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
MED12	0	genome.wustl.edu	36	X	70263942	70263942	+	Missense_Mutation	SNP	C	C	T	rs80338758		TCGA-AB-2917-03A-01W-0732-08	TCGA-AB-2917-11A-01W-0732-08	C	C	C	T	C	C	Verified	Valid	Somatic	Phase_IV	WXS	Hybrid_Capture_Illumina_Seq	1	dbGAP	Illumina HiSeq	77b0ecc5-d93d-44bf-b2da-fda304c4810b	52fc3d72-1205-44db-8c5b-1e8750a98313	X	70263942	70263942	C	T	SNP	MED12	NM_005120.2	human	genbank	54_36p	+1	validated	missense	c.2881	p.R961W	1.000	NULL	HMMPfam_Med12	-	no_errors	465	28	5.61	199	141	41.47	2	40	95.24
DIAPH2	0	genome.wustl.edu	36	X	96571382	96571382	+	Missense_Mutation	SNP	C	C	T			TCGA-AB-2917-03A-01W-0732-08	TCGA-AB-2917-11A-01W-0732-08	C	C	C	T	C	C	Verified	Valid	Somatic	Phase_IV	WXS	Hybrid_Capture_Illumina_Seq	1	dbGAP	Illumina HiSeq	77b0ecc5-d93d-44bf-b2da-fda304c4810b	52fc3d72-1205-44db-8c5b-1e8750a98313	X	96571382	96571382	C	T	SNP	DIAPH2	NM_006729.4	human	genbank	54_36p	+1	reviewed	missense	c.3223	p.R1075W	1.000	NULL	HMMSmart_SM00498,HMMPfam_Drf_DAD,HMMPfam_Drf_FH3,HMMPfam_Drf_GBD,HMMPfam_FH2,superfamily_Formin homology 2 domain (FH2 domain)	-	no_errors	208	9	4.09	103	86	45.26	19	0	0.00
CDK11A	0	genome.wustl.edu	36	1	1561654	1561654	+	Nonsense_Mutation	SNP	G	G	A			TCGA-AB-2917-03A-01W-0732-08	TCGA-AB-2917-11A-01W-0732-08	G	G	G	A	G	G	Verified	Valid	Somatic	Phase_IV	WXS	Hybrid_Capture_Illumina_Seq	1	dbGAP	Illumina HiSeq	77b0ecc5-d93d-44bf-b2da-fda304c4810b	52fc3d72-1205-44db-8c5b-1e8750a98313	1	1561654	1561654	G	A	SNP	CDC2L2	NM_033529.2	human	genbank	54_36p	-1	reviewed	nonsense	c.1969	p.Q657*	0.978	NULL	NULL	-	pseudogene:no_stop_codon:bad_bp_length_for_coding_region	30	0	0.00	27	11	28.95	47	2	4.08
GJB3	0	genome.wustl.edu	36	1	35023596	35023596	+	Nonsense_Mutation	SNP	C	C	T			TCGA-AB-2917-03A-01W-0732-08	TCGA-AB-2917-11A-01W-0732-08	C	C	C	T	C	C	Verified	Valid	Somatic	Phase_IV	WXS	Hybrid_Capture_Illumina_Seq	1	dbGAP	Illumina HiSeq	77b0ecc5-d93d-44bf-b2da-fda304c4810b	52fc3d72-1205-44db-8c5b-1e8750a98313	1	35023596	35023596	C	T	SNP	GJB3	NM_001005752.1	human	genbank	54_36p	+1	reviewed	nonsense	c.646	p.R216*	0.009	NULL	HMMPfam_Connexin,HMMSmart_SM00037,PatternScan_CONNEXINS_1,PatternScan_CONNEXINS_2,HMMPfam_Connexin_CCC	-	no_errors	64	0	0.00	66	58	46.40	NA	NA	NA
PDC	0	genome.wustl.edu	36	1	184682217	184682217	+	Missense_Mutation	SNP	C	C	A			TCGA-AB-2917-03A-01W-0732-08	TCGA-AB-2917-11A-01W-0732-08	C	C	C	A	C	C	Verified	Valid	Somatic	Phase_IV	WXS	Hybrid_Capture_Illumina_Seq	1	dbGAP	Illumina HiSeq	77b0ecc5-d93d-44bf-b2da-fda304c4810b	52fc3d72-1205-44db-8c5b-1e8750a98313	1	184682217	184682217	C	A	SNP	PDC	NM_002597.3	human	genbank	54_36p	-1	reviewed	missense	c.177	p.R59S	0.996	HMMPfam_Phosducin,superfamily_Thiordxn-like_fd	HMMPfam_Phosducin,superfamily_Thiordxn-like_fd	-	no_errors	237	6	2.45	172	113	39.65	2	0	0.00
SCN1A	0	genome.wustl.edu	36	2	166609962	166609962	+	Missense_Mutation	SNP	C	C	T			TCGA-AB-2917-03A-01W-0732-08	TCGA-AB-2917-11A-01W-0732-08	C	C	C	T	C	C	Verified	Valid	Somatic	Phase_IV	WXS	Hybrid_Capture_Illumina_Seq	1	dbGAP	Illumina HiSeq	77b0ecc5-d93d-44bf-b2da-fda304c4810b	52fc3d72-1205-44db-8c5b-1e8750a98313	2	166609962	166609962	C	T	SNP	SCN1A	NM_006920.4	human	genbank	54_36p	-1	validated	missense	c.1499	p.R500Q	1.000	NULL	HMMPfam_IQ,HMMSmart_IQ,HMMPfam_Ion_trans,HMMPfam_Na_trans_assoc,PatternScan_RIBONUCLEASE_P,superfamily_SSF81324	-	no_errors	197	6	2.94	121	102	45.74	NA	NA	NA
LOC100128936	0	genome.wustl.edu	36	3	61703497	61703497	+	Missense_Mutation	SNP	G	G	A			TCGA-AB-2917-03A-01W-0732-08	TCGA-AB-2917-11A-01W-0732-08	G	G	G	A	G	G	Verified	Valid	Somatic	Phase_IV	WXS	Hybrid_Capture_Illumina_Seq	1	dbGAP	Illumina HiSeq	77b0ecc5-d93d-44bf-b2da-fda304c4810b	52fc3d72-1205-44db-8c5b-1e8750a98313	3	61703497	61703497	G	A	SNP	LOC100128936	XM_001726108.1	human	genbank	54_36p	-1	model	missense	c.74	p.A25V	1.000	HMMPfam_Ribosomal_L1,superfamily_Ribosomal protein L1	HMMPfam_Ribosomal_L1,PatternScan_RIBOSOMAL_L1,superfamily_Ribosomal protein L1	-	pseudogene	114	3	2.56	105	92	46.70	1366	1	0.07
GPR78	0	genome.wustl.edu	36	4	8639798	8639798	+	Silent	SNP	G	G	A			TCGA-AB-2917-03A-01W-0732-08	TCGA-AB-2917-11A-01W-0732-08	G	G	G	A	G	G	Verified	Valid	Somatic	Phase_IV	WXS	Hybrid_Capture_Illumina_Seq	1	dbGAP	Illumina HiSeq	77b0ecc5-d93d-44bf-b2da-fda304c4810b	52fc3d72-1205-44db-8c5b-1e8750a98313	4	8639798	8639798	G	A	SNP	GPR78	NM_080819.2	human	genbank	54_36p	+1	validated	silent	c.900	p.P300	1.000	superfamily_Family A G protein-coupled receptor-like	HMMPfam_7tm_1,superfamily_Family A G protein-coupled receptor-like	-	no_errors	56	3	5.08	19	26	56.52	NA	NA	NA
COL12A1	0	genome.wustl.edu	36	6	75880038	75880038	+	Missense_Mutation	SNP	G	G	A			TCGA-AB-2917-03A-01W-0732-08	TCGA-AB-2917-11A-01W-0732-08	G	G	G	A	G	G	Verified	Valid	Somatic	Phase_IV	WXS	Hybrid_Capture_Illumina_Seq	1	dbGAP	Illumina HiSeq	77b0ecc5-d93d-44bf-b2da-fda304c4810b	52fc3d72-1205-44db-8c5b-1e8750a98313	6	75880038	75880038	G	A	SNP	COL12A1	NM_004370.5	human	genbank	54_36p	-1	reviewed	missense	c.7840	p.P2614S	1.000	HMMSmart_SM00210,superfamily_Concanavalin A-like lectins/glucanases	HMMPfam_VWA,HMMSmart_SM00327,HMMSmart_SM00210,HMMPfam_fn3,HMMSmart_SM00060,HMMPfam_Collagen,superfamily_Fibronectin type III,superfamily_Concanavalin A-like lectins/glucanases,superfamily_vWA-like	-	no_errors	180	8	4.23	134	99	42.49	NA	NA	NA
BAIAP2L1	0	genome.wustl.edu	36	7	97774983	97774983	+	Missense_Mutation	SNP	C	C	T			TCGA-AB-2917-03A-01W-0732-08	TCGA-AB-2917-11A-01W-0732-08	C	C	C	T	C	C	Verified	Valid	Somatic	Phase_IV	WXS	Hybrid_Capture_Illumina_Seq	1	dbGAP	Illumina HiSeq	77b0ecc5-d93d-44bf-b2da-fda304c4810b	52fc3d72-1205-44db-8c5b-1e8750a98313	7	97774983	97774983	C	T	SNP	BAIAP2L1	NM_018842.3	human	genbank	54_36p	-1	provisional	missense	c.1117	p.E373K	0.993	HMMSmart_SH3,superfamily_SH3,HMMPfam_SH3_2	HMMSmart_SH3,superfamily_SH3,HMMPfam_SH3_2,HMMPfam_IMD	-	no_errors	146	0	0.00	131	20	13.07	1	0	0.00
SLC7A13	0	genome.wustl.edu	36	8	87311171	87311171	+	Missense_Mutation	SNP	C	C	T			TCGA-AB-2917-03A-01W-0732-08	TCGA-AB-2917-11A-01W-0732-08	C	C	C	T	C	C	Verified	Valid	Somatic	Phase_IV	WXS	Hybrid_Capture_Illumina_Seq	1	dbGAP	Illumina HiSeq	77b0ecc5-d93d-44bf-b2da-fda304c4810b	52fc3d72-1205-44db-8c5b-1e8750a98313	8	87311171	87311171	C	T	SNP	SLC7A13	NM_138817.2	human	genbank	54_36p	-1	validated	missense	c.452	p.R151H	0.114	NULL	HMMPfam_AA_permease	-	no_errors	173	0	0.00	170	43	20.09	NA	NA	NA
C9orf174	0	genome.wustl.edu	36	9	99124969	99124969	+	Missense_Mutation	SNP	G	G	A			TCGA-AB-2917-03A-01W-0732-08	TCGA-AB-2917-11A-01W-0732-08	G	G	G	A	G	G	Verified	Valid	Somatic	Phase_IV	WXS	Hybrid_Capture_Illumina_Seq	1	dbGAP	Illumina HiSeq	77b0ecc5-d93d-44bf-b2da-fda304c4810b	52fc3d72-1205-44db-8c5b-1e8750a98313	9	99124969	99124969	G	A	SNP	KIAA1529	NM_020893.1	human	genbank	54_36p	+1	predicted	missense	c.1742	p.R581H	0.998	NULL	NULL	-	no_errors	130	1	0.76	128	30	18.40	3	2	40.00
LTBP3	0	genome.wustl.edu	36	11	65077003	65077003	+	Missense_Mutation	SNP	C	C	T			TCGA-AB-2917-03A-01W-0732-08	TCGA-AB-2917-11A-01W-0732-08	C	C	C	T	C	C	Verified	Valid	Somatic	Phase_IV	WXS	Hybrid_Capture_Illumina_Seq	1	dbGAP	Illumina HiSeq	77b0ecc5-d93d-44bf-b2da-fda304c4810b	52fc3d72-1205-44db-8c5b-1e8750a98313	11	65077003	65077003	C	T	SNP	LTBP3	NM_021070.1	human	genbank	54_36p	-1	validated	missense	c.1090	p.V364M	1.000	HMMSmart_EGF_CA,HMMPfam_EGF_CA,PatternScan_EGF_CA,superfamily_SSF57196	PatternScan_ASX_HYDROXYL,HMMSmart_EGF_CA,HMMPfam_TB,superfamily_Fibril-assoc,HMMPfam_EGF,HMMSmart_EGF,PatternScan_EGF_1,PatternScan_EGF_2,HMMPfam_EGF_CA,PatternScan_EGF_CA,superfamily_SSF57196	-	no_errors	200	7	3.35	61	45	42.45	19	12	38.71
KRAS	0	genome.wustl.edu	36	12	25289478	25289478	+	Missense_Mutation	SNP	T	T	C			TCGA-AB-2917-03A-01W-0732-08	TCGA-AB-2917-11A-01W-0732-08	T	T	T	C	T	T	Verified	Valid	Somatic	Phase_IV	WXS	Hybrid_Capture_Illumina_Seq	1	dbGAP	Illumina HiSeq	77b0ecc5-d93d-44bf-b2da-fda304c4810b	52fc3d72-1205-44db-8c5b-1e8750a98313	12	25289478	25289478	T	C	SNP	KRAS	NM_033360.3	human	genbank	54_36p	-1	reviewed	missense	c.108	p.I36M	1.000	HMMSmart_SM00176,HMMSmart_SM00173,HMMSmart_SM00174,HMMSmart_SM00175,HMMPfam_Ras,superfamily_P-loop containing nucleoside triphosphate hydrolases	HMMSmart_SM00176,HMMSmart_SM00173,HMMSmart_SM00174,HMMSmart_SM00175,HMMPfam_Ras,superfamily_P-loop containing nucleoside triphosphate hydrolases	-	no_errors	45	1	2.17	27	41	60.29	2	33	94.29
DBX2	0	genome.wustl.edu	36	12	43696557	43696557	+	Missense_Mutation	SNP	G	G	A			TCGA-AB-2917-03A-01W-0732-08	TCGA-AB-2917-11A-01W-0732-08	G	G	G	A	G	G	Verified	Valid	Somatic	Phase_IV	WXS	Hybrid_Capture_Illumina_Seq	1	dbGAP	Illumina HiSeq	77b0ecc5-d93d-44bf-b2da-fda304c4810b	52fc3d72-1205-44db-8c5b-1e8750a98313	12	43696557	43696557	G	A	SNP	DBX2	NM_001004329.2	human	genbank	54_36p	-1	validated	missense	c.799	p.R267W	0.001	NULL	HMMPfam_Homeobox,HMMSmart_SM00389,superfamily_Homeodomain-like,PatternScan_HOMEOBOX_1	-	no_errors	182	5	2.66	81	131	61.50	NA	NA	NA
SETBP1	0	genome.wustl.edu	36	18	40785905	40785905	+	Missense_Mutation	SNP	G	G	A			TCGA-AB-2917-03A-01W-0732-08	TCGA-AB-2917-11A-01W-0732-08	G	G	G	A	G	G	Verified	Valid	Somatic	Phase_IV	WXS	Hybrid_Capture_Illumina_Seq	1	dbGAP	Illumina HiSeq	77b0ecc5-d93d-44bf-b2da-fda304c4810b	52fc3d72-1205-44db-8c5b-1e8750a98313	18	40785905	40785905	G	A	SNP	SETBP1	NM_015559.1	human	genbank	54_36p	+1	validated	missense	c.2440	p.D814N	1.000	NULL	HMMPfam_AT_hook,HMMSmart_AT_hook	-	no_errors	149	6	3.85	100	102	50.25	20	19	48.72
OR7D4	0	genome.wustl.edu	36	19	9185994	9185994	+	Missense_Mutation	SNP	T	T	A			TCGA-AB-2917-03A-01W-0732-08	TCGA-AB-2917-11A-01W-0732-08	T	T	T	A	T	T	Verified	Valid	Somatic	Phase_IV	WXS	Hybrid_Capture_Illumina_Seq	1	dbGAP	Illumina HiSeq	77b0ecc5-d93d-44bf-b2da-fda304c4810b	52fc3d72-1205-44db-8c5b-1e8750a98313	19	9185994	9185994	T	A	SNP	OR7D4	NM_001005191.1	human	genbank	54_36p	-1	provisional	missense	c.520	p.I174F	0.000	HMMPfam_7tm_1,superfamily_Family A G protein-coupled receptor-like	HMMPfam_7tm_1,PatternScan_G_PROTEIN_RECEP_F1_1,superfamily_Family A G protein-coupled receptor-like	-	no_errors	235	11	4.42	197	177	47.20	NA	NA	NA