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	start	stop	reference	variant	type	gene_name	transcript_name	transcript_species	transcript_source	transcript_version	strand	transcript_status	trv_type	c_position	amino_acid_change	ucsc_cons	domain	all_domains	deletion_substructures	transcript_error	NormalRefReads_WU	NormalVarReads_WU	NormalVAF_WU	TumorRefReads_WU	TumorVarReads_WU	TumorVAF_WU	RNARefReads_WU	RNAVarReads_WU	RNAVAF_WU
MT-CYB	0	genome.wustl.edu	36	MT	14767	14767	+	Missense_Mutation	SNP	T	T	C			TCGA-AB-2859-03B-01W-0728-08	TCGA-AB-2859-11B-01W-0729-08	T	T	T	C	T	T	Verified	Valid	Somatic	Phase_IV	WXS	Hybrid_Capture_Illumina_Seq	1	dbGAP	Illumina HiSeq	b4f66f34-4aa4-413b-b4ca-21ec2c850d0c	db602e88-3b9e-4f38-9035-91bdcec0962f	MT	14767	14767	T	C	SNP	MT-CYB	ENST00000361789	human	ensembl	54_36p	+1	known	missense	c.20	p.I7T	NULL	superfamily_Transmembr_di-haem_cytochrome	HMMPfam_Cytochrom_B_N,HMMPfam_Cytochrom_B_C,superfamily_Cytochrome_b/b6_C,superfamily_Transmembr_di-haem_cytochrome	-	no_stop_codon:bad_bp_length_for_coding_region	2497	27	1.07	804	165	16.77	NA	NA	NA
TFDP3	0	genome.wustl.edu	36	X	132178772	132178772	+	Silent	SNP	G	G	A			TCGA-AB-2859-03B-01W-0728-08	TCGA-AB-2859-11B-01W-0729-08	G	G	G	A	G	G	Verified	Valid	Somatic	Phase_IV	WXS	Hybrid_Capture_Illumina_Seq	1	dbGAP	Illumina HiSeq	b4f66f34-4aa4-413b-b4ca-21ec2c850d0c	db602e88-3b9e-4f38-9035-91bdcec0962f	X	132178772	132178772	G	A	SNP	TFDP3	NM_016521.2	human	genbank	54_36p	-1	validated	silent	c.1002	p.N334	1.000	NULL	"HMMPfam_E2F_TDP,HMMPfam_DP,superfamily_""Winged helix"" DNA-binding domain"	-	no_errors	71	0	0.00	98	193	65.87	NA	NA	NA
FAM212B	0	genome.wustl.edu	36	1	112071820	112071820	+	Missense_Mutation	SNP	C	C	T			TCGA-AB-2859-03B-01W-0728-08	TCGA-AB-2859-11B-01W-0729-08	C	C	C	T	C	C	Verified	Valid	Somatic	Phase_IV	WXS	Hybrid_Capture_Illumina_Seq	1	dbGAP	Illumina HiSeq	b4f66f34-4aa4-413b-b4ca-21ec2c850d0c	db602e88-3b9e-4f38-9035-91bdcec0962f	1	112071820	112071820	C	T	SNP	C1orf183	NM_019099.3	human	genbank	54_36p	-1	validated	missense	c.187	p.V63M	0.002	NULL	NULL	-	no_errors	248	2	0.80	539	325	37.10	1	3	75.00
FAM58BP	0	genome.wustl.edu	36	1	198449681	198449681	+	Missense_Mutation	SNP	G	G	A			TCGA-AB-2859-03B-01W-0728-08	TCGA-AB-2859-11B-01W-0729-08	G	G	G	A	G	G	Verified	Valid	Somatic	Phase_IV	WXS	Hybrid_Capture_Illumina_Seq	1	dbGAP	Illumina HiSeq	b4f66f34-4aa4-413b-b4ca-21ec2c850d0c	db602e88-3b9e-4f38-9035-91bdcec0962f	1	198449681	198449681	G	A	SNP	FAM58B	NM_001105517.1	human	genbank	54_36p	+1	inferred	missense	c.367	p.D123N	1.000	HMMSmart_CYCLIN,superfamily_Cyclin_like	HMMSmart_CYCLIN,PatternScan_CYCLINS,superfamily_Cyclin_like	-	no_errors	108	0	0.00	505	246	32.33	NA	NA	NA
DNMT3A	0	genome.wustl.edu	36	2	25310746	25310746	+	Missense_Mutation	SNP	C	C	T			TCGA-AB-2859-03B-01W-0728-08	TCGA-AB-2859-11B-01W-0729-08	C	C	C	T	C	C	Verified	Valid	Somatic	Phase_IV	WXS	Hybrid_Capture_Illumina_Seq	1	dbGAP	Illumina HiSeq	b4f66f34-4aa4-413b-b4ca-21ec2c850d0c	db602e88-3b9e-4f38-9035-91bdcec0962f	2	25310746	25310746	C	T	SNP	DNMT3A	NM_022552.3	human	genbank	54_36p	-1	reviewed	missense	c.2645	p.R882H	1.000	superfamily_S-adenosyl-L-methionine-dependent methyltransferases	HMMPfam_PWWP,HMMSmart_SM00293,HMMPfam_DNA_methylase,superfamily_FYVE/PHD zinc finger,PatternScan_C5_MTASE_1,superfamily_S-adenosyl-L-methionine-dependent methyltransferases,superfamily_Tudor/PWWP/MBT	-	no_errors	121	3	2.42	169	94	35.61	33	34	50.75
PRDM9	0	genome.wustl.edu	36	5	23562543	23562543	+	Missense_Mutation	SNP	G	G	A			TCGA-AB-2859-03B-01W-0728-08	TCGA-AB-2859-11B-01W-0729-08	G	G	G	A	G	G	Verified	Valid	Somatic	Phase_IV	WXS	Hybrid_Capture_Illumina_Seq	1	dbGAP	Illumina HiSeq	b4f66f34-4aa4-413b-b4ca-21ec2c850d0c	db602e88-3b9e-4f38-9035-91bdcec0962f	5	23562543	23562543	G	A	SNP	PRDM9	NM_020227.2	human	genbank	54_36p	+1	provisional	missense	c.1589	p.G530E	0.974	HMMSmart_ZnF_C2H2	HMMSmart_SET,HMMPfam_KRAB,HMMSmart_KRAB,superfamily_Krueppel-associated_box,HMMPfam_zf-C2H2,PatternScan_ZINC_FINGER_C2H2_1,HMMSmart_ZnF_C2H2,HMMPfam_SSXRD,superfamily_SSF57667,superfamily_SSF82199	-	no_errors	144	0	0.00	369	191	33.87	NA	NA	NA
RREB1	0	genome.wustl.edu	36	6	7175590	7175590	+	Silent	SNP	C	C	G			TCGA-AB-2859-03B-01W-0728-08	TCGA-AB-2859-11B-01W-0729-08	C	C	C	G	C	C	Verified	Valid	Somatic	Phase_IV	WXS	Hybrid_Capture_Illumina_Seq	1	dbGAP	Illumina HiSeq	b4f66f34-4aa4-413b-b4ca-21ec2c850d0c	db602e88-3b9e-4f38-9035-91bdcec0962f	6	7175590	7175590	C	G	SNP	RREB1	NM_001003699.2	human	genbank	54_36p	+1	validated	silent	c.2259	p.T753	0.984	HMMPfam_zf-C2H2,HMMSmart_ZnF_C2H2	HMMPfam_zf-C2H2,PatternScan_ZINC_FINGER_C2H2_1,HMMSmart_ZnF_C2H2,superfamily_SSF57667	-	no_errors	53	1	1.85	79	53	39.85	35	42	54.55
MTUS1	0	genome.wustl.edu	36	8	17586240	17586240	+	Silent	SNP	C	C	T			TCGA-AB-2859-03B-01W-0728-08	TCGA-AB-2859-11B-01W-0729-08	C	C	C	T	C	C	Verified	Valid	Somatic	Phase_IV	WXS	Hybrid_Capture_Illumina_Seq	1	dbGAP	Illumina HiSeq	b4f66f34-4aa4-413b-b4ca-21ec2c850d0c	db602e88-3b9e-4f38-9035-91bdcec0962f	8	17586240	17586240	C	T	SNP	MTUS1	NM_001001924.2	human	genbank	54_36p	-1	reviewed	silent	c.2715	p.L905	0.954	NULL	NULL	-	no_errors	214	1	0.46	603	218	26.17	2	0	0.00
OR51A7	0	genome.wustl.edu	36	11	4886017	4886017	+	Missense_Mutation	SNP	T	T	G			TCGA-AB-2859-03B-01W-0728-08	TCGA-AB-2859-11B-01W-0729-08	T	T	T	G	T	T	Verified	Valid	Somatic	Phase_IV	WXS	Hybrid_Capture_Illumina_Seq	1	dbGAP	Illumina HiSeq	b4f66f34-4aa4-413b-b4ca-21ec2c850d0c	db602e88-3b9e-4f38-9035-91bdcec0962f	11	4886017	4886017	T	G	SNP	OR51A7	NM_001004749.1	human	genbank	54_36p	+1	provisional	missense	c.842	p.L281W	0.120	HMMPfam_7tm_1,superfamily_SSF81321	HMMPfam_7tm_1,PatternScan_G_PROTEIN_RECEP_F1_1,superfamily_SSF81321	-	no_errors	205	4	1.91	382	230	37.40	NA	NA	NA
VPS26B	0	genome.wustl.edu	36	11	133600282	133600282	+	Missense_Mutation	SNP	C	C	G			TCGA-AB-2859-03B-01W-0728-08	TCGA-AB-2859-11B-01W-0729-08	C	C	C	G	C	C	Verified	Valid	Somatic	Phase_IV	WXS	Hybrid_Capture_Illumina_Seq	1	dbGAP	Illumina HiSeq	b4f66f34-4aa4-413b-b4ca-21ec2c850d0c	db602e88-3b9e-4f38-9035-91bdcec0962f	11	133600282	133600282	C	G	SNP	VPS26B	NM_052875.3	human	genbank	54_36p	+1	validated	missense	c.56	p.A19G	0.999	HMMPfam_Vps26	HMMPfam_Vps26	-	no_errors	249	20	7.43	97	90	48.13	41	36	46.75
KRTAP4-2	0	genome.wustl.edu	36	17	36587840	36587840	+	Missense_Mutation	SNP	A	A	T			TCGA-AB-2859-03B-01W-0728-08	TCGA-AB-2859-11B-01W-0729-08	A	A	A	T	A	A	Verified	Valid	Somatic	Phase_IV	WXS	Hybrid_Capture_Illumina_Seq	1	dbGAP	Illumina HiSeq	b4f66f34-4aa4-413b-b4ca-21ec2c850d0c	db602e88-3b9e-4f38-9035-91bdcec0962f	17	36587840	36587840	A	T	SNP	KRTAP4-2	NM_033062.2	human	genbank	54_36p	-1	reviewed	missense	c.103	p.C35S	1.000	HMMPfam_Keratin_B2	HMMPfam_Keratin_B2	-	no_errors	72	1	1.37	213	52	19.55	NA	NA	NA
KRT13	0	genome.wustl.edu	36	17	36912478	36912478	+	Missense_Mutation	SNP	G	G	A			TCGA-AB-2859-03B-01W-0728-08	TCGA-AB-2859-11B-01W-0729-08	G	G	G	A	G	G	Verified	Valid	Somatic	Phase_IV	WXS	Hybrid_Capture_Illumina_Seq	1	dbGAP	Illumina HiSeq	b4f66f34-4aa4-413b-b4ca-21ec2c850d0c	db602e88-3b9e-4f38-9035-91bdcec0962f	17	36912478	36912478	G	A	SNP	KRT13	NM_153490.3	human	genbank	54_36p	-1	reviewed	missense	c.1010	p.S337F	0.999	superfamily_Prefoldin,HMMPfam_Filament	superfamily_Prefoldin,HMMPfam_Filament,PatternScan_IF	-	no_errors	151	0	0.00	188	93	32.63	NA	NA	NA
COL18A1-AS1	0	genome.wustl.edu	36	21	45665860	45665860	+	Silent	SNP	G	G	A			TCGA-AB-2859-03B-01W-0728-08	TCGA-AB-2859-11B-01W-0729-08	G	G	G	A	G	G	Verified	Valid	Somatic	Phase_IV	WXS	Hybrid_Capture_Illumina_Seq	1	dbGAP	Illumina HiSeq	b4f66f34-4aa4-413b-b4ca-21ec2c850d0c	db602e88-3b9e-4f38-9035-91bdcec0962f	21	45665860	45665860	G	A	SNP	C21orf123	ENST00000330082	human	ensembl	54_36p	-1	known	silent	c.256	p.L86	0.023	NULL	NULL	-	no_errors	42	0	0.00	35	16	31.37	NA	NA	NA
NPM1	0	genome.wustl.edu	36	5	170770150	170770151	+	Frame_Shift_Ins	INS	-	-	CTGC			TCGA-AB-2859-03B-01W-0728-08	TCGA-AB-2859-11B-01W-0729-08	-	-	-	CTGC	-	-	Verified	Valid	Somatic	Phase_IV	WXS	Hybrid_Capture_Illumina_Seq	1	dbGAP	Illumina HiSeq	b4f66f34-4aa4-413b-b4ca-21ec2c850d0c	db602e88-3b9e-4f38-9035-91bdcec0962f	5	170770150	170770151	-	CTGC	INS	NPM1	NM_002520.1	human	genbank	54_36p	+1	validated	frame_shift_ins	c.861_862	p.W287fs	1.000:1.000	NULL	HMMPfam_Nucleoplasmin,superfamily_Nucleoplasmin-like core domain	-	no_errors	NA	NA	NA	NA	NA	NA	NA	NA	NA
HNRNPK	0	genome.wustl.edu	36	9	85781739	85781740	+	Frame_Shift_Del	DEL	GA	GA	-			TCGA-AB-2859-03B-01W-0728-08	TCGA-AB-2859-11B-01W-0729-08	GA	GA	GA	-	GA	GA	Verified	Valid	Somatic	Phase_IV	WXS	Hybrid_Capture_Illumina_Seq	1	dbGAP	Illumina HiSeq	b4f66f34-4aa4-413b-b4ca-21ec2c850d0c	db602e88-3b9e-4f38-9035-91bdcec0962f	9	85781739	85781740	GA	-	DEL	HNRNPK	NM_002140.3	human	genbank	54_36p	-1	reviewed	frame_shift_del	c.204_203	p.L68fs	0.999:1.000	HMMSmart_SM00322,HMMPfam_KH_1,superfamily_Eukaryotic type KH-domain (KH-domain type I)	HMMSmart_SM00322,HMMPfam_ROKNT,HMMPfam_KH_1,superfamily_Eukaryotic type KH-domain (KH-domain type I)	-	no_errors	0	0	0.00	0	73	29.32	0	3	23.08
USP10	0	genome.wustl.edu	36	16	83336744	83336744	+	Frame_Shift_Del	DEL	C	C	-			TCGA-AB-2859-03B-01W-0728-08	TCGA-AB-2859-11B-01W-0729-08	C	C	C	-	C	C	Verified	Valid	Somatic	Phase_IV	WXS	Hybrid_Capture_Illumina_Seq	1	dbGAP	Illumina HiSeq	b4f66f34-4aa4-413b-b4ca-21ec2c850d0c	db602e88-3b9e-4f38-9035-91bdcec0962f	16	83336744	83336744	C	-	DEL	USP10	NM_005153.2	human	genbank	54_36p	+1	reviewed	frame_shift_del	c.1156	p.P386fs	1.000	NULL	HMMPfam_UCH,HMMPfam_PAM2,PatternScan_UCH_2_1,PatternScan_UCH_2_2,superfamily_SSF54001	-	no_errors	36	0	0.00	215	81	27.00	16	3	15.00
MIR516B1	0	genome.wustl.edu	36	19	58931994	58931995	+	RNA	DEL	TT	TT	-			TCGA-AB-2859-03B-01W-0728-08	TCGA-AB-2859-11B-01W-0729-08	TT	TT	TT	-	TT	TT	Verified	Valid	Somatic	Phase_IV	WXS	Hybrid_Capture_Illumina_Seq	1	dbGAP	Illumina HiSeq	b4f66f34-4aa4-413b-b4ca-21ec2c850d0c	db602e88-3b9e-4f38-9035-91bdcec0962f	19	58931994	58931995	TT	-	DEL	MIRN516B1	ENST00000385211	human	ensembl	54_36p	+1	known	rna	NULL	NULL	0.000:0.000	-	-	-	no_errors	0	0	0.00	0	8	9.76	0	0	0.00