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	
ABCA1	19	genome.wustl.edu	37	9	107581011	107581011	+	Frame_Shift_Del	DEL	T	T	-	novel	unknown	TCGA-A7-A0CH-01	TCGA-A7-A0CH-01	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	9	107581011	107581011	T	-	DEL	ABCA1	NM_005502	human	genbank	57_37b	-1	reviewed	frame_shift_del	c.3395	p.K1132fs	1.000	superfamily_P-loop containing nucleoside triphosphate hydrolases	superfamily_P-loop containing nucleoside triphosphate hydrolases,HMMSmart_SM00382,HMMPfam_ABC_tran,PatternScan_ABC_TRANSPORTER_1	(deletion:cds_exon[107580944,107581164])	no_errors	
ABCA1	19	genome.wustl.edu	37	9	107581011	107581011	+	Frame_Shift_Del	DEL	T	T	-	novel	unknown	TCGA-A7-A0CH-01	TCGA-A7-A0CH-01	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	9	107581011	107581011	T	-	DEL	ABCA1	NM_005502	human	genbank	57_37b	-1	reviewed	frame_shift_del	c.3395	p.K1132fs	1.000	superfamily_P-loop containing nucleoside triphosphate hydrolases	superfamily_P-loop containing nucleoside triphosphate hydrolases,HMMSmart_SM00382,HMMPfam_ABC_tran,PatternScan_ABC_TRANSPORTER_1	(deletion:cds_exon[107580944,107581164])	no_errors	
ADAM22	53616	genome.wustl.edu	37	7	87564277	87564277	+	Silent	SNP	A	A	C	rs10239100	byCluster;byFrequency;by2Hit2Allele;by1000genomes	TCGA-A7-A0CH-01	TCGA-A7-A0CH-01	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	7	87564277	87564277	A	C	SNP	ADAM22	ENST00000429460	human	ensembl	57_37b	+1	known	silent	c.178	p.R60	0.001	NULL	"HMMPfam_Pep_M12B_propep,superfamily_Metalloproteases (""zincins"") catalytic domain,HMMPfam_Reprolysin,HMMPfam_Disintegrin,HMMSmart_SM00050,superfamily_Blood coagulation inhibitor (disintegrin),PatternScan_DISINTEGRIN_1,HMMSmart_SM00608,HMMPfam_ADAM_CR,HMMPfam_EGF_2,superfamily_EGF/Laminin,PatternScan_EGF_1"	-		
AFTPH	54812	genome.wustl.edu	37	2	64780391	64780391	+	Missense_Mutation	SNP	G	G	A	novel	unknown	TCGA-A7-A0CH-01	TCGA-A7-A0CH-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	2	64780391	64780391	G	A	SNP	AFTPH	NM_203437	human	genbank	57_37b	+1	validated	missense	c.1783	p.E595K	0.977	NULL	PatternScan_EF_HAND_1	-	no_errors	
C1orf198	84886	genome.wustl.edu	37	1	230979500	230979500	+	Missense_Mutation	SNP	A	A	G	novel	unknown	TCGA-A7-A0CH-01	TCGA-A7-A0CH-01	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	1	230979500	230979500	A	G	SNP	C1orf198	NM_032800	human	genbank	57_37b	-1	validated	missense	c.527	p.L176P	0.131	NULL	NULL	-	no_errors	
CLNK	116449	genome.wustl.edu	37	4	10566399	10566399	+	Missense_Mutation	SNP	T	T	C	novel	unknown	TCGA-A7-A0CH-01	TCGA-A7-A0CH-01	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	4	10566399	10566399	T	C	SNP	CLNK	NM_052964	human	genbank	57_37b	-1	validated	missense	c.295	p.T99A	0.623	NULL	superfamily_SH2 domain,HMMSmart_SM00252,HMMPfam_SH2	-	no_errors	
CSMD1	64478	genome.wustl.edu	37	8	3263700	3263700	+	Silent	SNP	G	G	A	novel	unknown	TCGA-A7-A0CH-01	TCGA-A7-A0CH-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	8	3263700	3263700	G	A	SNP	CSMD1	NM_033225	human	genbank	57_37b	-1	validated	silent	c.2118	p.N706	0.960	superfamily_Complement control module/SCR domain,HMMPfam_Sushi,HMMSmart_SM00032	superfamily_Spermadhesin CUB domain,HMMPfam_CUB,HMMSmart_SM00042,superfamily_Complement control module/SCR domain,HMMPfam_Sushi,HMMSmart_SM00032,PatternScan_GLYCOSYL_HYDROL_F10	-	no_errors	
DHX36	170506	genome.wustl.edu	37	3	153995455	153995455	+	Missense_Mutation	SNP	C	C	T	novel	unknown	TCGA-A7-A0CH-01	TCGA-A7-A0CH-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	3	153995455	153995455	C	T	SNP	DHX36	NM_020865	human	genbank	57_37b	-1	validated	missense	c.2620	p.V874I	1.000	HMMPfam_DUF1605	superfamily_SSF52540,HMMSmart_DEXDc,HMMPfam_DEAD,PatternScan_DEAH_ATP_HELICASE,HMMSmart_HELICc,HMMPfam_Helicase_C,HMMPfam_HA2,HMMPfam_DUF1605	-	no_errors	
DSC2	1824	genome.wustl.edu	37	18	28669470	28669470	+	Missense_Mutation	SNP	C	C	A	novel	unknown	TCGA-A7-A0CH-01	TCGA-A7-A0CH-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	18	28669470	28669470	C	A	SNP	DSC2	NM_024422	human	genbank	57_37b	-1	reviewed	missense	c.562	p.V188L	0.997	HMMPfam_Cadherin,superfamily_Cadherin-like,HMMSmart_SM00112	superfamily_Cadherin-like,HMMPfam_Cadherin_pro,HMMPfam_Cadherin,HMMSmart_SM00112,PatternScan_CADHERIN_1	-	no_errors	
ENSG00000238657	0	genome.wustl.edu	37	9	135968511	135968512	+	RNA	INS	-	-	TG	novel	unknown	TCGA-A7-A0CH-01	TCGA-A7-A0CH-01	-	-					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	9	135968511	135968512	-	TG	INS	ENSG00000238657	ENST00000459497	human	ensembl	57_37b	+1	novel	rna	NULL	NULL	0.022:0.014	-	-	-	no_errors	
FRYL	285527	genome.wustl.edu	37	4	48588708	48588708	+	Missense_Mutation	SNP	A	A	G	novel	unknown	TCGA-A7-A0CH-01	TCGA-A7-A0CH-01	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	4	48588708	48588708	A	G	SNP	FRYL	NM_015030	human	genbank	57_37b	-1	validated	missense	c.1678	p.C560R	1.000	superfamily_ARM repeat	superfamily_ARM repeat	-	no_errors	
HIST1H2AI	8329	genome.wustl.edu	37	6	27776209	27776209	+	Missense_Mutation	SNP	C	C	G	novel	unknown	TCGA-A7-A0CH-01	TCGA-A7-A0CH-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	6	27776209	27776209	C	G	SNP	HIST1H2AI	NM_003509	human	genbank	57_37b	+1	reviewed	missense	c.222	p.N74K	1.000	superfamily_Histone-fold,HMMSmart_SM00414,HMMPfam_Histone	superfamily_Histone-fold,HMMSmart_SM00414,HMMPfam_Histone,PatternScan_HISTONE_H2A	-	no_errors	
KANK2	25959	genome.wustl.edu	37	19	11289393	11289393	+	Missense_Mutation	SNP	A	A	G	novel	unknown	TCGA-A7-A0CH-01	TCGA-A7-A0CH-01	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	19	11289393	11289393	A	G	SNP	KANK2	NM_001136191	human	genbank	57_37b	-1	validated	missense	c.1253	p.L418P	0.000	NULL	superfamily_Ankyrin repeat,HMMSmart_SM00248,HMMPfam_Ank	-	no_errors	
KLHL24	54800	genome.wustl.edu	37	3	183368623	183368623	+	Missense_Mutation	SNP	A	A	C	novel	unknown	TCGA-A7-A0CH-01	TCGA-A7-A0CH-01	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	3	183368623	183368623	A	C	SNP	KLHL24	NM_017644	human	genbank	57_37b	+1	validated	missense	c.479	p.E160A	1.000	superfamily_POZ domain,HMMPfam_BTB,HMMSmart_SM00225	superfamily_POZ domain,HMMPfam_BTB,HMMSmart_SM00225,HMMPfam_BACK,superfamily_Galactose oxidase central domain,HMMPfam_Kelch_1,HMMSmart_SM00612	-	no_errors	
LMAN1	3998	genome.wustl.edu	37	18	57000396	57000401	+	In_Frame_Del	DEL	TGTGTT	TGTGTT	-	novel	unknown	TCGA-A7-A0CH-01	TCGA-A7-A0CH-01	TGTGTT	TGTGTT					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	18	57000396	57000401	TGTGTT	-	DEL	LMAN1	NM_005570	human	genbank	57_37b	-1	reviewed	in_frame_del	c.1301_1296	p.TQ433in_frame_del	1.000:1.000:0.002:0.088:0.008:0.001	NULL	superfamily_ConA_like_lec_gl,HMMPfam_Lectin_leg-like	(deletion:cds_exon[57000323,57000476])	no_errors	
LMAN1	3998	genome.wustl.edu	37	18	57000396	57000401	+	In_Frame_Del	DEL	TGTGTT	TGTGTT	-	novel	unknown	TCGA-A7-A0CH-01	TCGA-A7-A0CH-01	TGTGTT	TGTGTT					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	18	57000396	57000401	TGTGTT	-	DEL	LMAN1	NM_005570	human	genbank	57_37b	-1	reviewed	in_frame_del	c.1301_1296	p.TQ433in_frame_del	1.000:1.000:0.002:0.088:0.008:0.001	NULL	superfamily_ConA_like_lec_gl,HMMPfam_Lectin_leg-like	(deletion:cds_exon[57000323,57000476])	no_errors	
LOC100288205	0	genome.wustl.edu	37	16	23847575	23847575	+	Missense_Mutation	SNP	C	C	A	rs75964872	byCluster;byFrequency;by1000genomes	TCGA-A7-A0CH-01	TCGA-A7-A0CH-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	16	23847575	23847575	C	A	SNP	LOC100288205	XM_002343455	human	genbank	57_37b	-1	model	missense	c.134	p.R45L	0.992	NULL	NULL	-		
MDGA1	266727	genome.wustl.edu	37	6	37622129	37622129	+	Silent	SNP	C	C	T	novel	unknown	TCGA-A7-A0CH-01	TCGA-A7-A0CH-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	6	37622129	37622129	C	T	SNP	MDGA1	NM_153487	human	genbank	57_37b	-1	validated	silent	c.903	p.R301	0.821	superfamily_Immunoglobulin,HMMSmart_SM00409,HMMSmart_SM00408,HMMPfam_ig	PatternScan_NITROGENASE_1_1,HMMPfam_I-set,HMMSmart_SM00409,superfamily_Immunoglobulin,HMMSmart_SM00408,HMMPfam_ig,superfamily_Fibronectin type III,HMMSmart_SM00137,HMMPfam_MAM	-	no_errors	
PELO	53918	genome.wustl.edu	37	5	52097628	52097628	+	Missense_Mutation	SNP	C	C	A	novel	unknown	TCGA-A7-A0CH-01	TCGA-A7-A0CH-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	5	52097628	52097628	C	A	SNP	PELO	NM_015946	human	genbank	57_37b	+1	reviewed	missense	c.1112	p.P371H	1.000	superfamily_L30e-like	HMMPfam_eRF1_1,HMMPfam_eRF1_2,superfamily_L30e-like,HMMPfam_eRF1_3	-	no_errors	
PFKP	5214	genome.wustl.edu	37	10	3179738	3179738	+	Missense_Mutation	SNP	G	G	A	rs79334726	byCluster;byFrequency;by1000genomes	TCGA-A7-A0CH-01	TCGA-A7-A0CH-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	10	3179738	3179738	G	A	SNP	PFKP	ENST00000433193	human	ensembl	57_37b	+1	known	missense	c.287	p.R96Q	0.000	NULL	superfamily_Phosphofructokinase,HMMPfam_PFK,PatternScan_PHOSPHOFRUCTOKINASE	-		
PIK3CA	5290	genome.wustl.edu	37	3	178936091	178936091	+	Missense_Mutation	SNP	G	G	A	rs104886003	unknown	TCGA-A7-A0CH-01	TCGA-A7-A0CH-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	3	178936091	178936091	G	A	SNP	PIK3CA	NM_006218	human	genbank	57_37b	+1	reviewed	missense	c.1633	p.E545K	1.000	superfamily_ARM-type_fold,HMMSmart_PI3Ka,HMMPfam_PI3Ka	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	-		
RDH16	8608	genome.wustl.edu	37	12	57348901	57348901	+	Missense_Mutation	SNP	G	G	A	novel	unknown	TCGA-A7-A0CH-01	TCGA-A7-A0CH-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	12	57348901	57348901	G	A	SNP	RDH16	NM_003708	human	genbank	57_37b	-1	validated	missense	c.361	p.P121S	1.000	superfamily_NAD(P)-bd,HMMPfam_adh_short	superfamily_NAD(P)-bd,HMMPfam_adh_short,PatternScan_ADH_SHORT	-	no_errors	
RYR2	6262	genome.wustl.edu	37	1	237947546	237947546	+	Silent	SNP	C	C	T	novel	unknown	TCGA-A7-A0CH-01	TCGA-A7-A0CH-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	1	237947546	237947546	C	T	SNP	RYR2	NM_001035	human	genbank	57_37b	+1	reviewed	silent	c.12534	p.N4178	0.242	NULL	HMMPfam_Ins145_P3_rec,HMMSmart_SM00472,HMMPfam_MIR,superfamily_MIR domain (Pfam 02815),HMMPfam_RYDR_ITPR,HMMPfam_SPRY,HMMSmart_SM00449,HMMPfam_RyR,HMMPfam_RIH_assoc,superfamily_EF-hand,HMMPfam_RR_TM4-6,HMMPfam_Ion_trans	-	no_errors	
SLCO3A1	28232	genome.wustl.edu	37	15	92647538	92647538	+	Missense_Mutation	SNP	C	C	T	novel	unknown	TCGA-A7-A0CH-01	TCGA-A7-A0CH-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	15	92647538	92647538	C	T	SNP	SLCO3A1	NM_013272	human	genbank	57_37b	+1	validated	missense	c.775	p.R259C	1.000	superfamily_MFS general substrate transporter,HMMPfam_OATP	superfamily_MFS general substrate transporter,HMMPfam_OATP,superfamily_Kazal-type serine protease inhibitors,HMMPfam_Kazal_2	-	no_errors	
STAG2	10735	genome.wustl.edu	37	X	123220476	123220476	+	Nonsense_Mutation	SNP	C	C	T	novel	unknown	TCGA-A7-A0CH-01	TCGA-A7-A0CH-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	X	123220476	123220476	C	T	SNP	STAG2	NM_001042749	human	genbank	57_37b	+1	validated	nonsense	c.3133	p.R1045*	1.000	superfamily_ARM-type_fold	HMMPfam_STAG,superfamily_ARM-type_fold	-	no_errors	
STAG2	10735	genome.wustl.edu	37	X	123220476	123220476	+	Nonsense_Mutation	SNP	C	C	T	novel	unknown	TCGA-A7-A0CH-01	TCGA-A7-A0CH-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	X	123220476	123220476	C	T	SNP	STAG2	NM_001042749	human	genbank	57_37b	+1	validated	nonsense	c.3133	p.R1045*	1.000	superfamily_ARM-type_fold	HMMPfam_STAG,superfamily_ARM-type_fold	-	no_errors	
TBX3	6926	genome.wustl.edu	37	12	115118819	115118820	+	Frame_Shift_Ins	INS	-	-	C	novel	unknown	TCGA-A7-A0CH-01	TCGA-A7-A0CH-01	-	-					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	12	115118819	115118820	-	C	INS	TBX3	NM_016569	human	genbank	57_37b	-1	reviewed	frame_shift_ins	c.522_521	p.K175fs	0.995:1.000	superfamily_p53-like transcription factors,HMMSmart_SM00425,HMMPfam_T-box	superfamily_p53-like transcription factors,HMMSmart_SM00425,HMMPfam_T-box,PatternScan_TBOX_1,PatternScan_TBOX_2	-	no_errors	
UNC5D	137970	genome.wustl.edu	37	8	35425642	35425642	+	Missense_Mutation	SNP	A	A	T	novel	unknown	TCGA-A7-A0CH-01	TCGA-A7-A0CH-01	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	8	35425642	35425642	A	T	SNP	UNC5D	NM_080872	human	genbank	57_37b	+1	validated	missense	c.349	p.N117Y	1.000	superfamily_Immunoglobulin	superfamily_Immunoglobulin,HMMPfam_I-set,HMMSmart_SM00409,HMMSmart_SM00408,superfamily_TSP-1 type 1 repeat,HMMSmart_SM00209,HMMPfam_TSP_1,PatternScan_SERPIN,HMMPfam_ZU5,HMMSmart_SM00218,superfamily_DEATH domain,HMMSmart_SM00005,HMMPfam_Death	-	no_errors	
WDR91	29062	genome.wustl.edu	37	7	134890683	134890683	+	Missense_Mutation	SNP	T	T	C	novel	unknown	TCGA-A7-A0CH-01	TCGA-A7-A0CH-01	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	7	134890683	134890683	T	C	SNP	WDR91	NM_014149	human	genbank	57_37b	-1	validated	missense	c.722	p.E241G	1.000	NULL	superfamily_WD40 repeat-like,HMMSmart_SM00320,HMMPfam_WD40	-	no_errors	
WNT7A	7476	genome.wustl.edu	37	3	13916460	13916460	+	Frame_Shift_Del	DEL	C	C	-	novel	unknown	TCGA-A7-A0CH-01	TCGA-A7-A0CH-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	3	13916460	13916460	C	-	DEL	WNT7A	NM_004625	human	genbank	57_37b	-1	reviewed	frame_shift_del	c.282	p.K95fs	0.699	HMMPfam_wnt,HMMSmart_SM00097	HMMPfam_wnt,HMMSmart_SM00097,PatternScan_WNT1	(deletion:cds_exon[13916444,13916670])	no_errors	
WNT7A	7476	genome.wustl.edu	37	3	13916460	13916460	+	Frame_Shift_Del	DEL	C	C	-	novel	unknown	TCGA-A7-A0CH-01	TCGA-A7-A0CH-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	3	13916460	13916460	C	-	DEL	WNT7A	NM_004625	human	genbank	57_37b	-1	reviewed	frame_shift_del	c.282	p.K95fs	0.699	HMMPfam_wnt,HMMSmart_SM00097	HMMPfam_wnt,HMMSmart_SM00097,PatternScan_WNT1	(deletion:cds_exon[13916444,13916670])	no_errors	
ZC3HAV1	56829	genome.wustl.edu	37	7	138738313	138738313	+	Missense_Mutation	SNP	A	A	T	novel	unknown	TCGA-A7-A0CH-01	TCGA-A7-A0CH-01	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	7	138738313	138738313	A	T	SNP	ZC3HAV1	NM_020119	human	genbank	57_37b	-1	reviewed	missense	c.2333	p.M778K	0.992	superfamily_ADP-ribosylation,HMMPfam_PARP	HMMPfam_zf-CCCH,superfamily_ADP-ribosylation,HMMPfam_PARP	-	no_errors	
