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	NormalRefReads_WU	NormalVarReads_WU	NormalVAF_WU	TumorRefReads_WU	TumorVarReads_WU	TumorVAF_WU	RNARefReads_WU	RNAVarReads_WU	RNAVAF_WU
CYBB	0	genome.wustl.edu	36	X	37550606	37550606	+	Missense_Mutation	SNP	G	G	A			TCGA-AB-2905-03A-01D-0739-09	TCGA-AB-2905-11A-01D-0739-09	G	G	G	A	G	G	Verified	Valid	Somatic	Phase_IV	WXS	Hybrid_Capture_Illumina_Seq	1	dbGAP	Illumina HiSeq	ccdc0b99-43b9-465c-97cc-199fa22b7d06	d38f4cbf-101a-445d-adaf-b3803d5dcfc5	X	37550606	37550606	G	A	SNP	CYBB	NM_000397.3	human	genbank	54_36p	1	reviewed	missense	c.1337	p.R446Q	1	HMMPfam_NAD_binding_6,superfamily_Ferredoxin reductase-like C-terminal NADP-linked domain	HMMPfam_FAD_binding_8,HMMPfam_NAD_binding_6,HMMPfam_Ferric_reduct,superfamily_Riboflavin synthase domain-like,superfamily_Ferredoxin reductase-like C-terminal NADP-linked domain	-	no_errors	1460	2	0.14	408	644	60.98	NA	NA	NA
C1orf168	0	genome.wustl.edu	36	1	57027291	57027291	+	Missense_Mutation	SNP	C	C	T			TCGA-AB-2905-03A-01D-0739-09	TCGA-AB-2905-11A-01D-0739-09	C	C	C	T	C	C	Verified	Valid	Somatic	Phase_IV	WXS	Hybrid_Capture_Illumina_Seq	1	dbGAP	Illumina HiSeq	ccdc0b99-43b9-465c-97cc-199fa22b7d06	d38f4cbf-101a-445d-adaf-b3803d5dcfc5	1	57027291	57027291	C	T	SNP	C1orf168	NM_001004303.4	human	genbank	54_36p	-1	validated	missense	c.862	p.V288M	0.41	NULL	superfamily_SH3-domain	-	no_errors	1447	5	0.34	661	306	31.58	NA	NA	NA
PAPPA2	0	genome.wustl.edu	36	1	175025647	175025647	+	Missense_Mutation	SNP	C	C	T			TCGA-AB-2905-03A-01D-0739-09	TCGA-AB-2905-11A-01D-0739-09	C	C	C	T	C	C	Verified	Valid	Somatic	Phase_IV	WXS	Hybrid_Capture_Illumina_Seq	1	dbGAP	Illumina HiSeq	ccdc0b99-43b9-465c-97cc-199fa22b7d06	d38f4cbf-101a-445d-adaf-b3803d5dcfc5	1	175025647	175025647	C	T	SNP	PAPPA2	NM_020318.2	human	genbank	54_36p	1	validated	missense	c.4795	p.P1599S	0.691	HMMSmart_SM00032,superfamily_Complement control module/SCR domain	"HMMPfam_Sushi,HMMSmart_SM00032,HMMPfam_Notch,HMMSmart_SM00004,superfamily_Notch domain,PatternScan_N6_MTASE,PatternScan_ZINC_PROTEASE,HMMSmart_SM00560,HMMPfam_Peptidase_M43,superfamily_Concanavalin A-like lectins/glucanases,superfamily_Complement control module/SCR domain,superfamily_Metalloproteases (""zincins"") catalytic domain"	-	no_errors	1924	1	0.05	1086	523	32.48	NA	NA	NA
NAV1	0	genome.wustl.edu	36	1	200043815	200043815	+	Missense_Mutation	SNP	C	C	G			TCGA-AB-2905-03A-01D-0739-09	TCGA-AB-2905-11A-01D-0739-09	C	C	C	G	C	C	Verified	Valid	Somatic	Phase_IV	WXS	Hybrid_Capture_Illumina_Seq	1	dbGAP	Illumina HiSeq	ccdc0b99-43b9-465c-97cc-199fa22b7d06	d38f4cbf-101a-445d-adaf-b3803d5dcfc5	1	200043815	200043815	C	G	SNP	NAV1	NM_020443.3	human	genbank	54_36p	1	reviewed	missense	c.3751	p.P1251A	1	NULL	HMMSmart_AAA,PatternScan_PPASE,superfamily_SSF52540	-	no_errors	1948	0	0	728	339	31.71	NA	NA	NA
ABCG8	0	genome.wustl.edu	36	2	43933059	43933059	+	Missense_Mutation	SNP	G	G	A			TCGA-AB-2905-03A-01D-0739-09	TCGA-AB-2905-11A-01D-0739-09	G	G	G	A	G	G	Verified	Valid	Somatic	Phase_IV	WXS	Hybrid_Capture_Illumina_Seq	1	dbGAP	Illumina HiSeq	ccdc0b99-43b9-465c-97cc-199fa22b7d06	d38f4cbf-101a-445d-adaf-b3803d5dcfc5	2	43933059	43933059	G	A	SNP	ABCG8	NM_022437.2	human	genbank	54_36p	1	reviewed	missense	c.624	p.M208I	0.069	HMMPfam_ABC_tran,superfamily_P-loop containing nucleoside triphosphate hydrolases	HMMPfam_ABC_tran,HMMPfam_ABC2_membrane,PatternScan_ABC_TRANSPORTER_1,superfamily_P-loop containing nucleoside triphosphate hydrolases	-	no_errors	1027	0	0	620	365	37.06	NA	NA	NA
IL1R1	0	genome.wustl.edu	36	2	102159637	102159637	+	Missense_Mutation	SNP	G	G	A			TCGA-AB-2905-03A-01D-0739-09	TCGA-AB-2905-11A-01D-0739-09	G	G	G	A	G	G	Verified	Valid	Somatic	Phase_IV	WXS	Hybrid_Capture_Illumina_Seq	1	dbGAP	Illumina HiSeq	ccdc0b99-43b9-465c-97cc-199fa22b7d06	d38f4cbf-101a-445d-adaf-b3803d5dcfc5	2	102159637	102159637	G	A	SNP	IL1R1	NM_000877.2	human	genbank	54_36p	1	reviewed	missense	c.1696	p.V566M	0	NULL	HMMPfam_TIR,HMMSmart_SM00255,superfamily_Toll/Interleukin receptor TIR domain,HMMSmart_SM00409,HMMPfam_ig,superfamily_Immunoglobulin	-	no_errors	1704	1	0.06	985	478	32.67	NA	NA	NA
LRP1B	0	genome.wustl.edu	36	2	140799826	140799826	+	Silent	SNP	T	T	C			TCGA-AB-2905-03A-01D-0739-09	TCGA-AB-2905-11A-01D-0739-09	T	T	T	C	T	T	Verified	Valid	Somatic	Phase_IV	WXS	Hybrid_Capture_Illumina_Seq	1	dbGAP	Illumina HiSeq	ccdc0b99-43b9-465c-97cc-199fa22b7d06	d38f4cbf-101a-445d-adaf-b3803d5dcfc5	2	140799826	140799826	T	C	SNP	LRP1B	NM_018557.2	human	genbank	54_36p	-1	validated	silent	c.12315	p.S4105	0.934	HMMPfam_Ldl_recept_b,HMMSmart_LY,superfamily_SSF63825	HMMPfam_Ldl_recept_b,HMMSmart_LY,PatternScan_ASX_HYDROXYL,HMMPfam_NHL,HMMSmart_EGF_CA,HMMPfam_Ldl_recept_a,HMMSmart_LDLa,PatternScan_LDLRA_1,superfamily_LDL_rcpt_classA_cys-rich,HMMPfam_EGF,HMMSmart_EGF,PatternScan_EGF_1,PatternScan_EGF_2,HMMPfam_EGF_CA,HMMPfam_EGF_2,PatternScan_EGF_CA,superfamily_SSF57196,superfamily_SSF63825	-	no_errors	1711	2	0.12	1223	492	28.69	NA	NA	NA
UGT1A10	0	genome.wustl.edu	36	2	234210397	234210397	+	Missense_Mutation	SNP	C	C	T			TCGA-AB-2905-03A-01D-0739-09	TCGA-AB-2905-11A-01D-0739-09	C	C	C	T	C	C	Verified	Valid	Somatic	Phase_IV	WXS	Hybrid_Capture_Illumina_Seq	1	dbGAP	Illumina HiSeq	ccdc0b99-43b9-465c-97cc-199fa22b7d06	d38f4cbf-101a-445d-adaf-b3803d5dcfc5	2	234210397	234210397	C	T	SNP	UGT1A10	NM_019075.2	human	genbank	54_36p	1	reviewed	missense	c.490	p.P164S	0.874	HMMPfam_UDPGT,superfamily_UDP-Glycosyltransferase/glycogen phosphorylase	HMMPfam_UDPGT,PatternScan_UDPGT,superfamily_UDP-Glycosyltransferase/glycogen phosphorylase	-	no_errors	420	1	0.24	400	176	30.56	NA	NA	NA
FAM19A4	0	genome.wustl.edu	36	3	68884727	68884727	+	Missense_Mutation	SNP	C	C	T			TCGA-AB-2905-03A-01D-0739-09	TCGA-AB-2905-11A-01D-0739-09	C	C	C	T	C	C	Verified	Valid	Somatic	Phase_IV	WXS	Hybrid_Capture_Illumina_Seq	1	dbGAP	Illumina HiSeq	ccdc0b99-43b9-465c-97cc-199fa22b7d06	d38f4cbf-101a-445d-adaf-b3803d5dcfc5	3	68884727	68884727	C	T	SNP	FAM19A4	NM_001005527.1	human	genbank	54_36p	-1	reviewed	missense	c.263	p.R88Q	1	NULL	NULL	-	no_errors	1486	0	0	911	438	32.42	NA	NA	NA
MGLL	0	genome.wustl.edu	36	3	128896697	128896697	+	Silent	SNP	C	C	T			TCGA-AB-2905-03A-01D-0739-09	TCGA-AB-2905-11A-01D-0739-09	C	C	C	T	C	C	Verified	Valid	Somatic	Phase_IV	WXS	Hybrid_Capture_Illumina_Seq	1	dbGAP	Illumina HiSeq	ccdc0b99-43b9-465c-97cc-199fa22b7d06	d38f4cbf-101a-445d-adaf-b3803d5dcfc5	3	128896697	128896697	C	T	SNP	MGLL	NM_007283.1	human	genbank	54_36p	-1	validated	silent	c.627	p.L209	0.991	HMMPfam_Abhydrolase_1,superfamily_SSF53474	HMMPfam_Abhydrolase_1,PatternScan_LIPASE_SER,superfamily_SSF53474	-	no_errors	768	0	0	414	180	30.3	NA	NA	NA
PLRG1	0	genome.wustl.edu	36	4	155677932	155677932	+	Missense_Mutation	SNP	C	C	T			TCGA-AB-2905-03A-01D-0739-09	TCGA-AB-2905-11A-01D-0739-09	C	C	C	T	C	C	Verified	Valid	Somatic	Phase_IV	WXS	Hybrid_Capture_Illumina_Seq	1	dbGAP	Illumina HiSeq	ccdc0b99-43b9-465c-97cc-199fa22b7d06	d38f4cbf-101a-445d-adaf-b3803d5dcfc5	4	155677932	155677932	C	T	SNP	PLRG1	NM_002669.2	human	genbank	54_36p	-1	provisional	missense	c.1441	p.E481K	1	HMMSmart_SM00320,superfamily_WD40 repeat-like,HMMPfam_WD40	HMMSmart_SM00320,superfamily_WD40 repeat-like,PatternScan_WD_REPEATS_1,HMMPfam_WD40	-	no_errors	1182	4	0.34	688	328	32.28	NA	NA	NA
SLC26A2	0	genome.wustl.edu	36	5	149338005	149338005	+	Silent	SNP	T	T	C			TCGA-AB-2905-03A-01D-0739-09	TCGA-AB-2905-11A-01D-0739-09	T	T	T	C	T	T	Verified	Valid	Somatic	Phase_IV	WXS	Hybrid_Capture_Illumina_Seq	1	dbGAP	Illumina HiSeq	ccdc0b99-43b9-465c-97cc-199fa22b7d06	d38f4cbf-101a-445d-adaf-b3803d5dcfc5	5	149338005	149338005	T	C	SNP	SLC26A2	NM_000112.3	human	genbank	54_36p	1	reviewed	silent	c.597	p.N199	0.008	NULL	HMMPfam_STAS,superfamily_STAS,HMMPfam_Sulfate_transp,PatternScan_SLC26A	-	no_errors	1500	0	0	675	303	30.98	NA	NA	NA
LRP4	0	genome.wustl.edu	36	11	46862048	46862048	+	Silent	SNP	G	G	A			TCGA-AB-2905-03A-01D-0739-09	TCGA-AB-2905-11A-01D-0739-09	G	G	G	A	G	G	Verified	Valid	Somatic	Phase_IV	WXS	Hybrid_Capture_Illumina_Seq	1	dbGAP	Illumina HiSeq	ccdc0b99-43b9-465c-97cc-199fa22b7d06	d38f4cbf-101a-445d-adaf-b3803d5dcfc5	11	46862048	46862048	G	A	SNP	LRP4	NM_002334.2	human	genbank	54_36p	-1	validated	silent	c.2562	p.I854	1	HMMPfam_Ldl_recept_b,HMMSmart_SM00135,superfamily_YWTD domain	HMMPfam_Ldl_recept_b,HMMSmart_SM00135,PatternScan_ASX_HYDROXYL,HMMSmart_SM00179,HMMPfam_Ldl_recept_a,HMMSmart_SM00192,PatternScan_LDLRA_1,superfamily_LDL receptor-like module,HMMPfam_EGF,HMMSmart_SM00181,PatternScan_EGF_2,HMMPfam_EGF_CA,PatternScan_EGF_CA,superfamily_EGF/Laminin,superfamily_YWTD domain	-	no_errors	1651	0	0	826	348	29.57	NA	NA	NA
BICD1	0	genome.wustl.edu	36	12	32421790	32421790	+	Missense_Mutation	SNP	G	G	A			TCGA-AB-2905-03A-01D-0739-09	TCGA-AB-2905-11A-01D-0739-09	G	G	G	A	G	G	Verified	Valid	Somatic	Phase_IV	WXS	Hybrid_Capture_Illumina_Seq	1	dbGAP	Illumina HiSeq	ccdc0b99-43b9-465c-97cc-199fa22b7d06	d38f4cbf-101a-445d-adaf-b3803d5dcfc5	12	32421790	32421790	G	A	SNP	BICD1	NM_001714.1	human	genbank	54_36p	1	reviewed	missense	c.2890	p.A964T	0.995	NULL	HMMPfam_BicD	-	no_errors	758	2	0.26	430	211	32.87	NA	NA	NA
NOS1	0	genome.wustl.edu	36	12	116154185	116154185	+	Missense_Mutation	SNP	C	C	T			TCGA-AB-2905-03A-01D-0739-09	TCGA-AB-2905-11A-01D-0739-09	C	C	C	T	C	C	Verified	Valid	Somatic	Phase_IV	WXS	Hybrid_Capture_Illumina_Seq	1	dbGAP	Illumina HiSeq	ccdc0b99-43b9-465c-97cc-199fa22b7d06	d38f4cbf-101a-445d-adaf-b3803d5dcfc5	12	116154185	116154185	C	T	SNP	NOS1	NM_000620.2	human	genbank	54_36p	-1	validated	missense	c.3370	p.E1124K	1	HMMPfam_FAD_binding_1,superfamily_Riboflavin synthase domain-like	HMMPfam_NAD_binding_1,HMMPfam_PDZ,HMMSmart_SM00228,superfamily_PDZ domain-like,HMMPfam_FAD_binding_1,HMMPfam_NO_synthase,PatternScan_NOS,superfamily_Nitric oxide (NO) synthase oxygenase domain,HMMPfam_Flavodoxin_1,superfamily_Riboflavin synthase domain-like,superfamily_Flavoproteins,superfamily_Ferredoxin reductase-like C-terminal NADP-linked domain	-	no_errors	1929	1	0.05	735	370	33.45	NA	NA	NA
TTLL5	0	genome.wustl.edu	36	14	75302285	75302285	+	Silent	SNP	A	A	G			TCGA-AB-2905-03A-01D-0739-09	TCGA-AB-2905-11A-01D-0739-09	A	A	A	G	A	A	Verified	Valid	Somatic	Phase_IV	WXS	Hybrid_Capture_Illumina_Seq	1	dbGAP	Illumina HiSeq	ccdc0b99-43b9-465c-97cc-199fa22b7d06	d38f4cbf-101a-445d-adaf-b3803d5dcfc5	14	75302285	75302285	A	G	SNP	TTLL5	NM_015072.3	human	genbank	54_36p	1	validated	silent	c.1836	p.R612	0.056	NULL	HMMPfam_TTL,superfamily_Glutathione synthetase ATP-binding domain-like	-	no_errors	936	1	0.11	705	313	30.75	NA	NA	NA
RNF111	0	genome.wustl.edu	36	15	57155571	57155571	+	Nonsense_Mutation	SNP	C	C	T			TCGA-AB-2905-03A-01D-0739-09	TCGA-AB-2905-11A-01D-0739-09	C	C	C	T	C	C	Verified	Valid	Somatic	Phase_IV	WXS	Hybrid_Capture_Illumina_Seq	1	dbGAP	Illumina HiSeq	ccdc0b99-43b9-465c-97cc-199fa22b7d06	d38f4cbf-101a-445d-adaf-b3803d5dcfc5	15	57155571	57155571	C	T	SNP	RNF111	NM_017610.6	human	genbank	54_36p	1	reviewed	nonsense	c.1813	p.Q605*	1	NULL	HMMSmart_SM00184,HMMPfam_zf-C3HC4,superfamily_RING/U-box	-	no_errors	941	0	0	523	220	29.53	NA	NA	NA
PARP6	0	genome.wustl.edu	36	15	70336820	70336820	+	Missense_Mutation	SNP	G	G	T			TCGA-AB-2905-03A-01D-0739-09	TCGA-AB-2905-11A-01D-0739-09	G	G	G	T	G	G	Verified	Valid	Somatic	Phase_IV	WXS	Hybrid_Capture_Illumina_Seq	1	dbGAP	Illumina HiSeq	ccdc0b99-43b9-465c-97cc-199fa22b7d06	d38f4cbf-101a-445d-adaf-b3803d5dcfc5	15	70336820	70336820	G	T	SNP	PARP6	NM_020214.2	human	genbank	54_36p	-1	provisional	missense	c.922	p.R308S	0.993	NULL	HMMPfam_PARP,superfamily_ADP-ribosylation	-	no_errors	1316	10	0.75	725	332	31.41	NA	NA	NA
NAPA	0	genome.wustl.edu	36	19	52687146	52687146	+	Missense_Mutation	SNP	C	C	T			TCGA-AB-2905-03A-01D-0739-09	TCGA-AB-2905-11A-01D-0739-09	C	C	C	T	C	C	Verified	Valid	Somatic	Phase_IV	WXS	Hybrid_Capture_Illumina_Seq	1	dbGAP	Illumina HiSeq	ccdc0b99-43b9-465c-97cc-199fa22b7d06	d38f4cbf-101a-445d-adaf-b3803d5dcfc5	19	52687146	52687146	C	T	SNP	NAPA	NM_003827.2	human	genbank	54_36p	-1	reviewed	missense	c.604	p.A202T	1	superfamily_TPR-like	HMMPfam_NSF,superfamily_TPR-like	-	no_errors	1045	3	0.29	566	207	26.64	NA	NA	NA
KCNQ2	0	genome.wustl.edu	36	20	61509008	61509008	+	Silent	SNP	G	G	T			TCGA-AB-2905-03A-01D-0739-09	TCGA-AB-2905-11A-01D-0739-09	G	G	G	T	G	G	Verified	Valid	Somatic	Phase_IV	WXS	Hybrid_Capture_Illumina_Seq	1	dbGAP	Illumina HiSeq	ccdc0b99-43b9-465c-97cc-199fa22b7d06	d38f4cbf-101a-445d-adaf-b3803d5dcfc5	20	61509008	61509008	G	T	SNP	KCNQ2	NM_172107.4	human	genbank	54_36p	-1	reviewed	silent	c.2052	p.G684	1	NULL	HMMPfam_Ion_trans,HMMPfam_KCNQ_channel,superfamily_Voltage-gated potassium channels	-	no_errors	163	0	0	84	42	33.33	NA	NA	NA
JAM2	0	genome.wustl.edu	36	21	25988020	25988020	+	Missense_Mutation	SNP	G	G	A			TCGA-AB-2905-03A-01D-0739-09	TCGA-AB-2905-11A-01D-0739-09	G	G	G	A	G	G	Verified	Valid	Somatic	Phase_IV	WXS	Hybrid_Capture_Illumina_Seq	1	dbGAP	Illumina HiSeq	ccdc0b99-43b9-465c-97cc-199fa22b7d06	d38f4cbf-101a-445d-adaf-b3803d5dcfc5	21	25988020	25988020	G	A	SNP	JAM2	NM_021219.2	human	genbank	54_36p	1	reviewed	missense	c.323	p.R108H	0.994	HMMSmart_IG,HMMPfam_V-set,superfamily_SSF48726	HMMSmart_IGc2,HMMSmart_IG,HMMPfam_V-set,HMMPfam_ig,superfamily_SSF48726	-	no_errors	1121	1	0.09	710	357	33.46	NA	NA	NA
CSMD1	0	genome.wustl.edu	36	8	2987460	2987460	+	Frame_Shift_Del	DEL	C	C	-			TCGA-AB-2905-03A-01D-0739-09	TCGA-AB-2905-11A-01D-0739-09	C	C	C	-	C	C	Verified	Valid	Somatic	Phase_IV	WXS	Hybrid_Capture_Illumina_Seq	1	dbGAP	Illumina HiSeq	ccdc0b99-43b9-465c-97cc-199fa22b7d06	d38f4cbf-101a-445d-adaf-b3803d5dcfc5	8	2987460	2987460	C	-	DEL	CSMD1	NM_033225.4	human	genbank	54_36p	-1	validated	frame_shift_del	c.6179	p.N2061fs	0.975	NULL	HMMPfam_Sushi,HMMSmart_SM00032,HMMPfam_CUB,HMMSmart_SM00042,superfamily_Spermadhesin CUB domain,superfamily_Complement control module/SCR domain	-	pseudogene:no_stop_codon:bad_bp_length_for_coding_region	709	0	0	374	169	30.23	NA	NA	NA
WT1	0	genome.wustl.edu	36	11	32374498	32374499	+	Frame_Shift_Ins	INS	-	-	TCGGGGCTAC			TCGA-AB-2905-03A-01D-0739-09	TCGA-AB-2905-11A-01D-0739-09	-	-	-	TCGGGGCTAC	-	-	Verified	Valid	Somatic	Phase_IV	WXS	Hybrid_Capture_Illumina_Seq	1	dbGAP	Illumina HiSeq	ccdc0b99-43b9-465c-97cc-199fa22b7d06	d38f4cbf-101a-445d-adaf-b3803d5dcfc5	11	32374498	32374499	-	TCGGGGCTAC	INS	WT1	NM_024426.3	human	genbank	54_36p	-1	reviewed	frame_shift_ins	c.1130_1129	p.T377fs	0.991:0.888	HMMPfam_WT1	HMMPfam_WT1,HMMPfam_zf-C2H2,PatternScan_ZINC_FINGER_C2H2_1,HMMSmart_SM00355,superfamily_C2H2 and C2HC zinc fingers	-	no_errors	NA	NA	NA	NA	NA	NA	NA	NA	NA
