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
ANKRD26P1	124149	genome.wustl.edu	37	16	46597935	46597935	+	Missense_Mutation	SNP	G	G	A	novel	unknown	TCGA-BH-A0DO-01B-11D-A12B-09	TCGA-BH-A0DO-11A-22D-A12B-09	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	16	46597935	46597935	G	A	SNP	ANKRD26P1	ENST00000329373	human	ensembl	57_37b	-1	known	missense	c.368	p.A123V	0.816	superfamily_Ankyrin repeat,HMMSmart_SM00248,HMMPfam_Ank	superfamily_Ankyrin repeat,HMMSmart_SM00248,HMMPfam_Ank	-	no_errors
CACNA1D	776	genome.wustl.edu	37	3	53779689	53779689	+	Silent	SNP	C	C	T	novel	unknown	TCGA-BH-A0DO-01B-11D-A12B-09	TCGA-BH-A0DO-11A-22D-A12B-09	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	3	53779689	53779689	C	T	SNP	CACNA1D	NM_000720	human	genbank	57_37b	+1	validated	silent	c.3105	p.I1035	0.890	superfamily_SSF81324,HMMPfam_Ion_trans	superfamily_SSF81324,HMMPfam_Ion_trans,HMMPfam_Ca_chan_IQ	-	no_errors
CSMD1	64478	genome.wustl.edu	37	8	4494943	4494943	+	Missense_Mutation	SNP	G	G	A	novel	unknown	TCGA-BH-A0DO-01B-11D-A12B-09	TCGA-BH-A0DO-11A-22D-A12B-09	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	8	4494943	4494943	G	A	SNP	CSMD1	NM_033225	human	genbank	57_37b	-1	validated	missense	c.223	p.H75Y	0.932	superfamily_Spermadhesin CUB domain,HMMPfam_CUB,HMMSmart_SM00042	superfamily_Spermadhesin CUB domain,HMMPfam_CUB,HMMSmart_SM00042,superfamily_Complement control module/SCR domain,HMMPfam_Sushi,HMMSmart_SM00032,PatternScan_GLYCOSYL_HYDROL_F10	-	no_errors
EGR3	1960	genome.wustl.edu	37	8	22548686	22548693	+	Frame_Shift_Del	DEL	GAGTAGAG	GAGTAGAG	-	novel	unknown	TCGA-BH-A0DO-01B-11D-A12B-09	TCGA-BH-A0DO-11A-22D-A12B-09	GAGTAGAG	GAGTAGAG					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	8	22548686	22548693	GAGTAGAG	-	DEL	EGR3	NM_004430	human	genbank	57_37b	-1	reviewed	frame_shift_del	c.464_457	p.L153fs	0.998:1.000:1.000:1.000:1.000:0.992:1.000:1.000	NULL	superfamily_C2H2 and C2HC zinc fingers,HMMPfam_zf-C2H2,HMMSmart_SM00355,PatternScan_ZINC_FINGER_C2H2_1	(deletion:cds_exon[22547986,22548995])	no_errors
ENSG00000244761	0	genome.wustl.edu	37	7	26903661	26903661	+	RNA	SNP	C	C	T	rs73069539	byCluster;byFrequency;by1000genomes	TCGA-BH-A0DO-01B-11D-A12B-09	TCGA-BH-A0DO-11A-22D-A12B-09	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	7	26903661	26903661	C	T	SNP	ENSG00000244761	ENST00000500299	human	ensembl	57_37b	+1	known	rna	NULL	NULL	0.000	-	-	-	
ENSG00000247673	0	genome.wustl.edu	37	22	32080244	32080244	+	RNA	SNP	G	G	A	rs5998086	byCluster;byFrequency;by2Hit2Allele;by1000genomes	TCGA-BH-A0DO-01B-11D-A12B-09	TCGA-BH-A0DO-11A-22D-A12B-09	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	22	32080244	32080244	G	A	SNP	ENSG00000247673	ENST00000501999	human	ensembl	57_37b	+1	novel	rna	NULL	NULL	0.604	-	-	-	
FMO3	2328	genome.wustl.edu	37	1	171077313	171077313	+	Missense_Mutation	SNP	G	G	T	rs116425430	by1000genomes	TCGA-BH-A0DO-01B-11D-A12B-09	TCGA-BH-A0DO-11A-22D-A12B-09	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	1	171077313	171077313	G	T	SNP	FMO3	NM_001002294	human	genbank	57_37b	+1	reviewed	missense	c.578	p.G193V	1.000	superfamily_FAD/NAD(P)-binding domain,HMMPfam_FMO-like	superfamily_FAD/NAD(P)-binding domain,HMMPfam_FMO-like	-	
HIVEP2	3097	genome.wustl.edu	37	6	143074830	143074830	+	Frame_Shift_Del	DEL	G	G	-	novel	unknown	TCGA-BH-A0DO-01B-11D-A12B-09	TCGA-BH-A0DO-11A-22D-A12B-09	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	6	143074830	143074830	G	-	DEL	HIVEP2	NM_006734	human	genbank	57_37b	-1	provisional	frame_shift_del	c.6755	p.T2252fs	0.878	NULL	HMMPfam_zf-C2H2,HMMSmart_ZnF_C2H2,PatternScan_ZINC_FINGER_C2H2_1,superfamily_SSF57667	(deletion:cds_exon[143074244,143075068])	no_errors
LOC100144603	0	genome.wustl.edu	37	22	51022117	51022117	+	RNA	SNP	C	C	A	rs963980	byCluster;byHapMap;by1000genomes	TCGA-BH-A0DO-01B-11D-A12B-09	TCGA-BH-A0DO-11A-22D-A12B-09	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	22	51022117	51022117	C	A	SNP	LOC100144603	NR_021492	human	genbank	57_37b	+1	validated	rna	NULL	NULL	0.000	-	-	-	
LOC646160	646160	genome.wustl.edu	37	6	28601301	28601301	+	Silent	SNP	G	G	T	rs116136614	byCluster;by1000genomes	TCGA-BH-A0DO-01B-11D-A12B-09	TCGA-BH-A0DO-11A-22D-A12B-09	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	6	28601301	28601301	G	T	SNP	LOC646160	XM_929122	human	genbank	57_37b	-1	model	silent	c.72	p.P24	0.007	NULL	superfamily_Mitochondrial cytochrome c oxidase subunit VIIIb (aka IX)	-	
LOC650794	650794	genome.wustl.edu	37	13	21861866	21861866	+	Missense_Mutation	SNP	G	G	A	rs55973830	byCluster;byFrequency;by1000genomes	TCGA-BH-A0DO-01B-11D-A12B-09	TCGA-BH-A0DO-11A-22D-A12B-09	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	13	21861866	21861866	G	A	SNP	LOC650794	XM_370711	human	genbank	57_37b	+1	model	missense	c.265	p.E89K	0.003	NULL	NULL	-	
MAPK12	6300	genome.wustl.edu	37	22	50699668	50699668	+	Silent	SNP	A	A	G	rs2272857	byCluster;byFrequency;by2Hit2Allele;by1000genomes	TCGA-BH-A0DO-01B-11D-A12B-09	TCGA-BH-A0DO-11A-22D-A12B-09	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	22	50699668	50699668	A	G	SNP	MAPK12	NM_002969	human	genbank	57_37b	-1	reviewed	silent	c.183	p.P61	0.996	superfamily_Kinase_like,HMMSmart_S_TKc,HMMPfam_Pkinase	PatternScan_PROTEIN_KINASE_ST,superfamily_Kinase_like,HMMSmart_S_TKc,HMMPfam_Pkinase,PatternScan_PROTEIN_KINASE_ATP,PatternScan_MAPK	-	
MAPK8IP3	23162	genome.wustl.edu	37	16	1793389	1793389	+	Missense_Mutation	SNP	G	G	C	novel	unknown	TCGA-BH-A0DO-01B-11D-A12B-09	TCGA-BH-A0DO-11A-22D-A12B-09	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	16	1793389	1793389	G	C	SNP	MAPK8IP3	NM_015133	human	genbank	57_37b	+1	reviewed	missense	c.656	p.R219P	1.000	NULL	HMMPfam_Jnk-SapK_ap_N,superfamily_WD40 repeat-like	-	no_errors
MMP12	4321	genome.wustl.edu	37	11	102743804	102743804	+	Frame_Shift_Del	DEL	T	T	-	novel	unknown	TCGA-BH-A0DO-01B-11D-A12B-09	TCGA-BH-A0DO-11A-22D-A12B-09	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	11	102743804	102743804	T	-	DEL	MMP12	ENST00000326227	human	ensembl	57_37b	-1	known	frame_shift_del	c.141	p.K47fs	0.000	HMMPfam_PG_binding_1,superfamily_PGBD-like	"HMMPfam_PG_binding_1,superfamily_PGBD-like,PatternScan_CYSTEINE_SWITCH,HMMSmart_SM00235,superfamily_Metalloproteases (""zincins"") catalytic domain,HMMPfam_Peptidase_M10,superfamily_Hemopexin-like domain,HMMPfam_Hemopexin,HMMSmart_SM00120,PatternScan_HEMOPEXIN"	(deletion:cds_exon[102743595,102743842])	no_errors
MX1	4599	genome.wustl.edu	37	21	42823096	42823096	+	Missense_Mutation	SNP	A	A	G	novel	unknown	TCGA-BH-A0DO-01B-11D-A12B-09	TCGA-BH-A0DO-11A-22D-A12B-09	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	21	42823096	42823096	A	G	SNP	MX1	NM_001144925	human	genbank	57_37b	+1	reviewed	missense	c.1435	p.M479V	0.271	HMMPfam_Dynamin_M	HMMSmart_DYNc,superfamily_SSF52540,HMMPfam_Dynamin_N,PatternScan_DYNAMIN,HMMPfam_Dynamin_M,HMMPfam_GED,HMMSmart_GED	-	no_errors
OR6A2	8590	genome.wustl.edu	37	11	6816047	6816047	+	Missense_Mutation	SNP	C	C	T	novel	unknown	TCGA-BH-A0DO-01B-11D-A12B-09	TCGA-BH-A0DO-11A-22D-A12B-09	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	11	6816047	6816047	C	T	SNP	OR6A2	NM_003696	human	genbank	57_37b	-1	provisional	missense	c.893	p.R298H	0.809	superfamily_SSF81321	superfamily_SSF81321,HMMPfam_7tm_1,PatternScan_G_PROTEIN_RECEP_F1_1	-	no_errors
PASK	23178	genome.wustl.edu	37	2	242051776	242051776	+	Missense_Mutation	SNP	C	C	T	novel	unknown	TCGA-BH-A0DO-01B-11D-A12B-09	TCGA-BH-A0DO-11A-22D-A12B-09	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	2	242051776	242051776	C	T	SNP	PASK	NM_015148	human	genbank	57_37b	-1	validated	missense	c.3412	p.E1138K	0.956	superfamily_Protein kinase-like (PK-like),HMMSmart_SM00219,HMMSmart_SM00220,HMMPfam_Pkinase	HMMSmart_SM00091,HMMPfam_PAS,superfamily_PYP-like sensor domain (PAS domain),superfamily_Protein kinase-like (PK-like),HMMSmart_SM00219,HMMSmart_SM00220,HMMPfam_Pkinase,PatternScan_PROTEIN_KINASE_ATP,PatternScan_PROTEIN_KINASE_ST	-	no_errors
PIK3CA	5290	genome.wustl.edu	37	3	178952074	178952074	+	Missense_Mutation	SNP	G	G	A	novel	unknown	TCGA-BH-A0DO-01B-11D-A12B-09	TCGA-BH-A0DO-11A-22D-A12B-09	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	3	178952074	178952074	G	A	SNP	PIK3CA	NM_006218	human	genbank	57_37b	+1	reviewed	missense	c.3129	p.M1043I	1.000	superfamily_Kinase_like,HMMSmart_PI3Kc	HMMPfam_PI3K_p85B,HMMSmart_PI3K_p85B,superfamily_SSF54236,HMMPfam_PI3K_rbd,HMMSmart_PI3K_rbd,HMMSmart_PI3K_C2,superfamily_C2_CaLB,HMMSmart_C2,HMMPfam_PI3K_C2,superfamily_ARM-type_fold,HMMSmart_PI3Ka,HMMPfam_PI3Ka,superfamily_Kinase_like,HMMPfam_PI3_PI4_kinase,HMMSmart_PI3Kc,PatternScan_PI3_4_KINASE_1,PatternScan_PI3_4_KINASE_2	-	no_errors
PTCHD1	139411	genome.wustl.edu	37	X	23411483	23411483	+	Silent	SNP	C	C	T	novel	unknown	TCGA-BH-A0DO-01B-11D-A12B-09	TCGA-BH-A0DO-11A-22D-A12B-09	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	X	23411483	23411483	C	T	SNP	PTCHD1	NM_173495	human	genbank	57_37b	+1	validated	silent	c.1848	p.S616	1.000	HMMPfam_Patched	HMMPfam_Patched,superfamily_Multidrug efflux transporter AcrB transmembrane domain	-	no_errors
SETX	23064	genome.wustl.edu	37	9	135153491	135153491	+	Missense_Mutation	SNP	T	T	G	novel	unknown	TCGA-BH-A0DO-01B-11D-A12B-09	TCGA-BH-A0DO-11A-22D-A12B-09	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	9	135153491	135153491	T	G	SNP	SETX	NM_015046	human	genbank	57_37b	-1	reviewed	missense	c.6808	p.N2270H	0.093	superfamily_P-loop containing nucleoside triphosphate hydrolases	superfamily_P-loop containing nucleoside triphosphate hydrolases	-	no_errors
SFRS16	11129	genome.wustl.edu	37	19	45567648	45567648	+	Missense_Mutation	SNP	C	C	G	novel	unknown	TCGA-BH-A0DO-01B-11D-A12B-09	TCGA-BH-A0DO-11A-22D-A12B-09	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	19	45567648	45567648	C	G	SNP	SFRS16	NM_007056	human	genbank	57_37b	+1	validated	missense	c.1169	p.S390C	1.000	NULL	HMMPfam_DRY_EERY	-	no_errors
SIGLEC6	946	genome.wustl.edu	37	19	52033695	52033695	+	Silent	SNP	G	G	A	novel	unknown	TCGA-BH-A0DO-01B-11D-A12B-09	TCGA-BH-A0DO-11A-22D-A12B-09	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	19	52033695	52033695	G	A	SNP	SIGLEC6	NM_001245	human	genbank	57_37b	-1	validated	silent	c.750	p.S250	0.069	NULL	superfamily_Immunoglobulin,HMMPfam_V-set,HMMSmart_SM00409,HMMPfam_ig,HMMPfam_I-set,HMMSmart_SM00408,PatternScan_IG_MHC	-	no_errors
SLITRK1	114798	genome.wustl.edu	37	13	84454919	84454919	+	Missense_Mutation	SNP	C	C	T	novel	unknown	TCGA-BH-A0DO-01B-11D-A12B-09	TCGA-BH-A0DO-11A-22D-A12B-09	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	13	84454919	84454919	C	T	SNP	SLITRK1	NM_052910	human	genbank	57_37b	-1	reviewed	missense	c.724	p.E242K	1.000	superfamily_SSF52058,HMMSmart_LRRCT	superfamily_SSF52058,HMMSmart_LRR_TYP,HMMPfam_LRR_1,HMMSmart_LRRCT,HMMSmart_LRRNT	-	no_errors
STAM2	10254	genome.wustl.edu	37	2	152988657	152988657	+	Missense_Mutation	SNP	C	C	T	novel	unknown	TCGA-BH-A0DO-01B-11D-A12B-09	TCGA-BH-A0DO-11A-22D-A12B-09	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	2	152988657	152988657	C	T	SNP	STAM2	NM_005843	human	genbank	57_37b	-1	reviewed	missense	c.996	p.M332I	1.000	NULL	HMMPfam_VHS,superfamily_ENTH/VHS domain,HMMSmart_SM00288,HMMPfam_UIM,HMMSmart_SM00726,superfamily_SH3-domain,HMMPfam_SH3_1,HMMSmart_SM00326	-	no_errors
TCHH	7062	genome.wustl.edu	37	1	152079924	152079924	+	Silent	SNP	G	G	A	novel	unknown	TCGA-BH-A0DO-01B-11D-A12B-09	TCGA-BH-A0DO-11A-22D-A12B-09	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	1	152079924	152079924	G	A	SNP	TCHH	NM_007113	human	genbank	57_37b	-1	provisional	silent	c.5769	p.V1923	0.000	NULL	superfamily_SSF47473,HMMPfam_S_100,PatternScan_S100_CABP,PatternScan_EF_HAND_1	-	no_errors
WDR87	83889	genome.wustl.edu	37	19	38380122	38380122	+	Silent	SNP	G	G	A	novel	unknown	TCGA-BH-A0DO-01B-11D-A12B-09	TCGA-BH-A0DO-11A-22D-A12B-09	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	19	38380122	38380122	G	A	SNP	WDR87	NM_031951	human	genbank	57_37b	-1	provisional	silent	c.4072	p.L1358	0.000	superfamily_WD40 repeat-like,superfamily_ARM repeat	superfamily_WD40 repeat-like,HMMSmart_SM00320,HMMPfam_WD40,PatternScan_C_TYPE_LECTIN_1,superfamily_ARM repeat	-	no_errors
ZNF568	374900	genome.wustl.edu	37	19	37441513	37441513	+	Missense_Mutation	SNP	G	G	A	novel	unknown	TCGA-BH-A0DO-01B-11D-A12B-09	TCGA-BH-A0DO-11A-22D-A12B-09	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	19	37441513	37441513	G	A	SNP	ZNF568	NM_198539	human	genbank	57_37b	+1	validated	missense	c.1458	p.M486I	0.489	superfamily_C2H2 and C2HC zinc fingers,HMMPfam_zf-C2H2,HMMSmart_SM00355,PatternScan_ZINC_FINGER_C2H2_1	superfamily_KRAB domain (Kruppel-associated box Pfam 01352),HMMPfam_KRAB,HMMSmart_SM00349,superfamily_C2H2 and C2HC zinc fingers,HMMPfam_zf-C2H2,HMMSmart_SM00355,PatternScan_ZINC_FINGER_C2H2_1	-	no_errors
ZNF598	90850	genome.wustl.edu	37	16	2049640	2049640	+	Missense_Mutation	SNP	A	A	G	rs2286469	byCluster;byFrequency;by2Hit2Allele;by1000genomes	TCGA-BH-A0DO-01B-11D-A12B-09	TCGA-BH-A0DO-11A-22D-A12B-09	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	16	2049640	2049640	A	G	SNP	ZNF598	ENST00000431526	human	ensembl	57_37b	-1	known	missense	c.1910	p.M637T	0.000	NULL	superfamily_RING/U-box,HMMSmart_SM00355,PatternScan_ZINC_FINGER_C2H2_1	-	
