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
PTCH2	8643	genome.wustl.edu	37	1	45294893	45294893	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-D1-A165-01A-11D-A12J-09	TCGA-D1-A165-10A-01D-A12J-09	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_003738.4	-1	reviewed	p.A436V	1.000	16	0%	20	35%	3	0%	possibly_damaging(0.759)	deleterious(0.01)	deleterious(0.687)	HMMPfam_Patched,superfamily_Multidrug efflux transporter AcrB transmembrane domain
BLZF1	8548	genome.wustl.edu	37	1	169347745	169347745	+	Nonsense_Mutation	SNP	C	C	T	novel		TCGA-D1-A165-01A-11D-A12J-09	TCGA-D1-A165-10A-01D-A12J-09	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_003666.2	+1	validated	p.R216*	1.000	116	0.9%	204	37.7%	6	0%	-	-	-	HMMPfam_DASH_Hsk3
PTPN14	5784	genome.wustl.edu	37	1	214557868	214557868	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-D1-A165-01A-11D-A12J-09	TCGA-D1-A165-10A-01D-A12J-09	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_005401.4	-1	reviewed	p.D444Y	1.000	97	0%	169	12.4%	8	0%	probably_damaging(0.999)	deleterious(0)	deleterious(0.935)	NULL
SIPA1L2	57568	genome.wustl.edu	37	1	232619629	232619629	+	Silent	SNP	C	C	T	novel		TCGA-D1-A165-01A-11D-A12J-09	TCGA-D1-A165-10A-01D-A12J-09	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_020808.3	-1	validated	p.A630	0.060	239	0%	313	18.5%	10	0%	-	-	-	HMMPfam_Rap_GAP,superfamily_Rap/Ran-GAP (Pfam 02145)
KLHL29	114818	genome.wustl.edu	37	2	23865406	23865406	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-D1-A165-01A-11D-A12J-09	TCGA-D1-A165-10A-01D-A12J-09	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	ENST00000486442	+1	known	p.P209L	1.000	18	0%	21	23.8%	1	0%	benign(0)	tolerated(1)	-	NULL
SPRED2	200734	genome.wustl.edu	37	2	65540827	65540827	+	Silent	SNP	C	C	T	novel		TCGA-D1-A165-01A-11D-A12J-09	TCGA-D1-A165-10A-01D-A12J-09	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_181784.2	-1	validated	p.S355	0.992	47	0%	59	42.4%	14	28.5%	-	-	-	HMMPfam_Sprouty
INPP4A	3631	genome.wustl.edu	37	2	99185132	99185133	+	Splice_Site	INS	-	-	T	novel		TCGA-D1-A165-01A-11D-A12J-09	TCGA-D1-A165-10A-01D-A12J-09	-	-					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001134224.1	+1	reviewed	e21+1	1.000:1.000	-	-	-	-	-	-	-	-	-	-
INPP4A	3631	genome.wustl.edu	37	2	99193476	99193476	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-D1-A165-01A-11D-A12J-09	TCGA-D1-A165-10A-01D-A12J-09	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001134224.1	+1	reviewed	p.R891W	1.000	21	0%	23	39.1%	7	28.5%	probably_damaging(1)	deleterious(0)	deleterious(0.945)	NULL
LIMS2	55679	genome.wustl.edu	37	2	128398556	128398556	+	Missense_Mutation	SNP	A	A	T	novel		TCGA-D1-A165-01A-11D-A12J-09	TCGA-D1-A165-10A-01D-A12J-09	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_017980.4	-1	validated	p.V247D	1.000	74	0%	83	39.8%	17	11.7%	probably_damaging(0.999)	deleterious(0)	deleterious(0.935)	HMMPfam_LIM,HMMSmart_LIM,PatternScan_LIM_DOMAIN_1,superfamily_SSF57716
TTN	7273	genome.wustl.edu	37	2	179422944	179422944	+	Missense_Mutation	SNP	A	A	T	rs143975327	by1000genomes	TCGA-D1-A165-01A-11D-A12J-09	TCGA-D1-A165-10A-01D-A12J-09	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	ENST00000356127	-1	known	p.M26476K	1.000	67	0%	75	37.3%	0	-	possibly_damaging(0.892)	-	-	HMMPfam_I-set
MYL1	4632	genome.wustl.edu	37	2	211179707	211179707	+	Silent	SNP	C	C	A	novel		TCGA-D1-A165-01A-11D-A12J-09	TCGA-D1-A165-10A-01D-A12J-09	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_079420.2	-1	reviewed	p.P20	0.014	27	0%	42	16.7%	0	-	-	-	-	NULL
USP37	57695	genome.wustl.edu	37	2	219346797	219346797	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-D1-A165-01A-11D-A12J-09	TCGA-D1-A165-10A-01D-A12J-09	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_020935.2	-1	validated	p.A611T	0.295	212	0%	257	35.8%	1	100%	benign(0.019)	tolerated(0.33)	neutral(0.025)	HMMPfam_UCH,superfamily_Cysteine proteinases
XIRP1	165904	genome.wustl.edu	37	3	39229630	39229630	+	Missense_Mutation	SNP	C	C	G	novel		TCGA-D1-A165-01A-11D-A12J-09	TCGA-D1-A165-10A-01D-A12J-09	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_194293.2	-1	provisional	p.G436A	1.000	82	0%	80	45%	0	-	probably_damaging(1)	deleterious(0)	deleterious(0.945)	HMMPfam_Xin
CTNNB1	1499	genome.wustl.edu	37	3	41266101	41266101	+	Missense_Mutation	SNP	C	C	A	rs121913400	byCluster	TCGA-D1-A165-01A-11D-A12J-09	TCGA-D1-A165-10A-01D-A12J-09	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001098209.1	+1	reviewed	p.S33Y	1.000	89	0%	79	17.7%	131	28.2%	probably_damaging(1)	deleterious(0)	deleterious(0.945)	NULL
PTH1R	5745	genome.wustl.edu	37	3	46942522	46942522	+	Silent	SNP	C	C	T	novel		TCGA-D1-A165-01A-11D-A12J-09	TCGA-D1-A165-10A-01D-A12J-09	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_000316.2	+1	reviewed	p.P332	0.470	39	0%	46	34.8%	0	-	-	-	-	HMMPfam_7tm_2,superfamily_SSF81321
MECOM	2122	genome.wustl.edu	37	3	168834410	168834410	+	Missense_Mutation	SNP	G	G	C	novel		TCGA-D1-A165-01A-11D-A12J-09	TCGA-D1-A165-10A-01D-A12J-09	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	ENST00000494292	-1	known	p.T417R	1.000	803	0%	785	25.7%	31	29%	probably_damaging(0.999)	deleterious(0.03)	deleterious(0.855)	HMMPfam_zf-C2H2,HMMSmart_SM00355,superfamily_C2H2 and C2HC zinc fingers
MECOM	2122	genome.wustl.edu	37	3	168834483	168834483	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-D1-A165-01A-11D-A12J-09	TCGA-D1-A165-10A-01D-A12J-09	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	ENST00000494292	-1	known	p.R393S	1.000	676	0%	706	39.4%	39	28.2%	probably_damaging(1)	deleterious(0.01)	deleterious(0.905)	HMMPfam_zf-C2H2,PatternScan_ZINC_FINGER_C2H2_1,HMMSmart_SM00355,superfamily_C2H2 and C2HC zinc fingers
AFM	173	genome.wustl.edu	37	4	74354475	74354475	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-D1-A165-01A-11D-A12J-09	TCGA-D1-A165-10A-01D-A12J-09	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001133.2	+1	reviewed	p.T281M	0.001	317	0%	352	41.2%	0	-	benign(0.004)	tolerated(0.09)	neutral(0.296)	superfamily_Serum albumin-like,HMMPfam_Serum_albumin,HMMSmart_SM00103
ANP32C	23520	genome.wustl.edu	37	4	165118819	165118819	+	Silent	SNP	C	C	T	novel		TCGA-D1-A165-01A-11D-A12J-09	TCGA-D1-A165-10A-01D-A12J-09	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_012403.1	-1	reviewed	p.A15	0.994	182	0%	211	39.3%	0	-	-	-	-	superfamily_L domain-like
KIAA0947	23379	genome.wustl.edu	37	5	5476115	5476115	+	Nonsense_Mutation	SNP	G	G	A	novel		TCGA-D1-A165-01A-11D-A12J-09	TCGA-D1-A165-10A-01D-A12J-09	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_015325.1	+1	validated	p.W2148*	1.000	260	0%	280	18.2%	8	25%	-	-	-	NULL
HEATR7B2	133558	genome.wustl.edu	37	5	41058234	41058234	+	Silent	SNP	G	G	A	novel		TCGA-D1-A165-01A-11D-A12J-09	TCGA-D1-A165-10A-01D-A12J-09	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_173489.4	-1	validated	p.Y229	0.150	127	0%	185	20%	0	-	-	-	-	superfamily_ARM repeat
PIK3R1	5295	genome.wustl.edu	37	5	67591276	67591278	+	In_Frame_Del	DEL	AAG	AAG	-	novel		TCGA-D1-A165-01A-11D-A12J-09	TCGA-D1-A165-10A-01D-A12J-09	AAG	AAG					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_181523.1	+1	reviewed	p.K593in_frame_del	1.000:1.000:1.000	-	-	-	-	-	-	-	-	-	NULL
PIK3R1	5295	genome.wustl.edu	37	5	67592107	67592108	+	Frame_Shift_Ins	INS	-	-	C	novel		TCGA-D1-A165-01A-11D-A12J-09	TCGA-D1-A165-10A-01D-A12J-09	-	-					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_181523.1	+1	reviewed	p.R641fs	0.930:0.990	-	-	-	-	-	-	-	-	-	HMMPfam_SH2,HMMSmart_SM00252,superfamily_SH2 domain
PIK3R1	5295	genome.wustl.edu	37	5	67592109	67592109	+	Missense_Mutation	SNP	G	G	C	novel		TCGA-D1-A165-01A-11D-A12J-09	TCGA-D1-A165-10A-01D-A12J-09	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_181523.1	+1	reviewed	p.R642P	0.991	182	0%	230	21.7%	108	18.5%	probably_damaging(1)	tolerated(1)	deleterious(0.500)	HMMPfam_SH2,HMMSmart_SM00252,superfamily_SH2 domain
IQGAP2	10788	genome.wustl.edu	37	5	75970370	75970370	+	Silent	SNP	C	C	A	novel		TCGA-D1-A165-01A-11D-A12J-09	TCGA-D1-A165-10A-01D-A12J-09	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_006633.2	+1	validated	p.I1121	1.000	104	1%	104	33.7%	22	63.6%	-	-	-	HMMPfam_RasGAP,HMMSmart_SM00323,superfamily_GTPase activation domain GAP
IMPG1	3617	genome.wustl.edu	37	6	76633351	76633351	+	Silent	SNP	C	C	T	novel		TCGA-D1-A165-01A-11D-A12J-09	TCGA-D1-A165-10A-01D-A12J-09	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001563.2	-1	provisional	p.K772	1.000	434	0%	440	33%	0	-	-	-	-	NULL
LOC100132308	100132308	genome.wustl.edu	37	7	63020550	63020550	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-D1-A165-01A-11D-A12J-09	TCGA-D1-A165-10A-01D-A12J-09	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	XM_001715240.2	+1	model	p.V234I	1.000	29	0%	37	29.7%	0	-	-	-	-	HMMPfam_Nucleoside_tran
TMEM60	85025	genome.wustl.edu	37	7	77423488	77423488	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-D1-A165-01A-11D-A12J-09	TCGA-D1-A165-10A-01D-A12J-09	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_032936.3	-1	validated	p.R68Q	1.000	198	0%	293	36.2%	39	38.4%	probably_damaging(0.984)	tolerated(0.51)	neutral(0.440)	NULL
AP4M1	9179	genome.wustl.edu	37	7	99701087	99701087	+	Missense_Mutation	SNP	C	C	G	novel		TCGA-D1-A165-01A-11D-A12J-09	TCGA-D1-A165-10A-01D-A12J-09	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_004722.3	+1	reviewed	p.T136R	0.998	168	0%	197	28.4%	34	26.4%	benign(0.221)	deleterious(0.01)	neutral(0.428)	HMMPfam_Clat_adaptor_s,superfamily_Longin_like
TRIM35	23087	genome.wustl.edu	37	8	27145187	27145187	+	Silent	SNP	G	G	A	novel		TCGA-D1-A165-01A-11D-A12J-09	TCGA-D1-A165-10A-01D-A12J-09	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_171982.3	-1	validated	p.H454	0.875	44	0%	51	41.2%	8	62.5%	-	-	-	HMMPfam_SPRY,HMMSmart_SM00449
EXTL3	2137	genome.wustl.edu	37	8	28588822	28588822	+	Missense_Mutation	SNP	A	A	T	novel		TCGA-D1-A165-01A-11D-A12J-09	TCGA-D1-A165-10A-01D-A12J-09	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001440.2	+1	provisional	p.D744V	1.000	137	0%	201	52.7%	34	55.8%	probably_damaging(0.999)	deleterious(0)	deleterious(0.935)	HMMPfam_Glyco_transf_64,superfamily_Nucleotide-diphospho-sugar transferases
MTSS1	9788	genome.wustl.edu	37	8	125565534	125565534	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-D1-A165-01A-11D-A12J-09	TCGA-D1-A165-10A-01D-A12J-09	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_014751.4	-1	validated	p.G656V	0.005	129	0%	230	33.9%	4	25%	benign(0.002)	deleterious(0.02)	neutral(0.383)	NULL
TMEM8B	51754	genome.wustl.edu	37	9	35842567	35842567	+	Silent	SNP	C	C	T	novel		TCGA-D1-A165-01A-11D-A12J-09	TCGA-D1-A165-10A-01D-A12J-09	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001042589.1	+1	provisional	p.N44	0.998	55	0%	57	33.3%	13	46.1%	-	-	-	NULL
VPS13A	23230	genome.wustl.edu	37	9	79954784	79954788	+	Frame_Shift_Del	DEL	TTCTC	TTCTC	-	novel		TCGA-D1-A165-01A-11D-A12J-09	TCGA-D1-A165-10A-01D-A12J-09	TTCTC	TTCTC					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_033305.2	+1	reviewed	p.L2245fs	1.000:1.000:1.000:1.000:0.933	-	-	-	-	-	-	-	-	-	HMMPfam_DUF1162
C9orf79	286234	genome.wustl.edu	37	9	90500709	90500709	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-D1-A165-01A-11D-A12J-09	TCGA-D1-A165-10A-01D-A12J-09	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_178828.4	+1	validated	p.R436H	0.001	32	0%	44	40.9%	0	-	benign(0.027)	tolerated(0.56)	neutral(0.008)	NULL
DBC1	1620	genome.wustl.edu	37	9	121929366	121929366	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-D1-A165-01A-11D-A12J-09	TCGA-D1-A165-10A-01D-A12J-09	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_014618.2	-1	validated	p.C761Y	1.000	285	0%	290	14.1%	0	-	possibly_damaging(0.8)	deleterious(0)	deleterious(0.746)	NULL
PCDH15	65217	genome.wustl.edu	37	10	55582088	55582088	+	Missense_Mutation	SNP	C	C	T	rs111033463	byCluster	TCGA-D1-A165-01A-11D-A12J-09	TCGA-D1-A165-10A-01D-A12J-09	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001142763.1	-1	reviewed	p.V1807I	0.000	324	0%	472	17.8%	0	-	unknown(0)	deleterious(0)	-	NULL
PTEN	5728	genome.wustl.edu	37	10	89692850	89692850	+	Missense_Mutation	SNP	C	C	G	novel		TCGA-D1-A165-01A-11D-A12J-09	TCGA-D1-A165-10A-01D-A12J-09	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	ENST00000371953	+1	known	p.L112V	1.000	316	0%	531	36.7%	14	7.1%	possibly_damaging(0.86)	deleterious(0)	deleterious(0.777)	HMMSmart_SM00404,superfamily_(Phosphotyrosine protein) phosphatases II
PTEN	5728	genome.wustl.edu	37	10	89717757	89717758	+	Frame_Shift_Del	DEL	AG	AG	-	novel		TCGA-D1-A165-01A-11D-A12J-09	TCGA-D1-A165-10A-01D-A12J-09	AG	AG					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	ENST00000371953	+1	known	p.N262fs	1.000:1.000	-	-	-	-	-	-	-	-	-	superfamily_C2 domain (Calcium/lipid-binding domain CaLB),HMMPfam_PTEN_C2
CTNND1	1500	genome.wustl.edu	37	11	57564458	57564458	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-D1-A165-01A-11D-A12J-09	TCGA-D1-A165-10A-01D-A12J-09	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001085458.1	+1	validated	p.R317H	0.998	21	0%	29	37.9%	70	51.4%	probably_damaging(1)	tolerated(0.1)	deleterious(0.786)	NULL
SLC22A6	9356	genome.wustl.edu	37	11	62748503	62748503	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-D1-A165-01A-11D-A12J-09	TCGA-D1-A165-10A-01D-A12J-09	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_004790.3	-1	reviewed	p.R331C	1.000	45	0%	73	35.6%	0	-	probably_damaging(1)	tolerated(0.1)	deleterious(0.786)	HMMPfam_MFS_1,superfamily_MFS general substrate transporter
RNF121	55298	genome.wustl.edu	37	11	71701743	71701743	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-D1-A165-01A-11D-A12J-09	TCGA-D1-A165-10A-01D-A12J-09	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_018320.4	+1	reviewed	p.Y203H	1.000	173	1.2%	199	28.6%	27	18.5%	benign(0.001)	tolerated(0.41)	neutral(0.015)	superfamily_SSF57850
TYR	7299	genome.wustl.edu	37	11	88911897	88911897	+	Missense_Mutation	SNP	A	A	T	novel		TCGA-D1-A165-01A-11D-A12J-09	TCGA-D1-A165-10A-01D-A12J-09	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_000372.4	+1	reviewed	p.N259I	1.000	114	0%	131	27.5%	0	-	benign(0.115)	deleterious(0.05)	neutral(0.354)	HMMPfam_Tyrosinase,superfamily_Di-copper centre-containing domain
PLCZ1	89869	genome.wustl.edu	37	12	18837147	18837147	+	Missense_Mutation	SNP	C	C	G	novel		TCGA-D1-A165-01A-11D-A12J-09	TCGA-D1-A165-10A-01D-A12J-09	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_033123.2	-1	provisional	p.R553P	1.000	257	0%	273	20.9%	0	-	probably_damaging(1)	deleterious(0)	deleterious(0.945)	HMMPfam_C2,HMMSmart_SM00239,superfamily_C2 domain (Calcium/lipid-binding domain CaLB)
SCN8A	6334	genome.wustl.edu	37	12	52200163	52200163	+	Missense_Mutation	SNP	C	C	G	novel		TCGA-D1-A165-01A-11D-A12J-09	TCGA-D1-A165-10A-01D-A12J-09	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_014191.2	+1	reviewed	p.I1631M	1.000	244	0%	292	21.2%	0	-	probably_damaging(1)	deleterious(0)	deleterious(0.945)	HMMPfam_Ion_trans,superfamily_Voltage-gated potassium channels
DRAM1	55332	genome.wustl.edu	37	12	102302063	102302063	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-D1-A165-01A-11D-A12J-09	TCGA-D1-A165-10A-01D-A12J-09	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_018370.2	+1	reviewed	p.C148R	0.512	272	0%	319	40.1%	35	60%	probably_damaging(0.964)	tolerated(0.38)	neutral(0.424)	HMMPfam_Frag1
GPR133	283383	genome.wustl.edu	37	12	131498854	131498854	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-D1-A165-01A-11D-A12J-09	TCGA-D1-A165-10A-01D-A12J-09	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_198827.3	+1	validated	p.P481L	0.226	118	0%	125	44.8%	2	0%	probably_damaging(1)	deleterious(0.02)	deleterious(0.883)	NULL
NYNRIN	57523	genome.wustl.edu	37	14	24885812	24885812	+	Missense_Mutation	SNP	C	C	G	rs150242696	by1000genomes	TCGA-D1-A165-01A-11D-A12J-09	TCGA-D1-A165-10A-01D-A12J-09	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_025081.2	+1	validated	p.I1619M	0.004	52	0%	47	36.2%	4	50%	probably_damaging(0.996)	tolerated(0.18)	deleterious(0.518)	superfamily_Ribonuclease H-like
ACTN1	87	genome.wustl.edu	37	14	69346747	69346747	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-D1-A165-01A-11D-A12J-09	TCGA-D1-A165-10A-01D-A12J-09	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001130004.1	-1	reviewed	p.R738W	1.000	120	0%	128	33.6%	103	33%	probably_damaging(1)	deleterious(0)	deleterious(0.945)	superfamily_Spectrin
BMF	90427	genome.wustl.edu	37	15	40398146	40398146	+	Nonsense_Mutation	SNP	G	G	A	novel		TCGA-D1-A165-01A-11D-A12J-09	TCGA-D1-A165-10A-01D-A12J-09	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001003940.1	-1	reviewed	p.Q48*	1.000	82	0%	90	32.2%	18	44.4%	-	-	-	NULL
TRAP1	10131	genome.wustl.edu	37	16	3721754	3721754	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-D1-A165-01A-11D-A12J-09	TCGA-D1-A165-10A-01D-A12J-09	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_016292.2	-1	validated	p.R402W	1.000	29	0%	40	25%	187	48.6%	probably_damaging(1)	deleterious(0)	deleterious(0.945)	superfamily_Ribosomal_S5_D2-typ_fold,HMMPfam_HSP90
SMG1	23049	genome.wustl.edu	37	16	18859335	18859335	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-D1-A165-01A-11D-A12J-09	TCGA-D1-A165-10A-01D-A12J-09	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_015092.4	-1	reviewed	p.I1882V	1.000	129	0%	169	42.6%	1	100%	benign(0.007)	tolerated(0.66)	neutral(0.003)	NULL
RBBP6	5930	genome.wustl.edu	37	16	24573186	24573188	+	In_Frame_Del	DEL	ACT	ACT	-	novel		TCGA-D1-A165-01A-11D-A12J-09	TCGA-D1-A165-10A-01D-A12J-09	ACT	ACT					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_006910.4	+1	reviewed	p.L332in_frame_del	0.964:0.958:0.919	-	-	-	-	-	-	-	-	-	NULL
SLC16A5	9121	genome.wustl.edu	37	17	73096653	73096653	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-D1-A165-01A-11D-A12J-09	TCGA-D1-A165-10A-01D-A12J-09	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_004695.2	+1	provisional	p.A299T	0.000	68	0%	86	37.2%	13	46.1%	benign(0.025)	tolerated(0.37)	neutral(0.020)	HMMPfam_MFS_1,superfamily_MFS_gen_substrate_transporter
PRAM1	84106	genome.wustl.edu	37	19	8555632	8555632	+	Silent	SNP	C	C	T	rs180927898	by1000genomes	TCGA-D1-A165-01A-11D-A12J-09	TCGA-D1-A165-10A-01D-A12J-09	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_032152.3	-1	reviewed	p.G583	1.000	42	0%	58	29.3%	3	100%	-	-	-	superfamily_SH3-domain
FDX1L	112812	genome.wustl.edu	37	19	10421272	10421272	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-D1-A165-01A-11D-A12J-09	TCGA-D1-A165-10A-01D-A12J-09	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001031734.2	-1	validated	p.R148W	0.853	102	0%	102	25.5%	50	20%	probably_damaging(1)	deleterious(0)	deleterious(0.945)	HMMPfam_Fer2,superfamily_Ferredoxin
ZNF490	57474	genome.wustl.edu	37	19	12691749	12691749	+	Silent	SNP	G	G	A	novel		TCGA-D1-A165-01A-11D-A12J-09	TCGA-D1-A165-10A-01D-A12J-09	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_020714.2	-1	validated	p.H380	0.042	135	0%	142	36.6%	0	-	-	-	-	HMMPfam_zf-C2H2,PatternScan_ZINC_FINGER_C2H2_1,HMMSmart_ZnF_C2H2,superfamily_SSF57667
ZNF461	92283	genome.wustl.edu	37	19	37129666	37129666	+	Silent	SNP	G	G	A	novel		TCGA-D1-A165-01A-11D-A12J-09	TCGA-D1-A165-10A-01D-A12J-09	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_153257.2	-1	validated	p.C527	0.133	203	0.5%	229	17.9%	4	0%	-	-	-	HMMSmart_SM00355,superfamily_C2H2 and C2HC zinc fingers
CALM3	808	genome.wustl.edu	37	19	47111527	47111527	+	Silent	SNP	G	G	A	novel		TCGA-D1-A165-01A-11D-A12J-09	TCGA-D1-A165-10A-01D-A12J-09	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_005184.2	+1	validated	p.V36	1.000	84	0%	68	22.1%	324	19.7%	-	-	-	HMMSmart_SM00054,HMMPfam_efhand,superfamily_EF-hand
ARHGAP35	2909	genome.wustl.edu	37	19	47421960	47421960	+	Nonsense_Mutation	SNP	C	C	T	novel		TCGA-D1-A165-01A-11D-A12J-09	TCGA-D1-A165-10A-01D-A12J-09	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_004491.4	+1	reviewed	p.R10*	1.000	159	0%	163	42.3%	13	38.4%	-	-	-	NULL
ZNF766	90321	genome.wustl.edu	37	19	52794321	52794321	+	Missense_Mutation	SNP	T	T	G	novel		TCGA-D1-A165-01A-11D-A12J-09	TCGA-D1-A165-10A-01D-A12J-09	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001010851.2	+1	validated	p.L426R	0.022	226	0%	211	35.5%	8	62.5%	probably_damaging(1)	deleterious(0)	deleterious(0.945)	HMMPfam_zf-C2H2,PatternScan_ZINC_FINGER_C2H2_1,HMMSmart_SM00355,superfamily_C2H2 and C2HC zinc fingers
LILRB1	10859	genome.wustl.edu	37	19	55143599	55143599	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-D1-A165-01A-11D-A12J-09	TCGA-D1-A165-10A-01D-A12J-09	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001081637.1	+1	reviewed	p.R191H	0.001	293	0%	345	10.7%	0	-	benign(0.001)	tolerated(1)	-	HMMPfam_ig,superfamily_SSF48726
TBL1X	6907	genome.wustl.edu	37	X	9683031	9683031	+	Silent	SNP	G	G	A	novel		TCGA-D1-A165-01A-11D-A12J-09	TCGA-D1-A165-10A-01D-A12J-09	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001139466.1	+1	reviewed	p.A565	0.981	100	0%	108	13.9%	8	0%	-	-	-	HMMSmart_SM00320,superfamily_WD40 repeat-like
FRMPD4	9758	genome.wustl.edu	37	X	12736731	12736731	+	Silent	SNP	G	G	A	novel		TCGA-D1-A165-01A-11D-A12J-09	TCGA-D1-A165-10A-01D-A12J-09	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_014728.3	+1	reviewed	p.E1262	0.995	50	0%	76	42.1%	0	-	-	-	-	NULL
CLCN5	1184	genome.wustl.edu	37	X	49854898	49854898	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-D1-A165-01A-11D-A12J-09	TCGA-D1-A165-10A-01D-A12J-09	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001127898.1	+1	reviewed	p.R624W	0.670	174	0%	216	38.9%	2	0%	probably_damaging(0.981)	deleterious(0)	deleterious(0.870)	superfamily_Clc chloride channel
PHKA1	5255	genome.wustl.edu	37	X	71840622	71840622	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-D1-A165-01A-11D-A12J-09	TCGA-D1-A165-10A-01D-A12J-09	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_002637.3	-1	reviewed	p.C697F	1.000	147	0%	195	36.4%	5	100%	benign(0)	tolerated(0.71)	neutral(0.002)	HMMPfam_PHK_AB
CHM	1121	genome.wustl.edu	37	X	85128070	85128070	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-D1-A165-01A-11D-A12J-09	TCGA-D1-A165-10A-01D-A12J-09	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_000390.2	-1	reviewed	p.N586S	0.999	305	0%	293	39.2%	1	100%	benign(0.001)	tolerated(0.44)	neutral(0.013)	superfamily_SSF51905
