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	annotation_errors_WU
ACSS3	79611	genome.wustl.edu	37	12	81503342	81503342	+	Silent	SNP	T	T	C	novel	unknown	TCGA-A8-A07Z-01A-11W-A019-09	TCGA-A8-A07Z-10A-01W-A021-09	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	12	81503342	81503342	T	C	SNP	ACSS3	NM_024560	human	genbank	57_37b	+1	validated	silent	c.315	p.F105	1.000	superfamily_Acetyl-CoA synthetase-like	superfamily_Acetyl-CoA synthetase-like,HMMPfam_AMP-binding,PatternScan_AMP_BINDING	-	no_errors
APBA2	321	genome.wustl.edu	37	15	29397755	29397756	+	Frame_Shift_Del	DEL	CA	CA	-	novel	unknown	TCGA-A8-A07Z-01A-11W-A019-09	TCGA-A8-A07Z-10A-01W-A021-09	CA	CA					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	15	29397755	29397756	CA	-	DEL	APBA2	NM_005503	human	genbank	57_37b	+1	reviewed	frame_shift_del	c.1698_1699	p.C566fs	1.000:1.000	superfamily_PDZ	superfamily_SSF50729,HMMSmart_PTB,HMMPfam_PID,superfamily_PDZ,HMMPfam_PDZ,HMMSmart_PDZ	(deletion:cds_exon[29397582,29397761])	no_errors
ATG2B	55102	genome.wustl.edu	37	14	96783628	96783628	+	Missense_Mutation	SNP	T	T	A	novel	unknown	TCGA-A8-A07Z-01A-11W-A019-09	TCGA-A8-A07Z-10A-01W-A021-09	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	14	96783628	96783628	T	A	SNP	ATG2B	NM_018036	human	genbank	57_37b	-1	validated	missense	c.3064	p.T1022S	1.000	NULL	HMMPfam_ATG_C	-	no_errors
CA5A	763	genome.wustl.edu	37	16	87921771	87921771	+	Silent	SNP	C	T	T	novel	unknown	TCGA-A8-A07Z-01A-11W-A019-09	TCGA-A8-A07Z-10A-01W-A021-09	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	16	87921771	87921771	C	T	SNP	CA5A	NM_001739	human	genbank	57_37b	-1	reviewed	silent	c.882	p.A294	0.001	HMMPfam_Carb_anhydrase,superfamily_Carbonic anhydrase	HMMPfam_Carb_anhydrase,superfamily_Carbonic anhydrase,PatternScan_ALPHA_CA_1	-	no_errors
CHRD	8646	genome.wustl.edu	37	3	184102997	184102997	+	Missense_Mutation	SNP	C	C	T	novel	unknown	TCGA-A8-A07Z-01A-11W-A019-09	TCGA-A8-A07Z-10A-01W-A021-09	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	3	184102997	184102997	C	T	SNP	CHRD	NM_003741	human	genbank	57_37b	+1	reviewed	missense	c.1789	p.R597W	1.000	HMMPfam_CHRD,HMMSmart_SM00754	HMMPfam_VWC,HMMSmart_SM00214,HMMPfam_CHRD,HMMSmart_SM00754,PatternScan_VWFC_1	-	no_errors
CIZ1	25792	genome.wustl.edu	37	9	130931780	130931780	+	Nonsense_Mutation	SNP	G	G	A	novel	unknown	TCGA-A8-A07Z-01A-11W-A019-09	TCGA-A8-A07Z-10A-01W-A021-09	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	9	130931780	130931780	G	A	SNP	CIZ1	NM_001131016	human	genbank	57_37b	-1	validated	nonsense	c.2050	p.R684*	0.994	HMMSmart_ZnF_U1	HMMSmart_ZnF_U1,HMMSmart_ZnF_C2H2,PatternScan_ZINC_FINGER_C2H2_1	-	no_errors
DDX47	51202	genome.wustl.edu	37	12	12974215	12974215	+	Silent	SNP	A	A	G	novel	unknown	TCGA-A8-A07Z-01A-11W-A019-09	TCGA-A8-A07Z-10A-01W-A021-09	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	12	12974215	12974215	A	G	SNP	DDX47	NM_016355	human	genbank	57_37b	+1	reviewed	silent	c.255	p.A85	0.001	superfamily_P-loop containing nucleoside triphosphate hydrolases,HMMSmart_SM00487,HMMPfam_DEAD	superfamily_P-loop containing nucleoside triphosphate hydrolases,HMMSmart_SM00487,HMMPfam_DEAD,PatternScan_DEAD_ATP_HELICASE,HMMSmart_SM00490,HMMPfam_Helicase_C	-	no_errors
EEA1	8411	genome.wustl.edu	37	12	93195436	93195436	+	Silent	SNP	C	C	T	novel	unknown	TCGA-A8-A07Z-01A-11W-A019-09	TCGA-A8-A07Z-10A-01W-A021-09	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	12	93195436	93195436	C	T	SNP	EEA1	NM_003566	human	genbank	57_37b	-1	validated	silent	c.2712	p.Q904	0.135	NULL	HMMSmart_ZnF_C2H2,PatternScan_ZINC_FINGER_C2H2_1,superfamily_FYVE_PHD_ZnF,HMMSmart_FYVE,HMMPfam_FYVE	-	no_errors
ENSG00000232660	0	genome.wustl.edu	37	14	20202389	20202389	+	Missense_Mutation	SNP	G	T	T	rs4641652	byCluster;byFrequency;by2Hit2Allele;byHapMap;by1000genomes	TCGA-A8-A07Z-01A-11W-A019-09	TCGA-A8-A07Z-10A-01W-A021-09	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	14	20202389	20202389	G	T	SNP	ENSG00000232660	ENST00000426759	human	ensembl	57_37b	-1	known	missense	c.37	p.P13T	0.000	superfamily_Family A G protein-coupled receptor-like	superfamily_Family A G protein-coupled receptor-like	-	
ENSG00000245838	0	genome.wustl.edu	37	11	77524866	77524867	+	RNA	INS	-	-	ACACAC	novel	unknown	TCGA-A8-A07Z-01A-11W-A019-09	TCGA-A8-A07Z-10A-01W-A021-09	-	-					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	11	77524866	77524867	-	ACACAC	INS	ENSG00000245838	ENST00000501824	human	ensembl	57_37b	+1	known	rna	NULL	NULL	0.004:0.018	-	-	-	no_errors
FLII	2314	genome.wustl.edu	37	17	18158120	18158120	+	Missense_Mutation	SNP	C	C	G	novel	unknown	TCGA-A8-A07Z-01A-11W-A019-09	TCGA-A8-A07Z-10A-01W-A021-09	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	17	18158120	18158120	C	G	SNP	FLII	NM_002018	human	genbank	57_37b	-1	reviewed	missense	c.376	p.A126P	0.997	superfamily_SSF52047,superfamily_SSF52058	superfamily_SSF52047,HMMPfam_LRR_1,superfamily_SSF52058,HMMSmart_LRR_TYP,superfamily_SSF55753,HMMSmart_GEL,HMMPfam_Gelsolin	-	no_errors
FREM1	158326	genome.wustl.edu	37	9	14746441	14746441	+	Missense_Mutation	SNP	G	G	A	novel	unknown	TCGA-A8-A07Z-01A-11W-A019-09	TCGA-A8-A07Z-10A-01W-A021-09	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	9	14746441	14746441	G	A	SNP	FREM1	NM_144966	human	genbank	57_37b	-1	validated	missense	c.6164	p.A2055V	0.064	superfamily_C-type lectin-like,HMMSmart_SM00034	superfamily_Cadherin-like,PatternScan_SPASE_I_1,superfamily_C-type lectin-like,HMMSmart_SM00034,HMMPfam_Lectin_C	-	no_errors
HNF1A	6927	genome.wustl.edu	37	12	121416650	121416650	+	Missense_Mutation	SNP	A	A	C	rs1169288	byCluster;byFrequency;by2Hit2Allele;byHapMap;by1000genomes	TCGA-A8-A07Z-01A-11W-A019-09	TCGA-A8-A07Z-10A-01W-A021-09	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	12	121416650	121416650	A	C	SNP	HNF1A	NM_000545	human	genbank	57_37b	+1	reviewed	missense	c.79	p.I27L	1.000	superfamily_Dimerization cofactor of HNF-1 alpha,HMMPfam_HNF-1_N	superfamily_Dimerization cofactor of HNF-1 alpha,HMMPfam_HNF-1_N,superfamily_lambda repressor-like DNA-binding domains,superfamily_Homeodomain-like,HMMSmart_SM00389,HMMPfam_Homeobox,PatternScan_HOMEOBOX_1,HMMPfam_HNF-1B_C,HMMPfam_HNF-1A_C	-	
HPS1	3257	genome.wustl.edu	37	10	100185607	100185607	+	Missense_Mutation	SNP	A	A	G	novel	unknown	TCGA-A8-A07Z-01A-11W-A019-09	TCGA-A8-A07Z-10A-01W-A021-09	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	10	100185607	100185607	A	G	SNP	HPS1	NM_000195	human	genbank	57_37b	-1	reviewed	missense	c.1123	p.W375R	1.000	NULL	NULL	-	no_errors
IL1RAPL1	11141	genome.wustl.edu	37	X	29935618	29935618	+	Silent	SNP	G	G	A	novel	unknown	TCGA-A8-A07Z-01A-11W-A019-09	TCGA-A8-A07Z-10A-01W-A021-09	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	X	29935618	29935618	G	A	SNP	IL1RAPL1	NM_014271	human	genbank	57_37b	+1	reviewed	silent	c.816	p.G272	0.977	superfamily_Immunoglobulin,HMMSmart_SM00409,HMMSmart_SM00408,HMMPfam_ig	superfamily_Immunoglobulin,HMMSmart_SM00409,HMMPfam_ig,HMMSmart_SM00408,superfamily_Toll/Interleukin receptor TIR domain,HMMSmart_SM00255,HMMPfam_TIR	-	no_errors
LOC100131688	0	genome.wustl.edu	37	16	34353091	34353091	+	Silent	SNP	G	G	A	rs61747984	byCluster;byFrequency;by1000genomes	TCGA-A8-A07Z-01A-11W-A019-09	TCGA-A8-A07Z-10A-01W-A021-09	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	16	34353091	34353091	G	A	SNP	LOC100131688	XM_001718246	human	genbank	57_37b	-1	model	silent	c.450	p.S150	0.824	superfamily_Family A G protein-coupled receptor-like,HMMPfam_V1R	superfamily_Family A G protein-coupled receptor-like,HMMPfam_V1R	-	
LOC100293149	0	genome.wustl.edu	37	X	843703	843703	+	Missense_Mutation	SNP	G	G	C	rs66932290	byCluster;byHapMap;by1000genomes	TCGA-A8-A07Z-01A-11W-A019-09	TCGA-A8-A07Z-10A-01W-A021-09	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	X	843703	843703	G	C	SNP	LOC100293149	XM_002346304	human	genbank	57_37b	+1	model	missense	c.1007	p.R336T	0.042	NULL	PatternScan_ZINC_FINGER_C2H2_1	-	
MAP2K4	6416	genome.wustl.edu	37	17	11998993	11998993	+	Nonsense_Mutation	SNP	T	T	A	novel	unknown	TCGA-A8-A07Z-01A-11W-A019-09	TCGA-A8-A07Z-10A-01W-A021-09	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	17	11998993	11998993	T	A	SNP	MAP2K4	NM_003010	human	genbank	57_37b	+1	reviewed	nonsense	c.495	p.Y165*	1.000	superfamily_Kinase_like,HMMSmart_S_TKc,HMMPfam_Pkinase	superfamily_Kinase_like,HMMSmart_S_TKc,HMMPfam_Pkinase,PatternScan_PROTEIN_KINASE_ATP,PatternScan_PROTEIN_KINASE_ST	-	no_errors
MEX3C	51320	genome.wustl.edu	37	18	48703431	48703431	+	Missense_Mutation	SNP	C	T	T	novel	unknown	TCGA-A8-A07Z-01A-11W-A019-09	TCGA-A8-A07Z-10A-01W-A021-09	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	18	48703431	48703431	C	T	SNP	MEX3C	NM_016626	human	genbank	57_37b	-1	reviewed	missense	c.1270	p.A424T	1.000	NULL	PatternScan_ZF_RING_1,HMMSmart_KH,superfamily_SSF54791,HMMPfam_KH_1,superfamily_SSF57850,HMMSmart_RING,HMMPfam_zf-C3HC4	-	no_errors
MLL3	58508	genome.wustl.edu	37	7	151849846	151849846	+	Frame_Shift_Del	DEL	A	A	-	novel	unknown	TCGA-A8-A07Z-01A-11W-A019-09	TCGA-A8-A07Z-10A-01W-A021-09	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	7	151849846	151849846	A	-	DEL	MLL3	NM_170606	human	genbank	57_37b	-1	reviewed	frame_shift_del	c.12470	p.L4157fs	0.012	NULL	PatternScan_HMGI_Y,HMMPfam_AT_hook,HMMSmart_SM00249,superfamily_FYVE/PHD zinc finger,HMMPfam_PHD,HMMSmart_SM00184,PatternScan_ZF_PHD_1,PatternScan_ATPASE_ALPHA_BETA,HMMSmart_SM00398,HMMPfam_HMG_box,HMMPfam_FYRN,HMMSmart_SM00541,HMMPfam_FYRC,HMMSmart_SM00542,superfamily_SET domain,HMMPfam_SET,HMMSmart_SM00317,HMMSmart_SM00508	(deletion:cds_exon[151849790,151850039])	no_errors
ODZ4	26011	genome.wustl.edu	37	11	78482155	78482155	+	Silent	SNP	G	A	A	rs116862565	by1000genomes	TCGA-A8-A07Z-01A-11W-A019-09	TCGA-A8-A07Z-10A-01W-A021-09	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	11	78482155	78482155	G	A	SNP	ODZ4	NM_001098816	human	genbank	57_37b	-1	validated	silent	c.2421	p.N807	0.793	superfamily_SSF57196,HMMSmart_EGF	HMMPfam_Ten_N,PatternScan_EGF_1,PatternScan_EGF_2,HMMSmart_EGF,HMMPfam_EGF_2,superfamily_SSF57196,superfamily_SSF101898,superfamily_TolB_C,HMMPfam_NHL,HMMPfam_RHS_repeat	-	
OR10C1	442194	genome.wustl.edu	37	6	29408425	29408425	+	Silent	SNP	C	C	T	novel	unknown	TCGA-A8-A07Z-01A-11W-A019-09	TCGA-A8-A07Z-10A-01W-A021-09	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	6	29408425	29408425	C	T	SNP	OR10C1	NM_013941	human	genbank	57_37b	+1	provisional	silent	c.633	p.G211	0.002	superfamily_SSF81321,HMMPfam_7tm_1	superfamily_SSF81321,HMMPfam_7tm_1,PatternScan_G_PROTEIN_RECEP_F1_1	-	no_errors
PCDHB16	57717	genome.wustl.edu	37	5	140564268	140564268	+	Missense_Mutation	SNP	C	C	T	novel	unknown	TCGA-A8-A07Z-01A-11W-A019-09	TCGA-A8-A07Z-10A-01W-A021-09	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	5	140564268	140564268	C	T	SNP	PCDHB16	NM_020957	human	genbank	57_37b	+1	reviewed	missense	c.2134	p.R712W	0.000	NULL	HMMPfam_Cadherin_2,superfamily_Cadherin,PatternScan_CADHERIN_1,HMMSmart_CA,HMMPfam_Cadherin	-	no_errors
PDE1A	5136	genome.wustl.edu	37	2	183099185	183099185	+	Missense_Mutation	SNP	G	G	A	novel	unknown	TCGA-A8-A07Z-01A-11W-A019-09	TCGA-A8-A07Z-10A-01W-A021-09	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	2	183099185	183099185	G	A	SNP	PDE1A	NM_005019	human	genbank	57_37b	-1	validated	missense	c.439	p.P147S	1.000	superfamily_SSF109604	HMMPfam_PDEase_I_N,superfamily_SSF109604,HMMSmart_HDc,HMMPfam_PDEase_I,PatternScan_PDEASE_I	-	no_errors
PIK3CA	0	genome.wustl.edu	37	3	178952085	178952085	+	Missense_Mutation	SNP	A	A	G			TCGA-A8-A07Z-01A-11W-A019-09	TCGA-A8-A07Z-10A-01W-A021-09	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	3	178952085	178952085	A	G	SNP	PIK3CA	NM_006218.2	human	genbank	58_37c	+1	reviewed	missense	c.3140	p.H1047R	1.000	superfamily_Kinase_like,HMMSmart_PI3Kc	HMMPfam_PI3K_p85B,HMMSmart_PI3K_p85B,superfamily_SSF54236,HMMPfam_PI3K_rbd,HMMSmart_PI3K_rbd,HMMSmart_PI3K_C2,superfamily_C2_CaLB,HMMSmart_C2,HMMPfam_PI3K_C2,superfamily_ARM-type_fold,HMMSmart_PI3Ka,HMMPfam_PI3Ka,superfamily_Kinase_like,HMMPfam_PI3_PI4_kinase,HMMSmart_PI3Kc,PatternScan_PI3_4_KINASE_1,PatternScan_PI3_4_KINASE_2	-	no_errors
RSPH10B	222967	genome.wustl.edu	37	7	5992828	5992828	+	Missense_Mutation	SNP	C	T	T	novel	unknown	TCGA-A8-A07Z-01A-11W-A019-09	TCGA-A8-A07Z-10A-01W-A021-09	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	7	5992828	5992828	C	T	SNP	RSPH10B	NM_173565	human	genbank	57_37b	-1	validated	missense	c.980	p.G327E	1.000	superfamily_SSF82185,HMMPfam_MORN	HMMPfam_MORN,superfamily_SSF82185,HMMSmart_MORN	-	no_errors
SLC22A2	6582	genome.wustl.edu	37	6	160671727	160671727	+	Frame_Shift_Del	DEL	G	G	-	novel	unknown	TCGA-A8-A07Z-01A-11W-A019-09	TCGA-A8-A07Z-10A-01W-A021-09	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	6	160671727	160671727	G	-	DEL	SLC22A2	NM_003058	human	genbank	57_37b	-1	reviewed	frame_shift_del	c.526	p.R176fs	1.000	superfamily_MFS general substrate transporter,HMMPfam_Sugar_tr,PatternScan_SUGAR_TRANSPORT_1	superfamily_MFS general substrate transporter,HMMPfam_Sugar_tr,PatternScan_SUGAR_TRANSPORT_1	(deletion:cds_exon[160671580,160671734])	no_errors
SLC4A4	8671	genome.wustl.edu	37	4	72121014	72121014	+	Missense_Mutation	SNP	C	C	A	novel	unknown	TCGA-A8-A07Z-01A-11W-A019-09	TCGA-A8-A07Z-10A-01W-A021-09	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	4	72121014	72121014	C	A	SNP	SLC4A4	NM_001134742	human	genbank	57_37b	+1	reviewed	missense	c.151	p.H51N	1.000	NULL	superfamily_PTrfase/Anion_transptr,HMMPfam_Band_3_cyto,HMMPfam_HCO3_cotransp	-	no_errors
ZDHHC22	283576	genome.wustl.edu	37	14	77605758	77605758	+	Silent	SNP	G	A	A	rs117728828	by1000genomes	TCGA-A8-A07Z-01A-11W-A019-09	TCGA-A8-A07Z-10A-01W-A021-09	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	14	77605758	77605758	G	A	SNP	ZDHHC22	NM_174976	human	genbank	57_37b	-1	validated	silent	c.324	p.D108	1.000	HMMPfam_zf-DHHC	HMMPfam_zf-DHHC	-	
ZFYVE26	23503	genome.wustl.edu	37	14	68236344	68236344	+	Missense_Mutation	SNP	A	A	C	novel	unknown	TCGA-A8-A07Z-01A-11W-A019-09	TCGA-A8-A07Z-10A-01W-A021-09	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	14	68236344	68236344	A	C	SNP	ZFYVE26	NM_015346	human	genbank	57_37b	-1	reviewed	missense	c.5588	p.V1863G	1.000	HMMSmart_SM00064,HMMPfam_FYVE,superfamily_FYVE/PHD zinc finger	PatternScan_ZINC_FINGER_C2H2_1,HMMSmart_SM00064,HMMPfam_FYVE,superfamily_FYVE/PHD zinc finger	-	no_errors
