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	
ADAMTS10	81794	genome.wustl.edu	37	19	8651269	8651269	+	Missense_Mutation	SNP	T	T	G	novel	unknown	TCGA-BH-A0B7-01A-12D-A10Y-09	TCGA-BH-A0B7-10A-01D-A110-09	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	19	8651269	8651269	T	G	SNP	ADAMTS10	NM_030957	human	genbank	57_37b	-1	reviewed	missense	c.2489	p.H830P	1.000	superfamily_TSP1,HMMSmart_TSP1,HMMPfam_TSP_1	PatternScan_DISINTEGRIN_1,HMMPfam_Pep_M12B_propep,superfamily_SSF55486,HMMPfam_Reprolysin,PatternScan_ZINC_PROTEASE,superfamily_TSP1,HMMSmart_TSP1,HMMPfam_TSP_1,HMMPfam_ADAM_spacer1,HMMPfam_PLAC	-	no_errors	
CALN1	83698	genome.wustl.edu	37	7	71743768	71743768	+	Missense_Mutation	SNP	G	G	A	novel	unknown	TCGA-BH-A0B7-01A-12D-A10Y-09	TCGA-BH-A0B7-10A-01D-A110-09	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	7	71743768	71743768	G	A	SNP	CALN1	ENST00000433253	human	ensembl	57_37b	-1	known	missense	c.151	p.R51C	0.609	NULL	NULL	-	no_errors	
CCRK	23552	genome.wustl.edu	37	9	90582257	90582257	+	Missense_Mutation	SNP	T	T	G	novel	unknown	TCGA-BH-A0B7-01A-12D-A10Y-09	TCGA-BH-A0B7-11A-34D-A10Y-09	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	9	90582257	90582257	T	G	SNP	CCRK	ENST00000286878	human	ensembl	57_37b	-1	known	missense	c.1096	p.T366P	0.000	NULL	superfamily_Protein kinase-like (PK-like),HMMSmart_SM00219,HMMSmart_SM00220,HMMPfam_Pkinase,PatternScan_PROTEIN_KINASE_ATP,PatternScan_PROTEIN_KINASE_ST	-	no_errors	
COL17A1	1308	genome.wustl.edu	37	10	105796340	105796340	+	Missense_Mutation	SNP	G	G	T	novel	unknown	TCGA-BH-A0B7-01A-12D-A10Y-09	TCGA-BH-A0B7-11A-34D-A10Y-09	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	10	105796340	105796340	G	T	SNP	COL17A1	NM_000494	human	genbank	57_37b	-1	reviewed	missense	c.3328	p.P1110T	0.214	NULL	HMMPfam_Collagen	-	no_errors	
DSPP	1834	genome.wustl.edu	37	4	88536014	88536031	+	In_Frame_Del	DEL	AGCAGTGACAGCAGCAAC	AGCAGTGACAGCAGCAAC	-	novel	unknown	TCGA-BH-A0B7-01A-12D-A10Y-09	TCGA-BH-A0B7-10A-01D-A110-09	AGCAGTGACAGCAGCAAC	AGCAGTGACAGCAGCAAC					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	4	88536014	88536031	AGCAGTGACAGCAGCAAC	-	DEL	DSPP	NM_014208	human	genbank	57_37b	+1	reviewed	in_frame_del	c.2200_2217	p.SSNSSD737in_frame_del	0.982:0.984:0.971:0.984:0.992:0.996:0.999:0.998:0.991:0.966:0.949:0.901:0.734:0.619:0.291:0.240:0.238:0.228	NULL	NULL	(deletion:cds_exon[88534937,88537720])	no_errors	
EGFR	1956	genome.wustl.edu	37	7	55270367	55270367	+	Missense_Mutation	SNP	A	A	C	novel	unknown	TCGA-BH-A0B7-01A-12D-A10Y-09	TCGA-BH-A0B7-11A-34D-A10Y-09	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	7	55270367	55270367	A	C	SNP	EGFR	ENST00000455089	human	ensembl	57_37b	+1	known	missense	c.3185	p.H1062P	0.000	NULL	superfamily_SSF52058,HMMPfam_Recep_L_domain,HMMPfam_Furin-like,superfamily_Grow_fac_recept,HMMSmart_FU,superfamily_Kinase_like,HMMPfam_Pkinase_Tyr,HMMSmart_TyrKc,PatternScan_PROTEIN_KINASE_ATP,PatternScan_PROTEIN_KINASE_TYR	-	no_errors	
ENSG00000202205	0	genome.wustl.edu	37	17	27772318	27772318	+	RNA	SNP	G	G	A	rs12452156	byCluster;byFrequency;by2Hit2Allele;byHapMap;by1000genomes	TCGA-BH-A0B7-01A-12D-A10Y-09	TCGA-BH-A0B7-11A-34D-A10Y-09	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	17	27772318	27772318	G	A	SNP	ENSG00000202205	ENST00000365335	human	ensembl	57_37b	-1	novel	rna	NULL	NULL	0.061	-	-	-		
ENSG00000247757	0	genome.wustl.edu	37	17	79246270	79246270	+	RNA	SNP	G	G	C	novel	unknown	TCGA-BH-A0B7-01A-12D-A10Y-09	TCGA-BH-A0B7-10A-01D-A110-09	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	17	79246270	79246270	G	C	SNP	ENSG00000247757	ENST00000501157	human	ensembl	57_37b	+1	novel	rna	NULL	NULL	0.000	-	-	-	no_errors	
GSN	2934	genome.wustl.edu	37	9	124062270	124062270	+	Missense_Mutation	SNP	T	T	G	novel	unknown	TCGA-BH-A0B7-01A-12D-A10Y-09	TCGA-BH-A0B7-11A-34D-A10Y-09	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	9	124062270	124062270	T	G	SNP	GSN	NM_000177	human	genbank	57_37b	+1	reviewed	missense	c.131	p.V44G	0.000	NULL	superfamily_Actin depolymerizing proteins,HMMSmart_SM00262,HMMPfam_Gelsolin	-	no_errors	
HRNR	388697	genome.wustl.edu	37	1	152191571	152191571	+	Missense_Mutation	SNP	C	C	G	novel	unknown	TCGA-BH-A0B7-01A-12D-A10Y-09	TCGA-BH-A0B7-10A-01D-A110-09	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	1	152191571	152191571	C	G	SNP	HRNR	NM_001009931	human	genbank	57_37b	-1	validated	missense	c.2534	p.G845A	0.000	NULL	superfamily_SSF47473,HMMPfam_S_100,PatternScan_S100_CABP,PatternScan_EF_HAND_1,HMMPfam_SVS_QK	-	no_errors	
IGSF10	285313	genome.wustl.edu	37	3	151161292	151161292	+	Missense_Mutation	SNP	G	G	A	novel	unknown	TCGA-BH-A0B7-01A-12D-A10Y-09	TCGA-BH-A0B7-10A-01D-A110-09	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	3	151161292	151161292	G	A	SNP	IGSF10	NM_178822	human	genbank	57_37b	-1	provisional	missense	c.5443	p.R1815C	0.999	superfamily_Immunoglobulin,HMMPfam_I-set,HMMSmart_SM00409,HMMSmart_SM00408,HMMSmart_SM00406	HMMPfam_LRRNT,HMMSmart_SM00013,superfamily_L domain-like,HMMSmart_SM00369,HMMPfam_LRR_1,HMMSmart_SM00082,HMMPfam_V-set,superfamily_Immunoglobulin,HMMSmart_SM00409,HMMSmart_SM00408,HMMSmart_SM00406,HMMPfam_I-set,PatternScan_AA_TRNA_LIGASE_I,HMMPfam_ig	-	no_errors	
LOC100287357	0	genome.wustl.edu	37	15	21010225	21010225	+	RNA	SNP	A	A	G	rs11248646	byCluster;byFrequency;by2Hit2Allele;byHapMap	TCGA-BH-A0B7-01A-12D-A10Y-09	TCGA-BH-A0B7-11A-34D-A10Y-09	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	15	21010225	21010225	A	G	SNP	LOC100287357	XR_078487	human	genbank	57_37b	-1	model	rna	NULL	NULL	0.697	-	-	-		
MUC4	4585	genome.wustl.edu	37	3	195506172	195506172	+	Missense_Mutation	SNP	G	G	C	novel	unknown	TCGA-BH-A0B7-01A-12D-A10Y-09	TCGA-BH-A0B7-10A-01D-A110-09	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	3	195506172	195506172	G	C	SNP	MUC4	NM_018406	human	genbank	57_37b	-1	reviewed	missense	c.11895	p.H3965Q	0.136	NULL	HMMPfam_VWD,HMMSmart_SM00216,HMMPfam_NIDO,HMMSmart_SM00539,HMMPfam_AMOP,HMMSmart_SM00723,PatternScan_SUGAR_TRANSPORT_2,HMMSmart_SM00181,PatternScan_EGF_1,superfamily_EGF/Laminin	-	no_errors	
NKAP	79576	genome.wustl.edu	37	X	119077341	119077341	+	Silent	SNP	C	C	T	novel	unknown	TCGA-BH-A0B7-01A-12D-A10Y-09	TCGA-BH-A0B7-11A-34D-A10Y-09	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	X	119077341	119077341	C	T	SNP	NKAP	NM_024528	human	genbank	57_37b	-1	validated	silent	c.228	p.S76	0.002	NULL	HMMPfam_DUF926	-	no_errors	
PCDHGA12	26025	genome.wustl.edu	37	5	140810665	140810665	+	Missense_Mutation	SNP	A	A	C	novel	unknown	TCGA-BH-A0B7-01A-12D-A10Y-09	TCGA-BH-A0B7-10A-01D-A110-09	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	5	140810665	140810665	A	C	SNP	PCDHGA12	NM_003735	human	genbank	57_37b	+1	reviewed	missense	c.339	p.K113N	0.910	superfamily_Cadherin-like,HMMSmart_SM00112	superfamily_Cadherin-like,HMMPfam_Cadherin_2,HMMSmart_SM00112,PatternScan_CADHERIN_1,HMMPfam_Cadherin	-	no_errors	
R3HDML	140902	genome.wustl.edu	37	20	42973935	42973935	+	Silent	SNP	T	T	C	rs11697359	byCluster;byFrequency;by2Hit2Allele;byHapMap;by1000genomes	TCGA-BH-A0B7-01A-12D-A10Y-09	TCGA-BH-A0B7-10A-01D-A110-09	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	20	42973935	42973935	T	C	SNP	R3HDML	NM_178491	human	genbank	57_37b	+1	provisional	silent	c.546	p.C182	0.988	superfamily_SCP-like_extracellular,HMMSmart_SCP,HMMPfam_SCP	PatternScan_CRISP_1,PatternScan_CRISP_2,superfamily_SCP-like_extracellular,HMMSmart_SCP,HMMPfam_SCP	-		
ROR1	4919	genome.wustl.edu	37	1	64624790	64624790	+	Missense_Mutation	SNP	C	C	T	novel	unknown	TCGA-BH-A0B7-01A-12D-A10Y-09	TCGA-BH-A0B7-10A-01D-A110-09	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	1	64624790	64624790	C	T	SNP	ROR1	NM_005012	human	genbank	57_37b	+1	validated	missense	c.1301	p.S434L	1.000	NULL	superfamily_Immunoglobulin,HMMPfam_I-set,HMMSmart_SM00409,HMMSmart_SM00408,HMMPfam_Fz,superfamily_Kringle-like,HMMSmart_SM00130,HMMPfam_Kringle,PatternScan_KRINGLE_1,superfamily_Protein kinase-like (PK-like),HMMPfam_Pkinase_Tyr,HMMSmart_SM00219,HMMSmart_SM00220,PatternScan_PROTEIN_KINASE_TYR	-	no_errors	
SACS	26278	genome.wustl.edu	37	13	23910597	23910597	+	Missense_Mutation	SNP	C	C	G	novel	unknown	TCGA-BH-A0B7-01A-12D-A10Y-09	TCGA-BH-A0B7-10A-01D-A110-09	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	13	23910597	23910597	C	G	SNP	SACS	NM_014363	human	genbank	57_37b	-1	reviewed	missense	c.7418	p.W2473S	1.000	NULL	superfamily_Ubiquitin-like,HMMPfam_ubiquitin,superfamily_ATPase domain of HSP90 chaperone/DNA topoisomerase II/histidine kinase,superfamily_Chaperone J-domain,HMMPfam_HEPN,superfamily_Nucleotidyltransferase substrate binding subunit/domain,HMMSmart_SM00748	-	no_errors	
TCERG1	10915	genome.wustl.edu	37	5	145838674	145838674	+	Silent	SNP	A	A	G	rs111879925	unknown	TCGA-BH-A0B7-01A-12D-A10Y-09	TCGA-BH-A0B7-10A-01D-A110-09	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	5	145838674	145838674	A	G	SNP	TCERG1	NM_006706	human	genbank	57_37b	+1	reviewed	silent	c.666	p.Q222	0.700	NULL	superfamily_WW domain,HMMSmart_SM00456,HMMPfam_WW,PatternScan_WW_DOMAIN_1,superfamily_FF domain,HMMSmart_SM00441,HMMPfam_FF	-		
TCF4	6925	genome.wustl.edu	37	18	52928746	52928746	+	Missense_Mutation	SNP	G	G	A	novel	unknown	TCGA-BH-A0B7-01A-12D-A10Y-09	TCGA-BH-A0B7-10A-01D-A110-09	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	18	52928746	52928746	G	A	SNP	TCF4	NM_001083962	human	genbank	57_37b	-1	reviewed	missense	c.941	p.A314V	1.000	NULL	superfamily_HLH_basic,HMMPfam_HLH,HMMSmart_HLH	-	no_errors	
TIAM1	7074	genome.wustl.edu	37	21	32617864	32617864	+	Silent	SNP	G	G	A	novel	unknown	TCGA-BH-A0B7-01A-12D-A10Y-09	TCGA-BH-A0B7-10A-01D-A110-09	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	21	32617864	32617864	G	A	SNP	TIAM1	NM_003253	human	genbank	57_37b	-1	validated	silent	c.1524	p.H508	1.000	superfamily_SSF50729,HMMPfam_PH,HMMSmart_PH	superfamily_SSF50729,HMMPfam_PH,HMMSmart_PH,HMMPfam_RBD,HMMSmart_RBD,superfamily_PDZ,HMMPfam_PDZ,HMMSmart_PDZ,superfamily_DH-domain,HMMPfam_RhoGEF,HMMSmart_RhoGEF,PatternScan_DH_1	-	no_errors	
TMEM161A	54929	genome.wustl.edu	37	19	19232150	19232150	+	Missense_Mutation	SNP	T	T	G	novel	unknown	TCGA-BH-A0B7-01A-12D-A10Y-09	TCGA-BH-A0B7-11A-34D-A10Y-09	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	19	19232150	19232150	T	G	SNP	TMEM161A	NM_017814	human	genbank	57_37b	-1	provisional	missense	c.881	p.H294P	0.566	HMMPfam_Tmemb_161AB	HMMPfam_Tmemb_161AB	-	no_errors	
TP53	7157	genome.wustl.edu	37	17	7578290	7578290	+	Splice_Site	SNP	C	C	T	novel	unknown	TCGA-BH-A0B7-01A-12D-A10Y-09	TCGA-BH-A0B7-10A-01D-A110-09	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	17	7578290	7578290	C	T	SNP	TP53	NM_000546	human	genbank	57_37b	-1	reviewed	splice_site	c.560-1	e5-1	1.000	-	-	-	no_errors	
TPST1	8460	genome.wustl.edu	37	7	65705728	65705728	+	Nonsense_Mutation	SNP	C	C	T	novel	unknown	TCGA-BH-A0B7-01A-12D-A10Y-09	TCGA-BH-A0B7-10A-01D-A110-09	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	7	65705728	65705728	C	T	SNP	TPST1	NM_003596	human	genbank	57_37b	+1	validated	nonsense	c.316	p.R106*	1.000	superfamily_P-loop containing nucleoside triphosphate hydrolases	superfamily_P-loop containing nucleoside triphosphate hydrolases	-	no_errors	
TPST1	8460	genome.wustl.edu	37	7	65705728	65705728	+	Nonsense_Mutation	SNP	C	C	T	novel	unknown	TCGA-BH-A0B7-01A-12D-A10Y-09	TCGA-BH-A0B7-11A-34D-A10Y-09	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	7	65705728	65705728	C	T	SNP	TPST1	NM_003596	human	genbank	57_37b	+1	validated	nonsense	c.316	p.R106*	1.000	superfamily_P-loop containing nucleoside triphosphate hydrolases	superfamily_P-loop containing nucleoside triphosphate hydrolases	-	no_errors	
VPS53	55275	genome.wustl.edu	37	17	505056	505056	+	Silent	SNP	C	C	T	novel	unknown	TCGA-BH-A0B7-01A-12D-A10Y-09	TCGA-BH-A0B7-10A-01D-A110-09	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	17	505056	505056	C	T	SNP	VPS53	NM_001128159	human	genbank	57_37b	-1	reviewed	silent	c.1197	p.T399	0.005	HMMPfam_Vps53_N	HMMPfam_Vps53_N	-	no_errors	
WNT7A	7476	genome.wustl.edu	37	3	13860453	13860453	+	Nonsense_Mutation	SNP	G	G	T	novel	unknown	TCGA-BH-A0B7-01A-12D-A10Y-09	TCGA-BH-A0B7-11A-34D-A10Y-09	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	3	13860453	13860453	G	T	SNP	WNT7A	NM_004625	human	genbank	57_37b	-1	reviewed	nonsense	c.1038	p.Y346*	1.000	HMMPfam_wnt,HMMSmart_SM00097	HMMPfam_wnt,HMMSmart_SM00097,PatternScan_WNT1	-	no_errors	
