney(1)|large_intestine(6)|lung(18)|ovary(4)|prostate(2)|skin(1)	34		Lung NSC(96;1.27e-05)|Breast(56;8.04e-05)|Prostate(109;0.00217)|Hepatocellular(98;0.0207)|Lung SC(185;0.0262)	KIRC - Kidney renal clear cell carcinoma(16;0.234)	GBM - Glioblastoma multiforme(144;5.39e-05)		GATGACCAGGGCATCTGATAA	0.413000			T	BCL6	NHL								3	58					0	0	1	0	0
SMARCA4	6597	broad.mit.edu	37	19	11134287	11134287	+	Missense_Mutation	SNP	G	G	A			TCGA-RY-A840-01A-11D-A36O-08	TCGA-RY-A840-10A-01D-A367-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	f91848fc-8730-434f-acab-791488ffe5eb	2a99e03f-024c-4750-81e0-7bcf3014ef3c	g.chr19:11134287G>A	ENST00000358026.2	+	20	3237	c.2953G>A	c.(2953-2955)Gag>Aag	p.E985K	SMARCA4_ENST00000344626.4_Missense_Mutation_p.E985K|SMARCA4_ENST00000541122.2_Missense_Mutation_p.E985K|SMARCA4_ENST00000450717.3_Missense_Mutation_p.E985K|SMARCA4_ENST00000444061.3_Missense_Mutation_p.E985K|SMARCA4_ENST00000589677.1_Missense_Mutation_p.E985K|SMARCA4_ENST00000413806.3_Missense_Mutation_p.E985K|SMARCA4_ENST00000590574.1_Missense_Mutation_p.E985K|SMARCA4_ENST00000429416.3_Missense_Mutation_p.E985K	NM_001128849.1	NP_001122321.1	P51532	SMCA4_HUMAN	SWI/SNF related, matrix associated, actin dependent regulator of chromatin, subfamily a, member 4	985					chromatin remodeling|negative regulation of androgen receptor signaling pathway|negative regulation of cell growth|negative regulation of S phase of mitotic cell cycle|negative regulation of transcription from RNA polymerase II promoter|nervous system development|positive regulation of sequence-specific DNA binding transcription factor activity|positive regulation of transcription from RNA polymerase II promoter|transcription, DNA-dependent	nBAF complex|npBAF complex|nuclear chromatin|SWI/SNF complex|WINAC complex	androgen receptor binding|ATP binding|DNA binding|DNA-dependent ATPase activity|helicase activity|histone acetyl-lysine binding|identical protein binding|p53 binding|protein N-terminus binding|transcription corepressor activity	p.?(1)		adrenal_gland(1)|autonomic_ganglia(1)|breast(6)|central_nervous_system(23)|endometrium(10)|haematopoietic_and_lymphoid_tissue(1)|kidney(8)|large_intestine(16)|liver(4)|lung(60)|ovary(10)|pancreas(7)|prostate(3)|skin(8)|stomach(1)|upper_aerodigestive_tract(2)|urinary_tract(2)	163		all_lung(6;0.0512)|Lung NSC(9;0.0568)				GAAGGAAGTCGAGGCCCAGTT	0.592000			"""F, N, Mis"""		NSCLC								8	10					0	0	1	0	0
CLUH	23277	broad.mit.edu	37	17	2594051	2594051	+	Missense_Mutation	SNP	A	A	T			TCGA-RY-A840-01A-11D-A36O-08	TCGA-RY-A840-10A-01D-A367-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	f91848fc-8730-434f-acab-791488ffe5eb	2a99e03f-024c-4750-81e0-7bcf3014ef3c	g.chr17:2594051A>T	ENST00000570628.1	-	26	3872	c.3767T>A	c.(3766-3768)cTg>cAg	p.L1256Q	CLUH_ENST00000575014.1_Missense_Mutation_p.L1189Q|CLUH_ENST00000538975.1_Missense_Mutation_p.L1256Q|CLUH_ENST00000435359.1_Missense_Mutation_p.L1256Q					clustered mitochondria (cluA/CLU1) homolog																		CTCGGCTTTCAGATTCTCCAG	0.662000													4	52					0	0	1	0	0
OSTCP1	0	broad.mit.edu	37	6	159262511	159262512	+	RNA	INS	-	-	A			TCGA-RY-A840-01A-11D-A36O-08	TCGA-RY-A840-10A-01D-A367-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	f91848fc-8730-434f-acab-791488ffe5eb	2a99e03f-024c-4750-81e0-7bcf3014ef3c	g.chr6:159262511_159262512insA	ENST00000522287.1	-	0	831_832					NR_028496.1																						GTCAGCAGGGGAAAAAAAAATA	0.332													2	4	---	---	---	---					
AC005077.5	0	broad.mit.edu	37	7	75804672	75804673	+	RNA	INS	-	-	A			TCGA-RY-A840-01A-11D-A36O-08	TCGA-RY-A840-10A-01D-A367-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	f91848fc-8730-434f-acab-791488ffe5eb	2a99e03f-024c-4750-81e0-7bcf3014ef3c	g.chr7:75804672_75804673insA	ENST00000437494.1	+	0	57																											catctcgaaccaaaaaaaaaag	0.545													2	4	---	---	---	---					
MMP12	4321	broad.mit.edu	37	11	102737945	102737945	+	RNA	DEL	A	A	-	rs28381681		TCGA-RY-A840-01A-11D-A36O-08	TCGA-RY-A840-10A-01D-A367-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	f91848fc-8730-434f-acab-791488ffe5eb	2a99e03f-024c-4750-81e0-7bcf3014ef3c	g.chr11:102737945delA	ENST00000532855.1	-	0	1007							P39900	MMP12_HUMAN	matrix metallopeptidase 12 (macrophage elastase)						positive regulation of epithelial cell proliferation involved in wound healing|proteolysis|wound healing, spreading of epidermal cells	proteinaceous extracellular matrix	calcium ion binding|metalloendopeptidase activity|zinc ion binding			autonomic_ganglia(1)|cervix(1)|endometrium(1)|kidney(3)|large_intestine(4)|lung(9)|prostate(5)|skin(1)|upper_aerodigestive_tract(1)	26		all_hematologic(158;0.00092)|Acute lymphoblastic leukemia(157;0.000967)		BRCA - Breast invasive adenocarcinoma(274;0.014)	Acetohydroxamic Acid(DB00551)	GTTTTCTGACAAAAAAAATTT	0.338													6	0	---	---	---	---					
DNM1P47	0	broad.mit.edu	37	15	102299886	102299887	+	RNA	INS	-	-	G			TCGA-RY-A840-01A-11D-A36O-08	TCGA-RY-A840-10A-01D-A367-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	f91848fc-8730-434f-acab-791488ffe5eb	2a99e03f-024c-4750-81e0-7bcf3014ef3c	g.chr15:102299886_102299887insG	ENST00000561463.1	+	0	7932_7933																											AACCTGTACTCGCGTCGGAACC	0.589													4	4	---	---	---	---					
BAGE2	85319	broad.mit.edu	37	21	11049382	11049382	+	RNA	DEL	T	T	-			TCGA-RY-A840-01A-11D-A36O-08	TCGA-RY-A840-10A-01D-A367-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	f91848fc-8730-434f-acab-791488ffe5eb	2a99e03f-024c-4750-81e0-7bcf3014ef3c	g.chr21:11049382delT	ENST00000470054.1	-	0	659									B melanoma antigen family, member 2															Colorectal(6;3.44e-05)|COAD - Colon adenocarcinoma(6;0.00727)|READ - Rectum adenocarcinoma(6;0.0723)	UCEC - Uterine corpus endometrioid carcinoma (6;0.0974)|all cancers(6;2.54e-22)|Epithelial(6;4.21e-19)|OV - Ovarian serous cystadenocarcinoma(6;1.16e-09)|BRCA - Breast invasive adenocarcinoma(6;7.72e-05)|Lung(8;0.000189)|LUSC - Lung squamous cell carcinoma(6;0.00379)|GBM - Glioblastoma multiforme(6;0.00391)|Kidney(17;0.0773)|LUAD - Lung adenocarcinoma(8;0.247)		TTACACAAACTTTTAGCGCCT	0.333													14	200	---	---	---	---					
CACNA1F	778	broad.mit.edu	37	X	49062190	49062190	+	Frame_Shift_Del	DEL	C	C	-			TCGA-RY-A840-01A-11D-A36O-08	TCGA-RY-A840-10A-01D-A367-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	f91848fc-8730-434f-acab-791488ffe5eb	2a99e03f-024c-4750-81e0-7bcf3014ef3c	g.chrX:49062190delC	ENST00000376265.2	-	47	5650	c.5589delG	c.(5587-5589)ggfs	p.G1863fs	CACNA1F_ENST00000376251.1_Frame_Shift_Del_p.G1798fs|CACNA1F_ENST00000323022.5_Frame_Shift_Del_p.G1852fs	NM_005183.2	NP_005174.2	O60840	CAC1F_HUMAN	calcium channel, voltage-dependent, L type, alpha 1F subunit	1863					axon guidance|detection of light stimulus involved in visual perception	voltage-gated calcium channel complex	protein binding|voltage-gated calcium channel activity			autonomic_ganglia(1)|breast(8)|central_nervous_system(3)|endometrium(14)|haematopoietic_and_lymphoid_tissue(1)|kidney(4)|large_intestine(17)|lung(24)|ovary(5)|prostate(3)|skin(4)|urinary_tract(1)	85					Verapamil(DB00661)	TGCCGAGGTACCCCTCCCCCG	0.647													8	2	---	---	---	---