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
PCDH11X	0	genome.wustl.edu	36	X	91019745	91019745	+	Missense_Mutation	SNP	C	C	T			TCGA-AB-2872-03A-01W-0732-08	TCGA-AB-2872-11A-01W-0761-09	C	C	C	T	C	C	Verified	Valid	Somatic	Phase_IV	WXS	Hybrid_Capture_Illumina_Seq	1	dbGAP	Illumina HiSeq	495c3e6d-76f1-499d-894b-761d50b70566	6bf7d555-2afc-4865-9b8f-97a5dd6609bd	X	91019745	91019745	C	T	SNP	PCDH11X	NM_032968.1	human	genbank	54_36p	+1	reviewed	missense	c.1850	p.T617I	1.000	HMMPfam_Cadherin,HMMSmart_SM00112,superfamily_Cadherin-like	HMMPfam_Cadherin,HMMSmart_SM00112,PatternScan_CADHERIN_1,HMMPfam_Cadherin_2,HMMPfam_Protocadherin,superfamily_Cadherin-like	-	no_errors	15	0	0.00	9	29	74.36	NA	NA	NA
TTN	0	genome.wustl.edu	36	2	179314300	179314300	+	Missense_Mutation	SNP	C	C	T			TCGA-AB-2872-03A-01W-0732-08	TCGA-AB-2872-11A-01W-0761-09	C	C	C	T	C	C	Verified	Valid	Somatic	Phase_IV	WXS	Hybrid_Capture_Illumina_Seq	1	dbGAP	Illumina HiSeq	495c3e6d-76f1-499d-894b-761d50b70566	6bf7d555-2afc-4865-9b8f-97a5dd6609bd	2	179314300	179314300	C	T	SNP	TTN	ENST00000286104	human	ensembl	54_36p	-1	known	missense	c.11398	p.V3800I	0.951	HMMSmart_SM00408,HMMSmart_SM00409,HMMPfam_I-set	PatternScan_IG_MHC,HMMSmart_SM00408,HMMSmart_SM00409,HMMPfam_fn3,HMMSmart_SM00060,HMMPfam_I-set,HMMPfam_ig,HMMPfam_Titin_Z,PatternScan_FGGY_KINASES_1	-	no_stop_codon	102	2	1.92	143	105	42.00	NA	NA	NA
DCHS2	0	genome.wustl.edu	36	4	155376048	155376048	+	Missense_Mutation	SNP	G	G	A			TCGA-AB-2872-03A-01W-0732-08	TCGA-AB-2872-11A-01W-0761-09	G	G	G	A	G	G	Verified	Valid	Somatic	Phase_IV	WXS	Hybrid_Capture_Illumina_Seq	1	dbGAP	Illumina HiSeq	495c3e6d-76f1-499d-894b-761d50b70566	6bf7d555-2afc-4865-9b8f-97a5dd6609bd	4	155376048	155376048	G	A	SNP	DCHS2	NM_017639.1	human	genbank	54_36p	-1	validated	missense	c.7841	p.P2614L	0.038	NULL	HMMPfam_Cadherin,HMMSmart_SM00112,PatternScan_CADHERIN_1,superfamily_Cadherin-like	-	no_errors	117	0	0.00	103	70	40.23	NA	NA	NA
NMUR2	0	genome.wustl.edu	36	5	151764450	151764450	+	Missense_Mutation	SNP	C	C	T			TCGA-AB-2872-03A-01W-0732-08	TCGA-AB-2872-11A-01W-0761-09	C	C	C	T	C	C	Verified	Valid	Somatic	Phase_IV	WXS	Hybrid_Capture_Illumina_Seq	1	dbGAP	Illumina HiSeq	495c3e6d-76f1-499d-894b-761d50b70566	6bf7d555-2afc-4865-9b8f-97a5dd6609bd	5	151764450	151764450	C	T	SNP	NMUR2	NM_020167.4	human	genbank	54_36p	-1	reviewed	missense	c.418	p.V140I	0.391	HMMPfam_7tm_1,PatternScan_G_PROTEIN_RECEP_F1_1,superfamily_Family A G protein-coupled receptor-like	HMMPfam_7tm_1,PatternScan_G_PROTEIN_RECEP_F1_1,superfamily_Family A G protein-coupled receptor-like	-	no_errors	18	1	5.26	70	65	48.15	NA	NA	NA
SPDEF	0	genome.wustl.edu	36	6	34616830	34616830	+	Silent	SNP	C	C	T			TCGA-AB-2872-03A-01W-0732-08	TCGA-AB-2872-11A-01W-0761-09	C	C	C	T	C	C	Verified	Valid	Somatic	Phase_IV	WXS	Hybrid_Capture_Illumina_Seq	1	dbGAP	Illumina HiSeq	495c3e6d-76f1-499d-894b-761d50b70566	6bf7d555-2afc-4865-9b8f-97a5dd6609bd	6	34616830	34616830	C	T	SNP	SPDEF	NM_012391.1	human	genbank	54_36p	-1	provisional	silent	c.543	p.K181	1.000	HMMPfam_SAM_PNT,HMMSmart_SAM_PNT,superfamily_SAM_homology	HMMPfam_Ets,HMMSmart_ETS,PatternScan_ETS_DOMAIN_1,PatternScan_ETS_DOMAIN_2,HMMPfam_SAM_PNT,HMMSmart_SAM_PNT,superfamily_SAM_homology,superfamily_SSF46785	-	no_errors	6	0	0.00	29	17	36.96	0	0	0.00
TJAP1	0	genome.wustl.edu	36	6	43574797	43574797	+	Missense_Mutation	SNP	G	G	T			TCGA-AB-2872-03A-01W-0732-08	TCGA-AB-2872-11A-01W-0761-09	G	G	G	T	G	G	Verified	Valid	Somatic	Phase_IV	WXS	Hybrid_Capture_Illumina_Seq	1	dbGAP	Illumina HiSeq	495c3e6d-76f1-499d-894b-761d50b70566	6bf7d555-2afc-4865-9b8f-97a5dd6609bd	6	43574797	43574797	G	T	SNP	TJAP1	NM_080604.1	human	genbank	54_36p	+1	reviewed	missense	c.80	p.G27V	0.026	NULL	NULL	-	no_errors	51	0	0.00	109	65	36.93	11	14	56.00
SCAF8	0	genome.wustl.edu	36	6	155195592	155195592	+	Missense_Mutation	SNP	C	C	A			TCGA-AB-2872-03A-01W-0732-08	TCGA-AB-2872-11A-01W-0761-09	C	C	C	A	C	C	Verified	Valid	Somatic	Phase_IV	WXS	Hybrid_Capture_Illumina_Seq	1	dbGAP	Illumina HiSeq	495c3e6d-76f1-499d-894b-761d50b70566	6bf7d555-2afc-4865-9b8f-97a5dd6609bd	6	155195592	155195592	C	A	SNP	RBM16	NM_014892.3	human	genbank	54_36p	+1	validated	missense	c.3187	p.P1063T	1.000	NULL	HMMPfam_RRM_1,HMMSmart_RRM,HMMSmart_RPR,HMMPfam_DUF618,superfamily_ENTH_VHS,superfamily_SSF54928	-	no_errors	54	2	3.51	134	131	48.88	39	14	26.42
LRRC4	0	genome.wustl.edu	36	7	127456463	127456463	+	Silent	SNP	G	G	A			TCGA-AB-2872-03A-01W-0732-08	TCGA-AB-2872-11A-01W-0761-09	G	G	G	A	G	G	Verified	Valid	Somatic	Phase_IV	WXS	Hybrid_Capture_Illumina_Seq	1	dbGAP	Illumina HiSeq	495c3e6d-76f1-499d-894b-761d50b70566	6bf7d555-2afc-4865-9b8f-97a5dd6609bd	7	127456463	127456463	G	A	SNP	LRRC4	NM_022143.4	human	genbank	54_36p	-1	validated	silent	c.1467	p.T489	1.000	NULL	HMMPfam_LRRNT,HMMSmart_SM00013,HMMSmart_SM00082,HMMPfam_LRR_1,HMMSmart_SM00369,HMMSmart_SM00408,HMMSmart_SM00409,HMMPfam_I-set,superfamily_Immunoglobulin,superfamily_L domain-like	-	no_errors	12	0	0.00	69	13	15.85	12	0	0.00
LOC401533	0	genome.wustl.edu	36	9	83893235	83893235	+	RNA	SNP	C	C	T			TCGA-AB-2872-03A-01W-0732-08	TCGA-AB-2872-11A-01W-0761-09	C	C	C	T	C	C	Verified	Valid	Somatic	Phase_IV	WXS	Hybrid_Capture_Illumina_Seq	1	dbGAP	Illumina HiSeq	495c3e6d-76f1-499d-894b-761d50b70566	6bf7d555-2afc-4865-9b8f-97a5dd6609bd	9	83893235	83893235	C	T	SNP	LOC401533	XR_016904.2	human	genbank	54_36p	-1	model	rna	NULL	NULL	0.975	-	-	-	pseudogene	74	0	0.00	18	64	76.19	3	0	0.00
CTNNA3	0	genome.wustl.edu	36	10	67710237	67710237	+	Silent	SNP	A	A	T			TCGA-AB-2872-03A-01W-0732-08	TCGA-AB-2872-11A-01W-0761-09	A	A	A	T	A	A	Verified	Valid	Somatic	Phase_IV	WXS	Hybrid_Capture_Illumina_Seq	1	dbGAP	Illumina HiSeq	495c3e6d-76f1-499d-894b-761d50b70566	6bf7d555-2afc-4865-9b8f-97a5dd6609bd	10	67710237	67710237	A	T	SNP	CTNNA3	NM_013266.1	human	genbank	54_36p	-1	validated	silent	c.1881	p.I627	1.000	HMMPfam_Vinculin	HMMPfam_Vinculin,superfamily_alpha-catenin/vinculin	-	no_errors	102	1	0.96	114	87	43.07	NA	NA	NA
DYRK4	0	genome.wustl.edu	36	12	4576122	4576122	+	Missense_Mutation	SNP	C	C	T			TCGA-AB-2872-03A-01W-0732-08	TCGA-AB-2872-11A-01W-0761-09	C	C	C	T	C	C	Verified	Valid	Somatic	Phase_IV	WXS	Hybrid_Capture_Illumina_Seq	1	dbGAP	Illumina HiSeq	495c3e6d-76f1-499d-894b-761d50b70566	6bf7d555-2afc-4865-9b8f-97a5dd6609bd	12	4576122	4576122	C	T	SNP	DYRK4	NM_003845.1	human	genbank	54_36p	+1	provisional	missense	c.526	p.R176C	1.000	HMMSmart_SM00219,HMMSmart_SM00220,superfamily_Protein kinase-like (PK-like),HMMPfam_Pkinase	HMMSmart_SM00219,HMMSmart_SM00220,PatternScan_PROTEIN_KINASE_ST,superfamily_Protein kinase-like (PK-like),PatternScan_PROTEIN_KINASE_ATP,HMMPfam_Pkinase	-	no_errors	111	0	0.00	157	100	38.76	NA	NA	NA
TCL1A	0	genome.wustl.edu	36	14	95250107	95250107	+	Missense_Mutation	SNP	C	C	T			TCGA-AB-2872-03A-01W-0732-08	TCGA-AB-2872-11A-01W-0761-09	C	C	C	T	C	C	Verified	Valid	Somatic	Phase_IV	WXS	Hybrid_Capture_Illumina_Seq	1	dbGAP	Illumina HiSeq	495c3e6d-76f1-499d-894b-761d50b70566	6bf7d555-2afc-4865-9b8f-97a5dd6609bd	14	95250107	95250107	C	T	SNP	TCL1A	NM_001098725.1	human	genbank	54_36p	-1	validated	missense	c.50	p.R17H	0.953	HMMPfam_TCL1_MTCP1,superfamily_TCL1_MTCP1	HMMPfam_TCL1_MTCP1,superfamily_TCL1_MTCP1	-	no_errors	26	0	0.00	53	26	32.91	6	0	0.00
EXD1	0	genome.wustl.edu	36	15	39269594	39269594	+	Nonsense_Mutation	SNP	G	G	A			TCGA-AB-2872-03A-01W-0732-08	TCGA-AB-2872-11A-01W-0761-09	G	G	G	A	G	G	Verified	Valid	Somatic	Phase_IV	WXS	Hybrid_Capture_Illumina_Seq	1	dbGAP	Illumina HiSeq	495c3e6d-76f1-499d-894b-761d50b70566	6bf7d555-2afc-4865-9b8f-97a5dd6609bd	15	39269594	39269594	G	A	SNP	EXD1	NM_152596.2	human	genbank	54_36p	-1	provisional	nonsense	c.715	p.R239*	0.496	HMMSmart_SM00474,superfamily_Ribonuclease H-like	HMMPfam_3_5_exonuc,HMMSmart_SM00474,superfamily_Ribonuclease H-like	-	no_errors	91	2	2.15	99	63	38.41	NA	NA	NA
CALR	0	genome.wustl.edu	36	19	12912080	12912081	+	Frame_Shift_Ins	INS	-	-	A			TCGA-AB-2872-03A-01W-0732-08	TCGA-AB-2872-11A-01W-0761-09	-	-	-	A	-	-	Verified	Valid	Somatic	Phase_IV	WXS	Hybrid_Capture_Illumina_Seq	1	dbGAP	Illumina HiSeq	495c3e6d-76f1-499d-894b-761d50b70566	6bf7d555-2afc-4865-9b8f-97a5dd6609bd	19	12912080	12912081	-	A	INS	CALR	NM_004343.3	human	genbank	54_36p	+1	reviewed	frame_shift_ins	c.516_517	p.T172fs	1.000:1.000	HMMPfam_Calreticulin,superfamily_Concanavalin A-like lectins/glucanases	HMMPfam_Calreticulin,superfamily_Concanavalin A-like lectins/glucanases,PatternScan_CALRETICULIN_1,PatternScan_CALRETICULIN_2,PatternScan_CALRETICULIN_REPEAT	-	no_errors	43	2	4.44	82	34	29.31	3033	253	7.70