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
ETAA1	54465	broad.mit.edu	37	2	67630066	67630066	+	Missense_Mutation	SNP	G	G	T			TCGA-EM-A2OY-01A-11D-A202-08	TCGA-EM-A2OY-10A-01D-A202-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	5b5e7c18-f91e-4c4f-9b61-c0a5c8a572ca	0af5b0a2-abc5-4563-b111-e4058014700e	g.chr2:67630066G>T	uc002sdz.1	+	3	641	c.502G>T	c.(502-504)Gta>Tta	p.V168L		NM_019002	NP_061875	Q9NY74	ETAA1_HUMAN	Homo sapiens Ewing tumor-associated antigen 1 (ETAA1), mRNA.	168						cytoplasm|nucleus				autonomic_ganglia(1)|breast(1)|central_nervous_system(1)|endometrium(2)|haematopoietic_and_lymphoid_tissue(1)|large_intestine(10)|lung(9)|ovary(3)|prostate(1)|stomach(3)|urinary_tract(1)	33						TACTCCCAGTGTAGCAAAAGG	0.353000													3	51					0	0	1	0	0
FUK	197258	broad.mit.edu	37	16	70509259	70509259	+	Missense_Mutation	SNP	T	T	C			TCGA-EM-A2OY-01A-11D-A202-08	TCGA-EM-A2OY-10A-01D-A202-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	5b5e7c18-f91e-4c4f-9b61-c0a5c8a572ca	0af5b0a2-abc5-4563-b111-e4058014700e	g.chr16:70509259T>C	uc010cft.3	+	18	2538	c.2480T>C	c.(2479-2481)cTg>cCg	p.L827P	FUK_uc002eyy.3_Missense_Mutation_p.L795P|FUK_uc002eyz.3_Missense_Mutation_p.L286P	NM_145059	NP_659496	Q8N0W3	FUK_HUMAN	Homo sapiens fucokinase (FUK), mRNA.	795						cytoplasm	ATP binding|fucokinase activity			endometrium(3)|haematopoietic_and_lymphoid_tissue(1)|large_intestine(4)|lung(11)|ovary(2)|prostate(2)	23		Ovarian(137;0.0694)				GCAGGGGCCCTGCTGAAGGCG	0.627000													3	86					0	0	1	0	0
COL12A1	1303	broad.mit.edu	37	6	75843113	75843113	+	Missense_Mutation	SNP	T	T	C			TCGA-EM-A2OY-01A-11D-A202-08	TCGA-EM-A2OY-10A-01D-A202-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	5b5e7c18-f91e-4c4f-9b61-c0a5c8a572ca	0af5b0a2-abc5-4563-b111-e4058014700e	g.chr6:75843113T>C	uc021zbv.1	-	32	5725	c.5690A>G	c.(5689-5691)tAt>tGt	p.Y1897C	COL12A1_uc021zbw.1_Missense_Mutation_p.Y733C|COL12A1_uc003phs.3_Missense_Mutation_p.Y1897C|COL12A1_uc003pht.3_Missense_Mutation_p.Y733C	NM_004370	NP_004361	Q99715	COCA1_HUMAN	Homo sapiens collagen, type XII, alpha 1 (COL12A1), transcript variant long, mRNA.	1897	Fibronectin type-III 14.				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						AAGAATGGCATAATTGGTATT	0.368000													17	39					0	0	1	0	0
LYPLAL1	127018	broad.mit.edu	37	1	219384958	219384958	+	Missense_Mutation	SNP	C	C	T			TCGA-EM-A2OY-01A-11D-A202-08	TCGA-EM-A2OY-10A-01D-A202-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	5b5e7c18-f91e-4c4f-9b61-c0a5c8a572ca	0af5b0a2-abc5-4563-b111-e4058014700e	g.chr1:219384958C>T	uc001hlq.4	+	4	643	c.602C>T	c.(601-603)aCg>aTg	p.T201M	LYPLAL1_uc001hlr.4_Missense_Mutation_p.T185M|LYPLAL1_uc001hls.4_Missense_Mutation_p.T77M|LYPLAL1_uc001hlt.4_Missense_Mutation_p.T77M|LYPLAL1_uc009xds.3_Missense_Mutation_p.T150M	NM_138794	NP_620149	Q5VWZ2	LYPL1_HUMAN	Homo sapiens lysophospholipase-like 1 (LYPLAL1), mRNA.	201						cytoplasm	lysophospholipase activity			large_intestine(1)|lung(5)	6				GBM - Glioblastoma multiforme(131;0.055)|all cancers(67;0.105)|OV - Ovarian serous cystadenocarcinoma(81;0.116)		GGAGTGACCACGAAGTTTCAT	0.373000													15	64					0	0	1	0	0
SHROOM2	357	broad.mit.edu	37	X	9862838	9862838	+	Missense_Mutation	SNP	A	A	G			TCGA-EM-A2OY-01A-11D-A202-08	TCGA-EM-A2OY-10A-01D-A202-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	5b5e7c18-f91e-4c4f-9b61-c0a5c8a572ca	0af5b0a2-abc5-4563-b111-e4058014700e	g.chrX:9862838A>G	uc004csu.1	+	3	980	c.890A>G	c.(889-891)aAt>aGt	p.N297S		NM_001649	NP_001640	Q13796	SHRM2_HUMAN	Homo sapiens shroom family member 2 (SHROOM2), mRNA.	297					apical protein localization|brain development|cell migration|cell morphogenesis|cellular pigment accumulation|ear development|establishment of melanosome localization|eye pigment granule organization|lens morphogenesis in camera-type eye|melanosome organization	apical plasma membrane|cell-cell adherens junction|microtubule|tight junction	actin filament binding|beta-catenin binding|ligand-gated sodium channel activity			breast(4)|central_nervous_system(2)|cervix(3)|endometrium(10)|haematopoietic_and_lymphoid_tissue(1)|kidney(1)|large_intestine(9)|lung(13)|ovary(3)|prostate(3)|skin(6)|upper_aerodigestive_tract(2)	57		Hepatocellular(5;0.000888)				GGGAGGTCCAATTTTGGGCCA	0.612000													17	65					0	0	1	0	0
UBQLN3	50613	broad.mit.edu	37	11	5528997	5528997	+	Missense_Mutation	SNP	T	T	C			TCGA-EM-A2OY-01A-11D-A202-08	TCGA-EM-A2OY-10A-01D-A202-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	5b5e7c18-f91e-4c4f-9b61-c0a5c8a572ca	0af5b0a2-abc5-4563-b111-e4058014700e	g.chr11:5528997T>C	uc001may.1	-	1	1878	c.1792A>G	c.(1792-1794)Atg>Gtg	p.M598V	HBG1_uc001mak.1_Intron|HBE1_uc001mam.1_5'Flank|OR51B5_uc021qcv.1_5'Flank|OR51B5_uc001maq.2_5'Flank|UBQLN3_uc021qcw.1_Missense_Mutation_p.M598V	NM_017481	NP_059509	Q9H347	UBQL3_HUMAN	Homo sapiens ubiquilin 3 (UBQLN3), mRNA.	598										NS(2)|endometrium(3)|haematopoietic_and_lymphoid_tissue(1)|kidney(1)|large_intestine(9)|lung(16)|ovary(4)|prostate(1)|skin(2)	39		Medulloblastoma(188;0.00225)|Breast(177;0.0155)|all_neural(188;0.0212)		Epithelial(150;1.74e-09)|BRCA - Breast invasive adenocarcinoma(625;0.135)		TCTTGCAGCATATGGAGAAAG	0.542000													59	40					0	0	1	0	0
TLL2	7093	broad.mit.edu	37	10	98155751	98155751	+	Missense_Mutation	SNP	C	C	T			TCGA-EM-A2OY-01A-11D-A202-08	TCGA-EM-A2OY-10A-01D-A202-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	5b5e7c18-f91e-4c4f-9b61-c0a5c8a572ca	0af5b0a2-abc5-4563-b111-e4058014700e	g.chr10:98155751C>T	uc001kml.2	-	11	1652	c.1411G>A	c.(1411-1413)Gat>Aat	p.D471N	TLL2_uc009xvf.2_Missense_Mutation_p.D449N	NM_012465	NP_036597	Q9Y6L7	TLL2_HUMAN	Homo sapiens tolloid-like 2 (TLL2), mRNA.	471	CUB 2.				cell differentiation|multicellular organismal development|proteolysis	extracellular region	calcium ion binding|metalloendopeptidase activity|zinc ion binding			NS(1)|breast(3)|endometrium(3)|haematopoietic_and_lymphoid_tissue(3)|kidney(5)|large_intestine(15)|lung(22)|ovary(1)|pancreas(1)|prostate(1)|skin(3)	58		Colorectal(252;0.0846)		Epithelial(162;1.51e-07)|all cancers(201;7.59e-06)		TGACCGGCATCTTTGTTCATG	0.517000											OREG0020398	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	37	94					0	0	1	0	0
GPR141	353345	broad.mit.edu	37	7	37780300	37780300	+	Missense_Mutation	SNP	C	C	T			TCGA-EM-A2OY-01A-11D-A202-08	TCGA-EM-A2OY-10A-01D-A202-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	5b5e7c18-f91e-4c4f-9b61-c0a5c8a572ca	0af5b0a2-abc5-4563-b111-e4058014700e	g.chr7:37780300C>T	uc003tfm.1	+	0	305	c.305C>T	c.(304-306)aCg>aTg	p.T102M	BC043356_uc003tfl.3_Intron	NM_181791	NP_861456	Q7Z602	GP141_HUMAN	Homo sapiens G protein-coupled receptor 141 (GPR141), mRNA.	102						integral to membrane|plasma membrane	G-protein coupled receptor activity	p.T102T(1)		NS(1)|breast(3)|endometrium(2)|kidney(1)|large_intestine(4)|liver(2)|lung(13)|ovary(3)|prostate(1)|upper_aerodigestive_tract(1)|urinary_tract(1)	32						ATGTACCTCACGTTCCTATTC	0.473000													22	78					0	0	1	0	0
C2orf83	56918	broad.mit.edu	37	2	228476316	228476316	+	Missense_Mutation	SNP	C	C	T	rs111332429	byFrequency	TCGA-EM-A2OY-01A-11D-A202-08	TCGA-EM-A2OY-10A-01D-A202-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	5b5e7c18-f91e-4c4f-9b61-c0a5c8a572ca	0af5b0a2-abc5-4563-b111-e4058014700e	g.chr2:228476316C>T	uc002vph.3	-	2	482	c.247G>A	c.(247-249)Gta>Ata	p.V83I	C2orf83_uc010zlu.2_3'UTR	NM_020161	NP_064546	Q53S99	CB083_HUMAN	Homo sapiens chromosome 2 open reading frame 83 (C2orf83), transcript variant 1, mRNA.	83						membrane	folic acid binding|reduced folate carrier activity			endometrium(1)|kidney(1)|large_intestine(1)|lung(6)|stomach(2)	11						CATGTCTGTACGGTAAGTTTC	0.468000													6	55					0	0	1	0	0
AP3B1	8546	broad.mit.edu	37	5	77311327	77311327	+	Missense_Mutation	SNP	G	G	A			TCGA-EM-A2OY-01A-11D-A202-08	TCGA-EM-A2OY-10A-01D-A202-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	5b5e7c18-f91e-4c4f-9b61-c0a5c8a572ca	0af5b0a2-abc5-4563-b111-e4058014700e	g.chr5:77311327G>A	uc003kfj.3	-	25	3163	c.3038C>T	c.(3037-3039)gCa>gTa	p.A1013V		NM_003664	NP_003655	O00203	AP3B1_HUMAN	Homo sapiens adaptor-related protein complex 3, beta 1 subunit (AP3B1), mRNA.	1013					endocytosis|melanosome organization	Golgi apparatus|clathrin coated vesicle membrane|membrane coat	protein phosphatase binding|protein transporter activity			breast(5)|central_nervous_system(2)|cervix(1)|endometrium(3)|large_intestine(12)|lung(12)|prostate(1)|skin(2)|urinary_tract(1)	39		all_lung(232;0.000397)|Lung NSC(167;0.00106)|Ovarian(174;0.0105)|Prostate(461;0.215)		OV - Ovarian serous cystadenocarcinoma(54;8.23e-47)|Epithelial(54;2.74e-41)|all cancers(79;4.8e-36)		ATTCTGTGGTGCAGCAATGAT	0.383000									Hermansky-Pudlak syndrome				24	75					0	0	1	0	0
C14orf109	26175	broad.mit.edu	37	14	93652904	93652904	+	Missense_Mutation	SNP	A	A	G			TCGA-EM-A2OY-01A-11D-A202-08	TCGA-EM-A2OY-10A-01D-A202-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	5b5e7c18-f91e-4c4f-9b61-c0a5c8a572ca	0af5b0a2-abc5-4563-b111-e4058014700e	g.chr14:93652904A>G	uc010auo.3	+	1	756	c.398A>G	c.(397-399)aAa>aGa	p.K133R	MOAP1_uc001ybj.3_5'Flank|MOAP1_uc021saw.1_5'Flank|C14orf109_uc001ybk.4_Missense_Mutation_p.K95R|C14orf109_uc021sax.1_Missense_Mutation_p.K95R	NM_001098621	NP_056491	Q8N6I4	CN109_HUMAN	Homo sapiens chromosome 14 open reading frame 109 (C14orf109), transcript variant 1, mRNA.	127						integral to membrane				kidney(1)	1		all_cancers(154;0.11)|Acute lymphoblastic leukemia(33;0.0488)		Epithelial(152;0.176)|all cancers(159;0.197)|COAD - Colon adenocarcinoma(157;0.202)		GCTGATCCCAAAACAGTGGGC	0.418000													5	239					0	0	1	0	0
LRTM2	654429	broad.mit.edu	37	12	1940261	1940261	+	Silent	SNP	G	G	A			TCGA-EM-A2OY-01A-11D-A202-08	TCGA-EM-A2OY-10A-01D-A202-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	5b5e7c18-f91e-4c4f-9b61-c0a5c8a572ca	0af5b0a2-abc5-4563-b111-e4058014700e	g.chr12:1940261G>A	uc001qjt.2	+	3	1034	c.228G>A	c.(226-228)ttG>ttA	p.L76L	CACNA2D4_uc021qsx.1_Intron|CACNA2D4_uc009zds.2_Intron|CACNA2D4_uc009zdt.1_Intron|CACNA2D4_uc009zdr.2_Intron|LRTM2_uc001qju.2_Silent_p.L76L|LRTM2_uc010sdx.1_Silent_p.L76L|LRTM2_uc001qjv.2_Intron	NM_001039029	NP_001157398	Q8N967	LRTM2_HUMAN	Homo sapiens leucine-rich repeats and transmembrane domains 2 (LRTM2), transcript variant 1, mRNA.	76						integral to membrane				NS(1)|endometrium(3)|kidney(1)|large_intestine(2)|lung(10)|ovary(1)|skin(1)|urinary_tract(1)	20	Ovarian(42;0.107)		OV - Ovarian serous cystadenocarcinoma(31;0.000834)			TCTTGCTCTTGAACAATAAGC	0.642000													60	192					0	0	1	0	0
EXOC3L4	91828	broad.mit.edu	37	14	103568560	103568560	+	Missense_Mutation	SNP	C	C	T			TCGA-EM-A2OY-01A-11D-A202-08	TCGA-EM-A2OY-10A-01D-A202-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	5b5e7c18-f91e-4c4f-9b61-c0a5c8a572ca	0af5b0a2-abc5-4563-b111-e4058014700e	g.chr14:103568560C>T	uc001ymk.3	+	1	576	c.500C>T	c.(499-501)aCc>aTc	p.T167I		NM_001077594	NP_001071062	Q17RC7	EX3L4_HUMAN	Homo sapiens exocyst complex component 3-like 4 (EXOC3L4), mRNA.	167										cervix(2)|endometrium(2)|lung(4)|ovary(1)|skin(1)	10						GCCTCGCGCACCTTTGAGCAG	0.657000													6	19					0	0	1	0	0
CNPY4	245812	broad.mit.edu	37	7	99720117	99720117	+	Missense_Mutation	SNP	G	G	A			TCGA-EM-A2OY-01A-11D-A202-08	TCGA-EM-A2OY-10A-01D-A202-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	5b5e7c18-f91e-4c4f-9b61-c0a5c8a572ca	0af5b0a2-abc5-4563-b111-e4058014700e	g.chr7:99720117G>A	uc003uto.3	+	2	362	c.259G>A	c.(259-261)Gaa>Aaa	p.E87K	TAF6_uc011kji.2_5'Flank	NM_152755	NP_689968	Q8N129	CNPY4_HUMAN	Homo sapiens canopy 4 homolog (zebrafish) (CNPY4), mRNA.	87						extracellular region				breast(2)|kidney(1)|large_intestine(1)|lung(2)|upper_aerodigestive_tract(1)	7	Lung NSC(181;0.0181)|all_lung(186;0.0284)|Esophageal squamous(72;0.0439)					GACAAGGCTGGAAGAGGCCTT	0.537000													53	249					0	0	1	0	0
KRTAP4-2	85291	broad.mit.edu	37	17	39334209	39334209	+	Missense_Mutation	SNP	A	A	G			TCGA-EM-A2OY-01A-11D-A202-08	TCGA-EM-A2OY-10A-01D-A202-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	5b5e7c18-f91e-4c4f-9b61-c0a5c8a572ca	0af5b0a2-abc5-4563-b111-e4058014700e	g.chr17:39334209A>G	uc002hwd.3	-	0	252	c.208T>C	c.(208-210)Tgc>Cgc	p.C70R		NM_033062	NP_149051	Q9BYR5	KRA42_HUMAN	Homo sapiens keratin associated protein 4-2 (KRTAP4-2), mRNA.	70	20 X 5 AA repeats OF C-C-[GRQVS]-[SPT]- [VSTQ].					keratin filament				kidney(2)|lung(4)|upper_aerodigestive_tract(1)	7		Breast(137;0.000496)	STAD - Stomach adenocarcinoma(17;0.000449)			GTCCTGCAGCAAGTGGTCTGG	0.672000													24	148					0	0	1	0	0
EHBP1	23301	broad.mit.edu	37	2	62934336	62934336	+	Missense_Mutation	SNP	G	G	T			TCGA-EM-A2OY-01A-11D-A202-08	TCGA-EM-A2OY-10A-01D-A202-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	5b5e7c18-f91e-4c4f-9b61-c0a5c8a572ca	0af5b0a2-abc5-4563-b111-e4058014700e	g.chr2:62934336G>T	uc002sby.3	+	1	492	c.10G>T	c.(10-12)Gtt>Ttt	p.V4F	EHBP1_uc010fcp.3_Missense_Mutation_p.V4F|EHBP1_uc010fcq.1_Missense_Mutation_p.V4F|EHBP1_uc002sbx.2_Missense_Mutation_p.V4F|EHBP1_uc002sbz.3_Missense_Mutation_p.V4F|EHBP1_uc002scb.3_Missense_Mutation_p.V4F|EHBP1_uc002sca.3_Missense_Mutation_p.V4F	NM_015252	NP_056067	Q8NDI1	EHBP1_HUMAN	Homo sapiens EH domain binding protein 1 (EHBP1), transcript variant 1, mRNA.	4						cytoplasm|membrane				biliary_tract(1)|breast(3)|cervix(1)|endometrium(4)|kidney(4)|large_intestine(8)|lung(22)|ovary(1)|prostate(1)|skin(1)|upper_aerodigestive_tract(1)	47	Lung NSC(7;0.0951)|all_lung(7;0.169)		LUSC - Lung squamous cell carcinoma(7;7.74e-05)|Epithelial(17;0.189)			CATGGCTTCAGTTTGGAAGAG	0.463000													19	36					0	0	1	0	0