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
TMEM47	0	genome.wustl.edu	36	X	34567329	34567329	+	Missense_Mutation	SNP	C	C	T			TCGA-AB-2846-03B-01W-0728-08	TCGA-AB-2846-11B-01W-0729-08	C	C	C	T	C	C	Verified	Valid	Somatic	Phase_IV	WXS	Hybrid_Capture_Illumina_Seq	1	dbGAP	Illumina HiSeq	67e8fb6c-72b9-4cb8-ad4e-cb9da7c77c88	a377205f-d22d-4637-b728-0d9decbdf206	X	34567329	34567329	C	T	SNP	TMEM47	NM_031442.3	human	genbank	54_36p	-1	reviewed	missense	c.323	p.R108Q	1.000	NULL	NULL	-	no_errors	104	4	3.70	18	10	35.71	1	0	0.00
CENPF	0	genome.wustl.edu	36	1	212886431	212886431	+	Missense_Mutation	SNP	C	C	G			TCGA-AB-2846-03B-01W-0728-08	TCGA-AB-2846-11B-01W-0729-08	C	C	C	G	C	C	Verified	Valid	Somatic	Phase_IV	WXS	Hybrid_Capture_Illumina_Seq	1	dbGAP	Illumina HiSeq	67e8fb6c-72b9-4cb8-ad4e-cb9da7c77c88	a377205f-d22d-4637-b728-0d9decbdf206	1	212886431	212886431	C	G	SNP	CENPF	NM_016343.3	human	genbank	54_36p	+1	reviewed	missense	c.6895	p.L2299V	0.000	NULL	superfamily_Prefoldin,HMMPfam_Rb-bdg_C_Cenp-F,HMMPfam_Cenp-F_N,HMMPfam_Cenp-F_leu_zip,superfamily_Spectrin repeat	-	no_errors	46	0	0.00	16	9	36.00	16	22	57.89
CLDN11	0	genome.wustl.edu	36	3	171623663	171623663	+	Missense_Mutation	SNP	G	G	A			TCGA-AB-2846-03B-01W-0728-08	TCGA-AB-2846-11B-01W-0729-08	G	G	G	A	G	G	Verified	Valid	Somatic	Phase_IV	WXS	Hybrid_Capture_Illumina_Seq	1	dbGAP	Illumina HiSeq	67e8fb6c-72b9-4cb8-ad4e-cb9da7c77c88	a377205f-d22d-4637-b728-0d9decbdf206	3	171623663	171623663	G	A	SNP	CLDN11	NM_005602.5	human	genbank	54_36p	+1	reviewed	missense	c.245	p.R82H	1.000	HMMPfam_PMP22_Claudin	HMMPfam_PMP22_Claudin,PatternScan_CLAUDIN	-	no_errors	106	0	0.00	15	14	48.28	NA	NA	NA
ARAP2	0	genome.wustl.edu	36	4	35829014	35829014	+	Missense_Mutation	SNP	A	A	G			TCGA-AB-2846-03B-01W-0728-08	TCGA-AB-2846-11B-01W-0729-08	A	A	A	G	A	A	Verified	Valid	Somatic	Phase_IV	WXS	Hybrid_Capture_Illumina_Seq	1	dbGAP	Illumina HiSeq	67e8fb6c-72b9-4cb8-ad4e-cb9da7c77c88	a377205f-d22d-4637-b728-0d9decbdf206	4	35829014	35829014	A	G	SNP	ARAP2	NM_015230.2	human	genbank	54_36p	-1	reviewed	missense	c.2800	p.Y934H	1.000	HMMPfam_PH,HMMSmart_SM00233,superfamily_PH domain-like	HMMPfam_RA,HMMPfam_RhoGAP,HMMSmart_SM00324,HMMPfam_ArfGap,HMMSmart_SM00105,superfamily_Pyk2-associated protein beta ARF-GAP domain,HMMPfam_SAM_1,HMMSmart_SM00454,HMMPfam_PH,HMMSmart_SM00233,superfamily_GTPase activation domain GAP,superfamily_SAM/Pointed domain,superfamily_PH domain-like	-	no_errors	132	5	3.65	14	6	30.00	7	8	53.33
ZFP42	0	genome.wustl.edu	36	4	189161145	189161145	+	Missense_Mutation	SNP	G	G	A			TCGA-AB-2846-03B-01W-0728-08	TCGA-AB-2846-11B-01W-0729-08	G	G	G	A	G	G	Verified	Valid	Somatic	Phase_IV	WXS	Hybrid_Capture_Illumina_Seq	1	dbGAP	Illumina HiSeq	67e8fb6c-72b9-4cb8-ad4e-cb9da7c77c88	a377205f-d22d-4637-b728-0d9decbdf206	4	189161145	189161145	G	A	SNP	ZFP42	NM_174900.3	human	genbank	54_36p	+1	validated	missense	c.190	p.G64R	0.001	NULL	HMMPfam_zf-C2H2,PatternScan_ZINC_FINGER_C2H2_1,HMMSmart_SM00355,superfamily_C2H2 and C2HC zinc fingers	-	no_errors	71	1	1.39	19	13	40.62	NA	NA	NA
PDE6A	0	genome.wustl.edu	36	5	149304237	149304237	+	Silent	SNP	G	G	A			TCGA-AB-2846-03B-01W-0728-08	TCGA-AB-2846-11B-01W-0729-08	G	G	G	A	G	G	Verified	Valid	Somatic	Phase_IV	WXS	Hybrid_Capture_Illumina_Seq	1	dbGAP	Illumina HiSeq	67e8fb6c-72b9-4cb8-ad4e-cb9da7c77c88	a377205f-d22d-4637-b728-0d9decbdf206	5	149304237	149304237	G	A	SNP	PDE6A	NM_000440.2	human	genbank	54_36p	-1	reviewed	silent	c.193	p.L65	0.999	superfamily_SSF55781	HMMPfam_PDEase_I,PatternScan_PDEASE_I,HMMPfam_GAF,HMMSmart_GAF,HMMSmart_HDc,superfamily_SSF109604,superfamily_SSF55781	-	no_errors	204	3	1.45	38	25	39.68	NA	NA	NA
LOC728843	0	genome.wustl.edu	36	5	165388499	165388499	+	RNA	SNP	C	C	A			TCGA-AB-2846-03B-01W-0728-08	TCGA-AB-2846-11B-01W-0729-08	C	C	C	A	C	C	Verified	Valid	Somatic	Phase_IV	WXS	Hybrid_Capture_Illumina_Seq	1	dbGAP	Illumina HiSeq	67e8fb6c-72b9-4cb8-ad4e-cb9da7c77c88	a377205f-d22d-4637-b728-0d9decbdf206	5	165388499	165388499	C	A	SNP	LOC728843	XR_015391.1	human	genbank	54_36p	-1	model	rna	NULL	NULL	1.000	-	-	-	pseudogene	93	2	2.08	25	16	39.02	1	0	0.00
DST	0	genome.wustl.edu	36	6	56509558	56509558	+	Missense_Mutation	SNP	C	C	T			TCGA-AB-2846-03B-01W-0728-08	TCGA-AB-2846-11B-01W-0729-08	C	C	C	T	C	C	Verified	Valid	Somatic	Phase_IV	WXS	Hybrid_Capture_Illumina_Seq	1	dbGAP	Illumina HiSeq	67e8fb6c-72b9-4cb8-ad4e-cb9da7c77c88	a377205f-d22d-4637-b728-0d9decbdf206	6	56509558	56509558	C	T	SNP	DST	NM_183380.1	human	genbank	54_36p	-1	reviewed	missense	c.9857	p.R3286Q	0.169	HMMPfam_Spectrin,HMMSmart_SM00150,superfamily_Spectrin repeat	PatternScan_ACTININ_1,PatternScan_ACTININ_2,HMMPfam_CH,HMMSmart_SM00033,HMMPfam_Spectrin,HMMSmart_SM00054,HMMPfam_GAS2,HMMSmart_SM00243,superfamily_Calponin-homology domain CH-domain,HMMSmart_SM00150,PatternScan_EF_HAND_1,HMMPfam_efhand,superfamily_Spectrin repeat,superfamily_EF-hand	-	no_errors	70	4	5.41	13	10	43.48	2	0	0.00
MGAM	0	genome.wustl.edu	36	7	141413692	141413692	+	Missense_Mutation	SNP	C	C	T			TCGA-AB-2846-03B-01W-0728-08	TCGA-AB-2846-11B-01W-0729-08	C	C	C	T	C	C	Verified	Valid	Somatic	Phase_IV	WXS	Hybrid_Capture_Illumina_Seq	1	dbGAP	Illumina HiSeq	67e8fb6c-72b9-4cb8-ad4e-cb9da7c77c88	a377205f-d22d-4637-b728-0d9decbdf206	7	141413692	141413692	C	T	SNP	MGAM	ENST00000312952	human	ensembl	54_36p	+1	known	missense	c.5002	p.R1668C	0.019	HMMPfam_Glyco_hydro_31	HMMPfam_Glyco_hydro_31,PatternScan_GLYCOSYL_HYDROL_F31_1,PatternScan_GLYCOSYL_HYDROL_F31_2,HMMPfam_Trefoil,HMMSmart_SM00018,superfamily_Trefoil,superfamily_(Trans)glycosidases,PatternScan_P_TREFOIL	-	no_stop_codon	77	7	8.33	18	9	33.33	NA	NA	NA
uc004amh.1	0	genome.wustl.edu	36	9	83737543	83737543	+	Missense_Mutation	SNP	G	G	A			TCGA-AB-2846-03B-01W-0728-08	TCGA-AB-2846-11B-01W-0729-08	G	G	G	A	G	G	Verified	Valid	Somatic	Phase_IV	WXS	Hybrid_Capture_Illumina_Seq	1	dbGAP	Illumina HiSeq	67e8fb6c-72b9-4cb8-ad4e-cb9da7c77c88	a377205f-d22d-4637-b728-0d9decbdf206	9	83737543	83737543	G	A	SNP	uc004amh.1	ENST00000341875	human	ensembl	54_36p	+1	known	missense	c.2647	p.V883I	0.000	NULL	NULL	-	no_errors	82	0	0.00	21	18	46.15	NA	NA	NA
WSCD2	0	genome.wustl.edu	36	12	107124204	107124204	+	Missense_Mutation	SNP	A	A	G			TCGA-AB-2846-03B-01W-0728-08	TCGA-AB-2846-11B-01W-0729-08	A	A	A	G	A	A	Verified	Valid	Somatic	Phase_IV	WXS	Hybrid_Capture_Illumina_Seq	1	dbGAP	Illumina HiSeq	67e8fb6c-72b9-4cb8-ad4e-cb9da7c77c88	a377205f-d22d-4637-b728-0d9decbdf206	12	107124204	107124204	A	G	SNP	WSCD2	NM_014653.2	human	genbank	54_36p	+1	validated	missense	c.391	p.I131V	1.000	HMMPfam_WSC,HMMSmart_SM00321	HMMPfam_WSC,HMMSmart_SM00321,superfamily_P-loop containing nucleoside triphosphate hydrolases	-	no_errors	176	12	6.38	34	24	41.38	NA	NA	NA
OR4Q3	0	genome.wustl.edu	36	14	19285532	19285532	+	Missense_Mutation	SNP	A	A	G			TCGA-AB-2846-03B-01W-0728-08	TCGA-AB-2846-11B-01W-0729-08	A	A	A	G	A	A	Verified	Valid	Somatic	Phase_IV	WXS	Hybrid_Capture_Illumina_Seq	1	dbGAP	Illumina HiSeq	67e8fb6c-72b9-4cb8-ad4e-cb9da7c77c88	a377205f-d22d-4637-b728-0d9decbdf206	14	19285532	19285532	A	G	SNP	OR4Q3	NM_172194.1	human	genbank	54_36p	+1	provisional	missense	c.106	p.I36V	0.004	superfamily_SSF81321	HMMPfam_7tm_1,PatternScan_G_PROTEIN_RECEP_F1_1,superfamily_SSF81321	-	no_errors	464	12	2.52	61	46	42.59	NA	NA	NA
GEMIN4	0	genome.wustl.edu	36	17	596213	596213	+	Missense_Mutation	SNP	A	A	T			TCGA-AB-2846-03B-01W-0728-08	TCGA-AB-2846-11B-01W-0729-08	A	A	A	T	A	A	Verified	Valid	Somatic	Phase_IV	WXS	Hybrid_Capture_Illumina_Seq	1	dbGAP	Illumina HiSeq	67e8fb6c-72b9-4cb8-ad4e-cb9da7c77c88	a377205f-d22d-4637-b728-0d9decbdf206	17	596213	596213	A	T	SNP	GEMIN4	NM_015721.2	human	genbank	54_36p	-1	reviewed	missense	c.1820	p.L607H	0.999	NULL	NULL	-	no_errors	55	1	1.79	3	5	62.50	18	21	53.85
SLC17A7	0	genome.wustl.edu	36	19	54625658	54625658	+	Missense_Mutation	SNP	G	G	A			TCGA-AB-2846-03B-01W-0728-08	TCGA-AB-2846-11B-01W-0729-08	G	G	G	A	G	G	Verified	Valid	Somatic	Phase_IV	WXS	Hybrid_Capture_Illumina_Seq	1	dbGAP	Illumina HiSeq	67e8fb6c-72b9-4cb8-ad4e-cb9da7c77c88	a377205f-d22d-4637-b728-0d9decbdf206	19	54625658	54625658	G	A	SNP	SLC17A7	NM_020309.3	human	genbank	54_36p	-1	reviewed	missense	c.1613	p.P538L	0.264	NULL	HMMPfam_MFS_1,superfamily_MFS_gen_substrate_transporter	-	no_errors	18	0	0.00	7	4	36.36	NA	NA	NA
TM9SF4	0	genome.wustl.edu	36	20	30211546	30211546	+	Missense_Mutation	SNP	G	G	A			TCGA-AB-2846-03B-01W-0728-08	TCGA-AB-2846-11B-01W-0729-08	G	G	G	A	G	G	Verified	Valid	Somatic	Phase_IV	WXS	Hybrid_Capture_Illumina_Seq	1	dbGAP	Illumina HiSeq	67e8fb6c-72b9-4cb8-ad4e-cb9da7c77c88	a377205f-d22d-4637-b728-0d9decbdf206	20	30211546	30211546	G	A	SNP	TM9SF4	NM_014742.3	human	genbank	54_36p	+1	validated	missense	c.1609	p.V537I	1.000	HMMPfam_EMP70	HMMPfam_EMP70	-	no_errors	245	13	5.04	14	22	61.11	56	38	40.43
KIT	0	genome.wustl.edu	36	4	55284523	55284523	+	Frame_Shift_Del	DEL	G	G	-			TCGA-AB-2846-03B-01W-0728-08	TCGA-AB-2846-11B-01W-0729-08	G	G	G	-	G	G	Verified	Valid	Somatic	Phase_IV	WXS	Hybrid_Capture_Illumina_Seq	1	dbGAP	Illumina HiSeq	67e8fb6c-72b9-4cb8-ad4e-cb9da7c77c88	a377205f-d22d-4637-b728-0d9decbdf206	4	55284523	55284523	G	-	DEL	KIT	NM_000222.2	human	genbank	54_36p	+1	reviewed	frame_shift_del	c.1248	p.T417fs	0.990	NULL	HMMPfam_Pkinase_Tyr,HMMSmart_TyrKc,PatternScan_RECEPTOR_TYR_KIN_III,HMMSmart_IGc2,HMMSmart_IG,PatternScan_PROTEIN_KINASE_TYR,superfamily_Kinase_like,HMMPfam_ig,PatternScan_PROTEIN_KINASE_ATP,superfamily_SSF48726	-	no_errors	41	1	2.38	17	6	24.00	71	0	0.00
KIT	0	genome.wustl.edu	36	4	55284527	55284528	+	Frame_Shift_Ins	INS	-	-	AGGTGGG			TCGA-AB-2846-03B-01W-0728-08	TCGA-AB-2846-11B-01W-0729-08	-	-	-	AGGTGGG	-	-	Verified	Valid	Somatic	Phase_IV	WXS	Hybrid_Capture_Illumina_Seq	1	dbGAP	Illumina HiSeq	67e8fb6c-72b9-4cb8-ad4e-cb9da7c77c88	a377205f-d22d-4637-b728-0d9decbdf206	4	55284527	55284528	-	AGGTGGG	INS	KIT	NM_000222.2	human	genbank	54_36p	+1	reviewed	frame_shift_ins	c.1252_1253	p.Y418fs	0.005:0.002	NULL	HMMPfam_Pkinase_Tyr,HMMSmart_TyrKc,PatternScan_RECEPTOR_TYR_KIN_III,HMMSmart_IGc2,HMMSmart_IG,PatternScan_PROTEIN_KINASE_TYR,superfamily_Kinase_like,HMMPfam_ig,PatternScan_PROTEIN_KINASE_ATP,superfamily_SSF48726	-	no_errors	NA	NA	NA	NA	NA	NA	NA	NA	NA
WT1	0	genome.wustl.edu	36	11	32374485	32374486	+	Frame_Shift_Ins	INS	-	-	A			TCGA-AB-2846-03B-01W-0728-08	TCGA-AB-2846-11B-01W-0729-08	-	-	-	A	-	-	Verified	Valid	Somatic	Phase_IV	WXS	Hybrid_Capture_Illumina_Seq	1	dbGAP	Illumina HiSeq	67e8fb6c-72b9-4cb8-ad4e-cb9da7c77c88	a377205f-d22d-4637-b728-0d9decbdf206	11	32374485	32374486	-	A	INS	WT1	NM_024426.3	human	genbank	54_36p	-1	reviewed	frame_shift_ins	c.1143_1142	p.A382fs	0.771:0.996	HMMPfam_WT1	HMMPfam_WT1,HMMPfam_zf-C2H2,PatternScan_ZINC_FINGER_C2H2_1,HMMSmart_SM00355,superfamily_C2H2 and C2HC zinc fingers	-	no_errors	53	0	0.00	6	1	14.29	13	0	0.00