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
RP11-146E13.4	0	broad.mit.edu	37	14	19857036	19857036	+	RNA	SNP	A	A	G			TCGA-VM-A8CA-01A-11D-A36O-08	TCGA-VM-A8CA-10A-01D-A367-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	6799adf1-45ec-48c3-bd91-58227af39fc4	b63e7d90-775b-4bf0-ac26-60eeea646cda	g.chr14:19857036A>G	ENST00000548109.1	+	0	72																											CTGGATAATAAAGTTCATCTC	0.373000													6	146					0	0	1	0	0
TMC3	342125	broad.mit.edu	37	15	81627158	81627158	+	Missense_Mutation	SNP	C	C	T			TCGA-VM-A8CA-01A-11D-A36O-08	TCGA-VM-A8CA-10A-01D-A367-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	6799adf1-45ec-48c3-bd91-58227af39fc4	b63e7d90-775b-4bf0-ac26-60eeea646cda	g.chr15:81627158C>T	ENST00000558726.1	-	21	2500	c.2365G>A	c.(2365-2367)Gca>Aca	p.A789T	RP11-761I4.3_ENST00000560973.1_RNA|TMC3_ENST00000359440.5_Missense_Mutation_p.A788T|RP11-761I4.3_ENST00000560851.1_RNA|RP11-761I4.3_ENST00000559781.1_RNA			Q7Z5M5	TMC3_HUMAN	transmembrane channel-like 3	788						integral to membrane				autonomic_ganglia(2)|breast(1)|endometrium(4)|kidney(1)|large_intestine(7)|liver(1)|lung(11)|ovary(1)|prostate(1)|skin(1)|upper_aerodigestive_tract(2)|urinary_tract(2)	34						ATGGACTGTGCGACTGTCTCT	0.607000													10	41					0	0	1	0	0
FAM47A	158724	broad.mit.edu	37	X	34149054	34149054	+	Missense_Mutation	SNP	G	G	A			TCGA-VM-A8CA-01A-11D-A36O-08	TCGA-VM-A8CA-10A-01D-A367-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	6799adf1-45ec-48c3-bd91-58227af39fc4	b63e7d90-775b-4bf0-ac26-60eeea646cda	g.chrX:34149054G>A	ENST00000346193.3	-	1	1393	c.1342C>T	c.(1342-1344)Cgg>Tgg	p.R448W		NM_203408.3	NP_981953.2	Q5JRC9	FA47A_HUMAN	family with sequence similarity 47, member A	448										NS(1)|biliary_tract(1)|breast(2)|central_nervous_system(1)|endometrium(9)|kidney(5)|large_intestine(17)|lung(44)|ovary(5)|prostate(2)|skin(4)|upper_aerodigestive_tract(4)|urinary_tract(2)	97						TTCTTCACCCGGGCCTCACAA	0.562000													17	23					0	0	1	0	0
FLG	2312	broad.mit.edu	37	1	152275810	152275810	+	Missense_Mutation	SNP	G	G	A	rs150496930		TCGA-VM-A8CA-01A-11D-A36O-08	TCGA-VM-A8CA-10A-01D-A367-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	6799adf1-45ec-48c3-bd91-58227af39fc4	b63e7d90-775b-4bf0-ac26-60eeea646cda	g.chr1:152275810G>A	ENST00000368799.1	-	3	11587	c.11552C>T	c.(11551-11553)gCg>gTg	p.A3851V	FLG-AS1_ENST00000420707.1_RNA|FLG-AS1_ENST00000593011.1_RNA	NM_002016.1	NP_002007.1	P20930	FILA_HUMAN	filaggrin	3851	Ser-rich.				keratinocyte differentiation	cytoplasmic membrane-bounded vesicle|intermediate filament	calcium ion binding|structural molecule activity			autonomic_ganglia(1)|breast(13)|central_nervous_system(5)|cervix(2)|endometrium(38)|haematopoietic_and_lymphoid_tissue(1)|kidney(16)|large_intestine(57)|lung(211)|ovary(13)|pancreas(1)|prostate(15)|skin(24)|stomach(5)|upper_aerodigestive_tract(10)|urinary_tract(12)	424	Hepatocellular(266;0.0877)|Melanoma(130;0.116)|all_hematologic(923;0.127)		LUSC - Lung squamous cell carcinoma(543;0.206)			CCTGGACCCCGCTGATTCACC	0.602000									Ichthyosis				4	275					0	0	1	0	0
VTCN1	79679	broad.mit.edu	37	1	117699297	117699297	+	Missense_Mutation	SNP	A	A	G			TCGA-VM-A8CA-01A-11D-A36O-08	TCGA-VM-A8CA-10A-01D-A367-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	6799adf1-45ec-48c3-bd91-58227af39fc4	b63e7d90-775b-4bf0-ac26-60eeea646cda	g.chr1:117699297A>G	ENST00000369458.3	-	3	422	c.344T>C	c.(343-345)tTg>tCg	p.L115S	VTCN1_ENST00000463461.1_5'UTR|VTCN1_ENST00000359008.4_Missense_Mutation_p.L118S|VTCN1_ENST00000539893.1_Missense_Mutation_p.L20S|VTCN1_ENST00000328189.3_Intron	NM_024626.3	NP_078902.2	Q7Z7D3	VTCN1_HUMAN	V-set domain containing T cell activation inhibitor 1	115	Ig-like V-type 1.					integral to membrane|plasma membrane				large_intestine(7)|lung(4)|upper_aerodigestive_tract(1)	12	Lung SC(450;0.225)	all_cancers(81;6.05e-06)|all_epithelial(167;5.59e-07)|all_lung(203;2.85e-06)|Lung NSC(69;2e-05)		Lung(183;0.0664)|LUSC - Lung squamous cell carcinoma(189;0.214)|Colorectal(144;0.23)		TTTCAGCCGCAAAGAGGCATT	0.453000													27	17					0	0	1	0	0
CD209	30835	broad.mit.edu	37	19	7809881	7809881	+	Silent	SNP	G	G	A			TCGA-VM-A8CA-01A-11D-A36O-08	TCGA-VM-A8CA-10A-01D-A367-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	6799adf1-45ec-48c3-bd91-58227af39fc4	b63e7d90-775b-4bf0-ac26-60eeea646cda	g.chr19:7809881G>A	ENST00000315599.7	-	5	868	c.846C>T	c.(844-846)acC>acT	p.T282T	CD209_ENST00000204801.8_Silent_p.T238T|CD209_ENST00000394161.5_Intron|CD209_ENST00000593660.1_Silent_p.T212T|CD209_ENST00000601256.1_Silent_p.T258T|CD209_ENST00000315591.8_Silent_p.T258T|CD209_ENST00000593821.1_Silent_p.T146T|CD209_ENST00000602261.1_Silent_p.T190T|CD209_ENST00000601951.1_Silent_p.T258T|CD209_ENST00000301357.8_Silent_p.T146T|CD209_ENST00000354397.6_Silent_p.T282T|CD209_ENST00000394173.4_Silent_p.T121T	NM_001144895.1|NM_001144897.1|NM_021155.3	NP_001138367.1|NP_001138369.1|NP_066978.1	Q9NNX6	CD209_HUMAN	CD209 molecule	282	C-type lectin.				cell-cell recognition|endocytosis|heterophilic cell-cell adhesion|innate immune response|intracellular signal transduction|intracellular virion transport|leukocyte cell-cell adhesion|peptide antigen transport|viral genome replication|virion attachment to host cell surface receptor	cytoplasm|extracellular region|integral to membrane|plasma membrane	mannose binding|metal ion binding|peptide antigen binding|receptor activity|virion binding	p.T282T(1)		endometrium(7)|kidney(3)|large_intestine(6)|lung(10)|ovary(1)|prostate(1)|skin(5)|upper_aerodigestive_tract(1)|urinary_tract(1)	35						CTTTGCAGGCGGTGATGGAGT	0.582000													3	47					0	0	1	0	0
RBBP8NL	140893	broad.mit.edu	37	20	60987732	60987732	+	Silent	SNP	G	G	A			TCGA-VM-A8CA-01A-11D-A36O-08	TCGA-VM-A8CA-10A-01D-A367-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	6799adf1-45ec-48c3-bd91-58227af39fc4	b63e7d90-775b-4bf0-ac26-60eeea646cda	g.chr20:60987732G>A	ENST00000252998.1	-	13	1980	c.1824C>T	c.(1822-1824)caC>caT	p.H608H		NM_080833.2	NP_543023.2			RBBP8 N-terminal like																		GACCCTGCCCGTGCTCCTGGG	0.697000													33	46					0	0	1	0	0
COL12A1	1303	broad.mit.edu	37	6	75898204	75898204	+	Missense_Mutation	SNP	G	G	T			TCGA-VM-A8CA-01A-11D-A36O-08	TCGA-VM-A8CA-10A-01D-A367-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	6799adf1-45ec-48c3-bd91-58227af39fc4	b63e7d90-775b-4bf0-ac26-60eeea646cda	g.chr6:75898204G>T	ENST00000322507.8	-	8	1180	c.871C>A	c.(871-873)Cct>Act	p.P291T	COL12A1_ENST00000483888.2_Missense_Mutation_p.P291T|COL12A1_ENST00000345356.6_Intron|COL12A1_ENST00000416123.2_Missense_Mutation_p.P291T	NM_004370.5	NP_004361.3	Q99715	COCA1_HUMAN	collagen, type XII, alpha 1	291	VWFA 1.				cell adhesion|collagen fibril organization|skeletal system development	collagen type XII|extracellular space	extracellular matrix structural constituent conferring tensile strength			breast(7)|central_nervous_system(1)|endometrium(7)|haematopoietic_and_lymphoid_tissue(5)|kidney(5)|large_intestine(44)|liver(1)|lung(77)|ovary(7)|prostate(3)|skin(4)|stomach(2)|upper_aerodigestive_tract(4)|urinary_tract(2)	169						TTCAGTGAAGGTGTGGAGGCA	0.403000													15	59					3.27435e-08	3.42319e-08	1	1	0
FRG1B	0	broad.mit.edu	37	20	29625956	29625956	+	Missense_Mutation	SNP	G	G	A	rs147809085		TCGA-VM-A8CA-01A-11D-A36O-08	TCGA-VM-A8CA-10A-01D-A367-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	6799adf1-45ec-48c3-bd91-58227af39fc4	b63e7d90-775b-4bf0-ac26-60eeea646cda	g.chr20:29625956G>A	ENST00000278882.3	+	5	580	c.200G>A	c.(199-201)aGa>aAa	p.R67K	FRG1B_ENST00000358464.4_Missense_Mutation_p.R67K|FRG1B_ENST00000439954.2_Missense_Mutation_p.R72K														p.R67K(2)		endometrium(10)|kidney(21)|lung(3)|pancreas(1)|prostate(9)|urinary_tract(9)	53						ATTGGACCAAGAGAACAATGG	0.338000													4	74					0	0	1	0	0
NPHS2	7827	broad.mit.edu	37	1	179526176	179526176	+	Missense_Mutation	SNP	C	C	T			TCGA-VM-A8CA-01A-11D-A36O-08	TCGA-VM-A8CA-10A-01D-A367-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	6799adf1-45ec-48c3-bd91-58227af39fc4	b63e7d90-775b-4bf0-ac26-60eeea646cda	g.chr1:179526176C>T	ENST00000367615.4	-	5	792	c.724G>A	c.(724-726)Gcc>Acc	p.A242T	NPHS2_ENST00000367616.4_Intron	NM_014625.2	NP_055440.1	Q9NP85	PODO_HUMAN	nephrosis 2, idiopathic, steroid-resistant (podocin)	242					excretion	integral to plasma membrane	protein binding			NS(1)|endometrium(1)|large_intestine(3)|lung(10)|skin(1)|stomach(1)|upper_aerodigestive_tract(3)	20						GCATCTTGGGCGATGCTCTTC	0.368000													3	48					0	0	1	0	0
SPATA31C1	0	broad.mit.edu	37	9	90535974	90535974	+	RNA	SNP	T	T	C			TCGA-VM-A8CA-01A-11D-A36O-08	TCGA-VM-A8CA-10A-01D-A367-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	6799adf1-45ec-48c3-bd91-58227af39fc4	b63e7d90-775b-4bf0-ac26-60eeea646cda	g.chr9:90535974T>C	ENST00000602681.1	+	0	1878																											CTGGAGTAGCTTGCCCTGCGT	0.517000													39	155					0	0	1	0	0
MAP1A	4130	broad.mit.edu	37	15	43817305	43817305	+	Missense_Mutation	SNP	G	G	A			TCGA-VM-A8CA-01A-11D-A36O-08	TCGA-VM-A8CA-10A-01D-A367-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	6799adf1-45ec-48c3-bd91-58227af39fc4	b63e7d90-775b-4bf0-ac26-60eeea646cda	g.chr15:43817305G>A	ENST00000382031.1	+	5	4379	c.4348G>A	c.(4348-4350)Gtc>Atc	p.V1450I	MAP1A_ENST00000300231.5_Missense_Mutation_p.V1212I|MAP1A_ENST00000399453.1_Missense_Mutation_p.V1212I			P78559	MAP1A_HUMAN	microtubule-associated protein 1A	1212						cytoplasm|microtubule|microtubule associated complex	protein binding|structural molecule activity			breast(5)|central_nervous_system(1)|cervix(1)|endometrium(4)|kidney(3)|large_intestine(11)|liver(2)|lung(19)|ovary(5)|pancreas(3)|prostate(2)|skin(6)|soft_tissue(1)|upper_aerodigestive_tract(2)|urinary_tract(1)	66		all_cancers(109;1.03e-14)|all_epithelial(112;2.23e-12)|Lung NSC(122;2.76e-08)|all_lung(180;3.1e-07)|Melanoma(134;0.0476)|Colorectal(260;0.215)		GBM - Glioblastoma multiforme(94;3.05e-06)	Estramustine(DB01196)	CTCCCTGGATGTCTCTTCTAA	0.527000													11	45					0	0	1	0	0
FRG1B	0	broad.mit.edu	37	20	29625877	29625877	+	Missense_Mutation	SNP	G	G	A	rs7266938	by1000genomes	TCGA-VM-A8CA-01A-11D-A36O-08	TCGA-VM-A8CA-10A-01D-A367-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	6799adf1-45ec-48c3-bd91-58227af39fc4	b63e7d90-775b-4bf0-ac26-60eeea646cda	g.chr20:29625877G>A	ENST00000278882.3	+	5	501	c.121G>A	c.(121-123)Gcc>Acc	p.A41T	FRG1B_ENST00000358464.4_Missense_Mutation_p.A41T|FRG1B_ENST00000439954.2_Missense_Mutation_p.A46T														p.A41T(2)		endometrium(10)|kidney(21)|lung(3)|pancreas(1)|prostate(9)|urinary_tract(9)	53						GTACAGAATCGCCCTGAAATC	0.358000													8	88					0	0	1	0	0
IL1RL2	8808	broad.mit.edu	37	2	102851427	102851427	+	Silent	SNP	G	G	A			TCGA-VM-A8CA-01A-11D-A36O-08	TCGA-VM-A8CA-10A-01D-A367-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	6799adf1-45ec-48c3-bd91-58227af39fc4	b63e7d90-775b-4bf0-ac26-60eeea646cda	g.chr2:102851427G>A	ENST00000264257.2	+	11	1494	c.1368G>A	c.(1366-1368)tcG>tcA	p.S456S	IL1RL2_ENST00000539491.1_Silent_p.S456S|IL1RL2_ENST00000441515.2_Silent_p.S338S|IL1RL2_ENST00000481806.1_3'UTR	NM_003854.2	NP_003845.2	Q9HB29	ILRL2_HUMAN	interleukin 1 receptor-like 2	456	TIR.				cellular defense response|innate immune response	integral to plasma membrane	interleukin-1, Type I, activating receptor activity			breast(1)|cervix(1)|endometrium(5)|large_intestine(6)|liver(2)|lung(8)|ovary(2)|prostate(1)	26						TCCCCGAATCGCTGGGCTTTG	0.493000													4	58					0	0	1	0	0
NRAS	4893	broad.mit.edu	37	1	115256529	115256529	+	Missense_Mutation	SNP	T	T	C	rs11554290		TCGA-VM-A8CA-01A-11D-A36O-08	TCGA-VM-A8CA-10A-01D-A367-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	6799adf1-45ec-48c3-bd91-58227af39fc4	b63e7d90-775b-4bf0-ac26-60eeea646cda	g.chr1:115256529T>C	ENST00000369535.4	-	3	435	c.182A>G	c.(181-183)cAa>cGa	p.Q61R		NM_002524.4	NP_002515.1	P01111	RASN_HUMAN	neuroblastoma RAS viral (v-ras) oncogene homolog	61			Q -> K (in neuroblastoma cell).|Q -> R (in lung carcinoma cell and melanoma; dbSNP:rs11554290).		activation of MAPKK activity|axon guidance|blood coagulation|epidermal growth factor receptor signaling pathway|insulin receptor signaling pathway|leukocyte migration|nerve growth factor receptor signaling pathway|Ras protein signal transduction	Golgi membrane|plasma membrane	GTP binding|GTPase activity	p.Q61R(817)|p.Q61L(175)|p.Q61P(23)|p.Q61K(1)		NS(134)|adrenal_gland(9)|autonomic_ganglia(9)|biliary_tract(6)|bone(1)|breast(9)|central_nervous_system(10)|cervix(2)|endometrium(11)|eye(3)|haematopoietic_and_lymphoid_tissue(1115)|kidney(3)|large_intestine(105)|liver(10)|lung(42)|meninges(2)|ovary(7)|pancreas(5)|prostate(8)|skin(1144)|soft_tissue(37)|stomach(5)|testis(8)|thyroid(359)|upper_aerodigestive_tract(28)|urinary_tract(13)	3085	all_epithelial(7;5.11e-05)|all_lung(7;0.000179)|Lung NSC(6;0.00195)|Lung SC(450;0.211)	all_cancers(81;4.64e-07)|all_epithelial(167;4.2e-07)|all_lung(203;9.97e-06)|Lung NSC(69;1.74e-05)		Lung(183;0.0234)|Colorectal(144;0.0686)|COAD - Colon adenocarcinoma(174;0.111)|all cancers(265;0.112)|Epithelial(280;0.124)|LUSC - Lung squamous cell carcinoma(189;0.133)		GTACTCTTCTTGTCCAGCTGT	0.458000	Q61L(C3A_LIVER)|Q61L(HEPG2_LIVER)|Q61L(HL60_HAEMATOPOIETIC_AND_LYMPHOID_TISSUE)|Q61L(IPC298_SKIN)|Q61L(KMS21BM_HAEMATOPOIETIC_AND_LYMPHOID_TISSUE)|Q61L(MELJUSO_SKIN)|Q61L(MHHES1_BONE)|Q61L(MOLP8_HAEMATOPOIETIC_AND_LYMPHOID_TISSUE)|Q61L(OCIAML3_HAEMATOPOIETIC_AND_LYMPHOID_TISSUE)|Q61P(TF1_HAEMATOPOIETIC_AND_LYMPHOID_TISSUE)|Q61R(HT1197_URINARY_TRACT)|Q61R(KMS27_HAEMATOPOIETIC_AND_LYMPHOID_TISSUE)|Q61R(KU1919_URINARY_TRACT)|Q61R(NCIH2347_LUNG)|Q61R(ONS76_CENTRAL_NERVOUS_SYSTEM)|Q61R(SKMEL2_SKIN)|Q61R(SW1271_LUNG)|Q61R(TT2609C02_THYROID)	50	Mis		"""melanoma, MM, AML, thyroid"""				Noonan syndrome	TSP Lung(23;0.16)|Multiple Myeloma(1;<1E-6)			48	30					0	0	1	0	0
DDX23	9416	broad.mit.edu	37	12	49227280	49227280	+	Missense_Mutation	SNP	C	C	T			TCGA-VM-A8CA-01A-11D-A36O-08	TCGA-VM-A8CA-10A-01D-A367-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	6799adf1-45ec-48c3-bd91-58227af39fc4	b63e7d90-775b-4bf0-ac26-60eeea646cda	g.chr12:49227280C>T	ENST00000308025.3	-	13	1662	c.1583G>A	c.(1582-1584)cGt>cAt	p.R528H		NM_004818.2	NP_004809.2	Q9BUQ8	DDX23_HUMAN	DEAD (Asp-Glu-Ala-Asp) box polypeptide 23	528	Helicase ATP-binding.					catalytic step 2 spliceosome|nucleoplasm|U5 snRNP	ATP binding|ATP-dependent RNA helicase activity|nucleic acid binding|protein binding			NS(1)|cervix(1)|kidney(4)|large_intestine(6)|lung(17)|ovary(1)|prostate(1)|skin(2)|urinary_tract(3)	36						ATCAATCAAACGCCCAGGGGT	0.498000													6	111					0	0	1	0	0
LTN1	26046	broad.mit.edu	37	21	30318165	30318165	+	Nonsense_Mutation	SNP	C	C	T			TCGA-VM-A8CA-01A-11D-A36O-08	TCGA-VM-A8CA-10A-01D-A367-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	6799adf1-45ec-48c3-bd91-58227af39fc4	b63e7d90-775b-4bf0-ac26-60eeea646cda	g.chr21:30318165C>T	ENST00000361371.4	-	21	3882	c.3732G>A	c.(3730-3732)tgG>tgA	p.W1244*	LTN1_ENST00000389194.2_Nonsense_Mutation_p.W1290*	NM_015565.2	NP_056380.2	O94822	LTN1_HUMAN	listerin E3 ubiquitin protein ligase 1	1244							ligase activity|zinc ion binding			NS(1)|central_nervous_system(1)|endometrium(4)|kidney(5)|large_intestine(12)|lung(19)|ovary(5)|pancreas(1)|prostate(2)|skin(6)|stomach(2)|upper_aerodigestive_tract(2)	60						TGATGAAGTCCCACTCACTCT	0.423000													14	32					0	0	1	0	0
IDH1	3417	broad.mit.edu	37	2	209113112	209113112	+	Missense_Mutation	SNP	C	C	T	rs121913500		TCGA-VM-A8CA-01A-11D-A36O-08	TCGA-VM-A8CA-10A-01D-A367-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	6799adf1-45ec-48c3-bd91-58227af39fc4	b63e7d90-775b-4bf0-ac26-60eeea646cda	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								28	49					0	0	1	0	0
C11orf72	100505621	broad.mit.edu	37	11	67372458	67372458	+	Missense_Mutation	SNP	G	G	A			TCGA-VM-A8CA-01A-11D-A36O-08	TCGA-VM-A8CA-10A-01D-A367-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	6799adf1-45ec-48c3-bd91-58227af39fc4	b63e7d90-775b-4bf0-ac26-60eeea646cda	g.chr11:67372458G>A	ENST00000333139.3	-	3	323	c.83C>T	c.(82-84)gCc>gTc	p.A28V	C11orf72_ENST00000446232.1_Missense_Mutation_p.A28V			Q8NBR9	CK072_HUMAN	chromosome 11 open reading frame 72	28										central_nervous_system(1)|lung(2)|stomach(1)	4						GAGAAGCCTGGCAAGTAGGTG	0.577000													5	10					0	0	1	0	0
MEGF6	1953	broad.mit.edu	37	1	3428675	3428675	+	Missense_Mutation	SNP	C	C	T	rs115175505	by1000genomes	TCGA-VM-A8CA-01A-11D-A36O-08	TCGA-VM-A8CA-10A-01D-A367-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	6799adf1-45ec-48c3-bd91-58227af39fc4	b63e7d90-775b-4bf0-ac26-60eeea646cda	g.chr1:3428675C>T	ENST00000356575.4	-	8	1097	c.871G>A	c.(871-873)Gca>Aca	p.A291T	MEGF6_ENST00000294599.4_Missense_Mutation_p.A186T	NM_001409.3	NP_001400.3	O75095	MEGF6_HUMAN	multiple EGF-like-domains 6	291	EGF-like 5; calcium-binding (Potential).					extracellular region	calcium ion binding			cervix(2)|endometrium(3)|large_intestine(3)|lung(8)|prostate(1)|skin(1)|upper_aerodigestive_tract(1)	19	all_cancers(77;0.00681)|all_epithelial(69;0.00301)|Ovarian(185;0.0634)|Lung NSC(156;0.0969)|all_lung(157;0.105)	all_epithelial(116;7.41e-22)|all_lung(118;8.3e-09)|Lung NSC(185;3.55e-06)|Breast(487;0.000659)|Renal(390;0.00121)|Hepatocellular(190;0.00308)|Myeloproliferative disorder(586;0.0255)|Lung SC(97;0.0262)|Ovarian(437;0.0308)|Medulloblastoma(700;0.211)		Epithelial(90;3.78e-37)|OV - Ovarian serous cystadenocarcinoma(86;6.86e-22)|GBM - Glioblastoma multiforme(42;1.96e-12)|Colorectal(212;6.15e-05)|COAD - Colon adenocarcinoma(227;0.000241)|Kidney(185;0.000448)|BRCA - Breast invasive adenocarcinoma(365;0.000779)|KIRC - Kidney renal clear cell carcinoma(229;0.00645)|STAD - Stomach adenocarcinoma(132;0.00669)|Lung(427;0.213)		GCCAGCCCTGCGGCACATTCG	0.652000													3	46					0	0	1	0	0
LRP5	4041	broad.mit.edu	37	11	68204389	68204389	+	Missense_Mutation	SNP	A	A	G			TCGA-VM-A8CA-01A-11D-A36O-08	TCGA-VM-A8CA-10A-01D-A367-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	6799adf1-45ec-48c3-bd91-58227af39fc4	b63e7d90-775b-4bf0-ac26-60eeea646cda	g.chr11:68204389A>G	ENST00000294304.7	+	19	4139	c.4033A>G	c.(4033-4035)Agc>Ggc	p.S1345G		NM_002335.2	NP_002326.2	O75197	LRP5_HUMAN	low density lipoprotein receptor-related protein 5	1345	LDL-receptor class A 3.				adipose tissue development|bone marrow development|bone morphogenesis|canonical Wnt receptor signaling pathway|cholesterol homeostasis|endocytosis|glucose catabolic process|negative regulation of osteoblast differentiation|negative regulation of protein serine/threonine kinase activity|positive regulation of fat cell differentiation|positive regulation of mesenchymal cell proliferation|positive regulation of mitosis|positive regulation of transcription from RNA polymerase II promoter|regulation of blood pressure|regulation of canonical Wnt receptor signaling pathway|retina morphogenesis in camera-type eye|retinal blood vessel morphogenesis|Wnt receptor signaling pathway involved in dorsal/ventral axis specification	endoplasmic reticulum|integral to membrane|plasma membrane|receptor complex	protein binding|receptor activity			autonomic_ganglia(1)|breast(3)|cervix(2)|endometrium(5)|haematopoietic_and_lymphoid_tissue(1)|kidney(3)|large_intestine(9)|lung(24)|ovary(5)|pancreas(1)|prostate(1)|skin(6)|upper_aerodigestive_tract(1)|urinary_tract(1)	63						CCGGTGTGCGAGCGGCCAGTG	0.642000													25	46					0	0	1	0	0
ZNF614	80110	broad.mit.edu	37	19	52519679	52519679	+	Missense_Mutation	SNP	C	C	T	rs115005123	by1000genomes	TCGA-VM-A8CA-01A-11D-A36O-08	TCGA-VM-A8CA-10A-01D-A367-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	6799adf1-45ec-48c3-bd91-58227af39fc4	b63e7d90-775b-4bf0-ac26-60eeea646cda	g.chr19:52519679C>T	ENST00000270649.6	-	5	1716	c.1172G>A	c.(1171-1173)cGc>cAc	p.R391H	ZNF614_ENST00000356322.6_Intron	NM_025040.3	NP_079316.2	Q8N883	ZN614_HUMAN	zinc finger protein 614	391					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			NS(1)|endometrium(2)|kidney(1)|large_intestine(6)|lung(9)|ovary(2)|pancreas(1)|skin(1)|upper_aerodigestive_tract(1)	24		all_neural(266;0.0505)		GBM - Glioblastoma multiforme(134;0.00513)|OV - Ovarian serous cystadenocarcinoma(262;0.0177)		TGTGTGGGAGCGCTGATGTAC	0.443000													43	100					0	0	1	0	0
KRT84	3890	broad.mit.edu	37	12	52777396	52777396	+	Missense_Mutation	SNP	C	C	T			TCGA-VM-A8CA-01A-11D-A36O-08	TCGA-VM-A8CA-10A-01D-A367-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	6799adf1-45ec-48c3-bd91-58227af39fc4	b63e7d90-775b-4bf0-ac26-60eeea646cda	g.chr12:52777396C>T	ENST00000257951.3	-	2	799	c.733G>A	c.(733-735)Gtc>Atc	p.V245I	RP3-416H24.4_ENST00000547174.1_RNA	NM_033045.3	NP_149034.2	Q9NSB2	KRT84_HUMAN	keratin 84	245	Coil 1B.|Rod.					keratin filament	structural constituent of epidermis			breast(1)|endometrium(1)|haematopoietic_and_lymphoid_tissue(1)|kidney(1)|large_intestine(9)|liver(1)|lung(10)|skin(3)	27	all_hematologic(5;0.12)			BRCA - Breast invasive adenocarcinoma(357;0.189)		CCCTCTAGGACATCCTGCAGG	0.582000													23	34					0	0	1	0	0
APOBEC3F	200316	broad.mit.edu	37	22	39445579	39445579	+	Missense_Mutation	SNP	G	G	A			TCGA-VM-A8CA-01A-11D-A36O-08	TCGA-VM-A8CA-10A-01D-A367-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	6799adf1-45ec-48c3-bd91-58227af39fc4	b63e7d90-775b-4bf0-ac26-60eeea646cda	g.chr22:39445579G>A	ENST00000308521.5	+	5	1073	c.716G>A	c.(715-717)cGa>cAa	p.R239Q	APOBEC3G_ENST00000452957.2_Intron	NM_145298.5	NP_660341.2	Q9HC16	ABC3G_HUMAN	apolipoprotein B mRNA editing enzyme, catalytic polypeptide-like 3F	243					base conversion or substitution editing|DNA cytosine deamination|innate immune response|interspecies interaction between organisms|negative regulation of retroviral genome replication|negative regulation of transposition|positive regulation of defense response to virus by host|response to virus|viral reproduction	apolipoprotein B mRNA editing enzyme complex|cytosol|mitochondrion	cytidine deaminase activity|dCTP deaminase activity|protein homodimerization activity|RNA binding|zinc ion binding			breast(3)|endometrium(1)|kidney(1)|large_intestine(3)|lung(6)|skin(2)	16	Melanoma(58;0.04)					GGCGTCTTCCGAAACCAGGTA	0.512000													17	80					0	0	1	0	0
ARHGAP12	94134	broad.mit.edu	37	10	32150341	32150341	+	Silent	SNP	T	T	C			TCGA-VM-A8CA-01A-11D-A36O-08	TCGA-VM-A8CA-10A-01D-A367-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	6799adf1-45ec-48c3-bd91-58227af39fc4	b63e7d90-775b-4bf0-ac26-60eeea646cda	g.chr10:32150341T>C	ENST00000375250.5	-	4	1171	c.930A>G	c.(928-930)caA>caG	p.Q310Q	ARHGAP12_ENST00000396144.4_Silent_p.Q310Q|ARHGAP12_ENST00000375245.4_Silent_p.Q310Q|ARHGAP12_ENST00000344936.2_Silent_p.Q310Q|ARHGAP12_ENST00000311380.4_Silent_p.Q310Q	NM_001270696.1	NP_001257625.1	Q8IWW6	RHG12_HUMAN	Rho GTPase activating protein 12	310					regulation of small GTPase mediated signal transduction|small GTPase mediated signal transduction	cytosol	GTPase activator activity			NS(1)|breast(3)|endometrium(2)|kidney(1)|large_intestine(11)|lung(10)|skin(1)|urinary_tract(2)	31		Prostate(175;0.0199)				CCCCTGGATTTTGGAAATCTC	0.408000													14	53					0	0	1	0	0
SLC4A2	6522	broad.mit.edu	37	7	150767818	150767818	+	Silent	SNP	C	C	T			TCGA-VM-A8CA-01A-11D-A36O-08	TCGA-VM-A8CA-10A-01D-A367-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	6799adf1-45ec-48c3-bd91-58227af39fc4	b63e7d90-775b-4bf0-ac26-60eeea646cda	g.chr7:150767818C>T	ENST00000485713.1	+	12	2609	c.1569C>T	c.(1567-1569)tgC>tgT	p.C523C	SLC4A2_ENST00000413384.2_Silent_p.C523C|SLC4A2_ENST00000461735.1_Silent_p.C509C|SLC4A2_ENST00000392826.2_Silent_p.C514C|SLC4A2_ENST00000310317.5_Silent_p.C441C	NM_001199692.1	NP_001186621.1	P04920	B3A2_HUMAN	solute carrier family 4 (anion exchanger), member 2	523					bicarbonate transport	integral to membrane|membrane fraction	inorganic anion exchanger activity			NS(1)|central_nervous_system(2)|endometrium(3)|kidney(1)|large_intestine(2)|liver(2)|lung(14)|prostate(3)|skin(2)|upper_aerodigestive_tract(2)|urinary_tract(1)	33			OV - Ovarian serous cystadenocarcinoma(82;0.0121)	UCEC - Uterine corpus endometrioid carcinoma (81;0.168)		CCCTAGGCTGCGTGGAGTTCC	0.667000													10	16					0	0	1	0	0
PHB2	11331	broad.mit.edu	37	12	7077605	7077605	+	Missense_Mutation	SNP	T	T	C			TCGA-VM-A8CA-01A-11D-A36O-08	TCGA-VM-A8CA-10A-01D-A367-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	6799adf1-45ec-48c3-bd91-58227af39fc4	b63e7d90-775b-4bf0-ac26-60eeea646cda	g.chr12:7077605T>C	ENST00000535923.1	-	4	727	c.446A>G	c.(445-447)aAt>aGt	p.N149S	PHB2_ENST00000440277.1_Missense_Mutation_p.N149S|PHB2_ENST00000546111.1_Intron|PHB2_ENST00000542912.1_Missense_Mutation_p.N149S|PHB2_ENST00000399433.2_Missense_Mutation_p.N149S	NM_001144831.1	NP_001138303.1	Q99623	PHB2_HUMAN	prohibitin 2	149					negative regulation of transcription, DNA-dependent|transcription, DNA-dependent	mitochondrial inner membrane|nucleus	estrogen receptor binding|receptor activity			ovary(2)|pancreas(1)	3						CTGTGAGGCATTGAACTTGGC	0.572000													4	13					0	0	1	0	0
SIRT5	23408	broad.mit.edu	37	6	13612077	13612077	+	Nonsense_Mutation	SNP	G	G	T			TCGA-VM-A8CA-01A-11D-A36O-08	TCGA-VM-A8CA-10A-01D-A367-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	6799adf1-45ec-48c3-bd91-58227af39fc4	b63e7d90-775b-4bf0-ac26-60eeea646cda	g.chr6:13612077G>T	ENST00000606117.1	+	10	1209	c.913G>T	c.(913-915)Gaa>Taa	p.E305*	SIRT5_ENST00000397350.2_Nonsense_Mutation_p.E197*|SIRT5_ENST00000359782.3_Nonsense_Mutation_p.E287*	NM_012241.4	NP_036373.1	Q9NXA8	SIRT5_HUMAN	sirtuin 5	305	Deacetylase sirtuin-type.		E -> G (in dbSNP:rs34162626).		chromatin silencing|protein ADP-ribosylation|protein deacetylation	mitochondrial intermembrane space|mitochondrial matrix	hydrolase activity, acting on carbon-nitrogen (but not peptide) bonds, in linear amides|NAD+ ADP-ribosyltransferase activity|NAD+ binding|zinc ion binding			breast(1)|endometrium(1)|large_intestine(3)|lung(1)|ovary(1)|skin(3)|upper_aerodigestive_tract(1)	11	Breast(50;0.00669)|Ovarian(93;0.0634)	all_hematologic(90;0.117)	Epithelial(50;0.176)		Suramin(DB04786)	TGCCTGTCATGAAAATGAAAC	0.433000													18	227					4.35082e-09	4.65436e-09	1	1	0
RORB	6096	broad.mit.edu	37	9	77280504	77280504	+	Silent	SNP	A	A	G			TCGA-VM-A8CA-01A-11D-A36O-08	TCGA-VM-A8CA-10A-01D-A367-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	6799adf1-45ec-48c3-bd91-58227af39fc4	b63e7d90-775b-4bf0-ac26-60eeea646cda	g.chr9:77280504A>G	ENST00000376896.2	+	7	1605	c.993A>G	c.(991-993)aaA>aaG	p.K331K	RORB_ENST00000396204.2_Silent_p.K342K	NM_006914.3	NP_008845.2	Q92753	RORB_HUMAN	RAR-related orphan receptor B	342	Ligand-binding (Potential).				eye photoreceptor cell development|positive regulation of transcription, DNA-dependent|regulation of transcription from RNA polymerase II promoter by nuclear hormone receptor|visual perception	nucleoplasm	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|steroid hormone receptor activity|zinc ion binding			breast(2)|large_intestine(4)|lung(1)|ovary(2)|skin(2)|upper_aerodigestive_tract(1)	12						AAATGTTCAAAGCCTTAGGTA	0.378000													3	31					0	0	1	0	0
TAOK2	9344	broad.mit.edu	37	16	29999002	29999002	+	Missense_Mutation	SNP	C	C	T			TCGA-VM-A8CA-01A-11D-A36O-08	TCGA-VM-A8CA-10A-01D-A367-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	6799adf1-45ec-48c3-bd91-58227af39fc4	b63e7d90-775b-4bf0-ac26-60eeea646cda	g.chr16:29999002C>T	ENST00000308893.4	+	16	4452	c.3409C>T	c.(3409-3411)Ccc>Tcc	p.P1137S	TAOK2_ENST00000279394.3_Intron|TAOK2_ENST00000543033.1_Missense_Mutation_p.P1024S|TAOK2_ENST00000416441.2_Missense_Mutation_p.P964S	NM_001252043.1|NM_016151.3	NP_001238972.1|NP_057235.2	Q9UL54	TAOK2_HUMAN	TAO kinase 2	1137					actin cytoskeleton organization|activation of MAPKK activity|apoptosis|cell migration|focal adhesion assembly|positive regulation of JNK cascade|protein targeting to membrane|regulation of cell growth|regulation of cell shape|response to stress	cytoplasmic vesicle membrane|cytoskeleton|dendrite|integral to membrane|nucleolus	ATP binding|protein serine/threonine kinase activity			breast(1)|endometrium(3)|large_intestine(5)|lung(8)|ovary(1)|prostate(3)|skin(1)	22						GCGGCGTAATCCCCGCACCAC	0.652000													22	138					0	0	1	0	0
NEMF	9147	broad.mit.edu	37	14	50262540	50262540	+	Missense_Mutation	SNP	G	G	A			TCGA-VM-A8CA-01A-11D-A36O-08	TCGA-VM-A8CA-10A-01D-A367-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	6799adf1-45ec-48c3-bd91-58227af39fc4	b63e7d90-775b-4bf0-ac26-60eeea646cda	g.chr14:50262540G>A	ENST00000298310.5	-	26	3037	c.2588C>T	c.(2587-2589)gCg>gTg	p.A863V	NEMF_ENST00000546046.1_Missense_Mutation_p.A842V|NEMF_ENST00000556925.1_5'UTR|NEMF_ENST00000382135.2_Missense_Mutation_p.A63V|NEMF_ENST00000545773.1_Missense_Mutation_p.A821V			O60524	NEMF_HUMAN	nuclear export mediator factor	863						cytoplasm|nucleus				breast(1)|endometrium(2)|haematopoietic_and_lymphoid_tissue(3)|kidney(4)|large_intestine(13)|liver(1)|lung(9)|prostate(1)|skin(1)|urinary_tract(1)	36						CTGCACAGCCGCAACATTTTT	0.368000													3	57					0	0	1	0	0
UGT1A10	0	broad.mit.edu	37	2	234545184	234545184	+	Missense_Mutation	SNP	T	T	G			TCGA-VM-A8CA-01A-11D-A36O-08	TCGA-VM-A8CA-10A-01D-A367-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	6799adf1-45ec-48c3-bd91-58227af39fc4	b63e7d90-775b-4bf0-ac26-60eeea646cda	g.chr2:234545184T>G	ENST00000344644.5	+	1	85	c.16T>G	c.(16-18)Tgg>Ggg	p.W6G	UGT1A10_ENST00000373445.1_Missense_Mutation_p.W6G|UGT1A8_ENST00000373450.4_Intron	NM_019075.2	NP_061948.1														endometrium(4)|haematopoietic_and_lymphoid_tissue(1)|kidney(2)|large_intestine(5)|lung(15)|ovary(2)|skin(3)	32		Breast(86;0.000766)|all_lung(227;0.00271)|Renal(207;0.00339)|all_hematologic(139;0.0116)|Acute lymphoblastic leukemia(138;0.0334)|Lung NSC(271;0.0461)|Lung SC(224;0.128)		Epithelial(121;1.96e-17)|BRCA - Breast invasive adenocarcinoma(100;0.000468)|Lung(119;0.00381)|LUSC - Lung squamous cell carcinoma(224;0.008)		TCGCGCAGGGTGGACCAGCCC	0.567000													8	55					0	0	1	0	0
SETD4	54093	broad.mit.edu	37	21	37412909	37412909	+	Missense_Mutation	SNP	G	G	T			TCGA-VM-A8CA-01A-11D-A36O-08	TCGA-VM-A8CA-10A-01D-A367-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	6799adf1-45ec-48c3-bd91-58227af39fc4	b63e7d90-775b-4bf0-ac26-60eeea646cda	g.chr21:37412909G>T	ENST00000399215.1	-	8	2400	c.1028C>A	c.(1027-1029)aCa>aAa	p.T343K	SETD4_ENST00000332131.4_Missense_Mutation_p.T343K|SETD4_ENST00000399212.1_Missense_Mutation_p.T319K|AP000688.1_ENST00000600312.1_Intron|SETD4_ENST00000481477.1_5'UTR			Q9NVD3	SETD4_HUMAN	SET domain containing 4	343				EILVKYLPSTDKQMDKKISILKDHGYIENLTFGWDGPSWRL LTALKLLCLEAEKFTCWKKVLLGEVISDTNEKTSLDIAQKI CYYFIEETNAVLQKVSHMKDEKEALINQLTLVESLWTEELK ILRASAETLHSLQTAFT -> GWNQLCS (in Ref. 5; AAH02898).						autonomic_ganglia(1)|kidney(2)|large_intestine(4)|lung(6)|ovary(1)|prostate(1)	15						CTTAAGGGCTGTGAGTAGCCT	0.388000													11	168					5.50884e-06	5.63126e-06	1	1	0
POLR2A	5430	broad.mit.edu	37	17	7404927	7404927	+	Missense_Mutation	SNP	G	G	A			TCGA-VM-A8CA-01A-11D-A36O-08	TCGA-VM-A8CA-10A-01D-A367-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	6799adf1-45ec-48c3-bd91-58227af39fc4	b63e7d90-775b-4bf0-ac26-60eeea646cda	g.chr17:7404927G>A	ENST00000322644.6	+	14	2627	c.2228G>A	c.(2227-2229)cGc>cAc	p.R743H		NM_000937.4	NP_000928.1	P24928	RPB1_HUMAN	polymerase (RNA) II (DNA directed) polypeptide A, 220kDa	743					mRNA capping|nuclear mRNA splicing, via spliceosome|positive regulation of viral transcription|protein phosphorylation|regulation of transcription, DNA-dependent|transcription elongation from RNA polymerase II promoter|transcription initiation from RNA polymerase II promoter|transcription-coupled nucleotide-excision repair|viral reproduction	DNA-directed RNA polymerase II, core complex	DNA binding|DNA-directed RNA polymerase activity|metal ion binding|RNA-directed RNA polymerase activity|ubiquitin protein ligase binding			breast(3)|endometrium(7)|haematopoietic_and_lymphoid_tissue(1)|kidney(6)|large_intestine(8)|lung(17)|pancreas(1)|prostate(1)|skin(5)|upper_aerodigestive_tract(1)	50		Prostate(122;0.173)				CAGGTGAACCGCATTCTTAAC	0.522000													3	70					0	0	1	0	0
MLKL	197259	broad.mit.edu	37	16	74709277	74709277	+	Missense_Mutation	SNP	C	C	T			TCGA-VM-A8CA-01A-11D-A36O-08	TCGA-VM-A8CA-10A-01D-A367-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	6799adf1-45ec-48c3-bd91-58227af39fc4	b63e7d90-775b-4bf0-ac26-60eeea646cda	g.chr16:74709277C>T	ENST00000308807.7	-	9	1679	c.1216G>A	c.(1216-1218)Gcc>Acc	p.A406T	MLKL_ENST00000306247.7_Silent_p.S187S	NM_152649.2	NP_689862.1	Q8NB16	MLKL_HUMAN	mixed lineage kinase domain-like	406	Protein kinase.						ATP binding|protein binding|protein kinase activity			breast(1)|endometrium(2)|kidney(2)|large_intestine(3)|liver(2)|lung(6)|skin(1)|stomach(2)	19						TCTCCAGTGGCGATTTCCCAG	0.493000													4	79					0	0	1	0	0
OR52A5	390054	broad.mit.edu	37	11	5153260	5153260	+	Missense_Mutation	SNP	C	C	T			TCGA-VM-A8CA-01A-11D-A36O-08	TCGA-VM-A8CA-10A-01D-A367-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	6799adf1-45ec-48c3-bd91-58227af39fc4	b63e7d90-775b-4bf0-ac26-60eeea646cda	g.chr11:5153260C>T	ENST00000307388.1	-	1	612	c.613G>A	c.(613-615)Gtt>Att	p.V205I		NM_001005160.2	NP_001005160.1	Q9H2C5	O52A5_HUMAN	olfactory receptor, family 52, subfamily A, member 5	205					sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			NS(1)|breast(1)|central_nervous_system(1)|endometrium(1)|kidney(2)|large_intestine(8)|lung(18)|skin(3)	35		Medulloblastoma(188;0.0049)|all_neural(188;0.0442)|Breast(177;0.0675)		Epithelial(150;1.74e-09)|BRCA - Breast invasive adenocarcinoma(625;0.135)|LUSC - Lung squamous cell carcinoma(625;0.2)		GCAAAGGCAACAAATAGGCCA	0.423000													38	64					0	0	1	0	0
MLLT3	4300	broad.mit.edu	37	9	20414340	20414340	+	Silent	SNP	G	G	A			TCGA-VM-A8CA-01A-11D-A36O-08	TCGA-VM-A8CA-10A-01D-A367-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	6799adf1-45ec-48c3-bd91-58227af39fc4	b63e7d90-775b-4bf0-ac26-60eeea646cda	g.chr9:20414340G>A	ENST00000380338.4	-	5	790	c.504C>T	c.(502-504)agC>agT	p.S168S	MLLT3_ENST00000355930.6_5'UTR|MLLT3_ENST00000475957.1_5'UTR|MLLT3_ENST00000429426.2_Silent_p.S165S	NM_004529.2	NP_004520.2	P42568	AF9_HUMAN	myeloid/lymphoid or mixed-lineage leukemia (trithorax homolog, Drosophila); translocated to, 3	168	Poly-Ser.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	protein binding	p.S168S(5)		central_nervous_system(1)|cervix(1)|endometrium(13)|haematopoietic_and_lymphoid_tissue(1)|kidney(7)|large_intestine(6)|lung(24)|ovary(1)|prostate(4)|skin(1)|urinary_tract(7)	66				GBM - Glioblastoma multiforme(3;4.35e-105)|Lung(42;3.48e-06)|LUSC - Lung squamous cell carcinoma(42;7.92e-05)		tgctgctgctgctactgctgc	0.537000			T	MLL	ALL								4	71					0	0	1	0	0
PCDH10	57575	broad.mit.edu	37	4	134072866	134072866	+	Missense_Mutation	SNP	A	A	G			TCGA-VM-A8CA-01A-11D-A36O-08	TCGA-VM-A8CA-10A-01D-A367-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	6799adf1-45ec-48c3-bd91-58227af39fc4	b63e7d90-775b-4bf0-ac26-60eeea646cda	g.chr4:134072866A>G	ENST00000264360.4	+	1	2397	c.1571A>G	c.(1570-1572)tAc>tGc	p.Y524C		NM_032961.1	NP_116586.1	Q9P2E7	PCD10_HUMAN	protocadherin 10	524	Cadherin 5.				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding	p.Y524C(1)		NS(2)|breast(1)|endometrium(8)|haematopoietic_and_lymphoid_tissue(1)|kidney(6)|large_intestine(30)|liver(1)|lung(72)|ovary(2)|prostate(2)|skin(2)|stomach(1)|upper_aerodigestive_tract(6)|urinary_tract(2)	136				LUSC - Lung squamous cell carcinoma(193;0.227)		GAGAACGGCTACTTGTACGCC	0.587000													6	80					0	0	1	0	0
AGAP1	116987	broad.mit.edu	37	2	236659029	236659029	+	Silent	SNP	C	C	T			TCGA-VM-A8CA-01A-11D-A36O-08	TCGA-VM-A8CA-10A-01D-A367-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	6799adf1-45ec-48c3-bd91-58227af39fc4	b63e7d90-775b-4bf0-ac26-60eeea646cda	g.chr2:236659029C>T	ENST00000409538.1	+	6	1861	c.1365C>T	c.(1363-1365)atC>atT	p.I455I	AGAP1_ENST00000304032.7_Silent_p.I190I|AGAP1_ENST00000336665.5_Silent_p.I190I|AGAP1_ENST00000428334.2_Silent_p.I29I|AGAP1_ENST00000409457.1_Silent_p.I190I			Q9UPQ3	AGAP1_HUMAN	ArfGAP with GTPase domain, ankyrin repeat and PH domain 1	190	PH.				protein transport|regulation of ARF GTPase activity|small GTPase mediated signal transduction	cytoplasm	ARF GTPase activator activity|GTP binding|zinc ion binding			breast(2)|endometrium(6)|haematopoietic_and_lymphoid_tissue(2)|kidney(1)|large_intestine(12)|lung(11)|ovary(2)|prostate(1)|skin(3)|upper_aerodigestive_tract(1)	41						CGAGGGTCATCGATGACGCCA	0.522000													16	103					0	0	1	0	0
RP11-206L10.8	0	broad.mit.edu	37	1	745371	745371	+	RNA	DEL	A	A	-	rs146246821		TCGA-VM-A8CA-01A-11D-A36O-08	TCGA-VM-A8CA-10A-01D-A367-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	6799adf1-45ec-48c3-bd91-58227af39fc4	b63e7d90-775b-4bf0-ac26-60eeea646cda	g.chr1:745371delA	ENST00000447500.1	-	0	95																											TTTATTTCATAAGATAGCATT	0.299													4	2	---	---	---	---					
CNKSR1	10256	broad.mit.edu	37	1	26511516	26511517	+	Frame_Shift_Ins	INS	-	-	T			TCGA-VM-A8CA-01A-11D-A36O-08	TCGA-VM-A8CA-10A-01D-A367-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	6799adf1-45ec-48c3-bd91-58227af39fc4	b63e7d90-775b-4bf0-ac26-60eeea646cda	g.chr1:26511516_26511517insT	ENST00000531191.1	+	13	1380_1381	c.373_374insT	c.(373-375)gctfs	p.A125fs	CNKSR1_ENST00000361530.6_Frame_Shift_Ins_p.A383fs|CNKSR1_ENST00000374253.5_Frame_Shift_Ins_p.A390fs			Q969H4	CNKR1_HUMAN	connector enhancer of kinase suppressor of Ras 1	390	CRIC.				Rho protein signal transduction|transmembrane receptor protein tyrosine kinase signaling pathway	cell cortex|cell-cell junction	protein binding, bridging			breast(4)|central_nervous_system(1)|endometrium(2)|kidney(2)|large_intestine(6)|lung(8)|ovary(2)|prostate(2)|upper_aerodigestive_tract(1)	28		Colorectal(325;3.46e-05)|all_lung(284;0.000116)|Lung NSC(340;0.000154)|Renal(390;0.0007)|Ovarian(437;0.00473)|Breast(348;0.0133)|Myeloproliferative disorder(586;0.0255)|all_neural(195;0.0298)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0178)|OV - Ovarian serous cystadenocarcinoma(117;2.72e-26)|Colorectal(126;1.24e-08)|COAD - Colon adenocarcinoma(152;9.31e-07)|KIRC - Kidney renal clear cell carcinoma(1967;0.00072)|BRCA - Breast invasive adenocarcinoma(304;0.000959)|STAD - Stomach adenocarcinoma(196;0.00151)|GBM - Glioblastoma multiforme(114;0.00823)|READ - Rectum adenocarcinoma(331;0.0649)		CCTGGCGACCCGGCTGAGCCGC	0.693													2	4	---	---	---	---					
CTD-2547E10.2	0	broad.mit.edu	37	16	21469994	21469994	+	RNA	DEL	A	A	-			TCGA-VM-A8CA-01A-11D-A36O-08	TCGA-VM-A8CA-10A-01D-A367-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	6799adf1-45ec-48c3-bd91-58227af39fc4	b63e7d90-775b-4bf0-ac26-60eeea646cda	g.chr16:21469994delA	ENST00000520823.2	-	0	749																											ACTGTACATTAAAAAAAAAAA	0.294													2	4	---	---	---	---					
GLG1	2734	broad.mit.edu	37	16	74487225	74487225	+	Frame_Shift_Del	DEL	G	G	-			TCGA-VM-A8CA-01A-11D-A36O-08	TCGA-VM-A8CA-10A-01D-A367-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	6799adf1-45ec-48c3-bd91-58227af39fc4	b63e7d90-775b-4bf0-ac26-60eeea646cda	g.chr16:74487225delG	ENST00000422840.2	-	26	3379	c.3380delC	c.(3379-3381)cafs	p.P1127fs	GLG1_ENST00000447066.2_Frame_Shift_Del_p.P1116fs|GLG1_ENST00000205061.5_Frame_Shift_Del_p.P1127fs	NM_001145667.1	NP_001139139.1	Q92896	GSLG1_HUMAN	golgi glycoprotein 1	1127						Golgi membrane|integral to membrane	receptor binding			breast(2)|cervix(2)|endometrium(6)|kidney(8)|large_intestine(6)|lung(28)|ovary(3)|prostate(1)|skin(1)	57						GCCATCTGCTGGGGCCACCTA	0.468													12	23	---	---	---	---					
JAK3	3718	broad.mit.edu	37	19	17941029	17941029	+	Splice_Site	DEL	T	T	-			TCGA-VM-A8CA-01A-11D-A36O-08	TCGA-VM-A8CA-10A-01D-A367-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	6799adf1-45ec-48c3-bd91-58227af39fc4	b63e7d90-775b-4bf0-ac26-60eeea646cda	g.chr19:17941029delT	ENST00000458235.1	-	23	3196		c.e23-2		JAK3_ENST00000527670.1_Splice_Site|JAK3_ENST00000534444.1_Splice_Site	NM_000215.3	NP_000206.2	P52333	JAK3_HUMAN	Janus kinase 3						B cell differentiation|cytokine-mediated signaling pathway|enzyme linked receptor protein signaling pathway|intracellular protein kinase cascade|negative regulation of dendritic cell cytokine production|negative regulation of FasL biosynthetic process|negative regulation of interleukin-10 production|negative regulation of interleukin-12 production|negative regulation of T-helper 1 cell differentiation|negative regulation of thymocyte apoptosis|peptidyl-tyrosine phosphorylation|positive regulation of anti-apoptosis|response to interleukin-15|response to interleukin-2|response to interleukin-4|response to interleukin-9|T cell homeostasis	cytoskeleton|cytosol|endomembrane system|membrane	ATP binding|non-membrane spanning protein tyrosine kinase activity|protein binding			breast(5)|endometrium(4)|haematopoietic_and_lymphoid_tissue(85)|kidney(4)|large_intestine(11)|lung(22)|ovary(3)|prostate(5)|skin(1)|stomach(2)|upper_aerodigestive_tract(5)	147						CAGGAACTCCTGGAGCCAAGG	0.701		2	Mis		"""acute megakaryocytic leukemia, ETP ALL"""								2	4	---	---	---	---					
