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
FLG2	0	genome.wustl.edu	37	1	152327972	152327972	+	Missense_Mutation	SNP	T	T	C			TCGA-BR-A4J5-01A-21D-A25D-08	TCGA-BR-A4J5-10A-01D-A25E-08	T	T					Unknown	Untested	Somatic	Phase_IV	WXS	none			Illumina HiSeq	7b148cca-4cd0-4de6-9d42-c7e547a95b72	1fa30850-4b3d-41f4-9dc8-7227d3a617ed	1	152327972	152327972	T	C	SNP	FLG2	ENST00000388718	human	ensembl	74_37	-1	known	missense	c.2290	p.R764G	0.003	NULL	pfam_S100_Ca-bd_sub,pfscan_EF_hand_dom,prints_Filaggrin	-	no_errors	FLG2	HGNC	ENSG00000143520				430	0	0	474	50	9.54198
PKLR	0	genome.wustl.edu	37	1	155264449	155264449	+	Silent	SNP	C	C	G			TCGA-BR-A4J5-01A-21D-A25D-08	TCGA-BR-A4J5-10A-01D-A25E-08	C	C					Unknown	Untested	Somatic	Phase_IV	WXS	none			Illumina HiSeq	7b148cca-4cd0-4de6-9d42-c7e547a95b72	1fa30850-4b3d-41f4-9dc8-7227d3a617ed	1	155264449	155264449	C	G	SNP	PKLR	ENST00000342741	human	ensembl	74_37	-1	known	silent	c.789	p.G263	0.819	pfam_Pyrv_Knase_brl,superfamily_Pyrv/PenolPyrv_Kinase-like_dom,tigrfam_Pyr_Knase	pfam_Pyrv_Knase_brl,pfam_Pyrv_Knase_C,superfamily_Pyrv/PenolPyrv_Kinase-like_dom,superfamily_Pyrv_Knase_C,superfamily_Pyrv_Knase-like_insert_dom,prints_Pyr_Knase,tigrfam_Pyr_Knase	-	no_errors	PKLR	HGNC	ENSG00000143627				66	0	0	68	6	8.10811
FCRL1	0	genome.wustl.edu	37	1	157771300	157771300	+	Silent	SNP	A	A	C			TCGA-BR-A4J5-01A-21D-A25D-08	TCGA-BR-A4J5-10A-01D-A25E-08	A	A					Unknown	Untested	Somatic	Phase_IV	WXS	none			Illumina HiSeq	7b148cca-4cd0-4de6-9d42-c7e547a95b72	1fa30850-4b3d-41f4-9dc8-7227d3a617ed	1	157771300	157771300	A	C	SNP	FCRL1	ENST00000368176	human	ensembl	74_37	-1	known	silent	c.954	p.G318	0.000	NULL	pfam_Ig_I-set,smart_Ig_sub,smart_Ig_sub2,pfscan_Ig-like_dom	-	no_errors	FCRL1	HGNC	ENSG00000163534				88	0	0	77	9	10.4651
SDHC	0	genome.wustl.edu	37	1	161332163	161332163	+	Missense_Mutation	SNP	G	G	T			TCGA-BR-A4J5-01A-21D-A25D-08	TCGA-BR-A4J5-10A-01D-A25E-08	G	G					Unknown	Untested	Somatic	Phase_IV	WXS	none			Illumina HiSeq	7b148cca-4cd0-4de6-9d42-c7e547a95b72	1fa30850-4b3d-41f4-9dc8-7227d3a617ed	1	161332163	161332163	G	T	SNP	SDHC	ENST00000367975	human	ensembl	74_37	+1	known	missense	c.450	p.Q150H	1.000	pfam_Succ_DH_Fumarate_Rdtase_TM-su,pirsf_Succ_DH_cytb560,tigrfam_Succ_DH_cytb556	pfam_Succ_DH_Fumarate_Rdtase_TM-su,pirsf_Succ_DH_cytb560,tigrfam_Succ_DH_cytb556	-	no_errors	SDHC	HGNC	ENSG00000143252				24	0	0	27	7	20.5882
FASLG	0	genome.wustl.edu	37	1	172635150	172635150	+	Silent	SNP	G	G	A			TCGA-BR-A4J5-01A-21D-A25D-08	TCGA-BR-A4J5-10A-01D-A25E-08	G	G					Unknown	Untested	Somatic	Phase_IV	WXS	none			Illumina HiSeq	7b148cca-4cd0-4de6-9d42-c7e547a95b72	1fa30850-4b3d-41f4-9dc8-7227d3a617ed	1	172635150	172635150	G	A	SNP	FASLG	ENST00000367721	human	ensembl	74_37	+1	known	silent	c.840	p.K280	0.993	pfam_TNF_dom,superfamily_Tumour_necrosis_fac-like_dom,smart_TNF_dom,pfscan_TNF_dom,prints_TNF	pfam_TNF_dom,superfamily_Tumour_necrosis_fac-like_dom,smart_TNF_dom,pfscan_TNF_dom,prints_FASL,prints_TNF,prints_TNF_C	-	no_errors	FASLG	HGNC	ENSG00000117560				40	0	0	56	14	20
ASTN1	0	genome.wustl.edu	37	1	177000071	177000071	+	Missense_Mutation	SNP	G	G	T			TCGA-BR-A4J5-01A-21D-A25D-08	TCGA-BR-A4J5-10A-01D-A25E-08	G	G					Unknown	Untested	Somatic	Phase_IV	WXS	none			Illumina HiSeq	7b148cca-4cd0-4de6-9d42-c7e547a95b72	1fa30850-4b3d-41f4-9dc8-7227d3a617ed	1	177000071	177000071	G	T	SNP	ASTN1	ENST00000367654	human	ensembl	74_37	-1	known	missense	c.883	p.L295M	1.000	NULL	superfamily_Fibronectin_type3,smart_EG-like_dom,smart_MACPF,pfscan_Fibronectin_type3	-	no_errors	ASTN1	HGNC	ENSG00000152092				52	0	0	58	4	6.45161
BRINP3	0	genome.wustl.edu	37	1	190067860	190067860	+	Missense_Mutation	SNP	C	C	T			TCGA-BR-A4J5-01A-21D-A25D-08	TCGA-BR-A4J5-10A-01D-A25E-08	C	C					Unknown	Untested	Somatic	Phase_IV	WXS	none			Illumina HiSeq	7b148cca-4cd0-4de6-9d42-c7e547a95b72	1fa30850-4b3d-41f4-9dc8-7227d3a617ed	1	190067860	190067860	C	T	SNP	BRINP3	ENST00000367462	human	ensembl	74_37	-1	known	missense	c.1589	p.R530H	0.999	NULL	pfam_MACPF,smart_MACPF	-	no_errors	BRINP3	HGNC	ENSG00000162670				99	0	0	149	9	5.6962
EPHB2	0	genome.wustl.edu	37	1	23236928	23236928	+	Silent	SNP	G	G	T			TCGA-BR-A4J5-01A-21D-A25D-08	TCGA-BR-A4J5-10A-01D-A25E-08	G	G					Unknown	Untested	Somatic	Phase_IV	WXS	none			Illumina HiSeq	7b148cca-4cd0-4de6-9d42-c7e547a95b72	1fa30850-4b3d-41f4-9dc8-7227d3a617ed	1	23236928	23236928	G	T	SNP	EPHB2	ENST00000400191	human	ensembl	74_37	+1	known	silent	c.2556	p.P852	0.003	pirsf_Tyr_kinase_ephrin_rcpt,pfam_Ser-Thr/Tyr_kinase_cat_dom,pfam_Prot_kinase_dom,superfamily_Kinase-like_dom,smart_Ser/Thr_dual-sp_kinase_dom,smart_Tyr_kinase_cat_dom,pfscan_Prot_kinase_dom,prints_Ser-Thr/Tyr_kinase_cat_dom	pirsf_Tyr_kinase_ephrin_rcpt,pfam_Ser-Thr/Tyr_kinase_cat_dom,pfam_Ephrin_rcpt_lig-bd_dom,pfam_Prot_kinase_dom,pfam_Fibronectin_type3,pfam_SAM_type1,pfam_SAM_2,pfam_Tyr-kin_ephrin_A/B_rcpt-like,superfamily_Galactose-bd-like,superfamily_Kinase-like_dom,superfamily_Fibronectin_type3,superfamily_SAM/pointed,superfamily_Growth_fac_rcpt_N_dom,smart_Ephrin_rcpt_lig-bd_dom,smart_Fibronectin_type3,smart_Ser/Thr_dual-sp_kinase_dom,smart_Tyr_kinase_cat_dom,smart_SAM,pfscan_Fibronectin_type3,pfscan_SAM,pfscan_Prot_kinase_dom,prints_Ser-Thr/Tyr_kinase_cat_dom	-	no_errors	EPHB2	HGNC	ENSG00000133216				124	0	0	72	12	14.2857
PLD5	0	genome.wustl.edu	37	1	242287878	242287878	+	Missense_Mutation	SNP	G	G	T			TCGA-BR-A4J5-01A-21D-A25D-08	TCGA-BR-A4J5-10A-01D-A25E-08	G	G					Unknown	Untested	Somatic	Phase_IV	WXS	none			Illumina HiSeq	7b148cca-4cd0-4de6-9d42-c7e547a95b72	1fa30850-4b3d-41f4-9dc8-7227d3a617ed	1	242287878	242287878	G	T	SNP	PLD5	ENST00000536534	human	ensembl	74_37	-1	known	missense	c.825	p.F275L	1.000	NULL	smart_PLipase_D/transphosphatidylase	-	no_errors	PLD5	HGNC	ENSG00000180287				56	0	0	62	21	25.3012
ARID1A	0	genome.wustl.edu	37	1	27057796	27057796	+	Nonsense_Mutation	SNP	C	C	T			TCGA-BR-A4J5-01A-21D-A25D-08	TCGA-BR-A4J5-10A-01D-A25E-08	C	C					Unknown	Untested	Somatic	Phase_IV	WXS	none			Illumina HiSeq	7b148cca-4cd0-4de6-9d42-c7e547a95b72	1fa30850-4b3d-41f4-9dc8-7227d3a617ed	1	27057796	27057796	C	T	SNP	ARID1A	ENST00000324856	human	ensembl	74_37	+1	known	nonsense	c.1504	p.Q502*	1.000	NULL	pfam_DUF3518,pfam_ARID/BRIGHT_DNA-bd,superfamily_ARID/BRIGHT_DNA-bd,superfamily_ARM-type_fold,smart_ARID/BRIGHT_DNA-bd,pfscan_ARID/BRIGHT_DNA-bd	-	no_errors	ARID1A	HGNC	ENSG00000117713				485	0	0	319	52	14.0162
CSMD2	0	genome.wustl.edu	37	1	34254291	34254291	+	Missense_Mutation	SNP	C	C	A			TCGA-BR-A4J5-01A-21D-A25D-08	TCGA-BR-A4J5-10A-01D-A25E-08	C	C					Unknown	Untested	Somatic	Phase_IV	WXS	none			Illumina HiSeq	7b148cca-4cd0-4de6-9d42-c7e547a95b72	1fa30850-4b3d-41f4-9dc8-7227d3a617ed	1	34254291	34254291	C	A	SNP	CSMD2	ENST00000373381	human	ensembl	74_37	-1	known	missense	c.1573	p.D525Y	1.000	pfam_CUB_dom,superfamily_CUB_dom,smart_CUB_dom,pfscan_CUB_dom	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	-	no_errors	CSMD2	HGNC	ENSG00000121904				69	0	0	44	10	18.5185
FOXD3	0	genome.wustl.edu	37	1	63789483	63789483	+	Missense_Mutation	SNP	A	A	G			TCGA-BR-A4J5-01A-21D-A25D-08	TCGA-BR-A4J5-10A-01D-A25E-08	A	A					Unknown	Untested	Somatic	Phase_IV	WXS	none			Illumina HiSeq	7b148cca-4cd0-4de6-9d42-c7e547a95b72	1fa30850-4b3d-41f4-9dc8-7227d3a617ed	1	63789483	63789483	A	G	SNP	FOXD3	ENST00000371116	human	ensembl	74_37	+1	known	missense	c.754	p.M252V	1.000	NULL	pfam_TF_fork_head,smart_TF_fork_head,prints_TF_fork_head,pfscan_TF_fork_head	-	no_errors	FOXD3	HGNC	ENSG00000187140				48	0	0	56	7	11.1111
CELF2	0	genome.wustl.edu	37	10	11317064	11317064	+	Silent	SNP	C	C	T			TCGA-BR-A4J5-01A-21D-A25D-08	TCGA-BR-A4J5-10A-01D-A25E-08	C	C					Unknown	Untested	Somatic	Phase_IV	WXS	none			Illumina HiSeq	7b148cca-4cd0-4de6-9d42-c7e547a95b72	1fa30850-4b3d-41f4-9dc8-7227d3a617ed	10	11317064	11317064	C	T	SNP	CELF2	ENST00000450189	human	ensembl	74_37	+1	known	silent	c.822	p.S274	0.977	NULL	pfam_RRM_dom,smart_RRM_dom,pfscan_RRM_dom,prints_Hud_Sxl_RNA	-	no_errors	CELF2	HGNC	ENSG00000048740				173	0	0	170	13	7.10383
ADAM12	0	genome.wustl.edu	37	10	127738232	127738232	+	Missense_Mutation	SNP	T	T	G			TCGA-BR-A4J5-01A-21D-A25D-08	TCGA-BR-A4J5-10A-01D-A25E-08	T	T					Unknown	Untested	Somatic	Phase_IV	WXS	none			Illumina HiSeq	7b148cca-4cd0-4de6-9d42-c7e547a95b72	1fa30850-4b3d-41f4-9dc8-7227d3a617ed	10	127738232	127738232	T	G	SNP	ADAM12	ENST00000368679	human	ensembl	74_37	-1	known	missense	c.1625	p.K542T	1.000	pfam_ADAM_Cys-rich,smart_ADAM_Cys-rich	pfam_Peptidase_M12B,pfam_ADAM_Cys-rich,pfam_Peptidase_M12B_N,pfam_Blood-coag_inhib_Disintegrin,superfamily_Blood-coag_inhib_Disintegrin,smart_Blood-coag_inhib_Disintegrin,smart_ADAM_Cys-rich,pfscan_Blood-coag_inhib_Disintegrin,pfscan_EG-like_dom,pfscan_Peptidase_M12B,prints_Blood-coag_inhib_Disintegrin	-	no_errors	ADAM12	HGNC	ENSG00000148848				54	0	0	70	4	5.40541
CUBN	0	genome.wustl.edu	37	10	16918916	16918916	+	Missense_Mutation	SNP	T	T	G			TCGA-BR-A4J5-01A-21D-A25D-08	TCGA-BR-A4J5-10A-01D-A25E-08	T	T					Unknown	Untested	Somatic	Phase_IV	WXS	none			Illumina HiSeq	7b148cca-4cd0-4de6-9d42-c7e547a95b72	1fa30850-4b3d-41f4-9dc8-7227d3a617ed	10	16918916	16918916	T	G	SNP	CUBN	ENST00000377833	human	ensembl	74_37	-1	known	missense	c.9086	p.K3029T	1.000	pfam_CUB_dom,superfamily_CUB_dom,smart_CUB_dom,pfscan_CUB_dom	pfam_CUB_dom,pfam_EG-like_dom,pfam_EGF-like_Ca-bd_dom,superfamily_CUB_dom,superfamily_Growth_fac_rcpt_N_dom,smart_EGF-like_Ca-bd_dom,smart_EG-like_dom,smart_CUB_dom,pfscan_CUB_dom,pfscan_EG-like_dom	-	no_errors	CUBN	HGNC	ENSG00000107611				63	0	0	51	14	21.5385
OGDHL	0	genome.wustl.edu	37	10	50944097	50944097	+	Missense_Mutation	SNP	T	T	C			TCGA-BR-A4J5-01A-21D-A25D-08	TCGA-BR-A4J5-10A-01D-A25E-08	T	T					Unknown	Untested	Somatic	Phase_IV	WXS	none			Illumina HiSeq	7b148cca-4cd0-4de6-9d42-c7e547a95b72	1fa30850-4b3d-41f4-9dc8-7227d3a617ed	10	50944097	50944097	T	C	SNP	OGDHL	ENST00000374103	human	ensembl	74_37	-1	known	missense	c.2881	p.T961A	1.000	pirsf_2oxoglutarate_DH_E1,tigrfam_2oxoglutarate_DH_E1	pfam_DH_E1,pfam_Transketolase-like_Pyr-bd,smart_Transketolase-like_Pyr-bd,pirsf_2oxoglutarate_DH_E1,tigrfam_2oxoglutarate_DH_E1	-	no_errors	OGDHL	HGNC	ENSG00000197444				35	0	0	26	4	13.3333
CDH23	0	genome.wustl.edu	37	10	73537444	73537444	+	Missense_Mutation	SNP	C	C	T			TCGA-BR-A4J5-01A-21D-A25D-08	TCGA-BR-A4J5-10A-01D-A25E-08	C	C					Unknown	Untested	Somatic	Phase_IV	WXS	none			Illumina HiSeq	7b148cca-4cd0-4de6-9d42-c7e547a95b72	1fa30850-4b3d-41f4-9dc8-7227d3a617ed	10	73537444	73537444	C	T	SNP	CDH23	ENST00000224721	human	ensembl	74_37	+1	putative	missense	c.4868	p.T1623M	1.000	pfam_Cadherin,superfamily_Cadherin-like,smart_Cadherin,pfscan_Cadherin	pfam_Cadherin,superfamily_Cadherin-like,smart_Cadherin,pfscan_Cadherin,prints_Cadherin	-	no_errors	CDH23	HGNC	ENSG00000107736				20	0	0	25	3	10.7143
HECTD2	0	genome.wustl.edu	37	10	93260992	93260992	+	Missense_Mutation	SNP	A	A	T			TCGA-BR-A4J5-01A-21D-A25D-08	TCGA-BR-A4J5-10A-01D-A25E-08	A	A					Unknown	Untested	Somatic	Phase_IV	WXS	none			Illumina HiSeq	7b148cca-4cd0-4de6-9d42-c7e547a95b72	1fa30850-4b3d-41f4-9dc8-7227d3a617ed	10	93260992	93260992	A	T	SNP	HECTD2	ENST00000446394	human	ensembl	74_37	+1	known	missense	c.2123	p.K708M	1.000	pfam_HECT,superfamily_HECT,smart_HECT,pfscan_HECT	pfam_HECT,superfamily_HECT,smart_HECT,pfscan_HECT	-	no_errors	HECTD2	HGNC	ENSG00000165338				78	0	0	51	4	7.27273
ARHGAP1	0	genome.wustl.edu	37	11	46702918	46702918	+	Missense_Mutation	SNP	T	T	A			TCGA-BR-A4J5-01A-21D-A25D-08	TCGA-BR-A4J5-10A-01D-A25E-08	T	T					Unknown	Untested	Somatic	Phase_IV	WXS	none			Illumina HiSeq	7b148cca-4cd0-4de6-9d42-c7e547a95b72	1fa30850-4b3d-41f4-9dc8-7227d3a617ed	11	46702918	46702918	T	A	SNP	ARHGAP1	ENST00000311956	human	ensembl	74_37	-1	known	missense	c.461	p.N154I	1.000	pfam_CRAL-TRIO_dom,superfamily_CRAL-TRIO_dom,smart_CRAL-TRIO_dom,pfscan_CRAL-TRIO_dom	pfam_RhoGAP_dom,pfam_CRAL-TRIO_dom,superfamily_Rho_GTPase_activation_prot,superfamily_CRAL-TRIO_dom,smart_CRAL-TRIO_dom,smart_RhoGAP_dom,pfscan_CRAL-TRIO_dom,pfscan_RhoGAP_dom	-	no_errors	ARHGAP1	HGNC	ENSG00000175220				127	0	0	86	25	22.5225
TRIM51HP	0	genome.wustl.edu	37	11	55065017	55065017	+	RNA	SNP	C	C	A			TCGA-BR-A4J5-01A-21D-A25D-08	TCGA-BR-A4J5-10A-01D-A25E-08	C	C					Unknown	Untested	Somatic	Phase_IV	WXS	none			Illumina HiSeq	7b148cca-4cd0-4de6-9d42-c7e547a95b72	1fa30850-4b3d-41f4-9dc8-7227d3a617ed	11	55065017	55065017	C	A	SNP	TRIM51HP	ENST00000526016	human	ensembl	74_37	-1	putative	rna	NULL	NULL	0.057	-	-	-	no_errors	TRIM51HP	HGNC	ENSG00000166007				50	0	0	35	4	10.2564
MS4A10	0	genome.wustl.edu	37	11	60565922	60565922	+	Silent	SNP	G	G	A			TCGA-BR-A4J5-01A-21D-A25D-08	TCGA-BR-A4J5-10A-01D-A25E-08	G	G					Unknown	Untested	Somatic	Phase_IV	WXS	none			Illumina HiSeq	7b148cca-4cd0-4de6-9d42-c7e547a95b72	1fa30850-4b3d-41f4-9dc8-7227d3a617ed	11	60565922	60565922	G	A	SNP	MS4A10	ENST00000308287	human	ensembl	74_37	+1	known	silent	c.657	p.P219	0.000	NULL	pfam_CD20-like	-	no_errors	MS4A10	HGNC	ENSG00000172689				92	0	0	82	12	12.766
TYR	0	genome.wustl.edu	37	11	89028446	89028446	+	Missense_Mutation	SNP	G	G	A			TCGA-BR-A4J5-01A-21D-A25D-08	TCGA-BR-A4J5-10A-01D-A25E-08	G	G					Unknown	Untested	Somatic	Phase_IV	WXS	none			Illumina HiSeq	7b148cca-4cd0-4de6-9d42-c7e547a95b72	1fa30850-4b3d-41f4-9dc8-7227d3a617ed	11	89028446	89028446	G	A	SNP	TYR	ENST00000263321	human	ensembl	74_37	+1	known	missense	c.1502	p.R501H	0.003	NULL	pfam_Tyrosinase,superfamily_Unchr_di-copper_centre,prints_Tyrosinase	-	no_errors	TYR	HGNC	ENSG00000077498				42	0	0	57	4	6.55738
SFSWAP	0	genome.wustl.edu	37	12	132241120	132241120	+	Missense_Mutation	SNP	C	C	T			TCGA-BR-A4J5-01A-21D-A25D-08	TCGA-BR-A4J5-10A-01D-A25E-08	C	C					Unknown	Untested	Somatic	Phase_IV	WXS	none			Illumina HiSeq	7b148cca-4cd0-4de6-9d42-c7e547a95b72	1fa30850-4b3d-41f4-9dc8-7227d3a617ed	12	132241120	132241120	C	T	SNP	SFSWAP	ENST00000261674	human	ensembl	74_37	+1	known	missense	c.1651	p.R551W	0.356	NULL	pfam_SWAP_N_domain,pfam_Surp,superfamily_Surp,smart_Surp,pfscan_Surp	-	no_errors	SFSWAP	HGNC	ENSG00000061936				68	0	0	78	8	9.30233
HDAC7	0	genome.wustl.edu	37	12	48183343	48183343	+	Missense_Mutation	SNP	G	G	A			TCGA-BR-A4J5-01A-21D-A25D-08	TCGA-BR-A4J5-10A-01D-A25E-08	G	G					Unknown	Untested	Somatic	Phase_IV	WXS	none			Illumina HiSeq	7b148cca-4cd0-4de6-9d42-c7e547a95b72	1fa30850-4b3d-41f4-9dc8-7227d3a617ed	12	48183343	48183343	G	A	SNP	HDAC7	ENST00000380610	human	ensembl	74_37	-1	known	missense	c.2161	p.R721W	0.997	pfam_His_deacetylse_dom,pirsf_Histone_deAcase_II_euk	pfam_His_deacetylse_dom,pirsf_Histone_deAcase_II_euk,prints_His_deacetylse	-	no_errors	HDAC7	HGNC	ENSG00000061273				40	0	0	37	3	7.5
WIF1	0	genome.wustl.edu	37	12	65462558	65462558	+	Missense_Mutation	SNP	T	T	A			TCGA-BR-A4J5-01A-21D-A25D-08	TCGA-BR-A4J5-10A-01D-A25E-08	T	T					Unknown	Untested	Somatic	Phase_IV	WXS	none			Illumina HiSeq	7b148cca-4cd0-4de6-9d42-c7e547a95b72	1fa30850-4b3d-41f4-9dc8-7227d3a617ed	12	65462558	65462558	T	A	SNP	WIF1	ENST00000286574	human	ensembl	74_37	-1	known	missense	c.524	p.K175I	1.000	smart_WIF,pfscan_WIF,prints_Wnt-inh	pfam_WIF,pfam_EGF_extracell,smart_WIF,smart_EG-like_dom,pfscan_EG-like_dom,pfscan_WIF,prints_Wnt-inh	-	no_errors	WIF1	HGNC	ENSG00000156076				55	0	0	59	9	13.2353
CHD4	0	genome.wustl.edu	37	12	6702280	6702280	+	Missense_Mutation	SNP	G	G	A			TCGA-BR-A4J5-01A-21D-A25D-08	TCGA-BR-A4J5-10A-01D-A25E-08	G	G					Unknown	Untested	Somatic	Phase_IV	WXS	none			Illumina HiSeq	7b148cca-4cd0-4de6-9d42-c7e547a95b72	1fa30850-4b3d-41f4-9dc8-7227d3a617ed	12	6702280	6702280	G	A	SNP	CHD4	ENST00000309577	human	ensembl	74_37	-1	known	missense	c.2629	p.R877W	0.999	pfam_SNF2_N,pfam_Helicase/UvrB_dom,superfamily_P-loop_NTPase,smart_Helicase_ATP-bd,pfscan_Helicase_ATP-bd	pfam_CHD_C2,pfam_DUF1086,pfam_SNF2_N,pfam_CHD_N,pfam_DUF1087,pfam_Znf_PHD-finger,pfam_Chromo_domain,pfam_Helicase_C,pfam_HDA_complex_subunit-2/3,pfam_Helicase/UvrB_dom,superfamily_P-loop_NTPase,superfamily_Chromodomain-like,superfamily_Znf_FYVE_PHD,superfamily_HMG_box_dom,superfamily_Homeodomain-like,smart_Znf_PHD,smart_Chromo_domain/shadow,smart_Helicase_ATP-bd,smart_Helicase_C,pfscan_Znf_PHD-finger,pfscan_Helicase_ATP-bd,pfscan_Helicase_C,pfscan_Chromo_domain/shadow	-	no_errors	CHD4	HGNC	ENSG00000111642				83	0	0	101	10	9.00901
KCNC2	0	genome.wustl.edu	37	12	75444839	75444839	+	Missense_Mutation	SNP	T	T	G			TCGA-BR-A4J5-01A-21D-A25D-08	TCGA-BR-A4J5-10A-01D-A25E-08	T	T					Unknown	Untested	Somatic	Phase_IV	WXS	none			Illumina HiSeq	7b148cca-4cd0-4de6-9d42-c7e547a95b72	1fa30850-4b3d-41f4-9dc8-7227d3a617ed	12	75444839	75444839	T	G	SNP	KCNC2	ENST00000549446	human	ensembl	74_37	-1	known	missense	c.946	p.N316H	1.000	pfam_Ion_trans_dom,prints_K_chnl	pfam_Ion_trans_dom,pfam_T1-type_BTB,pfam_2pore_dom_K_chnl_dom,superfamily_BTB/POZ_fold,smart_BTB/POZ-like,prints_K_chnl,prints_K_chnl_volt-dep_Kv3,prints_K_chnl_volt-dep_Kv	-	no_errors	KCNC2	HGNC	ENSG00000166006				81	0	0	84	10	10.6383
A2M	0	genome.wustl.edu	37	12	9256899	9256899	+	Missense_Mutation	SNP	T	T	C			TCGA-BR-A4J5-01A-21D-A25D-08	TCGA-BR-A4J5-10A-01D-A25E-08	T	T					Unknown	Untested	Somatic	Phase_IV	WXS	none			Illumina HiSeq	7b148cca-4cd0-4de6-9d42-c7e547a95b72	1fa30850-4b3d-41f4-9dc8-7227d3a617ed	12	9256899	9256899	T	C	SNP	A2M	ENST00000318602	human	ensembl	74_37	-1	known	missense	c.1202	p.E401G	0.309	superfamily_Beta-lactam/transpept-like	pfam_A2M_comp,pfam_A2M_N_2,pfam_Macroglobln_a2,pfam_A-macroglobulin_rcpt-bd,pfam_A2M_N,pfam_MacrogloblnA2_thiol-ester-bond,superfamily_Terpenoid_cyclase/PrenylTrfase,superfamily_A-macroglobulin_rcpt-bd,superfamily_Beta-lactam/transpept-like,superfamily_Cupredoxin	-	no_errors	A2M	HGNC	ENSG00000175899				21	0	0	15	4	21.0526
PZP	0	genome.wustl.edu	37	12	9309893	9309893	+	Missense_Mutation	SNP	T	T	C			TCGA-BR-A4J5-01A-21D-A25D-08	TCGA-BR-A4J5-10A-01D-A25E-08	T	T					Unknown	Untested	Somatic	Phase_IV	WXS	none			Illumina HiSeq	7b148cca-4cd0-4de6-9d42-c7e547a95b72	1fa30850-4b3d-41f4-9dc8-7227d3a617ed	12	9309893	9309893	T	C	SNP	PZP	ENST00000261336	human	ensembl	74_37	-1	known	missense	c.3428	p.E1143G	0.002	pfam_A2M_comp,superfamily_Terpenoid_cyclase/PrenylTrfase	pfam_A2M_comp,pfam_A2M_N_2,pfam_Macroglobln_a2,pfam_A-macroglobulin_rcpt-bd,pfam_A2M_N,pfam_MacrogloblnA2_thiol-ester-bond,pfam_SV_autoAg,superfamily_Terpenoid_cyclase/PrenylTrfase,superfamily_A-macroglobulin_rcpt-bd	-	no_errors	PZP	HGNC	ENSG00000126838				92	0	0	65	9	12.1622
NALCN	0	genome.wustl.edu	37	13	101726011	101726011	+	Silent	SNP	C	C	T			TCGA-BR-A4J5-01A-21D-A25D-08	TCGA-BR-A4J5-10A-01D-A25E-08	C	C					Unknown	Untested	Somatic	Phase_IV	WXS	none			Illumina HiSeq	7b148cca-4cd0-4de6-9d42-c7e547a95b72	1fa30850-4b3d-41f4-9dc8-7227d3a617ed	13	101726011	101726011	C	T	SNP	NALCN	ENST00000251127	human	ensembl	74_37	-1	known	silent	c.4122	p.S1374	1.000	pfam_Ion_trans_dom	pfam_Ion_trans_dom	-	no_errors	NALCN	HGNC	ENSG00000102452				38	0	0	42	4	8.69565
DIAPH3	0	genome.wustl.edu	37	13	60737724	60737724	+	Silent	SNP	C	C	T			TCGA-BR-A4J5-01A-21D-A25D-08	TCGA-BR-A4J5-10A-01D-A25E-08	C	C					Unknown	Untested	Somatic	Phase_IV	WXS	none			Illumina HiSeq	7b148cca-4cd0-4de6-9d42-c7e547a95b72	1fa30850-4b3d-41f4-9dc8-7227d3a617ed	13	60737724	60737724	C	T	SNP	DIAPH3	ENST00000400324	human	ensembl	74_37	-1	known	silent	c.177	p.K59	0.999	NULL	pfam_FH2_Formin,pfam_FH3_dom,pfam_GTPase-bd,pfam_Drf_DAD,superfamily_ARM-type_fold,smart_FH2_Formin	-	no_errors	DIAPH3	HGNC	ENSG00000139734				81	0	0	66	5	7.04225
SNORD114-14	0	genome.wustl.edu	37	14	101438462	101438462	+	RNA	SNP	G	G	A			TCGA-BR-A4J5-01A-21D-A25D-08	TCGA-BR-A4J5-10A-01D-A25E-08	G	G					Unknown	Untested	Somatic	Phase_IV	WXS	none			Illumina HiSeq	7b148cca-4cd0-4de6-9d42-c7e547a95b72	1fa30850-4b3d-41f4-9dc8-7227d3a617ed	14	101438462	101438462	G	A	SNP	SNORD114-14	ENST00000362723	human	ensembl	74_37	+1	known	rna	NULL	NULL	0.000	-	-	-	no_errors	SNORD114-14	HGNC	ENSG00000199593				65	0	0	45	5	10
OSGEP	0	genome.wustl.edu	37	14	20920177	20920177	+	Missense_Mutation	SNP	C	C	T			TCGA-BR-A4J5-01A-21D-A25D-08	TCGA-BR-A4J5-10A-01D-A25E-08	C	C					Unknown	Untested	Somatic	Phase_IV	WXS	none			Illumina HiSeq	7b148cca-4cd0-4de6-9d42-c7e547a95b72	1fa30850-4b3d-41f4-9dc8-7227d3a617ed	14	20920177	20920177	C	T	SNP	OSGEP	ENST00000206542	human	ensembl	74_37	-1	known	missense	c.367	p.A123T	1.000	pfam_Gcp-like_dom,tigrfam_KAE1/YgjD	pfam_Gcp-like_dom,prints_KAE1/YgjD,tigrfam_KAE1/YgjD	-	no_errors	OSGEP	HGNC	ENSG00000092094				30	0	0	49	4	7.54717
ARHGAP5	0	genome.wustl.edu	37	14	32560227	32560227	+	Missense_Mutation	SNP	C	C	T			TCGA-BR-A4J5-01A-21D-A25D-08	TCGA-BR-A4J5-10A-01D-A25E-08	C	C					Unknown	Untested	Somatic	Phase_IV	WXS	none			Illumina HiSeq	7b148cca-4cd0-4de6-9d42-c7e547a95b72	1fa30850-4b3d-41f4-9dc8-7227d3a617ed	14	32560227	32560227	C	T	SNP	ARHGAP5	ENST00000345122	human	ensembl	74_37	+1	known	missense	c.352	p.R118C	1.000	superfamily_P-loop_NTPase	pfam_RhoGAP_dom,pfam_FF_domain,pfam_Small_GTPase,superfamily_Rho_GTPase_activation_prot,superfamily_P-loop_NTPase,superfamily_FF_domain,smart_FF_domain,smart_RhoGAP_dom,pfscan_RhoGAP_dom,prints_Small_GTPase	-	no_errors	ARHGAP5	HGNC	ENSG00000100852				63	0	0	72	13	15.2941
RGS6	0	genome.wustl.edu	37	14	73006791	73006791	+	Missense_Mutation	SNP	A	A	G			TCGA-BR-A4J5-01A-21D-A25D-08	TCGA-BR-A4J5-10A-01D-A25E-08	A	A					Unknown	Untested	Somatic	Phase_IV	WXS	none			Illumina HiSeq	7b148cca-4cd0-4de6-9d42-c7e547a95b72	1fa30850-4b3d-41f4-9dc8-7227d3a617ed	14	73006791	73006791	A	G	SNP	RGS6	ENST00000553525	human	ensembl	74_37	+1	known	missense	c.1411	p.T471A	1.000	NULL	pfam_RGS_dom,pfam_G-protein_gamma-like_dom,pfam_DEP_dom,superfamily_Regulat_G_prot_signal_superfam,superfamily_G-protein_gamma-like_dom,smart_DEP_dom,smart_G-protein_gamma-like_dom,smart_Regulat_G_prot_signal_superfam,pfscan_DEP_dom,pfscan_Regulat_G_prot_signal_superfam,prints_RGS_dom	-	no_errors	RGS6	HGNC	ENSG00000182732				14	0	0	16	3	15.7895
CPEB1	0	genome.wustl.edu	37	15	83218237	83218237	+	Missense_Mutation	SNP	C	C	A			TCGA-BR-A4J5-01A-21D-A25D-08	TCGA-BR-A4J5-10A-01D-A25E-08	C	C					Unknown	Untested	Somatic	Phase_IV	WXS	none			Illumina HiSeq	7b148cca-4cd0-4de6-9d42-c7e547a95b72	1fa30850-4b3d-41f4-9dc8-7227d3a617ed	15	83218237	83218237	C	A	SNP	CPEB1	ENST00000562019	human	ensembl	74_37	-1	known	missense	c.1387	p.D463Y	1.000	pfscan_RRM_dom	pfscan_RRM_dom	-	no_errors	CPEB1	HGNC	ENSG00000214575				59	0	0	58	8	12.1212
BAIAP3	0	genome.wustl.edu	37	16	1398109	1398109	+	Silent	SNP	C	C	T			TCGA-BR-A4J5-01A-21D-A25D-08	TCGA-BR-A4J5-10A-01D-A25E-08	C	C					Unknown	Untested	Somatic	Phase_IV	WXS	none			Illumina HiSeq	7b148cca-4cd0-4de6-9d42-c7e547a95b72	1fa30850-4b3d-41f4-9dc8-7227d3a617ed	16	1398109	1398109	C	T	SNP	BAIAP3	ENST00000324385	human	ensembl	74_37	+1	known	silent	c.3267	p.A1089	0.680	pfam_C2_dom,superfamily_C2_dom,smart_C2_dom,pfscan_C2_dom	pfam_C2_dom,pfam_Munc13_subgr_dom-2,superfamily_C2_dom,smart_C2_dom,pfscan_C2_dom	-	no_errors	BAIAP3	HGNC	ENSG00000007516				51	0	0	50	7	12.2807
PRKCB	0	genome.wustl.edu	37	16	24192165	24192165	+	Silent	SNP	C	C	T			TCGA-BR-A4J5-01A-21D-A25D-08	TCGA-BR-A4J5-10A-01D-A25E-08	C	C					Unknown	Untested	Somatic	Phase_IV	WXS	none			Illumina HiSeq	7b148cca-4cd0-4de6-9d42-c7e547a95b72	1fa30850-4b3d-41f4-9dc8-7227d3a617ed	16	24192165	24192165	C	T	SNP	PRKCB	ENST00000303531	human	ensembl	74_37	+1	known	silent	c.1449	p.A483	0.414	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,pirsf_Protein_kinase_C_a/b/g,pfscan_Prot_kinase_dom	pfam_Prot_kinase_dom,pfam_Ser-Thr/Tyr_kinase_cat_dom,pfam_Prot_Kinase_C-like_PE/DAG-bd,pfam_C2_dom,pfam_Pkinase_C,superfamily_Kinase-like_dom,superfamily_C2_dom,smart_Prot_Kinase_C-like_PE/DAG-bd,smart_C2_dom,smart_Ser/Thr_dual-sp_kinase_dom,smart_Tyr_kinase_cat_dom,smart_AGC-kinase_C,pirsf_Protein_kinase_C_a/b/g,pfscan_C2_dom,pfscan_Prot_Kinase_C-like_PE/DAG-bd,pfscan_Prot_kinase_dom,prints_DAG/PE-bd,prints_C2_dom	-	no_errors	PRKCB	HGNC	ENSG00000166501				91	0	0	99	27	21.4286
TNRC6A	0	genome.wustl.edu	37	16	24826525	24826525	+	Missense_Mutation	SNP	T	T	C			TCGA-BR-A4J5-01A-21D-A25D-08	TCGA-BR-A4J5-10A-01D-A25E-08	T	T					Unknown	Untested	Somatic	Phase_IV	WXS	none			Illumina HiSeq	7b148cca-4cd0-4de6-9d42-c7e547a95b72	1fa30850-4b3d-41f4-9dc8-7227d3a617ed	16	24826525	24826525	T	C	SNP	TNRC6A	ENST00000395799	human	ensembl	74_37	+1	known	missense	c.4730	p.M1577T	1.000	NULL	pfam_Argonaute_hook_dom,superfamily_UBA-like	-	no_errors	TNRC6A	HGNC	ENSG00000090905				86	0	0	76	17	18.2796
TMEM208	0	genome.wustl.edu	37	16	67262461	67262461	+	Nonsense_Mutation	SNP	C	C	T			TCGA-BR-A4J5-01A-21D-A25D-08	TCGA-BR-A4J5-10A-01D-A25E-08	C	C					Unknown	Untested	Somatic	Phase_IV	WXS	none			Illumina HiSeq	7b148cca-4cd0-4de6-9d42-c7e547a95b72	1fa30850-4b3d-41f4-9dc8-7227d3a617ed	16	67262461	67262461	C	T	SNP	TMEM208	ENST00000304800	human	ensembl	74_37	+1	known	nonsense	c.226	p.R76*	1.000	pfam_DUF788_TMEM208	pfam_DUF788_TMEM208	-	no_errors	TMEM208	HGNC	ENSG00000168701				42	0	0	44	3	6.38298
NSF	0	genome.wustl.edu	37	17	44832736	44832736	+	Splice_Site	SNP	G	G	A			TCGA-BR-A4J5-01A-21D-A25D-08	TCGA-BR-A4J5-10A-01D-A25E-08	G	G					Unknown	Untested	Somatic	Phase_IV	WXS	none			Illumina HiSeq	7b148cca-4cd0-4de6-9d42-c7e547a95b72	1fa30850-4b3d-41f4-9dc8-7227d3a617ed	17	44832736	44832736	G	A	SNP	NSF	ENST00000398238	human	ensembl	74_37	+1	known	splice_site	c.2213+1	e20+1	1.000	-	-	-	no_errors	NSF	HGNC	ENSG00000073969				43	0	0	37	6	13.9535
RNF213	0	genome.wustl.edu	37	17	78357714	78357714	+	Missense_Mutation	SNP	C	C	A			TCGA-BR-A4J5-01A-21D-A25D-08	TCGA-BR-A4J5-10A-01D-A25E-08	C	C					Unknown	Untested	Somatic	Phase_IV	WXS	none			Illumina HiSeq	7b148cca-4cd0-4de6-9d42-c7e547a95b72	1fa30850-4b3d-41f4-9dc8-7227d3a617ed	17	78357714	78357714	C	A	SNP	RNF213	ENST00000582970	human	ensembl	74_37	+1	known	missense	c.14308	p.H4770N	0.936	NULL	superfamily_P-loop_NTPase,smart_AAA+_ATPase,smart_Znf_RING,pfscan_Znf_RING	-	no_errors	RNF213	HGNC	ENSG00000173821				103	0	0	95	6	5.94059
CELF4	0	genome.wustl.edu	37	18	34833781	34833781	+	Missense_Mutation	SNP	G	G	A			TCGA-BR-A4J5-01A-21D-A25D-08	TCGA-BR-A4J5-10A-01D-A25E-08	G	G					Unknown	Untested	Somatic	Phase_IV	WXS	none			Illumina HiSeq	7b148cca-4cd0-4de6-9d42-c7e547a95b72	1fa30850-4b3d-41f4-9dc8-7227d3a617ed	18	34833781	34833781	G	A	SNP	CELF4	ENST00000420428	human	ensembl	74_37	-1	known	missense	c.1454	p.P485L	1.000	NULL	pfam_RRM_dom,smart_RRM_dom,pfscan_RRM_dom	-	no_errors	CELF4	HGNC	ENSG00000101489				71	0	0	68	4	5.55556
KANK2	0	genome.wustl.edu	37	19	11289371	11289371	+	Silent	SNP	C	C	T			TCGA-BR-A4J5-01A-21D-A25D-08	TCGA-BR-A4J5-10A-01D-A25E-08	C	C					Unknown	Untested	Somatic	Phase_IV	WXS	none			Illumina HiSeq	7b148cca-4cd0-4de6-9d42-c7e547a95b72	1fa30850-4b3d-41f4-9dc8-7227d3a617ed	19	11289371	11289371	C	T	SNP	KANK2	ENST00000432929	human	ensembl	74_37	-1	known	silent	c.1275	p.S425	0.000	NULL	pfam_Ankyrin_rpt,pfam_KN_motif,superfamily_Ankyrin_rpt-contain_dom,smart_Ankyrin_rpt,pfscan_Ankyrin_rpt,pfscan_Ankyrin_rpt-contain_dom	-	no_errors	KANK2	HGNC	ENSG00000197256				72	0	0	58	4	6.45161
ZNF208	0	genome.wustl.edu	37	19	22155328	22155328	+	Missense_Mutation	SNP	T	T	G			TCGA-BR-A4J5-01A-21D-A25D-08	TCGA-BR-A4J5-10A-01D-A25E-08	T	T					Unknown	Untested	Somatic	Phase_IV	WXS	none			Illumina HiSeq	7b148cca-4cd0-4de6-9d42-c7e547a95b72	1fa30850-4b3d-41f4-9dc8-7227d3a617ed	19	22155328	22155328	T	G	SNP	ZNF208	ENST00000397126	human	ensembl	74_37	-1	novel	missense	c.2508	p.K836N	0.000	smart_Znf_C2H2-like,pfscan_Znf_C2H2	pfam_Znf_C2H2,pfam_Krueppel-associated_box,superfamily_Krueppel-associated_box,smart_Krueppel-associated_box,smart_Znf_C2H2-like,pfscan_Znf_C2H2,pfscan_Krueppel-associated_box	-	no_errors	ZNF208	HGNC	ENSG00000160321				69	0	0	53	7	11.6667
ZNF570	0	genome.wustl.edu	37	19	37975536	37975536	+	Missense_Mutation	SNP	G	G	A			TCGA-BR-A4J5-01A-21D-A25D-08	TCGA-BR-A4J5-10A-01D-A25E-08	G	G					Unknown	Untested	Somatic	Phase_IV	WXS	none			Illumina HiSeq	7b148cca-4cd0-4de6-9d42-c7e547a95b72	1fa30850-4b3d-41f4-9dc8-7227d3a617ed	19	37975536	37975536	G	A	SNP	ZNF570	ENST00000330173	human	ensembl	74_37	+1	known	missense	c.1012	p.A338T	0.033	smart_Znf_C2H2-like,pfscan_Znf_C2H2	pfam_Znf_C2H2,pfam_Krueppel-associated_box,superfamily_Krueppel-associated_box,smart_Krueppel-associated_box,smart_Znf_C2H2-like,pfscan_Znf_C2H2,pfscan_Krueppel-associated_box	-	no_errors	ZNF570	HGNC	ENSG00000171827				109	0	0	98	8	7.54717
GGN	0	genome.wustl.edu	37	19	38877509	38877509	+	Silent	SNP	G	G	A			TCGA-BR-A4J5-01A-21D-A25D-08	TCGA-BR-A4J5-10A-01D-A25E-08	G	G					Unknown	Untested	Somatic	Phase_IV	WXS	none			Illumina HiSeq	7b148cca-4cd0-4de6-9d42-c7e547a95b72	1fa30850-4b3d-41f4-9dc8-7227d3a617ed	19	38877509	38877509	G	A	SNP	GGN	ENST00000334928	human	ensembl	74_37	-1	known	silent	c.393	p.R131	0.961	NULL	NULL	-	no_errors	GGN	HGNC	ENSG00000179168				16	0	0	18	4	18.1818
PTH2	0	genome.wustl.edu	37	19	49926533	49926533	+	Missense_Mutation	SNP	G	G	C			TCGA-BR-A4J5-01A-21D-A25D-08	TCGA-BR-A4J5-10A-01D-A25E-08	G	G					Unknown	Untested	Somatic	Phase_IV	WXS	none			Illumina HiSeq	7b148cca-4cd0-4de6-9d42-c7e547a95b72	1fa30850-4b3d-41f4-9dc8-7227d3a617ed	19	49926533	49926533	G	C	SNP	PTH2	ENST00000270631	human	ensembl	74_37	-1	known	missense	c.64	p.L22V	0.132	NULL	NULL	-	no_errors	PTH2	HGNC	ENSG00000142538				29	0	0	26	5	16.129
BIRC8	0	genome.wustl.edu	37	19	53793479	53793479	+	Missense_Mutation	SNP	T	T	G			TCGA-BR-A4J5-01A-21D-A25D-08	TCGA-BR-A4J5-10A-01D-A25E-08	T	T					Unknown	Untested	Somatic	Phase_IV	WXS	none			Illumina HiSeq	7b148cca-4cd0-4de6-9d42-c7e547a95b72	1fa30850-4b3d-41f4-9dc8-7227d3a617ed	19	53793479	53793479	T	G	SNP	BIRC8	ENST00000426466	human	ensembl	74_37	-1	known	missense	c.149	p.K50T	0.265	pfam_BIR,smart_BIR,pfscan_BIR	pfam_BIR,smart_BIR,smart_Znf_RING,pfscan_BIR,pfscan_Znf_RING	-	no_errors	BIRC8	HGNC	ENSG00000163098				72	0	0	78	10	11.3636
CHST10	0	genome.wustl.edu	37	2	101009963	101009963	+	Missense_Mutation	SNP	G	G	A			TCGA-BR-A4J5-01A-21D-A25D-08	TCGA-BR-A4J5-10A-01D-A25E-08	G	G					Unknown	Untested	Somatic	Phase_IV	WXS	none			Illumina HiSeq	7b148cca-4cd0-4de6-9d42-c7e547a95b72	1fa30850-4b3d-41f4-9dc8-7227d3a617ed	2	101009963	101009963	G	A	SNP	CHST10	ENST00000542617	human	ensembl	74_37	-1	known	missense	c.959	p.P320L	1.000	pfam_Sulfotransferase,superfamily_P-loop_NTPase	pfam_Sulfotransferase,superfamily_P-loop_NTPase	-	no_errors	CHST10	HGNC	ENSG00000115526				139	0	0	114	20	14.9254
LRP1B	0	genome.wustl.edu	37	2	141243057	141243057	+	Missense_Mutation	SNP	C	C	A			TCGA-BR-A4J5-01A-21D-A25D-08	TCGA-BR-A4J5-10A-01D-A25E-08	C	C					Unknown	Untested	Somatic	Phase_IV	WXS	none			Illumina HiSeq	7b148cca-4cd0-4de6-9d42-c7e547a95b72	1fa30850-4b3d-41f4-9dc8-7227d3a617ed	2	141243057	141243057	C	A	SNP	LRP1B	ENST00000389484	human	ensembl	74_37	-1	known	missense	c.9280	p.V3094F	1.000	pfam_LDLR_classB_rpt,superfamily_Growth_fac_rcpt_N_dom,smart_LDLR_classB_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	-	no_errors	LRP1B	HGNC	ENSG00000168702				30	0	0	45	6	11.7647
MBD5	0	genome.wustl.edu	37	2	149247795	149247795	+	Missense_Mutation	SNP	C	C	T			TCGA-BR-A4J5-01A-21D-A25D-08	TCGA-BR-A4J5-10A-01D-A25E-08	C	C					Unknown	Untested	Somatic	Phase_IV	WXS	none			Illumina HiSeq	7b148cca-4cd0-4de6-9d42-c7e547a95b72	1fa30850-4b3d-41f4-9dc8-7227d3a617ed	2	149247795	149247795	C	T	SNP	MBD5	ENST00000407073	human	ensembl	74_37	+1	known	missense	c.3895	p.R1299W	1.000	NULL	superfamily_DNA-bd_dom,smart_Methyl_CpG_DNA-bd,pfscan_Methyl_CpG_DNA-bd,pfscan_PWWP_dom	-	no_errors	MBD5	HGNC	ENSG00000204406				82	0	0	67	9	11.8421
GRB14	0	genome.wustl.edu	37	2	165381562	165381562	+	Silent	SNP	A	A	C			TCGA-BR-A4J5-01A-21D-A25D-08	TCGA-BR-A4J5-10A-01D-A25E-08	A	A					Unknown	Untested	Somatic	Phase_IV	WXS	none			Illumina HiSeq	7b148cca-4cd0-4de6-9d42-c7e547a95b72	1fa30850-4b3d-41f4-9dc8-7227d3a617ed	2	165381562	165381562	A	C	SNP	GRB14	ENST00000263915	human	ensembl	74_37	-1	known	silent	c.630	p.S210	1.000	NULL	pfam_BPS-dom,pfam_SH2,pfam_Ras-assoc,pfam_Pleckstrin_homology,smart_Ras-assoc,smart_Pleckstrin_homology,smart_SH2,pfscan_Pleckstrin_homology,pfscan_Ras-assoc,pfscan_SH2,prints_SH2	-	no_errors	GRB14	HGNC	ENSG00000115290				106	0	0	56	7	11.1111
SCN9A	0	genome.wustl.edu	37	2	167055492	167055492	+	Missense_Mutation	SNP	C	C	T			TCGA-BR-A4J5-01A-21D-A25D-08	TCGA-BR-A4J5-10A-01D-A25E-08	C	C					Unknown	Untested	Somatic	Phase_IV	WXS	none			Illumina HiSeq	7b148cca-4cd0-4de6-9d42-c7e547a95b72	1fa30850-4b3d-41f4-9dc8-7227d3a617ed	2	167055492	167055492	C	T	SNP	SCN9A	ENST00000303354	human	ensembl	74_37	-1	known	missense	c.5660	p.R1887Q	1.000	NULL	pfam_Ion_trans_dom,pfam_DUF3451,pfam_Na_trans_assoc,pfam_PKD1_2_channel,smart_IQ_motif_EF-hand-BS,prints_Na_channel_asu,prints_PKD_2	-	no_errors	SCN9A	HGNC	ENSG00000169432				154	0	0	117	11	8.59375
LRP2	0	genome.wustl.edu	37	2	170012824	170012824	+	Silent	SNP	C	C	T			TCGA-BR-A4J5-01A-21D-A25D-08	TCGA-BR-A4J5-10A-01D-A25E-08	C	C					Unknown	Untested	Somatic	Phase_IV	WXS	none			Illumina HiSeq	7b148cca-4cd0-4de6-9d42-c7e547a95b72	1fa30850-4b3d-41f4-9dc8-7227d3a617ed	2	170012824	170012824	C	T	SNP	LRP2	ENST00000263816	human	ensembl	74_37	-1	known	silent	c.12111	p.T4037	0.070	superfamily_Growth_fac_rcpt_N_dom,smart_EGF-like_Ca-bd_dom,smart_EG-like_dom	pfam_LDrepeatLR_classA_rpt,pfam_LDLR_classB_rpt,superfamily_Growth_fac_rcpt_N_dom,superfamily_LDrepeatLR_classA_rpt,superfamily_TIL_dom,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	-	no_errors	LRP2	HGNC	ENSG00000081479				115	0	0	117	9	7.14286
TTN	0	genome.wustl.edu	37	2	179648801	179648801	+	Missense_Mutation	SNP	G	G	T			TCGA-BR-A4J5-01A-21D-A25D-08	TCGA-BR-A4J5-10A-01D-A25E-08	G	G					Unknown	Untested	Somatic	Phase_IV	WXS	none			Illumina HiSeq	7b148cca-4cd0-4de6-9d42-c7e547a95b72	1fa30850-4b3d-41f4-9dc8-7227d3a617ed	2	179648801	179648801	G	T	SNP	TTN	ENST00000342992	human	ensembl	74_37	-1	known	missense	c.2771	p.A924D	1.000	superfamily_RNaseH-like_dom	pfam_Ig_I-set,pfam_Fibronectin_type3,pfam_Immunoglobulin,pfam_Ig_V-set,pfam_Titin_Z,pfam_PPAK_motif,pfam_Prot_kinase_dom,pfam_Ser-Thr/Tyr_kinase_cat_dom,superfamily_Kinase-like_dom,superfamily_Fibronectin_type3,superfamily_Calpain_domain_III,superfamily_RNaseH-like_dom,smart_Ig_sub,smart_Ig_sub2,smart_Ig_V-set_subgr,smart_Fibronectin_type3,smart_Ser/Thr_dual-sp_kinase_dom,smart_Tyr_kinase_cat_dom,pfscan_Fibronectin_type3,pfscan_Prot_kinase_dom,pfscan_Ig-like_dom	-	no_errors	TTN	HGNC	ENSG00000155657				88	0	0	77	5	6.09756
MTA3	0	genome.wustl.edu	37	2	42936046	42936046	+	Missense_Mutation	SNP	G	G	C			TCGA-BR-A4J5-01A-21D-A25D-08	TCGA-BR-A4J5-10A-01D-A25E-08	G	G					Unknown	Untested	Somatic	Phase_IV	WXS	none			Illumina HiSeq	7b148cca-4cd0-4de6-9d42-c7e547a95b72	1fa30850-4b3d-41f4-9dc8-7227d3a617ed	2	42936046	42936046	G	C	SNP	MTA3	ENST00000405094	human	ensembl	74_37	+1	known	missense	c.1335	p.Q445H	1.000	NULL	pfam_BAH_dom,pfam_ELM2_dom,pfam_Znf_GATA,superfamily_Homeodomain-like,smart_BAH_dom,smart_SANT/Myb,smart_Znf_GATA,pfscan_BAH_dom,pfscan_ELM2_dom	-	no_errors	MTA3	HGNC	ENSG00000057935				206	0	0	179	12	6.28272
LHCGR	0	genome.wustl.edu	37	2	48915132	48915132	+	Missense_Mutation	SNP	T	T	G			TCGA-BR-A4J5-01A-21D-A25D-08	TCGA-BR-A4J5-10A-01D-A25E-08	T	T					Unknown	Untested	Somatic	Phase_IV	WXS	none			Illumina HiSeq	7b148cca-4cd0-4de6-9d42-c7e547a95b72	1fa30850-4b3d-41f4-9dc8-7227d3a617ed	2	48915132	48915132	T	G	SNP	LHCGR	ENST00000294954	human	ensembl	74_37	-1	known	missense	c.1804	p.T602P	1.000	pfam_GPCR_Rhodpsn,prints_Gphrmn_rcpt_fam,pfscan_GPCR_Rhodpsn_7TM	pfam_GPCR_Rhodpsn,prints_LSH_rcpt,prints_Gphrmn_rcpt_fam,prints_GPCR_Rhodpsn,prints_TSH_rcpt,pfscan_GPCR_Rhodpsn_7TM	-	no_errors	LHCGR	HGNC	ENSG00000138039				92	0	0	117	12	9.30233
PROKR1	0	genome.wustl.edu	37	2	68873300	68873300	+	Missense_Mutation	SNP	G	G	T			TCGA-BR-A4J5-01A-21D-A25D-08	TCGA-BR-A4J5-10A-01D-A25E-08	G	G					Unknown	Untested	Somatic	Phase_IV	WXS	none			Illumina HiSeq	7b148cca-4cd0-4de6-9d42-c7e547a95b72	1fa30850-4b3d-41f4-9dc8-7227d3a617ed	2	68873300	68873300	G	T	SNP	PROKR1	ENST00000303786	human	ensembl	74_37	+1	known	missense	c.347	p.C116F	1.000	pfam_GPCR_Rhodpsn,pfam_7TM_GPCR_olfarory/Srsx,pfscan_GPCR_Rhodpsn_7TM,prints_GPCR_Rhodpsn	pfam_GPCR_Rhodpsn,pfam_7TM_GPCR_olfarory/Srsx,pfscan_GPCR_Rhodpsn_7TM,prints_GPCR_Rhodpsn,prints_NPY_rcpt	-	no_errors	PROKR1	HGNC	ENSG00000169618				173	0	0	158	25	13.6612
LRRTM1	0	genome.wustl.edu	37	2	80529764	80529764	+	Missense_Mutation	SNP	A	A	G			TCGA-BR-A4J5-01A-21D-A25D-08	TCGA-BR-A4J5-10A-01D-A25E-08	A	A					Unknown	Untested	Somatic	Phase_IV	WXS	none			Illumina HiSeq	7b148cca-4cd0-4de6-9d42-c7e547a95b72	1fa30850-4b3d-41f4-9dc8-7227d3a617ed	2	80529764	80529764	A	G	SNP	LRRTM1	ENST00000295057	human	ensembl	74_37	-1	known	missense	c.1181	p.L394P	0.012	NULL	pfam_Leu-rich_rpt,smart_Leu-rich_rpt_typical-subtyp	-	no_errors	LRRTM1	HGNC	ENSG00000162951				50	0	0	46	3	6.12245
FRG1B	0	genome.wustl.edu	37	20	29633900	29633900	+	Missense_Mutation	SNP	A	A	G			TCGA-BR-A4J5-01A-21D-A25D-08	TCGA-BR-A4J5-10A-01D-A25E-08	A	A					Unknown	Untested	Somatic	Phase_IV	WXS	none			Illumina HiSeq	7b148cca-4cd0-4de6-9d42-c7e547a95b72	1fa30850-4b3d-41f4-9dc8-7227d3a617ed	20	29633900	29633900	A	G	SNP	FRG1B	ENST00000278882	human	ensembl	74_37	+1	known	missense	c.539	p.E180G	1.000	NULL	pfam_FRG1,superfamily_Actin_cross-linking	-	no_errors	FRG1B	HGNC	ENSG00000149531				63	0	0	65	6	8.4507
MC3R	0	genome.wustl.edu	37	20	54824192	54824192	+	Missense_Mutation	SNP	T	T	A			TCGA-BR-A4J5-01A-21D-A25D-08	TCGA-BR-A4J5-10A-01D-A25E-08	T	T					Unknown	Untested	Somatic	Phase_IV	WXS	none			Illumina HiSeq	7b148cca-4cd0-4de6-9d42-c7e547a95b72	1fa30850-4b3d-41f4-9dc8-7227d3a617ed	20	54824192	54824192	T	A	SNP	MC3R	ENST00000243911	human	ensembl	74_37	+1	known	missense	c.293	p.I98N	1.000	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_Melcrt_ACTH_rcpt,prints_Mcort_3_rcpt,prints_GPCR_Rhodpsn,prints_Melancort_rcpt	-	no_errors	MC3R	HGNC	ENSG00000124089				58	0	0	62	7	10.1449
TFAP2C	0	genome.wustl.edu	37	20	55212940	55212940	+	Silent	SNP	G	G	A			TCGA-BR-A4J5-01A-21D-A25D-08	TCGA-BR-A4J5-10A-01D-A25E-08	G	G					Unknown	Untested	Somatic	Phase_IV	WXS	none			Illumina HiSeq	7b148cca-4cd0-4de6-9d42-c7e547a95b72	1fa30850-4b3d-41f4-9dc8-7227d3a617ed	20	55212940	55212940	G	A	SNP	TFAP2C	ENST00000201031	human	ensembl	74_37	+1	known	silent	c.1224	p.A408	0.994	pfam_TF_AP2_C	pfam_TF_AP2_C,prints_TF_AP2_C,prints_TF_AP2_gamma	-	no_errors	TFAP2C	HGNC	ENSG00000087510				139	0	0	122	8	6.15385
ZNF831	0	genome.wustl.edu	37	20	57766466	57766466	+	Missense_Mutation	SNP	C	C	T			TCGA-BR-A4J5-01A-21D-A25D-08	TCGA-BR-A4J5-10A-01D-A25E-08	C	C					Unknown	Untested	Somatic	Phase_IV	WXS	none			Illumina HiSeq	7b148cca-4cd0-4de6-9d42-c7e547a95b72	1fa30850-4b3d-41f4-9dc8-7227d3a617ed	20	57766466	57766466	C	T	SNP	ZNF831	ENST00000371030	human	ensembl	74_37	+1	novel	missense	c.392	p.T131M	0.022	NULL	smart_Znf_C2H2-like,pfscan_Znf_C2H2	-	no_errors	ZNF831	HGNC	ENSG00000124203				95	0	0	55	16	22.5352
OPRL1	0	genome.wustl.edu	37	20	62729944	62729944	+	Missense_Mutation	SNP	G	G	A			TCGA-BR-A4J5-01A-21D-A25D-08	TCGA-BR-A4J5-10A-01D-A25E-08	G	G					Unknown	Untested	Somatic	Phase_IV	WXS	none			Illumina HiSeq	7b148cca-4cd0-4de6-9d42-c7e547a95b72	1fa30850-4b3d-41f4-9dc8-7227d3a617ed	20	62729944	62729944	G	A	SNP	OPRL1	ENST00000336866	human	ensembl	74_37	+1	known	missense	c.905	p.R302H	0.997	pfam_GPCR_Rhodpsn,pfam_7TM_GPCR_olfarory/Srsx,pfam_7TM_GPCR_serpentine_rcpt_Srv,pfscan_GPCR_Rhodpsn_7TM,prints_X_opioid_rcpt,prints_GPCR_Rhodpsn	pfam_GPCR_Rhodpsn,pfam_7TM_GPCR_olfarory/Srsx,pfam_7TM_GPCR_serpentine_rcpt_Srv,pfam_7TM_GPCR_serpentine_rcpt_Srx,pfscan_GPCR_Rhodpsn_7TM,prints_X_opioid_rcpt,prints_GPCR_Rhodpsn,prints_Opioid_rcpt,prints_Somatstn_rcpt,prints_Neuropept_B/W_rcpt,prints_NPY_rcpt	-	no_errors	OPRL1	HGNC	ENSG00000125510				57	0	0	65	10	13.3333
ZBTB38	0	genome.wustl.edu	37	3	141161876	141161876	+	Missense_Mutation	SNP	C	C	T			TCGA-BR-A4J5-01A-21D-A25D-08	TCGA-BR-A4J5-10A-01D-A25E-08	C	C					Unknown	Untested	Somatic	Phase_IV	WXS	none			Illumina HiSeq	7b148cca-4cd0-4de6-9d42-c7e547a95b72	1fa30850-4b3d-41f4-9dc8-7227d3a617ed	3	141161876	141161876	C	T	SNP	ZBTB38	ENST00000321464	human	ensembl	74_37	+1	known	missense	c.649	p.R217C	0.994	NULL	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				71	0	0	78	8	9.30233
LRRIQ4	0	genome.wustl.edu	37	3	169550790	169550790	+	Missense_Mutation	SNP	G	G	A			TCGA-BR-A4J5-01A-21D-A25D-08	TCGA-BR-A4J5-10A-01D-A25E-08	G	G					Unknown	Untested	Somatic	Phase_IV	WXS	none			Illumina HiSeq	7b148cca-4cd0-4de6-9d42-c7e547a95b72	1fa30850-4b3d-41f4-9dc8-7227d3a617ed	3	169550790	169550790	G	A	SNP	LRRIQ4	ENST00000340806	human	ensembl	74_37	+1	known	missense	c.1349	p.R450Q	0.333	pfam_Leu-rich_rpt,smart_Leu-rich_rpt_typical-subtyp	pfam_Leu-rich_rpt,smart_Leu-rich_rpt_typical-subtyp,pfscan_IQ_motif_EF-hand-BS	-	no_errors	LRRIQ4	HGNC	ENSG00000188306				59	0	0	43	3	6.52174
TBC1D5	0	genome.wustl.edu	37	3	17208258	17208258	+	Splice_Site	SNP	C	C	T			TCGA-BR-A4J5-01A-21D-A25D-08	TCGA-BR-A4J5-10A-01D-A25E-08	C	C					Unknown	Untested	Somatic	Phase_IV	WXS	none			Illumina HiSeq	7b148cca-4cd0-4de6-9d42-c7e547a95b72	1fa30850-4b3d-41f4-9dc8-7227d3a617ed	3	17208258	17208258	C	T	SNP	TBC1D5	ENST00000253692	human	ensembl	74_37	-1	known	splice_site	c.2094+1	e19+1	0.997	-	-	-	no_errors	TBC1D5	HGNC	ENSG00000131374				81	0	0	60	6	9.09091
LMLN	0	genome.wustl.edu	37	3	197723129	197723129	+	Silent	SNP	C	C	T			TCGA-BR-A4J5-01A-21D-A25D-08	TCGA-BR-A4J5-10A-01D-A25E-08	C	C					Unknown	Untested	Somatic	Phase_IV	WXS	none			Illumina HiSeq	7b148cca-4cd0-4de6-9d42-c7e547a95b72	1fa30850-4b3d-41f4-9dc8-7227d3a617ed	3	197723129	197723129	C	T	SNP	LMLN	ENST00000330198	human	ensembl	74_37	+1	known	silent	c.1131	p.N377	1.000	pfam_Peptidase_M8	pfam_Peptidase_M8	-	no_errors	LMLN	HGNC	ENSG00000185621				47	0	0	50	7	12.2807
CTNNB1	0	genome.wustl.edu	37	3	41275254	41275254	+	Nonsense_Mutation	SNP	C	C	T			TCGA-BR-A4J5-01A-21D-A25D-08	TCGA-BR-A4J5-10A-01D-A25E-08	C	C					Unknown	Untested	Somatic	Phase_IV	WXS	none			Illumina HiSeq	7b148cca-4cd0-4de6-9d42-c7e547a95b72	1fa30850-4b3d-41f4-9dc8-7227d3a617ed	3	41275254	41275254	C	T	SNP	CTNNB1	ENST00000349496	human	ensembl	74_37	+1	known	nonsense	c.1420	p.R474*	1.000	superfamily_ARM-type_fold,pfscan_Armadillo	pfam_Armadillo,superfamily_ARM-type_fold,smart_Armadillo,pfscan_Armadillo,prints_Beta-catenin	-	no_errors	CTNNB1	HGNC	ENSG00000168036				172	0	0	163	9	5.23256
ITPR1	0	genome.wustl.edu	37	3	4558233	4558233	+	Missense_Mutation	SNP	G	G	A			TCGA-BR-A4J5-01A-21D-A25D-08	TCGA-BR-A4J5-10A-01D-A25E-08	G	G					Unknown	Untested	Somatic	Phase_IV	WXS	none			Illumina HiSeq	7b148cca-4cd0-4de6-9d42-c7e547a95b72	1fa30850-4b3d-41f4-9dc8-7227d3a617ed	3	4558233	4558233	G	A	SNP	ITPR1	ENST00000302640	human	ensembl	74_37	+1	known	missense	c.58	p.E20K	1.000	pfam_Ins145_P3_rcpt	pfam_Ca-rel_channel,pfam_Ins145_P3_rcpt,pfam_MIR_motif,pfam_RIH_assoc-dom,pfam_Ion_trans_dom,superfamily_MIR_motif,smart_MIR_motif,prints_InsP3_rcpt-bd,pfscan_MIR_motif	-	no_errors	ITPR1	HGNC	ENSG00000150995				107	0	0	125	10	7.40741
SFMBT1	0	genome.wustl.edu	37	3	52941259	52941259	+	Silent	SNP	G	G	A			TCGA-BR-A4J5-01A-21D-A25D-08	TCGA-BR-A4J5-10A-01D-A25E-08	G	G					Unknown	Untested	Somatic	Phase_IV	WXS	none			Illumina HiSeq	7b148cca-4cd0-4de6-9d42-c7e547a95b72	1fa30850-4b3d-41f4-9dc8-7227d3a617ed	3	52941259	52941259	G	A	SNP	SFMBT1	ENST00000358080	human	ensembl	74_37	-1	known	silent	c.2157	p.S719	0.350	NULL	pfam_Mbt,pfam_DUF3588,pfam_SAM_type1,pfam_SAM_2,superfamily_SAM/pointed,smart_Mbt,smart_SAM,pfscan_Mbt	-	no_errors	SFMBT1	HGNC	ENSG00000163935				103	0	0	91	17	15.7407
CHDH	0	genome.wustl.edu	37	3	53856656	53856656	+	Silent	SNP	G	G	A			TCGA-BR-A4J5-01A-21D-A25D-08	TCGA-BR-A4J5-10A-01D-A25E-08	G	G					Unknown	Untested	Somatic	Phase_IV	WXS	none			Illumina HiSeq	7b148cca-4cd0-4de6-9d42-c7e547a95b72	1fa30850-4b3d-41f4-9dc8-7227d3a617ed	3	53856656	53856656	G	A	SNP	CHDH	ENST00000315251	human	ensembl	74_37	-1	known	silent	c.717	p.S239	0.125	pfam_GMC_OxRdtase_N,pirsf_GMC_OxRdtase	pfam_GMC_OxRdtase_N,pfam_GMC_OxRtase_C,pirsf_GMC_OxRdtase	-	no_errors	CHDH	HGNC	ENSG00000016391				54	0	0	44	4	8.33333
PRICKLE2	0	genome.wustl.edu	37	3	64085080	64085080	+	Missense_Mutation	SNP	G	G	A			TCGA-BR-A4J5-01A-21D-A25D-08	TCGA-BR-A4J5-10A-01D-A25E-08	G	G					Unknown	Untested	Somatic	Phase_IV	WXS	none			Illumina HiSeq	7b148cca-4cd0-4de6-9d42-c7e547a95b72	1fa30850-4b3d-41f4-9dc8-7227d3a617ed	3	64085080	64085080	G	A	SNP	PRICKLE2	ENST00000295902	human	ensembl	74_37	-1	known	missense	c.2182	p.R728C	1.000	NULL	pfam_PET_domain,pfam_Znf_LIM,smart_Znf_LIM,pfscan_Znf_LIM	-	no_errors	PRICKLE2	HGNC	ENSG00000163637				85	0	0	71	7	8.97436
CNTN3	0	genome.wustl.edu	37	3	74384030	74384030	+	Missense_Mutation	SNP	G	G	T			TCGA-BR-A4J5-01A-21D-A25D-08	TCGA-BR-A4J5-10A-01D-A25E-08	G	G					Unknown	Untested	Somatic	Phase_IV	WXS	none			Illumina HiSeq	7b148cca-4cd0-4de6-9d42-c7e547a95b72	1fa30850-4b3d-41f4-9dc8-7227d3a617ed	3	74384030	74384030	G	T	SNP	CNTN3	ENST00000263665	human	ensembl	74_37	-1	known	missense	c.1524	p.N508K	0.969	pfam_Ig_I-set,pfam_Ig_V-set,smart_Ig_sub,pfscan_Ig-like_dom	pfam_Ig_I-set,pfam_Fibronectin_type3,pfam_Immunoglobulin,pfam_Ig_V-set,superfamily_Fibronectin_type3,smart_Ig_sub,smart_Ig_sub2,smart_Fibronectin_type3,pfscan_Fibronectin_type3,pfscan_Ig-like_dom	-	no_errors	CNTN3	HGNC	ENSG00000113805				54	0	0	68	4	5.55556
CNTN3	0	genome.wustl.edu	37	3	74384031	74384031	+	Missense_Mutation	SNP	T	T	G			TCGA-BR-A4J5-01A-21D-A25D-08	TCGA-BR-A4J5-10A-01D-A25E-08	T	T					Unknown	Untested	Somatic	Phase_IV	WXS	none			Illumina HiSeq	7b148cca-4cd0-4de6-9d42-c7e547a95b72	1fa30850-4b3d-41f4-9dc8-7227d3a617ed	3	74384031	74384031	T	G	SNP	CNTN3	ENST00000263665	human	ensembl	74_37	-1	known	missense	c.1523	p.N508T	0.963	pfam_Ig_I-set,pfam_Ig_V-set,smart_Ig_sub,pfscan_Ig-like_dom	pfam_Ig_I-set,pfam_Fibronectin_type3,pfam_Immunoglobulin,pfam_Ig_V-set,superfamily_Fibronectin_type3,smart_Ig_sub,smart_Ig_sub2,smart_Fibronectin_type3,pfscan_Fibronectin_type3,pfscan_Ig-like_dom	-	no_errors	CNTN3	HGNC	ENSG00000113805				54	0	0	66	4	5.71429
PCDH10	0	genome.wustl.edu	37	4	134084217	134084217	+	Silent	SNP	T	T	C			TCGA-BR-A4J5-01A-21D-A25D-08	TCGA-BR-A4J5-10A-01D-A25E-08	T	T					Unknown	Untested	Somatic	Phase_IV	WXS	none			Illumina HiSeq	7b148cca-4cd0-4de6-9d42-c7e547a95b72	1fa30850-4b3d-41f4-9dc8-7227d3a617ed	4	134084217	134084217	T	C	SNP	PCDH10	ENST00000264360	human	ensembl	74_37	+1	known	silent	c.2883	p.S961	0.545	NULL	pfam_Cadherin,pfam_Cadherin_N,superfamily_Cadherin-like,smart_Cadherin,pfscan_Cadherin,prints_Cadherin	-	no_errors	PCDH10	HGNC	ENSG00000138650				88	0	0	82	13	13.6842
ZFP42	0	genome.wustl.edu	37	4	188924059	188924059	+	Missense_Mutation	SNP	G	G	T			TCGA-BR-A4J5-01A-21D-A25D-08	TCGA-BR-A4J5-10A-01D-A25E-08	G	G					Unknown	Untested	Somatic	Phase_IV	WXS	none			Illumina HiSeq	7b148cca-4cd0-4de6-9d42-c7e547a95b72	1fa30850-4b3d-41f4-9dc8-7227d3a617ed	4	188924059	188924059	G	T	SNP	ZFP42	ENST00000326866	human	ensembl	74_37	+1	known	missense	c.98	p.S33I	0.000	NULL	smart_Znf_C2H2-like,pfscan_Znf_C2H2	-	no_errors	ZFP42	HGNC	ENSG00000179059				81	0	0	77	9	10.4651
MMRN1	0	genome.wustl.edu	37	4	90874205	90874205	+	Missense_Mutation	SNP	C	C	T			TCGA-BR-A4J5-01A-21D-A25D-08	TCGA-BR-A4J5-10A-01D-A25E-08	C	C					Unknown	Untested	Somatic	Phase_IV	WXS	none			Illumina HiSeq	7b148cca-4cd0-4de6-9d42-c7e547a95b72	1fa30850-4b3d-41f4-9dc8-7227d3a617ed	4	90874205	90874205	C	T	SNP	MMRN1	ENST00000264790	human	ensembl	74_37	+1	known	missense	c.3323	p.T1108M	0.742	pfam_C1q,superfamily_Tumour_necrosis_fac-like_dom,smart_C1q,pfscan_C1q	pfam_C1q,pfam_EMI_domain,pfam_EG-like_dom,superfamily_Tumour_necrosis_fac-like_dom,smart_EG-like_dom,smart_EGF-like_Ca-bd_dom,smart_C1q,prints_C1q,pfscan_C1q,pfscan_EG-like_dom,pfscan_EMI_domain	-	no_errors	MMRN1	HGNC	ENSG00000138722				63	0	0	87	7	7.44681
PCDHB5	0	genome.wustl.edu	37	5	140515567	140515567	+	Missense_Mutation	SNP	A	A	C			TCGA-BR-A4J5-01A-21D-A25D-08	TCGA-BR-A4J5-10A-01D-A25E-08	A	A					Unknown	Untested	Somatic	Phase_IV	WXS	none			Illumina HiSeq	7b148cca-4cd0-4de6-9d42-c7e547a95b72	1fa30850-4b3d-41f4-9dc8-7227d3a617ed	5	140515567	140515567	A	C	SNP	PCDHB5	ENST00000231134	human	ensembl	74_37	+1	known	missense	c.551	p.N184T	0.000	pfam_Cadherin,superfamily_Cadherin-like,smart_Cadherin,pfscan_Cadherin	pfam_Cadherin,pfam_Cadherin_N,superfamily_Cadherin-like,smart_Cadherin,pfscan_Cadherin,prints_Cadherin	-	no_errors	PCDHB5	HGNC	ENSG00000113209				95	0	0	99	12	10.8108
PCDHB5	0	genome.wustl.edu	37	5	140517234	140517234	+	Missense_Mutation	SNP	G	G	C			TCGA-BR-A4J5-01A-21D-A25D-08	TCGA-BR-A4J5-10A-01D-A25E-08	G	G					Unknown	Untested	Somatic	Phase_IV	WXS	none			Illumina HiSeq	7b148cca-4cd0-4de6-9d42-c7e547a95b72	1fa30850-4b3d-41f4-9dc8-7227d3a617ed	5	140517234	140517234	G	C	SNP	PCDHB5	ENST00000231134	human	ensembl	74_37	+1	known	missense	c.2218	p.G740R	0.004	NULL	pfam_Cadherin,pfam_Cadherin_N,superfamily_Cadherin-like,smart_Cadherin,pfscan_Cadherin,prints_Cadherin	-	no_errors	PCDHB5	HGNC	ENSG00000113209				283	0	0	250	23	8.42491
BASP1	0	genome.wustl.edu	37	5	17275894	17275894	+	Missense_Mutation	SNP	C	C	T			TCGA-BR-A4J5-01A-21D-A25D-08	TCGA-BR-A4J5-10A-01D-A25E-08	C	C					Unknown	Untested	Somatic	Phase_IV	WXS	none			Illumina HiSeq	7b148cca-4cd0-4de6-9d42-c7e547a95b72	1fa30850-4b3d-41f4-9dc8-7227d3a617ed	5	17275894	17275894	C	T	SNP	BASP1	ENST00000322611	human	ensembl	74_37	+1	known	missense	c.569	p.T190M	0.806	pfam_BASP1	pfam_BASP1	-	no_errors	BASP1	HGNC	ENSG00000176788				34	0	0	31	8	20.5128
CDH6	0	genome.wustl.edu	37	5	31317787	31317787	+	Silent	SNP	G	G	A			TCGA-BR-A4J5-01A-21D-A25D-08	TCGA-BR-A4J5-10A-01D-A25E-08	G	G					Unknown	Untested	Somatic	Phase_IV	WXS	none			Illumina HiSeq	7b148cca-4cd0-4de6-9d42-c7e547a95b72	1fa30850-4b3d-41f4-9dc8-7227d3a617ed	5	31317787	31317787	G	A	SNP	CDH6	ENST00000265071	human	ensembl	74_37	+1	known	silent	c.1638	p.T546	0.236	pfam_Cadherin,superfamily_Cadherin-like,smart_Cadherin,pfscan_Cadherin	pfam_Cadherin,pfam_Cadherin_cytoplasmic-dom,superfamily_Cadherin-like,smart_Cadherin,pfscan_Cadherin,prints_Cadherin	-	no_errors	CDH6	HGNC	ENSG00000113361				98	0	0	98	11	10.0917
RNF180	0	genome.wustl.edu	37	5	63509836	63509836	+	Nonsense_Mutation	SNP	C	C	A			TCGA-BR-A4J5-01A-21D-A25D-08	TCGA-BR-A4J5-10A-01D-A25E-08	C	C					Unknown	Untested	Somatic	Phase_IV	WXS	none			Illumina HiSeq	7b148cca-4cd0-4de6-9d42-c7e547a95b72	1fa30850-4b3d-41f4-9dc8-7227d3a617ed	5	63509836	63509836	C	A	SNP	RNF180	ENST00000389100	human	ensembl	74_37	+1	known	nonsense	c.683	p.S228*	1.000	NULL	pfam_Znf_C3HC4_RING-type,smart_Znf_RING,pfscan_Znf_RING	-	no_errors	RNF180	HGNC	ENSG00000164197				86	0	0	86	8	8.51064
SYCP2L	0	genome.wustl.edu	37	6	10927498	10927498	+	Missense_Mutation	SNP	G	G	T			TCGA-BR-A4J5-01A-21D-A25D-08	TCGA-BR-A4J5-10A-01D-A25E-08	G	G					Unknown	Untested	Somatic	Phase_IV	WXS	none			Illumina HiSeq	7b148cca-4cd0-4de6-9d42-c7e547a95b72	1fa30850-4b3d-41f4-9dc8-7227d3a617ed	6	10927498	10927498	G	T	SNP	SYCP2L	ENST00000283141	human	ensembl	74_37	+1	known	missense	c.1338	p.M446I	0.000	NULL	NULL	-	no_errors	SYCP2L	HGNC	ENSG00000153157				68	0	0	53	4	7.01754
TPD52L1	0	genome.wustl.edu	37	6	125583981	125583981	+	Nonsense_Mutation	SNP	C	C	T			TCGA-BR-A4J5-01A-21D-A25D-08	TCGA-BR-A4J5-10A-01D-A25E-08	C	C					Unknown	Untested	Somatic	Phase_IV	WXS	none			Illumina HiSeq	7b148cca-4cd0-4de6-9d42-c7e547a95b72	1fa30850-4b3d-41f4-9dc8-7227d3a617ed	6	125583981	125583981	C	T	SNP	TPD52L1	ENST00000368402	human	ensembl	74_37	+1	known	nonsense	c.427	p.R143*	1.000	NULL	pfam_TPD52	-	no_errors	TPD52L1	HGNC	ENSG00000111907				67	0	0	77	7	8.33333
PLEKHG1	0	genome.wustl.edu	37	6	151151998	151151998	+	Missense_Mutation	SNP	G	G	A			TCGA-BR-A4J5-01A-21D-A25D-08	TCGA-BR-A4J5-10A-01D-A25E-08	G	G					Unknown	Untested	Somatic	Phase_IV	WXS	none			Illumina HiSeq	7b148cca-4cd0-4de6-9d42-c7e547a95b72	1fa30850-4b3d-41f4-9dc8-7227d3a617ed	6	151151998	151151998	G	A	SNP	PLEKHG1	ENST00000358517	human	ensembl	74_37	+1	known	missense	c.1751	p.R584H	0.999	NULL	pfam_DH-domain,superfamily_DH-domain,smart_DH-domain,smart_Pleckstrin_homology,pfscan_Pleckstrin_homology,pfscan_DH-domain	-	no_errors	PLEKHG1	HGNC	ENSG00000120278				143	0	0	113	13	10.3175
DDX39B	0	genome.wustl.edu	37	6	31506924	31506924	+	Silent	SNP	C	C	T			TCGA-BR-A4J5-01A-21D-A25D-08	TCGA-BR-A4J5-10A-01D-A25E-08	C	C					Unknown	Untested	Somatic	Phase_IV	WXS	none			Illumina HiSeq	7b148cca-4cd0-4de6-9d42-c7e547a95b72	1fa30850-4b3d-41f4-9dc8-7227d3a617ed	6	31506924	31506924	C	T	SNP	DDX39B	ENST00000417556	human	ensembl	74_37	-1	known	silent	c.339	p.Q113	1.000	pfam_DNA/RNA_helicase_DEAD/DEAH_N,smart_Helicase_ATP-bd,pfscan_Helicase_ATP-bd	pfam_DNA/RNA_helicase_DEAD/DEAH_N,pfam_Helicase_C,superfamily_P-loop_NTPase,smart_Helicase_ATP-bd,smart_Helicase_C,pfscan_Helicase_ATP-bd,pfscan_Helicase_C,pfscan_RNA_helicase_DEAD_Q_motif	-	no_errors	DDX39B	HGNC	ENSG00000198563				278	0	0	194	11	5.36585
NOTCH4	0	genome.wustl.edu	37	6	32164799	32164799	+	Silent	SNP	C	C	T			TCGA-BR-A4J5-01A-21D-A25D-08	TCGA-BR-A4J5-10A-01D-A25E-08	C	C					Unknown	Untested	Somatic	Phase_IV	WXS	none			Illumina HiSeq	7b148cca-4cd0-4de6-9d42-c7e547a95b72	1fa30850-4b3d-41f4-9dc8-7227d3a617ed	6	32164799	32164799	C	T	SNP	NOTCH4	ENST00000375023	human	ensembl	74_37	-1	known	silent	c.5103	p.G1701	0.998	pirsf_Notch,pfam_Ankyrin_rpt,superfamily_Ankyrin_rpt-contain_dom,smart_Ankyrin_rpt,pfscan_Ankyrin_rpt,pfscan_Ankyrin_rpt-contain_dom	pirsf_Notch,pfam_EG-like_dom,pfam_Ankyrin_rpt,pfam_EGF-like_Ca-bd_dom,pfam_Notch_dom,pfam_Notch_NODP_dom,superfamily_Ankyrin_rpt-contain_dom,superfamily_Notch_dom,smart_EG-like_dom,smart_EGF-like_Ca-bd_dom,smart_Notch_dom,smart_Ankyrin_rpt,prints_Notch_4,prints_Notch_dom,pfscan_Ankyrin_rpt,pfscan_Ankyrin_rpt-contain_dom,pfscan_EG-like_dom,pfscan_Notch_dom	-	no_errors	NOTCH4	HGNC	ENSG00000204301				133	0	0	108	10	8.47458
PLXNA4	0	genome.wustl.edu	37	7	131872344	131872344	+	Missense_Mutation	SNP	T	T	G			TCGA-BR-A4J5-01A-21D-A25D-08	TCGA-BR-A4J5-10A-01D-A25E-08	T	T					Unknown	Untested	Somatic	Phase_IV	WXS	none			Illumina HiSeq	7b148cca-4cd0-4de6-9d42-c7e547a95b72	1fa30850-4b3d-41f4-9dc8-7227d3a617ed	7	131872344	131872344	T	G	SNP	PLXNA4	ENST00000321063	human	ensembl	74_37	-1	known	missense	c.2879	p.K960T	1.000	pfam_IPT,superfamily_Ig_E-set,smart_IPT	pfam_Plexin_cytoplasmic_RasGAP_dom,pfam_Semap_dom,pfam_IPT,pfam_Plexin_repeat,superfamily_Semap_dom,superfamily_Rho_GTPase_activation_prot,superfamily_Ig_E-set,superfamily_Plexin-like_fold,smart_Semap_dom,smart_Plexin-like_fold,smart_IPT,pfscan_Semap_dom	-	no_errors	PLXNA4	HGNC	ENSG00000221866				283	1	0.352113	265	27	9.24658
MAD1L1	0	genome.wustl.edu	37	7	2020096	2020096	+	Silent	SNP	G	G	A			TCGA-BR-A4J5-01A-21D-A25D-08	TCGA-BR-A4J5-10A-01D-A25E-08	G	G					Unknown	Untested	Somatic	Phase_IV	WXS	none			Illumina HiSeq	7b148cca-4cd0-4de6-9d42-c7e547a95b72	1fa30850-4b3d-41f4-9dc8-7227d3a617ed	7	2020096	2020096	G	A	SNP	MAD1L1	ENST00000265854	human	ensembl	74_37	-1	known	silent	c.1497	p.D499	0.000	pfam_Mad1	pfam_Mad1	-	no_errors	MAD1L1	HGNC	ENSG00000002822				19	0	0	16	6	27.2727
POLR2J4	0	genome.wustl.edu	37	7	44012846	44012846	+	RNA	SNP	C	C	T			TCGA-BR-A4J5-01A-21D-A25D-08	TCGA-BR-A4J5-10A-01D-A25E-08	C	C					Unknown	Untested	Somatic	Phase_IV	WXS	none			Illumina HiSeq	7b148cca-4cd0-4de6-9d42-c7e547a95b72	1fa30850-4b3d-41f4-9dc8-7227d3a617ed	7	44012846	44012846	C	T	SNP	POLR2J4	ENST00000422304	human	ensembl	74_37	-1	known	rna	NULL	NULL	0.969	-	-	-	no_errors	POLR2J4	HGNC	ENSG00000214783				40	0	0	15	6	28.5714
GRM3	0	genome.wustl.edu	37	7	86416411	86416411	+	Silent	SNP	T	T	C			TCGA-BR-A4J5-01A-21D-A25D-08	TCGA-BR-A4J5-10A-01D-A25E-08	T	T					Unknown	Untested	Somatic	Phase_IV	WXS	none			Illumina HiSeq	7b148cca-4cd0-4de6-9d42-c7e547a95b72	1fa30850-4b3d-41f4-9dc8-7227d3a617ed	7	86416411	86416411	T	C	SNP	GRM3	ENST00000361669	human	ensembl	74_37	+1	known	silent	c.1303	p.L435	0.963	pfam_ANF_lig-bd_rcpt,superfamily_Peripla_BP_I,prints_GPCR_3_mtglu_rcpt_2	pfam_ANF_lig-bd_rcpt,pfam_GPCR_3_C,pfam_GPCR_3_9-Cys_dom,superfamily_Peripla_BP_I,pfscan_GPCR_3_C,prints_GPCR_3,prints_GPCR_3_mtglu_rcpt_3,prints_GPCR_3_mtglu_rcpt,prints_GPCR_3_mtglu_rcpt_2,prints_GPCR_3_GABA_rcpt_B	-	no_errors	GRM3	HGNC	ENSG00000198822				141	0	0	132	12	8.33333
TRPS1	0	genome.wustl.edu	37	8	116616763	116616763	+	Missense_Mutation	SNP	C	C	G			TCGA-BR-A4J5-01A-21D-A25D-08	TCGA-BR-A4J5-10A-01D-A25E-08	C	C					Unknown	Untested	Somatic	Phase_IV	WXS	none			Illumina HiSeq	7b148cca-4cd0-4de6-9d42-c7e547a95b72	1fa30850-4b3d-41f4-9dc8-7227d3a617ed	8	116616763	116616763	C	G	SNP	TRPS1	ENST00000395715	human	ensembl	74_37	-1	known	missense	c.1433	p.G478A	0.967	NULL	pfam_Znf_GATA,smart_Znf_C2H2-like,smart_Znf_GATA,pfscan_Znf_C2H2,pfscan_Znf_GATA,prints_Znf_GATA	-	no_errors	TRPS1	HGNC	ENSG00000104447				55	0	0	79	8	9.1954
SCRIB	0	genome.wustl.edu	37	8	144893160	144893160	+	Missense_Mutation	SNP	G	G	A			TCGA-BR-A4J5-01A-21D-A25D-08	TCGA-BR-A4J5-10A-01D-A25E-08	G	G					Unknown	Untested	Somatic	Phase_IV	WXS	none			Illumina HiSeq	7b148cca-4cd0-4de6-9d42-c7e547a95b72	1fa30850-4b3d-41f4-9dc8-7227d3a617ed	8	144893160	144893160	G	A	SNP	SCRIB	ENST00000320476	human	ensembl	74_37	-1	known	missense	c.1189	p.R397W	0.526	NULL	pfam_PDZ,pfam_Leu-rich_rpt,superfamily_PDZ,smart_Leu-rich_rpt_typical-subtyp,smart_PDZ,pfscan_PDZ	-	no_errors	SCRIB	HGNC	ENSG00000180900				34	0	0	21	4	16
INTS10	0	genome.wustl.edu	37	8	19703225	19703225	+	Missense_Mutation	SNP	G	G	C			TCGA-BR-A4J5-01A-21D-A25D-08	TCGA-BR-A4J5-10A-01D-A25E-08	G	G					Unknown	Untested	Somatic	Phase_IV	WXS	none			Illumina HiSeq	7b148cca-4cd0-4de6-9d42-c7e547a95b72	1fa30850-4b3d-41f4-9dc8-7227d3a617ed	8	19703225	19703225	G	C	SNP	INTS10	ENST00000397977	human	ensembl	74_37	+1	known	missense	c.1893	p.M631I	1.000	NULL	NULL	-	no_errors	INTS10	HGNC	ENSG00000104613				55	0	0	46	6	11.5385
KCNU1	0	genome.wustl.edu	37	8	36793187	36793187	+	Missense_Mutation	SNP	G	G	A			TCGA-BR-A4J5-01A-21D-A25D-08	TCGA-BR-A4J5-10A-01D-A25E-08	G	G					Unknown	Untested	Somatic	Phase_IV	WXS	none			Illumina HiSeq	7b148cca-4cd0-4de6-9d42-c7e547a95b72	1fa30850-4b3d-41f4-9dc8-7227d3a617ed	8	36793187	36793187	G	A	SNP	KCNU1	ENST00000399881	human	ensembl	74_37	+1	known	missense	c.3199	p.E1067K	0.001	NULL	pfam_K_chnl_Ca-activ_BK_asu,pfam_2pore_dom_K_chnl_dom,prints_K_chnl_Ca-activ_BK_asu	-	no_errors	KCNU1	HGNC	ENSG00000215262				97	0	0	129	12	8.51064
ANGPTL2	0	genome.wustl.edu	37	9	129856054	129856054	+	Silent	SNP	C	C	T			TCGA-BR-A4J5-01A-21D-A25D-08	TCGA-BR-A4J5-10A-01D-A25E-08	C	C					Unknown	Untested	Somatic	Phase_IV	WXS	none			Illumina HiSeq	7b148cca-4cd0-4de6-9d42-c7e547a95b72	1fa30850-4b3d-41f4-9dc8-7227d3a617ed	9	129856054	129856054	C	T	SNP	ANGPTL2	ENST00000373425	human	ensembl	74_37	-1	known	silent	c.969	p.L323	1.000	pfam_Fibrinogen_a/b/g_C_dom,superfamily_Fibrinogen_a/b/g_C_dom,smart_Fibrinogen_a/b/g_C_dom	pfam_Fibrinogen_a/b/g_C_dom,superfamily_Fibrinogen_a/b/g_C_dom,smart_Fibrinogen_a/b/g_C_dom	-	no_errors	ANGPTL2	HGNC	ENSG00000136859				158	0	0	114	15	11.6279
MPDZ	0	genome.wustl.edu	37	9	13222275	13222275	+	Missense_Mutation	SNP	C	C	T			TCGA-BR-A4J5-01A-21D-A25D-08	TCGA-BR-A4J5-10A-01D-A25E-08	C	C					Unknown	Untested	Somatic	Phase_IV	WXS	none			Illumina HiSeq	7b148cca-4cd0-4de6-9d42-c7e547a95b72	1fa30850-4b3d-41f4-9dc8-7227d3a617ed	9	13222275	13222275	C	T	SNP	MPDZ	ENST00000319217	human	ensembl	74_37	-1	known	missense	c.704	p.R235H	1.000	superfamily_PDZ	pfam_PDZ,pfam_L27_2,superfamily_PDZ,smart_PDZ,pfscan_L27,pfscan_PDZ	-	no_errors	MPDZ	HGNC	ENSG00000107186				86	0	0	65	8	10.9589
OBP2B	0	genome.wustl.edu	37	9	136083546	136083546	+	Missense_Mutation	SNP	G	G	A			TCGA-BR-A4J5-01A-21D-A25D-08	TCGA-BR-A4J5-10A-01D-A25E-08	G	G					Unknown	Untested	Somatic	Phase_IV	WXS	none			Illumina HiSeq	7b148cca-4cd0-4de6-9d42-c7e547a95b72	1fa30850-4b3d-41f4-9dc8-7227d3a617ed	9	136083546	136083546	G	A	SNP	OBP2B	ENST00000372034	human	ensembl	74_37	-1	known	missense	c.251	p.T84M	0.001	pfam_Lipocln_cytosolic_FA-bd_dom,superfamily_Calycin-like,prints_von_Ebner_gland	pfam_Lipocln_cytosolic_FA-bd_dom,superfamily_Calycin-like,prints_von_Ebner_gland,prints_PstgldnD_synth	-	no_errors	OBP2B	HGNC	ENSG00000171102				66	0	0	43	4	8.51064
BNC2	0	genome.wustl.edu	37	9	16419550	16419550	+	Missense_Mutation	SNP	G	G	A			TCGA-BR-A4J5-01A-21D-A25D-08	TCGA-BR-A4J5-10A-01D-A25E-08	G	G					Unknown	Untested	Somatic	Phase_IV	WXS	none			Illumina HiSeq	7b148cca-4cd0-4de6-9d42-c7e547a95b72	1fa30850-4b3d-41f4-9dc8-7227d3a617ed	9	16419550	16419550	G	A	SNP	BNC2	ENST00000380672	human	ensembl	74_37	-1	known	missense	c.2737	p.R913C	1.000	NULL	smart_Znf_C2H2-like,pfscan_Znf_C2H2	-	no_errors	BNC2	HGNC	ENSG00000173068				137	1	0.724638	126	7	5.26316
GNE	0	genome.wustl.edu	37	9	36219904	36219904	+	Missense_Mutation	SNP	T	T	C			TCGA-BR-A4J5-01A-21D-A25D-08	TCGA-BR-A4J5-10A-01D-A25E-08	T	T					Unknown	Untested	Somatic	Phase_IV	WXS	none			Illumina HiSeq	7b148cca-4cd0-4de6-9d42-c7e547a95b72	1fa30850-4b3d-41f4-9dc8-7227d3a617ed	9	36219904	36219904	T	C	SNP	GNE	ENST00000396594	human	ensembl	74_37	-1	known	missense	c.1840	p.S614G	1.000	pfam_ROK	pfam_UDP_GlcNAc_Epimerase_2,pfam_ROK,prints_Hexokinase,tigrfam_UDP-GlcNAc_Epase	-	no_errors	GNE	HGNC	ENSG00000159921				83	0	0	69	10	12.6582
DIRAS2	0	genome.wustl.edu	37	9	93375922	93375922	+	Missense_Mutation	SNP	G	G	A			TCGA-BR-A4J5-01A-21D-A25D-08	TCGA-BR-A4J5-10A-01D-A25E-08	G	G					Unknown	Untested	Somatic	Phase_IV	WXS	none			Illumina HiSeq	7b148cca-4cd0-4de6-9d42-c7e547a95b72	1fa30850-4b3d-41f4-9dc8-7227d3a617ed	9	93375922	93375922	G	A	SNP	DIRAS2	ENST00000375765	human	ensembl	74_37	-1	known	missense	c.188	p.T63M	1.000	pfam_Small_GTPase,pfam_MIRO-like,superfamily_P-loop_NTPase,smart_Small_GTPase_Ras,smart_Small_GTPase_Rab_type,smart_Small_GTPase_Rho,prints_Small_GTPase,tigrfam_Small_GTP-bd_dom	pfam_Small_GTPase,pfam_MIRO-like,superfamily_P-loop_NTPase,smart_Small_GTPase_Ras,smart_Small_GTPase_Rab_type,smart_Small_GTPase_Rho,prints_Small_GTPase,tigrfam_Small_GTP-bd_dom	-	no_errors	DIRAS2	HGNC	ENSG00000165023				148	0	0	164	21	11.3514
USP26	0	genome.wustl.edu	37	X	132161205	132161205	+	Missense_Mutation	SNP	A	A	T			TCGA-BR-A4J5-01A-21D-A25D-08	TCGA-BR-A4J5-10A-01D-A25E-08	A	A					Unknown	Untested	Somatic	Phase_IV	WXS	none			Illumina HiSeq	7b148cca-4cd0-4de6-9d42-c7e547a95b72	1fa30850-4b3d-41f4-9dc8-7227d3a617ed	X	132161205	132161205	A	T	SNP	USP26	ENST00000370832	human	ensembl	74_37	-1	known	missense	c.1044	p.F348L	0.541	pfam_Peptidase_C19/C67,pfscan_Peptidase_C19/C67	pfam_Peptidase_C19/C67,pfscan_Peptidase_C19/C67	-	no_errors	USP26	HGNC	ENSG00000134588				41	0	0	36	9	20
FMR1	0	genome.wustl.edu	37	X	147013989	147013989	+	Nonsense_Mutation	SNP	A	A	T			TCGA-BR-A4J5-01A-21D-A25D-08	TCGA-BR-A4J5-10A-01D-A25E-08	A	A					Unknown	Untested	Somatic	Phase_IV	WXS	none			Illumina HiSeq	7b148cca-4cd0-4de6-9d42-c7e547a95b72	1fa30850-4b3d-41f4-9dc8-7227d3a617ed	X	147013989	147013989	A	T	SNP	FMR1	ENST00000370475	human	ensembl	74_37	+1	known	nonsense	c.676	p.R226*	0.999	pfam_KH_dom_type_1,smart_KH_dom,pfscan_KH_dom_type_1	pfam_Frag_X_MRP_fam,pfam_KH_dom_type_1,pfam_Agenet-like_dom,smart_KH_dom,pfscan_KH_dom_type_1	-	no_errors	FMR1	HGNC	ENSG00000102081				61	0	0	54	10	15.625
FGD1	0	genome.wustl.edu	37	X	54497834	54497834	+	Missense_Mutation	SNP	G	G	A			TCGA-BR-A4J5-01A-21D-A25D-08	TCGA-BR-A4J5-10A-01D-A25E-08	G	G					Unknown	Untested	Somatic	Phase_IV	WXS	none			Illumina HiSeq	7b148cca-4cd0-4de6-9d42-c7e547a95b72	1fa30850-4b3d-41f4-9dc8-7227d3a617ed	X	54497834	54497834	G	A	SNP	FGD1	ENST00000375135	human	ensembl	74_37	-1	known	missense	c.394	p.R132W	0.655	NULL	pfam_DH-domain,pfam_Pleckstrin_homology,pfam_Znf_FYVE,superfamily_DH-domain,superfamily_Znf_FYVE_PHD,smart_DH-domain,smart_Pleckstrin_homology,smart_Znf_FYVE,pfscan_Pleckstrin_homology,pfscan_Znf_FYVE-rel,pfscan_DH-domain	-	no_errors	FGD1	HGNC	ENSG00000102302				42	0	0	37	5	11.9048
PCDH11Y	0	genome.wustl.edu	37	Y	4925415	4925415	+	Missense_Mutation	SNP	C	C	T			TCGA-BR-A4J5-01A-21D-A25D-08	TCGA-BR-A4J5-10A-01D-A25E-08	C	C					Unknown	Untested	Somatic	Phase_IV	WXS	none			Illumina HiSeq	7b148cca-4cd0-4de6-9d42-c7e547a95b72	1fa30850-4b3d-41f4-9dc8-7227d3a617ed	Y	4925415	4925415	C	T	SNP	PCDH11Y	ENST00000215473	human	ensembl	74_37	+1	known	missense	c.551	p.S184L	0.998	pfam_Cadherin,superfamily_Cadherin-like,pfscan_Cadherin	pfam_Cadherin,pfam_Protocadherin,pfam_Cadherin_N,superfamily_Cadherin-like,smart_Cadherin,pfscan_Cadherin,prints_Cadherin	-	no_errors	PCDH11Y	HGNC	ENSG00000099715				32	0	0	23	9	28.125
MUC2	0	genome.wustl.edu	37	11	1093864	1093876	+	Frame_Shift_Del	DEL	ACGGCACCCACGA	ACGGCACCCACGA	-			TCGA-BR-A4J5-01A-21D-A25D-08	TCGA-BR-A4J5-10A-01D-A25E-08	ACGGCACCCACGA	ACGGCACCCACGA					Unknown	Untested	Somatic	Phase_IV	WXS	none			Illumina HiSeq	7b148cca-4cd0-4de6-9d42-c7e547a95b72	1fa30850-4b3d-41f4-9dc8-7227d3a617ed	11	1093864	1093876	ACGGCACCCACGA	-	DEL	MUC2	ENST00000441003	human	ensembl	74_37	+1	known	frame_shift_del	c.5683_5695	p.T1895fs	0.001:0.001:0.000:0.000:0.000:0.000:0.000:0.002:0.000:0.000:0.000:0.000:0.001	NULL	pfam_VWF_type-D,pfam_Unchr_dom_Cys-rich,pfam_TIL_dom,superfamily_TIL_dom,superfamily_Prot_inh_PMP,smart_VWF_type-D,smart_Unchr_dom_Cys-rich,smart_VWC_out,smart_VWF_C,smart_Cys_knot_C,pfscan_Cys_knot_C,pfscan_VWF_C	-	no_errors	MUC2	HGNC	ENSG00000198788				161	0	0	135	9	6.25
LOC101928215	0	genome.wustl.edu	37	16	29118702	29118704	+	RNA	DEL	AGC	AGC	-			TCGA-BR-A4J5-01A-21D-A25D-08	TCGA-BR-A4J5-10A-01D-A25E-08	AGC	AGC					Unknown	Untested	Somatic	Phase_IV	WXS	none			Illumina HiSeq	7b148cca-4cd0-4de6-9d42-c7e547a95b72	1fa30850-4b3d-41f4-9dc8-7227d3a617ed	16	29118702	29118704	AGC	-	DEL	LOC101928215	ENST00000562618	human	ensembl	74_37	-1	known	rna	NULL	NULL	0.009:0.009:0.009	-	-	-	no_errors	CTB-134H23.3	Clone_based_vega_gene	ENSG00000260908				8	0	0	4	2	33.3333
