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
NRK	0	genome.wustl.edu	36	X	105065038	105065038	+	Missense_Mutation	SNP	T	T	C			TCGA-AB-3005-03A-01D-0739-09	TCGA-AB-3005-11A-01D-0739-09	T	T	T	C	T	T	Verified	Valid	Somatic	Phase_IV	WXS	Hybrid_Capture_Illumina_Seq	1	dbGAP	Illumina HiSeq	85335b80-6d61-4344-8ab3-1cf4be2ee53f	f02e1039-61d1-460f-a731-91d178483835	X	105065038	105065038	T	C	SNP	NRK	ENST00000243300	human	ensembl	54_36p	+1	known	missense	c.3448	p.S1150P	0.982	NULL	HMMPfam_CNH,HMMSmart_SM00036,HMMSmart_SM00219,HMMSmart_SM00220,PatternScan_PROTEIN_KINASE_ST,superfamily_p53-like transcription factors,superfamily_Protein kinase-like (PK-like),PatternScan_PROTEIN_KINASE_ATP,HMMPfam_Pkinase	-	no_errors	776	1	0.13	425	65	13.24	NA	NA	NA
LRRC47	0	genome.wustl.edu	36	1	3690478	3690478	+	Silent	SNP	G	G	A			TCGA-AB-3005-03A-01D-0739-09	TCGA-AB-3005-11A-01D-0739-09	G	G	G	A	G	G	Verified	Valid	Somatic	Phase_IV	WXS	Hybrid_Capture_Illumina_Seq	1	dbGAP	Illumina HiSeq	85335b80-6d61-4344-8ab3-1cf4be2ee53f	f02e1039-61d1-460f-a731-91d178483835	1	3690478	3690478	G	A	SNP	LRRC47	NM_020710.2	human	genbank	54_36p	-1	validated	silent	c.1252	p.L418	0.603	HMMPfam_B3_4	HMMPfam_LRR_1,HMMSmart_LRR_TYP,HMMPfam_B3_4,superfamily_SSF52047	-	no_errors	345	0	0.00	59	68	53.12	22	18	40.00
NOTCH2NL	0	genome.wustl.edu	36	1	143984723	143984723	+	Nonsense_Mutation	SNP	C	C	T			TCGA-AB-3005-03A-01D-0739-09	TCGA-AB-3005-11A-01D-0739-09	C	C	C	T	C	C	Verified	Valid	Somatic	Phase_IV	WXS	Hybrid_Capture_Illumina_Seq	1	dbGAP	Illumina HiSeq	85335b80-6d61-4344-8ab3-1cf4be2ee53f	f02e1039-61d1-460f-a731-91d178483835	1	143984723	143984723	C	T	SNP	NOTCH2NL	NM_203458.3	human	genbank	54_36p	+1	validated	nonsense	c.220	p.R74*	0.852	HMMSmart_SM00179,HMMPfam_EGF,HMMSmart_SM00181,superfamily_EGF/Laminin	PatternScan_ASX_HYDROXYL,HMMSmart_SM00179,HMMPfam_EGF,HMMSmart_SM00181,PatternScan_EGF_1,PatternScan_EGF_2,HMMPfam_EGF_CA,PatternScan_EGF_CA,superfamily_EGF/Laminin	-	no_errors	5403	5	0.09	3924	650	14.20	66	15	18.52
ATP6V1G3	0	genome.wustl.edu	36	1	196776363	196776363	+	Missense_Mutation	SNP	G	G	A			TCGA-AB-3005-03A-01D-0739-09	TCGA-AB-3005-11A-01D-0739-09	G	G	G	A	G	G	Verified	Valid	Somatic	Phase_IV	WXS	Hybrid_Capture_Illumina_Seq	1	dbGAP	Illumina HiSeq	85335b80-6d61-4344-8ab3-1cf4be2ee53f	f02e1039-61d1-460f-a731-91d178483835	1	196776363	196776363	G	A	SNP	ATP6V1G3	NM_133262.2	human	genbank	54_36p	-1	reviewed	missense	c.41	p.A14V	1.000	HMMPfam_V-ATPase_G	HMMPfam_V-ATPase_G	-	no_errors	1583	2	0.13	603	380	38.62	NA	NA	NA
LOC200493	0	genome.wustl.edu	36	2	873813	873813	+	Missense_Mutation	SNP	C	C	G			TCGA-AB-3005-03A-01D-0739-09	TCGA-AB-3005-11A-01D-0739-09	C	C	C	G	C	C	Verified	Valid	Somatic	Phase_IV	WXS	Hybrid_Capture_Illumina_Seq	1	dbGAP	Illumina HiSeq	85335b80-6d61-4344-8ab3-1cf4be2ee53f	f02e1039-61d1-460f-a731-91d178483835	2	873813	873813	C	G	SNP	LOC200493	XM_115715.5	human	genbank	54_36p	-1	model	missense	c.458	p.W153S	0.011	NULL	NULL	-	no_start_codon:pseudogene:no_stop_codon	2319	0	0.00	409	304	42.46	NA	NA	NA
LOC643905	0	genome.wustl.edu	36	2	240630916	240630916	+	Missense_Mutation	SNP	G	G	A			TCGA-AB-3005-03A-01D-0739-09	TCGA-AB-3005-11A-01D-0739-09	G	G	G	A	G	G	Verified	Valid	Somatic	Phase_IV	WXS	Hybrid_Capture_Illumina_Seq	1	dbGAP	Illumina HiSeq	85335b80-6d61-4344-8ab3-1cf4be2ee53f	f02e1039-61d1-460f-a731-91d178483835	2	240630916	240630916	G	A	SNP	LOC643905	NM_001080835.1	human	genbank	54_36p	-1	predicted	missense	c.157	p.R53W	0.003	NULL	NULL	-	no_errors	4899	3	0.06	4376	670	13.27	NA	NA	NA
CELSR3	0	genome.wustl.edu	36	3	48669475	48669475	+	Silent	SNP	C	C	T			TCGA-AB-3005-03A-01D-0739-09	TCGA-AB-3005-11A-01D-0739-09	C	C	C	T	C	C	Verified	Valid	Somatic	Phase_IV	WXS	Hybrid_Capture_Illumina_Seq	1	dbGAP	Illumina HiSeq	85335b80-6d61-4344-8ab3-1cf4be2ee53f	f02e1039-61d1-460f-a731-91d178483835	3	48669475	48669475	C	T	SNP	CELSR3	NM_001407.2	human	genbank	54_36p	-1	reviewed	silent	c.4059	p.Q1353	1.000	NULL	PatternScan_ASX_HYDROXYL,HMMPfam_GPS,HMMSmart_SM00303,HMMPfam_7tm_2,HMMSmart_SM00282,HMMPfam_HRM,HMMSmart_SM00008,HMMSmart_SM00179,HMMPfam_Laminin_EGF,HMMSmart_SM00180,PatternScan_EGF_LAM_1,HMMPfam_Cadherin,HMMSmart_SM00112,PatternScan_CADHERIN_1,HMMPfam_EGF,HMMSmart_SM00181,superfamily_Concanavalin A-like lectins/glucanases,HMMPfam_Laminin_G_2,PatternScan_EGF_1,PatternScan_EGF_2,superfamily_Cadherin-like,PatternScan_G_PROTEIN_RECEP_F2_2,superfamily_EGF/Laminin	-	no_errors	819	1	0.12	162	148	47.59	7	1	12.50
PCDHGA3	0	genome.wustl.edu	36	5	140704389	140704389	+	Missense_Mutation	SNP	G	G	A			TCGA-AB-3005-03A-01D-0739-09	TCGA-AB-3005-11A-01D-0739-09	G	G	G	A	G	G	Verified	Valid	Somatic	Phase_IV	WXS	Hybrid_Capture_Illumina_Seq	1	dbGAP	Illumina HiSeq	85335b80-6d61-4344-8ab3-1cf4be2ee53f	f02e1039-61d1-460f-a731-91d178483835	5	140704389	140704389	G	A	SNP	PCDHGA3	NM_018916.3	human	genbank	54_36p	+1	reviewed	missense	c.605	p.R202H	0.968	HMMPfam_Cadherin,HMMSmart_SM00112,superfamily_Cadherin-like	HMMPfam_Cadherin,HMMSmart_SM00112,PatternScan_CADHERIN_1,HMMPfam_Cadherin_2,superfamily_Cadherin-like	-	no_errors	1100	3	0.27	276	100	26.60	NA	NA	NA
MDFI	0	genome.wustl.edu	36	6	41729194	41729194	+	Missense_Mutation	SNP	C	C	A			TCGA-AB-3005-03A-01D-0739-09	TCGA-AB-3005-11A-01D-0739-09	C	C	C	A	C	C	Verified	Valid	Somatic	Phase_IV	WXS	Hybrid_Capture_Illumina_Seq	1	dbGAP	Illumina HiSeq	85335b80-6d61-4344-8ab3-1cf4be2ee53f	f02e1039-61d1-460f-a731-91d178483835	6	41729194	41729194	C	A	SNP	MDFI	NM_005586.3	human	genbank	54_36p	+1	reviewed	missense	c.644	p.P215H	1.000	NULL	PatternScan_TNFR_NGFR_1	-	no_errors	1362	3	0.22	297	198	40.00	NA	NA	NA
GRIK2	0	genome.wustl.edu	36	6	102618564	102618564	+	Missense_Mutation	SNP	C	C	T			TCGA-AB-3005-03A-01D-0739-09	TCGA-AB-3005-11A-01D-0739-09	C	C	C	T	C	C	Verified	Valid	Somatic	Phase_IV	WXS	Hybrid_Capture_Illumina_Seq	1	dbGAP	Illumina HiSeq	85335b80-6d61-4344-8ab3-1cf4be2ee53f	f02e1039-61d1-460f-a731-91d178483835	6	102618564	102618564	C	T	SNP	GRIK2	NM_175768.3	human	genbank	54_36p	+1	reviewed	missense	c.2597	p.P866L	1.000	NULL	HMMPfam_Lig_chan,HMMSmart_PBPe,HMMPfam_ANF_receptor,HMMPfam_Lig_chan-Glu_bd,superfamily_SSF53822,superfamily_SSF53850	-	no_errors	1077	1	0.09	88	66	42.58	NA	NA	NA
FNDC1	0	genome.wustl.edu	36	6	159573533	159573533	+	Missense_Mutation	SNP	C	C	T			TCGA-AB-3005-03A-01D-0739-09	TCGA-AB-3005-11A-01D-0739-09	C	C	C	T	C	C	Verified	Valid	Somatic	Phase_IV	WXS	Hybrid_Capture_Illumina_Seq	1	dbGAP	Illumina HiSeq	85335b80-6d61-4344-8ab3-1cf4be2ee53f	f02e1039-61d1-460f-a731-91d178483835	6	159573533	159573533	C	T	SNP	FNDC1	NM_032532.2	human	genbank	54_36p	+1	validated	missense	c.1999	p.R667W	0.002	NULL	HMMPfam_fn3,HMMSmart_FN3,superfamily_FN_III-like	-	no_errors	277	1	0.36	103	124	53.91	NA	NA	NA
MAGI2	0	genome.wustl.edu	36	7	77487021	77487021	+	Silent	SNP	C	C	T			TCGA-AB-3005-03A-01D-0739-09	TCGA-AB-3005-11A-01D-0739-09	C	C	C	T	C	C	Verified	Valid	Somatic	Phase_IV	WXS	Hybrid_Capture_Illumina_Seq	1	dbGAP	Illumina HiSeq	85335b80-6d61-4344-8ab3-1cf4be2ee53f	f02e1039-61d1-460f-a731-91d178483835	7	77487021	77487021	C	T	SNP	MAGI2	NM_012301.3	human	genbank	54_36p	-1	reviewed	silent	c.3915	p.Q1305	1.000	NULL	HMMPfam_WW,HMMSmart_SM00456,PatternScan_WW_DOMAIN_1,superfamily_WW domain,HMMPfam_PDZ,HMMSmart_SM00228,superfamily_PDZ domain-like,HMMPfam_Guanylate_kin,HMMSmart_SM00072,PatternScan_GUANYLATE_KINASE_1,superfamily_P-loop containing nucleoside triphosphate hydrolases	-	no_errors	286	0	0.00	57	65	53.28	NA	NA	NA
PARD3	0	genome.wustl.edu	36	10	34440220	34440220	+	Missense_Mutation	SNP	G	G	T			TCGA-AB-3005-03A-01D-0739-09	TCGA-AB-3005-11A-01D-0739-09	G	G	G	T	G	G	Verified	Valid	Somatic	Phase_IV	WXS	Hybrid_Capture_Illumina_Seq	1	dbGAP	Illumina HiSeq	85335b80-6d61-4344-8ab3-1cf4be2ee53f	f02e1039-61d1-460f-a731-91d178483835	10	34440220	34440220	G	T	SNP	PARD3	NM_019619.2	human	genbank	54_36p	-1	provisional	missense	c.3954	p.D1318E	1.000	NULL	HMMPfam_PDZ,HMMSmart_SM00228,superfamily_PDZ domain-like	-	no_errors	581	0	0.00	169	130	43.48	NA	NA	NA
IGHMBP2	0	genome.wustl.edu	36	11	68460886	68460886	+	Nonsense_Mutation	SNP	C	C	T			TCGA-AB-3005-03A-01D-0739-09	TCGA-AB-3005-11A-01D-0739-09	C	C	C	T	C	C	Verified	Valid	Somatic	Phase_IV	WXS	Hybrid_Capture_Illumina_Seq	1	dbGAP	Illumina HiSeq	85335b80-6d61-4344-8ab3-1cf4be2ee53f	f02e1039-61d1-460f-a731-91d178483835	11	68460886	68460886	C	T	SNP	IGHMBP2	NM_002180.2	human	genbank	54_36p	+1	reviewed	nonsense	c.2362	p.R788*	0.000	NULL	HMMSmart_SM00154,HMMPfam_R3H,HMMSmart_SM00393,HMMSmart_SM00382,HMMSmart_SM00487,superfamily_P-loop containing nucleoside triphosphate hydrolases,superfamily_R3H domain	-	no_errors	470	0	0.00	109	98	47.34	7	3	30.00
SELPLG	0	genome.wustl.edu	36	12	107541809	107541809	+	Missense_Mutation	SNP	T	T	G			TCGA-AB-3005-03A-01D-0739-09	TCGA-AB-3005-11A-01D-0739-09	T	T	T	G	T	T	Verified	Valid	Somatic	Phase_IV	WXS	Hybrid_Capture_Illumina_Seq	1	dbGAP	Illumina HiSeq	85335b80-6d61-4344-8ab3-1cf4be2ee53f	f02e1039-61d1-460f-a731-91d178483835	12	107541809	107541809	T	G	SNP	SELPLG	ENST00000228463	human	ensembl	54_36p	-1	known	missense	c.404	p.Q135P	0.000	NULL	NULL	-	no_errors	5024	15	0.30	1323	340	20.35	80	6	6.98
TBC1D4	0	genome.wustl.edu	36	13	74828310	74828310	+	Missense_Mutation	SNP	C	C	T			TCGA-AB-3005-03A-01D-0739-09	TCGA-AB-3005-11A-01D-0739-09	C	C	C	T	C	C	Verified	Valid	Somatic	Phase_IV	WXS	Hybrid_Capture_Illumina_Seq	1	dbGAP	Illumina HiSeq	85335b80-6d61-4344-8ab3-1cf4be2ee53f	f02e1039-61d1-460f-a731-91d178483835	13	74828310	74828310	C	T	SNP	TBC1D4	NM_014832.2	human	genbank	54_36p	-1	validated	missense	c.1249	p.V417I	1.000	HMMPfam_PID,HMMSmart_SM00462,superfamily_PH domain-like	HMMPfam_TBC,HMMSmart_SM00164,superfamily_Ypt/Rab-GAP domain of gyp1p,HMMPfam_PID,HMMSmart_SM00462,superfamily_PH domain-like	-	no_errors	3311	2	0.06	604	345	36.35	0	1	100.00
FAM70B	0	genome.wustl.edu	36	13	113606057	113606057	+	Missense_Mutation	SNP	G	G	A			TCGA-AB-3005-03A-01D-0739-09	TCGA-AB-3005-11A-01D-0739-09	G	G	G	A	G	G	Verified	Valid	Somatic	Phase_IV	WXS	Hybrid_Capture_Illumina_Seq	1	dbGAP	Illumina HiSeq	85335b80-6d61-4344-8ab3-1cf4be2ee53f	f02e1039-61d1-460f-a731-91d178483835	13	113606057	113606057	G	A	SNP	FAM70B	NM_182614.2	human	genbank	54_36p	-1	provisional	missense	c.698	p.P233L	0.868	NULL	NULL	-	no_errors	219	0	0.00	73	78	51.66	0	0	0.00
ENSG00000209508	0	genome.wustl.edu	36	16	3357715	3357715	+	RNA	SNP	G	G	A			TCGA-AB-3005-03A-01D-0739-09	TCGA-AB-3005-11A-01D-0739-09	G	G	G	A	G	G	Verified	Valid	Somatic	Phase_IV	WXS	Hybrid_Capture_Illumina_Seq	1	dbGAP	Illumina HiSeq	85335b80-6d61-4344-8ab3-1cf4be2ee53f	f02e1039-61d1-460f-a731-91d178483835	16	3357715	3357715	G	A	SNP	ENSG00000209508	ENST00000386773	human	ensembl	54_36p	+1	novel	rna	NULL	NULL	0.998	-	-	-	pseudogene	856	0	0.00	219	129	36.96	1	0	0.00
SLC25A11	0	genome.wustl.edu	36	17	4783930	4783930	+	Silent	SNP	G	G	C			TCGA-AB-3005-03A-01D-0739-09	TCGA-AB-3005-11A-01D-0739-09	G	G	G	C	G	G	Verified	Valid	Somatic	Phase_IV	WXS	Hybrid_Capture_Illumina_Seq	1	dbGAP	Illumina HiSeq	85335b80-6d61-4344-8ab3-1cf4be2ee53f	f02e1039-61d1-460f-a731-91d178483835	17	4783930	4783930	G	C	SNP	SLC25A11	NM_003562.3	human	genbank	54_36p	-1	provisional	silent	c.21	p.A7	0.997	NULL	superfamily_Mitochondrial carrier,HMMPfam_Mito_carr	-	no_errors	264	2	0.75	22	16	42.11	25	16	39.02
CAPS	0	genome.wustl.edu	36	19	5865448	5865448	+	Missense_Mutation	SNP	C	C	G			TCGA-AB-3005-03A-01D-0739-09	TCGA-AB-3005-11A-01D-0739-09	C	C	C	G	C	C	Verified	Valid	Somatic	Phase_IV	WXS	Hybrid_Capture_Illumina_Seq	1	dbGAP	Illumina HiSeq	85335b80-6d61-4344-8ab3-1cf4be2ee53f	f02e1039-61d1-460f-a731-91d178483835	19	5865448	5865448	C	G	SNP	CAPS	NM_004058.3	human	genbank	54_36p	+1	validated	missense	c.31	p.L11V	1.000	superfamily_SSF47473	HMMSmart_EFh,PatternScan_EF_HAND_1,HMMPfam_efhand,superfamily_SSF47473	-	no_errors	255	2	0.77	72	35	32.71	8	5	38.46
ELL	0	genome.wustl.edu	36	19	18422476	18422476	+	Missense_Mutation	SNP	C	C	T			TCGA-AB-3005-03A-01D-0739-09	TCGA-AB-3005-11A-01D-0739-09	C	C	C	T	C	C	Verified	Valid	Somatic	Phase_IV	WXS	Hybrid_Capture_Illumina_Seq	1	dbGAP	Illumina HiSeq	85335b80-6d61-4344-8ab3-1cf4be2ee53f	f02e1039-61d1-460f-a731-91d178483835	19	18422476	18422476	C	T	SNP	ELL	NM_006532.2	human	genbank	54_36p	-1	validated	missense	c.1276	p.G426S	0.270	NULL	HMMPfam_Occludin_ELL,HMMPfam_ELL	-	no_errors	90	0	0.00	20	21	51.22	7	2	22.22
SON	0	genome.wustl.edu	36	21	33846477	33846477	+	Missense_Mutation	SNP	A	A	G			TCGA-AB-3005-03A-01D-0739-09	TCGA-AB-3005-11A-01D-0739-09	A	A	A	G	A	A	Verified	Valid	Somatic	Phase_IV	WXS	Hybrid_Capture_Illumina_Seq	1	dbGAP	Illumina HiSeq	85335b80-6d61-4344-8ab3-1cf4be2ee53f	f02e1039-61d1-460f-a731-91d178483835	21	33846477	33846477	A	G	SNP	SON	NM_138927.1	human	genbank	54_36p	+1	reviewed	missense	c.3070	p.M1024V	1.000	NULL	HMMPfam_G-patch,HMMSmart_SM00443,HMMPfam_dsrm,superfamily_dsRNA-binding domain-like	-	no_errors	1197	2	0.17	315	238	43.04	149	136	47.72
GCAT	0	genome.wustl.edu	36	22	36539478	36539478	+	Silent	SNP	C	C	T			TCGA-AB-3005-03A-01D-0739-09	TCGA-AB-3005-11A-01D-0739-09	C	C	C	T	C	C	Verified	Valid	Somatic	Phase_IV	WXS	Hybrid_Capture_Illumina_Seq	1	dbGAP	Illumina HiSeq	85335b80-6d61-4344-8ab3-1cf4be2ee53f	f02e1039-61d1-460f-a731-91d178483835	22	36539478	36539478	C	T	SNP	GCAT	NM_014291.2	human	genbank	54_36p	+1	reviewed	silent	c.492	p.D164	0.999	HMMPfam_Aminotran_1_2,superfamily_PyrdxlP-dep_Trfase_major	PatternScan_AA_TRANSFER_CLASS_2,HMMPfam_Aminotran_1_2,superfamily_PyrdxlP-dep_Trfase_major	-	no_errors	779	0	0.00	180	117	39.39	10	7	41.18