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
ARSF	0	genome.wustl.edu	36	X	3031841	3031841	+	Missense_Mutation	SNP	G	G	A			TCGA-AB-2964-03A-01D-0739-09	TCGA-AB-2964-11A-01D-0739-09	G	G	G	A	G	G	Verified	Valid	Somatic	Phase_IV	WXS	Hybrid_Capture_Illumina_Seq	1	dbGAP	Illumina HiSeq	81878b07-8cd3-47ff-86e8-75ac7e99f4a7	4f7299ec-0ee1-4eb8-88fa-1a5007bab63a	X	3031841	3031841	G	A	SNP	ARSF	NM_004042.3	human	genbank	54_36p	+1	reviewed	missense	c.1141	p.V381I	1.000	HMMPfam_Sulfatase,superfamily_Alkaline phosphatase-like	HMMPfam_Sulfatase,PatternScan_SULFATASE_2,PatternScan_SULFATASE_1,superfamily_Alkaline phosphatase-like	-	no_errors	726	2	0.27	657	406	38.19	NA	NA	NA
SHROOM2	0	genome.wustl.edu	36	X	9860372	9860372	+	Nonsense_Mutation	SNP	C	C	T			TCGA-AB-2964-03A-01D-0739-09	TCGA-AB-2964-11A-01D-0739-09	C	C	C	T	C	C	Verified	Valid	Somatic	Phase_IV	WXS	Hybrid_Capture_Illumina_Seq	1	dbGAP	Illumina HiSeq	81878b07-8cd3-47ff-86e8-75ac7e99f4a7	4f7299ec-0ee1-4eb8-88fa-1a5007bab63a	X	9860372	9860372	C	T	SNP	SHROOM2	NM_001649.2	human	genbank	54_36p	+1	reviewed	nonsense	c.3049	p.R1017*	0.732	NULL	HMMPfam_PDZ,HMMSmart_SM00228,superfamily_PDZ domain-like,HMMPfam_ASD2,HMMPfam_ASD1	-	no_errors	319	0	0.00	89	54	37.76	NA	NA	NA
CAPN6	0	genome.wustl.edu	36	X	110393663	110393663	+	Missense_Mutation	SNP	C	C	T			TCGA-AB-2964-03A-01D-0739-09	TCGA-AB-2964-11A-01D-0739-09	C	C	C	T	C	C	Verified	Valid	Somatic	Phase_IV	WXS	Hybrid_Capture_Illumina_Seq	1	dbGAP	Illumina HiSeq	81878b07-8cd3-47ff-86e8-75ac7e99f4a7	4f7299ec-0ee1-4eb8-88fa-1a5007bab63a	X	110393663	110393663	C	T	SNP	CAPN6	NM_014289.2	human	genbank	54_36p	-1	reviewed	missense	c.158	p.R53H	0.998	HMMPfam_Peptidase_C2,HMMSmart_CysPc,superfamily_SSF54001	HMMPfam_C2,HMMSmart_C2,PatternScan_THIOL_PROTEASE_CYS,PatternScan_THIOL_PROTEASE_HIS,PatternScan_THIOL_PROTEASE_ASN,HMMPfam_Peptidase_C2,HMMPfam_Calpain_III,HMMSmart_CysPc,HMMSmart_calpain_III,superfamily_Peptidase_C2,superfamily_C2_CaLB,superfamily_SSF54001	-	no_errors	1124	1	0.09	597	346	36.69	NA	NA	NA
STAG2	0	genome.wustl.edu	36	X	123032722	123032722	+	Nonsense_Mutation	SNP	C	C	T			TCGA-AB-2964-03A-01D-0739-09	TCGA-AB-2964-11A-01D-0739-09	C	C	C	T	C	C	Verified	Valid	Somatic	Phase_IV	WXS	Hybrid_Capture_Illumina_Seq	1	dbGAP	Illumina HiSeq	81878b07-8cd3-47ff-86e8-75ac7e99f4a7	4f7299ec-0ee1-4eb8-88fa-1a5007bab63a	X	123032722	123032722	C	T	SNP	STAG2	NM_001042749.1	human	genbank	54_36p	+1	validated	nonsense	c.2401	p.Q801*	1.000	superfamily_ARM-type_fold	HMMPfam_STAG,superfamily_ARM-type_fold	-	no_errors	669	1	0.15	655	435	39.84	0	7	100.00
ZNF75D	0	genome.wustl.edu	36	X	134255719	134255719	+	Missense_Mutation	SNP	T	T	C			TCGA-AB-2964-03A-01D-0739-09	TCGA-AB-2964-11A-01D-0739-09	T	T	T	C	T	T	Verified	Valid	Somatic	Phase_IV	WXS	Hybrid_Capture_Illumina_Seq	1	dbGAP	Illumina HiSeq	81878b07-8cd3-47ff-86e8-75ac7e99f4a7	4f7299ec-0ee1-4eb8-88fa-1a5007bab63a	X	134255719	134255719	T	C	SNP	ZNF75D	NM_007131.2	human	genbank	54_36p	-1	validated	missense	c.14	p.E5G	0.003	NULL	HMMPfam_KRAB,HMMSmart_KRAB,superfamily_Krueppel-associated_box,HMMPfam_SCAN,HMMSmart_SCAN,HMMPfam_zf-C2H2,PatternScan_ZINC_FINGER_C2H2_1,HMMSmart_ZnF_C2H2,superfamily_SSF57667	-	no_errors	739	1	0.13	430	299	41.02	0	2	100.00
CAMTA1	0	genome.wustl.edu	36	1	7644402	7644402	+	Missense_Mutation	SNP	G	G	A			TCGA-AB-2964-03A-01D-0739-09	TCGA-AB-2964-11A-01D-0739-09	G	G	G	A	G	G	Verified	Valid	Somatic	Phase_IV	WXS	Hybrid_Capture_Illumina_Seq	1	dbGAP	Illumina HiSeq	81878b07-8cd3-47ff-86e8-75ac7e99f4a7	4f7299ec-0ee1-4eb8-88fa-1a5007bab63a	1	7644402	7644402	G	A	SNP	CAMTA1	NM_015215.1	human	genbank	54_36p	+1	validated	missense	c.694	p.G232R	1.000	NULL	HMMPfam_IQ,HMMPfam_Ank,superfamily_Ankyrin repeat,HMMPfam_TIG,HMMPfam_CG-1,superfamily_E set domains,superfamily_P-loop containing nucleoside triphosphate hydrolases	-	no_errors	151	0	0.00	83	43	34.13	NA	NA	NA
AHCYL1	0	genome.wustl.edu	36	1	110362786	110362786	+	Silent	SNP	C	C	T			TCGA-AB-2964-03A-01D-0739-09	TCGA-AB-2964-11A-01D-0739-09	C	C	C	T	C	C	Verified	Valid	Somatic	Phase_IV	WXS	Hybrid_Capture_Illumina_Seq	1	dbGAP	Illumina HiSeq	81878b07-8cd3-47ff-86e8-75ac7e99f4a7	4f7299ec-0ee1-4eb8-88fa-1a5007bab63a	1	110362786	110362786	C	T	SNP	AHCYL1	NM_006621.4	human	genbank	54_36p	+1	validated	silent	c.1308	p.L436	0.942	HMMPfam_AdoHcyase,HMMPfam_AdoHcyase_NAD,superfamily_NAD(P)-binding Rossmann-fold domains,superfamily_Formate/glycerate dehydrogenase catalytic domain-like	HMMPfam_AdoHcyase,HMMPfam_AdoHcyase_NAD,superfamily_NAD(P)-binding Rossmann-fold domains,PatternScan_ADOHCYASE_1,PatternScan_ADOHCYASE_2,superfamily_Formate/glycerate dehydrogenase catalytic domain-like	-	no_errors	430	2	0.46	403	290	41.85	51	48	48.48
CACNA1E	0	genome.wustl.edu	36	1	179955981	179955981	+	Missense_Mutation	SNP	C	C	T			TCGA-AB-2964-03A-01D-0739-09	TCGA-AB-2964-11A-01D-0739-09	C	C	C	T	C	C	Verified	Valid	Somatic	Phase_IV	WXS	Hybrid_Capture_Illumina_Seq	1	dbGAP	Illumina HiSeq	81878b07-8cd3-47ff-86e8-75ac7e99f4a7	4f7299ec-0ee1-4eb8-88fa-1a5007bab63a	1	179955981	179955981	C	T	SNP	CACNA1E	NM_000721.2	human	genbank	54_36p	+1	reviewed	missense	c.1768	p.R590W	1.000	HMMPfam_Ion_trans,superfamily_Voltage-gated potassium channels	HMMPfam_Ion_trans,HMMPfam_Ca_chan_IQ,superfamily_Voltage-gated potassium channels	-	no_errors	589	2	0.34	334	236	41.33	NA	NA	NA
OR5K3	0	genome.wustl.edu	36	3	99593011	99593011	+	Missense_Mutation	SNP	C	C	G			TCGA-AB-2964-03A-01D-0739-09	TCGA-AB-2964-11A-01D-0739-09	C	C	C	G	C	C	Verified	Valid	Somatic	Phase_IV	WXS	Hybrid_Capture_Illumina_Seq	1	dbGAP	Illumina HiSeq	81878b07-8cd3-47ff-86e8-75ac7e99f4a7	4f7299ec-0ee1-4eb8-88fa-1a5007bab63a	3	99593011	99593011	C	G	SNP	OR5K3	NM_001005516.1	human	genbank	54_36p	+1	provisional	missense	c.812	p.P271R	0.000	HMMPfam_7tm_1,superfamily_SSF81321	HMMPfam_7tm_1,PatternScan_G_PROTEIN_RECEP_F1_1,superfamily_SSF81321	-	no_errors	559	2	0.36	381	342	47.24	NA	NA	NA
TACR3	0	genome.wustl.edu	36	4	104730348	104730348	+	Silent	SNP	A	A	G			TCGA-AB-2964-03A-01D-0739-09	TCGA-AB-2964-11A-01D-0739-09	A	A	A	G	A	A	Verified	Valid	Somatic	Phase_IV	WXS	Hybrid_Capture_Illumina_Seq	1	dbGAP	Illumina HiSeq	81878b07-8cd3-47ff-86e8-75ac7e99f4a7	4f7299ec-0ee1-4eb8-88fa-1a5007bab63a	4	104730348	104730348	A	G	SNP	TACR3	NM_001059.1	human	genbank	54_36p	-1	reviewed	silent	c.1338	p.S446	0.958	NULL	HMMPfam_7tm_1,PatternScan_G_PROTEIN_RECEP_F1_1,superfamily_SSF81321	-	no_errors	489	2	0.41	996	667	40.08	NA	NA	NA
TET2	0	genome.wustl.edu	36	4	106377294	106377294	+	Nonsense_Mutation	SNP	C	C	T			TCGA-AB-2964-03A-01D-0739-09	TCGA-AB-2964-11A-01D-0739-09	C	C	C	T	C	C	Verified	Valid	Somatic	Phase_IV	WXS	Hybrid_Capture_Illumina_Seq	1	dbGAP	Illumina HiSeq	81878b07-8cd3-47ff-86e8-75ac7e99f4a7	4f7299ec-0ee1-4eb8-88fa-1a5007bab63a	4	106377294	106377294	C	T	SNP	TET2	NM_017628.1	human	genbank	54_36p	+1	validated	nonsense	c.2746	p.Q916*	0.006	NULL	NULL	-	no_errors	675	0	0.00	688	492	41.69	19	15	44.12
TET2	0	genome.wustl.edu	36	4	106416782	106416782	+	Missense_Mutation	SNP	C	C	T			TCGA-AB-2964-03A-01D-0739-09	TCGA-AB-2964-11A-01D-0739-09	C	C	C	T	C	C	Verified	Valid	Somatic	Phase_IV	WXS	Hybrid_Capture_Illumina_Seq	1	dbGAP	Illumina HiSeq	81878b07-8cd3-47ff-86e8-75ac7e99f4a7	4f7299ec-0ee1-4eb8-88fa-1a5007bab63a	4	106416782	106416782	C	T	SNP	TET2	ENST00000265149	human	ensembl	54_36p	+1	known	missense	c.2072	p.P691L	1.000	NULL	NULL	-	no_start_codon	317	6	1.86	781	602	43.50	17	11	39.29
STC2	0	genome.wustl.edu	36	5	172677558	172677558	+	Silent	SNP	G	G	A			TCGA-AB-2964-03A-01D-0739-09	TCGA-AB-2964-11A-01D-0739-09	G	G	G	A	G	G	Verified	Valid	Somatic	Phase_IV	WXS	Hybrid_Capture_Illumina_Seq	1	dbGAP	Illumina HiSeq	81878b07-8cd3-47ff-86e8-75ac7e99f4a7	4f7299ec-0ee1-4eb8-88fa-1a5007bab63a	5	172677558	172677558	G	A	SNP	STC2	NM_003714.2	human	genbank	54_36p	-1	reviewed	silent	c.807	p.N269	0.153	HMMPfam_Stanniocalcin	HMMPfam_Stanniocalcin	-	no_errors	290	3	1.02	55	44	44.44	NA	NA	NA
ELN	0	genome.wustl.edu	36	7	73089974	73089974	+	Silent	SNP	G	G	A			TCGA-AB-2964-03A-01D-0739-09	TCGA-AB-2964-11A-01D-0739-09	G	G	G	A	G	G	Verified	Valid	Somatic	Phase_IV	WXS	Hybrid_Capture_Illumina_Seq	1	dbGAP	Illumina HiSeq	81878b07-8cd3-47ff-86e8-75ac7e99f4a7	4f7299ec-0ee1-4eb8-88fa-1a5007bab63a	7	73089974	73089974	G	A	SNP	ELN	NM_000501.2	human	genbank	54_36p	+1	reviewed	silent	c.165	p.A55	0.285	NULL	PatternScan_ENDONUCLEASE_III_2,PatternScan_HEXAPEP_TRANSFERASES	-	no_errors	226	0	0.00	64	28	30.43	NA	NA	NA
MUC5B	0	genome.wustl.edu	36	11	1228362	1228362	+	Missense_Mutation	SNP	T	T	C			TCGA-AB-2964-03A-01D-0739-09	TCGA-AB-2964-11A-01D-0739-09	T	T	T	C	T	T	Verified	Valid	Somatic	Phase_IV	WXS	Hybrid_Capture_Illumina_Seq	1	dbGAP	Illumina HiSeq	81878b07-8cd3-47ff-86e8-75ac7e99f4a7	4f7299ec-0ee1-4eb8-88fa-1a5007bab63a	11	1228362	1228362	T	C	SNP	MUC5B	NM_002458.1	human	genbank	54_36p	+1	validated	missense	c.13685	p.V4562A	0.000	NULL	HMMPfam_VWC,HMMSmart_SM00214,PatternScan_VWFC_1,HMMPfam_VWD,HMMSmart_SM00216,superfamily_Serine proterase inhibitors,HMMSmart_SM00041,PatternScan_CTCK_1,HMMPfam_Cys_knot,HMMSmart_SM00215,superfamily_PMP inhibitors,HMMPfam_C8,HMMPfam_TIL	-	no_errors	5	2	28.57	4	1	20.00	NA	NA	NA
OR6A2	0	genome.wustl.edu	36	11	6772949	6772949	+	Silent	SNP	C	C	T			TCGA-AB-2964-03A-01D-0739-09	TCGA-AB-2964-11A-01D-0739-09	C	C	C	T	C	C	Verified	Valid	Somatic	Phase_IV	WXS	Hybrid_Capture_Illumina_Seq	1	dbGAP	Illumina HiSeq	81878b07-8cd3-47ff-86e8-75ac7e99f4a7	4f7299ec-0ee1-4eb8-88fa-1a5007bab63a	11	6772949	6772949	C	T	SNP	OR6A2	NM_003696.2	human	genbank	54_36p	-1	provisional	silent	c.567	p.L189	0.006	HMMPfam_7tm_1,superfamily_SSF81321	HMMPfam_7tm_1,PatternScan_G_PROTEIN_RECEP_F1_1,superfamily_SSF81321	-	no_errors	1237	9	0.72	1422	1065	42.82	NA	NA	NA
TMTC2	0	genome.wustl.edu	36	12	82050201	82050201	+	Missense_Mutation	SNP	G	G	A			TCGA-AB-2964-03A-01D-0739-09	TCGA-AB-2964-11A-01D-0739-09	G	G	G	A	G	G	Verified	Valid	Somatic	Phase_IV	WXS	Hybrid_Capture_Illumina_Seq	1	dbGAP	Illumina HiSeq	81878b07-8cd3-47ff-86e8-75ac7e99f4a7	4f7299ec-0ee1-4eb8-88fa-1a5007bab63a	12	82050201	82050201	G	A	SNP	TMTC2	NM_152588.1	human	genbank	54_36p	+1	provisional	missense	c.2413	p.A805T	1.000	HMMPfam_TPR_1,HMMSmart_SM00028,superfamily_TPR-like	HMMPfam_TPR_1,HMMPfam_TPR_2,HMMPfam_DUF1736,HMMSmart_SM00028,superfamily_TPR-like	-	no_errors	863	1	0.12	407	421	50.66	5	0	0.00
ZFHX2	0	genome.wustl.edu	36	14	23065061	23065061	+	Silent	SNP	G	G	T			TCGA-AB-2964-03A-01D-0739-09	TCGA-AB-2964-11A-01D-0739-09	G	G	G	T	G	G	Verified	Valid	Somatic	Phase_IV	WXS	Hybrid_Capture_Illumina_Seq	1	dbGAP	Illumina HiSeq	81878b07-8cd3-47ff-86e8-75ac7e99f4a7	4f7299ec-0ee1-4eb8-88fa-1a5007bab63a	14	23065061	23065061	G	T	SNP	ZFHX2	XM_001720095.1	human	genbank	54_36p	-1	model	silent	c.4332	p.G1444	0.892	NULL	HMMPfam_Homeobox,HMMSmart_SM00389,HMMSmart_SM00451,HMMPfam_zf-C2H2,PatternScan_ZINC_FINGER_C2H2_1,superfamily_Homeodomain-like,HMMSmart_SM00355,PatternScan_HOMEOBOX_1,superfamily_C2H2 and C2HC zinc fingers	-	no_errors	1206	2	0.17	483	369	43.21	NA	NA	NA
ARHGAP5	0	genome.wustl.edu	36	14	31630239	31630239	+	Missense_Mutation	SNP	G	G	A			TCGA-AB-2964-03A-01D-0739-09	TCGA-AB-2964-11A-01D-0739-09	G	G	G	A	G	G	Verified	Valid	Somatic	Phase_IV	WXS	Hybrid_Capture_Illumina_Seq	1	dbGAP	Illumina HiSeq	81878b07-8cd3-47ff-86e8-75ac7e99f4a7	4f7299ec-0ee1-4eb8-88fa-1a5007bab63a	14	31630239	31630239	G	A	SNP	ARHGAP5	NM_001030055.1	human	genbank	54_36p	+1	reviewed	missense	c.613	p.V205M	1.000	HMMPfam_Ras,superfamily_P-loop containing nucleoside triphosphate hydrolases	HMMPfam_RhoGAP,HMMSmart_SM00324,HMMPfam_FF,HMMSmart_SM00441,superfamily_FF domain,superfamily_GTPase activation domain GAP,HMMPfam_Ras,superfamily_P-loop containing nucleoside triphosphate hydrolases	-	no_errors	1020	4	0.39	371	268	41.94	12	3	20.00
PRSS27	0	genome.wustl.edu	36	16	2703666	2703666	+	Silent	SNP	G	G	C			TCGA-AB-2964-03A-01D-0739-09	TCGA-AB-2964-11A-01D-0739-09	G	G	G	C	G	G	Verified	Valid	Somatic	Phase_IV	WXS	Hybrid_Capture_Illumina_Seq	1	dbGAP	Illumina HiSeq	81878b07-8cd3-47ff-86e8-75ac7e99f4a7	4f7299ec-0ee1-4eb8-88fa-1a5007bab63a	16	2703666	2703666	G	C	SNP	PRSS27	NM_031948.3	human	genbank	54_36p	-1	validated	silent	c.543	p.L181	0.031	HMMPfam_Trypsin,HMMSmart_Tryp_SPc,superfamily_Pept_Ser_Cys	HMMPfam_Trypsin,HMMSmart_Tryp_SPc,superfamily_Pept_Ser_Cys,PatternScan_TRYPSIN_HIS,PatternScan_TRYPSIN_SER	-	no_errors	294	0	0.00	77	61	44.20	3	0	0.00