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	Tumor_Sample_UUID	Matched_Norm_Sample_UUID	chromosome_name	start	stop	reference	variant	type	gene_name	transcript_name	transcript_species	transcript_source	transcript_version	strand	transcript_status	trv_type	c_position	amino_acid_change	ucsc_cons	domain	all_domains	deletion_substructures	transcript_error	rsID	rsID_ref_var_alleles	CAF	normal_ref_reads	normal_var_reads	normal_vaf	tumor_ref_reads	tumor_var_reads	tumor_vaf	normal_ref_reads_val	normal_var_reads_val	normal_vaf_val	tumor_ref_reads_val	tumor_var_reads_val	tumor_vaf_val
LRP1B	0	genome.wustl.edu	37	2	141751564	141751564	+	Missense_Mutation	SNP	A	A	T			TCGA-X7-A8D8-01A-11D-A423-09	TCGA-X7-A8D8-10A-01D-A426-09	A	A	A	T	A	A	Unknown	Valid	Somatic	Phase_IV	WXS	Hybrid_Capture_Illumina_Seq			Illumina HiSeq	1659418d-2e29-4aeb-9e15-f1d2ddc6e778	e03ab0b1-b597-4490-b50c-43d1928ceb64	2	141751564	141751564	A	T	SNP	LRP1B	ENST00000389484	human	ensembl	74_37	-1	known	missense	c.2644	p.F882I	1	superfamily_LDrepeatLR_classA_rpt,smart_LDrepeatLR_classA_rpt,pfscan_LDrepeatLR_classA_rpt	pfam_LDrepeatLR_classA_rpt,pfam_LDLR_classB_rpt,pfam_EG-like_dom,superfamily_Growth_fac_rcpt_N_dom,superfamily_LDrepeatLR_classA_rpt,smart_LDrepeatLR_classA_rpt,smart_EG-like_dom,smart_EGF-like_Ca-bd_dom,smart_LDLR_classB_rpt,pfscan_EG-like_dom,pfscan_LDrepeatLR_classA_rpt,pfscan_LDLR_classB_rpt,prints_LDrepeatLR_classA_rpt	0	no_errors	0	0	0	54	0	0	36	18	33.33	264	0	0.00	161	72	30.90
AGAP1	0	genome.wustl.edu	37	2	236617824	236617824	+	Missense_Mutation	SNP	T	T	A			TCGA-X7-A8D8-01A-11D-A423-09	TCGA-X7-A8D8-10A-01D-A426-09	T	T	T	A	T	T	Unknown	Valid	Somatic	Phase_IV	WXS	Hybrid_Capture_Illumina_Seq			Illumina HiSeq	1659418d-2e29-4aeb-9e15-f1d2ddc6e778	e03ab0b1-b597-4490-b50c-43d1928ceb64	2	236617824	236617824	T	A	SNP	AGAP1	ENST00000304032	human	ensembl	74_37	1	known	missense	c.165	p.D55E	1	NULL	pfam_ArfGAP,pfam_MIRO-like,pfam_Small_GTPase,pfam_Ankyrin_rpt,pfam_Pleckstrin_homology,superfamily_P-loop_NTPase,superfamily_Ankyrin_rpt-contain_dom,smart_Small_GTPase_Ras,smart_Small_GTPase_Rab_type,smart_Pleckstrin_homology,smart_ArfGAP,smart_Ankyrin_rpt,pfscan_Ankyrin_rpt,pfscan_Ankyrin_rpt-contain_dom,pfscan_Pleckstrin_homology,pfscan_ArfGAP,prints_ArfGAP,prints_Small_GTPase	0	no_errors	0	0	0	110	0	0	84	10	10.64	221	0	0.00	171	8	4.44
CSRNP1	0	genome.wustl.edu	37	3	39186572	39186572	+	Missense_Mutation	SNP	C	C	G			TCGA-X7-A8D8-01A-11D-A423-09	TCGA-X7-A8D8-10A-01D-A426-09	C	C	C	G	C	C	Unknown	Valid	Somatic	Phase_IV	WXS	Hybrid_Capture_Illumina_Seq			Illumina HiSeq	1659418d-2e29-4aeb-9e15-f1d2ddc6e778	e03ab0b1-b597-4490-b50c-43d1928ceb64	3	39186572	39186572	C	G	SNP	CSRNP1	ENST00000273153	human	ensembl	74_37	-1	known	missense	c.381	p.E127D	1	NULL	prints_Cys/Ser-rich_nuc_prot	0	no_errors	0	0	0	40	0	0	19	16	45.71	43	0	0.00	29	6	17.14
STAG1	0	genome.wustl.edu	37	3	136068118	136068118	+	Silent	SNP	T	T	C			TCGA-X7-A8D8-01A-11D-A423-09	TCGA-X7-A8D8-10A-01D-A426-09	T	T	T	C	T	T	Unknown	Valid	Somatic	Phase_IV	WXS	Hybrid_Capture_Illumina_Seq			Illumina HiSeq	1659418d-2e29-4aeb-9e15-f1d2ddc6e778	e03ab0b1-b597-4490-b50c-43d1928ceb64	3	136068118	136068118	T	C	SNP	STAG1	ENST00000383202	human	ensembl	74_37	-1	known	silent	c.3153	p.S1051	0.112	NULL	pfam_STAG,superfamily_ARM-type_fold	0	no_errors	0	0	0	64	0	0	51	30	37.04	264	1	0.38	191	63	24.71
TAS2R1	0	genome.wustl.edu	37	5	9630072	9630072	+	Missense_Mutation	SNP	C	C	A			TCGA-X7-A8D8-01A-11D-A423-09	TCGA-X7-A8D8-10A-01D-A426-09	C	C	C	A	C	C	Unknown	Valid	Somatic	Phase_IV	WXS	Hybrid_Capture_Illumina_Seq			Illumina HiSeq	1659418d-2e29-4aeb-9e15-f1d2ddc6e778	e03ab0b1-b597-4490-b50c-43d1928ceb64	5	9630072	9630072	C	A	SNP	TAS2R1	ENST00000382492	human	ensembl	74_37	-1	known	missense	c.73	p.G25C	0.883	pfam_TAS2_rcpt	pfam_TAS2_rcpt	0	no_errors	0	0	0	49	0	0	43	14	24.56	251	0	0.00	162	53	24.42
RNF180	0	genome.wustl.edu	37	5	63510131	63510131	+	Silent	SNP	T	T	C			TCGA-X7-A8D8-01A-11D-A423-09	TCGA-X7-A8D8-10A-01D-A426-09	T	T	T	C	T	T	Unknown	Valid	Somatic	Phase_IV	WXS	Hybrid_Capture_Illumina_Seq			Illumina HiSeq	1659418d-2e29-4aeb-9e15-f1d2ddc6e778	e03ab0b1-b597-4490-b50c-43d1928ceb64	5	63510131	63510131	T	C	SNP	RNF180	ENST00000389100	human	ensembl	74_37	1	known	silent	c.978	p.T326	0.003	NULL	pfam_Znf_C3HC4_RING-type,smart_Znf_RING,pfscan_Znf_RING	0	no_errors	0	0	0	52	0	0	42	5	10.64	189	0	0.00	202	17	7.76
REV3L	0	genome.wustl.edu	37	6	111710309	111710309	+	Missense_Mutation	SNP	C	C	T			TCGA-X7-A8D8-01A-11D-A423-09	TCGA-X7-A8D8-10A-01D-A426-09	C	C	C	T	C	C	Unknown	Valid	Somatic	Phase_IV	WXS	Hybrid_Capture_Illumina_Seq			Illumina HiSeq	1659418d-2e29-4aeb-9e15-f1d2ddc6e778	e03ab0b1-b597-4490-b50c-43d1928ceb64	6	111710309	111710309	C	T	SNP	REV3L	ENST00000358835	human	ensembl	74_37	-1	known	missense	c.862	p.D288N	1	superfamily_RNaseH-like_dom	pfam_DNA-dir_DNA_pol_B_multi_dom,pfam_DNA-dir_DNA_pol_B_exonuc,superfamily_RNaseH-like_dom,smart_DNA-dir_DNA_pol_B,prints_DNA-dir_DNA_pol_B	0	no_errors	0	0	0	61	0	0	52	11	17.46	333	0	0.00	247	101	28.94
L3MBTL3	0	genome.wustl.edu	37	6	130374131	130374131	+	Nonsense_Mutation	SNP	G	G	T			TCGA-X7-A8D8-01A-11D-A423-09	TCGA-X7-A8D8-10A-01D-A426-09	G	G	G	T	G	G	Unknown	Valid	Somatic	Phase_IV	WXS	Hybrid_Capture_Illumina_Seq			Illumina HiSeq	1659418d-2e29-4aeb-9e15-f1d2ddc6e778	e03ab0b1-b597-4490-b50c-43d1928ceb64	6	130374131	130374131	G	T	SNP	L3MBTL3	ENST00000361794	human	ensembl	74_37	1	known	nonsense	c.577	p.E193*	1	NULL	pfam_Mbt,pfam_SAM_type1,pfam_SAM_2,superfamily_SAM/pointed,smart_Mbt,smart_SAM,pfscan_Mbt,pfscan_SAM	0	no_errors	0	0	0	23	0	0	44	5	10.2	125	0	0.00	106	6	5.36
GTF2I	0	genome.wustl.edu	37	7	74146970	74146970	+	Missense_Mutation	SNP	T	T	A			TCGA-X7-A8D8-01A-11D-A423-09	TCGA-X7-A8D8-10A-01D-A426-09	T	T	T	A	T	T	Unknown	Valid	Somatic	Phase_IV	WXS	Hybrid_Capture_Illumina_Seq			Illumina HiSeq	1659418d-2e29-4aeb-9e15-f1d2ddc6e778	e03ab0b1-b597-4490-b50c-43d1928ceb64	7	74146970	74146970	T	A	SNP	GTF2I	ENST00000324896	human	ensembl	74_37	1	known	missense	c.1271	p.L424H	1	pfam_GTF2I,superfamily_GTF2I,pirsf_TF_II-I,pfscan_GTF2I	pfam_GTF2I,superfamily_GTF2I,pirsf_TF_II-I,pfscan_GTF2I	0	no_errors	0	0	0	300	0	0	281	113	28.68	149	0	0.00	75	42	35.59
CSMD1	0	genome.wustl.edu	37	8	2832146	2832146	+	Missense_Mutation	SNP	G	G	A			TCGA-X7-A8D8-01A-11D-A423-09	TCGA-X7-A8D8-10A-01D-A426-09	G	G	G	A	G	G	Unknown	Valid	Somatic	Phase_IV	WXS	Hybrid_Capture_Illumina_Seq			Illumina HiSeq	1659418d-2e29-4aeb-9e15-f1d2ddc6e778	e03ab0b1-b597-4490-b50c-43d1928ceb64	8	2832146	2832146	G	A	SNP	CSMD1	ENST00000520002	human	ensembl	74_37	-1	known	missense	c.8570	p.A2857V	0.142	superfamily_Sushi_SCR_CCP,pfscan_Sushi_SCR_CCP	pfam_CUB_dom,pfam_Sushi_SCR_CCP,superfamily_CUB_dom,superfamily_Sushi_SCR_CCP,smart_CUB_dom,smart_Sushi_SCR_CCP,pfscan_CUB_dom,pfscan_Sushi_SCR_CCP	0	no_errors	0	0	0	51	0	0	39	6	13.33	225	0	0.00	213	17	7.39
PTCH1	0	genome.wustl.edu	37	9	98241284	98241284	+	Missense_Mutation	SNP	C	C	T			TCGA-X7-A8D8-01A-11D-A423-09	TCGA-X7-A8D8-10A-01D-A426-09	C	C	C	T	C	C	Unknown	Valid	Somatic	Phase_IV	WXS	Hybrid_Capture_Illumina_Seq			Illumina HiSeq	1659418d-2e29-4aeb-9e15-f1d2ddc6e778	e03ab0b1-b597-4490-b50c-43d1928ceb64	9	98241284	98241284	C	T	SNP	PTCH1	ENST00000331920	human	ensembl	74_37	-1	known	missense	c.1213	p.E405K	1	pfam_Patched,tigrfam_TM_rcpt_patched	pfam_Patched,pfscan_SSD,tigrfam_TM_rcpt_patched	0	no_errors	0	0	0	87	0	0	89	12	11.88	215	0	0.00	155	14	8.28
ZDHHC6	0	genome.wustl.edu	37	10	114204970	114204970	+	Silent	SNP	G	G	A			TCGA-X7-A8D8-01A-11D-A423-09	TCGA-X7-A8D8-10A-01D-A426-09	G	G	G	A	G	G	Unknown	Valid	Somatic	Phase_IV	WXS	Hybrid_Capture_Illumina_Seq			Illumina HiSeq	1659418d-2e29-4aeb-9e15-f1d2ddc6e778	e03ab0b1-b597-4490-b50c-43d1928ceb64	10	114204970	114204970	G	A	SNP	ZDHHC6	ENST00000369405	human	ensembl	74_37	-1	known	silent	c.225	p.A75	1	NULL	pfam_Znf_DHHC_palmitoyltrfase,pfam_SH3_2,superfamily_SH3_domain,pfscan_Znf_DHHC_palmitoyltrfase	0	no_errors	rs367934020	G->A	0	37	0	0	35	7	16.67	326	1	0.31	198	87	30.53
FRY	0	genome.wustl.edu	37	13	32821485	32821485	+	Missense_Mutation	SNP	A	A	G			TCGA-X7-A8D8-01A-11D-A423-09	TCGA-X7-A8D8-10A-01D-A426-09	A	A	A	G	A	A	Unknown	Valid	Somatic	Phase_IV	WXS	Hybrid_Capture_Illumina_Seq			Illumina HiSeq	1659418d-2e29-4aeb-9e15-f1d2ddc6e778	e03ab0b1-b597-4490-b50c-43d1928ceb64	13	32821485	32821485	A	G	SNP	FRY	ENST00000380250	human	ensembl	74_37	1	known	missense	c.6854	p.N2285S	1	superfamily_ARM-type_fold	superfamily_ARM-type_fold	0	no_errors	0	0	0	52	0	0	74	8	9.76	312	0	0.00	230	21	8.37
SLC12A1	0	genome.wustl.edu	37	15	48594991	48594991	+	Missense_Mutation	SNP	A	A	G			TCGA-X7-A8D8-01A-11D-A423-09	TCGA-X7-A8D8-10A-01D-A426-09	A	A	A	G	A	A	Unknown	Valid	Somatic	Phase_IV	WXS	Hybrid_Capture_Illumina_Seq			Illumina HiSeq	1659418d-2e29-4aeb-9e15-f1d2ddc6e778	e03ab0b1-b597-4490-b50c-43d1928ceb64	15	48594991	48594991	A	G	SNP	SLC12A1	ENST00000380993	human	ensembl	74_37	1	known	missense	c.3209	p.Y1070C	1	tigrfam_Na/K/Cl_cotransptS	pfam_AA-permease/SLC12A_dom,pfam_AA_permease_N,prints_Na/K/Cl_cotranspt2,prints_Na/K/Cl_cotranspt,tigrfam_Na/K/Cl_cotransptS	0	no_errors	0	0	0	155	0	0	186	15	7.46	291	0	0.00	296	15	4.82
EPG5	0	genome.wustl.edu	37	18	43437954	43437954	+	Missense_Mutation	SNP	C	C	T			TCGA-X7-A8D8-01A-11D-A423-09	TCGA-X7-A8D8-10A-01D-A426-09	C	C	C	T	C	C	Unknown	Valid	Somatic	Phase_IV	WXS	Hybrid_Capture_Illumina_Seq			Illumina HiSeq	1659418d-2e29-4aeb-9e15-f1d2ddc6e778	e03ab0b1-b597-4490-b50c-43d1928ceb64	18	43437954	43437954	C	T	SNP	EPG5	ENST00000282041	human	ensembl	74_37	-1	known	missense	c.7306	p.D2436N	0.998	NULL	NULL	0	no_errors	0	0	0	41	0	0	37	6	13.95	111	0	0.00	87	7	7.45
CEACAM5	0	genome.wustl.edu	37	19	42222112	42222112	+	Missense_Mutation	SNP	C	C	A			TCGA-X7-A8D8-01A-11D-A423-09	TCGA-X7-A8D8-10A-01D-A426-09	C	C	C	A	C	C	Unknown	Valid	Somatic	Phase_IV	WXS	Hybrid_Capture_Illumina_Seq			Illumina HiSeq	1659418d-2e29-4aeb-9e15-f1d2ddc6e778	e03ab0b1-b597-4490-b50c-43d1928ceb64	19	42222112	42222112	C	A	SNP	CEACAM5	ENST00000221992	human	ensembl	74_37	1	known	missense	c.1303	p.L435I	0.359	pfam_Ig_I-set,pfam_Immunoglobulin,smart_Ig_sub,smart_Ig_sub2,pfscan_Ig-like_dom	pfam_Ig_I-set,pfam_Ig_V-set,pfam_Immunoglobulin,smart_Ig_sub,smart_Ig_sub2,pfscan_Ig-like_dom	0	no_errors	0	0	0	76	0	0	66	7	9.59	50	0	0.00	41	3	6.82
SCP2D1	0	genome.wustl.edu	37	20	18794489	18794489	+	Silent	SNP	G	G	A			TCGA-X7-A8D8-01A-11D-A423-09	TCGA-X7-A8D8-10A-01D-A426-09	G	G	G	A	G	G	Unknown	Valid	Somatic	Phase_IV	WXS	Hybrid_Capture_Illumina_Seq			Illumina HiSeq	1659418d-2e29-4aeb-9e15-f1d2ddc6e778	e03ab0b1-b597-4490-b50c-43d1928ceb64	20	18794489	18794489	G	A	SNP	SCP2D1	ENST00000377428	human	ensembl	74_37	1	known	silent	c.30	p.K10	0.999	NULL	pfam_SCP2_sterol-bd_dom,superfamily_SCP2_sterol-bd_dom	0	no_errors	0	0	0	34	0	0	28	5	15.15	153	0	0.00	131	12	8.39
MKNK1	0	genome.wustl.edu	37	1	47028358	47028358	+	Missense_Mutation	SNP	C	C	T			TCGA-X7-A8D8-01A-11D-A423-09	TCGA-X7-A8D8-10A-01D-A426-09	C	C					Unknown	Untested	Somatic	Phase_IV	WXS	none			Illumina HiSeq	1659418d-2e29-4aeb-9e15-f1d2ddc6e778	e03ab0b1-b597-4490-b50c-43d1928ceb64	1	47028358	47028358	C	T	SNP	MKNK1	ENST00000371946	human	ensembl	74_37	-1	known	missense	c.926	p.C309Y	1	pfam_Prot_kinase_dom,pfam_Ser-Thr/Tyr_kinase_cat_dom,superfamily_Kinase-like_dom,smart_Ser/Thr_dual-sp_kinase_dom,smart_Tyr_kinase_cat_dom,pfscan_Prot_kinase_dom	pfam_Prot_kinase_dom,pfam_Ser-Thr/Tyr_kinase_cat_dom,superfamily_Kinase-like_dom,smart_Ser/Thr_dual-sp_kinase_dom,smart_Tyr_kinase_cat_dom,pfscan_Prot_kinase_dom	0	no_errors	0	0	0	36	0	0	63	5	7.35	12	0	0.00	8	0	0.00
GSC	0	genome.wustl.edu	37	14	95236123	95236123	+	Missense_Mutation	SNP	C	C	A			TCGA-X7-A8D8-01A-11D-A423-09	TCGA-X7-A8D8-10A-01D-A426-09	C	C					Unknown	Untested	Somatic	Phase_IV	WXS	none			Illumina HiSeq	1659418d-2e29-4aeb-9e15-f1d2ddc6e778	e03ab0b1-b597-4490-b50c-43d1928ceb64	14	95236123	95236123	C	A	SNP	GSC	ENST00000238558	human	ensembl	74_37	-1	known	missense	c.230	p.R77L	1	NULL	pfam_Homeobox_dom,superfamily_Homeodomain-like,smart_Homeobox_dom,pfscan_Homeobox_dom	0	no_errors	0	0	0	10	0	0	8	5	38.46	6	0	0.00	1	0	0.00
