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
LHCGR	0	genome.wustl.edu	36	2	48789650	48789650	+	Silent	SNP	G	G	A			TCGA-AB-2950-03A-01W-0733-08	TCGA-AB-2950-11A-01W-0732-08	G	G	G	A	G	G	Verified	Valid	Somatic	Phase_IV	WXS	Hybrid_Capture_Illumina_Seq	1	dbGAP	Illumina HiSeq	dce07a7f-06d3-415f-a454-8ebdf7244d4f	87d2a3f8-e5bd-4b87-bde0-2c2b49f2b42e	2	48789650	48789650	G	A	SNP	LHCGR	NM_000233.3	human	genbank	54_36p	-1	reviewed	silent	c.621	p.N207	0.019	superfamily_L domain-like	HMMPfam_7tm_1,PatternScan_G_PROTEIN_RECEP_F1_1,superfamily_L domain-like,superfamily_Family A G protein-coupled receptor-like	-	no_errors	137	3	2.14	259	175	40.14	NA	NA	NA
ACOXL	0	genome.wustl.edu	36	2	111258841	111258841	+	Missense_Mutation	SNP	C	C	T			TCGA-AB-2950-03A-01W-0733-08	TCGA-AB-2950-11A-01W-0732-08	C	C	C	T	C	C	Verified	Valid	Somatic	Phase_IV	WXS	Hybrid_Capture_Illumina_Seq	1	dbGAP	Illumina HiSeq	dce07a7f-06d3-415f-a454-8ebdf7244d4f	87d2a3f8-e5bd-4b87-bde0-2c2b49f2b42e	2	111258841	111258841	C	T	SNP	ACOXL	NM_001105516.2	human	genbank	54_36p	+1	validated	missense	c.137	p.A46V	0.187	superfamily_Acyl-CoA dehydrogenase NM domain-like	HMMPfam_Acyl-CoA_dh_1,HMMPfam_Acyl-CoA_dh_M,superfamily_Acyl-CoA dehydrogenase C-terminal domain-like,superfamily_Acyl-CoA dehydrogenase NM domain-like	-	no_errors	79	2	2.44	93	70	42.94	NA	NA	NA
NAALADL2	0	genome.wustl.edu	36	3	176647790	176647790	+	Silent	SNP	G	G	A			TCGA-AB-2950-03A-01W-0733-08	TCGA-AB-2950-11A-01W-0732-08	G	G	G	A	G	G	Verified	Valid	Somatic	Phase_IV	WXS	Hybrid_Capture_Illumina_Seq	1	dbGAP	Illumina HiSeq	dce07a7f-06d3-415f-a454-8ebdf7244d4f	87d2a3f8-e5bd-4b87-bde0-2c2b49f2b42e	3	176647790	176647790	G	A	SNP	NAALADL2	NM_207015.2	human	genbank	54_36p	+1	validated	silent	c.1170	p.L390	0.953	superfamily_Transferrin receptor ectodomain apical domain,superfamily_Zn-dependent exopeptidases	superfamily_Transferrin receptor ectodomain C-terminal domain,PatternScan_GLYCOSYL_HYDROL_F5,superfamily_Transferrin receptor ectodomain apical domain,superfamily_Zn-dependent exopeptidases	-	no_errors	68	0	0.00	59	44	42.72	1	0	0.00
KIAA1109	0	genome.wustl.edu	36	4	123422329	123422329	+	Missense_Mutation	SNP	C	C	G			TCGA-AB-2950-03A-01W-0733-08	TCGA-AB-2950-11A-01W-0732-08	C	C	C	G	C	C	Verified	Valid	Somatic	Phase_IV	WXS	Hybrid_Capture_Illumina_Seq	1	dbGAP	Illumina HiSeq	dce07a7f-06d3-415f-a454-8ebdf7244d4f	87d2a3f8-e5bd-4b87-bde0-2c2b49f2b42e	4	123422329	123422329	C	G	SNP	KIAA1109	NM_015312.2	human	genbank	54_36p	+1	validated	missense	c.8987	p.S2996C	1.000	NULL	PatternScan_ASP_PROTEASE,HMMPfam_FSA_C	-	no_errors	69	1	1.43	52	50	49.02	20	24	54.55
GRID1	0	genome.wustl.edu	36	10	87397062	87397062	+	Nonsense_Mutation	SNP	G	G	T			TCGA-AB-2950-03A-01W-0733-08	TCGA-AB-2950-11A-01W-0732-08	G	G	G	T	G	G	Verified	Valid	Somatic	Phase_IV	WXS	Hybrid_Capture_Illumina_Seq	1	dbGAP	Illumina HiSeq	dce07a7f-06d3-415f-a454-8ebdf7244d4f	87d2a3f8-e5bd-4b87-bde0-2c2b49f2b42e	10	87397062	87397062	G	T	SNP	GRID1	NM_017551.2	human	genbank	54_36p	-1	reviewed	nonsense	c.2070	p.Y690*	1.000	HMMPfam_Lig_chan,HMMSmart_SM00079,superfamily_Periplasmic binding protein-like II	HMMPfam_Lig_chan,HMMSmart_SM00079,HMMPfam_ANF_receptor,PatternScan_ALDEHYDE_DEHYDR_GLU,HMMPfam_Lig_chan-Glu_bd,superfamily_Periplasmic binding protein-like I,superfamily_Periplasmic binding protein-like II	-	no_errors	147	3	1.95	209	70	25.09	NA	NA	NA
SMC3	0	genome.wustl.edu	36	10	112350880	112350880	+	Splice_Site	SNP	T	T	C			TCGA-AB-2950-03A-01W-0733-08	TCGA-AB-2950-11A-01W-0732-08	T	T	T	C	T	T	Verified	Valid	Somatic	Phase_IV	WXS	Hybrid_Capture_Illumina_Seq	1	dbGAP	Illumina HiSeq	dce07a7f-06d3-415f-a454-8ebdf7244d4f	87d2a3f8-e5bd-4b87-bde0-2c2b49f2b42e	10	112350880	112350880	T	C	SNP	SMC3	NM_005445.3	human	genbank	54_36p	+1	reviewed	splice_site	c.2644+2	e23+2	0.991	-	-	-	no_errors	31	2	5.71	26	24	48.00	1	56	98.25
EHD1	0	genome.wustl.edu	36	11	64384284	64384284	+	Silent	SNP	C	C	T			TCGA-AB-2950-03A-01W-0733-08	TCGA-AB-2950-11A-01W-0732-08	C	C	C	T	C	C	Verified	Valid	Somatic	Phase_IV	WXS	Hybrid_Capture_Illumina_Seq	1	dbGAP	Illumina HiSeq	dce07a7f-06d3-415f-a454-8ebdf7244d4f	87d2a3f8-e5bd-4b87-bde0-2c2b49f2b42e	11	64384284	64384284	C	T	SNP	EHD1	NM_006795.2	human	genbank	54_36p	-1	reviewed	silent	c.603	p.S201	0.208	HMMPfam_Dynamin_N,superfamily_P-loop containing nucleoside triphosphate hydrolases	HMMSmart_SM00027,HMMPfam_Dynamin_N,PatternScan_EF_HAND_1,superfamily_EF-hand,superfamily_P-loop containing nucleoside triphosphate hydrolases	-	no_errors	35	1	2.78	68	30	30.61	58	34	36.96
COPS2	0	genome.wustl.edu	36	15	47235040	47235040	+	Missense_Mutation	SNP	A	A	C			TCGA-AB-2950-03A-01W-0733-08	TCGA-AB-2950-11A-01W-0732-08	A	A	A	C	A	A	Verified	Valid	Somatic	Phase_IV	WXS	Hybrid_Capture_Illumina_Seq	1	dbGAP	Illumina HiSeq	dce07a7f-06d3-415f-a454-8ebdf7244d4f	87d2a3f8-e5bd-4b87-bde0-2c2b49f2b42e	15	47235040	47235040	A	C	SNP	COPS2	NM_004236.1	human	genbank	54_36p	-1	validated	missense	c.28	p.C10G	1.000	NULL	"HMMPfam_PCI,HMMSmart_SM00088,HMMSmart_SM00753,superfamily_""Winged helix"" DNA-binding domain,superfamily_TPR-like"	-	no_errors	59	2	3.28	76	48	38.71	46	33	41.77
FCGBP	0	genome.wustl.edu	36	19	45100137	45100137	+	Silent	SNP	C	C	T			TCGA-AB-2950-03A-01W-0733-08	TCGA-AB-2950-11A-01W-0732-08	C	C	C	T	C	C	Verified	Valid	Somatic	Phase_IV	WXS	Hybrid_Capture_Illumina_Seq	1	dbGAP	Illumina HiSeq	dce07a7f-06d3-415f-a454-8ebdf7244d4f	87d2a3f8-e5bd-4b87-bde0-2c2b49f2b42e	19	45100137	45100137	C	T	SNP	FCGBP	NM_003890.2	human	genbank	54_36p	-1	validated	silent	c.4542	p.A1514	0.937	HMMPfam_C8	HMMSmart_VWC,HMMPfam_VWD,HMMSmart_VWD,superfamily_Cysrich_TIL,HMMPfam_TIL_assoc,HMMSmart_FOLN,HMMPfam_C8,HMMPfam_TIL	-	no_errors	68	2	2.86	42	80	65.57	1	0	0.00
ARHGAP35	0	genome.wustl.edu	36	19	52114941	52114941	+	Missense_Mutation	SNP	C	C	T			TCGA-AB-2950-03A-01W-0733-08	TCGA-AB-2950-11A-01W-0732-08	C	C	C	T	C	C	Verified	Valid	Somatic	Phase_IV	WXS	Hybrid_Capture_Illumina_Seq	1	dbGAP	Illumina HiSeq	dce07a7f-06d3-415f-a454-8ebdf7244d4f	87d2a3f8-e5bd-4b87-bde0-2c2b49f2b42e	19	52114941	52114941	C	T	SNP	GRLF1	NM_004491.4	human	genbank	54_36p	+1	reviewed	missense	c.1169	p.A390V	0.998	HMMSmart_SM00441	HMMPfam_RhoGAP,HMMSmart_SM00324,HMMPfam_FF,HMMSmart_SM00441,superfamily_GTPase activation domain GAP,HMMPfam_Ras,superfamily_P-loop containing nucleoside triphosphate hydrolases	-	no_errors	95	6	5.94	76	90	53.89	17	35	67.31
B3GALT5	0	genome.wustl.edu	36	21	39955062	39955062	+	Missense_Mutation	SNP	G	G	A			TCGA-AB-2950-03A-01W-0733-08	TCGA-AB-2950-11A-01W-0732-08	G	G	G	A	G	G	Verified	Valid	Somatic	Phase_IV	WXS	Hybrid_Capture_Illumina_Seq	1	dbGAP	Illumina HiSeq	dce07a7f-06d3-415f-a454-8ebdf7244d4f	87d2a3f8-e5bd-4b87-bde0-2c2b49f2b42e	21	39955062	39955062	G	A	SNP	B3GALT5	NM_006057.1	human	genbank	54_36p	+1	reviewed	missense	c.706	p.V236I	0.292	HMMPfam_Galactosyl_T	HMMPfam_Galactosyl_T	-	no_errors	134	5	3.52	303	216	41.62	NA	NA	NA
ARHGEF6	0	genome.wustl.edu	36	X	135600449	135600449	+	Frame_Shift_Del	DEL	C	C	-			TCGA-AB-2950-03A-01W-0733-08	TCGA-AB-2950-11A-01W-0732-08	C	C	C	-	C	C	Verified	Valid	Somatic	Phase_IV	WXS	Hybrid_Capture_Illumina_Seq	1	dbGAP	Illumina HiSeq	dce07a7f-06d3-415f-a454-8ebdf7244d4f	87d2a3f8-e5bd-4b87-bde0-2c2b49f2b42e	X	135600449	135600449	C	-	DEL	ARHGEF6	NM_004840.2	human	genbank	54_36p	-1	reviewed	frame_shift_del	c.1171	p.E391fs	1.000	HMMPfam_RhoGEF,HMMSmart_SM00325,superfamily_DBL homology domain (DH-domain)	HMMPfam_RhoGEF,HMMSmart_SM00325,superfamily_DBL homology domain (DH-domain),HMMPfam_SH3_1,HMMSmart_SM00326,superfamily_SH3-domain,HMMPfam_CH,HMMSmart_SM00033,HMMPfam_PH,HMMSmart_SM00233,superfamily_Calponin-homology domain CH-domain,superfamily_PH domain-like	-	no_errors	104	2	1.83	39	59	57.28	9	49	70.00
MGA	0	genome.wustl.edu	36	15	39833933	39833934	+	Frame_Shift_Del	DEL	TG	TG	-			TCGA-AB-2950-03A-01W-0733-08	TCGA-AB-2950-11A-01W-0732-08	TG	TG	TG	-	TG	TG	Verified	Valid	Somatic	Phase_IV	WXS	Hybrid_Capture_Illumina_Seq	1	dbGAP	Illumina HiSeq	dce07a7f-06d3-415f-a454-8ebdf7244d4f	87d2a3f8-e5bd-4b87-bde0-2c2b49f2b42e	15	39833933	39833934	TG	-	DEL	MGA	NM_001080541.1	human	genbank	54_36p	+1	provisional	frame_shift_del	c.7162_7163	p.V2389fs	0.094:0.101	NULL	HMMPfam_HLH,HMMSmart_SM00353,HMMPfam_T-box,HMMSmart_SM00425,superfamily_p53-like transcription factors,superfamily_HLH helix-loop-helix DNA-binding domain,PatternScan_TBOX_2	-	no_errors	0	4	3.17	0	41	31.30	0	0	0.00