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
TCEAL6	0	genome.wustl.edu	36	X	101282827	101282827	+	Missense_Mutation	SNP	C	C	T			TCGA-AB-2899-03A-01W-0733-08	TCGA-AB-2899-11A-01W-0732-08	C	C	C	T	C	C	Verified	Valid	Somatic	Phase_IV	WXS	Hybrid_Capture_Illumina_Seq	1	dbGAP	Illumina HiSeq	2c9108eb-c59a-4227-b650-56e61b3aa0ea	a29bd0de-862b-4b95-95a7-93b321a3e6ac	X	101282827	101282827	C	T	SNP	TCEAL6	NM_001006938.2	human	genbank	54_36p	-1	validated	missense	c.133	p.E45K	0.010	HMMPfam_TFA	HMMPfam_TFA	-	no_errors	67	0	0.00	152	113	42.64	NA	NA	NA
ALG13	0	genome.wustl.edu	36	X	110889729	110889729	+	Missense_Mutation	SNP	C	C	T			TCGA-AB-2899-03A-01W-0733-08	TCGA-AB-2899-11A-01W-0732-08	C	C	C	T	C	C	Verified	Valid	Somatic	Phase_IV	WXS	Hybrid_Capture_Illumina_Seq	1	dbGAP	Illumina HiSeq	2c9108eb-c59a-4227-b650-56e61b3aa0ea	a29bd0de-862b-4b95-95a7-93b321a3e6ac	X	110889729	110889729	C	T	SNP	ALG13	ENST00000394780	human	ensembl	54_36p	+1	known	missense	c.3260	p.P1087L	0.057	NULL	HMMPfam_OTU,HMMPfam_Glyco_tran_28_C,superfamily_SSF53756,superfamily_SSF54001,superfamily_SSF63748	-	no_errors	74	4	5.13	60	40	40.00	24	0	0.00
SPEG	0	genome.wustl.edu	36	2	220052978	220052978	+	Silent	SNP	G	G	C			TCGA-AB-2899-03A-01W-0733-08	TCGA-AB-2899-11A-01W-0732-08	G	G	G	C	G	G	Verified	Valid	Somatic	Phase_IV	WXS	Hybrid_Capture_Illumina_Seq	1	dbGAP	Illumina HiSeq	2c9108eb-c59a-4227-b650-56e61b3aa0ea	a29bd0de-862b-4b95-95a7-93b321a3e6ac	2	220052978	220052978	G	C	SNP	SPEG	NM_005876.4	human	genbank	54_36p	+1	validated	silent	c.5214	p.R1738	0.999	HMMSmart_SM00220,superfamily_Protein kinase-like (PK-like),HMMPfam_Pkinase	HMMSmart_SM00219,HMMSmart_SM00220,HMMSmart_SM00408,HMMSmart_SM00409,HMMPfam_fn3,HMMSmart_SM00060,PatternScan_PROTEIN_KINASE_ST,superfamily_Fibronectin type III,superfamily_Protein kinase-like (PK-like),HMMPfam_I-set,PatternScan_PROTEIN_KINASE_ATP,HMMPfam_Pkinase,superfamily_Immunoglobulin	-	no_errors	134	2	1.47	36	35	49.30	NA	NA	NA
LOC652670	0	genome.wustl.edu	36	3	75674674	75674674	+	RNA	SNP	C	C	T			TCGA-AB-2899-03A-01W-0733-08	TCGA-AB-2899-11A-01W-0732-08	C	C	C	T	C	C	Verified	Valid	Somatic	Phase_IV	WXS	Hybrid_Capture_Illumina_Seq	1	dbGAP	Illumina HiSeq	2c9108eb-c59a-4227-b650-56e61b3aa0ea	a29bd0de-862b-4b95-95a7-93b321a3e6ac	3	75674674	75674674	C	T	SNP	LOC652670	XR_016285.2	human	genbank	54_36p	-1	model	rna	NULL	NULL	1.000	-	-	-	pseudogene	62	2	3.12	27	68	71.58	0	0	0.00
SLC2A9	0	genome.wustl.edu	36	4	9607661	9607661	+	Silent	SNP	G	G	A			TCGA-AB-2899-03A-01W-0733-08	TCGA-AB-2899-11A-01W-0732-08	G	G	G	A	G	G	Verified	Valid	Somatic	Phase_IV	WXS	Hybrid_Capture_Illumina_Seq	1	dbGAP	Illumina HiSeq	2c9108eb-c59a-4227-b650-56e61b3aa0ea	a29bd0de-862b-4b95-95a7-93b321a3e6ac	4	9607661	9607661	G	A	SNP	SLC2A9	NM_020041.1	human	genbank	54_36p	-1	reviewed	silent	c.252	p.Y84	1.000	HMMPfam_Sugar_tr,superfamily_MFS general substrate transporter	HMMPfam_Sugar_tr,PatternScan_SUGAR_TRANSPORT_1,PatternScan_SUGAR_TRANSPORT_2,superfamily_MFS general substrate transporter	-	no_errors	121	6	4.69	55	33	37.50	7	3	30.00
DUSP1	0	genome.wustl.edu	36	5	172128423	172128423	+	Missense_Mutation	SNP	T	T	C			TCGA-AB-2899-03A-01W-0733-08	TCGA-AB-2899-11A-01W-0732-08	T	T	T	C	T	T	Verified	Valid	Somatic	Phase_IV	WXS	Hybrid_Capture_Illumina_Seq	1	dbGAP	Illumina HiSeq	2c9108eb-c59a-4227-b650-56e61b3aa0ea	a29bd0de-862b-4b95-95a7-93b321a3e6ac	5	172128423	172128423	T	C	SNP	DUSP1	NM_004417.2	human	genbank	54_36p	-1	reviewed	missense	c.1052	p.N351S	0.996	NULL	HMMPfam_DSPc,HMMPfam_Rhodanese,HMMSmart_RHOD,superfamily_Rhodanese-like,PatternScan_TYR_PHOSPHATASE_1,HMMSmart_DSPc,superfamily_SSF52799	-	no_errors	45	1	2.17	46	39	45.88	434	374	46.23
OPN5	0	genome.wustl.edu	36	6	47884004	47884004	+	Silent	SNP	C	C	T			TCGA-AB-2899-03A-01W-0733-08	TCGA-AB-2899-11A-01W-0732-08	C	C	C	T	C	C	Verified	Valid	Somatic	Phase_IV	WXS	Hybrid_Capture_Illumina_Seq	1	dbGAP	Illumina HiSeq	2c9108eb-c59a-4227-b650-56e61b3aa0ea	a29bd0de-862b-4b95-95a7-93b321a3e6ac	6	47884004	47884004	C	T	SNP	OPN5	NM_181744.1	human	genbank	54_36p	+1	reviewed	silent	c.912	p.I304	1.000	HMMPfam_7tm_1,PatternScan_OPSIN,superfamily_SSF81321	HMMPfam_7tm_1,PatternScan_G_PROTEIN_RECEP_F1_1,PatternScan_OPSIN,superfamily_SSF81321	-	no_errors	86	2	2.27	46	22	32.35	NA	NA	NA
IMMP2L	0	genome.wustl.edu	36	7	110313941	110313941	+	Missense_Mutation	SNP	T	T	C			TCGA-AB-2899-03A-01W-0733-08	TCGA-AB-2899-11A-01W-0732-08	T	T	T	C	T	T	Verified	Valid	Somatic	Phase_IV	WXS	Hybrid_Capture_Illumina_Seq	1	dbGAP	Illumina HiSeq	2c9108eb-c59a-4227-b650-56e61b3aa0ea	a29bd0de-862b-4b95-95a7-93b321a3e6ac	7	110313941	110313941	T	C	SNP	IMMP2L	NM_032549.2	human	genbank	54_36p	-1	provisional	missense	c.352	p.I118V	1.000	superfamily_LexA/Signal peptidase,PatternScan_SPASE_I_3	superfamily_LexA/Signal peptidase,PatternScan_SPASE_I_3,HMMPfam_Peptidase_S24,PatternScan_ATPASE_ALPHA_BETA	-	no_errors	59	0	0.00	54	23	29.87	6	2	25.00
UBN2	0	genome.wustl.edu	36	7	138619697	138619697	+	Missense_Mutation	SNP	A	A	G			TCGA-AB-2899-03A-01W-0733-08	TCGA-AB-2899-11A-01W-0732-08	A	A	A	G	A	A	Verified	Valid	Somatic	Phase_IV	WXS	Hybrid_Capture_Illumina_Seq	1	dbGAP	Illumina HiSeq	2c9108eb-c59a-4227-b650-56e61b3aa0ea	a29bd0de-862b-4b95-95a7-93b321a3e6ac	7	138619697	138619697	A	G	SNP	UBN2	NM_173569.2	human	genbank	54_36p	+1	validated	missense	c.3257	p.N1086S	1.000	NULL	PatternScan_TUBULIN	-	no_errors	80	1	1.23	44	30	40.54	15	16	51.61
KCNH2	0	genome.wustl.edu	36	7	150274939	150274939	+	Missense_Mutation	SNP	C	C	T			TCGA-AB-2899-03A-01W-0733-08	TCGA-AB-2899-11A-01W-0732-08	C	C	C	T	C	C	Verified	Valid	Somatic	Phase_IV	WXS	Hybrid_Capture_Illumina_Seq	1	dbGAP	Illumina HiSeq	2c9108eb-c59a-4227-b650-56e61b3aa0ea	a29bd0de-862b-4b95-95a7-93b321a3e6ac	7	150274939	150274939	C	T	SNP	KCNH2	NM_000238.2	human	genbank	54_36p	-1	reviewed	missense	c.3289	p.V1097I	0.872	NULL	HMMPfam_cNMP_binding,HMMSmart_SM00100,HMMSmart_SM00086,HMMPfam_Ion_trans,HMMPfam_PAS,superfamily_cAMP-binding domain-like,superfamily_PYP-like sensor domain (PAS domain),superfamily_Voltage-gated potassium channels	-	no_errors	25	0	0.00	23	15	39.47	0	2	100.00
OIT3	0	genome.wustl.edu	36	10	74343230	74343230	+	Missense_Mutation	SNP	G	G	A			TCGA-AB-2899-03A-01W-0733-08	TCGA-AB-2899-11A-01W-0732-08	G	G	G	A	G	G	Verified	Valid	Somatic	Phase_IV	WXS	Hybrid_Capture_Illumina_Seq	1	dbGAP	Illumina HiSeq	2c9108eb-c59a-4227-b650-56e61b3aa0ea	a29bd0de-862b-4b95-95a7-93b321a3e6ac	10	74343230	74343230	G	A	SNP	OIT3	NM_152635.1	human	genbank	54_36p	+1	provisional	missense	c.949	p.D317N	0.436	HMMPfam_Zona_pellucida,HMMSmart_SM00241	PatternScan_ASX_HYDROXYL,HMMPfam_Zona_pellucida,HMMSmart_SM00241,HMMSmart_SM00179,HMMPfam_EGF,HMMSmart_SM00181,PatternScan_EGF_CA,superfamily_EGF/Laminin	-	no_errors	106	3	2.75	68	66	49.25	NA	NA	NA
IKZF4	0	genome.wustl.edu	36	12	54706920	54706920	+	Silent	SNP	C	C	T			TCGA-AB-2899-03A-01W-0733-08	TCGA-AB-2899-11A-01W-0732-08	C	C	C	T	C	C	Verified	Valid	Somatic	Phase_IV	WXS	Hybrid_Capture_Illumina_Seq	1	dbGAP	Illumina HiSeq	2c9108eb-c59a-4227-b650-56e61b3aa0ea	a29bd0de-862b-4b95-95a7-93b321a3e6ac	12	54706920	54706920	C	T	SNP	IKZF4	NM_022465.3	human	genbank	54_36p	+1	validated	silent	c.375	p.S125	0.437	NULL	HMMPfam_zf-C2H2,PatternScan_ZINC_FINGER_C2H2_1,HMMSmart_SM00355,superfamily_C2H2 and C2HC zinc fingers	-	no_errors	85	2	2.30	61	27	30.68	4	0	0.00
SLC7A7	0	genome.wustl.edu	36	14	22312678	22312678	+	Missense_Mutation	SNP	C	C	T			TCGA-AB-2899-03A-01W-0733-08	TCGA-AB-2899-11A-01W-0732-08	C	C	C	T	C	C	Verified	Valid	Somatic	Phase_IV	WXS	Hybrid_Capture_Illumina_Seq	1	dbGAP	Illumina HiSeq	2c9108eb-c59a-4227-b650-56e61b3aa0ea	a29bd0de-862b-4b95-95a7-93b321a3e6ac	14	22312678	22312678	C	T	SNP	SLC7A7	NM_003982.1	human	genbank	54_36p	-1	reviewed	missense	c.1517	p.R506Q	0.010	NULL	PatternScan_AMINO_ACID_PERMEASE_1,HMMPfam_AA_permease	-	no_errors	193	3	1.52	117	99	45.83	39	37	48.68
QRICH2	0	genome.wustl.edu	36	17	71785833	71785833	+	Missense_Mutation	SNP	T	T	A			TCGA-AB-2899-03A-01W-0733-08	TCGA-AB-2899-11A-01W-0732-08	T	T	T	A	T	T	Verified	Valid	Somatic	Phase_IV	WXS	Hybrid_Capture_Illumina_Seq	1	dbGAP	Illumina HiSeq	2c9108eb-c59a-4227-b650-56e61b3aa0ea	a29bd0de-862b-4b95-95a7-93b321a3e6ac	17	71785833	71785833	T	A	SNP	QRICH2	NM_032134.1	human	genbank	54_36p	-1	provisional	missense	c.4451	p.D1484V	0.303	NULL	NULL	-	no_errors	127	1	0.76	20	8	28.57	4	1	20.00
SETBP1	0	genome.wustl.edu	36	18	40785911	40785911	+	Missense_Mutation	SNP	G	G	A			TCGA-AB-2899-03A-01W-0733-08	TCGA-AB-2899-11A-01W-0732-08	G	G	G	A	G	G	Verified	Valid	Somatic	Phase_IV	WXS	Hybrid_Capture_Illumina_Seq	1	dbGAP	Illumina HiSeq	2c9108eb-c59a-4227-b650-56e61b3aa0ea	a29bd0de-862b-4b95-95a7-93b321a3e6ac	18	40785911	40785911	G	A	SNP	SETBP1	NM_015559.1	human	genbank	54_36p	+1	validated	missense	c.2446	p.G816S	1.000	NULL	HMMPfam_AT_hook,HMMSmart_AT_hook	-	no_errors	81	5	5.81	60	46	43.40	15	19	55.88
RUNX1	0	genome.wustl.edu	36	21	35174748	35174748	+	Missense_Mutation	SNP	T	T	C			TCGA-AB-2899-03A-01W-0733-08	TCGA-AB-2899-11A-01W-0732-08	T	T	T	C	T	T	Verified	Valid	Somatic	Phase_IV	WXS	Hybrid_Capture_Illumina_Seq	1	dbGAP	Illumina HiSeq	2c9108eb-c59a-4227-b650-56e61b3aa0ea	a29bd0de-862b-4b95-95a7-93b321a3e6ac	21	35174748	35174748	T	C	SNP	RUNX1	NM_001754.2	human	genbank	54_36p	-1	reviewed	missense	c.484	p.R162G	1.000	superfamily_p53-like transcription factors,HMMPfam_Runt	superfamily_p53-like transcription factors,HMMPfam_Runt,HMMPfam_RunxI	-	no_errors	42	0	0.00	8	16	66.67	18	327	94.78
C7	0	genome.wustl.edu	36	5	41017295	41017297	+	In_Frame_Del	DEL	GAA	GAA	-			TCGA-AB-2899-03A-01W-0733-08	TCGA-AB-2899-11A-01W-0732-08	GAA	GAA	GAA	-	GAA	GAA	Verified	Valid	Somatic	Phase_IV	WXS	Hybrid_Capture_Illumina_Seq	1	dbGAP	Illumina HiSeq	2c9108eb-c59a-4227-b650-56e61b3aa0ea	a29bd0de-862b-4b95-95a7-93b321a3e6ac	5	41017295	41017297	GAA	-	DEL	C7	NM_000587.2	human	genbank	54_36p	+1	reviewed	in_frame_del	c.2395_2397	p.E800in_frame_del	0.054:0.080:0.095	HMMSmart_FIMAC	HMMPfam_Sushi,HMMSmart_CCP,HMMPfam_TSP_1,HMMSmart_TSP1,superfamily_TSP1,HMMPfam_MACPF,HMMSmart_MACPF,PatternScan_MAC_PERFORIN,HMMPfam_Ldl_recept_a,HMMSmart_LDLa,PatternScan_LDLRA_1,HMMSmart_FIMAC,PatternScan_EGF_1,PatternScan_EGF_2,superfamily_Complement_control_module,superfamily_SSF57196	-	no_errors	0	6	6.74	0	38	33.04	0	0	0.00