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	chromosome_name_WU	start_WU	stop_WU	reference_WU	variant_WU	type_WU	gene_name_WU	transcript_name_WU	transcript_species_WU	transcript_source_WU	transcript_version_WU	strand_WU	transcript_status_WU	trv_type_WU	c_position_WU	amino_acid_change_WU	ucsc_cons_WU	domain_WU	all_domains_WU	deletion_substructures_WU	annotation_errors_WU	
ACOXL	55289	genome.wustl.edu	37	2	111875316	111875316	+	Missense_Mutation	SNP	T	T	A	novel	unknown	TCGA-BH-A18R-01A-11D-A12B-09	TCGA-BH-A18R-11A-42D-A12B-09	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	2	111875316	111875316	T	A	SNP	ACOXL	NM_001142807	human	genbank	57_37b	+1	validated	missense	c.1666	p.F556I	0.996	HMMPfam_ACOX	superfamily_Acyl-CoA dehydrogenase NM domain-like,HMMPfam_Acyl-CoA_dh_M,HMMPfam_Acyl-CoA_dh_1,superfamily_Acyl-CoA dehydrogenase C-terminal domain-like,HMMPfam_ACOX	-	no_errors	
AKAP12	9590	genome.wustl.edu	37	6	151672994	151672994	+	Silent	SNP	G	G	A	novel	unknown	TCGA-BH-A18R-01A-11D-A12B-09	TCGA-BH-A18R-11A-42D-A12B-09	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	6	151672994	151672994	G	A	SNP	AKAP12	NM_005100	human	genbank	57_37b	+1	reviewed	silent	c.3468	p.Q1156	0.030	NULL	HMMPfam_WSK,HMMPfam_RII_binding_1	-	no_errors	
AMIGO1	57463	genome.wustl.edu	37	1	110050151	110050151	+	Missense_Mutation	SNP	T	T	G	novel	unknown	TCGA-BH-A18R-01A-11D-A12B-09	TCGA-BH-A18R-11A-42D-A12B-09	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	1	110050151	110050151	T	G	SNP	AMIGO1	NM_020703	human	genbank	57_37b	-1	validated	missense	c.1384	p.T462P	1.000	NULL	superfamily_SSF52058,HMMSmart_LRRNT,HMMSmart_LRR_TYP,HMMPfam_LRR_1,HMMSmart_LRRCT,superfamily_SSF48726,HMMSmart_IG,HMMPfam_ig	-	no_errors	
ATCAY	85300	genome.wustl.edu	37	19	3909567	3909567	+	Missense_Mutation	SNP	T	T	C	novel	unknown	TCGA-BH-A18R-01A-11D-A12B-09	TCGA-BH-A18R-11A-42D-A12B-09	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	19	3909567	3909567	T	C	SNP	ATCAY	NM_033064	human	genbank	57_37b	+1	reviewed	missense	c.731	p.M244T	1.000	superfamily_CRAL/TRIO domain,HMMSmart_SM00516	superfamily_CRAL/TRIO domain,HMMSmart_SM00516	-	no_errors	
BFSP1	631	genome.wustl.edu	37	20	17474951	17474951	+	Missense_Mutation	SNP	G	G	C	novel	unknown	TCGA-BH-A18R-01A-11D-A12B-09	TCGA-BH-A18R-11A-42D-A12B-09	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	20	17474951	17474951	G	C	SNP	BFSP1	NM_001195	human	genbank	57_37b	-1	reviewed	missense	c.1766	p.P589R	0.000	NULL	superfamily_Prefoldin	-	no_errors	
C6orf103	79747	genome.wustl.edu	37	6	147123111	147123111	+	Missense_Mutation	SNP	A	A	C	novel	unknown	TCGA-BH-A18R-01A-11D-A12B-09	TCGA-BH-A18R-11A-42D-A12B-09	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	6	147123111	147123111	A	C	SNP	C6orf103	NM_024694	human	genbank	57_37b	+1	provisional	missense	c.4782	p.L1594F	0.000	NULL	superfamily_Cysteine proteinases,HMMSmart_SM00230,HMMPfam_IQ	-	no_errors	
C9orf100	84904	genome.wustl.edu	37	9	35664108	35664108	+	Missense_Mutation	SNP	T	T	G	novel	unknown	TCGA-BH-A18R-01A-11D-A12B-09	TCGA-BH-A18R-11A-42D-A12B-09	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	9	35664108	35664108	T	G	SNP	C9orf100	NM_032818	human	genbank	57_37b	-1	provisional	missense	c.370	p.N124H	0.732	superfamily_DBL homology domain (DH-domain),HMMPfam_RhoGEF,HMMSmart_SM00325	superfamily_DBL homology domain (DH-domain),HMMPfam_RhoGEF,HMMSmart_SM00325,superfamily_PH domain-like,HMMPfam_PH,HMMSmart_SM00233	-	no_errors	
CCDC18	343099	genome.wustl.edu	37	1	93701816	93701816	+	Frame_Shift_Del	DEL	G	G	-	novel	unknown	TCGA-BH-A18R-01A-11D-A12B-09	TCGA-BH-A18R-11A-42D-A12B-09	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	1	93701816	93701816	G	-	DEL	CCDC18	NM_206886	human	genbank	57_37b	+1	validated	frame_shift_del	c.2826	p.E943fs	1.000	NULL	superfamily_Prefoldin	(deletion:cds_exon[93701805,93701947])	no_errors	
DGKI	9162	genome.wustl.edu	37	7	137374734	137374734	+	Missense_Mutation	SNP	C	C	T	novel	unknown	TCGA-BH-A18R-01A-11D-A12B-09	TCGA-BH-A18R-11A-42D-A12B-09	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	7	137374734	137374734	C	T	SNP	DGKI	NM_004717	human	genbank	57_37b	-1	reviewed	missense	c.416	p.R139Q	1.000	NULL	PatternScan_ZF_DAG_PE_1,HMMSmart_C1,HMMPfam_C1_1,HMMPfam_DAGK_cat,HMMSmart_DAGKc,HMMPfam_DAGK_acc,HMMSmart_DAGKa,superfamily_ANK,HMMPfam_Ank,HMMSmart_ANK	-	no_errors	
DNAH10	196385	genome.wustl.edu	37	12	124349244	124349244	+	Silent	SNP	C	C	A	novel	unknown	TCGA-BH-A18R-01A-11D-A12B-09	TCGA-BH-A18R-11A-42D-A12B-09	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	12	124349244	124349244	C	A	SNP	DNAH10	NM_207437	human	genbank	57_37b	+1	validated	silent	c.6657	p.I2219	0.971	superfamily_P-loop containing nucleoside triphosphate hydrolases,HMMSmart_SM00382,HMMPfam_AAA_5	HMMPfam_DHC_N1,HMMPfam_DHC_N2,superfamily_P-loop containing nucleoside triphosphate hydrolases,HMMSmart_SM00382,HMMPfam_AAA_5,HMMPfam_Dynein_heavy	-	no_errors	
FAM107A	11170	genome.wustl.edu	37	3	58552971	58552971	+	Missense_Mutation	SNP	C	C	G	novel	unknown	TCGA-BH-A18R-01A-11D-A12B-09	TCGA-BH-A18R-11A-42D-A12B-09	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	3	58552971	58552971	C	G	SNP	FAM107A	NM_001076778	human	genbank	57_37b	-1	validated	missense	c.291	p.E97D	1.000	HMMPfam_DUF1151	HMMPfam_DUF1151	-	no_errors	
FAM194B	220081	genome.wustl.edu	37	13	46124100	46124100	+	Missense_Mutation	SNP	A	A	T	novel	unknown	TCGA-BH-A18R-01A-11D-A12B-09	TCGA-BH-A18R-11A-42D-A12B-09	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	13	46124100	46124100	A	T	SNP	FAM194B	NM_182542	human	genbank	57_37b	-1	predicted	missense	c.1574	p.L525Q	0.000	NULL	NULL	-	no_errors	
FLJ43859	389761	genome.wustl.edu	37	9	84547625	84547625	+	Missense_Mutation	SNP	C	C	T	novel	unknown	TCGA-BH-A18R-01A-11D-A12B-09	TCGA-BH-A18R-11A-42D-A12B-09	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	9	84547625	84547625	C	T	SNP	FLJ43859	NM_001145197	human	genbank	57_37b	+1	validated	missense	c.2549	p.S850L	0.040	NULL	NULL	-	no_errors	
FLNC	2318	genome.wustl.edu	37	7	128477752	128477752	+	Silent	SNP	C	C	T	novel	unknown	TCGA-BH-A18R-01A-11D-A12B-09	TCGA-BH-A18R-11A-42D-A12B-09	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	7	128477752	128477752	C	T	SNP	FLNC	NM_001458	human	genbank	57_37b	+1	reviewed	silent	c.912	p.D304	0.835	superfamily_E set domains,HMMPfam_Filamin,HMMSmart_SM00557	superfamily_Calponin-homology domain CH-domain,HMMPfam_CH,PatternScan_ACTININ_1,HMMSmart_SM00033,PatternScan_ACTININ_2,superfamily_E set domains,HMMPfam_Filamin,HMMSmart_SM00557	-	no_errors	
HOXD3	3232	genome.wustl.edu	37	2	177036754	177036754	+	Silent	SNP	T	T	C	rs1051929	byCluster;byFrequency;by2Hit2Allele;by1000genomes	TCGA-BH-A18R-01A-11D-A12B-09	TCGA-BH-A18R-11A-42D-A12B-09	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	2	177036754	177036754	T	C	SNP	HOXD3	NM_006898	human	genbank	57_37b	+1	reviewed	silent	c.1051	p.L351	1.000	NULL	PatternScan_ANTENNAPEDIA,superfamily_Homeodomain_like,HMMSmart_HOX,HMMPfam_Homeobox,PatternScan_HOMEOBOX_1	-		
MUC16	94025	genome.wustl.edu	37	19	9063011	9063011	+	Silent	SNP	C	C	T	novel	unknown	TCGA-BH-A18R-01A-11D-A12B-09	TCGA-BH-A18R-11A-42D-A12B-09	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	19	9063011	9063011	C	T	SNP	MUC16	NM_024690	human	genbank	57_37b	-1	validated	silent	c.24435	p.V8145	0.000	NULL	PatternScan_ATPASE_ALPHA_BETA,superfamily_SEA domain,HMMSmart_SM00200,HMMPfam_SEA	-	no_errors	
OR5AZ1P	0	genome.wustl.edu	37	11	57685334	57685334	+	Silent	SNP	G	G	A	rs616911	byCluster;byFrequency;bySubmitter;by2Hit2Allele;by1000genomes	TCGA-BH-A18R-01A-11D-A12B-09	TCGA-BH-A18R-11A-42D-A12B-09	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	11	57685334	57685334	G	A	SNP	OR5AZ1P	ENST00000319748	human	ensembl	57_37b	-1	known	silent	c.369	p.T123	0.000	superfamily_SSF81321,HMMPfam_7tm_1,PatternScan_G_PROTEIN_RECEP_F1_1	superfamily_SSF81321,HMMPfam_7tm_1,PatternScan_G_PROTEIN_RECEP_F1_1	-		
PCDHGB5	56101	genome.wustl.edu	37	5	140778016	140778016	+	Missense_Mutation	SNP	G	G	A	novel	unknown	TCGA-BH-A18R-01A-11D-A12B-09	TCGA-BH-A18R-11A-42D-A12B-09	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	5	140778016	140778016	G	A	SNP	PCDHGB5	NM_018925	human	genbank	57_37b	+1	reviewed	missense	c.322	p.A108T	0.168	HMMPfam_Cadherin_2,superfamily_Cadherin-like,HMMSmart_SM00112	HMMPfam_Cadherin_2,superfamily_Cadherin-like,HMMSmart_SM00112,PatternScan_CADHERIN_1,HMMPfam_Cadherin	-	no_errors	
PITX2	5308	genome.wustl.edu	37	4	111539734	111539734	+	Nonsense_Mutation	SNP	G	G	C	novel	unknown	TCGA-BH-A18R-01A-11D-A12B-09	TCGA-BH-A18R-11A-42D-A12B-09	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	4	111539734	111539734	G	C	SNP	PITX2	NM_000325	human	genbank	57_37b	-1	reviewed	nonsense	c.522	p.Y174*	1.000	NULL	superfamily_Homeodomain-like,HMMSmart_SM00389,HMMPfam_Homeobox,PatternScan_HOMEOBOX_1,HMMPfam_OAR	-	no_errors	
POGK	57645	genome.wustl.edu	37	1	166819372	166819372	+	Missense_Mutation	SNP	G	G	C	novel	unknown	TCGA-BH-A18R-01A-11D-A12B-09	TCGA-BH-A18R-11A-42D-A12B-09	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	1	166819372	166819372	G	C	SNP	POGK	NM_017542	human	genbank	57_37b	+1	reviewed	missense	c.1556	p.R519P	0.997	HMMPfam_DDE	superfamily_KRAB domain (Kruppel-associated box Pfam 01352),HMMPfam_KRAB,HMMSmart_SM00349,HMMPfam_BrkDBD,superfamily_Homeodomain-like,HMMPfam_CenpB-DNA-bind,HMMSmart_SM00674,HMMPfam_DDE	-	no_errors	
POLR1B	84172	genome.wustl.edu	37	2	113317039	113317039	+	Silent	SNP	G	G	A	novel	unknown	TCGA-BH-A18R-01A-11D-A12B-09	TCGA-BH-A18R-11A-42D-A12B-09	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	2	113317039	113317039	G	A	SNP	POLR1B	NM_019014	human	genbank	57_37b	+1	validated	silent	c.1500	p.V500	1.000	superfamily_beta and beta-prime subunits of DNA dependent RNA-polymerase,HMMPfam_RNA_pol_Rpb2_3	superfamily_beta and beta-prime subunits of DNA dependent RNA-polymerase,HMMPfam_RNA_pol_Rpb2_1,HMMPfam_RNA_pol_Rpb2_2,HMMPfam_RNA_pol_Rpb2_3,HMMPfam_RNA_pol_Rpa2_4,HMMPfam_RNA_pol_Rpb2_5,HMMPfam_RNA_pol_Rpb2_6,PatternScan_RNA_POL_BETA,HMMPfam_RNA_pol_Rpb2_7	-	no_errors	
PSG8	440533	genome.wustl.edu	37	19	43262178	43262178	+	Missense_Mutation	SNP	C	C	G	novel	unknown	TCGA-BH-A18R-01A-11D-A12B-09	TCGA-BH-A18R-11A-42D-A12B-09	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	19	43262178	43262178	C	G	SNP	PSG8	NM_182707	human	genbank	57_37b	-1	validated	missense	c.685	p.D229H	0.666	superfamily_SSF48726,HMMSmart_IG	HMMPfam_V-set,superfamily_SSF48726,HMMSmart_IG,HMMPfam_ig,HMMSmart_IGc2	-	no_errors	
RECK	8434	genome.wustl.edu	37	9	36052308	36052308	+	Silent	SNP	T	T	C	novel	unknown	TCGA-BH-A18R-01A-11D-A12B-09	TCGA-BH-A18R-11A-42D-A12B-09	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	9	36052308	36052308	T	C	SNP	RECK	NM_021111	human	genbank	57_37b	+1	reviewed	silent	c.147	p.D49	0.999	NULL	superfamily_Kazal-type serine protease inhibitors,HMMPfam_Kazal_2,HMMSmart_SM00280,PatternScan_KAZAL	-	no_errors	
RYR3	6263	genome.wustl.edu	37	15	34113500	34113500	+	Silent	SNP	C	C	T	novel	unknown	TCGA-BH-A18R-01A-11D-A12B-09	TCGA-BH-A18R-11A-42D-A12B-09	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	15	34113500	34113500	C	T	SNP	RYR3	NM_001036	human	genbank	57_37b	+1	validated	silent	c.10845	p.L3615	0.046	NULL	HMMPfam_Ins145_P3_rec,HMMSmart_SM00472,HMMPfam_MIR,superfamily_MIR domain (Pfam 02815),HMMPfam_RYDR_ITPR,HMMPfam_SPRY,HMMSmart_SM00449,HMMPfam_RyR,HMMPfam_RIH_assoc,HMMPfam_efhand,superfamily_EF-hand,HMMPfam_RR_TM4-6,HMMPfam_Ion_trans	-	no_errors	
SLC30A9	10463	genome.wustl.edu	37	4	42069113	42069113	+	Missense_Mutation	SNP	C	C	G	novel	unknown	TCGA-BH-A18R-01A-11D-A12B-09	TCGA-BH-A18R-11A-42D-A12B-09	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	4	42069113	42069113	C	G	SNP	SLC30A9	NM_006345	human	genbank	57_37b	+1	validated	missense	c.1156	p.R386G	1.000	HMMPfam_Cation_efflux	superfamily_Putative DNA-binding domain,HMMPfam_Cation_efflux	-	no_errors	
SPIN1	10927	genome.wustl.edu	37	9	91090014	91090014	+	Missense_Mutation	SNP	G	G	C	novel	unknown	TCGA-BH-A18R-01A-11D-A12B-09	TCGA-BH-A18R-11A-42D-A12B-09	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	9	91090014	91090014	G	C	SNP	SPIN1	NM_006717	human	genbank	57_37b	+1	validated	missense	c.611	p.R204T	1.000	NULL	HMMPfam_Spin-Ssty	-	no_errors	
ST6GALNAC4	27090	genome.wustl.edu	37	9	130670691	130670691	+	Missense_Mutation	SNP	G	G	T	novel	unknown	TCGA-BH-A18R-01A-11D-A12B-09	TCGA-BH-A18R-11A-42D-A12B-09	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	9	130670691	130670691	G	T	SNP	ST6GALNAC4	NM_175039	human	genbank	57_37b	-1	reviewed	missense	c.889	p.P297T	1.000	NULL	HMMPfam_Glyco_transf_29	-	no_errors	
TBL1XR1	79718	genome.wustl.edu	37	3	176769295	176769296	+	Frame_Shift_Ins	INS	-	-	TA	novel	unknown	TCGA-BH-A18R-01A-11D-A12B-09	TCGA-BH-A18R-11A-42D-A12B-09	-	-					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	3	176769295	176769296	-	TA	INS	TBL1XR1	NM_024665	human	genbank	57_37b	-1	reviewed	frame_shift_ins	c.424_423	p.A141fs	1.000:1.000	NULL	HMMSmart_LisH,HMMPfam_LisH,HMMSmart_WD40,superfamily_WD40_like,HMMPfam_WD40,PatternScan_WD_REPEATS_1	-	no_errors	
TOB1	10140	genome.wustl.edu	37	17	48941080	48941080	+	Missense_Mutation	SNP	G	G	T	novel	unknown	TCGA-BH-A18R-01A-11D-A12B-09	TCGA-BH-A18R-11A-42D-A12B-09	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	17	48941080	48941080	G	T	SNP	TOB1	NM_005749	human	genbank	57_37b	-1	reviewed	missense	c.299	p.S100Y	1.000	HMMSmart_SM00099,HMMPfam_BTG,PatternScan_BTG_2	HMMSmart_SM00099,HMMPfam_BTG,PatternScan_BTG_1,PatternScan_BTG_2	-	no_errors	
TOP	649159	genome.wustl.edu	37	16	33961669	33961669	+	RNA	SNP	G	T	T	novel	unknown	TCGA-BH-A18R-01A-11D-A12B-09	TCGA-BH-A18R-11A-42D-A12B-09	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	16	33961669	33961669	G	T	SNP	TOP	XR_041241	human	genbank	57_37b	-1	model	rna	NULL	NULL	0.003	-	-	-	no_errors	
USPL1	10208	genome.wustl.edu	37	13	31205227	31205227	+	Missense_Mutation	SNP	C	C	A	rs113846082	unknown	TCGA-BH-A18R-01A-11D-A12B-09	TCGA-BH-A18R-11A-42D-A12B-09	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	13	31205227	31205227	C	A	SNP	USPL1	NM_005800	human	genbank	57_37b	+1	validated	missense	c.484	p.P162T	0.003	NULL	NULL	-		
