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
CA9	768	genome.wustl.edu	37	9	35674290	35674290	+	Missense_Mutation	SNP	G	G	T	novel	unknown	TCGA-A2-A04X-01A-21W-A050-09	TCGA-A2-A04X-10A-01W-A055-09	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	9	35674290	35674290	G	T	SNP	CA9	NM_001216	human	genbank	57_37b	+1	reviewed	missense	c.334	p.D112Y	1.000	NULL	superfamily_Euk_COanhd,HMMPfam_Carb_anhydrase,PatternScan_ALPHA_CA_1	-	no_errors
CHD5	26038	genome.wustl.edu	37	1	6202245	6202245	+	Silent	SNP	G	G	A	rs2273032	byCluster;byFrequency;bySubmitter;by2Hit2Allele;byHapMap;by1000genomes	TCGA-A2-A04X-01A-21W-A050-09	TCGA-A2-A04X-10A-01W-A055-09	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	1	6202245	6202245	G	A	SNP	CHD5	NM_015557	human	genbank	57_37b	-1	provisional	silent	c.2379	p.N793	0.932	superfamily_SSF52540,HMMSmart_DEXDc,HMMPfam_SNF2_N	PatternScan_CHROMO_1,HMMPfam_CHDNT,superfamily_FYVE_PHD_ZnF,HMMSmart_PHD,HMMPfam_PHD,HMMSmart_RING,superfamily_Chromodomain-like,HMMSmart_CHROMO,superfamily_SSF52540,HMMPfam_Chromo,HMMSmart_DEXDc,HMMPfam_SNF2_N,PatternScan_DEAH_ATP_HELICASE,HMMSmart_HELICc,HMMPfam_Helicase_C,HMMPfam_DUF1087,HMMPfam_DUF1086,HMMPfam_CHDCT2	-	
CLIC5	53405	genome.wustl.edu	37	6	46047880	46047880	+	Missense_Mutation	SNP	C	C	T	novel	unknown	TCGA-A2-A04X-01A-21W-A050-09	TCGA-A2-A04X-10A-01W-A055-09	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	6	46047880	46047880	C	T	SNP	CLIC5	NM_001114086	human	genbank	57_37b	-1	validated	missense	c.100	p.D34N	0.023	NULL	superfamily_Thioredoxin-like,superfamily_Glutathione S-transferase (GST) C-terminal domain	-	no_errors
COL1A2	1278	genome.wustl.edu	37	7	94043006	94043006	+	Missense_Mutation	SNP	C	C	T	novel	unknown	TCGA-A2-A04X-01A-21W-A050-09	TCGA-A2-A04X-10A-01W-A055-09	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	7	94043006	94043006	C	T	SNP	COL1A2	NM_000089	human	genbank	57_37b	+1	reviewed	missense	c.1562	p.A521V	1.000	HMMPfam_Collagen	HMMPfam_Collagen,HMMSmart_SM00038,HMMPfam_COLFI	-	no_errors
CYSLTR2	57105	genome.wustl.edu	37	13	49281015	49281015	+	Missense_Mutation	SNP	G	G	A	novel	unknown	TCGA-A2-A04X-01A-21W-A050-09	TCGA-A2-A04X-10A-01W-A055-09	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	13	49281015	49281015	G	A	SNP	CYSLTR2	NM_020377	human	genbank	57_37b	+1	reviewed	missense	c.62	p.G21D	0.000	superfamily_Family A G protein-coupled receptor-like	superfamily_Family A G protein-coupled receptor-like,HMMPfam_7tm_1	-	no_errors
DNAH17	8632	genome.wustl.edu	37	17	76556902	76556902	+	Missense_Mutation	SNP	C	C	A	novel	unknown	TCGA-A2-A04X-01A-21W-A050-09	TCGA-A2-A04X-10A-01W-A055-09	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	17	76556902	76556902	C	A	SNP	DNAH17	ENST00000389840	human	ensembl	57_37b	-1	known	missense	c.1951	p.D651Y	1.000	HMMPfam_DHC_N1	HMMPfam_DHC_N1,superfamily_Spectrin repeat,HMMPfam_DHC_N2,superfamily_P-loop containing nucleoside triphosphate hydrolases,PatternScan_THIOL_PROTEASE_HIS,HMMPfam_AAA_5,PatternScan_WD_REPEATS_1,HMMPfam_Dynein_heavy	-	no_errors
DNAH3	55567	genome.wustl.edu	37	16	20974834	20974834	+	Missense_Mutation	SNP	C	C	T	novel	unknown	TCGA-A2-A04X-01A-21W-A050-09	TCGA-A2-A04X-10A-01W-A055-09	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	16	20974834	20974834	C	T	SNP	DNAH3	NM_017539	human	genbank	57_37b	-1	provisional	missense	c.10372	p.E3458K	0.166	HMMPfam_Dynein_heavy	HMMPfam_DHC_N2,superfamily_P-loop containing nucleoside triphosphate hydrolases,HMMSmart_SM00382,HMMPfam_AAA_5,superfamily_Prefoldin,HMMPfam_Dynein_heavy	-	no_errors
EEA1	8411	genome.wustl.edu	37	12	93226389	93226389	+	Missense_Mutation	SNP	C	C	G	novel	unknown	TCGA-A2-A04X-01A-21W-A050-09	TCGA-A2-A04X-10A-01W-A055-09	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	12	93226389	93226389	C	G	SNP	EEA1	NM_003566	human	genbank	57_37b	-1	validated	missense	c.1153	p.E385Q	1.000	NULL	HMMSmart_ZnF_C2H2,PatternScan_ZINC_FINGER_C2H2_1,superfamily_FYVE_PHD_ZnF,HMMSmart_FYVE,HMMPfam_FYVE	-	no_errors
ENSG00000166787	0	genome.wustl.edu	37	11	18134192	18134192	+	Missense_Mutation	SNP	C	C	T	rs61882533	byCluster;by1000genomes	TCGA-A2-A04X-01A-21W-A050-09	TCGA-A2-A04X-10A-01W-A055-09	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	11	18134192	18134192	C	T	SNP	ENSG00000166787	ENST00000278207	human	ensembl	57_37b	-1	known	missense	c.338	p.R113Q	0.997	HMMPfam_SAA,HMMSmart_SM00197	HMMPfam_SAA,HMMSmart_SM00197	-	
ENSG00000213777	0	genome.wustl.edu	37	19	54007145	54007145	+	Missense_Mutation	SNP	G	G	A	rs72487103	by1000genomes	TCGA-A2-A04X-01A-21W-A050-09	TCGA-A2-A04X-10A-01W-A055-09	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	19	54007145	54007145	G	A	SNP	ENSG00000213777	ENST00000396322	human	ensembl	57_37b	+1	known	missense	c.251	p.C84Y	0.018	NULL	NULL	-	
ENSG00000231360	0	genome.wustl.edu	37	1	29843392	29843392	+	Silent	SNP	T	T	C	rs4995377	byCluster;byFrequency;by2Hit2Allele;by1000genomes	TCGA-A2-A04X-01A-21W-A050-09	TCGA-A2-A04X-10A-01W-A055-09	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	1	29843392	29843392	T	C	SNP	ENSG00000231360	ENST00000455342	human	ensembl	57_37b	-1	known	silent	c.483	p.E161	0.000	NULL	NULL	-	
ENSG00000236699	0	genome.wustl.edu	37	4	106580340	106580340	+	Missense_Mutation	SNP	A	A	G	rs13147012	byCluster;byFrequency;by1000genomes	TCGA-A2-A04X-01A-21W-A050-09	TCGA-A2-A04X-10A-01W-A055-09	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	4	106580340	106580340	A	G	SNP	ENSG00000236699	ENST00000420470	human	ensembl	57_37b	+1	known	missense	c.763	p.T255A	0.001	HMMSmart_SM00721,HMMPfam_BAR	superfamily_DBL homology domain (DH-domain),HMMPfam_RhoGEF,HMMSmart_SM00721,HMMPfam_BAR,superfamily_SH3-domain,HMMSmart_SM00326,HMMPfam_SH3_2,HMMPfam_SH3_1	-	
ENSG00000245472	0	genome.wustl.edu	37	19	53207634	53207634	+	RNA	SNP	G	G	A	novel	unknown	TCGA-A2-A04X-01A-21W-A050-09	TCGA-A2-A04X-10A-01W-A055-09	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	19	53207634	53207634	G	A	SNP	ENSG00000245472	ENST00000500065	human	ensembl	57_37b	+1	known	rna	NULL	NULL	0.000	-	-	-	no_errors
EPPK1	83481	genome.wustl.edu	37	8	144940540	144940540	+	Silent	SNP	G	G	A	rs56034452	byCluster	TCGA-A2-A04X-01A-21W-A050-09	TCGA-A2-A04X-10A-01W-A055-09	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	8	144940540	144940540	G	A	SNP	EPPK1	NM_031308	human	genbank	57_37b	-1	validated	silent	c.6882	p.G2294	0.998	superfamily_Plakin repeat,HMMSmart_SM00250,HMMPfam_Plectin	HMMSmart_SM00250,superfamily_Plakin repeat,HMMPfam_Plectin	-	
FANCM	57697	genome.wustl.edu	37	14	45658083	45658085	+	In_Frame_Del	DEL	GAA	GAA	-	novel	unknown	TCGA-A2-A04X-01A-21W-A050-09	TCGA-A2-A04X-10A-01W-A055-09	GAA	GAA					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	14	45658083	45658085	GAA	-	DEL	FANCM	NM_020937	human	genbank	57_37b	+1	reviewed	in_frame_del	c.4858_4860	p.E1622in_frame_del	1.000:0.998:0.996	NULL	superfamily_P-loop containing nucleoside triphosphate hydrolases,HMMSmart_SM00487,HMMPfam_DEAD,HMMSmart_SM00490,HMMPfam_Helicase_C,superfamily_Restriction endonuclease-like,HMMPfam_ERCC4,superfamily_RuvA domain 2-like	(deletion:cds_exon[45658005,45658565])	no_errors
FBXO11	80204	genome.wustl.edu	37	2	48047527	48047527	+	Missense_Mutation	SNP	C	C	T	novel	unknown	TCGA-A2-A04X-01A-21W-A050-09	TCGA-A2-A04X-10A-01W-A055-09	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	2	48047527	48047527	C	T	SNP	FBXO11	NM_025133	human	genbank	57_37b	-1	reviewed	missense	c.1519	p.D507N	1.000	superfamily_SSF81383,superfamily_Pectin_lyas_like,HMMSmart_CASH,HMMSmart_PbH1	HMMPfam_F-box,HMMSmart_FBOX,superfamily_SSF81383,superfamily_Pectin_lyas_like,HMMSmart_PbH1,HMMSmart_CASH,HMMPfam_zf-UBR	-	no_errors
GSTA5	221357	genome.wustl.edu	37	6	52701123	52701123	+	Silent	SNP	G	G	A	novel	unknown	TCGA-A2-A04X-01A-21W-A050-09	TCGA-A2-A04X-10A-01W-A055-09	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	6	52701123	52701123	G	A	SNP	GSTA5	NM_153699	human	genbank	57_37b	-1	provisional	silent	c.183	p.D61	1.000	superfamily_Thiordxn-like_fd,HMMPfam_GST_N	superfamily_Thiordxn-like_fd,HMMPfam_GST_N,superfamily_GST_C_like,HMMPfam_GST_C	-	no_errors
GTPBP3	84705	genome.wustl.edu	37	19	17448438	17448438	+	Missense_Mutation	SNP	G	G	C	novel	unknown	TCGA-A2-A04X-01A-21W-A050-09	TCGA-A2-A04X-10A-01W-A055-09	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	19	17448438	17448438	G	C	SNP	GTPBP3	NM_133644	human	genbank	57_37b	+1	validated	missense	c.18	p.W6C	0.785	NULL	HMMPfam_TrmE_N,superfamily_SSF52540,HMMPfam_MMR_HSR1	-	no_errors
HLA-C	3107	genome.wustl.edu	37	6	31236900	31236900	+	Silent	SNP	G	G	A	rs114477682	by1000genomes	TCGA-A2-A04X-01A-21W-A050-09	TCGA-A2-A04X-10A-01W-A055-09	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	6	31236900	31236900	G	A	SNP	HLA-C	ENST00000396254	human	ensembl	57_37b	-1	known	silent	c.1143	p.L381	0.001	NULL	HMMPfam_MHC_I,superfamily_MHC_I/II-like_Ag-recog,superfamily_SSF48726,HMMPfam_C1-set,HMMSmart_IGc1	-	
HLA-DQB1	3119	genome.wustl.edu	37	6	32634318	32634318	+	Missense_Mutation	SNP	C	C	A	rs3891176	byCluster;byFrequency;by1000genomes	TCGA-A2-A04X-01A-21W-A050-09	TCGA-A2-A04X-10A-01W-A055-09	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	6	32634318	32634318	C	A	SNP	HLA-DQB1	NM_002123	human	genbank	57_37b	-1	reviewed	missense	c.67	p.A23S	0.043	superfamily_MHC antigen-recognition domain	superfamily_MHC antigen-recognition domain,HMMPfam_MHC_II_beta,superfamily_Immunoglobulin,HMMPfam_C1-set,HMMSmart_SM00407,PatternScan_IG_MHC	-	
HLA-DQB1	3119	genome.wustl.edu	37	6	32634341	32634341	+	Missense_Mutation	SNP	A	A	G	rs3189152	byCluster;byFrequency;by1000genomes	TCGA-A2-A04X-01A-21W-A050-09	TCGA-A2-A04X-10A-01W-A055-09	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	6	32634341	32634341	A	G	SNP	HLA-DQB1	NM_002123	human	genbank	57_37b	-1	reviewed	missense	c.44	p.V15A	0.000	superfamily_MHC antigen-recognition domain	HMMPfam_MHC_II_beta,PatternScan_IG_MHC,HMMPfam_C1-set,HMMSmart_SM00407,superfamily_MHC antigen-recognition domain,superfamily_Immunoglobulin	-	
HLA-DRB1	3123	genome.wustl.edu	37	6	32549452	32549452	+	Missense_Mutation	SNP	C	C	G	rs113627837	unknown	TCGA-A2-A04X-01A-21W-A050-09	TCGA-A2-A04X-10A-01W-A055-09	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	6	32549452	32549452	C	G	SNP	HLA-DRB1	NM_002124	human	genbank	57_37b	-1	reviewed	missense	c.534	p.Q178H	0.016	superfamily_SSF48726,HMMPfam_C1-set,HMMSmart_IGc1	superfamily_MHC_I/II-like_Ag-recog,HMMPfam_MHC_II_beta,superfamily_SSF48726,HMMPfam_C1-set,HMMSmart_IGc1,PatternScan_IG_MHC	-	
HLA-DRB6	3128	genome.wustl.edu	37	6	32522535	32522535	+	RNA	SNP	C	C	T	rs115816856	by1000genomes	TCGA-A2-A04X-01A-21W-A050-09	TCGA-A2-A04X-10A-01W-A055-09	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	6	32522535	32522535	C	T	SNP	HLA-DRB6	NR_001298	human	genbank	57_37b	-1	provisional	rna	NULL	NULL	0.975	-	-	-	
HTR7P	93164	genome.wustl.edu	37	12	13155339	13155339	+	RNA	SNP	C	C	A	rs41412550	byCluster;byFrequency	TCGA-A2-A04X-01A-21W-A050-09	TCGA-A2-A04X-10A-01W-A055-09	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	12	13155339	13155339	C	A	SNP	HTR7P	NR_002774	human	genbank	57_37b	+1	validated	rna	NULL	NULL	0.918	-	-	-	
IL10RB	3588	genome.wustl.edu	37	21	34652113	34652113	+	Missense_Mutation	SNP	C	C	T	novel	unknown	TCGA-A2-A04X-01A-21W-A050-09	TCGA-A2-A04X-10A-01W-A055-09	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	21	34652113	34652113	C	T	SNP	IL10RB	NM_000628	human	genbank	57_37b	+1	reviewed	missense	c.388	p.R130C	0.015	HMMSmart_FN3,superfamily_FN_III-like	HMMSmart_FN3,superfamily_FN_III-like	-	no_errors
IPO4	79711	genome.wustl.edu	37	14	24656970	24656970	+	Missense_Mutation	SNP	G	G	A	novel	unknown	TCGA-A2-A04X-01A-21W-A050-09	TCGA-A2-A04X-10A-01W-A055-09	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	14	24656970	24656970	G	A	SNP	IPO4	NM_024658	human	genbank	57_37b	-1	validated	missense	c.311	p.S104L	0.889	superfamily_ARM repeat	superfamily_ARM repeat,HMMPfam_IBN_N,HMMPfam_HEAT,PatternScan_PA2_HIS	-	no_errors
ITGB1	3688	genome.wustl.edu	37	10	33217185	33217185	+	Silent	SNP	T	T	C	novel	unknown	TCGA-A2-A04X-01A-21W-A050-09	TCGA-A2-A04X-10A-01W-A055-09	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	10	33217185	33217185	T	C	SNP	ITGB1	NM_033667	human	genbank	57_37b	-1	reviewed	silent	c.384	p.P128	0.215	HMMPfam_Integrin_beta,HMMSmart_INB	HMMSmart_PSI,HMMPfam_Integrin_beta,HMMSmart_INB,superfamily_SSF53300,HMMSmart_VWA,superfamily_SSF69179,PatternScan_EGF_1,HMMPfam_EGF_2,PatternScan_INTEGRIN_BETA,superfamily_SSF57196,superfamily_Integrin_bsu_tail,HMMPfam_Integrin_B_tail,HMMPfam_Integrin_b_cyt	-	no_errors
LOC100287385	0	genome.wustl.edu	37	16	3191255	3191255	+	Missense_Mutation	SNP	C	C	T	novel	unknown	TCGA-A2-A04X-01A-21W-A050-09	TCGA-A2-A04X-10A-01W-A055-09	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	16	3191255	3191255	C	T	SNP	LOC100287385	XM_002343446	human	genbank	57_37b	-1	model	missense	c.175	p.E59K	0.314	NULL	NULL	-	no_errors
LOC340268	340268	genome.wustl.edu	37	7	9766263	9766263	+	RNA	SNP	C	C	T	novel	unknown	TCGA-A2-A04X-01A-21W-A050-09	TCGA-A2-A04X-10A-01W-A055-09	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	7	9766263	9766263	C	T	SNP	LOC340268	XR_041608	human	genbank	57_37b	+1	model	rna	NULL	NULL	1.000	-	-	-	no_errors
LOC642635	642635	genome.wustl.edu	37	2	154277393	154277393	+	RNA	SNP	C	C	T	rs13422752	byCluster;byFrequency;by1000genomes	TCGA-A2-A04X-01A-21W-A050-09	TCGA-A2-A04X-10A-01W-A055-09	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	2	154277393	154277393	C	T	SNP	LOC642635	XR_016188	human	genbank	57_37b	-1	model	rna	NULL	NULL	1.000	-	-	-	
LOC646214	646214	genome.wustl.edu	37	15	21940713	21940713	+	RNA	SNP	T	T	C	rs8031957	byCluster;by2Hit2Allele;byHapMap;by1000genomes	TCGA-A2-A04X-01A-21W-A050-09	TCGA-A2-A04X-10A-01W-A055-09	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	15	21940713	21940713	T	C	SNP	LOC646214	NR_027053	human	genbank	57_37b	-1	validated	rna	NULL	NULL	0.004	-	-	-	
LRP2	4036	genome.wustl.edu	37	2	170060630	170060630	+	Missense_Mutation	SNP	C	C	G	novel	unknown	TCGA-A2-A04X-01A-21W-A050-09	TCGA-A2-A04X-10A-01W-A055-09	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	2	170060630	170060630	C	G	SNP	LRP2	NM_004525	human	genbank	57_37b	-1	reviewed	missense	c.7867	p.G2623R	1.000	superfamily_SSF63825,HMMSmart_LY,HMMPfam_Ldl_recept_b	superfamily_LDL_rcpt_classA_cys-rich,HMMPfam_Ldl_recept_a,HMMSmart_LDLa,PatternScan_LDLRA_1,HMMSmart_EGF,superfamily_Grow_fac_recept,PatternScan_EGF_2,superfamily_SSF63825,HMMSmart_LY,HMMPfam_Ldl_recept_b,superfamily_SSF57196,HMMPfam_EGF,PatternScan_EGF_CA,HMMPfam_EGF_CA,HMMSmart_EGF_CA,PatternScan_ASX_HYDROXYL,PatternScan_EGF_1	-	no_errors
LRRC16A	55604	genome.wustl.edu	37	6	25600890	25600890	+	Silent	SNP	G	G	A	novel	unknown	TCGA-A2-A04X-01A-21W-A050-09	TCGA-A2-A04X-10A-01W-A055-09	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	6	25600890	25600890	G	A	SNP	LRRC16A	NM_017640	human	genbank	57_37b	+1	validated	silent	c.3468	p.R1156	0.853	NULL	superfamily_SSF52047	-	no_errors
MGAM	8972	genome.wustl.edu	37	7	141780655	141780655	+	Missense_Mutation	SNP	C	C	T	novel	unknown	TCGA-A2-A04X-01A-21W-A050-09	TCGA-A2-A04X-10A-01W-A055-09	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	7	141780655	141780655	C	T	SNP	MGAM	ENST00000475668	human	ensembl	57_37b	+1	known	missense	c.5915	p.S1972F	0.012	NULL	superfamily_Trefoil,HMMSmart_SM00018,HMMPfam_Trefoil,PatternScan_P_TREFOIL,HMMPfam_Glyco_hydro_31,superfamily_(Trans)glycosidases,PatternScan_GLYCOSYL_HYDROL_F31_1,PatternScan_GLYCOSYL_HYDROL_F31_2	-	no_errors
NNT	23530	genome.wustl.edu	37	5	43704416	43704416	+	Missense_Mutation	SNP	C	C	G	novel	unknown	TCGA-A2-A04X-01A-21W-A050-09	TCGA-A2-A04X-10A-01W-A055-09	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	5	43704416	43704416	C	G	SNP	NNT	NM_012343	human	genbank	57_37b	+1	reviewed	missense	c.3171	p.F1057L	1.000	HMMPfam_PNTB,superfamily_SSF52467	superfamily_SSF52283,PatternScan_ALADH_PNT_1,HMMPfam_AlaDh_PNT_N,superfamily_NAD(P)-bd,HMMPfam_AlaDh_PNT_C,PatternScan_ALADH_PNT_2,HMMPfam_PNTB,superfamily_SSF52467	-	no_errors
OGN	4969	genome.wustl.edu	37	9	95147960	95147960	+	Missense_Mutation	SNP	C	C	G	novel	unknown	TCGA-A2-A04X-01A-21W-A050-09	TCGA-A2-A04X-10A-01W-A055-09	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	9	95147960	95147960	C	G	SNP	OGN	NM_014057	human	genbank	57_37b	-1	reviewed	missense	c.839	p.G280A	1.000	superfamily_L domain-like	superfamily_L domain-like,HMMSmart_SM00369,HMMPfam_LRR_1	-	no_errors
PDZRN3	23024	genome.wustl.edu	37	3	73433778	73433778	+	Missense_Mutation	SNP	G	G	A	novel	unknown	TCGA-A2-A04X-01A-21W-A050-09	TCGA-A2-A04X-10A-01W-A055-09	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	3	73433778	73433778	G	A	SNP	PDZRN3	NM_015009	human	genbank	57_37b	-1	provisional	missense	c.1939	p.R647C	1.000	NULL	superfamily_RING/U-box,HMMPfam_zf-C3HC4,HMMSmart_SM00184,PatternScan_ZF_RING_1,superfamily_TRAF domain-like,superfamily_PDZ domain-like,HMMPfam_PDZ,HMMSmart_SM00228	-	no_errors
POLR2J4	84820	genome.wustl.edu	37	7	43981034	43981034	+	RNA	SNP	A	A	C	rs2527811	byCluster;byFrequency;by2Hit2Allele;byHapMap;by1000genomes	TCGA-A2-A04X-01A-21W-A050-09	TCGA-A2-A04X-10A-01W-A055-09	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	7	43981034	43981034	A	C	SNP	POLR2J4	NR_003655	human	genbank	57_37b	-1	provisional	rna	NULL	NULL	0.004	-	-	-	
PTK7	5754	genome.wustl.edu	37	6	43099859	43099859	+	Silent	SNP	G	G	A	novel	unknown	TCGA-A2-A04X-01A-21W-A050-09	TCGA-A2-A04X-10A-01W-A055-09	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	6	43099859	43099859	G	A	SNP	PTK7	NM_002821	human	genbank	57_37b	+1	reviewed	silent	c.918	p.Q306	0.998	superfamily_Immunoglobulin,HMMSmart_SM00409,HMMSmart_SM00408	superfamily_Immunoglobulin,HMMSmart_SM00409,HMMSmart_SM00408,HMMPfam_ig,HMMPfam_I-set,superfamily_Protein kinase-like (PK-like),HMMPfam_Pkinase_Tyr,HMMSmart_SM00219,HMMSmart_SM00220,PatternScan_PROTEIN_KINASE_TYR	-	no_errors
SARM1	23098	genome.wustl.edu	37	17	26723195	26723195	+	Nonsense_Mutation	SNP	G	G	T	novel	unknown	TCGA-A2-A04X-01A-21W-A050-09	TCGA-A2-A04X-10A-01W-A055-09	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	17	26723195	26723195	G	T	SNP	SARM1	ENST00000379061	human	ensembl	57_37b	+1	known	nonsense	c.2059	p.E687*	1.000	superfamily_Toll/Interleukin receptor TIR domain,HMMSmart_SM00255	superfamily_ARM repeat,superfamily_SAM/Pointed domain,HMMSmart_SM00454,HMMPfam_SAM_2,superfamily_Toll/Interleukin receptor TIR domain,HMMSmart_SM00255	-	no_errors
SHROOM4	57477	genome.wustl.edu	37	X	50376535	50376535	+	Silent	SNP	G	G	A	novel	unknown	TCGA-A2-A04X-01A-21W-A050-09	TCGA-A2-A04X-10A-01W-A055-09	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	X	50376535	50376535	G	A	SNP	SHROOM4	NM_020717	human	genbank	57_37b	-1	reviewed	silent	c.2538	p.S846	0.936	NULL	superfamily_PDZ domain-like,HMMSmart_SM00228,HMMPfam_ASD1,HMMPfam_ASD2	-	no_errors
SSX6	280657	genome.wustl.edu	37	X	47967190	47967190	+	Splice_Site	SNP	A	A	G	rs12156891	byCluster;by2Hit2Allele	TCGA-A2-A04X-01A-21W-A050-09	TCGA-A2-A04X-10A-01W-A055-09	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	X	47967190	47967190	A	G	SNP	SSX6	ENST00000304314	human	ensembl	57_37b	+1	known	splice_site	c.1+1	e0+1	0.000	-	-	-	
STK31	56164	genome.wustl.edu	37	7	23825188	23825188	+	Missense_Mutation	SNP	G	G	C	novel	unknown	TCGA-A2-A04X-01A-21W-A050-09	TCGA-A2-A04X-10A-01W-A055-09	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	7	23825188	23825188	G	C	SNP	STK31	NM_031414	human	genbank	57_37b	+1	reviewed	missense	c.2240	p.R747P	1.000	HMMSmart_SM00220	HMMPfam_TUDOR,superfamily_Tudor/PWWP/MBT,HMMSmart_SM00333,HMMSmart_SM00220,superfamily_Protein kinase-like (PK-like)	-	no_errors
UBE2Q1	55585	genome.wustl.edu	37	1	154528347	154528350	+	Frame_Shift_Del	DEL	CTTT	CTTT	-	novel	unknown	TCGA-A2-A04X-01A-21W-A050-09	TCGA-A2-A04X-10A-01W-A055-09	CTTT	CTTT					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	1	154528347	154528350	CTTT	-	DEL	UBE2Q1	NM_017582	human	genbank	57_37b	-1	reviewed	frame_shift_del	c.421_418	p.K140fs	1.000:1.000:1.000:1.000	NULL	superfamily_UBC-like,HMMSmart_SM00212,HMMPfam_UQ_con	(deletion:cds_exon[154528336,154528440])	no_errors
VPS53	55275	genome.wustl.edu	37	17	559191	559191	+	Silent	SNP	C	C	T	novel	unknown	TCGA-A2-A04X-01A-21W-A050-09	TCGA-A2-A04X-10A-01W-A055-09	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	17	559191	559191	C	T	SNP	VPS53	NM_001128159	human	genbank	57_37b	-1	reviewed	silent	c.375	p.V125	0.922	HMMPfam_Vps53_N	HMMPfam_Vps53_N	-	no_errors
WIF1	11197	genome.wustl.edu	37	12	65514331	65514331	+	Missense_Mutation	SNP	C	C	T	novel	unknown	TCGA-A2-A04X-01A-21W-A050-09	TCGA-A2-A04X-10A-01W-A055-09	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	12	65514331	65514331	C	T	SNP	WIF1	NM_007191	human	genbank	57_37b	-1	reviewed	missense	c.154	p.E52K	1.000	HMMSmart_WIF,HMMPfam_WIF	HMMSmart_WIF,HMMPfam_WIF,HMMSmart_EGF,HMMPfam_EGF_2,PatternScan_EGF_1,PatternScan_EGF_2,HMMPfam_EGF	-	no_errors
WTAP	9589	genome.wustl.edu	37	6	160169354	160169354	+	Silent	SNP	G	G	T	novel	unknown	TCGA-A2-A04X-01A-21W-A050-09	TCGA-A2-A04X-10A-01W-A055-09	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	6	160169354	160169354	G	T	SNP	WTAP	NM_004906	human	genbank	57_37b	+1	reviewed	silent	c.405	p.L135	1.000	NULL	NULL	-	no_errors
ZNF840	0	genome.wustl.edu	37	20	45093521	45093521	+	Missense_Mutation	SNP	A	A	G	novel	unknown	TCGA-A2-A04X-01A-21W-A050-09	TCGA-A2-A04X-10A-01W-A055-09	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	20	45093521	45093521	A	G	SNP	ZNF840	XM_001722110	human	genbank	57_37b	+1	model	missense	c.415	p.T139A	0.990	NULL	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	-	no_errors
