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
CROCC	0	genome.wustl.edu	36	1	17147924	17147924	+	Missense_Mutation	SNP	C	C	T			TCGA-AB-2878-03A-01W-0732-08	TCGA-AB-2878-11A-01W-0732-08	C	C	C	T	C	C	Verified	Valid	Somatic	Phase_IV	WXS	Hybrid_Capture_Illumina_Seq	1	dbGAP	Illumina HiSeq	ee2992c1-67ba-4d9d-8305-1fc0e3b99abc	d450eac4-a4b6-4d7f-8c98-d063c2a5f45c	1	17147924	17147924	C	T	SNP	CROCC	NM_014675.3	human	genbank	54_36p	+1	validated	missense	c.2752	p.R918W	1.000	NULL	superfamily_Prefoldin	-	no_errors	30	1	3.23	83	24	22.43	10	3	23.08
VPS72	0	genome.wustl.edu	36	1	149424621	149424621	+	Missense_Mutation	SNP	C	C	G			TCGA-AB-2878-03A-01W-0732-08	TCGA-AB-2878-11A-01W-0732-08	C	C	C	G	C	C	Verified	Valid	Somatic	Phase_IV	WXS	Hybrid_Capture_Illumina_Seq	1	dbGAP	Illumina HiSeq	ee2992c1-67ba-4d9d-8305-1fc0e3b99abc	d450eac4-a4b6-4d7f-8c98-d063c2a5f45c	1	149424621	149424621	C	G	SNP	VPS72	NM_005997.1	human	genbank	54_36p	-1	provisional	missense	c.370	p.D124H	1.000	HMMPfam_YL1	HMMPfam_YL1,HMMPfam_YL1_C	-	no_errors	130	0	0.00	82	80	48.78	41	34	45.33
RIT1	0	genome.wustl.edu	36	1	154140885	154140885	+	Missense_Mutation	SNP	C	C	T			TCGA-AB-2878-03A-01W-0732-08	TCGA-AB-2878-11A-01W-0732-08	C	C	C	T	C	C	Verified	Valid	Somatic	Phase_IV	WXS	Hybrid_Capture_Illumina_Seq	1	dbGAP	Illumina HiSeq	ee2992c1-67ba-4d9d-8305-1fc0e3b99abc	d450eac4-a4b6-4d7f-8c98-d063c2a5f45c	1	154140885	154140885	C	T	SNP	RIT1	NM_006912.4	human	genbank	54_36p	-1	validated	missense	c.270	p.M90I	1.000	HMMSmart_SM00176,HMMSmart_SM00173,HMMSmart_SM00174,HMMSmart_SM00175,HMMPfam_Ras,superfamily_P-loop containing nucleoside triphosphate hydrolases	HMMSmart_SM00176,HMMSmart_SM00173,HMMSmart_SM00174,HMMSmart_SM00175,HMMPfam_Ras,superfamily_P-loop containing nucleoside triphosphate hydrolases	-	no_errors	70	1	1.39	162	110	40.00	10	15	60.00
CACNA1E	0	genome.wustl.edu	36	1	179994542	179994542	+	Missense_Mutation	SNP	A	A	G			TCGA-AB-2878-03A-01W-0732-08	TCGA-AB-2878-11A-01W-0732-08	A	A	A	G	A	A	Verified	Valid	Somatic	Phase_IV	WXS	Hybrid_Capture_Illumina_Seq	1	dbGAP	Illumina HiSeq	ee2992c1-67ba-4d9d-8305-1fc0e3b99abc	d450eac4-a4b6-4d7f-8c98-d063c2a5f45c	1	179994542	179994542	A	G	SNP	CACNA1E	NM_000721.2	human	genbank	54_36p	+1	reviewed	missense	c.4520	p.E1507G	1.000	superfamily_Voltage-gated potassium channels	HMMPfam_Ion_trans,HMMPfam_Ca_chan_IQ,superfamily_Voltage-gated potassium channels	-	no_errors	320	19	5.59	207	145	40.96	NA	NA	NA
PTPN14	0	genome.wustl.edu	36	1	212609569	212609569	+	Missense_Mutation	SNP	G	G	A			TCGA-AB-2878-03A-01W-0732-08	TCGA-AB-2878-11A-01W-0732-08	G	G	G	A	G	G	Verified	Valid	Somatic	Phase_IV	WXS	Hybrid_Capture_Illumina_Seq	1	dbGAP	Illumina HiSeq	ee2992c1-67ba-4d9d-8305-1fc0e3b99abc	d450eac4-a4b6-4d7f-8c98-d063c2a5f45c	1	212609569	212609569	G	A	SNP	PTPN14	NM_005401.3	human	genbank	54_36p	-1	reviewed	missense	c.3125	p.T1042M	1.000	HMMPfam_Y_phosphatase,HMMSmart_PTPc,superfamily_SSF52799	HMMPfam_Y_phosphatase,HMMSmart_PTPc,PatternScan_TYR_PHOSPHATASE_1,HMMPfam_FERM_N,PatternScan_FERM_1,PatternScan_FERM_2,HMMPfam_FERM_M,superfamily_FERM_3-hlx,HMMSmart_B41,superfamily_SSF50729,superfamily_SSF52799,superfamily_SSF54236	-	no_errors	135	6	4.26	208	139	40.06	NA	NA	NA
SPDYA	0	genome.wustl.edu	36	2	28892400	28892400	+	Missense_Mutation	SNP	A	A	C			TCGA-AB-2878-03A-01W-0732-08	TCGA-AB-2878-11A-01W-0732-08	A	A	A	C	A	A	Verified	Valid	Somatic	Phase_IV	WXS	Hybrid_Capture_Illumina_Seq	1	dbGAP	Illumina HiSeq	ee2992c1-67ba-4d9d-8305-1fc0e3b99abc	d450eac4-a4b6-4d7f-8c98-d063c2a5f45c	2	28892400	28892400	A	C	SNP	SPDYA	NM_182756.1	human	genbank	54_36p	+1	validated	missense	c.16	p.M6L	1.000	NULL	NULL	-	no_errors	72	0	0.00	58	54	48.21	8	8	50.00
STT3B	0	genome.wustl.edu	36	3	31592957	31592957	+	Missense_Mutation	SNP	A	A	G			TCGA-AB-2878-03A-01W-0732-08	TCGA-AB-2878-11A-01W-0732-08	A	A	A	G	A	A	Verified	Valid	Somatic	Phase_IV	WXS	Hybrid_Capture_Illumina_Seq	1	dbGAP	Illumina HiSeq	ee2992c1-67ba-4d9d-8305-1fc0e3b99abc	d450eac4-a4b6-4d7f-8c98-d063c2a5f45c	3	31592957	31592957	A	G	SNP	STT3B	NM_178862.1	human	genbank	54_36p	+1	provisional	missense	c.380	p.D127G	1.000	HMMPfam_STT3	HMMPfam_STT3	-	no_errors	110	5	4.35	254	151	37.28	101	78	43.58
NR2E1	0	genome.wustl.edu	36	6	108606021	108606021	+	Missense_Mutation	SNP	G	G	A			TCGA-AB-2878-03A-01W-0732-08	TCGA-AB-2878-11A-01W-0732-08	G	G	G	A	G	G	Verified	Valid	Somatic	Phase_IV	WXS	Hybrid_Capture_Illumina_Seq	1	dbGAP	Illumina HiSeq	ee2992c1-67ba-4d9d-8305-1fc0e3b99abc	d450eac4-a4b6-4d7f-8c98-d063c2a5f45c	6	108606021	108606021	G	A	SNP	NR2E1	NM_003269.3	human	genbank	54_36p	+1	validated	missense	c.525	p.M175I	1.000	superfamily_Nuclear receptor ligand-binding domain	HMMPfam_Hormone_recep,HMMSmart_SM00430,HMMPfam_zf-C4,HMMSmart_SM00399,PatternScan_NUCLEAR_REC_DBD_1,superfamily_Nuclear receptor ligand-binding domain,superfamily_Glucocorticoid receptor-like (DNA-binding domain)	-	no_errors	121	0	0.00	56	31	35.23	NA	NA	NA
EGFR	0	genome.wustl.edu	36	7	55206394	55206394	+	Missense_Mutation	SNP	C	C	T			TCGA-AB-2878-03A-01W-0732-08	TCGA-AB-2878-11A-01W-0732-08	C	C	C	T	C	C	Verified	Valid	Somatic	Phase_IV	WXS	Hybrid_Capture_Illumina_Seq	1	dbGAP	Illumina HiSeq	ee2992c1-67ba-4d9d-8305-1fc0e3b99abc	d450eac4-a4b6-4d7f-8c98-d063c2a5f45c	7	55206394	55206394	C	T	SNP	EGFR	NM_005228.3	human	genbank	54_36p	+1	reviewed	missense	c.1913	p.T638M	0.000	NULL	HMMPfam_Recep_L_domain,HMMPfam_Pkinase_Tyr,HMMSmart_SM00219,HMMSmart_SM00220,HMMPfam_Furin-like,HMMSmart_SM00261,PatternScan_PROTEIN_KINASE_TYR,superfamily_Growth factor receptor domain,superfamily_Protein kinase-like (PK-like),PatternScan_PROTEIN_KINASE_ATP,superfamily_L domain-like	-	no_errors	172	3	1.71	145	108	42.69	NA	NA	NA
CHD4	0	genome.wustl.edu	36	12	6567325	6567325	+	Missense_Mutation	SNP	G	G	A			TCGA-AB-2878-03A-01W-0732-08	TCGA-AB-2878-11A-01W-0732-08	G	G	G	A	G	G	Verified	Valid	Somatic	Phase_IV	WXS	Hybrid_Capture_Illumina_Seq	1	dbGAP	Illumina HiSeq	ee2992c1-67ba-4d9d-8305-1fc0e3b99abc	d450eac4-a4b6-4d7f-8c98-d063c2a5f45c	12	6567325	6567325	G	A	SNP	CHD4	NM_001273.2	human	genbank	54_36p	-1	reviewed	missense	c.3517	p.R1173W	1.000	superfamily_P-loop containing nucleoside triphosphate hydrolases	HMMPfam_SNF2_N,HMMPfam_Chromo,HMMSmart_SM00298,PatternScan_CHROMO_1,HMMPfam_Helicase_C,HMMSmart_SM00490,HMMSmart_SM00249,PatternScan_DEAH_ATP_HELICASE,HMMPfam_DUF1086,HMMPfam_DUF1087,superfamily_FYVE/PHD zinc finger,HMMPfam_CHDCT2,HMMPfam_CHDNT,HMMSmart_SM00487,superfamily_Chromo domain-like,PatternScan_ZF_PHD_1,HMMPfam_PHD,superfamily_P-loop containing nucleoside triphosphate hydrolases	-	no_errors	91	0	0.00	186	90	32.26	77	73	48.67
SERPINA9	0	genome.wustl.edu	36	14	94003411	94003411	+	Silent	SNP	G	G	A			TCGA-AB-2878-03A-01W-0732-08	TCGA-AB-2878-11A-01W-0732-08	G	G	G	A	G	G	Verified	Valid	Somatic	Phase_IV	WXS	Hybrid_Capture_Illumina_Seq	1	dbGAP	Illumina HiSeq	ee2992c1-67ba-4d9d-8305-1fc0e3b99abc	d450eac4-a4b6-4d7f-8c98-d063c2a5f45c	14	94003411	94003411	G	A	SNP	SERPINA9	NM_175739.1	human	genbank	54_36p	-1	validated	silent	c.744	p.G248	0.333	HMMPfam_Serpin,HMMSmart_SM00093,superfamily_Serpins	HMMPfam_Serpin,HMMSmart_SM00093,PatternScan_SERPIN,superfamily_Serpins	-	no_errors	342	2	0.58	192	141	41.84	NA	NA	NA
HERC2P2	0	genome.wustl.edu	36	15	18902635	18902635	+	Missense_Mutation	SNP	G	G	C			TCGA-AB-2878-03A-01W-0732-08	TCGA-AB-2878-11A-01W-0732-08	G	G	G	C	G	G	Verified	Valid	Somatic	Phase_IV	WXS	Hybrid_Capture_Illumina_Seq	1	dbGAP	Illumina HiSeq	ee2992c1-67ba-4d9d-8305-1fc0e3b99abc	d450eac4-a4b6-4d7f-8c98-d063c2a5f45c	15	18902635	18902635	G	C	SNP	HERC2P2	ENST00000324413	human	ensembl	54_36p	-1	known	missense	c.2990	p.A997G	1.000	NULL	HMMPfam_MIB_HERC2	-	no_errors	7	1	12.50	53	11	17.19	47	17	26.56
FBN1	0	genome.wustl.edu	36	15	46576758	46576758	+	Missense_Mutation	SNP	C	C	T			TCGA-AB-2878-03A-01W-0732-08	TCGA-AB-2878-11A-01W-0732-08	C	C	C	T	C	C	Verified	Valid	Somatic	Phase_IV	WXS	Hybrid_Capture_Illumina_Seq	1	dbGAP	Illumina HiSeq	ee2992c1-67ba-4d9d-8305-1fc0e3b99abc	d450eac4-a4b6-4d7f-8c98-d063c2a5f45c	15	46576758	46576758	C	T	SNP	FBN1	NM_000138.3	human	genbank	54_36p	-1	reviewed	missense	c.2290	p.V764I	0.998	HMMSmart_SM00179,HMMSmart_SM00181,superfamily_Concanavalin A-like lectins/glucanases,superfamily_EGF/Laminin	PatternScan_ASX_HYDROXYL,HMMSmart_SM00179,HMMPfam_TB,superfamily_TB module/8-cys domain,HMMPfam_EGF,HMMSmart_SM00181,PatternScan_ZINC_FINGER_C2H2_1,superfamily_Concanavalin A-like lectins/glucanases,superfamily_Growth factor receptor domain,PatternScan_EGF_1,PatternScan_EGF_2,HMMPfam_EGF_CA,HMMPfam_EGF_2,PatternScan_EGF_CA,superfamily_EGF/Laminin	-	no_errors	79	4	4.82	126	68	34.69	7	4	36.36
TP53	0	genome.wustl.edu	36	17	7518931	7518931	+	Missense_Mutation	SNP	T	T	C			TCGA-AB-2878-03A-01W-0732-08	TCGA-AB-2878-11A-01W-0732-08	T	T	T	C	T	T	Verified	Valid	Somatic	Phase_IV	WXS	Hybrid_Capture_Illumina_Seq	1	dbGAP	Illumina HiSeq	ee2992c1-67ba-4d9d-8305-1fc0e3b99abc	d450eac4-a4b6-4d7f-8c98-d063c2a5f45c	17	7518931	7518931	T	C	SNP	TP53	NM_000546.4	human	genbank	54_36p	-1	reviewed	missense	c.643	p.S215G	1.000	superfamily_p53-like transcription factors,HMMPfam_P53	PatternScan_P53,superfamily_p53-like transcription factors,HMMPfam_P53_tetramer,superfamily_p53 tetramerization domain,HMMPfam_P53,HMMPfam_P53_TAD	-	no_errors	220	20	8.33	216	170	43.81	10	56	84.85
LOC649299	0	genome.wustl.edu	36	19	21208157	21208157	+	Nonsense_Mutation	SNP	A	A	T			TCGA-AB-2878-03A-01W-0732-08	TCGA-AB-2878-11A-01W-0732-08	A	A	A	T	A	A	Verified	Valid	Somatic	Phase_IV	WXS	Hybrid_Capture_Illumina_Seq	1	dbGAP	Illumina HiSeq	ee2992c1-67ba-4d9d-8305-1fc0e3b99abc	d450eac4-a4b6-4d7f-8c98-d063c2a5f45c	19	21208157	21208157	A	T	SNP	LOC649299	XM_001719759.1	human	genbank	54_36p	+1	model	nonsense	c.181	p.K61*	1.000	HMMPfam_Ribosomal_L44,superfamily_Zn-binding ribosomal proteins	HMMPfam_Ribosomal_L44,superfamily_Zn-binding ribosomal proteins	-	pseudogene	36	3	7.69	44	45	50.56	0	0	0.00
TP53	0	genome.wustl.edu	36	17	7519139	7519139	+	Frame_Shift_Del	DEL	A	A	-			TCGA-AB-2878-03A-01W-0732-08	TCGA-AB-2878-11A-01W-0732-08	A	A	A	-	A	A	Verified	Valid	Somatic	Phase_IV	WXS	Hybrid_Capture_Illumina_Seq	1	dbGAP	Illumina HiSeq	ee2992c1-67ba-4d9d-8305-1fc0e3b99abc	d450eac4-a4b6-4d7f-8c98-d063c2a5f45c	17	7519139	7519139	A	-	DEL	TP53	NM_000546.4	human	genbank	54_36p	-1	reviewed	frame_shift_del	c.516	p.V173fs	0.952	superfamily_p53-like transcription factors,HMMPfam_P53	PatternScan_P53,superfamily_p53-like transcription factors,HMMPfam_P53_tetramer,superfamily_p53 tetramerization domain,HMMPfam_P53,HMMPfam_P53_TAD	-	no_errors	188	3	1.57	136	96	40.51	15	0	0.00