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
ADNP2	22850	genome.wustl.edu	37	18	77895774	77895774	+	Silent	SNP	C	C	T	novel	unknown	TCGA-E2-A1B5-01A-21D-A12Q-09	TCGA-E2-A1B5-10A-01D-A12Q-09	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	18	77895774	77895774	C	T	SNP	ADNP2	NM_014913	human	genbank	57_37b	+1	validated	silent	c.2478	p.I826	0.273	NULL	superfamily_C2H2 and C2HC zinc fingers,HMMSmart_SM00355,PatternScan_ZINC_FINGER_C2H2_1,superfamily_Homeodomain-like,HMMSmart_SM00389	-	no_errors
BRIP1	83990	genome.wustl.edu	37	17	59821812	59821812	+	Silent	SNP	G	G	A	novel	unknown	TCGA-E2-A1B5-01A-21D-A12Q-09	TCGA-E2-A1B5-10A-01D-A12Q-09	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	17	59821812	59821812	G	A	SNP	BRIP1	NM_032043	human	genbank	57_37b	-1	reviewed	silent	c.2238	p.I746	1.000	HMMSmart_SM00491	superfamily_P-loop containing nucleoside triphosphate hydrolases,HMMSmart_SM00488,HMMSmart_SM00487,HMMPfam_DEAD_2,HMMSmart_SM00491	-	no_errors
BRIP1	83990	genome.wustl.edu	37	17	59821901	59821901	+	Missense_Mutation	SNP	G	G	C	novel	unknown	TCGA-E2-A1B5-01A-21D-A12Q-09	TCGA-E2-A1B5-10A-01D-A12Q-09	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	17	59821901	59821901	G	C	SNP	BRIP1	NM_032043	human	genbank	57_37b	-1	reviewed	missense	c.2149	p.L717V	1.000	HMMSmart_SM00491	HMMSmart_SM00488,HMMSmart_SM00491,HMMPfam_DEAD_2,HMMSmart_SM00487,superfamily_P-loop containing nucleoside triphosphate hydrolases	-	no_errors
ENSG00000206750	0	genome.wustl.edu	37	GL000205.1	81446	81446	+	RNA	SNP	T	T	G	novel	unknown	TCGA-E2-A1B5-01A-21D-A12Q-09	TCGA-E2-A1B5-11A-23D-A12Q-09	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	GL000205.1	81446	81446	T	G	SNP	ENSG00000206750	ENST00000384023	human	ensembl	57_37b	+1	novel	rna	NULL	NULL	NULL	-	-	-	no_errors
ENSG00000210117	0	genome.wustl.edu	37	MT	5531	5531	+	RNA	SNP	A	A	G	novel	unknown	TCGA-E2-A1B5-01A-21D-A12Q-09	TCGA-E2-A1B5-11A-23D-A12Q-09	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	MT	5531	5531	A	G	SNP	ENSG00000210117	ENST00000387382	human	ensembl	57_37b	+1	novel	rna	NULL	NULL	NULL	-	-	-	no_errors
FTL	2512	genome.wustl.edu	37	19	49469846	49469846	+	Missense_Mutation	SNP	G	G	A	novel	unknown	TCGA-E2-A1B5-01A-21D-A12Q-09	TCGA-E2-A1B5-10A-01D-A12Q-09	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	19	49469846	49469846	G	A	SNP	FTL	NM_000146	human	genbank	57_37b	+1	reviewed	missense	c.382	p.D128N	1.000	superfamily_Ferritin/RR_like,HMMPfam_Ferritin,PatternScan_FERRITIN_2	superfamily_Ferritin/RR_like,HMMPfam_Ferritin,PatternScan_FERRITIN_1,PatternScan_FERRITIN_2	-	no_errors
GATA3	2625	genome.wustl.edu	37	10	8115965	8115966	+	Frame_Shift_Ins	INS	-	-	A	novel	unknown	TCGA-E2-A1B5-01A-21D-A12Q-09	TCGA-E2-A1B5-10A-01D-A12Q-09	-	-					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	10	8115965	8115966	-	A	INS	GATA3	NM_001002295	human	genbank	57_37b	+1	reviewed	frame_shift_ins	c.1314_1315	p.M438fs	0.485:0.999	NULL	superfamily_Glucocorticoid receptor-like (DNA-binding domain),HMMSmart_SM00401,PatternScan_GATA_ZN_FINGER_1,HMMPfam_GATA	-	no_errors
GRIN2D	2906	genome.wustl.edu	37	19	48945466	48945466	+	Missense_Mutation	SNP	G	G	A	novel	unknown	TCGA-E2-A1B5-01A-21D-A12Q-09	TCGA-E2-A1B5-10A-01D-A12Q-09	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	19	48945466	48945466	G	A	SNP	GRIN2D	NM_000836	human	genbank	57_37b	+1	reviewed	missense	c.2500	p.E834K	1.000	HMMPfam_Lig_chan	superfamily_SSF53822,HMMPfam_ANF_receptor,superfamily_SSF53850,HMMSmart_PBPe,HMMPfam_Lig_chan-Glu_bd,HMMPfam_Lig_chan	-	no_errors
LOC283685	0	genome.wustl.edu	37	15	23685009	23685009	+	Missense_Mutation	SNP	T	T	A	rs115216613	byCluster;by1000genomes	TCGA-E2-A1B5-01A-21D-A12Q-09	TCGA-E2-A1B5-10A-01D-A12Q-09	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	15	23685009	23685009	T	A	SNP	LOC283685	XM_002343322	human	genbank	57_37b	-1	model	missense	c.2168	p.E723V	0.001	NULL	NULL	-	
LPA	4018	genome.wustl.edu	37	6	161071469	161071469	+	Missense_Mutation	SNP	C	C	T	novel	unknown	TCGA-E2-A1B5-01A-21D-A12Q-09	TCGA-E2-A1B5-10A-01D-A12Q-09	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	6	161071469	161071469	C	T	SNP	LPA	NM_005577	human	genbank	57_37b	-1	reviewed	missense	c.110	p.R37Q	0.280	superfamily_Kringle-like,HMMSmart_SM00130,HMMPfam_Kringle	superfamily_Kringle-like,HMMSmart_SM00130,HMMPfam_Kringle,PatternScan_KRINGLE_1,superfamily_Trypsin-like serine proteases,HMMSmart_SM00020,HMMPfam_Trypsin,PatternScan_TRYPSIN_HIS,PatternScan_TRYPSIN_SER	-	no_errors
PANX1	24145	genome.wustl.edu	37	11	93886744	93886746	+	In_Frame_Del	DEL	AGA	AGA	-	novel	unknown	TCGA-E2-A1B5-01A-21D-A12Q-09	TCGA-E2-A1B5-10A-01D-A12Q-09	AGA	AGA					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	11	93886744	93886746	AGA	-	DEL	PANX1	NM_015368	human	genbank	57_37b	+1	reviewed	in_frame_del	c.269_271	p.K91in_frame_del	1.000:1.000:0.997	NULL	NULL	(deletion:cds_exon[93886657,93886796])	no_errors
PANX1	24145	genome.wustl.edu	37	11	93886744	93886746	+	In_Frame_Del	DEL	AGA	AGA	-	novel	unknown	TCGA-E2-A1B5-01A-21D-A12Q-09	TCGA-E2-A1B5-11A-23D-A12Q-09	AGA	AGA					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	11	93886744	93886746	AGA	-	DEL	PANX1	NM_015368	human	genbank	57_37b	+1	reviewed	in_frame_del	c.269_271	p.K91in_frame_del	1.000:1.000:0.997	NULL	NULL	(deletion:cds_exon[93886657,93886796])	no_errors
PCDHA3	56145	genome.wustl.edu	37	5	140181539	140181539	+	Missense_Mutation	SNP	G	G	A	novel	unknown	TCGA-E2-A1B5-01A-21D-A12Q-09	TCGA-E2-A1B5-10A-01D-A12Q-09	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	5	140181539	140181539	G	A	SNP	PCDHA3	NM_018906	human	genbank	57_37b	+1	reviewed	missense	c.757	p.E253K	1.000	superfamily_Cadherin-like,HMMPfam_Cadherin	HMMPfam_Cadherin_2,superfamily_Cadherin-like,HMMSmart_SM00112,PatternScan_CADHERIN_1,HMMPfam_Cadherin	-	no_errors
PCSK4	54760	genome.wustl.edu	37	19	1482992	1482992	+	Silent	SNP	G	G	A	novel	unknown	TCGA-E2-A1B5-01A-21D-A12Q-09	TCGA-E2-A1B5-10A-01D-A12Q-09	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	19	1482992	1482992	G	A	SNP	PCSK4	NM_017573	human	genbank	57_37b	-1	validated	silent	c.1599	p.Y533	0.999	superfamily_Galactose-binding domain-like,HMMPfam_P_proprotein	superfamily_Protease propeptides/inhibitors,superfamily_Subtilisin-like,HMMPfam_Peptidase_S8,PatternScan_SUBTILASE_ASP,PatternScan_SUBTILASE_HIS,PatternScan_SUBTILASE_SER,superfamily_Galactose-binding domain-like,HMMPfam_P_proprotein,superfamily_Growth factor receptor domain,HMMSmart_SM00261	-	no_errors
PDGFRB	5159	genome.wustl.edu	37	5	149510110	149510110	+	Missense_Mutation	SNP	G	G	T	novel	unknown	TCGA-E2-A1B5-01A-21D-A12Q-09	TCGA-E2-A1B5-10A-01D-A12Q-09	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	5	149510110	149510110	G	T	SNP	PDGFRB	NM_002609	human	genbank	57_37b	-1	reviewed	missense	c.1359	p.D453E	0.996	NULL	superfamily_SSF48726,HMMSmart_IG,HMMPfam_ig,HMMSmart_IGc2,superfamily_Kinase_like,HMMPfam_Pkinase_Tyr,HMMSmart_TyrKc,PatternScan_PROTEIN_KINASE_ATP,PatternScan_RECEPTOR_TYR_KIN_III,PatternScan_PROTEIN_KINASE_TYR	-	no_errors
PPFIA4	8497	genome.wustl.edu	37	1	203023240	203023241	+	Frame_Shift_Ins	INS	-	-	GC	novel	unknown	TCGA-E2-A1B5-01A-21D-A12Q-09	TCGA-E2-A1B5-11A-23D-A12Q-09	-	-					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	1	203023240	203023241	-	GC	INS	PPFIA4	ENST00000447715	human	ensembl	57_37b	+1	known	frame_shift_ins	c.1752_1753	p.P584fs	0.005:0.000	NULL	superfamily_SAM_homology,HMMSmart_SAM,HMMPfam_SAM_1,HMMPfam_SAM_2	-	no_errors
PRR12	57479	genome.wustl.edu	37	19	50128449	50128449	+	Missense_Mutation	SNP	C	C	T	novel	unknown	TCGA-E2-A1B5-01A-21D-A12Q-09	TCGA-E2-A1B5-10A-01D-A12Q-09	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	19	50128449	50128449	C	T	SNP	PRR12	NM_020719	human	genbank	57_37b	+1	validated	missense	c.5956	p.R1986W	0.997	NULL	NULL	-	no_errors
RAB6A	5870	genome.wustl.edu	37	11	73429669	73429670	+	Frame_Shift_Ins	INS	-	-	A	novel	unknown	TCGA-E2-A1B5-01A-21D-A12Q-09	TCGA-E2-A1B5-10A-01D-A12Q-09	-	-					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	11	73429669	73429670	-	A	INS	RAB6A	NM_198896	human	genbank	57_37b	-1	validated	frame_shift_ins	c.278_277	p.Y93fs	1.000:1.000	superfamily_P-loop containing nucleoside triphosphate hydrolases,HMMSmart_SM00173,HMMSmart_SM00175,HMMPfam_Ras,HMMSmart_SM00174,HMMSmart_SM00176	superfamily_P-loop containing nucleoside triphosphate hydrolases,HMMSmart_SM00173,HMMSmart_SM00175,HMMPfam_Ras,HMMSmart_SM00174,HMMSmart_SM00176	-	no_errors
SSPO	23145	genome.wustl.edu	37	7	149518533	149518533	+	Frame_Shift_Del	DEL	C	C	-	novel	unknown	TCGA-E2-A1B5-01A-21D-A12Q-09	TCGA-E2-A1B5-11A-23D-A12Q-09	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	7	149518533	149518533	C	-	DEL	SSPO	ENST00000378016	human	ensembl	57_37b	+1	known	frame_shift_del	c.12602	p.Q4202fs	0.958	superfamily_TSP-1 type 1 repeat,HMMSmart_SM00209,HMMPfam_TSP_1	HMMSmart_SM00216,HMMPfam_VWD,HMMPfam_C8,superfamily_Serine proterase inhibitors,HMMPfam_TIL,HMMSmart_SM00214,HMMSmart_SM00215,superfamily_PMP inhibitors,superfamily_LDL receptor-like module,HMMPfam_Ldl_recept_a,HMMSmart_SM00192,PatternScan_LDLRA_1,superfamily_TSP-1 type 1 repeat,HMMSmart_SM00209,HMMPfam_TSP_1,HMMPfam_VWC,HMMSmart_SM00231,superfamily_Galactose-binding domain-like,HMMPfam_F5_F8_type_C,PatternScan_BPTI_KUNITZ_1,PatternScan_GLYCO_HORMONE_BETA_1,PatternScan_EGF_1,PatternScan_VWFC_1	(deletion:cds_exon[149518486,149518638])	no_errors
TRIM6-TRIM34	445372	genome.wustl.edu	37	11	5624624	5624624	+	Frame_Shift_Del	DEL	A	A	-	novel	unknown	TCGA-E2-A1B5-01A-21D-A12Q-09	TCGA-E2-A1B5-10A-01D-A12Q-09	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	11	5624624	5624624	A	-	DEL	TRIM6-TRIM34	NM_001003819	human	genbank	57_37b	+1	reviewed	frame_shift_del	c.166	p.I56fs	0.695	superfamily_SSF57850,HMMSmart_RING,HMMPfam_zf-C3HC4	superfamily_SSF57850,HMMSmart_RING,HMMPfam_zf-C3HC4,PatternScan_ZF_RING_1,HMMPfam_zf-B_box,HMMSmart_BBOX,HMMPfam_SPRY,HMMSmart_SPRY	(deletion:cds_exon[5624476,5624965])	no_errors
TRIM6-TRIM34	445372	genome.wustl.edu	37	11	5624626	5624626	+	Frame_Shift_Del	DEL	A	A	-	novel	unknown	TCGA-E2-A1B5-01A-21D-A12Q-09	TCGA-E2-A1B5-10A-01D-A12Q-09	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	11	5624626	5624626	A	-	DEL	TRIM6-TRIM34	NM_001003819	human	genbank	57_37b	+1	reviewed	frame_shift_del	c.168	p.I56fs	0.722	HMMSmart_RING,HMMPfam_zf-C3HC4,superfamily_SSF57850	HMMPfam_zf-B_box,HMMSmart_BBOX,HMMSmart_RING,HMMPfam_SPRY,PatternScan_ZF_RING_1,HMMSmart_SPRY,HMMPfam_zf-C3HC4,superfamily_SSF57850	(deletion:cds_exon[5624476,5624965])	no_errors
TRIM6-TRIM34	445372	genome.wustl.edu	37	11	5624628	5624629	+	Frame_Shift_Del	DEL	AC	AC	-	novel	unknown	TCGA-E2-A1B5-01A-21D-A12Q-09	TCGA-E2-A1B5-10A-01D-A12Q-09	AC	AC					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	11	5624628	5624629	AC	-	DEL	TRIM6-TRIM34	NM_001003819	human	genbank	57_37b	+1	reviewed	frame_shift_del	c.170_171	p.D57fs	0.999:0.999	HMMSmart_RING,HMMPfam_zf-C3HC4,superfamily_SSF57850	HMMPfam_zf-B_box,HMMSmart_BBOX,HMMSmart_RING,HMMPfam_SPRY,PatternScan_ZF_RING_1,HMMSmart_SPRY,HMMPfam_zf-C3HC4,superfamily_SSF57850	(deletion:cds_exon[5624476,5624965])	no_errors
TTLL8	164714	genome.wustl.edu	37	22	50468907	50468907	+	Missense_Mutation	SNP	C	C	G	rs738333	byCluster;by2Hit2Allele;by1000genomes	TCGA-E2-A1B5-01A-21D-A12Q-09	TCGA-E2-A1B5-11A-23D-A12Q-09	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	22	50468907	50468907	C	G	SNP	TTLL8	NM_001080447	human	genbank	57_37b	-1	provisional	missense	c.2155	p.G719R	0.000	NULL	HMMPfam_TTL,superfamily_Glutathione synthetase ATP-binding domain-like	-	
ZBTB6	10773	genome.wustl.edu	37	9	125674142	125674142	+	Silent	SNP	G	G	C	novel	unknown	TCGA-E2-A1B5-01A-21D-A12Q-09	TCGA-E2-A1B5-10A-01D-A12Q-09	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	9	125674142	125674142	G	C	SNP	ZBTB6	NM_006626	human	genbank	57_37b	-1	provisional	silent	c.210	p.V70	1.000	superfamily_POZ domain,HMMPfam_BTB,HMMSmart_SM00225	superfamily_POZ domain,HMMPfam_BTB,HMMSmart_SM00225,PatternScan_EF_HAND_1,superfamily_C2H2 and C2HC zinc fingers,HMMPfam_zf-C2H2,HMMSmart_SM00355,PatternScan_ZINC_FINGER_C2H2_1	-	no_errors
