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	chromosome_name_WU	start_WU	stop_WU	reference_WU	variant_WU	type_WU	gene_name_WU	transcript_name_WU	transcript_species_WU	transcript_source_WU	transcript_version_WU	strand_WU	transcript_status_WU	trv_type_WU	c_position_WU	amino_acid_change_WU	ucsc_cons_WU	domain_WU	all_domains_WU	deletion_substructures_WU	transcript_error_WU
MTUS1	57509	genome.wustl.edu	36	8	17586240	17586240	+	Silent	SNP	C	C	T			TCGA-AB-2859-03B-01W-0728-08	TCGA-AB-2859-11B-01W-0729-08	C	C			C	C	Unknown	Unknown	Somatic		Capture				Illumina GAIIx	8	17586240	17586240	C	T	SNP	MTUS1	NM_001001924	human	genbank	54_36p	-1	reviewed	silent	c.2715	p.L905	0.954	NULL	NULL	-	no_errors
CROCC	9696	genome.wustl.edu	36	1	17138188	17138188	+	Silent	SNP	C	C	T			TCGA-AB-2859-03B-01W-0728-08	TCGA-AB-2859-11B-01W-0729-08	C	C			C	C	Unknown	Unknown	Somatic		Capture				Illumina GAIIx	1	17138188	17138188	C	T	SNP	CROCC	NM_014675	human	genbank	54_36p	+1	validated	silent	c.1572	p.I524	0.983	NULL	superfamily_Prefoldin	-	no_errors
MAP2K3	5606	genome.wustl.edu	36	17	21142828	21142828	+	Missense_Mutation	SNP	C	C	A			TCGA-AB-2859-03B-01W-0728-08	TCGA-AB-2859-11B-01W-0729-08	C	C			C	C	Unknown	Unknown	Somatic		Capture				Illumina GAIIx	17	21142828	21142828	C	A	SNP	MAP2K3	NM_145109	human	genbank	54_36p	+1	reviewed	missense	c.162	p.D54E	0.858	superfamily_Protein kinase-like (PK-like)	superfamily_Protein kinase-like (PK-like),HMMSmart_SM00219,HMMSmart_SM00220,HMMPfam_Pkinase,PatternScan_PROTEIN_KINASE_ATP,PatternScan_PROTEIN_KINASE_ST	-	no_errors
RREB1	6239	genome.wustl.edu	36	6	7175590	7175590	+	Silent	SNP	C	C	G			TCGA-AB-2859-03B-01W-0728-08	TCGA-AB-2859-11B-01W-0729-08	C	C			C	C	Unknown	Unknown	Somatic		Capture				Illumina GAIIx	6	7175590	7175590	C	G	SNP	RREB1	NM_001003699	human	genbank	54_36p	+1	validated	silent	c.2259	p.T753	0.984	HMMPfam_zf-C2H2,HMMSmart_ZnF_C2H2	HMMPfam_zf-C2H2,HMMSmart_ZnF_C2H2,PatternScan_ZINC_FINGER_C2H2_1,superfamily_SSF57667	-	no_errors
COL4A3	1285	genome.wustl.edu	36	2	227839459	227839459	+	Silent	SNP	T	T	C			TCGA-AB-2859-03B-01W-0728-08	TCGA-AB-2859-11B-01W-0729-08	T	T			T	T	Unknown	Unknown	Somatic		Capture				Illumina GAIIx	2	227839459	227839459	T	C	SNP	COL4A3	NM_000091	human	genbank	54_36p	+1	reviewed	silent	c.1398	p.D466	0.161	NULL	HMMPfam_Collagen,PatternScan_CARBOXYPEPT_SER_SER,superfamily_C-type lectin-like,HMMPfam_C4,HMMSmart_SM00111	-	no_errors
TFDP3	51270	genome.wustl.edu	36	X	132178772	132178772	+	Silent	SNP	G	G	A			TCGA-AB-2859-03B-01W-0728-08	TCGA-AB-2859-11B-01W-0729-08	G	G			G	G	Unknown	Unknown	Somatic		Capture				Illumina GAIIx	X	132178772	132178772	G	A	SNP	TFDP3	NM_016521	human	genbank	54_36p	-1	validated	silent	c.1002	p.N334	1.000	NULL	"HMMPfam_E2F_TDP,superfamily_""Winged helix"" DNA-binding domain,HMMPfam_DP"	-	no_errors
DAZAP1	26528	genome.wustl.edu	36	19	1381303	1381303	+	Silent	SNP	T	T	C			TCGA-AB-2859-03B-01W-0728-08	TCGA-AB-2859-11B-01W-0729-08	T	T			T	T	Unknown	Unknown	Somatic		Capture				Illumina GAIIx	19	1381303	1381303	T	C	SNP	DAZAP1	NM_018959	human	genbank	54_36p	+1	reviewed	silent	c.813	p.P271	0.495	NULL	superfamily_RNA-binding domain RBD,HMMSmart_SM00360,HMMPfam_RRM_1	-	no_errors
PKD1	5310	genome.wustl.edu	36	16	2080322	2080322	+	Silent	SNP	G	G	A			TCGA-AB-2859-03B-01W-0728-08	TCGA-AB-2859-11B-01W-0729-08	G	G			G	G	Unknown	Unknown	Somatic		Capture				Illumina GAIIx	16	2080322	2080322	G	A	SNP	PKD1	NM_001009944	human	genbank	54_36p	-1	reviewed	silent	c.12409	p.L4137	1.000	NULL	HMMPfam_LRRNT,HMMSmart_SM00013,superfamily_L domain-like,HMMSmart_SM00369,HMMPfam_LRR_1,HMMSmart_SM00082,HMMPfam_LRRCT,HMMSmart_SM00321,HMMPfam_WSC,HMMSmart_SM00089,superfamily_PKD domain,HMMPfam_PKD,superfamily_C-type lectin-like,HMMSmart_SM00034,HMMPfam_Lectin_C,HMMPfam_REJ,HMMPfam_GPS,HMMSmart_SM00303,HMMSmart_SM00308,HMMPfam_PLAT,superfamily_Lipase/lipooxygenase domain (PLAT/LH2 domain),HMMPfam_PKD_channel	-	no_errors
ENSG00000215398	0	genome.wustl.edu	36	14	18187129	18187129	+	Frame_Shift_Del	DEL	A	A	-			TCGA-AB-2859-03B-01W-0728-08	TCGA-AB-2859-11B-01W-0729-08	A	A			A	A	Unknown	Unknown	Somatic		Capture				Illumina GAIIx	14	18187129	18187129	A	-	DEL	ENSG00000215398	ENST00000400208	human	ensembl	54_36p	+1	known	frame_shift_del	c.435	p.S146fs	0.001	HMMPfam_Ank,HMMSmart_SM00248,superfamily_Ankyrin repeat	PatternScan_ASP_PROTEASE,HMMPfam_Ank,HMMSmart_SM00248,superfamily_Ankyrin repeat	-	no_start_codon
PRDM9	56979	genome.wustl.edu	36	5	23562543	23562543	+	Missense_Mutation	SNP	G	G	A			TCGA-AB-2859-03B-01W-0728-08	TCGA-AB-2859-11B-01W-0729-08	G	G			G	G	Unknown	Unknown	Somatic		Capture				Illumina GAIIx	5	23562543	23562543	G	A	SNP	PRDM9	NM_020227	human	genbank	54_36p	+1	provisional	missense	c.1589	p.G530E	0.974	HMMSmart_ZnF_C2H2	superfamily_Krueppel-associated_box,HMMSmart_KRAB,HMMPfam_KRAB,HMMPfam_SSXRD,superfamily_SSF82199,HMMSmart_SET,HMMSmart_ZnF_C2H2,PatternScan_ZINC_FINGER_C2H2_1,superfamily_SSF57667,HMMPfam_zf-C2H2	-	no_errors
HNRNPK	3190	genome.wustl.edu	36	9	85781739	85781740	+	Frame_Shift_Del	DEL	GA	GA	-			TCGA-AB-2859-03B-01W-0728-08	TCGA-AB-2859-11B-01W-0729-08	GA	GA			GA	GA	Unknown	Unknown	Somatic		Capture				Illumina GAIIx	9	85781739	85781740	GA	-	DEL	HNRNPK	NM_002140	human	genbank	54_36p	-1	reviewed	frame_shift_del	c.204_203	p.L68fs	0.999:1.000	HMMSmart_SM00322,HMMPfam_KH_1,superfamily_Eukaryotic type KH-domain (KH-domain type I)	HMMSmart_SM00322,HMMPfam_ROKNT,HMMPfam_KH_1,superfamily_Eukaryotic type KH-domain (KH-domain type I)	-	no_errors
FAM58BP	339521	genome.wustl.edu	36	1	198449681	198449681	+	Missense_Mutation	SNP	G	G	A			TCGA-AB-2859-03B-01W-0728-08	TCGA-AB-2859-11B-01W-0729-08	G	G			G	G	Unknown	Unknown	Somatic		Capture				Illumina GAIIx	1	198449681	198449681	G	A	SNP	FAM58B	NM_001105517	human	genbank	54_36p	+1	inferred	missense	c.367	p.D123N	1.000	superfamily_Cyclin_like,HMMSmart_CYCLIN	PatternScan_CYCLINS,superfamily_Cyclin_like,HMMSmart_CYCLIN	-	no_errors
USP10	9100	genome.wustl.edu	36	16	83336744	83336744	+	Frame_Shift_Del	DEL	C	C	-			TCGA-AB-2859-03B-01W-0728-08	TCGA-AB-2859-11B-01W-0729-08	C	C			C	C	Unknown	Unknown	Somatic		Capture				Illumina GAIIx	16	83336744	83336744	C	-	DEL	USP10	NM_005153	human	genbank	54_36p	+1	reviewed	frame_shift_del	c.1156	p.P386fs	1.000	NULL	HMMPfam_PAM2,superfamily_SSF54001,HMMPfam_UCH,PatternScan_UCH_2_1,PatternScan_UCH_2_2	-	no_errors
RNF112	7732	genome.wustl.edu	36	17	19259966	19259966	+	Silent	SNP	T	T	C			TCGA-AB-2859-03B-01W-0728-08	TCGA-AB-2859-11B-01W-0729-08	T	T			T	T	Unknown	Unknown	Somatic		Capture				Illumina GAIIx	17	19259966	19259966	T	C	SNP	RNF112	ENST00000299604	human	ensembl	54_36p	+1	known	silent	c.1785	p.A595	0.018	NULL	superfamily_RING/U-box,HMMSmart_SM00184,HMMPfam_zf-C3HC4,superfamily_P-loop containing nucleoside triphosphate hydrolases,HMMPfam_GBP	-	no_errors
KRT81	3887	genome.wustl.edu	36	12	50971480	50971480	+	Missense_Mutation	SNP	T	T	G			TCGA-AB-2859-03B-01W-0728-08	TCGA-AB-2859-11B-01W-0729-08	T	T			T	T	Unknown	Unknown	Somatic		Capture				Illumina GAIIx	12	50971480	50971480	T	G	SNP	KRT81	NM_002281	human	genbank	54_36p	-1	reviewed	missense	c.37	p.S13R	1.000	NULL	HMMPfam_Filament,PatternScan_IF	-	no_errors
C1orf183	55924	genome.wustl.edu	36	1	112071820	112071820	+	Missense_Mutation	SNP	C	C	T			TCGA-AB-2859-03B-01W-0728-08	TCGA-AB-2859-11B-01W-0729-08	C	C			C	C	Unknown	Unknown	Somatic		Capture				Illumina GAIIx	1	112071820	112071820	C	T	SNP	C1orf183	NM_019099	human	genbank	54_36p	-1	validated	missense	c.187	p.V63M	0.002	NULL	NULL	-	no_errors
VPS41	27072	genome.wustl.edu	36	7	38795952	38795952	+	Missense_Mutation	SNP	T	T	A			TCGA-AB-2859-03B-01W-0728-08	TCGA-AB-2859-11B-01W-0729-08	T	T			T	T	Unknown	Unknown	Somatic		Capture				Illumina GAIIx	7	38795952	38795952	T	A	SNP	VPS41	NM_014396	human	genbank	54_36p	-1	reviewed	missense	c.758	p.D253V	1.000	superfamily_WD40 repeat-like	superfamily_WD40 repeat-like,superfamily_ARM repeat,HMMPfam_Clathrin,HMMSmart_SM00299,superfamily_RING/U-box	-	no_errors
LOC441644	441644	genome.wustl.edu	36	12	93058603	93058603	+	Silent	SNP	A	A	G			TCGA-AB-2859-03B-01W-0728-08	TCGA-AB-2859-11B-01W-0729-08	A	A			A	A	Unknown	Unknown	Somatic		Capture				Illumina GAIIx	12	93058603	93058603	A	G	SNP	LOC441644	XM_001714973	human	genbank	54_36p	+1	model	silent	c.459	p.R153	0.065	NULL	HMMPfam_ELM2	-	no_errors
RARS	5917	genome.wustl.edu	36	5	167854196	167854196	+	Missense_Mutation	SNP	A	A	G			TCGA-AB-2859-03B-01W-0728-08	TCGA-AB-2859-11B-01W-0729-08	A	A			A	A	Unknown	Unknown	Somatic		Capture				Illumina GAIIx	5	167854196	167854196	A	G	SNP	RARS	NM_002887	human	genbank	54_36p	+1	reviewed	missense	c.542	p.N181S	1.000	superfamily_Arginyl-tRNA synthetase (ArgRS) N-terminal 'additional' domain,HMMPfam_tRNA-synt_1d	superfamily_Arginyl-tRNA synthetase (ArgRS) N-terminal 'additional' domain,HMMPfam_Arg_tRNA_synt_N,HMMPfam_tRNA-synt_1d,superfamily_Nucleotidylyl transferase,PatternScan_AA_TRNA_LIGASE_I,superfamily_Anticodon-binding domain of a subclass of class I aminoacyl-tRNA synthetases,HMMPfam_DALR_1	-	no_errors
ENSG00000180610	0	genome.wustl.edu	36	4	39449226	39449226	+	Missense_Mutation	SNP	T	T	C			TCGA-AB-2859-03B-01W-0728-08	TCGA-AB-2859-11B-01W-0729-08	T	T			T	T	Unknown	Unknown	Somatic		Capture				Illumina GAIIx	4	39449226	39449226	T	C	SNP	ENSG00000180610	ENST00000314232	human	ensembl	54_36p	-1	known	missense	c.170	p.H57R	0.998	superfamily_POZ domain,HMMPfam_BTB,HMMSmart_SM00225	superfamily_POZ domain,HMMPfam_BTB,HMMSmart_SM00225,HMMSmart_SM00355,PatternScan_ZINC_FINGER_C2H2_1,superfamily_C2H2 and C2HC zinc fingers,HMMPfam_zf-C2H2	-	no_start_codon:no_stop_codon
OR51A7	119687	genome.wustl.edu	36	11	4886017	4886017	+	Missense_Mutation	SNP	T	T	G			TCGA-AB-2859-03B-01W-0728-08	TCGA-AB-2859-11B-01W-0729-08	T	T			T	T	Unknown	Unknown	Somatic		Capture				Illumina GAIIx	11	4886017	4886017	T	G	SNP	OR51A7	NM_001004749	human	genbank	54_36p	+1	provisional	missense	c.842	p.L281W	0.120	superfamily_SSF81321,HMMPfam_7tm_1	superfamily_SSF81321,HMMPfam_7tm_1,PatternScan_G_PROTEIN_RECEP_F1_1	-	no_errors
VPS26B	112936	genome.wustl.edu	36	11	133600282	133600282	+	Missense_Mutation	SNP	C	C	G			TCGA-AB-2859-03B-01W-0728-08	TCGA-AB-2859-11B-01W-0729-08	C	C			C	C	Unknown	Unknown	Somatic		Capture				Illumina GAIIx	11	133600282	133600282	C	G	SNP	VPS26B	NM_052875	human	genbank	54_36p	+1	validated	missense	c.56	p.A19G	0.999	HMMPfam_Vps26	HMMPfam_Vps26	-	no_errors
ESPNP	284729	genome.wustl.edu	36	1	16899091	16899091	+	Silent	SNP	G	G	A			TCGA-AB-2859-03B-01W-0728-08	TCGA-AB-2859-11B-01W-0729-08	G	G			G	G	Unknown	Unknown	Somatic		Capture				Illumina GAIIx	1	16899091	16899091	G	A	SNP	ESPNP	ENST00000270691	human	ensembl	54_36p	-1	known	silent	c.1182	p.C394	0.978	NULL	superfamily_Ankyrin repeat,HMMSmart_SM00248,HMMPfam_Ank,HMMPfam_WH2,HMMSmart_SM00246	-	no_start_codon
KRT13	3860	genome.wustl.edu	36	17	36912478	36912478	+	Missense_Mutation	SNP	G	G	A			TCGA-AB-2859-03B-01W-0728-08	TCGA-AB-2859-11B-01W-0729-08	G	G			G	G	Unknown	Unknown	Somatic		Capture				Illumina GAIIx	17	36912478	36912478	G	A	SNP	KRT13	NM_153490	human	genbank	54_36p	-1	reviewed	missense	c.1010	p.S337F	0.999	superfamily_Prefoldin,HMMPfam_Filament	superfamily_Prefoldin,HMMPfam_Filament,PatternScan_IF	-	no_errors
TUBB4Q	56604	genome.wustl.edu	36	4	191142970	191142970	+	Silent	SNP	G	G	C			TCGA-AB-2859-03B-01W-0728-08	TCGA-AB-2859-11B-01W-0729-08	G	G			G	G	Unknown	Unknown	Somatic		Capture				Illumina GAIIx	4	191142970	191142970	G	C	SNP	TUBB4Q	NM_020040	human	genbank	54_36p	-1	validated	silent	c.51	p.G17	0.996	HMMPfam_Tubulin,superfamily_Tubulin nucleotide-binding domain-like	HMMPfam_Tubulin,superfamily_Tubulin C-terminal domain-like,PatternScan_TUBULIN,HMMPfam_Tubulin_C,superfamily_Tubulin nucleotide-binding domain-like	-	no_start_codon
OAZ1	4946	genome.wustl.edu	36	19	2224093	2224095	+	In_Frame_Del	DEL	GAG	GAG	-			TCGA-AB-2859-03B-01W-0728-08	TCGA-AB-2859-11B-01W-0729-08	GAG	GAG			GAG	GAG	Unknown	Unknown	Somatic		Capture				Illumina GAIIx	19	2224093	2224095	GAG	-	DEL	OAZ1	NM_004152	human	genbank	54_36p	+1	reviewed	in_frame_del	c.673_675	p.E228in_frame_del	0.998:1.000:1.000	NULL	HMMPfam_ODC_AZ,PatternScan_ODC_AZ	-	no_errors
COL18A1-AS1	378832	genome.wustl.edu	36	21	45665860	45665860	+	Silent	SNP	G	G	A			TCGA-AB-2859-03B-01W-0728-08	TCGA-AB-2859-11B-01W-0729-08	G	G			G	G	Unknown	Unknown	Somatic		Capture				Illumina GAIIx	21	45665860	45665860	G	A	SNP	C21orf123	ENST00000330082	human	ensembl	54_36p	-1	known	silent	c.256	p.L86	0.023	NULL	NULL	-	no_errors
GANC	2595	genome.wustl.edu	36	15	40355885	40355885	+	Missense_Mutation	SNP	A	A	G			TCGA-AB-2859-03B-01W-0728-08	TCGA-AB-2859-11B-01W-0729-08	A	A			A	A	Unknown	Unknown	Somatic		Capture				Illumina GAIIx	15	40355885	40355885	A	G	SNP	GANC	NM_198141	human	genbank	54_36p	+1	reviewed	missense	c.77	p.K26R	0.995	NULL	HMMPfam_Glyco_hydro_31,superfamily_(Trans)glycosidases,PatternScan_GLYCOSYL_HYDROL_F31_1	-	no_errors
ENSG00000215615	0	genome.wustl.edu	36	NT_113889	40675	40675	+	Silent	SNP	G	G	A			TCGA-AB-2859-03B-01W-0728-08	TCGA-AB-2859-11B-01W-0729-08	G	G			G	G	Unknown	Unknown	Somatic		Capture				Illumina GAIIx	NT_113889	40675	40675	G	A	SNP	ENSG00000215615	ENST00000400681	human	ensembl	54_36p	-1	known	silent	c.255	p.D85	NULL	HMMPfam_Tektin	HMMPfam_Tektin	-	no_stop_codon
NPM1	4869	genome.wustl.edu	36	5	170770152	170770153	+	Frame_Shift_Ins	INS	-	-	CCTG			TCGA-AB-2859-03B-01W-0728-08	TCGA-AB-2859-11B-01W-0729-08					-	-	Verified	Valid	Somatic		Capture				Illumina GAIIx	5	170770152	170770153	0	CCTG	INS	NPM1	NM_002520	human	genbank	54_36p	1	validated	frame_shift_ins	c.863_864	p.W288fs	1.000:1.000	NULL	Nucleoplasmin;HMMPfam_Nucleoplasmin;Nucleoplasmin-like	-	NA
C17orf97	400566	genome.wustl.edu	36	17	263670	263670	+	Missense_Mutation	SNP	G	G	C			TCGA-AB-2859-03B-01W-0728-08	TCGA-AB-2859-11B-01W-0729-08	G	G			G	G	Unknown	Unknown	Somatic		Capture				Illumina GAIIx	17	263670	263670	G	C	SNP	C17orf97	NM_001013672	human	genbank	54_36p	+1	validated	missense	c.720	p.E240D	0.000	NULL	NULL	-	no_errors
DNMT3A	1788	genome.wustl.edu	36	2	25310746	25310746	+	Missense_Mutation	SNP	C	C	T			TCGA-AB-2859-03B-01W-0728-08	TCGA-AB-2859-11B-01W-0729-08	C	C			C	C	Unknown	Unknown	Somatic		Capture				Illumina GAIIx	2	25310746	25310746	C	T	SNP	DNMT3A	NM_022552	human	genbank	54_36p	-1	reviewed	missense	c.2645	p.R882H	1.000	superfamily_S-adenosyl-L-methionine-dependent methyltransferases	HMMPfam_PWWP,HMMSmart_SM00293,HMMPfam_DNA_methylase,superfamily_FYVE/PHD zinc finger,PatternScan_C5_MTASE_1,superfamily_S-adenosyl-L-methionine-dependent methyltransferases,superfamily_Tudor/PWWP/MBT	-	no_errors
