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	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
MYCN	4613	genome.wustl.edu	37	2	16085981	16085981	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-AP-A0LV-01A-11W-A062-09	TCGA-AP-A0LV-10A-01W-A062-09	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	3d35ceb5-c85e-4129-b9de-6f206e72b432	c24acc97-c98b-4612-81d1-06c948ce3080	NM_005378.4	+1	reviewed	p.H386R	1.000	116	0%	56	17.9%	30	56.6%	probably_damaging(0.986)	deleterious(0)	deleterious(0.879)	HMMPfam_HLH,superfamily_HLH helix-loop-helix DNA-binding domain
SLC9A4	389015	genome.wustl.edu	37	2	103141488	103141488	+	Silent	SNP	G	G	T	novel		TCGA-AP-A0LV-01A-11W-A062-09	TCGA-AP-A0LV-10A-01W-A062-09	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	3d35ceb5-c85e-4129-b9de-6f206e72b432	c24acc97-c98b-4612-81d1-06c948ce3080	NM_001011552.3	+1	validated	p.L608	0.927	508	0%	463	33%	0	-	-	-	-	NULL
CTNNB1	1499	genome.wustl.edu	37	3	41266098	41266098	+	Missense_Mutation	SNP	A	A	G	rs121913396	byCluster	TCGA-AP-A0LV-01A-11W-A062-09	TCGA-AP-A0LV-10A-01W-A062-09	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	3d35ceb5-c85e-4129-b9de-6f206e72b432	c24acc97-c98b-4612-81d1-06c948ce3080	NM_001098209.1	+1	reviewed	p.D32G	1.000	64	0%	79	29.1%	70	48.5%	probably_damaging(1)	deleterious(0)	deleterious(0.945)	NULL
ENSG00000173366	0	genome.wustl.edu	37	3	52256028	52256028	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LV-01A-11W-A062-09	TCGA-AP-A0LV-10A-01W-A062-09	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	3d35ceb5-c85e-4129-b9de-6f206e72b432	c24acc97-c98b-4612-81d1-06c948ce3080	ENST00000494383	-1	known	p.G922S	0.000	19	0%	30	50%	1	0%	-	-	-	superfamily_L domain-like
PIK3CA	5290	genome.wustl.edu	37	3	178936091	178936091	+	Missense_Mutation	SNP	G	G	A	rs104886003	byCluster	TCGA-AP-A0LV-01A-11W-A062-09	TCGA-AP-A0LV-10A-01W-A062-09	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	3d35ceb5-c85e-4129-b9de-6f206e72b432	c24acc97-c98b-4612-81d1-06c948ce3080	NM_006218.2	+1	reviewed	p.E545K	1.000	94	0%	94	37.2%	0	-	probably_damaging(0.999)	deleterious(0)	deleterious(0.935)	HMMPfam_PI3Ka,HMMSmart_PI3Ka,superfamily_ARM-type_fold
ZNF827	152485	genome.wustl.edu	37	4	146823888	146823888	+	Frame_Shift_Del	DEL	C	C	-	novel		TCGA-AP-A0LV-01A-11W-A062-09	TCGA-AP-A0LV-10A-01W-A062-09	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	3d35ceb5-c85e-4129-b9de-6f206e72b432	c24acc97-c98b-4612-81d1-06c948ce3080	NM_178835.3	-1	validated	p.E175fs	0.998	-	-	-	-	-	-	-	-	-	NULL
DNAH5	1767	genome.wustl.edu	37	5	13781061	13781061	+	Missense_Mutation	SNP	C	C	T	rs184758570	by1000genomes	TCGA-AP-A0LV-01A-11W-A062-09	TCGA-AP-A0LV-10A-01W-A062-09	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	3d35ceb5-c85e-4129-b9de-6f206e72b432	c24acc97-c98b-4612-81d1-06c948ce3080	NM_001369.2	-1	reviewed	p.R2943H	0.992	142	0%	140	35%	0	-	probably_damaging(1)	deleterious(0)	deleterious(0.945)	superfamily_SSF52540
CDH10	1008	genome.wustl.edu	37	5	24535881	24535881	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LV-01A-11W-A062-09	TCGA-AP-A0LV-10A-01W-A062-09	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	3d35ceb5-c85e-4129-b9de-6f206e72b432	c24acc97-c98b-4612-81d1-06c948ce3080	NM_006727.2	-1	reviewed	p.G193W	1.000	101	0%	74	39.2%	0	-	probably_damaging(0.999)	deleterious(0)	deleterious(0.935)	HMMPfam_Cadherin,HMMSmart_CA,superfamily_Cadherin
ERAP2	64167	genome.wustl.edu	37	5	96230950	96230962	+	Frame_Shift_Del	DEL	TGGTTTGGCAACC	TGGTTTGGCAACC	-	novel		TCGA-AP-A0LV-01A-11W-A062-09	TCGA-AP-A0LV-10A-01W-A062-09	TGGTTTGGCAACC	TGGTTTGGCAACC					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	3d35ceb5-c85e-4129-b9de-6f206e72b432	c24acc97-c98b-4612-81d1-06c948ce3080	NM_001130140.1	+1	validated	p.F377fs	1.000:1.000:1.000:1.000:1.000:1.000:1.000:1.000:0.988:1.000:1.000:1.000:1.000	-	-	-	-	-	-	-	-	-	"HMMPfam_Peptidase_M1,superfamily_Metalloproteases (""zincins"") catalytic domain"
CNR1	1268	genome.wustl.edu	37	6	88854286	88854286	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LV-01A-11W-A062-09	TCGA-AP-A0LV-10A-01W-A062-09	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	3d35ceb5-c85e-4129-b9de-6f206e72b432	c24acc97-c98b-4612-81d1-06c948ce3080	NM_016083.4	-1	reviewed	p.A236	0.002	62	0%	63	31.7%	0	-	-	-	-	HMMPfam_7tm_1,superfamily_Family A G protein-coupled receptor-like
PNMA2	10687	genome.wustl.edu	37	8	26366266	26366266	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LV-01A-11W-A062-09	TCGA-AP-A0LV-10A-01W-A062-09	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	3d35ceb5-c85e-4129-b9de-6f206e72b432	c24acc97-c98b-4612-81d1-06c948ce3080	NM_007257.5	-1	validated	p.A2	0.543	219	0.5%	270	38.5%	0	-	-	-	-	NULL
AP3M2	10947	genome.wustl.edu	37	8	42024693	42024693	+	Missense_Mutation	SNP	T	T	A	novel		TCGA-AP-A0LV-01A-11W-A062-09	TCGA-AP-A0LV-10A-01W-A062-09	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	3d35ceb5-c85e-4129-b9de-6f206e72b432	c24acc97-c98b-4612-81d1-06c948ce3080	NM_001134296.1	+1	reviewed	p.I272N	1.000	148	0%	188	38.3%	7	42.8%	probably_damaging(0.961)	deleterious(0.01)	deleterious(0.810)	HMMPfam_Adap_comp_sub,superfamily_Second domain of Mu2 adaptin subunit (ap50) of ap2 adaptor
FAM22D	728130	genome.wustl.edu	37	10	89117852	89117854	+	In_Frame_Del	DEL	AGA	AGA	-	novel		TCGA-AP-A0LV-01A-11W-A062-09	TCGA-AP-A0LV-10A-01W-A062-09	AGA	AGA					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	3d35ceb5-c85e-4129-b9de-6f206e72b432	c24acc97-c98b-4612-81d1-06c948ce3080	ENST00000330762	+1	known	p.E16in_frame_del	0.018:0.018:0.030	-	-	-	-	-	-	-	-	-	NULL
PTEN	5728	genome.wustl.edu	37	10	89692904	89692904	+	Missense_Mutation	SNP	C	C	G	rs121909224	byCluster	TCGA-AP-A0LV-01A-11W-A062-09	TCGA-AP-A0LV-10A-01W-A062-09	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	3d35ceb5-c85e-4129-b9de-6f206e72b432	c24acc97-c98b-4612-81d1-06c948ce3080	ENST00000371953	+1	known	p.R130G	1.000	317	0%	335	35.8%	22	40.9%	probably_damaging(1)	deleterious(0)	deleterious(0.945)	HMMPfam_DSPc,HMMSmart_SM00404,PatternScan_TYR_PHOSPHATASE_1,superfamily_(Phosphotyrosine protein) phosphatases II
PTEN	5728	genome.wustl.edu	37	10	89692934	89692935	+	In_Frame_Ins	INS	-	-	TAC	novel		TCGA-AP-A0LV-01A-11W-A062-09	TCGA-AP-A0LV-10A-01W-A062-09	-	-					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	3d35ceb5-c85e-4129-b9de-6f206e72b432	c24acc97-c98b-4612-81d1-06c948ce3080	ENST00000371953	+1	known	p.141in_frame_insL	1.000:1.000	-	-	-	-	-	-	-	-	-	HMMPfam_DSPc,HMMSmart_SM00404,superfamily_(Phosphotyrosine protein) phosphatases II
SIRT3	23410	genome.wustl.edu	37	11	233128	233128	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LV-01A-11W-A062-09	TCGA-AP-A0LV-10A-01W-A062-09	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	3d35ceb5-c85e-4129-b9de-6f206e72b432	c24acc97-c98b-4612-81d1-06c948ce3080	NM_012239.5	-1	validated	p.H187Q	0.148	42	0%	34	26.5%	11	63.6%	benign(0)	tolerated(0.45)	neutral(0.012)	HMMPfam_SIR2,superfamily_SSF52467
ANO2	57101	genome.wustl.edu	37	12	5672713	5672713	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LV-01A-11W-A062-09	TCGA-AP-A0LV-10A-01W-A062-09	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	3d35ceb5-c85e-4129-b9de-6f206e72b432	c24acc97-c98b-4612-81d1-06c948ce3080	NM_020373.2	-1	validated	p.V917I	0.977	223	0%	193	38.3%	3	66.6%	benign(0.022)	tolerated(0.47)	neutral(0.012)	HMMPfam_DUF590
ZNF384	171017	genome.wustl.edu	37	12	6777070	6777087	+	In_Frame_Del	DEL	TGCTGCTGCTGCTGCTGC	TGCTGCTGCTGCTGCTGC	-	rs3835029	byCluster;by1000genomes	TCGA-AP-A0LV-01A-11W-A062-09	TCGA-AP-A0LV-10A-01W-A062-09	TGCTGCTGCTGCTGCTGC	TGCTGCTGCTGCTGCTGC					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	3d35ceb5-c85e-4129-b9de-6f206e72b432	c24acc97-c98b-4612-81d1-06c948ce3080	NM_001135734.1	-1	reviewed	p.QQQQQQ511in_frame_del	0.291:0.350:0.379:0.430:0.765:0.910:0.986:0.997:0.989:0.995:1.000:1.000:1.000:0.998:0.894:0.920:0.981:0.987	-	-	-	-	-	-	-	-	-	NULL
CAPS2	84698	genome.wustl.edu	37	12	75672759	75672759	+	Missense_Mutation	SNP	C	C	G	novel		TCGA-AP-A0LV-01A-11W-A062-09	TCGA-AP-A0LV-10A-01W-A062-09	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	3d35ceb5-c85e-4129-b9de-6f206e72b432	c24acc97-c98b-4612-81d1-06c948ce3080	ENST00000328705	-1	known	p.E354Q	1.000	206	0%	233	39.1%	0	-	probably_damaging(0.992)	deleterious(0.05)	deleterious(0.793)	superfamily_SSF47473
ACIN1	22985	genome.wustl.edu	37	14	23549519	23549519	+	Nonsense_Mutation	SNP	G	G	C	novel		TCGA-AP-A0LV-01A-11W-A062-09	TCGA-AP-A0LV-10A-01W-A062-09	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	3d35ceb5-c85e-4129-b9de-6f206e72b432	c24acc97-c98b-4612-81d1-06c948ce3080	NM_014977.3	-1	validated	p.S400*	0.093	111	0%	123	38.2%	16	25%	-	-	-	NULL
TGFB3	7043	genome.wustl.edu	37	14	76429789	76429789	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LV-01A-11W-A062-09	TCGA-AP-A0LV-10A-01W-A062-09	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	3d35ceb5-c85e-4129-b9de-6f206e72b432	c24acc97-c98b-4612-81d1-06c948ce3080	NM_003239.2	-1	reviewed	p.R266C	1.000	95	0%	78	43.6%	8	12.5%	probably_damaging(0.968)	deleterious(0.04)	deleterious(0.759)	NULL
ENSG00000246741	0	genome.wustl.edu	37	15	40850021	40850026	+	RNA	DEL	AGAATT	AGAATT	-	rs113169718	byCluster;by1000genomes	TCGA-AP-A0LV-01A-11W-A062-09	TCGA-AP-A0LV-10A-01W-A062-09	AGAATT	AGAATT					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	3d35ceb5-c85e-4129-b9de-6f206e72b432	c24acc97-c98b-4612-81d1-06c948ce3080	ENST00000501408	+1	known	NULL	1.000:1.000:1.000:1.000:0.999:0.996	-	-	-	-	-	-	-	-	-	-
DENND4A	10260	genome.wustl.edu	37	15	65983640	65983640	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LV-01A-11W-A062-09	TCGA-AP-A0LV-10A-01W-A062-09	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	3d35ceb5-c85e-4129-b9de-6f206e72b432	c24acc97-c98b-4612-81d1-06c948ce3080	NM_001144823.1	-1	validated	p.G1097R	1.000	104	0%	87	41.4%	2	0%	probably_damaging(0.978)	tolerated(0.09)	deleterious(0.717)	NULL
STRA6	64220	genome.wustl.edu	37	15	74474713	74474713	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LV-01A-11W-A062-09	TCGA-AP-A0LV-10A-01W-A062-09	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	3d35ceb5-c85e-4129-b9de-6f206e72b432	c24acc97-c98b-4612-81d1-06c948ce3080	NM_001142617.1	-1	reviewed	p.L463	0.767	23	0%	19	31.6%	198	52%	-	-	-	NULL
NOMO3	408050	genome.wustl.edu	37	16	16355442	16355442	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LV-01A-11W-A062-09	TCGA-AP-A0LV-10A-01W-A062-09	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	3d35ceb5-c85e-4129-b9de-6f206e72b432	c24acc97-c98b-4612-81d1-06c948ce3080	NM_001004067.2	+1	reviewed	p.S435F	0.453	251	0%	286	62.9%	8	12.5%	possibly_damaging(0.63)	deleterious(0.04)	deleterious(0.569)	NULL
KATNB1	10300	genome.wustl.edu	37	16	57789114	57789114	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LV-01A-11W-A062-09	TCGA-AP-A0LV-10A-01W-A062-09	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	3d35ceb5-c85e-4129-b9de-6f206e72b432	c24acc97-c98b-4612-81d1-06c948ce3080	NM_005886.2	+1	reviewed	p.N460	0.056	15	0%	14	28.6%	53	39.6%	-	-	-	NULL
RINL	126432	genome.wustl.edu	37	19	39361335	39361335	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LV-01A-11W-A062-09	TCGA-AP-A0LV-10A-01W-A062-09	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	3d35ceb5-c85e-4129-b9de-6f206e72b432	c24acc97-c98b-4612-81d1-06c948ce3080	NM_198445.2	-1	provisional	p.T186M	0.977	5	0.000	12	0.500	1	0%	probably_damaging(1)	deleterious(0.01)	deleterious(0.905)	superfamily_SSF109993
SLC9A8	23315	genome.wustl.edu	37	20	48491321	48491321	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LV-01A-11W-A062-09	TCGA-AP-A0LV-10A-01W-A062-09	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	3d35ceb5-c85e-4129-b9de-6f206e72b432	c24acc97-c98b-4612-81d1-06c948ce3080	NM_015266.1	+1	validated	p.L346	1.000	126	0%	161	37.3%	0	-	-	-	-	HMMPfam_Na_H_Exchanger
SEZ6L	23544	genome.wustl.edu	37	22	26693012	26693012	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LV-01A-11W-A062-09	TCGA-AP-A0LV-10A-01W-A062-09	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	3d35ceb5-c85e-4129-b9de-6f206e72b432	c24acc97-c98b-4612-81d1-06c948ce3080	NM_021115.4	+1	validated	p.D376	0.263	58	0%	76	39.5%	1	0%	-	-	-	HMMSmart_SM00042,superfamily_Spermadhesin CUB domain
FAM155B	27112	genome.wustl.edu	37	X	68749538	68749538	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LV-01A-11W-A062-09	TCGA-AP-A0LV-10A-01W-A062-09	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	3d35ceb5-c85e-4129-b9de-6f206e72b432	c24acc97-c98b-4612-81d1-06c948ce3080	NM_015686.2	+1	validated	p.F386	0.999	45	0%	73	41.1%	2	0%	-	-	-	NULL
OPN1MW2	728458	genome.wustl.edu	37	X	153490556	153490556	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LV-01A-11W-A062-09	TCGA-AP-A0LV-10A-01W-A062-09	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	3d35ceb5-c85e-4129-b9de-6f206e72b432	c24acc97-c98b-4612-81d1-06c948ce3080	NM_001048181.2	+1	reviewed	p.A98T	0.997	188	0%	244	16.4%	0	-	probably_damaging(0.975)	deleterious(0)	deleterious(0.861)	HMMPfam_7tm_1,superfamily_SSF81321
