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	default_gene_name	gene_name_source	ensembl_gene_id	tier	title	header	normal_ref_reads	normal_var_reads	normal_VAF	tumor_ref_reads	tumor_var_reads	tumor_VAF
PDPN	0	genome.wustl.edu	37	1	13940872	13940872	+	Missense_Mutation	SNP	G	G	A			TCGA-BR-4279-01A-01D-1126-08	TCGA-BR-4279-11A-01D-1126-08	G	G					Unknown	Untested	Somatic	Phase_IV	WXS	none			Illumina HiSeq	ee907395-2e2f-471b-8840-f8b261a8c8f6	39c01fd0-41e5-402a-9060-6052f32ea50a	1	13940872	13940872	G	A	SNP	PDPN	ENST00000294489	human	ensembl	74_37	+1	known	missense	c.676	p.V226I	0.000	pfam_Podoplanin	pfam_Podoplanin	-	no_errors	PDPN	HGNC	ENSG00000162493				92	0	0	50	14	21.875
USH2A	0	genome.wustl.edu	37	1	216348749	216348749	+	Missense_Mutation	SNP	T	T	A			TCGA-BR-4279-01A-01D-1126-08	TCGA-BR-4279-11A-01D-1126-08	T	T					Unknown	Untested	Somatic	Phase_IV	WXS	none			Illumina HiSeq	ee907395-2e2f-471b-8840-f8b261a8c8f6	39c01fd0-41e5-402a-9060-6052f32ea50a	1	216348749	216348749	T	A	SNP	USH2A	ENST00000366943	human	ensembl	74_37	-1	known	missense	c.4472	p.E1491V	0.029	superfamily_Fibronectin_type3	pfam_Fibronectin_type3,pfam_EGF_laminin,pfam_Laminin_G,superfamily_ConA-like_lec_gl_sf,superfamily_Fibronectin_type3,smart_LamG-like,smart_Laminin_N,smart_EGF_laminin,smart_Fibronectin_type3,smart_Laminin_G,pfscan_EGF_laminin,pfscan_Fibronectin_type3,pfscan_Laminin_G,pfscan_Laminin_N	-	no_errors	USH2A	HGNC	ENSG00000042781				42	0	0	31	5	13.8889
BEST4	0	genome.wustl.edu	37	1	45250412	45250412	+	Missense_Mutation	SNP	G	G	A			TCGA-BR-4279-01A-01D-1126-08	TCGA-BR-4279-11A-01D-1126-08	G	G					Unknown	Untested	Somatic	Phase_IV	WXS	none			Illumina HiSeq	ee907395-2e2f-471b-8840-f8b261a8c8f6	39c01fd0-41e5-402a-9060-6052f32ea50a	1	45250412	45250412	G	A	SNP	BEST4	ENST00000372207	human	ensembl	74_37	-1	known	missense	c.1037	p.P346L	0.801	NULL	pfam_Bestrophin/UPF0187	-	no_errors	BEST4	HGNC	ENSG00000142959				59	0	0	58	8	12.1212
FAS	0	genome.wustl.edu	37	10	90774152	90774152	+	Missense_Mutation	SNP	T	T	A			TCGA-BR-4279-01A-01D-1126-08	TCGA-BR-4279-11A-01D-1126-08	T	T					Unknown	Untested	Somatic	Phase_IV	WXS	none			Illumina HiSeq	ee907395-2e2f-471b-8840-f8b261a8c8f6	39c01fd0-41e5-402a-9060-6052f32ea50a	10	90774152	90774152	T	A	SNP	FAS	ENST00000355740	human	ensembl	74_37	+1	known	missense	c.953	p.I318N	0.000	superfamily_DEATH-like_dom	pfam_Death_domain,pfam_TNFR/NGFR_Cys_rich_reg,superfamily_DEATH-like_dom,smart_TNFR/NGFR_Cys_rich_reg,smart_Death_domain,pfscan_Death_domain,pfscan_TNFR/NGFR_Cys_rich_reg,prints_Fas_rcpt	-	no_errors	FAS	HGNC	ENSG00000026103				78	0	0	70	15	17.6471
SLC5A8	0	genome.wustl.edu	37	12	101603454	101603454	+	Missense_Mutation	SNP	G	G	A			TCGA-BR-4279-01A-01D-1126-08	TCGA-BR-4279-11A-01D-1126-08	G	G					Unknown	Untested	Somatic	Phase_IV	WXS	none			Illumina HiSeq	ee907395-2e2f-471b-8840-f8b261a8c8f6	39c01fd0-41e5-402a-9060-6052f32ea50a	12	101603454	101603454	G	A	SNP	SLC5A8	ENST00000536262	human	ensembl	74_37	-1	known	missense	c.173	p.A58V	1.000	pfam_Na/solute_symporter,pfscan_Na/solute_symporter,tigrfam_Na/solute_symporter_subgr	pfam_Na/solute_symporter,pfscan_Na/solute_symporter,tigrfam_Na/solute_symporter_subgr	-	no_errors	SLC5A8	HGNC	ENSG00000256870				35	0	0	32	6	15.7895
CCDC60	0	genome.wustl.edu	37	12	119954427	119954427	+	Splice_Site	SNP	G	G	T			TCGA-BR-4279-01A-01D-1126-08	TCGA-BR-4279-11A-01D-1126-08	G	G					Unknown	Untested	Somatic	Phase_IV	WXS	none			Illumina HiSeq	ee907395-2e2f-471b-8840-f8b261a8c8f6	39c01fd0-41e5-402a-9060-6052f32ea50a	12	119954427	119954427	G	T	SNP	CCDC60	ENST00000327554	human	ensembl	74_37	+1	known	splice_site	c.884-1	e8-1	1.000	-	-	-	no_errors	CCDC60	HGNC	ENSG00000183273				48	0	0	33	8	19.5122
TMEM132B	0	genome.wustl.edu	37	12	126137113	126137113	+	Nonsense_Mutation	SNP	C	C	T			TCGA-BR-4279-01A-01D-1126-08	TCGA-BR-4279-11A-01D-1126-08	C	C					Unknown	Untested	Somatic	Phase_IV	WXS	none			Illumina HiSeq	ee907395-2e2f-471b-8840-f8b261a8c8f6	39c01fd0-41e5-402a-9060-6052f32ea50a	12	126137113	126137113	C	T	SNP	TMEM132B	ENST00000299308	human	ensembl	74_37	+1	known	nonsense	c.2026	p.R676*	0.845	NULL	NULL	-	no_errors	TMEM132B	HGNC	ENSG00000139364				87	0	0	58	11	15.942
LRRK2	0	genome.wustl.edu	37	12	40740652	40740652	+	Silent	SNP	T	T	G			TCGA-BR-4279-01A-01D-1126-08	TCGA-BR-4279-11A-01D-1126-08	T	T					Unknown	Untested	Somatic	Phase_IV	WXS	none			Illumina HiSeq	ee907395-2e2f-471b-8840-f8b261a8c8f6	39c01fd0-41e5-402a-9060-6052f32ea50a	12	40740652	40740652	T	G	SNP	LRRK2	ENST00000298910	human	ensembl	74_37	+1	known	silent	c.6207	p.T2069	0.981	pfam_Prot_kinase_dom,pfam_Ser-Thr/Tyr_kinase_cat_dom,superfamily_Kinase-like_dom,smart_Tyr_kinase_cat_dom,smart_Ser/Thr_dual-sp_kinase_dom,prints_Ser-Thr/Tyr_kinase_cat_dom,pfscan_Prot_kinase_dom	pfam_Prot_kinase_dom,pfam_Ser-Thr/Tyr_kinase_cat_dom,pfam_MIRO-like,pfam_Small_GTPase,pfam_Leu-rich_rpt,pfam_Small_GTPase_ARF/SAR,superfamily_Kinase-like_dom,superfamily_P-loop_NTPase,superfamily_ARM-type_fold,superfamily_WD40_repeat_dom,smart_Leu-rich_rpt_typical-subtyp,smart_Small_GTPase_Rab_type,smart_Tyr_kinase_cat_dom,smart_Ser/Thr_dual-sp_kinase_dom,prints_Small_GTPase,prints_Ser-Thr/Tyr_kinase_cat_dom,pfscan_Prot_kinase_dom,tigrfam_Small_GTP-bd_dom	-	no_errors	LRRK2	HGNC	ENSG00000188906				51	0	0	35	6	14.6341
NEDD1	0	genome.wustl.edu	37	12	97345236	97345236	+	Missense_Mutation	SNP	A	A	T			TCGA-BR-4279-01A-01D-1126-08	TCGA-BR-4279-11A-01D-1126-08	A	A					Unknown	Untested	Somatic	Phase_IV	WXS	none			Illumina HiSeq	ee907395-2e2f-471b-8840-f8b261a8c8f6	39c01fd0-41e5-402a-9060-6052f32ea50a	12	97345236	97345236	A	T	SNP	NEDD1	ENST00000557644	human	ensembl	74_37	+1	known	missense	c.1859	p.N620I	1.000	NULL	pfam_WD40_repeat,superfamily_WD40_repeat_dom,smart_WD40_repeat,pfscan_WD40_repeat,pfscan_WD40_repeat_dom	-	no_errors	NEDD1	HGNC	ENSG00000139350				56	0	0	56	11	16.4179
ANKRD10	0	genome.wustl.edu	37	13	111532325	111532325	+	Missense_Mutation	SNP	C	C	G			TCGA-BR-4279-01A-01D-1126-08	TCGA-BR-4279-11A-01D-1126-08	C	C					Unknown	Untested	Somatic	Phase_IV	WXS	none			Illumina HiSeq	ee907395-2e2f-471b-8840-f8b261a8c8f6	39c01fd0-41e5-402a-9060-6052f32ea50a	13	111532325	111532325	C	G	SNP	ANKRD10	ENST00000267339	human	ensembl	74_37	-1	known	missense	c.922	p.G308R	0.962	NULL	pfam_Ankyrin_rpt,superfamily_Ankyrin_rpt-contain_dom,smart_Ankyrin_rpt,pfscan_Ankyrin_rpt,pfscan_Ankyrin_rpt-contain_dom	-	no_errors	ANKRD10	HGNC	ENSG00000088448				68	0	0	64	12	15.7895
OR4K17	0	genome.wustl.edu	37	14	20586246	20586246	+	Silent	SNP	G	G	A			TCGA-BR-4279-01A-01D-1126-08	TCGA-BR-4279-11A-01D-1126-08	G	G					Unknown	Untested	Somatic	Phase_IV	WXS	none			Illumina HiSeq	ee907395-2e2f-471b-8840-f8b261a8c8f6	39c01fd0-41e5-402a-9060-6052f32ea50a	14	20586246	20586246	G	A	SNP	OR4K17	ENST00000315543	human	ensembl	74_37	+1	known	silent	c.681	p.Q227	0.017	pfam_GPCR_Rhodpsn,pfam_7TM_GPCR_olfarory/Srsx,pfscan_GPCR_Rhodpsn_7TM	pfam_GPCR_Rhodpsn,pfam_7TM_GPCR_olfarory/Srsx,pfscan_GPCR_Rhodpsn_7TM,prints_Olfact_rcpt,prints_GPCR_Rhodpsn	-	no_errors	OR4K17	HGNC	ENSG00000176230				129	0	0	129	31	19.375
NDRG2	0	genome.wustl.edu	37	14	21490644	21490644	+	Nonsense_Mutation	SNP	C	C	A			TCGA-BR-4279-01A-01D-1126-08	TCGA-BR-4279-11A-01D-1126-08	C	C					Unknown	Untested	Somatic	Phase_IV	WXS	none			Illumina HiSeq	ee907395-2e2f-471b-8840-f8b261a8c8f6	39c01fd0-41e5-402a-9060-6052f32ea50a	14	21490644	21490644	C	A	SNP	NDRG2	ENST00000298687	human	ensembl	74_37	-1	known	nonsense	c.130	p.E44*	1.000	pfam_Ndr	pfam_Ndr	-	no_errors	NDRG2	HGNC	ENSG00000165795				39	0	0	31	2	6.06061
BRMS1L	0	genome.wustl.edu	37	14	36302313	36302313	+	Splice_Site	SNP	T	T	C			TCGA-BR-4279-01A-01D-1126-08	TCGA-BR-4279-11A-01D-1126-08	T	T					Unknown	Untested	Somatic	Phase_IV	WXS	none			Illumina HiSeq	ee907395-2e2f-471b-8840-f8b261a8c8f6	39c01fd0-41e5-402a-9060-6052f32ea50a	14	36302313	36302313	T	C	SNP	BRMS1L	ENST00000216807	human	ensembl	74_37	+1	known	splice_site	c.361+2	e3+2	1.000	-	-	-	no_errors	BRMS1L	HGNC	ENSG00000100916				33	0	0	24	4	14.2857
SNHG14	0	genome.wustl.edu	37	15	25477429	25477429	+	RNA	SNP	G	G	A			TCGA-BR-4279-01A-01D-1126-08	TCGA-BR-4279-11A-01D-1126-08	G	G					Unknown	Untested	Somatic	Phase_IV	WXS	none			Illumina HiSeq	ee907395-2e2f-471b-8840-f8b261a8c8f6	39c01fd0-41e5-402a-9060-6052f32ea50a	15	25477429	25477429	G	A	SNP	SNHG14	ENST00000453082	human	ensembl	74_37	+1	known	rna	NULL	NULL	0.000	-	-	-	no_errors	SNHG14	HGNC	ENSG00000224078				78	0	0	50	7	12.2807
OCA2	0	genome.wustl.edu	37	15	28096604	28096604	+	Missense_Mutation	SNP	G	G	C			TCGA-BR-4279-01A-01D-1126-08	TCGA-BR-4279-11A-01D-1126-08	G	G					Unknown	Untested	Somatic	Phase_IV	WXS	none			Illumina HiSeq	ee907395-2e2f-471b-8840-f8b261a8c8f6	39c01fd0-41e5-402a-9060-6052f32ea50a	15	28096604	28096604	G	C	SNP	OCA2	ENST00000354638	human	ensembl	74_37	-1	known	missense	c.2262	p.N754K	1.000	pfam_Cit_transptr-like_dom,pfam_Na/sul_symport,pfam_Arsenical_pump_ArsB,tigrfam_Arsenical_pump_ArsB	pfam_Cit_transptr-like_dom,pfam_Na/sul_symport,pfam_Arsenical_pump_ArsB,tigrfam_Arsenical_pump_ArsB	-	no_errors	OCA2	HGNC	ENSG00000104044				9	0	0	10	3	23.0769
DUOX2	0	genome.wustl.edu	37	15	45388106	45388106	+	Missense_Mutation	SNP	G	G	A			TCGA-BR-4279-01A-01D-1126-08	TCGA-BR-4279-11A-01D-1126-08	G	G					Unknown	Untested	Somatic	Phase_IV	WXS	none			Illumina HiSeq	ee907395-2e2f-471b-8840-f8b261a8c8f6	39c01fd0-41e5-402a-9060-6052f32ea50a	15	45388106	45388106	G	A	SNP	DUOX2	ENST00000389039	human	ensembl	74_37	-1	known	missense	c.4000	p.R1334W	1.000	pfam_FAD-bd_8,superfamily_Riboflavin_synthase-like_b-brl	pfam_Haem_peroxidase_animal,pfam_Fe_red_NAD-bd_6,pfam_FAD-bd_8,pfam_Fe3_Rdtase_TM_dom,pfam_EF_hand_dom,superfamily_Haem_peroxidase,superfamily_Riboflavin_synthase-like_b-brl,smart_EF_hand_dom,pfscan_EF_hand_dom,pfscan_Haem_peroxidase_animal,prints_Haem_peroxidase_animal_subgr,prints_Recoverin	-	no_errors	DUOX2	HGNC	ENSG00000140279				37	0	0	50	7	12.2807
CDH8	0	genome.wustl.edu	37	16	61687977	61687977	+	Silent	SNP	C	C	T			TCGA-BR-4279-01A-01D-1126-08	TCGA-BR-4279-11A-01D-1126-08	C	C					Unknown	Untested	Somatic	Phase_IV	WXS	none			Illumina HiSeq	ee907395-2e2f-471b-8840-f8b261a8c8f6	39c01fd0-41e5-402a-9060-6052f32ea50a	16	61687977	61687977	C	T	SNP	CDH8	ENST00000577390	human	ensembl	74_37	-1	known	silent	c.1935	p.R645	0.997	NULL	pfam_Cadherin,pfam_Cadherin_cytoplasmic-dom,superfamily_Cadherin-like,smart_Cadherin,pfscan_Cadherin,prints_Cadherin	-	no_errors	CDH8	HGNC	ENSG00000150394				71	0	0	57	10	14.9254
CDH1	0	genome.wustl.edu	37	16	68842728	68842728	+	Missense_Mutation	SNP	A	A	G			TCGA-BR-4279-01A-01D-1126-08	TCGA-BR-4279-11A-01D-1126-08	A	A					Unknown	Untested	Somatic	Phase_IV	WXS	none			Illumina HiSeq	ee907395-2e2f-471b-8840-f8b261a8c8f6	39c01fd0-41e5-402a-9060-6052f32ea50a	16	68842728	68842728	A	G	SNP	CDH1	ENST00000261769	human	ensembl	74_37	+1	known	missense	c.664	p.R222G	0.998	pfam_Cadherin,superfamily_Cadherin-like,smart_Cadherin,pfscan_Cadherin,prints_Cadherin	pfam_Cadherin,pfam_Cadherin_cytoplasmic-dom,pfam_Cadherin_pro_dom,superfamily_Cadherin-like,smart_Cadherin,pfscan_Cadherin,prints_Cadherin	-	no_errors	CDH1	HGNC	ENSG00000039068				54	0	0	36	10	21.7391
CDH1	0	genome.wustl.edu	37	16	68856129	68856129	+	Splice_Site	SNP	G	G	T			TCGA-BR-4279-01A-01D-1126-08	TCGA-BR-4279-11A-01D-1126-08	G	G					Unknown	Untested	Somatic	Phase_IV	WXS	none			Illumina HiSeq	ee907395-2e2f-471b-8840-f8b261a8c8f6	39c01fd0-41e5-402a-9060-6052f32ea50a	16	68856129	68856129	G	T	SNP	CDH1	ENST00000261769	human	ensembl	74_37	+1	known	splice_site	c.1936+1	e12+1	0.996	-	-	-	no_errors	CDH1	HGNC	ENSG00000039068				62	0	0	45	11	19.6429
ADAMTS18	0	genome.wustl.edu	37	16	77393318	77393318	+	Missense_Mutation	SNP	A	A	C			TCGA-BR-4279-01A-01D-1126-08	TCGA-BR-4279-11A-01D-1126-08	A	A					Unknown	Untested	Somatic	Phase_IV	WXS	none			Illumina HiSeq	ee907395-2e2f-471b-8840-f8b261a8c8f6	39c01fd0-41e5-402a-9060-6052f32ea50a	16	77393318	77393318	A	C	SNP	ADAMTS18	ENST00000282849	human	ensembl	74_37	-1	known	missense	c.1219	p.F407V	1.000	pfam_Peptidase_M12B,pfscan_Peptidase_M12B	pfam_Peptidase_M12B_N,pfam_ADAM_spacer1,pfam_Thrombospondin_1_rpt,pfam_Peptidase_M12B,pfam_PLAC,superfamily_Thrombospondin_1_rpt,smart_Thrombospondin_1_rpt,pfscan_PLAC,pfscan_Thrombospondin_1_rpt,pfscan_Peptidase_M12B,prints_Peptidase_M12B_ADAM-TS	-	no_errors	ADAMTS18	HGNC	ENSG00000140873				34	0	0	23	6	20.6897
SPPL2C	0	genome.wustl.edu	37	17	43923421	43923421	+	Silent	SNP	G	G	T			TCGA-BR-4279-01A-01D-1126-08	TCGA-BR-4279-11A-01D-1126-08	G	G					Unknown	Untested	Somatic	Phase_IV	WXS	none			Illumina HiSeq	ee907395-2e2f-471b-8840-f8b261a8c8f6	39c01fd0-41e5-402a-9060-6052f32ea50a	17	43923421	43923421	G	T	SNP	SPPL2C	ENST00000329196	human	ensembl	74_37	+1	known	silent	c.1149	p.L383	1.000	pfam_Peptidase_A22B_SPP,smart_Preselin/SPP	pfam_Peptidase_A22B_SPP,pfam_Protease-assoc_domain,smart_Preselin/SPP	-	no_errors	SPPL2C	HGNC	ENSG00000185294				41	0	0	40	11	21.5686
TRIM25	0	genome.wustl.edu	37	17	54981760	54981760	+	Silent	SNP	C	C	T			TCGA-BR-4279-01A-01D-1126-08	TCGA-BR-4279-11A-01D-1126-08	C	C					Unknown	Untested	Somatic	Phase_IV	WXS	none			Illumina HiSeq	ee907395-2e2f-471b-8840-f8b261a8c8f6	39c01fd0-41e5-402a-9060-6052f32ea50a	17	54981760	54981760	C	T	SNP	TRIM25	ENST00000316881	human	ensembl	74_37	-1	known	silent	c.783	p.R261	0.024	NULL	pfam_SPRY_rcpt,pfam_Znf_C3HC4_RING-type,superfamily_ConA-like_lec_gl_sf,smart_Znf_RING,smart_PRY,smart_SPla/RYanodine_receptor_subgr,pfscan_B30.2/SPRY,pfscan_Znf_RING,prints_Butyrophylin	-	no_errors	TRIM25	HGNC	ENSG00000121060				126	0	0	116	24	17.1429
KCNH6	0	genome.wustl.edu	37	17	61611421	61611421	+	Missense_Mutation	SNP	G	G	A			TCGA-BR-4279-01A-01D-1126-08	TCGA-BR-4279-11A-01D-1126-08	G	G					Unknown	Untested	Somatic	Phase_IV	WXS	none			Illumina HiSeq	ee907395-2e2f-471b-8840-f8b261a8c8f6	39c01fd0-41e5-402a-9060-6052f32ea50a	17	61611421	61611421	G	A	SNP	KCNH6	ENST00000583023	human	ensembl	74_37	+1	known	missense	c.850	p.D284N	0.999	NULL	pfam_Ion_trans_dom,pfam_cNMP-bd_dom,pfam_2pore_dom_K_chnl_dom,pfam_PAS_fold,superfamily_cNMP-bd-like,superfamily_PAS,smart_cNMP-bd_dom,prints_K_chnl_volt-dep_EAG/ELK/ERG,prints_K_chnl_volt-dep_ERG,prints_K_chnl_volt-dep_ELK,prints_2pore_dom_K_chnl,pfscan_cNMP-bd_dom	-	no_errors	KCNH6	HGNC	ENSG00000173826				105	0	0	110	20	15.3846
SMAD4	0	genome.wustl.edu	37	18	48591918	48591918	+	Missense_Mutation	SNP	C	C	T			TCGA-BR-4279-01A-01D-1126-08	TCGA-BR-4279-11A-01D-1126-08	C	C					Unknown	Untested	Somatic	Phase_IV	WXS	none			Illumina HiSeq	ee907395-2e2f-471b-8840-f8b261a8c8f6	39c01fd0-41e5-402a-9060-6052f32ea50a	18	48591918	48591918	C	T	SNP	SMAD4	ENST00000342988	human	ensembl	74_37	+1	known	missense	c.1081	p.R361C	1.000	pfam_SMAD_dom_Dwarfin-type,superfamily_SMAD_FHA_domain,smart_SMAD_dom_Dwarfin-type,pfscan_SMAD_dom_Dwarfin-type	pfam_SMAD_dom_Dwarfin-type,pfam_MAD_homology1_Dwarfin-type,superfamily_SMAD_FHA_domain,superfamily_MAD_homology_MH1,smart_MAD_homology1_Dwarfin-type,smart_SMAD_dom_Dwarfin-type,pfscan_MAD_homology_MH1,pfscan_SMAD_dom_Dwarfin-type	-	no_errors	SMAD4	HGNC	ENSG00000141646				65	0	0	41	11	21.1538
PTPRM	0	genome.wustl.edu	37	18	8394585	8394585	+	Missense_Mutation	SNP	C	C	A			TCGA-BR-4279-01A-01D-1126-08	TCGA-BR-4279-11A-01D-1126-08	C	C					Unknown	Untested	Somatic	Phase_IV	WXS	none			Illumina HiSeq	ee907395-2e2f-471b-8840-f8b261a8c8f6	39c01fd0-41e5-402a-9060-6052f32ea50a	18	8394585	8394585	C	A	SNP	PTPRM	ENST00000400060	human	ensembl	74_37	+1	known	missense	c.4323	p.N1441K	1.000	pfam_Tyr_Pase_rcpt/non-rcpt,smart_Tyr_Pase_rcpt/non-rcpt,smart_Tyr_Pase_cat,pfscan_Tyr/Dual-sp_Pase,pfscan_Tyr_Pase_rcpt/non-rcpt	pfam_Tyr_Pase_rcpt/non-rcpt,pfam_MAM_dom,pfam_Fibronectin_type3,pfam_Immunoglobulin,superfamily_ConA-like_lec_gl_sf,superfamily_Fibronectin_type3,smart_MAM_dom,smart_Ig_sub,smart_Fibronectin_type3,smart_Tyr_Pase_rcpt/non-rcpt,smart_Tyr_Pase_cat,pfscan_Fibronectin_type3,pfscan_MAM_dom,pfscan_Tyr/Dual-sp_Pase,pfscan_Tyr_Pase_rcpt/non-rcpt,pfscan_Ig-like_dom,prints_Tyr_Pase_rcpt/non-rcpt,prints_MAM_dom	-	no_errors	PTPRM	HGNC	ENSG00000173482				47	0	0	35	5	12.5
MED26	0	genome.wustl.edu	37	19	16688410	16688410	+	Silent	SNP	C	C	T			TCGA-BR-4279-01A-01D-1126-08	TCGA-BR-4279-11A-01D-1126-08	C	C					Unknown	Untested	Somatic	Phase_IV	WXS	none			Illumina HiSeq	ee907395-2e2f-471b-8840-f8b261a8c8f6	39c01fd0-41e5-402a-9060-6052f32ea50a	19	16688410	16688410	C	T	SNP	MED26	ENST00000263390	human	ensembl	74_37	-1	known	silent	c.231	p.L77	0.998	pfam_TFIIS_N,superfamily_TFIIS_N,smart_TFIIS/CRSP70_N_sub	pfam_TFIIS_N,superfamily_TFIIS_N,smart_TFIIS/CRSP70_N_sub	-	no_errors	MED26	HGNC	ENSG00000105085				34	0	0	34	7	17.0732
GRWD1	0	genome.wustl.edu	37	19	48956279	48956279	+	Silent	SNP	C	C	A			TCGA-BR-4279-01A-01D-1126-08	TCGA-BR-4279-11A-01D-1126-08	C	C					Unknown	Untested	Somatic	Phase_IV	WXS	none			Illumina HiSeq	ee907395-2e2f-471b-8840-f8b261a8c8f6	39c01fd0-41e5-402a-9060-6052f32ea50a	19	48956279	48956279	C	A	SNP	GRWD1	ENST00000253237	human	ensembl	74_37	+1	known	silent	c.1338	p.V446	1.000	NULL	pfam_WD40_repeat,pfam_Histone-bd_RBBP4_N,superfamily_WD40_repeat_dom,smart_WD40_repeat,pfscan_WD40_repeat,pfscan_WD40_repeat_dom,prints_G-protein_beta_WD-40_rep	-	no_errors	GRWD1	HGNC	ENSG00000105447				41	0	0	31	3	8.82353
NAPSA	0	genome.wustl.edu	37	19	50864332	50864332	+	Silent	SNP	G	G	A			TCGA-BR-4279-01A-01D-1126-08	TCGA-BR-4279-11A-01D-1126-08	G	G					Unknown	Untested	Somatic	Phase_IV	WXS	none			Illumina HiSeq	ee907395-2e2f-471b-8840-f8b261a8c8f6	39c01fd0-41e5-402a-9060-6052f32ea50a	19	50864332	50864332	G	A	SNP	NAPSA	ENST00000253719	human	ensembl	74_37	-1	known	silent	c.534	p.F178	0.288	pfam_Aspartic_peptidase,superfamily_Peptidase_aspartic_dom	pfam_Aspartic_peptidase,superfamily_Peptidase_aspartic_dom,prints_Aspartic_peptidase	-	no_errors	NAPSA	HGNC	ENSG00000131400				134	0	0	92	21	18.5841
LILRA4	0	genome.wustl.edu	37	19	54848675	54848675	+	Silent	SNP	G	G	A			TCGA-BR-4279-01A-01D-1126-08	TCGA-BR-4279-11A-01D-1126-08	G	G					Unknown	Untested	Somatic	Phase_IV	WXS	none			Illumina HiSeq	ee907395-2e2f-471b-8840-f8b261a8c8f6	39c01fd0-41e5-402a-9060-6052f32ea50a	19	54848675	54848675	G	A	SNP	LILRA4	ENST00000291759	human	ensembl	74_37	-1	known	silent	c.948	p.I316	0.008	smart_Ig_sub,pirsf_A1B_glyco/leuk_Ig-like_rcpt	smart_Ig_sub,smart_Ig_sub2,pirsf_A1B_glyco/leuk_Ig-like_rcpt,pfscan_Ig-like_dom	-	no_errors	LILRA4	HGNC	ENSG00000239961				42	0	0	20	10	33.3333
USP29	0	genome.wustl.edu	37	19	57641825	57641825	+	Silent	SNP	C	C	T			TCGA-BR-4279-01A-01D-1126-08	TCGA-BR-4279-11A-01D-1126-08	C	C					Unknown	Untested	Somatic	Phase_IV	WXS	none			Illumina HiSeq	ee907395-2e2f-471b-8840-f8b261a8c8f6	39c01fd0-41e5-402a-9060-6052f32ea50a	19	57641825	57641825	C	T	SNP	USP29	ENST00000254181	human	ensembl	74_37	+1	known	silent	c.1782	p.P594	0.000	pfam_Peptidase_C19/C67,pfscan_Peptidase_C19/C67	pfam_Peptidase_C19/C67,pfscan_Peptidase_C19/C67	-	no_errors	USP29	HGNC	ENSG00000131864				77	0	0	64	13	16.8831
MUC16	0	genome.wustl.edu	37	19	9089753	9089753	+	Missense_Mutation	SNP	A	A	G			TCGA-BR-4279-01A-01D-1126-08	TCGA-BR-4279-11A-01D-1126-08	A	A					Unknown	Untested	Somatic	Phase_IV	WXS	none			Illumina HiSeq	ee907395-2e2f-471b-8840-f8b261a8c8f6	39c01fd0-41e5-402a-9060-6052f32ea50a	19	9089753	9089753	A	G	SNP	MUC16	ENST00000397910	human	ensembl	74_37	-1	known	missense	c.2062	p.S688P	0.002	NULL	pfam_SEA_dom,smart_SEA_dom,pfscan_SEA_dom	-	no_errors	MUC16	HGNC	ENSG00000181143				95	0	0	83	17	17
HS6ST1	0	genome.wustl.edu	37	2	129026419	129026419	+	Nonsense_Mutation	SNP	G	G	A			TCGA-BR-4279-01A-01D-1126-08	TCGA-BR-4279-11A-01D-1126-08	G	G					Unknown	Untested	Somatic	Phase_IV	WXS	none			Illumina HiSeq	ee907395-2e2f-471b-8840-f8b261a8c8f6	39c01fd0-41e5-402a-9060-6052f32ea50a	2	129026419	129026419	G	A	SNP	HS6ST1	ENST00000259241	human	ensembl	74_37	-1	known	nonsense	c.553	p.R185*	1.000	pfam_Sulfotransferase,superfamily_P-loop_NTPase	pfam_Sulfotransferase,superfamily_P-loop_NTPase	-	no_errors	HS6ST1	HGNC	ENSG00000136720				32	0	0	30	3	9.09091
LOC150776	0	genome.wustl.edu	37	2	132276254	132276254	+	RNA	SNP	A	A	G			TCGA-BR-4279-01A-01D-1126-08	TCGA-BR-4279-11A-01D-1126-08	A	A					Unknown	Untested	Somatic	Phase_IV	WXS	none			Illumina HiSeq	ee907395-2e2f-471b-8840-f8b261a8c8f6	39c01fd0-41e5-402a-9060-6052f32ea50a	2	132276254	132276254	A	G	SNP	LOC150776	ENST00000438378	human	ensembl	74_37	+1	known	rna	NULL	NULL	0.987	-	-	-	no_errors	AC093838.4	Clone_based_vega_gene	ENSG00000152117				9	0	0	12	7	36.8421
B3GNT7	0	genome.wustl.edu	37	2	232263406	232263406	+	Missense_Mutation	SNP	G	G	A			TCGA-BR-4279-01A-01D-1126-08	TCGA-BR-4279-11A-01D-1126-08	G	G					Unknown	Untested	Somatic	Phase_IV	WXS	none			Illumina HiSeq	ee907395-2e2f-471b-8840-f8b261a8c8f6	39c01fd0-41e5-402a-9060-6052f32ea50a	2	232263406	232263406	G	A	SNP	B3GNT7	ENST00000287590	human	ensembl	74_37	+1	known	missense	c.976	p.D326N	1.000	pfam_Glyco_trans_31,pfam_Fringe-like	pfam_Glyco_trans_31,pfam_Fringe-like	-	no_errors	B3GNT7	HGNC	ENSG00000156966				16	0	0	22	7	24.1379
HELZ2	0	genome.wustl.edu	37	20	62196078	62196078	+	Missense_Mutation	SNP	C	C	T			TCGA-BR-4279-01A-01D-1126-08	TCGA-BR-4279-11A-01D-1126-08	C	C					Unknown	Untested	Somatic	Phase_IV	WXS	none			Illumina HiSeq	ee907395-2e2f-471b-8840-f8b261a8c8f6	39c01fd0-41e5-402a-9060-6052f32ea50a	20	62196078	62196078	C	T	SNP	HELZ2	ENST00000467148	human	ensembl	74_37	-1	known	missense	c.4097	p.C1366Y	0.079	NULL	superfamily_P-loop_NTPase	-	no_errors	HELZ2	HGNC	ENSG00000130589				15	0	0	12	5	29.4118
CDC45	0	genome.wustl.edu	37	22	19492984	19492984	+	Silent	SNP	A	A	G			TCGA-BR-4279-01A-01D-1126-08	TCGA-BR-4279-11A-01D-1126-08	A	A					Unknown	Untested	Somatic	Phase_IV	WXS	none			Illumina HiSeq	ee907395-2e2f-471b-8840-f8b261a8c8f6	39c01fd0-41e5-402a-9060-6052f32ea50a	22	19492984	19492984	A	G	SNP	CDC45	ENST00000437685	human	ensembl	74_37	+1	known	silent	c.900	p.T300	0.439	pfam_CDC45	pfam_CDC45	-	no_errors	CDC45	HGNC	ENSG00000093009				47	0	0	47	10	17.5439
CRELD2	0	genome.wustl.edu	37	22	50316016	50316016	+	Missense_Mutation	SNP	G	G	A			TCGA-BR-4279-01A-01D-1126-08	TCGA-BR-4279-11A-01D-1126-08	G	G					Unknown	Untested	Somatic	Phase_IV	WXS	none			Illumina HiSeq	ee907395-2e2f-471b-8840-f8b261a8c8f6	39c01fd0-41e5-402a-9060-6052f32ea50a	22	50316016	50316016	G	A	SNP	CRELD2	ENST00000404488	human	ensembl	74_37	+1	known	missense	c.664	p.A222T	0.000	superfamily_Growth_fac_rcpt_N_dom	pfam_DUF3456,pfam_EGF-like_Ca-bd_dom,superfamily_Growth_fac_rcpt_N_dom,smart_EG-like_dom,smart_Furin_repeat,smart_EGF-like_Ca-bd_dom,pfscan_EG-like_dom	-	no_errors	CRELD2	HGNC	ENSG00000184164				15	0	0	17	3	15
DRD3	0	genome.wustl.edu	37	3	113858530	113858530	+	Silent	SNP	G	G	T			TCGA-BR-4279-01A-01D-1126-08	TCGA-BR-4279-11A-01D-1126-08	G	G					Unknown	Untested	Somatic	Phase_IV	WXS	none			Illumina HiSeq	ee907395-2e2f-471b-8840-f8b261a8c8f6	39c01fd0-41e5-402a-9060-6052f32ea50a	3	113858530	113858530	G	T	SNP	DRD3	ENST00000383673	human	ensembl	74_37	-1	known	silent	c.540	p.V180	1.000	pfam_GPCR_Rhodpsn,pfam_7TM_GPCR_olfarory/Srsx,pfam_7TM_GPCR_serpentine_rcpt_Srx,pfscan_GPCR_Rhodpsn_7TM	pfam_GPCR_Rhodpsn,pfam_7TM_GPCR_olfarory/Srsx,pfam_7TM_GPCR_serpentine_rcpt_Srx,pfscan_GPCR_Rhodpsn_7TM,prints_Dopamine_D3_rcpt,prints_GPCR_Rhodpsn,prints_Dopamine_rcpt	-	no_errors	DRD3	HGNC	ENSG00000151577				118	0	0	112	17	13.1783
SEMA5B	0	genome.wustl.edu	37	3	122680090	122680090	+	Silent	SNP	C	C	T			TCGA-BR-4279-01A-01D-1126-08	TCGA-BR-4279-11A-01D-1126-08	C	C					Unknown	Untested	Somatic	Phase_IV	WXS	none			Illumina HiSeq	ee907395-2e2f-471b-8840-f8b261a8c8f6	39c01fd0-41e5-402a-9060-6052f32ea50a	3	122680090	122680090	C	T	SNP	SEMA5B	ENST00000451055	human	ensembl	74_37	-1	known	silent	c.183	p.P61	0.000	NULL	pfam_Semap_dom,pfam_Thrombospondin_1_rpt,superfamily_Semap_dom,superfamily_Thrombospondin_1_rpt,superfamily_Plexin-like_fold,smart_Semap_dom,smart_Plexin-like_fold,smart_Thrombospondin_1_rpt,pfscan_Semap_dom,pfscan_Thrombospondin_1_rpt	-	no_errors	SEMA5B	HGNC	ENSG00000082684				32	0	0	23	5	17.8571
ZBTB38	0	genome.wustl.edu	37	3	141161551	141161551	+	Silent	SNP	C	C	T			TCGA-BR-4279-01A-01D-1126-08	TCGA-BR-4279-11A-01D-1126-08	C	C					Unknown	Untested	Somatic	Phase_IV	WXS	none			Illumina HiSeq	ee907395-2e2f-471b-8840-f8b261a8c8f6	39c01fd0-41e5-402a-9060-6052f32ea50a	3	141161551	141161551	C	T	SNP	ZBTB38	ENST00000321464	human	ensembl	74_37	+1	known	silent	c.324	p.L108	0.087	pfam_BTB_POZ,superfamily_BTB/POZ_fold,smart_BTB/POZ-like	pfam_BTB_POZ,pfam_Znf_C2H2,superfamily_BTB/POZ_fold,smart_BTB/POZ-like,smart_Znf_C2H2-like,pfscan_BTB/POZ-like,pfscan_Znf_C2H2	-	no_errors	ZBTB38	HGNC	ENSG00000177311				45	0	0	63	10	13.6986
COL7A1	0	genome.wustl.edu	37	3	48621022	48621022	+	Silent	SNP	G	G	A			TCGA-BR-4279-01A-01D-1126-08	TCGA-BR-4279-11A-01D-1126-08	G	G					Unknown	Untested	Somatic	Phase_IV	WXS	none			Illumina HiSeq	ee907395-2e2f-471b-8840-f8b261a8c8f6	39c01fd0-41e5-402a-9060-6052f32ea50a	3	48621022	48621022	G	A	SNP	COL7A1	ENST00000328333	human	ensembl	74_37	-1	known	silent	c.4368	p.G1456	0.993	NULL	pfam_Collagen,pfam_Fibronectin_type3,pfam_VWF_A,pfam_Prot_inh_Kunz-m,superfamily_Fibronectin_type3,superfamily_Prot_inh_Kunz-m,smart_VWF_A,smart_Fibronectin_type3,pfscan_Fibronectin_type3,pfscan_VWF_A,pfscan_Prot_inh_Kunz-m,prints_Prot_inh_Kunz-m	-	no_errors	COL7A1	HGNC	ENSG00000114270				34	0	0	27	6	18.1818
RXFP1	0	genome.wustl.edu	37	4	159560437	159560437	+	Missense_Mutation	SNP	A	A	G			TCGA-BR-4279-01A-01D-1126-08	TCGA-BR-4279-11A-01D-1126-08	A	A					Unknown	Untested	Somatic	Phase_IV	WXS	none			Illumina HiSeq	ee907395-2e2f-471b-8840-f8b261a8c8f6	39c01fd0-41e5-402a-9060-6052f32ea50a	4	159560437	159560437	A	G	SNP	RXFP1	ENST00000307765	human	ensembl	74_37	+1	known	missense	c.1069	p.N357D	1.000	smart_Leu-rich_rpt_typical-subtyp	pfam_GPCR_Rhodpsn,pfam_Leu-rich_rpt,pfam_LDrepeatLR_classA_rpt,superfamily_LDrepeatLR_classA_rpt,smart_LDrepeatLR_classA_rpt,smart_Leu-rich_rpt_typical-subtyp,pfscan_LDrepeatLR_classA_rpt,pfscan_GPCR_Rhodpsn_7TM,prints_Relaxin_rcpt,prints_GPCR_Rhodpsn,prints_Gphrmn_rcpt_fam	-	no_errors	RXFP1	HGNC	ENSG00000171509				36	0	0	34	5	12.8205
HSD17B4	0	genome.wustl.edu	37	5	118861675	118861675	+	Missense_Mutation	SNP	A	A	G			TCGA-BR-4279-01A-01D-1126-08	TCGA-BR-4279-11A-01D-1126-08	A	A					Unknown	Untested	Somatic	Phase_IV	WXS	none			Illumina HiSeq	ee907395-2e2f-471b-8840-f8b261a8c8f6	39c01fd0-41e5-402a-9060-6052f32ea50a	5	118861675	118861675	A	G	SNP	HSD17B4	ENST00000256216	human	ensembl	74_37	+1	known	missense	c.1637	p.Q546R	0.998	pfam_MaoC_dom	pfam_MaoC_dom,pfam_DH_sc/Rdtase_SDR,pfam_SCP2_sterol-bd_dom,pfam_PKS_KR,superfamily_SCP2_sterol-bd_dom,smart_PKS/FAS_KR,prints_Glc/ribitol_DH,prints_DH_sc/Rdtase_SDR,prints_DHB_DH	-	no_errors	HSD17B4	HGNC	ENSG00000133835				89	0	0	85	18	17.4757
PCDHGA7	0	genome.wustl.edu	37	5	140764604	140764604	+	Missense_Mutation	SNP	C	C	T			TCGA-BR-4279-01A-01D-1126-08	TCGA-BR-4279-11A-01D-1126-08	C	C					Unknown	Untested	Somatic	Phase_IV	WXS	none			Illumina HiSeq	ee907395-2e2f-471b-8840-f8b261a8c8f6	39c01fd0-41e5-402a-9060-6052f32ea50a	5	140764604	140764604	C	T	SNP	PCDHGA7	ENST00000518325	human	ensembl	74_37	+1	known	missense	c.2138	p.A713V	0.546	NULL	pfam_Cadherin,pfam_Cadherin_N,superfamily_Cadherin-like,smart_Cadherin,pfscan_Cadherin,prints_Cadherin	-	no_errors	PCDHGA7	HGNC	ENSG00000253537				62	0	0	63	13	17.1053
BDP1	0	genome.wustl.edu	37	5	70759924	70759924	+	Silent	SNP	G	G	A			TCGA-BR-4279-01A-01D-1126-08	TCGA-BR-4279-11A-01D-1126-08	G	G					Unknown	Untested	Somatic	Phase_IV	WXS	none			Illumina HiSeq	ee907395-2e2f-471b-8840-f8b261a8c8f6	39c01fd0-41e5-402a-9060-6052f32ea50a	5	70759924	70759924	G	A	SNP	BDP1	ENST00000358731	human	ensembl	74_37	+1	known	silent	c.639	p.S213	0.001	NULL	superfamily_Homeodomain-like,smart_SANT/Myb	-	no_errors	BDP1	HGNC	ENSG00000145734				46	0	0	36	4	10
ACOT12	0	genome.wustl.edu	37	5	80631636	80631636	+	Missense_Mutation	SNP	G	G	A			TCGA-BR-4279-01A-01D-1126-08	TCGA-BR-4279-11A-01D-1126-08	G	G					Unknown	Untested	Somatic	Phase_IV	WXS	none			Illumina HiSeq	ee907395-2e2f-471b-8840-f8b261a8c8f6	39c01fd0-41e5-402a-9060-6052f32ea50a	5	80631636	80631636	G	A	SNP	ACOT12	ENST00000307624	human	ensembl	74_37	-1	known	missense	c.1213	p.R405C	0.015	pfam_START_lipid-bd_dom,pfscan_START_lipid-bd_dom	pfam_Thioestr_supf,pfam_START_lipid-bd_dom,pfscan_START_lipid-bd_dom	-	no_errors	ACOT12	HGNC	ENSG00000172497				101	0	0	88	19	17.757
SYNE1	0	genome.wustl.edu	37	6	152631075	152631075	+	Silent	SNP	G	G	A			TCGA-BR-4279-01A-01D-1126-08	TCGA-BR-4279-11A-01D-1126-08	G	G					Unknown	Untested	Somatic	Phase_IV	WXS	none			Illumina HiSeq	ee907395-2e2f-471b-8840-f8b261a8c8f6	39c01fd0-41e5-402a-9060-6052f32ea50a	6	152631075	152631075	G	A	SNP	SYNE1	ENST00000265368	human	ensembl	74_37	-1	known	silent	c.17097	p.P5699	0.026	superfamily_Calpain_domain_III,superfamily_ABC1_TM_dom,smart_Spectrin/alpha-actinin	pfam_Spectrin_repeat,pfam_CH-domain,pfam_KASH,superfamily_CH-domain,superfamily_Calpain_domain_III,superfamily_ABC1_TM_dom,smart_CH-domain,smart_Spectrin/alpha-actinin,pfscan_CH-domain,pfscan_KASH	-	no_errors	SYNE1	HGNC	ENSG00000131018				25	0	0	30	6	16.6667
LPA	0	genome.wustl.edu	37	6	161015130	161015130	+	Silent	SNP	G	G	A			TCGA-BR-4279-01A-01D-1126-08	TCGA-BR-4279-11A-01D-1126-08	G	G					Unknown	Untested	Somatic	Phase_IV	WXS	none			Illumina HiSeq	ee907395-2e2f-471b-8840-f8b261a8c8f6	39c01fd0-41e5-402a-9060-6052f32ea50a	6	161015130	161015130	G	A	SNP	LPA	ENST00000316300	human	ensembl	74_37	-1	known	silent	c.3489	p.P1163	0.268	superfamily_Kringle-like	pfam_Kringle,pfam_Peptidase_S1,pfam_Peptidase_S1A_nudel,superfamily_Trypsin-like_Pept_dom,superfamily_Kringle-like,smart_Kringle,smart_Peptidase_S1,prints_Peptidase_S1A,pfscan_Kringle,pfscan_Peptidase_S1	-	no_errors	LPA	HGNC	ENSG00000198670				99	0	0	95	20	17.3913
HSPA1L	0	genome.wustl.edu	37	6	31779057	31779057	+	Silent	SNP	A	A	G			TCGA-BR-4279-01A-01D-1126-08	TCGA-BR-4279-11A-01D-1126-08	A	A					Unknown	Untested	Somatic	Phase_IV	WXS	none			Illumina HiSeq	ee907395-2e2f-471b-8840-f8b261a8c8f6	39c01fd0-41e5-402a-9060-6052f32ea50a	6	31779057	31779057	A	G	SNP	HSPA1L	ENST00000375654	human	ensembl	74_37	-1	known	silent	c.693	p.G231	0.444	pfam_Hsp_70_fam,pfam_MreB_Mrl	pfam_Hsp_70_fam,pfam_MreB_Mrl,prints_Hsp_70_fam	-	no_errors	HSPA1L	HGNC	ENSG00000204390				85	0	0	85	15	15
KIFC1	0	genome.wustl.edu	37	6	33372771	33372771	+	Missense_Mutation	SNP	T	T	G			TCGA-BR-4279-01A-01D-1126-08	TCGA-BR-4279-11A-01D-1126-08	T	T					Unknown	Untested	Somatic	Phase_IV	WXS	none			Illumina HiSeq	ee907395-2e2f-471b-8840-f8b261a8c8f6	39c01fd0-41e5-402a-9060-6052f32ea50a	6	33372771	33372771	T	G	SNP	KIFC1	ENST00000428849	human	ensembl	74_37	+1	known	missense	c.899	p.L300R	0.986	superfamily_P-loop_NTPase	pfam_Kinesin_motor_dom,superfamily_P-loop_NTPase,smart_Kinesin_motor_dom,pfscan_Kinesin_motor_dom,prints_Kinesin_motor_dom	-	no_errors	KIFC1	HGNC	ENSG00000237649				74	0	0	63	10	13.6986
RIMS1	0	genome.wustl.edu	37	6	73102406	73102406	+	Missense_Mutation	SNP	A	A	G			TCGA-BR-4279-01A-01D-1126-08	TCGA-BR-4279-11A-01D-1126-08	A	A					Unknown	Untested	Somatic	Phase_IV	WXS	none			Illumina HiSeq	ee907395-2e2f-471b-8840-f8b261a8c8f6	39c01fd0-41e5-402a-9060-6052f32ea50a	6	73102406	73102406	A	G	SNP	RIMS1	ENST00000521978	human	ensembl	74_37	+1	known	missense	c.4512	p.I1504M	1.000	NULL	pfam_C2_dom,pfam_PDZ,superfamily_C2_dom,superfamily_Znf_FYVE_PHD,superfamily_PDZ,smart_PDZ,smart_C2_dom,pfscan_C2_dom,pfscan_PDZ,pfscan_Znf_FYVE-typ,pfscan_Znf_FYVE-rel	-	no_errors	RIMS1	HGNC	ENSG00000079841				56	0	0	34	12	26.087
TOP1MT	0	genome.wustl.edu	37	8	144400005	144400005	+	Silent	SNP	C	C	T			TCGA-BR-4279-01A-01D-1126-08	TCGA-BR-4279-11A-01D-1126-08	C	C					Unknown	Untested	Somatic	Phase_IV	WXS	none			Illumina HiSeq	ee907395-2e2f-471b-8840-f8b261a8c8f6	39c01fd0-41e5-402a-9060-6052f32ea50a	8	144400005	144400005	C	T	SNP	TOP1MT	ENST00000329245	human	ensembl	74_37	-1	known	silent	c.1218	p.T406	0.002	pfam_TopoI_cat_euk,superfamily_DNA_brk_join_enz,smart_TopoI_euk	pfam_TopoI_DNA-bd_euk,pfam_TopoI_cat_euk,superfamily_TopoI_DNA-bd_euk,superfamily_DNA_brk_join_enz,smart_TopoI_euk,prints_TopoI	-	no_errors	TOP1MT	HGNC	ENSG00000184428				25	0	0	19	5	20.8333
C8orf58	0	genome.wustl.edu	37	8	22458519	22458519	+	Silent	SNP	C	C	T			TCGA-BR-4279-01A-01D-1126-08	TCGA-BR-4279-11A-01D-1126-08	C	C					Unknown	Untested	Somatic	Phase_IV	WXS	none			Illumina HiSeq	ee907395-2e2f-471b-8840-f8b261a8c8f6	39c01fd0-41e5-402a-9060-6052f32ea50a	8	22458519	22458519	C	T	SNP	C8orf58	ENST00000289989	human	ensembl	74_37	+1	known	silent	c.165	p.V55	0.000	NULL	NULL	-	no_errors	C8orf58	HGNC	ENSG00000241852				34	0	0	31	6	16.2162
ENTPD4	0	genome.wustl.edu	37	8	23305223	23305223	+	Nonsense_Mutation	SNP	G	G	A			TCGA-BR-4279-01A-01D-1126-08	TCGA-BR-4279-11A-01D-1126-08	G	G					Unknown	Untested	Somatic	Phase_IV	WXS	none			Illumina HiSeq	ee907395-2e2f-471b-8840-f8b261a8c8f6	39c01fd0-41e5-402a-9060-6052f32ea50a	8	23305223	23305223	G	A	SNP	ENTPD4	ENST00000358689	human	ensembl	74_37	-1	known	nonsense	c.382	p.R128*	1.000	pfam_GDA1_CD39_NTPase	pfam_GDA1_CD39_NTPase	-	no_errors	ENTPD4	HGNC	ENSG00000197217				206	0	0	161	45	21.8447
KIF13B	0	genome.wustl.edu	37	8	28999695	28999695	+	Silent	SNP	T	T	C			TCGA-BR-4279-01A-01D-1126-08	TCGA-BR-4279-11A-01D-1126-08	T	T					Unknown	Untested	Somatic	Phase_IV	WXS	none			Illumina HiSeq	ee907395-2e2f-471b-8840-f8b261a8c8f6	39c01fd0-41e5-402a-9060-6052f32ea50a	8	28999695	28999695	T	C	SNP	KIF13B	ENST00000524189	human	ensembl	74_37	-1	known	silent	c.2313	p.K771	0.980	pfam_KIF1B	pfam_Kinesin_motor_dom,pfam_Kinesin-like,pfam_CAP-Gly_domain,pfam_KIF1B,pfam_FHA_dom,superfamily_P-loop_NTPase,superfamily_CAP-Gly_domain,superfamily_SMAD_FHA_domain,smart_Kinesin_motor_dom,pfscan_CAP-Gly_domain,pfscan_Kinesin_motor_dom,prints_Kinesin_motor_dom	-	no_errors	KIF13B	HGNC	ENSG00000197892				68	0	0	55	14	20.2899
AP3M2	0	genome.wustl.edu	37	8	42012282	42012282	+	Missense_Mutation	SNP	G	G	A			TCGA-BR-4279-01A-01D-1126-08	TCGA-BR-4279-11A-01D-1126-08	G	G					Unknown	Untested	Somatic	Phase_IV	WXS	none			Illumina HiSeq	ee907395-2e2f-471b-8840-f8b261a8c8f6	39c01fd0-41e5-402a-9060-6052f32ea50a	8	42012282	42012282	G	A	SNP	AP3M2	ENST00000174653	human	ensembl	74_37	+1	known	missense	c.77	p.R26H	1.000	pfam_AP_mu_sigma_su,superfamily_Longin-like_dom,pirsf_Clathrin_mu,prints_Clathrin_mu	pfam_Clathrin_mu_C,pfam_AP_mu_sigma_su,superfamily_Clathrin_mu_C,superfamily_Longin-like_dom,pirsf_Clathrin_mu,pfscan_Clathrin_mu_C,prints_Clathrin_mu	-	no_errors	AP3M2	HGNC	ENSG00000070718				63	0	0	47	6	11.3208
PAPPA	0	genome.wustl.edu	37	9	118950313	118950313	+	Silent	SNP	G	G	C			TCGA-BR-4279-01A-01D-1126-08	TCGA-BR-4279-11A-01D-1126-08	G	G					Unknown	Untested	Somatic	Phase_IV	WXS	none			Illumina HiSeq	ee907395-2e2f-471b-8840-f8b261a8c8f6	39c01fd0-41e5-402a-9060-6052f32ea50a	9	118950313	118950313	G	C	SNP	PAPPA	ENST00000328252	human	ensembl	74_37	+1	known	silent	c.1296	p.L432	1.000	pfam_Notch_dom,smart_Notch_dom	pfam_Sushi_SCR_CCP,pfam_Notch_dom,pfam_Peptidase_M43,superfamily_ConA-like_lec_gl_sf,superfamily_Sushi_SCR_CCP,superfamily_Fibronectin_type3,superfamily_Notch_dom,smart_LamG-like,smart_Notch_dom,smart_Sushi_SCR_CCP,pfscan_Sushi_SCR_CCP,tigrfam_Myxo_disulph_rpt	-	no_errors	PAPPA	HGNC	ENSG00000182752				40	0	0	32	3	8.57143
GPSM1	0	genome.wustl.edu	37	9	139250955	139250955	+	Missense_Mutation	SNP	C	C	A			TCGA-BR-4279-01A-01D-1126-08	TCGA-BR-4279-11A-01D-1126-08	C	C					Unknown	Untested	Somatic	Phase_IV	WXS	none			Illumina HiSeq	ee907395-2e2f-471b-8840-f8b261a8c8f6	39c01fd0-41e5-402a-9060-6052f32ea50a	9	139250955	139250955	C	A	SNP	GPSM1	ENST00000440944	human	ensembl	74_37	+1	known	missense	c.1774	p.P592T	0.988	NULL	pfam_GoLoco_motif,pfam_TPR_1,smart_TPR_repeat,smart_GoLoco_motif,pfscan_GoLoco_motif,pfscan_TPR_repeat,pfscan_TPR-contain_dom	-	no_errors	GPSM1	HGNC	ENSG00000160360				24	0	0	13	5	27.7778
CER1	0	genome.wustl.edu	37	9	14720137	14720137	+	Missense_Mutation	SNP	A	A	G			TCGA-BR-4279-01A-01D-1126-08	TCGA-BR-4279-11A-01D-1126-08	A	A					Unknown	Untested	Somatic	Phase_IV	WXS	none			Illumina HiSeq	ee907395-2e2f-471b-8840-f8b261a8c8f6	39c01fd0-41e5-402a-9060-6052f32ea50a	9	14720137	14720137	A	G	SNP	CER1	ENST00000380911	human	ensembl	74_37	-1	known	missense	c.755	p.I252T	0.001	pfam_Cys_knot,pirsf_Cerberus	pfam_DAN,pfam_Cys_knot,smart_Cys_knot_C,pirsf_Cerberus,pfscan_Cys_knot_C	-	no_errors	CER1	HGNC	ENSG00000147869				63	0	0	59	14	19.1781
PTENP1	0	genome.wustl.edu	37	9	33675588	33675588	+	RNA	SNP	C	C	T			TCGA-BR-4279-01A-01D-1126-08	TCGA-BR-4279-11A-01D-1126-08	C	C					Unknown	Untested	Somatic	Phase_IV	WXS	none			Illumina HiSeq	ee907395-2e2f-471b-8840-f8b261a8c8f6	39c01fd0-41e5-402a-9060-6052f32ea50a	9	33675588	33675588	C	T	SNP	PTENP1	ENST00000532280	human	ensembl	74_37	-1	known	rna	NULL	NULL	0.993	-	-	-	no_errors	PTENP1	HGNC	ENSG00000237984				49	0	0	40	8	16.6667
AK3	0	genome.wustl.edu	37	9	4712977	4712977	+	Nonstop_Mutation	SNP	C	C	G			TCGA-BR-4279-01A-01D-1126-08	TCGA-BR-4279-11A-01D-1126-08	C	C					Unknown	Untested	Somatic	Phase_IV	WXS	none			Illumina HiSeq	ee907395-2e2f-471b-8840-f8b261a8c8f6	39c01fd0-41e5-402a-9060-6052f32ea50a	9	4712977	4712977	C	G	SNP	AK3	ENST00000381809	human	ensembl	74_37	-1	known	nonstop	c.683	p.*228S	0.495	NULL	pfam_Adenylate_kin,pfam_Adenylate_kinase_lid-dom,superfamily_P-loop_NTPase,superfamily_Adenylate_kinase_lid-dom,prints_Adenylate_kin,tigrfam_Adenyl_kin_sub	-	no_errors	AK3	HGNC	ENSG00000147853				73	0	0	54	9	14.2857
LOC100996870	0	genome.wustl.edu	37	9	66465815	66465815	+	RNA	SNP	C	C	T			TCGA-BR-4279-01A-01D-1126-08	TCGA-BR-4279-11A-01D-1126-08	C	C					Unknown	Untested	Somatic	Phase_IV	WXS	none			Illumina HiSeq	ee907395-2e2f-471b-8840-f8b261a8c8f6	39c01fd0-41e5-402a-9060-6052f32ea50a	9	66465815	66465815	C	T	SNP	LOC100996870	ENST00000424345	human	ensembl	74_37	+1	known	rna	NULL	NULL	0.146	-	-	-	no_errors	RP11-262H14.1	Clone_based_vega_gene	ENSG00000238113				14	0	0	14	5	26.3158
LOC100996870	0	genome.wustl.edu	37	9	66466197	66466197	+	RNA	SNP	T	T	A			TCGA-BR-4279-01A-01D-1126-08	TCGA-BR-4279-11A-01D-1126-08	T	T					Unknown	Untested	Somatic	Phase_IV	WXS	none			Illumina HiSeq	ee907395-2e2f-471b-8840-f8b261a8c8f6	39c01fd0-41e5-402a-9060-6052f32ea50a	9	66466197	66466197	T	A	SNP	LOC100996870	ENST00000424345	human	ensembl	74_37	+1	known	rna	NULL	NULL	0.165	-	-	-	no_errors	RP11-262H14.1	Clone_based_vega_gene	ENSG00000238113				32	0	0	43	3	6.52174
L1CAM	0	genome.wustl.edu	37	X	153129907	153129907	+	Silent	SNP	C	C	T			TCGA-BR-4279-01A-01D-1126-08	TCGA-BR-4279-11A-01D-1126-08	C	C					Unknown	Untested	Somatic	Phase_IV	WXS	none			Illumina HiSeq	ee907395-2e2f-471b-8840-f8b261a8c8f6	39c01fd0-41e5-402a-9060-6052f32ea50a	X	153129907	153129907	C	T	SNP	L1CAM	ENST00000543994	human	ensembl	74_37	-1	known	silent	c.3198	p.S1066	0.000	superfamily_Fibronectin_type3	pfam_Ig_I-set,pfam_Fibronectin_type3,pfam_Immunoglobulin,superfamily_Fibronectin_type3,smart_Ig_sub,smart_Ig_sub2,smart_Fibronectin_type3,pfscan_Fibronectin_type3,pfscan_Ig-like_dom	-	no_errors	L1CAM	HGNC	ENSG00000198910				55	0	0	51	26	33.7662
ASH1L	0	genome.wustl.edu	37	1	155451842	155451843	+	Frame_Shift_Ins	INS	-	-	T			TCGA-BR-4279-01A-01D-1126-08	TCGA-BR-4279-11A-01D-1126-08	-	-					Unknown	Untested	Somatic	Phase_IV	WXS	none			Illumina HiSeq	ee907395-2e2f-471b-8840-f8b261a8c8f6	39c01fd0-41e5-402a-9060-6052f32ea50a	1	155451842	155451843	-	T	INS	ASH1L	ENST00000368346	human	ensembl	74_37	-1	known	frame_shift_ins	c.819_818	p.P274fs	0.944:0.998	NULL	pfam_SET_dom,pfam_BAH_dom,pfam_Bromodomain,pfam_Znf_PHD-finger,superfamily_Bromodomain,superfamily_Znf_FYVE_PHD,smart_AT_hook_DNA-bd_motif,smart_AWS,smart_SET_dom,smart_Bromodomain,smart_Znf_PHD,smart_BAH_dom,pfscan_AWS,pfscan_BAH_dom,pfscan_SET_dom,pfscan_Post-SET_dom,pfscan_Bromodomain	-	no_errors	ASH1L	HGNC	ENSG00000116539				105	0	0	82	20	19.6078
INPPL1	0	genome.wustl.edu	37	11	71948209	71948209	+	Frame_Shift_Del	DEL	C	C	-			TCGA-BR-4279-01A-01D-1126-08	TCGA-BR-4279-11A-01D-1126-08	C	C					Unknown	Untested	Somatic	Phase_IV	WXS	none			Illumina HiSeq	ee907395-2e2f-471b-8840-f8b261a8c8f6	39c01fd0-41e5-402a-9060-6052f32ea50a	11	71948209	71948209	C	-	DEL	INPPL1	ENST00000298229	human	ensembl	74_37	+1	known	frame_shift_del	c.2921	p.P976fs	0.066	NULL	pfam_Endo/exonuclease/phosphatase,pfam_SH2,pfam_SAM_2,pfam_SAM_type1,superfamily_Endo/exonuclease/phosphatase,superfamily_SAM/pointed,smart_SH2,smart_IPPc,smart_SAM,pfscan_SAM,pfscan_SH2,prints_SH2	-	no_errors	INPPL1	HGNC	ENSG00000165458				55	0	0	58	15	20.5479
MON2	0	genome.wustl.edu	37	12	62954432	62954433	+	Frame_Shift_Del	DEL	GT	GT	-			TCGA-BR-4279-01A-01D-1126-08	TCGA-BR-4279-11A-01D-1126-08	GT	GT					Unknown	Untested	Somatic	Phase_IV	WXS	none			Illumina HiSeq	ee907395-2e2f-471b-8840-f8b261a8c8f6	39c01fd0-41e5-402a-9060-6052f32ea50a	12	62954432	62954433	GT	-	DEL	MON2	ENST00000393630	human	ensembl	74_37	+1	known	frame_shift_del	c.3574_3575	p.V1192fs	0.976:0.977	superfamily_ARM-type_fold	pfam_DUF1981_Sec7_assoc,superfamily_ARM-type_fold	-	no_errors	MON2	HGNC	ENSG00000061987				74	0	0	66	11	14.2857
SPATA3	0	genome.wustl.edu	37	2	231861033	231861059	+	In_Frame_Del	DEL	CAGCAGCCTAGCCCTGAATCCACACCA	CAGCAGCCTAGCCCTGAATCCACACCA	-			TCGA-BR-4279-01A-01D-1126-08	TCGA-BR-4279-11A-01D-1126-08	CAGCAGCCTAGCCCTGAATCCACACCA	CAGCAGCCTAGCCCTGAATCCACACCA					Unknown	Untested	Somatic	Phase_IV	WXS	none			Illumina HiSeq	ee907395-2e2f-471b-8840-f8b261a8c8f6	39c01fd0-41e5-402a-9060-6052f32ea50a	2	231861033	231861059	CAGCAGCCTAGCCCTGAATCCACACCA	-	DEL	SPATA3	ENST00000424440	human	ensembl	74_37	+1	known	in_frame_del	c.85_111	p.SPESTPQQP32in_frame_del	0.001:0.000:0.000:0.002:0.020:0.041:0.034:0.035:0.032:0.078:0.079:0.009:0.000:0.000:0.000:0.001:0.000:0.000:0.000:0.001:0.002:0.000:0.000:0.000:0.000:0.002:0.000	NULL	NULL	-	no_errors	SPATA3	HGNC	ENSG00000173699				16	0	0	15	13	46.4286
BRWD1	0	genome.wustl.edu	37	21	40587280	40587280	+	Frame_Shift_Del	DEL	G	G	-			TCGA-BR-4279-01A-01D-1126-08	TCGA-BR-4279-11A-01D-1126-08	G	G					Unknown	Untested	Somatic	Phase_IV	WXS	none			Illumina HiSeq	ee907395-2e2f-471b-8840-f8b261a8c8f6	39c01fd0-41e5-402a-9060-6052f32ea50a	21	40587280	40587280	G	-	DEL	BRWD1	ENST00000333229	human	ensembl	74_37	-1	known	frame_shift_del	c.3668	p.S1223fs	1.000	pfam_Bromodomain,superfamily_Bromodomain,smart_Bromodomain,pfscan_Bromodomain	pfam_WD40_repeat,pfam_Bromodomain,superfamily_WD40_repeat_dom,superfamily_Bromodomain,smart_WD40_repeat,smart_Bromodomain,pfscan_Bromodomain,pfscan_WD40_repeat,pfscan_WD40_repeat_dom,prints_Bromodomain	-	no_errors	BRWD1	HGNC	ENSG00000185658				68	0	0	80	6	6.97674
RRH	0	genome.wustl.edu	37	4	110756540	110756541	+	Frame_Shift_Ins	INS	-	-	T			TCGA-BR-4279-01A-01D-1126-08	TCGA-BR-4279-11A-01D-1126-08	-	-					Unknown	Untested	Somatic	Phase_IV	WXS	none			Illumina HiSeq	ee907395-2e2f-471b-8840-f8b261a8c8f6	39c01fd0-41e5-402a-9060-6052f32ea50a	4	110756540	110756541	-	T	INS	RRH	ENST00000317735	human	ensembl	74_37	+1	known	frame_shift_ins	c.316_317	p.G109fs	1.000:1.000	pfam_GPCR_Rhodpsn,pfam_7TM_GPCR_olfarory/Srsx,pfscan_GPCR_Rhodpsn_7TM,prints_Peropsin,prints_GPCR_Rhodpsn	pfam_GPCR_Rhodpsn,pfam_7TM_GPCR_olfarory/Srsx,pfscan_GPCR_Rhodpsn_7TM,prints_Peropsin,prints_GPCR_Rhodpsn	-	no_errors	RRH	HGNC	ENSG00000180245				78	0	0	91	5	5.20833
