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
ENSG00000210082	0	genome.wustl.edu	36	MT	1872	1872	+	RNA	SNP	A	A	G			TCGA-AB-2908-03A-01W-0745-08	TCGA-AB-2908-11A-01W-0745-08	A	A	A	G	A	A	Verified	Valid	Somatic	Phase_IV	WXS	Hybrid_Capture_Illumina_Seq	1	dbGAP	Illumina HiSeq	a5785202-6842-4bf5-a4f6-c4e39a1b6521	77e017cf-a152-4721-9e70-2ee2806ae6cc	MT	1872	1872	A	G	SNP	ENSG00000210082	ENST00000387347	human	ensembl	54_36p	+1	known	rna	NULL	NULL	NULL	-	-	-	no_errors	1354	17	1.24	2584	967	26.95	NA	NA	NA
MT-CO1	0	genome.wustl.edu	36	MT	6721	6721	+	Missense_Mutation	SNP	A	A	G			TCGA-AB-2908-03A-01W-0745-08	TCGA-AB-2908-11A-01W-0745-08	A	A	A	G	A	A	Verified	Valid	Somatic	Phase_IV	WXS	Hybrid_Capture_Illumina_Seq	1	dbGAP	Illumina HiSeq	a5785202-6842-4bf5-a4f6-c4e39a1b6521	77e017cf-a152-4721-9e70-2ee2806ae6cc	MT	6721	6721	A	G	SNP	MT-CO1	ENST00000361624	human	ensembl	54_36p	+1	known	missense	c.817	p.M273V	NULL	HMMPfam_COX1,PatternScan_COX1_CUB,superfamily_Cytochrome^^_^^c^^_^^oxidase^^_^^subunit^^_^^I-like	HMMPfam_COX1,PatternScan_COX1_CUB,superfamily_Cytochrome^^_^^c^^_^^oxidase^^_^^subunit^^_^^I-like	-	no_stop_codon	2661	39	1.44	5528	2014	26.54	NA	NA	NA
ARID1A	0	genome.wustl.edu	36	1	26974278	26974278	+	Missense_Mutation	SNP	G	G	A			TCGA-AB-2908-03A-01W-0745-08	TCGA-AB-2908-11A-01W-0745-08	G	G	G	A	G	G	Verified	Valid	Somatic	Phase_IV	WXS	Hybrid_Capture_Illumina_Seq	1	dbGAP	Illumina HiSeq	a5785202-6842-4bf5-a4f6-c4e39a1b6521	77e017cf-a152-4721-9e70-2ee2806ae6cc	1	26974278	26974278	G	A	SNP	ARID1A	NM_006015.4	human	genbank	54_36p	+1	reviewed	missense	c.4973	p.R1658Q	1.000	NULL	HMMPfam_ARID,HMMSmart_SM00501,superfamily_ARID-like	-	no_errors	204	6	2.86	150	98	39.36	64	62	49.21
SLAMF7	0	genome.wustl.edu	36	1	158984926	158984926	+	Missense_Mutation	SNP	A	A	G			TCGA-AB-2908-03A-01W-0745-08	TCGA-AB-2908-11A-01W-0745-08	A	A	A	G	A	A	Verified	Valid	Somatic	Phase_IV	WXS	Hybrid_Capture_Illumina_Seq	1	dbGAP	Illumina HiSeq	a5785202-6842-4bf5-a4f6-c4e39a1b6521	77e017cf-a152-4721-9e70-2ee2806ae6cc	1	158984926	158984926	A	G	SNP	SLAMF7	NM_021181.3	human	genbank	54_36p	+1	provisional	missense	c.374	p.Y125C	0.922	HMMPfam_V-set,superfamily_Immunoglobulin	HMMPfam_V-set,superfamily_Immunoglobulin	-	no_errors	347	9	2.53	295	155	34.29	31	0	0.00
DNMT3A	0	genome.wustl.edu	36	2	25310747	25310747	+	Missense_Mutation	SNP	G	G	A			TCGA-AB-2908-03A-01W-0745-08	TCGA-AB-2908-11A-01W-0745-08	G	G	G	A	G	G	Verified	Valid	Somatic	Phase_IV	WXS	Hybrid_Capture_Illumina_Seq	1	dbGAP	Illumina HiSeq	a5785202-6842-4bf5-a4f6-c4e39a1b6521	77e017cf-a152-4721-9e70-2ee2806ae6cc	2	25310747	25310747	G	A	SNP	DNMT3A	NM_022552.3	human	genbank	54_36p	-1	reviewed	missense	c.2644	p.R882C	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	99	4	3.88	91	65	41.67	37	39	51.32
TET2	0	genome.wustl.edu	36	4	106384227	106384227	+	Nonsense_Mutation	SNP	C	C	T			TCGA-AB-2908-03A-01W-0745-08	TCGA-AB-2908-11A-01W-0745-08	C	C	C	T	C	C	Verified	Valid	Somatic	Phase_IV	WXS	Hybrid_Capture_Illumina_Seq	1	dbGAP	Illumina HiSeq	a5785202-6842-4bf5-a4f6-c4e39a1b6521	77e017cf-a152-4721-9e70-2ee2806ae6cc	4	106384227	106384227	C	T	SNP	TET2	ENST00000265149	human	ensembl	54_36p	+1	known	nonsense	c.52	p.R18*	1.000	NULL	NULL	-	no_start_codon	67	3	4.29	119	71	36.98	8	8	50.00
PCDHA8	0	genome.wustl.edu	36	5	140202942	140202942	+	Missense_Mutation	SNP	C	C	A			TCGA-AB-2908-03A-01W-0745-08	TCGA-AB-2908-11A-01W-0745-08	C	C	C	A	C	C	Verified	Valid	Somatic	Phase_IV	WXS	Hybrid_Capture_Illumina_Seq	1	dbGAP	Illumina HiSeq	a5785202-6842-4bf5-a4f6-c4e39a1b6521	77e017cf-a152-4721-9e70-2ee2806ae6cc	5	140202942	140202942	C	A	SNP	PCDHA8	NM_018911.2	human	genbank	54_36p	+1	reviewed	missense	c.1852	p.P618T	0.001	HMMPfam_Cadherin,HMMSmart_SM00112,superfamily_Cadherin-like	HMMPfam_Cadherin,HMMSmart_SM00112,PatternScan_CADHERIN_1,HMMPfam_Cadherin_2,superfamily_Cadherin-like	-	no_errors	36	0	0.00	7	29	80.56	NA	NA	NA
STK32A	0	genome.wustl.edu	36	5	146732949	146732949	+	Nonsense_Mutation	SNP	C	C	T			TCGA-AB-2908-03A-01W-0745-08	TCGA-AB-2908-11A-01W-0745-08	C	C	C	T	C	C	Verified	Valid	Somatic	Phase_IV	WXS	Hybrid_Capture_Illumina_Seq	1	dbGAP	Illumina HiSeq	a5785202-6842-4bf5-a4f6-c4e39a1b6521	77e017cf-a152-4721-9e70-2ee2806ae6cc	5	146732949	146732949	C	T	SNP	STK32A	ENST00000306304	human	ensembl	54_36p	+1	known	nonsense	c.802	p.R268*	0.997	HMMSmart_S_TKc,superfamily_Kinase_like,HMMPfam_Pkinase	HMMSmart_S_TKc,PatternScan_PROTEIN_KINASE_ST,superfamily_Kinase_like,PatternScan_PROTEIN_KINASE_ATP,HMMPfam_Pkinase	-	no_errors	220	1	0.45	69	108	60.67	NA	NA	NA
GRM3	0	genome.wustl.edu	36	7	86306304	86306304	+	Missense_Mutation	SNP	G	G	C			TCGA-AB-2908-03A-01W-0745-08	TCGA-AB-2908-11A-01W-0745-08	G	G	G	C	G	G	Verified	Valid	Somatic	Phase_IV	WXS	Hybrid_Capture_Illumina_Seq	1	dbGAP	Illumina HiSeq	a5785202-6842-4bf5-a4f6-c4e39a1b6521	77e017cf-a152-4721-9e70-2ee2806ae6cc	7	86306304	86306304	G	C	SNP	GRM3	NM_000840.2	human	genbank	54_36p	+1	reviewed	missense	c.1538	p.C513S	1.000	HMMPfam_NCD3G,superfamily_Periplasmic binding protein-like I	HMMPfam_ANF_receptor,HMMPfam_NCD3G,HMMPfam_7tm_3,PatternScan_G_PROTEIN_RECEP_F3_1,PatternScan_G_PROTEIN_RECEP_F3_2,PatternScan_G_PROTEIN_RECEP_F3_3,superfamily_Periplasmic binding protein-like I	-	no_errors	155	5	3.12	106	72	39.78	NA	NA	NA
ESCO2	0	genome.wustl.edu	36	8	27690517	27690517	+	Missense_Mutation	SNP	G	G	A			TCGA-AB-2908-03A-01W-0745-08	TCGA-AB-2908-11A-01W-0745-08	G	G	G	A	G	G	Verified	Valid	Somatic	Phase_IV	WXS	Hybrid_Capture_Illumina_Seq	1	dbGAP	Illumina HiSeq	a5785202-6842-4bf5-a4f6-c4e39a1b6521	77e017cf-a152-4721-9e70-2ee2806ae6cc	8	27690517	27690517	G	A	SNP	ESCO2	NM_001017420.2	human	genbank	54_36p	+1	reviewed	missense	c.773	p.R258K	0.001	NULL	NULL	-	no_errors	70	2	2.78	108	64	36.78	4	4	50.00
FLJ43860	0	genome.wustl.edu	36	8	142550446	142550446	+	Missense_Mutation	SNP	G	G	T			TCGA-AB-2908-03A-01W-0745-08	TCGA-AB-2908-11A-01W-0745-08	G	G	G	T	G	G	Verified	Valid	Somatic	Phase_IV	WXS	Hybrid_Capture_Illumina_Seq	1	dbGAP	Illumina HiSeq	a5785202-6842-4bf5-a4f6-c4e39a1b6521	77e017cf-a152-4721-9e70-2ee2806ae6cc	8	142550446	142550446	G	T	SNP	FLJ43860	NM_207414.2	human	genbank	54_36p	-1	validated	missense	c.1897	p.Q633K	0.639	superfamily_ARM repeat	HMMPfam_HEAT,superfamily_ARM repeat	-	pseudogene	325	1	0.31	224	110	32.54	NA	NA	NA
SMC3	0	genome.wustl.edu	36	10	112351822	112351822	+	Missense_Mutation	SNP	A	A	G			TCGA-AB-2908-03A-01W-0745-08	TCGA-AB-2908-11A-01W-0745-08	A	A	A	G	A	A	Verified	Valid	Somatic	Phase_IV	WXS	Hybrid_Capture_Illumina_Seq	1	dbGAP	Illumina HiSeq	a5785202-6842-4bf5-a4f6-c4e39a1b6521	77e017cf-a152-4721-9e70-2ee2806ae6cc	10	112351822	112351822	A	G	SNP	SMC3	NM_005445.3	human	genbank	54_36p	+1	reviewed	missense	c.3001	p.I1001V	1.000	HMMPfam_SMC_N,superfamily_P-loop containing nucleoside triphosphate hydrolases	HMMPfam_SMC_N,HMMPfam_SMC_hinge,superfamily_Smc hinge domain,PatternScan_ABC_TRANSPORTER_1,superfamily_P-loop containing nucleoside triphosphate hydrolases,superfamily_BAG domain	-	no_errors	46	1	2.13	46	51	52.04	25	28	52.83
TMPRSS13	0	genome.wustl.edu	36	11	117290332	117290332	+	Missense_Mutation	SNP	C	C	T			TCGA-AB-2908-03A-01W-0745-08	TCGA-AB-2908-11A-01W-0745-08	C	C	C	T	C	C	Verified	Valid	Somatic	Phase_IV	WXS	Hybrid_Capture_Illumina_Seq	1	dbGAP	Illumina HiSeq	a5785202-6842-4bf5-a4f6-c4e39a1b6521	77e017cf-a152-4721-9e70-2ee2806ae6cc	11	117290332	117290332	C	T	SNP	TMPRSS13	NM_001077263.1	human	genbank	54_36p	-1	validated	missense	c.664	p.D222N	0.962	NULL	HMMPfam_Trypsin,HMMSmart_SM00020,superfamily_Trypsin-like serine proteases,HMMSmart_SM00202,superfamily_SRCR-like,PatternScan_TRYPSIN_HIS,PatternScan_TRYPSIN_SER	-	no_errors	190	14	6.86	105	81	43.55	5	0	0.00
LOC338870	0	genome.wustl.edu	36	13	20566654	20566654	+	RNA	SNP	G	G	A			TCGA-AB-2908-03A-01W-0745-08	TCGA-AB-2908-11A-01W-0745-08	G	G	G	A	G	G	Verified	Valid	Somatic	Phase_IV	WXS	Hybrid_Capture_Illumina_Seq	1	dbGAP	Illumina HiSeq	a5785202-6842-4bf5-a4f6-c4e39a1b6521	77e017cf-a152-4721-9e70-2ee2806ae6cc	13	20566654	20566654	G	A	SNP	LOC338870	XR_016327.2	human	genbank	54_36p	-1	model	rna	NULL	NULL	1.000	-	-	-	pseudogene	199	5	2.45	100	67	39.88	1	12	92.31
POLE2	0	genome.wustl.edu	36	14	49187773	49187773	+	Silent	SNP	G	G	T			TCGA-AB-2908-03A-01W-0745-08	TCGA-AB-2908-11A-01W-0745-08	G	G	G	T	G	G	Verified	Valid	Somatic	Phase_IV	WXS	Hybrid_Capture_Illumina_Seq	1	dbGAP	Illumina HiSeq	a5785202-6842-4bf5-a4f6-c4e39a1b6521	77e017cf-a152-4721-9e70-2ee2806ae6cc	14	49187773	49187773	G	T	SNP	POLE2	NM_002692.2	human	genbank	54_36p	-1	provisional	silent	c.1284	p.V428	1.000	HMMPfam_DNA_pol_E_B	HMMPfam_DNA_pol_E_B	-	no_errors	104	0	0.00	99	49	33.11	34	30	46.88
TJP1	0	genome.wustl.edu	36	15	27788125	27788125	+	Missense_Mutation	SNP	A	A	G			TCGA-AB-2908-03A-01W-0745-08	TCGA-AB-2908-11A-01W-0745-08	A	A	A	G	A	A	Verified	Valid	Somatic	Phase_IV	WXS	Hybrid_Capture_Illumina_Seq	1	dbGAP	Illumina HiSeq	a5785202-6842-4bf5-a4f6-c4e39a1b6521	77e017cf-a152-4721-9e70-2ee2806ae6cc	15	27788125	27788125	A	G	SNP	TJP1	NM_003257.3	human	genbank	54_36p	-1	validated	missense	c.4780	p.S1594P	1.000	NULL	HMMPfam_ZU5,HMMSmart_SM00218,superfamily_SH3-domain,HMMPfam_PDZ,HMMSmart_SM00228,superfamily_PDZ domain-like,HMMPfam_Guanylate_kin,HMMSmart_SM00072,HMMPfam_SH3_2,HMMPfam_Gua_kin_assoc_C,superfamily_P-loop containing nucleoside triphosphate hydrolases	-	no_errors	150	4	2.60	127	72	36.18	NA	NA	NA
CNTNAP4	0	genome.wustl.edu	36	16	75081173	75081173	+	Missense_Mutation	SNP	G	G	A			TCGA-AB-2908-03A-01W-0745-08	TCGA-AB-2908-11A-01W-0745-08	G	G	G	A	G	G	Verified	Valid	Somatic	Phase_IV	WXS	Hybrid_Capture_Illumina_Seq	1	dbGAP	Illumina HiSeq	a5785202-6842-4bf5-a4f6-c4e39a1b6521	77e017cf-a152-4721-9e70-2ee2806ae6cc	16	75081173	75081173	G	A	SNP	CNTNAP4	NM_138994.3	human	genbank	54_36p	+1	validated	missense	c.1753	p.E585K	0.993	superfamily_Concanavalin A-like lectins/glucanases	HMMPfam_F5_F8_type_C,HMMSmart_SM00231,PatternScan_FA58C_1,PatternScan_FA58C_2,HMMSmart_SM00282,superfamily_Fibrinogen C-terminal domain-like,HMMPfam_EGF,HMMSmart_SM00181,superfamily_Galactose-binding domain-like,superfamily_Concanavalin A-like lectins/glucanases,HMMPfam_Laminin_G_2	-	no_errors	148	2	1.33	135	85	38.12	NA	NA	NA
TP53	0	genome.wustl.edu	36	17	7517622	7517622	+	Nonsense_Mutation	SNP	G	G	A			TCGA-AB-2908-03A-01W-0745-08	TCGA-AB-2908-11A-01W-0745-08	G	G	G	A	G	G	Verified	Valid	Somatic	Phase_IV	WXS	Hybrid_Capture_Illumina_Seq	1	dbGAP	Illumina HiSeq	a5785202-6842-4bf5-a4f6-c4e39a1b6521	77e017cf-a152-4721-9e70-2ee2806ae6cc	17	7517622	7517622	G	A	SNP	TP53	NM_000546.4	human	genbank	54_36p	-1	reviewed	nonsense	c.949	p.Q317*	0.550	NULL	PatternScan_P53,superfamily_p53-like transcription factors,HMMPfam_P53_tetramer,superfamily_p53 tetramerization domain,HMMPfam_P53,HMMPfam_P53_TAD	-	no_errors	409	1	0.24	198	133	39.94	43	6	12.24
TP53	0	genome.wustl.edu	36	17	7519232	7519232	+	Missense_Mutation	SNP	G	G	C			TCGA-AB-2908-03A-01W-0745-08	TCGA-AB-2908-11A-01W-0745-08	G	G	G	C	G	G	Verified	Valid	Somatic	Phase_IV	WXS	Hybrid_Capture_Illumina_Seq	1	dbGAP	Illumina HiSeq	a5785202-6842-4bf5-a4f6-c4e39a1b6521	77e017cf-a152-4721-9e70-2ee2806ae6cc	17	7519232	7519232	G	C	SNP	TP53	NM_000546.4	human	genbank	54_36p	-1	reviewed	missense	c.423	p.C141W	1.000	superfamily_p53-like transcription factors,HMMPfam_P53	PatternScan_P53,superfamily_p53-like transcription factors,HMMPfam_P53_tetramer,superfamily_p53 tetramerization domain,HMMPfam_P53,HMMPfam_P53_TAD	-	no_errors	185	2	1.07	152	49	24.02	17	43	71.67
IKZF3	0	genome.wustl.edu	36	17	35175680	35175680	+	Silent	SNP	G	G	A			TCGA-AB-2908-03A-01W-0745-08	TCGA-AB-2908-11A-01W-0745-08	G	G	G	A	G	G	Verified	Valid	Somatic	Phase_IV	WXS	Hybrid_Capture_Illumina_Seq	1	dbGAP	Illumina HiSeq	a5785202-6842-4bf5-a4f6-c4e39a1b6521	77e017cf-a152-4721-9e70-2ee2806ae6cc	17	35175680	35175680	G	A	SNP	IKZF3	NM_012481.3	human	genbank	54_36p	-1	reviewed	silent	c.1419	p.C473	1.000	PatternScan_ZINC_FINGER_C2H2_1,HMMSmart_SM00355,superfamily_C2H2 and C2HC zinc fingers	HMMPfam_zf-C2H2,PatternScan_ZINC_FINGER_C2H2_1,HMMSmart_SM00355,superfamily_C2H2 and C2HC zinc fingers	-	no_errors	210	2	0.94	102	42	29.17	14	0	0.00
CYP2F1	0	genome.wustl.edu	36	19	46322534	46322534	+	Silent	SNP	C	C	T			TCGA-AB-2908-03A-01W-0745-08	TCGA-AB-2908-11A-01W-0745-08	C	C	C	T	C	C	Verified	Valid	Somatic	Phase_IV	WXS	Hybrid_Capture_Illumina_Seq	1	dbGAP	Illumina HiSeq	a5785202-6842-4bf5-a4f6-c4e39a1b6521	77e017cf-a152-4721-9e70-2ee2806ae6cc	19	46322534	46322534	C	T	SNP	CYP2F1	NM_000774.3	human	genbank	54_36p	+1	reviewed	silent	c.1035	p.A345	0.086	HMMPfam_p450,superfamily_Cytochrome P450	HMMPfam_p450,superfamily_Cytochrome P450,PatternScan_CYTOCHROME_P450	-	no_errors	126	2	1.56	60	24	28.24	NA	NA	NA
C1orf105	0	genome.wustl.edu	36	1	170692206	170692206	+	Frame_Shift_Del	DEL	T	T	-			TCGA-AB-2908-03A-01W-0745-08	TCGA-AB-2908-11A-01W-0745-08	T	T	T	-	T	T	Verified	Valid	Somatic	Phase_IV	WXS	Hybrid_Capture_Illumina_Seq	1	dbGAP	Illumina HiSeq	a5785202-6842-4bf5-a4f6-c4e39a1b6521	77e017cf-a152-4721-9e70-2ee2806ae6cc	1	170692206	170692206	T	-	DEL	C1orf105	NM_139240.2	human	genbank	54_36p	+1	predicted	frame_shift_del	c.227	p.L76fs	0.060	NULL	NULL	-	no_errors	164	2	1.20	125	66	34.20	0	0	0.00
KDM3B	0	genome.wustl.edu	36	5	137755699	137755699	+	Frame_Shift_Del	DEL	C	C	-			TCGA-AB-2908-03A-01W-0745-08	TCGA-AB-2908-11A-01W-0745-08	C	C	C	-	C	C	Verified	Valid	Somatic	Phase_IV	WXS	Hybrid_Capture_Illumina_Seq	1	dbGAP	Illumina HiSeq	a5785202-6842-4bf5-a4f6-c4e39a1b6521	77e017cf-a152-4721-9e70-2ee2806ae6cc	5	137755699	137755699	C	-	DEL	JMJD1B	NM_016604.3	human	genbank	54_36p	+1	validated	frame_shift_del	c.2479	p.Q827fs	1.000	NULL	HMMSmart_SM00558,HMMPfam_JmjC,superfamily_Clavaminate synthase-like	-	no_errors	106	1	0.93	42	45	48.39	6	21	72.41