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	
ALLC	55821	genome.wustl.edu	37	2	3721691	3721691	+	Silent	SNP	T	T	C	novel	unknown	TCGA-A2-A0CZ-01	TCGA-A2-A0CZ-01	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	2	3721691	3721691	T	C	SNP	ALLC	NM_018436	human	genbank	57_37b	+1	validated	silent	c.60	p.F20	1.000	superfamily_Gal_bind_like,HMMPfam_Allantoicase	superfamily_Gal_bind_like,HMMPfam_Allantoicase	-	no_errors	
BAT2	7916	genome.wustl.edu	37	6	31600113	31600114	+	Frame_Shift_Del	DEL	GG	GG	-	novel	unknown	TCGA-A2-A0CZ-01	TCGA-A2-A0CZ-01	GG	GG					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	6	31600113	31600114	GG	-	DEL	BAT2	NM_080686	human	genbank	57_37b	+1	reviewed	frame_shift_del	c.3663_3664	p.G1224fs	0.000:0.000	NULL	HMMPfam_BAT2_N	(deletion:cds_exon[31598916,31600769])	no_errors	
C14orf149	112849	genome.wustl.edu	37	14	59950690	59950690	+	Silent	SNP	A	A	C	rs2296842	byCluster;byFrequency;by1000genomes	TCGA-A2-A0CZ-01	TCGA-A2-A0CZ-01	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	14	59950690	59950690	A	C	SNP	C14orf149	NM_144581	human	genbank	57_37b	-1	provisional	silent	c.345	p.A115	0.009	superfamily_Diaminopimelate epimerase-like,HMMPfam_Pro_racemase	superfamily_Diaminopimelate epimerase-like,HMMPfam_Pro_racemase	-		
COL11A2	1302	genome.wustl.edu	37	6	33144243	33144243	+	Silent	SNP	T	T	A	rs1799908	byCluster;byFrequency;by2Hit2Allele	TCGA-A2-A0CZ-01	TCGA-A2-A0CZ-01	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	6	33144243	33144243	T	A	SNP	COL11A2	NM_080680	human	genbank	57_37b	-1	reviewed	silent	c.2136	p.G712	0.985	NULL	HMMSmart_SM00210,superfamily_Concanavalin A-like lectins/glucanases,HMMSmart_SM00282,HMMPfam_Laminin_G_2,HMMPfam_Collagen,HMMSmart_SM00038,HMMPfam_COLFI	-		
ENSG00000248084	0	genome.wustl.edu	37	2	55776793	55776793	+	RNA	SNP	G	G	A	rs3748945	byCluster;byFrequency;by2Hit2Allele;byHapMap;by1000genomes	TCGA-A2-A0CZ-01	TCGA-A2-A0CZ-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	2	55776793	55776793	G	A	SNP	ENSG00000248084	ENST00000499028	human	ensembl	57_37b	+1	novel	rna	NULL	NULL	0.453	-	-	-		
FAM73A	374986	genome.wustl.edu	37	1	78269078	78269078	+	Missense_Mutation	SNP	A	A	T	novel	unknown	TCGA-A2-A0CZ-01	TCGA-A2-A0CZ-01	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	1	78269078	78269078	A	T	SNP	FAM73A	NM_198549	human	genbank	57_37b	+1	predicted	missense	c.497	p.Q166L	1.000	HMMPfam_DUF2217	HMMPfam_DUF2217	-	no_errors	
GATA3	2625	genome.wustl.edu	37	10	8115874	8115875	+	Frame_Shift_Ins	INS	-	-	T	novel	unknown	TCGA-A2-A0CZ-01	TCGA-A2-A0CZ-01	-	-					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	10	8115874	8115875	-	T	INS	GATA3	NM_001002295	human	genbank	57_37b	+1	reviewed	frame_shift_ins	c.1223_1224	p.P409fs	0.903:0.359	NULL	superfamily_Glucocorticoid receptor-like (DNA-binding domain),HMMSmart_SM00401,PatternScan_GATA_ZN_FINGER_1,HMMPfam_GATA	-	no_errors	
HLA-DQB1	3119	genome.wustl.edu	37	6	32632633	32632633	+	Silent	SNP	C	C	T	novel	unknown	TCGA-A2-A0CZ-01	TCGA-A2-A0CZ-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	6	32632633	32632633	C	T	SNP	HLA-DQB1	NM_002123	human	genbank	57_37b	-1	reviewed	silent	c.321	p.L107	0.893	superfamily_MHC antigen-recognition domain,HMMPfam_MHC_II_beta	superfamily_MHC antigen-recognition domain,HMMPfam_MHC_II_beta,superfamily_Immunoglobulin,HMMPfam_C1-set,HMMSmart_SM00407,PatternScan_IG_MHC	-	no_errors	
LOC729707	729707	genome.wustl.edu	37	5	180541707	180541707	+	RNA	SNP	C	C	T	rs56142918	byCluster;byFrequency;by1000genomes	TCGA-A2-A0CZ-01	TCGA-A2-A0CZ-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	5	180541707	180541707	C	T	SNP	LOC729707	XR_078330	human	genbank	57_37b	+1	model	rna	NULL	NULL	1.000	-	-	-		
SEMA6D	80031	genome.wustl.edu	37	15	48056083	48056083	+	Missense_Mutation	SNP	G	G	A	novel	unknown	TCGA-A2-A0CZ-01	TCGA-A2-A0CZ-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	15	48056083	48056083	G	A	SNP	SEMA6D	NM_153618	human	genbank	57_37b	+1	reviewed	missense	c.784	p.D262N	1.000	superfamily_Sema domain,HMMSmart_SM00630,HMMPfam_Sema	superfamily_Sema domain,HMMSmart_SM00630,HMMPfam_Sema,superfamily_Plexin repeat,HMMPfam_PSI,HMMSmart_SM00423	-	no_errors	
SPRED2	200734	genome.wustl.edu	37	2	65540801	65540801	+	Frame_Shift_Del	DEL	G	G	-	novel	unknown	TCGA-A2-A0CZ-01	TCGA-A2-A0CZ-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	2	65540801	65540801	G	-	DEL	SPRED2	NM_181784	human	genbank	57_37b	-1	validated	frame_shift_del	c.1091	p.P364fs	0.999	HMMPfam_Sprouty	HMMPfam_WH1,HMMSmart_SM00461,superfamily_PH domain-like,HMMPfam_Sprouty	(deletion:cds_exon[65540635,65541303])	no_errors	
TLN2	83660	genome.wustl.edu	37	15	62999439	62999439	+	Missense_Mutation	SNP	T	T	C	novel	unknown	TCGA-A2-A0CZ-01	TCGA-A2-A0CZ-01	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	15	62999439	62999439	T	C	SNP	TLN2	NM_015059	human	genbank	57_37b	+1	reviewed	missense	c.2159	p.V720A	1.000	superfamily_SSF109885	PatternScan_FERM_1,HMMSmart_B41,HMMPfam_FERM_N,superfamily_FERM_3-hlx,HMMPfam_FERM_M,PatternScan_FERM_2,superfamily_SSF50729,superfamily_Talin_cent,HMMPfam_Talin_middle,superfamily_SSF109885,HMMPfam_VBS,HMMSmart_ILWEQ,HMMPfam_I_LWEQ	-	no_errors	
TMC2	117532	genome.wustl.edu	37	20	2582823	2582823	+	Missense_Mutation	SNP	G	G	A	novel	unknown	TCGA-A2-A0CZ-01	TCGA-A2-A0CZ-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	20	2582823	2582823	G	A	SNP	TMC2	NM_080751	human	genbank	57_37b	+1	validated	missense	c.1289	p.R430H	1.000	NULL	HMMPfam_TMC	-	no_errors	
TMEM132B	114795	genome.wustl.edu	37	12	125834676	125834676	+	Nonsense_Mutation	SNP	C	C	A	novel	unknown	TCGA-A2-A0CZ-01	TCGA-A2-A0CZ-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	12	125834676	125834676	C	A	SNP	TMEM132B	NM_052907	human	genbank	57_37b	+1	provisional	nonsense	c.731	p.S244*	0.085	NULL	NULL	-	no_errors	
TMPRSS7	344805	genome.wustl.edu	37	3	111766802	111766802	+	Missense_Mutation	SNP	G	G	A	novel	unknown	TCGA-A2-A0CZ-01	TCGA-A2-A0CZ-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	3	111766802	111766802	G	A	SNP	TMPRSS7	NM_001042575	human	genbank	57_37b	+1	validated	missense	c.569	p.S190N	0.472	superfamily_Spermadhesin CUB domain,HMMPfam_CUB,HMMSmart_SM00042	HMMPfam_SEA,superfamily_SEA domain,superfamily_Spermadhesin CUB domain,HMMPfam_CUB,HMMSmart_SM00042,superfamily_LDL receptor-like module,HMMPfam_Ldl_recept_a,HMMSmart_SM00192,PatternScan_LDLRA_1,superfamily_Trypsin-like serine proteases,HMMSmart_SM00020,HMMPfam_Trypsin,PatternScan_TRYPSIN_HIS,PatternScan_TRYPSIN_SER	-	no_errors	
XIAP	331	genome.wustl.edu	37	X	123019870	123019870	+	Missense_Mutation	SNP	T	T	A	novel	unknown	TCGA-A2-A0CZ-01	TCGA-A2-A0CZ-01	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	X	123019870	123019870	T	A	SNP	XIAP	NM_001167	human	genbank	57_37b	+1	reviewed	missense	c.358	p.Y120N	0.195	superfamily_SSF57924	PatternScan_ZF_RING_1,superfamily_SSF57924,HMMSmart_BIR,PatternScan_BIR_REPEAT_1,HMMPfam_BIR,HMMSmart_RING	-	no_errors	
