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
PCGF2	7703	broad.mit.edu	37	17	36896590	36896591	+	Missense_Mutation	DNP	CC	CC	TT			TCGA-EM-A1YB-01A-11D-A14W-08	TCGA-EM-A1YB-10A-01D-A14W-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	d01545d4-8162-4d14-9c1f-b86832e1c2d4	9443fcf8-ae1f-4a09-adf8-503bb03f63db	g.chr17:36896590_36896591CC>TT	uc002hqp.1	-	2	311_312	c.65_66GG>AA	c.(64-66)ggg>gAA	p.G22E		NM_007144	NP_009075	P35227	PCGF2_HUMAN	Homo sapiens polycomb group ring finger 2 (PCGF2), mRNA.	22					negative regulation of transcription from RNA polymerase II promoter	PcG protein complex	DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			central_nervous_system(1)|endometrium(1)|kidney(1)|large_intestine(2)|lung(4)|skin(1)	10	Breast(7;9.07e-22)					TGAAGTACCCCCCGCAGAGGGC	0.624000													10	57					0	0	1	0	0
TP53	7157	broad.mit.edu	37	17	7578275	7578275	+	Nonsense_Mutation	SNP	G	G	A			TCGA-EM-A1YB-01A-11D-A14W-08	TCGA-EM-A1YB-10A-01D-A14W-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	d01545d4-8162-4d14-9c1f-b86832e1c2d4	9443fcf8-ae1f-4a09-adf8-503bb03f63db	g.chr17:7578275G>A	uc002gim.2	-	5	768	c.574C>T	c.(574-576)Cag>Tag	p.Q192*	TP53_uc002gig.1_Nonsense_Mutation_p.Q192*|TP53_uc002gih.3_Nonsense_Mutation_p.Q192*|TP53_uc010cne.1_5'Flank|TP53_uc010cng.1_Nonsense_Mutation_p.Q60*|TP53_uc010cnf.1_Nonsense_Mutation_p.Q60*|TP53_uc002gii.1_Nonsense_Mutation_p.Q60*|TP53_uc010cni.1_Nonsense_Mutation_p.Q192*|TP53_uc010cnh.1_Nonsense_Mutation_p.Q192*|TP53_uc002gij.2_Nonsense_Mutation_p.Q192*|TP53_uc010cnj.1_Intron|TP53_uc002gin.2_Nonsense_Mutation_p.Q99*|TP53_uc002gio.2_Nonsense_Mutation_p.Q60*|TP53_uc010vug.2_Nonsense_Mutation_p.Q153*	NM_001126112	NP_001119587	P04637	P53_HUMAN	Homo sapiens tumor protein p53 (TP53), transcript variant 2, mRNA.	192	Interaction with AXIN1 (By similarity).|Interaction with HIPK1 (By similarity).|Required for interaction with FBXO42.		Q -> H (in sporadic cancers; somatic mutation).|Q -> K (in a sporadic cancer; somatic mutation).|Q -> L (in sporadic cancers; somatic mutation).|Q -> P (in sporadic cancers; somatic mutation).|Q -> R (in sporadic cancers; somatic mutation).|QH -> HN (in a sporadic cancer; somatic mutation).|QH -> HY (in a sporadic cancer; somatic mutation).		DNA damage response, signal transduction by p53 class mediator resulting in cell cycle arrest|DNA damage response, signal transduction by p53 class mediator resulting in induction of apoptosis|DNA damage response, signal transduction by p53 class mediator resulting in transcription of p21 class mediator|ER overload response|Ras protein signal transduction|activation of caspase activity by cytochrome c|base-excision repair|blood coagulation|cell cycle arrest|cell differentiation|cell proliferation|cellular protein localization|cellular response to UV|cellular response to drug|cellular response to glucose starvation|cellular response to hypoxia|cellular response to ionizing radiation|determination of adult lifespan|interspecies interaction between organisms|negative regulation of apoptosis|negative regulation of cell growth|negative regulation of cell proliferation|negative regulation of helicase activity|negative regulation of transcription from RNA polymerase II promoter|nucleotide-excision repair|oxidative stress-induced premature senescence|positive regulation of histone deacetylation|positive regulation of neuron apoptosis|positive regulation of peptidyl-tyrosine phosphorylation|positive regulation of reactive oxygen species metabolic process|positive regulation of thymocyte apoptosis|positive regulation of transcription from RNA polymerase II promoter|protein localization|protein tetramerization|regulation of mitochondrial membrane permeability|replicative senescence|response to X-ray|response to antibiotic|response to gamma radiation	PML body|cytoplasm|cytosol|endoplasmic reticulum|insoluble fraction|mitochondrion|nuclear chromatin|nuclear matrix|nucleolus|nucleus|protein complex|replication fork	ATP binding|DNA strand annealing activity|RNA polymerase II transcription factor binding|chaperone binding|chromatin binding|copper ion binding|damaged DNA binding|histone acetyltransferase binding|p53 binding|protease binding|protein N-terminus binding|protein binding|protein heterodimerization activity|protein kinase binding|protein phosphatase 2A binding|sequence-specific DNA binding transcription factor activity|transcription regulatory region DNA binding|transcription repressor activity|ubiquitin protein ligase binding|zinc ion binding	p.Q192*(154)|p.P191del(11)|p.0?(8)|p.A189_V197delAPPQHLIRV(8)|p.Q99*(6)|p.?(6)|p.Q60*(6)|p.Q192R(5)|p.P191_E198>Q(4)|p.P191fs*53(4)|p.P191delP(4)|p.P191fs*56(3)|p.Q192H(3)|p.Q192K(3)|p.P191fs*6(2)|p.A189_Q192>E(2)|p.P191fs*15(2)|p.P191L(2)|p.P191R(2)|p.P191S(2)|p.G187fs*16(2)|p.P59delP(2)|p.P191_Q192delPQ(2)|p.P98delP(2)|p.Q192Q(2)|p.Q192del(2)|p.Q192fs*16(2)|p.L188_P191del(2)|p.Q192fs*30(2)|p.K164_P219del(1)|p.P59_E66>Q(1)|p.P191H(1)|p.P191fs*57(1)|p.P191fs*18(1)|p.P191P(1)|p.D186_P191delDGLAPP(1)|p.Q192>XXXXXXXXX(1)|p.P191T(1)|p.P98_E105>Q(1)|p.A189fs*53(1)|p.Q192fs*56(1)		NS(16)|adrenal_gland(37)|autonomic_ganglia(16)|biliary_tract(273)|bone(108)|breast(2530)|central_nervous_system(1264)|cervix(68)|endometrium(223)|eye(24)|fallopian_tube(1)|gastrointestinal_tract_(site_indeterminate)(1)|genital_tract(16)|haematopoietic_and_lymphoid_tissue(1301)|kidney(96)|large_intestine(5124)|liver(897)|lung(2388)|meninges(5)|oesophagus(1473)|ovary(1659)|pancreas(452)|penis(10)|peritoneum(33)|pituitary(4)|placenta(1)|pleura(3)|prostate(235)|salivary_gland(43)|skin(791)|small_intestine(14)|soft_tissue(220)|stomach(1158)|testis(11)|thymus(21)|thyroid(54)|upper_aerodigestive_tract(2271)|urinary_tract(1259)|vagina(6)|vulva(79)	24185		all_cancers(10;1.01e-06)|Myeloproliferative disorder(207;0.0122)|Prostate(122;0.081)		GBM - Glioblastoma multiforme(2;1.59e-06)|READ - Rectum adenocarcinoma(115;0.174)		ATAAGATGCTGAGGAGGGGCC	0.557000		111	"""Mis, N, F"""		"""breast, colorectal, lung, sarcoma, adrenocortical, glioma, multiple other tumour types"""	"""breast, sarcoma, adrenocortical carcinoma, glioma, multiple other tumour types"""		Other conserved DNA damage response genes	Osteosarcoma, Familial Clustering of;Li-Fraumeni syndrome;Hereditary Breast-Ovarian Cancer, non-BRCA1/2;Hereditary Adrenocortical Cancer;Endometrial Cancer, Familial Clustering of	HNSCC(1;<9.43e-08)|TCGA GBM(1;<1E-08)|TSP Lung(2;<1E-08)|TCGA Ovarian(1;<1.89e-07)|Multiple Myeloma(5;0.019)			9	26					0	0	1	0	0
RPL9	6133	broad.mit.edu	37	4	39460022	39460023	+	Missense_Mutation	DNP	GG	GG	AA			TCGA-EM-A1YB-01A-11D-A14W-08	TCGA-EM-A1YB-10A-01D-A14W-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	d01545d4-8162-4d14-9c1f-b86832e1c2d4	9443fcf8-ae1f-4a09-adf8-503bb03f63db	g.chr4:39460022_39460023GG>AA	uc003gub.3	-	0	185_186	c.37_38CC>TT	c.(37-39)cca>TTa	p.P13L	RPL9_uc003guc.3_Missense_Mutation_p.P13L|RPL9_uc011byk.2_Non-coding_Transcript|RPL9_uc011byl.1_Missense_Mutation_p.P13L|RPL9_uc003gud.1_Missense_Mutation_p.P13L|LIAS_uc003gue.4_5'Flank|LIAS_uc011bym.2_5'Flank|LIAS_uc003guf.3_5'Flank|LIAS_uc003gug.3_5'Flank	NM_001024921	NP_001020092	P32969	RL9_HUMAN	Homo sapiens ribosomal protein L9 (RPL9), transcript variant 2, mRNA.	13					endocrine pancreas development|translational elongation|translational termination|viral transcription	cytosol|nucleolus|ribosome	rRNA binding|structural constituent of ribosome			haematopoietic_and_lymphoid_tissue(1)|kidney(1)|large_intestine(4)|lung(1)|skin(1)	8						ACCATTTTCTGGAATGTCGACA	0.470000													11	45					0	0	1	0	0
SPSB3	90864	broad.mit.edu	37	16	1828539	1828539	+	Silent	SNP	G	G	A			TCGA-EM-A1YB-01A-11D-A14W-08	TCGA-EM-A1YB-10A-01D-A14W-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	d01545d4-8162-4d14-9c1f-b86832e1c2d4	9443fcf8-ae1f-4a09-adf8-503bb03f63db	g.chr16:1828539G>A	uc002cmu.3	-	2	292	c.201C>T	c.(199-201)ggC>ggT	p.G67G	SPSB3_uc002cmt.3_5'UTR|SPSB3_uc010uvm.2_Silent_p.G122G	NM_080861	NP_543137	Q6PJ21	SPSB3_HUMAN	Homo sapiens splA/ryanodine receptor domain and SOCS box containing 3 (SPSB3), mRNA.	67					intracellular signal transduction					endometrium(1)|kidney(4)|lung(3)|prostate(2)	10						AGAAGGACTCGCCGGTCACGG	0.677000													16	58					0	0	1	0	0
KTI12	112970	broad.mit.edu	37	1	52499429	52499429	+	Missense_Mutation	SNP	G	G	A			TCGA-EM-A1YB-01A-11D-A14W-08	TCGA-EM-A1YB-10A-01D-A14W-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	d01545d4-8162-4d14-9c1f-b86832e1c2d4	9443fcf8-ae1f-4a09-adf8-503bb03f63db	g.chr1:52499429G>A	uc001ctj.1	-	0	44	c.5C>T	c.(4-6)cCg>cTg	p.P2L	TXNDC12_uc001cti.3_Intron	NM_138417	NP_612426	Q96EK9	KTI12_HUMAN	Homo sapiens KTI12 homolog, chromatin associated (S. cerevisiae) (KTI12), mRNA.	2							ATP binding			central_nervous_system(2)|endometrium(1)|kidney(1)|lung(4)|ovary(1)|stomach(2)|urinary_tract(1)	12						CACCACGAGCGGCATCCTCTC	0.657000													4	11					0	0	1	0	0
SLC16A13	201232	broad.mit.edu	37	17	6939881	6939881	+	Silent	SNP	C	C	T			TCGA-EM-A1YB-01A-11D-A14W-08	TCGA-EM-A1YB-10A-01D-A14W-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	d01545d4-8162-4d14-9c1f-b86832e1c2d4	9443fcf8-ae1f-4a09-adf8-503bb03f63db	g.chr17:6939881C>T	uc002geh.3	+	0	488	c.180C>T	c.(178-180)atC>atT	p.I60I		NM_201566	NP_963860	Q7RTY0	MOT13_HUMAN	Homo sapiens solute carrier family 16, member 13 (monocarboxylic acid transporter 13) (SLC16A13), mRNA.	60						integral to membrane|plasma membrane	symporter activity			haematopoietic_and_lymphoid_tissue(1)|large_intestine(1)|liver(2)|lung(3)|ovary(1)|skin(1)|stomach(1)	10						CCATAGGAATCGCGGTGCAGC	0.637000													5	42					0	0	1	0	0
SNX29	92017	broad.mit.edu	37	16	12121194	12121194	+	Missense_Mutation	SNP	C	C	T			TCGA-EM-A1YB-01A-11D-A14W-08	TCGA-EM-A1YB-10A-01D-A14W-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	d01545d4-8162-4d14-9c1f-b86832e1c2d4	9443fcf8-ae1f-4a09-adf8-503bb03f63db	g.chr16:12121194C>T	uc002dbw.2	+	3	202	c.140C>T	c.(139-141)gCc>gTc	p.A47V	SNX29_uc002dby.4_5'UTR	NM_032167	NP_115543	Q8TEQ0	SNX29_HUMAN	Homo sapiens sorting nexin 29 (SNX29), mRNA.	0					cell communication		phosphatidylinositol binding			endometrium(1)|large_intestine(1)|lung(3)|ovary(1)|prostate(1)	7						TGTCTGTGTGCCCAGTTTGAA	0.572000													27	57					0	0	1	0	0
IRF1	3659	broad.mit.edu	37	5	131822017	131822017	+	Missense_Mutation	SNP	G	G	A			TCGA-EM-A1YB-01A-11D-A14W-08	TCGA-EM-A1YB-10A-01D-A14W-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	d01545d4-8162-4d14-9c1f-b86832e1c2d4	9443fcf8-ae1f-4a09-adf8-503bb03f63db	g.chr5:131822017G>A	uc003kxa.2	-	6	827	c.593C>T	c.(592-594)cCa>cTa	p.P198L	C5orf56_uc010jds.2_Missense_Mutation_p.G60R|IRF1_uc003kxd.2_Intron|IRF1_uc003kxb.2_Missense_Mutation_p.P198L|IRF1_uc010jdt.2_Missense_Mutation_p.P198L	NM_002198	NP_002189	P10914	IRF1_HUMAN	Homo sapiens interferon regulatory factor 1 (IRF1), mRNA.	198					blood coagulation|cellular response to mechanical stimulus|interferon-gamma-mediated signaling pathway|transcription from RNA polymerase II promoter|type I interferon-mediated signaling pathway	nucleoplasm				cervix(1)|endometrium(1)|haematopoietic_and_lymphoid_tissue(2)|large_intestine(1)|lung(2)|prostate(2)|skin(1)|urinary_tract(1)	11		all_cancers(142;0.026)|Breast(839;0.198)	KIRC - Kidney renal clear cell carcinoma(527;0.0186)|Kidney(363;0.0365)	LUAD - Lung adenocarcinoma(142;0.247)		AACTTCCACTGGGATGTGCCA	0.582000													4	88					0	0	1	0	0
ZDHHC16	84287	broad.mit.edu	37	10	99213324	99213324	+	Silent	SNP	G	G	C			TCGA-EM-A1YB-01A-11D-A14W-08	TCGA-EM-A1YB-10A-01D-A14W-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	d01545d4-8162-4d14-9c1f-b86832e1c2d4	9443fcf8-ae1f-4a09-adf8-503bb03f63db	g.chr10:99213324G>C	uc001knj.3	+	6	960	c.594G>C	c.(592-594)cgG>cgC	p.R198R	ZDHHC16_uc001knk.3_Silent_p.R198R|ZDHHC16_uc001knl.3_Silent_p.R198R|ZDHHC16_uc001knm.3_Silent_p.R133R|ZDHHC16_uc001knn.3_Intron|ZDHHC16_uc010qow.2_Silent_p.R198R	NM_198046	NP_932163	Q969W1	ZDH16_HUMAN	Homo sapiens zinc finger, DHHC-type containing 16 (ZDHHC16), transcript variant 5, mRNA.	198					apoptosis	endoplasmic reticulum membrane|integral to membrane	acyltransferase activity|zinc ion binding			kidney(4)|large_intestine(3)|lung(3)|ovary(1)|skin(1)|upper_aerodigestive_tract(2)	14		Colorectal(252;0.0846)		Epithelial(162;5.81e-10)|all cancers(201;4.19e-08)		ATAACCATCGGTACTTCTTCT	0.483000													5	168					0	0	1	0	0
ZNF710	374655	broad.mit.edu	37	15	90617455	90617455	+	Silent	SNP	C	C	T			TCGA-EM-A1YB-01A-11D-A14W-08	TCGA-EM-A1YB-10A-01D-A14W-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	d01545d4-8162-4d14-9c1f-b86832e1c2d4	9443fcf8-ae1f-4a09-adf8-503bb03f63db	g.chr15:90617455C>T	uc002bov.2	+	3	1881	c.1758C>T	c.(1756-1758)ctC>ctT	p.L586L		NM_198526	NP_940928	Q8N1W2	ZN710_HUMAN	Homo sapiens zinc finger protein 710 (ZNF710), mRNA.	586					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			breast(1)|central_nervous_system(2)|endometrium(2)|kidney(2)|large_intestine(4)|lung(1)|ovary(2)|prostate(1)|stomach(1)|urinary_tract(3)	19	Melanoma(11;0.00551)|Lung NSC(78;0.0196)|all_lung(78;0.04)		BRCA - Breast invasive adenocarcinoma(143;0.00769)|KIRC - Kidney renal clear cell carcinoma(17;0.0286)|Kidney(142;0.0514)|STAD - Stomach adenocarcinoma(125;0.129)			AGTTTAATCTCAAGGGCAACC	0.592000													18	33					0	0	1	0	0
DCX	1641	broad.mit.edu	37	X	110653602	110653602	+	Missense_Mutation	SNP	C	C	A			TCGA-EM-A1YB-01A-11D-A14W-08	TCGA-EM-A1YB-10A-01D-A14W-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	d01545d4-8162-4d14-9c1f-b86832e1c2d4	9443fcf8-ae1f-4a09-adf8-503bb03f63db	g.chrX:110653602C>A	uc011msv.2	-	1	440	c.268G>T	c.(268-270)Gac>Tac	p.D90Y	DCX_uc004epd.3_Missense_Mutation_p.D90Y|DCX_uc004epe.3_Missense_Mutation_p.D9Y|DCX_uc004epf.3_Missense_Mutation_p.D9Y|DCX_uc004epg.3_Missense_Mutation_p.D9Y	NM_178152	NP_835365	O43602	DCX_HUMAN	Homo sapiens doublecortin (DCX), transcript variant 2, mRNA.	90					axon guidance|central nervous system development|intracellular signal transduction	cytosol|microtubule associated complex	microtubule binding			breast(1)|central_nervous_system(2)|endometrium(3)|kidney(1)|large_intestine(10)|lung(17)|skin(6)|upper_aerodigestive_tract(1)	41						TCTCTTTCGTCAAAGTGTCCA	0.507000													27	112					0	0	1	0	0
ZNF91	7644	broad.mit.edu	37	19	23544777	23544777	+	Missense_Mutation	SNP	G	G	A			TCGA-EM-A1YB-01A-11D-A14W-08	TCGA-EM-A1YB-10A-01D-A14W-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	d01545d4-8162-4d14-9c1f-b86832e1c2d4	9443fcf8-ae1f-4a09-adf8-503bb03f63db	g.chr19:23544777G>A	uc002nre.3	-	3	1117	c.1004C>T	c.(1003-1005)tCa>tTa	p.S335L	ZNF91_uc010xrj.2_Missense_Mutation_p.S303L	NM_003430	NP_003421	Q05481	ZNF91_HUMAN	Homo sapiens zinc finger protein 91 (ZNF91), mRNA.	335						nucleus	DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding						all_lung(12;0.0349)|Lung NSC(12;0.0538)|all_epithelial(12;0.0611)				AGCAAGGGTTGAAGAACGGCT	0.383000													20	75					0	0	1	0	0
NMBR	4829	broad.mit.edu	37	6	142409595	142409595	+	Silent	SNP	G	G	A			TCGA-EM-A1YB-01A-11D-A14W-08	TCGA-EM-A1YB-10A-01D-A14W-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	d01545d4-8162-4d14-9c1f-b86832e1c2d4	9443fcf8-ae1f-4a09-adf8-503bb03f63db	g.chr6:142409595G>A	uc003qiu.3	-	0	342	c.201C>T	c.(199-201)atC>atT	p.I67I		NM_002511	NP_002502	P28336	NMBR_HUMAN	Homo sapiens neuromedin B receptor (NMBR), mRNA.	67					activation of phospholipase C activity by G-protein coupled receptor protein signaling pathway coupled to IP3 second messenger	cytoplasm|integral to plasma membrane	bombesin receptor activity			breast(2)|central_nervous_system(3)|endometrium(3)|large_intestine(3)|lung(8)|ovary(1)|skin(1)|upper_aerodigestive_tract(2)	23	Breast(32;0.155)			OV - Ovarian serous cystadenocarcinoma(155;9.93e-06)|GBM - Glioblastoma multiforme(68;0.0013)		TGGTGATGAAGATCTTCACCA	0.602000													15	24					0	0	1	0	0
MCM2	4171	broad.mit.edu	37	3	127335823	127335823	+	Silent	SNP	C	C	T			TCGA-EM-A1YB-01A-11D-A14W-08	TCGA-EM-A1YB-10A-01D-A14W-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	d01545d4-8162-4d14-9c1f-b86832e1c2d4	9443fcf8-ae1f-4a09-adf8-503bb03f63db	g.chr3:127335823C>T	uc003ejp.3	+	9	1692	c.1635C>T	c.(1633-1635)ttC>ttT	p.F545F	MCM2_uc011bkm.2_Silent_p.F415F|MCM2_uc010hsl.3_Non-coding_Transcript|MCM2_uc011bkn.2_Silent_p.F498F	NM_004526	NP_004517	P49736	MCM2_HUMAN	Homo sapiens minichromosome maintenance complex component 2 (MCM2), mRNA.	545	MCM.				DNA strand elongation involved in DNA replication|DNA-dependent DNA replication initiation|G1/S transition of mitotic cell cycle|M/G1 transition of mitotic cell cycle|S phase of mitotic cell cycle|cell cycle checkpoint	MCM complex|chromatin	ATP binding|helicase activity|metal ion binding			ovary(3)|skin(2)|stomach(1)	6						GAGCCATCTTCACCACTGGCC	0.607000													46	75					0	0	1	0	0
INTU	27152	broad.mit.edu	37	4	128554328	128554328	+	Missense_Mutation	SNP	G	G	A			TCGA-EM-A1YB-01A-11D-A14W-08	TCGA-EM-A1YB-10A-01D-A14W-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	d01545d4-8162-4d14-9c1f-b86832e1c2d4	9443fcf8-ae1f-4a09-adf8-503bb03f63db	g.chr4:128554328G>A	uc003ifk.2	+	0	242	c.139G>A	c.(139-141)Gat>Aat	p.D47N	INTU_uc011cgq.2_Non-coding_Transcript	NM_015693	NP_056508	Q9ULD6	PDZD6_HUMAN	Homo sapiens inturned planar cell polarity effector homolog (Drosophila) (INTU), mRNA.	47										breast(3)|cervix(1)|endometrium(1)|kidney(2)|large_intestine(8)|liver(2)|lung(17)|ovary(1)|prostate(2)|skin(1)|upper_aerodigestive_tract(2)|urinary_tract(3)	43						AGCGAGTAGCGATTATGAGTA	0.488000													5	65					0	0	1	0	0
PLXND1	23129	broad.mit.edu	37	3	129324718	129324718	+	Silent	SNP	G	G	A			TCGA-EM-A1YB-01A-11D-A14W-08	TCGA-EM-A1YB-10A-01D-A14W-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	d01545d4-8162-4d14-9c1f-b86832e1c2d4	9443fcf8-ae1f-4a09-adf8-503bb03f63db	g.chr3:129324718G>A	uc003emx.2	-	0	865	c.765C>T	c.(763-765)ttC>ttT	p.F255F		NM_015103	NP_055918	Q9Y4D7	PLXD1_HUMAN	Homo sapiens plexin D1 (PLXND1), mRNA.	255	Sema.				axon guidance	integral to membrane|intracellular|plasma membrane			PLXND1/TMCC1(4)	NS(1)|breast(1)|endometrium(4)|kidney(5)|large_intestine(17)|lung(28)|prostate(10)|stomach(3)|upper_aerodigestive_tract(1)|urinary_tract(2)	72						GGTTGAGGTCGAAGGTGAAGA	0.657000													3	15					0	0	1	0	0
PCDHB10	56126	broad.mit.edu	37	5	140573408	140573408	+	Missense_Mutation	SNP	C	C	T			TCGA-EM-A1YB-01A-11D-A14W-08	TCGA-EM-A1YB-10A-01D-A14W-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	d01545d4-8162-4d14-9c1f-b86832e1c2d4	9443fcf8-ae1f-4a09-adf8-503bb03f63db	g.chr5:140573408C>T	uc003lix.3	+	0	1457	c.1283C>T	c.(1282-1284)aCa>aTa	p.T428I		NM_018930	NP_061753	Q9UN67	PCDBA_HUMAN	Homo sapiens protocadherin beta 10 (PCDHB10), mRNA.	428	Cadherin 4.				calcium-dependent cell-cell adhesion|homophilic cell adhesion|synapse assembly|synaptic transmission	integral to membrane|plasma membrane	calcium ion binding			breast(3)|endometrium(5)|haematopoietic_and_lymphoid_tissue(2)|kidney(4)|large_intestine(14)|lung(30)|ovary(4)|prostate(5)|skin(3)|upper_aerodigestive_tract(4)|urinary_tract(2)	76			KIRC - Kidney renal clear cell carcinoma(527;0.00185)|Kidney(363;0.00339)			GACTTGGGGACACCCAGGCTG	0.537000													33	46					0	0	1	0	0
BCAR3	8412	broad.mit.edu	37	1	94054850	94054850	+	Missense_Mutation	SNP	C	C	T			TCGA-EM-A1YB-01A-11D-A14W-08	TCGA-EM-A1YB-10A-01D-A14W-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	d01545d4-8162-4d14-9c1f-b86832e1c2d4	9443fcf8-ae1f-4a09-adf8-503bb03f63db	g.chr1:94054850C>T	uc001dpz.3	-	4	888	c.613G>A	c.(613-615)Gtt>Att	p.V205I	BCAR3_uc001dqa.3_Missense_Mutation_p.V205I|BCAR3_uc001dqb.3_Missense_Mutation_p.V205I|BCAR3_uc001dpy.3_Missense_Mutation_p.V114I|LOC100129046_uc009wdn.3_5'Flank	NM_003567	NP_003558	O75815	BCAR3_HUMAN	Homo sapiens breast cancer anti-estrogen resistance 3 (BCAR3), mRNA.	205	SH2.				response to drug|small GTPase mediated signal transduction	intracellular	guanyl-nucleotide exchange factor activity|protein binding			breast(1)|central_nervous_system(1)|endometrium(2)|kidney(4)|large_intestine(3)|lung(11)|ovary(1)|prostate(1)|skin(1)	25		all_lung(203;0.00145)|Lung NSC(277;0.00662)		all cancers(265;0.0126)|GBM - Glioblastoma multiforme(16;0.0467)|Epithelial(280;0.166)		AGTCGCAGAACTGTCCGGTTG	0.582000													4	22					0	0	1	0	0
ITGA3	3675	broad.mit.edu	37	17	48156836	48156836	+	Missense_Mutation	SNP	G	G	T			TCGA-EM-A1YB-01A-11D-A14W-08	TCGA-EM-A1YB-10A-01D-A14W-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	d01545d4-8162-4d14-9c1f-b86832e1c2d4	9443fcf8-ae1f-4a09-adf8-503bb03f63db	g.chr17:48156836G>T	uc010dbm.3	+	20	3085	c.2621G>T	c.(2620-2622)cGg>cTg	p.R874L	ITGA3_uc010dbl.3_Missense_Mutation_p.R874L	NM_005501	NP_005492	P26006	ITA3_HUMAN	Homo sapiens integrin, alpha 3 (antigen CD49C, alpha 3 subunit of VLA-3 receptor) (ITGA3), transcript variant b, mRNA.	874					blood coagulation|cell-matrix adhesion|integrin-mediated signaling pathway|leukocyte migration	cell surface|integrin complex	protein binding|receptor activity			endometrium(3)|kidney(2)|large_intestine(7)|lung(11)|ovary(2)|pancreas(1)|prostate(1)|skin(2)|stomach(2)	31						CAGCGCAGGCGGCGACAGCTG	0.627000													4	66					0	0	1	0	0
FREM1	158326	broad.mit.edu	37	9	14824915	14824915	+	Missense_Mutation	SNP	C	C	A			TCGA-EM-A1YB-01A-11D-A14W-08	TCGA-EM-A1YB-10A-01D-A14W-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	d01545d4-8162-4d14-9c1f-b86832e1c2d4	9443fcf8-ae1f-4a09-adf8-503bb03f63db	g.chr9:14824915C>A	uc003zlm.3	-	11	2773	c.1957G>T	c.(1957-1959)Gtc>Ttc	p.V653F	FREM1_uc010mic.3_Non-coding_Transcript	NM_144966	NP_659403	Q5H8C1	FREM1_HUMAN	Homo sapiens FRAS1 related extracellular matrix 1 (FREM1), transcript variant 1, mRNA.	653					cell communication|multicellular organismal development	basement membrane|integral to membrane	metal ion binding|sugar binding			breast(3)|cervix(1)|endometrium(11)|haematopoietic_and_lymphoid_tissue(1)|kidney(5)|large_intestine(23)|lung(40)|ovary(4)|pancreas(1)|prostate(4)|skin(2)|stomach(1)|upper_aerodigestive_tract(3)|urinary_tract(1)	100				GBM - Glioblastoma multiforme(50;3.53e-06)		GTTTCCTTGACAACCAAATGC	0.418000													8	35					0	0	1	0	0
PPP6C	5537	broad.mit.edu	37	9	127915858	127915858	+	Missense_Mutation	SNP	C	C	G			TCGA-EM-A1YB-01A-11D-A14W-08	TCGA-EM-A1YB-10A-01D-A14W-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	d01545d4-8162-4d14-9c1f-b86832e1c2d4	9443fcf8-ae1f-4a09-adf8-503bb03f63db	g.chr9:127915858C>G	uc010mwv.3	-	6	955	c.734G>C	c.(733-735)aGt>aCt	p.S245T	PPP6C_uc004bpg.4_Missense_Mutation_p.S208T|PPP6C_uc010mww.3_Missense_Mutation_p.S186T|PPP6C_uc011lzr.2_Missense_Mutation_p.S61T	NM_001123355	NP_001116827	O00743	PPP6_HUMAN	Homo sapiens protein phosphatase 6, catalytic subunit (PPP6C), transcript variant 1, mRNA.	208					G1/S transition of mitotic cell cycle|protein dephosphorylation	cytosol	metal ion binding|protein binding|protein serine/threonine phosphatase activity			NS(2)|endometrium(1)|large_intestine(4)|liver(1)|lung(2)|ovary(1)|skin(3)	14						TCCTCGGGGACTGATAGCCCA	0.438000													14	10					0	0	1	0	0
RUFY3	22902	broad.mit.edu	37	4	71634264	71634264	+	Nonsense_Mutation	SNP	C	C	A			TCGA-EM-A1YB-01A-11D-A14W-08	TCGA-EM-A1YB-10A-01D-A14W-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	d01545d4-8162-4d14-9c1f-b86832e1c2d4	9443fcf8-ae1f-4a09-adf8-503bb03f63db	g.chr4:71634264C>A	uc003hfr.3	+	4	1177	c.582C>A	c.(580-582)taC>taA	p.Y194*	RUFY3_uc003hfp.4_Nonsense_Mutation_p.Y254*|RUFY3_uc003hfq.3_Nonsense_Mutation_p.Y194*|RUFY3_uc011cax.2_Nonsense_Mutation_p.Y212*|RUFY3_uc011cay.2_Nonsense_Mutation_p.Y130*	NM_001037442	NP_001032519	Q7L099	RUFY3_HUMAN	Homo sapiens RUN and FYVE domain containing 3 (RUFY3), transcript variant 1, mRNA.	194	RUN.				negative regulation of axonogenesis	filopodium|growth cone		p.F193C(1)		endometrium(1)|kidney(3)|large_intestine(4)|lung(6)|prostate(1)|stomach(1)	16		all_hematologic(202;0.248)	Lung(101;0.235)			GTGAATTCTACGAACCCAATG	0.388000													4	104					0	0	1	0	0
VTI1A	143187	broad.mit.edu	37	10	114298090	114298090	+	Splice_Site	SNP	G	G	A			TCGA-EM-A1YB-01A-11D-A14W-08	TCGA-EM-A1YB-10A-01D-A14W-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	d01545d4-8162-4d14-9c1f-b86832e1c2d4	9443fcf8-ae1f-4a09-adf8-503bb03f63db	g.chr10:114298090G>A	uc001kzz.3	+	5	803	c.427_splice	c.e5+1	p.E143_splice	VTI1A_uc001kzy.3_Splice_Site_p.E143_splice	NM_145206	NP_660207	Q96AJ9	VTI1A_HUMAN	Homo sapiens vesicle transport through interaction with t-SNAREs homolog 1A (yeast) (VTI1A), mRNA.	143					intracellular protein transport|retrograde transport, endosome to Golgi	SNARE complex	SNAP receptor activity|protein transporter activity		VTI1A/TCF7L2(8)	breast(1)|large_intestine(1)|lung(2)|ovary(1)|skin(1)	6		Colorectal(252;0.0314)|Breast(234;0.183)		Epithelial(162;0.0126)|all cancers(201;0.0487)		GTGGAAACCGGTAAGAATTCT	0.453000			T	TCF7L2	colorectal								19	61					0	0	1	0	0
CT47B1	643311	broad.mit.edu	37	X	120008779	120008779	+	Missense_Mutation	SNP	G	G	A			TCGA-EM-A1YB-01A-11D-A14W-08	TCGA-EM-A1YB-10A-01D-A14W-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	d01545d4-8162-4d14-9c1f-b86832e1c2d4	9443fcf8-ae1f-4a09-adf8-503bb03f63db	g.chrX:120008779G>A	uc011muc.2	-	0	1001	c.746C>T	c.(745-747)cCg>cTg	p.P249L		NM_001145718	NP_001139190	P0C2W7	CT47B_HUMAN	Homo sapiens cancer/testis antigen family 47, member B1 (CT47B1), mRNA.	249										breast(1)|central_nervous_system(1)|endometrium(7)|kidney(2)|lung(9)|ovary(1)|skin(1)	22						CTCTGAGGTCGGTTCCTCTGC	0.692000													55	100					0	0	1	0	0
CASZ1	54897	broad.mit.edu	37	1	10720553	10720553	+	Missense_Mutation	SNP	C	C	T			TCGA-EM-A1YB-01A-11D-A14W-08	TCGA-EM-A1YB-10A-01D-A14W-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	d01545d4-8162-4d14-9c1f-b86832e1c2d4	9443fcf8-ae1f-4a09-adf8-503bb03f63db	g.chr1:10720553C>T	uc001aro.3	-	5	866	c.546G>A	c.(544-546)atG>atA	p.M182I	CASZ1_uc001arp.1_Missense_Mutation_p.M182I|CASZ1_uc009vmx.2_Missense_Mutation_p.M206I|CASZ1_uc001arq.1_Missense_Mutation_p.M41I	NM_001079843	NP_001073312	Q86V15	CASZ1_HUMAN	Homo sapiens castor zinc finger 1 (CASZ1), transcript variant 1, mRNA.	182					regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasm|nucleus	DNA binding|zinc ion binding			breast(1)|central_nervous_system(2)|cervix(1)|endometrium(9)|large_intestine(13)|lung(18)|ovary(2)|prostate(5)|skin(2)|urinary_tract(1)	54	Ovarian(185;0.203)|all_lung(157;0.204)	Lung NSC(185;4.96e-06)|all_lung(284;1.22e-05)|Renal(390;0.000147)|Breast(348;0.00093)|Colorectal(325;0.00212)|Hepatocellular(190;0.00913)|Ovarian(437;0.0229)|Myeloproliferative disorder(586;0.0255)	STAD - Stomach adenocarcinoma(5;0.0224)	UCEC - Uterine corpus endometrioid carcinoma (279;0.0265)|Colorectal(212;3.54e-08)|COAD - Colon adenocarcinoma(227;9.56e-06)|BRCA - Breast invasive adenocarcinoma(304;0.000219)|Kidney(185;0.00142)|KIRC - Kidney renal clear cell carcinoma(229;0.00381)|READ - Rectum adenocarcinoma(331;0.0419)|STAD - Stomach adenocarcinoma(132;0.0623)		GGAACTCGGTCATGGTGGAGG	0.652000													5	21					0	0	1	0	0
C11orf53	341032	broad.mit.edu	37	11	111154827	111154827	+	Missense_Mutation	SNP	G	G	A			TCGA-EM-A1YB-01A-11D-A14W-08	TCGA-EM-A1YB-10A-01D-A14W-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	d01545d4-8162-4d14-9c1f-b86832e1c2d4	9443fcf8-ae1f-4a09-adf8-503bb03f63db	g.chr11:111154827G>A	uc001plc.3	+	2	181	c.34G>A	c.(34-36)Ggt>Agt	p.G12S		NM_198498	NP_940900	Q8IXP5	CK053_HUMAN	Homo sapiens chromosome 11 open reading frame 53 (C11orf53), mRNA.	12								p.G12C(2)|p.Y11Y(1)		endometrium(1)|large_intestine(2)|lung(3)|skin(2)	8		all_cancers(61;2.05e-09)|Melanoma(852;4.04e-05)|all_epithelial(67;6.15e-05)|all_hematologic(158;0.000826)|Acute lymphoblastic leukemia(157;0.000966)|all_neural(223;0.0332)|Medulloblastoma(222;0.0425)|Breast(348;0.147)		Epithelial(105;1.7e-06)|BRCA - Breast invasive adenocarcinoma(274;3.16e-06)|all cancers(92;2.88e-05)|OV - Ovarian serous cystadenocarcinoma(223;0.0507)		AGGTTACTACGGTGTCAGAAG	0.502000											OREG0021325	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	7	178					0	0	1	0	0
IST1	9798	broad.mit.edu	37	16	71954709	71954709	+	Missense_Mutation	SNP	G	G	A			TCGA-EM-A1YB-01A-11D-A14W-08	TCGA-EM-A1YB-10A-01D-A14W-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	d01545d4-8162-4d14-9c1f-b86832e1c2d4	9443fcf8-ae1f-4a09-adf8-503bb03f63db	g.chr16:71954709G>A	uc002fbj.1	+	6	747	c.464G>A	c.(463-465)gGa>gAa	p.G155E	IST1_uc010cgh.1_Missense_Mutation_p.G155E|IST1_uc002fbk.1_Missense_Mutation_p.G142E|IST1_uc002fbm.1_Missense_Mutation_p.G142E|IST1_uc002fbl.1_Missense_Mutation_p.G142E|IST1_uc010vml.1_5'Flank|IST1_uc010vmk.1_Intron			P53990	IST1_HUMAN	Homo sapiens increased sodium tolerance 1 homolog (yeast) (IST1), mRNA.	142	Interaction with CHMP1A and CHMP1B.|Interaction with VPS37B.				cell cycle|cell division	ER-Golgi intermediate compartment|cytoplasmic membrane-bounded vesicle	protein binding										AACCAGATTGGAACTGTGAAT	0.413000													3	83					0	0	1	0	0
RYR3	6263	broad.mit.edu	37	15	33833092	33833092	+	Splice_Site	SNP	G	G	A			TCGA-EM-A1YB-01A-11D-A14W-08	TCGA-EM-A1YB-10A-01D-A14W-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	d01545d4-8162-4d14-9c1f-b86832e1c2d4	9443fcf8-ae1f-4a09-adf8-503bb03f63db	g.chr15:33833092G>A	uc001zhi.3	+	7	716	c.646_splice	c.e7+1	p.G216_splice	RYR3_uc010bar.3_Splice_Site_p.G216_splice	NM_001036	NP_001027	Q15413	RYR3_HUMAN	Homo sapiens ryanodine receptor 3 (RYR3), transcript variant 1, mRNA.	216	MIR 3.				cellular calcium ion homeostasis	integral to membrane	calcium ion binding|receptor activity|ryanodine-sensitive calcium-release channel activity			NS(3)|breast(9)|central_nervous_system(8)|cervix(2)|endometrium(29)|haematopoietic_and_lymphoid_tissue(2)|kidney(18)|large_intestine(55)|lung(148)|ovary(7)|pancreas(1)|prostate(13)|skin(4)|stomach(1)|upper_aerodigestive_tract(8)|urinary_tract(3)	311		all_lung(180;7.18e-09)		all cancers(64;8.95e-12)|GBM - Glioblastoma multiforme(186;0.00109)|BRCA - Breast invasive adenocarcinoma(123;0.0363)		ATCGAAGAAGGTGTGCTTCTT	0.428000													6	62					0	0	1	0	0
C9orf116	138162	broad.mit.edu	37	9	138391667	138391667	+	Missense_Mutation	SNP	C	C	T			TCGA-EM-A1YB-01A-11D-A14W-08	TCGA-EM-A1YB-10A-01D-A14W-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	d01545d4-8162-4d14-9c1f-b86832e1c2d4	9443fcf8-ae1f-4a09-adf8-503bb03f63db	g.chr9:138391667C>T	uc004cft.1	-	0	95	c.31G>A	c.(31-33)Gag>Aag	p.E11K	C9orf116_uc004cfs.1_Missense_Mutation_p.E11K|C9orf116_uc004cfu.1_Non-coding_Transcript|MRPS2_uc004cfv.4_5'Flank	NM_001048265	NP_001041730	Q5BN46	CI116_HUMAN	Homo sapiens chromosome 9 open reading frame 116 (C9orf116), transcript variant 1, mRNA.	11															OV - Ovarian serous cystadenocarcinoma(145;7.39e-08)|Epithelial(140;5.19e-07)|all cancers(34;1.04e-05)		GCCACAGGCTCCGCGCACGCT	0.697000													4	5					0	0	1	0	0
TRIM10	10107	broad.mit.edu	37	6	30121959	30121959	+	Silent	SNP	G	G	A			TCGA-EM-A1YB-01A-11D-A14W-08	TCGA-EM-A1YB-10A-01D-A14W-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	d01545d4-8162-4d14-9c1f-b86832e1c2d4	9443fcf8-ae1f-4a09-adf8-503bb03f63db	g.chr6:30121959G>A	uc003npo.3	-	6	1309	c.1233C>T	c.(1231-1233)ttC>ttT	p.F411F	TRIM10_uc003npn.2_Intron	NM_006778	NP_006769	Q9UDY6	TRI10_HUMAN	Homo sapiens tripartite motif containing 10 (TRIM10), transcript variant 1, mRNA.	411	B30.2/SPRY.					cytoplasm	zinc ion binding			ovary(1)	1						GAGCCGAGACGAAGCCCCAAG	0.672000													11	23					0	0	1	0	0
CASP3	836	broad.mit.edu	37	4	185550615	185550615	+	Missense_Mutation	SNP	G	G	A			TCGA-EM-A1YB-01A-11D-A14W-08	TCGA-EM-A1YB-10A-01D-A14W-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	d01545d4-8162-4d14-9c1f-b86832e1c2d4	9443fcf8-ae1f-4a09-adf8-503bb03f63db	g.chr4:185550615G>A	uc003iwg.3	-	6	898	c.524C>T	c.(523-525)tCa>tTa	p.S175L	CASP3_uc003iwh.3_Silent_p.F215F|CASP3_uc003iwi.3_Silent_p.F215F			P42574	CASP3_HUMAN	Homo sapiens caspase 3, apoptosis-related cysteine peptidase (CASP3), transcript variant alpha, mRNA.	0					DNA fragmentation involved in apoptotic nuclear change|activation of caspase activity by cytochrome c|negative regulation of apoptosis|nerve growth factor receptor signaling pathway|nuclear fragmentation involved in apoptotic nuclear change|proteolysis|response to tumor necrosis factor	cytosol|mitochondrion|nucleoplasm|plasma membrane	cysteine-type endopeptidase activity|protein binding			endometrium(1)|kidney(1)|large_intestine(3)|lung(5)|prostate(1)|skin(1)	12		all_lung(41;7.57e-14)|Lung NSC(41;1.81e-13)|Colorectal(36;0.00139)|Hepatocellular(41;0.00826)|Renal(120;0.00988)|Prostate(90;0.0235)|all_neural(102;0.057)|all_hematologic(60;0.0592)		all cancers(43;2.05e-27)|Epithelial(43;4.27e-24)|OV - Ovarian serous cystadenocarcinoma(60;3.04e-11)|Colorectal(24;2e-05)|STAD - Stomach adenocarcinoma(60;2.35e-05)|GBM - Glioblastoma multiforme(59;4.94e-05)|COAD - Colon adenocarcinoma(29;0.00017)|BRCA - Breast invasive adenocarcinoma(30;0.000218)|LUSC - Lung squamous cell carcinoma(40;0.00904)|READ - Rectum adenocarcinoma(43;0.161)	Melatonin(DB01065)|Minocycline(DB01017)|Simvastatin(DB00641)	GCGACTGGATGAACCAGGAGC	0.393000													15	42					0	0	1	0	0
IL29	282618	broad.mit.edu	37	19	39787080	39787080	+	Missense_Mutation	SNP	G	G	A			TCGA-EM-A1YB-01A-11D-A14W-08	TCGA-EM-A1YB-10A-01D-A14W-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	d01545d4-8162-4d14-9c1f-b86832e1c2d4	9443fcf8-ae1f-4a09-adf8-503bb03f63db	g.chr19:39787080G>A	uc002okv.3	+	0	116	c.19G>A	c.(19-21)Gtg>Atg	p.V7M		NM_172140	NP_742152	Q8IU54	IL29_HUMAN	Homo sapiens interleukin 29 (interferon, lambda 1) (IL29), mRNA.	7					defense response to virus|negative regulation of cell proliferation|negative regulation of interleukin-13 production|negative regulation of interleukin-5 production|negative regulation of memory T cell differentiation|negative regulation of transcription, DNA-dependent|negative regulation of type 2 immune response|positive regulation of MHC class I biosynthetic process|positive regulation of immune response|positive regulation of interferon-gamma production|positive regulation of transcription, DNA-dependent|positive regulation of tyrosine phosphorylation of STAT protein	extracellular space|interleukin-28 receptor complex	cytokine activity|interleukin-28 receptor binding			endometrium(2)|lung(2)	4	all_cancers(60;1.85e-07)|all_lung(34;4.03e-08)|Lung NSC(34;4.66e-08)|all_epithelial(25;6.4e-07)|Ovarian(47;0.0512)		Epithelial(26;1.96e-27)|all cancers(26;2.05e-24)|Lung(45;0.000278)|LUSC - Lung squamous cell carcinoma(53;0.000335)			AGCTTGGACCGTGGTGCTGGT	0.567000													19	60					0	0	1	0	0
HIST1H1E	3008	broad.mit.edu	37	6	26156747	26156747	+	Silent	SNP	C	C	T			TCGA-EM-A1YB-01A-11D-A14W-08	TCGA-EM-A1YB-10A-01D-A14W-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	d01545d4-8162-4d14-9c1f-b86832e1c2d4	9443fcf8-ae1f-4a09-adf8-503bb03f63db	g.chr6:26156747C>T	uc003ngq.3	+	0	189	c.129C>T	c.(127-129)ctC>ctT	p.L43L	HIST1H2BD_uc003ngr.3_5'Flank|HIST1H2BD_uc003ngs.3_5'Flank	NM_005321	NP_005312	P10412	H14_HUMAN	Homo sapiens histone cluster 1, H1e (HIST1H1E), mRNA.	43	H15.				nucleosome assembly	nucleosome|nucleus	DNA binding|protein binding			NS(2)|central_nervous_system(1)|endometrium(2)|haematopoietic_and_lymphoid_tissue(2)|large_intestine(1)|liver(1)|lung(9)|ovary(2)|prostate(1)|skin(3)|upper_aerodigestive_tract(2)	26						TGTCCGAGCTCATTACTAAAG	0.627000													13	38					0	0	1	0	0
ASPM	259266	broad.mit.edu	37	1	197115496	197115496	+	Silent	SNP	C	C	T			TCGA-EM-A1YB-01A-11D-A14W-08	TCGA-EM-A1YB-10A-01D-A14W-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	d01545d4-8162-4d14-9c1f-b86832e1c2d4	9443fcf8-ae1f-4a09-adf8-503bb03f63db	g.chr1:197115496C>T	uc001gtu.3	-	0	329	c.72G>A	c.(70-72)ctG>ctA	p.L24L	ASPM_uc001gtv.3_Silent_p.L24L|ASPM_uc001gtw.4_5'UTR	NM_018136	NP_060606	Q8IZT6	ASPM_HUMAN	Homo sapiens asp (abnormal spindle) homolog, microcephaly associated (Drosophila) (ASPM), transcript variant 1, mRNA.	24					mitosis	cytoplasm|nucleus	calmodulin binding			breast(6)|central_nervous_system(2)|cervix(2)|endometrium(10)|kidney(9)|large_intestine(28)|liver(1)|lung(87)|ovary(5)|pancreas(2)|prostate(6)|skin(4)|urinary_tract(3)	165						cggggccccgcagccccgcgg	0.701000													6	21					0	0	1	0	0
USP38	84640	broad.mit.edu	37	4	144109022	144109022	+	Silent	SNP	G	G	A			TCGA-EM-A1YB-01A-11D-A14W-08	TCGA-EM-A1YB-10A-01D-A14W-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	d01545d4-8162-4d14-9c1f-b86832e1c2d4	9443fcf8-ae1f-4a09-adf8-503bb03f63db	g.chr4:144109022G>A	uc003ijb.3	+	1	1260	c.726G>A	c.(724-726)caG>caA	p.Q242Q	USP38_uc003ija.4_Silent_p.Q242Q|USP38_uc003ijc.3_Non-coding_Transcript	NM_032557	NP_115946	Q8NB14	UBP38_HUMAN	Homo sapiens ubiquitin specific peptidase 38 (USP38), mRNA.	242					ubiquitin-dependent protein catabolic process		cysteine-type peptidase activity|ubiquitin thiolesterase activity			breast(2)|cervix(1)|endometrium(1)|kidney(1)|large_intestine(9)|lung(12)|ovary(1)|pancreas(1)|prostate(2)|urinary_tract(3)	33	all_hematologic(180;0.158)					GCCTTGTGCAGCATATTCCTC	0.388000													3	49					0	0	1	0	0
SQLE	6713	broad.mit.edu	37	8	126033114	126033114	+	Splice_Site	SNP	G	G	A			TCGA-EM-A1YB-01A-11D-A14W-08	TCGA-EM-A1YB-10A-01D-A14W-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	d01545d4-8162-4d14-9c1f-b86832e1c2d4	9443fcf8-ae1f-4a09-adf8-503bb03f63db	g.chr8:126033114G>A	uc011liq.2	+	10	2458	c.1532_splice	c.e10+1	p.V511_splice		NM_003129	NP_003120	Q14534	ERG1_HUMAN	Homo sapiens squalene epoxidase (SQLE), mRNA.	511					cholesterol biosynthetic process	endoplasmic reticulum membrane|integral to membrane|microsome	flavin adenine dinucleotide binding|squalene monooxygenase activity			NS(1)|breast(1)|endometrium(1)|kidney(1)|large_intestine(2)|lung(6)|ovary(1)|prostate(1)	14	Ovarian(258;0.0028)|all_neural(195;0.00294)|Hepatocellular(40;0.108)		STAD - Stomach adenocarcinoma(47;0.000918)|COAD - Colon adenocarcinoma(160;0.205)		Butenafine(DB01091)|Naftifine(DB00735)|Terbinafine(DB00857)	TGCTTTCTGTGTAAGTTGTGA	0.383000													6	17					0	0	1	0	0
SESN3	143686	broad.mit.edu	37	11	94963999	94963999	+	Missense_Mutation	SNP	G	G	A			TCGA-EM-A1YB-01A-11D-A14W-08	TCGA-EM-A1YB-10A-01D-A14W-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	d01545d4-8162-4d14-9c1f-b86832e1c2d4	9443fcf8-ae1f-4a09-adf8-503bb03f63db	g.chr11:94963999G>A	uc001pfk.1	-	0	248	c.26C>T	c.(25-27)tCg>tTg	p.S9L	SESN3_uc010rug.1_Intron|SESN3_uc001pfl.3_Missense_Mutation_p.S9L	NM_144665	NP_653266	P58005	SESN3_HUMAN	Homo sapiens sestrin 3 (SESN3), mRNA.	9					cell cycle arrest	nucleus				endometrium(5)|large_intestine(6)|lung(3)|skin(1)|stomach(1)	16		Acute lymphoblastic leukemia(157;2.26e-05)|all_hematologic(158;0.0123)		BRCA - Breast invasive adenocarcinoma(274;0.234)		GGCGGCGGCCGACGGGCTGCC	0.751000													5	9					0	0	1	0	0
TREM1	54210	broad.mit.edu	37	6	41254385	41254385	+	Silent	SNP	C	C	T			TCGA-EM-A1YB-01A-11D-A14W-08	TCGA-EM-A1YB-10A-01D-A14W-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	d01545d4-8162-4d14-9c1f-b86832e1c2d4	9443fcf8-ae1f-4a09-adf8-503bb03f63db	g.chr6:41254385C>T	uc003oqf.2	-	0	73	c.9G>A	c.(7-9)aaG>aaA	p.K3K	TREM1_uc003oqg.2_Silent_p.K3K|TREM1_uc021yzj.1_Silent_p.K3K	NM_018643	NP_061113	Q9NP99	TREM1_HUMAN	Homo sapiens triggering receptor expressed on myeloid cells 1 (TREM1), transcript variant 1, mRNA.	3					blood coagulation|humoral immune response|intracellular signal transduction|leukocyte migration	extracellular region|integral to membrane|intracellular|plasma membrane	receptor activity			NS(1)|breast(2)|endometrium(2)|large_intestine(5)|lung(5)|skin(1)	16	Ovarian(28;0.0327)|Colorectal(47;0.196)				Glutathione(DB00143)	AGAGCCTGGTCTTCCTCATCC	0.582000													12	52					0	0	1	0	0
CCDC80	151887	broad.mit.edu	37	3	112357200	112357200	+	Missense_Mutation	SNP	G	G	T			TCGA-EM-A1YB-01A-11D-A14W-08	TCGA-EM-A1YB-10A-01D-A14W-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	d01545d4-8162-4d14-9c1f-b86832e1c2d4	9443fcf8-ae1f-4a09-adf8-503bb03f63db	g.chr3:112357200G>T	uc003dzf.3	-	1	1771	c.1553C>A	c.(1552-1554)tCt>tAt	p.S518Y	CCDC80_uc011bhv.2_Missense_Mutation_p.S518Y|CCDC80_uc003dzg.3_Missense_Mutation_p.S518Y|CCDC80_uc003dzh.1_Missense_Mutation_p.S518Y	NM_199512	NP_955806	Q76M96	CCD80_HUMAN	Homo sapiens coiled-coil domain containing 80 (CCDC80), transcript variant 2, mRNA.	518	Lys-rich.									breast(2)|endometrium(3)|haematopoietic_and_lymphoid_tissue(1)|kidney(1)|large_intestine(13)|liver(1)|lung(21)|ovary(3)|pancreas(2)|prostate(4)	51						CTCCAGCTGAGAGGCAGTAGG	0.473000													24	53					0	0	1	0	0
DNAJC22	79962	broad.mit.edu	37	12	49742735	49742735	+	Missense_Mutation	SNP	G	G	A			TCGA-EM-A1YB-01A-11D-A14W-08	TCGA-EM-A1YB-10A-01D-A14W-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	d01545d4-8162-4d14-9c1f-b86832e1c2d4	9443fcf8-ae1f-4a09-adf8-503bb03f63db	g.chr12:49742735G>A	uc001rua.3	+	1	481	c.80G>A	c.(79-81)aGg>aAg	p.R27K	DNAJC22_uc001rub.3_Missense_Mutation_p.R27K	NM_024902	NP_079178	Q8N4W6	DJC22_HUMAN	Homo sapiens DnaJ (Hsp40) homolog, subfamily C, member 22 (DNAJC22), mRNA.	27					protein folding	integral to membrane	heat shock protein binding|unfolded protein binding			breast(1)|central_nervous_system(1)|endometrium(1)|large_intestine(2)|liver(2)|lung(1)|ovary(1)|pancreas(1)	10						TACCTGGGAAGGGACAGCCAC	0.652000													4	78					0	0	1	0	0
FGD2	221472	broad.mit.edu	37	6	36983609	36983609	+	Missense_Mutation	SNP	G	G	C			TCGA-EM-A1YB-01A-11D-A14W-08	TCGA-EM-A1YB-10A-01D-A14W-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	d01545d4-8162-4d14-9c1f-b86832e1c2d4	9443fcf8-ae1f-4a09-adf8-503bb03f63db	g.chr6:36983609G>C	uc010jwp.1	+	8	1266	c.1095G>C	c.(1093-1095)agG>agC	p.R365S	FGD2_uc003ong.2_Missense_Mutation_p.R87S|FGD2_uc011dtv.1_5'UTR	NM_173558	NP_775829	Q7Z6J4	FGD2_HUMAN	Homo sapiens FYVE, RhoGEF and PH domain containing 2 (FGD2), mRNA.	365	PH 1.				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	Golgi apparatus|cytoskeleton|cytosol|early endosome membrane|lamellipodium|nucleus|ruffle membrane	Rho guanyl-nucleotide exchange factor activity|metal ion binding|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						TCCAGGTGAGGACCCGCATCG	0.612000													2	6					0	0	1	0	0
MYO10	4651	broad.mit.edu	37	5	16689986	16689986	+	Silent	SNP	G	G	A			TCGA-EM-A1YB-01A-11D-A14W-08	TCGA-EM-A1YB-10A-01D-A14W-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	d01545d4-8162-4d14-9c1f-b86832e1c2d4	9443fcf8-ae1f-4a09-adf8-503bb03f63db	g.chr5:16689986G>A	uc003jft.4	-	27	4311	c.3843C>T	c.(3841-3843)atC>atT	p.I1281I	MYO10_uc011cnc.2_Silent_p.I160I|MYO10_uc011cnd.2_Silent_p.I638I|MYO10_uc011cne.2_Silent_p.I638I|MYO10_uc010itx.3_Silent_p.I904I	NM_012334	NP_036466	Q9HD67	MYO10_HUMAN	Homo sapiens myosin X (MYO10), mRNA.	1281	PH 1.				axon guidance|signal transduction	myosin complex	ATP binding|actin binding|motor activity			NS(1)|breast(3)|central_nervous_system(1)|cervix(1)|endometrium(12)|haematopoietic_and_lymphoid_tissue(1)|kidney(11)|large_intestine(19)|lung(28)|ovary(2)|pancreas(1)|prostate(1)|skin(1)|stomach(1)|upper_aerodigestive_tract(1)|urinary_tract(2)	86						CGGCCATAATGATGTCGATCC	0.468000													3	49					0	0	1	0	0
GABRA3	2556	broad.mit.edu	37	X	151336929	151336929	+	Missense_Mutation	SNP	G	G	T			TCGA-EM-A1YB-01A-11D-A14W-08	TCGA-EM-A1YB-10A-01D-A14W-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	d01545d4-8162-4d14-9c1f-b86832e1c2d4	9443fcf8-ae1f-4a09-adf8-503bb03f63db	g.chrX:151336929G>T	uc010ntk.1	-	9	1490	c.1250C>A	c.(1249-1251)tCc>tAc	p.S417Y		NM_000808	NP_000799	P34903	GBRA3_HUMAN	Homo sapiens gamma-aminobutyric acid (GABA) A receptor, alpha 3 (GABRA3), mRNA.	417					gamma-aminobutyric acid signaling pathway	cell junction|chloride channel complex|integral to plasma membrane|postsynaptic membrane	GABA-A receptor activity|benzodiazepine receptor activity|chloride channel activity|extracellular ligand-gated ion channel activity|protein binding			breast(1)|endometrium(5)|kidney(1)|large_intestine(5)|lung(16)|ovary(1)|prostate(2)|skin(6)	37	Acute lymphoblastic leukemia(192;6.56e-05)				Alprazolam(DB00404)|Diazepam(DB00829)|Ethchlorvynol(DB00189)|Flunitrazepam(DB01544)|Flurazepam(DB00690)|Lorazepam(DB00186)|Meprobamate(DB00371)|Midazolam(DB00683)	AGCGCCCTTGGAGATGGTGGA	0.557000													7	248					0	0	1	0	0
NAPG	8774	broad.mit.edu	37	18	10526109	10526109	+	Nonsense_Mutation	SNP	C	C	T			TCGA-EM-A1YB-01A-11D-A14W-08	TCGA-EM-A1YB-10A-01D-A14W-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	d01545d4-8162-4d14-9c1f-b86832e1c2d4	9443fcf8-ae1f-4a09-adf8-503bb03f63db	g.chr18:10526109C>T	uc002kon.3	+	0	237	c.10C>T	c.(10-12)Cag>Tag	p.Q4*	NAPG_uc010wzr.2_5'UTR	NM_003826	NP_003817	Q99747	SNAG_HUMAN	Homo sapiens N-ethylmaleimide-sensitive factor attachment protein, gamma (NAPG), mRNA.	4					cellular membrane fusion|intra-Golgi vesicle-mediated transport|intracellular protein transport|protein complex assembly|protein stabilization	membrane|membrane fraction|mitochondrion	protein binding			large_intestine(2)|lung(2)	4						GATGGCGGCTCAGAAGATAAA	0.597000													3	28					0	0	1	0	0
ID2	3398	broad.mit.edu	37	2	8822537	8822537	+	Missense_Mutation	SNP	C	C	T			TCGA-EM-A1YB-01A-11D-A14W-08	TCGA-EM-A1YB-10A-01D-A14W-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	d01545d4-8162-4d14-9c1f-b86832e1c2d4	9443fcf8-ae1f-4a09-adf8-503bb03f63db	g.chr2:8822537C>T	uc002qza.3	+	0	425	c.242C>T	c.(241-243)tCg>tTg	p.S81L		NM_002166	NP_002157	Q02363	ID2_HUMAN	Homo sapiens inhibitor of DNA binding 2, dominant negative helix-loop-helix protein (ID2), mRNA.	81					cellular senescence|embryonic digestive tract morphogenesis|endodermal digestive tract morphogenesis|epithelial cell differentiation involved in mammary gland alveolus development|mammary gland epithelial cell proliferation|negative regulation of neural precursor cell proliferation|negative regulation of neuron differentiation|negative regulation of sequence-specific DNA binding transcription factor activity|neuron fate commitment|positive regulation of blood pressure|positive regulation of cell cycle arrest|positive regulation of smooth muscle cell proliferation|positive regulation of transcription, DNA-dependent	protein complex	protein binding	p.S81S(1)		breast(1)|large_intestine(1)|lung(1)|prostate(1)	4	all_hematologic(175;0.127)|Acute lymphoblastic leukemia(172;0.155)					GCCCTGGACTCGCATCCCACT	0.587000													16	41					0	0	1	0	0
CTNND2	1501	broad.mit.edu	37	5	10973762	10973762	+	Missense_Mutation	SNP	G	G	C			TCGA-EM-A1YB-01A-11D-A14W-08	TCGA-EM-A1YB-10A-01D-A14W-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	d01545d4-8162-4d14-9c1f-b86832e1c2d4	9443fcf8-ae1f-4a09-adf8-503bb03f63db	g.chr5:10973762G>C	uc003jfa.1	-	21	3626	c.3481C>G	c.(3481-3483)Cag>Gag	p.Q1161E	CTNND2_uc010itt.2_Missense_Mutation_p.Q1070E|CTNND2_uc011cmy.1_Missense_Mutation_p.Q824E|CTNND2_uc011cmz.1_Missense_Mutation_p.Q728E|CTNND2_uc010itu.1_Non-coding_Transcript|CTNND2_uc011cmx.1_Missense_Mutation_p.Q753E	NM_001332	NP_001323	Q9UQB3	CTND2_HUMAN	Homo sapiens catenin (cadherin-associated protein), delta 2 (neural plakophilin-related arm-repeat protein) (CTNND2), mRNA.	1161					multicellular organismal development|neuron cell-cell adhesion|regulation of transcription, DNA-dependent|signal transduction|transcription, DNA-dependent	adherens junction|cytoplasm|nucleus	protein binding			NS(1)|autonomic_ganglia(1)|breast(1)|endometrium(8)|haematopoietic_and_lymphoid_tissue(3)|kidney(3)|large_intestine(29)|liver(1)|lung(71)|ovary(4)|pancreas(2)|prostate(1)|skin(5)|upper_aerodigestive_tract(4)|urinary_tract(2)	136						GTGGAATTCTGAAATGGCTGG	0.532000													19	47					0	0	1	0	0
TRIM46	80128	broad.mit.edu	37	1	155149705	155149705	+	Missense_Mutation	SNP	G	G	A			TCGA-EM-A1YB-01A-11D-A14W-08	TCGA-EM-A1YB-10A-01D-A14W-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	d01545d4-8162-4d14-9c1f-b86832e1c2d4	9443fcf8-ae1f-4a09-adf8-503bb03f63db	g.chr1:155149705G>A	uc001fhs.1	+	4	931	c.848G>A	c.(847-849)gGa>gAa	p.G283E	TRIM46_uc009wpe.1_Non-coding_Transcript|TRIM46_uc010pez.1_Missense_Mutation_p.G270E|TRIM46_uc001fhq.3_Non-coding_Transcript|TRIM46_uc001fhr.3_Missense_Mutation_p.G283E|TRIM46_uc001fht.1_Non-coding_Transcript|TRIM46_uc010pfa.1_Missense_Mutation_p.G157E|TRIM46_uc001fhu.1_Missense_Mutation_p.G260E|TRIM46_uc009wpg.1_Missense_Mutation_p.G270E|TRIM46_uc001fhw.1_Non-coding_Transcript	NM_025058	NP_079334	Q7Z4K8	TRI46_HUMAN	Homo sapiens tripartite motif containing 46 (TRIM46), mRNA.	283						intracellular	zinc ion binding			NS(1)|central_nervous_system(1)|endometrium(2)|haematopoietic_and_lymphoid_tissue(2)|large_intestine(4)|lung(11)|ovary(1)|prostate(1)|skin(2)|upper_aerodigestive_tract(3)|urinary_tract(1)	29	all_epithelial(22;5.72e-28)|all_lung(78;2.07e-24)|all_hematologic(923;0.0359)|Hepatocellular(266;0.0877)		Epithelial(20;6.62e-10)|all cancers(21;2.68e-09)|BRCA - Breast invasive adenocarcinoma(34;0.000752)|LUSC - Lung squamous cell carcinoma(543;0.193)			TACATCCTGGGAAACCAGGAC	0.612000													35	126					0	0	1	0	0