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	Tumor_Sample_UUID	Matched_Norm_Sample_UUID	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	transcript_error
BTBD3	0	genome.wustl.edu	37	20	11904305	11904305	+	Silent	SNP	C	C	T	novel	unknown	TCGA-BH-A1FH-01A-12D-A13L-09	TCGA-BH-A1FH-11B-42D-A13O-09	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	fd6bd486-6371-4892-863e-64838fcea624	0eff2896-73b8-4a34-90dd-96351fcb0eb2	20	11904305	11904305	C	T	SNP	BTBD3	NM_014962.2	human	genbank	58_37c	+1	validated	silent	c.1560	p.F520	1.000	HMMPfam_PHR	HMMSmart_BTB,superfamily_BTB/POZ_fold,HMMPfam_PHR,HMMPfam_BTB	-	no_errors
FAM98B	0	genome.wustl.edu	37	15	38776807	38776815	+	In_Frame_Del	DEL	GGTGGTGGT	GGTGGTGGT	-	novel	unknown	TCGA-BH-A1FH-01A-12D-A13L-09	TCGA-BH-A1FH-11B-42D-A13O-09	GGTGGTGGT	GGTGGTGGT					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	fd6bd486-6371-4892-863e-64838fcea624	0eff2896-73b8-4a34-90dd-96351fcb0eb2	15	38776807	38776815	GGTGGTGGT	-	DEL	FAM98B	NM_173611.2	human	genbank	58_37c	+1	validated	in_frame_del	c.1249_1257	p.GGG420in_frame_del	0.999:0.976:0.303:0.959:0.982:0.983:0.988:0.982:0.510	NULL	HMMPfam_DUF2465	-	no_errors
GATA3	0	genome.wustl.edu	37	10	8115843	8115844	+	Frame_Shift_Ins	INS	-	-	C	novel	unknown	TCGA-BH-A1FH-01A-12D-A13L-09	TCGA-BH-A1FH-11B-42D-A13O-09	-	-					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	fd6bd486-6371-4892-863e-64838fcea624	0eff2896-73b8-4a34-90dd-96351fcb0eb2	10	8115843	8115844	-	C	INS	GATA3	NM_001002295.1	human	genbank	58_37c	+1	reviewed	frame_shift_ins	c.1192_1193	p.R399fs	1.000:1.000	NULL	HMMPfam_GATA,HMMSmart_SM00401,PatternScan_GATA_ZN_FINGER_1,superfamily_Glucocorticoid receptor-like (DNA-binding domain)	-	no_errors
LOC100287759	0	genome.wustl.edu	37	9	66454784	66454784	+	Silent	SNP	A	A	G	novel	unknown	TCGA-BH-A1FH-01A-12D-A13L-09	TCGA-BH-A1FH-11B-42D-A13O-09	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	fd6bd486-6371-4892-863e-64838fcea624	0eff2896-73b8-4a34-90dd-96351fcb0eb2	9	66454784	66454784	A	G	SNP	LOC100287759	XM_002342919.1	human	genbank	58_37c	-1	model	silent	c.171	p.P57	0.043	NULL	NULL	-	no_errors
LOC400986	0	genome.wustl.edu	37	2	96619735	96619735	+	Silent	SNP	A	A	G	rs2190034	unknown	TCGA-BH-A1FH-01A-12D-A13L-09	TCGA-BH-A1FH-11B-42D-A13O-09	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	fd6bd486-6371-4892-863e-64838fcea624	0eff2896-73b8-4a34-90dd-96351fcb0eb2	2	96619735	96619735	A	G	SNP	LOC400986	XM_001717763.2	human	genbank	58_37c	-1	model	silent	c.210	p.D70	0.000	NULL	NULL	-	no_errors
LOC729057	0	genome.wustl.edu	37	22	16123793	16123793	+	RNA	SNP	G	G	A	rs11703326	byHapMap	TCGA-BH-A1FH-01A-12D-A13L-09	TCGA-BH-A1FH-11B-42D-A13O-09	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	fd6bd486-6371-4892-863e-64838fcea624	0eff2896-73b8-4a34-90dd-96351fcb0eb2	22	16123793	16123793	G	A	SNP	LOC729057	XR_042044.2	human	genbank	58_37c	+1	model	rna	NULL	NULL	0.007	-	-	-	no_errors
LOC729915	0	genome.wustl.edu	37	5	34190317	34190317	+	Silent	SNP	G	G	A	novel	unknown	TCGA-BH-A1FH-01A-12D-A13L-09	TCGA-BH-A1FH-11B-42D-A13O-09	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	fd6bd486-6371-4892-863e-64838fcea624	0eff2896-73b8-4a34-90dd-96351fcb0eb2	5	34190317	34190317	G	A	SNP	LOC729915	XM_001722873.2	human	genbank	58_37c	+1	model	silent	c.57	p.T19	0.062	NULL	NULL	-	no_errors
MUC12	0	genome.wustl.edu	37	7	100647339	100647339	+	Missense_Mutation	SNP	G	G	A	novel	unknown	TCGA-BH-A1FH-01A-12D-A13L-09	TCGA-BH-A1FH-11B-42D-A13O-09	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	fd6bd486-6371-4892-863e-64838fcea624	0eff2896-73b8-4a34-90dd-96351fcb0eb2	7	100647339	100647339	G	A	SNP	MUC12	ENST00000379442	human	ensembl	58_37c	+1	known	missense	c.13924	p.A4642T	0.036	NULL	HMMPfam_SEA,HMMSmart_SEA,PatternScan_EGF_1,PatternScan_EGF_2	-	no_errors
MXRA5	0	genome.wustl.edu	37	X	3228346	3228346	+	Missense_Mutation	SNP	A	A	C	novel	unknown	TCGA-BH-A1FH-01A-12D-A13L-09	TCGA-BH-A1FH-11B-42D-A13O-09	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	fd6bd486-6371-4892-863e-64838fcea624	0eff2896-73b8-4a34-90dd-96351fcb0eb2	X	3228346	3228346	A	C	SNP	MXRA5	NM_015419.3	human	genbank	58_37c	-1	reviewed	missense	c.7898	p.V2633G	0.868	HMMSmart_SM00409,HMMPfam_I-set,superfamily_Immunoglobulin	HMMSmart_SM00013,HMMSmart_SM00082,HMMPfam_LRR_1,HMMSmart_SM00369,HMMSmart_SM00408,HMMSmart_SM00409,HMMPfam_I-set,HMMPfam_ig,superfamily_Immunoglobulin,superfamily_L domain-like	-	no_errors
NSUN5	0	genome.wustl.edu	37	7	72719078	72719078	+	Missense_Mutation	SNP	C	C	T	novel	unknown	TCGA-BH-A1FH-01A-12D-A13L-09	TCGA-BH-A1FH-11B-42D-A13O-09	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	fd6bd486-6371-4892-863e-64838fcea624	0eff2896-73b8-4a34-90dd-96351fcb0eb2	7	72719078	72719078	C	T	SNP	NSUN5	NM_148956.2	human	genbank	58_37c	-1	reviewed	missense	c.517	p.A173T	0.255	superfamily_SSF53335	HMMPfam_Nol1_Nop2_Fmu,superfamily_SSF53335	-	no_errors
PLCB4	0	genome.wustl.edu	37	20	9353021	9353021	+	Silent	SNP	G	G	A	novel	unknown	TCGA-BH-A1FH-01A-12D-A13L-09	TCGA-BH-A1FH-11B-42D-A13O-09	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	fd6bd486-6371-4892-863e-64838fcea624	0eff2896-73b8-4a34-90dd-96351fcb0eb2	20	9353021	9353021	G	A	SNP	PLCB4	NM_000933.3	human	genbank	58_37c	+1	reviewed	silent	c.657	p.R219	1.000	superfamily_SSF47473	HMMPfam_C2,HMMSmart_C2,HMMPfam_PI-PLC-X,HMMSmart_PLCXc,HMMPfam_PI-PLC-Y,HMMSmart_PLCYc,superfamily_C2_CaLB,HMMPfam_DUF1154,HMMPfam_efhand_like,superfamily_PLC-like_Pdiesterase_TIM-brl,superfamily_SSF47473,superfamily_SSF50729	-	no_errors
PSG7	0	genome.wustl.edu	37	19	43433645	43433645	+	Missense_Mutation	SNP	G	G	A	novel	unknown	TCGA-BH-A1FH-01A-12D-A13L-09	TCGA-BH-A1FH-11B-42D-A13O-09	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	fd6bd486-6371-4892-863e-64838fcea624	0eff2896-73b8-4a34-90dd-96351fcb0eb2	19	43433645	43433645	G	A	SNP	PSG7	NM_002783.2	human	genbank	58_37c	-1	reviewed	missense	c.658	p.R220W	0.002	HMMSmart_SM00408,HMMSmart_SM00409,superfamily_Immunoglobulin	HMMSmart_SM00408,HMMSmart_SM00409,HMMPfam_V-set,HMMPfam_ig,superfamily_Immunoglobulin	-	pseudogene
RPGR	0	genome.wustl.edu	37	X	38145632	38145646	+	In_Frame_Del	DEL	CTTCCTCCCCTTCTT	CTTCCTCCCCTTCTT	-	novel	unknown	TCGA-BH-A1FH-01A-12D-A13L-09	TCGA-BH-A1FH-11B-42D-A13O-09	CTTCCTCCCCTTCTT	CTTCCTCCCCTTCTT					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	fd6bd486-6371-4892-863e-64838fcea624	0eff2896-73b8-4a34-90dd-96351fcb0eb2	X	38145632	38145646	CTTCCTCCCCTTCTT	-	DEL	RPGR	NM_001034853.1	human	genbank	58_37c	-1	reviewed	in_frame_del	c.2620_2606	p.EEGEE869in_frame_del	0.002:0.000:0.000:0.001:0.001:0.002:0.004:0.002:0.000:0.001:0.005:0.072:0.086:0.106:0.097	NULL	HMMPfam_RCC1,PatternScan_RCC1_2,superfamily_RCC1/BLIP-II	-	no_errors
