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
MT-CYB	0	genome.wustl.edu	36	MT	14964	14964	+	Missense_Mutation	SNP	G	G	A			TCGA-AB-2900-03A-01W-0733-08	TCGA-AB-2900-11A-01W-0732-08	G	G	G	A	G	G	Verified	Valid	Somatic	Phase_IV	WXS	Hybrid_Capture_Illumina_Seq	1	dbGAP	Illumina HiSeq	70e697ae-f265-4598-b261-92c92622bf2d	e553d484-56f9-4c88-b500-f4e4e295b394	MT	14964	14964	G	A	SNP	MT-CYB	ENST00000361789	human	ensembl	54_36p	+1	known	missense	c.217	p.V73M	NULL	HMMPfam_Cytochrom_B_N,superfamily_Transmembr_di-haem_cytochrome	HMMPfam_Cytochrom_B_N,HMMPfam_Cytochrom_B_C,superfamily_Cytochrome_b/b6_C,superfamily_Transmembr_di-haem_cytochrome	-	no_stop_codon:bad_bp_length_for_coding_region	2685	32	1.17	3977	523	11.56	NA	NA	NA
SMC1A	0	genome.wustl.edu	36	X	53440262	53440262	+	Nonsense_Mutation	SNP	C	C	A			TCGA-AB-2900-03A-01W-0733-08	TCGA-AB-2900-11A-01W-0732-08	C	C	C	A	C	C	Verified	Valid	Somatic	Phase_IV	WXS	Hybrid_Capture_Illumina_Seq	1	dbGAP	Illumina HiSeq	70e697ae-f265-4598-b261-92c92622bf2d	e553d484-56f9-4c88-b500-f4e4e295b394	X	53440262	53440262	C	A	SNP	SMC1A	NM_006306.2	human	genbank	54_36p	-1	reviewed	nonsense	c.2563	p.E855*	1.000	HMMPfam_SMC_N,superfamily_SSF52540	HMMPfam_SMC_N,HMMPfam_SMC_hinge,superfamily_SMC_hinge,superfamily_SSF52540	-	no_errors	31	7	18.42	14	122	89.05	0	41	93.18
SPEN	0	genome.wustl.edu	36	1	16075676	16075676	+	Missense_Mutation	SNP	C	C	G			TCGA-AB-2900-03A-01W-0733-08	TCGA-AB-2900-11A-01W-0732-08	C	C	C	G	C	C	Verified	Valid	Somatic	Phase_IV	WXS	Hybrid_Capture_Illumina_Seq	1	dbGAP	Illumina HiSeq	70e697ae-f265-4598-b261-92c92622bf2d	e553d484-56f9-4c88-b500-f4e4e295b394	1	16075676	16075676	C	G	SNP	SPEN	NM_015001.2	human	genbank	54_36p	+1	reviewed	missense	c.797	p.T266R	0.920	NULL	HMMPfam_RRM_1,HMMSmart_RRM,HMMPfam_SPOC,superfamily_SPOC-like,superfamily_SSF54928	-	no_errors	59	1	1.67	61	50	44.25	12	23	65.71
KLHDC7A	0	genome.wustl.edu	36	1	18682068	18682068	+	Missense_Mutation	SNP	C	C	T			TCGA-AB-2900-03A-01W-0733-08	TCGA-AB-2900-11A-01W-0732-08	C	C	C	T	C	C	Verified	Valid	Somatic	Phase_IV	WXS	Hybrid_Capture_Illumina_Seq	1	dbGAP	Illumina HiSeq	70e697ae-f265-4598-b261-92c92622bf2d	e553d484-56f9-4c88-b500-f4e4e295b394	1	18682068	18682068	C	T	SNP	KLHDC7A	NM_152375.2	human	genbank	54_36p	+1	validated	missense	c.2006	p.T669M	1.000	superfamily_Gal_oxid_central	HMMPfam_Kelch_1,HMMSmart_Kelch,superfamily_Gal_oxid_central	-	no_errors	11	0	0.00	35	14	28.00	NA	NA	NA
NOTCH2	0	genome.wustl.edu	36	1	120266502	120266502	+	Missense_Mutation	SNP	A	A	T			TCGA-AB-2900-03A-01W-0733-08	TCGA-AB-2900-11A-01W-0732-08	A	A	A	T	A	A	Verified	Valid	Somatic	Phase_IV	WXS	Hybrid_Capture_Illumina_Seq	1	dbGAP	Illumina HiSeq	70e697ae-f265-4598-b261-92c92622bf2d	e553d484-56f9-4c88-b500-f4e4e295b394	1	120266502	120266502	A	T	SNP	NOTCH2	NM_024408.2	human	genbank	54_36p	-1	reviewed	missense	c.5093	p.I1698N	1.000	NULL	PatternScan_ASX_HYDROXYL,HMMPfam_Notch,HMMSmart_NL,superfamily_Notch_region,HMMSmart_EGF_CA,HMMPfam_Ank,HMMSmart_ANK,superfamily_ANK,HMMPfam_EGF,HMMSmart_EGF,HMMPfam_NOD,HMMPfam_NODP,PatternScan_EGF_1,PatternScan_EGF_2,HMMPfam_EGF_CA,PatternScan_EGF_CA,superfamily_SSF57196	-	no_errors	80	1	1.20	85	106	54.36	42	39	48.15
GREB1	0	genome.wustl.edu	36	2	11658497	11658497	+	Silent	SNP	C	C	T			TCGA-AB-2900-03A-01W-0733-08	TCGA-AB-2900-11A-01W-0732-08	C	C	C	T	C	C	Verified	Valid	Somatic	Phase_IV	WXS	Hybrid_Capture_Illumina_Seq	1	dbGAP	Illumina HiSeq	70e697ae-f265-4598-b261-92c92622bf2d	e553d484-56f9-4c88-b500-f4e4e295b394	2	11658497	11658497	C	T	SNP	GREB1	NM_014668.3	human	genbank	54_36p	+1	reviewed	silent	c.2454	p.F818	1.000	NULL	NULL	-	no_errors	67	3	4.29	88	90	50.00	NA	NA	NA
SCTR	0	genome.wustl.edu	36	2	119920929	119920929	+	Missense_Mutation	SNP	C	C	T			TCGA-AB-2900-03A-01W-0733-08	TCGA-AB-2900-11A-01W-0732-08	C	C	C	T	C	C	Verified	Valid	Somatic	Phase_IV	WXS	Hybrid_Capture_Illumina_Seq	1	dbGAP	Illumina HiSeq	70e697ae-f265-4598-b261-92c92622bf2d	e553d484-56f9-4c88-b500-f4e4e295b394	2	119920929	119920929	C	T	SNP	SCTR	NM_002980.2	human	genbank	54_36p	-1	reviewed	missense	c.1016	p.R339H	0.995	HMMPfam_7tm_2,superfamily_Family A G protein-coupled receptor-like	HMMPfam_7tm_2,HMMPfam_HRM,HMMSmart_SM00008,PatternScan_G_PROTEIN_RECEP_F2_1,PatternScan_G_PROTEIN_RECEP_F2_2,superfamily_Hormone receptor domain (HRM Pfam 02793),superfamily_Family A G protein-coupled receptor-like	-	no_errors	34	2	5.41	70	64	46.72	NA	NA	NA
EPGN	0	genome.wustl.edu	36	4	75393698	75393698	+	Missense_Mutation	SNP	C	C	A			TCGA-AB-2900-03A-01W-0733-08	TCGA-AB-2900-11A-01W-0732-08	C	C	C	A	C	C	Verified	Valid	Somatic	Phase_IV	WXS	Hybrid_Capture_Illumina_Seq	1	dbGAP	Illumina HiSeq	70e697ae-f265-4598-b261-92c92622bf2d	e553d484-56f9-4c88-b500-f4e4e295b394	4	75393698	75393698	C	A	SNP	EPGN	NM_001013442.1	human	genbank	54_36p	+1	provisional	missense	c.68	p.A23E	0.236	NULL	HMMSmart_EGF,PatternScan_EGF_1,PatternScan_EGF_2,superfamily_SSF57196	-	no_errors	82	4	4.65	92	89	48.63	0	1	100.00
HADH	0	genome.wustl.edu	36	4	109168302	109168302	+	Missense_Mutation	SNP	G	G	T			TCGA-AB-2900-03A-01W-0733-08	TCGA-AB-2900-11A-01W-0732-08	G	G	G	T	G	G	Verified	Valid	Somatic	Phase_IV	WXS	Hybrid_Capture_Illumina_Seq	1	dbGAP	Illumina HiSeq	70e697ae-f265-4598-b261-92c92622bf2d	e553d484-56f9-4c88-b500-f4e4e295b394	4	109168302	109168302	G	T	SNP	HADH	NM_005327.2	human	genbank	54_36p	+1	reviewed	missense	c.646	p.G216W	1.000	HMMPfam_3HCDH,PatternScan_3HCDH,superfamily_6-phosphogluconate dehydrogenase C-terminal domain-like	HMMPfam_3HCDH,HMMPfam_3HCDH_N,PatternScan_3HCDH,superfamily_6-phosphogluconate dehydrogenase C-terminal domain-like,superfamily_NAD(P)-binding Rossmann-fold domains	-	no_errors	127	11	7.86	218	210	48.50	42	42	50.00
ANKRD55	0	genome.wustl.edu	36	5	55491450	55491450	+	Silent	SNP	C	C	T			TCGA-AB-2900-03A-01W-0733-08	TCGA-AB-2900-11A-01W-0732-08	C	C	C	T	C	C	Verified	Valid	Somatic	Phase_IV	WXS	Hybrid_Capture_Illumina_Seq	1	dbGAP	Illumina HiSeq	70e697ae-f265-4598-b261-92c92622bf2d	e553d484-56f9-4c88-b500-f4e4e295b394	5	55491450	55491450	C	T	SNP	ANKRD55	NM_024669.1	human	genbank	54_36p	-1	validated	silent	c.450	p.S150	0.807	HMMPfam_Ank,HMMSmart_ANK,superfamily_ANK	HMMPfam_Ank,HMMSmart_ANK,superfamily_ANK	-	no_errors	108	8	6.90	173	131	42.95	1	0	0.00
PCDH1	0	genome.wustl.edu	36	5	141224245	141224245	+	Missense_Mutation	SNP	A	A	G			TCGA-AB-2900-03A-01W-0733-08	TCGA-AB-2900-11A-01W-0732-08	A	A	A	G	A	A	Verified	Valid	Somatic	Phase_IV	WXS	Hybrid_Capture_Illumina_Seq	1	dbGAP	Illumina HiSeq	70e697ae-f265-4598-b261-92c92622bf2d	e553d484-56f9-4c88-b500-f4e4e295b394	5	141224245	141224245	A	G	SNP	PCDH1	NM_032420.3	human	genbank	54_36p	-1	reviewed	missense	c.1835	p.F612S	1.000	superfamily_Cadherin	HMMPfam_Cadherin,HMMSmart_CA,PatternScan_CADHERIN_1,HMMPfam_Cadherin_2,HMMPfam_Protocadherin,superfamily_Cadherin,PatternScan_GREAB_2	-	no_errors	201	10	4.67	257	195	42.58	NA	NA	NA
GABRG2	0	genome.wustl.edu	36	5	161508763	161508763	+	Missense_Mutation	SNP	G	G	T			TCGA-AB-2900-03A-01W-0733-08	TCGA-AB-2900-11A-01W-0732-08	G	G	G	T	G	G	Verified	Valid	Somatic	Phase_IV	WXS	Hybrid_Capture_Illumina_Seq	1	dbGAP	Illumina HiSeq	70e697ae-f265-4598-b261-92c92622bf2d	e553d484-56f9-4c88-b500-f4e4e295b394	5	161508763	161508763	G	T	SNP	GABRG2	NM_198904.3	human	genbank	54_36p	+1	reviewed	missense	c.994	p.V332F	1.000	HMMPfam_Neur_chan_memb,superfamily_Neurotransmitter-gated ion-channel transmembrane pore	HMMPfam_Neur_chan_memb,superfamily_Neurotransmitter-gated ion-channel transmembrane pore,HMMPfam_Neur_chan_LBD,superfamily_Nicotinic receptor ligand binding domain-like,PatternScan_NEUROTR_ION_CHANNEL	-	no_errors	93	7	7.00	118	93	44.08	NA	NA	NA
GRIK2	0	genome.wustl.edu	36	6	102176522	102176522	+	Missense_Mutation	SNP	A	A	G			TCGA-AB-2900-03A-01W-0733-08	TCGA-AB-2900-11A-01W-0732-08	A	A	A	G	A	A	Verified	Valid	Somatic	Phase_IV	WXS	Hybrid_Capture_Illumina_Seq	1	dbGAP	Illumina HiSeq	70e697ae-f265-4598-b261-92c92622bf2d	e553d484-56f9-4c88-b500-f4e4e295b394	6	102176522	102176522	A	G	SNP	GRIK2	NM_021956.3	human	genbank	54_36p	+1	reviewed	missense	c.121	p.I41V	1.000	superfamily_Periplasmic binding protein-like I	HMMPfam_Lig_chan,HMMSmart_SM00079,HMMPfam_ANF_receptor,HMMPfam_Lig_chan-Glu_bd,superfamily_Periplasmic binding protein-like I,superfamily_Periplasmic binding protein-like II	-	no_errors	87	2	2.22	139	99	40.91	NA	NA	NA
KCNT1	0	genome.wustl.edu	36	9	137781841	137781841	+	Missense_Mutation	SNP	T	T	A			TCGA-AB-2900-03A-01W-0733-08	TCGA-AB-2900-11A-01W-0732-08	T	T	T	A	T	T	Verified	Valid	Somatic	Phase_IV	WXS	Hybrid_Capture_Illumina_Seq	1	dbGAP	Illumina HiSeq	70e697ae-f265-4598-b261-92c92622bf2d	e553d484-56f9-4c88-b500-f4e4e295b394	9	137781841	137781841	T	A	SNP	KCNT1	NM_020822.1	human	genbank	54_36p	+1	provisional	missense	c.331	p.S111T	1.000	NULL	HMMPfam_BK_channel_a,HMMPfam_Ion_trans_2,superfamily_NAD(P)-bd,superfamily_SSF81324	-	no_errors	49	2	3.85	49	22	30.56	NA	NA	NA
LRP5	0	genome.wustl.edu	36	11	67871993	67871993	+	Missense_Mutation	SNP	C	C	T			TCGA-AB-2900-03A-01W-0733-08	TCGA-AB-2900-11A-01W-0732-08	C	C	C	T	C	C	Verified	Valid	Somatic	Phase_IV	WXS	Hybrid_Capture_Illumina_Seq	1	dbGAP	Illumina HiSeq	70e697ae-f265-4598-b261-92c92622bf2d	e553d484-56f9-4c88-b500-f4e4e295b394	11	67871993	67871993	C	T	SNP	LRP5	NM_002335.2	human	genbank	54_36p	+1	validated	missense	c.194	p.A65V	1.000	HMMSmart_SM00135,superfamily_YWTD domain	HMMPfam_Ldl_recept_b,HMMSmart_SM00135,HMMPfam_Ldl_recept_a,HMMSmart_SM00192,PatternScan_LDLRA_1,superfamily_LDL receptor-like module,HMMPfam_EGF,HMMSmart_SM00181,superfamily_EGF/Laminin,superfamily_YWTD domain	-	no_errors	62	1	1.59	46	45	48.91	2	0	0.00
FLT3	0	genome.wustl.edu	36	13	27490642	27490642	+	Missense_Mutation	SNP	C	C	A	rs121913488		TCGA-AB-2900-03A-01W-0733-08	TCGA-AB-2900-11A-01W-0732-08	C	C	C	A	C	C	Verified	Valid	Somatic	Phase_IV	WXS	Hybrid_Capture_Illumina_Seq	1	dbGAP	Illumina HiSeq	70e697ae-f265-4598-b261-92c92622bf2d	e553d484-56f9-4c88-b500-f4e4e295b394	13	27490642	27490642	C	A	SNP	FLT3	NM_004119.2	human	genbank	54_36p	-1	reviewed	missense	c.2503	p.D835Y	1.000	HMMPfam_Pkinase_Tyr,HMMSmart_TyrKc,superfamily_Kinase_like	HMMPfam_Pkinase_Tyr,HMMSmart_TyrKc,PatternScan_RECEPTOR_TYR_KIN_III,PatternScan_PROTEIN_KINASE_TYR,superfamily_Kinase_like,HMMPfam_ig,PatternScan_PROTEIN_KINASE_ATP,superfamily_SSF48726	-	no_errors	87	5	5.43	94	57	37.50	300	252	45.57
SPTB	0	genome.wustl.edu	36	14	64307466	64307466	+	Silent	SNP	C	C	A			TCGA-AB-2900-03A-01W-0733-08	TCGA-AB-2900-11A-01W-0732-08	C	C	C	A	C	C	Verified	Valid	Somatic	Phase_IV	WXS	Hybrid_Capture_Illumina_Seq	1	dbGAP	Illumina HiSeq	70e697ae-f265-4598-b261-92c92622bf2d	e553d484-56f9-4c88-b500-f4e4e295b394	14	64307466	64307466	C	A	SNP	SPTB	NM_001024858.4	human	genbank	54_36p	-1	validated	silent	c.5688	p.R1896	1.000	HMMPfam_Spectrin,HMMSmart_SPEC,superfamily_Spectrin	PatternScan_ACTININ_1,PatternScan_ACTININ_2,HMMPfam_CH,HMMSmart_CH,HMMPfam_PH,HMMSmart_PH,HMMPfam_Spectrin,superfamily_Calponin-homology,HMMSmart_SPEC,superfamily_Spectrin,superfamily_SSF50729	-	no_errors	26	0	0.00	95	54	36.24	0	1	100.00
LOC90586	0	genome.wustl.edu	36	17	38274388	38274388	+	RNA	SNP	G	G	A			TCGA-AB-2900-03A-01W-0733-08	TCGA-AB-2900-11A-01W-0732-08	G	G	G	A	G	G	Verified	Valid	Somatic	Phase_IV	WXS	Hybrid_Capture_Illumina_Seq	1	dbGAP	Illumina HiSeq	70e697ae-f265-4598-b261-92c92622bf2d	e553d484-56f9-4c88-b500-f4e4e295b394	17	38274388	38274388	G	A	SNP	LOC90586	NR_002773.1	human	genbank	54_36p	+1	provisional	rna	NULL	NULL	0.961	-	-	-	pseudogene	36	1	2.70	44	28	37.84	NA	NA	NA
ANKRD12	0	genome.wustl.edu	36	18	9246666	9246666	+	Missense_Mutation	SNP	A	A	G			TCGA-AB-2900-03A-01W-0733-08	TCGA-AB-2900-11A-01W-0732-08	A	A	A	G	A	A	Verified	Valid	Somatic	Phase_IV	WXS	Hybrid_Capture_Illumina_Seq	1	dbGAP	Illumina HiSeq	70e697ae-f265-4598-b261-92c92622bf2d	e553d484-56f9-4c88-b500-f4e4e295b394	18	9246666	9246666	A	G	SNP	ANKRD12	NM_015208.1	human	genbank	54_36p	+1	validated	missense	c.3401	p.K1134R	0.977	superfamily_Ankyrin repeat	HMMPfam_Ank,HMMSmart_SM00248,superfamily_Ankyrin repeat	-	no_errors	69	3	4.11	143	131	47.64	16	10	38.46
CECR2	0	genome.wustl.edu	36	22	16370917	16370917	+	Missense_Mutation	SNP	G	G	A			TCGA-AB-2900-03A-01W-0733-08	TCGA-AB-2900-11A-01W-0732-08	G	G	G	A	G	G	Verified	Valid	Somatic	Phase_IV	WXS	Hybrid_Capture_Illumina_Seq	1	dbGAP	Illumina HiSeq	70e697ae-f265-4598-b261-92c92622bf2d	e553d484-56f9-4c88-b500-f4e4e295b394	22	16370917	16370917	G	A	SNP	CECR2	ENST00000400585	human	ensembl	54_36p	+1	known	missense	c.877	p.V293I	0.987	NULL	HMMPfam_Bromodomain,HMMSmart_BROMO,superfamily_Bromodomain,PatternScan_BROMODOMAIN_1	-	no_errors	161	7	4.09	113	92	44.66	NA	NA	NA
NPM1	0	genome.wustl.edu	36	5	170770152	170770153	+	Frame_Shift_Ins	INS	-	-	CGCG			TCGA-AB-2900-03A-01W-0733-08	TCGA-AB-2900-11A-01W-0732-08	-	-	-	CGCG	-	-	Verified	Valid	Somatic	Phase_IV	WXS	Hybrid_Capture_Illumina_Seq	1	dbGAP	Illumina HiSeq	70e697ae-f265-4598-b261-92c92622bf2d	e553d484-56f9-4c88-b500-f4e4e295b394	5	170770152	170770153	-	CGCG	INS	NPM1	NM_002520.1	human	genbank	54_36p	+1	validated	frame_shift_ins	c.863_864	p.W288fs	1.000:1.000	NULL	HMMPfam_Nucleoplasmin,superfamily_Nucleoplasmin-like core domain	-	no_errors	NA	NA	NA	NA	NA	NA	NA	NA	NA
CEBPA	0	genome.wustl.edu	36	19	38484304	38484305	+	Frame_Shift_Ins	INS	-	-	G			TCGA-AB-2900-03A-01W-0733-08	TCGA-AB-2900-11A-01W-0732-08	-	-	-	G	-	-	Verified	Valid	Somatic	Phase_IV	WXS	Hybrid_Capture_Illumina_Seq	1	dbGAP	Illumina HiSeq	70e697ae-f265-4598-b261-92c92622bf2d	e553d484-56f9-4c88-b500-f4e4e295b394	19	38484304	38484305	-	G	INS	CEBPA	NM_004364.3	human	genbank	54_36p	-1	reviewed	frame_shift_ins	c.857_856	p.R286fs	1.000:1.000	HMMSmart_BRLZ,HMMPfam_bZIP_2	HMMSmart_BRLZ,PatternScan_BZIP_BASIC,HMMPfam_bZIP_2	-	no_errors	9	0	0.00	31	15	32.61	44	21	32.31