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
ANKRD2	26287	genome.wustl.edu	37	10	99337563	99337563	+	Nonsense_Mutation	SNP	C	C	T	novel	unknown	TCGA-A2-A0T7-01A-21D-A099-09	TCGA-A2-A0T7-10A-01D-A099-09	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	10	99337563	99337563	C	T	SNP	ANKRD2	NM_020349	human	genbank	57_37b	+1	validated	nonsense	c.175	p.R59*	0.160	NULL	superfamily_Ankyrin repeat,HMMSmart_SM00248,HMMPfam_Ank	-	no_errors
ATM	472	genome.wustl.edu	37	11	108236203	108236203	+	Nonsense_Mutation	SNP	C	C	T	rs121434219	unknown	TCGA-A2-A0T7-01A-21D-A099-09	TCGA-A2-A0T7-10A-01D-A099-09	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	11	108236203	108236203	C	T	SNP	ATM	NM_000051	human	genbank	57_37b	+1	reviewed	nonsense	c.9139	p.R3047*	1.000	HMMPfam_FATC	superfamily_ARM repeat,HMMPfam_FAT,superfamily_Protein kinase-like (PK-like),HMMPfam_PI3_PI4_kinase,HMMSmart_SM00146,PatternScan_PI3_4_KINASE_1,PatternScan_PI3_4_KINASE_2,HMMPfam_FATC	-	
ATPBD4	89978	genome.wustl.edu	37	15	35814394	35814394	+	Missense_Mutation	SNP	G	G	A	novel	unknown	TCGA-A2-A0T7-01A-21D-A099-09	TCGA-A2-A0T7-10A-01D-A099-09	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	15	35814394	35814394	G	A	SNP	ATPBD4	NM_001141972	human	genbank	57_37b	-1	validated	missense	c.398	p.A133V	1.000	NULL	HMMPfam_ATP_bind_4,superfamily_SSF52402	-	no_errors
C14orf145	145508	genome.wustl.edu	37	14	81223281	81223282	+	Frame_Shift_Ins	INS	-	-	C	novel	unknown	TCGA-A2-A0T7-01A-21D-A099-09	TCGA-A2-A0T7-10A-01D-A099-09	-	-					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	14	81223281	81223282	-	C	INS	C14orf145	NM_152446	human	genbank	57_37b	-1	validated	frame_shift_ins	c.2568_2567	p.P857fs	0.512:0.495	NULL	NULL	-	no_errors
CBX2	84733	genome.wustl.edu	37	17	77758484	77758484	+	Silent	SNP	G	G	A	rs3751956	byCluster;byFrequency;by2Hit2Allele;by1000genomes	TCGA-A2-A0T7-01A-21D-A099-09	TCGA-A2-A0T7-10A-01D-A099-09	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	17	77758484	77758484	G	A	SNP	CBX2	NM_005189	human	genbank	57_37b	+1	reviewed	silent	c.1242	p.L414	0.305	NULL	superfamily_Chromo domain-like,HMMSmart_SM00298,HMMPfam_Chromo,PatternScan_CHROMO_1	-	
CCDC146	57639	genome.wustl.edu	37	7	76889257	76889268	+	Splice_Site	DEL	GTGTGTGTGTGT	GTGTGTGTGTGT	-	novel	unknown	TCGA-A2-A0T7-01A-21D-A099-09	TCGA-A2-A0T7-10A-01D-A099-09	GTGTGTGTGTGT	GTGTGTGTGTGT					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	7	76889257	76889268	GTGTGTGTGTGT	-	DEL	CCDC146	ENST00000415740	human	ensembl	57_37b	+1	known	splice_site_del	c.1+1_12	e0+1	0.002:0.003:0.004:0.005:0.005:0.005:0.001:0.000:0.000:0.000:0.000:0.000	-	-	(deletion:intron[76889257,76889284])	no_errors
CD164	8763	genome.wustl.edu	37	6	109703447	109703448	+	In_Frame_Ins	INS	-	-	GCCGAG	novel	unknown	TCGA-A2-A0T7-01A-21D-A099-09	TCGA-A2-A0T7-10A-01D-A099-09	-	-					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	6	109703447	109703448	-	GCCGAG	INS	CD164	NM_006016	human	genbank	57_37b	-1	validated	in_frame_ins	c.135_134	p.46in_frame_insSA	0.002:0.000	HMMPfam_MGC-24	HMMPfam_MGC-24	-	no_errors
COL7A1	1294	genome.wustl.edu	37	3	48629346	48629346	+	Missense_Mutation	SNP	A	A	G	novel	unknown	TCGA-A2-A0T7-01A-21D-A099-09	TCGA-A2-A0T7-10A-01D-A099-09	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	3	48629346	48629346	A	G	SNP	COL7A1	NM_000094	human	genbank	57_37b	-1	reviewed	missense	c.1342	p.W448R	1.000	HMMSmart_SM00060,HMMPfam_fn3,superfamily_Fibronectin type III	superfamily_vWA-like,HMMSmart_SM00327,HMMPfam_VWA,HMMSmart_SM00060,HMMPfam_fn3,superfamily_Fibronectin type III,HMMPfam_Collagen,superfamily_BPTI-like,HMMPfam_Kunitz_BPTI,PatternScan_BPTI_KUNITZ_1	-	no_errors
CXorf65	158830	genome.wustl.edu	37	X	70324242	70324242	+	Missense_Mutation	SNP	A	A	G	novel	unknown	TCGA-A2-A0T7-01A-21D-A099-09	TCGA-A2-A0T7-10A-01D-A099-09	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	X	70324242	70324242	A	G	SNP	CXorf65	NM_001025265	human	genbank	57_37b	-1	validated	missense	c.332	p.I111T	0.731	NULL	NULL	-	no_errors
ENSG00000233391	0	genome.wustl.edu	37	19	28297126	28297129	+	RNA	DEL	TTCC	TTCC	-	novel	unknown	TCGA-A2-A0T7-01A-21D-A099-09	TCGA-A2-A0T7-10A-01D-A099-09	TTCC	TTCC					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	19	28297126	28297129	TTCC	-	DEL	ENSG00000233391	ENST00000444167	human	ensembl	57_37b	+1	known	rna	NULL	NULL	0.993:0.993:0.993:0.990	-	-	(deletion:rna[28296513,28297684])	no_errors
ENSG00000245549	0	genome.wustl.edu	37	1	16950261	16950261	+	RNA	SNP	G	G	C	rs11260845	byCluster;by2Hit2Allele	TCGA-A2-A0T7-01A-21D-A099-09	TCGA-A2-A0T7-10A-01D-A099-09	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	1	16950261	16950261	G	C	SNP	ENSG00000245549	ENST00000501442	human	ensembl	57_37b	+1	novel	rna	NULL	NULL	0.687	-	-	-	
FCGBP	8857	genome.wustl.edu	37	19	40373950	40373950	+	Missense_Mutation	SNP	G	G	T	rs3746010	byCluster	TCGA-A2-A0T7-01A-21D-A099-09	TCGA-A2-A0T7-10A-01D-A099-09	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	19	40373950	40373950	G	T	SNP	FCGBP	NM_003890	human	genbank	57_37b	-1	validated	missense	c.12128	p.T4043N	0.193	HMMSmart_VWC	HMMSmart_FOLN,HMMSmart_VWD,HMMPfam_VWD,HMMPfam_C8,superfamily_Cysrich_TIL,HMMPfam_TIL,HMMPfam_TIL_assoc,HMMSmart_VWC	-	
FMN2	56776	genome.wustl.edu	37	1	240492411	240492411	+	Missense_Mutation	SNP	G	G	C	novel	unknown	TCGA-A2-A0T7-01A-21D-A099-09	TCGA-A2-A0T7-10A-01D-A099-09	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	1	240492411	240492411	G	C	SNP	FMN2	NM_020066	human	genbank	57_37b	+1	validated	missense	c.4251	p.K1417N	1.000	HMMSmart_FH2,superfamily_FH2_actin_bd,HMMPfam_FH2	HMMSmart_FH2,HMMPfam_Drf_FH1,superfamily_FH2_actin_bd,HMMPfam_FH2	-	no_errors
GBP6	163351	genome.wustl.edu	37	1	89844123	89844123	+	Missense_Mutation	SNP	C	C	A	novel	unknown	TCGA-A2-A0T7-01A-21D-A099-09	TCGA-A2-A0T7-10A-01D-A099-09	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	1	89844123	89844123	C	A	SNP	GBP6	NM_198460	human	genbank	57_37b	+1	validated	missense	c.576	p.H192Q	0.000	superfamily_P-loop containing nucleoside triphosphate hydrolases,HMMPfam_GBP	superfamily_P-loop containing nucleoside triphosphate hydrolases,HMMPfam_GBP,HMMPfam_GBP_C,superfamily_Interferon-induced guanylate-binding protein 1 (GBP1) C-terminal domain	-	no_errors
GLIS2	84662	genome.wustl.edu	37	16	4387381	4387381	+	Silent	SNP	C	C	T	novel	unknown	TCGA-A2-A0T7-01A-21D-A099-09	TCGA-A2-A0T7-10A-01D-A099-09	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	16	4387381	4387381	C	T	SNP	GLIS2	NM_032575	human	genbank	57_37b	+1	reviewed	silent	c.1431	p.P477	0.010	NULL	superfamily_SSF57667,HMMSmart_ZnF_C2H2,PatternScan_ZINC_FINGER_C2H2_1,HMMPfam_zf-C2H2	-	no_errors
GOLGA6L1	0	genome.wustl.edu	37	15	22743097	22743097	+	Missense_Mutation	SNP	G	G	C	novel	unknown	TCGA-A2-A0T7-01A-21D-A099-09	TCGA-A2-A0T7-10A-01D-A099-09	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	15	22743097	22743097	G	C	SNP	GOLGA6L1	NM_001001413	human	genbank	57_37b	+1	provisional	missense	c.1482	p.E494D	0.098	NULL	NULL	-	no_errors
HGC6.3	0	genome.wustl.edu	37	6	168376847	168376847	+	Silent	SNP	C	C	G	rs77867907	byCluster;by1000genomes	TCGA-A2-A0T7-01A-21D-A099-09	TCGA-A2-A0T7-10A-01D-A099-09	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	6	168376847	168376847	C	G	SNP	HGC6.3	NM_001129895	human	genbank	57_37b	-1	predicted	silent	c.486	p.L162	0.518	NULL	NULL	-	
IARS2	55699	genome.wustl.edu	37	1	220269535	220269535	+	Silent	SNP	C	C	T	novel	unknown	TCGA-A2-A0T7-01A-21D-A099-09	TCGA-A2-A0T7-10A-01D-A099-09	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	1	220269535	220269535	C	T	SNP	IARS2	NM_018060	human	genbank	57_37b	+1	validated	silent	c.357	p.N119	0.999	superfamily_Nucleotidylyl transferase,HMMPfam_tRNA-synt_1,PatternScan_AA_TRNA_LIGASE_I	superfamily_Nucleotidylyl transferase,HMMPfam_tRNA-synt_1,PatternScan_AA_TRNA_LIGASE_I,superfamily_ValRS/IleRS/LeuRS editing domain,superfamily_Anticodon-binding domain of a subclass of class I aminoacyl-tRNA synthetases,HMMPfam_Anticodon_1,HMMPfam_zf-FPG_IleRS	-	no_errors
KPNA7	0	genome.wustl.edu	37	7	98775688	98775688	+	Missense_Mutation	SNP	G	G	A	novel	unknown	TCGA-A2-A0T7-01A-21D-A099-09	TCGA-A2-A0T7-10A-01D-A099-09	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	7	98775688	98775688	G	A	SNP	KPNA7	NM_001145715	human	genbank	57_37b	-1	validated	missense	c.1319	p.A440V	0.974	superfamily_ARM-type_fold	HMMPfam_IBB,superfamily_ARM-type_fold,HMMPfam_Arm,HMMSmart_ARM	-	no_errors
LOC100129081	0	genome.wustl.edu	37	19	57910903	57910903	+	Missense_Mutation	SNP	G	G	A	novel	unknown	TCGA-A2-A0T7-01A-21D-A099-09	TCGA-A2-A0T7-10A-01D-A099-09	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	19	57910903	57910903	G	A	SNP	LOC100129081	XM_001718521	human	genbank	57_37b	-1	model	missense	c.235	p.P79S	0.893	NULL	NULL	-	no_errors
LOC642357	642357	genome.wustl.edu	37	X	114937218	114937218	+	RNA	SNP	C	C	T	novel	unknown	TCGA-A2-A0T7-01A-21D-A099-09	TCGA-A2-A0T7-10A-01D-A099-09	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	X	114937218	114937218	C	T	SNP	LOC642357	XR_016681	human	genbank	57_37b	+1	model	rna	NULL	NULL	0.908	-	-	-	no_errors
LRRK1	79705	genome.wustl.edu	37	15	101565085	101565085	+	Silent	SNP	G	G	A	novel	unknown	TCGA-A2-A0T7-01A-21D-A099-09	TCGA-A2-A0T7-10A-01D-A099-09	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	15	101565085	101565085	G	A	SNP	LRRK1	NM_024652	human	genbank	57_37b	+1	validated	silent	c.2145	p.T715	0.018	superfamily_P-loop containing nucleoside triphosphate hydrolases,HMMPfam_Miro	superfamily_Ankyrin repeat,HMMSmart_SM00248,HMMPfam_Ank,superfamily_L domain-like,HMMSmart_SM00364,HMMSmart_SM00369,HMMPfam_LRR_1,superfamily_P-loop containing nucleoside triphosphate hydrolases,HMMPfam_Miro,superfamily_Protein kinase-like (PK-like),HMMSmart_SM00219,HMMPfam_Pkinase,HMMSmart_SM00220	-	no_errors
NEK1	4750	genome.wustl.edu	37	4	170506525	170506525	+	Missense_Mutation	SNP	C	C	A	novel	unknown	TCGA-A2-A0T7-01A-21D-A099-09	TCGA-A2-A0T7-10A-01D-A099-09	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	4	170506525	170506525	C	A	SNP	NEK1	NM_012224	human	genbank	57_37b	-1	validated	missense	c.782	p.R261L	1.000	superfamily_Protein kinase-like (PK-like)	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	178936082	178936082	+	Missense_Mutation	SNP	G	G	A	novel	unknown	TCGA-A2-A0T7-01A-21D-A099-09	TCGA-A2-A0T7-10A-01D-A099-09	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	3	178936082	178936082	G	A	SNP	PIK3CA	NM_006218	human	genbank	57_37b	+1	reviewed	missense	c.1624	p.E542K	1.000	superfamily_ARM-type_fold,HMMSmart_PI3Ka,HMMPfam_PI3Ka	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
PIK3CA	5290	genome.wustl.edu	37	3	178952074	178952074	+	Missense_Mutation	SNP	G	G	A	novel	unknown	TCGA-A2-A0T7-01A-21D-A099-09	TCGA-A2-A0T7-10A-01D-A099-09	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	HMMSmart_PI3Kc,superfamily_Kinase_like	HMMSmart_C2,HMMPfam_PI3K_rbd,HMMSmart_PI3K_rbd,HMMPfam_PI3_PI4_kinase,HMMSmart_PI3Kc,HMMPfam_PI3Ka,HMMSmart_PI3Ka,HMMPfam_PI3K_C2,HMMSmart_PI3K_C2,HMMPfam_PI3K_p85B,HMMSmart_PI3K_p85B,superfamily_C2_CaLB,superfamily_Kinase_like,superfamily_ARM-type_fold,PatternScan_PI3_4_KINASE_1,PatternScan_PI3_4_KINASE_2,superfamily_SSF54236	-	no_errors
PTPN23	25930	genome.wustl.edu	37	3	47451454	47451454	+	Silent	SNP	C	C	T	novel	unknown	TCGA-A2-A0T7-01A-21D-A099-09	TCGA-A2-A0T7-10A-01D-A099-09	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	3	47451454	47451454	C	T	SNP	PTPN23	NM_015466	human	genbank	57_37b	+1	validated	silent	c.2166	p.A722	1.000	NULL	HMMPfam_BRO1,superfamily_(Phosphotyrosine protein) phosphatases II,HMMSmart_SM00194,HMMPfam_Y_phosphatase,HMMSmart_SM00404,PatternScan_TYR_PHOSPHATASE_1	-	no_errors
RBM15	64783	genome.wustl.edu	37	1	110883275	110883281	+	Frame_Shift_Del	DEL	CGGCTTT	CGGCTTT	-	novel	unknown	TCGA-A2-A0T7-01A-21D-A099-09	TCGA-A2-A0T7-10A-01D-A099-09	CGGCTTT	CGGCTTT					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	1	110883275	110883281	CGGCTTT	-	DEL	RBM15	NM_022768	human	genbank	57_37b	+1	validated	frame_shift_del	c.1248_1254	p.G417fs	1.000:1.000:1.000:0.753:1.000:1.000:0.998	superfamily_RNA-binding domain RBD,HMMSmart_SM00360,HMMPfam_RRM_1	HMMSmart_SM00360,superfamily_RNA-binding domain RBD,HMMPfam_RRM_1,superfamily_SPOC domain-like,HMMPfam_SPOC	(deletion:cds_exon[110882028,110884890])	no_errors
RIN1	9610	genome.wustl.edu	37	11	66103561	66103561	+	Missense_Mutation	SNP	G	G	A	novel	unknown	TCGA-A2-A0T7-01A-21D-A099-09	TCGA-A2-A0T7-10A-01D-A099-09	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	11	66103561	66103561	G	A	SNP	RIN1	NM_004292	human	genbank	57_37b	-1	validated	missense	c.155	p.P52L	0.893	NULL	superfamily_SH2 domain,HMMSmart_SM00252,superfamily_VPS9 domain (Pfam 02204),HMMSmart_SM00167,HMMPfam_VPS9,HMMPfam_RA,HMMSmart_SM00314	-	no_errors
RNF5P1	286140	genome.wustl.edu	37	8	38458371	38458371	+	RNA	SNP	G	T	T	rs113748410	byCluster	TCGA-A2-A0T7-01A-21D-A099-09	TCGA-A2-A0T7-10A-01D-A099-09	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	8	38458371	38458371	G	T	SNP	RNF5P1	NR_003129	human	genbank	57_37b	-1	provisional	rna	NULL	NULL	0.975	-	-	-	
VPS4B	9525	genome.wustl.edu	37	18	61071018	61071018	+	Missense_Mutation	SNP	C	C	T	novel	unknown	TCGA-A2-A0T7-01A-21D-A099-09	TCGA-A2-A0T7-10A-01D-A099-09	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	18	61071018	61071018	C	T	SNP	VPS4B	NM_004869	human	genbank	57_37b	-1	reviewed	missense	c.406	p.V136I	1.000	superfamily_P-loop containing nucleoside triphosphate hydrolases	HMMSmart_SM00745,HMMPfam_MIT,superfamily_P-loop containing nucleoside triphosphate hydrolases,HMMSmart_SM00382,HMMPfam_AAA,PatternScan_AAA,HMMPfam_Vps4_C	-	no_errors
