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
RGPD3	653489	broad.mit.edu	37	2	107049631	107049631	+	Silent	SNP	C	C	T			TCGA-EM-A3SX-01A-11D-A22Z-08	TCGA-EM-A3SX-10A-01D-A22Z-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	6c459dd6-3c2d-4180-a215-670b1120f3b2	a3f5c321-522d-4612-afeb-602eb0c19a0f	g.chr2:107049631C>T	ENST00000409886.3	-	16	2403	c.2316G>A	c.(2314-2316)gcG>gcA	p.A772A	RGPD3_ENST00000304514.7_Silent_p.A772A	NM_001144013.1	NP_001137485.1	A6NKT7	RGPD3_HUMAN	RANBP2-like and GRIP domain containing 3	772					intracellular transport		binding	p.A772A(4)		breast(2)|central_nervous_system(1)|endometrium(50)|kidney(4)|lung(11)|ovary(1)|urinary_tract(2)	71						TTTCTGAATCCGCATTTCGCA	0.373000													5	160					0	0	1	0	0
FSHR	0	broad.mit.edu	37	2	49190947	49190947	+	Missense_Mutation	SNP	C	C	T			TCGA-EM-A3SX-01A-11D-A22Z-08	TCGA-EM-A3SX-10A-01D-A22Z-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	6c459dd6-3c2d-4180-a215-670b1120f3b2	a3f5c321-522d-4612-afeb-602eb0c19a0f	g.chr2:49190947C>T	ENST00000406846.2	-	10	1132	c.1013G>A	c.(1012-1014)tGc>tAc	p.C338Y	FSHR_ENST00000541117.1_Missense_Mutation_p.C74Y|FSHR_ENST00000304421.4_Missense_Mutation_p.C312Y|FSHR_ENST00000346173.3_Missense_Mutation_p.C276Y	NM_000145.3	NP_000136.2	P23945	FSHR_HUMAN	follicle stimulating hormone receptor	338					female gamete generation|male gonad development|spermatogenesis	integral to membrane|plasma membrane	follicle-stimulating hormone receptor activity|protein binding			NS(1)|central_nervous_system(1)|endometrium(3)|kidney(1)|large_intestine(10)|liver(1)|lung(45)|ovary(4)|pancreas(1)|skin(2)|upper_aerodigestive_tract(2)|urinary_tract(2)	73		all_hematologic(82;0.152)|Acute lymphoblastic leukemia(82;0.181)	Lung(47;0.101)|LUSC - Lung squamous cell carcinoma(58;0.151)		Choriogonadotropin alfa(DB00097)|Follitropin beta(DB00066)|Menotropins(DB00032)|Urofollitropin(DB00094)	CACTTCATTGCATAAGTCATA	0.473000									Gonadal Dysgenesis, 46 XX				26	33					0	0	1	0	0
RP11-707M1.1	0	broad.mit.edu	37	11	49831352	49831352	+	RNA	SNP	G	G	C			TCGA-EM-A3SX-01A-11D-A22Z-08	TCGA-EM-A3SX-10A-01D-A22Z-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	6c459dd6-3c2d-4180-a215-670b1120f3b2	a3f5c321-522d-4612-afeb-602eb0c19a0f	g.chr11:49831352G>C	ENST00000527477.1	+	0	1577																											GTGGAGATTTGAGAAGCATTT	0.353000													5	10					0	0	1	0	0
TTK	7272	broad.mit.edu	37	6	80732143	80732143	+	Nonsense_Mutation	SNP	C	C	G			TCGA-EM-A3SX-01A-11D-A22Z-08	TCGA-EM-A3SX-10A-01D-A22Z-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	6c459dd6-3c2d-4180-a215-670b1120f3b2	a3f5c321-522d-4612-afeb-602eb0c19a0f	g.chr6:80732143C>G	ENST00000509894.1	+	11	2040	c.1211C>G	c.(1210-1212)tCa>tGa	p.S404*	TTK_ENST00000515751.1_3'UTR|TTK_ENST00000369798.2_Nonsense_Mutation_p.S404*|TTK_ENST00000230510.3_Nonsense_Mutation_p.S404*			P33981	TTK_HUMAN	TTK protein kinase	404					mitotic cell cycle spindle assembly checkpoint|mitotic spindle organization|positive regulation of cell proliferation|positive regulation of pathway-restricted SMAD protein phosphorylation	spindle	ATP binding|identical protein binding|protein serine/threonine kinase activity|protein tyrosine kinase activity			endometrium(4)|kidney(2)|large_intestine(12)|lung(22)|ovary(7)|pancreas(1)|prostate(1)|stomach(3)|urinary_tract(1)	53		all_cancers(76;0.00177)|Acute lymphoblastic leukemia(125;1.24e-05)|all_hematologic(105;0.00223)|all_epithelial(107;0.2)		BRCA - Breast invasive adenocarcinoma(397;0.0321)		GCTGCATCTTCAAATCACTGG	0.388000													21	30					0	0	1	0	0
SALL2	6297	broad.mit.edu	37	14	21992041	21992041	+	Silent	SNP	C	C	T			TCGA-EM-A3SX-01A-11D-A22Z-08	TCGA-EM-A3SX-10A-01D-A22Z-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	6c459dd6-3c2d-4180-a215-670b1120f3b2	a3f5c321-522d-4612-afeb-602eb0c19a0f	g.chr14:21992041C>T	ENST00000327430.3	-	2	2115	c.1821G>A	c.(1819-1821)gtG>gtA	p.V607V	SALL2_ENST00000317492.5_Intron|SALL2_ENST00000538754.1_Intron|SALL2_ENST00000450879.2_Silent_p.V470V	NM_005407.1	NP_005398.1	Q9Y467	SALL2_HUMAN	spalt-like transcription factor 2	607							DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			NS(1)|breast(1)|central_nervous_system(1)|endometrium(4)|kidney(2)|large_intestine(12)|lung(12)|ovary(2)|skin(6)|urinary_tract(2)	43	all_cancers(95;0.000662)			GBM - Glioblastoma multiforme(265;0.0151)		CAGCTGAGGTCACCGCCACAG	0.582000													16	21					0	0	1	0	0
GPR101	83550	broad.mit.edu	37	X	136113520	136113520	+	Missense_Mutation	SNP	G	G	A			TCGA-EM-A3SX-01A-11D-A22Z-08	TCGA-EM-A3SX-10A-01D-A22Z-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	6c459dd6-3c2d-4180-a215-670b1120f3b2	a3f5c321-522d-4612-afeb-602eb0c19a0f	g.chrX:136113520G>A	ENST00000298110.1	-	1	313	c.314C>T	c.(313-315)aCg>aTg	p.T105M		NM_054021.1	NP_473362.1	Q96P66	GP101_HUMAN	G protein-coupled receptor 101	105						integral to membrane|plasma membrane	G-protein coupled receptor activity	p.T105M(1)		autonomic_ganglia(1)|endometrium(5)|kidney(2)|large_intestine(11)|lung(18)|ovary(3)|skin(1)|urinary_tract(1)	42	Acute lymphoblastic leukemia(192;0.000127)					AACCAGGGCCGTGCAGAAGTG	0.612000													3	27					0	0	1	0	0
NR0B1	190	broad.mit.edu	37	X	30322801	30322801	+	Silent	SNP	C	C	T			TCGA-EM-A3SX-01A-11D-A22Z-08	TCGA-EM-A3SX-10A-01D-A22Z-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	6c459dd6-3c2d-4180-a215-670b1120f3b2	a3f5c321-522d-4612-afeb-602eb0c19a0f	g.chrX:30322801C>T	ENST00000378970.4	-	2	1542	c.1308G>A	c.(1306-1308)ctG>ctA	p.L436L		NM_000475.4	NP_000466.2	P51843	NR0B1_HUMAN	nuclear receptor subfamily 0, group B, member 1	436	Ligand-binding (By similarity).				adrenal gland development|hypothalamus development|negative regulation of sequence-specific DNA binding transcription factor activity|negative regulation of steroid hormone receptor signaling pathway|pituitary gland development|protein localization|regulation of transcription from RNA polymerase II promoter by nuclear hormone receptor|steroid biosynthetic process	cytoplasm|membrane fraction|nucleoplasm|nucleus|polysomal ribosome	AF-2 domain binding|DNA hairpin binding|ligand-regulated transcription factor activity|protein domain specific binding|protein homodimerization activity|RNA binding|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|steroid hormone receptor activity|steroid hormone receptor binding|transcription corepressor activity|transcription factor binding			central_nervous_system(2)|endometrium(2)|large_intestine(4)|lung(13)|ovary(1)|skin(2)	24					Dexamethasone(DB01234)|Tretinoin(DB00755)	TGATGAATCTCAGCAGGAAAA	0.468000													30	47					0	0	1	0	0
TDRD7	23424	broad.mit.edu	37	9	100249532	100249532	+	Silent	SNP	A	A	G			TCGA-EM-A3SX-01A-11D-A22Z-08	TCGA-EM-A3SX-10A-01D-A22Z-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	6c459dd6-3c2d-4180-a215-670b1120f3b2	a3f5c321-522d-4612-afeb-602eb0c19a0f	g.chr9:100249532A>G	ENST00000355295.4	+	16	3289	c.2994A>G	c.(2992-2994)gaA>gaG	p.E998E	TDRD7_ENST00000422139.2_Silent_p.E924E|TDRD7_ENST00000540902.1_Silent_p.E318E	NM_014290.2	NP_055105.2	Q8NHU6	TDRD7_HUMAN	tudor domain containing 7	998	Interacts with CABLES1 (By similarity).|Interacts with CDK17 (By similarity).				lens fiber cell differentiation|lens morphogenesis in camera-type eye|posttranscriptional regulation of gene expression|spermatogenesis	chromatoid body	mRNA binding			endometrium(3)|kidney(4)|large_intestine(6)|lung(8)|ovary(2)|pancreas(1)|prostate(2)|stomach(1)|upper_aerodigestive_tract(1)|urinary_tract(1)	29		Acute lymphoblastic leukemia(62;0.158)				GCAAACACGAATTAGTCAACA	0.423000													3	59					0	0	1	0	0
PLXNA2	5362	broad.mit.edu	37	1	208269445	208269445	+	Silent	SNP	C	C	T			TCGA-EM-A3SX-01A-11D-A22Z-08	TCGA-EM-A3SX-10A-01D-A22Z-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	6c459dd6-3c2d-4180-a215-670b1120f3b2	a3f5c321-522d-4612-afeb-602eb0c19a0f	g.chr1:208269445C>T	ENST00000367033.3	-	8	2668	c.1911G>A	c.(1909-1911)ctG>ctA	p.L637L		NM_025179.3	NP_079455.3	O75051	PLXA2_HUMAN	plexin A2	637					axon guidance	integral to membrane|intracellular|plasma membrane				NS(1)|breast(3)|central_nervous_system(5)|cervix(1)|endometrium(15)|haematopoietic_and_lymphoid_tissue(1)|kidney(3)|large_intestine(9)|liver(1)|lung(28)|ovary(3)|prostate(5)|skin(2)|upper_aerodigestive_tract(3)	80				OV - Ovarian serous cystadenocarcinoma(81;0.199)		CCTTGGACCTCAGCTGTAGCT	0.468000													65	124					0	0	1	0	0
SDHAP1	0	broad.mit.edu	37	3	195698212	195698212	+	RNA	SNP	C	C	A			TCGA-EM-A3SX-01A-11D-A22Z-08	TCGA-EM-A3SX-10A-01D-A22Z-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	6c459dd6-3c2d-4180-a215-670b1120f3b2	a3f5c321-522d-4612-afeb-602eb0c19a0f	g.chr3:195698212C>A	ENST00000427841.1	-	0	1660					NR_003264.2																						TGCTGAGTCGCAGTTCCGATG	0.453000													3	18					5.18039e-06	5.29301e-06	1	1	0
EP400	57634	broad.mit.edu	37	12	132547087	132547087	+	Silent	SNP	G	G	A	rs12366766		TCGA-EM-A3SX-01A-11D-A22Z-08	TCGA-EM-A3SX-10A-01D-A22Z-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	6c459dd6-3c2d-4180-a215-670b1120f3b2	a3f5c321-522d-4612-afeb-602eb0c19a0f	g.chr12:132547087G>A	ENST00000333577.4	+	48	8392	c.8283G>A	c.(8281-8283)caG>caA	p.Q2761Q	EP400_ENST00000330386.6_Silent_p.Q2644Q|EP400_ENST00000332482.4_Silent_p.Q2688Q|EP400_ENST00000389562.2_Silent_p.Q2724Q|EP400_ENST00000389561.2_Silent_p.Q2725Q			Q96L91	EP400_HUMAN	E1A binding protein p400	2761	Interaction with ZNF42 (By similarity).|Poly-Gln.				histone H2A acetylation|histone H4 acetylation|regulation of transcription, DNA-dependent	NuA4 histone acetyltransferase complex|nuclear speck	ATP binding|DNA binding|helicase activity	p.Q2724Q(16)|p.Q2725Q(1)		NS(1)|breast(6)|central_nervous_system(10)|cervix(1)|endometrium(21)|kidney(13)|large_intestine(25)|lung(56)|ovary(5)|prostate(8)|skin(6)|stomach(4)|upper_aerodigestive_tract(2)|urinary_tract(3)	161	all_neural(191;0.0982)|Medulloblastoma(191;0.163)	all_epithelial(31;0.198)		OV - Ovarian serous cystadenocarcinoma(86;3.01e-08)|Epithelial(86;3.43e-07)|all cancers(50;2.01e-06)		agcagcagcagcaacaacagc	0.562000													3	38					0	0	1	0	0
BAGE2	85319	broad.mit.edu	37	21	11058353	11058353	+	RNA	SNP	T	T	C	rs79433933	by1000genomes	TCGA-EM-A3SX-01A-11D-A22Z-08	TCGA-EM-A3SX-10A-01D-A22Z-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	6c459dd6-3c2d-4180-a215-670b1120f3b2	a3f5c321-522d-4612-afeb-602eb0c19a0f	g.chr21:11058353T>C	ENST00000470054.1	-	0	324									B melanoma antigen family, member 2															Colorectal(6;3.44e-05)|COAD - Colon adenocarcinoma(6;0.00727)|READ - Rectum adenocarcinoma(6;0.0723)	UCEC - Uterine corpus endometrioid carcinoma (6;0.0974)|all cancers(6;2.54e-22)|Epithelial(6;4.21e-19)|OV - Ovarian serous cystadenocarcinoma(6;1.16e-09)|BRCA - Breast invasive adenocarcinoma(6;7.72e-05)|Lung(8;0.000189)|LUSC - Lung squamous cell carcinoma(6;0.00379)|GBM - Glioblastoma multiforme(6;0.00391)|Kidney(17;0.0773)|LUAD - Lung adenocarcinoma(8;0.247)		GAAATCTCTTTATAAAACCTT	0.343000													4	55					0	0	1	0	0
BPTF	2186	broad.mit.edu	37	17	65908048	65908048	+	Missense_Mutation	SNP	C	C	T			TCGA-EM-A3SX-01A-11D-A22Z-08	TCGA-EM-A3SX-10A-01D-A22Z-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	6c459dd6-3c2d-4180-a215-670b1120f3b2	a3f5c321-522d-4612-afeb-602eb0c19a0f	g.chr17:65908048C>T	ENST00000321892.4	+	13	4487	c.4426C>T	c.(4426-4428)Ccg>Tcg	p.P1476S	BPTF_ENST00000424123.3_Missense_Mutation_p.P1337S|BPTF_ENST00000335221.5_Missense_Mutation_p.P1476S|BPTF_ENST00000306378.6_Missense_Mutation_p.P1350S			Q12830	BPTF_HUMAN	bromodomain PHD finger transcription factor	1476					brain development|chromatin remodeling|negative regulation of transcription from RNA polymerase II promoter|positive regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasm|NURF complex	sequence-specific DNA binding|transcription factor binding|zinc ion binding			NS(1)|breast(1)|central_nervous_system(3)|cervix(1)|endometrium(11)|haematopoietic_and_lymphoid_tissue(1)|kidney(5)|large_intestine(16)|lung(23)|ovary(3)|pancreas(2)|prostate(4)|skin(4)|upper_aerodigestive_tract(1)|urinary_tract(2)	78	all_cancers(12;6e-11)		BRCA - Breast invasive adenocarcinoma(8;7.48e-08)|Colorectal(3;0.0984)|LUSC - Lung squamous cell carcinoma(166;0.24)			GGACAGGCTGCCGGTCAAGGG	0.418000													3	22					0	0	1	0	0
FRG1B	0	broad.mit.edu	37	20	29625877	29625877	+	Missense_Mutation	SNP	G	G	A	rs7266938	by1000genomes	TCGA-EM-A3SX-01A-11D-A22Z-08	TCGA-EM-A3SX-10A-01D-A22Z-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	6c459dd6-3c2d-4180-a215-670b1120f3b2	a3f5c321-522d-4612-afeb-602eb0c19a0f	g.chr20:29625877G>A	ENST00000278882.3	+	5	501	c.121G>A	c.(121-123)Gcc>Acc	p.A41T	FRG1B_ENST00000439954.2_Missense_Mutation_p.A46T|FRG1B_ENST00000358464.4_Missense_Mutation_p.A41T														p.A41T(2)		endometrium(10)|kidney(21)|lung(3)|pancreas(1)|prostate(9)|urinary_tract(9)	53						GTACAGAATCGCCCTGAAATC	0.358000													5	50					0	0	1	0	0
LINC00969	0	broad.mit.edu	37	3	195395402	195395402	+	RNA	SNP	C	C	A	rs149044725	by1000genomes	TCGA-EM-A3SX-01A-11D-A22Z-08	TCGA-EM-A3SX-10A-01D-A22Z-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	6c459dd6-3c2d-4180-a215-670b1120f3b2	a3f5c321-522d-4612-afeb-602eb0c19a0f	g.chr3:195395402C>A	ENST00000445430.1	+	0	809																											TACGGGCGCACCTACTTGAGC	0.597000													4	40					0.000442599	0.000442599	1	1	0
SALL2	6297	broad.mit.edu	37	14	21992320	21992320	+	Missense_Mutation	SNP	C	C	T			TCGA-EM-A3SX-01A-11D-A22Z-08	TCGA-EM-A3SX-10A-01D-A22Z-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	6c459dd6-3c2d-4180-a215-670b1120f3b2	a3f5c321-522d-4612-afeb-602eb0c19a0f	g.chr14:21992320C>T	ENST00000327430.3	-	2	1836	c.1542G>A	c.(1540-1542)atG>atA	p.M514I	SALL2_ENST00000317492.5_Intron|SALL2_ENST00000538754.1_Intron|SALL2_ENST00000450879.2_Missense_Mutation_p.M377I	NM_005407.1	NP_005398.1	Q9Y467	SALL2_HUMAN	spalt-like transcription factor 2	514							DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			NS(1)|breast(1)|central_nervous_system(1)|endometrium(4)|kidney(2)|large_intestine(12)|lung(12)|ovary(2)|skin(6)|urinary_tract(2)	43	all_cancers(95;0.000662)			GBM - Glioblastoma multiforme(265;0.0151)		CCACTGCTTTCATGAGCACAA	0.552000													21	15					0	0	1	0	0
OR10AG1	282770	broad.mit.edu	37	11	55735160	55735160	+	Missense_Mutation	SNP	C	C	A			TCGA-EM-A3SX-01A-11D-A22Z-08	TCGA-EM-A3SX-10A-01D-A22Z-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	6c459dd6-3c2d-4180-a215-670b1120f3b2	a3f5c321-522d-4612-afeb-602eb0c19a0f	g.chr11:55735160C>A	ENST00000312345.2	-	1	830	c.780G>T	c.(778-780)agG>agT	p.R260S		NM_001005491.1	NP_001005491.1	Q8NH19	O10AG_HUMAN	olfactory receptor, family 10, subfamily AG, member 1	260					sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			endometrium(2)|haematopoietic_and_lymphoid_tissue(1)|kidney(1)|large_intestine(6)|lung(24)|ovary(2)|skin(3)|upper_aerodigestive_tract(1)	40	Esophageal squamous(21;0.0137)					GTTTCCCCATCCTTTGAAACT	0.383000													7	24					1.26484e-09	1.32106e-09	1	1	0
SPATA31D1	389763	broad.mit.edu	37	9	84603866	84603866	+	Missense_Mutation	SNP	G	G	A			TCGA-EM-A3SX-01A-11D-A22Z-08	TCGA-EM-A3SX-10A-01D-A22Z-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	6c459dd6-3c2d-4180-a215-670b1120f3b2	a3f5c321-522d-4612-afeb-602eb0c19a0f	g.chr9:84603866G>A	ENST00000344803.2	+	1	180	c.133G>A	c.(133-135)Gtg>Atg	p.V45M		NM_001001670.2	NP_001001670.1			SPATA31 subfamily D, member 1																		CTTGTTCTACGTGGTATTGAC	0.463000													14	23					0	0	1	0	0
GAGE2A	729447	broad.mit.edu	37	X	49355893	49355893	+	Missense_Mutation	SNP	C	C	G	rs147803166	by1000genomes	TCGA-EM-A3SX-01A-11D-A22Z-08	TCGA-EM-A3SX-10A-01D-A22Z-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	6c459dd6-3c2d-4180-a215-670b1120f3b2	a3f5c321-522d-4612-afeb-602eb0c19a0f	g.chrX:49355893C>G	ENST00000362097.1	+	3	258	c.175C>G	c.(175-177)Cag>Gag	p.Q59E		NM_001127212.1	NP_001120684.1			G antigen 2A									p.Q59E(8)		endometrium(4)	4	Ovarian(276;0.236)					TCAGGAGGGACAGGATGAGGG	0.562000													5	304					0	0	1	0	0
WASH3P	0	broad.mit.edu	37	15	102516411	102516411	+	RNA	SNP	C	C	G			TCGA-EM-A3SX-01A-11D-A22Z-08	TCGA-EM-A3SX-10A-01D-A22Z-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	6c459dd6-3c2d-4180-a215-670b1120f3b2	a3f5c321-522d-4612-afeb-602eb0c19a0f	g.chr15:102516411C>G	ENST00000557932.1	+	0	1359																				central_nervous_system(1)|endometrium(6)|kidney(11)|prostate(5)|stomach(1)|urinary_tract(1)	25						TCCATCCCTCCTCTGCCGCCA	0.662000													4	30					0	0	1	0	0
OR5M1	390168	broad.mit.edu	37	11	56380282	56380282	+	Missense_Mutation	SNP	C	C	A			TCGA-EM-A3SX-01A-11D-A22Z-08	TCGA-EM-A3SX-10A-01D-A22Z-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	6c459dd6-3c2d-4180-a215-670b1120f3b2	a3f5c321-522d-4612-afeb-602eb0c19a0f	g.chr11:56380282C>A	ENST00000526538.1	-	1	696	c.697G>T	c.(697-699)Ggc>Tgc	p.G233C		NM_001004740.1	NP_001004740.1	Q8NGP8	OR5M1_HUMAN	olfactory receptor, family 5, subfamily M, member 1	233					sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			central_nervous_system(2)|endometrium(1)|haematopoietic_and_lymphoid_tissue(1)|lung(7)|upper_aerodigestive_tract(1)	12						TTGTGCCTGCCTTCAGCAGAA	0.443000													22	42					5.77227e-19	6.16584e-19	1	1	0
TLR7	51284	broad.mit.edu	37	X	12905565	12905565	+	Missense_Mutation	SNP	C	C	G			TCGA-EM-A3SX-01A-11D-A22Z-08	TCGA-EM-A3SX-10A-01D-A22Z-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	6c459dd6-3c2d-4180-a215-670b1120f3b2	a3f5c321-522d-4612-afeb-602eb0c19a0f	g.chrX:12905565C>G	ENST00000380659.3	+	3	2077	c.1938C>G	c.(1936-1938)ttC>ttG	p.F646L		NM_016562.3	NP_057646.1	Q9NYK1	TLR7_HUMAN	toll-like receptor 7	646					cellular response to mechanical stimulus|defense response to virus|I-kappaB phosphorylation|inflammatory response|innate immune response|positive regulation of chemokine production|positive regulation of interferon-alpha biosynthetic process|positive regulation of interferon-beta biosynthetic process|positive regulation of interferon-gamma biosynthetic process|positive regulation of interleukin-8 biosynthetic process|positive regulation of interleukin-8 production|positive regulation of NF-kappaB import into nucleus	early phagosome|endoplasmic reticulum membrane|endosome membrane|integral to membrane|lysosome|plasma membrane	double-stranded RNA binding|single-stranded RNA binding|siRNA binding|transmembrane receptor activity			NS(1)|breast(4)|endometrium(5)|kidney(1)|large_intestine(8)|lung(18)|ovary(2)|pancreas(1)|skin(2)|stomach(1)|upper_aerodigestive_tract(1)	44					Imiquimod(DB00724)	TACAATTATTCAAGAATCTGC	0.363000													34	57					0	0	1	0	0
FOCAD	54914	broad.mit.edu	37	9	20764983	20764983	+	Missense_Mutation	SNP	C	C	G			TCGA-EM-A3SX-01A-11D-A22Z-08	TCGA-EM-A3SX-10A-01D-A22Z-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	6c459dd6-3c2d-4180-a215-670b1120f3b2	a3f5c321-522d-4612-afeb-602eb0c19a0f	g.chr9:20764983C>G	ENST00000380249.1	+	9	974	c.610C>G	c.(610-612)Caa>Gaa	p.Q204E	FOCAD_ENST00000338382.6_Missense_Mutation_p.Q204E	NM_017794.3	NP_060264.3	Q5VW36	K1797_HUMAN	focadhesin	204						integral to membrane	binding										AGTCTTACTTCAACCCCAGGT	0.403000													24	27					0	0	1	0	0
TNRC6A	27327	broad.mit.edu	37	16	24801369	24801369	+	Missense_Mutation	SNP	C	C	T			TCGA-EM-A3SX-01A-11D-A22Z-08	TCGA-EM-A3SX-10A-01D-A22Z-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	6c459dd6-3c2d-4180-a215-670b1120f3b2	a3f5c321-522d-4612-afeb-602eb0c19a0f	g.chr16:24801369C>T	ENST00000395799.3	+	6	1535	c.1406C>T	c.(1405-1407)tCa>tTa	p.S469L	TNRC6A_ENST00000315183.7_Missense_Mutation_p.S469L	NM_014494.2	NP_055309.2	Q8NDV7	TNR6A_HUMAN	trinucleotide repeat containing 6A	469	Sufficient for interaction with EIF2C1, EIF2C3 and EIF2C4.|Sufficient for interaction with EIF2C2.				negative regulation of translation involved in gene silencing by miRNA	cytoplasmic mRNA processing body|micro-ribonucleoprotein complex	nucleotide binding|RNA binding			breast(1)|cervix(1)|endometrium(13)|kidney(5)|large_intestine(13)|liver(1)|lung(20)|ovary(3)|skin(2)|soft_tissue(1)|stomach(1)|upper_aerodigestive_tract(1)|urinary_tract(2)	64				GBM - Glioblastoma multiforme(48;0.0394)		AACTCCGGTTCAGTGCAGAAT	0.438000													15	17					0	0	1	0	0
CNTN5	53942	broad.mit.edu	37	11	100221518	100221518	+	Missense_Mutation	SNP	G	G	C			TCGA-EM-A3SX-01A-11D-A22Z-08	TCGA-EM-A3SX-10A-01D-A22Z-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	6c459dd6-3c2d-4180-a215-670b1120f3b2	a3f5c321-522d-4612-afeb-602eb0c19a0f	g.chr11:100221518G>C	ENST00000524871.1	+	24	3406	c.3116G>C	c.(3115-3117)gGa>gCa	p.G1039A	CNTN5_ENST00000418526.2_Missense_Mutation_p.G965A|CNTN5_ENST00000279463.3_Missense_Mutation_p.G1039A|CNTN5_ENST00000524560.1_3'UTR|CNTN5_ENST00000528682.1_Missense_Mutation_p.G1039A	NM_014361.3	NP_055176.1	O94779	CNTN5_HUMAN	contactin 5	1039	Fibronectin type-III 4.				cell adhesion	anchored to membrane|plasma membrane	protein binding			NS(2)|breast(2)|central_nervous_system(1)|endometrium(5)|haematopoietic_and_lymphoid_tissue(3)|kidney(2)|large_intestine(12)|lung(38)|ovary(2)|pancreas(2)|prostate(2)|skin(7)|upper_aerodigestive_tract(2)|urinary_tract(1)	81		all_hematologic(158;1.22e-05)|Acute lymphoblastic leukemia(157;3.81e-05)|Melanoma(852;0.219)		BRCA - Breast invasive adenocarcinoma(274;0.00146)|KIRC - Kidney renal clear cell carcinoma(183;0.156)|Kidney(183;0.196)		CCAGATGCTGGAGTCTATATT	0.398000													12	18					0	0	1	0	0
ID4	3400	broad.mit.edu	37	6	19838858	19838858	+	Nonstop_Mutation	SNP	G	G	C			TCGA-EM-A3SX-01A-11D-A22Z-08	TCGA-EM-A3SX-10A-01D-A22Z-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	6c459dd6-3c2d-4180-a215-670b1120f3b2	a3f5c321-522d-4612-afeb-602eb0c19a0f	g.chr6:19838858G>C	ENST00000378700.3	+	2	854	c.485G>C	c.(484-486)tGa>tCa	p.*162S	RP1-167F1.2_ENST00000432171.2_RNA	NM_001546.3	NP_001537.1	P47928	ID4_HUMAN	inhibitor of DNA binding 4, dominant negative helix-loop-helix protein	0							transcription corepressor activity			lung(1)	1	Ovarian(93;0.0355)|Breast(50;0.0654)|all_epithelial(95;0.12)		OV - Ovarian serous cystadenocarcinoma(7;0.00659)|all cancers(50;0.0327)|Epithelial(50;0.0621)			CTGTGCCGCTGAGCCGCGCTG	0.672000													19	32					0	0	1	0	0
SLCO2B1	11309	broad.mit.edu	37	11	74880293	74880293	+	Missense_Mutation	SNP	G	G	A			TCGA-EM-A3SX-01A-11D-A22Z-08	TCGA-EM-A3SX-10A-01D-A22Z-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	6c459dd6-3c2d-4180-a215-670b1120f3b2	a3f5c321-522d-4612-afeb-602eb0c19a0f	g.chr11:74880293G>A	ENST00000289575.5	+	5	919	c.524G>A	c.(523-525)gGc>gAc	p.G175D	SLCO2B1_ENST00000341411.4_Intron|SLCO2B1_ENST00000532236.1_Missense_Mutation_p.G59D|SLCO2B1_ENST00000428359.2_Missense_Mutation_p.G153D|SLCO2B1_ENST00000454962.2_Intron|SLCO2B1_ENST00000526660.1_Intron|SLCO2B1_ENST00000531756.1_Intron|SLCO2B1_ENST00000525650.1_Missense_Mutation_p.G31D	NM_007256.4	NP_009187.1	O94956	SO2B1_HUMAN	solute carrier organic anion transporter family, member 2B1	175					sodium-independent organic anion transport	integral to membrane	sodium-independent organic anion transmembrane transporter activity			breast(2)|endometrium(1)|large_intestine(7)|lung(20)|ovary(3)|prostate(1)|skin(3)|upper_aerodigestive_tract(2)	39					Ergoloid mesylate(DB01049)	CCCTCCAATGGCAACTGCTCA	0.587000													3	40					0	0	1	0	0
PRAMEF11	440560	broad.mit.edu	37	1	12887612	12887612	+	Missense_Mutation	SNP	T	T	C	rs60558629		TCGA-EM-A3SX-01A-11D-A22Z-08	TCGA-EM-A3SX-10A-01D-A22Z-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	6c459dd6-3c2d-4180-a215-670b1120f3b2	a3f5c321-522d-4612-afeb-602eb0c19a0f	g.chr1:12887612T>C	ENST00000535591.1	-	3	440	c.245A>G	c.(244-246)cAt>cGt	p.H82R		NM_001146344.1	NP_001139816.1	O60813	PRA11_HUMAN	PRAME family member 11	82								p.H82R(1)		NS(1)|endometrium(6)|haematopoietic_and_lymphoid_tissue(1)|kidney(5)|lung(7)|pancreas(2)|skin(4)|urinary_tract(1)	27						GAAGCACCCATGGGCCATAGC	0.488000													5	171					0	0	1	0	0
TMEM143	55260	broad.mit.edu	37	19	48836571	48836571	+	Missense_Mutation	SNP	C	C	T	rs141028740		TCGA-EM-A3SX-01A-11D-A22Z-08	TCGA-EM-A3SX-10A-01D-A22Z-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	6c459dd6-3c2d-4180-a215-670b1120f3b2	a3f5c321-522d-4612-afeb-602eb0c19a0f	g.chr19:48836571C>T	ENST00000293261.3	-	8	1601	c.1285G>A	c.(1285-1287)Gga>Aga	p.G429R	TMEM143_ENST00000435956.3_Missense_Mutation_p.G394R|TMEM143_ENST00000377431.2_Missense_Mutation_p.G329R|TMEM143_ENST00000541566.1_Missense_Mutation_p.G319R|TMEM143_ENST00000436660.2_Missense_Mutation_p.G364R	NM_018273.2	NP_060743.2	Q96AN5	TM143_HUMAN	transmembrane protein 143	429						integral to membrane|mitochondrion				endometrium(2)|kidney(1)|large_intestine(2)|lung(9)	14		all_epithelial(76;9.64e-05)|all_lung(116;0.000147)|Lung NSC(112;0.000251)|Prostate(7;0.0187)|all_neural(266;0.0506)|Ovarian(192;0.113)		OV - Ovarian serous cystadenocarcinoma(262;0.000149)|all cancers(93;0.000198)|Epithelial(262;0.0151)|GBM - Glioblastoma multiforme(486;0.0157)		GGGTACAATCCCATGCTGGGG	0.622000													17	61					0	0	1	0	0
FAM86FP	0	broad.mit.edu	37	12	8386973	8386973	+	RNA	SNP	C	C	T			TCGA-EM-A3SX-01A-11D-A22Z-08	TCGA-EM-A3SX-10A-01D-A22Z-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	6c459dd6-3c2d-4180-a215-670b1120f3b2	a3f5c321-522d-4612-afeb-602eb0c19a0f	g.chr12:8386973C>T	ENST00000427893.2	-	0	793																											AGCCAGCCTCCGCAGGACCCC	0.592000													4	51					0	0	1	0	0
TRBV19	0	broad.mit.edu	37	7	142326961	142326961	+	RNA	SNP	C	C	T	rs78434792		TCGA-EM-A3SX-01A-11D-A22Z-08	TCGA-EM-A3SX-10A-01D-A22Z-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	6c459dd6-3c2d-4180-a215-670b1120f3b2	a3f5c321-522d-4612-afeb-602eb0c19a0f	g.chr7:142326961C>T	ENST00000390393.3	+	0	467																											CAGCGTCTCTCGGGAGAAGAA	0.488000													10	111					0	0	1	0	0
DOCK10	55619	broad.mit.edu	37	2	225721649	225721649	+	Missense_Mutation	SNP	G	G	A			TCGA-EM-A3SX-01A-11D-A22Z-08	TCGA-EM-A3SX-10A-01D-A22Z-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	6c459dd6-3c2d-4180-a215-670b1120f3b2	a3f5c321-522d-4612-afeb-602eb0c19a0f	g.chr2:225721649G>A	ENST00000409592.3	-	15	1831	c.1718C>T	c.(1717-1719)tCa>tTa	p.S573L	DOCK10_ENST00000258390.7_Missense_Mutation_p.S579L			Q96BY6	DOC10_HUMAN	dedicator of cytokinesis 10	579							GTP binding			NS(1)|breast(3)|cervix(1)|endometrium(6)|kidney(10)|large_intestine(16)|lung(40)|ovary(2)|pancreas(1)|prostate(2)|stomach(1)|upper_aerodigestive_tract(3)|urinary_tract(1)	87		Renal(207;0.0113)|all_lung(227;0.0486)|Lung NSC(271;0.0653)|all_hematologic(139;0.14)		Epithelial(121;2.37e-10)|all cancers(144;2.26e-07)|Lung(261;0.0143)|LUSC - Lung squamous cell carcinoma(224;0.0178)		AAACAATGGTGAAAATCTTGA	0.308000													6	8					0	0	1	0	0
MORC4	79710	broad.mit.edu	37	X	106224676	106224676	+	Missense_Mutation	SNP	C	C	G			TCGA-EM-A3SX-01A-11D-A22Z-08	TCGA-EM-A3SX-10A-01D-A22Z-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	6c459dd6-3c2d-4180-a215-670b1120f3b2	a3f5c321-522d-4612-afeb-602eb0c19a0f	g.chrX:106224676C>G	ENST00000355610.4	-	6	980	c.706G>C	c.(706-708)Gat>Cat	p.D236H	MORC4_ENST00000255495.7_Missense_Mutation_p.D236H|MORC4_ENST00000535534.1_5'UTR	NM_001085354.2|NM_024657.4	NP_001078823.1|NP_078933.3	Q8TE76	MORC4_HUMAN	MORC family CW-type zinc finger 4	236							ATP binding|zinc ion binding			endometrium(8)|haematopoietic_and_lymphoid_tissue(1)|kidney(3)|large_intestine(4)|lung(7)|ovary(1)|prostate(1)|skin(1)|upper_aerodigestive_tract(2)	28						TGATCTGTATCAAAGTCCAAC	0.383000													20	44					0	0	1	0	0
ZFC3H1	196441	broad.mit.edu	37	12	72013900	72013900	+	Missense_Mutation	SNP	C	C	T			TCGA-EM-A3SX-01A-11D-A22Z-08	TCGA-EM-A3SX-10A-01D-A22Z-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	6c459dd6-3c2d-4180-a215-670b1120f3b2	a3f5c321-522d-4612-afeb-602eb0c19a0f	g.chr12:72013900C>T	ENST00000378743.3	-	26	5213	c.4855G>A	c.(4855-4857)Gag>Aag	p.E1619K		NM_144982.4	NP_659419.3	O60293	ZC3H1_HUMAN	zinc finger, C3H1-type containing	1619					RNA processing	intracellular	metal ion binding			NS(1)|breast(2)|central_nervous_system(1)|cervix(2)|endometrium(5)|kidney(4)|large_intestine(12)|lung(31)|ovary(3)|prostate(2)|skin(2)|upper_aerodigestive_tract(2)|urinary_tract(2)	69						ATTGCAGCCTCATACCTTAAC	0.353000													8	15					0	0	1	0	0
OR52A1	23538	broad.mit.edu	37	11	5172741	5172741	+	Missense_Mutation	SNP	G	G	A			TCGA-EM-A3SX-01A-11D-A22Z-08	TCGA-EM-A3SX-10A-01D-A22Z-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	6c459dd6-3c2d-4180-a215-670b1120f3b2	a3f5c321-522d-4612-afeb-602eb0c19a0f	g.chr11:5172741G>A	ENST00000380367.1	-	2	1276	c.859C>T	c.(859-861)Cct>Tct	p.P287S	OR52A1_ENST00000328942.1_Missense_Mutation_p.P287S			Q9UKL2	O52A1_HUMAN	olfactory receptor, family 52, subfamily A, member 1	287					sensory perception of smell	integral to plasma membrane	olfactory receptor activity			breast(2)|endometrium(1)|large_intestine(5)|lung(6)|ovary(1)|prostate(2)|upper_aerodigestive_tract(2)	19		Medulloblastoma(188;0.00106)|Breast(177;0.0155)|all_neural(188;0.0189)		Epithelial(150;2.9e-09)|BRCA - Breast invasive adenocarcinoma(625;0.135)		AGAAATGGAGGGACCAGCAAG	0.408000													36	39					0	0	1	0	0
AFM	173	broad.mit.edu	37	4	74350072	74350072	+	Missense_Mutation	SNP	G	G	A			TCGA-EM-A3SX-01A-11D-A22Z-08	TCGA-EM-A3SX-10A-01D-A22Z-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	6c459dd6-3c2d-4180-a215-670b1120f3b2	a3f5c321-522d-4612-afeb-602eb0c19a0f	g.chr4:74350072G>A	ENST00000226355.3	+	3	328	c.235G>A	c.(235-237)Gct>Act	p.A79T		NM_001133.2	NP_001124.1	P43652	AFAM_HUMAN	afamin	79	Albumin 1.				vitamin transport		vitamin E binding			breast(2)|central_nervous_system(2)|endometrium(2)|kidney(1)|large_intestine(8)|lung(9)|ovary(2)|skin(2)|upper_aerodigestive_tract(2)|urinary_tract(2)	32	Breast(15;0.00102)		Epithelial(6;5.69e-05)|OV - Ovarian serous cystadenocarcinoma(6;0.000324)|all cancers(17;0.000555)|Lung(101;0.103)|LUSC - Lung squamous cell carcinoma(112;0.154)			CAGATGTATGGCTGACAAGAC	0.373000													13	29					0	0	1	0	0
BCAN	63827	broad.mit.edu	37	1	156628485	156628485	+	Missense_Mutation	SNP	G	G	A			TCGA-EM-A3SX-01A-11D-A22Z-08	TCGA-EM-A3SX-10A-01D-A22Z-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	6c459dd6-3c2d-4180-a215-670b1120f3b2	a3f5c321-522d-4612-afeb-602eb0c19a0f	g.chr1:156628485G>A	ENST00000329117.4	+	13	2924	c.2588G>A	c.(2587-2589)cGt>cAt	p.R863H	BCAN_ENST00000496038.1_3'UTR|RP11-284F21.7_ENST00000448869.1_RNA	NM_021948.4	NP_068767.3	Q96GW7	PGCB_HUMAN	brevican	863	Sushi.				cell adhesion	anchored to membrane|proteinaceous extracellular matrix	hyaluronic acid binding|sugar binding			cervix(1)|endometrium(6)|kidney(3)|large_intestine(6)|lung(29)|ovary(3)|pancreas(1)|prostate(2)|skin(2)|upper_aerodigestive_tract(2)	55	all_hematologic(923;0.088)|Hepatocellular(266;0.158)					GAGAACGGTCGTTGGGAGGCC	0.622000													4	78					0	0	1	0	0
TPBG	7162	broad.mit.edu	37	6	83074982	83074982	+	Nonsense_Mutation	SNP	C	C	T			TCGA-EM-A3SX-01A-11D-A22Z-08	TCGA-EM-A3SX-10A-01D-A22Z-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	6c459dd6-3c2d-4180-a215-670b1120f3b2	a3f5c321-522d-4612-afeb-602eb0c19a0f	g.chr6:83074982C>T	ENST00000369750.3	+	2	921	c.304C>T	c.(304-306)Cag>Tag	p.Q102*	TPBG_ENST00000543496.1_Nonsense_Mutation_p.Q102*|TPBG_ENST00000535040.1_Nonsense_Mutation_p.Q102*			Q13641	TPBG_HUMAN	trophoblast glycoprotein	102					cell adhesion	integral to plasma membrane				central_nervous_system(1)|endometrium(1)|large_intestine(2)|lung(6)|ovary(2)|prostate(1)|skin(1)|stomach(1)	15		all_cancers(76;0.000805)|Acute lymphoblastic leukemia(125;3.85e-06)|all_hematologic(105;0.0017)|all_epithelial(107;0.0897)		BRCA - Breast invasive adenocarcinoma(397;0.107)		TACCGGCAACCAGCTGGCCGT	0.721000													13	17					0	0	1	0	0
LINC00969	0	broad.mit.edu	37	3	195395399	195395399	+	RNA	SNP	G	G	A	rs62287990	by1000genomes	TCGA-EM-A3SX-01A-11D-A22Z-08	TCGA-EM-A3SX-10A-01D-A22Z-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	6c459dd6-3c2d-4180-a215-670b1120f3b2	a3f5c321-522d-4612-afeb-602eb0c19a0f	g.chr3:195395399G>A	ENST00000445430.1	+	0	806																											GGCTACGGGCGCACCTACTTG	0.607000													5	40					0	0	1	0	0
BRAF	673	broad.mit.edu	37	7	140453136	140453136	+	Missense_Mutation	SNP	A	A	T	rs121913377		TCGA-EM-A3SX-01A-11D-A22Z-08	TCGA-EM-A3SX-10A-01D-A22Z-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	6c459dd6-3c2d-4180-a215-670b1120f3b2	a3f5c321-522d-4612-afeb-602eb0c19a0f	g.chr7:140453136A>T	ENST00000288602.6	-	15	1859	c.1799T>A	c.(1798-1800)gTg>gAg	p.V600E		NM_004333.4	NP_004324.2	P15056	BRAF_HUMAN	v-raf murine sarcoma viral oncogene homolog B	600	Protein kinase.		V -> D (in a melanoma cell line; requires 2 nucleotide substitutions).|V -> E (in sarcoma, colorectal adenocarcinoma, metastatic melanoma, ovarian serous carcinoma, pilocytic astrocytoma; somatic mutation; most common mutation; constitutive and elevated kinase activity; efficiently induces cell transformation; suppression of mutation in melanoma causes growth arrest and promotes apoptosis).		activation of MAPKK activity|anti-apoptosis|nerve growth factor receptor signaling pathway|organ morphogenesis|positive regulation of peptidyl-serine phosphorylation|small GTPase mediated signal transduction|synaptic transmission	cytosol|nucleus|plasma membrane	ATP binding|metal ion binding	p.V600E(15453)|p.V600K(252)|p.V600R(44)|p.V600D(16)|p.V600A(12)|p.V600_K601>E(12)|p.V600G(11)|p.T599_R603>I(2)|p.V600Q(2)|p.V600_S605>EK(1)|p.V600_S605>DV(1)|p.V600_S605>D(1)|p.T599_V600insDFGLAT(1)	SLC45A3/BRAF(2)|AGTRAP/BRAF(2)|FAM131B_ENST00000443739/BRAF(7)|AKAP9_ENST00000356239/BRAF(10)|KIAA1549/BRAF(703)|FCHSD1/BRAF(2)	NS(588)|adrenal_gland(3)|autonomic_ganglia(3)|biliary_tract(29)|bone(7)|breast(21)|central_nervous_system(99)|cervix(6)|endometrium(33)|eye(72)|gastrointestinal_tract_(site_indeterminate)(2)|genital_tract(4)|haematopoietic_and_lymphoid_tissue(436)|kidney(3)|large_intestine(6953)|liver(17)|lung(192)|oesophagus(4)|ovary(275)|pancreas(15)|pituitary(1)|prostate(25)|salivary_gland(1)|skin(6285)|small_intestine(12)|soft_tissue(40)|stomach(11)|testis(7)|thyroid(12220)|upper_aerodigestive_tract(13)|urinary_tract(3)	27380	Melanoma(164;0.00956)				Sorafenib(DB00398)	TCGAGATTTCACTGTAGCTAG	0.368000	V600D(K029AX_SKIN)|V600D(WM115_SKIN)|V600D(WM2664_SKIN)|V600E(8505C_THYROID)|V600E(A101D_SKIN)|V600E(A2058_SKIN)|V600E(A375_SKIN)|V600E(A673_BONE)|V600E(AM38_CENTRAL_NERVOUS_SYSTEM)|V600E(BCPAP_THYROID)|V600E(BHT101_THYROID)|V600E(BT474_BREAST)|V600E(C32_SKIN)|V600E(CL34_LARGE_INTESTINE)|V600E(COLO205_LARGE_INTESTINE)|V600E(COLO679_SKIN)|V600E(COLO741_SKIN)|V600E(COLO783_SKIN)|V600E(COLO800_SKIN)|V600E(COLO818_SKIN)|V600E(COLO829_SKIN)|V600E(COLO849_SKIN)|V600E(DBTRG05MG_CENTRAL_NERVOUS_SYSTEM)|V600E(DU4475_BREAST)|V600E(ES2_OVARY)|V600E(G361_SKIN)|V600E(GCT_SOFT_TISSUE)|V600E(HS294T_SKIN)|V600E(HS695T_SKIN)|V600E(HS939T_SKIN)|V600E(IGR1_SKIN)|V600E(IGR37_SKIN)|V600E(IGR39_SKIN)|V600E(K029AX_SKIN)|V600E(KG1C_CENTRAL_NERVOUS_SYSTEM)|V600E(LOXIMVI_SKIN)|V600E(MALME3M_SKIN)|V600E(MELHO_SKIN)|V600E(OUMS23_LARGE_INTESTINE)|V600E(RKO_LARGE_INTESTINE)|V600E(RPMI7951_SKIN)|V600E(RVH421_SKIN)|V600E(SH4_SKIN)|V600E(SIGM5_HAEMATOPOIETIC_AND_LYMPHOID_TISSUE)|V600E(SKHEP1_LIVER)|V600E(SKMEL24_SKIN)|V600E(SKMEL28_SKIN)|V600E(SKMEL5_SKIN)|V600E(SW1417_LARGE_INTESTINE)|V600E(UACC257_SKIN)|V600E(UACC62_SKIN)|V600E(WM793_SKIN)|V600E(WM88_SKIN)|V600E(WM983B_SKIN)	61	"""Mis, T, O"""	"""AKAP9, KIAA1549"""	"""melanoma, colorectal, papillary thyroid, borderline ov, Non small-cell lung cancer (NSCLC), cholangiocarcinoma, pilocytic astrocytoma"""		Cardio-facio-cutaneous syndrome		Cardiofaciocutaneous syndrome				15	31					0	0	1	0	0
RBM43	375287	broad.mit.edu	37	2	152108098	152108098	+	Silent	SNP	C	C	T			TCGA-EM-A3SX-01A-11D-A22Z-08	TCGA-EM-A3SX-10A-01D-A22Z-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	6c459dd6-3c2d-4180-a215-670b1120f3b2	a3f5c321-522d-4612-afeb-602eb0c19a0f	g.chr2:152108098C>T	ENST00000331426.5	-	4	547	c.396G>A	c.(394-396)ctG>ctA	p.L132L		NM_198557.2	NP_940959.1	Q6ZSC3	RBM43_HUMAN	RNA binding motif protein 43	132							nucleotide binding|RNA binding			endometrium(2)|large_intestine(3)|lung(2)|ovary(1)	8				BRCA - Breast invasive adenocarcinoma(221;0.131)		TTTTTTTTTTCAGGTCTTTTA	0.378000													19	37					0	0	1	0	0
KLC4	89953	broad.mit.edu	37	6	43039904	43039904	+	Missense_Mutation	SNP	C	C	G			TCGA-EM-A3SX-01A-11D-A22Z-08	TCGA-EM-A3SX-10A-01D-A22Z-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	6c459dd6-3c2d-4180-a215-670b1120f3b2	a3f5c321-522d-4612-afeb-602eb0c19a0f	g.chr6:43039904C>G	ENST00000394056.2	+	13	1894	c.1399C>G	c.(1399-1401)Ctg>Gtg	p.L467V	KLC4_ENST00000347162.5_Missense_Mutation_p.L467V|KLC4_ENST00000479388.1_Missense_Mutation_p.L467V|KLC4_ENST00000394058.1_Missense_Mutation_p.L467V|KLC4_ENST00000453940.2_Missense_Mutation_p.L390V|KLC4_ENST00000259708.3_Missense_Mutation_p.L485V			Q9NSK0	KLC4_HUMAN	kinesin light chain 4	467						cytoplasm|kinesin complex|microtubule	microtubule motor activity|protein binding			endometrium(2)|large_intestine(7)|lung(5)|ovary(1)|pancreas(1)|skin(3)|urinary_tract(4)	23			all cancers(41;0.00169)|Colorectal(64;0.00245)|COAD - Colon adenocarcinoma(64;0.00536)|OV - Ovarian serous cystadenocarcinoma(102;0.0376)|KIRC - Kidney renal clear cell carcinoma(2;0.0453)			GAACACTACTCTGAGAAACCT	0.532000													27	38					0	0	1	0	0
LTBP1	4052	broad.mit.edu	37	2	33589390	33589391	+	Frame_Shift_Ins	INS	-	-	A			TCGA-EM-A3SX-01A-11D-A22Z-08	TCGA-EM-A3SX-10A-01D-A22Z-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	6c459dd6-3c2d-4180-a215-670b1120f3b2	a3f5c321-522d-4612-afeb-602eb0c19a0f	g.chr2:33589390_33589391insA	ENST00000404816.2	+	30	4860_4861	c.4507_4508insA	c.(4507-4509)aaafs	p.K1503fs	LTBP1_ENST00000418533.2_Frame_Shift_Ins_p.K1135fs|LTBP1_ENST00000272273.5_Frame_Shift_Ins_p.K401fs|LTBP1_ENST00000402934.1_Frame_Shift_Ins_p.K1122fs|LTBP1_ENST00000407925.1_Frame_Shift_Ins_p.K1177fs|LTBP1_ENST00000404525.1_Frame_Shift_Ins_p.K1124fs|LTBP1_ENST00000354476.3_Frame_Shift_Ins_p.K1504fs|LTBP1_ENST00000390003.4_Frame_Shift_Ins_p.K1178fs			Q14766	LTBP1_HUMAN	latent transforming growth factor beta binding protein 1	1503	EGF-like 16; calcium-binding (Potential).				negative regulation of transforming growth factor beta receptor signaling pathway by extracellular sequestering of TGFbeta	proteinaceous extracellular matrix	calcium ion binding|growth factor binding|transforming growth factor beta receptor activity			breast(2)|central_nervous_system(1)|endometrium(6)|haematopoietic_and_lymphoid_tissue(1)|kidney(8)|large_intestine(13)|lung(60)|ovary(4)|pancreas(1)|prostate(2)|skin(3)|upper_aerodigestive_tract(4)|urinary_tract(3)	108	all_hematologic(175;0.115)	Medulloblastoma(90;0.215)				GGATGCGTCAGAAAAAAGATGT	0.421													11	27	---	---	---	---					
MUC5B	727897	broad.mit.edu	37	11	1282791	1282791	+	Frame_Shift_Del	DEL	C	C	-			TCGA-EM-A3SX-01A-11D-A22Z-08	TCGA-EM-A3SX-10A-01D-A22Z-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	6c459dd6-3c2d-4180-a215-670b1120f3b2	a3f5c321-522d-4612-afeb-602eb0c19a0f	g.chr11:1282791delC	ENST00000447027.1	+	49	17309	c.17251delC	c.(17251-17253)ccfs	p.P5752fs	MUC5B_ENST00000529681.1_Frame_Shift_Del_p.P5749fs			Q9HC84	MUC5B_HUMAN	mucin 5B, oligomeric mucus/gel-forming	5749					cell adhesion	extracellular region	extracellular matrix structural constituent|protein binding			cervix(2)|endometrium(36)|kidney(9)|lung(89)|urinary_tract(1)	137		all_cancers(49;6.97e-08)|all_epithelial(84;3.45e-05)|Breast(177;0.000307)|Ovarian(85;0.000953)|Medulloblastoma(188;0.0109)|all_neural(188;0.0299)|Lung NSC(207;0.229)		BRCA - Breast invasive adenocarcinoma(625;0.00141)|Lung(200;0.0853)|LUSC - Lung squamous cell carcinoma(625;0.1)		GCCCATGGCTCCCCCACACAC	0.637													3	6	---	---	---	---					
TPTE2P1	0	broad.mit.edu	37	13	25527490	25527491	+	RNA	INS	-	-	AAAAAG			TCGA-EM-A3SX-01A-11D-A22Z-08	TCGA-EM-A3SX-10A-01D-A22Z-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	6c459dd6-3c2d-4180-a215-670b1120f3b2	a3f5c321-522d-4612-afeb-602eb0c19a0f	g.chr13:25527490_25527491insAAAAAG	ENST00000429698.1	-	0	282																											AGGAAGGTTCTAAAAAAAATTT	0.252													3	4	---	---	---	---					
