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
ARHGEF1	9138	genome.wustl.edu	37	19	42396193	42396193	+	Missense_Mutation	SNP	C	C	T	novel	unknown	TCGA-A2-A04Q-01A-21W-A050-09	TCGA-A2-A04Q-10A-01W-A055-09	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	19	42396193	42396193	C	T	SNP	ARHGEF1	NM_199002	human	genbank	57_37b	+1	reviewed	missense	c.368	p.A123V	1.000	HMMPfam_RGS-like,superfamily_Regulat_G_prot_signal_superfam	HMMPfam_RGS-like,superfamily_Regulat_G_prot_signal_superfam,superfamily_DH-domain,HMMPfam_RhoGEF,HMMSmart_RhoGEF,superfamily_SSF50729,HMMSmart_PH	-	no_errors
ARHGEF10L	55160	genome.wustl.edu	37	1	17964411	17964411	+	Silent	SNP	C	C	A	novel	unknown	TCGA-A2-A04Q-01A-21W-A050-09	TCGA-A2-A04Q-10A-01W-A055-09	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	1	17964411	17964411	C	A	SNP	ARHGEF10L	NM_018125	human	genbank	57_37b	+1	validated	silent	c.1956	p.L652	1.000	superfamily_PH domain-like	superfamily_DBL homology domain (DH-domain),HMMPfam_RhoGEF,HMMSmart_SM00325,superfamily_PH domain-like,superfamily_WD40 repeat-like	-	no_errors
ARID2	196528	genome.wustl.edu	37	12	46230605	46230605	+	Missense_Mutation	SNP	G	G	A	novel	unknown	TCGA-A2-A04Q-01A-21W-A050-09	TCGA-A2-A04Q-10A-01W-A055-09	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	12	46230605	46230605	G	A	SNP	ARID2	NM_152641	human	genbank	57_37b	+1	validated	missense	c.854	p.R285Q	1.000	NULL	"HMMPfam_ARID,superfamily_ARID-like,HMMSmart_SM00501,superfamily_""Winged helix"" DNA-binding domain,PatternScan_ZINC_FINGER_C2H2_1"	-	no_errors
CASP2	835	genome.wustl.edu	37	7	142985571	142985571	+	Missense_Mutation	SNP	C	C	T	novel	unknown	TCGA-A2-A04Q-01A-21W-A050-09	TCGA-A2-A04Q-10A-01W-A055-09	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	7	142985571	142985571	C	T	SNP	CASP2	NM_032982	human	genbank	57_37b	+1	reviewed	missense	c.23	p.S8F	0.000	NULL	HMMSmart_SM00114,superfamily_DEATH domain,HMMPfam_CARD,superfamily_Caspase-like,HMMSmart_SM00115,HMMPfam_Peptidase_C14,PatternScan_CASPASE_HIS,PatternScan_CASPASE_CYS	-	no_errors
CHAF1A	10036	genome.wustl.edu	37	19	4432011	4432011	+	Missense_Mutation	SNP	G	G	T	rs11556317	unknown	TCGA-A2-A04Q-01A-21W-A050-09	TCGA-A2-A04Q-10A-01W-A055-09	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	19	4432011	4432011	G	T	SNP	CHAF1A	NM_005483	human	genbank	57_37b	+1	validated	missense	c.2010	p.E670D	0.991	NULL	NULL	-	
CLSTN2	64084	genome.wustl.edu	37	3	140251267	140251267	+	Silent	SNP	C	C	T	novel	unknown	TCGA-A2-A04Q-01A-21W-A050-09	TCGA-A2-A04Q-10A-01W-A055-09	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	3	140251267	140251267	C	T	SNP	CLSTN2	NM_022131	human	genbank	57_37b	+1	validated	silent	c.1446	p.N482	0.984	superfamily_Concanavalin A-like lectins/glucanases	superfamily_Cadherin-like,HMMPfam_Cadherin,HMMSmart_SM00112,superfamily_Concanavalin A-like lectins/glucanases	-	no_errors
DNAH14	127602	genome.wustl.edu	37	1	225328430	225328431	+	Splice_Site	INS	-	-	AG	novel	unknown	TCGA-A2-A04Q-01A-21W-A050-09	TCGA-A2-A04Q-10A-01W-A055-09	-	-					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	1	225328430	225328431	-	AG	INS	DNAH14	NM_001373	human	genbank	57_37b	+1	validated	splice_site_ins	c.4167-3_4167-2	e26-2	0.008:0.010	-	-	-	no_errors
ENSG00000224435	0	genome.wustl.edu	37	22	16346045	16346045	+	Splice_Site	SNP	T	T	C	rs56234788	unknown	TCGA-A2-A04Q-01A-21W-A050-09	TCGA-A2-A04Q-10A-01W-A055-09	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	22	16346045	16346045	T	C	SNP	ENSG00000224435	ENST00000426025	human	ensembl	57_37b	+1	known	splice_site	c.NULL	NULL	0.998	-	-	-	
GPI	2821	genome.wustl.edu	37	19	34856187	34856188	+	Frame_Shift_Ins	INS	-	-	G	novel	unknown	TCGA-A2-A04Q-01A-21W-A050-09	TCGA-A2-A04Q-10A-01W-A055-09	-	-					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	19	34856187	34856188	-	G	INS	GPI	NM_000175	human	genbank	57_37b	+1	reviewed	frame_shift_ins	c.16_17	p.D7fs	0.460:0.410	superfamily_SSF53697	superfamily_SSF53697,HMMPfam_PGI,PatternScan_P_GLUCOSE_ISOMERASE_1,PatternScan_P_GLUCOSE_ISOMERASE_2	-	no_errors
HECW1	23072	genome.wustl.edu	37	7	43590145	43590145	+	Silent	SNP	C	C	T	novel	unknown	TCGA-A2-A04Q-01A-21W-A050-09	TCGA-A2-A04Q-10A-01W-A055-09	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	7	43590145	43590145	C	T	SNP	HECW1	NM_015052	human	genbank	57_37b	+1	validated	silent	c.4350	p.R1450	0.091	superfamily_HECT,HMMSmart_HECTc,HMMPfam_HECT	HMMSmart_C2,superfamily_C2_CaLB,HMMPfam_C2,superfamily_WW_Rsp5_WWP,HMMSmart_WW,HMMPfam_WW,PatternScan_WW_DOMAIN_1,superfamily_HECT,HMMSmart_HECTc,HMMPfam_HECT	-	no_errors
LOC100288073	0	genome.wustl.edu	37	4	165110534	165110534	+	RNA	SNP	T	T	C	rs2018210	byCluster;byFrequency;bySubmitter;by2Hit2Allele;by1000genomes	TCGA-A2-A04Q-01A-21W-A050-09	TCGA-A2-A04Q-10A-01W-A055-09	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	4	165110534	165110534	T	C	SNP	LOC100288073	XR_078312	human	genbank	57_37b	+1	model	rna	NULL	NULL	1.000	-	-	-	
LOC100293879	0	genome.wustl.edu	37	16	984113	984113	+	Silent	SNP	C	C	A	rs11248955	byCluster;by2Hit2Allele;byHapMap;by1000genomes	TCGA-A2-A04Q-01A-21W-A050-09	TCGA-A2-A04Q-10A-01W-A055-09	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	16	984113	984113	C	A	SNP	LOC100293879	XM_002344927	human	genbank	57_37b	+1	model	silent	c.459	p.P153	0.001	NULL	NULL	-	
LOC402198	0	genome.wustl.edu	37	5	14960628	14960628	+	Missense_Mutation	SNP	T	T	G	rs835112	byCluster;by2Hit2Allele;byHapMap;by1000genomes	TCGA-A2-A04Q-01A-21W-A050-09	TCGA-A2-A04Q-10A-01W-A055-09	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	5	14960628	14960628	T	G	SNP	LOC402198	XM_001716525	human	genbank	57_37b	+1	model	missense	c.727	p.F243V	1.000	NULL	superfamily_PurM C-terminal domain-like,HMMPfam_AIRS_C	-	
LOC729952	729952	genome.wustl.edu	37	1	164326453	164326453	+	RNA	SNP	G	G	C	rs10917988	byCluster;byFrequency;by2Hit2Allele;byHapMap;by1000genomes	TCGA-A2-A04Q-01A-21W-A050-09	TCGA-A2-A04Q-10A-01W-A055-09	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	1	164326453	164326453	G	C	SNP	LOC729952	XR_015724	human	genbank	57_37b	+1	model	rna	NULL	NULL	1.000	-	-	-	
MST1	4485	genome.wustl.edu	37	3	49723112	49723112	+	Frame_Shift_Del	DEL	T	T	-	novel	unknown	TCGA-A2-A04Q-01A-21W-A050-09	TCGA-A2-A04Q-10A-01W-A055-09	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	3	49723112	49723112	T	-	DEL	MST1	NM_020998	human	genbank	57_37b	-1	reviewed	frame_shift_del	c.1304	p.N435fs	1.000	superfamily_Kringle-like,HMMSmart_SM00130,HMMPfam_Kringle,PatternScan_KRINGLE_1	HMMPfam_PAN_1,superfamily_Hairpin loop containing domain-like,HMMSmart_SM00473,superfamily_Kringle-like,HMMSmart_SM00130,HMMPfam_Kringle,PatternScan_KRINGLE_1,superfamily_Trypsin-like serine proteases,HMMSmart_SM00020,HMMPfam_Trypsin	(deletion:cds_exon[49723029,49723165])	no_errors
NF1	4763	genome.wustl.edu	37	17	29548939	29548939	+	Nonsense_Mutation	SNP	G	G	A	novel	unknown	TCGA-A2-A04Q-01A-21W-A050-09	TCGA-A2-A04Q-10A-01W-A055-09	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	17	29548939	29548939	G	A	SNP	NF1	NM_001042492	human	genbank	57_37b	+1	reviewed	nonsense	c.1713	p.W571*	1.000	NULL	HMMSmart_SM00323,superfamily_GTPase activation domain GAP,HMMPfam_RasGAP,PatternScan_RAS_GTPASE_ACTIV_1,HMMSmart_SM00516	-	no_errors
SEC31B	25956	genome.wustl.edu	37	10	102247512	102247512	+	Missense_Mutation	SNP	C	C	T	novel	unknown	TCGA-A2-A04Q-01A-21W-A050-09	TCGA-A2-A04Q-10A-01W-A055-09	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	10	102247512	102247512	C	T	SNP	SEC31B	NM_015490	human	genbank	57_37b	-1	reviewed	missense	c.3401	p.R1134Q	0.989	NULL	superfamily_WD40 repeat-like,HMMSmart_SM00320,HMMPfam_WD40,PatternScan_WD_REPEATS_1	-	no_errors
SVEP1	79987	genome.wustl.edu	37	9	113191597	113191597	+	Missense_Mutation	SNP	G	G	T	rs76469101	byCluster;byFrequency;by1000genomes	TCGA-A2-A04Q-01A-21W-A050-09	TCGA-A2-A04Q-10A-01W-A055-09	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	9	113191597	113191597	G	T	SNP	SVEP1	NM_153366	human	genbank	57_37b	-1	validated	missense	c.5633	p.T1878N	0.002	superfamily_Complement control module/SCR domain,HMMPfam_Sushi,HMMSmart_SM00032	superfamily_vWA-like,HMMSmart_SM00327,HMMPfam_VWA,superfamily_Growth factor receptor domain,PatternScan_EGF_2,HMMPfam_GCC2_GCC3,superfamily_Complement control module/SCR domain,HMMPfam_Sushi,HMMSmart_SM00032,HMMPfam_HYR,superfamily_EGF/Laminin,HMMSmart_SM00179,HMMSmart_SM00181,HMMPfam_EGF,PatternScan_EGF_1,PatternScan_EGF_CA,PatternScan_ASX_HYDROXYL,HMMSmart_SM00159,superfamily_Concanavalin A-like lectins/glucanases,HMMPfam_Pentaxin,HMMPfam_EGF_CA,HMMPfam_EGF_2	-	
TEKT1	83659	genome.wustl.edu	37	17	6733605	6733605	+	Silent	SNP	T	T	G	novel	unknown	TCGA-A2-A04Q-01A-21W-A050-09	TCGA-A2-A04Q-10A-01W-A055-09	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	17	6733605	6733605	T	G	SNP	TEKT1	NM_053285	human	genbank	57_37b	-1	reviewed	silent	c.91	p.R31	0.728	HMMPfam_Tektin	HMMPfam_Tektin	-	no_errors
ZNF876P	0	genome.wustl.edu	37	4	247825	247825	+	RNA	SNP	G	G	A	rs10028482	byCluster;byFrequency;by2Hit2Allele;by1000genomes	TCGA-A2-A04Q-01A-21W-A050-09	TCGA-A2-A04Q-10A-01W-A055-09	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	4	247825	247825	G	A	SNP	ZNF876P	XR_079519	human	genbank	57_37b	+1	model	rna	NULL	NULL	0.778	-	-	-	
