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
ADAM21	8747	genome.wustl.edu	37	14	70924294	70924294	+	Silent	SNP	C	C	T	rs112060847	unknown	TCGA-BH-A0DS-01A-11W-A071-09	TCGA-BH-A0DS-10A-01W-A071-09	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	14	70924294	70924294	C	T	SNP	ADAM21	NM_003813	human	genbank	57_37b	+1	reviewed	silent	c.78	p.S26	0.000	HMMPfam_Pep_M12B_propep	"HMMPfam_Pep_M12B_propep,superfamily_Metalloproteases (""zincins"") catalytic domain,HMMPfam_Reprolysin,PatternScan_ZINC_PROTEASE,HMMPfam_Disintegrin,HMMSmart_SM00050,superfamily_Blood coagulation inhibitor (disintegrin),PatternScan_DISINTEGRIN_1,HMMSmart_SM00608,HMMPfam_ADAM_CR,PatternScan_EGF_2"	-	
AKAP14	158798	genome.wustl.edu	37	X	119037537	119037537	+	Silent	SNP	C	C	T	novel	unknown	TCGA-BH-A0DS-01A-11W-A071-09	TCGA-BH-A0DS-10A-01W-A071-09	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	X	119037537	119037537	C	T	SNP	AKAP14	NM_178813	human	genbank	57_37b	+1	reviewed	silent	c.249	p.D83	0.000	NULL	NULL	-	no_errors
BRCA1	672	genome.wustl.edu	37	17	41199695	41199695	+	Missense_Mutation	SNP	T	T	A	rs80357040	unknown	TCGA-BH-A0DS-01A-11W-A071-09	TCGA-BH-A0DS-10A-01W-A071-09	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	17	41199695	41199695	T	A	SNP	BRCA1	NM_007294	human	genbank	57_37b	-1	reviewed	missense	c.5432	p.Q1811L	0.998	HMMPfam_BRCT,HMMSmart_SM00292,superfamily_BRCT domain	superfamily_RING/U-box,HMMSmart_SM00184,HMMPfam_zf-C3HC4,PatternScan_ZF_RING_1,HMMPfam_BRCT,HMMSmart_SM00292,superfamily_BRCT domain	-	
C6orf27	80737	genome.wustl.edu	37	6	31734300	31734300	+	Silent	SNP	C	C	T	novel	unknown	TCGA-BH-A0DS-01A-11W-A071-09	TCGA-BH-A0DS-10A-01W-A071-09	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	6	31734300	31734300	C	T	SNP	C6orf27	NM_025258	human	genbank	57_37b	-1	validated	silent	c.2124	p.A708	0.000	NULL	HMMSmart_VWA,superfamily_SSF53300	-	no_errors
CDH23	64072	genome.wustl.edu	37	10	73537978	73537978	+	Silent	SNP	C	C	T	rs10762480	byCluster;byFrequency;by2Hit2Allele;by1000genomes	TCGA-BH-A0DS-01A-11W-A071-09	TCGA-BH-A0DS-10A-01W-A071-09	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	10	73537978	73537978	C	T	SNP	CDH23	NM_022124	human	genbank	57_37b	+1	reviewed	silent	c.5100	p.Y1700	0.753	superfamily_Cadherin-like,HMMPfam_Cadherin,HMMSmart_SM00112	superfamily_Cadherin-like,HMMPfam_Cadherin,HMMSmart_SM00112,PatternScan_CADHERIN_1	-	
CDHR2	0	genome.wustl.edu	37	5	176002542	176002542	+	Silent	SNP	C	C	T	rs41275281	byCluster;by1000genomes	TCGA-BH-A0DS-01A-11W-A071-09	TCGA-BH-A0DS-10A-01W-A071-09	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	5	176002542	176002542	C	T	SNP	CDHR2	NM_017675	human	genbank	57_37b	+1	reviewed	silent	c.804	p.G268	0.033	superfamily_Cadherin,HMMPfam_Cadherin,HMMSmart_CA	superfamily_Cadherin,HMMPfam_Cadherin,HMMSmart_CA,PatternScan_CADHERIN_1	-	
CDRT15L1	0	genome.wustl.edu	37	17	15668250	15668250	+	Missense_Mutation	SNP	G	G	A	novel	unknown	TCGA-BH-A0DS-01A-11W-A071-09	TCGA-BH-A0DS-10A-01W-A071-09	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	17	15668250	15668250	G	A	SNP	CDRT15L1	XM_932309	human	genbank	57_37b	+1	model	missense	c.160	p.D54N	0.002	NULL	NULL	-	no_errors
CORIN	10699	genome.wustl.edu	37	4	47839941	47839941	+	Missense_Mutation	SNP	G	G	A	novel	unknown	TCGA-BH-A0DS-01A-11W-A071-09	TCGA-BH-A0DS-10A-01W-A071-09	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	4	47839941	47839941	G	A	SNP	CORIN	NM_006587	human	genbank	57_37b	-1	reviewed	missense	c.26	p.P9L	0.004	NULL	HMMPfam_Fz,superfamily_Frizzled cysteine-rich domain,HMMSmart_SM00063,superfamily_LDL receptor-like module,HMMPfam_Ldl_recept_a,HMMSmart_SM00192,PatternScan_LDLRA_1,superfamily_SRCR-like,HMMSmart_SM00202,superfamily_Trypsin-like serine proteases,HMMSmart_SM00020,HMMPfam_Trypsin,PatternScan_SRCR_1,PatternScan_TRYPSIN_SER	-	no_errors
CRAMP1L	57585	genome.wustl.edu	37	16	1682281	1682281	+	Missense_Mutation	SNP	A	A	G	rs3169425	byCluster;byFrequency;by2Hit2Allele;byHapMap;by1000genomes	TCGA-BH-A0DS-01A-11W-A071-09	TCGA-BH-A0DS-10A-01W-A071-09	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	16	1682281	1682281	A	G	SNP	CRAMP1L	ENST00000454337	human	ensembl	57_37b	+1	known	missense	c.22	p.K8E	0.000	NULL	NULL	-	
CREB5	9586	genome.wustl.edu	37	7	28848830	28848830	+	Silent	SNP	G	G	A	novel	unknown	TCGA-BH-A0DS-01A-11W-A071-09	TCGA-BH-A0DS-10A-01W-A071-09	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	7	28848830	28848830	G	A	SNP	CREB5	NM_182898	human	genbank	57_37b	+1	reviewed	silent	c.1053	p.Q351	1.000	NULL	superfamily_SSF57667,HMMPfam_zf-C2H2,HMMSmart_ZnF_C2H2,PatternScan_ZINC_FINGER_C2H2_1,HMMPfam_bZIP_1,HMMSmart_BRLZ,PatternScan_BZIP_BASIC	-	no_errors
DCLRE1C	64421	genome.wustl.edu	37	10	14961809	14961809	+	Missense_Mutation	SNP	A	A	G	novel	unknown	TCGA-BH-A0DS-01A-11W-A071-09	TCGA-BH-A0DS-10A-01W-A071-09	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	10	14961809	14961809	A	G	SNP	DCLRE1C	NM_001033855	human	genbank	57_37b	-1	reviewed	missense	c.1084	p.S362P	0.915	NULL	superfamily_Metallo-hydrolase/oxidoreductase,HMMPfam_DRMBL	-	no_errors
DNAH1	25981	genome.wustl.edu	37	3	52417430	52417430	+	Missense_Mutation	SNP	T	T	A	novel	unknown	TCGA-BH-A0DS-01A-11W-A071-09	TCGA-BH-A0DS-10A-01W-A071-09	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	3	52417430	52417430	T	A	SNP	DNAH1	NM_015512	human	genbank	57_37b	+1	validated	missense	c.7970	p.I2657N	1.000	superfamily_P-loop containing nucleoside triphosphate hydrolases	HMMPfam_DHC_N2,superfamily_P-loop containing nucleoside triphosphate hydrolases,HMMPfam_AAA_5,HMMPfam_Dynein_heavy	-	no_errors
ENSG00000229721	0	genome.wustl.edu	37	5	179653428	179653428	+	Missense_Mutation	SNP	C	C	T	rs12656368	byCluster;byFrequency;by2Hit2Allele;byHapMap;by1000genomes	TCGA-BH-A0DS-01A-11W-A071-09	TCGA-BH-A0DS-10A-01W-A071-09	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	5	179653428	179653428	C	T	SNP	ENSG00000229721	ENST00000412600	human	ensembl	57_37b	-1	known	missense	c.559	p.E187K	1.000	NULL	HMMPfam_Ribosomal_S8e	-	
ENSG00000245505	0	genome.wustl.edu	37	6	100016340	100016340	+	RNA	SNP	G	G	C	rs41288985	by1000genomes	TCGA-BH-A0DS-01A-11W-A071-09	TCGA-BH-A0DS-10A-01W-A071-09	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	6	100016340	100016340	G	C	SNP	ENSG00000245505	ENST00000499747	human	ensembl	57_37b	+1	known	rna	NULL	NULL	0.000	-	-	-	
ENSG00000245602	0	genome.wustl.edu	37	19	47998929	47998929	+	RNA	SNP	C	C	G	novel	unknown	TCGA-BH-A0DS-01A-11W-A071-09	TCGA-BH-A0DS-10A-01W-A071-09	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	19	47998929	47998929	C	G	SNP	ENSG00000245602	ENST00000500835	human	ensembl	57_37b	+1	known	rna	NULL	NULL	0.000	-	-	-	no_errors
ENSG00000245932	0	genome.wustl.edu	37	19	53301877	53301879	+	RNA	DEL	TCC	TCC	-	novel	unknown	TCGA-BH-A0DS-01A-11W-A071-09	TCGA-BH-A0DS-10A-01W-A071-09	TCC	TCC					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	19	53301877	53301879	TCC	-	DEL	ENSG00000245932	ENST00000500436	human	ensembl	57_37b	+1	known	rna	NULL	NULL	0.164:0.105:0.080	-	-	(deletion:rna[53300661,53304962])	no_errors
ESR1	2099	genome.wustl.edu	37	6	152201810	152201810	+	Missense_Mutation	SNP	C	C	T	novel	unknown	TCGA-BH-A0DS-01A-11W-A071-09	TCGA-BH-A0DS-10A-01W-A071-09	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	6	152201810	152201810	C	T	SNP	ESR1	NM_000125	human	genbank	57_37b	+1	reviewed	missense	c.664	p.P222S	1.000	superfamily_Glucocorticoid receptor-like (DNA-binding domain),HMMSmart_SM00399,HMMPfam_zf-C4	HMMPfam_Oest_recep,superfamily_Glucocorticoid receptor-like (DNA-binding domain),HMMSmart_SM00399,HMMPfam_zf-C4,PatternScan_NUCLEAR_REC_DBD_1,superfamily_Nuclear receptor ligand-binding domain,HMMSmart_SM00430,HMMPfam_Hormone_recep	-	no_errors
GATA3	2625	genome.wustl.edu	37	10	8115733	8115734	+	Frame_Shift_Ins	INS	-	-	CATCCAGACC	novel	unknown	TCGA-BH-A0DS-01A-11W-A071-09	TCGA-BH-A0DS-10A-01W-A071-09	-	-					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	10	8115733	8115734	-	CATCCAGACC	INS	GATA3	NM_001002295	human	genbank	57_37b	+1	reviewed	frame_shift_ins	c.1082_1083	p.T365fs	1.000:1.000	superfamily_Glucocorticoid receptor-like (DNA-binding domain)	superfamily_Glucocorticoid receptor-like (DNA-binding domain),HMMSmart_SM00401,PatternScan_GATA_ZN_FINGER_1,HMMPfam_GATA	-	no_errors
GGPS1	9453	genome.wustl.edu	37	1	235505826	235505826	+	Silent	SNP	A	A	G	novel	unknown	TCGA-BH-A0DS-01A-11W-A071-09	TCGA-BH-A0DS-10A-01W-A071-09	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	1	235505826	235505826	A	G	SNP	GGPS1	NM_001037277	human	genbank	57_37b	+1	reviewed	silent	c.642	p.S214	0.976	superfamily_Terpenoid_synth,HMMPfam_polyprenyl_synt	superfamily_Terpenoid_synth,HMMPfam_polyprenyl_synt,PatternScan_POLYPRENYL_SYNTHET_1,PatternScan_POLYPRENYL_SYNTHET_2	-	no_errors
GRK6	2870	genome.wustl.edu	37	5	176859087	176859087	+	Silent	SNP	C	C	T	novel	unknown	TCGA-BH-A0DS-01A-11W-A071-09	TCGA-BH-A0DS-10A-01W-A071-09	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	5	176859087	176859087	C	T	SNP	GRK6	NM_002082	human	genbank	57_37b	+1	reviewed	silent	c.240	p.C80	1.000	superfamily_Regulat_G_prot_signal_superfam,HMMPfam_RGS,HMMSmart_RGS	superfamily_Regulat_G_prot_signal_superfam,HMMPfam_RGS,HMMSmart_RGS,superfamily_Kinase_like,HMMSmart_S_TKc,HMMPfam_Pkinase,PatternScan_PROTEIN_KINASE_ATP,PatternScan_PROTEIN_KINASE_ST,HMMSmart_S_TK_X	-	no_errors
HCFC1	3054	genome.wustl.edu	37	X	153215839	153215839	+	Missense_Mutation	SNP	G	A	A	rs3027875	byCluster;by2Hit2Allele;byHapMap;by1000genomes	TCGA-BH-A0DS-01A-11W-A071-09	TCGA-BH-A0DS-10A-01W-A071-09	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	X	153215839	153215839	G	A	SNP	HCFC1	ENST00000444191	human	ensembl	57_37b	-1	known	missense	c.1585	p.R529W	0.976	superfamily_Fibronectin type III,HMMSmart_SM00060,HMMPfam_fn3	HMMSmart_SM00060,superfamily_Fibronectin type III,HMMPfam_fn3	-	
HIST1H2BB	3018	genome.wustl.edu	37	6	26043672	26043672	+	Missense_Mutation	SNP	C	C	T	novel	unknown	TCGA-BH-A0DS-01A-11W-A071-09	TCGA-BH-A0DS-10A-01W-A071-09	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	6	26043672	26043672	C	T	SNP	HIST1H2BB	NM_021062	human	genbank	57_37b	-1	reviewed	missense	c.214	p.E72K	1.000	superfamily_Histone-fold,HMMSmart_H2B,HMMPfam_Histone	superfamily_Histone-fold,HMMSmart_H2B,HMMPfam_Histone,PatternScan_HISTONE_H2B	-	no_errors
HNF4A	3172	genome.wustl.edu	37	20	43031282	43031282	+	Missense_Mutation	SNP	G	G	A	novel	unknown	TCGA-BH-A0DS-01A-11W-A071-09	TCGA-BH-A0DS-10A-01W-A071-09	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	20	43031282	43031282	G	A	SNP	HNF4A	ENST00000338692	human	ensembl	57_37b	+1	known	missense	c.203	p.G68E	0.000	NULL	HMMSmart_SM00399,HMMPfam_zf-C4,superfamily_Glucocorticoid receptor-like (DNA-binding domain),PatternScan_NUCLEAR_REC_DBD_1,superfamily_Nuclear receptor ligand-binding domain,HMMSmart_SM00430,HMMPfam_Hormone_recep	-	no_errors
HOMEZ	57594	genome.wustl.edu	37	14	23744803	23744803	+	Frame_Shift_Del	DEL	T	T	-	novel	unknown	TCGA-BH-A0DS-01A-11W-A071-09	TCGA-BH-A0DS-10A-01W-A071-09	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	14	23744803	23744803	T	-	DEL	HOMEZ	NM_020834	human	genbank	57_37b	-1	validated	frame_shift_del	c.1634	p.D545fs	1.000	NULL	HMMSmart_SM00389,superfamily_Homeodomain-like,HMMPfam_Homeobox	(deletion:cds_exon[23744784,23746396])	no_errors
HOMEZ	57594	genome.wustl.edu	37	14	23744805	23744806	+	Frame_Shift_Del	DEL	AT	AT	-	novel	unknown	TCGA-BH-A0DS-01A-11W-A071-09	TCGA-BH-A0DS-10A-01W-A071-09	AT	AT					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	14	23744805	23744806	AT	-	DEL	HOMEZ	NM_020834	human	genbank	57_37b	-1	validated	frame_shift_del	c.1632_1631	p.D544fs	0.994:0.998	NULL	HMMPfam_Homeobox,HMMSmart_SM00389,superfamily_Homeodomain-like	(deletion:cds_exon[23744784,23746396])	no_errors
HPDL	84842	genome.wustl.edu	37	1	45792976	45792976	+	Silent	SNP	G	G	C	novel	unknown	TCGA-BH-A0DS-01A-11W-A071-09	TCGA-BH-A0DS-10A-01W-A071-09	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	1	45792976	45792976	G	C	SNP	HPDL	NM_032756	human	genbank	57_37b	+1	validated	silent	c.156	p.A52	0.000	superfamily_Glyoxalase/Bleomycin resistance protein/Dihydroxybiphenyl dioxygenase	superfamily_Glyoxalase/Bleomycin resistance protein/Dihydroxybiphenyl dioxygenase	-	no_errors
HRCT1	0	genome.wustl.edu	37	9	35906471	35906471	+	Missense_Mutation	SNP	C	C	T	rs76452347	byCluster;byFrequency;by1000genomes	TCGA-BH-A0DS-01A-11W-A071-09	TCGA-BH-A0DS-10A-01W-A071-09	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	9	35906471	35906471	C	T	SNP	HRCT1	NM_001039792	human	genbank	57_37b	+1	validated	missense	c.187	p.R63W	0.083	NULL	NULL	-	
IL1F5	26525	genome.wustl.edu	37	2	113819727	113819727	+	Missense_Mutation	SNP	C	C	T	novel	unknown	TCGA-BH-A0DS-01A-11W-A071-09	TCGA-BH-A0DS-10A-01W-A071-09	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	2	113819727	113819727	C	T	SNP	IL1F5	NM_012275	human	genbank	57_37b	+1	reviewed	missense	c.142	p.R48W	0.988	superfamily_Cytokine,HMMSmart_SM00125	superfamily_Cytokine,HMMSmart_SM00125,HMMPfam_IL1,PatternScan_INTERLEUKIN_1	-	no_errors
IQCF1	132141	genome.wustl.edu	37	3	51929268	51929268	+	Missense_Mutation	SNP	G	G	A	novel	unknown	TCGA-BH-A0DS-01A-11W-A071-09	TCGA-BH-A0DS-10A-01W-A071-09	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	3	51929268	51929268	G	A	SNP	IQCF1	NM_152397	human	genbank	57_37b	-1	validated	missense	c.256	p.R86W	0.067	HMMSmart_SM00015,HMMPfam_IQ,superfamily_P-loop containing nucleoside triphosphate hydrolases	HMMSmart_SM00015,HMMPfam_IQ,superfamily_P-loop containing nucleoside triphosphate hydrolases	-	no_errors
KIAA1409	57578	genome.wustl.edu	37	14	94088208	94088208	+	Silent	SNP	C	C	T	novel	unknown	TCGA-BH-A0DS-01A-11W-A071-09	TCGA-BH-A0DS-10A-01W-A071-09	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	14	94088208	94088208	C	T	SNP	KIAA1409	NM_020818	human	genbank	57_37b	+1	validated	silent	c.4098	p.N1366	0.001	NULL	NULL	-	no_errors
KIF27	55582	genome.wustl.edu	37	9	86465140	86465140	+	Missense_Mutation	SNP	G	G	A	novel	unknown	TCGA-BH-A0DS-01A-11W-A071-09	TCGA-BH-A0DS-10A-01W-A071-09	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	9	86465140	86465140	G	A	SNP	KIF27	NM_017576	human	genbank	57_37b	-1	provisional	missense	c.3430	p.R1144W	1.000	NULL	HMMSmart_SM00129,superfamily_P-loop containing nucleoside triphosphate hydrolases,HMMPfam_Kinesin,PatternScan_KINESIN_MOTOR_DOMAIN1	-	no_errors
LOC100287189	0	genome.wustl.edu	37	11	47927031	47927031	+	Silent	SNP	G	G	A	novel	unknown	TCGA-BH-A0DS-01A-11W-A071-09	TCGA-BH-A0DS-10A-01W-A071-09	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	11	47927031	47927031	G	A	SNP	LOC100287189	XM_002343060	human	genbank	57_37b	-1	model	silent	c.129	p.S43	0.081	NULL	HMMPfam_Sec61_beta	-	no_errors
LRIT1	26103	genome.wustl.edu	37	10	85991725	85991725	+	Silent	SNP	A	A	G	novel	unknown	TCGA-BH-A0DS-01A-11W-A071-09	TCGA-BH-A0DS-10A-01W-A071-09	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	10	85991725	85991725	A	G	SNP	LRIT1	NM_015613	human	genbank	57_37b	-1	validated	silent	c.1830	p.F610	0.003	NULL	HMMSmart_LRRNT,superfamily_SSF52058,HMMPfam_LRR_1,HMMSmart_LRR_TYP,HMMSmart_LRRCT,superfamily_SSF48726,HMMSmart_IGc2,HMMPfam_ig,HMMSmart_FN3,HMMPfam_fn3,superfamily_FN_III-like	-	no_errors
MIA3	375056	genome.wustl.edu	37	1	222803199	222803199	+	Missense_Mutation	SNP	C	C	T	rs76329326	byCluster;byFrequency;by1000genomes	TCGA-BH-A0DS-01A-11W-A071-09	TCGA-BH-A0DS-10A-01W-A071-09	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	1	222803199	222803199	C	T	SNP	MIA3	ENST00000354906	human	ensembl	57_37b	+1	known	missense	c.1384	p.P462S	0.000	NULL	NULL	-	
MIR548H4	0	genome.wustl.edu	37	8	26906434	26906438	+	RNA	DEL	TAAAG	TAAAG	-	novel	unknown	TCGA-BH-A0DS-01A-11W-A071-09	TCGA-BH-A0DS-10A-01W-A071-09	TAAAG	TAAAG					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	8	26906434	26906438	TAAAG	-	DEL	MIR548H4	ENST00000408689	human	ensembl	57_37b	-1	known	rna	NULL	NULL	0.003:0.006:0.031:0.044:0.062	-	-	(deletion:rna[26906370,26906480])	no_errors
MSTO2P	0	genome.wustl.edu	37	1	155715641	155715641	+	RNA	SNP	G	G	A	rs66501532	unknown	TCGA-BH-A0DS-01A-11W-A071-09	TCGA-BH-A0DS-10A-01W-A071-09	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	1	155715641	155715641	G	A	SNP	MSTO2P	NR_024117	human	genbank	57_37b	+1	provisional	rna	NULL	NULL	1.000	-	-	-	
MYH14	79784	genome.wustl.edu	37	19	50753926	50753926	+	Missense_Mutation	SNP	T	T	C	novel	unknown	TCGA-BH-A0DS-01A-11W-A071-09	TCGA-BH-A0DS-10A-01W-A071-09	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	19	50753926	50753926	T	C	SNP	MYH14	NM_001077186	human	genbank	57_37b	+1	reviewed	missense	c.1811	p.V604A	1.000	superfamily_P-loop containing nucleoside triphosphate hydrolases,HMMSmart_SM00242,HMMPfam_Myosin_head	HMMPfam_Myosin_N,superfamily_P-loop containing nucleoside triphosphate hydrolases,HMMSmart_SM00242,HMMPfam_Myosin_head,HMMSmart_SM00015,HMMPfam_IQ,HMMPfam_Myosin_tail_1,superfamily_Prefoldin	-	no_errors
NCKAP1L	3071	genome.wustl.edu	37	12	54925050	54925050	+	Missense_Mutation	SNP	G	G	A	novel	unknown	TCGA-BH-A0DS-01A-11W-A071-09	TCGA-BH-A0DS-10A-01W-A071-09	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	12	54925050	54925050	G	A	SNP	NCKAP1L	NM_005337	human	genbank	57_37b	+1	reviewed	missense	c.2513	p.R838Q	1.000	HMMPfam_Nckap1	HMMPfam_Nckap1	-	no_errors
OVCH2	341277	genome.wustl.edu	37	11	7727886	7727886	+	Missense_Mutation	SNP	C	C	T	rs7927138	byCluster;byFrequency;by2Hit2Allele;by1000genomes	TCGA-BH-A0DS-01A-11W-A071-09	TCGA-BH-A0DS-10A-01W-A071-09	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	11	7727886	7727886	C	T	SNP	OVCH2	NM_198185	human	genbank	57_37b	-1	validated	missense	c.56	p.R19Q	0.003	NULL	superfamily_Trypsin-like serine proteases,HMMSmart_SM00020,HMMPfam_Trypsin,PatternScan_TRYPSIN_HIS,PatternScan_TRYPSIN_SER,superfamily_Spermadhesin CUB domain,HMMSmart_SM00042,HMMPfam_CUB	-	
OXER1	165140	genome.wustl.edu	37	2	42990336	42990336	+	Silent	SNP	T	T	G	rs1992286	byCluster;byFrequency;bySubmitter;by2Hit2Allele;by1000genomes	TCGA-BH-A0DS-01A-11W-A071-09	TCGA-BH-A0DS-10A-01W-A071-09	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	2	42990336	42990336	T	G	SNP	OXER1	NM_148962	human	genbank	57_37b	-1	validated	silent	c.984	p.R328	0.000	superfamily_SSF81321,HMMPfam_7tm_1	superfamily_SSF81321,HMMPfam_7tm_1,PatternScan_G_PROTEIN_RECEP_F1_1	-	
OXTR	5021	genome.wustl.edu	37	3	8809184	8809184	+	Silent	SNP	G	G	A	rs237902	byCluster;byFrequency;by1000genomes	TCGA-BH-A0DS-01A-11W-A071-09	TCGA-BH-A0DS-10A-01W-A071-09	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	3	8809184	8809184	G	A	SNP	OXTR	NM_000916	human	genbank	57_37b	-1	reviewed	silent	c.690	p.N230	0.096	superfamily_Family A G protein-coupled receptor-like,HMMPfam_7tm_1	superfamily_Family A G protein-coupled receptor-like,HMMPfam_7tm_1,PatternScan_G_PROTEIN_RECEP_F1_1	-	
PIK3C2B	5287	genome.wustl.edu	37	1	204394861	204394861	+	Silent	SNP	G	G	A	novel	unknown	TCGA-BH-A0DS-01A-11W-A071-09	TCGA-BH-A0DS-10A-01W-A071-09	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	1	204394861	204394861	G	A	SNP	PIK3C2B	NM_002646	human	genbank	57_37b	-1	reviewed	silent	c.4596	p.L1532	0.998	superfamily_C2 domain (Calcium/lipid-binding domain CaLB),HMMSmart_SM00239,HMMPfam_C2	superfamily_Ubiquitin-like,HMMPfam_PI3K_rbd,HMMSmart_SM00144,HMMSmart_SM00142,superfamily_C2 domain (Calcium/lipid-binding domain CaLB),HMMPfam_PI3K_C2,superfamily_ARM repeat,HMMSmart_SM00145,HMMPfam_PI3Ka,superfamily_Protein kinase-like (PK-like),HMMPfam_PI3_PI4_kinase,HMMSmart_SM00146,PatternScan_PI3_4_KINASE_1,PatternScan_PI3_4_KINASE_2,superfamily_PX domain,HMMPfam_PX,HMMSmart_SM00312,HMMSmart_SM00239,HMMPfam_C2	-	no_errors
PITRM1	10531	genome.wustl.edu	37	10	3208485	3208485	+	Silent	SNP	C	C	T	novel	unknown	TCGA-BH-A0DS-01A-11W-A071-09	TCGA-BH-A0DS-10A-01W-A071-09	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	10	3208485	3208485	C	T	SNP	PITRM1	NM_014889	human	genbank	57_37b	-1	validated	silent	c.354	p.P118	0.001	superfamily_LuxS/MPP-like metallohydrolase	superfamily_LuxS/MPP-like metallohydrolase,HMMPfam_Peptidase_M16_C,HMMPfam_M16C_assoc	-	no_errors
PPFIA4	8497	genome.wustl.edu	37	1	203008286	203008286	+	Silent	SNP	C	C	G	rs10920553	byCluster;byFrequency;by2Hit2Allele;byHapMap;by1000genomes	TCGA-BH-A0DS-01A-11W-A071-09	TCGA-BH-A0DS-10A-01W-A071-09	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	1	203008286	203008286	C	G	SNP	PPFIA4	ENST00000367238	human	ensembl	57_37b	+1	known	silent	c.150	p.T50	0.984	NULL	superfamily_SAM_homology,HMMSmart_SAM,HMMPfam_SAM_1,HMMPfam_SAM_2	-	
PTCH1	5727	genome.wustl.edu	37	9	98218641	98218641	+	Missense_Mutation	SNP	C	C	T	novel	unknown	TCGA-BH-A0DS-01A-11W-A071-09	TCGA-BH-A0DS-10A-01W-A071-09	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	9	98218641	98218641	C	T	SNP	PTCH1	NM_000264	human	genbank	57_37b	-1	reviewed	missense	c.3223	p.G1075R	1.000	HMMPfam_Patched,superfamily_SSF82866	HMMPfam_Patched,superfamily_SSF82866	-	no_errors
PYCRL	65263	genome.wustl.edu	37	8	144689146	144689146	+	Missense_Mutation	SNP	C	C	T	rs2242089	byCluster;byFrequency;by1000genomes	TCGA-BH-A0DS-01A-11W-A071-09	TCGA-BH-A0DS-10A-01W-A071-09	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	8	144689146	144689146	C	T	SNP	PYCRL	NM_023078	human	genbank	57_37b	-1	validated	missense	c.349	p.V117M	0.711	superfamily_NAD(P)-binding Rossmann-fold domains,HMMPfam_F420_oxidored	superfamily_NAD(P)-binding Rossmann-fold domains,HMMPfam_F420_oxidored,PatternScan_P5CR	-	
RAB3C	115827	genome.wustl.edu	37	5	58120940	58120940	+	Silent	SNP	C	C	T	novel	unknown	TCGA-BH-A0DS-01A-11W-A071-09	TCGA-BH-A0DS-10A-01W-A071-09	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	5	58120940	58120940	C	T	SNP	RAB3C	NM_138453	human	genbank	57_37b	+1	provisional	silent	c.447	p.D149	0.789	superfamily_SSF52540,HMMSmart_RAB,HMMPfam_Ras	superfamily_SSF52540,HMMSmart_RAB,HMMPfam_Ras	-	no_errors
RIMS2	9699	genome.wustl.edu	37	8	104933950	104933950	+	Missense_Mutation	SNP	A	A	G	novel	unknown	TCGA-BH-A0DS-01A-11W-A071-09	TCGA-BH-A0DS-10A-01W-A071-09	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	8	104933950	104933950	A	G	SNP	RIMS2	NM_001100117	human	genbank	57_37b	+1	validated	missense	c.2134	p.T712A	1.000	NULL	HMMPfam_RPH3A_effector,superfamily_FYVE/PHD zinc finger,superfamily_PDZ domain-like,HMMSmart_SM00228,superfamily_C2 domain (Calcium/lipid-binding domain CaLB),HMMSmart_SM00239,HMMPfam_C2	-	no_errors
SH2B3	10019	genome.wustl.edu	37	12	111885304	111885304	+	Missense_Mutation	SNP	C	C	T	novel	unknown	TCGA-BH-A0DS-01A-11W-A071-09	TCGA-BH-A0DS-10A-01W-A071-09	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	12	111885304	111885304	C	T	SNP	SH2B3	NM_005475	human	genbank	57_37b	+1	validated	missense	c.1192	p.R398C	0.984	superfamily_SH2 domain,HMMSmart_SM00252,HMMPfam_SH2	HMMPfam_Phe_ZIP,superfamily_Phenylalanine zipper,superfamily_PH domain-like,HMMPfam_PH,HMMSmart_SM00233,superfamily_SH2 domain,HMMSmart_SM00252,HMMPfam_SH2	-	no_errors
SIRPA	140885	genome.wustl.edu	37	20	1902268	1902268	+	Missense_Mutation	SNP	G	G	A	novel	unknown	TCGA-BH-A0DS-01A-11W-A071-09	TCGA-BH-A0DS-10A-01W-A071-09	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	20	1902268	1902268	G	A	SNP	SIRPA	NM_001040022	human	genbank	57_37b	+1	reviewed	missense	c.664	p.V222I	0.063	superfamily_SSF48726,HMMPfam_C1-set,HMMSmart_IGc1	HMMPfam_V-set,superfamily_SSF48726,HMMSmart_IG,HMMPfam_C1-set,HMMSmart_IGc1	-	no_errors
SLC43A2	124935	genome.wustl.edu	37	17	1494567	1494567	+	Silent	SNP	G	G	A	rs63598260	byCluster;by1000genomes	TCGA-BH-A0DS-01A-11W-A071-09	TCGA-BH-A0DS-10A-01W-A071-09	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	17	1494567	1494567	G	A	SNP	SLC43A2	NM_152346	human	genbank	57_37b	-1	provisional	silent	c.927	p.A309	0.000	superfamily_MFS general substrate transporter,HMMPfam_MFS_1	superfamily_MFS general substrate transporter,HMMPfam_MFS_1	-	
SMCHD1	23347	genome.wustl.edu	37	18	2722567	2722567	+	Missense_Mutation	SNP	G	G	T	novel	unknown	TCGA-BH-A0DS-01A-11W-A071-09	TCGA-BH-A0DS-10A-01W-A071-09	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	18	2722567	2722567	G	T	SNP	SMCHD1	NM_015295	human	genbank	57_37b	+1	validated	missense	c.2509	p.V837F	1.000	NULL	superfamily_ATPase domain of HSP90 chaperone/DNA topoisomerase II/histidine kinase,HMMPfam_HATPase_c,superfamily_Smc hinge domain,HMMPfam_SMC_hinge	-	no_errors
SNORD115-29	0	genome.wustl.edu	37	15	25468428	25468428	+	RNA	SNP	G	G	A	novel	unknown	TCGA-BH-A0DS-01A-11W-A071-09	TCGA-BH-A0DS-10A-01W-A071-09	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	15	25468428	25468428	G	A	SNP	SNORD115-29	NR_003344	human	genbank	57_37b	+1	provisional	rna	NULL	NULL	0.428	-	-	-	no_errors
SNORD115-30	0	genome.wustl.edu	37	15	25470422	25470422	+	RNA	SNP	G	G	A	rs72546393	unknown	TCGA-BH-A0DS-01A-11W-A071-09	TCGA-BH-A0DS-10A-01W-A071-09	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	15	25470422	25470422	G	A	SNP	SNORD115-30	NR_003345	human	genbank	57_37b	+1	provisional	rna	NULL	NULL	0.994	-	-	-	
STAU2	27067	genome.wustl.edu	37	8	74585370	74585370	+	Frame_Shift_Del	DEL	A	A	-	novel	unknown	TCGA-BH-A0DS-01A-11W-A071-09	TCGA-BH-A0DS-10A-01W-A071-09	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	8	74585370	74585370	A	-	DEL	STAU2	NM_014393	human	genbank	57_37b	-1	reviewed	frame_shift_del	c.286	p.Y96fs	1.000	superfamily_dsRNA-binding domain-like,HMMSmart_SM00358,HMMPfam_dsrm	superfamily_dsRNA-binding domain-like,HMMSmart_SM00358,HMMPfam_dsrm	(deletion:cds_exon[74585342,74585477])	no_errors
TRIM56	81844	genome.wustl.edu	37	7	100731638	100731638	+	Missense_Mutation	SNP	C	T	T	rs77167460	byCluster;byFrequency;by1000genomes	TCGA-BH-A0DS-01A-11W-A071-09	TCGA-BH-A0DS-10A-01W-A071-09	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	7	100731638	100731638	C	T	SNP	TRIM56	NM_030961	human	genbank	57_37b	+1	provisional	missense	c.1045	p.L349F	0.565	NULL	superfamily_RING/U-box,HMMSmart_SM00184,HMMPfam_zf-C3HC4,PatternScan_ZF_RING_1,HMMPfam_zf-B_box,HMMSmart_SM00336,superfamily_NHL repeat	-	
TRPM8	79054	genome.wustl.edu	37	2	234878392	234878392	+	Nonsense_Mutation	SNP	G	G	A	novel	unknown	TCGA-BH-A0DS-01A-11W-A071-09	TCGA-BH-A0DS-10A-01W-A071-09	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	2	234878392	234878392	G	A	SNP	TRPM8	NM_024080	human	genbank	57_37b	+1	validated	nonsense	c.2079	p.W693*	1.000	NULL	HMMPfam_Ion_trans	-	no_errors
TTLL5	254173	genome.wustl.edu	37	14	76232419	76232419	+	Missense_Mutation	SNP	G	G	A	novel	unknown	TCGA-BH-A0DS-01A-11W-A071-09	TCGA-BH-A0DS-10A-01W-A071-09	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	14	76232419	76232419	G	A	SNP	TTLL5	NM_015072	human	genbank	57_37b	+1	reviewed	missense	c.1723	p.A575T	1.000	NULL	HMMPfam_TTL,superfamily_Glutathione synthetase ATP-binding domain-like	-	no_errors
ZNF44	51710	genome.wustl.edu	37	19	12385848	12385848	+	Missense_Mutation	SNP	C	C	G	rs11882046	byCluster;byFrequency;byHapMap	TCGA-BH-A0DS-01A-11W-A071-09	TCGA-BH-A0DS-10A-01W-A071-09	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	19	12385848	12385848	C	G	SNP	ZNF44	NM_016264	human	genbank	57_37b	-1	validated	missense	c.131	p.G44A	0.055	superfamily_KRAB domain (Kruppel-associated box Pfam 01352),HMMPfam_KRAB,HMMSmart_SM00349	superfamily_KRAB domain (Kruppel-associated box Pfam 01352),HMMPfam_KRAB,HMMSmart_SM00349,superfamily_C2H2 and C2HC zinc fingers,HMMPfam_zf-C2H2,HMMSmart_SM00355,PatternScan_ZINC_FINGER_C2H2_1	-	
ZNF644	84146	genome.wustl.edu	37	1	91405737	91405737	+	Nonsense_Mutation	SNP	C	C	A	novel	unknown	TCGA-BH-A0DS-01A-11W-A071-09	TCGA-BH-A0DS-10A-01W-A071-09	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	1	91405737	91405737	C	A	SNP	ZNF644	NM_201269	human	genbank	57_37b	-1	validated	nonsense	c.1174	p.E392*	1.000	NULL	superfamily_C2H2 and C2HC zinc fingers,HMMPfam_zf-C2H2,HMMSmart_SM00355,PatternScan_ZINC_FINGER_C2H2_1	-	no_errors
