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	transcript_name	strand	transcript_status	amino_acid_change	ucsc_cons	normal_depth	normal_vaf	tumor_depth	tumor_vaf	rna_depth	rna_vaf	polyphen	sift	condel	domain
FNBP1L	54874	genome.wustl.edu	37	1	94001976	94001976	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-B5-A1MU-01A-11D-A13L-09	TCGA-B5-A1MU-10A-01D-A13O-09	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	ENST00000271234	+1	known	p.V360M	1.000	64	0%	93	26.9%	-	-	benign(0)	tolerated(0.13)	neutral(0.253)	NULL
COL11A1	1301	genome.wustl.edu	37	1	103352612	103352612	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-B5-A1MU-01A-11D-A13L-09	TCGA-B5-A1MU-10A-01D-A13O-09	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_080629.2	-1	reviewed	p.G1549C	1.000	105	0%	99	30.3%	-	-	unknown(0)	deleterious(0)	-	HMMPfam_Collagen
NVL	4931	genome.wustl.edu	37	1	224495926	224495926	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-B5-A1MU-01A-11D-A13L-09	TCGA-B5-A1MU-10A-01D-A13O-09	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_002533.2	-1	validated	p.R128W	1.000	87	0%	143	11.9%	-	-	probably_damaging(0.999)	deleterious(0)	deleterious(0.935)	NULL
MST1R	4486	genome.wustl.edu	37	3	49928712	49928713	+	Frame_Shift_Ins	INS	-	-	A	novel		TCGA-B5-A1MU-01A-11D-A13L-09	TCGA-B5-A1MU-10A-01D-A13O-09	-	-					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_002447.2	-1	validated	p.G1188fs	1.000:1.000	-	-	-	-	-	-	-	-	-	HMMPfam_Pkinase_Tyr,HMMSmart_SM00219,HMMSmart_SM00220,superfamily_Protein kinase-like (PK-like)
PIK3CA	5290	genome.wustl.edu	37	3	178917478	178917478	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-B5-A1MU-01A-11D-A13L-09	TCGA-B5-A1MU-10A-01D-A13O-09	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_006218.2	+1	reviewed	p.G118D	1.000	82	0%	86	24.4%	-	-	probably_damaging(0.976)	deleterious(0.04)	deleterious(0.767)	superfamily_SSF54236
LOC100288460	100288460	genome.wustl.edu	37	4	9042838	9042877	+	Frame_Shift_Del	DEL	ATACATATATACGTATATATATACGTGTATATATACATAC	ATACATATATACGTATATATATACGTGTATATATACATAC	-	novel		TCGA-B5-A1MU-01A-11D-A13L-09	TCGA-B5-A1MU-10A-01D-A13O-09	ATACATATATACGTATATATATACGTGTATATATACATAC	ATACATATATACGTATATATATACGTGTATATATACATAC					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	XM_002342444.1	-1	model	p.M1fs	0.184:0.185:0.185:0.186:0.186:0.186	-	-	-	-	-	-	-	-	-	NULL
KIF4B	285643	genome.wustl.edu	37	5	154396903	154396903	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-B5-A1MU-01A-11D-A13L-09	TCGA-B5-A1MU-10A-01D-A13O-09	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001099293.1	+1	provisional	p.A1162S	0.998	64	0%	60	33.3%	-	-	benign(0.001)	tolerated(0.24)	neutral(0.037)	NULL
SCUBE3	222663	genome.wustl.edu	37	6	35209340	35209340	+	Missense_Mutation	SNP	A	A	C	novel		TCGA-B5-A1MU-01A-11D-A13L-09	TCGA-B5-A1MU-10A-01D-A13O-09	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_152753.2	+1	provisional	p.S406R	0.089	37	0%	67	37.3%	-	-	benign(0)	tolerated(0.33)	neutral(0.024)	NULL
ESCO2	157570	genome.wustl.edu	37	8	27660882	27660882	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-B5-A1MU-01A-11D-A13L-09	TCGA-B5-A1MU-10A-01D-A13O-09	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001017420.2	+1	reviewed	p.T578I	1.000	97	0%	166	13.3%	-	-	probably_damaging(1)	deleterious(0)	deleterious(0.945)	NULL
KCNU1	157855	genome.wustl.edu	37	8	36788610	36788610	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-B5-A1MU-01A-11D-A13L-09	TCGA-B5-A1MU-10A-01D-A13O-09	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001031836.2	+1	validated	p.R960W	0.837	59	0%	75	20%	-	-	probably_damaging(1)	deleterious(0)	deleterious(0.945)	NULL
PTPRD	5789	genome.wustl.edu	37	9	8500810	8500810	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-B5-A1MU-01A-11D-A13L-09	TCGA-B5-A1MU-10A-01D-A13O-09	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_002839.3	-1	reviewed	p.T691I	1.000	115	0%	137	27.7%	-	-	probably_damaging(1)	deleterious(0)	deleterious(0.945)	HMMPfam_fn3,HMMSmart_SM00060,superfamily_Fibronectin type III
PTPN3	5774	genome.wustl.edu	37	9	112200466	112200466	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-B5-A1MU-01A-11D-A13L-09	TCGA-B5-A1MU-10A-01D-A13O-09	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_002829.3	-1	reviewed	p.S172Y	0.969	43	0%	37	10.8%	-	-	possibly_damaging(0.935)	deleterious(0)	deleterious(0.825)	HMMPfam_FERM_M,superfamily_FERM_3-hlx,HMMSmart_B41
CEL	1056	genome.wustl.edu	37	9	135944122	135944122	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-B5-A1MU-01A-11D-A13L-09	TCGA-B5-A1MU-10A-01D-A13O-09	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001807.3	+1	reviewed	p.P323L	0.993	103	0%	47	12.8%	-	-	probably_damaging(1)	deleterious(0.01)	deleterious(0.905)	HMMPfam_COesterase,superfamily_alpha/beta-Hydrolases
OR8J1	219477	genome.wustl.edu	37	11	56128438	56128438	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-B5-A1MU-01A-11D-A13L-09	TCGA-B5-A1MU-10A-01D-A13O-09	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001005205.1	+1	provisional	p.S239Y	1.000	83	0%	89	29.2%	-	-	probably_damaging(1)	deleterious(0)	deleterious(0.945)	HMMPfam_7tm_1,superfamily_Family A G protein-coupled receptor-like
PANX1	24145	genome.wustl.edu	37	11	93913200	93913200	+	Silent	SNP	C	C	T	novel		TCGA-B5-A1MU-01A-11D-A13L-09	TCGA-B5-A1MU-10A-01D-A13O-09	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_015368.3	+1	reviewed	p.N326	0.728	72	0%	90	16.7%	-	-	-	-	-	NULL
PA2G4	5036	genome.wustl.edu	37	12	56503676	56503676	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-B5-A1MU-01A-11D-A13L-09	TCGA-B5-A1MU-10A-01D-A13O-09	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_006191.2	+1	reviewed	p.D196Y	1.000	54	0%	67	16.4%	-	-	probably_damaging(1)	deleterious(0)	deleterious(0.945)	HMMPfam_Peptidase_M24,superfamily_Peptidase_M24_cat_core
SETD1B	23067	genome.wustl.edu	37	12	122255521	122255521	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-B5-A1MU-01A-11D-A13L-09	TCGA-B5-A1MU-10A-01D-A13O-09	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_015048.1	+1	validated	p.E1049K	0.988	35	0%	42	33.3%	-	-	unknown(0)	-	-	NULL
C16orf45	89927	genome.wustl.edu	37	16	15528610	15528610	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-B5-A1MU-01A-11D-A13L-09	TCGA-B5-A1MU-10A-01D-A13O-09	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_033201.2	+1	validated	p.G34R	1.000	10	0%	17	41.2%	-	-	possibly_damaging(0.897)	tolerated(0.16)	neutral(0.413)	NULL
ACSM2B	348158	genome.wustl.edu	37	16	20552096	20552096	+	Splice_Site	SNP	C	C	A	novel		TCGA-B5-A1MU-01A-11D-A13L-09	TCGA-B5-A1MU-10A-01D-A13O-09	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001105069.1	-1	validated	e12-1	1.000	89	0%	95	10.5%	-	-	-	-	-	-
TP53	7157	genome.wustl.edu	37	17	7578271	7578271	+	Missense_Mutation	SNP	T	T	G	novel		TCGA-B5-A1MU-01A-11D-A13L-09	TCGA-B5-A1MU-10A-01D-A13O-09	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_000546.4	-1	reviewed	p.H193P	0.998	74	0%	95	55.8%	-	-	probably_damaging(1)	deleterious(0)	deleterious(0.945)	superfamily_p53-like transcription factors,HMMPfam_P53
MYH1	4619	genome.wustl.edu	37	17	10415238	10415238	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-B5-A1MU-01A-11D-A13L-09	TCGA-B5-A1MU-10A-01D-A13O-09	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_005963.3	-1	reviewed	p.R445L	1.000	165	0%	247	12.1%	-	-	probably_damaging(1)	deleterious(0)	deleterious(0.945)	HMMPfam_Myosin_head,HMMSmart_MYSc,superfamily_SSF52540
LOC100132973	100132973	genome.wustl.edu	37	19	9293524	9293525	+	Frame_Shift_Ins	INS	-	-	G	novel		TCGA-B5-A1MU-01A-11D-A13L-09	TCGA-B5-A1MU-10A-01D-A13O-09	-	-					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	XM_001726567.1	-1	model	p.H68fs	0.995:1.000	-	-	-	-	-	-	-	-	-	HMMSmart_SM00512,superfamily_POZ domain,HMMPfam_Skp1_POZ
DDX49	54555	genome.wustl.edu	37	19	19032475	19032475	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-B5-A1MU-01A-11D-A13L-09	TCGA-B5-A1MU-10A-01D-A13O-09	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_019070.4	+1	validated	p.E81D	1.000	46	0%	32	12.5%	-	-	benign(0.052)	deleterious(0.01)	neutral(0.409)	HMMPfam_DEAD,HMMSmart_DEXDc,superfamily_SSF52540
APLP1	333	genome.wustl.edu	37	19	36362553	36362553	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-B5-A1MU-01A-11D-A13L-09	TCGA-B5-A1MU-10A-01D-A13O-09	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001024807.1	+1	reviewed	p.M193V	1.000	80	0%	55	10.9%	-	-	probably_damaging(0.994)	deleterious(0)	deleterious(0.897)	HMMPfam_A4_EXTRA,HMMSmart_SM00006,superfamily_Amyloid beta a4 protein copper binding domain (domain 2)
ZSCAN4	201516	genome.wustl.edu	37	19	58187533	58187533	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-B5-A1MU-01A-11D-A13L-09	TCGA-B5-A1MU-10A-01D-A13O-09	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_152677.2	+1	validated	p.T7I	0.000	38	0%	35	20%	-	-	benign(0.005)	tolerated(1)	-	NULL
CRNKL1	51340	genome.wustl.edu	37	20	20033177	20033177	+	Missense_Mutation	SNP	G	G	C	novel		TCGA-B5-A1MU-01A-11D-A13L-09	TCGA-B5-A1MU-10A-01D-A13O-09	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_016652.4	-1	reviewed	p.P98R	0.015	28	0%	43	23.3%	-	-	benign(0.246)	-	-	NULL
PTPRT	11122	genome.wustl.edu	37	20	40727090	40727090	+	Nonsense_Mutation	SNP	C	C	T	novel		TCGA-B5-A1MU-01A-11D-A13L-09	TCGA-B5-A1MU-10A-01D-A13O-09	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	ENST00000454126	-1	known	p.W910*	1.000	49	0%	57	22.8%	-	-	probably_damaging(1)	deleterious(0)	deleterious(0.945)	HMMPfam_Y_phosphatase,HMMSmart_SM00194,superfamily_(Phosphotyrosine protein) phosphatases II
PRDM15	63977	genome.wustl.edu	37	21	43224699	43224699	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-B5-A1MU-01A-11D-A13L-09	TCGA-B5-A1MU-10A-01D-A13O-09	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_022115.3	-1	validated	p.V1276I	0.998	38	0%	57	14%	-	-	possibly_damaging(0.737)	deleterious(0)	deleterious(0.714)	NULL
COL4A5	1287	genome.wustl.edu	37	X	107938567	107938567	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-B5-A1MU-01A-11D-A13L-09	TCGA-B5-A1MU-10A-01D-A13O-09	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_033380.1	+1	reviewed	p.R1631H	1.000	67	0%	83	27.7%	-	-	probably_damaging(1)	deleterious(0)	deleterious(0.945)	HMMPfam_C4,HMMSmart_C4,superfamily_C-type_lectin_fold
