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
SMC1A	0	genome.wustl.edu	36	X	53458666	53458666	+	Missense_Mutation	SNP	C	C	T			TCGA-AB-2844-03B-01W-0728-08	TCGA-AB-2844-11B-01W-0729-08	C	C	C	T	C	C	Verified	Valid	Somatic	Phase_IV	WXS	Hybrid_Capture_Illumina_Seq	1	dbGAP	Illumina HiSeq	4d9be233-933e-4375-a92d-ffa0ad9b08c8	6dd909da-225d-49c4-9dd0-fc061c8302d9	X	53458666	53458666	C	T	SNP	SMC1A	NM_006306.2	human	genbank	54_36p	-1	reviewed	missense	c.287	p.R96H	0.998	HMMPfam_SMC_N,superfamily_SSF52540	HMMPfam_SMC_N,HMMPfam_SMC_hinge,superfamily_SMC_hinge,superfamily_SSF52540	-	no_errors	138	11	7.24	2	8	80.00	1	65	98.48
LOC100130211	0	genome.wustl.edu	36	X	85301946	85301946	+	Missense_Mutation	SNP	G	G	A			TCGA-AB-2844-03B-01W-0728-08	TCGA-AB-2844-11B-01W-0729-08	G	G	G	A	G	G	Verified	Valid	Somatic	Phase_IV	WXS	Hybrid_Capture_Illumina_Seq	1	dbGAP	Illumina HiSeq	4d9be233-933e-4375-a92d-ffa0ad9b08c8	6dd909da-225d-49c4-9dd0-fc061c8302d9	X	85301946	85301946	G	A	SNP	LOC100130211	XM_001717632.1	human	genbank	54_36p	-1	model	missense	c.1055	p.A352V	1.000	NULL	HMMPfam_GTP_EFTU,HMMPfam_GTP_EFTU_D3,HMMPfam_GTP_EFTU_D2,superfamily_Translation proteins,superfamily_EF-Tu/eEF-1alpha/eIF2-gamma C-terminal domain,superfamily_P-loop containing nucleoside triphosphate hydrolases	-	pseudogene	30	4	11.76	1	30	96.77	3	0	0.00
PRPF3	0	genome.wustl.edu	36	1	148577342	148577342	+	Missense_Mutation	SNP	T	T	C			TCGA-AB-2844-03B-01W-0728-08	TCGA-AB-2844-11B-01W-0729-08	T	T	T	C	T	T	Verified	Valid	Somatic	Phase_IV	WXS	Hybrid_Capture_Illumina_Seq	1	dbGAP	Illumina HiSeq	4d9be233-933e-4375-a92d-ffa0ad9b08c8	6dd909da-225d-49c4-9dd0-fc061c8302d9	1	148577342	148577342	T	C	SNP	PRPF3	NM_004698.2	human	genbank	54_36p	+1	reviewed	missense	c.1118	p.I373T	1.000	HMMPfam_PRP3	HMMPfam_PWI,HMMSmart_SM00311,HMMPfam_PRP3,superfamily_PWI domain	-	no_errors	470	43	8.30	42	42	50.00	42	43	50.59
PSME4	0	genome.wustl.edu	36	2	53982167	53982167	+	Missense_Mutation	SNP	C	C	A			TCGA-AB-2844-03B-01W-0728-08	TCGA-AB-2844-11B-01W-0729-08	C	C	C	A	C	C	Verified	Valid	Somatic	Phase_IV	WXS	Hybrid_Capture_Illumina_Seq	1	dbGAP	Illumina HiSeq	4d9be233-933e-4375-a92d-ffa0ad9b08c8	6dd909da-225d-49c4-9dd0-fc061c8302d9	2	53982167	53982167	C	A	SNP	PSME4	NM_014614.2	human	genbank	54_36p	-1	validated	missense	c.2767	p.G923C	1.000	superfamily_ARM repeat	HMMPfam_HEAT,superfamily_ARM repeat	-	no_errors	96	9	8.57	34	53	60.92	19	25	56.82
SENP7	0	genome.wustl.edu	36	3	102619278	102619278	+	Nonsense_Mutation	SNP	G	G	A			TCGA-AB-2844-03B-01W-0728-08	TCGA-AB-2844-11B-01W-0729-08	G	G	G	A	G	G	Verified	Valid	Somatic	Phase_IV	WXS	Hybrid_Capture_Illumina_Seq	1	dbGAP	Illumina HiSeq	4d9be233-933e-4375-a92d-ffa0ad9b08c8	6dd909da-225d-49c4-9dd0-fc061c8302d9	3	102619278	102619278	G	A	SNP	SENP7	NM_020654.1	human	genbank	54_36p	-1	validated	nonsense	c.331	p.R111*	1.000	NULL	HMMPfam_Peptidase_C48,superfamily_Cysteine proteinases	-	no_errors	116	8	6.45	54	47	46.53	8	6	42.86
TRA2B	0	genome.wustl.edu	36	3	187126059	187126059	+	Missense_Mutation	SNP	G	G	C			TCGA-AB-2844-03B-01W-0728-08	TCGA-AB-2844-11B-01W-0729-08	G	G	G	C	G	G	Verified	Valid	Somatic	Phase_IV	WXS	Hybrid_Capture_Illumina_Seq	1	dbGAP	Illumina HiSeq	4d9be233-933e-4375-a92d-ffa0ad9b08c8	6dd909da-225d-49c4-9dd0-fc061c8302d9	3	187126059	187126059	G	C	SNP	TRA2B	NM_004593.2	human	genbank	54_36p	-1	validated	missense	c.220	p.R74G	1.000	NULL	HMMPfam_RRM_1,HMMSmart_SM00360,superfamily_RNA-binding domain RBD	-	no_errors	137	8	5.48	31	37	53.62	150	124	45.09
PCDHB18	0	genome.wustl.edu	36	5	140595924	140595924	+	Silent	SNP	C	C	A			TCGA-AB-2844-03B-01W-0728-08	TCGA-AB-2844-11B-01W-0729-08	C	C	C	A	C	C	Verified	Valid	Somatic	Phase_IV	WXS	Hybrid_Capture_Illumina_Seq	1	dbGAP	Illumina HiSeq	4d9be233-933e-4375-a92d-ffa0ad9b08c8	6dd909da-225d-49c4-9dd0-fc061c8302d9	5	140595924	140595924	C	A	SNP	PCDHB18	ENST00000274705	human	ensembl	54_36p	+1	known	silent	c.1455	p.S485	0.981	HMMPfam_Cadherin,HMMSmart_CA,superfamily_Cadherin	HMMPfam_Cadherin,HMMSmart_CA,PatternScan_CADHERIN_1,HMMPfam_Cadherin_2,superfamily_Cadherin	-	no_errors	51	0	0.00	9	9	50.00	0	0	0.00
MUC17	0	genome.wustl.edu	36	7	100478014	100478014	+	Missense_Mutation	SNP	T	T	C			TCGA-AB-2844-03B-01W-0728-08	TCGA-AB-2844-11B-01W-0729-08	T	T	T	C	T	T	Verified	Valid	Somatic	Phase_IV	WXS	Hybrid_Capture_Illumina_Seq	1	dbGAP	Illumina HiSeq	4d9be233-933e-4375-a92d-ffa0ad9b08c8	6dd909da-225d-49c4-9dd0-fc061c8302d9	7	100478014	100478014	T	C	SNP	MUC17	NM_001040105.1	human	genbank	54_36p	+1	provisional	missense	c.12433	p.S4145P	0.000	superfamily_EGF/Laminin	HMMPfam_SEA,HMMSmart_SM00200,PatternScan_EGF_1,superfamily_EGF/Laminin,superfamily_SEA domain	-	no_errors	184	8	4.06	11	12	52.17	NA	NA	NA
SLC18A1	0	genome.wustl.edu	36	8	20082748	20082748	+	Missense_Mutation	SNP	C	C	T			TCGA-AB-2844-03B-01W-0728-08	TCGA-AB-2844-11B-01W-0729-08	C	C	C	T	C	C	Verified	Valid	Somatic	Phase_IV	WXS	Hybrid_Capture_Illumina_Seq	1	dbGAP	Illumina HiSeq	4d9be233-933e-4375-a92d-ffa0ad9b08c8	6dd909da-225d-49c4-9dd0-fc061c8302d9	8	20082748	20082748	C	T	SNP	SLC18A1	NM_003053.2	human	genbank	54_36p	-1	validated	missense	c.8	p.R3Q	0.065	NULL	HMMPfam_MFS_1,superfamily_MFS_gen_substrate_transporter	-	no_errors	111	9	7.38	33	21	38.89	NA	NA	NA
SMC5	0	genome.wustl.edu	36	9	72110092	72110092	+	Missense_Mutation	SNP	A	A	T			TCGA-AB-2844-03B-01W-0728-08	TCGA-AB-2844-11B-01W-0729-08	A	A	A	T	A	A	Verified	Valid	Somatic	Phase_IV	WXS	Hybrid_Capture_Illumina_Seq	1	dbGAP	Illumina HiSeq	4d9be233-933e-4375-a92d-ffa0ad9b08c8	6dd909da-225d-49c4-9dd0-fc061c8302d9	9	72110092	72110092	A	T	SNP	SMC5	NM_015110.3	human	genbank	54_36p	+1	validated	missense	c.1574	p.K525I	0.794	HMMPfam_SMC_N,superfamily_SSF52540	HMMPfam_SMC_N,superfamily_SSF52540	-	no_errors	108	9	7.50	63	53	45.69	18	18	50.00
KCNA1	0	genome.wustl.edu	36	12	4891072	4891072	+	Silent	SNP	C	C	T			TCGA-AB-2844-03B-01W-0728-08	TCGA-AB-2844-11B-01W-0729-08	C	C	C	T	C	C	Verified	Valid	Somatic	Phase_IV	WXS	Hybrid_Capture_Illumina_Seq	1	dbGAP	Illumina HiSeq	4d9be233-933e-4375-a92d-ffa0ad9b08c8	6dd909da-225d-49c4-9dd0-fc061c8302d9	12	4891072	4891072	C	T	SNP	KCNA1	NM_000217.2	human	genbank	54_36p	+1	reviewed	silent	c.267	p.F89	1.000	HMMSmart_BTB,HMMPfam_K_tetra,superfamily_BTB/POZ_fold	HMMSmart_BTB,HMMPfam_K_tetra,HMMPfam_Ion_trans,superfamily_BTB/POZ_fold,superfamily_SSF81324	-	no_errors	115	10	7.94	34	25	42.37	NA	NA	NA
FANCM	0	genome.wustl.edu	36	14	44703333	44703333	+	Missense_Mutation	SNP	G	G	A			TCGA-AB-2844-03B-01W-0728-08	TCGA-AB-2844-11B-01W-0729-08	G	G	G	A	G	G	Verified	Valid	Somatic	Phase_IV	WXS	Hybrid_Capture_Illumina_Seq	1	dbGAP	Illumina HiSeq	4d9be233-933e-4375-a92d-ffa0ad9b08c8	6dd909da-225d-49c4-9dd0-fc061c8302d9	14	44703333	44703333	G	A	SNP	FANCM	NM_020937.2	human	genbank	54_36p	+1	reviewed	missense	c.1603	p.G535S	1.000	HMMPfam_Helicase_C,HMMSmart_SM00490,superfamily_P-loop containing nucleoside triphosphate hydrolases	HMMPfam_Helicase_C,HMMSmart_SM00490,HMMPfam_ERCC4,superfamily_RuvA domain 2-like,superfamily_Restriction endonuclease-like,HMMPfam_DEAD,HMMSmart_SM00487,superfamily_P-loop containing nucleoside triphosphate hydrolases	-	no_errors	122	7	5.38	102	73	41.71	2	3	60.00
LOC642131	0	genome.wustl.edu	36	15	19974541	19974541	+	Missense_Mutation	SNP	T	T	C			TCGA-AB-2844-03B-01W-0728-08	TCGA-AB-2844-11B-01W-0729-08	T	T	T	C	T	T	Verified	Valid	Somatic	Phase_IV	WXS	Hybrid_Capture_Illumina_Seq	1	dbGAP	Illumina HiSeq	4d9be233-933e-4375-a92d-ffa0ad9b08c8	6dd909da-225d-49c4-9dd0-fc061c8302d9	15	19974541	19974541	T	C	SNP	LOC642131	XM_001716834.1	human	genbank	54_36p	-1	model	missense	c.115	p.K39E	0.784	HMMSmart_SM00409,HMMPfam_V-set,superfamily_Immunoglobulin	HMMSmart_SM00406,HMMSmart_SM00409,HMMPfam_V-set,superfamily_Immunoglobulin	-	no_errors	37	4	9.76	9	8	47.06	2	0	0.00
MAU2	0	genome.wustl.edu	36	19	19326222	19326222	+	Missense_Mutation	SNP	C	C	T			TCGA-AB-2844-03B-01W-0728-08	TCGA-AB-2844-11B-01W-0729-08	C	C	C	T	C	C	Verified	Valid	Somatic	Phase_IV	WXS	Hybrid_Capture_Illumina_Seq	1	dbGAP	Illumina HiSeq	4d9be233-933e-4375-a92d-ffa0ad9b08c8	6dd909da-225d-49c4-9dd0-fc061c8302d9	19	19326222	19326222	C	T	SNP	KIAA0892	NM_015329.3	human	genbank	54_36p	+1	validated	missense	c.1607	p.S536L	0.992	HMMPfam_Cohesin_load,superfamily_TPR-like	HMMPfam_Cohesin_load,HMMSmart_SM00028,superfamily_TPR-like	-	no_errors	39	0	0.00	8	4	33.33	50	46	47.92
VRK3	0	genome.wustl.edu	36	19	55190328	55190328	+	Silent	SNP	C	C	T			TCGA-AB-2844-03B-01W-0728-08	TCGA-AB-2844-11B-01W-0729-08	C	C	C	T	C	C	Verified	Valid	Somatic	Phase_IV	WXS	Hybrid_Capture_Illumina_Seq	1	dbGAP	Illumina HiSeq	4d9be233-933e-4375-a92d-ffa0ad9b08c8	6dd909da-225d-49c4-9dd0-fc061c8302d9	19	55190328	55190328	C	T	SNP	VRK3	NM_016440.1	human	genbank	54_36p	-1	reviewed	silent	c.696	p.K232	0.991	HMMSmart_SM00220	HMMSmart_SM00220,superfamily_Protein kinase-like (PK-like)	-	no_errors	305	10	3.14	36	25	40.98	30	29	49.15
WT1	0	genome.wustl.edu	36	11	32374486	32374487	+	Frame_Shift_Ins	INS	-	-	ACCGTACA			TCGA-AB-2844-03B-01W-0728-08	TCGA-AB-2844-11B-01W-0729-08	-	-	-	ACCGTACA	-	-	Verified	Valid	Somatic	Phase_IV	WXS	Hybrid_Capture_Illumina_Seq	1	dbGAP	Illumina HiSeq	4d9be233-933e-4375-a92d-ffa0ad9b08c8	6dd909da-225d-49c4-9dd0-fc061c8302d9	11	32374486	32374487	-	ACCGTACA	INS	WT1	NM_024426.3	human	genbank	54_36p	-1	reviewed	frame_shift_ins	c.1142_1141	p.S381fs	0.996:0.996	HMMPfam_WT1	HMMPfam_WT1,HMMPfam_zf-C2H2,PatternScan_ZINC_FINGER_C2H2_1,HMMSmart_SM00355,superfamily_C2H2 and C2HC zinc fingers	-	no_errors	NA	NA	NA	NA	NA	NA	NA	NA	NA
FLT3	0	genome.wustl.edu	36	13	27506214	27506215	+	In_Frame_Ins	INS	-	-	TTACCAAACTCTAAATTTTCTCTTGGAAACTCCCATTTGAGATCATATTCATATTCTCTGAAATCAACGTAGAAGTACTCATTATCT			TCGA-AB-2844-03B-01W-0728-08	TCGA-AB-2844-11B-01W-0729-08	-	-	-	TTACCAAACTCTAAATTTTCTCTTGGAAACTCCCATTTGAGATCATATTCATATTCTCTGAAATCAACGTAGAAGTACTCATTATCT	-	-	Verified	Valid	Somatic	Phase_IV	WXS	Hybrid_Capture_Illumina_Seq	1	dbGAP	Illumina HiSeq	4d9be233-933e-4375-a92d-ffa0ad9b08c8	6dd909da-225d-49c4-9dd0-fc061c8302d9	13	27506214	27506215	-	TTACCAAACTCTAAATTTTCTCTTGGAAACTCCCATTTGAGATCATATTCATATTCTCTGAAATCAACGTAGAAGTACTCATTATCT	INS	FLT3	NM_004119.2	human	genbank	54_36p	-1	reviewed	in_frame_ins		in_frame_ins	0.779:0.796	-	-	-	no_errors	NA	NA	NA	NA	NA	NA	NA	NA	NA