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	dbSNP	GMAF	n_ref_count	n_alt_count	normal_vaf	t_ref_count	t_alt_count	tumor_vaf	n_ref_count_val	n_alt_count_val	normal_vaf_val	t_ref_count_val	t_alt_count_val	tumor_vaf_val
NEDD8	0	genome.wustl.edu	37	14	24701505	24701505	+	R	SNP	A	A	C			TCGA-IS-A3K8-01A-11D-A21Q-09	TCGA-IS-A3K8-10A-01D-A21Q-09	A	A					Unknown	Untested	Somatic	Phase_IV	WXS	none			Illumina HiSeq 2500	6561d745-a655-499e-b74b-4f471d9899b7	b123395c-9192-4f50-a4c5-2f9fe3706427	14	24701505	24701505	A	C	SNP	NEDD8	ENST00000526430	human	ensembl	74_37	-1	known	rna	NULL	NULL	0.002	-	-	-	no_errors	NEDD8	HGNC	ENSG00000129559	tier1	-	-	60	0	0.00	14	38	73.08						
MARK4	0	genome.wustl.edu	37	19	45783712	45783712	+	Missense_Mutation	SNP	A	A	G			TCGA-IS-A3K8-01A-11D-A21Q-09	TCGA-IS-A3K8-10A-01D-A21Q-09	A	A					Unknown	Untested	Somatic	Phase_IV	WXS	none			Illumina HiSeq 2500	6561d745-a655-499e-b74b-4f471d9899b7	b123395c-9192-4f50-a4c5-2f9fe3706427	19	45783712	45783712	A	G	SNP	MARK4	ENST00000262891	human	ensembl	74_37	+1	known	missense	c.1087	p.T363A	1.000	pfam_UBA/Ts_N,superfamily_UBA-like,smart_UBA/transl_elong_EF1B_N_euk,pfscan_UBA/transl_elong_EF1B_N_euk	pfam_Prot_kinase_dom,pfam_Ser-Thr/Tyr_kinase_cat_dom,pfam_KA1_dom,pfam_UBA/Ts_N,superfamily_Kinase-like_dom,superfamily_KA1/Ssp2_C,superfamily_UBA-like,smart_Ser/Thr_dual-sp_kinase_dom,smart_Tyr_kinase_cat_dom,smart_UBA/transl_elong_EF1B_N_euk,prints_Ser-Thr/Tyr_kinase_cat_dom,pfscan_UBA/transl_elong_EF1B_N_euk,pfscan_Prot_kinase_dom	-	no_errors	MARK4	HGNC	ENSG00000007047	tier1	-	-	52	0	0.00	45	45	49.45						
CLNK	0	genome.wustl.edu	37	4	10560071	10560071	+	Missense_Mutation	SNP	G	G	T			TCGA-IS-A3K8-01A-11D-A21Q-09	TCGA-IS-A3K8-10A-01D-A21Q-09	G	G					Unknown	Untested	Somatic	Phase_IV	WXS	none			Illumina HiSeq 2500	6561d745-a655-499e-b74b-4f471d9899b7	b123395c-9192-4f50-a4c5-2f9fe3706427	4	10560071	10560071	G	T	SNP	CLNK	ENST00000226951	human	ensembl	74_37	-1	known	missense	c.405	p.D135E	0.000	NULL	pfam_SH2,smart_SH2,pfscan_SH2,prints_SH2	-	no_errors	CLNK	HGNC	ENSG00000109684	tier1	-	-	58	0	0.00	43	18	29.51						
KBTBD7	0	genome.wustl.edu	37	13	41767967	41767967	+	Missense_Mutation	SNP	G	G	A			TCGA-IS-A3K8-01A-11D-A21Q-09	TCGA-IS-A3K8-10A-01D-A21Q-09	G	G					Unknown	Untested	Somatic	Phase_IV	WXS	none			Illumina HiSeq 2500	6561d745-a655-499e-b74b-4f471d9899b7	b123395c-9192-4f50-a4c5-2f9fe3706427	13	41767967	41767967	G	A	SNP	KBTBD7	ENST00000379483	human	ensembl	74_37	-1	known	missense	c.427	p.R143C	1.000	pfam_BTB_POZ,superfamily_BTB/POZ_fold,smart_BTB/POZ-like,pirsf_Kelch-like_gigaxonin	pfam_BTB_POZ,pfam_BACK,pfam_Kelch_1,superfamily_BTB/POZ_fold,smart_BTB/POZ-like,smart_BACK,smart_Kelch_1,pirsf_Kelch-like_gigaxonin,pfscan_BTB/POZ-like	-	no_errors	KBTBD7	HGNC	ENSG00000120696	tier1	-	-	36	0	0.00	24	23	48.94						
PLEKHO1	0	genome.wustl.edu	37	1	150131221	150131222	+	Frame_Shift_Ins	INS	-	-	A			TCGA-IS-A3K8-01A-11D-A21Q-09	TCGA-IS-A3K8-10A-01D-A21Q-09	-	-					Unknown	Untested	Somatic	Phase_IV	WXS	none			Illumina HiSeq 2500	6561d745-a655-499e-b74b-4f471d9899b7	b123395c-9192-4f50-a4c5-2f9fe3706427	1	150131221	150131222	-	A	INS	PLEKHO1	ENST00000025469	human	ensembl	74_37	+1	known	frame_shift_ins	c.631_632	p.T213fs	0.999:0.887	NULL	pfam_Pleckstrin_homology,smart_Pleckstrin_homology,pfscan_Pleckstrin_homology	-	no_errors	PLEKHO1	HGNC	ENSG00000023902	tier1			36	0	0.00	29	10	25.64						
RNF123	0	genome.wustl.edu	37	3	49749965	49749965	+	Missense_Mutation	SNP	G	G	T			TCGA-IS-A3K8-01A-11D-A21Q-09	TCGA-IS-A3K8-10A-01D-A21Q-09	G	G					Unknown	Untested	Somatic	Phase_IV	WXS	none			Illumina HiSeq 2500	6561d745-a655-499e-b74b-4f471d9899b7	b123395c-9192-4f50-a4c5-2f9fe3706427	3	49749965	49749965	G	T	SNP	RNF123	ENST00000327697	human	ensembl	74_37	+1	known	missense	c.2550	p.E850D	1.000	NULL	pfam_SPRY_rcpt,superfamily_ConA-like_lec_gl_sf,smart_SPla/RYanodine_receptor_subgr,smart_Znf_RING,pfscan_B30.2/SPRY,pfscan_Znf_RING	-	no_errors	RNF123	HGNC	ENSG00000164068	tier1	-	-	37	0	0.00	36	4	10.00						
ENSG00000257434	0	genome.wustl.edu	37	12	75435987	75435987	+	R	DEL	T	T	-			TCGA-IS-A3K8-01A-11D-A21Q-09	TCGA-IS-A3K8-10A-01D-A21Q-09	T	T					Unknown	Untested	Somatic	Phase_IV	WXS	none			Illumina HiSeq 2500	6561d745-a655-499e-b74b-4f471d9899b7	b123395c-9192-4f50-a4c5-2f9fe3706427	12	75435987	75435987	T	-	DEL	ENSG00000257434	ENST00000547040	human	ensembl	74_37	+1	known	rna	NULL	NULL	0.005	-	-	-	no_errors	RP11-81K13.1	Clone_based_vega_gene	ENSG00000257434	tier1			20	0	0.00	16	2	11.11						
SLC39A3	0	genome.wustl.edu	37	19	2737421	2737421	+	R	DEL	T	T	-			TCGA-IS-A3K8-01A-11D-A21Q-09	TCGA-IS-A3K8-10A-01D-A21Q-09	T	T					Unknown	Untested	Somatic	Phase_IV	WXS	none			Illumina HiSeq 2500	6561d745-a655-499e-b74b-4f471d9899b7	b123395c-9192-4f50-a4c5-2f9fe3706427	19	2737421	2737421	T	-	DEL	SLC39A3	ENST00000590875	human	ensembl	74_37	-1	known	rna	NULL	NULL	0.018	-	-	-	no_errors	SLC39A3	HGNC	ENSG00000141873	tier1			25	0	0.00	22	2	8.33						
C11orf30	0	genome.wustl.edu	37	11	76237559	76237559	+	Silent	SNP	T	T	C			TCGA-IS-A3K8-01A-11D-A21Q-09	TCGA-IS-A3K8-10A-01D-A21Q-09	T	T					Unknown	Untested	Somatic	Phase_IV	WXS	none			Illumina HiSeq 2500	6561d745-a655-499e-b74b-4f471d9899b7	b123395c-9192-4f50-a4c5-2f9fe3706427	11	76237559	76237559	T	C	SNP	C11orf30	ENST00000334736	human	ensembl	74_37	+1	known	silent	c.1875	p.T625	1.000	NULL	pfam_ENT_N,pfscan_ENT_N	-	no_errors	C11orf30	HGNC	ENSG00000158636	tier1	-	-	30	0	0.00	24	4	14.29						
SIK3	0	genome.wustl.edu	37	11	116728998	116728998	+	Frame_Shift_Del	DEL	T	T	-			TCGA-IS-A3K8-01A-11D-A21Q-09	TCGA-IS-A3K8-10A-01D-A21Q-09	T	T					Unknown	Untested	Somatic	Phase_IV	WXS	none			Illumina HiSeq 2500	6561d745-a655-499e-b74b-4f471d9899b7	b123395c-9192-4f50-a4c5-2f9fe3706427	11	116728998	116728998	T	-	DEL	SIK3	ENST00000375300	human	ensembl	74_37	-1	known	frame_shift_del	c.3039	p.E1014fs	0.195	NULL	pfam_Prot_kinase_dom,pfam_Ser-Thr/Tyr_kinase_cat_dom,superfamily_Kinase-like_dom,smart_Ser/Thr_dual-sp_kinase_dom,smart_Tyr_kinase_cat_dom,pfscan_UBA/transl_elong_EF1B_N_euk,pfscan_Prot_kinase_dom	-	no_errors	SIK3	HGNC	ENSG00000160584	tier1			63	0	0.00	39	22	36.07						
RNF111	0	genome.wustl.edu	37	15	59323560	59323560	+	Missense_Mutation	SNP	G	G	C			TCGA-IS-A3K8-01A-11D-A21Q-09	TCGA-IS-A3K8-10A-01D-A21Q-09	G	G					Unknown	Untested	Somatic	Phase_IV	WXS	none			Illumina HiSeq 2500	6561d745-a655-499e-b74b-4f471d9899b7	b123395c-9192-4f50-a4c5-2f9fe3706427	15	59323560	59323560	G	C	SNP	RNF111	ENST00000434298	human	ensembl	74_37	+1	known	missense	c.539	p.R180P	1.000	NULL	pfam_Znf_C3HC4_RING-type,smart_Znf_RING,pfscan_Znf_RING	-	no_errors	RNF111	HGNC	ENSG00000157450	tier1	-	-	35	0	0.00	18	13	41.94						
SLC9A7P1	0	genome.wustl.edu	37	12	98849591	98849591	+	R	SNP	C	C	T			TCGA-IS-A3K8-01A-11D-A21Q-09	TCGA-IS-A3K8-10A-01D-A21Q-09	C	C					Unknown	Untested	Somatic	Phase_IV	WXS	none			Illumina HiSeq 2500	6561d745-a655-499e-b74b-4f471d9899b7	b123395c-9192-4f50-a4c5-2f9fe3706427	12	98849591	98849591	C	T	SNP	SLC9A7P1	ENST00000554295	human	ensembl	74_37	-1	putative	rna	NULL	NULL	0.996	-	-	-	no_errors	SLC9A7P1	HGNC	ENSG00000227825	tier1	-	-	94	0	0.00	52	24	31.58						
ARRB1	0	genome.wustl.edu	37	11	74978736	74978736	+	Nonsense_Mutation	SNP	C	C	A			TCGA-IS-A3K8-01A-11D-A21Q-09	TCGA-IS-A3K8-10A-01D-A21Q-09	C	C					Unknown	Untested	Somatic	Phase_IV	WXS	none			Illumina HiSeq 2500	6561d745-a655-499e-b74b-4f471d9899b7	b123395c-9192-4f50-a4c5-2f9fe3706427	11	74978736	74978736	C	A	SNP	ARRB1	ENST00000393505	human	ensembl	74_37	-1	known	nonsense	c.1105	p.E369*	1.000	superfamily_Ig_E-set	pfam_Arrestin-like_N,pfam_Arrestin_C-like,superfamily_Ig_E-set,prints_Arrestin	-	no_errors	ARRB1	HGNC	ENSG00000137486	tier1	-	-	67	0	0.00	34	20	37.04						
NLGN1	0	genome.wustl.edu	37	3	173322871	173322871	+	Silent	SNP	G	G	T			TCGA-IS-A3K8-01A-11D-A21Q-09	TCGA-IS-A3K8-10A-01D-A21Q-09	G	G					Unknown	Untested	Somatic	Phase_IV	WXS	none			Illumina HiSeq 2500	6561d745-a655-499e-b74b-4f471d9899b7	b123395c-9192-4f50-a4c5-2f9fe3706427	3	173322871	173322871	G	T	SNP	NLGN1	ENST00000401917	human	ensembl	74_37	+1	known	silent	c.483	p.P161	0.978	pfam_CarbesteraseB	pfam_CarbesteraseB,pfam_AB_hydrolase_3,prints_Neuroligin	-	no_errors	NLGN1	HGNC	ENSG00000169760	tier1	-	-	26	0	0.00	18	4	18.18						
SARDH	0	genome.wustl.edu	37	9	136584131	136584131	+	Missense_Mutation	SNP	C	C	A			TCGA-IS-A3K8-01A-11D-A21Q-09	TCGA-IS-A3K8-10A-01D-A21Q-09	C	C					Unknown	Untested	Somatic	Phase_IV	WXS	none			Illumina HiSeq 2500	6561d745-a655-499e-b74b-4f471d9899b7	b123395c-9192-4f50-a4c5-2f9fe3706427	9	136584131	136584131	C	A	SNP	SARDH	ENST00000371872	human	ensembl	74_37	-1	known	missense	c.949	p.V317F	0.992	pfam_FAD-dep_OxRdtase	pfam_FAD-dep_OxRdtase,pfam_GCV_T_N,pfam_GCV_T_C	-	no_errors	SARDH	HGNC	ENSG00000123453	tier1	-	-	56	0	0.00	48	28	36.84						
LCE6A	0	genome.wustl.edu	37	1	152816119	152816119	+	Silent	SNP	T	T	C			TCGA-IS-A3K8-01A-11D-A21Q-09	TCGA-IS-A3K8-10A-01D-A21Q-09	T	T					Unknown	Untested	Somatic	Phase_IV	WXS	none			Illumina HiSeq 2500	6561d745-a655-499e-b74b-4f471d9899b7	b123395c-9192-4f50-a4c5-2f9fe3706427	1	152816119	152816119	T	C	SNP	LCE6A	ENST00000431011	human	ensembl	74_37	+1	known	silent	c.123	p.G41	0.001	NULL	NULL	-	no_errors	LCE6A	HGNC	ENSG00000235942	tier1	-	-	54	0	0.00	47	15	24.19						
HRNR	0	genome.wustl.edu	37	1	152189237	152189237	+	Missense_Mutation	SNP	C	C	G			TCGA-IS-A3K8-01A-11D-A21Q-09	TCGA-IS-A3K8-10A-01D-A21Q-09	C	C					Unknown	Untested	Somatic	Phase_IV	WXS	none			Illumina HiSeq 2500	6561d745-a655-499e-b74b-4f471d9899b7	b123395c-9192-4f50-a4c5-2f9fe3706427	1	152189237	152189237	C	G	SNP	HRNR	ENST00000368801	human	ensembl	74_37	-1	known	missense	c.4868	p.S1623T	0.000	NULL	pfam_S100_Ca-bd_sub,pfscan_EF_hand_dom	-	no_errors	HRNR	HGNC	ENSG00000197915	tier1	rs200543988	-	16	0	0.00	8	3	27.27						
GTF2F2	0	genome.wustl.edu	37	13	45781540	45781540	+	R	DEL	T	T	-			TCGA-IS-A3K8-01A-11D-A21Q-09	TCGA-IS-A3K8-10A-01D-A21Q-09	T	T					Unknown	Untested	Somatic	Phase_IV	WXS	none			Illumina HiSeq 2500	6561d745-a655-499e-b74b-4f471d9899b7	b123395c-9192-4f50-a4c5-2f9fe3706427	13	45781540	45781540	T	-	DEL	GTF2F2	ENST00000494087	human	ensembl	74_37	+1	known	rna	NULL	NULL	0.001	-	-	-	no_errors	GTF2F2	HGNC	ENSG00000188342	tier1			36	0	0.00	30	3	9.09						
FPGS	0	genome.wustl.edu	37	9	130573242	130573242	+	Missense_Mutation	SNP	G	G	T			TCGA-IS-A3K8-01A-11D-A21Q-09	TCGA-IS-A3K8-10A-01D-A21Q-09	G	G					Unknown	Untested	Somatic	Phase_IV	WXS	none			Illumina HiSeq 2500	6561d745-a655-499e-b74b-4f471d9899b7	b123395c-9192-4f50-a4c5-2f9fe3706427	9	130573242	130573242	G	T	SNP	FPGS	ENST00000373247	human	ensembl	74_37	+1	known	missense	c.1306	p.A436S	1.000	superfamily_Mur_ligase_C,tigrfam_Folylpolyglutamate_synth	superfamily_Mur_ligase_cen,superfamily_Mur_ligase_C,tigrfam_Folylpolyglutamate_synth	-	no_errors	FPGS	HGNC	ENSG00000136877	tier1	-	-	31	0	0.00	33	5	13.16						
GPCPD1	0	genome.wustl.edu	37	20	5527435	5527435	+	R	DEL	T	T	-			TCGA-IS-A3K8-01A-11D-A21Q-09	TCGA-IS-A3K8-10A-01D-A21Q-09	T	T					Unknown	Untested	Somatic	Phase_IV	WXS	none			Illumina HiSeq 2500	6561d745-a655-499e-b74b-4f471d9899b7	b123395c-9192-4f50-a4c5-2f9fe3706427	20	5527435	5527435	T	-	DEL	GPCPD1	ENST00000481038	human	ensembl	74_37	-1	known	rna	NULL	NULL	0.008	-	-	-	no_errors	GPCPD1	HGNC	ENSG00000125772	tier1			25	0	0.00	21	2	8.70