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
MYCL1	0	genome.wustl.edu	36	1	40136201	40136201	+	Silent	SNP	T	T	A			TCGA-AB-2843-03B-01W-0728-08	TCGA-AB-2843-11B-01W-0729-08	T	T	T	A	T	T	Verified	Valid	Somatic	Phase_IV	WXS	Hybrid_Capture_Illumina_Seq	1	dbGAP	Illumina HiSeq	c6bf38cf-18b1-46e2-99b5-e0b6a0fc7592	47f0907e-96b3-46c2-9acb-198105f451e7	1	40136201	40136201	T	A	SNP	MYCL1	NM_001033081.1	human	genbank	54_36p	-1	validated	silent	c.525	p.V175	1.000	HMMPfam_Myc_N	HMMPfam_HLH,HMMSmart_SM00353,superfamily_HLH helix-loop-helix DNA-binding domain,HMMPfam_Myc_N	-	no_errors	195	2	1.01	57	34	37.36	2	3	60.00
CNGA3	0	genome.wustl.edu	36	2	98378805	98378805	+	Missense_Mutation	SNP	C	C	T			TCGA-AB-2843-03B-01W-0728-08	TCGA-AB-2843-11B-01W-0729-08	C	C	C	T	C	C	Verified	Valid	Somatic	Phase_IV	WXS	Hybrid_Capture_Illumina_Seq	1	dbGAP	Illumina HiSeq	c6bf38cf-18b1-46e2-99b5-e0b6a0fc7592	47f0907e-96b3-46c2-9acb-198105f451e7	2	98378805	98378805	C	T	SNP	CNGA3	NM_001298.1	human	genbank	54_36p	+1	reviewed	missense	c.740	p.T247M	0.001	HMMPfam_Ion_trans,superfamily_SSF81324	HMMPfam_cNMP_binding,HMMSmart_cNMP,HMMPfam_Ion_trans,PatternScan_CNMP_BINDING_1,PatternScan_CNMP_BINDING_2,superfamily_cNMP_binding,superfamily_SSF81324	-	no_errors	268	2	0.74	53	42	44.21	NA	NA	NA
KIT	0	genome.wustl.edu	36	4	55259459	55259459	+	Missense_Mutation	SNP	C	C	T			TCGA-AB-2843-03B-01W-0728-08	TCGA-AB-2843-11B-01W-0729-08	C	C	C	T	C	C	Verified	Valid	Somatic	Phase_IV	WXS	Hybrid_Capture_Illumina_Seq	1	dbGAP	Illumina HiSeq	c6bf38cf-18b1-46e2-99b5-e0b6a0fc7592	47f0907e-96b3-46c2-9acb-198105f451e7	4	55259459	55259459	C	T	SNP	KIT	NM_000222.2	human	genbank	54_36p	+1	reviewed	missense	c.590	p.S197L	0.086	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	44	0	0.00	32	19	37.25	15	20	57.14
KIT	0	genome.wustl.edu	36	4	55294078	55294078	+	Missense_Mutation	SNP	A	A	T	rs121913507		TCGA-AB-2843-03B-01W-0728-08	TCGA-AB-2843-11B-01W-0729-08	A	A	A	T	A	A	Verified	Valid	Somatic	Phase_IV	WXS	Hybrid_Capture_Illumina_Seq	1	dbGAP	Illumina HiSeq	c6bf38cf-18b1-46e2-99b5-e0b6a0fc7592	47f0907e-96b3-46c2-9acb-198105f451e7	4	55294078	55294078	A	T	SNP	KIT	NM_000222.2	human	genbank	54_36p	+1	reviewed	missense	c.2447	p.D816V	1.000	HMMPfam_Pkinase_Tyr,HMMSmart_TyrKc,superfamily_Kinase_like	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	59	4	6.35	24	25	51.02	35	43	55.13
LRRTM2	0	genome.wustl.edu	36	5	138237719	138237719	+	Missense_Mutation	SNP	G	G	C			TCGA-AB-2843-03B-01W-0728-08	TCGA-AB-2843-11B-01W-0729-08	G	G	G	C	G	G	Verified	Valid	Somatic	Phase_IV	WXS	Hybrid_Capture_Illumina_Seq	1	dbGAP	Illumina HiSeq	c6bf38cf-18b1-46e2-99b5-e0b6a0fc7592	47f0907e-96b3-46c2-9acb-198105f451e7	5	138237719	138237719	G	C	SNP	LRRTM2	NM_015564.2	human	genbank	54_36p	-1	validated	missense	c.430	p.Q144E	1.000	HMMPfam_LRR_1,HMMSmart_SM00369,superfamily_L domain-like	HMMPfam_LRR_1,HMMSmart_SM00369,superfamily_L domain-like	-	no_errors	203	0	0.00	98	42	30.00	0	0	0.00
CD74	0	genome.wustl.edu	36	5	149772478	149772478	+	Missense_Mutation	SNP	G	G	A			TCGA-AB-2843-03B-01W-0728-08	TCGA-AB-2843-11B-01W-0729-08	G	G	G	A	G	G	Verified	Valid	Somatic	Phase_IV	WXS	Hybrid_Capture_Illumina_Seq	1	dbGAP	Illumina HiSeq	c6bf38cf-18b1-46e2-99b5-e0b6a0fc7592	47f0907e-96b3-46c2-9acb-198105f451e7	5	149772478	149772478	G	A	SNP	CD74	NM_001025159.1	human	genbank	54_36p	-1	validated	missense	c.28	p.R10W	0.002	NULL	HMMPfam_Thyroglobulin_1,HMMSmart_SM00211,PatternScan_THYROGLOBULIN_1_1,superfamily_Thyroglobulin type-1 domain,HMMPfam_MHCassoc_trimer,superfamily_Class II MHC-associated invariant chain ectoplasmic trimerization domain,HMMPfam_MHC2-interact	-	no_errors	266	1	0.37	51	36	41.38	4335	3678	45.83
SPAM1	0	genome.wustl.edu	36	7	123386834	123386834	+	Missense_Mutation	SNP	G	G	A			TCGA-AB-2843-03B-01W-0728-08	TCGA-AB-2843-11B-01W-0729-08	G	G	G	A	G	G	Verified	Valid	Somatic	Phase_IV	WXS	Hybrid_Capture_Illumina_Seq	1	dbGAP	Illumina HiSeq	c6bf38cf-18b1-46e2-99b5-e0b6a0fc7592	47f0907e-96b3-46c2-9acb-198105f451e7	7	123386834	123386834	G	A	SNP	SPAM1	NM_003117.3	human	genbank	54_36p	+1	reviewed	missense	c.1105	p.V369I	1.000	HMMPfam_Glyco_hydro_56	HMMPfam_Glyco_hydro_56,superfamily_Glyco_hydro_cat	-	no_errors	228	2	0.87	67	41	37.96	NA	NA	NA
PLCE1	0	genome.wustl.edu	36	10	95921184	95921184	+	Missense_Mutation	SNP	C	C	A			TCGA-AB-2843-03B-01W-0728-08	TCGA-AB-2843-11B-01W-0729-08	C	C	C	A	C	C	Verified	Valid	Somatic	Phase_IV	WXS	Hybrid_Capture_Illumina_Seq	1	dbGAP	Illumina HiSeq	c6bf38cf-18b1-46e2-99b5-e0b6a0fc7592	47f0907e-96b3-46c2-9acb-198105f451e7	10	95921184	95921184	C	A	SNP	PLCE1	NM_016341.3	human	genbank	54_36p	+1	validated	missense	c.1750	p.L584I	0.239	HMMPfam_RasGEF,HMMSmart_SM00147,superfamily_Ras GEF	HMMPfam_C2,HMMSmart_SM00239,HMMPfam_RA,HMMSmart_SM00314,HMMPfam_PI-PLC-X,HMMSmart_SM00148,HMMPfam_PI-PLC-Y,HMMSmart_SM00149,HMMPfam_RasGEF,HMMSmart_SM00147,superfamily_Ras GEF,superfamily_C2 domain (Calcium/lipid-binding domain CaLB),HMMPfam_efhand_like,superfamily_PLC-like phosphodiesterases,superfamily_EF-hand	-	no_errors	470	0	0.00	206	50	19.46	NA	NA	NA
SYT1	0	genome.wustl.edu	36	12	78135485	78135485	+	Missense_Mutation	SNP	G	G	A			TCGA-AB-2843-03B-01W-0728-08	TCGA-AB-2843-11B-01W-0729-08	G	G	G	A	G	G	Verified	Valid	Somatic	Phase_IV	WXS	Hybrid_Capture_Illumina_Seq	1	dbGAP	Illumina HiSeq	c6bf38cf-18b1-46e2-99b5-e0b6a0fc7592	47f0907e-96b3-46c2-9acb-198105f451e7	12	78135485	78135485	G	A	SNP	SYT1	NM_005639.1	human	genbank	54_36p	+1	validated	missense	c.55	p.A19T	0.964	NULL	HMMPfam_C2,HMMSmart_SM00239,superfamily_C2 domain (Calcium/lipid-binding domain CaLB)	-	no_errors	71	0	0.00	54	32	37.21	NA	NA	NA
U2AF1	0	genome.wustl.edu	36	21	43397525	43397525	+	Missense_Mutation	SNP	G	G	A			TCGA-AB-2843-03B-01W-0728-08	TCGA-AB-2843-11B-01W-0729-08	G	G	G	A	G	G	Verified	Valid	Somatic	Phase_IV	WXS	Hybrid_Capture_Illumina_Seq	1	dbGAP	Illumina HiSeq	c6bf38cf-18b1-46e2-99b5-e0b6a0fc7592	47f0907e-96b3-46c2-9acb-198105f451e7	21	43397525	43397525	G	A	SNP	U2AF1	NM_001025203.1	human	genbank	54_36p	-1	reviewed	missense	c.101	p.S34F	1.000	HMMPfam_zf-CCCH,HMMSmart_ZnF_C3H1	HMMPfam_RRM_1,HMMSmart_RRM,HMMPfam_zf-CCCH,HMMSmart_ZnF_C3H1,superfamily_SSF54928	-	no_errors	69	0	0.00	12	13	52.00	48	61	55.96
POLDIP3	0	genome.wustl.edu	36	22	41328936	41328936	+	Silent	SNP	A	A	G			TCGA-AB-2843-03B-01W-0728-08	TCGA-AB-2843-11B-01W-0729-08	A	A	A	G	A	A	Verified	Valid	Somatic	Phase_IV	WXS	Hybrid_Capture_Illumina_Seq	1	dbGAP	Illumina HiSeq	c6bf38cf-18b1-46e2-99b5-e0b6a0fc7592	47f0907e-96b3-46c2-9acb-198105f451e7	22	41328936	41328936	A	G	SNP	POLDIP3	NM_032311.3	human	genbank	54_36p	-1	reviewed	silent	c.234	p.L78	1.000	NULL	HMMPfam_RRM_1,HMMSmart_SM00360,superfamily_RNA-binding domain RBD	-	no_errors	269	6	2.18	32	45	58.44	35	26	42.62
TLR4	0	genome.wustl.edu	36	9	119515138	119515141	+	Frame_Shift_Del	DEL	TTAA	TTAA	-			TCGA-AB-2843-03B-01W-0728-08	TCGA-AB-2843-11B-01W-0729-08	TTAA	TTAA	TTAA	-	TTAA	TTAA	Verified	Valid	Somatic	Phase_IV	WXS	Hybrid_Capture_Illumina_Seq	1	dbGAP	Illumina HiSeq	c6bf38cf-18b1-46e2-99b5-e0b6a0fc7592	47f0907e-96b3-46c2-9acb-198105f451e7	9	119515138	119515141	TTAA	-	DEL	TLR4	NM_138554.3	human	genbank	54_36p	+1	reviewed	frame_shift_del	c.911_914	p.N305fs	0.040:0.049:0.060:0.352	superfamily_L domain-like	HMMPfam_TIR,HMMSmart_SM00255,superfamily_Toll/Interleukin receptor TIR domain,HMMPfam_LRRCT,HMMSmart_SM00082,HMMPfam_LRR_1,HMMSmart_SM00369,HMMSmart_SM00365,superfamily_L domain-like	-	no_errors	NA	NA	NA	NA	NA	NA	NA	NA	NA