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
PLEKHN1	84069	genome.wustl.edu	37	1	906209	906209	+	Nonsense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	ENST00000379409	+1	known	p.W185*	0.014	10	0%	34	20.6%	0	-	-	-	-	HMMSmart_SM00233,superfamily_PH domain-like
AGRN	375790	genome.wustl.edu	37	1	981387	981387	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_198576.2	+1	validated	p.F908	0.943	187	0%	318	25.8%	10	10%	-	-	-	HMMSmart_FOLN,superfamily_SSF100895
AGRN	375790	genome.wustl.edu	37	1	981968	981968	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_198576.2	+1	validated	p.V1035M	0.001	18	0%	48	18.8%	7	14.2%	benign(0.138)	tolerated(0.26)	neutral(0.045)	NULL
AGRN	375790	genome.wustl.edu	37	1	982771	982771	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_198576.2	+1	validated	p.T1151	0.001	44	0%	63	23.8%	11	27.2%	-	-	-	HMMPfam_SEA,HMMSmart_SEA,superfamily_SSF82671
TTLL10	254173	genome.wustl.edu	37	1	1116115	1116115	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001130045.1	+1	validated	p.E210	0.604	37	0%	44	11.4%	0	-	-	-	-	HMMPfam_TTL
SDF4	51150	genome.wustl.edu	37	1	1163949	1163949	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	ENST00000403997	-1	known	p.R10W	0.998	43	0%	70	25.7%	75	6.6%	-	-	-	NULL
TAS1R3	83756	genome.wustl.edu	37	1	1268408	1268408	+	Nonsense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_152228.1	+1	provisional	p.W461*	0.989	28	0%	43	18.6%	0	-	-	-	-	HMMPfam_ANF_receptor,superfamily_SSF53822
DVL1	1855	genome.wustl.edu	37	1	1273535	1273535	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_004421.2	-1	reviewed	p.G487	1.000	10	0%	25	40%	55	34.5%	-	-	-	superfamily_SSF46785
DVL1	1855	genome.wustl.edu	37	1	1275130	1275130	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_004421.2	-1	reviewed	p.I324	0.986	63	0%	106	19.8%	14	7.1%	-	-	-	HMMPfam_PDZ,HMMSmart_PDZ,superfamily_PDZ
DVL1	1855	genome.wustl.edu	37	1	1278086	1278086	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_004421.2	-1	reviewed	p.G75S	1.000	87	0%	159	12.6%	11	9%	probably_damaging(0.995)	deleterious(0.01)	deleterious(0.863)	HMMPfam_DIX,HMMSmart_DAX
DVL1	1855	genome.wustl.edu	37	1	1284305	1284305	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_004421.2	-1	reviewed	p.F47L	1.000	30	0%	26	15.4%	8	25%	benign(0.382)	deleterious(0.03)	deleterious(0.486)	HMMPfam_DIX,HMMSmart_DAX
CCNL2	81669	genome.wustl.edu	37	1	1334013	1334013	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	ENST00000425598	-1	known	p.L120F	1.000	103	0%	180	25%	7	0%	unknown(0)	-	-	NULL
ATAD3C	219293	genome.wustl.edu	37	1	1390865	1390865	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001039211.2	+1	validated	p.R135Q	1.000	140	0%	246	25.6%	2	0%	benign(0.134)	tolerated(0.09)	neutral(0.308)	superfamily_SSF52540
MIB2	142678	genome.wustl.edu	37	1	1560977	1560977	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_080875.2	+1	validated	p.R364C	1.000	13	0%	45	22.2%	10	10%	probably_damaging(1)	tolerated(0.14)	deleterious(0.750)	NULL
CDK11B	984	genome.wustl.edu	37	1	1575729	1575729	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_033487.1	-1	reviewed	p.A131V	0.998	165	0.6%	275	10.2%	33	0%	-	-	-	NULL
GNB1	2782	genome.wustl.edu	37	1	1737959	1737959	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_002074.2	-1	reviewed	p.S74	0.546	130	0%	71	26.8%	52	5.7%	-	-	-	HMMSmart_SM00320,superfamily_WD40 repeat-like,PatternScan_WD_REPEATS_1,HMMPfam_WD40
CALML6	163688	genome.wustl.edu	37	1	1847940	1847940	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_138705.2	+1	validated	p.E47K	0.349	143	0%	263	31.2%	0	-	benign(0.04)	tolerated(1)	neutral(0.003)	HMMSmart_EFh,superfamily_SSF47473
C1orf222	339457	genome.wustl.edu	37	1	1855316	1855316	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	ENST00000493964	-1	known	p.G712	0.324	249	0%	357	42.9%	0	-	-	-	-	NULL
KIAA1751	85452	genome.wustl.edu	37	1	1903456	1903456	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001080484.1	-1	predicted	p.A284V	0.772	76	0%	126	27.8%	0	-	probably_damaging(0.995)	deleterious(0.01)	deleterious(0.863)	NULL
GABRD	2563	genome.wustl.edu	37	1	1961659	1961659	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_000815.4	+1	reviewed	p.A433T	0.975	15	0%	30	33.3%	1	0%	benign(0.024)	deleterious(0.03)	neutral(0.365)	HMMPfam_Neur_chan_memb,superfamily_Neu_channel_TM
LOC100287750	100287750	genome.wustl.edu	37	1	2116778	2116778	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	XM_002342013.1	-1	model	p.R128Q	0.000	191	0%	298	11.7%	57	19.2%	unknown(0)	-	-	NULL
MORN1	79906	genome.wustl.edu	37	1	2268215	2268215	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_024848.1	-1	provisional	p.L371I	0.001	13	0%	32	37.5%	1	0%	benign(0.073)	tolerated(0.32)	neutral(0.029)	NULL
PEX10	5192	genome.wustl.edu	37	1	2339889	2339889	+	Splice_Site	SNP	A	A	G	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_153818.1	-1	reviewed	e3+2	1.000	11	0%	12	41.7%	1	100%	-	-	-	-
PLCH2	9651	genome.wustl.edu	37	1	2428114	2428114	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_014638.2	+1	provisional	p.S635F	1.000	34	0%	56	14.3%	0	-	probably_damaging(1)	deleterious(0.02)	deleterious(0.883)	HMMPfam_PI-PLC-Y,HMMSmart_SM00149,superfamily_PLC-like phosphodiesterases
PLCH2	9651	genome.wustl.edu	37	1	2436119	2436119	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_014638.2	+1	provisional	p.L1240I	0.109	33	0%	89	12.4%	2	0%	probably_damaging(0.995)	deleterious(0)	deleterious(0.902)	NULL
PANK4	55229	genome.wustl.edu	37	1	2450759	2450759	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_018216.1	-1	reviewed	p.F286L	1.000	42	0%	102	20.6%	3	66.6%	benign(0.123)	tolerated(0.3)	neutral(0.038)	HMMPfam_Fumble
MMEL1	79258	genome.wustl.edu	37	1	2541134	2541134	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_033467.3	-1	reviewed	p.R134	0.571	29	0%	52	15.4%	0	-	-	-	-	"HMMPfam_Peptidase_M13_N,superfamily_Metalloproteases (""zincins"") catalytic domain"
PRDM16	63976	genome.wustl.edu	37	1	3347577	3347577	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_022114.3	+1	reviewed	p.T1141	0.111	82	0%	116	12.1%	0	-	-	-	-	NULL
PRDM16	63976	genome.wustl.edu	37	1	3348551	3348551	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_022114.3	+1	reviewed	p.G1180	1.000	78	0%	144	25%	0	-	-	-	-	NULL
ARHGEF16	27237	genome.wustl.edu	37	1	3383751	3383751	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_014448.3	+1	reviewed	p.E218D	1.000	83	0%	125	24%	2	0%	possibly_damaging(0.717)	tolerated(0.49)	neutral(0.270)	NULL
MEGF6	1953	genome.wustl.edu	37	1	3407117	3407117	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001409.3	-1	validated	p.R1534Q	0.001	64	0%	95	10.5%	10	20%	benign(0.076)	-	-	NULL
MEGF6	1953	genome.wustl.edu	37	1	3424419	3424419	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001409.3	-1	validated	p.D577N	1.000	25	0%	42	35.7%	0	-	possibly_damaging(0.922)	tolerated(0.16)	neutral(0.431)	HMMSmart_SM00180,HMMSmart_SM00181,HMMPfam_EGF_2,superfamily_EGF/Laminin
MEGF6	1953	genome.wustl.edu	37	1	3432008	3432008	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001409.3	-1	validated	p.R230W	0.974	23	0%	48	27.1%	0	-	probably_damaging(0.989)	deleterious(0)	deleterious(0.884)	HMMSmart_SM00179,HMMPfam_EGF,HMMSmart_SM00181,PatternScan_EGF_2,superfamily_EGF/Laminin
WRAP73	49856	genome.wustl.edu	37	1	3553617	3553617	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_017818.3	-1	reviewed	p.R153Q	0.993	54	0%	95	27.4%	6	0%	probably_damaging(1)	deleterious(0)	deleterious(0.945)	superfamily_C-terminal (heme d1) domain of cytochrome cd1-nitrite reductase
WRAP73	49856	genome.wustl.edu	37	1	3564031	3564031	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_017818.3	-1	reviewed	p.E55K	1.000	91	0%	195	22.6%	9	11.1%	benign(0.174)	deleterious(0.04)	neutral(0.365)	superfamily_C-terminal (heme d1) domain of cytochrome cd1-nitrite reductase
LRRC47	57470	genome.wustl.edu	37	1	3699233	3699233	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_020710.2	-1	validated	p.K469E	1.000	160	0.6%	235	23.4%	21	4.7%	probably_damaging(0.965)	tolerated(0.55)	neutral(0.414)	HMMPfam_B3_4
CEP104	9731	genome.wustl.edu	37	1	3740121	3740121	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	ENST00000438539	-1	known	p.S87L	0.000	226	0%	271	11.4%	29	13.7%	-	-	-	NULL
NPHP4	261734	genome.wustl.edu	37	1	5934601	5934601	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_015102.2	-1	reviewed	p.R1054H	1.000	18	0%	26	42.3%	4	0%	probably_damaging(0.986)	deleterious(0.01)	deleterious(0.840)	NULL
CHD5	26038	genome.wustl.edu	37	1	6170467	6170467	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_015557.1	-1	provisional	p.A1790V	1.000	177	0%	281	31%	0	-	probably_damaging(0.998)	deleterious(0)	deleterious(0.919)	HMMPfam_CHDCT2
CHD5	26038	genome.wustl.edu	37	1	6209407	6209407	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_015557.1	-1	provisional	p.E354K	1.000	97	0%	179	24%	0	-	possibly_damaging(0.666)	deleterious(0.03)	deleterious(0.601)	HMMSmart_RING,HMMSmart_PHD,superfamily_FYVE_PHD_ZnF,HMMPfam_PHD
CHD5	26038	genome.wustl.edu	37	1	6211176	6211176	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_015557.1	-1	provisional	p.A304T	0.980	112	0%	156	14.7%	0	-	possibly_damaging(0.494)	tolerated(0.1)	neutral(0.451)	NULL
GPR153	387509	genome.wustl.edu	37	1	6314855	6314855	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_207370.2	-1	validated	p.K37N	1.000	62	0%	100	18%	1	0%	probably_damaging(0.992)	deleterious(0.01)	deleterious(0.853)	HMMPfam_7tm_1,superfamily_SSF81321
ACOT7	11332	genome.wustl.edu	37	1	6324686	6324686	+	Nonsense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_181864.2	-1	reviewed	p.R372*	0.960	94	0%	142	11.3%	72	1.3%	-	-	-	NULL
TNFRSF25	8718	genome.wustl.edu	37	1	6521728	6521728	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_148965.1	-1	reviewed	p.D349	1.000	7	0.000	17	0.412	7	28.5%	-	-	-	HMMPfam_Death,HMMSmart_DEATH,superfamily_DEATH_like
PLEKHG5	57449	genome.wustl.edu	37	1	6528314	6528314	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_198681.2	-1	reviewed	p.R938H	0.990	19	0%	50	18%	12	41.6%	benign(0.003)	tolerated(0.05)	neutral(0.345)	NULL
NOL9	79707	genome.wustl.edu	37	1	6592655	6592655	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_024654.4	-1	validated	p.R468H	0.002	266	0%	150	28%	1	100%	benign(0.005)	tolerated(0.14)	neutral(0.249)	NULL
KLHL21	9903	genome.wustl.edu	37	1	6653673	6653673	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_014851.2	-1	provisional	p.V516I	1.000	62	0%	100	28%	4	0%	possibly_damaging(0.555)	tolerated(0.66)	neutral(0.192)	HMMPfam_Kelch_1,HMMSmart_SM00612,superfamily_Galactose oxidase central domain
DNAJC11	55735	genome.wustl.edu	37	1	6697321	6697321	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_018198.3	-1	validated	p.D487	0.904	193	0%	271	22.1%	13	7.6%	-	-	-	NULL
CAMTA1	23261	genome.wustl.edu	37	1	7737785	7737785	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_015215.1	+1	validated	p.S969L	1.000	138	0%	205	26.3%	0	-	probably_damaging(0.998)	deleterious(0)	deleterious(0.919)	NULL
CAMTA1	23261	genome.wustl.edu	37	1	7796454	7796454	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_015215.1	+1	validated	p.V1039	0.146	273	0.4%	171	12.3%	0	-	-	-	-	NULL
CAMTA1	23261	genome.wustl.edu	37	1	7797322	7797322	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_015215.1	+1	validated	p.A1117V	1.000	93	0%	56	10.7%	0	-	probably_damaging(1)	deleterious(0)	deleterious(0.945)	HMMPfam_Ank,superfamily_Ankyrin repeat
CAMTA1	23261	genome.wustl.edu	37	1	7798082	7798082	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_015215.1	+1	validated	p.P1241L	1.000	177	0%	92	19.6%	0	-	probably_damaging(1)	deleterious(0)	deleterious(0.945)	NULL
PER3	8863	genome.wustl.edu	37	1	7848256	7848256	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_016831.1	+1	reviewed	p.A181V	0.002	220	0%	266	29.3%	0	-	possibly_damaging(0.575)	deleterious(0.01)	deleterious(0.603)	HMMSmart_PAS
PER3	8863	genome.wustl.edu	37	1	7879402	7879402	+	Missense_Mutation	SNP	C	C	G	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_016831.1	+1	reviewed	p.T519S	0.000	250	0%	181	25.4%	0	-	benign(0)	tolerated(0.08)	neutral(0.300)	NULL
RERE	473	genome.wustl.edu	37	1	8424117	8424117	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001042681.1	-1	reviewed	p.S580L	1.000	78	0%	92	26.1%	8	0%	unknown(0)	tolerated(0.24)	-	HMMPfam_Atrophin-1
ENO1	2023	genome.wustl.edu	37	1	8931984	8931984	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001428.2	-1	reviewed	p.L49	0.920	305	0%	259	22.4%	219	20.5%	-	-	-	HMMPfam_Enolase_N,superfamily_Enolase N-terminal domain-like
SLC2A7	155184	genome.wustl.edu	37	1	9064823	9064823	+	Silent	SNP	G	G	A	rs144243716	by1000genomes	TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_207420.2	-1	provisional	p.F436	0.992	93	0%	82	17.1%	0	-	-	-	-	HMMPfam_Sugar_tr,superfamily_MFS_gen_substrate_transporter
SLC2A5	6518	genome.wustl.edu	37	1	9097814	9097814	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_003039.2	-1	validated	p.A446D	0.001	172	0%	260	24.6%	8	0%	possibly_damaging(0.867)	tolerated(0.08)	deleterious(0.637)	HMMPfam_Sugar_tr,superfamily_MFS_gen_substrate_transporter
H6PD	9563	genome.wustl.edu	37	1	9305558	9305558	+	Nonsense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_004285.3	+1	reviewed	p.E189*	0.976	49	0%	76	31.6%	3	0%	-	-	-	HMMPfam_G6PD_N,superfamily_NAD(P)-bd
H6PD	9563	genome.wustl.edu	37	1	9324265	9324265	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_004285.3	+1	reviewed	p.I571	0.012	17	0%	24	37.5%	2	0%	-	-	-	HMMPfam_Glucosamine_iso,superfamily_SSF100950
TMEM201	199953	genome.wustl.edu	37	1	9670757	9670757	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	ENST00000416541	+1	known	p.A439T	0.944	16	0%	43	25.6%	5	20%	-	-	-	NULL
TMEM201	199953	genome.wustl.edu	37	1	9671873	9671873	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001130924.2	+1	validated	p.D586N	0.997	39	0%	56	23.2%	0	-	benign(0.001)	tolerated(0.34)	neutral(0.023)	NULL
C1orf200	644997	genome.wustl.edu	37	1	9714094	9714094	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	ENST00000377320	-1	known	p.R83C	0.000	52	0%	97	11.3%	0	-	possibly_damaging(0.936)	-	-	NULL
PIK3CD	5293	genome.wustl.edu	37	1	9784471	9784471	+	Silent	SNP	A	A	G	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_005026.3	+1	validated	p.K952	0.984	218	0%	282	22.3%	1	0%	-	-	-	HMMPfam_PI3_PI4_kinase,HMMSmart_PI3Kc,superfamily_Kinase_like
LZIC	84328	genome.wustl.edu	37	1	9996585	9996585	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_032368.3	-1	provisional	p.E31D	1.000	485	0%	338	11.2%	13	15.3%	probably_damaging(1)	tolerated(0.08)	deleterious(0.800)	NULL
NMNAT1	64802	genome.wustl.edu	37	1	10042450	10042450	+	Silent	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_022787.3	+1	provisional	p.I177	0.272	270	0%	126	16.7%	1	0%	-	-	-	HMMPfam_CTP_transf_2,superfamily_Nucleotidylyl transferase
UBE4B	10277	genome.wustl.edu	37	1	10163147	10163147	+	Nonsense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001105562.1	+1	reviewed	p.E193*	1.000	155	0%	78	28.2%	0	-	-	-	-	NULL
UBE4B	10277	genome.wustl.edu	37	1	10205028	10205028	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001105562.1	+1	reviewed	p.S798R	1.000	217	0%	69	20.3%	5	0%	benign(0.007)	tolerated(0.59)	neutral(0.004)	HMMPfam_Ufd2P_core
KIF1B	23095	genome.wustl.edu	37	1	10408754	10408754	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_015074.3	+1	reviewed	p.S1258	1.000	274	0%	132	19.7%	1	0%	-	-	-	NULL
KIF1B	23095	genome.wustl.edu	37	1	10434510	10434510	+	Nonsense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_015074.3	+1	reviewed	p.E1649*	1.000	112	0%	123	13%	0	-	-	-	-	NULL
CASZ1	54897	genome.wustl.edu	37	1	10708126	10708126	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001079843.1	-1	validated	p.E1077K	1.000	30	0%	73	32.9%	4	50%	benign(0.153)	tolerated(0.06)	neutral(0.336)	NULL
CASZ1	54897	genome.wustl.edu	37	1	10709131	10709131	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001079843.1	-1	validated	p.A1052T	1.000	32	0%	75	28%	5	0%	probably_damaging(0.998)	deleterious(0)	deleterious(0.919)	PatternScan_ZINC_FINGER_C2H2_1,HMMSmart_SM00355,superfamily_C2H2 and C2HC zinc fingers
C1orf127	148345	genome.wustl.edu	37	1	11009856	11009856	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	ENST00000377008	-1	known	p.S205L	0.000	169	0%	181	26.5%	0	-	benign(0.002)	tolerated(0.26)	neutral(0.034)	NULL
MASP2	10747	genome.wustl.edu	37	1	11087089	11087089	+	Silent	SNP	C	C	G	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_006610.2	-1	reviewed	p.V638	0.974	332	0%	258	25.6%	1	0%	-	-	-	HMMPfam_Trypsin,HMMSmart_SM00020,superfamily_Trypsin-like serine proteases,PatternScan_TRYPSIN_SER
EXOSC10	5394	genome.wustl.edu	37	1	11141264	11141264	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001001998.1	-1	validated	p.R438W	1.000	117	0.9%	97	27.8%	13	0%	probably_damaging(1)	deleterious(0)	deleterious(0.945)	HMMPfam_3_5_exonuc,HMMSmart_SM00474,superfamily_Ribonuclease H-like
MTOR	2475	genome.wustl.edu	37	1	11193150	11193150	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_004958.3	-1	reviewed	p.R1784H	1.000	162	0%	199	25.1%	8	37.5%	benign(0.176)	tolerated(0.08)	neutral(0.316)	HMMPfam_FAT,superfamily_ARM-type_fold
ANGPTL7	10218	genome.wustl.edu	37	1	11254710	11254710	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_021146.2	+1	provisional	p.R289C	1.000	169	0%	39	20.5%	0	-	probably_damaging(1)	tolerated(0.13)	deleterious(0.752)	HMMPfam_Fibrinogen_C,HMMSmart_SM00186,superfamily_Fibrinogen C-terminal domain-like
MTOR	2475	genome.wustl.edu	37	1	11298481	11298481	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_004958.3	-1	reviewed	p.L660	0.402	131	0%	100	27%	0	-	-	-	-	superfamily_ARM-type_fold
MTOR	2475	genome.wustl.edu	37	1	11298590	11298590	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_004958.3	-1	reviewed	p.R624H	1.000	102	0%	70	20%	1	0%	benign(0.07)	tolerated(0.14)	neutral(0.255)	superfamily_ARM-type_fold
MTOR	2475	genome.wustl.edu	37	1	11298650	11298650	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_004958.3	-1	reviewed	p.R604H	1.000	112	0%	90	14.4%	1	0%	probably_damaging(0.988)	tolerated(0.07)	deleterious(0.756)	superfamily_ARM-type_fold
PTCHD2	57540	genome.wustl.edu	37	1	11577535	11577535	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_020780.1	+1	validated	p.D589N	1.000	195	0%	246	21.5%	0	-	probably_damaging(1)	tolerated(0.21)	deleterious(0.544)	HMMPfam_Patched,superfamily_Multidrug efflux transporter AcrB transmembrane domain
PTCHD2	57540	genome.wustl.edu	37	1	11594475	11594475	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_020780.1	+1	validated	p.S1138L	0.892	99	0%	229	27.1%	0	-	benign(0.282)	tolerated(0.08)	neutral(0.386)	HMMPfam_Patched
PTCHD2	57540	genome.wustl.edu	37	1	11596623	11596623	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	ENST00000304391	+1	known	p.D240N	1.000	38	0%	112	20.5%	0	-	unknown(0)	-	-	NULL
MTHFR	4524	genome.wustl.edu	37	1	11861448	11861448	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_005957.4	-1	reviewed	p.R82Q	0.992	71	0%	123	17.1%	1	100%	possibly_damaging(0.69)	deleterious(0)	deleterious(0.692)	HMMPfam_MTHFR,superfamily_FAD-linked oxidoreductase
MTHFR	4524	genome.wustl.edu	37	1	11863020	11863020	+	Nonsense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_005957.4	-1	reviewed	p.R52*	1.000	118	0%	150	15.3%	0	-	-	-	-	HMMPfam_MTHFR,superfamily_FAD-linked oxidoreductase
CLCN6	1185	genome.wustl.edu	37	1	11897464	11897464	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001286.2	+1	reviewed	p.R735W	1.000	98	0%	71	14.1%	3	0%	probably_damaging(0.999)	tolerated(0.06)	deleterious(0.813)	HMMPfam_CBS
CLCN6	1185	genome.wustl.edu	37	1	11897504	11897504	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001286.2	+1	reviewed	p.S748L	1.000	90	0%	77	16.9%	2	0%	benign(0.15)	deleterious(0)	neutral(0.458)	HMMPfam_CBS
NPPB	4879	genome.wustl.edu	37	1	11918443	11918443	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	ENST00000376461	-1	known	p.S73P	0.001	32	0%	52	21.2%	0	-	-	-	-	NULL
KIAA2013	90231	genome.wustl.edu	37	1	11983109	11983109	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_138346.1	-1	provisional	p.D491N	1.000	34	0%	52	13.5%	80	20%	probably_damaging(0.991)	tolerated(0.1)	deleterious(0.730)	HMMPfam_DUF2152
PLOD1	5351	genome.wustl.edu	37	1	12034841	12034841	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_000302.2	+1	reviewed	p.I720	0.997	107	0%	130	14.6%	249	2.8%	-	-	-	HMMPfam_2OG-FeII_Oxy,HMMSmart_P4Hc
MFN2	9927	genome.wustl.edu	37	1	12056250	12056250	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001127660.1	+1	reviewed	p.L117I	1.000	130	0%	131	21.4%	8	12.5%	probably_damaging(1)	deleterious(0)	deleterious(0.945)	HMMPfam_Dynamin_N,superfamily_P-loop containing nucleoside triphosphate hydrolases
MFN2	9927	genome.wustl.edu	37	1	12057436	12057436	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001127660.1	+1	reviewed	p.S186Y	1.000	172	0%	142	17.6%	6	0%	possibly_damaging(0.869)	deleterious(0.01)	deleterious(0.743)	HMMPfam_Dynamin_N,superfamily_P-loop containing nucleoside triphosphate hydrolases
MFN2	9927	genome.wustl.edu	37	1	12064140	12064140	+	Nonsense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001127660.1	+1	reviewed	p.R418*	0.589	207	0.5%	241	25.3%	8	12.5%	-	-	-	NULL
MIIP	60672	genome.wustl.edu	37	1	12089093	12089093	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_021933.2	+1	validated	p.S184Y	0.528	79	0%	132	20.5%	67	19.4%	probably_damaging(0.996)	deleterious(0.05)	deleterious(0.807)	NULL
TNFRSF8	943	genome.wustl.edu	37	1	12157258	12157258	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	ENST00000514649	+1	known	p.A55V	0.959	149	0%	77	11.7%	0	-	unknown(0)	-	-	NULL
VPS13D	55187	genome.wustl.edu	37	1	12336827	12336827	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_015378.2	+1	reviewed	p.R1061Q	0.000	212	0%	41	12.2%	0	-	benign(0)	tolerated(0.62)	neutral(0.004)	NULL
VPS13D	55187	genome.wustl.edu	37	1	12337441	12337441	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_015378.2	+1	reviewed	p.L1266I	0.995	150	0%	58	13.8%	0	-	possibly_damaging(0.856)	tolerated(0.34)	neutral(0.354)	NULL
VPS13D	55187	genome.wustl.edu	37	1	12342952	12342952	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_015378.2	+1	reviewed	p.S1598I	0.997	205	0%	79	13.9%	0	-	benign(0.116)	tolerated(0.08)	neutral(0.309)	NULL
VPS13D	55187	genome.wustl.edu	37	1	12342971	12342971	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_015378.2	+1	reviewed	p.Q1604H	0.986	196	0%	74	21.6%	1	0%	benign(0.261)	tolerated(0.11)	neutral(0.299)	NULL
VPS13D	55187	genome.wustl.edu	37	1	12402965	12402965	+	Silent	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	ENST00000011700	+1	known	p.S1736Y	1.000	219	0%	47	17%	0	-	-	-	-	NULL
VPS13D	55187	genome.wustl.edu	37	1	12405502	12405502	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_015378.2	+1	reviewed	p.S2986Y	1.000	363	0%	119	11.8%	3	0%	possibly_damaging(0.952)	deleterious(0)	deleterious(0.840)	NULL
VPS13D	55187	genome.wustl.edu	37	1	12423195	12423195	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_015378.2	+1	reviewed	p.R3447Q	0.988	518	0%	189	24.9%	2	0%	probably_damaging(0.991)	deleterious(0)	deleterious(0.889)	HMMPfam_DUF1162
AADACL3	126767	genome.wustl.edu	37	1	12785477	12785477	+	Nonsense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001103170.1	+1	validated	p.W189*	0.000	263	0%	66	13.6%	0	-	-	-	-	HMMPfam_Abhydrolase_3,superfamily_alpha/beta-Hydrolases
PRAMEF12	390999	genome.wustl.edu	37	1	12837494	12837494	+	Missense_Mutation	SNP	G	G	A	rs183210737	by1000genomes	TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001080830.1	+1	provisional	p.G402R	0.000	205	0%	94	18.1%	0	-	benign(0.017)	tolerated(0.32)	neutral(0.025)	superfamily_SSF52047
HNRNPCL1	343069	genome.wustl.edu	37	1	12907721	12907721	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001013631.1	-1	validated	p.V141A	0.999	403	0.2%	103	19.4%	0	-	benign(0.003)	deleterious(0.01)	neutral(0.406)	NULL
PRAMEF2	65122	genome.wustl.edu	37	1	12918990	12918990	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_023014.1	+1	provisional	p.E42	0.171	285	0%	75	9.3%	0	-	-	-	-	superfamily_SSF52047
PRAMEF2	65122	genome.wustl.edu	37	1	12921145	12921145	+	Silent	SNP	T	T	C	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_023014.1	+1	provisional	p.C312	0.005	316	0%	123	16.3%	0	-	-	-	-	superfamily_SSF52047
PRAMEF2	65122	genome.wustl.edu	37	1	12921439	12921439	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_023014.1	+1	provisional	p.E410	0.017	242	0%	123	21.1%	0	-	-	-	-	superfamily_SSF52047
PRAMEF7	441871	genome.wustl.edu	37	1	12979708	12979708	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001012277.1	+1	provisional	p.T300	0.000	322	0%	144	13.2%	0	-	-	-	-	superfamily_RNI-like
PRAMEF7	441871	genome.wustl.edu	37	1	12979907	12979907	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001012277.1	+1	provisional	p.A367T	0.000	120	0%	59	15.3%	0	-	benign(0.002)	deleterious(0.03)	neutral(0.364)	superfamily_RNI-like
PDPN	10630	genome.wustl.edu	37	1	13940204	13940204	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_006474.4	+1	reviewed	p.Q194H	0.000	271	0%	77	13%	34	0%	benign(0.388)	tolerated(0.09)	neutral(0.420)	HMMPfam_Podoplanin
PRDM2	7799	genome.wustl.edu	37	1	14105519	14105519	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_012231.4	+1	reviewed	p.R410Q	1.000	94	0%	41	19.5%	1	0%	unknown(0)	deleterious(0.01)	-	HMMPfam_zf-C2H2,PatternScan_ZINC_FINGER_C2H2_1,HMMSmart_SM00355,superfamily_C2H2 and C2HC zinc fingers
PRDM2	7799	genome.wustl.edu	37	1	14107463	14107463	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_012231.4	+1	reviewed	p.S1058Y	0.151	159	0%	119	31.9%	4	0%	unknown(0)	deleterious(0.01)	-	NULL
KAZ	23254	genome.wustl.edu	37	1	15392236	15392236	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_201628.2	+1	validated	p.P403	0.978	62	0%	151	11.3%	2	0%	-	-	-	NULL
FHAD1	114827	genome.wustl.edu	37	1	15598830	15598830	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_052929.1	+1	provisional	p.I35	0.369	53	0%	21	33.3%	0	-	-	-	-	HMMPfam_FHA,HMMSmart_SM00240,superfamily_SMAD/FHA domain
FHAD1	114827	genome.wustl.edu	37	1	15679460	15679460	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_052929.1	+1	provisional	p.R826C	0.452	216	0%	103	20.4%	0	-	probably_damaging(0.997)	deleterious(0.02)	deleterious(0.849)	NULL
FHAD1	114827	genome.wustl.edu	37	1	15701094	15701094	+	Nonsense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_052929.1	+1	provisional	p.R1160*	0.050	84	0%	52	36.5%	0	-	-	-	-	NULL
FHAD1	114827	genome.wustl.edu	37	1	15708575	15708575	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_052929.1	+1	provisional	p.E1336D	1.000	109	0%	61	23%	0	-	probably_damaging(0.999)	tolerated(0.45)	deleterious(0.502)	NULL
CELA2B	51032	genome.wustl.edu	37	1	15813842	15813842	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_015849.2	+1	reviewed	p.I234	0.093	109	0.9%	78	14.1%	0	-	-	-	-	HMMPfam_Trypsin,HMMSmart_Tryp_SPc,superfamily_Pept_Ser_Cys
DNAJC16	23341	genome.wustl.edu	37	1	15893705	15893705	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_015291.2	+1	provisional	p.S630	0.041	225	0%	77	28.6%	2	0%	-	-	-	NULL
PLEKHM2	23207	genome.wustl.edu	37	1	16057200	16057200	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_015164.2	+1	validated	p.T794	0.973	70	0%	97	34%	33	6%	-	-	-	HMMPfam_PH,HMMSmart_PH,superfamily_SSF50729
TMEM82	388595	genome.wustl.edu	37	1	16073439	16073439	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001013641.1	+1	provisional	p.L279M	1.000	88	0%	157	17.2%	0	-	possibly_damaging(0.726)	tolerated(0.63)	neutral(0.268)	NULL
SPEN	23013	genome.wustl.edu	37	1	16202845	16202845	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_015001.2	+1	reviewed	p.A185T	0.842	179	0%	85	27.1%	0	-	benign(0.001)	tolerated(1)	-	NULL
SPEN	23013	genome.wustl.edu	37	1	16245539	16245539	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_015001.2	+1	reviewed	p.R505H	1.000	329	0%	175	10.3%	0	-	probably_damaging(1)	tolerated(0.1)	deleterious(0.786)	HMMPfam_RRM_1,HMMSmart_RRM,superfamily_SSF54928
SPEN	23013	genome.wustl.edu	37	1	16254851	16254851	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_015001.2	+1	reviewed	p.R706C	0.991	239	0%	142	24.6%	0	-	probably_damaging(1)	deleterious(0)	deleterious(0.945)	NULL
SPEN	23013	genome.wustl.edu	37	1	16262662	16262662	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_015001.2	+1	reviewed	p.G3309	0.126	56	0%	85	23.5%	6	33.3%	-	-	-	NULL
SPEN	23013	genome.wustl.edu	37	1	16264444	16264444	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_015001.2	+1	reviewed	p.I3549	0.995	67	0%	106	32.1%	23	0%	-	-	-	HMMPfam_SPOC,superfamily_SPOC-like
SPEN	23013	genome.wustl.edu	37	1	16265284	16265284	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_015001.2	+1	reviewed	p.T3592	0.001	75	0%	100	24%	18	11.1%	-	-	-	HMMPfam_SPOC,superfamily_SPOC-like
CLCNKB	1188	genome.wustl.edu	37	1	16372154	16372154	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_000085.3	+1	reviewed	p.D68N	1.000	178	0%	241	27%	0	-	benign(0)	tolerated(0.23)	neutral(0.042)	superfamily_Clc chloride channel
CLCNKB	1188	genome.wustl.edu	37	1	16377403	16377403	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_000085.3	+1	reviewed	p.D363N	0.995	100	0%	135	14.1%	0	-	probably_damaging(0.964)	deleterious(0.02)	deleterious(0.789)	HMMPfam_Voltage_CLC,superfamily_Clc chloride channel
EPHA2	1969	genome.wustl.edu	37	1	16459817	16459817	+	Silent	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_004431.3	-1	reviewed	p.G637	1.000	146	0%	195	12.8%	13	0%	-	-	-	HMMPfam_Pkinase_Tyr,HMMSmart_TyrKc,superfamily_Kinase_like,PatternScan_PROTEIN_KINASE_ATP
EPHA2	1969	genome.wustl.edu	37	1	16460390	16460390	+	Missense_Mutation	SNP	C	C	T	rs56198600		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_004431.3	-1	reviewed	p.R568H	0.974	73	0%	128	19.5%	5	0%	possibly_damaging(0.497)	deleterious(0.01)	deleterious(0.572)	NULL
RSG1	79363	genome.wustl.edu	37	1	16560161	16560161	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_030907.3	-1	validated	p.L71M	0.975	38	0%	72	29.2%	0	-	possibly_damaging(0.918)	tolerated(0.12)	deleterious(0.629)	HMMPfam_Miro,superfamily_SSF52540
SPATA21	374955	genome.wustl.edu	37	1	16730468	16730468	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_198546.1	-1	provisional	p.S293Y	0.998	85	0%	87	32.2%	0	-	probably_damaging(0.996)	deleterious(0.01)	deleterious(0.867)	NULL
SPATA21	374955	genome.wustl.edu	37	1	16748018	16748018	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_198546.1	-1	provisional	p.P44S	0.013	151	0%	132	24.2%	0	-	benign(0.088)	deleterious(0)	neutral(0.451)	NULL
NECAP2	55707	genome.wustl.edu	37	1	16770223	16770223	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	ENST00000513161	+1	known	p.R60H	0.999	77	0%	90	15.6%	13	0%	-	-	-	HMMPfam_DUF1681
CROCC	9696	genome.wustl.edu	37	1	17292240	17292240	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_014675.3	+1	validated	p.S1476	0.996	37	0%	81	33.3%	5	20%	-	-	-	NULL
CROCC	9696	genome.wustl.edu	37	1	17297192	17297192	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_014675.3	+1	validated	p.R1905H	1.000	18	0%	53	17%	18	22.2%	probably_damaging(0.999)	tolerated(0.07)	deleterious(0.809)	NULL
ATP13A2	23400	genome.wustl.edu	37	1	17314703	17314703	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_022089.2	-1	reviewed	p.S930L	0.990	101	0%	198	24.7%	44	29.5%	probably_damaging(0.999)	deleterious(0.05)	deleterious(0.836)	superfamily_Calcium ATPase transmembrane domain M
ATP13A2	23400	genome.wustl.edu	37	1	17322793	17322793	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_022089.2	-1	reviewed	p.L437F	0.076	158	0%	229	21.4%	4	0%	benign(0)	tolerated(0.37)	neutral(0.019)	HMMPfam_E1-E2_ATPase,superfamily_Calcium ATPase transmembrane domain M
ATP13A2	23400	genome.wustl.edu	37	1	17332013	17332013	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	ENST00000510069	-1	known	p.R24W	0.029	73	0%	102	27.5%	3	0%	-	-	-	NULL
PADI2	11240	genome.wustl.edu	37	1	17410240	17410240	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_007365.2	-1	reviewed	p.R344Q	1.000	189	0.5%	83	21.7%	0	-	probably_damaging(1)	deleterious(0.04)	deleterious(0.849)	HMMPfam_PAD,superfamily_SSF55909
PADI2	11240	genome.wustl.edu	37	1	17413073	17413073	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	ENST00000444885	-1	known	p.T178M	1.000	29	0%	27	18.5%	0	-	possibly_damaging(0.669)	deleterious(0.05)	deleterious(0.583)	HMMPfam_PAD
PADI1	29943	genome.wustl.edu	37	1	17557090	17557090	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_013358.2	+1	reviewed	p.I359	0.000	152	0%	93	32.3%	0	-	-	-	-	HMMPfam_PAD,superfamily_Pentein
ARHGEF10L	55160	genome.wustl.edu	37	1	17958835	17958835	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_018125.3	+1	validated	p.R535Q	1.000	44	0%	50	28%	4	0%	probably_damaging(0.963)	deleterious(0.03)	deleterious(0.770)	superfamily_PH domain-like
ARHGEF10L	55160	genome.wustl.edu	37	1	17982581	17982581	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_018125.3	+1	validated	p.G897R	0.991	25	0%	32	28.1%	5	0%	probably_damaging(1)	deleterious(0)	deleterious(0.945)	superfamily_WD40 repeat-like
ACTL8	81569	genome.wustl.edu	37	1	18152475	18152475	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_030812.2	+1	validated	p.L188I	1.000	53	0%	55	14.5%	0	-	possibly_damaging(0.653)	deleterious(0)	deleterious(0.674)	HMMPfam_Actin,HMMSmart_ACTIN,superfamily_SSF53067
ACTL8	81569	genome.wustl.edu	37	1	18152676	18152676	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_030812.2	+1	validated	p.A255T	0.173	30	0%	29	17.2%	0	-	possibly_damaging(0.842)	deleterious(0.04)	deleterious(0.671)	HMMPfam_Actin,HMMSmart_ACTIN,superfamily_SSF53067
IGSF21	84966	genome.wustl.edu	37	1	18692002	18692002	+	Missense_Mutation	SNP	C	C	T	rs144510833		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_032880.3	+1	validated	p.R276C	1.000	71	0%	71	12.7%	5	0%	probably_damaging(0.999)	deleterious(0.02)	deleterious(0.873)	superfamily_SSF48726
IGSF21	84966	genome.wustl.edu	37	1	18703340	18703340	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_032880.3	+1	validated	p.S383N	1.000	33	0%	42	28.6%	3	0%	possibly_damaging(0.521)	tolerated(0.84)	neutral(0.176)	HMMSmart_IG,superfamily_SSF48726
TAS1R2	80834	genome.wustl.edu	37	1	19166641	19166641	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_152232.2	-1	validated	p.A658T	0.236	138	0%	115	13%	0	-	benign(0)	deleterious(0)	neutral(0.445)	HMMPfam_7tm_3
TAS1R2	80834	genome.wustl.edu	37	1	19181060	19181060	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_152232.2	-1	validated	p.E302K	1.000	46	0%	73	17.8%	0	-	probably_damaging(1)	deleterious(0)	deleterious(0.945)	HMMPfam_ANF_receptor,superfamily_SSF53822
TAS1R2	80834	genome.wustl.edu	37	1	19181304	19181304	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_152232.2	-1	validated	p.G220	1.000	25	0%	49	14.3%	0	-	-	-	-	HMMPfam_ANF_receptor,superfamily_SSF53822
ALDH4A1	8659	genome.wustl.edu	37	1	19216559	19216559	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_003748.3	-1	reviewed	p.E35K	0.999	36	0%	37	32.4%	0	-	probably_damaging(0.998)	deleterious(0)	deleterious(0.919)	superfamily_Aldehyde_DH/Histidinol_DH
UBR4	23352	genome.wustl.edu	37	1	19432300	19432300	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_020765.2	-1	validated	p.A4144T	1.000	41	0%	16	25%	10	20%	probably_damaging(0.985)	tolerated(0.31)	neutral(0.459)	superfamily_ARM repeat
UBR4	23352	genome.wustl.edu	37	1	19447691	19447691	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_020765.2	-1	validated	p.E3378G	1.000	66	0%	16	37.5%	3	0%	benign(0.007)	tolerated(0.29)	neutral(0.029)	superfamily_ARM repeat
KIAA0090	23065	genome.wustl.edu	37	1	19549148	19549148	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_015047.1	-1	predicted	p.E853K	1.000	64	0%	38	23.7%	7	14.2%	probably_damaging(1)	deleterious(0)	deleterious(0.945)	HMMPfam_DUF1620
AKR7L	246181	genome.wustl.edu	37	1	19595834	19595834	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_201252.3	-1	reviewed	p.E212D	0.988	260	0%	347	21.9%	0	-	benign(0.043)	tolerated(0.23)	neutral(0.044)	HMMPfam_Aldo_ket_red,superfamily_NAD(P)-linked oxidoreductase
AKR7A3	22977	genome.wustl.edu	37	1	19615048	19615048	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_012067.2	-1	validated	p.G52	1.000	30	0%	28	17.9%	0	-	-	-	-	HMMPfam_Aldo_ket_red,superfamily_Aldo/ket_red
PLA2G5	5322	genome.wustl.edu	37	1	20412580	20412580	+	Silent	SNP	G	G	C	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_000929.2	+1	reviewed	p.V15	0.915	115	0%	51	23.5%	1	0%	-	-	-	NULL
PLA2G5	5322	genome.wustl.edu	37	1	20412644	20412644	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_000929.2	+1	reviewed	p.A37T	0.828	129	0%	52	17.3%	1	100%	probably_damaging(0.996)	deleterious(0.02)	deleterious(0.845)	HMMPfam_Phospholip_A2_1,HMMSmart_PA2c,superfamily_PhospholipaseA2
VWA5B1	127731	genome.wustl.edu	37	1	20656853	20656853	+	Nonsense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001039500.2	+1	validated	p.R479*	1.000	60	0%	40	25%	0	-	-	-	-	HMMPfam_VWA,HMMSmart_SM00327,superfamily_vWA-like
VWA5B1	127731	genome.wustl.edu	37	1	20662808	20662808	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001039500.2	+1	validated	p.R591W	0.038	94	1.1%	89	28.1%	0	-	probably_damaging(0.999)	deleterious(0.02)	deleterious(0.873)	NULL
VWA5B1	127731	genome.wustl.edu	37	1	20669867	20669867	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001039500.2	+1	validated	p.R869	0.996	9	0.000	11	0.636	0	-	-	-	-	NULL
PINK1	65018	genome.wustl.edu	37	1	20975716	20975716	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_032409.2	+1	reviewed	p.A494T	0.998	33	0%	40	20%	91	16.4%	benign(0.134)	tolerated(0.24)	neutral(0.049)	HMMSmart_SM00219,HMMSmart_SM00220,superfamily_Protein kinase-like (PK-like),HMMPfam_Pkinase
KIF17	57576	genome.wustl.edu	37	1	21009205	21009205	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_020816.2	-1	validated	p.D802N	1.000	66	0%	93	11.8%	1	0%	probably_damaging(0.998)	tolerated(0.05)	deleterious(0.820)	NULL
KIF17	57576	genome.wustl.edu	37	1	21031125	21031125	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_020816.2	-1	validated	p.S313L	0.985	68	0%	93	16.1%	0	-	probably_damaging(1)	deleterious(0.01)	deleterious(0.905)	HMMPfam_Kinesin,HMMSmart_KISc,superfamily_SSF52540
SH2D5	400745	genome.wustl.edu	37	1	21051100	21051100	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001103161.1	-1	validated	p.R140H	1.000	34	0%	42	38.1%	0	-	probably_damaging(0.999)	deleterious(0.01)	deleterious(0.896)	superfamily_SSF50729
EIF4G3	8672	genome.wustl.edu	37	1	21188723	21188723	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_003760.3	-1	validated	p.L981	1.000	384	0%	112	8.9%	6	0%	-	-	-	HMMPfam_MIF4G,HMMSmart_SM00543,superfamily_ARM repeat
EIF4G3	8672	genome.wustl.edu	37	1	21205830	21205830	+	Nonsense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_003760.3	-1	validated	p.R814*	1.000	167	0%	65	15.4%	8	0%	-	-	-	HMMPfam_MIF4G,HMMSmart_SM00543,superfamily_ARM repeat
NBPF3	84224	genome.wustl.edu	37	1	21771694	21771694	+	Nonsense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_032264.2	+1	validated	p.E39*	0.013	104	0%	96	26%	3	33.3%	-	-	-	NULL
RAP1GAP	5909	genome.wustl.edu	37	1	21938291	21938291	+	Missense_Mutation	SNP	A	A	C	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001145658.1	-1	validated	p.F275V	1.000	225	0%	291	23.4%	10	40%	probably_damaging(0.988)	deleterious(0)	deleterious(0.882)	HMMPfam_Rap_GAP,superfamily_Rap/Ran-GAP (Pfam 02145)
HSPG2	3339	genome.wustl.edu	37	1	22155931	22155931	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_005529.5	-1	reviewed	p.R3959C	0.906	29	0%	72	22.2%	34	2.9%	-	-	-	NULL
HSPG2	3339	genome.wustl.edu	37	1	22161232	22161232	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	ENST00000374695	-1	known	p.R3554C	1.000	32	0%	53	22.6%	46	2.1%	probably_damaging(1)	deleterious(0.02)	deleterious(0.883)	HMMSmart_SM00408,HMMSmart_SM00409,superfamily_Concanavalin A-like lectins/glucanases,HMMPfam_I-set,superfamily_Immunoglobulin
HSPG2	3339	genome.wustl.edu	37	1	22172684	22172684	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	ENST00000374695	-1	known	p.R2794Q	0.762	15	0%	19	26.3%	12	16.6%	benign(0.004)	tolerated(0.59)	neutral(0.004)	HMMSmart_SM00406,HMMSmart_SM00408,HMMSmart_SM00409,superfamily_Concanavalin A-like lectins/glucanases,HMMPfam_ig,superfamily_Immunoglobulin
HSPG2	3339	genome.wustl.edu	37	1	22176914	22176914	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_005529.5	-1	reviewed	p.L2392F	0.309	32	0%	38	15.8%	2	0%	-	-	-	NULL
HSPG2	3339	genome.wustl.edu	37	1	22179511	22179511	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_005529.5	-1	reviewed	p.G2144R	0.003	50	0%	70	17.1%	1	0%	-	-	-	NULL
HSPG2	3339	genome.wustl.edu	37	1	22199482	22199482	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	ENST00000427897	-1	known	p.S153	0.012	19	0%	31	41.9%	0	-	benign(0)	tolerated(0.66)	neutral(0.003)	NULL
CELA3B	23436	genome.wustl.edu	37	1	22307592	22307592	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_007352.2	+1	reviewed	p.E97K	0.982	119	0%	81	29.6%	0	-	possibly_damaging(0.941)	tolerated(0.06)	deleterious(0.709)	HMMPfam_Trypsin,HMMSmart_SM00020,superfamily_Trypsin-like serine proteases
CDC42	998	genome.wustl.edu	37	1	22413254	22413254	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001039802.1	+1	reviewed	p.E127D	1.000	339	0%	102	25.5%	180	15.5%	benign(0)	tolerated(0.16)	neutral(0.059)	HMMSmart_SM00173,HMMSmart_SM00174,HMMSmart_SM00175,HMMPfam_Ras,superfamily_P-loop containing nucleoside triphosphate hydrolases
ZBTB40	9923	genome.wustl.edu	37	1	22832592	22832592	+	Missense_Mutation	SNP	T	T	G	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001083621.1	+1	validated	p.N406K	0.885	224	0%	48	33.3%	0	-	benign(0.001)	tolerated(0.36)	neutral(0.020)	NULL
EPHA8	2046	genome.wustl.edu	37	1	22927851	22927851	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_020526.3	+1	reviewed	p.G930S	0.002	16	0%	20	25%	0	-	possibly_damaging(0.948)	tolerated(1)	neutral(0.391)	HMMSmart_SAM,superfamily_SAM_homology
EPHA8	2046	genome.wustl.edu	37	1	22928123	22928123	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_020526.3	+1	reviewed	p.D969	0.868	23	0%	50	22%	0	-	-	-	-	HMMPfam_SAM_1,HMMSmart_SAM,superfamily_SAM_homology
C1QB	713	genome.wustl.edu	37	1	22987678	22987678	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_000491.3	+1	reviewed	p.G187	1.000	53	0%	44	27.3%	159	0%	-	-	-	HMMPfam_C1q,HMMSmart_SM00110,superfamily_TNF-like
EPHB2	2048	genome.wustl.edu	37	1	23233321	23233321	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_004442.6	+1	reviewed	p.S670	0.904	84	0%	48	14.6%	0	-	-	-	-	HMMPfam_Pkinase_Tyr,HMMSmart_TyrKc,superfamily_Kinase_like
KDM1A	23028	genome.wustl.edu	37	1	23397805	23397805	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_015013.3	+1	reviewed	p.E477K	1.000	271	0.4%	96	31.2%	25	16%	possibly_damaging(0.868)	deleterious(0.03)	deleterious(0.702)	HMMPfam_Amino_oxidase,superfamily_FAD/NAD(P)-binding domain
LUZP1	7798	genome.wustl.edu	37	1	23420549	23420549	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001142546.1	-1	reviewed	p.R69H	1.000	310	0%	121	23.1%	3	33.3%	probably_damaging(1)	deleterious(0)	deleterious(0.945)	HMMPfam_CortBP2
HTR1D	3352	genome.wustl.edu	37	1	23520289	23520289	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_000864.4	-1	validated	p.D142Y	0.996	177	0%	89	9%	1	0%	probably_damaging(0.988)	deleterious(0)	deleterious(0.882)	HMMPfam_7tm_1,superfamily_SSF81321
ZNF436	80818	genome.wustl.edu	37	1	23689412	23689412	+	Nonsense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001077195.1	-1	validated	p.R155*	0.001	201	0%	233	10.3%	4	0%	-	-	-	HMMPfam_zf-C2H2,PatternScan_ZINC_FINGER_C2H2_1,HMMSmart_ZnF_C2H2,superfamily_SSF57667
ZNF436	80818	genome.wustl.edu	37	1	23689661	23689661	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001077195.1	-1	validated	p.D72Y	1.000	399	0%	343	27.1%	1	0%	possibly_damaging(0.951)	deleterious(0.03)	deleterious(0.758)	HMMSmart_KRAB
ASAP3	55616	genome.wustl.edu	37	1	23769090	23769090	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_017707.3	-1	reviewed	p.K163N	1.000	96	0%	130	29.2%	4	25%	probably_damaging(0.999)	deleterious(0)	deleterious(0.935)	NULL
RPL11	6135	genome.wustl.edu	37	1	24022328	24022328	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_000975.2	+1	reviewed	p.R146H	1.000	213	0%	205	24.9%	3910	23.5%	benign(0.013)	tolerated(0.18)	neutral(0.057)	HMMPfam_Ribosomal_L5_C,superfamily_Ribosomal protein L5
GALE	2582	genome.wustl.edu	37	1	24123616	24123616	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_000403.3	-1	reviewed	p.R184C	1.000	108	0%	142	24.6%	59	32.2%	probably_damaging(1)	deleterious(0)	deleterious(0.945)	HMMPfam_Epimerase,superfamily_NAD(P)-binding Rossmann-fold domains
CNR2	1269	genome.wustl.edu	37	1	24201702	24201702	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001841.2	-1	reviewed	p.R136C	0.980	93	0%	110	30%	0	-	benign(0.005)	tolerated(0.27)	neutral(0.034)	HMMPfam_7tm_1,superfamily_SSF81321
CNR2	1269	genome.wustl.edu	37	1	24201930	24201930	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001841.2	-1	reviewed	p.S60P	0.953	75	0%	75	25.3%	0	-	probably_damaging(0.955)	tolerated(0.08)	deleterious(0.699)	HMMPfam_7tm_1,superfamily_SSF81321
MYOM3	127294	genome.wustl.edu	37	1	24413252	24413252	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_152372.3	-1	validated	p.F560	0.999	106	0%	104	12.5%	0	-	-	-	-	HMMPfam_fn3,HMMSmart_SM00060,superfamily_Fibronectin type III
MYOM3	127294	genome.wustl.edu	37	1	24426189	24426189	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_152372.3	-1	validated	p.L213	1.000	308	0%	290	12.8%	0	-	-	-	-	HMMSmart_SM00408,HMMSmart_SM00409,HMMPfam_I-set,superfamily_Immunoglobulin
IL22RA1	58985	genome.wustl.edu	37	1	24448194	24448194	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_021258.2	-1	reviewed	p.R276C	0.844	79	0%	70	27.1%	0	-	probably_damaging(0.994)	deleterious(0)	deleterious(0.897)	NULL
IL28RA	163702	genome.wustl.edu	37	1	24483856	24483856	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_170743.2	-1	reviewed	p.D443Y	0.006	138	0%	86	11.6%	1	0%	probably_damaging(0.998)	deleterious(0)	deleterious(0.919)	NULL
NIPAL3	57185	genome.wustl.edu	37	1	24775973	24775973	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_020448.4	+1	validated	p.R133C	1.000	91	0%	37	13.5%	0	-	possibly_damaging(0.723)	tolerated(0.11)	deleterious(0.534)	HMMPfam_DUF803
RHD	6007	genome.wustl.edu	37	1	25611072	25611072	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_016124.3	+1	reviewed	p.D53Y	0.893	128	0%	96	16.7%	0	-	probably_damaging(1)	deleterious(0)	deleterious(0.945)	HMMPfam_Ammonium_transp,superfamily_Ammonium ransporter (Pfam 00909)
RHD	6007	genome.wustl.edu	37	1	25611170	25611170	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_016124.3	+1	reviewed	p.A85	0.875	187	0%	108	22.2%	0	-	-	-	-	HMMPfam_Ammonium_transp,superfamily_Ammonium ransporter (Pfam 00909)
TMEM50A	23585	genome.wustl.edu	37	1	25669509	25669509	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_014313.2	+1	reviewed	p.D51Y	0.777	373	0%	353	21.8%	93	11.8%	benign(0.023)	deleterious(0.02)	neutral(0.384)	HMMPfam_UPF0220
TMEM57	55219	genome.wustl.edu	37	1	25783315	25783315	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_018202.4	+1	validated	p.A215	0.006	231	0%	61	26.2%	4	0%	-	-	-	HMMPfam_Macoilin
LDLRAP1	26119	genome.wustl.edu	37	1	25891690	25891690	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_015627.2	+1	reviewed	p.A258	0.207	495	0.2%	433	24.9%	1	0%	-	-	-	NULL
SEPN1	57190	genome.wustl.edu	37	1	26131711	26131711	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	ENST00000354177	+1	known	p.R127Q	0.863	87	0%	149	24.2%	4	50%	possibly_damaging(0.582)	tolerated(0.25)	neutral(0.237)	NULL
SEPN1	57190	genome.wustl.edu	37	1	26138247	26138247	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	ENST00000354177	+1	known	p.I352	0.915	75	0%	134	14.9%	10	0%	-	-	-	NULL
PDIK1L	149420	genome.wustl.edu	37	1	26448949	26448949	+	Nonsense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_152835.3	+1	validated	p.R303*	1.000	169	0%	108	25.9%	1	0%	-	-	-	HMMSmart_SM00219,HMMSmart_SM00220,superfamily_Protein kinase-like (PK-like),HMMPfam_Pkinase
CATSPER4	378807	genome.wustl.edu	37	1	26524848	26524848	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_198137.1	+1	validated	p.A250	0.979	306	0%	203	24.1%	0	-	-	-	-	HMMPfam_Ion_trans,superfamily_Voltage-gated potassium channels
CEP85	64793	genome.wustl.edu	37	1	26581768	26581768	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_022778.2	+1	provisional	p.K105	1.000	485	0%	199	21.6%	1	0%	-	-	-	NULL
AIM1L	55057	genome.wustl.edu	37	1	26654746	26654746	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001039775.2	-1	validated	p.T466I	1.000	42	0%	26	23.1%	0	-	possibly_damaging(0.852)	tolerated(0.27)	neutral(0.361)	HMMPfam_Crystall,HMMSmart_XTALbg,superfamily_G_crystallin_SF
AIM1L	55057	genome.wustl.edu	37	1	26665802	26665802	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001039775.2	-1	validated	p.S63Y	1.000	102	0%	161	13.7%	0	-	probably_damaging(1)	deleterious(0)	deleterious(0.945)	HMMPfam_Crystall,HMMSmart_XTALbg,superfamily_G_crystallin_SF
ZNF683	257101	genome.wustl.edu	37	1	26691318	26691318	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001114759.1	-1	validated	p.V240A	0.000	142	0%	168	10.7%	0	-	unknown(0)	deleterious(0)	-	NULL
ARID1A	8289	genome.wustl.edu	37	1	27057642	27057642	+	Splice_Site	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_006015.4	+1	reviewed	e3-1	1.000	303	0%	221	23.5%	2	0%	-	-	-	-
ZDHHC18	84243	genome.wustl.edu	37	1	27175204	27175204	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_032283.2	+1	validated	p.R201Q	1.000	58	0%	47	34%	2	50%	probably_damaging(1)	deleterious(0)	deleterious(0.945)	HMMPfam_zf-DHHC
ZDHHC18	84243	genome.wustl.edu	37	1	27176795	27176795	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_032283.2	+1	validated	p.R217Q	1.000	178	0.6%	111	17.1%	4	0%	possibly_damaging(0.806)	deleterious(0.02)	deleterious(0.686)	HMMPfam_zf-DHHC
ZDHHC18	84243	genome.wustl.edu	37	1	27177695	27177695	+	Silent	SNP	C	C	T	rs190356204	by1000genomes	TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_032283.2	+1	validated	p.V303	0.999	296	0%	215	23.7%	10	0%	-	-	-	NULL
FAM46B	115572	genome.wustl.edu	37	1	27333125	27333125	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_052943.3	-1	validated	p.S196	0.741	114	0%	180	20.6%	2	0%	-	-	-	HMMPfam_DUF1693
FAM46B	115572	genome.wustl.edu	37	1	27333309	27333309	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_052943.3	-1	validated	p.R135H	0.001	40	0%	72	13.9%	3	0%	benign(0)	tolerated(0.09)	neutral(0.296)	HMMPfam_DUF1693
WDTC1	23038	genome.wustl.edu	37	1	27631507	27631507	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_015023.3	+1	validated	p.I552	1.000	84	0%	60	16.7%	26	11.5%	-	-	-	HMMSmart_SM00320,superfamily_WD40 repeat-like,HMMPfam_WD40
WDTC1	23038	genome.wustl.edu	37	1	27631560	27631560	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_015023.3	+1	validated	p.N570S	1.000	72	0%	57	22.8%	28	3.5%	benign(0.4)	tolerated(0.45)	neutral(0.141)	HMMSmart_SM00320,superfamily_WD40 repeat-like,HMMPfam_WD40
SYTL1	84958	genome.wustl.edu	37	1	27676953	27676953	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_032872.1	+1	provisional	p.P316S	0.999	83	0%	143	24.5%	36	41.6%	probably_damaging(1)	deleterious(0)	deleterious(0.945)	HMMPfam_C2,HMMSmart_C2,superfamily_C2_CaLB
MAP3K6	9064	genome.wustl.edu	37	1	27683215	27683215	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_004672.3	-1	reviewed	p.P1130	0.011	108	0%	199	11.6%	17	5.8%	-	-	-	NULL
MAP3K6	9064	genome.wustl.edu	37	1	27690702	27690702	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_004672.3	-1	reviewed	p.D230Y	1.000	37	0%	68	26.5%	0	-	probably_damaging(0.961)	deleterious(0.04)	deleterious(0.753)	NULL
FCN3	8547	genome.wustl.edu	37	1	27695731	27695731	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_003665.2	-1	reviewed	p.R299Q	0.001	30	0%	42	31%	11	0%	probably_damaging(1)	deleterious(0)	deleterious(0.945)	HMMSmart_SM00186,superfamily_Fibrinogen C-terminal domain-like
GPR3	2827	genome.wustl.edu	37	1	27720449	27720449	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_005281.2	+1	provisional	p.I49	0.998	45	0%	88	23.9%	0	-	-	-	-	superfamily_SSF81321
FGR	2268	genome.wustl.edu	37	1	27941060	27941060	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001042729.1	-1	reviewed	p.N377S	1.000	70	0%	141	23.4%	3	0%	possibly_damaging(0.681)	deleterious(0.02)	deleterious(0.626)	HMMPfam_Pkinase_Tyr,HMMSmart_TyrKc,superfamily_Kinase_like
STX12	23673	genome.wustl.edu	37	1	28146164	28146164	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_177424.2	+1	validated	p.S218I	1.000	176	0%	119	30.3%	7	14.2%	probably_damaging(1)	deleterious(0)	deleterious(0.945)	HMMPfam_SNARE,HMMSmart_SM00397,PatternScan_SYNTAXIN,superfamily_t-snare proteins
SMPDL3B	27293	genome.wustl.edu	37	1	28285040	28285040	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_014474.2	+1	validated	p.P353	0.000	38	0%	70	21.4%	8	37.5%	-	-	-	NULL
DNAJC8	22826	genome.wustl.edu	37	1	28531850	28531850	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_014280.2	-1	validated	p.A161D	1.000	637	0%	179	10.1%	92	2.1%	possibly_damaging(0.546)	deleterious(0.01)	deleterious(0.591)	NULL
ATPIF1	93974	genome.wustl.edu	37	1	28564465	28564465	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_016311.3	+1	reviewed	p.I99	0.890	196	0%	218	13.3%	501	5.9%	-	-	-	NULL
SESN2	83667	genome.wustl.edu	37	1	28598805	28598805	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_031459.3	+1	reviewed	p.R122H	1.000	32	0%	31	12.9%	3	0%	probably_damaging(1)	deleterious(0)	deleterious(0.945)	HMMPfam_PA26,superfamily_SSF69118
YTHDF2	51441	genome.wustl.edu	37	1	29069167	29069167	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_016258.2	+1	reviewed	p.I129V	1.000	511	0%	498	11.2%	6	0%	benign(0.003)	tolerated(0.28)	neutral(0.032)	NULL
EPB41	2035	genome.wustl.edu	37	1	29379631	29379631	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_203343.2	+1	reviewed	p.S516L	0.820	54	3.7%	33	36.4%	3	0%	benign(0.006)	tolerated(0.26)	neutral(0.034)	NULL
TMEM200B	399474	genome.wustl.edu	37	1	29447738	29447738	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001003682.3	-1	validated	p.P201	0.069	20	0%	48	16.7%	15	0%	-	-	-	NULL
SRSF4	6429	genome.wustl.edu	37	1	29475453	29475453	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_005626.4	-1	reviewed	p.S318	0.983	242	0%	173	22.5%	53	11.3%	-	-	-	NULL
SRSF4	6429	genome.wustl.edu	37	1	29475692	29475692	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_005626.4	-1	reviewed	p.R239W	0.989	127	0%	74	20.3%	37	2.7%	unknown(0)	-	-	NULL
PTPRU	10076	genome.wustl.edu	37	1	29647332	29647332	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_005704.3	+1	reviewed	p.A1285T	0.999	36	0%	33	15.2%	4	0%	benign(0.384)	deleterious(0.04)	deleterious(0.471)	HMMPfam_Y_phosphatase,HMMSmart_SM00194,superfamily_(Phosphotyrosine protein) phosphatases II
PUM1	9698	genome.wustl.edu	37	1	31478708	31478708	+	Nonsense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001020658.1	-1	reviewed	p.G238*	1.000	78	0%	36	19.4%	8	0%	-	-	-	NULL
SERINC2	347735	genome.wustl.edu	37	1	31899593	31899593	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_178865.3	+1	validated	p.E235K	0.977	139	0%	134	12.7%	120	36.6%	probably_damaging(0.981)	deleterious(0.03)	deleterious(0.790)	HMMPfam_Serinc
ENSG00000206981	0	genome.wustl.edu	37	1	31970433	31970433	+	RNA	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	ENST00000384254	-1	novel	NULL	0.083	74	1.4%	80	21.2%	0	-	-	-	-	-
COL16A1	1307	genome.wustl.edu	37	1	32148535	32148535	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001856.3	-1	reviewed	p.P846	1.000	62	0%	102	12.7%	9	0%	-	-	-	HMMPfam_Collagen
COL16A1	1307	genome.wustl.edu	37	1	32150182	32150182	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001856.3	-1	reviewed	p.R701Q	0.943	38	0%	61	24.6%	3	0%	unknown(0)	tolerated(0.99)	-	HMMPfam_Collagen
COL16A1	1307	genome.wustl.edu	37	1	32154090	32154090	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001856.3	-1	reviewed	p.V594A	0.001	279	0%	278	23.4%	1	0%	unknown(0)	tolerated(1)	-	HMMPfam_Collagen
COL16A1	1307	genome.wustl.edu	37	1	32155397	32155397	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001856.3	-1	reviewed	p.G522E	0.980	76	0%	81	28.4%	3	0%	unknown(0)	deleterious(0)	-	NULL
COL16A1	1307	genome.wustl.edu	37	1	32157025	32157025	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001856.3	-1	reviewed	p.G464E	1.000	115	0%	179	25.1%	2	0%	unknown(0)	tolerated(0.24)	-	NULL
BAI2	576	genome.wustl.edu	37	1	32196823	32196823	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001703.2	-1	reviewed	p.E1320K	1.000	9	0.000	27	0.185	0	-	benign(0.147)	tolerated(0.61)	neutral(0.017)	NULL
BAI2	576	genome.wustl.edu	37	1	32204210	32204210	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001703.2	-1	reviewed	p.A875T	1.000	81	0%	126	22.2%	0	-	possibly_damaging(0.647)	tolerated(0.1)	deleterious(0.513)	HMMPfam_GPS,HMMSmart_SM00303
BAI2	576	genome.wustl.edu	37	1	32206054	32206054	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001703.2	-1	reviewed	p.R628Q	1.000	28	0%	54	29.6%	1	0%	probably_damaging(0.971)	deleterious(0.02)	deleterious(0.796)	NULL
SPOCD1	90853	genome.wustl.edu	37	1	32257902	32257902	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_144569.4	-1	provisional	p.A959V	0.789	32	0%	36	22.2%	7	0%	benign(0.001)	tolerated(0.61)	neutral(0.004)	HMMPfam_SPOC
KHDRBS1	10657	genome.wustl.edu	37	1	32495945	32495945	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_006559.1	+1	provisional	p.E143D	1.000	254	0.4%	107	23.4%	25	12%	benign(0.047)	tolerated(0.11)	neutral(0.275)	NULL
KHDRBS1	10657	genome.wustl.edu	37	1	32508159	32508159	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_006559.1	+1	provisional	p.S422	0.253	173	0%	45	20%	94	19.1%	-	-	-	NULL
TXLNA	200081	genome.wustl.edu	37	1	32646878	32646878	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_175852.3	+1	validated	p.R69C	0.000	34	0%	61	21.3%	4	25%	benign(0)	tolerated(0.12)	neutral(0.261)	NULL
IQCC	55721	genome.wustl.edu	37	1	32673163	32673163	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_018134.2	+1	validated	p.L294S	0.001	60	0%	91	18.7%	0	-	benign(0.102)	tolerated(0.82)	neutral(0.009)	NULL
LCK	3932	genome.wustl.edu	37	1	32740928	32740928	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001042771.1	+1	reviewed	p.G95	0.822	49	0%	110	19.1%	3	0%	-	-	-	HMMPfam_SH3_1,HMMSmart_SM00326,superfamily_SH3-domain
RBBP4	5928	genome.wustl.edu	37	1	33134712	33134712	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_005610.2	+1	reviewed	p.A247D	1.000	250	0%	128	36.7%	60	5%	possibly_damaging(0.763)	deleterious(0)	deleterious(0.728)	HMMSmart_SM00320,superfamily_WD40 repeat-like,HMMPfam_WD40
YARS	8565	genome.wustl.edu	37	1	33245793	33245793	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_003680.3	-1	reviewed	p.F409	1.000	101	0%	72	31.9%	36	33.3%	-	-	-	HMMPfam_tRNA_bind,superfamily_Nucleic acid-binding proteins
FNDC5	252995	genome.wustl.edu	37	1	33333426	33333426	+	Nonsense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_153756.2	-1	validated	p.E68*	1.000	200	0%	255	21.2%	0	-	-	-	-	NULL
AK2	204	genome.wustl.edu	37	1	33478946	33478946	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001625.2	-1	reviewed	p.R186C	1.000	369	0%	118	19.5%	195	22%	benign(0.279)	deleterious(0)	deleterious(0.475)	HMMPfam_ADK,superfamily_P-loop containing nucleoside triphosphate hydrolases
ADC	113451	genome.wustl.edu	37	1	33558905	33558905	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_052998.2	+1	validated	p.D159N	0.625	172	0%	133	22.6%	1	0%	possibly_damaging(0.88)	deleterious(0.01)	deleterious(0.749)	HMMPfam_Orn_Arg_deC_N,superfamily_PLP-binding barrel
ADC	113451	genome.wustl.edu	37	1	33558933	33558933	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_052998.2	+1	validated	p.S168I	1.000	227	0%	167	26.3%	2	0%	probably_damaging(0.998)	deleterious(0)	deleterious(0.919)	HMMPfam_Orn_Arg_deC_N,superfamily_PLP-binding barrel
ADC	113451	genome.wustl.edu	37	1	33560201	33560201	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_052998.2	+1	validated	p.A214T	1.000	78	0%	65	15.4%	2	0%	probably_damaging(0.99)	tolerated(0.48)	neutral(0.452)	HMMPfam_Orn_Arg_deC_N,superfamily_PLP-binding barrel
ADC	113451	genome.wustl.edu	37	1	33583572	33583572	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_052998.2	+1	validated	p.V367M	0.987	73	0%	41	14.6%	0	-	probably_damaging(0.96)	deleterious(0)	deleterious(0.848)	HMMPfam_Orn_DAP_Arg_deC,superfamily_Alanine racemase C-terminal domain-like
ZSCAN20	7579	genome.wustl.edu	37	1	33959907	33959907	+	Nonsense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_145238.3	+1	validated	p.E655*	0.003	234	0%	104	16.3%	1	0%	-	-	-	NULL
CSMD2	114784	genome.wustl.edu	37	1	33998708	33998708	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_052896.3	-1	validated	p.S3227	0.955	36	0%	13	46.2%	0	-	-	-	-	HMMPfam_Sushi,HMMSmart_SM00032,superfamily_Complement control module/SCR domain
CSMD2	114784	genome.wustl.edu	37	1	34015833	34015833	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_052896.3	-1	validated	p.S2810N	0.998	46	0%	23	21.7%	2	0%	benign(0.021)	tolerated(0.34)	neutral(0.024)	HMMPfam_Sushi,HMMSmart_SM00032,superfamily_Complement control module/SCR domain
CSMD2	114784	genome.wustl.edu	37	1	34052716	34052716	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_052896.3	-1	validated	p.V2305	0.054	475	0%	196	20.4%	0	-	-	-	-	HMMPfam_Sushi,HMMSmart_SM00032,superfamily_Complement control module/SCR domain
CSMD2	114784	genome.wustl.edu	37	1	34066495	34066495	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_052896.3	-1	validated	p.T2278A	0.531	224	0%	80	17.5%	0	-	benign(0.007)	tolerated(0.55)	neutral(0.007)	HMMPfam_CUB,HMMSmart_SM00042,superfamily_Spermadhesin CUB domain
CSMD2	114784	genome.wustl.edu	37	1	34076814	34076814	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_052896.3	-1	validated	p.P2017L	1.000	245	0%	103	20.4%	0	-	benign(0.327)	tolerated(0.07)	neutral(0.421)	HMMPfam_CUB,HMMSmart_SM00042,superfamily_Spermadhesin CUB domain
CSMD2	114784	genome.wustl.edu	37	1	34090754	34090754	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_052896.3	-1	validated	p.F1759	0.977	42	0%	56	25%	0	-	-	-	-	HMMPfam_Sushi,HMMSmart_SM00032,superfamily_Complement control module/SCR domain
CSMD2	114784	genome.wustl.edu	37	1	34258033	34258033	+	Missense_Mutation	SNP	A	A	C	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_052896.3	-1	validated	p.V474G	0.964	414	0%	204	9.3%	0	-	probably_damaging(0.998)	tolerated(0.09)	deleterious(0.771)	HMMPfam_CUB,HMMSmart_SM00042,superfamily_Spermadhesin CUB domain
HMGB4	127540	genome.wustl.edu	37	1	34329946	34329946	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_145205.4	+1	validated	p.I52V	0.953	216	0%	67	16.4%	0	-	possibly_damaging(0.937)	deleterious(0)	deleterious(0.828)	HMMPfam_HMG_box,HMMSmart_HMG,superfamily_HMG-box
CSMD2	114784	genome.wustl.edu	37	1	34554619	34554619	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_052896.3	-1	validated	p.S81	0.023	137	0.7%	151	27.2%	0	-	-	-	-	HMMPfam_CUB,HMMSmart_SM00042,superfamily_Spermadhesin CUB domain
C1orf94	84970	genome.wustl.edu	37	1	34643651	34643651	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001134734.1	+1	validated	p.E87D	0.992	112	0%	199	25.6%	0	-	possibly_damaging(0.915)	deleterious(0)	deleterious(0.811)	NULL
GJB5	2709	genome.wustl.edu	37	1	35223678	35223678	+	Silent	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_005268.2	+1	provisional	p.I249	1.000	179	0%	132	10.6%	6	0%	-	-	-	NULL
LOC100287174	100287174	genome.wustl.edu	37	1	35250612	35250612	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	XM_002342072.1	-1	model	p.E208K	1.000	259	0%	369	22.8%	0	-	-	-	-	NULL
C1orf212	113444	genome.wustl.edu	37	1	35321098	35321098	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_138428.5	-1	validated	p.A62T	0.000	163	0%	193	22.3%	30	6.6%	-	-	-	NULL
DLGAP3	58512	genome.wustl.edu	37	1	35365764	35365764	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001080418.1	-1	provisional	p.S406	0.616	79	0%	108	20.4%	0	-	-	-	-	NULL
ZMYM6	9204	genome.wustl.edu	37	1	35469571	35469571	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_007167.3	-1	validated	p.D664Y	0.999	334	0%	117	12.8%	3	0%	possibly_damaging(0.688)	deleterious(0.01)	deleterious(0.651)	NULL
ZMYM6	9204	genome.wustl.edu	37	1	35474483	35474483	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_007167.3	-1	validated	p.G512E	1.000	345	0%	102	28.4%	1	0%	probably_damaging(1)	deleterious(0.01)	deleterious(0.905)	HMMPfam_zf-FCS
SFPQ	6421	genome.wustl.edu	37	1	35652826	35652826	+	Silent	SNP	G	G	A	rs189040885	by1000genomes	TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	ENST00000460428	-1	known	p.R33W	0.981	339	0%	398	22.6%	278	23%	-	-	-	NULL
SFPQ	6421	genome.wustl.edu	37	1	35658444	35658444	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_005066.2	-1	validated	p.Q69H	0.986	19	0%	69	29%	1	0%	unknown(0)	tolerated(0.09)	-	NULL
ZMYM4	9202	genome.wustl.edu	37	1	35852769	35852769	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_005095.2	+1	validated	p.R668C	1.000	121	0%	43	25.6%	0	-	probably_damaging(1)	deleterious(0.02)	deleterious(0.883)	NULL
CLSPN	63967	genome.wustl.edu	37	1	36202176	36202176	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_022111.2	-1	reviewed	p.S1314Y	0.018	362	0%	136	20.6%	2	0%	probably_damaging(0.992)	deleterious(0)	deleterious(0.892)	NULL
CLSPN	63967	genome.wustl.edu	37	1	36202617	36202617	+	Silent	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_022111.2	-1	reviewed	p.L1269	0.997	211	0%	61	13.1%	1	0%	-	-	-	NULL
CLSPN	63967	genome.wustl.edu	37	1	36212491	36212491	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_022111.2	-1	reviewed	p.E910	0.998	410	0%	113	28.3%	0	-	-	-	-	NULL
CLSPN	63967	genome.wustl.edu	37	1	36215383	36215383	+	Missense_Mutation	SNP	T	T	G	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_022111.2	-1	reviewed	p.E686D	0.046	153	0%	60	16.7%	2	0%	benign(0.021)	tolerated(0.44)	neutral(0.014)	NULL
CLSPN	63967	genome.wustl.edu	37	1	36226516	36226516	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_022111.2	-1	reviewed	p.S336P	1.000	130	0%	99	25.3%	1	0%	benign(0.418)	deleterious(0)	deleterious(0.580)	NULL
CLSPN	63967	genome.wustl.edu	37	1	36228793	36228793	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_022111.2	-1	reviewed	p.A238T	0.999	777	0%	634	21.3%	0	-	possibly_damaging(0.507)	deleterious(0)	deleterious(0.614)	NULL
EIF2C1	26523	genome.wustl.edu	37	1	36354153	36354153	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_012199.2	+1	reviewed	p.D51N	1.000	101	0%	112	24.1%	1	0%	benign(0.001)	tolerated(0.2)	neutral(0.049)	superfamily_PAZ domain
EIF2C1	26523	genome.wustl.edu	37	1	36358211	36358211	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_012199.2	+1	reviewed	p.R88H	1.000	188	0.5%	127	13.4%	0	-	benign(0.176)	tolerated(0.12)	neutral(0.277)	superfamily_PAZ domain
EIF2C1	26523	genome.wustl.edu	37	1	36383221	36383221	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_012199.2	+1	reviewed	p.R686C	1.000	307	0.3%	126	27%	3	0%	probably_damaging(1)	deleterious(0)	deleterious(0.945)	HMMPfam_Piwi,superfamily_Ribonuclease H-like
COL8A2	1296	genome.wustl.edu	37	1	36563213	36563213	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_005202.2	-1	reviewed	p.Y690C	1.000	30	0%	36	25%	0	-	probably_damaging(0.998)	deleterious(0.01)	deleterious(0.880)	HMMPfam_C1q,HMMSmart_SM00110,superfamily_TNF-like
TRAPPC3	27095	genome.wustl.edu	37	1	36602863	36602863	+	Nonsense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_014408.3	-1	provisional	p.E162*	1.000	206	0%	158	30.4%	84	17.8%	-	-	-	HMMPfam_TRAPP
MAP7D1	55700	genome.wustl.edu	37	1	36636647	36636647	+	Nonsense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_018067.3	+1	provisional	p.S41*	1.000	35	0%	54	22.2%	9	0%	-	-	-	NULL
SH3D21	79729	genome.wustl.edu	37	1	36774006	36774006	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	ENST00000453908	+1	known	p.G108D	1.000	120	0%	227	17.6%	2	0%	probably_damaging(0.998)	deleterious(0)	deleterious(0.919)	HMMPfam_SH3_1,HMMSmart_SH3,superfamily_SH3
SH3D21	79729	genome.wustl.edu	37	1	36785817	36785817	+	Missense_Mutation	SNP	T	T	G	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_024676.4	+1	validated	p.F164C	0.000	17	0%	37	24.3%	6	33.3%	possibly_damaging(0.685)	deleterious(0.01)	deleterious(0.650)	NULL
OSCP1	127700	genome.wustl.edu	37	1	36883761	36883761	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_145047.4	-1	validated	p.L383	0.878	69	0%	39	12.8%	15	6.6%	-	-	-	NULL
GRIK3	2899	genome.wustl.edu	37	1	37324737	37324737	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_000831.3	-1	reviewed	p.G359D	1.000	42	0%	33	27.3%	0	-	probably_damaging(1)	deleterious(0)	deleterious(0.945)	HMMPfam_ANF_receptor,superfamily_SSF53822
GRIK3	2899	genome.wustl.edu	37	1	37324817	37324817	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_000831.3	-1	reviewed	p.I332	0.855	48	0%	35	25.7%	0	-	-	-	-	HMMPfam_ANF_receptor,superfamily_SSF53822
GRIK3	2899	genome.wustl.edu	37	1	37337839	37337839	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_000831.3	-1	reviewed	p.R228C	1.000	68	0%	40	22.5%	0	-	benign(0.017)	tolerated(0.09)	neutral(0.297)	HMMPfam_ANF_receptor,superfamily_SSF53822
SNIP1	79753	genome.wustl.edu	37	1	38005906	38005906	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_024700.2	-1	provisional	p.R260C	1.000	167	0%	167	14.4%	4	25%	probably_damaging(0.986)	deleterious(0)	deleterious(0.879)	superfamily_SMAD/FHA domain
DNALI1	7802	genome.wustl.edu	37	1	38023321	38023321	+	Nonsense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_003462.3	+1	reviewed	p.E89*	1.000	265	0%	340	26.5%	16	0%	-	-	-	HMMPfam_Ax_dynein_light
GNL2	29889	genome.wustl.edu	37	1	38032472	38032472	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_013285.2	-1	validated	p.F727S	0.929	859	0%	418	10.5%	97	13.4%	unknown(0)	tolerated(0.15)	-	NULL
GNL2	29889	genome.wustl.edu	37	1	38034645	38034645	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_013285.2	-1	validated	p.L559I	0.001	412	0.2%	224	9.8%	119	3.3%	benign(0.282)	tolerated(0.26)	neutral(0.120)	NULL
GNL2	29889	genome.wustl.edu	37	1	38056320	38056320	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_013285.2	-1	validated	p.R124Q	1.000	397	0%	372	12.4%	13	0%	probably_damaging(0.986)	tolerated(0.27)	neutral(0.468)	HMMPfam_NGP1NT
C1orf109	54955	genome.wustl.edu	37	1	38152064	38152064	+	Silent	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_017850.1	-1	predicted	p.I112	0.572	90	0%	105	24.8%	5	20%	-	-	-	NULL
CDCA8	55143	genome.wustl.edu	37	1	38166148	38166148	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_018101.2	+1	validated	p.E126D	0.980	306	0%	261	25.3%	3	33.3%	possibly_damaging(0.621)	tolerated(0.56)	neutral(0.223)	HMMPfam_Borealin
CDCA8	55143	genome.wustl.edu	37	1	38171136	38171136	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_018101.2	+1	validated	p.R203H	0.995	81	0%	43	32.6%	1	0%	probably_damaging(1)	deleterious(0)	deleterious(0.945)	HMMPfam_Borealin
EPHA10	284656	genome.wustl.edu	37	1	38186095	38186095	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001099439.1	-1	validated	p.S780	0.693	23	0%	18	38.9%	0	-	-	-	-	HMMPfam_Pkinase_Tyr,HMMSmart_SM00219,HMMSmart_SM00220,superfamily_Protein kinase-like (PK-like)
EPHA10	284656	genome.wustl.edu	37	1	38227735	38227735	+	Silent	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001099439.1	-1	validated	p.V64	1.000	18	0%	49	26.5%	0	-	-	-	-	HMMPfam_Ephrin_lbd,HMMSmart_SM00615,superfamily_Galactose-binding domain-like
YRDC	79693	genome.wustl.edu	37	1	38270037	38270037	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_024640.3	-1	validated	p.R235H	1.000	167	0.6%	254	14.2%	17	0%	probably_damaging(0.996)	deleterious(0.02)	deleterious(0.845)	HMMPfam_Sua5_yciO_yrdC,superfamily_DHBP_synth_RibB-like_a/b_dom
MTF1	4520	genome.wustl.edu	37	1	38304324	38304324	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_005955.2	-1	reviewed	p.R251Q	1.000	423	0.2%	146	27.4%	1	0%	probably_damaging(1)	deleterious(0)	deleterious(0.945)	HMMPfam_zf-C2H2,PatternScan_ZINC_FINGER_C2H2_1,HMMSmart_SM00355,superfamily_C2H2 and C2HC zinc fingers
GJA9	81025	genome.wustl.edu	37	1	39340836	39340836	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_030772.3	-1	provisional	p.N312S	0.001	263	0%	450	11.1%	1	0%	benign(0)	deleterious(0.02)	neutral(0.383)	NULL
GJA9	81025	genome.wustl.edu	37	1	39341280	39341280	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_030772.3	-1	provisional	p.R164H	0.981	308	0%	467	26.1%	0	-	probably_damaging(1)	deleterious(0)	deleterious(0.945)	NULL
RHBDL2	54933	genome.wustl.edu	37	1	39384770	39384770	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_017821.3	-1	reviewed	p.R39W	0.000	734	0%	357	24.4%	0	-	probably_damaging(0.997)	deleterious(0.02)	deleterious(0.849)	NULL
MACF1	23499	genome.wustl.edu	37	1	39765911	39765911	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_012090.3	+1	reviewed	p.K842N	1.000	441	0%	147	22.4%	0	-	possibly_damaging(0.943)	deleterious(0.01)	deleterious(0.793)	superfamily_Spectrin repeat
MACF1	23499	genome.wustl.edu	37	1	39785404	39785404	+	Nonsense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_012090.3	+1	reviewed	p.Y1343*	1.000	373	0%	63	33.3%	1	0%	-	-	-	HMMSmart_SM00150,superfamily_Spectrin repeat
MACF1	23499	genome.wustl.edu	37	1	39812735	39812735	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_033044.2	+1	reviewed	p.Q1996H	1.000	183	0%	69	11.6%	0	-	benign(0.023)	-	-	HMMPfam_Spectrin,HMMSmart_SPEC,superfamily_Spectrin
KIAA0754	643314	genome.wustl.edu	37	1	39878353	39878353	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_015038.1	+1	predicted	p.L806I	0.023	155	0%	268	12.3%	0	-	unknown(0)	deleterious(0)	-	NULL
KIAA0754	643314	genome.wustl.edu	37	1	39879774	39879774	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_015038.1	+1	predicted	p.E1279	0.006	22	0%	62	14.5%	2	0%	-	-	-	NULL
MACF1	23499	genome.wustl.edu	37	1	39909145	39909145	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_033044.2	+1	reviewed	p.D4887Y	1.000	275	0%	80	13.8%	8	0%	probably_damaging(0.957)	deleterious(0)	deleterious(0.845)	HMMPfam_Spectrin,HMMSmart_SPEC,superfamily_Spectrin
MACF1	23499	genome.wustl.edu	37	1	39926452	39926452	+	Nonsense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	ENST00000372925	+1	known	p.W4114*	1.000	263	0%	64	14.1%	40	7.5%	probably_damaging(1)	deleterious(0)	deleterious(0.945)	HMMSmart_SM00054,HMMPfam_efhand,superfamily_EF-hand
BMP8A	353500	genome.wustl.edu	37	1	39991342	39991342	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_181809.3	+1	validated	p.A361T	0.000	80	0%	85	15.3%	1	0%	benign(0.001)	tolerated(0.48)	neutral(0.011)	HMMPfam_TGF_beta,HMMSmart_TGFB,superfamily_SSF57501
PABPC4	8761	genome.wustl.edu	37	1	40030366	40030366	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001135653.1	-1	reviewed	p.R442I	1.000	224	0%	169	25.4%	125	8.8%	benign(0.001)	tolerated(0.07)	neutral(0.319)	NULL
HEYL	26508	genome.wustl.edu	37	1	40092406	40092406	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_014571.3	-1	reviewed	p.P254S	0.998	19	0%	34	29.4%	4	0%	benign(0.141)	tolerated(0.69)	neutral(0.014)	NULL
HEYL	26508	genome.wustl.edu	37	1	40095902	40095902	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_014571.3	-1	reviewed	p.T104A	0.994	167	0%	262	26.3%	1	0%	benign(0)	tolerated(0.7)	neutral(0.002)	HMMSmart_HLH,superfamily_HLH_basic
NT5C1A	84618	genome.wustl.edu	37	1	40126808	40126808	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_032526.1	-1	provisional	p.H228	0.978	53	0%	72	25%	0	-	-	-	-	HMMPfam_5-nucleotidase
NT5C1A	84618	genome.wustl.edu	37	1	40131263	40131263	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_032526.1	-1	provisional	p.F121	0.456	105	0%	148	10.8%	0	-	-	-	-	HMMPfam_5-nucleotidase
HPCAL4	51440	genome.wustl.edu	37	1	40148354	40148354	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_016257.2	-1	reviewed	p.G144R	1.000	120	0%	229	15.7%	0	-	probably_damaging(1)	deleterious(0)	deleterious(0.945)	superfamily_EF-hand
PPIE	10450	genome.wustl.edu	37	1	40208895	40208895	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_006112.2	+1	reviewed	p.S70Y	1.000	455	0%	308	26.6%	22	18.1%	probably_damaging(0.998)	deleterious(0)	deleterious(0.919)	HMMPfam_RRM_1,HMMSmart_SM00360,superfamily_RNA-binding domain RBD
MFSD2A	84879	genome.wustl.edu	37	1	40434031	40434031	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001136493.1	+1	validated	p.D425N	1.000	284	0%	271	26.9%	31	3.2%	possibly_damaging(0.838)	tolerated(0.14)	deleterious(0.570)	HMMPfam_MFS_1,superfamily_MFS general substrate transporter
MFSD2A	84879	genome.wustl.edu	37	1	40434383	40434383	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001136493.1	+1	validated	p.R512W	1.000	94	0%	119	30.3%	21	28.5%	probably_damaging(1)	deleterious(0)	deleterious(0.945)	superfamily_MFS general substrate transporter
PPT1	5538	genome.wustl.edu	37	1	40555167	40555167	+	Nonsense_Mutation	SNP	G	G	A	rs137852700	byCluster;byFrequency	TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_000310.3	-1	reviewed	p.R151*	1.000	168	0.6%	153	30.7%	7	0%	-	-	-	HMMPfam_Palm_thioest,superfamily_alpha/beta-Hydrolases
RLF	6018	genome.wustl.edu	37	1	40703273	40703273	+	Missense_Mutation	SNP	A	A	C	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_012421.3	+1	validated	p.N967H	1.000	210	0%	63	20.6%	1	0%	probably_damaging(0.99)	tolerated(0.17)	deleterious(0.500)	HMMPfam_zf-C2H2,PatternScan_ZINC_FINGER_C2H2_1,HMMSmart_ZnF_C2H2
COL9A2	1298	genome.wustl.edu	37	1	40773902	40773902	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001852.3	-1	reviewed	p.R288C	0.036	90	0%	152	26.3%	7	0%	unknown(0)	deleterious(0)	-	HMMPfam_Collagen
COL9A2	1298	genome.wustl.edu	37	1	40777361	40777361	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	ENST00000417105	-1	known	p.G137R	0.993	79	0%	112	21.4%	3	33.3%	-	-	-	HMMPfam_Collagen
ZNF643	65243	genome.wustl.edu	37	1	40928223	40928223	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	ENST00000411995	+1	known	p.S162F	0.029	203	0%	127	26%	2	0%	-	-	-	NULL
RIMS3	9783	genome.wustl.edu	37	1	41092314	41092314	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_014747.2	-1	validated	p.A268T	0.004	107	0%	85	28.2%	0	-	benign(0)	tolerated(0.46)	neutral(0.012)	HMMSmart_C2,superfamily_C2_CaLB
MIR30E	407034	genome.wustl.edu	37	1	41220053	41220053	+	RNA	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	ENST00000362104	+1	known	NULL	1.000	134	0%	34	23.5%	0	-	-	-	-	-
KCNQ4	9132	genome.wustl.edu	37	1	41304029	41304029	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_004700.2	+1	reviewed	p.S641L	1.000	35	0%	58	25.9%	1	0%	probably_damaging(0.998)	tolerated(0.1)	deleterious(0.761)	HMMPfam_KCNQ_channel
HIVEP3	59269	genome.wustl.edu	37	1	41990469	41990469	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_024503.3	-1	validated	p.R1774C	1.000	243	0%	401	13.7%	1	0%	probably_damaging(1)	deleterious(0)	deleterious(0.945)	HMMPfam_zf-C2H2,PatternScan_ZINC_FINGER_C2H2_1,HMMSmart_SM00355,superfamily_C2H2 and C2HC zinc fingers
HIVEP3	59269	genome.wustl.edu	37	1	42046613	42046613	+	Missense_Mutation	SNP	G	G	A	rs12132697	byCluster;byFrequency;by1000genomes	TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_024503.3	-1	validated	p.R1286W	0.425	94	0%	74	21.6%	1	0%	probably_damaging(0.968)	deleterious(0.02)	deleterious(0.793)	NULL
GUCA2A	2980	genome.wustl.edu	37	1	42628634	42628634	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_033553.2	-1	validated	p.I97	0.958	60	0%	61	9.8%	0	-	-	-	-	HMMPfam_Guanylin,superfamily_Proguanylin
RIMKLA	284716	genome.wustl.edu	37	1	42870257	42870257	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_173642.3	+1	validated	p.R157Q	1.000	65	1.5%	26	34.6%	0	-	probably_damaging(0.965)	tolerated(0.17)	neutral(0.466)	HMMPfam_RimK,superfamily_SSF56059
ZMYND12	84217	genome.wustl.edu	37	1	42905594	42905594	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_032257.4	-1	validated	p.R176Q	1.000	344	0%	121	10.7%	2	0%	probably_damaging(1)	tolerated(0.11)	deleterious(0.772)	superfamily_TPR-like
ZMYND12	84217	genome.wustl.edu	37	1	42914292	42914292	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_032257.4	-1	validated	p.F90L	0.998	103	1%	88	29.5%	1	0%	benign(0)	tolerated(1)	-	superfamily_TPR-like
PPCS	79717	genome.wustl.edu	37	1	42923045	42923045	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	ENST00000372560	+1	known	p.E212D	0.995	186	0%	324	24.7%	4	25%	benign(0.003)	deleterious(0)	neutral(0.445)	HMMPfam_DFP,superfamily_DNA/pantothenate-metab_flavo_C
CCDC30	728621	genome.wustl.edu	37	1	43108259	43108259	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001080850.2	+1	validated	p.T585M	0.000	84	0%	33	21.2%	1	0%	benign(0.015)	deleterious(0.02)	neutral(0.384)	NULL
PPIH	10465	genome.wustl.edu	37	1	43132228	43132228	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_006347.3	+1	reviewed	p.I145	0.994	552	0%	310	24.2%	93	33.3%	-	-	-	HMMPfam_Pro_isomerase,superfamily_Cyclophilin-like
PPIH	10465	genome.wustl.edu	37	1	43133071	43133071	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_006347.3	+1	reviewed	p.S172L	1.000	480	0%	216	22.7%	110	34.5%	benign(0.009)	deleterious(0.02)	neutral(0.384)	HMMPfam_Pro_isomerase,superfamily_Cyclophilin-like
YBX1	4904	genome.wustl.edu	37	1	43166559	43166559	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_004559.3	+1	validated	p.R283H	1.000	107	0%	50	10%	809	2.2%	benign(0.015)	deleterious(0.01)	neutral(0.406)	NULL
C1orf50	79078	genome.wustl.edu	37	1	43233229	43233229	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_024097.2	+1	predicted	p.S43	1.000	6	0.000	20	0.300	4	25%	-	-	-	HMMPfam_DUF2452
ERMAP	114625	genome.wustl.edu	37	1	43300814	43300814	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001017922.1	+1	reviewed	p.R180K	0.402	257	0%	162	25.3%	2	0%	benign(0.004)	tolerated(0.58)	neutral(0.005)	NULL
ZNF691	51058	genome.wustl.edu	37	1	43317463	43317463	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_015911.2	+1	provisional	p.Q278H	0.926	30	0%	42	23.8%	16	6.2%	possibly_damaging(0.92)	deleterious(0)	deleterious(0.816)	superfamily_SSF57667
SLC2A1	6513	genome.wustl.edu	37	1	43396734	43396734	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_006516.2	-1	reviewed	p.F86	0.957	132	0%	173	24.9%	24	16.6%	-	-	-	HMMPfam_Sugar_tr,superfamily_MFS_gen_substrate_transporter
FAM183A	440585	genome.wustl.edu	37	1	43613723	43613723	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001101376.2	+1	validated	p.Y34C	1.000	101	0%	158	13.3%	3	0%	possibly_damaging(0.862)	deleterious(0.01)	deleterious(0.739)	NULL
FAM183A	440585	genome.wustl.edu	37	1	43621898	43621898	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001101376.2	+1	validated	p.R107C	0.608	158	0%	130	24.6%	2	0%	probably_damaging(0.983)	deleterious(0.01)	deleterious(0.835)	NULL
WDR65	149465	genome.wustl.edu	37	1	43649453	43649453	+	Silent	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_152498.3	+1	validated	p.L222	1.000	189	0%	83	28.9%	0	-	-	-	-	superfamily_WD40_like
WDR65	149465	genome.wustl.edu	37	1	43652429	43652429	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_152498.3	+1	validated	p.V341I	0.000	89	0%	36	25%	0	-	benign(0)	tolerated(1)	-	HMMSmart_WD40,superfamily_WD40_like
WDR65	149465	genome.wustl.edu	37	1	43675696	43675696	+	Missense_Mutation	SNP	T	T	G	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_152498.3	+1	validated	p.L680V	0.000	725	0%	262	26%	0	-	unknown(0)	tolerated(0.22)	-	NULL
MPL	4352	genome.wustl.edu	37	1	43805199	43805199	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_005373.2	+1	reviewed	p.P217S	0.078	52	0%	38	26.3%	0	-	benign(0.001)	tolerated(0.77)	neutral(0.001)	HMMPfam_fn3,HMMSmart_SM00060,superfamily_Fibronectin type III
CDC20	991	genome.wustl.edu	37	1	43826201	43826201	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001255.2	+1	reviewed	p.R262Q	1.000	242	0%	343	22.7%	18	16.6%	probably_damaging(1)	deleterious(0)	deleterious(0.945)	HMMSmart_WD40,superfamily_WD40_like,HMMPfam_WD40
MED8	112950	genome.wustl.edu	37	1	43853258	43853258	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_052877.3	-1	reviewed	p.V62	1.000	400	0%	473	10.1%	14	7.1%	-	-	-	NULL
SZT2	23334	genome.wustl.edu	37	1	43895449	43895449	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_015284.2	+1	predicted	p.E515D	1.000	142	0%	79	16.5%	0	-	possibly_damaging(0.787)	tolerated(0.25)	neutral(0.331)	NULL
PTPRF	5792	genome.wustl.edu	37	1	44069407	44069407	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_002840.3	+1	reviewed	p.E862K	1.000	35	0%	44	15.9%	5	0%	benign(0.406)	tolerated(0.36)	neutral(0.150)	HMMPfam_fn3,HMMSmart_SM00060,superfamily_Fibronectin type III
KDM4A	9682	genome.wustl.edu	37	1	44169919	44169919	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_014663.2	+1	reviewed	p.R1025C	1.000	351	0%	461	26.7%	22	9%	probably_damaging(1)	deleterious(0)	deleterious(0.945)	NULL
ST3GAL3	6487	genome.wustl.edu	37	1	44290411	44290411	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_174963.2	+1	reviewed	p.R88K	0.003	194	0%	55	14.5%	0	-	benign(0.019)	tolerated(0.91)	neutral(0.001)	NULL
ARTN	9048	genome.wustl.edu	37	1	44401668	44401668	+	Silent	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_057160.2	+1	reviewed	p.I5	0.001	78	0%	116	20.7%	1	0%	-	-	-	NULL
IPO13	9670	genome.wustl.edu	37	1	44415368	44415368	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_014652.3	+1	reviewed	p.R122W	1.000	95	0%	125	27.2%	3	0%	probably_damaging(1)	deleterious(0)	deleterious(0.945)	HMMPfam_Xpo1,superfamily_ARM-type_fold
IPO13	9670	genome.wustl.edu	37	1	44424529	44424529	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_014652.3	+1	reviewed	p.R666W	1.000	68	0%	62	22.6%	10	0%	probably_damaging(0.967)	deleterious(0.01)	deleterious(0.815)	superfamily_ARM-type_fold
DPH2	1802	genome.wustl.edu	37	1	44436751	44436751	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001384.4	+1	reviewed	p.R125H	0.986	87	0%	129	19.4%	4	25%	benign(0.247)	tolerated(0.09)	neutral(0.322)	HMMPfam_Diphthamide_syn
ATP6V0B	533	genome.wustl.edu	37	1	44442813	44442813	+	Silent	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_004047.3	+1	reviewed	p.L172	1.000	97	0%	203	24.6%	245	20%	-	-	-	HMMPfam_ATP-synt_C,superfamily_F1F0 ATP synthase subunit C
SLC6A9	6536	genome.wustl.edu	37	1	44466533	44466533	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_201649.2	-1	validated	p.R554Q	0.873	96	0%	125	28%	1	0%	benign(0.027)	tolerated(1)	neutral(0.002)	HMMPfam_SNF
SLC6A9	6536	genome.wustl.edu	37	1	44467176	44467176	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_201649.2	-1	validated	p.H435	1.000	102	0%	129	27.9%	3	0%	-	-	-	HMMPfam_SNF
SLC6A9	6536	genome.wustl.edu	37	1	44467291	44467291	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_201649.2	-1	validated	p.V397A	1.000	68	0%	96	28.1%	3	0%	benign(0.065)	deleterious(0.02)	neutral(0.388)	HMMPfam_SNF
DMAP1	55929	genome.wustl.edu	37	1	44684414	44684414	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001034023.1	+1	reviewed	p.R236Q	1.000	75	0%	128	14.1%	44	11.3%	probably_damaging(1)	deleterious(0)	deleterious(0.945)	NULL
ERI3	79033	genome.wustl.edu	37	1	44785408	44785408	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_024066.1	-1	validated	p.I166	0.354	275	0.4%	180	27.2%	20	20%	-	-	-	HMMSmart_SM00479,superfamily_Ribonuclease H-like,HMMPfam_Exonuc_X-T
RNF220	55182	genome.wustl.edu	37	1	45110737	45110737	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_018150.2	+1	validated	p.R432W	1.000	135	0%	303	30.7%	23	13%	probably_damaging(1)	deleterious(0)	deleterious(0.945)	NULL
TMEM53	79639	genome.wustl.edu	37	1	45120404	45120404	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_024587.2	-1	provisional	p.E221K	0.653	80	0%	75	24%	17	41.1%	benign(0)	tolerated(1)	-	HMMPfam_DUF829,superfamily_alpha/beta-Hydrolases
KIF2C	11004	genome.wustl.edu	37	1	45218893	45218893	+	Nonsense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_006845.3	+1	validated	p.R177*	0.978	227	0%	104	21.2%	1	0%	-	-	-	NULL
KIF2C	11004	genome.wustl.edu	37	1	45221603	45221603	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_006845.3	+1	validated	p.I254	0.007	217	0%	115	15.7%	1	0%	-	-	-	superfamily_P-loop containing nucleoside triphosphate hydrolases
BEST4	266675	genome.wustl.edu	37	1	45252341	45252341	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_153274.2	-1	reviewed	p.R92H	1.000	52	0%	96	10.4%	0	-	probably_damaging(1)	deleterious(0)	deleterious(0.945)	HMMPfam_Bestrophin
PLK3	1263	genome.wustl.edu	37	1	45267358	45267358	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_004073.2	+1	validated	p.R167Q	0.939	59	0%	145	24.8%	11	0%	probably_damaging(0.999)	deleterious(0.02)	deleterious(0.873)	HMMSmart_SM00219,HMMSmart_SM00220,superfamily_Protein kinase-like (PK-like),HMMPfam_Pkinase
BTBD19	149478	genome.wustl.edu	37	1	45274551	45274551	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001136537.1	+1	provisional	p.R20Q	0.991	156	0%	231	11.3%	2	0%	possibly_damaging(0.676)	tolerated(0.44)	neutral(0.253)	superfamily_POZ domain,HMMPfam_BTB
PTCH2	8643	genome.wustl.edu	37	1	45294279	45294279	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_003738.4	-1	reviewed	p.R497C	0.992	57	0%	59	22%	2	0%	probably_damaging(0.996)	deleterious(0)	deleterious(0.906)	HMMPfam_Patched,superfamily_Multidrug efflux transporter AcrB transmembrane domain
PTCH2	8643	genome.wustl.edu	37	1	45294720	45294720	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_003738.4	-1	reviewed	p.I466	0.915	34	0%	34	11.8%	0	-	-	-	-	HMMPfam_Patched,superfamily_Multidrug efflux transporter AcrB transmembrane domain
PTCH2	8643	genome.wustl.edu	37	1	45295372	45295372	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_003738.4	-1	reviewed	p.R333W	1.000	77	0%	99	22.2%	0	-	probably_damaging(0.998)	deleterious(0.04)	deleterious(0.823)	HMMPfam_Patched
EIF2B3	8891	genome.wustl.edu	37	1	45323387	45323387	+	Missense_Mutation	SNP	A	A	C	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_020365.3	-1	reviewed	p.I432S	1.000	424	0.2%	196	15.3%	48	31.2%	possibly_damaging(0.785)	deleterious(0)	deleterious(0.738)	superfamily_Trimeric LpxA-like enzymes
HECTD3	79654	genome.wustl.edu	37	1	45474272	45474272	+	Nonsense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_024602.5	-1	validated	p.R392*	1.000	194	0%	269	14.5%	9	0%	-	-	-	HMMPfam_APC10
HECTD3	79654	genome.wustl.edu	37	1	45476234	45476234	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_024602.5	-1	validated	p.Y172H	1.000	28	0%	47	23.4%	3	0%	benign(0.001)	tolerated(0.59)	neutral(0.004)	superfamily_Galactose-binding domain-like
ZSWIM5	57643	genome.wustl.edu	37	1	45553826	45553826	+	Nonsense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_020883.1	-1	validated	p.R227*	1.000	162	0%	96	19.8%	0	-	-	-	-	HMMPfam_SWIM
MUTYH	4595	genome.wustl.edu	37	1	45797166	45797166	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001128425.1	-1	reviewed	p.R417C	0.001	37	0%	48	20.8%	39	20.5%	benign(0.018)	deleterious(0.04)	neutral(0.349)	HMMPfam_NUDIX,superfamily_Nudix
AKR1A1	10327	genome.wustl.edu	37	1	46034294	46034294	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_006066.2	+1	reviewed	p.E230	1.000	113	0%	68	25%	196	30.6%	-	-	-	HMMPfam_Aldo_ket_red,superfamily_NAD(P)-linked oxidoreductase
CCDC17	149483	genome.wustl.edu	37	1	46086045	46086045	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001114938.1	-1	provisional	p.P559T	0.987	80	0%	89	44.9%	4	0%	probably_damaging(0.999)	-	-	NULL
MAST2	23139	genome.wustl.edu	37	1	46290203	46290203	+	Silent	SNP	T	T	C	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_015112.2	+1	validated	p.S92	1.000	290	0%	60	10%	2	0%	-	-	-	NULL
MAST2	23139	genome.wustl.edu	37	1	46494445	46494445	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_015112.2	+1	validated	p.C686	1.000	166	1.2%	150	20%	10	30%	-	-	-	HMMSmart_SM00219,HMMSmart_SM00220,superfamily_Protein kinase-like (PK-like),HMMPfam_Pkinase
TSPAN1	10103	genome.wustl.edu	37	1	46650553	46650553	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_005727.3	+1	reviewed	p.G146W	0.486	197	0%	133	23.3%	39	33.3%	possibly_damaging(0.859)	deleterious(0.02)	deleterious(0.715)	superfamily_Tetraspanin,HMMPfam_Tetraspannin
POMGNT1	55624	genome.wustl.edu	37	1	46657800	46657800	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_017739.3	-1	reviewed	p.I503	0.938	72	0%	101	13.9%	16	50%	-	-	-	superfamily_Nucleotide-diphospho-sugar transferases
POMGNT1	55624	genome.wustl.edu	37	1	46658601	46658601	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_017739.3	-1	reviewed	p.E394D	1.000	271	0%	323	25.7%	14	21.4%	possibly_damaging(0.882)	tolerated(0.46)	neutral(0.356)	HMMPfam_GNT-I,superfamily_Nucleotide-diphospho-sugar transferases
POMGNT1	55624	genome.wustl.edu	37	1	46661505	46661505	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_017739.3	-1	reviewed	p.R171Q	1.000	91	0%	139	27.3%	6	50%	probably_damaging(1)	deleterious(0.01)	deleterious(0.905)	NULL
RAD54L	8438	genome.wustl.edu	37	1	46725745	46725745	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001142548.1	+1	reviewed	p.S127	0.743	139	0%	69	14.5%	0	-	-	-	-	NULL
LRRC41	10489	genome.wustl.edu	37	1	46745901	46745901	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_006369.4	-1	validated	p.S661	0.387	176	0%	128	18%	52	17.3%	-	-	-	superfamily_RNI-like
FAAH	2166	genome.wustl.edu	37	1	46874155	46874155	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001441.2	+1	reviewed	p.R326C	1.000	167	0.6%	149	28.2%	12	58.3%	probably_damaging(1)	deleterious(0)	deleterious(0.945)	HMMPfam_Amidase,superfamily_Amidase_sig_enz
MKNK1	8569	genome.wustl.edu	37	1	47025946	47025946	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_003684.4	-1	validated	p.A378T	1.000	304	0%	259	14.3%	5	0%	possibly_damaging(0.93)	tolerated(0.18)	neutral(0.432)	superfamily_Protein kinase-like (PK-like)
MKNK1	8569	genome.wustl.edu	37	1	47042321	47042321	+	Missense_Mutation	SNP	G	G	A	rs193272515	by1000genomes	TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	ENST00000342571	-1	known	p.S10L	0.174	279	0%	120	11.7%	3	0%	-	-	-	NULL
MOB3C	148932	genome.wustl.edu	37	1	47078613	47078613	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_145279.4	-1	reviewed	p.G179	0.997	38	0%	68	19.1%	1	0%	-	-	-	HMMPfam_Mob1_phocein,superfamily_Mob1/phocein
MOB3C	148932	genome.wustl.edu	37	1	47080733	47080733	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_145279.4	-1	reviewed	p.L6I	0.010	180	0%	287	24.4%	0	-	benign(0.002)	-	-	NULL
CYP4A11	1579	genome.wustl.edu	37	1	47398711	47398711	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_000778.3	-1	reviewed	p.V411I	0.410	456	0%	162	22.2%	0	-	benign(0.016)	tolerated(0.4)	neutral(0.017)	HMMPfam_p450,superfamily_Cytochrome P450
CYP4A11	1579	genome.wustl.edu	37	1	47400001	47400001	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_000778.3	-1	reviewed	p.R312H	0.626	131	0%	56	25%	0	-	probably_damaging(1)	deleterious(0.03)	deleterious(0.865)	HMMPfam_p450,superfamily_Cytochrome P450
CYP4Z1	199974	genome.wustl.edu	37	1	47548050	47548050	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_178134.2	+1	reviewed	p.R137C	0.958	213	0%	42	28.6%	0	-	probably_damaging(1)	deleterious(0)	deleterious(0.945)	HMMPfam_p450,superfamily_Cytochrome_P450
CYP4Z1	199974	genome.wustl.edu	37	1	47550418	47550418	+	Splice_Site	SNP	T	T	C	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_178134.2	+1	reviewed	e5+2	0.997	328	0%	61	14.8%	0	-	-	-	-	-
STIL	6491	genome.wustl.edu	37	1	47735312	47735312	+	Silent	SNP	T	T	C	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	ENST00000436811	-1	known	p.I210V	0.197	379	0%	105	24.8%	0	-	-	-	-	NULL
STIL	6491	genome.wustl.edu	37	1	47767905	47767905	+	Splice_Site	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001048166.1	-1	reviewed	e3+1	1.000	321	0.3%	169	23.7%	0	-	-	-	-	-
STIL	6491	genome.wustl.edu	37	1	47767972	47767972	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001048166.1	-1	reviewed	p.R67C	1.000	453	0%	201	13.4%	1	0%	probably_damaging(1)	deleterious(0)	deleterious(0.945)	NULL
ELAVL4	1996	genome.wustl.edu	37	1	50659482	50659482	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001144775.1	+1	validated	p.L151F	1.000	250	0%	50	24%	0	-	probably_damaging(0.999)	deleterious(0)	deleterious(0.935)	HMMPfam_RRM_1,HMMSmart_RRM,superfamily_SSF54928
FAF1	11124	genome.wustl.edu	37	1	51210370	51210370	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_007051.2	-1	reviewed	p.D149Y	1.000	485	0%	116	19%	12	16.6%	benign(0.003)	deleterious(0.04)	neutral(0.349)	superfamily_Ubiquitin-like
EPS15	2060	genome.wustl.edu	37	1	51860060	51860060	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001981.2	-1	reviewed	p.S704	0.936	237	0%	76	28.9%	13	15.3%	-	-	-	NULL
EPS15	2060	genome.wustl.edu	37	1	51864730	51864730	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001981.2	-1	reviewed	p.A676T	0.995	288	0.3%	83	30.1%	3	0%	unknown(0)	tolerated(0.16)	-	NULL
EPS15	2060	genome.wustl.edu	37	1	51864819	51864819	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001981.2	-1	reviewed	p.P646H	1.000	232	0%	96	11.5%	5	0%	unknown(0)	deleterious(0)	-	NULL
OSBPL9	114883	genome.wustl.edu	37	1	52226380	52226380	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_148909.1	+1	reviewed	p.D211Y	1.000	342	0%	103	21.4%	11	27.2%	probably_damaging(1)	deleterious(0.02)	deleterious(0.883)	NULL
OSBPL9	114883	genome.wustl.edu	37	1	52250249	52250249	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	ENST00000447887	+1	known	p.D625N	1.000	275	0%	70	22.9%	35	5.7%	-	-	-	HMMPfam_Oxysterol_BP
NRD1	4898	genome.wustl.edu	37	1	52283787	52283787	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_002525.2	-1	validated	p.H506N	1.000	496	0.2%	87	21.8%	10	10%	benign(0.176)	tolerated(0.35)	neutral(0.037)	HMMPfam_Peptidase_M16_C
NRD1	4898	genome.wustl.edu	37	1	52301807	52301807	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_002525.2	-1	validated	p.E304	1.000	208	0%	68	25%	12	8.3%	-	-	-	PatternScan_INSULINASE,superfamily_Metalloenz_metal-bd,HMMPfam_Peptidase_M16
TXNDC12	51060	genome.wustl.edu	37	1	52489169	52489169	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_015913.2	-1	provisional	p.E145K	1.000	482	0%	305	23.3%	23	4.3%	benign(0.014)	tolerated(0.46)	neutral(0.013)	superfamily_Thioredoxin-like
ZFYVE9	9372	genome.wustl.edu	37	1	52729497	52729497	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_004799.2	+1	reviewed	p.R744I	1.000	201	0%	69	36.2%	1	0%	benign(0.192)	deleterious(0.01)	neutral(0.424)	HMMPfam_FYVE,HMMSmart_SM00064,superfamily_FYVE/PHD zinc finger
ZFYVE9	9372	genome.wustl.edu	37	1	52747359	52747359	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_004799.2	+1	reviewed	p.T966A	1.000	287	0%	118	28.8%	3	0%	possibly_damaging(0.862)	deleterious(0.03)	deleterious(0.698)	NULL
CC2D1B	200014	genome.wustl.edu	37	1	52821313	52821313	+	Silent	SNP	A	A	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	ENST00000450942	-1	known	p.L638H	0.994	107	0%	139	11.5%	24	0%	-	-	-	HMMPfam_C2,HMMSmart_SM00239,superfamily_C2 domain (Calcium/lipid-binding domain CaLB)
ZCCHC11	23318	genome.wustl.edu	37	1	52962762	52962762	+	Nonsense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001009881.1	-1	validated	p.E365*	1.000	347	0%	219	27.4%	2	0%	-	-	-	superfamily_Nucleotidyltransferase
ZYG11A	440590	genome.wustl.edu	37	1	53323039	53323039	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	ENST00000371528	+1	known	p.S209I	1.000	145	0%	86	25.6%	0	-	probably_damaging(0.999)	tolerated(0.15)	deleterious(0.732)	superfamily_RNI-like
LRP8	7804	genome.wustl.edu	37	1	53726248	53726248	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_004631.3	-1	reviewed	p.N648	0.211	271	0%	91	15.4%	0	-	-	-	-	HMMPfam_Ldl_recept_b,HMMSmart_SM00135,superfamily_YWTD domain
LRP8	7804	genome.wustl.edu	37	1	53741373	53741373	+	Silent	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_004631.3	-1	reviewed	p.V312	0.999	101	0%	208	22.6%	0	-	-	-	-	HMMPfam_Ldl_recept_a,HMMSmart_SM00192,PatternScan_LDLRA_1,superfamily_LDL receptor-like module
GLIS1	148979	genome.wustl.edu	37	1	53975574	53975574	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_147193.2	-1	validated	p.P495	0.001	96	0%	155	25.8%	4	0%	-	-	-	NULL
GLIS1	148979	genome.wustl.edu	37	1	54059851	54059851	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_147193.2	-1	validated	p.P242L	1.000	106	0%	136	17.6%	2	0%	probably_damaging(1)	deleterious(0)	deleterious(0.945)	HMMSmart_ZnF_C2H2
DIO1	1733	genome.wustl.edu	37	1	54375643	54375643	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001039715.1	+1	reviewed	p.R193C	0.990	299	0%	101	13.9%	0	-	benign(0.175)	deleterious(0.05)	neutral(0.361)	HMMPfam_T4_deiodinase
LDLRAD1	388633	genome.wustl.edu	37	1	54477841	54477841	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001010978.2	-1	provisional	p.G105	0.994	95	0%	125	16.8%	4	0%	-	-	-	HMMSmart_SM00192,PatternScan_LDLRA_1,superfamily_LDL receptor-like module
TMEM59	9528	genome.wustl.edu	37	1	54506479	54506479	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_004872.3	-1	provisional	p.R219	0.230	287	0%	55	18.2%	191	10.4%	-	-	-	NULL
CDCP2	200008	genome.wustl.edu	37	1	54605392	54605392	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_201546.2	-1	provisional	p.G384D	0.006	62	0%	52	15.4%	0	-	unknown(0)	tolerated(0.08)	-	NULL
SSBP3	23648	genome.wustl.edu	37	1	54870275	54870275	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_145716.2	-1	validated	p.P55	0.855	243	0%	369	22.5%	24	12.5%	-	-	-	NULL
ACOT11	26027	genome.wustl.edu	37	1	55050492	55050492	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_015547.2	+1	reviewed	p.V66	0.000	45	0%	41	34.1%	0	-	-	-	-	superfamily_Thioesterase/thiol ester dehydrase-isomerase
ACOT11	26027	genome.wustl.edu	37	1	55070852	55070852	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_015547.2	+1	reviewed	p.R447H	0.005	48	0%	27	14.8%	2	0%	possibly_damaging(0.665)	deleterious(0.03)	deleterious(0.600)	HMMPfam_START,HMMSmart_SM00234,superfamily_Bet v1-like
DHCR24	1718	genome.wustl.edu	37	1	55318024	55318024	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_014762.3	-1	reviewed	p.R478Q	1.000	116	0%	60	36.7%	6	16.6%	probably_damaging(0.99)	tolerated(0.06)	deleterious(0.764)	NULL
USP24	23358	genome.wustl.edu	37	1	55560968	55560968	+	Nonsense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_015306.2	-1	validated	p.R1895*	1.000	294	0%	119	10.1%	1	0%	-	-	-	NULL
USP24	23358	genome.wustl.edu	37	1	55562744	55562744	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_015306.2	-1	validated	p.G1779	0.913	148	0%	38	26.3%	1	0%	-	-	-	HMMPfam_UCH,superfamily_Cysteine proteinases
USP24	23358	genome.wustl.edu	37	1	55599820	55599820	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_015306.2	-1	validated	p.R942W	1.000	170	0.6%	53	20.8%	0	-	probably_damaging(0.999)	deleterious(0.01)	deleterious(0.896)	NULL
USP24	23358	genome.wustl.edu	37	1	55637241	55637241	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_015306.2	-1	validated	p.S159	0.912	293	0%	54	25.9%	0	-	-	-	-	NULL
PRKAA2	5563	genome.wustl.edu	37	1	57169917	57169917	+	Silent	SNP	T	T	C	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_006252.3	+1	validated	p.D354	0.912	152	0%	72	15.3%	1	0%	-	-	-	superfamily_Kinase_like
C8B	732	genome.wustl.edu	37	1	57395172	57395172	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_000066.2	-1	reviewed	p.R561C	0.674	290	0%	62	19.4%	1	0%	possibly_damaging(0.888)	deleterious(0.03)	deleterious(0.712)	HMMPfam_TSP_1,HMMSmart_SM00209,superfamily_TSP-1 type 1 repeat
DAB1	1600	genome.wustl.edu	37	1	57480662	57480662	+	Nonsense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_021080.3	-1	reviewed	p.Y446*	1.000	219	0%	291	26.5%	0	-	-	-	-	NULL
DAB1	1600	genome.wustl.edu	37	1	57756666	57756666	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_021080.3	-1	reviewed	p.T13A	1.000	482	0%	99	18.2%	0	-	benign(0.093)	tolerated(0.09)	neutral(0.303)	NULL
OMA1	115209	genome.wustl.edu	37	1	58971763	58971763	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_145243.3	-1	provisional	p.R445Q	1.000	288	0%	76	18.4%	13	23%	probably_damaging(1)	deleterious(0)	deleterious(0.945)	HMMPfam_Peptidase_M48
OMA1	115209	genome.wustl.edu	37	1	59002203	59002203	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	ENST00000421528	-1	known	p.G79R	0.996	292	0%	148	18.2%	4	25%	-	-	-	NULL
TACSTD2	4070	genome.wustl.edu	37	1	59042381	59042381	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_002353.2	-1	reviewed	p.R150C	1.000	5	0.000	28	0.250	8	12.5%	probably_damaging(1)	deleterious(0)	deleterious(0.945)	superfamily_Thyroglobulin_1
CYP2J2	1573	genome.wustl.edu	37	1	60377366	60377366	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_000775.2	-1	reviewed	p.R200C	1.000	267	0%	121	19.8%	0	-	probably_damaging(1)	deleterious(0)	deleterious(0.945)	HMMPfam_p450,superfamily_Cytochrome_P450
C1orf87	127795	genome.wustl.edu	37	1	60538251	60538251	+	Missense_Mutation	SNP	A	A	C	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_152377.1	-1	predicted	p.I22S	0.999	288	0%	334	10.2%	0	-	unknown(0)	deleterious(0)	-	NULL
NFIA	4774	genome.wustl.edu	37	1	61872244	61872244	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001145512.1	+1	reviewed	p.S467I	1.000	21	0%	25	44%	2	0%	probably_damaging(0.981)	deleterious(0.01)	deleterious(0.831)	HMMPfam_CTF_NFI
INADL	10207	genome.wustl.edu	37	1	62330146	62330146	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_176877.2	+1	reviewed	p.S892	0.000	233	0%	61	21.3%	2	50%	-	-	-	NULL
INADL	10207	genome.wustl.edu	37	1	62367131	62367131	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_176877.2	+1	reviewed	p.E1127	1.000	226	0%	92	15.2%	1	0%	-	-	-	HMMPfam_PDZ,HMMSmart_SM00228,superfamily_PDZ domain-like
INADL	10207	genome.wustl.edu	37	1	62503701	62503701	+	Missense_Mutation	SNP	A	A	C	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_176877.2	+1	reviewed	p.S1338R	0.569	240	0%	62	24.2%	2	0%	possibly_damaging(0.837)	tolerated(0.52)	neutral(0.328)	superfamily_PDZ domain-like
L1TD1	54596	genome.wustl.edu	37	1	62672589	62672589	+	Missense_Mutation	SNP	A	A	C	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_019079.4	+1	validated	p.S97R	0.002	98	0%	61	11.5%	0	-	unknown(0)	tolerated(0.1)	-	NULL
KANK4	163782	genome.wustl.edu	37	1	62728934	62728934	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_181712.4	-1	validated	p.R790Q	1.000	92	1.1%	39	17.9%	0	-	benign(0.042)	tolerated(1)	neutral(0.003)	NULL
KANK4	163782	genome.wustl.edu	37	1	62739193	62739193	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_181712.4	-1	validated	p.R528I	0.000	90	0%	42	23.8%	0	-	probably_damaging(0.998)	deleterious(0)	deleterious(0.919)	NULL
KANK4	163782	genome.wustl.edu	37	1	62739634	62739634	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_181712.4	-1	validated	p.E381G	0.987	220	0%	117	11.1%	0	-	benign(0)	tolerated(0.19)	neutral(0.050)	NULL
USP1	7398	genome.wustl.edu	37	1	62914139	62914139	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001017415.1	+1	reviewed	p.S475Y	1.000	165	0%	80	15%	2	0%	probably_damaging(0.998)	deleterious(0.01)	deleterious(0.880)	HMMPfam_UCH,superfamily_SSF54001
DOCK7	85440	genome.wustl.edu	37	1	62958487	62958487	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_033407.2	-1	validated	p.A1719V	1.000	272	0%	120	29.2%	6	16.6%	possibly_damaging(0.498)	tolerated(0.06)	deleterious(0.489)	NULL
ANGPTL3	27329	genome.wustl.edu	37	1	63066790	63066790	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_014495.2	+1	reviewed	p.S215Y	0.833	334	0%	68	20.6%	0	-	probably_damaging(0.959)	deleterious(0.04)	deleterious(0.752)	NULL
DOCK7	85440	genome.wustl.edu	37	1	63091061	63091061	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_033407.2	-1	validated	p.S432P	1.000	241	0%	66	30.3%	12	25%	possibly_damaging(0.869)	deleterious(0)	deleterious(0.782)	NULL
PGM1	5236	genome.wustl.edu	37	1	64117478	64117478	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_002633.2	+1	reviewed	p.N473K	1.000	325	0%	78	24.4%	14	7.1%	possibly_damaging(0.835)	deleterious(0)	deleterious(0.763)	superfamily_Phosphoglucomutase C-terminal domain
ROR1	4919	genome.wustl.edu	37	1	64515425	64515425	+	Nonsense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_005012.2	+1	validated	p.E76*	0.999	253	0%	113	17.7%	0	-	-	-	-	HMMSmart_SM00408,HMMSmart_SM00409,HMMPfam_I-set,superfamily_Immunoglobulin
ROR1	4919	genome.wustl.edu	37	1	64515626	64515626	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_005012.2	+1	validated	p.T143A	1.000	142	0%	51	25.5%	0	-	probably_damaging(0.982)	deleterious(0.01)	deleterious(0.832)	HMMSmart_SM00409,HMMPfam_I-set,superfamily_Immunoglobulin
ROR1	4919	genome.wustl.edu	37	1	64643332	64643332	+	Silent	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_005012.2	+1	validated	p.V536	0.522	159	0%	37	35.1%	0	-	-	-	-	HMMPfam_Pkinase_Tyr,HMMSmart_SM00219,HMMSmart_SM00220,superfamily_Protein kinase-like (PK-like)
ROR1	4919	genome.wustl.edu	37	1	64643953	64643953	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_005012.2	+1	validated	p.H743	0.021	105	0%	45	8.9%	1	0%	-	-	-	HMMPfam_Pkinase_Tyr,HMMSmart_SM00219,HMMSmart_SM00220,superfamily_Protein kinase-like (PK-like)
UBE2U	148581	genome.wustl.edu	37	1	64680564	64680564	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_152489.1	+1	provisional	p.D136Y	0.000	328	0%	148	27.7%	0	-	possibly_damaging(0.524)	deleterious(0)	deleterious(0.621)	HMMPfam_UQ_con,HMMSmart_UBCc,superfamily_UBQ-conjugat/RWD-like
UBE2U	148581	genome.wustl.edu	37	1	64709812	64709812	+	Splice_Site	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_152489.1	+1	provisional	e9-1	0.001	360	0%	59	27.1%	0	-	-	-	-	-
CACHD1	57685	genome.wustl.edu	37	1	65095158	65095158	+	Missense_Mutation	SNP	G	G	A	rs182323946	by1000genomes	TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_020925.2	+1	validated	p.R162H	1.000	247	0%	50	24%	0	-	probably_damaging(1)	deleterious(0)	deleterious(0.945)	NULL
RAVER2	55225	genome.wustl.edu	37	1	65243476	65243476	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_018211.3	+1	validated	p.R163C	1.000	427	0%	104	20.2%	0	-	probably_damaging(1)	deleterious(0)	deleterious(0.945)	HMMPfam_RRM_1,HMMSmart_RRM,superfamily_SSF54928
RAVER2	55225	genome.wustl.edu	37	1	65247232	65247232	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_018211.3	+1	validated	p.A319E	0.997	413	0.2%	146	10.3%	2	50%	possibly_damaging(0.828)	deleterious(0.01)	deleterious(0.720)	NULL
JAK1	3716	genome.wustl.edu	37	1	65312392	65312392	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_002227.2	-1	reviewed	p.R643G	1.000	130	0%	68	20.6%	10	10%	benign(0.095)	tolerated(0.14)	neutral(0.257)	HMMPfam_Pkinase_Tyr,HMMSmart_TyrKc,superfamily_Kinase_like
JAK1	3716	genome.wustl.edu	37	1	65335121	65335121	+	Nonsense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_002227.2	-1	reviewed	p.R174*	0.998	226	0%	64	14.1%	5	0%	-	-	-	HMMSmart_B41
PDE4B	5142	genome.wustl.edu	37	1	66723491	66723491	+	Nonsense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001037341.1	+1	reviewed	p.R177*	1.000	590	0%	176	10.8%	0	-	-	-	-	NULL
SGIP1	84251	genome.wustl.edu	37	1	67108546	67108546	+	Silent	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_032291.2	+1	validated	p.G94	1.000	251	0%	37	21.6%	4	0%	-	-	-	NULL
TCTEX1D1	200132	genome.wustl.edu	37	1	67220432	67220432	+	Nonsense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_152665.2	+1	validated	p.R31*	0.000	359	0%	389	10.8%	0	-	-	-	-	NULL
TCTEX1D1	200132	genome.wustl.edu	37	1	67242054	67242054	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_152665.2	+1	validated	p.L102F	0.163	364	0%	111	27%	0	-	benign(0.003)	tolerated(0.73)	neutral(0.002)	HMMPfam_Tctex-1
INSL5	10022	genome.wustl.edu	37	1	67266801	67266801	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_005478.3	-1	reviewed	p.R35Q	0.004	222	0%	40	22.5%	0	-	probably_damaging(0.974)	tolerated(0.1)	deleterious(0.702)	HMMSmart_IlGF,superfamily_Insulin-like
WDR78	79819	genome.wustl.edu	37	1	67306304	67306304	+	Nonsense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_024763.4	-1	validated	p.E448*	0.604	525	0%	121	24%	0	-	-	-	-	superfamily_WD40 repeat-like
MIER1	57708	genome.wustl.edu	37	1	67438615	67438615	+	Missense_Mutation	SNP	A	A	C	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_020948.3	+1	validated	p.N319H	1.000	395	0%	109	23.9%	9	11.1%	possibly_damaging(0.76)	deleterious(0.02)	deleterious(0.664)	HMMSmart_SM00717,superfamily_Homeodomain-like,HMMPfam_Myb_DNA-binding
MIER1	57708	genome.wustl.edu	37	1	67442313	67442313	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_020948.3	+1	validated	p.F350L	1.000	327	0%	72	22.2%	2	0%	probably_damaging(1)	deleterious(0)	deleterious(0.945)	HMMSmart_SM00717,superfamily_Homeodomain-like,HMMPfam_Myb_DNA-binding
SLC35D1	23169	genome.wustl.edu	37	1	67513034	67513034	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_015139.2	-1	reviewed	p.D184N	1.000	566	0%	442	23.3%	0	-	benign(0.254)	tolerated(0.75)	neutral(0.028)	NULL
MIR1262	100302279	genome.wustl.edu	37	1	68649255	68649255	+	RNA	SNP	T	T	G	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	ENST00000408276	-1	known	NULL	0.016	234	0.4%	40	32.5%	0	-	-	-	-	-
WLS	79971	genome.wustl.edu	37	1	68659827	68659827	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001002292.2	-1	validated	p.V62M	0.681	204	0%	69	15.9%	10	0%	benign(0)	tolerated(0.42)	neutral(0.014)	NULL
SRSF11	9295	genome.wustl.edu	37	1	70715643	70715643	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_004768.2	+1	reviewed	p.R344Q	0.996	221	0%	83	20.5%	55	25.4%	unknown(0)	tolerated(0.08)	-	NULL
ANKRD13C	81573	genome.wustl.edu	37	1	70728418	70728418	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_030816.4	-1	validated	p.S536	1.000	264	0%	71	12.7%	5	0%	-	-	-	NULL
PTGER3	5733	genome.wustl.edu	37	1	71512807	71512807	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_198718.1	-1	reviewed	p.A152T	1.000	9	0.000	21	0.238	4	0%	probably_damaging(1)	deleterious(0)	deleterious(0.945)	HMMPfam_7tm_1,superfamily_SSF81321
LOC100132618	100132618	genome.wustl.edu	37	1	71532691	71532691	+	RNA	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	XR_078226.1	+1	model	NULL	0.920	87	0%	33	24.2%	1	0%	-	-	-	-
NEGR1	257194	genome.wustl.edu	37	1	72241872	72241872	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_173808.2	-1	validated	p.R173Q	1.000	198	0%	45	8.9%	1	0%	probably_damaging(0.981)	deleterious(0.01)	deleterious(0.831)	HMMSmart_IGc2,HMMPfam_I-set,superfamily_SSF48726
LRRIQ3	127255	genome.wustl.edu	37	1	74507108	74507108	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001105659.1	-1	provisional	p.L503M	0.000	271	0%	78	24.4%	0	-	benign(0.012)	tolerated(0.32)	neutral(0.025)	NULL
TNNI3K	51086	genome.wustl.edu	37	1	74905258	74905258	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001112808.1	+1	validated	p.L756M	1.000	199	0.5%	49	32.7%	0	-	probably_damaging(0.99)	tolerated(0.14)	deleterious(0.691)	HMMPfam_Pkinase_Tyr,HMMSmart_SM00219,HMMSmart_SM00220,superfamily_Protein kinase-like (PK-like)
TNNI3K	51086	genome.wustl.edu	37	1	74905290	74905290	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001112808.1	+1	validated	p.F766	0.994	177	0%	49	24.5%	0	-	-	-	-	HMMPfam_Pkinase_Tyr,HMMSmart_SM00219,HMMSmart_SM00220,superfamily_Protein kinase-like (PK-like)
TYW3	127253	genome.wustl.edu	37	1	75229703	75229703	+	Missense_Mutation	SNP	C	C	G	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_138467.2	+1	validated	p.A229G	0.000	431	0%	97	26.8%	9	22.2%	benign(0)	tolerated(0.41)	neutral(0.015)	NULL
LHX8	431707	genome.wustl.edu	37	1	75602809	75602809	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001001933.1	+1	validated	p.E44K	1.000	24	0%	46	26.1%	0	-	possibly_damaging(0.763)	tolerated(0.72)	neutral(0.284)	NULL
LHX8	431707	genome.wustl.edu	37	1	75608817	75608817	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001001933.1	+1	validated	p.R135H	1.000	120	0%	107	17.8%	0	-	probably_damaging(0.993)	deleterious(0)	deleterious(0.895)	HMMSmart_SM00132,superfamily_Glucocorticoid receptor-like (DNA-binding domain)
SLC44A5	204962	genome.wustl.edu	37	1	75684254	75684254	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_152697.4	-1	validated	p.A484T	1.000	236	0%	65	18.5%	1	0%	probably_damaging(0.995)	deleterious(0)	deleterious(0.902)	HMMPfam_DUF580
ACADM	34	genome.wustl.edu	37	1	76194141	76194141	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001127328.1	+1	reviewed	p.R33Q	0.000	481	0%	525	23.2%	4	0%	benign(0)	tolerated(0.48)	neutral(0.011)	NULL
MSH4	4438	genome.wustl.edu	37	1	76349372	76349372	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_002440.2	+1	validated	p.S658Y	0.993	310	0.3%	120	13.3%	0	-	possibly_damaging(0.545)	tolerated(1)	neutral(0.185)	HMMPfam_MutS_V,superfamily_SSF52540
AK5	26289	genome.wustl.edu	37	1	78001646	78001646	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_174858.1	+1	reviewed	p.A515T	0.987	104	0%	129	11.6%	0	-	benign(0.029)	tolerated(0.1)	neutral(0.288)	HMMPfam_ADK,superfamily_P-loop containing nucleoside triphosphate hydrolases
FAM73A	374986	genome.wustl.edu	37	1	78340557	78340557	+	Missense_Mutation	SNP	C	C	G	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_198549.2	+1	predicted	p.D569E	1.000	179	0%	234	32.1%	0	-	probably_damaging(0.998)	tolerated(0.07)	deleterious(0.793)	HMMPfam_DUF2217
FAM73A	374986	genome.wustl.edu	37	1	78340631	78340631	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_198549.2	+1	predicted	p.R594H	1.000	193	0.5%	231	25.5%	1	100%	probably_damaging(1)	deleterious(0.04)	deleterious(0.849)	HMMPfam_DUF2217
NEXN	91624	genome.wustl.edu	37	1	78383442	78383442	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_144573.3	+1	reviewed	p.E73D	1.000	191	0%	64	17.2%	2	0%	possibly_damaging(0.942)	tolerated(0.14)	deleterious(0.637)	NULL
NEXN	91624	genome.wustl.edu	37	1	78399026	78399026	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	ENST00000342754	+1	known	p.R271Q	0.219	109	0.9%	58	24.1%	21	0%	-	-	-	NULL
NEXN	91624	genome.wustl.edu	37	1	78408366	78408366	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_144573.3	+1	reviewed	p.D627G	1.000	345	0%	106	28.3%	25	0%	probably_damaging(0.996)	deleterious(0.01)	deleterious(0.867)	HMMSmart_SM00409,HMMPfam_I-set,superfamily_Immunoglobulin
FUBP1	8880	genome.wustl.edu	37	1	78414955	78414955	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_003902.3	-1	reviewed	p.P604H	1.000	204	0%	77	15.6%	43	2.3%	unknown(0)	deleterious(0.01)	-	HMMPfam_DUF1897
FUBP1	8880	genome.wustl.edu	37	1	78428511	78428511	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_003902.3	-1	reviewed	p.R430C	1.000	426	0%	121	16.5%	25	0%	probably_damaging(1)	deleterious(0)	deleterious(0.945)	HMMSmart_SM00322,HMMPfam_KH_1,superfamily_Eukaryotic type KH-domain (KH-domain type I)
DNAJB4	11080	genome.wustl.edu	37	1	78478893	78478893	+	Nonsense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_007034.3	+1	provisional	p.E124*	1.000	316	0%	99	17.2%	4	25%	-	-	-	NULL
GIPC2	54810	genome.wustl.edu	37	1	78546381	78546381	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_017655.4	+1	validated	p.T88I	1.000	346	0%	186	12.4%	1	0%	probably_damaging(1)	deleterious(0)	deleterious(0.945)	superfamily_PDZ
IFI44L	10964	genome.wustl.edu	37	1	79095453	79095453	+	Silent	SNP	A	A	C	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_006820.2	+1	validated	p.A192	0.002	449	0%	92	22.8%	0	-	-	-	-	superfamily_P-loop containing nucleoside triphosphate hydrolases
IFI44L	10964	genome.wustl.edu	37	1	79101043	79101043	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_006820.2	+1	validated	p.D249Y	0.989	237	0%	54	22.2%	0	-	benign(0.024)	tolerated(0.19)	neutral(0.051)	superfamily_P-loop containing nucleoside triphosphate hydrolases
ELTD1	64123	genome.wustl.edu	37	1	79383369	79383369	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_022159.3	-1	validated	p.E567K	1.000	287	0%	35	17.1%	18	0%	benign(0.213)	tolerated(0.07)	neutral(0.340)	HMMPfam_7tm_2
ELTD1	64123	genome.wustl.edu	37	1	79403660	79403660	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_022159.3	-1	validated	p.V198M	0.070	431	0%	306	22.2%	4	0%	benign(0.008)	deleterious(0)	neutral(0.445)	NULL
LPHN2	23266	genome.wustl.edu	37	1	82417672	82417672	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_012302.2	+1	reviewed	p.A543V	1.000	238	0.4%	68	16.2%	0	-	probably_damaging(0.988)	deleterious(0.01)	deleterious(0.843)	NULL
LPHN2	23266	genome.wustl.edu	37	1	82436023	82436023	+	Missense_Mutation	SNP	T	T	G	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_012302.2	+1	reviewed	p.L903R	1.000	565	0%	221	27.1%	1	0%	probably_damaging(0.986)	deleterious(0)	deleterious(0.879)	HMMPfam_7tm_2
TTLL7	79739	genome.wustl.edu	37	1	84372134	84372134	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_024686.4	-1	validated	p.R669W	0.976	440	0%	57	26.3%	1	100%	probably_damaging(0.971)	deleterious(0.04)	deleterious(0.762)	NULL
DNASE2B	58511	genome.wustl.edu	37	1	84864353	84864353	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_021233.2	+1	reviewed	p.E36K	1.000	330	0%	123	25.2%	0	-	benign(0.009)	tolerated(0.41)	neutral(0.015)	HMMPfam_DNase_II
RPF1	80135	genome.wustl.edu	37	1	84961948	84961948	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_025065.6	+1	validated	p.K301N	1.000	335	0%	209	24.4%	40	30%	benign(0.122)	deleterious(0.03)	neutral(0.374)	HMMPfam_Brix
SPATA1	100505741	genome.wustl.edu	37	1	85011433	85011433	+	Nonsense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001081472.1	+1	validated	p.R335*	0.003	224	0%	75	13.3%	0	-	-	-	-	NULL
SSX2IP	117178	genome.wustl.edu	37	1	85136348	85136348	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_014021.3	-1	reviewed	p.S65N	1.000	160	0%	27	22.2%	1	0%	possibly_damaging(0.801)	deleterious(0.01)	deleterious(0.707)	NULL
LPAR3	23566	genome.wustl.edu	37	1	85331579	85331579	+	Silent	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_012152.2	-1	reviewed	p.A75	0.965	180	0%	67	10.4%	0	-	-	-	-	HMMPfam_7tm_1,superfamily_SSF81321
WDR63	126820	genome.wustl.edu	37	1	85570238	85570238	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_145172.3	+1	validated	p.R504Q	1.000	411	0%	166	15.1%	0	-	possibly_damaging(0.482)	tolerated(0.42)	neutral(0.174)	HMMSmart_SM00320,superfamily_WD40 repeat-like,HMMPfam_WD40
SYDE2	84144	genome.wustl.edu	37	1	85647923	85647923	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_032184.1	-1	validated	p.S801Y	1.000	347	0%	96	30.2%	0	-	probably_damaging(0.995)	deleterious(0.02)	deleterious(0.841)	NULL
SYDE2	84144	genome.wustl.edu	37	1	85656004	85656004	+	Missense_Mutation	SNP	C	C	T	rs183800883	by1000genomes	TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_032184.1	-1	validated	p.D393N	0.000	195	0%	124	29.8%	1	100%	benign(0)	tolerated(0.85)	neutral(0.001)	NULL
DDAH1	23576	genome.wustl.edu	37	1	85824494	85824494	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_012137.3	-1	reviewed	p.L114F	1.000	450	0%	140	25%	0	-	possibly_damaging(0.64)	tolerated(0.1)	deleterious(0.510)	HMMPfam_Amidinotransf,superfamily_Pentein
CYR61	3491	genome.wustl.edu	37	1	86047173	86047173	+	Missense_Mutation	SNP	C	C	G	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001554.4	+1	validated	p.D63E	1.000	34	0%	63	25.4%	34	0%	possibly_damaging(0.781)	tolerated(0.85)	neutral(0.293)	HMMPfam_IGFBP,HMMSmart_SM00121,PatternScan_IGFBP_N_1
COL24A1	255631	genome.wustl.edu	37	1	86334482	86334482	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_152890.5	-1	validated	p.G1059R	1.000	406	0%	53	17%	0	-	probably_damaging(1)	deleterious(0)	deleterious(0.945)	HMMPfam_Collagen
CLCA2	9635	genome.wustl.edu	37	1	86905990	86905990	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_006536.5	+1	reviewed	p.E455K	0.888	194	0%	61	19.7%	0	-	probably_damaging(0.976)	tolerated(0.37)	neutral(0.437)	HMMPfam_VWA,HMMSmart_VWA,superfamily_SSF53300
CLCA1	1179	genome.wustl.edu	37	1	86951095	86951095	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001285.3	+1	reviewed	p.L269I	1.000	303	0%	110	20.9%	0	-	benign(0.177)	tolerated(0.39)	neutral(0.033)	NULL
CLCA4	22802	genome.wustl.edu	37	1	87025652	87025652	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_012128.3	+1	reviewed	p.A66V	1.000	152	0%	103	31.1%	0	-	probably_damaging(1)	deleterious(0)	deleterious(0.945)	HMMPfam_CLCA_N
CLCA4	22802	genome.wustl.edu	37	1	87025977	87025977	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_012128.3	+1	reviewed	p.G128	0.995	344	0.3%	279	15.1%	0	-	-	-	-	HMMPfam_CLCA_N
CLCA4	22802	genome.wustl.edu	37	1	87033329	87033329	+	Frame_Shift_Del	DEL	T	T	-	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_012128.3	+1	reviewed	p.Q394fs	1.000	-	-	-	-	-	-	-	-	-	HMMPfam_VWA,HMMSmart_VWA,superfamily_SSF53300
LMO4	8543	genome.wustl.edu	37	1	87805775	87805775	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_006769.3	+1	reviewed	p.R127W	1.000	444	0%	448	27%	71	12.6%	probably_damaging(1)	deleterious(0)	deleterious(0.945)	HMMPfam_LIM,HMMSmart_SM00132,superfamily_Glucocorticoid receptor-like (DNA-binding domain)
PKN2	5586	genome.wustl.edu	37	1	89226032	89226032	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_006256.2	+1	validated	p.I159M	0.997	139	0%	38	28.9%	1	0%	benign(0.293)	tolerated(0.06)	neutral(0.413)	HMMPfam_HR1,HMMSmart_Hr1,superfamily_PKN_effector
GBP3	2635	genome.wustl.edu	37	1	89477546	89477546	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_018284.2	-1	reviewed	p.A345T	0.974	225	0%	90	10%	10	0%	benign(0)	tolerated(1)	-	HMMPfam_GBP_C,superfamily_GBP
GBP7	388646	genome.wustl.edu	37	1	89613258	89613258	+	Nonsense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_207398.2	-1	validated	p.G453*	0.999	579	0%	207	18.4%	0	-	-	-	-	HMMPfam_GBP_C,superfamily_Interferon-induced guanylate-binding protein 1 (GBP1) C-terminal domain
GBP4	115361	genome.wustl.edu	37	1	89662814	89662814	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_052941.4	-1	validated	p.R72C	0.000	287	0%	114	13.2%	2	0%	possibly_damaging(0.463)	tolerated(0.11)	neutral(0.423)	HMMPfam_GBP,superfamily_SSF52540
GBP5	115362	genome.wustl.edu	37	1	89734521	89734521	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001134486.1	-1	validated	p.T70M	0.957	155	0%	143	12.6%	1	0%	probably_damaging(0.999)	deleterious(0)	deleterious(0.935)	HMMPfam_GBP,superfamily_P-loop containing nucleoside triphosphate hydrolases
GBP6	163351	genome.wustl.edu	37	1	89844023	89844023	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_198460.2	+1	validated	p.R159M	0.000	322	0%	78	26.9%	0	-	benign(0.394)	tolerated(0.06)	neutral(0.449)	HMMPfam_GBP,superfamily_P-loop containing nucleoside triphosphate hydrolases
GBP6	163351	genome.wustl.edu	37	1	89849839	89849839	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_198460.2	+1	validated	p.T552	0.738	155	0%	48	18.8%	0	-	-	-	-	HMMPfam_GBP_C,superfamily_Interferon-induced guanylate-binding protein 1 (GBP1) C-terminal domain
LRRC8D	55144	genome.wustl.edu	37	1	90400961	90400961	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001134479.1	+1	validated	p.R778S	1.000	174	0%	49	24.5%	51	27.4%	possibly_damaging(0.922)	deleterious(0.02)	deleterious(0.754)	HMMPfam_LRR_1,superfamily_SSF52058
ZNF326	284695	genome.wustl.edu	37	1	90470734	90470734	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_182976.2	+1	validated	p.R47I	1.000	379	0.3%	213	28.6%	4	50%	benign(0.421)	deleterious(0)	deleterious(0.581)	NULL
BARHL2	343472	genome.wustl.edu	37	1	91182515	91182515	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_020063.1	-1	validated	p.D80N	0.999	32	0%	55	23.6%	0	-	unknown(0)	deleterious(0)	-	NULL
ZNF644	84146	genome.wustl.edu	37	1	91403895	91403895	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_201269.1	-1	validated	p.T1006A	1.000	514	0%	174	19.5%	5	0%	possibly_damaging(0.866)	tolerated(0.08)	deleterious(0.635)	NULL
ZNF644	84146	genome.wustl.edu	37	1	91404470	91404470	+	Missense_Mutation	SNP	T	T	G	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_201269.1	-1	validated	p.E814A	1.000	161	0%	63	23.8%	2	0%	benign(0.001)	tolerated(1)	-	NULL
ZNF644	84146	genome.wustl.edu	37	1	91405220	91405220	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_201269.1	-1	validated	p.R564I	1.000	199	0%	114	26.3%	1	100%	probably_damaging(0.998)	deleterious(0.01)	deleterious(0.880)	NULL
HFM1	164045	genome.wustl.edu	37	1	91781390	91781390	+	Missense_Mutation	SNP	A	A	C	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001017975.3	-1	validated	p.V1041G	1.000	268	0%	37	16.2%	0	-	possibly_damaging(0.92)	deleterious(0)	deleterious(0.816)	HMMPfam_Sec63
HFM1	164045	genome.wustl.edu	37	1	91781509	91781509	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	ENST00000430465	-1	known	p.R213Q	0.000	262	0%	44	25%	0	-	-	-	-	NULL
HFM1	164045	genome.wustl.edu	37	1	91818650	91818650	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001017975.3	-1	validated	p.V597L	0.961	377	0%	70	27.1%	0	-	benign(0)	tolerated(0.62)	neutral(0.004)	HMMPfam_Helicase_C,HMMSmart_SM00490,superfamily_P-loop containing nucleoside triphosphate hydrolases
CDC7	8317	genome.wustl.edu	37	1	91973918	91973918	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001134419.1	+1	reviewed	p.R100I	1.000	191	0%	135	11.1%	0	-	probably_damaging(1)	tolerated(0.13)	deleterious(0.752)	HMMSmart_SM00219,HMMSmart_SM00220,superfamily_Protein kinase-like (PK-like),HMMPfam_Pkinase
CDC7	8317	genome.wustl.edu	37	1	91989650	91989650	+	Silent	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001134419.1	+1	reviewed	p.L461	1.000	140	0%	94	12.8%	0	-	-	-	-	HMMSmart_SM00220,superfamily_Protein kinase-like (PK-like),HMMPfam_Pkinase
TGFBR3	7049	genome.wustl.edu	37	1	92161274	92161274	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_003243.3	-1	validated	p.G798R	1.000	178	0%	71	18.3%	6	0%	benign(0.353)	deleterious(0)	deleterious(0.556)	NULL
TGFBR3	7049	genome.wustl.edu	37	1	92185476	92185476	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_003243.3	-1	validated	p.V463M	0.998	248	0%	68	22.1%	1	0%	probably_damaging(1)	deleterious(0.01)	deleterious(0.905)	HMMPfam_Zona_pellucida,HMMSmart_ZP
BRDT	676	genome.wustl.edu	37	1	92430204	92430204	+	Missense_Mutation	SNP	A	A	C	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001726.3	+1	validated	p.K71N	0.997	117	0%	41	22%	0	-	probably_damaging(0.973)	deleterious(0.04)	deleterious(0.764)	HMMPfam_Bromodomain,HMMSmart_SM00297,superfamily_Bromodomain,PatternScan_BROMODOMAIN_1
BRDT	676	genome.wustl.edu	37	1	92470846	92470846	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001726.3	+1	validated	p.R922K	1.000	162	0%	60	21.7%	0	-	possibly_damaging(0.888)	deleterious(0)	deleterious(0.792)	NULL
BRDT	676	genome.wustl.edu	37	1	92479806	92479806	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001726.3	+1	validated	p.T940I	1.000	207	0%	78	30.8%	0	-	probably_damaging(0.99)	deleterious(0)	deleterious(0.886)	NULL
KIAA1107	23285	genome.wustl.edu	37	1	92642770	92642770	+	Missense_Mutation	SNP	A	A	C	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_015237.2	+1	validated	p.N236H	0.021	248	0%	163	23.9%	0	-	possibly_damaging(0.437)	deleterious(0.02)	deleterious(0.525)	NULL
RPL5	6125	genome.wustl.edu	37	1	93303111	93303111	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_000969.3	+1	reviewed	p.R209H	1.000	106	0%	52	19.2%	2857	15.5%	benign(0.001)	deleterious(0.02)	neutral(0.383)	superfamily_Translational machinery components
FAM69A	388650	genome.wustl.edu	37	1	93309004	93309004	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001006605.3	-1	reviewed	p.S408Y	1.000	211	0%	68	22.1%	10	0%	probably_damaging(0.999)	deleterious(0)	deleterious(0.935)	NULL
FAM69A	388650	genome.wustl.edu	37	1	93312822	93312822	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001006605.3	-1	reviewed	p.R131I	1.000	390	0%	106	25.5%	2	0%	probably_damaging(0.993)	deleterious(0.03)	deleterious(0.815)	NULL
FAM69A	388650	genome.wustl.edu	37	1	93341969	93341969	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001006605.3	-1	reviewed	p.R25W	1.000	190	0%	96	22.9%	3	0%	probably_damaging(0.999)	deleterious(0)	deleterious(0.935)	NULL
MTF2	22823	genome.wustl.edu	37	1	93575839	93575839	+	Nonsense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_007358.3	+1	validated	p.R20*	1.000	317	0.3%	75	28%	0	-	-	-	-	NULL
MTF2	22823	genome.wustl.edu	37	1	93595007	93595007	+	Splice_Site	SNP	T	T	C	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_007358.3	+1	validated	e11+2	1.000	248	0%	78	14.1%	0	-	-	-	-	-
DR1	1810	genome.wustl.edu	37	1	93819572	93819572	+	Missense_Mutation	SNP	A	A	C	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001938.2	+1	reviewed	p.N110H	1.000	392	0%	265	12.5%	14	0%	possibly_damaging(0.566)	tolerated(0.07)	deleterious(0.512)	superfamily_Histone-fold
FNBP1L	54874	genome.wustl.edu	37	1	94012403	94012403	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	ENST00000271234	+1	known	p.A428T	1.000	189	0%	31	16.1%	3	0%	possibly_damaging(0.934)	deleterious(0.01)	deleterious(0.786)	NULL
BCAR3	8412	genome.wustl.edu	37	1	94057881	94057881	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_003567.2	-1	reviewed	p.L143F	1.000	48	0%	47	29.8%	3	33.3%	possibly_damaging(0.91)	deleterious(0.02)	deleterious(0.746)	superfamily_Ras GEF
BCAR3	8412	genome.wustl.edu	37	1	94140374	94140374	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_003567.2	-1	reviewed	p.R38H	0.001	133	0%	124	29.8%	1	100%	benign(0.007)	tolerated(0.19)	neutral(0.050)	NULL
ABCA4	24	genome.wustl.edu	37	1	94495984	94495984	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_000350.2	-1	reviewed	p.P1451L	0.328	68	0%	48	12.5%	0	-	benign(0)	tolerated(0.22)	neutral(0.042)	NULL
ABCA4	24	genome.wustl.edu	37	1	94497502	94497502	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_000350.2	-1	reviewed	p.C1320	0.000	50	0%	46	10.9%	0	-	-	-	-	NULL
ABCA4	24	genome.wustl.edu	37	1	94517209	94517209	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_000350.2	-1	reviewed	p.S878L	0.998	231	0%	97	25.8%	1	0%	probably_damaging(0.976)	deleterious(0)	deleterious(0.863)	NULL
ARHGAP29	9411	genome.wustl.edu	37	1	94639998	94639998	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_004815.3	-1	validated	p.G1071	0.910	312	0%	76	11.8%	4	25%	-	-	-	NULL
ARHGAP29	9411	genome.wustl.edu	37	1	94671238	94671238	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_004815.3	-1	validated	p.S171L	1.000	181	0%	67	16.4%	1	0%	benign(0.393)	tolerated(0.08)	neutral(0.426)	NULL
ABCD3	5825	genome.wustl.edu	37	1	94982681	94982681	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_002858.3	+1	reviewed	p.S659F	1.000	423	0%	74	20.3%	5	20%	probably_damaging(1)	deleterious(0)	deleterious(0.945)	NULL
F3	2152	genome.wustl.edu	37	1	95001691	95001691	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001993.4	-1	reviewed	p.C81F	0.985	95	1.1%	126	22.2%	10	0%	probably_damaging(1)	deleterious(0)	deleterious(0.945)	HMMPfam_Tissue_fac,PatternScan_TISSUE_FACTOR,superfamily_FN_III-like
SLC44A3	126969	genome.wustl.edu	37	1	95303313	95303313	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001114106.1	+1	validated	p.C186R	1.000	432	0%	168	23.8%	3	0%	probably_damaging(1)	deleterious(0.05)	deleterious(0.845)	NULL
DPYD	1806	genome.wustl.edu	37	1	98058818	98058818	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_000110.3	-1	reviewed	p.V362I	1.000	165	0%	39	33.3%	2	0%	benign(0.041)	tolerated(0.2)	neutral(0.052)	HMMPfam_Pyr_redox_2,superfamily_SSF51971
FRRS1	391059	genome.wustl.edu	37	1	100176425	100176425	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001013660.2	-1	validated	p.V521I	1.000	158	0%	44	20.5%	1	0%	probably_damaging(0.998)	tolerated(0.07)	deleterious(0.793)	NULL
FRRS1	391059	genome.wustl.edu	37	1	100212941	100212941	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001013660.2	-1	validated	p.R81H	0.695	228	0%	61	24.6%	1	0%	probably_damaging(1)	deleterious(0)	deleterious(0.945)	HMMPfam_Reeler
AGL	178	genome.wustl.edu	37	1	100329975	100329975	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_000028.2	+1	reviewed	p.T165I	1.000	682	0%	499	12.4%	6	0%	benign(0.121)	deleterious(0.01)	neutral(0.415)	superfamily_(Trans)glycosidases
AGL	178	genome.wustl.edu	37	1	100356831	100356831	+	Missense_Mutation	SNP	T	T	G	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_000028.2	+1	reviewed	p.F956L	0.544	460	0%	144	13.9%	1	0%	benign(0.002)	tolerated(1)	-	NULL
HIAT1	64645	genome.wustl.edu	37	1	100546192	100546192	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_033055.2	+1	validated	p.S415G	0.518	362	0%	76	11.8%	14	0%	benign(0)	tolerated(0.4)	neutral(0.016)	superfamily_MFS_gen_substrate_transporter
VCAM1	7412	genome.wustl.edu	37	1	101186128	101186128	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001078.2	+1	reviewed	p.S54F	0.002	141	0%	39	17.9%	3	0%	probably_damaging(0.993)	deleterious(0.04)	deleterious(0.799)	HMMSmart_SM00408,HMMSmart_SM00409,HMMPfam_I-set,superfamily_Immunoglobulin
VCAM1	7412	genome.wustl.edu	37	1	101190238	101190238	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001078.2	+1	reviewed	p.G240	0.002	443	0%	84	17.9%	1	0%	-	-	-	HMMSmart_SM00408,HMMSmart_SM00409,HMMPfam_ig,superfamily_Immunoglobulin
EXTL2	2135	genome.wustl.edu	37	1	101343076	101343076	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001033025.1	-1	validated	p.R130M	0.045	365	0%	82	19.5%	2	50%	probably_damaging(0.998)	deleterious(0.01)	deleterious(0.880)	HMMPfam_Glyco_transf_64,superfamily_Nucleotide-diphospho-sugar transferases
SLC30A7	148867	genome.wustl.edu	37	1	101431456	101431456	+	Silent	SNP	A	A	C	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	ENST00000370111	+1	known	p.T75P	0.991	375	0%	77	14.3%	1	0%	-	-	-	NULL
COL11A1	1301	genome.wustl.edu	37	1	103405987	103405987	+	Nonsense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_080629.2	-1	reviewed	p.E1106*	1.000	122	0%	56	21.4%	0	-	-	-	-	NULL
COL11A1	1301	genome.wustl.edu	37	1	103444294	103444294	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_080629.2	-1	reviewed	p.G920	1.000	116	0%	35	22.9%	0	-	-	-	-	HMMPfam_Collagen
COL11A1	1301	genome.wustl.edu	37	1	103470041	103470041	+	Nonsense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_080629.2	-1	reviewed	p.E647*	1.000	89	0%	30	30%	0	-	-	-	-	HMMPfam_Collagen
COL11A1	1301	genome.wustl.edu	37	1	103544225	103544225	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_080629.2	-1	reviewed	p.I159	0.208	356	0%	141	21.3%	0	-	-	-	-	HMMSmart_LamG,HMMSmart_TSPN,superfamily_ConA_like_lec_gl,HMMPfam_Laminin_G_2
RNPC3	55599	genome.wustl.edu	37	1	104077412	104077412	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_017619.3	+1	reviewed	p.E126K	0.989	304	0%	175	26.3%	1	0%	benign(0.001)	tolerated(0.3)	neutral(0.029)	NULL
RNPC3	55599	genome.wustl.edu	37	1	104078049	104078049	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_017619.3	+1	reviewed	p.K181E	1.000	222	0%	148	10.8%	0	-	probably_damaging(0.998)	deleterious(0.03)	deleterious(0.839)	NULL
AMY2B	280	genome.wustl.edu	37	1	104115689	104115689	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_020978.3	+1	reviewed	p.R107H	0.115	1117	0%	256	18%	3	100%	benign(0.099)	deleterious(0.01)	neutral(0.413)	HMMPfam_Alpha-amylase,HMMSmart_SM00642,superfamily_(Trans)glycosidases
VAV3	10451	genome.wustl.edu	37	1	108307785	108307785	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_006113.4	-1	reviewed	p.Y278	0.997	264	0%	65	29.2%	0	-	-	-	-	HMMPfam_RhoGEF,HMMSmart_SM00325,superfamily_DBL homology domain (DH-domain)
FAM102B	284611	genome.wustl.edu	37	1	109171147	109171147	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001010883.2	+1	validated	p.I261	0.000	82	0%	30	36.7%	1	0%	-	-	-	NULL
HENMT1	113802	genome.wustl.edu	37	1	109193677	109193677	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001102592.1	-1	validated	p.W185R	1.000	427	0%	347	21.6%	2	0%	probably_damaging(1)	deleterious(0)	deleterious(0.945)	superfamily_SSF53335
PRPF38B	55119	genome.wustl.edu	37	1	109241332	109241332	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_018061.2	+1	validated	p.P222L	1.000	409	0%	370	23.5%	28	17.8%	probably_damaging(1)	deleterious(0)	deleterious(0.945)	HMMPfam_PRP38
FNDC7	163479	genome.wustl.edu	37	1	109256075	109256075	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	ENST00000271311	+1	known	p.Y3	0.000	749	0%	350	26.3%	0	-	-	-	-	NULL
STXBP3	6814	genome.wustl.edu	37	1	109340777	109340777	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_007269.2	+1	validated	p.G456D	0.294	182	0%	32	12.5%	21	9.5%	benign(0.004)	tolerated(0.42)	neutral(0.014)	HMMPfam_Sec1,superfamily_Sec1-like
AKNAD1	254268	genome.wustl.edu	37	1	109377642	109377642	+	Nonsense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_152763.3	-1	validated	p.R525*	0.000	36	0%	24	25%	0	-	-	-	-	NULL
AKNAD1	254268	genome.wustl.edu	37	1	109394788	109394788	+	Nonsense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_152763.3	-1	validated	p.E167*	0.226	98	0%	43	32.6%	0	-	-	-	-	NULL
AKNAD1	254268	genome.wustl.edu	37	1	109395189	109395189	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_152763.3	-1	validated	p.S33I	0.000	154	0%	83	14.5%	0	-	benign(0.261)	deleterious(0)	deleterious(0.472)	NULL
CLCC1	23155	genome.wustl.edu	37	1	109486598	109486598	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001048210.1	-1	validated	p.L141I	1.000	96	0%	33	24.2%	1	0%	probably_damaging(0.978)	tolerated(0.16)	deleterious(0.480)	HMMPfam_MCLC
WDR47	22911	genome.wustl.edu	37	1	109545020	109545020	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001142550.1	-1	validated	p.R428Q	1.000	276	0%	125	14.4%	0	-	benign(0.027)	tolerated(0.16)	neutral(0.061)	NULL
WDR47	22911	genome.wustl.edu	37	1	109566104	109566104	+	Nonsense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001142550.1	-1	validated	p.E11*	1.000	484	0%	152	12.5%	1	0%	-	-	-	HMMSmart_SM00667
KIAA1324	57535	genome.wustl.edu	37	1	109707190	109707190	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_020775.3	+1	validated	p.R115H	1.000	95	0%	70	20%	4	0%	possibly_damaging(0.557)	deleterious(0.04)	deleterious(0.539)	superfamily_Growth factor receptor domain
CELSR2	1952	genome.wustl.edu	37	1	109803855	109803855	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001408.2	+1	reviewed	p.R1384C	1.000	59	0%	94	25.5%	0	-	probably_damaging(1)	deleterious(0)	deleterious(0.945)	superfamily_ConA_like_lec_gl
CELSR2	1952	genome.wustl.edu	37	1	109803862	109803862	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001408.2	+1	reviewed	p.R1386H	1.000	58	0%	90	25.6%	0	-	probably_damaging(1)	deleterious(0)	deleterious(0.945)	superfamily_ConA_like_lec_gl
CELSR2	1952	genome.wustl.edu	37	1	109804153	109804153	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001408.2	+1	reviewed	p.R1400	0.000	79	0%	142	26.8%	1	0%	-	-	-	HMMSmart_LamG,superfamily_ConA_like_lec_gl,HMMPfam_Laminin_G_2
CELSR2	1952	genome.wustl.edu	37	1	109808393	109808393	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001408.2	+1	reviewed	p.L1922I	1.000	58	0%	76	15.8%	1	100%	possibly_damaging(0.887)	tolerated(0.12)	deleterious(0.607)	HMMSmart_TNFR
MYBPHL	343263	genome.wustl.edu	37	1	109837842	109837842	+	Silent	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001010985.2	-1	validated	p.I315	1.000	294	0%	139	11.5%	0	-	-	-	-	HMMSmart_SM00408,HMMSmart_SM00409,HMMPfam_I-set,superfamily_Immunoglobulin
MYBPHL	343263	genome.wustl.edu	37	1	109840147	109840147	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001010985.2	-1	validated	p.I109	1.000	34	0%	25	24%	0	-	-	-	-	HMMSmart_SM00408,HMMSmart_SM00409,HMMPfam_I-set,superfamily_Immunoglobulin
SORT1	6272	genome.wustl.edu	37	1	109856993	109856993	+	Nonsense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_002959.4	-1	reviewed	p.R791*	0.999	97	0%	37	29.7%	32	15.6%	-	-	-	NULL
SYPL2	284612	genome.wustl.edu	37	1	110020445	110020445	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001040709.1	+1	validated	p.F154L	1.000	181	0%	194	11.3%	1	0%	benign(0.004)	tolerated(0.54)	neutral(0.007)	HMMPfam_MARVEL
CYB561D1	284613	genome.wustl.edu	37	1	110038456	110038456	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001134400.1	+1	validated	p.R111W	0.973	201	0%	326	11.3%	1	0%	probably_damaging(0.997)	deleterious(0)	deleterious(0.911)	HMMPfam_Cytochrom_B561,HMMSmart_B561
MIR197	406974	genome.wustl.edu	37	1	110141589	110141589	+	RNA	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	ENST00000384976	+1	known	NULL	0.970	176	0%	57	24.6%	1	0%	-	-	-	-
GNAT2	2780	genome.wustl.edu	37	1	110148666	110148666	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_005272.3	-1	reviewed	p.E216K	1.000	221	0%	66	27.3%	0	-	possibly_damaging(0.825)	deleterious(0)	deleterious(0.757)	HMMPfam_G-alpha,HMMSmart_SM00275,superfamily_P-loop containing nucleoside triphosphate hydrolases
AMPD2	271	genome.wustl.edu	37	1	110169934	110169934	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_004037.6	+1	validated	p.E340K	0.995	124	0%	262	25.2%	2	0%	benign(0)	tolerated(0.47)	neutral(0.011)	NULL
GSTM2	2946	genome.wustl.edu	37	1	110214126	110214126	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_000848.3	+1	reviewed	p.V163A	0.924	316	0%	315	27%	31	19.3%	benign(0.012)	tolerated(0.31)	neutral(0.028)	HMMPfam_GST_C,superfamily_GST_C_like
GSTM1	2944	genome.wustl.edu	37	1	110232900	110232900	+	Missense_Mutation	SNP	T	T	G	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_000561.3	+1	reviewed	p.L123R	0.962	478	0%	498	11.8%	56	0%	benign(0.007)	tolerated(0.15)	neutral(0.241)	HMMPfam_GST_C,superfamily_Glutathione S-transferase (GST) C-terminal domain
CSF1	1435	genome.wustl.edu	37	1	110466744	110466744	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_000757.4	+1	validated	p.L501M	0.858	24	0%	21	33.3%	11	18.1%	probably_damaging(0.996)	tolerated(0.06)	deleterious(0.784)	HMMPfam_CSF-1
AHCYL1	10768	genome.wustl.edu	37	1	110558065	110558065	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_006621.4	+1	validated	p.D232Y	1.000	253	0%	82	18.3%	11	0%	probably_damaging(0.997)	deleterious(0)	deleterious(0.911)	HMMPfam_AdoHcyase,superfamily_Formate/glycerate dehydrogenase catalytic domain-like
SLC6A17	388662	genome.wustl.edu	37	1	110719284	110719284	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001010898.2	+1	validated	p.V263L	1.000	212	0%	153	28.1%	0	-	probably_damaging(0.982)	deleterious(0.03)	deleterious(0.791)	HMMPfam_SNF
SLC6A17	388662	genome.wustl.edu	37	1	110737261	110737261	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001010898.2	+1	validated	p.A454T	0.996	137	0%	105	24.8%	0	-	benign(0.362)	deleterious(0.04)	neutral(0.464)	HMMPfam_SNF
KCNC4	3749	genome.wustl.edu	37	1	110765694	110765694	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_004978.3	+1	reviewed	p.V263I	0.626	211	0%	321	10.3%	0	-	benign(0)	tolerated(0.39)	neutral(0.016)	superfamily_Voltage-gated potassium channels
KCNC4	3749	genome.wustl.edu	37	1	110766212	110766212	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_004978.3	+1	reviewed	p.T435	0.716	35	0%	64	14.1%	4	25%	-	-	-	HMMPfam_Ion_trans,superfamily_Voltage-gated potassium channels
KCNA10	3744	genome.wustl.edu	37	1	111060346	111060346	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_005549.2	-1	reviewed	p.S355L	1.000	126	0%	74	27%	0	-	probably_damaging(1)	deleterious(0)	deleterious(0.945)	HMMPfam_Ion_trans,superfamily_SSF81324
KCNA3	3738	genome.wustl.edu	37	1	111216034	111216034	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_002232.3	-1	reviewed	p.I466	1.000	82	0%	141	16.3%	0	-	-	-	-	HMMPfam_Ion_trans,superfamily_SSF81324
CEPT1	10390	genome.wustl.edu	37	1	111725424	111725424	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001007794.1	+1	reviewed	p.T284A	1.000	441	0%	123	10.6%	8	0%	probably_damaging(0.999)	deleterious(0.02)	deleterious(0.873)	NULL
DENND2D	79961	genome.wustl.edu	37	1	111734940	111734940	+	Splice_Site	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_024901.3	-1	provisional	e8-1	1.000	74	0%	47	10.6%	0	-	-	-	-	-
CHI3L2	1117	genome.wustl.edu	37	1	111778755	111778755	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_004000.2	+1	validated	p.P239S	0.001	115	0%	180	22.2%	3	0%	benign(0)	tolerated(0.58)	neutral(0.005)	HMMPfam_Glyco_hydro_18,HMMSmart_Glyco_18,superfamily_Glyco_hydro_cat
OVGP1	5016	genome.wustl.edu	37	1	111957338	111957338	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_002557.3	-1	reviewed	p.E595	0.000	201	0%	47	12.8%	7	28.5%	-	-	-	NULL
OVGP1	5016	genome.wustl.edu	37	1	111968105	111968105	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	ENST00000369728	-1	known	p.G137R	0.000	228	0%	77	11.7%	0	-	benign(0.359)	tolerated(0.08)	neutral(0.414)	HMMPfam_Glyco_hydro_18,HMMSmart_SM00636,superfamily_(Trans)glycosidases
WDR77	79084	genome.wustl.edu	37	1	111985955	111985955	+	Silent	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	ENST00000449340	-1	known	p.S164Y	1.000	97	0%	89	22.5%	23	17.3%	-	-	-	HMMSmart_SM00320,superfamily_WD40 repeat-like
ATP5F1	515	genome.wustl.edu	37	1	111998778	111998778	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001688.4	+1	reviewed	p.E98D	0.996	627	0.2%	381	21.5%	78	17.9%	possibly_damaging(0.468)	tolerated(0.07)	deleterious(0.473)	HMMPfam_Mt_ATP-synt_B
C1orf162	128346	genome.wustl.edu	37	1	112018681	112018681	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_174896.2	+1	provisional	p.D11N	0.000	169	0%	54	31.5%	7	0%	possibly_damaging(0.605)	tolerated(0.51)	neutral(0.218)	NULL
ADORA3	140	genome.wustl.edu	37	1	112106489	112106489	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001081976.1	-1	reviewed	p.G29D	0.000	78	0%	41	14.6%	0	-	unknown(0)	tolerated(0.44)	-	NULL
DDX20	11218	genome.wustl.edu	37	1	112303660	112303660	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_007204.4	+1	reviewed	p.V292A	1.000	644	0%	722	12.6%	4	25%	benign(0.001)	tolerated(0.77)	neutral(0.001)	superfamily_SSF52540
KCND3	3752	genome.wustl.edu	37	1	112318791	112318791	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_004980.3	-1	reviewed	p.E626K	1.000	234	0%	87	28.7%	0	-	possibly_damaging(0.465)	deleterious(0.04)	deleterious(0.502)	NULL
KCND3	3752	genome.wustl.edu	37	1	112524895	112524895	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_004980.3	-1	reviewed	p.D152N	1.000	26	3.8%	70	24.3%	2	0%	benign(0.008)	tolerated(0.46)	neutral(0.012)	NULL
WNT2B	7482	genome.wustl.edu	37	1	113057667	113057667	+	Silent	SNP	T	T	C	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_024494.2	+1	reviewed	p.C118	1.000	70	0%	68	29.4%	0	-	-	-	-	HMMPfam_wnt,HMMSmart_SM00097
WNT2B	7482	genome.wustl.edu	37	1	113058999	113058999	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_024494.2	+1	reviewed	p.R214Q	1.000	149	0%	147	10.9%	1	0%	probably_damaging(0.998)	deleterious(0.02)	deleterious(0.857)	HMMPfam_wnt,HMMSmart_SM00097
WNT2B	7482	genome.wustl.edu	37	1	113059864	113059864	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_024494.2	+1	reviewed	p.R268H	1.000	40	0%	48	29.2%	1	0%	possibly_damaging(0.936)	deleterious(0)	deleterious(0.826)	HMMPfam_wnt,HMMSmart_SM00097
ST7L	54879	genome.wustl.edu	37	1	113084646	113084646	+	Missense_Mutation	SNP	A	A	C	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_017744.4	-1	reviewed	p.F519C	1.000	352	0%	104	26.9%	5	40%	benign(0.257)	deleterious(0)	deleterious(0.471)	HMMPfam_ST7
PPM1J	333926	genome.wustl.edu	37	1	113253975	113253975	+	Missense_Mutation	SNP	T	T	G	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_005167.5	-1	reviewed	p.E320A	1.000	68	0%	111	22.5%	2	0%	probably_damaging(0.994)	deleterious(0.01)	deleterious(0.858)	HMMSmart_SM00332,superfamily_Protein serine/threonine phosphatase 2C catalytic domain
MAGI3	260425	genome.wustl.edu	37	1	114123176	114123176	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001142782.1	+1	validated	p.A149V	1.000	190	0%	51	19.6%	0	-	benign(0.07)	tolerated(0.25)	neutral(0.042)	HMMPfam_Guanylate_kin,HMMSmart_GuKc,PatternScan_GUANYLATE_KINASE_1,superfamily_SSF52540
MAGI3	260425	genome.wustl.edu	37	1	114165542	114165542	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001142782.1	+1	validated	p.R429I	0.997	384	0%	158	25.3%	1	0%	probably_damaging(0.999)	deleterious(0)	deleterious(0.935)	HMMPfam_PDZ,HMMSmart_PDZ,superfamily_PDZ
MAGI3	260425	genome.wustl.edu	37	1	114184535	114184535	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001142782.1	+1	validated	p.D455N	1.000	276	0%	88	11.4%	0	-	probably_damaging(1)	deleterious(0)	deleterious(0.945)	HMMPfam_PDZ,HMMSmart_PDZ,superfamily_PDZ
MAGI3	260425	genome.wustl.edu	37	1	114191891	114191891	+	Nonsense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001142782.1	+1	validated	p.R730*	1.000	287	0%	77	23.4%	0	-	-	-	-	HMMPfam_PDZ,superfamily_PDZ
MAGI3	260425	genome.wustl.edu	37	1	114193755	114193755	+	Silent	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001142782.1	+1	validated	p.V789	1.000	353	0%	84	25%	0	-	-	-	-	HMMPfam_PDZ,HMMSmart_PDZ,superfamily_PDZ
MAGI3	260425	genome.wustl.edu	37	1	114216046	114216046	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001142782.1	+1	validated	p.L1050I	0.995	173	0%	90	13.3%	0	-	probably_damaging(0.997)	tolerated(0.31)	deleterious(0.493)	HMMPfam_PDZ,HMMSmart_PDZ,superfamily_PDZ
RSBN1	54665	genome.wustl.edu	37	1	114310956	114310956	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_018364.3	-1	validated	p.E572K	1.000	475	0%	285	27%	6	0%	probably_damaging(0.971)	deleterious(0)	deleterious(0.857)	NULL
LOC100287722	100287722	genome.wustl.edu	37	1	114442634	114442634	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	XM_002342103.1	+1	model	p.S33N	1.000	133	0%	146	26.7%	8	37.5%	-	-	-	NULL
DCLRE1B	64858	genome.wustl.edu	37	1	114449692	114449692	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_022836.3	+1	validated	p.E88D	1.000	395	0%	446	26%	1	0%	probably_damaging(0.993)	tolerated(0.4)	neutral(0.466)	HMMPfam_Lactamase_B,superfamily_SSF56281
DCLRE1B	64858	genome.wustl.edu	37	1	114454072	114454072	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_022836.3	+1	validated	p.V286	0.000	163	0%	147	17.7%	2	100%	-	-	-	HMMPfam_DRMBL
SYT6	148281	genome.wustl.edu	37	1	114680476	114680476	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_205848.2	-1	validated	p.R153C	0.967	224	0%	129	18.6%	0	-	probably_damaging(0.954)	tolerated(0.09)	deleterious(0.694)	superfamily_C2_CaLB
DENND2C	163259	genome.wustl.edu	37	1	115137117	115137117	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_198459.3	-1	validated	p.T746N	0.323	548	0.2%	208	19.7%	0	-	benign(0)	tolerated(0.6)	neutral(0.004)	NULL
DENND2C	163259	genome.wustl.edu	37	1	115168562	115168562	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_198459.3	-1	validated	p.R15I	1.000	163	0%	111	29.7%	0	-	probably_damaging(1)	deleterious(0)	deleterious(0.945)	NULL
AMPD1	270	genome.wustl.edu	37	1	115215809	115215809	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_000036.2	-1	reviewed	p.R724C	1.000	329	0%	422	13.5%	0	-	probably_damaging(1)	deleterious(0)	deleterious(0.945)	NULL
AMPD1	270	genome.wustl.edu	37	1	115221096	115221096	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_000036.2	-1	reviewed	p.R317H	1.000	366	0%	249	24.5%	0	-	benign(0.154)	deleterious(0.01)	neutral(0.419)	HMMPfam_A_deaminase,superfamily_SSF51556
AMPD1	270	genome.wustl.edu	37	1	115226942	115226942	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_000036.2	-1	reviewed	p.R142Q	1.000	169	0%	76	10.5%	0	-	possibly_damaging(0.864)	tolerated(0.16)	neutral(0.394)	NULL
CSDE1	7812	genome.wustl.edu	37	1	115262239	115262239	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001130523.1	-1	validated	p.R741H	1.000	175	0%	237	26.6%	216	1.3%	probably_damaging(1)	deleterious(0)	deleterious(0.945)	HMMPfam_CSD,HMMSmart_SM00357,superfamily_Nucleic acid-binding proteins
CSDE1	7812	genome.wustl.edu	37	1	115263239	115263239	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001130523.1	-1	validated	p.V673A	1.000	352	0%	397	25.2%	144	9%	benign(0.069)	tolerated(0.19)	neutral(0.054)	NULL
CSDE1	7812	genome.wustl.edu	37	1	115275266	115275266	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001130523.1	-1	validated	p.L352M	1.000	499	0%	130	21.5%	50	0%	probably_damaging(1)	tolerated(0.07)	deleterious(0.819)	NULL
CSDE1	7812	genome.wustl.edu	37	1	115277125	115277125	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001130523.1	-1	validated	p.R189C	1.000	255	0%	84	27.4%	33	9%	probably_damaging(0.999)	tolerated(0.19)	deleterious(0.540)	NULL
CSDE1	7812	genome.wustl.edu	37	1	115280598	115280598	+	Nonsense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001130523.1	-1	validated	p.R145*	1.000	719	0.3%	193	19.7%	29	0%	-	-	-	NULL
SYCP1	6847	genome.wustl.edu	37	1	115466111	115466111	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_003176.2	+1	validated	p.R587I	1.000	216	0%	72	20.8%	0	-	benign(0.16)	tolerated(0.05)	neutral(0.360)	HMMPfam_SCP-1
NGF	4803	genome.wustl.edu	37	1	115829175	115829175	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_002506.2	-1	reviewed	p.R81Q	0.559	79	0%	128	13.3%	2	0%	benign(0.404)	deleterious(0.04)	deleterious(0.479)	NULL
MAB21L3	126868	genome.wustl.edu	37	1	116670788	116670788	+	Missense_Mutation	SNP	C	C	G	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_152367.2	+1	validated	p.A228G	1.000	466	0%	170	25.3%	0	-	benign(0.208)	deleterious(0.01)	neutral(0.426)	NULL
MAB21L3	126868	genome.wustl.edu	37	1	116675979	116675979	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_152367.2	+1	validated	p.P361L	0.573	63	0%	39	28.2%	0	-	benign(0)	tolerated(1)	-	NULL
IGSF3	3321	genome.wustl.edu	37	1	117142745	117142745	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001542.2	-1	validated	p.R636Q	0.997	71	0%	40	40%	2	0%	probably_damaging(1)	tolerated(0.29)	deleterious(0.529)	HMMSmart_IG,HMMPfam_ig,superfamily_SSF48726
MIR320B1	100302117	genome.wustl.edu	37	1	117214384	117214384	+	RNA	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	ENST00000390209	+1	known	NULL	0.000	227	0%	231	27.3%	0	-	-	-	-	-
PTGFRN	5738	genome.wustl.edu	37	1	117503975	117503975	+	Nonsense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_020440.2	+1	provisional	p.R442*	0.985	128	0%	45	33.3%	4	0%	-	-	-	HMMSmart_SM00406,HMMSmart_SM00409,HMMPfam_ig,superfamily_Immunoglobulin
CD101	9398	genome.wustl.edu	37	1	117554397	117554397	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_004258.3	+1	validated	p.F217S	0.998	151	0%	58	19%	0	-	probably_damaging(0.999)	tolerated(0.2)	deleterious(0.539)	HMMSmart_IG,HMMPfam_V-set,superfamily_SSF48726
CD101	9398	genome.wustl.edu	37	1	117561163	117561163	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_004258.3	+1	validated	p.R666	0.000	81	0%	34	17.6%	0	-	-	-	-	HMMSmart_IG
GDAP2	54834	genome.wustl.edu	37	1	118426194	118426194	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_017686.3	-1	validated	p.L388S	0.995	282	0%	76	14.5%	3	0%	benign(0.273)	deleterious(0.01)	neutral(0.435)	HMMSmart_SM00516,superfamily_CRAL/TRIO domain
WDR3	10885	genome.wustl.edu	37	1	118486165	118486165	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_006784.2	+1	reviewed	p.R415H	1.000	239	0%	81	14.8%	5	60%	probably_damaging(1)	tolerated(0.14)	deleterious(0.750)	HMMSmart_SM00320,superfamily_WD40 repeat-like,HMMPfam_WD40
WDR3	10885	genome.wustl.edu	37	1	118492750	118492750	+	Silent	SNP	A	A	G	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_006784.2	+1	reviewed	p.L581	1.000	410	0%	114	28.1%	1	100%	-	-	-	HMMSmart_SM00320,superfamily_WD40 repeat-like,HMMPfam_WD40
SPAG17	200162	genome.wustl.edu	37	1	118558739	118558739	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_206996.2	-1	validated	p.A1379V	0.000	451	0%	103	22.3%	0	-	benign(0)	tolerated(0.45)	neutral(0.012)	NULL
HAO2	51179	genome.wustl.edu	37	1	119934774	119934774	+	Missense_Mutation	SNP	A	A	C	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001005783.1	+1	reviewed	p.K271N	0.000	353	0%	87	12.6%	0	-	benign(0.059)	tolerated(0.07)	neutral(0.323)	HMMPfam_FMN_dh,superfamily_FMN-linked oxidoreductases
HSD3B2	3284	genome.wustl.edu	37	1	119964842	119964842	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_000198.3	+1	reviewed	p.R240W	0.087	140	2.1%	32	18.8%	0	-	probably_damaging(0.996)	deleterious(0)	deleterious(0.906)	HMMPfam_3Beta_HSD,superfamily_NAD(P)-binding Rossmann-fold domains
HMGCS2	3158	genome.wustl.edu	37	1	120307000	120307000	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_005518.3	-1	reviewed	p.Q118	0.520	159	0%	34	11.8%	0	-	-	-	-	HMMPfam_HMG_CoA_synt_N,superfamily_Thiolase-like
NBPF7	343505	genome.wustl.edu	37	1	120384162	120384162	+	Silent	SNP	G	G	T	rs78204967	byFrequency;by1000genomes	TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001047980.1	-1	predicted	p.R134	0.006	285	0%	116	23.3%	0	-	-	-	-	NULL
ADAM30	11085	genome.wustl.edu	37	1	120438188	120438188	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_021794.2	-1	reviewed	p.D258Y	0.000	193	0%	236	38.6%	0	-	benign(0.084)	tolerated(0.41)	neutral(0.021)	"HMMPfam_Reprolysin,superfamily_Metalloproteases (""zincins"") catalytic domain"
NOTCH2	4853	genome.wustl.edu	37	1	120458306	120458306	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_024408.2	-1	reviewed	p.R2347C	1.000	70	0%	42	33.3%	5	0%	benign(0.017)	deleterious(0.03)	neutral(0.365)	NULL
PPIAL4G	644591	genome.wustl.edu	37	1	143767581	143767581	+	Nonsense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001123068.1	-1	validated	p.R90*	0.969	233	0.4%	55	16.4%	0	-	-	-	-	HMMPfam_Pro_isomerase,superfamily_CSA_PPIase
PDE4DIP	9659	genome.wustl.edu	37	1	145015988	145015988	+	Nonsense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_022359.4	-1	validated	p.R105*	0.986	606	0%	237	9.7%	3	0%	-	-	-	NULL
HFE2	148738	genome.wustl.edu	37	1	145416335	145416335	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_213653.3	+1	reviewed	p.M227T	1.000	240	0.4%	367	19.9%	0	-	possibly_damaging(0.84)	tolerated(0.31)	neutral(0.349)	HMMPfam_RGM_N
POLR3GL	84265	genome.wustl.edu	37	1	145457947	145457947	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_032305.1	-1	provisional	p.D105N	1.000	200	0%	227	13.7%	16	0%	possibly_damaging(0.658)	deleterious(0.01)	deleterious(0.638)	NULL
ANKRD35	148741	genome.wustl.edu	37	1	145561915	145561915	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_144698.3	+1	validated	p.E535K	1.000	48	0%	74	25.7%	0	-	possibly_damaging(0.945)	deleterious(0)	deleterious(0.834)	NULL
PIAS3	10401	genome.wustl.edu	37	1	145584141	145584141	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_006099.3	+1	reviewed	p.S431I	1.000	213	0%	280	10%	11	0%	benign(0.358)	tolerated(0.07)	neutral(0.432)	NULL
POLR3C	10623	genome.wustl.edu	37	1	145608133	145608133	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_006468.6	-1	provisional	p.Y188	1.000	471	0%	640	11.6%	6	0%	-	-	-	HMMPfam_RNA_pol_Rpc82
BCL9	607	genome.wustl.edu	37	1	147095728	147095728	+	Silent	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_004326.2	+1	reviewed	p.T1083	0.994	107	0%	46	21.7%	7	42.8%	-	-	-	NULL
GJA5	2702	genome.wustl.edu	37	1	147230595	147230595	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_005266.5	-1	reviewed	p.S251Y	0.014	153	0%	62	25.8%	6	0%	benign(0.159)	tolerated(0.15)	neutral(0.255)	NULL
GJA8	2703	genome.wustl.edu	37	1	147380834	147380834	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_005267.4	+1	reviewed	p.S251F	0.892	110	0%	161	28.6%	0	-	possibly_damaging(0.746)	deleterious(0)	deleterious(0.719)	NULL
GJA8	2703	genome.wustl.edu	37	1	147381156	147381156	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_005267.4	+1	reviewed	p.T358	0.000	139	0%	153	29.4%	0	-	-	-	-	NULL
NBPF14	25832	genome.wustl.edu	37	1	148025816	148025816	+	Nonsense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_015383.1	-1	predicted	p.R6*	0.001	188	0%	90	16.7%	0	-	-	-	-	NULL
SV2A	9900	genome.wustl.edu	37	1	149878200	149878200	+	Splice_Site	SNP	A	A	G	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_014849.3	-1	validated	e10+2	0.999	81	0%	100	29%	0	-	-	-	-	-
SV2A	9900	genome.wustl.edu	37	1	149881106	149881106	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_014849.3	-1	validated	p.T399	0.169	184	0%	207	10.6%	1	0%	-	-	-	HMMPfam_MFS_1,superfamily_MFS general substrate transporter
VPS45	11311	genome.wustl.edu	37	1	150039946	150039946	+	Frame_Shift_Del	DEL	T	T	-	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_007259.3	+1	reviewed	p.S12fs	1.000	-	-	-	-	-	-	-	-	-	superfamily_Sec1/munc18-like (SM) proteins
ENSG00000245214	0	genome.wustl.edu	37	1	150130961	150130961	+	RNA	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	ENST00000430673	-1	novel	NULL	0.008	59	0%	51	19.6%	1	0%	-	-	-	-
ANP32E	81611	genome.wustl.edu	37	1	150208100	150208100	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_030920.3	-1	validated	p.R12K	1.000	582	0%	870	25.2%	21	23.8%	benign(0.022)	tolerated(0.16)	neutral(0.060)	NULL
CA14	23632	genome.wustl.edu	37	1	150234014	150234014	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_012113.1	+1	reviewed	p.D78G	0.998	105	0%	106	23.6%	0	-	benign(0.038)	tolerated(0.39)	neutral(0.018)	HMMPfam_Carb_anhydrase,superfamily_Carbonic anhydrase
C1orf54	79630	genome.wustl.edu	37	1	150252068	150252068	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_024579.3	+1	validated	p.N105	0.083	481	0.2%	331	25.7%	77	0%	-	-	-	NULL
C1orf51	148523	genome.wustl.edu	37	1	150255727	150255727	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_144697.2	+1	predicted	p.S17L	0.993	649	0%	376	21%	0	-	unknown(0)	deleterious(0)	-	NULL
MRPS21	54460	genome.wustl.edu	37	1	150280607	150280607	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_018997.2	+1	reviewed	p.R70H	0.997	84	0%	53	35.8%	579	29%	benign(0.001)	deleterious(0.01)	neutral(0.406)	NULL
PRPF3	9129	genome.wustl.edu	37	1	150310701	150310701	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_004698.2	+1	reviewed	p.S367	0.304	266	0%	98	28.6%	19	10.5%	-	-	-	HMMPfam_PRP3
PRPF3	9129	genome.wustl.edu	37	1	150317014	150317014	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_004698.2	+1	reviewed	p.S544Y	1.000	184	0%	69	17.4%	17	23.5%	possibly_damaging(0.558)	deleterious(0)	deleterious(0.635)	HMMPfam_PRP3
PRPF3	9129	genome.wustl.edu	37	1	150318900	150318900	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_004698.2	+1	reviewed	p.K592N	1.000	287	0%	126	24.6%	25	4%	possibly_damaging(0.934)	deleterious(0.03)	deleterious(0.744)	HMMPfam_PRP3
TARS2	80222	genome.wustl.edu	37	1	150471057	150471057	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_025150.3	+1	provisional	p.E440K	1.000	48	0%	35	37.1%	18	22.2%	probably_damaging(0.995)	deleterious(0.01)	deleterious(0.863)	HMMPfam_tRNA-synt_2b,superfamily_SSF55681
ECM1	1893	genome.wustl.edu	37	1	150484986	150484986	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_004425.3	+1	reviewed	p.I414	1.000	165	0%	228	21.5%	180	0.5%	-	-	-	HMMPfam_ECM1
ADAMTSL4	54507	genome.wustl.edu	37	1	150527920	150527920	+	Missense_Mutation	SNP	G	G	A	rs185549053	by1000genomes	TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_019032.4	+1	reviewed	p.R417H	1.000	96	0%	175	29.1%	0	-	possibly_damaging(0.941)	tolerated(0.11)	deleterious(0.658)	NULL
LOC100289061	100289061	genome.wustl.edu	37	1	150529093	150529093	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	XM_002342133.1	-1	model	p.A256V	0.005	50	0%	84	11.9%	0	-	-	-	-	NULL
ADAMTSL4	54507	genome.wustl.edu	37	1	150529703	150529703	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_019032.4	+1	reviewed	p.R647W	1.000	24	0%	42	16.7%	7	0%	probably_damaging(0.999)	tolerated(0.07)	deleterious(0.809)	NULL
ADAMTSL4	54507	genome.wustl.edu	37	1	150529979	150529979	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_019032.4	+1	reviewed	p.R686H	0.998	20	0%	31	22.6%	3	0%	benign(0.006)	tolerated(0.57)	neutral(0.006)	superfamily_TSP-1 type 1 repeat
ADAMTSL4	54507	genome.wustl.edu	37	1	150531849	150531849	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_019032.4	+1	reviewed	p.P950	0.000	46	0%	97	17.5%	14	0%	-	-	-	HMMSmart_SM00209,superfamily_TSP-1 type 1 repeat
GOLPH3L	55204	genome.wustl.edu	37	1	150667290	150667290	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_018178.5	-1	reviewed	p.R9C	1.000	439	0.7%	165	26.1%	6	16.6%	probably_damaging(1)	deleterious(0)	deleterious(0.945)	NULL
HORMAD1	84072	genome.wustl.edu	37	1	150689715	150689715	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_032132.3	-1	provisional	p.S26Y	1.000	214	0%	208	23.1%	0	-	probably_damaging(1)	deleterious(0)	deleterious(0.945)	HMMPfam_HORMA,superfamily_The spindle assembly checkpoint protein mad2
CTSK	1513	genome.wustl.edu	37	1	150778356	150778356	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_000396.2	-1	reviewed	p.V127A	1.000	165	0%	52	30.8%	292	0.3%	probably_damaging(0.991)	deleterious(0.01)	deleterious(0.850)	HMMPfam_Peptidase_C1,HMMSmart_SM00645,superfamily_Cysteine proteinases
ARNT	405	genome.wustl.edu	37	1	150789599	150789599	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001668.2	-1	reviewed	p.R553I	1.000	315	0%	70	17.1%	11	0%	probably_damaging(0.986)	deleterious(0)	deleterious(0.879)	NULL
SETDB1	9869	genome.wustl.edu	37	1	150900433	150900433	+	Silent	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001145415.1	+1	reviewed	p.L81	1.000	184	0%	105	13.3%	1	0%	-	-	-	NULL
ANXA9	8416	genome.wustl.edu	37	1	150960763	150960763	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_003568.2	+1	validated	p.S266	0.017	349	0%	260	28.1%	0	-	-	-	-	superfamily_Annexin
GABPB2	126626	genome.wustl.edu	37	1	151062888	151062888	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_144618.2	+1	validated	p.T39A	1.000	257	0%	107	19.6%	1	100%	benign(0.095)	tolerated(0.06)	neutral(0.330)	HMMPfam_Ank,HMMSmart_ANK,superfamily_ANK
SEMA6C	10500	genome.wustl.edu	37	1	151111187	151111187	+	Silent	SNP	A	A	G	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_030913.4	-1	reviewed	p.I125	0.999	230	0%	324	25.6%	3	0%	-	-	-	HMMPfam_Sema,HMMSmart_SM00630,superfamily_Sema domain
TNFAIP8L2	79626	genome.wustl.edu	37	1	151131355	151131355	+	Missense_Mutation	SNP	A	A	C	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_024575.3	+1	validated	p.K61T	1.000	52	0%	45	17.8%	0	-	probably_damaging(0.996)	deleterious(0)	deleterious(0.906)	HMMPfam_DUF758
PIP5K1A	8394	genome.wustl.edu	37	1	151206804	151206804	+	Silent	SNP	A	A	G	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001135638.1	+1	validated	p.K257	1.000	185	0%	81	18.5%	5	20%	-	-	-	HMMPfam_PIP5K,HMMSmart_SM00330,superfamily_SAICAR synthase-like
ZNF687	57592	genome.wustl.edu	37	1	151262468	151262468	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	ENST00000426871	+1	known	p.R586K	1.000	38	0%	50	32%	11	27.2%	-	-	-	PatternScan_ZINC_FINGER_C2H2_1,HMMSmart_SM00355,superfamily_C2H2 and C2HC zinc fingers
RFX5	5993	genome.wustl.edu	37	1	151316921	151316921	+	Nonsense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_000449.3	-1	reviewed	p.R149*	1.000	103	0%	50	14%	9	0%	-	-	-	HMMPfam_RFX_DNA_binding,superfamily_SSF46785
RFX5	5993	genome.wustl.edu	37	1	151317625	151317625	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_000449.3	-1	reviewed	p.L64I	1.000	329	0%	147	10.9%	2	0%	probably_damaging(1)	deleterious(0)	deleterious(0.945)	NULL
RFX5	5993	genome.wustl.edu	37	1	151318681	151318681	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_000449.3	-1	reviewed	p.S39F	1.000	115	0%	70	27.1%	3	0%	probably_damaging(0.998)	deleterious(0)	deleterious(0.919)	NULL
SELENBP1	8991	genome.wustl.edu	37	1	151338789	151338789	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_003944.2	-1	reviewed	p.A269T	1.000	88	0%	56	17.9%	46	6.5%	benign(0.03)	deleterious(0.03)	neutral(0.366)	HMMPfam_SBP56,superfamily_Cyt_cd1_haem_C
POGZ	23126	genome.wustl.edu	37	1	151379717	151379717	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_015100.2	-1	reviewed	p.S809Y	1.000	282	0%	151	18.5%	4	0%	benign(0.002)	tolerated(0.18)	neutral(0.056)	NULL
POGZ	23126	genome.wustl.edu	37	1	151396426	151396426	+	Nonsense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_015100.2	-1	reviewed	p.R508*	1.000	234	0%	84	14.3%	3	66.6%	-	-	-	PatternScan_ZINC_FINGER_C2H2_1,HMMSmart_SM00355,superfamily_C2H2 and C2HC zinc fingers
POGZ	23126	genome.wustl.edu	37	1	151396465	151396465	+	Nonsense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_015100.2	-1	reviewed	p.R495*	1.000	333	0%	101	12.9%	0	-	-	-	-	HMMSmart_SM00355,superfamily_C2H2 and C2HC zinc fingers
TUFT1	7286	genome.wustl.edu	37	1	151551285	151551285	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_020127.2	+1	validated	p.R303W	0.989	146	0%	50	32%	5	20%	probably_damaging(1)	deleterious(0)	deleterious(0.945)	NULL
OAZ3	51686	genome.wustl.edu	37	1	151740703	151740703	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_016178.2	+1	reviewed	p.R158Q	0.783	169	0%	276	26.1%	4	25%	benign(0.066)	deleterious(0.01)	neutral(0.410)	HMMPfam_ODC_AZ
TDRKH	11022	genome.wustl.edu	37	1	151754015	151754015	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001083963.1	-1	validated	p.R58Q	1.000	236	0%	174	16.7%	0	-	possibly_damaging(0.948)	tolerated(0.25)	neutral(0.428)	HMMSmart_SM00322,HMMPfam_KH_1,superfamily_Eukaryotic type KH-domain (KH-domain type I)
LINGO4	339398	genome.wustl.edu	37	1	151774544	151774544	+	Nonsense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001004432.2	-1	provisional	p.E213*	0.964	28	0%	32	12.5%	0	-	-	-	-	superfamily_SSF52058
TCHH	7062	genome.wustl.edu	37	1	152081285	152081285	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_007113.2	-1	provisional	p.L1470F	0.001	325	0%	365	10.7%	0	-	unknown(0)	-	-	NULL
TCHH	7062	genome.wustl.edu	37	1	152082476	152082476	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_007113.2	-1	provisional	p.R1073C	0.144	545	0%	759	22.5%	0	-	unknown(0)	-	-	NULL
HRNR	388697	genome.wustl.edu	37	1	152187195	152187195	+	Nonsense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001009931.1	-1	validated	p.R2304*	0.001	513	0%	397	6%	0	-	-	-	-	NULL
FLG	2312	genome.wustl.edu	37	1	152276087	152276087	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_002016.1	-1	reviewed	p.R3759C	0.000	466	0%	174	20.1%	0	-	probably_damaging(0.999)	deleterious(0.01)	deleterious(0.896)	NULL
FLG	2312	genome.wustl.edu	37	1	152277059	152277059	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_002016.1	-1	reviewed	p.R3435C	0.000	498	0%	207	22.2%	0	-	probably_damaging(1)	deleterious(0.02)	deleterious(0.883)	NULL
FLG	2312	genome.wustl.edu	37	1	152277905	152277905	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_002016.1	-1	reviewed	p.R3153C	0.027	424	0%	174	14.4%	0	-	unknown(0)	tolerated(0.07)	-	NULL
FLG	2312	genome.wustl.edu	37	1	152278734	152278734	+	Silent	SNP	T	T	C	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_002016.1	-1	reviewed	p.G2876	0.000	336	0%	141	29.8%	0	-	-	-	-	HMMPfam_Filaggrin
FLG	2312	genome.wustl.edu	37	1	152282500	152282500	+	Missense_Mutation	SNP	G	G	A	rs184838337	by1000genomes	TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_002016.1	-1	reviewed	p.S1621F	0.001	261	0%	146	17.8%	0	-	unknown(0)	deleterious(0.05)	-	NULL
FLG	2312	genome.wustl.edu	37	1	152285878	152285878	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_002016.1	-1	reviewed	p.S495L	0.000	391	0%	185	11.9%	0	-	probably_damaging(0.998)	deleterious(0.02)	deleterious(0.857)	NULL
FLG2	388698	genome.wustl.edu	37	1	152323753	152323753	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001014342.2	-1	provisional	p.S2170Y	0.006	589	0.2%	163	22.7%	0	-	probably_damaging(1)	deleterious(0.03)	deleterious(0.865)	NULL
CRNN	49860	genome.wustl.edu	37	1	152382201	152382201	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_016190.2	-1	reviewed	p.L453F	0.000	209	0%	145	13.1%	0	-	benign(0)	tolerated(0.1)	neutral(0.286)	NULL
CRNN	49860	genome.wustl.edu	37	1	152382523	152382523	+	Silent	SNP	T	T	C	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_016190.2	-1	reviewed	p.G345	0.050	270	0%	212	22.2%	0	-	-	-	-	NULL
CRNN	49860	genome.wustl.edu	37	1	152384674	152384674	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_016190.2	-1	reviewed	p.I12	0.972	139	0%	102	26.5%	0	-	-	-	-	HMMPfam_S_100,superfamily_SSF47473
LCE5A	254910	genome.wustl.edu	37	1	152484174	152484174	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_178438.4	+1	validated	p.S55I	0.872	192	0%	240	22.9%	0	-	unknown(0)	-	-	NULL
LCE3E	353145	genome.wustl.edu	37	1	152538508	152538508	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_178435.2	-1	validated	p.R59	0.755	61	0%	77	10.4%	0	-	-	-	-	NULL
LCE3B	353143	genome.wustl.edu	37	1	152586439	152586439	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_178433.1	+1	validated	p.G51	0.068	54	1.9%	35	34.3%	0	-	-	-	-	NULL
KPRP	448834	genome.wustl.edu	37	1	152732735	152732735	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001025231.1	+1	provisional	p.R224Q	0.012	133	0%	112	16.1%	0	-	possibly_damaging(0.615)	tolerated(0.37)	neutral(0.232)	NULL
LCE1E	353135	genome.wustl.edu	37	1	152760048	152760048	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_178353.1	+1	validated	p.Q91	0.009	60	0%	73	12.3%	0	-	-	-	-	NULL
IVL	3713	genome.wustl.edu	37	1	152882789	152882789	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_005547.2	+1	reviewed	p.Q172	0.000	98	0%	59	30.5%	0	-	-	-	-	HMMPfam_Involucrin
SPRR2E	6704	genome.wustl.edu	37	1	153066120	153066120	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001024209.2	-1	validated	p.C36	0.000	335	0%	168	16.7%	0	-	-	-	-	NULL
LELP1	149018	genome.wustl.edu	37	1	153177188	153177188	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001010857.1	+1	provisional	p.S2L	0.999	136	0.7%	57	15.8%	0	-	possibly_damaging(0.767)	deleterious(0)	deleterious(0.729)	NULL
LELP1	149018	genome.wustl.edu	37	1	153177240	153177240	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001010857.1	+1	provisional	p.C19	0.856	196	0%	81	25.9%	0	-	-	-	-	NULL
LELP1	149018	genome.wustl.edu	37	1	153177312	153177312	+	Missense_Mutation	SNP	T	T	G	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001010857.1	+1	provisional	p.C43W	0.190	164	0%	86	27.9%	0	-	probably_damaging(0.978)	deleterious(0)	deleterious(0.865)	NULL
PGLYRP3	114771	genome.wustl.edu	37	1	153283136	153283136	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_052891.1	-1	provisional	p.G2	0.074	166	0%	56	25%	0	-	-	-	-	NULL
S100A8	6279	genome.wustl.edu	37	1	153362654	153362654	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_002964.3	-1	reviewed	p.Q69H	0.935	219	0%	148	10.8%	26	0%	possibly_damaging(0.845)	deleterious(0)	deleterious(0.768)	PatternScan_S100_CABP,PatternScan_EF_HAND_1,HMMPfam_efhand,superfamily_SSF47473
S100A7L2	645922	genome.wustl.edu	37	1	153410766	153410766	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001045479.1	-1	validated	p.V25F	0.000	338	0%	158	13.3%	0	-	benign(0.418)	deleterious(0.01)	deleterious(0.541)	superfamily_EF-hand
S100A5	6276	genome.wustl.edu	37	1	153509798	153509798	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_002962.1	-1	reviewed	p.D103N	0.982	189	0%	278	27.3%	1	0%	probably_damaging(0.996)	tolerated(0.13)	deleterious(0.714)	superfamily_SSF47473
S100A1	6271	genome.wustl.edu	37	1	153603081	153603081	+	Missense_Mutation	SNP	G	G	T	rs141525153	by1000genomes	TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_006271.1	+1	reviewed	p.K28N	1.000	162	0.6%	124	12.9%	32	6.2%	probably_damaging(0.991)	deleterious(0)	deleterious(0.889)	HMMPfam_S_100,superfamily_EF-hand
ILF2	3608	genome.wustl.edu	37	1	153636566	153636566	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_004515.2	-1	reviewed	p.R233C	1.000	278	0.4%	321	12.1%	114	1.7%	probably_damaging(1)	deleterious(0)	deleterious(0.945)	HMMPfam_DZF,HMMSmart_SM00572
INTS3	65123	genome.wustl.edu	37	1	153723672	153723672	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_023015.3	+1	validated	p.R229Q	1.000	175	0%	94	20.2%	2	50%	probably_damaging(1)	deleterious(0.02)	deleterious(0.883)	NULL
INTS3	65123	genome.wustl.edu	37	1	153727211	153727211	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_023015.3	+1	validated	p.S318F	1.000	188	0%	78	29.5%	7	14.2%	probably_damaging(0.999)	deleterious(0)	deleterious(0.935)	HMMPfam_DUF2356
INTS3	65123	genome.wustl.edu	37	1	153735786	153735786	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_023015.3	+1	validated	p.D572Y	0.998	216	0%	137	13.1%	9	11.1%	benign(0.033)	deleterious(0.02)	neutral(0.385)	NULL
DENND4B	9909	genome.wustl.edu	37	1	153904724	153904724	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_014856.2	-1	validated	p.P1318S	0.997	24	0%	68	20.6%	11	0%	probably_damaging(0.996)	deleterious(0.02)	deleterious(0.845)	NULL
DENND4B	9909	genome.wustl.edu	37	1	153913386	153913386	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_014856.2	-1	validated	p.L440	0.175	16	0%	30	30%	2	0%	-	-	-	HMMPfam_DENN,HMMSmart_DENN
CRTC2	200186	genome.wustl.edu	37	1	153920692	153920692	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_181715.1	-1	provisional	p.R659C	0.963	106	0%	219	32.4%	84	16.6%	benign(0.001)	deleterious(0)	neutral(0.445)	NULL
CREB3L4	148327	genome.wustl.edu	37	1	153945517	153945517	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_130898.2	+1	provisional	p.R236W	0.998	281	0.4%	355	29.6%	8	50%	probably_damaging(1)	deleterious(0)	deleterious(0.945)	HMMSmart_BRLZ,superfamily_Euk_transcr_DNA,HMMPfam_bZIP_1
RPS27	6232	genome.wustl.edu	37	1	153964056	153964056	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001030.4	+1	reviewed	p.T44A	1.000	308	0%	218	13.8%	711	2.9%	benign(0.003)	deleterious(0)	neutral(0.445)	HMMPfam_Ribosomal_S27e,PatternScan_RIBOSOMAL_S27E,superfamily_Zn-binding ribosomal proteins
TPM3	7170	genome.wustl.edu	37	1	154131500	154131500	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001043352.1	-1	reviewed	p.R230Q	1.000	161	0%	91	26.4%	0	-	benign(0.001)	deleterious(0.05)	neutral(0.345)	HMMPfam_Tropomyosin
C1orf189	388701	genome.wustl.edu	37	1	154178765	154178765	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001010979.1	-1	predicted	p.T7A	0.000	453	0%	207	24.6%	0	-	benign(0.055)	tolerated(0.81)	neutral(0.004)	NULL
C1orf43	25912	genome.wustl.edu	37	1	154180114	154180114	+	Nonsense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001098616.1	-1	validated	p.R193*	1.000	379	0%	201	21.4%	71	18.3%	-	-	-	NULL
UBAP2L	9898	genome.wustl.edu	37	1	154238998	154238998	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_014847.3	+1	validated	p.N975S	1.000	228	0%	133	20.3%	67	14.9%	possibly_damaging(0.459)	tolerated(0.6)	neutral(0.155)	NULL
HAX1	10456	genome.wustl.edu	37	1	154246047	154246047	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_006118.3	+1	reviewed	p.A97T	1.000	126	0%	105	11.4%	37	0%	benign(0.007)	tolerated(0.7)	neutral(0.002)	NULL
ATP8B2	57198	genome.wustl.edu	37	1	154307037	154307037	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_020452.3	+1	reviewed	p.I302	0.826	206	0%	188	28.2%	4	0%	-	-	-	HMMPfam_E1-E2_ATPase,superfamily_SSF81665
ATP8B2	57198	genome.wustl.edu	37	1	154316887	154316887	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_020452.3	+1	reviewed	p.I717	0.979	146	0%	117	10.3%	14	0%	-	-	-	superfamily_SSF56784,superfamily_SSF81665
ATP8B2	57198	genome.wustl.edu	37	1	154319200	154319200	+	Silent	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_020452.3	+1	reviewed	p.L1076	0.996	150	0%	134	23.1%	20	5%	-	-	-	superfamily_SSF81665
IL6R	3570	genome.wustl.edu	37	1	154401759	154401759	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_000565.2	+1	reviewed	p.V58A	0.005	58	0%	46	17.4%	0	-	benign(0.133)	deleterious(0)	neutral(0.456)	HMMSmart_SM00408,HMMSmart_SM00409,HMMPfam_ig,superfamily_Immunoglobulin
CHRNB2	1141	genome.wustl.edu	37	1	154542051	154542051	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_000748.2	+1	reviewed	p.L60F	1.000	69	0%	121	25.6%	0	-	benign(0.07)	tolerated(0.85)	neutral(0.005)	HMMPfam_Neur_chan_LBD,superfamily_Nicotinic receptor ligand binding domain-like
CHRNB2	1141	genome.wustl.edu	37	1	154542750	154542750	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_000748.2	+1	reviewed	p.R91H	1.000	152	0%	259	21.6%	0	-	probably_damaging(1)	deleterious(0)	deleterious(0.945)	HMMPfam_Neur_chan_LBD,superfamily_Nicotinic receptor ligand binding domain-like
CHRNB2	1141	genome.wustl.edu	37	1	154543993	154543993	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_000748.2	+1	reviewed	p.R232C	1.000	279	0%	452	13.7%	0	-	probably_damaging(1)	deleterious(0)	deleterious(0.945)	HMMPfam_Neur_chan_LBD,superfamily_Nicotinic receptor ligand binding domain-like
CHRNB2	1141	genome.wustl.edu	37	1	154548278	154548278	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_000748.2	+1	reviewed	p.R460H	1.000	287	0.3%	342	21.3%	0	-	probably_damaging(1)	deleterious(0)	deleterious(0.945)	HMMPfam_Neur_chan_memb,superfamily_Neurotransmitter-gated ion-channel transmembrane pore
ADAR	103	genome.wustl.edu	37	1	154574525	154574525	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001111.3	-1	reviewed	p.A198V	0.028	266	0%	218	13.3%	8	0%	benign(0)	tolerated(0.24)	neutral(0.037)	"HMMPfam_z-alpha,HMMSmart_SM00550,superfamily_""Winged helix"" DNA-binding domain"
KCNN3	3782	genome.wustl.edu	37	1	154705529	154705529	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_002249.4	-1	reviewed	p.V514M	1.000	116	0%	69	29%	5	20%	probably_damaging(0.997)	deleterious(0)	deleterious(0.911)	HMMPfam_Ion_trans_2,superfamily_Voltage-gated potassium channels
PMVK	10654	genome.wustl.edu	37	1	154897628	154897628	+	Nonsense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_006556.3	-1	validated	p.E186*	0.000	129	0%	95	25.3%	13	15.3%	-	-	-	superfamily_P-loop containing nucleoside triphosphate hydrolases
PBXIP1	57326	genome.wustl.edu	37	1	154918236	154918236	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_020524.2	-1	provisional	p.L638	0.331	69	0%	93	28%	154	2.5%	-	-	-	NULL
PBXIP1	57326	genome.wustl.edu	37	1	154918921	154918921	+	Missense_Mutation	SNP	T	T	G	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_020524.2	-1	provisional	p.Q410P	0.490	59	0%	87	27.6%	46	0%	possibly_damaging(0.852)	tolerated(0.25)	neutral(0.364)	NULL
SHC1	6464	genome.wustl.edu	37	1	154936317	154936317	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001130040.1	-1	validated	p.E573K	1.000	246	0%	402	27.6%	61	11.4%	probably_damaging(0.998)	tolerated(0.05)	deleterious(0.820)	superfamily_SH2 domain
DCST2	127579	genome.wustl.edu	37	1	155002643	155002643	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_144622.2	-1	validated	p.R365H	0.011	82	0%	84	19%	0	-	benign(0.001)	tolerated(0.14)	neutral(0.249)	HMMPfam_DC_STAMP
DCST2	127579	genome.wustl.edu	37	1	155002716	155002716	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_144622.2	-1	validated	p.A341S	1.000	65	0%	77	36.4%	1	0%	probably_damaging(0.999)	tolerated(0.26)	deleterious(0.524)	NULL
DCST1	149095	genome.wustl.edu	37	1	155007014	155007014	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_152494.2	+1	validated	p.G55	0.621	114	0%	126	28.6%	0	-	-	-	-	NULL
EFNA4	1945	genome.wustl.edu	37	1	155041455	155041455	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_005227.2	+1	reviewed	p.R199Q	0.994	252	0%	451	29%	10	10%	unknown(0)	-	-	NULL
MUC1	4582	genome.wustl.edu	37	1	155160214	155160214	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_002456.4	-1	reviewed	p.T153	0.007	70	0%	136	11.8%	61	54%	-	-	-	HMMPfam_SEA,HMMSmart_SEA,superfamily_SSF82671
MUC1	4582	genome.wustl.edu	37	1	155162101	155162101	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001018016.1	-1	reviewed	p.A20D	0.000	258	0%	397	13.6%	1	0%	possibly_damaging(0.913)	tolerated(0.1)	deleterious(0.651)	NULL
LOC100129268	100129268	genome.wustl.edu	37	1	155170027	155170027	+	Missense_Mutation	SNP	T	T	G	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	XM_001724971.2	+1	model	p.F33V	0.000	98	0%	157	25.5%	5	0%	-	-	-	NULL
GBAP1	2630	genome.wustl.edu	37	1	155188193	155188193	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	ENST00000313929	-1	known	p.S15	0.019	71	0%	80	12.5%	1	0%	-	-	-	NULL
FAM189B	10712	genome.wustl.edu	37	1	155217654	155217654	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	ENST00000323361	-1	known	p.S324F	1.000	38	0%	49	38.8%	25	32%	unknown(0)	-	-	NULL
FAM189B	10712	genome.wustl.edu	37	1	155224498	155224498	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_006589.2	-1	validated	p.S57	0.500	50	0%	76	28.9%	5	20%	-	-	-	NULL
PKLR	5313	genome.wustl.edu	37	1	155263230	155263230	+	Nonsense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	ENST00000392414	-1	known	p.R415*	1.000	132	0.8%	224	11.6%	0	-	benign(0.061)	tolerated(0.08)	neutral(0.304)	HMMPfam_PK,superfamily_PK C-terminal domain-like,superfamily_Phosphoenolpyruvate/pyruvate domain
FDPS	2224	genome.wustl.edu	37	1	155290356	155290356	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001135821.1	+1	reviewed	p.V406I	0.321	119	0%	193	29%	152	36.1%	benign(0)	tolerated(0.5)	neutral(0.010)	superfamily_Terpenoid_synth
RUSC1	23623	genome.wustl.edu	37	1	155292035	155292035	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001105203.1	+1	validated	p.P157	0.584	55	0%	90	23.3%	0	-	-	-	-	NULL
ASH1L	55870	genome.wustl.edu	37	1	155330095	155330095	+	Silent	SNP	T	T	C	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_018489.2	-1	reviewed	p.K2264	1.000	403	0%	142	29.6%	3	0%	-	-	-	superfamily_SET domain
ASH1L	55870	genome.wustl.edu	37	1	155408385	155408385	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_018489.2	-1	reviewed	p.R1854Q	1.000	268	0%	194	23.2%	0	-	probably_damaging(0.997)	deleterious(0)	deleterious(0.911)	HMMSmart_SM00384
ASH1L	55870	genome.wustl.edu	37	1	155449205	155449205	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_018489.2	-1	reviewed	p.K1152N	1.000	203	0%	36	13.9%	1	0%	possibly_damaging(0.836)	deleterious(0)	deleterious(0.764)	NULL
ASH1L	55870	genome.wustl.edu	37	1	155450397	155450397	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_018489.2	-1	reviewed	p.S755Y	1.000	221	0%	66	30.3%	1	0%	benign(0.303)	deleterious(0)	deleterious(0.538)	NULL
MSTO1	55154	genome.wustl.edu	37	1	155582020	155582020	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_018116.2	+1	validated	p.G242	0.349	231	0%	328	14.3%	4	0%	-	-	-	HMMPfam_Tubulin,superfamily_Tubulin nucleotide-binding domain-like
DAP3	7818	genome.wustl.edu	37	1	155686810	155686810	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_004632.2	+1	reviewed	p.R20H	0.000	108	0%	58	29.3%	11	18.1%	benign(0.009)	tolerated(0.21)	neutral(0.044)	NULL
GON4L	54856	genome.wustl.edu	37	1	155736238	155736238	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001037533.1	-1	validated	p.S1009I	1.000	513	0%	232	9.9%	22	0%	probably_damaging(0.957)	deleterious(0)	deleterious(0.845)	NULL
SYT11	23208	genome.wustl.edu	37	1	155838561	155838561	+	Missense_Mutation	SNP	C	C	G	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_152280.4	+1	reviewed	p.D280E	1.000	80	0%	48	20.8%	3	0%	benign(0.001)	tolerated(1)	-	NULL
RXFP4	339403	genome.wustl.edu	37	1	155912018	155912018	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_181885.2	+1	validated	p.T173M	0.993	24	0%	78	16.7%	0	-	probably_damaging(1)	deleterious(0)	deleterious(0.945)	HMMPfam_7tm_1,superfamily_SSF81321
UBQLN4	56893	genome.wustl.edu	37	1	156021546	156021546	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_020131.3	-1	provisional	p.G71R	1.000	168	0%	269	27.9%	2	0%	probably_damaging(1)	deleterious(0.01)	deleterious(0.905)	HMMPfam_ubiquitin,HMMSmart_UBQ,superfamily_SSF54236
RAB25	57111	genome.wustl.edu	37	1	156035750	156035750	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_020387.2	+1	provisional	p.R31Q	0.996	64	0%	72	12.5%	5	20%	probably_damaging(1)	deleterious(0)	deleterious(0.945)	HMMSmart_RAB,HMMPfam_Ras,superfamily_SSF52540
LMNA	4000	genome.wustl.edu	37	1	156106048	156106048	+	Missense_Mutation	SNP	C	C	T	rs61094188		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_170707.2	+1	reviewed	p.R401C	1.000	57	0%	84	21.4%	370	11%	probably_damaging(0.998)	deleterious(0.02)	deleterious(0.857)	superfamily_Lamin A/C globular tail domain
SLC25A44	9673	genome.wustl.edu	37	1	156170176	156170176	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_014655.2	+1	validated	p.R180C	0.790	87	0%	38	15.8%	2	0%	probably_damaging(0.992)	deleterious(0)	deleterious(0.892)	superfamily_Mitoch_carrier,HMMPfam_Mito_carr
SMG5	23381	genome.wustl.edu	37	1	156236414	156236414	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_015327.2	-1	validated	p.L391	1.000	330	0%	203	24.6%	12	8.3%	-	-	-	NULL
SMG5	23381	genome.wustl.edu	37	1	156237313	156237313	+	Silent	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_015327.2	-1	validated	p.I355	1.000	253	0%	187	22.5%	13	7.6%	-	-	-	NULL
SMG5	23381	genome.wustl.edu	37	1	156244415	156244415	+	Nonsense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_015327.2	-1	validated	p.R173*	1.000	293	0%	227	26%	4	0%	-	-	-	HMMPfam_EST1
TMEM79	84283	genome.wustl.edu	37	1	156255107	156255107	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_032323.2	+1	validated	p.G30	0.991	23	0%	43	39.5%	1	0%	-	-	-	NULL
CCT3	7203	genome.wustl.edu	37	1	156287296	156287296	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_005998.3	-1	reviewed	p.L268I	1.000	276	0%	201	12.9%	125	1.6%	possibly_damaging(0.846)	tolerated(0.14)	deleterious(0.575)	HMMPfam_Cpn60_TCP1,superfamily_GroEL-ATPase,superfamily_SSF52029,superfamily_SSF54849
CCT3	7203	genome.wustl.edu	37	1	156305657	156305657	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_005998.3	-1	reviewed	p.S18	0.987	387	0%	529	24%	35	14.2%	-	-	-	superfamily_GroEL-ATPase
C1orf182	128229	genome.wustl.edu	37	1	156316575	156316575	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_144627.2	+1	provisional	p.K60N	1.000	149	0.7%	125	13.6%	2	100%	probably_damaging(0.958)	deleterious(0)	deleterious(0.846)	NULL
RHBG	57127	genome.wustl.edu	37	1	156351269	156351269	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_020407.3	+1	reviewed	p.S269P	1.000	84	0%	122	15.6%	0	-	probably_damaging(1)	deleterious(0)	deleterious(0.945)	HMMPfam_Ammonium_transp,superfamily_Ammonium ransporter (Pfam 00909)
C1orf61	10485	genome.wustl.edu	37	1	156377760	156377760	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_006365.1	-1	provisional	p.S60Y	0.001	121	0%	158	11.4%	0	-	possibly_damaging(0.819)	deleterious(0)	deleterious(0.754)	NULL
C1orf61	10485	genome.wustl.edu	37	1	156384455	156384455	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	ENST00000368242	-1	known	p.A86V	1.000	85	0%	86	10.5%	0	-	-	-	-	NULL
MEF2D	4209	genome.wustl.edu	37	1	156437937	156437937	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_005920.2	-1	provisional	p.D468N	0.983	38	0%	59	23.7%	43	6.9%	possibly_damaging(0.796)	tolerated(0.27)	neutral(0.333)	NULL
MEF2D	4209	genome.wustl.edu	37	1	156437951	156437951	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_005920.2	-1	provisional	p.R463H	1.000	48	0%	69	21.7%	50	16%	probably_damaging(0.971)	deleterious(0.04)	deleterious(0.762)	NULL
IQGAP3	128239	genome.wustl.edu	37	1	156517929	156517929	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_178229.4	-1	validated	p.R747Q	1.000	74	0%	40	20%	1	100%	probably_damaging(1)	deleterious(0.01)	deleterious(0.905)	HMMSmart_IQ,superfamily_SSF52540
BCAN	63827	genome.wustl.edu	37	1	156628038	156628038	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_021948.3	+1	validated	p.L804	1.000	67	0%	130	20%	1	0%	-	-	-	HMMPfam_Lectin_C,HMMSmart_SM00034,superfamily_C-type lectin-like,PatternScan_C_TYPE_LECTIN_1
NES	10763	genome.wustl.edu	37	1	156641538	156641538	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_006617.1	-1	reviewed	p.S814	0.000	383	0.3%	451	23.7%	10	0%	-	-	-	NULL
CRABP2	1382	genome.wustl.edu	37	1	156670817	156670817	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001878.2	-1	reviewed	p.A33D	0.982	186	0%	192	9.9%	45	0%	probably_damaging(0.999)	deleterious(0)	deleterious(0.935)	HMMPfam_Lipocalin,superfamily_Lipocalins
ISG20L2	81875	genome.wustl.edu	37	1	156697272	156697272	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_030980.1	-1	provisional	p.P58H	0.017	95	0%	139	24.5%	4	50%	benign(0.163)	tolerated(0.12)	neutral(0.275)	NULL
HDGF	3068	genome.wustl.edu	37	1	156722050	156722050	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001126050.1	-1	reviewed	p.P36S	0.016	130	0%	253	25.3%	0	-	benign(0)	tolerated(0.6)	neutral(0.004)	NULL
SH2D2A	9047	genome.wustl.edu	37	1	156779571	156779571	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_003975.3	-1	reviewed	p.R199M	0.007	289	0%	329	23.4%	5	0%	possibly_damaging(0.512)	deleterious(0.01)	deleterious(0.578)	NULL
SH2D2A	9047	genome.wustl.edu	37	1	156785805	156785805	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_003975.3	-1	reviewed	p.Y39C	0.001	259	0%	372	23.9%	5	0%	benign(0.001)	tolerated(0.13)	neutral(0.253)	NULL
INSRR	3645	genome.wustl.edu	37	1	156811515	156811515	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_014215.1	-1	validated	p.R1157C	1.000	82	0%	105	16.2%	0	-	probably_damaging(1)	deleterious(0)	deleterious(0.945)	HMMPfam_Pkinase_Tyr,HMMSmart_TyrKc,superfamily_Kinase_like
INSRR	3645	genome.wustl.edu	37	1	156814385	156814385	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_014215.1	-1	validated	p.R869Q	0.451	69	0%	108	21.3%	0	-	benign(0.017)	tolerated(0.58)	neutral(0.005)	HMMPfam_fn3,HMMSmart_FN3,superfamily_FN_III-like
INSRR	3645	genome.wustl.edu	37	1	156814880	156814880	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_014215.1	-1	validated	p.T809A	1.000	34	0%	45	33.3%	0	-	probably_damaging(1)	deleterious(0)	deleterious(0.945)	superfamily_FN_III-like
INSRR	3645	genome.wustl.edu	37	1	156819156	156819156	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_014215.1	-1	validated	p.F442	0.998	99	0%	176	26.1%	0	-	-	-	-	HMMPfam_Recep_L_domain,superfamily_SSF52058
NTRK1	4914	genome.wustl.edu	37	1	156843723	156843723	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_002529.3	+1	reviewed	p.F383	0.998	48	0%	66	31.8%	0	-	unknown(0)	deleterious(0)	-	superfamily_Immunoglobulin
NTRK1	4914	genome.wustl.edu	37	1	156849924	156849924	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_002529.3	+1	reviewed	p.P727H	1.000	37	0%	39	25.6%	3	0%	probably_damaging(1)	deleterious(0)	deleterious(0.945)	HMMPfam_Pkinase_Tyr,HMMSmart_SM00219,HMMSmart_SM00220,superfamily_Protein kinase-like (PK-like)
PEAR1	375033	genome.wustl.edu	37	1	156876658	156876658	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001080471.1	+1	provisional	p.E210D	0.019	45	0%	87	19.5%	0	-	benign(0.059)	deleterious(0.01)	neutral(0.410)	HMMPfam_Laminin_EGF,PatternScan_EGF_1
ARHGEF11	9826	genome.wustl.edu	37	1	156946841	156946841	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_198236.1	-1	reviewed	p.P172	0.594	287	0.3%	79	13.9%	1	0%	-	-	-	NULL
ARHGEF11	9826	genome.wustl.edu	37	1	156955904	156955904	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_198236.1	-1	reviewed	p.R32C	0.998	309	0%	97	16.5%	2	0%	probably_damaging(1)	deleterious(0.02)	deleterious(0.883)	superfamily_PDZ
ETV3L	440695	genome.wustl.edu	37	1	157068609	157068609	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001004341.2	-1	validated	p.I125	0.001	231	0%	305	25.2%	0	-	-	-	-	superfamily_SSF46785
ETV3	2117	genome.wustl.edu	37	1	157095225	157095225	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001145312.1	-1	validated	p.P316H	1.000	267	0%	149	12.1%	5	80%	probably_damaging(1)	deleterious(0)	deleterious(0.945)	NULL
FCRL5	83416	genome.wustl.edu	37	1	157485520	157485520	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_031281.2	-1	validated	p.A960V	0.000	164	0%	106	28.3%	0	-	benign(0)	deleterious(0)	neutral(0.445)	NULL
FCRL5	83416	genome.wustl.edu	37	1	157488567	157488567	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_031281.2	-1	validated	p.P889H	0.004	335	0%	204	13.2%	0	-	benign(0.066)	deleterious(0.01)	neutral(0.410)	NULL
FCRL5	83416	genome.wustl.edu	37	1	157494338	157494338	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_031281.2	-1	validated	p.S657Y	0.895	152	0%	72	16.7%	3	0%	probably_damaging(0.988)	deleterious(0)	deleterious(0.882)	superfamily_Immunoglobulin
FCRL5	83416	genome.wustl.edu	37	1	157509121	157509121	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_031281.2	-1	validated	p.S386Y	0.001	234	0%	63	23.8%	0	-	possibly_damaging(0.67)	deleterious(0.05)	deleterious(0.583)	HMMSmart_SM00409,superfamily_Immunoglobulin
FCRL5	83416	genome.wustl.edu	37	1	157512728	157512728	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_031281.2	-1	validated	p.E348	0.000	148	0%	67	20.9%	0	-	-	-	-	HMMSmart_SM00408,HMMSmart_SM00409,HMMPfam_ig,superfamily_Immunoglobulin
FCRL3	115352	genome.wustl.edu	37	1	157660172	157660172	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_052939.3	-1	reviewed	p.S521	0.000	125	0%	40	17.5%	1	0%	-	-	-	HMMSmart_SM00408,HMMSmart_SM00409,HMMPfam_ig,superfamily_Immunoglobulin
FCRL3	115352	genome.wustl.edu	37	1	157667096	157667096	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_052939.3	-1	reviewed	p.F226L	0.447	143	0%	63	20.6%	0	-	probably_damaging(1)	deleterious(0.01)	deleterious(0.905)	HMMSmart_SM00408,HMMSmart_SM00409,HMMPfam_ig,superfamily_Immunoglobulin
FCRL3	115352	genome.wustl.edu	37	1	157668286	157668286	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_052939.3	-1	reviewed	p.E62	0.000	523	0%	166	20.5%	0	-	-	-	-	HMMSmart_SM00409,superfamily_Immunoglobulin
FCRL2	79368	genome.wustl.edu	37	1	157738304	157738304	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_030764.3	-1	reviewed	p.E261D	0.051	338	0%	107	17.8%	0	-	probably_damaging(0.99)	tolerated(0.15)	deleterious(0.682)	HMMSmart_SM00408,HMMSmart_SM00409,HMMPfam_ig,superfamily_Immunoglobulin
FCRL1	115350	genome.wustl.edu	37	1	157773695	157773695	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_052938.4	-1	reviewed	p.E87K	0.080	114	0%	42	21.4%	0	-	benign(0.008)	tolerated(0.72)	neutral(0.002)	HMMSmart_SM00408,HMMSmart_SM00409,HMMPfam_ig,superfamily_Immunoglobulin
CD5L	922	genome.wustl.edu	37	1	157805673	157805673	+	Nonsense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_005894.2	-1	validated	p.E110*	0.003	185	0%	93	34.4%	0	-	-	-	-	HMMPfam_SRCR,HMMSmart_SM00202,superfamily_SRCR-like
CD5L	922	genome.wustl.edu	37	1	157809193	157809193	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_005894.2	-1	validated	p.C12	0.000	403	0%	179	22.3%	0	-	-	-	-	NULL
KIRREL	55243	genome.wustl.edu	37	1	158056477	158056477	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_018240.5	+1	validated	p.R201Q	0.994	166	0%	101	16.8%	0	-	probably_damaging(0.97)	tolerated(0.21)	neutral(0.456)	HMMSmart_SM00409,HMMPfam_C2-set_2,superfamily_Immunoglobulin
KIRREL	55243	genome.wustl.edu	37	1	158056520	158056520	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_018240.5	+1	validated	p.I215	0.346	135	0%	76	14.5%	0	-	-	-	-	HMMSmart_SM00409,superfamily_Immunoglobulin
KIRREL	55243	genome.wustl.edu	37	1	158064872	158064872	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_018240.5	+1	validated	p.G746S	0.999	54	0%	52	25%	0	-	benign(0.197)	tolerated(0.24)	neutral(0.056)	NULL
CD1A	909	genome.wustl.edu	37	1	158224941	158224941	+	Missense_Mutation	SNP	A	A	C	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001763.2	+1	reviewed	p.Q42H	0.000	256	0%	111	9%	1	0%	benign(0.001)	tolerated(0.17)	neutral(0.059)	HMMPfam_MHC_I,superfamily_MHC_I/II-like_Ag-recog
OR10K1	391109	genome.wustl.edu	37	1	158435701	158435701	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001004473.1	+1	provisional	p.A117V	0.927	409	0%	182	29.7%	0	-	benign(0.002)	tolerated(0.9)	-	HMMPfam_7tm_1,superfamily_SSF81321
OR10K1	391109	genome.wustl.edu	37	1	158436010	158436010	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001004473.1	+1	provisional	p.R220H	0.000	226	1.8%	88	14.8%	0	-	benign(0)	tolerated(0.4)	neutral(0.016)	HMMPfam_7tm_1,superfamily_SSF81321
OR6Y1	391112	genome.wustl.edu	37	1	158517052	158517052	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001005189.1	-1	provisional	p.L282F	0.944	380	0%	133	15.8%	0	-	possibly_damaging(0.631)	tolerated(0.75)	neutral(0.222)	HMMPfam_7tm_1,superfamily_SSF81321
SPTA1	6708	genome.wustl.edu	37	1	158617356	158617356	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_003126.2	-1	reviewed	p.K1290R	1.000	224	0%	50	28%	0	-	possibly_damaging(0.895)	tolerated(0.09)	deleterious(0.649)	HMMPfam_Spectrin
OR6K2	81448	genome.wustl.edu	37	1	158669489	158669489	+	Silent	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001005279.1	-1	provisional	p.G318	0.000	195	0%	68	17.6%	0	-	-	-	-	NULL
OR6K2	81448	genome.wustl.edu	37	1	158670089	158670089	+	Silent	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001005279.1	-1	provisional	p.A118	0.993	149	0%	75	9.3%	0	-	-	-	-	HMMPfam_7tm_1,superfamily_Family A G protein-coupled receptor-like
OR6K2	81448	genome.wustl.edu	37	1	158670232	158670232	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001005279.1	-1	provisional	p.I71V	0.998	116	0%	52	21.2%	0	-	benign(0.004)	deleterious(0.03)	neutral(0.364)	HMMPfam_7tm_1,superfamily_Family A G protein-coupled receptor-like
OR6K2	81448	genome.wustl.edu	37	1	158670321	158670321	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001005279.1	-1	provisional	p.G41E	0.989	250	0%	88	25%	0	-	probably_damaging(0.999)	deleterious(0)	deleterious(0.935)	HMMPfam_7tm_1,superfamily_Family A G protein-coupled receptor-like
OR6K6	128371	genome.wustl.edu	37	1	158725079	158725079	+	Silent	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001005184.1	+1	provisional	p.L158	0.998	163	0%	82	34.1%	0	-	-	-	-	HMMPfam_7tm_1,superfamily_Family A G protein-coupled receptor-like
OR6K6	128371	genome.wustl.edu	37	1	158725478	158725478	+	Silent	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001005184.1	+1	provisional	p.A291	0.952	399	0%	169	19.5%	0	-	-	-	-	HMMPfam_7tm_1,superfamily_Family A G protein-coupled receptor-like
MNDA	4332	genome.wustl.edu	37	1	158815562	158815562	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_002432.1	+1	reviewed	p.F252	0.102	272	0%	81	17.3%	0	-	-	-	-	HMMPfam_HIN
IFI16	3428	genome.wustl.edu	37	1	158984564	158984564	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_005531.2	+1	reviewed	p.D32N	0.002	291	0%	88	15.9%	28	0%	possibly_damaging(0.792)	deleterious(0.01)	deleterious(0.703)	HMMPfam_PAAD_DAPIN,superfamily_DEATH_like
IFI16	3428	genome.wustl.edu	37	1	158986467	158986467	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_005531.2	+1	reviewed	p.P176S	0.002	364	0%	128	19.5%	81	0%	probably_damaging(0.988)	tolerated(0.41)	neutral(0.453)	NULL
AIM2	9447	genome.wustl.edu	37	1	159035850	159035850	+	Silent	SNP	A	A	G	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_004833.1	-1	reviewed	p.N222	0.000	332	0%	178	18%	3	0%	-	-	-	HMMPfam_HIN
CADM3	57863	genome.wustl.edu	37	1	159162451	159162451	+	Nonsense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_021189.3	+1	validated	p.E139*	1.000	161	0%	90	17.8%	0	-	-	-	-	HMMSmart_IG,HMMPfam_V-set,superfamily_SSF48726
CADM3	57863	genome.wustl.edu	37	1	159163262	159163262	+	Missense_Mutation	SNP	A	A	C	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_021189.3	+1	validated	p.E178D	1.000	306	0%	145	9.7%	0	-	probably_damaging(0.998)	deleterious(0.04)	deleterious(0.823)	HMMSmart_IG,HMMPfam_C2-set_2,superfamily_SSF48726
FCER1A	2205	genome.wustl.edu	37	1	159276024	159276024	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_002001.2	+1	reviewed	p.T193I	0.006	112	0%	52	23.1%	0	-	benign(0.004)	tolerated(0.21)	neutral(0.044)	HMMSmart_IG,superfamily_SSF48726
CRP	1401	genome.wustl.edu	37	1	159683485	159683485	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_000567.2	-1	reviewed	p.S169P	0.976	119	0%	55	14.5%	0	-	probably_damaging(0.999)	deleterious(0.02)	deleterious(0.873)	HMMPfam_Pentaxin,HMMSmart_SM00159,superfamily_Concanavalin A-like lectins/glucanases
CRP	1401	genome.wustl.edu	37	1	159683855	159683855	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_000567.2	-1	reviewed	p.T45	0.000	196	0%	89	23.6%	0	-	-	-	-	HMMPfam_Pentaxin,HMMSmart_SM00159,superfamily_Concanavalin A-like lectins/glucanases
SLAMF8	56833	genome.wustl.edu	37	1	159799770	159799770	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_020125.2	+1	reviewed	p.S52Y	0.996	92	0%	32	18.8%	1	0%	possibly_damaging(0.805)	tolerated(0.2)	neutral(0.352)	superfamily_Immunoglobulin
C1orf204	284677	genome.wustl.edu	37	1	159807810	159807810	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001134233.1	-1	predicted	p.Q202	0.001	670	0%	253	19.4%	0	-	-	-	-	NULL
CCDC19	25790	genome.wustl.edu	37	1	159854234	159854234	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_012337.2	-1	validated	p.D297Y	0.997	466	0%	206	12.6%	1	0%	probably_damaging(1)	deleterious(0)	deleterious(0.945)	NULL
CCDC19	25790	genome.wustl.edu	37	1	159856307	159856307	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_012337.2	-1	validated	p.R254I	0.935	525	0%	244	22.1%	5	40%	probably_damaging(0.954)	deleterious(0.01)	deleterious(0.803)	NULL
CCDC19	25790	genome.wustl.edu	37	1	159856363	159856363	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_012337.2	-1	validated	p.E235	0.998	730	0%	292	12.3%	3	0%	-	-	-	NULL
IGSF9	57549	genome.wustl.edu	37	1	159897191	159897191	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001135050.1	-1	validated	p.R1162W	0.048	11	0%	29	24.1%	8	50%	probably_damaging(1)	deleterious(0.02)	deleterious(0.883)	NULL
KCNJ10	3766	genome.wustl.edu	37	1	160011524	160011524	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_002241.3	-1	reviewed	p.D267Y	1.000	237	0%	84	14.3%	0	-	possibly_damaging(0.87)	deleterious(0.01)	deleterious(0.744)	HMMPfam_IRK,superfamily_E set domains
KCNJ9	3765	genome.wustl.edu	37	1	160054305	160054305	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_004983.2	+1	reviewed	p.S162L	1.000	13	0%	41	17.1%	0	-	probably_damaging(0.999)	deleterious(0)	deleterious(0.935)	HMMPfam_IRK,superfamily_Ig_E-set,superfamily_SSF81324
KCNJ9	3765	genome.wustl.edu	37	1	160054306	160054306	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_004983.2	+1	reviewed	p.S162	0.996	12	0%	37	18.9%	0	-	-	-	-	HMMPfam_IRK,superfamily_Ig_E-set,superfamily_SSF81324
ATP1A2	477	genome.wustl.edu	37	1	160090701	160090701	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_000702.3	+1	reviewed	p.G6	0.989	193	0%	71	25.4%	0	-	-	-	-	NULL
ATP1A2	477	genome.wustl.edu	37	1	160100270	160100270	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	ENST00000447527	+1	known	p.R281Q	0.002	164	0%	84	32.1%	0	-	-	-	-	HMMPfam_Hydrolase,superfamily_HAD-like,superfamily_Metal cation-transporting ATPase ATP-binding domain N,superfamily_Calcium ATPase transmembrane domain M
ATP1A4	480	genome.wustl.edu	37	1	160124974	160124974	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_144699.3	+1	reviewed	p.A116V	1.000	162	0%	62	14.5%	0	-	possibly_damaging(0.677)	deleterious(0)	deleterious(0.685)	HMMPfam_Cation_ATPase_N,superfamily_Calcium ATPase transmembrane domain M
ATP1A4	480	genome.wustl.edu	37	1	160125933	160125933	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_144699.3	+1	reviewed	p.K170	1.000	325	0%	107	30.8%	0	-	-	-	-	HMMPfam_E1-E2_ATPase,superfamily_Calcium ATPase transmembrane domain M
ATP1A4	480	genome.wustl.edu	37	1	160146372	160146372	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_144699.3	+1	reviewed	p.G857D	1.000	86	0%	21	28.6%	0	-	benign(0.013)	tolerated(0.1)	neutral(0.287)	HMMPfam_Cation_ATPase_C,superfamily_Calcium ATPase transmembrane domain M
ATP1A4	480	genome.wustl.edu	37	1	160156142	160156142	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_144699.3	+1	reviewed	p.R1016C	0.989	227	0%	137	32.8%	0	-	probably_damaging(0.977)	deleterious(0.01)	deleterious(0.825)	superfamily_Calcium ATPase transmembrane domain M
CASQ1	844	genome.wustl.edu	37	1	160160769	160160769	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001231.4	+1	reviewed	p.E70D	0.999	160	0%	115	25.2%	0	-	benign(0)	tolerated(0.45)	neutral(0.012)	HMMPfam_Calsequestrin,superfamily_Thiordxn-like_fd
CASQ1	844	genome.wustl.edu	37	1	160164851	160164851	+	Missense_Mutation	SNP	C	C	T	rs190698081	by1000genomes	TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001231.4	+1	reviewed	p.A166V	1.000	308	0%	270	10.7%	1	0%	possibly_damaging(0.911)	tolerated(0.2)	neutral(0.412)	HMMPfam_Calsequestrin,superfamily_Thiordxn-like_fd
PEA15	8682	genome.wustl.edu	37	1	160183029	160183029	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_003768.3	+1	validated	p.R101H	1.000	165	0%	138	21%	89	14.6%	probably_damaging(0.994)	deleterious(0)	deleterious(0.897)	superfamily_DEATH domain
NCSTN	23385	genome.wustl.edu	37	1	160322734	160322734	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_015331.2	+1	reviewed	p.F352L	1.000	251	0%	113	8.8%	8	0%	probably_damaging(0.99)	tolerated(0.09)	deleterious(0.738)	HMMPfam_Nicastrin,superfamily_Zn-dependent exopeptidases
NCSTN	23385	genome.wustl.edu	37	1	160325697	160325697	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	ENST00000435149	+1	known	p.S177N	0.986	139	0%	51	19.6%	20	10%	-	-	-	NULL
CD84	8832	genome.wustl.edu	37	1	160519728	160519728	+	Nonsense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	ENST00000368051	-1	known	p.R268*	0.186	202	0.5%	51	23.5%	0	-	-	-	-	NULL
CD84	8832	genome.wustl.edu	37	1	160523894	160523894	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_003874.3	-1	validated	p.S144Y	0.000	181	0%	57	15.8%	0	-	probably_damaging(1)	deleterious(0)	deleterious(0.945)	HMMSmart_SM00409,superfamily_Immunoglobulin
LY9	4063	genome.wustl.edu	37	1	160771614	160771614	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001033667.1	+1	validated	p.I163	0.999	45	0%	89	13.5%	1	0%	-	-	-	NULL
LY9	4063	genome.wustl.edu	37	1	160784365	160784365	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_002348.2	+1	validated	p.A296T	0.130	84	0%	46	19.6%	0	-	possibly_damaging(0.952)	tolerated(0.16)	neutral(0.455)	HMMSmart_SM00409,superfamily_Immunoglobulin
ITLN1	55600	genome.wustl.edu	37	1	160850377	160850377	+	Splice_Site	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_017625.2	-1	validated	e5+1	0.991	180	0%	132	21.2%	0	-	-	-	-	-
ITLN2	142683	genome.wustl.edu	37	1	160915019	160915019	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_080878.2	-1	validated	p.A297T	0.641	109	0%	82	22%	0	-	possibly_damaging(0.476)	tolerated(0.09)	neutral(0.454)	NULL
USF1	7391	genome.wustl.edu	37	1	161009745	161009745	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_007122.3	-1	reviewed	p.G300R	1.000	203	0%	290	29.7%	37	24.3%	probably_damaging(1)	deleterious(0)	deleterious(0.945)	NULL
PVRL4	81607	genome.wustl.edu	37	1	161044092	161044092	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_030916.2	-1	validated	p.A358T	0.006	311	0.3%	454	23.1%	0	-	possibly_damaging(0.621)	deleterious(0.02)	deleterious(0.600)	NULL
NIT1	4817	genome.wustl.edu	37	1	161090407	161090407	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_005600.1	+1	provisional	p.G279E	1.000	53	0%	83	22.9%	45	17.7%	probably_damaging(1)	deleterious(0)	deleterious(0.945)	superfamily_Carbon-nitrogen hydrolase
USP21	27005	genome.wustl.edu	37	1	161133736	161133736	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001014443.2	+1	reviewed	p.E395K	1.000	242	0%	322	22%	17	5.8%	probably_damaging(0.957)	deleterious(0.02)	deleterious(0.784)	HMMPfam_UCH,superfamily_Cysteine proteinases
ADAMTS4	9507	genome.wustl.edu	37	1	161166436	161166436	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_005099.4	-1	reviewed	p.R290C	1.000	86	0%	118	13.6%	6	0%	probably_damaging(1)	deleterious(0)	deleterious(0.945)	"HMMPfam_Reprolysin,superfamily_Metalloproteases (""zincins"") catalytic domain"
ADAMTS4	9507	genome.wustl.edu	37	1	161167854	161167854	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_005099.4	-1	reviewed	p.S188	0.011	54	0%	63	19%	6	0%	-	-	-	NULL
APOA2	336	genome.wustl.edu	37	1	161192291	161192291	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001643.1	-1	reviewed	p.K69N	0.549	263	0%	122	24.6%	0	-	benign(0.17)	tolerated(0.08)	neutral(0.316)	HMMPfam_ApoA-II
HSPA6	3310	genome.wustl.edu	37	1	161496169	161496169	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_002155.3	+1	validated	p.D574G	1.000	131	0.8%	193	13%	8	25%	benign(0.042)	deleterious(0.01)	neutral(0.408)	HMMPfam_HSP70,superfamily_Heat shock protein 70kD (HSP70) C-terminal subdomain
FCGR2C	9103	genome.wustl.edu	37	1	161569534	161569534	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_201563.4	+1	reviewed	p.D305N	0.002	160	0.6%	136	22.1%	9	0%	possibly_damaging(0.753)	tolerated(0.33)	neutral(0.301)	NULL
FCRLA	84824	genome.wustl.edu	37	1	161677013	161677013	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_032738.3	+1	reviewed	p.K4E	0.976	188	0%	75	14.7%	0	-	benign(0)	deleterious(0)	neutral(0.445)	NULL
FCRLA	84824	genome.wustl.edu	37	1	161677123	161677123	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_032738.3	+1	reviewed	p.Q40H	0.001	218	0%	106	18.9%	3	0%	benign(0.005)	deleterious(0.01)	neutral(0.406)	NULL
FCRLA	84824	genome.wustl.edu	37	1	161680548	161680548	+	Splice_Site	SNP	A	A	G	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_032738.3	+1	reviewed	e2-2	0.129	82	0%	21	33.3%	0	-	-	-	-	-
OLFML2B	25903	genome.wustl.edu	37	1	161967655	161967655	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_015441.1	-1	provisional	p.T478	0.997	136	0%	90	26.7%	16	0%	-	-	-	NULL
OLFML2B	25903	genome.wustl.edu	37	1	161968050	161968050	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_015441.1	-1	provisional	p.R347W	0.208	85	0%	47	21.3%	19	0%	probably_damaging(0.967)	deleterious(0)	deleterious(0.853)	NULL
OLFML2B	25903	genome.wustl.edu	37	1	161970074	161970074	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_015441.1	-1	provisional	p.E260K	0.510	67	0%	31	16.1%	9	0%	benign(0)	tolerated(0.19)	neutral(0.050)	NULL
OLFML2B	25903	genome.wustl.edu	37	1	161987295	161987295	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_015441.1	-1	provisional	p.L147	0.673	181	0%	164	12.8%	4	0%	-	-	-	NULL
OLFML2B	25903	genome.wustl.edu	37	1	161993062	161993062	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_015441.1	-1	provisional	p.E53D	1.000	149	0%	222	22.5%	8	0%	possibly_damaging(0.719)	deleterious(0)	deleterious(0.705)	NULL
SH2D1B	117157	genome.wustl.edu	37	1	162372566	162372566	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_053282.4	-1	validated	p.R54Q	1.000	579	0%	197	22.3%	0	-	probably_damaging(1)	deleterious(0.01)	deleterious(0.905)	HMMPfam_SH2,HMMSmart_SM00252,superfamily_SH2 domain
UHMK1	127933	genome.wustl.edu	37	1	162470891	162470891	+	Nonsense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_175866.4	+1	reviewed	p.W250*	1.000	196	0%	231	28.6%	1	0%	-	-	-	HMMSmart_SM00219,HMMSmart_SM00220,superfamily_Protein kinase-like (PK-like),HMMPfam_Pkinase
UAP1	6675	genome.wustl.edu	37	1	162569088	162569088	+	Nonsense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_003115.4	+1	validated	p.E485*	1.000	435	0%	95	12.6%	27	14.8%	-	-	-	superfamily_Nucleotide-diphospho-sugar transferases
DDR2	4921	genome.wustl.edu	37	1	162731096	162731096	+	Silent	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001014796.1	+1	reviewed	p.A317	0.012	280	0%	70	18.6%	3	0%	-	-	-	NULL
DDR2	4921	genome.wustl.edu	37	1	162737051	162737051	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001014796.1	+1	reviewed	p.R399W	0.999	334	0%	68	20.6%	2	0%	probably_damaging(1)	deleterious(0.01)	deleterious(0.905)	NULL
DDR2	4921	genome.wustl.edu	37	1	162746002	162746002	+	Nonsense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001014796.1	+1	reviewed	p.R709*	1.000	261	0%	88	21.6%	10	0%	-	-	-	HMMPfam_Pkinase_Tyr,HMMSmart_TyrKc,PatternScan_PROTEIN_KINASE_TYR,superfamily_Kinase_like
NUF2	83540	genome.wustl.edu	37	1	163317623	163317623	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_031423.3	+1	reviewed	p.S340L	0.509	285	0%	201	20.4%	10	30%	possibly_damaging(0.907)	tolerated(0.08)	deleterious(0.660)	NULL
PBX1	5087	genome.wustl.edu	37	1	164532529	164532529	+	Silent	SNP	T	T	C	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_002585.2	+1	validated	p.C82	1.000	408	0%	260	23.8%	2	0%	-	-	-	HMMPfam_PBC
PBX1	5087	genome.wustl.edu	37	1	164789393	164789393	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_002585.2	+1	validated	p.A361V	1.000	184	0%	46	28.3%	6	16.6%	benign(0.058)	tolerated(0.07)	neutral(0.323)	NULL
LMX1A	4009	genome.wustl.edu	37	1	165173138	165173138	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_177398.3	-1	validated	p.Q376H	1.000	197	0%	62	12.9%	0	-	probably_damaging(1)	deleterious(0)	deleterious(0.945)	NULL
LMX1A	4009	genome.wustl.edu	37	1	165173197	165173197	+	Nonsense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_177398.3	-1	validated	p.E357*	1.000	208	0%	58	20.7%	0	-	-	-	-	NULL
LMX1A	4009	genome.wustl.edu	37	1	165218846	165218846	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_177398.3	-1	validated	p.E99K	1.000	61	0%	38	21.1%	0	-	benign(0.001)	deleterious(0.02)	neutral(0.383)	HMMPfam_LIM,HMMSmart_SM00132,PatternScan_LIM_DOMAIN_1,superfamily_Glucocorticoid receptor-like (DNA-binding domain)
RXRG	6258	genome.wustl.edu	37	1	165380012	165380012	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_006917.3	-1	reviewed	p.L280	0.002	161	0%	49	20.4%	3	0%	-	-	-	HMMPfam_Hormone_recep,HMMSmart_HOLI,superfamily_Str_ncl_receptor
RXRG	6258	genome.wustl.edu	37	1	165398202	165398202	+	Silent	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_006917.3	-1	reviewed	p.G17	0.999	51	0%	28	35.7%	1	0%	-	-	-	NULL
RXRG	6258	genome.wustl.edu	37	1	165414102	165414102	+	Missense_Mutation	SNP	T	T	G	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_006917.3	-1	reviewed	p.K10T	1.000	368	0%	226	31.9%	1	0%	benign(0.323)	deleterious(0)	deleterious(0.545)	NULL
LRRC52	440699	genome.wustl.edu	37	1	165513538	165513538	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001005214.3	+1	validated	p.S2F	1.000	141	0%	41	22%	0	-	probably_damaging(0.998)	deleterious(0)	deleterious(0.919)	NULL
TMCO1	54499	genome.wustl.edu	37	1	165712528	165712528	+	Missense_Mutation	SNP	G	G	C	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_019026.3	-1	validated	p.A115G	1.000	112	0%	53	22.6%	59	11.8%	probably_damaging(0.999)	deleterious(0.01)	deleterious(0.896)	HMMPfam_DUF841
ILDR2	387597	genome.wustl.edu	37	1	166927112	166927112	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_199351.1	-1	provisional	p.L91F	1.000	181	0%	104	27.9%	0	-	possibly_damaging(0.922)	tolerated(0.06)	deleterious(0.694)	HMMSmart_IG,superfamily_SSF48726
ILDR2	387597	genome.wustl.edu	37	1	166927137	166927137	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_199351.1	-1	provisional	p.R83I	0.927	181	0%	103	14.6%	0	-	possibly_damaging(0.847)	deleterious(0.03)	deleterious(0.690)	HMMSmart_IG,superfamily_SSF48726
MAEL	84944	genome.wustl.edu	37	1	166987083	166987083	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_032858.1	+1	validated	p.L310M	0.985	289	0%	130	26.9%	0	-	probably_damaging(0.995)	tolerated(0.22)	deleterious(0.499)	NULL
GPA33	10223	genome.wustl.edu	37	1	167024316	167024316	+	Missense_Mutation	SNP	C	C	T	rs138343655	by1000genomes	TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_005814.1	-1	reviewed	p.A242T	0.191	65	0%	40	30%	0	-	probably_damaging(0.998)	tolerated(0.12)	deleterious(0.735)	NULL
DUSP27	92235	genome.wustl.edu	37	1	167088665	167088665	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001080426.1	+1	provisional	p.A206V	1.000	223	0%	201	13.4%	0	-	possibly_damaging(0.949)	deleterious(0.05)	deleterious(0.738)	HMMPfam_DSPc,HMMSmart_DSPc,superfamily_SSF52799
DUSP27	92235	genome.wustl.edu	37	1	167095322	167095322	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001080426.1	+1	provisional	p.D318	0.075	51	0%	98	16.3%	0	-	-	-	-	NULL
DUSP27	92235	genome.wustl.edu	37	1	167095486	167095486	+	Missense_Mutation	SNP	G	G	A	rs142057898	by1000genomes	TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001080426.1	+1	provisional	p.R373H	0.000	56	0%	68	13.2%	0	-	possibly_damaging(0.705)	tolerated(0.09)	deleterious(0.550)	NULL
DUSP27	92235	genome.wustl.edu	37	1	167096117	167096117	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001080426.1	+1	provisional	p.D583	0.065	73	0%	126	23%	0	-	-	-	-	NULL
DUSP27	92235	genome.wustl.edu	37	1	167097350	167097350	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001080426.1	+1	provisional	p.H994	0.000	95	0%	148	27.7%	0	-	-	-	-	NULL
RCSD1	92241	genome.wustl.edu	37	1	167666384	167666384	+	Nonsense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_052862.3	+1	validated	p.R175*	1.000	167	0%	99	22.2%	4	0%	-	-	-	NULL
ADCY10	55811	genome.wustl.edu	37	1	167825464	167825464	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_018417.4	-1	reviewed	p.D704N	0.723	441	0%	131	29%	0	-	possibly_damaging(0.444)	tolerated(0.36)	neutral(0.165)	NULL
ADCY10	55811	genome.wustl.edu	37	1	167865896	167865896	+	Missense_Mutation	SNP	A	A	C	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_018417.4	-1	reviewed	p.F226V	0.997	246	0%	137	13.9%	0	-	benign(0.044)	tolerated(0.55)	neutral(0.009)	NULL
ADCY10	55811	genome.wustl.edu	37	1	167871266	167871266	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_018417.4	-1	reviewed	p.L94	1.000	366	0%	230	23.5%	0	-	-	-	-	HMMPfam_Guanylate_cyc,superfamily_Adenylyl and guanylyl cyclase catalytic domain
DCAF6	55827	genome.wustl.edu	37	1	167973894	167973894	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_018442.2	+1	validated	p.S414F	0.976	299	0%	164	22.6%	10	0%	benign(0.091)	deleterious(0.01)	neutral(0.412)	superfamily_WD40_like
XCL2	6846	genome.wustl.edu	37	1	168510293	168510293	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_003175.3	-1	validated	p.V81A	0.001	669	0%	152	19.1%	11	0%	possibly_damaging(0.775)	deleterious(0.01)	deleterious(0.694)	HMMPfam_IL8,HMMSmart_SCY,superfamily_Chemokine_IL8
F5	2153	genome.wustl.edu	37	1	169510914	169510914	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_000130.4	-1	reviewed	p.M1138I	0.000	468	0%	176	21.6%	1	0%	benign(0.022)	deleterious(0)	neutral(0.446)	NULL
F5	2153	genome.wustl.edu	37	1	169511085	169511085	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_000130.4	-1	reviewed	p.D1081	0.837	363	0%	136	23.5%	0	-	-	-	-	HMMPfam_LSPR
SELL	6402	genome.wustl.edu	37	1	169679581	169679581	+	Missense_Mutation	SNP	A	A	C	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_000655.4	-1	reviewed	p.C27W	0.002	305	0%	74	13.5%	0	-	possibly_damaging(0.915)	deleterious(0.01)	deleterious(0.772)	NULL
SELE	6401	genome.wustl.edu	37	1	169697354	169697354	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_000450.2	-1	reviewed	p.R375Q	0.000	200	0%	52	26.9%	0	-	benign(0.068)	tolerated(0.4)	neutral(0.021)	HMMPfam_Sushi,HMMSmart_SM00032,superfamily_Complement control module/SCR domain
KIFAP3	22920	genome.wustl.edu	37	1	169923159	169923159	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_014970.2	-1	reviewed	p.P756T	1.000	402	0%	199	11.6%	18	5.5%	benign(0.002)	tolerated(0.17)	neutral(0.059)	NULL
FMO3	2328	genome.wustl.edu	37	1	171077268	171077268	+	Missense_Mutation	SNP	A	A	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001002294.2	+1	reviewed	p.E178V	0.567	362	0%	71	23.9%	0	-	possibly_damaging(0.455)	tolerated(0.15)	neutral(0.390)	HMMPfam_FMO-like,superfamily_FAD/NAD(P)-binding domain
METTL13	51603	genome.wustl.edu	37	1	171751163	171751163	+	Missense_Mutation	SNP	A	A	C	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_015935.4	+1	validated	p.K19T	1.000	226	0%	328	11.6%	4	0%	possibly_damaging(0.538)	tolerated(0.49)	neutral(0.193)	superfamily_S-adenosyl-L-methionine-dependent methyltransferases
C1orf9	51430	genome.wustl.edu	37	1	172501885	172501885	+	Silent	SNP	C	C	G	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	ENST00000367723	+1	known	p.G91	0.000	124	0%	290	24.1%	1	0%	-	-	-	NULL
C1orf9	51430	genome.wustl.edu	37	1	172560208	172560208	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_014283.3	+1	validated	p.E970	0.971	342	0%	100	18%	5	20%	-	-	-	NULL
FASLG	356	genome.wustl.edu	37	1	172628521	172628521	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_000639.1	+1	reviewed	p.P60	0.042	109	0%	204	11.3%	0	-	-	-	-	NULL
LOC646870	646870	genome.wustl.edu	37	1	173331711	173331711	+	RNA	SNP	T	T	G	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	XR_040282.2	-1	model	NULL	0.041	133	0%	66	24.2%	1	0%	-	-	-	-
LOC646870	646870	genome.wustl.edu	37	1	173332494	173332494	+	RNA	SNP	T	T	C	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	XR_040282.2	-1	model	NULL	1.000	75	0%	24	16.7%	0	-	-	-	-	-
SLC9A11	284525	genome.wustl.edu	37	1	173552702	173552702	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_178527.3	-1	validated	p.A195T	0.000	278	0.4%	78	12.8%	0	-	benign(0)	tolerated(0.39)	neutral(0.016)	HMMPfam_Na_H_Exchanger
ANKRD45	339416	genome.wustl.edu	37	1	173628501	173628501	+	Missense_Mutation	SNP	T	T	G	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_198493.2	-1	validated	p.E19D	0.001	885	0%	361	10.5%	0	-	unknown(0)	tolerated(0.14)	-	superfamily_Ankyrin repeat
KLHL20	27252	genome.wustl.edu	37	1	173726216	173726216	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_014458.3	+1	reviewed	p.G357R	1.000	443	0%	182	23.1%	1	0%	probably_damaging(1)	tolerated(0.93)	deleterious(0.500)	HMMPfam_Kelch_1,HMMSmart_SM00612,superfamily_Galactose oxidase central domain
DARS2	55157	genome.wustl.edu	37	1	173810070	173810070	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_018122.4	+1	reviewed	p.P363S	1.000	407	0%	119	19.3%	2	50%	probably_damaging(0.999)	tolerated(0.82)	deleterious(0.491)	HMMPfam_GAD,HMMPfam_tRNA-synt_2,superfamily_SSF55261,superfamily_SSF55681
ZBTB37	84614	genome.wustl.edu	37	1	173855043	173855043	+	Silent	SNP	T	T	C	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001122770.1	+1	provisional	p.C431	1.000	156	0%	68	17.6%	0	-	-	-	-	HMMPfam_zf-C2H2,PatternScan_ZINC_FINGER_C2H2_1,HMMSmart_SM00355,superfamily_C2H2 and C2HC zinc fingers
SERPINC1	462	genome.wustl.edu	37	1	173883932	173883932	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_000488.3	-1	reviewed	p.R56H	1.000	127	0%	40	12.5%	0	-	unknown(0)	deleterious(0)	-	superfamily_Prot_inh_serpin
RC3H1	149041	genome.wustl.edu	37	1	173930301	173930301	+	Missense_Mutation	SNP	T	T	G	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_172071.2	-1	validated	p.M762L	1.000	579	0.2%	236	10.2%	1	0%	benign(0.001)	tolerated(0.95)	-	NULL
RABGAP1L	9910	genome.wustl.edu	37	1	174190139	174190139	+	Missense_Mutation	SNP	A	A	C	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_014857.3	+1	validated	p.E56D	1.000	473	0%	121	19.8%	1	0%	possibly_damaging(0.941)	tolerated(0.11)	deleterious(0.658)	NULL
RABGAP1L	9910	genome.wustl.edu	37	1	174606540	174606540	+	Nonsense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_014857.3	+1	validated	p.R580*	0.988	255	0%	75	21.3%	5	0%	-	-	-	HMMPfam_TBC,HMMSmart_SM00164,superfamily_Ypt/Rab-GAP domain of gyp1p
MRPS14	63931	genome.wustl.edu	37	1	174987681	174987681	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_022100.1	-1	reviewed	p.R26Q	1.000	267	0%	106	12.3%	25	16%	unknown(0)	-	-	NULL
TNN	63923	genome.wustl.edu	37	1	175086149	175086149	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_022093.1	+1	validated	p.R732W	1.000	58	0%	36	36.1%	0	-	possibly_damaging(0.886)	deleterious(0)	deleterious(0.791)	HMMPfam_fn3,HMMSmart_SM00060,superfamily_Fibronectin type III
TNR	7143	genome.wustl.edu	37	1	175323587	175323587	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_003285.2	-1	validated	p.L1108F	1.000	176	0%	42	21.4%	0	-	benign(0.019)	deleterious(0.03)	neutral(0.365)	HMMPfam_fn3,HMMSmart_SM00060,superfamily_Fibronectin type III
TNR	7143	genome.wustl.edu	37	1	175372653	175372653	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_003285.2	-1	validated	p.S200L	1.000	55	0%	31	71%	0	-	possibly_damaging(0.912)	deleterious(0.01)	deleterious(0.769)	NULL
RFWD2	64326	genome.wustl.edu	37	1	176050293	176050293	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_022457.5	-1	validated	p.V424	0.990	266	0%	93	18.3%	13	15.3%	-	-	-	HMMSmart_SM00320,superfamily_WD40 repeat-like
PAPPA2	60676	genome.wustl.edu	37	1	176526051	176526051	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_020318.2	+1	validated	p.R198H	0.007	136	0%	46	19.6%	0	-	probably_damaging(0.97)	tolerated(0.08)	deleterious(0.712)	NULL
PAPPA2	60676	genome.wustl.edu	37	1	176563750	176563750	+	Missense_Mutation	SNP	G	G	A	rs150105070	by1000genomes	TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_020318.2	+1	validated	p.R337H	1.000	95	0%	64	23.4%	0	-	probably_damaging(0.98)	tolerated(0.07)	deleterious(0.743)	HMMSmart_SM00560,superfamily_Concanavalin A-like lectins/glucanases
PAPPA2	60676	genome.wustl.edu	37	1	176709231	176709231	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_020318.2	+1	validated	p.V1350	1.000	422	0%	96	25%	0	-	-	-	-	NULL
ASTN1	460	genome.wustl.edu	37	1	176852057	176852057	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	ENST00000450659	-1	known	p.R391Q	0.967	257	0%	95	11.6%	0	-	-	-	-	superfamily_Fibronectin type III
ASTN1	460	genome.wustl.edu	37	1	176857270	176857270	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_004319.1	-1	validated	p.R1004Q	1.000	125	0%	53	28.3%	3	0%	probably_damaging(0.999)	deleterious(0)	deleterious(0.935)	NULL
ASTN1	460	genome.wustl.edu	37	1	176915079	176915079	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	ENST00000450659	-1	known	p.C35Y	1.000	59	0%	15	33.3%	0	-	-	-	-	NULL
MIR488	574441	genome.wustl.edu	37	1	176998519	176998519	+	RNA	SNP	A	A	C	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	ENST00000365739	-1	known	NULL	1.000	204	0%	112	17.9%	0	-	-	-	-	-
FAM5B	57795	genome.wustl.edu	37	1	177249657	177249657	+	Nonsense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_021165.2	+1	provisional	p.Q449*	1.000	66	0%	39	17.9%	0	-	-	-	-	NULL
RASAL2	9462	genome.wustl.edu	37	1	178389651	178389651	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_170692.2	+1	reviewed	p.F172L	1.000	220	0%	34	26.5%	0	-	benign(0.061)	tolerated(0.1)	neutral(0.290)	HMMSmart_PH,superfamily_SSF50729
RASAL2	9462	genome.wustl.edu	37	1	178427226	178427226	+	Silent	SNP	T	T	C	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	ENST00000433130	+1	known	p.S343P	0.080	198	0%	87	11.5%	2	0%	-	-	-	NULL
C1orf49	84066	genome.wustl.edu	37	1	178489653	178489653	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	ENST00000367642	+1	known	p.R84K	0.000	165	0%	107	20.6%	0	-	benign(0)	tolerated(0.92)	-	NULL
RALGPS2	55103	genome.wustl.edu	37	1	178855203	178855203	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_152663.3	+1	validated	p.A380	0.458	180	0%	39	28.2%	1	100%	-	-	-	NULL
ABL2	27	genome.wustl.edu	37	1	179090831	179090831	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_007314.3	-1	reviewed	p.D287Y	1.000	372	0%	183	22.4%	0	-	probably_damaging(0.999)	deleterious(0)	deleterious(0.935)	superfamily_Protein kinase-like (PK-like),superfamily_SH2 domain
ABL2	27	genome.wustl.edu	37	1	179095529	179095529	+	Missense_Mutation	SNP	T	T	G	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_007314.3	-1	reviewed	p.T224P	1.000	99	0%	77	15.6%	1	0%	possibly_damaging(0.796)	tolerated(0.06)	deleterious(0.621)	HMMPfam_SH2,HMMSmart_SM00252,superfamily_SH2 domain
AXDND1	126859	genome.wustl.edu	37	1	179399663	179399663	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_144696.4	+1	validated	p.V470A	0.415	270	0%	118	19.5%	0	-	unknown(0)	tolerated(0.23)	-	NULL
NPHS2	7827	genome.wustl.edu	37	1	179523627	179523627	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_014625.2	-1	reviewed	p.V260L	1.000	474	0%	117	24.8%	0	-	probably_damaging(0.974)	tolerated(0.09)	deleterious(0.712)	HMMPfam_Band_7,HMMSmart_SM00244,PatternScan_BAND_7
TOR1AIP1	26092	genome.wustl.edu	37	1	179851907	179851907	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_015602.2	+1	validated	p.F90	1.000	78	0%	154	22.1%	2	0%	-	-	-	NULL
CEP350	9857	genome.wustl.edu	37	1	180062492	180062492	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_014810.4	+1	reviewed	p.P2418S	0.000	105	0%	76	23.7%	0	-	benign(0)	tolerated(0.08)	neutral(0.300)	NULL
CEP350	9857	genome.wustl.edu	37	1	180065277	180065277	+	Nonsense_Mutation	SNP	T	T	G	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_014810.4	+1	reviewed	p.Y3008*	0.997	243	0%	139	27.3%	6	0%	-	-	-	NULL
LHX4	89884	genome.wustl.edu	37	1	180243688	180243688	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_033343.2	+1	reviewed	p.D383N	1.000	121	0%	62	17.7%	0	-	probably_damaging(0.999)	tolerated(0.26)	deleterious(0.524)	NULL
KIAA1614	57710	genome.wustl.edu	37	1	180885756	180885756	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_020950.1	+1	validated	p.P173S	0.002	19	0%	38	28.9%	0	-	probably_damaging(0.994)	tolerated(0.47)	neutral(0.463)	NULL
KIAA1614	57710	genome.wustl.edu	37	1	180905125	180905125	+	Nonsense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_020950.1	+1	validated	p.G694*	0.000	63	0%	122	23%	1	0%	-	-	-	NULL
CACNA1E	777	genome.wustl.edu	37	1	181453139	181453139	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_000721.2	+1	reviewed	p.D87N	1.000	45	0%	63	17.5%	0	-	probably_damaging(0.959)	tolerated(0.07)	deleterious(0.722)	superfamily_Voltage-gated potassium channels
CACNA1E	777	genome.wustl.edu	37	1	181701757	181701757	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_000721.2	+1	reviewed	p.F845	0.031	86	0%	72	19.4%	0	-	-	-	-	NULL
CACNA1E	777	genome.wustl.edu	37	1	181705525	181705525	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_000721.2	+1	reviewed	p.A1126V	1.000	294	0%	223	13.9%	0	-	benign(0.062)	deleterious(0.04)	neutral(0.353)	superfamily_Voltage-gated potassium channels
CACNA1E	777	genome.wustl.edu	37	1	181741270	181741270	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_000721.2	+1	reviewed	p.D1681G	1.000	130	0%	63	25.4%	0	-	probably_damaging(0.996)	tolerated(0.22)	deleterious(0.504)	HMMPfam_Ion_trans,superfamily_Voltage-gated potassium channels
CACNA1E	777	genome.wustl.edu	37	1	181754548	181754548	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_000721.2	+1	reviewed	p.E1891D	1.000	182	0%	100	24%	0	-	possibly_damaging(0.559)	tolerated(0.53)	neutral(0.198)	HMMPfam_Ca_chan_IQ
GLUL	2752	genome.wustl.edu	37	1	182356278	182356278	+	Nonsense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001033044.2	-1	reviewed	p.R106*	1.000	131	0%	156	14.1%	127	0%	-	-	-	superfamily_Glutamine synthetase N-terminal domain
RGSL1	353299	genome.wustl.edu	37	1	182429142	182429142	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001137669.1	+1	validated	p.A59T	0.842	659	0.2%	170	22.9%	0	-	-	-	-	NULL
RGSL1	353299	genome.wustl.edu	37	1	182442871	182442871	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001137669.1	+1	validated	p.H209Y	0.876	163	0%	38	28.9%	0	-	-	-	-	NULL
RGSL1	353299	genome.wustl.edu	37	1	182443292	182443292	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001137669.1	+1	validated	p.V349A	0.007	169	0%	36	38.9%	0	-	-	-	-	NULL
RGSL1	353299	genome.wustl.edu	37	1	182462173	182462173	+	Silent	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001137669.1	+1	validated	p.S578	0.988	223	0%	101	20.8%	0	-	-	-	-	NULL
RNASEL	6041	genome.wustl.edu	37	1	182554489	182554489	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_021133.2	-1	reviewed	p.D485Y	1.000	320	0%	84	13.1%	2	0%	probably_damaging(0.999)	deleterious(0)	deleterious(0.935)	HMMSmart_SM00220,superfamily_Protein kinase-like (PK-like)
RNASEL	6041	genome.wustl.edu	37	1	182555647	182555647	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_021133.2	-1	reviewed	p.A99T	0.980	148	0%	64	14.1%	1	0%	probably_damaging(1)	deleterious(0)	deleterious(0.945)	HMMPfam_Ank,HMMSmart_SM00248,superfamily_Ankyrin repeat
RGS16	6004	genome.wustl.edu	37	1	182572403	182572403	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_002928.3	-1	reviewed	p.T39I	0.001	400	0%	571	24.5%	5	0%	benign(0)	tolerated(0.3)	neutral(0.029)	NULL
RGS8	85397	genome.wustl.edu	37	1	182636016	182636016	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_033345.2	-1	reviewed	p.R58H	0.997	210	0%	56	26.8%	0	-	probably_damaging(0.989)	tolerated(0.1)	deleterious(0.726)	NULL
NPL	80896	genome.wustl.edu	37	1	182783949	182783949	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_030769.1	+1	provisional	p.G107D	1.000	270	0%	53	15.1%	2	0%	probably_damaging(0.997)	deleterious(0)	deleterious(0.911)	HMMPfam_DHDPS,superfamily_Aldolase
SHCBP1L	81626	genome.wustl.edu	37	1	182909664	182909664	+	Silent	SNP	T	T	C	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_030933.2	-1	validated	p.P190	0.097	140	0%	199	13.1%	0	-	-	-	-	NULL
LAMC1	3915	genome.wustl.edu	37	1	183093895	183093895	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_002293.3	+1	reviewed	p.R844H	1.000	259	0%	84	28.6%	7	14.2%	probably_damaging(0.98)	tolerated(0.14)	deleterious(0.673)	HMMPfam_Laminin_EGF,HMMSmart_EGF_Lam,superfamily_SSF57196
LAMC1	3915	genome.wustl.edu	37	1	183099625	183099625	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_002293.3	+1	reviewed	p.R1143W	0.140	132	0%	55	25.5%	8	12.5%	possibly_damaging(0.629)	deleterious(0.04)	deleterious(0.569)	NULL
LAMC1	3915	genome.wustl.edu	37	1	183105653	183105653	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_002293.3	+1	reviewed	p.A1416V	0.720	120	0%	53	20.8%	24	16.6%	benign(0.263)	tolerated(0.21)	neutral(0.071)	NULL
SMG7	9887	genome.wustl.edu	37	1	183511478	183511478	+	Silent	SNP	A	A	G	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	ENST00000515829	+1	known	p.K310E	0.983	296	0%	110	16.4%	5	20%	-	-	-	NULL
SMG7	9887	genome.wustl.edu	37	1	183519030	183519030	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	ENST00000515829	+1	known	p.V688M	0.003	144	0%	35	31.4%	4	0%	-	-	-	NULL
RGL1	23179	genome.wustl.edu	37	1	183775510	183775510	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_015149.3	+1	validated	p.S45N	1.000	135	0%	209	27.3%	0	-	possibly_damaging(0.895)	deleterious(0)	deleterious(0.797)	NULL
RGL1	23179	genome.wustl.edu	37	1	183816730	183816730	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_015149.3	+1	validated	p.T92A	0.997	282	0%	67	16.4%	0	-	benign(0.129)	tolerated(0.54)	neutral(0.018)	superfamily_Ras GEF
EDEM3	80267	genome.wustl.edu	37	1	184681639	184681639	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_025191.3	-1	validated	p.I488	0.988	298	0%	66	34.8%	1	0%	-	-	-	HMMPfam_Glyco_hydro_47,superfamily_Glyco_hydro_47
FAM129A	116496	genome.wustl.edu	37	1	184777288	184777288	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_052966.2	-1	validated	p.R419C	0.995	189	0%	70	28.6%	1	0%	probably_damaging(0.98)	tolerated(0.08)	deleterious(0.724)	NULL
IVNS1ABP	10625	genome.wustl.edu	37	1	185268900	185268900	+	Nonsense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_006469.4	-1	validated	p.W539*	1.000	292	0%	151	11.3%	159	5.6%	-	-	-	HMMPfam_Kelch_1,HMMSmart_SM00612,superfamily_Galactose oxidase central domain
HMCN1	83872	genome.wustl.edu	37	1	185892612	185892612	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_031935.2	+1	reviewed	p.S371Y	0.597	420	0%	162	19.8%	0	-	possibly_damaging(0.519)	tolerated(0.09)	deleterious(0.471)	NULL
HMCN1	83872	genome.wustl.edu	37	1	185931678	185931678	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_031935.2	+1	reviewed	p.K619	1.000	387	0%	68	10.3%	0	-	-	-	-	HMMSmart_SM00409,HMMPfam_I-set,superfamily_Immunoglobulin
HMCN1	83872	genome.wustl.edu	37	1	186014854	186014854	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_031935.2	+1	reviewed	p.V2113	0.169	348	0%	69	27.5%	0	-	-	-	-	HMMSmart_SM00406,HMMSmart_SM00409,HMMPfam_I-set,superfamily_Immunoglobulin
HMCN1	83872	genome.wustl.edu	37	1	186031712	186031712	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_031935.2	+1	reviewed	p.T2498M	0.698	239	0%	55	20%	0	-	benign(0.095)	tolerated(0.2)	neutral(0.056)	HMMSmart_SM00406,HMMSmart_SM00408,HMMSmart_SM00409,HMMPfam_I-set,superfamily_Immunoglobulin
HMCN1	83872	genome.wustl.edu	37	1	186082069	186082069	+	Silent	SNP	T	T	C	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_031935.2	+1	reviewed	p.F3705	0.949	243	0%	73	17.8%	0	-	-	-	-	HMMSmart_SM00409,HMMPfam_I-set,superfamily_Immunoglobulin
HMCN1	83872	genome.wustl.edu	37	1	186086164	186086164	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_031935.2	+1	reviewed	p.S3867Y	1.000	312	0%	116	25.9%	0	-	possibly_damaging(0.801)	deleterious(0.04)	deleterious(0.650)	HMMSmart_SM00408,HMMSmart_SM00409,HMMPfam_I-set,superfamily_Immunoglobulin
HMCN1	83872	genome.wustl.edu	37	1	186120393	186120393	+	Missense_Mutation	SNP	T	T	G	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_031935.2	+1	reviewed	p.I4890M	1.000	438	0%	104	27.9%	0	-	probably_damaging(0.954)	tolerated(0.11)	deleterious(0.669)	HMMPfam_G2F,HMMSmart_SM00682,superfamily_GFP-like
HMCN1	83872	genome.wustl.edu	37	1	186120473	186120473	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_031935.2	+1	reviewed	p.R4917H	0.998	338	0%	78	21.8%	2	0%	probably_damaging(1)	tolerated(0.09)	deleterious(0.796)	HMMPfam_G2F,HMMSmart_SM00682,superfamily_GFP-like
HMCN1	83872	genome.wustl.edu	37	1	186134268	186134268	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_031935.2	+1	reviewed	p.S5094	0.023	546	0%	163	30.7%	0	-	-	-	-	NULL
PRG4	10216	genome.wustl.edu	37	1	186275524	186275524	+	Nonsense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_005807.3	+1	reviewed	p.G225*	1.000	342	0%	526	24%	0	-	-	-	-	NULL
PRG4	10216	genome.wustl.edu	37	1	186276796	186276796	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_005807.3	+1	reviewed	p.A649T	0.000	114	0.9%	211	26.5%	0	-	unknown(0)	tolerated(0.47)	-	NULL
PRG4	10216	genome.wustl.edu	37	1	186281421	186281421	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_005807.3	+1	reviewed	p.R1303H	1.000	242	0%	210	21%	3	0%	probably_damaging(1)	-	-	superfamily_Hemopexin-like domain
TPR	7175	genome.wustl.edu	37	1	186302464	186302464	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_003292.2	-1	reviewed	p.R1749C	1.000	326	0%	73	24.7%	14	7.1%	probably_damaging(1)	tolerated(0.06)	deleterious(0.823)	NULL
TPR	7175	genome.wustl.edu	37	1	186313065	186313065	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_003292.2	-1	reviewed	p.S1192Y	1.000	205	0%	70	31.4%	6	0%	probably_damaging(0.999)	deleterious(0)	deleterious(0.935)	HMMPfam_TPR_MLP1_2
TPR	7175	genome.wustl.edu	37	1	186322945	186322945	+	Nonsense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_003292.2	-1	reviewed	p.R737*	1.000	739	0.1%	172	23.8%	1	0%	-	-	-	NULL
TPR	7175	genome.wustl.edu	37	1	186342511	186342511	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_003292.2	-1	reviewed	p.R79L	0.067	278	0%	354	25.1%	3	66.6%	possibly_damaging(0.932)	deleterious(0.04)	deleterious(0.728)	NULL
PTGS2	5743	genome.wustl.edu	37	1	186643546	186643546	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_000963.2	-1	reviewed	p.R585H	1.000	160	0%	182	24.7%	1	0%	benign(0)	tolerated(1)	-	NULL
PTGS2	5743	genome.wustl.edu	37	1	186643645	186643645	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_000963.2	-1	reviewed	p.S552Y	0.872	267	0%	288	26%	1	0%	possibly_damaging(0.856)	deleterious(0.01)	deleterious(0.736)	HMMPfam_An_peroxidase,superfamily_Heme-dependent peroxidases
PTGS2	5743	genome.wustl.edu	37	1	186645996	186645996	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_000963.2	-1	reviewed	p.R231H	1.000	117	0%	131	12.2%	0	-	probably_damaging(1)	deleterious(0)	deleterious(0.945)	HMMPfam_An_peroxidase,superfamily_Heme-dependent peroxidases
FAM5C	339479	genome.wustl.edu	37	1	190234101	190234101	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_199051.1	-1	provisional	p.S171L	0.008	201	0%	129	24%	0	-	benign(0)	tolerated(0.26)	neutral(0.034)	HMMSmart_SM00457
FAM5C	339479	genome.wustl.edu	37	1	190250768	190250768	+	Nonsense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_199051.1	-1	provisional	p.R117*	1.000	289	0%	72	34.7%	0	-	-	-	-	HMMPfam_MACPF,HMMSmart_SM00457
RGS2	5997	genome.wustl.edu	37	1	192780151	192780151	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_002923.3	+1	reviewed	p.F105L	1.000	403	0%	557	14.9%	24	0%	possibly_damaging(0.727)	deleterious(0)	deleterious(0.709)	HMMPfam_RGS,HMMSmart_RGS,superfamily_Regulat_G_prot_signal_superfam
CDC73	79577	genome.wustl.edu	37	1	193094338	193094338	+	Silent	SNP	A	A	G	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_024529.4	+1	reviewed	p.R76	0.966	419	0.2%	497	12.1%	3	0%	-	-	-	NULL
CDC73	79577	genome.wustl.edu	37	1	193205435	193205435	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_024529.4	+1	reviewed	p.G456C	1.000	398	0.3%	172	30.2%	5	40%	probably_damaging(1)	deleterious(0)	deleterious(0.945)	HMMPfam_CDC73
KCNT2	343450	genome.wustl.edu	37	1	196227497	196227497	+	Missense_Mutation	SNP	T	T	G	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_198503.2	-1	validated	p.K1013T	1.000	541	0%	159	13.2%	0	-	possibly_damaging(0.743)	deleterious(0.01)	deleterious(0.678)	NULL
KCNT2	343450	genome.wustl.edu	37	1	196309604	196309604	+	Nonsense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_198503.2	-1	validated	p.C550*	0.997	331	0%	44	18.2%	0	-	-	-	-	superfamily_NAD(P)-binding Rossmann-fold domains
KCNT2	343450	genome.wustl.edu	37	1	196577385	196577385	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_198503.2	-1	validated	p.D19Y	1.000	512	0%	625	11.2%	0	-	probably_damaging(1)	deleterious(0.01)	deleterious(0.905)	NULL
CFH	3075	genome.wustl.edu	37	1	196697553	196697553	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_000186.3	+1	reviewed	p.D772N	0.000	220	0%	57	12.3%	4	0%	benign(0.004)	tolerated(0.68)	neutral(0.002)	HMMPfam_Sushi,HMMSmart_SM00032,superfamily_Complement control module/SCR domain
CFHR3	10878	genome.wustl.edu	37	1	196744073	196744073	+	Missense_Mutation	SNP	A	A	C	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_021023.5	+1	reviewed	p.Q19H	0.652	555	0%	107	16.8%	0	-	possibly_damaging(0.658)	deleterious(0.04)	deleterious(0.582)	NULL
ASPM	259266	genome.wustl.edu	37	1	197061162	197061162	+	Nonsense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_018136.4	-1	reviewed	p.R3107*	0.266	431	0%	69	31.9%	1	0%	-	-	-	superfamily_P-loop containing nucleoside triphosphate hydrolases
ASPM	259266	genome.wustl.edu	37	1	197102600	197102600	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_018136.4	-1	reviewed	p.R767C	0.973	278	0%	165	28.5%	0	-	probably_damaging(1)	deleterious(0)	deleterious(0.945)	superfamily_Calponin-homology domain CH-domain
ASPM	259266	genome.wustl.edu	37	1	197112654	197112654	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_018136.4	-1	reviewed	p.R243Q	0.000	326	0%	408	10.8%	0	-	benign(0.038)	tolerated(0.16)	neutral(0.061)	NULL
ZBTB41	360023	genome.wustl.edu	37	1	197150124	197150124	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_194314.2	-1	validated	p.R557Q	1.000	601	0.2%	144	20.1%	2	100%	probably_damaging(0.995)	deleterious(0.02)	deleterious(0.841)	HMMPfam_zf-C2H2,PatternScan_ZINC_FINGER_C2H2_1,HMMSmart_SM00355,superfamily_C2H2 and C2HC zinc fingers
CRB1	23418	genome.wustl.edu	37	1	197390307	197390307	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_201253.1	+1	reviewed	p.C450Y	1.000	319	0%	122	22.1%	0	-	probably_damaging(1)	deleterious(0)	deleterious(0.945)	HMMSmart_SM00179,HMMPfam_EGF,HMMSmart_SM00181
CRB1	23418	genome.wustl.edu	37	1	197390828	197390828	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_201253.1	+1	reviewed	p.G624S	0.000	187	0%	57	31.6%	0	-	benign(0.038)	tolerated(0.93)	neutral(0.002)	HMMSmart_SM00282,superfamily_Concanavalin A-like lectins/glucanases,HMMPfam_Laminin_G_2
CRB1	23418	genome.wustl.edu	37	1	197404419	197404419	+	Silent	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_201253.1	+1	reviewed	p.V1142	1.000	218	0%	37	18.9%	0	-	-	-	-	HMMSmart_SM00179,HMMSmart_SM00181,superfamily_Concanavalin A-like lectins/glucanases,superfamily_EGF/Laminin
CRB1	23418	genome.wustl.edu	37	1	197404470	197404470	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_201253.1	+1	reviewed	p.S1159	0.219	252	0%	46	23.9%	0	-	-	-	-	PatternScan_ASX_HYDROXYL,HMMSmart_SM00179,HMMPfam_EGF,HMMSmart_SM00181,superfamily_EGF/Laminin
LHX9	56956	genome.wustl.edu	37	1	197889149	197889149	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_020204.2	+1	reviewed	p.C74	1.000	44	0%	81	14.8%	0	-	-	-	-	HMMPfam_LIM,HMMSmart_SM00132,PatternScan_LIM_DOMAIN_1,superfamily_Glucocorticoid receptor-like (DNA-binding domain)
NEK7	140609	genome.wustl.edu	37	1	198231716	198231716	+	Silent	SNP	A	A	G	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_133494.2	+1	validated	p.L70	1.000	386	0%	55	9.1%	2	0%	-	-	-	HMMSmart_S_TKc,superfamily_Kinase_like,HMMPfam_Pkinase
NEK7	140609	genome.wustl.edu	37	1	198262147	198262147	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_133494.2	+1	validated	p.S221Y	1.000	511	0%	219	26.9%	5	0%	probably_damaging(0.999)	deleterious(0)	deleterious(0.935)	HMMSmart_S_TKc,superfamily_Kinase_like,HMMPfam_Pkinase
PTPRC	5788	genome.wustl.edu	37	1	198665964	198665964	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_002838.3	+1	reviewed	p.S73Y	0.000	370	0%	110	17.3%	1	0%	benign(0.003)	deleterious(0.03)	neutral(0.364)	NULL
FAM58BP	339521	genome.wustl.edu	37	1	200183126	200183126	+	Silent	SNP	A	A	G	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001105517.1	+1	provisional	p.P145	0.993	88	0%	135	23%	0	-	-	-	-	superfamily_Cyclin_like
ZNF281	23528	genome.wustl.edu	37	1	200377108	200377108	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_012482.3	-1	provisional	p.D576N	1.000	142	0%	275	26.2%	0	-	probably_damaging(0.998)	deleterious(0.02)	deleterious(0.857)	NULL
KIF14	9928	genome.wustl.edu	37	1	200555255	200555255	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_014875.2	-1	validated	p.R1072Q	0.677	451	0%	120	24.2%	0	-	benign(0.081)	tolerated(0.43)	neutral(0.019)	NULL
KIF14	9928	genome.wustl.edu	37	1	200569495	200569495	+	Silent	SNP	T	T	C	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_014875.2	-1	validated	p.A763	0.960	534	0.4%	162	17.9%	0	-	-	-	-	NULL
KIF14	9928	genome.wustl.edu	37	1	200577968	200577968	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_014875.2	-1	validated	p.R515I	1.000	335	0%	126	14.3%	0	-	possibly_damaging(0.64)	deleterious(0)	deleterious(0.668)	HMMPfam_Kinesin,HMMSmart_KISc,superfamily_SSF52540
KIF14	9928	genome.wustl.edu	37	1	200587748	200587748	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_014875.2	-1	validated	p.R35Q	0.000	332	0%	457	30.4%	0	-	probably_damaging(0.997)	deleterious(0)	deleterious(0.911)	NULL
CAMSAP2	23271	genome.wustl.edu	37	1	200818688	200818688	+	Nonsense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_203459.1	+1	validated	p.R931*	0.013	63	0%	24	25%	7	14.2%	-	-	-	NULL
KIF21B	23046	genome.wustl.edu	37	1	200954050	200954050	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_017596.2	-1	provisional	p.R1247H	1.000	156	0%	186	23.1%	2	0%	probably_damaging(0.999)	deleterious(0.01)	deleterious(0.896)	superfamily_WD40_like
KIF21B	23046	genome.wustl.edu	37	1	200956292	200956292	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_017596.2	-1	provisional	p.S1149L	1.000	114	0%	110	18.2%	0	-	probably_damaging(0.995)	tolerated(0.37)	deleterious(0.477)	superfamily_WD40_like
KIF21B	23046	genome.wustl.edu	37	1	200960054	200960054	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_017596.2	-1	provisional	p.R893H	0.916	73	1.4%	64	21.9%	0	-	probably_damaging(0.998)	deleterious(0.02)	deleterious(0.857)	superfamily_WD40_like
KIF21B	23046	genome.wustl.edu	37	1	200968514	200968514	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_017596.2	-1	provisional	p.E616D	1.000	133	0%	165	27.3%	0	-	possibly_damaging(0.892)	tolerated(0.51)	neutral(0.360)	superfamily_WD40_like
KIF21B	23046	genome.wustl.edu	37	1	200972766	200972766	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_017596.2	-1	provisional	p.A387E	1.000	263	0%	290	20%	1	0%	probably_damaging(0.991)	tolerated(0.07)	deleterious(0.763)	NULL
KIF21B	23046	genome.wustl.edu	37	1	200973482	200973482	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_017596.2	-1	provisional	p.S334	0.001	120	0%	117	22.2%	0	-	-	-	-	HMMPfam_Kinesin,HMMSmart_KISc,superfamily_SSF52540
CACNA1S	779	genome.wustl.edu	37	1	201035019	201035019	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_000069.2	-1	reviewed	p.V934I	1.000	78	0%	67	19.4%	0	-	probably_damaging(0.982)	deleterious(0.05)	deleterious(0.772)	HMMPfam_Ion_trans,superfamily_SSF81324
CACNA1S	779	genome.wustl.edu	37	1	201038607	201038607	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_000069.2	-1	reviewed	p.R828I	1.000	63	0%	53	30.2%	0	-	probably_damaging(0.999)	deleterious(0)	deleterious(0.935)	superfamily_SSF81324
CACNA1S	779	genome.wustl.edu	37	1	201041892	201041892	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_000069.2	-1	reviewed	p.D740N	1.000	270	0%	128	28.9%	0	-	benign(0.133)	tolerated(0.11)	neutral(0.283)	NULL
CACNA1S	779	genome.wustl.edu	37	1	201042725	201042725	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_000069.2	-1	reviewed	p.K703N	1.000	296	0%	173	22%	0	-	probably_damaging(0.984)	tolerated(0.4)	neutral(0.447)	NULL
CACNA1S	779	genome.wustl.edu	37	1	201046150	201046150	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_000069.2	-1	reviewed	p.L575	0.995	245	0%	214	26.2%	0	-	-	-	-	HMMPfam_Ion_trans,superfamily_SSF81324
IGFN1	91156	genome.wustl.edu	37	1	201182346	201182346	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	ENST00000412892	+1	known	p.R193W	0.000	144	0%	116	11.2%	0	-	-	-	-	NULL
IGFN1	91156	genome.wustl.edu	37	1	201196132	201196132	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	ENST00000451870	+1	known	p.V1180M	0.980	17	0%	36	25%	4	0%	probably_damaging(0.997)	-	-	HMMSmart_SM00408,HMMSmart_SM00409,HMMPfam_I-set,superfamily_Immunoglobulin
PKP1	5317	genome.wustl.edu	37	1	201252881	201252881	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_000299.2	+1	reviewed	p.D17	1.000	46	0%	97	28.9%	0	-	-	-	-	NULL
PKP1	5317	genome.wustl.edu	37	1	201252974	201252974	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_000299.2	+1	reviewed	p.T48	0.972	47	0%	80	13.8%	0	-	-	-	-	NULL
PKP1	5317	genome.wustl.edu	37	1	201285705	201285705	+	Nonsense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_000299.2	+1	reviewed	p.C242*	1.000	81	0%	49	18.4%	0	-	-	-	-	superfamily_ARM repeat
TNNT2	7139	genome.wustl.edu	37	1	201337339	201337339	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_000364.2	-1	reviewed	p.A38	0.000	86	0%	84	17.9%	1	0%	-	-	-	NULL
TNNT2	7139	genome.wustl.edu	37	1	201342370	201342370	+	Nonsense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_000364.2	-1	reviewed	p.E5*	0.997	282	0%	240	10.4%	3	0%	-	-	-	NULL
LAD1	3898	genome.wustl.edu	37	1	201352292	201352292	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_005558.3	-1	reviewed	p.F432	0.001	47	0%	57	28.1%	37	54%	-	-	-	NULL
MIR1231	100302158	genome.wustl.edu	37	1	201777821	201777821	+	RNA	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	ENST00000408101	+1	known	NULL	0.000	84	0%	49	38.8%	0	-	-	-	-	-
IPO9	55705	genome.wustl.edu	37	1	201845127	201845127	+	Missense_Mutation	SNP	T	T	G	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_018085.4	+1	validated	p.F1024C	1.000	287	0%	133	15%	47	2.1%	probably_damaging(1)	deleterious(0)	deleterious(0.945)	NULL
TIMM17A	10440	genome.wustl.edu	37	1	201926480	201926480	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_006335.2	+1	validated	p.A33V	0.999	752	0%	669	10.8%	5	20%	benign(0.064)	tolerated(0.26)	neutral(0.038)	HMMPfam_Tim17
GPR37L1	9283	genome.wustl.edu	37	1	202092464	202092464	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_004767.3	+1	validated	p.E125K	0.998	163	0%	161	14.3%	0	-	probably_damaging(0.995)	tolerated(0.09)	deleterious(0.754)	superfamily_Family A G protein-coupled receptor-like
LGR6	59352	genome.wustl.edu	37	1	202288189	202288189	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001017403.1	+1	reviewed	p.P920S	0.888	108	0%	113	21.2%	5	20%	benign(0.001)	tolerated(0.66)	neutral(0.003)	NULL
PPP1R12B	4660	genome.wustl.edu	37	1	202399863	202399863	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_032105.2	+1	reviewed	p.R309Q	1.000	373	0%	189	12.7%	3	0%	possibly_damaging(0.707)	tolerated(0.15)	deleterious(0.496)	NULL
PPP1R12B	4660	genome.wustl.edu	37	1	202399915	202399915	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	ENST00000466968	+1	known	p.D122N	0.911	427	0%	202	31.7%	1	100%	-	-	-	NULL
PPP1R12B	4660	genome.wustl.edu	37	1	202418153	202418153	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_032105.2	+1	reviewed	p.E568D	1.000	237	0%	356	14.3%	0	-	probably_damaging(0.988)	tolerated(0.2)	deleterious(0.486)	NULL
KDM5B	10765	genome.wustl.edu	37	1	202746170	202746170	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_006618.3	-1	validated	p.R86H	0.987	369	0%	161	28%	1	0%	probably_damaging(1)	deleterious(0)	deleterious(0.945)	superfamily_ARID-like
ENSG00000245250	0	genome.wustl.edu	37	1	202935635	202935635	+	RNA	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	ENST00000501099	+1	novel	NULL	0.057	107	0%	179	24%	0	-	-	-	-	-
PPFIA4	8497	genome.wustl.edu	37	1	203028924	203028924	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_015053.1	+1	validated	p.R337M	1.000	183	0%	153	26.8%	0	-	probably_damaging(0.998)	deleterious(0.04)	deleterious(0.823)	superfamily_SAM/Pointed domain
MYBPH	4608	genome.wustl.edu	37	1	203138163	203138163	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_004997.2	-1	validated	p.A430T	0.000	230	0%	208	22.6%	0	-	benign(0.025)	tolerated(0.14)	neutral(0.251)	HMMSmart_IGc2,HMMPfam_I-set,superfamily_SSF48726
MYBPH	4608	genome.wustl.edu	37	1	203140636	203140636	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_004997.2	-1	validated	p.R223H	1.000	36	0%	46	13%	0	-	probably_damaging(1)	deleterious(0)	deleterious(0.945)	HMMSmart_IG,HMMPfam_I-set,superfamily_SSF48726
OPTC	26254	genome.wustl.edu	37	1	203465303	203465303	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_014359.3	+1	reviewed	p.G57D	0.000	190	0%	224	14.3%	0	-	benign(0.003)	tolerated(0.95)	-	NULL
LAX1	54900	genome.wustl.edu	37	1	203741219	203741219	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_017773.3	+1	validated	p.R112C	0.023	376	0%	153	23.5%	0	-	probably_damaging(1)	tolerated(0.05)	deleterious(0.845)	NULL
PLEKHA6	22874	genome.wustl.edu	37	1	204217975	204217975	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_014935.2	-1	validated	p.R600C	1.000	171	0.6%	129	14%	2	0%	possibly_damaging(0.881)	deleterious(0.04)	deleterious(0.693)	NULL
PLEKHA6	22874	genome.wustl.edu	37	1	204228423	204228423	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_014935.2	-1	validated	p.L324M	1.000	121	0%	119	14.3%	0	-	probably_damaging(0.976)	tolerated(0.06)	deleterious(0.740)	NULL
PLEKHA6	22874	genome.wustl.edu	37	1	204230538	204230538	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_014935.2	-1	validated	p.A140	0.912	52	0%	60	45%	0	-	-	-	-	HMMPfam_PH,HMMSmart_PH,superfamily_SSF50729
PPP1R15B	84919	genome.wustl.edu	37	1	204379021	204379021	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_032833.3	-1	validated	p.P507S	0.000	99	0%	151	26.5%	9	0%	benign(0.001)	tolerated(0.32)	neutral(0.024)	HMMPfam_PP1c_bdg
PIK3C2B	5287	genome.wustl.edu	37	1	204403701	204403701	+	Nonsense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_002646.3	-1	reviewed	p.C1184*	1.000	77	0%	63	30.2%	1	0%	-	-	-	HMMPfam_PI3_PI4_kinase,HMMSmart_SM00146,superfamily_Protein kinase-like (PK-like),PatternScan_PI3_4_KINASE_2
PIK3C2B	5287	genome.wustl.edu	37	1	204426878	204426878	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_002646.3	-1	reviewed	p.R564H	1.000	75	0%	62	16.1%	1	0%	probably_damaging(0.997)	tolerated(0.12)	deleterious(0.727)	NULL
NFASC	23114	genome.wustl.edu	37	1	204913510	204913510	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_015090.3	+1	reviewed	p.G23R	0.017	121	0%	76	14.5%	3	0%	benign(0.213)	deleterious(0.03)	neutral(0.386)	NULL
NFASC	23114	genome.wustl.edu	37	1	204937941	204937941	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	ENST00000367173	+1	known	p.S248L	0.799	132	0%	67	13.4%	6	0%	-	-	-	HMMSmart_SM00408,HMMSmart_SM00409,HMMPfam_I-set,superfamily_Immunoglobulin
NFASC	23114	genome.wustl.edu	37	1	204953237	204953237	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_015090.3	+1	reviewed	p.S847	0.849	70	0%	62	29%	8	0%	-	-	-	HMMPfam_fn3,HMMSmart_FN3,superfamily_FN_III-like
NFASC	23114	genome.wustl.edu	37	1	204966429	204966429	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	ENST00000367172	+1	known	p.A1079T	0.653	448	0%	505	25.5%	1	0%	unknown(0)	tolerated(0.35)	-	NULL
CNTN2	6900	genome.wustl.edu	37	1	205033517	205033517	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_005076.2	+1	reviewed	p.I436	0.958	112	0%	91	36.3%	0	-	-	-	-	HMMSmart_IGc2,HMMPfam_ig,superfamily_SSF48726
CNTN2	6900	genome.wustl.edu	37	1	205035028	205035028	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_005076.2	+1	reviewed	p.L603M	1.000	48	0%	43	16.3%	0	-	possibly_damaging(0.818)	deleterious(0.01)	deleterious(0.715)	superfamily_FN_III-like,superfamily_SSF48726
TMEM81	388730	genome.wustl.edu	37	1	205053344	205053344	+	Silent	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_203376.1	-1	validated	p.L35	0.397	134	0%	69	10.1%	3	0%	-	-	-	NULL
DSTYK	25778	genome.wustl.edu	37	1	205130386	205130386	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_015375.2	-1	reviewed	p.R650C	1.000	114	0%	28	32.1%	2	0%	probably_damaging(0.985)	deleterious(0.01)	deleterious(0.838)	superfamily_Protein kinase-like (PK-like)
DSTYK	25778	genome.wustl.edu	37	1	205138701	205138701	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_015375.2	-1	reviewed	p.R305H	0.007	168	0%	62	29%	0	-	benign(0.002)	tolerated(0.16)	neutral(0.059)	NULL
TMCC2	9911	genome.wustl.edu	37	1	205238500	205238500	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_014858.3	+1	validated	p.N390	0.996	13	0%	30	23.3%	0	-	-	-	-	HMMPfam_Tmemb_cc2
TMCC2	9911	genome.wustl.edu	37	1	205240307	205240307	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_014858.3	+1	validated	p.T581M	0.997	76	0%	117	13.7%	1	0%	possibly_damaging(0.824)	tolerated(0.05)	deleterious(0.657)	HMMPfam_Tmemb_cc2
KLHDC8A	55220	genome.wustl.edu	37	1	205312475	205312475	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_018203.1	-1	provisional	p.G86	0.416	15	0%	33	24.2%	0	-	-	-	-	HMMPfam_Kelch_1,HMMSmart_Kelch,superfamily_Gal_oxid_central
CDK18	5129	genome.wustl.edu	37	1	205496968	205496968	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_212503.2	+1	validated	p.R289H	0.999	219	0%	286	24.8%	7	0%	possibly_damaging(0.893)	tolerated(0.35)	neutral(0.372)	HMMSmart_S_TKc,superfamily_Kinase_like,HMMPfam_Pkinase
ELK4	2005	genome.wustl.edu	37	1	205585769	205585769	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001973.2	-1	reviewed	p.P401T	1.000	178	0%	67	23.9%	10	10%	probably_damaging(1)	deleterious(0)	deleterious(0.945)	NULL
PM20D1	148811	genome.wustl.edu	37	1	205819186	205819186	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_152491.4	-1	validated	p.C5	0.000	80	0%	63	34.9%	0	-	-	-	-	NULL
SLC26A9	115019	genome.wustl.edu	37	1	205888081	205888081	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_134325.2	-1	reviewed	p.V715I	0.486	163	0%	71	21.1%	0	-	benign(0)	deleterious(0.05)	neutral(0.345)	HMMPfam_STAS,superfamily_STAS
SLC26A9	115019	genome.wustl.edu	37	1	205901049	205901049	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_134325.2	-1	reviewed	p.A164V	1.000	127	0%	70	25.7%	0	-	probably_damaging(1)	deleterious(0.01)	deleterious(0.905)	NULL
IKBKE	9641	genome.wustl.edu	37	1	206666659	206666659	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_014002.2	+1	validated	p.P665S	0.001	50	0%	34	11.8%	7	0%	benign(0)	tolerated(0.36)	neutral(0.020)	NULL
RASSF5	83593	genome.wustl.edu	37	1	206757934	206757934	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_182663.2	+1	reviewed	p.I302	1.000	185	0%	89	27%	2	0%	-	-	-	HMMPfam_RA,HMMSmart_SM00314
IL19	29949	genome.wustl.edu	37	1	206972256	206972256	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_153758.1	+1	reviewed	p.A6V	0.000	167	0%	51	15.7%	0	-	benign(0.079)	-	-	NULL
IL20	50604	genome.wustl.edu	37	1	207041881	207041881	+	Missense_Mutation	SNP	T	T	G	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_018724.3	+1	reviewed	p.L168R	0.997	294	0%	78	30.8%	0	-	probably_damaging(0.999)	deleterious(0)	deleterious(0.935)	superfamily_4_helix_cytokine,HMMPfam_IL10,HMMSmart_IL10
PIGR	5284	genome.wustl.edu	37	1	207105916	207105916	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_002644.3	-1	reviewed	p.E631D	0.000	85	0%	63	14.3%	12	16.6%	benign(0.001)	tolerated(0.59)	neutral(0.004)	NULL
PIGR	5284	genome.wustl.edu	37	1	207107996	207107996	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_002644.3	-1	reviewed	p.E492K	0.808	122	0%	82	17.1%	15	0%	benign(0.091)	tolerated(0.15)	neutral(0.247)	HMMSmart_IG,HMMPfam_V-set,superfamily_SSF48726
C1orf116	79098	genome.wustl.edu	37	1	207198314	207198314	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_023938.5	-1	validated	p.S67	0.997	85	0%	42	16.7%	0	-	-	-	-	NULL
C4BPA	722	genome.wustl.edu	37	1	207317163	207317163	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_000715.3	+1	reviewed	p.A482V	0.956	459	0%	75	16%	12	66.6%	probably_damaging(0.998)	deleterious(0.02)	deleterious(0.857)	superfamily_Complement control module/SCR domain
CR2	1380	genome.wustl.edu	37	1	207648373	207648373	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001006658.2	+1	reviewed	p.P843H	0.003	248	0%	98	21.4%	4	0%	probably_damaging(1)	deleterious(0.03)	deleterious(0.865)	NULL
CR1	1378	genome.wustl.edu	37	1	207749005	207749005	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_000651.4	+1	reviewed	p.T1506M	0.000	632	0.2%	157	20.4%	0	-	probably_damaging(0.954)	tolerated(0.1)	deleterious(0.684)	HMMPfam_Sushi,HMMSmart_SM00032,superfamily_Complement control module/SCR domain
CR1L	1379	genome.wustl.edu	37	1	207857221	207857221	+	Nonsense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_175710.1	+1	validated	p.R128*	0.315	621	0.3%	302	21.2%	0	-	-	-	-	HMMPfam_Sushi,HMMSmart_SM00032,superfamily_Complement control module/SCR domain
PLXNA2	5362	genome.wustl.edu	37	1	208212233	208212233	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_025179.3	-1	reviewed	p.L1533I	1.000	220	0%	184	22.3%	6	66.6%	probably_damaging(0.972)	deleterious(0)	deleterious(0.859)	superfamily_GTPase activation domain GAP,HMMPfam_Plexin_cytopl
PLXNA2	5362	genome.wustl.edu	37	1	208390301	208390301	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_025179.3	-1	reviewed	p.A323T	1.000	63	0%	37	10.8%	2	50%	probably_damaging(0.999)	deleterious(0)	deleterious(0.935)	HMMPfam_Sema,HMMSmart_SM00630,superfamily_Sema domain
PLXNA2	5362	genome.wustl.edu	37	1	208390607	208390607	+	Missense_Mutation	SNP	A	A	C	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_025179.3	-1	reviewed	p.F221V	1.000	86	0%	73	26%	1	0%	probably_damaging(0.959)	tolerated(0.28)	neutral(0.434)	HMMPfam_Sema,HMMSmart_SM00630,superfamily_Sema domain
LAMB3	3914	genome.wustl.edu	37	1	209807808	209807808	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_000228.2	-1	reviewed	p.R183H	0.001	89	0%	67	19.4%	1	100%	benign(0)	tolerated(0.71)	neutral(0.002)	HMMPfam_Laminin_N,HMMSmart_LamNT,superfamily_Gal_bind_like
IRF6	3664	genome.wustl.edu	37	1	209961934	209961934	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_006147.2	-1	reviewed	p.R412Q	0.998	54	0%	39	12.8%	25	16%	probably_damaging(0.997)	tolerated(0.33)	deleterious(0.490)	superfamily_SMAD_FHA
IRF6	3664	genome.wustl.edu	37	1	209969745	209969745	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_006147.2	-1	reviewed	p.K109N	1.000	203	0%	135	25.9%	7	42.8%	probably_damaging(1)	deleterious(0)	deleterious(0.945)	HMMPfam_IRF,HMMSmart_IRF,superfamily_SSF46785
DIEXF	27042	genome.wustl.edu	37	1	210008427	210008427	+	Missense_Mutation	SNP	T	T	G	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_014388.5	+1	validated	p.F190L	0.807	324	0%	100	18%	4	0%	probably_damaging(1)	deleterious(0.01)	deleterious(0.905)	NULL
KCNH1	3756	genome.wustl.edu	37	1	211192294	211192294	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_172362.2	-1	reviewed	p.R288H	1.000	407	0.2%	116	26.7%	0	-	probably_damaging(1)	deleterious(0.01)	deleterious(0.905)	HMMPfam_Ion_trans,superfamily_Voltage-gated potassium channels
KCNH1	3756	genome.wustl.edu	37	1	211276842	211276842	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_172362.2	-1	reviewed	p.K102N	1.000	520	0%	288	17%	1	0%	probably_damaging(1)	deleterious(0)	deleterious(0.945)	HMMSmart_SM00086,superfamily_PYP-like sensor domain (PAS domain)
NEK2	4751	genome.wustl.edu	37	1	211842455	211842455	+	Nonsense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_002497.2	-1	validated	p.Q329*	1.000	366	0.3%	199	12.1%	3	0%	-	-	-	NULL
NEK2	4751	genome.wustl.edu	37	1	211842553	211842553	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_002497.2	-1	validated	p.S296L	0.000	474	0%	207	13%	3	0%	benign(0)	tolerated(0.38)	neutral(0.018)	superfamily_Protein kinase-like (PK-like)
NEK2	4751	genome.wustl.edu	37	1	211842578	211842578	+	Nonsense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_002497.2	-1	validated	p.R288*	0.997	500	0%	211	30.8%	2	0%	-	-	-	superfamily_Protein kinase-like (PK-like)
INTS7	25896	genome.wustl.edu	37	1	212193550	212193550	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_015434.2	-1	provisional	p.E95	1.000	329	0%	306	20.3%	0	-	-	-	-	superfamily_ARM repeat
DTL	51514	genome.wustl.edu	37	1	212274173	212274173	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_016448.2	+1	validated	p.A614V	0.170	258	0%	69	10.1%	3	0%	benign(0.14)	tolerated(0.27)	neutral(0.045)	NULL
TMEM206	55248	genome.wustl.edu	37	1	212560332	212560332	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_018252.2	-1	validated	p.V82I	0.966	107	0%	47	10.6%	0	-	benign(0.103)	deleterious(0.04)	neutral(0.357)	NULL
ATF3	467	genome.wustl.edu	37	1	212792799	212792799	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001030287.2	+1	reviewed	p.R150W	1.000	108	0%	84	11.9%	11	0%	probably_damaging(1)	deleterious(0)	deleterious(0.945)	NULL
FAM71A	149647	genome.wustl.edu	37	1	212798351	212798351	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_153606.3	+1	validated	p.P44	0.001	165	0.6%	97	23.7%	0	-	-	-	-	NULL
TATDN3	128387	genome.wustl.edu	37	1	212969861	212969861	+	Silent	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001042552.2	+1	validated	p.A34	0.999	101	0%	88	14.8%	4	0%	-	-	-	HMMPfam_TatD_DNase,superfamily_Metallo-dependent hydrolases
PROX1	5629	genome.wustl.edu	37	1	214170398	214170398	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_002763.3	+1	provisional	p.R174W	1.000	139	0%	154	13%	0	-	probably_damaging(1)	deleterious(0)	deleterious(0.945)	HMMPfam_Prox1
PROX1	5629	genome.wustl.edu	37	1	214184962	214184962	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_002763.3	+1	provisional	p.N644	1.000	246	0.4%	75	29.3%	0	-	-	-	-	HMMPfam_Prox1,superfamily_Homeodomain_like
PTPN14	5784	genome.wustl.edu	37	1	214542937	214542937	+	Missense_Mutation	SNP	C	C	T	rs181559516	by1000genomes	TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_005401.4	-1	reviewed	p.R1045Q	1.000	282	0%	110	11.8%	2	0%	probably_damaging(1)	tolerated(0.07)	deleterious(0.819)	HMMPfam_Y_phosphatase,HMMSmart_PTPc,superfamily_SSF52799
CENPF	1063	genome.wustl.edu	37	1	214788234	214788234	+	Missense_Mutation	SNP	A	A	C	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_016343.3	+1	reviewed	p.E74D	0.970	156	0%	168	22%	0	-	probably_damaging(0.971)	deleterious(0)	deleterious(0.857)	HMMPfam_Cenp-F_N
CENPF	1063	genome.wustl.edu	37	1	214802424	214802424	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_016343.3	+1	reviewed	p.T368	0.894	245	0%	64	9.4%	0	-	-	-	-	NULL
CENPF	1063	genome.wustl.edu	37	1	214814764	214814764	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_016343.3	+1	reviewed	p.R1028I	0.904	90	0%	38	26.3%	0	-	possibly_damaging(0.805)	deleterious(0.01)	deleterious(0.709)	NULL
CENPF	1063	genome.wustl.edu	37	1	214818824	214818824	+	Missense_Mutation	SNP	T	T	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_016343.3	+1	reviewed	p.S1971T	0.058	135	0%	33	21.2%	0	-	possibly_damaging(0.94)	tolerated(0.67)	neutral(0.388)	NULL
CENPF	1063	genome.wustl.edu	37	1	214819277	214819277	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_016343.3	+1	reviewed	p.E2122K	1.000	78	1.3%	35	20%	3	0%	probably_damaging(0.995)	deleterious(0.01)	deleterious(0.863)	NULL
CENPF	1063	genome.wustl.edu	37	1	214820201	214820201	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_016343.3	+1	reviewed	p.V2430L	0.004	79	0%	28	32.1%	0	-	benign(0.117)	tolerated(0.38)	neutral(0.027)	HMMPfam_Cenp-F_leu_zip
KCTD3	51133	genome.wustl.edu	37	1	215759845	215759845	+	Nonsense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_016121.3	+1	validated	p.E212*	1.000	244	0%	151	25.2%	3	0%	-	-	-	superfamily_WD40 repeat-like
KCTD3	51133	genome.wustl.edu	37	1	215777494	215777494	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_016121.3	+1	validated	p.E387K	1.000	284	0%	61	19.7%	8	12.5%	probably_damaging(0.996)	deleterious(0)	deleterious(0.906)	superfamily_WD40 repeat-like
USH2A	7399	genome.wustl.edu	37	1	215813957	215813957	+	Nonsense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_206933.2	-1	reviewed	p.R4971*	0.865	150	0%	60	11.7%	1	0%	-	-	-	NULL
USH2A	7399	genome.wustl.edu	37	1	215844437	215844437	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_206933.2	-1	reviewed	p.Y4670	0.999	436	0%	71	36.6%	0	-	-	-	-	HMMPfam_fn3,HMMSmart_SM00060,superfamily_Fibronectin type III
USH2A	7399	genome.wustl.edu	37	1	215916614	215916614	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_206933.2	-1	reviewed	p.P3818H	0.490	199	0%	124	15.3%	0	-	possibly_damaging(0.848)	tolerated(0.1)	deleterious(0.612)	HMMPfam_fn3,HMMSmart_SM00060,superfamily_Fibronectin type III
USH2A	7399	genome.wustl.edu	37	1	216017785	216017785	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_206933.2	-1	reviewed	p.R3037C	1.000	220	0%	56	32.1%	0	-	probably_damaging(0.998)	deleterious(0)	deleterious(0.919)	HMMPfam_fn3,HMMSmart_SM00060,superfamily_Fibronectin type III
USH2A	7399	genome.wustl.edu	37	1	216144020	216144020	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_206933.2	-1	reviewed	p.H2302Y	1.000	179	0%	35	14.3%	0	-	probably_damaging(1)	tolerated(0.33)	deleterious(0.524)	HMMPfam_fn3,HMMSmart_SM00060,superfamily_Fibronectin type III
USH2A	7399	genome.wustl.edu	37	1	216371767	216371767	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_206933.2	-1	reviewed	p.T1324I	0.018	279	0%	48	10.4%	0	-	probably_damaging(0.978)	tolerated(0.07)	deleterious(0.740)	HMMPfam_fn3,HMMSmart_SM00060,superfamily_Fibronectin type III,superfamily_Concanavalin A-like lectins/glucanases
USH2A	7399	genome.wustl.edu	37	1	216591893	216591893	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_206933.2	-1	reviewed	p.R205K	1.000	325	0%	48	22.9%	0	-	possibly_damaging(0.535)	tolerated(0.39)	neutral(0.197)	HMMSmart_SM00560,superfamily_Concanavalin A-like lectins/glucanases
ESRRG	2104	genome.wustl.edu	37	1	216692605	216692605	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001438.2	-1	validated	p.G341C	1.000	384	0%	95	12.6%	0	-	probably_damaging(1)	deleterious(0)	deleterious(0.945)	HMMPfam_Hormone_recep,HMMSmart_SM00430,superfamily_Nuclear receptor ligand-binding domain
GPATCH2	55105	genome.wustl.edu	37	1	217793599	217793599	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_018040.2	-1	provisional	p.S100N	1.000	193	0%	87	13.8%	0	-	benign(0.001)	tolerated(0.49)	neutral(0.011)	NULL
TGFB2	7042	genome.wustl.edu	37	1	218607765	218607765	+	Silent	SNP	T	T	C	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001135599.1	+1	validated	p.S271	0.664	270	0%	84	17.9%	3	0%	-	-	-	HMMPfam_TGFb_propeptide
SLC30A10	55532	genome.wustl.edu	37	1	220091809	220091809	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_018713.2	-1	validated	p.A249V	1.000	85	1.2%	56	23.2%	0	-	probably_damaging(1)	deleterious(0.04)	deleterious(0.849)	HMMPfam_Cation_efflux
EPRS	2058	genome.wustl.edu	37	1	220146601	220146601	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_004446.2	-1	reviewed	p.I1408T	1.000	448	0%	113	23%	92	23.9%	probably_damaging(0.999)	deleterious(0)	deleterious(0.935)	superfamily_Anticodon_bd
EPRS	2058	genome.wustl.edu	37	1	220203780	220203780	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_004446.2	-1	reviewed	p.P191S	1.000	396	0%	175	13.7%	3	0%	probably_damaging(1)	deleterious(0)	deleterious(0.945)	NULL
IARS2	55699	genome.wustl.edu	37	1	220273854	220273854	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_018060.3	+1	validated	p.R138Q	1.000	206	0%	179	28.5%	1	0%	probably_damaging(1)	deleterious(0.01)	deleterious(0.905)	HMMPfam_tRNA-synt_1,superfamily_Nucleotidylyl transferase
RAB3GAP2	25782	genome.wustl.edu	37	1	220338134	220338134	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_012414.3	-1	reviewed	p.R1032H	0.994	324	0%	66	25.8%	4	0%	benign(0.008)	tolerated(0.15)	neutral(0.241)	NULL
MARK1	4139	genome.wustl.edu	37	1	220825472	220825472	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_018650.3	+1	validated	p.G572	1.000	286	0%	59	18.6%	7	14.2%	-	-	-	NULL
MARK1	4139	genome.wustl.edu	37	1	220835410	220835410	+	Nonsense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_018650.3	+1	validated	p.R764*	1.000	180	0.6%	79	21.5%	14	7.1%	-	-	-	HMMPfam_KA1,superfamily_Kinase associated domain 1 KA1
MARC1	64757	genome.wustl.edu	37	1	220970031	220970031	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_022746.3	+1	validated	p.A166T	0.950	31	0%	28	42.9%	2	50%	possibly_damaging(0.95)	deleterious(0.01)	deleterious(0.799)	HMMPfam_MOSC_N,superfamily_PK beta-barrel domain-like
MARC1	64757	genome.wustl.edu	37	1	220970107	220970107	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_022746.3	+1	validated	p.R191H	0.086	45	0%	46	23.9%	2	50%	benign(0.007)	tolerated(0.12)	neutral(0.261)	superfamily_PK beta-barrel domain-like
MARC1	64757	genome.wustl.edu	37	1	220970141	220970141	+	Nonsense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	ENST00000407981	+1	known	p.G111*	0.000	39	0%	43	14%	2	50%	benign(0)	tolerated(0.74)	neutral(0.002)	HMMPfam_MOSC,superfamily_PK beta-barrel domain-like
HLX	3142	genome.wustl.edu	37	1	221054568	221054568	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_021958.3	+1	validated	p.A209T	0.052	276	0%	413	29.8%	3	0%	benign(0)	tolerated(0.47)	neutral(0.011)	NULL
TAF1A	9015	genome.wustl.edu	37	1	222750907	222750907	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_005681.2	-1	reviewed	p.T162A	1.000	513	0%	125	23.2%	0	-	benign(0.271)	tolerated(0.56)	neutral(0.036)	NULL
MIA3	375056	genome.wustl.edu	37	1	222825338	222825338	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_198551.2	+1	validated	p.S1310Y	1.000	323	0%	131	14.5%	3	0%	probably_damaging(0.998)	deleterious(0.01)	deleterious(0.880)	NULL
BROX	148362	genome.wustl.edu	37	1	222903454	222903454	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_144695.2	+1	validated	p.F308L	1.000	299	0%	77	7.8%	6	0%	probably_damaging(0.99)	deleterious(0.03)	deleterious(0.806)	HMMPfam_BRO1
DISP1	84976	genome.wustl.edu	37	1	223176548	223176548	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_032890.2	+1	reviewed	p.H603	0.846	297	0%	92	26.1%	1	0%	-	-	-	HMMPfam_Patched,superfamily_SSF82866
TLR5	7100	genome.wustl.edu	37	1	223285902	223285902	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_003268.5	-1	reviewed	p.R158C	0.000	179	0%	175	24%	0	-	possibly_damaging(0.868)	deleterious(0.02)	deleterious(0.720)	HMMPfam_LRR_1,superfamily_SSF52058
CAPN8	388743	genome.wustl.edu	37	1	223803554	223803554	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	ENST00000366872	-1	known	p.S467F	0.003	17	0%	20	35%	0	-	possibly_damaging(0.819)	deleterious(0)	deleterious(0.754)	HMMPfam_Calpain_III,HMMSmart_SM00720,superfamily_Calpain large subunit middle domain (domain III)
CAPN8	388743	genome.wustl.edu	37	1	223803721	223803721	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001143962.1	-1	validated	p.R421Q	0.012	91	1.1%	45	35.6%	1	0%	benign(0.001)	tolerated(0.64)	neutral(0.003)	HMMPfam_Calpain_III,HMMSmart_SM00720,superfamily_Calpain large subunit middle domain (domain III)
CAPN8	388743	genome.wustl.edu	37	1	223813512	223813512	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001143962.1	-1	validated	p.E270K	0.971	253	0%	89	23.6%	1	0%	possibly_damaging(0.622)	tolerated(0.75)	neutral(0.218)	HMMPfam_Peptidase_C2,HMMSmart_SM00230,superfamily_Cysteine proteinases
CAPN8	388743	genome.wustl.edu	37	1	223853173	223853173	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001143962.1	-1	validated	p.G59D	1.000	116	0%	50	16%	1	0%	probably_damaging(1)	tolerated(0.19)	deleterious(0.549)	HMMPfam_Peptidase_C2,HMMSmart_SM00230,superfamily_Cysteine proteinases
CAPN8	388743	genome.wustl.edu	37	1	223853242	223853242	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001143962.1	-1	validated	p.R36K	1.000	105	0%	48	14.6%	0	-	benign(0.013)	tolerated(0.28)	neutral(0.032)	HMMSmart_SM00230,superfamily_Cysteine proteinases
CAPN2	824	genome.wustl.edu	37	1	223958168	223958168	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001748.4	+1	reviewed	p.D615G	0.983	174	0%	53	37.7%	22	13.6%	possibly_damaging(0.5)	deleterious(0)	deleterious(0.612)	PatternScan_EF_HAND_1,superfamily_EF-hand
FBXO28	23219	genome.wustl.edu	37	1	224345314	224345314	+	Nonsense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_015176.2	+1	validated	p.R325*	0.997	221	0%	103	21.4%	2	100%	-	-	-	NULL
NVL	4931	genome.wustl.edu	37	1	224438000	224438000	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_002533.2	-1	validated	p.L735M	1.000	138	0%	62	22.6%	9	0%	possibly_damaging(0.828)	tolerated(0.06)	deleterious(0.637)	HMMSmart_SM00382,HMMPfam_AAA,PatternScan_AAA,superfamily_P-loop containing nucleoside triphosphate hydrolases
NVL	4931	genome.wustl.edu	37	1	224477278	224477278	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_002533.2	-1	validated	p.E495K	0.011	203	0%	63	23.8%	4	25%	benign(0)	tolerated(0.65)	neutral(0.003)	superfamily_P-loop containing nucleoside triphosphate hydrolases
DNAH14	127602	genome.wustl.edu	37	1	225152273	225152273	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001373.1	+1	validated	p.G154R	0.000	263	0%	45	28.9%	2	50%	benign(0)	tolerated(0.6)	neutral(0.004)	NULL
DNAH14	127602	genome.wustl.edu	37	1	225428475	225428475	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001373.1	+1	validated	p.Y2211	0.998	269	0%	60	11.7%	0	-	-	-	-	NULL
DNAH14	127602	genome.wustl.edu	37	1	225533864	225533864	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001373.1	+1	validated	p.Y3534H	1.000	212	0%	70	15.7%	0	-	probably_damaging(1)	deleterious(0)	deleterious(0.945)	NULL
DNAH14	127602	genome.wustl.edu	37	1	225534315	225534315	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001373.1	+1	validated	p.L3659S	0.170	209	0%	49	28.6%	0	-	benign(0.005)	tolerated(0.72)	neutral(0.002)	NULL
DNAH14	127602	genome.wustl.edu	37	1	225552509	225552509	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001373.1	+1	validated	p.N3908	0.000	237	0%	69	20.3%	0	-	-	-	-	HMMPfam_Dynein_heavy
DNAH14	127602	genome.wustl.edu	37	1	225562479	225562479	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001373.1	+1	validated	p.Y4043	0.922	224	0%	164	23.2%	0	-	-	-	-	HMMPfam_Dynein_heavy
LBR	3930	genome.wustl.edu	37	1	225599053	225599053	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_002296.2	-1	reviewed	p.G392R	1.000	380	0.3%	168	23.8%	3	66.6%	probably_damaging(1)	deleterious(0)	deleterious(0.945)	HMMPfam_ERG4_ERG24
SRP9	6726	genome.wustl.edu	37	1	225977035	225977035	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_003133.5	+1	validated	p.R79C	1.000	341	6.5%	236	26.3%	41	19.5%	probably_damaging(0.992)	deleterious(0.04)	deleterious(0.796)	superfamily_Signal recognition particle alu RNA binding heterodimer SRP9/14
TMEM63A	9725	genome.wustl.edu	37	1	226036699	226036699	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_014698.2	-1	validated	p.A696T	0.062	77	0%	73	32.9%	42	50%	benign(0)	tolerated(0.74)	neutral(0.002)	NULL
TMEM63A	9725	genome.wustl.edu	37	1	226043625	226043625	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_014698.2	-1	validated	p.R530W	1.000	199	0%	123	20.3%	20	35%	probably_damaging(1)	deleterious(0)	deleterious(0.945)	HMMPfam_DUF221
PYCR2	29920	genome.wustl.edu	37	1	226109704	226109704	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_013328.2	-1	provisional	p.A132T	0.997	39	0%	81	11.1%	99	0%	probably_damaging(0.992)	deleterious(0.02)	deleterious(0.831)	HMMPfam_F420_oxidored,superfamily_NAD(P)-binding Rossmann-fold domains
H3F3A	3020	genome.wustl.edu	37	1	226253473	226253473	+	Missense_Mutation	SNP	A	A	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_002107.3	+1	reviewed	p.D82V	1.000	135	0%	191	13.6%	299	1.3%	possibly_damaging(0.821)	-	-	HMMSmart_SM00428,HMMPfam_Histone,superfamily_Histone-fold
ACBD3	64746	genome.wustl.edu	37	1	226334447	226334447	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_022735.3	-1	reviewed	p.R484Q	1.000	149	0%	71	26.8%	2	50%	probably_damaging(1)	deleterious(0)	deleterious(0.945)	superfamily_Supernatant protein factor (SPF) C-terminal domain
ACBD3	64746	genome.wustl.edu	37	1	226340195	226340195	+	Nonsense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_022735.3	-1	reviewed	p.R406*	1.000	183	0%	56	23.2%	4	0%	-	-	-	superfamily_Supernatant protein factor (SPF) C-terminal domain
PARP1	142	genome.wustl.edu	37	1	226553657	226553657	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001618.3	-1	reviewed	p.D835N	0.993	242	0%	117	12.8%	58	15.5%	benign(0.042)	deleterious(0.01)	neutral(0.408)	HMMPfam_PARP,superfamily_ADP-ribosylation
ITPKB	3707	genome.wustl.edu	37	1	226834981	226834981	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_002221.3	-1	reviewed	p.F711	0.018	127	0%	115	24.3%	26	3.8%	-	-	-	HMMPfam_IPK,superfamily_SAICAR synthase-like
CDC42BPA	8476	genome.wustl.edu	37	1	227268659	227268659	+	Missense_Mutation	SNP	T	T	G	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_003607.3	-1	reviewed	p.K805N	1.000	680	0%	161	11.2%	0	-	benign(0)	tolerated(0.32)	neutral(0.024)	NULL
CDC42BPA	8476	genome.wustl.edu	37	1	227335075	227335075	+	Missense_Mutation	SNP	T	T	G	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_003607.3	-1	reviewed	p.K293N	1.000	235	0%	114	21.1%	1	0%	probably_damaging(1)	deleterious(0)	deleterious(0.945)	HMMSmart_S_TKc,superfamily_Kinase_like,HMMPfam_Pkinase
JMJD4	65094	genome.wustl.edu	37	1	227921361	227921361	+	Silent	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	ENST00000438896	-1	known	p.S231Y	0.999	39	0%	88	18.2%	18	11.1%	-	-	-	HMMSmart_SM00558,HMMPfam_JmjC,superfamily_Clavaminate synthase-like
JMJD4	65094	genome.wustl.edu	37	1	227921626	227921626	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_023007.2	-1	validated	p.A225V	1.000	95	0%	165	28.5%	23	17.3%	benign(0.021)	tolerated(0.15)	neutral(0.242)	HMMSmart_SM00558,HMMPfam_JmjC,superfamily_Clavaminate synthase-like
SNAP47	116841	genome.wustl.edu	37	1	227947101	227947101	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_053052.3	+1	validated	p.K346N	1.000	126	0%	109	26.6%	22	9%	probably_damaging(1)	deleterious(0)	deleterious(0.945)	NULL
WNT9A	7483	genome.wustl.edu	37	1	228111880	228111880	+	Nonsense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_003395.2	-1	validated	p.R192*	1.000	43	0%	79	16.5%	0	-	-	-	-	HMMPfam_wnt,HMMSmart_WNT1
WNT3A	89780	genome.wustl.edu	37	1	228246752	228246752	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_033131.2	+1	reviewed	p.K215	1.000	34	0%	55	25.5%	0	-	-	-	-	HMMPfam_wnt,HMMSmart_WNT1
ARF1	375	genome.wustl.edu	37	1	228284922	228284922	+	Missense_Mutation	SNP	A	A	C	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001024226.1	+1	reviewed	p.K36T	1.000	79	0%	119	10.1%	212	0.4%	possibly_damaging(0.943)	deleterious(0)	deleterious(0.832)	HMMSmart_SM00175,HMMSmart_SM00178,HMMSmart_SM00177,HMMPfam_Arf,superfamily_P-loop containing nucleoside triphosphate hydrolases
GUK1	2987	genome.wustl.edu	37	1	228336130	228336130	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	ENST00000366723	+1	known	p.T216M	0.024	40	0%	76	26.3%	447	18.7%	unknown(0)	-	-	NULL
GUK1	2987	genome.wustl.edu	37	1	228336392	228336392	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	ENST00000366719	+1	known	p.R234C	0.001	29	0%	62	21%	519	18.3%	benign(0.356)	deleterious(0)	deleterious(0.557)	HMMSmart_SM00072
OBSCN	84033	genome.wustl.edu	37	1	228403320	228403320	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001098623.1	+1	reviewed	p.E629K	0.990	67	0%	95	22.1%	1	100%	probably_damaging(0.98)	-	-	HMMSmart_SM00409,superfamily_Immunoglobulin
OBSCN	84033	genome.wustl.edu	37	1	228433239	228433239	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001098623.1	+1	reviewed	p.G1203R	0.993	203	0%	155	12.9%	0	-	probably_damaging(1)	-	-	HMMSmart_SM00408,HMMSmart_SM00409,HMMPfam_I-set,superfamily_Immunoglobulin
OBSCN	84033	genome.wustl.edu	37	1	228433367	228433367	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001098623.1	+1	reviewed	p.V1245	1.000	173	0%	141	34.8%	1	0%	-	-	-	HMMSmart_SM00408,HMMSmart_SM00409,HMMPfam_I-set,superfamily_Immunoglobulin
OBSCN	84033	genome.wustl.edu	37	1	228461210	228461210	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001098623.1	+1	reviewed	p.A1700V	1.000	46	0%	109	22.9%	0	-	probably_damaging(0.988)	tolerated(0.08)	deleterious(0.738)	HMMSmart_SM00406,HMMSmart_SM00408,HMMSmart_SM00409,HMMPfam_ig,superfamily_Immunoglobulin
OBSCN	84033	genome.wustl.edu	37	1	228480406	228480406	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001098623.1	+1	reviewed	p.R3596C	0.963	242	0%	266	12%	0	-	unknown(0)	tolerated(0.11)	-	HMMSmart_SM00408,HMMSmart_SM00409,HMMPfam_I-set,superfamily_Immunoglobulin
OBSCN	84033	genome.wustl.edu	37	1	228506715	228506715	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001098623.1	+1	reviewed	p.T4754	0.786	24	0%	46	28.3%	0	-	-	-	-	NULL
OBSCN	84033	genome.wustl.edu	37	1	228538618	228538618	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	ENST00000441106	+1	known	p.R748*	0.017	38	0%	59	15.3%	2	0%	-	-	-	HMMSmart_SM00408,HMMSmart_SM00409,HMMPfam_I-set,superfamily_Immunoglobulin
OBSCN	84033	genome.wustl.edu	37	1	228554197	228554197	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001098623.1	+1	reviewed	p.G6425S	0.995	27	0%	54	22.2%	0	-	possibly_damaging(0.906)	deleterious(0.02)	deleterious(0.742)	HMMSmart_SM00408,HMMSmart_SM00409,HMMPfam_I-set,superfamily_Immunoglobulin
OBSCN	84033	genome.wustl.edu	37	1	228559908	228559908	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	ENST00000441106	+1	known	p.P1760S	0.001	18	0%	32	18.8%	0	-	-	-	-	NULL
RNF187	149603	genome.wustl.edu	37	1	228680759	228680759	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001010858.2	+1	validated	p.H54	0.341	97	0%	110	17.3%	31	12.9%	-	-	-	NULL
RAB4A	5867	genome.wustl.edu	37	1	229438681	229438681	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_004578.2	+1	provisional	p.P205L	1.000	91	0%	33	18.2%	37	21.6%	benign(0.007)	tolerated(0.06)	neutral(0.323)	HMMSmart_SM00176,superfamily_P-loop containing nucleoside triphosphate hydrolases
ACTA1	58	genome.wustl.edu	37	1	229568141	229568141	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001100.3	-1	reviewed	p.N164	0.980	30	0%	47	23.4%	0	-	-	-	-	HMMPfam_Actin,HMMSmart_SM00268,superfamily_Actin-like ATPase domain
ABCB10	23456	genome.wustl.edu	37	1	229667391	229667391	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_012089.2	-1	reviewed	p.P476H	1.000	166	0%	70	22.9%	1	0%	probably_damaging(1)	tolerated(0.07)	deleterious(0.819)	NULL
TAF5L	27097	genome.wustl.edu	37	1	229745902	229745902	+	Silent	SNP	T	T	C	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_014409.3	-1	reviewed	p.E66	1.000	205	0%	77	14.3%	3	0%	-	-	-	HMMPfam_TFIID_90kDa
URB2	9816	genome.wustl.edu	37	1	229772591	229772591	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_014777.2	+1	provisional	p.V744A	0.141	115	0%	79	17.7%	0	-	benign(0.133)	tolerated(0.05)	neutral(0.356)	NULL
URB2	9816	genome.wustl.edu	37	1	229773772	229773772	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_014777.2	+1	provisional	p.D1138N	0.000	197	0%	132	25.8%	0	-	benign(0)	tolerated(0.28)	neutral(0.032)	NULL
PGBD5	79605	genome.wustl.edu	37	1	230468627	230468627	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_024554.3	-1	reviewed	p.F442	1.000	216	0%	246	27.2%	1	0%	-	-	-	NULL
CAPN9	10753	genome.wustl.edu	37	1	230898527	230898527	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_006615.2	+1	reviewed	p.Y177	0.920	114	0%	69	33.3%	0	-	-	-	-	HMMPfam_Peptidase_C2,HMMSmart_SM00230,superfamily_Cysteine proteinases
CAPN9	10753	genome.wustl.edu	37	1	230903324	230903324	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_006615.2	+1	reviewed	p.A192T	1.000	142	0%	68	17.6%	0	-	benign(0)	tolerated(1)	-	HMMPfam_Peptidase_C2,HMMSmart_SM00230,superfamily_Cysteine proteinases
CAPN9	10753	genome.wustl.edu	37	1	230916078	230916078	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_006615.2	+1	reviewed	p.Y423C	1.000	187	0.5%	54	11.1%	0	-	probably_damaging(1)	deleterious(0)	deleterious(0.945)	HMMPfam_Calpain_III,HMMSmart_SM00720,superfamily_Calpain large subunit middle domain (domain III)
CAPN9	10753	genome.wustl.edu	37	1	230927675	230927675	+	Splice_Site	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_006615.2	+1	reviewed	e15+1	0.998	273	0%	99	10.1%	0	-	-	-	-	-
CAPN9	10753	genome.wustl.edu	37	1	230928237	230928237	+	Nonsense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_006615.2	+1	reviewed	p.W596*	1.000	176	0%	77	19.5%	1	0%	-	-	-	HMMSmart_SM00054,superfamily_EF-hand
TTC13	79573	genome.wustl.edu	37	1	231093979	231093979	+	Nonsense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_024525.4	-1	validated	p.E145*	1.000	425	0%	215	21.9%	0	-	-	-	-	HMMSmart_SM00028
LOC644006	644006	genome.wustl.edu	37	1	231157372	231157372	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	XM_929433.4	+1	model	p.R6C	0.077	205	0%	103	27.2%	0	-	-	-	-	NULL
TRIM67	440730	genome.wustl.edu	37	1	231335945	231335945	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001004342.3	+1	validated	p.G439R	1.000	112	0%	68	25%	0	-	probably_damaging(1)	deleterious(0.01)	deleterious(0.905)	HMMSmart_SM00502
GNPAT	8443	genome.wustl.edu	37	1	231398518	231398518	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_014236.3	+1	reviewed	p.R163Q	1.000	566	0.2%	172	23.8%	3	0%	probably_damaging(1)	deleterious(0.01)	deleterious(0.905)	HMMPfam_Acyltransferase,HMMSmart_PlsC,superfamily_SSF69593
GNPAT	8443	genome.wustl.edu	37	1	231401049	231401049	+	Silent	SNP	A	A	G	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_014236.3	+1	reviewed	p.G193	0.977	505	0%	153	13.1%	4	0%	-	-	-	HMMPfam_Acyltransferase,HMMSmart_PlsC,superfamily_SSF69593
EXOC8	149371	genome.wustl.edu	37	1	231472368	231472368	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_175876.3	-1	validated	p.P375H	0.920	72	0%	116	23.3%	1	0%	benign(0.003)	tolerated(0.55)	neutral(0.007)	NULL
LOC645339	645339	genome.wustl.edu	37	1	231611768	231611768	+	RNA	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	XR_078245.1	-1	model	NULL	1.000	150	0%	99	11.1%	0	-	-	-	-	-
DISC1	27185	genome.wustl.edu	37	1	231829860	231829860	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_018662.2	+1	reviewed	p.G119E	0.001	36	0%	32	28.1%	1	0%	probably_damaging(1)	deleterious(0.01)	deleterious(0.905)	NULL
SIPA1L2	57568	genome.wustl.edu	37	1	232601014	232601014	+	Nonsense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_020808.3	-1	validated	p.R798*	1.000	166	0%	65	24.6%	1	0%	-	-	-	HMMPfam_Rap_GAP,superfamily_Rap/Ran-GAP (Pfam 02145)
KIAA1383	54627	genome.wustl.edu	37	1	232942730	232942730	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_019090.2	+1	validated	p.P654H	1.000	152	0%	230	21.7%	0	-	probably_damaging(1)	deleterious(0)	deleterious(0.945)	NULL
KIAA1383	54627	genome.wustl.edu	37	1	232943590	232943590	+	Missense_Mutation	SNP	T	T	G	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_019090.2	+1	validated	p.L941V	0.001	106	0%	180	10.6%	2	0%	benign(0.253)	tolerated(0.3)	neutral(0.054)	NULL
KIAA1383	54627	genome.wustl.edu	37	1	232943667	232943667	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_019090.2	+1	validated	p.K966	0.019	102	0%	171	23.4%	4	25%	-	-	-	NULL
PCNXL2	80003	genome.wustl.edu	37	1	233314883	233314883	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_014801.3	-1	provisional	p.S1035	0.006	143	0%	63	34.9%	2	0%	-	-	-	NULL
PCNXL2	80003	genome.wustl.edu	37	1	233393949	233393949	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_014801.3	-1	provisional	p.E553	0.999	466	0%	86	24.4%	0	-	-	-	-	NULL
KIAA1804	84451	genome.wustl.edu	37	1	233482247	233482247	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_032435.2	+1	validated	p.D289Y	1.000	226	0%	71	11.3%	0	-	probably_damaging(1)	deleterious(0)	deleterious(0.945)	HMMSmart_SM00219,HMMSmart_SM00220,superfamily_Protein kinase-like (PK-like),HMMPfam_Pkinase
KIAA1804	84451	genome.wustl.edu	37	1	233497997	233497997	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_032435.2	+1	validated	p.R504C	1.000	153	0%	35	28.6%	0	-	possibly_damaging(0.644)	deleterious(0.05)	deleterious(0.571)	NULL
KCNK1	3775	genome.wustl.edu	37	1	233807171	233807171	+	Silent	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_002245.3	+1	reviewed	p.S302	0.845	174	0%	72	23.6%	18	5.5%	-	-	-	superfamily_SSF81324
SLC35F3	148641	genome.wustl.edu	37	1	234367238	234367238	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_173508.2	+1	provisional	p.A120V	0.001	23	0%	49	22.4%	0	-	benign(0)	tolerated(0.12)	neutral(0.261)	NULL
TARBP1	6894	genome.wustl.edu	37	1	234582720	234582720	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_005646.3	-1	reviewed	p.G655R	1.000	261	0%	53	22.6%	4	0%	possibly_damaging(0.491)	deleterious(0.01)	deleterious(0.569)	NULL
ARID4B	51742	genome.wustl.edu	37	1	235338672	235338672	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_016374.5	-1	reviewed	p.I1164T	0.158	307	0%	128	14.8%	6	0%	benign(0.036)	tolerated(0.2)	neutral(0.051)	NULL
ARID4B	51742	genome.wustl.edu	37	1	235345627	235345627	+	Silent	SNP	T	T	C	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	ENST00000474953	-1	known	p.K183E	0.903	350	0%	172	20.9%	2	50%	-	-	-	NULL
ARID4B	51742	genome.wustl.edu	37	1	235357466	235357466	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_016374.5	-1	reviewed	p.R663W	1.000	354	0.6%	108	22.2%	1	0%	probably_damaging(1)	deleterious(0)	deleterious(0.945)	NULL
LYST	1130	genome.wustl.edu	37	1	235972195	235972195	+	Silent	SNP	A	A	G	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_000081.2	-1	reviewed	p.T641	0.004	602	0%	98	21.4%	0	-	-	-	-	NULL
LYST	1130	genome.wustl.edu	37	1	235972796	235972796	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_000081.2	-1	reviewed	p.G441V	1.000	114	0%	39	10.3%	0	-	probably_damaging(1)	deleterious(0)	deleterious(0.945)	NULL
LYST	1130	genome.wustl.edu	37	1	235973536	235973536	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_000081.2	-1	reviewed	p.S194	0.000	543	0.2%	155	21.3%	0	-	-	-	-	NULL
NID1	4811	genome.wustl.edu	37	1	236143832	236143832	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_002508.2	-1	reviewed	p.D1117N	1.000	111	0%	59	16.9%	10	0%	probably_damaging(1)	deleterious(0)	deleterious(0.945)	HMMPfam_Ldl_recept_b,HMMSmart_SM00135,superfamily_YWTD domain
NID1	4811	genome.wustl.edu	37	1	236143888	236143888	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_002508.2	-1	reviewed	p.T1098M	1.000	91	0%	55	25.5%	10	0%	possibly_damaging(0.896)	tolerated(0.05)	deleterious(0.699)	HMMPfam_Ldl_recept_b,HMMSmart_SM00135,superfamily_YWTD domain
NID1	4811	genome.wustl.edu	37	1	236192896	236192896	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_002508.2	-1	reviewed	p.S564	0.002	32	0%	17	41.2%	2	0%	-	-	-	HMMPfam_G2F,HMMSmart_SM00682,superfamily_GFP-like
NID1	4811	genome.wustl.edu	37	1	236195801	236195801	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_002508.2	-1	reviewed	p.T479	0.000	131	0%	77	16.9%	5	0%	-	-	-	HMMPfam_G2F,HMMSmart_SM00682,superfamily_GFP-like
NID1	4811	genome.wustl.edu	37	1	236195840	236195840	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_002508.2	-1	reviewed	p.H466	0.571	128	0.8%	81	16%	6	16.6%	-	-	-	HMMPfam_G2F,HMMSmart_SM00682,superfamily_GFP-like
NID1	4811	genome.wustl.edu	37	1	236201433	236201433	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_002508.2	-1	reviewed	p.T419M	0.949	118	0%	57	28.1%	4	25%	possibly_damaging(0.852)	deleterious(0.02)	deleterious(0.711)	HMMSmart_SM00179,HMMPfam_EGF,HMMSmart_SM00181,PatternScan_EGF_2,superfamily_EGF/Laminin
NID1	4811	genome.wustl.edu	37	1	236201523	236201523	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_002508.2	-1	reviewed	p.T389M	0.998	143	0%	64	21.9%	5	0%	probably_damaging(0.998)	deleterious(0)	deleterious(0.919)	HMMSmart_SM00179,HMMSmart_SM00181,superfamily_EGF/Laminin
ERO1LB	56605	genome.wustl.edu	37	1	236389629	236389629	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_019891.3	-1	validated	p.G331E	1.000	257	0%	42	26.2%	1	0%	probably_damaging(1)	deleterious(0.04)	deleterious(0.849)	HMMPfam_ERO1,superfamily_ERO1
ERO1LB	56605	genome.wustl.edu	37	1	236399130	236399130	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_019891.3	-1	validated	p.R211Q	1.000	201	0%	50	26%	0	-	benign(0.103)	tolerated(0.64)	neutral(0.011)	HMMPfam_ERO1,superfamily_ERO1
HEATR1	55127	genome.wustl.edu	37	1	236716971	236716971	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_018072.4	-1	validated	p.I2049	0.520	253	0%	71	23.9%	25	28%	-	-	-	superfamily_ARM-type_fold
HEATR1	55127	genome.wustl.edu	37	1	236758865	236758865	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_018072.4	-1	validated	p.V355	0.000	242	0%	85	29.4%	1	0%	-	-	-	NULL
RYR2	6262	genome.wustl.edu	37	1	237538062	237538062	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001035.2	+1	reviewed	p.A144T	1.000	406	0%	123	23.6%	0	-	possibly_damaging(0.515)	-	-	HMMPfam_Ins145_P3_rec,HMMSmart_SM00472
RYR2	6262	genome.wustl.edu	37	1	237586537	237586537	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001035.2	+1	reviewed	p.R332W	1.000	196	0%	44	20.5%	0	-	probably_damaging(0.977)	-	-	HMMPfam_MIR,superfamily_MIR domain (Pfam 02815),HMMSmart_SM00472
RYR2	6262	genome.wustl.edu	37	1	237659841	237659841	+	Silent	SNP	T	T	C	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001035.2	+1	reviewed	p.S664	0.839	136	0%	56	16.1%	0	-	-	-	-	NULL
RYR2	6262	genome.wustl.edu	37	1	237664163	237664163	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001035.2	+1	reviewed	p.G786C	1.000	629	0%	290	22.4%	0	-	probably_damaging(1)	-	-	HMMPfam_SPRY,HMMSmart_SM00449
RYR2	6262	genome.wustl.edu	37	1	237666613	237666613	+	Silent	SNP	A	A	G	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001035.2	+1	reviewed	p.R807	0.986	237	0%	97	21.6%	0	-	-	-	-	HMMPfam_SPRY,HMMSmart_SM00449
RYR2	6262	genome.wustl.edu	37	1	237713898	237713898	+	Nonsense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001035.2	+1	reviewed	p.R1041*	0.996	359	0%	124	24.2%	1	100%	-	-	-	HMMPfam_RyR
RYR2	6262	genome.wustl.edu	37	1	237713928	237713928	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001035.2	+1	reviewed	p.R1051C	0.799	412	0%	126	15.1%	1	0%	probably_damaging(0.997)	-	-	HMMPfam_RyR
RYR2	6262	genome.wustl.edu	37	1	237777416	237777416	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001035.2	+1	reviewed	p.A1663V	0.997	117	0%	58	27.6%	0	-	possibly_damaging(0.932)	-	-	NULL
RYR2	6262	genome.wustl.edu	37	1	237791260	237791260	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001035.2	+1	reviewed	p.T2107M	1.000	208	0%	51	31.4%	0	-	probably_damaging(0.992)	-	-	NULL
RYR2	6262	genome.wustl.edu	37	1	237798216	237798216	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001035.2	+1	reviewed	p.P2239Q	1.000	272	0%	93	9.7%	0	-	probably_damaging(0.999)	-	-	HMMPfam_RYDR_ITPR
RYR2	6262	genome.wustl.edu	37	1	237806662	237806662	+	Silent	SNP	T	T	C	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001035.2	+1	reviewed	p.I2419	0.993	482	0%	128	22.7%	0	-	-	-	-	NULL
RYR2	6262	genome.wustl.edu	37	1	237843758	237843758	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001035.2	+1	reviewed	p.V2966	0.008	589	0%	262	20.6%	0	-	-	-	-	NULL
RYR2	6262	genome.wustl.edu	37	1	237872858	237872858	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001035.2	+1	reviewed	p.S3407	0.299	233	0%	61	21.3%	0	-	-	-	-	NULL
RYR2	6262	genome.wustl.edu	37	1	237880534	237880534	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001035.2	+1	reviewed	p.R3454C	1.000	190	0%	80	17.5%	0	-	probably_damaging(1)	-	-	NULL
RYR2	6262	genome.wustl.edu	37	1	237957280	237957280	+	Silent	SNP	A	A	G	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001035.2	+1	reviewed	p.R4632	0.998	290	0%	61	14.8%	0	-	-	-	-	NULL
RYR2	6262	genome.wustl.edu	37	1	237995919	237995919	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001035.2	+1	reviewed	p.R4959Q	1.000	286	0.3%	92	15.2%	1	0%	probably_damaging(0.999)	-	-	NULL
ZP4	57829	genome.wustl.edu	37	1	238051708	238051708	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_021186.2	-1	reviewed	p.G168D	0.875	218	0%	62	12.9%	0	-	probably_damaging(1)	tolerated(0.08)	deleterious(0.800)	HMMPfam_Trefoil,HMMSmart_SM00018,superfamily_Trefoil,PatternScan_P_TREFOIL
CHRM3	1131	genome.wustl.edu	37	1	240070919	240070919	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_000740.2	+1	reviewed	p.T56	0.000	154	1.3%	40	15%	0	-	-	-	-	superfamily_SSF81321
FMN2	56776	genome.wustl.edu	37	1	240370880	240370880	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_020066.4	+1	validated	p.P923L	0.896	60	0%	100	22%	0	-	unknown(0)	tolerated(0.21)	-	HMMSmart_FH2,HMMPfam_Drf_FH1
RGS7	6000	genome.wustl.edu	37	1	240976966	240976966	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_002924.4	-1	validated	p.S303Y	1.000	397	0%	201	21.9%	1	100%	probably_damaging(0.998)	deleterious(0)	deleterious(0.919)	HMMPfam_G-gamma,HMMSmart_GGL,superfamily_G-protein_gamma-like
KMO	8564	genome.wustl.edu	37	1	241753390	241753390	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_003679.3	+1	validated	p.S392L	0.871	384	0%	88	17%	3	33.3%	possibly_damaging(0.595)	tolerated(0.17)	neutral(0.265)	superfamily_FAD/NAD(P)-binding domain
CHML	1122	genome.wustl.edu	37	1	241798225	241798225	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001821.3	-1	reviewed	p.D282N	1.000	96	0%	127	18.9%	0	-	probably_damaging(1)	deleterious(0.01)	deleterious(0.905)	HMMPfam_GDI,superfamily_FAD/NAD(P)-binding domain
WDR64	128025	genome.wustl.edu	37	1	241823885	241823885	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	ENST00000366552	+1	known	p.D67Y	1.000	435	0%	125	24.8%	0	-	probably_damaging(0.961)	deleterious(0.01)	deleterious(0.810)	superfamily_WD40 repeat-like
WDR64	128025	genome.wustl.edu	37	1	241951278	241951278	+	Nonsense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_144625.4	+1	validated	p.E488*	1.000	330	0%	117	12%	0	-	-	-	-	NULL
EXO1	9156	genome.wustl.edu	37	1	242042436	242042436	+	Nonsense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_006027.4	+1	reviewed	p.R634*	0.038	260	0%	78	28.2%	2	50%	-	-	-	NULL
MAP1LC3C	440738	genome.wustl.edu	37	1	242162093	242162093	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001004343.2	-1	validated	p.F33	1.000	197	0%	82	22%	1	0%	-	-	-	HMMPfam_MAP1_LC3,superfamily_SSF54236
CEP170	9859	genome.wustl.edu	37	1	243292733	243292733	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_014812.2	-1	reviewed	p.R1448W	1.000	437	0%	75	9.3%	3	0%	probably_damaging(1)	deleterious(0)	deleterious(0.945)	NULL
CEP170	9859	genome.wustl.edu	37	1	243349382	243349382	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	ENST00000321628	-1	known	p.S452Y	1.000	231	0%	127	31.5%	0	-	possibly_damaging(0.525)	tolerated(0.06)	deleterious(0.499)	NULL
CEP170	9859	genome.wustl.edu	37	1	243364108	243364108	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_014812.2	-1	reviewed	p.E102K	1.000	297	0%	63	9.5%	1	0%	probably_damaging(0.996)	deleterious(0.02)	deleterious(0.845)	superfamily_SMAD/FHA domain
AKT3	10000	genome.wustl.edu	37	1	243716094	243716094	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_005465.3	-1	reviewed	p.R367Q	1.000	412	0%	85	16.5%	4	0%	possibly_damaging(0.876)	tolerated(0.57)	neutral(0.347)	HMMSmart_SM00219,HMMSmart_SM00220,superfamily_Protein kinase-like (PK-like),HMMPfam_Pkinase
AKT3	10000	genome.wustl.edu	37	1	243777039	243777039	+	Silent	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_005465.3	-1	reviewed	p.S210	1.000	160	0%	38	21.1%	8	0%	-	-	-	HMMSmart_SM00219,HMMSmart_SM00220,superfamily_Protein kinase-like (PK-like),HMMPfam_Pkinase
ZNF238	10472	genome.wustl.edu	37	1	244217563	244217563	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_205768.2	+1	validated	p.D163N	1.000	74	0%	156	26.9%	4	25%	possibly_damaging(0.564)	tolerated(0.69)	neutral(0.195)	NULL
C1orf101	257044	genome.wustl.edu	37	1	244735714	244735714	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001130957.1	+1	validated	p.L530	0.009	255	0%	108	24.1%	0	-	-	-	-	NULL
C1orf101	257044	genome.wustl.edu	37	1	244735957	244735957	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001130957.1	+1	validated	p.I611	0.017	219	0%	92	31.5%	0	-	-	-	-	NULL
C1orf101	257044	genome.wustl.edu	37	1	244755015	244755015	+	Missense_Mutation	SNP	T	T	G	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001130957.1	+1	validated	p.F724C	0.026	341	0%	113	12.4%	0	-	probably_damaging(0.999)	deleterious(0.01)	deleterious(0.896)	NULL
HNRNPU	3192	genome.wustl.edu	37	1	245018303	245018303	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_031844.2	-1	reviewed	p.S799F	1.000	493	0%	341	10.6%	449	1.3%	unknown(0)	deleterious(0)	-	NULL
KIF26B	55083	genome.wustl.edu	37	1	245766036	245766036	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_018012.3	+1	provisional	p.P503H	0.999	255	0%	128	20.3%	1	100%	probably_damaging(1)	deleterious(0)	deleterious(0.945)	HMMPfam_Kinesin,HMMSmart_SM00129,superfamily_P-loop containing nucleoside triphosphate hydrolases
KIF26B	55083	genome.wustl.edu	37	1	245850144	245850144	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_018012.3	+1	provisional	p.A1287T	0.612	48	0%	103	32%	1	0%	benign(0)	tolerated(0.35)	neutral(0.021)	NULL
SMYD3	64754	genome.wustl.edu	37	1	246093213	246093213	+	Silent	SNP	A	A	G	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_022743.2	-1	validated	p.C127	0.991	189	0%	85	27.1%	10	10%	-	-	-	HMMSmart_SET,superfamily_SSF82199
SMYD3	64754	genome.wustl.edu	37	1	246498730	246498730	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_022743.2	-1	validated	p.S33I	1.000	542	0%	138	10.9%	4	0%	probably_damaging(0.966)	deleterious(0.05)	deleterious(0.753)	HMMSmart_SET,superfamily_SSF82199
CNST	163882	genome.wustl.edu	37	1	246811213	246811213	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_152609.2	+1	validated	p.D570	1.000	126	0%	74	13.5%	6	0%	-	-	-	NULL
CNST	163882	genome.wustl.edu	37	1	246811217	246811217	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_152609.2	+1	validated	p.D572N	0.952	119	0%	64	17.2%	6	0%	probably_damaging(0.997)	tolerated(0.09)	deleterious(0.762)	NULL
AHCTF1	25909	genome.wustl.edu	37	1	247016524	247016524	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_015446.4	-1	validated	p.L1478I	0.918	286	0.3%	73	17.8%	1	0%	benign(0.323)	tolerated(0.28)	neutral(0.133)	NULL
AHCTF1	25909	genome.wustl.edu	37	1	247030633	247030633	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_015446.4	-1	validated	p.S1087Y	0.882	159	0%	37	21.6%	0	-	possibly_damaging(0.819)	deleterious(0.04)	deleterious(0.658)	NULL
AHCTF1	25909	genome.wustl.edu	37	1	247050591	247050591	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_015446.4	-1	validated	p.F798L	1.000	680	0%	168	13.1%	0	-	probably_damaging(1)	deleterious(0.02)	deleterious(0.883)	NULL
AHCTF1	25909	genome.wustl.edu	37	1	247055199	247055199	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_015446.4	-1	validated	p.S609	0.192	244	0%	66	27.3%	0	-	-	-	-	NULL
ZNF695	57116	genome.wustl.edu	37	1	247150605	247150605	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_020394.3	-1	validated	p.G404	0.997	194	0%	88	14.8%	0	-	-	-	-	superfamily_C2H2 and C2HC zinc fingers
ZNF670	93474	genome.wustl.edu	37	1	247201205	247201205	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_033213.2	-1	validated	p.S239F	0.001	259	0%	276	17.4%	1	0%	possibly_damaging(0.903)	deleterious(0.04)	deleterious(0.707)	HMMPfam_zf-C2H2,PatternScan_ZINC_FINGER_C2H2_1,HMMSmart_ZnF_C2H2,superfamily_SSF57667
ZNF670	93474	genome.wustl.edu	37	1	247201331	247201331	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_033213.2	-1	validated	p.Y197C	0.823	311	0%	310	23.9%	0	-	probably_damaging(1)	deleterious(0.01)	deleterious(0.905)	HMMPfam_zf-C2H2,HMMSmart_ZnF_C2H2,superfamily_SSF57667
ZNF669	79862	genome.wustl.edu	37	1	247264207	247264207	+	Silent	SNP	A	A	G	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_024804.2	-1	validated	p.T288	0.028	202	0%	276	14.5%	3	33.3%	-	-	-	HMMPfam_zf-C2H2,PatternScan_ZINC_FINGER_C2H2_1,HMMSmart_ZnF_C2H2,superfamily_SSF57667
ZNF669	79862	genome.wustl.edu	37	1	247264258	247264258	+	Silent	SNP	A	A	C	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_024804.2	-1	validated	p.T271	0.996	191	0%	258	12%	2	0%	-	-	-	HMMPfam_zf-C2H2,PatternScan_ZINC_FINGER_C2H2_1,HMMSmart_ZnF_C2H2,superfamily_SSF57667
ZNF669	79862	genome.wustl.edu	37	1	247264606	247264606	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_024804.2	-1	validated	p.Q155H	0.277	384	0%	457	24.3%	1	0%	benign(0.02)	tolerated(0.11)	neutral(0.273)	NULL
ZNF124	7678	genome.wustl.edu	37	1	247323026	247323026	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_003431.2	-1	provisional	p.D40	0.993	391	0%	186	19.9%	3	0%	-	-	-	HMMPfam_KRAB,HMMSmart_SM00349,superfamily_KRAB domain (Kruppel-associated box Pfam 01352)
LOC729806	729806	genome.wustl.edu	37	1	247353404	247353404	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	XM_002342180.1	-1	model	p.S543F	0.000	20	0%	17	41.2%	10	20%	-	-	-	HMMPfam_zf-C2H2,PatternScan_ZINC_FINGER_C2H2_1,HMMSmart_SM00355,superfamily_C2H2 and C2HC zinc fingers
ZNF496	84838	genome.wustl.edu	37	1	247464302	247464302	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_032752.1	-1	provisional	p.R428H	1.000	27	0%	41	24.4%	18	22.2%	benign(0.311)	tolerated(0.68)	neutral(0.099)	superfamily_SSF57667
ZNF496	84838	genome.wustl.edu	37	1	247471854	247471854	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_032752.1	-1	provisional	p.R310K	0.911	275	0%	183	24.6%	9	11.1%	probably_damaging(0.977)	tolerated(1)	neutral(0.419)	NULL
ZNF496	84838	genome.wustl.edu	37	1	247492723	247492723	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_032752.1	-1	provisional	p.A53V	0.936	52	0%	80	15%	1	0%	benign(0.322)	tolerated(0.07)	neutral(0.420)	HMMPfam_SCAN,HMMSmart_SCAN
NLRP3	114548	genome.wustl.edu	37	1	247582274	247582274	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001079821.2	+1	reviewed	p.D60N	0.458	118	0%	35	11.4%	0	-	probably_damaging(0.959)	tolerated(0.4)	neutral(0.419)	HMMPfam_PAAD_DAPIN,superfamily_DEATH_like
NLRP3	114548	genome.wustl.edu	37	1	247582327	247582327	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001079821.2	+1	reviewed	p.A77	0.001	132	0%	56	26.8%	1	0%	-	-	-	HMMPfam_PAAD_DAPIN,superfamily_DEATH_like
OR2G2	81470	genome.wustl.edu	37	1	247752007	247752007	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001001915.1	+1	provisional	p.V116I	0.463	332	0%	109	25.7%	0	-	benign(0.027)	tolerated(0.44)	neutral(0.014)	HMMPfam_7tm_1,superfamily_SSF81321
OR2G3	81469	genome.wustl.edu	37	1	247769362	247769362	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001001914.1	+1	provisional	p.H159N	0.000	315	0%	91	15.4%	0	-	benign(0.183)	deleterious(0.01)	neutral(0.423)	HMMPfam_7tm_1,superfamily_Family A G protein-coupled receptor-like
OR6F1	343169	genome.wustl.edu	37	1	247875181	247875181	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001005286.1	-1	provisional	p.R293C	0.000	132	0%	52	25%	0	-	probably_damaging(0.999)	deleterious(0)	deleterious(0.935)	superfamily_Family A G protein-coupled receptor-like
OR14K1	343170	genome.wustl.edu	37	1	247902365	247902365	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	ENST00000283225	+1	known	p.R150I	0.003	255	0%	105	21.9%	0	-	benign(0.021)	deleterious(0)	neutral(0.446)	HMMPfam_7tm_1,superfamily_SSF81321
OR1C1	26188	genome.wustl.edu	37	1	247920953	247920953	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_012353.2	-1	validated	p.Y252	0.986	111	0.9%	57	24.6%	0	-	-	-	-	HMMPfam_7tm_1,superfamily_Family A G protein-coupled receptor-like
OR14A16	284532	genome.wustl.edu	37	1	247978372	247978372	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001001966.1	-1	provisional	p.F220	0.015	219	0%	89	23.6%	0	-	-	-	-	HMMPfam_7tm_1,superfamily_SSF81321
OR11L1	391189	genome.wustl.edu	37	1	248004654	248004654	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001001959.1	-1	provisional	p.P182L	0.298	95	0%	61	32.8%	0	-	benign(0.002)	tolerated(0.11)	neutral(0.272)	HMMPfam_7tm_1,superfamily_SSF81321
TRIM58	25893	genome.wustl.edu	37	1	248028032	248028032	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_015431.3	+1	validated	p.R181H	0.266	63	0%	106	30.2%	0	-	probably_damaging(0.995)	deleterious(0.01)	deleterious(0.863)	NULL
OR2W3	343171	genome.wustl.edu	37	1	248058947	248058947	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001001957.2	+1	provisional	p.R20Q	0.000	92	0%	97	11.3%	0	-	benign(0.04)	tolerated(0.4)	neutral(0.018)	superfamily_SSF81321
OR2W3	343171	genome.wustl.edu	37	1	248059207	248059207	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001001957.2	+1	provisional	p.L107	0.005	94	0%	62	24.2%	0	-	-	-	-	HMMPfam_7tm_1,superfamily_SSF81321
OR2T8	343172	genome.wustl.edu	37	1	248084835	248084835	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001005522.1	+1	validated	p.I172	0.001	598	0%	213	13.1%	0	-	-	-	-	HMMPfam_7tm_1,superfamily_SSF81321
OR2T8	343172	genome.wustl.edu	37	1	248084836	248084836	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001005522.1	+1	validated	p.D173N	0.000	616	0%	214	10.7%	0	-	benign(0.002)	tolerated(1)	-	HMMPfam_7tm_1,superfamily_SSF81321
OR2L5	81466	genome.wustl.edu	37	1	248185534	248185534	+	Silent	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	ENST00000355281	+1	known	p.G95	0.001	255	0%	104	12.5%	0	-	-	-	-	HMMPfam_7tm_1,superfamily_SSF81321
OR2L5	81466	genome.wustl.edu	37	1	248186043	248186043	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	ENST00000355281	+1	known	p.R265Q	0.000	204	0%	56	16.1%	0	-	benign(0.253)	tolerated(0.05)	neutral(0.371)	HMMPfam_7tm_1,superfamily_SSF81321
OR2L3	391192	genome.wustl.edu	37	1	248224579	248224579	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001004687.1	+1	provisional	p.F199S	0.000	768	0%	238	18.1%	0	-	benign(0.199)	tolerated(0.1)	neutral(0.305)	HMMPfam_7tm_1,superfamily_Family A G protein-coupled receptor-like
OR2L13	284521	genome.wustl.edu	37	1	248263406	248263406	+	Missense_Mutation	SNP	T	T	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_175911.2	+1	provisional	p.H243Q	0.984	364	0%	146	26.7%	0	-	probably_damaging(1)	deleterious(0)	deleterious(0.945)	HMMPfam_7tm_1,superfamily_SSF81321
OR2M5	127059	genome.wustl.edu	37	1	248309095	248309095	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001004690.1	+1	provisional	p.A216T	0.000	641	0%	267	26.2%	0	-	benign(0)	tolerated(0.33)	neutral(0.024)	HMMPfam_7tm_1,superfamily_SSF81321
OR2M2	391194	genome.wustl.edu	37	1	248343861	248343861	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001004688.1	+1	provisional	p.T192A	0.005	570	0%	242	23.1%	0	-	probably_damaging(1)	deleterious(0)	deleterious(0.945)	HMMPfam_7tm_1,superfamily_SSF81321
OR2M4	26245	genome.wustl.edu	37	1	248402680	248402680	+	Silent	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_017504.1	+1	provisional	p.T150	0.001	302	0%	121	10.7%	1	0%	-	-	-	HMMPfam_7tm_1,superfamily_SSF81321
OR2T33	391195	genome.wustl.edu	37	1	248436532	248436532	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001004695.1	-1	provisional	p.N195	0.000	513	0%	184	5.4%	0	-	-	-	-	HMMPfam_7tm_1,superfamily_Family A G protein-coupled receptor-like
OR2M7	391196	genome.wustl.edu	37	1	248487096	248487096	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001004691.1	-1	provisional	p.C259R	0.004	320	0%	80	23.7%	0	-	benign(0)	deleterious(0)	neutral(0.445)	HMMPfam_7tm_1,superfamily_SSF81321
OR2M7	391196	genome.wustl.edu	37	1	248487540	248487540	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001004691.1	-1	provisional	p.E111K	0.001	520	0.2%	185	24.3%	0	-	probably_damaging(1)	deleterious(0)	deleterious(0.945)	HMMPfam_7tm_1,PatternScan_G_PROTEIN_RECEP_F1_1,superfamily_SSF81321
OR14C36	127066	genome.wustl.edu	37	1	248512518	248512518	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001001918.1	+1	provisional	p.L148I	0.003	190	0%	72	25%	0	-	benign(0.291)	tolerated(0.06)	neutral(0.412)	HMMPfam_7tm_1,superfamily_SSF81321
OR14C36	127066	genome.wustl.edu	37	1	248512764	248512764	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001001918.1	+1	provisional	p.A230T	0.001	381	0%	87	13.8%	0	-	possibly_damaging(0.623)	tolerated(0.08)	deleterious(0.517)	HMMPfam_7tm_1,superfamily_SSF81321
OR2T4	127074	genome.wustl.edu	37	1	248525509	248525509	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001004696.1	+1	provisional	p.F209L	0.497	336	0%	104	13.5%	0	-	probably_damaging(0.99)	tolerated(0.11)	deleterious(0.713)	HMMPfam_7tm_1,superfamily_SSF81321
OR2T3	343173	genome.wustl.edu	37	1	248637577	248637577	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001005495.1	+1	provisional	p.M309T	0.041	396	0%	126	15.9%	0	-	benign(0.001)	tolerated(0.05)	neutral(0.345)	superfamily_SSF81321
OR2G6	391211	genome.wustl.edu	37	1	248685367	248685367	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001013355.1	+1	validated	p.F140	0.001	71	0%	42	9.5%	0	-	-	-	-	HMMPfam_7tm_1,superfamily_Family A G protein-coupled receptor-like
OR2T10	127069	genome.wustl.edu	37	1	248756259	248756259	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001004693.1	-1	provisional	p.D271Y	0.000	205	0%	276	12.3%	0	-	probably_damaging(1)	deleterious(0)	deleterious(0.945)	HMMPfam_7tm_1,superfamily_Family A G protein-coupled receptor-like
PGBD2	267002	genome.wustl.edu	37	1	249212470	249212470	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_170725.2	+1	validated	p.C563R	0.896	127	0%	130	13.8%	10	30%	possibly_damaging(0.8)	deleterious(0)	deleterious(0.746)	NULL
FAM110C	642273	genome.wustl.edu	37	2	45541	45541	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001077710.2	-1	validated	p.S282I	0.629	28	0%	56	19.6%	4	50%	probably_damaging(0.979)	tolerated(0.16)	deleterious(0.481)	NULL
SH3YL1	26751	genome.wustl.edu	37	2	231121	231121	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_015677.2	-1	validated	p.D106Y	0.999	382	0%	375	25.1%	18	16.6%	possibly_damaging(0.907)	deleterious(0.01)	deleterious(0.766)	HMMPfam_DUF500
SNTG2	54221	genome.wustl.edu	37	2	1093901	1093901	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_018968.3	+1	reviewed	p.R77H	1.000	499	0.2%	274	24.1%	0	-	benign(0.024)	tolerated(0.2)	neutral(0.050)	HMMPfam_PDZ,superfamily_PDZ domain-like
SNTG2	54221	genome.wustl.edu	37	2	1320141	1320141	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_018968.3	+1	reviewed	p.E494D	0.907	206	0%	190	13.2%	2	0%	probably_damaging(0.999)	tolerated(0.07)	deleterious(0.809)	NULL
TPO	7173	genome.wustl.edu	37	2	1426888	1426888	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_000547.5	+1	reviewed	p.A56T	0.000	76	0%	112	14.3%	0	-	benign(0.001)	tolerated(0.7)	neutral(0.002)	NULL
TPO	7173	genome.wustl.edu	37	2	1544423	1544423	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_000547.5	+1	reviewed	p.P892	0.002	21	0%	27	33.3%	0	-	-	-	-	NULL
TPO	7173	genome.wustl.edu	37	2	1546234	1546234	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	ENST00000337415	+1	known	p.R887Q	0.000	252	0.4%	245	14.7%	0	-	possibly_damaging(0.473)	tolerated(0.28)	neutral(0.188)	NULL
PXDN	7837	genome.wustl.edu	37	2	1664701	1664701	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_012293.1	-1	validated	p.R597W	0.991	156	0.6%	131	29.8%	7	0%	probably_damaging(0.999)	deleterious(0.05)	deleterious(0.836)	HMMSmart_SM00408,HMMSmart_SM00409,HMMPfam_I-set,superfamily_Immunoglobulin
PXDN	7837	genome.wustl.edu	37	2	1670117	1670117	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_012293.1	-1	validated	p.P387L	1.000	71	0%	53	32.1%	4	0%	benign(0.049)	tolerated(0.27)	neutral(0.037)	HMMSmart_SM00408,HMMSmart_SM00409,HMMPfam_I-set,superfamily_Immunoglobulin
PXDN	7837	genome.wustl.edu	37	2	1677555	1677555	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_012293.1	-1	validated	p.R293H	1.000	240	0%	206	24.3%	5	0%	probably_damaging(1)	deleterious(0.04)	deleterious(0.849)	HMMSmart_SM00408,HMMSmart_SM00409,HMMPfam_I-set,superfamily_Immunoglobulin
PXDN	7837	genome.wustl.edu	37	2	1684132	1684132	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_012293.1	-1	validated	p.R188Q	1.000	169	0%	197	20.8%	4	0%	possibly_damaging(0.921)	deleterious(0.01)	deleterious(0.776)	superfamily_L domain-like
PXDN	7837	genome.wustl.edu	37	2	1696905	1696905	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_012293.1	-1	validated	p.D68N	1.000	358	0%	302	28.5%	1	0%	probably_damaging(0.965)	deleterious(0)	deleterious(0.851)	HMMSmart_SM00369,superfamily_L domain-like
MYT1L	23040	genome.wustl.edu	37	2	1795694	1795694	+	Missense_Mutation	SNP	T	T	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_015025.2	-1	validated	p.E1167V	1.000	479	0.2%	497	22.7%	0	-	probably_damaging(0.99)	deleterious(0)	deleterious(0.886)	NULL
MYT1L	23040	genome.wustl.edu	37	2	1855416	1855416	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_015025.2	-1	validated	p.R922Q	1.000	197	1.5%	193	24.9%	0	-	probably_damaging(0.999)	deleterious(0)	deleterious(0.935)	HMMPfam_zf-C2HC,superfamily_SSF103637
MYT1L	23040	genome.wustl.edu	37	2	1914019	1914019	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_015025.2	-1	validated	p.V602M	1.000	55	1.8%	26	23.1%	0	-	probably_damaging(0.981)	deleterious(0.01)	deleterious(0.831)	NULL
MYT1L	23040	genome.wustl.edu	37	2	1926231	1926231	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_015025.2	-1	validated	p.A437V	1.000	330	0.6%	183	15.3%	0	-	probably_damaging(0.959)	deleterious(0)	deleterious(0.847)	NULL
MYT1L	23040	genome.wustl.edu	37	2	1926854	1926854	+	Silent	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_015025.2	-1	validated	p.T229	0.906	465	0%	225	20.9%	0	-	-	-	-	NULL
TRAPPC12	51112	genome.wustl.edu	37	2	3391510	3391510	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_016030.5	+1	validated	p.G39D	0.995	48	0%	59	32.2%	4	25%	benign(0.038)	tolerated(0.38)	neutral(0.020)	NULL
ADI1	55256	genome.wustl.edu	37	2	3504506	3504506	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	ENST00000415131	-1	known	p.G28S	0.000	35	0%	54	16.7%	0	-	-	-	-	NULL
ADI1	55256	genome.wustl.edu	37	2	3517727	3517727	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_018269.3	-1	reviewed	p.E47	0.856	409	0%	448	11.6%	28	7.1%	-	-	-	HMMPfam_ARD,superfamily_RmlC-like cupins
RPS7	6201	genome.wustl.edu	37	2	3627755	3627755	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001011.3	+1	reviewed	p.E138K	1.000	334	0%	397	26.2%	3113	24.4%	probably_damaging(0.987)	deleterious(0)	deleterious(0.881)	HMMPfam_Ribosomal_S7e
ALLC	55821	genome.wustl.edu	37	2	3726079	3726079	+	Nonsense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_018436.3	+1	validated	p.E36*	0.383	273	0%	214	24.8%	0	-	-	-	-	superfamily_Gal_bind_like,HMMPfam_Allantoicase
ALLC	55821	genome.wustl.edu	37	2	3743399	3743399	+	Missense_Mutation	SNP	G	G	A	rs190283526	by1000genomes	TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_018436.3	+1	validated	p.A202T	0.044	316	0%	370	26.8%	0	-	benign(0.389)	tolerated(0.36)	neutral(0.144)	superfamily_Gal_bind_like
RSAD2	91543	genome.wustl.edu	37	2	7018012	7018012	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_080657.4	+1	validated	p.S27	0.002	180	0%	76	23.7%	0	-	-	-	-	NULL
RNF144A	9781	genome.wustl.edu	37	2	7160723	7160723	+	Nonsense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	ENST00000432850	+1	known	p.W136*	1.000	48	0%	27	29.6%	1	0%	benign(0.428)	tolerated(0.57)	neutral(0.145)	HMMPfam_IBR,HMMSmart_SM00647
KIDINS220	57498	genome.wustl.edu	37	2	8872103	8872103	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_020738.2	-1	validated	p.R1355C	1.000	119	0%	122	17.2%	14	0%	possibly_damaging(0.945)	deleterious(0)	deleterious(0.834)	NULL
KIDINS220	57498	genome.wustl.edu	37	2	8873785	8873785	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_020738.2	-1	validated	p.S1281N	0.000	82	0%	102	28.4%	9	11.1%	benign(0)	tolerated(1)	-	superfamily_SAM/Pointed domain
KIDINS220	57498	genome.wustl.edu	37	2	8926124	8926124	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_020738.2	-1	validated	p.S659Y	1.000	310	0%	81	33.3%	3	33.3%	benign(0.001)	tolerated(0.16)	neutral(0.059)	HMMPfam_KAP_NTPase
KIDINS220	57498	genome.wustl.edu	37	2	8957755	8957755	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_020738.2	-1	validated	p.R100H	0.997	432	0.7%	184	27.2%	1	100%	possibly_damaging(0.933)	deleterious(0)	deleterious(0.824)	HMMPfam_Ank,superfamily_Ankyrin repeat
CPSF3	51692	genome.wustl.edu	37	2	9580643	9580643	+	Nonsense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_016207.2	+1	provisional	p.E262*	1.000	200	0%	69	15.9%	6	0%	-	-	-	superfamily_Metallo-hydrolase/oxidoreductase
CPSF3	51692	genome.wustl.edu	37	2	9611513	9611513	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_016207.2	+1	provisional	p.S633Y	0.011	427	0%	600	26%	154	19.4%	benign(0.051)	deleterious(0.03)	neutral(0.367)	NULL
ADAM17	6868	genome.wustl.edu	37	2	9676938	9676938	+	Missense_Mutation	SNP	T	T	G	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_003183.4	-1	reviewed	p.T84P	1.000	446	0%	243	32.1%	1	0%	probably_damaging(0.965)	tolerated(0.14)	deleterious(0.656)	NULL
YWHAQ	10971	genome.wustl.edu	37	2	9770330	9770330	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_006826.2	-1	reviewed	p.E84D	1.000	32	0%	63	12.7%	71	5.6%	benign(0.07)	deleterious(0.03)	neutral(0.369)	HMMPfam_14-3-3,HMMSmart_SM00101,superfamily_14-3-3 protein
GRHL1	29841	genome.wustl.edu	37	2	10105464	10105464	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_198182.2	+1	reviewed	p.A166V	1.000	326	0%	139	24.5%	0	-	possibly_damaging(0.68)	deleterious(0)	deleterious(0.687)	HMMPfam_CP2
KLF11	8462	genome.wustl.edu	37	2	10186436	10186436	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_003597.4	+1	reviewed	p.R68W	0.999	215	0%	304	26%	2	50%	probably_damaging(0.982)	deleterious(0)	deleterious(0.871)	NULL
RRM2	6241	genome.wustl.edu	37	2	10267284	10267284	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001034.3	+1	reviewed	p.W245C	1.000	617	0%	595	23.4%	11	18.1%	probably_damaging(1)	deleterious(0)	deleterious(0.945)	HMMPfam_Ribonuc_red_sm,superfamily_Ferritin/RR_like
C2orf48	348738	genome.wustl.edu	37	2	10350448	10350448	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_182626.1	+1	predicted	p.L69I	0.041	165	0%	129	24%	0	-	unknown(0)	-	-	NULL
NOL10	79954	genome.wustl.edu	37	2	10803114	10803114	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_024894.2	-1	validated	p.C216	0.961	253	0.8%	74	18.9%	0	-	-	-	-	superfamily_C-terminal (heme d1) domain of cytochrome cd1-nitrite reductase
ATP6V1C2	245973	genome.wustl.edu	37	2	10908867	10908867	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001039362.1	+1	reviewed	p.D134G	1.000	100	0%	104	14.4%	10	20%	benign(0.334)	tolerated(0.05)	neutral(0.450)	HMMPfam_V-ATPase_C
KCNF1	3754	genome.wustl.edu	37	2	11052696	11052696	+	Silent	SNP	G	G	C	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_002236.4	+1	reviewed	p.R48	1.000	19	0%	54	20.4%	0	-	-	-	-	HMMPfam_K_tetra,superfamily_POZ domain
KCNF1	3754	genome.wustl.edu	37	2	11052778	11052778	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_002236.4	+1	reviewed	p.E76K	1.000	55	0%	87	28.7%	0	-	probably_damaging(0.999)	deleterious(0)	deleterious(0.935)	HMMPfam_K_tetra,superfamily_POZ domain
KCNF1	3754	genome.wustl.edu	37	2	11052958	11052958	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_002236.4	+1	reviewed	p.E136K	1.000	34	0%	90	13.3%	0	-	benign(0.071)	deleterious(0.02)	neutral(0.388)	superfamily_POZ domain
KCNF1	3754	genome.wustl.edu	37	2	11053628	11053628	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_002236.4	+1	reviewed	p.Q359R	1.000	98	0%	163	31.9%	0	-	probably_damaging(0.99)	deleterious(0.04)	deleterious(0.790)	HMMPfam_Ion_trans,superfamily_Voltage-gated potassium channels
LOC650157	650157	genome.wustl.edu	37	2	11492026	11492026	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	XM_001129774.2	+1	model	p.R92C	1.000	56	1.8%	44	27.3%	0	-	-	-	-	HMMPfam_Pro_isomerase,superfamily_Cyclophilin-like
GREB1	9687	genome.wustl.edu	37	2	11716657	11716657	+	Silent	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_014668.3	+1	reviewed	p.G211	0.998	146	0%	112	12.5%	2	0%	-	-	-	NULL
LPIN1	23175	genome.wustl.edu	37	2	11911762	11911762	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_145693.1	+1	reviewed	p.E185K	1.000	94	0%	63	31.7%	2	0%	possibly_damaging(0.748)	deleterious(0.03)	deleterious(0.639)	NULL
LPIN1	23175	genome.wustl.edu	37	2	11927268	11927268	+	Missense_Mutation	SNP	A	A	C	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_145693.1	+1	reviewed	p.N504H	1.000	184	0%	242	28.1%	1	0%	probably_damaging(0.999)	deleterious(0)	deleterious(0.935)	NULL
TRIB2	28951	genome.wustl.edu	37	2	12863650	12863650	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_021643.3	+1	reviewed	p.R179W	1.000	32	0%	57	33.3%	7	0%	probably_damaging(1)	deleterious(0)	deleterious(0.945)	HMMSmart_SM00219,HMMSmart_SM00220,superfamily_Protein kinase-like (PK-like)
TRIB2	28951	genome.wustl.edu	37	2	12880759	12880759	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_021643.3	+1	reviewed	p.R291W	0.947	143	0%	68	14.7%	7	14.2%	probably_damaging(0.999)	deleterious(0.01)	deleterious(0.896)	HMMSmart_SM00219,HMMSmart_SM00220,superfamily_Protein kinase-like (PK-like),HMMPfam_Pkinase
TRIB2	28951	genome.wustl.edu	37	2	12880962	12880962	+	RNA	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NR_027303.1	+1	reviewed	NULL	1.000	111	0%	32	18.8%	4	0%	-	-	-	-
NBAS	51594	genome.wustl.edu	37	2	15307193	15307193	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	ENST00000442506	-1	known	p.A1413V	0.000	55	0%	26	19.2%	74	35.1%	-	-	-	NULL
NBAS	51594	genome.wustl.edu	37	2	15608641	15608641	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_015909.2	-1	validated	p.R581Q	1.000	287	0%	68	10.3%	2	50%	unknown(0)	tolerated(0.16)	-	NULL
NBAS	51594	genome.wustl.edu	37	2	15679467	15679467	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_015909.2	-1	validated	p.P131	0.000	144	0%	238	24.4%	2	50%	-	-	-	superfamily_WD40 repeat-like
DDX1	1653	genome.wustl.edu	37	2	15760365	15760365	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_004939.1	+1	reviewed	p.D414N	1.000	514	0%	592	21.8%	26	19.2%	benign(0.099)	tolerated(0.08)	neutral(0.307)	HMMPfam_DEAD,HMMSmart_SM00487,superfamily_P-loop containing nucleoside triphosphate hydrolases
RAD51AP2	729475	genome.wustl.edu	37	2	17696649	17696649	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001099218.2	-1	provisional	p.E1012K	0.000	620	0%	559	24%	0	-	probably_damaging(0.991)	deleterious(0)	deleterious(0.889)	NULL
RAD51AP2	729475	genome.wustl.edu	37	2	17697364	17697364	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001099218.2	-1	provisional	p.K773N	0.000	429	0%	470	11.9%	0	-	possibly_damaging(0.774)	tolerated(0.22)	neutral(0.330)	NULL
SMC6	79677	genome.wustl.edu	37	2	17884560	17884560	+	Splice_Site	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001142286.1	-1	validated	e17-1	1.000	544	0%	84	20.2%	1	100%	-	-	-	-
GEN1	348654	genome.wustl.edu	37	2	17955667	17955667	+	Nonsense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001130009.1	+1	validated	p.R401*	0.992	213	0%	40	15%	1	0%	-	-	-	NULL
GEN1	348654	genome.wustl.edu	37	2	17962260	17962260	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001130009.1	+1	validated	p.S594Y	1.000	151	0%	26	34.6%	3	100%	probably_damaging(0.977)	deleterious(0.01)	deleterious(0.825)	NULL
KCNS3	3790	genome.wustl.edu	37	2	18112561	18112561	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_002252.3	+1	reviewed	p.V96I	1.000	154	0%	57	21.1%	0	-	possibly_damaging(0.638)	tolerated(0.09)	deleterious(0.520)	HMMSmart_BTB,HMMPfam_K_tetra,superfamily_BTB/POZ_fold
KCNS3	3790	genome.wustl.edu	37	2	18112634	18112634	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_002252.3	+1	reviewed	p.R120H	1.000	174	0%	74	18.9%	2	50%	possibly_damaging(0.824)	deleterious(0.01)	deleterious(0.718)	HMMSmart_BTB,superfamily_BTB/POZ_fold
KCNS3	3790	genome.wustl.edu	37	2	18112702	18112702	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_002252.3	+1	reviewed	p.D143N	1.000	155	0%	53	20.8%	4	0%	benign(0.001)	deleterious(0.04)	neutral(0.349)	NULL
NT5C1B	93034	genome.wustl.edu	37	2	18764209	18764209	+	Missense_Mutation	SNP	A	A	C	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001002006.1	-1	validated	p.L376V	0.995	311	0%	464	25%	0	-	possibly_damaging(0.521)	tolerated(0.07)	deleterious(0.494)	HMMPfam_5-nucleotidase
OSR1	130497	genome.wustl.edu	37	2	19553319	19553319	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_145260.2	-1	validated	p.R83H	1.000	57	1.8%	112	9.8%	0	-	benign(0.111)	deleterious(0)	neutral(0.453)	NULL
MATN3	4148	genome.wustl.edu	37	2	20201812	20201812	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_002381.4	-1	reviewed	p.G316R	0.974	190	0%	145	18.6%	0	-	possibly_damaging(0.691)	deleterious(0.01)	deleterious(0.653)	HMMSmart_SM00179,HMMPfam_EGF,HMMSmart_SM00181,superfamily_EGF/Laminin
PUM2	23369	genome.wustl.edu	37	2	20463015	20463015	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_015317.1	-1	provisional	p.L722I	1.000	214	0%	72	11.1%	5	0%	benign(0.198)	deleterious(0.01)	neutral(0.425)	superfamily_ARM repeat
PUM2	23369	genome.wustl.edu	37	2	20507833	20507833	+	Splice_Site	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_015317.1	-1	provisional	e6-1	1.000	258	0%	68	23.5%	0	-	-	-	-	-
RHOB	388	genome.wustl.edu	37	2	20647489	20647489	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_004040.2	+1	validated	p.S88N	1.000	71	0%	140	22.1%	320	3.1%	benign(0.005)	tolerated(0.19)	neutral(0.050)	HMMSmart_SM00173,HMMSmart_SM00174,HMMSmart_SM00175,HMMPfam_Ras,superfamily_P-loop containing nucleoside triphosphate hydrolases
APOB	338	genome.wustl.edu	37	2	21229335	21229335	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_000384.2	-1	reviewed	p.L3469	0.000	216	0%	53	18.9%	0	-	-	-	-	NULL
APOB	338	genome.wustl.edu	37	2	21250831	21250831	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_000384.2	-1	reviewed	p.P646S	0.988	392	0%	158	22.8%	0	-	probably_damaging(1)	-	-	HMMPfam_DUF1943,superfamily_Lipovitellin-phosvitin complex beta-sheet shell regions
APOB	338	genome.wustl.edu	37	2	21257729	21257729	+	Missense_Mutation	SNP	A	A	C	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_000384.2	-1	reviewed	p.L288R	0.989	380	0%	251	10.4%	0	-	probably_damaging(0.986)	-	-	HMMPfam_Vitellogenin_N,HMMSmart_SM00638,superfamily_Lipovitellin-phosvitin complex beta-sheet shell regions
KLHL29	114818	genome.wustl.edu	37	2	23929496	23929496	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	ENST00000486442	+1	known	p.G864S	1.000	107	0%	84	31%	2	0%	probably_damaging(0.999)	deleterious(0)	deleterious(0.935)	HMMSmart_SM00612,superfamily_Galactose oxidase central domain
ATAD2B	54454	genome.wustl.edu	37	2	24056818	24056818	+	Nonsense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_017552.1	-1	validated	p.E567*	1.000	155	0%	118	38.1%	0	-	-	-	-	HMMSmart_SM00382,HMMPfam_AAA,superfamily_P-loop containing nucleoside triphosphate hydrolases
FKBP1B	2281	genome.wustl.edu	37	2	24283683	24283683	+	Splice_Site	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_004116.3	+1	reviewed	e3-1	1.000	163	0%	138	27.5%	0	-	-	-	-	-
ITSN2	50618	genome.wustl.edu	37	2	24431123	24431123	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_006277.2	-1	reviewed	p.R1554H	0.144	194	0%	190	23.7%	9	0%	benign(0.21)	deleterious(0)	neutral(0.465)	superfamily_C2 domain (Calcium/lipid-binding domain CaLB),superfamily_PH domain-like
ITSN2	50618	genome.wustl.edu	37	2	24432006	24432006	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_006277.2	-1	reviewed	p.R1520W	0.999	219	0.5%	196	14.3%	11	0%	probably_damaging(1)	deleterious(0)	deleterious(0.945)	HMMPfam_PH,HMMSmart_SM00233,superfamily_C2 domain (Calcium/lipid-binding domain CaLB),superfamily_PH domain-like
ITSN2	50618	genome.wustl.edu	37	2	24440837	24440837	+	Nonsense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_006277.2	-1	reviewed	p.E1249*	1.000	238	0%	157	10.2%	2	0%	-	-	-	HMMPfam_RhoGEF,HMMSmart_SM00325,superfamily_DBL homology domain (DH-domain)
ITSN2	50618	genome.wustl.edu	37	2	24469747	24469747	+	Nonsense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_006277.2	-1	reviewed	p.R1102*	0.998	257	0.4%	50	34%	5	0%	-	-	-	HMMPfam_SH3_1,HMMSmart_SM00326,superfamily_SH3-domain
ITSN2	50618	genome.wustl.edu	37	2	24475238	24475238	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_006277.2	-1	reviewed	p.N1032	1.000	284	0%	51	17.6%	4	50%	-	-	-	HMMPfam_SH3_1,HMMSmart_SM00326,superfamily_SH3-domain
ITSN2	50618	genome.wustl.edu	37	2	24494740	24494740	+	Nonsense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_006277.2	-1	reviewed	p.R718*	1.000	695	0.3%	237	12.7%	3	0%	-	-	-	NULL
ITSN2	50618	genome.wustl.edu	37	2	24522933	24522933	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_006277.2	-1	reviewed	p.A397T	1.000	717	0%	314	23.2%	8	12.5%	unknown(0)	tolerated(0.09)	-	NULL
NCOA1	8648	genome.wustl.edu	37	2	24888646	24888646	+	Missense_Mutation	SNP	A	A	C	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_003743.4	+1	reviewed	p.N40H	1.000	254	0%	76	13.2%	1	0%	probably_damaging(0.992)	deleterious(0.01)	deleterious(0.853)	HMMPfam_HLH,HMMSmart_SM00353,superfamily_HLH helix-loop-helix DNA-binding domain
NCOA1	8648	genome.wustl.edu	37	2	24920635	24920635	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_003743.4	+1	reviewed	p.E306G	1.000	370	0%	154	14.9%	0	-	probably_damaging(0.972)	deleterious(0.01)	deleterious(0.820)	superfamily_PYP-like sensor domain (PAS domain)
NCOA1	8648	genome.wustl.edu	37	2	24930192	24930192	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_003743.4	+1	reviewed	p.R618I	1.000	62	0%	25	32%	1	100%	probably_damaging(0.998)	deleterious(0.04)	deleterious(0.823)	NULL
PTRHD1	391356	genome.wustl.edu	37	2	25013356	25013356	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001013663.1	-1	predicted	p.A116V	0.997	331	0%	312	20.2%	91	21.9%	benign(0.079)	tolerated(0.12)	neutral(0.266)	HMMPfam_PTH2,superfamily_SSF102462
ADCY3	109	genome.wustl.edu	37	2	25095488	25095488	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_004036.3	-1	reviewed	p.R259H	1.000	64	0%	53	34%	3	0%	probably_damaging(0.998)	tolerated(0.15)	deleterious(0.716)	NULL
DNMT3A	1788	genome.wustl.edu	37	2	25464455	25464455	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_022552.3	-1	reviewed	p.D686	1.000	66	0%	51	35.3%	3	0%	-	-	-	HMMPfam_DNA_methylase,superfamily_S-adenosyl-L-methionine-dependent methyltransferases
DNMT3A	1788	genome.wustl.edu	37	2	25464527	25464527	+	Silent	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_022552.3	-1	reviewed	p.A662	0.996	73	0%	64	14.1%	5	40%	-	-	-	superfamily_S-adenosyl-L-methionine-dependent methyltransferases
ASXL2	55252	genome.wustl.edu	37	2	25966745	25966745	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_018263.4	-1	validated	p.P821S	0.000	162	0%	120	25%	0	-	unknown(0)	tolerated(0.5)	-	NULL
ASXL2	55252	genome.wustl.edu	37	2	25972912	25972912	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_018263.4	-1	validated	p.H505N	0.985	299	0%	174	24.7%	1	100%	unknown(0)	tolerated(0.42)	-	NULL
ASXL2	55252	genome.wustl.edu	37	2	25990506	25990506	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_018263.4	-1	validated	p.T241A	0.009	364	0%	115	24.3%	4	0%	benign(0)	tolerated(0.61)	neutral(0.004)	NULL
KIF3C	3797	genome.wustl.edu	37	2	26179290	26179290	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_002254.6	-1	validated	p.I523	0.307	252	0.4%	135	24.4%	2	0%	-	-	-	NULL
LOC391358	391358	genome.wustl.edu	37	2	26251297	26251297	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	XM_372921.5	-1	model	p.S62L	0.818	54	0%	48	10.4%	0	-	-	-	-	HMMPfam_Trm112p
HADHA	3030	genome.wustl.edu	37	2	26426964	26426964	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_000182.4	-1	reviewed	p.A396V	1.000	337	0%	132	22%	43	16.2%	benign(0.102)	deleterious(0.01)	neutral(0.414)	HMMPfam_3HCDH_N,superfamily_NAD(P)-binding Rossmann-fold domains
HADHB	3032	genome.wustl.edu	37	2	26501519	26501519	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_000183.2	+1	reviewed	p.I160	0.004	681	0%	284	14.4%	21	9.5%	-	-	-	HMMPfam_Thiolase_N,superfamily_Thiolase-like
HADHB	3032	genome.wustl.edu	37	2	26501606	26501606	+	Silent	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_000183.2	+1	reviewed	p.A189	1.000	531	0%	188	26.6%	31	32.2%	-	-	-	HMMPfam_Thiolase_N,superfamily_Thiolase-like
GPR113	165082	genome.wustl.edu	37	2	26534562	26534562	+	Silent	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001145168.1	-1	validated	p.L678	0.001	118	0%	78	23.1%	0	-	-	-	-	NULL
EPT1	85465	genome.wustl.edu	37	2	26587778	26587778	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	ENST00000407686	+1	known	p.A69T	1.000	641	0.2%	493	11.6%	0	-	benign(0.001)	tolerated(0.62)	neutral(0.004)	NULL
EPT1	85465	genome.wustl.edu	37	2	26596458	26596458	+	Silent	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	ENST00000407686	+1	known	p.G178	0.657	514	0%	590	25.3%	0	-	-	-	-	HMMPfam_CDP-OH_P_transf
EPT1	85465	genome.wustl.edu	37	2	26606207	26606207	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	ENST00000407686	+1	known	p.N241K	1.000	498	0%	221	24.9%	0	-	probably_damaging(1)	deleterious(0)	deleterious(0.945)	NULL
CCDC164	92749	genome.wustl.edu	37	2	26644216	26644216	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_145038.2	+1	validated	p.D102N	0.997	231	0%	87	23%	0	-	unknown(0)	deleterious(0)	-	NULL
OTOF	9381	genome.wustl.edu	37	2	26682905	26682905	+	Silent	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_194248.2	-1	reviewed	p.I1994	0.983	138	0%	182	20.9%	0	-	-	-	-	NULL
OTOF	9381	genome.wustl.edu	37	2	26693517	26693517	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_194248.2	-1	reviewed	p.E1323K	1.000	328	0%	426	27.7%	0	-	possibly_damaging(0.706)	deleterious(0.04)	deleterious(0.603)	NULL
OTOF	9381	genome.wustl.edu	37	2	26702179	26702179	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_194248.2	-1	reviewed	p.R723C	0.990	43	0%	83	16.9%	0	-	possibly_damaging(0.951)	tolerated(0.12)	deleterious(0.655)	NULL
OTOF	9381	genome.wustl.edu	37	2	26705348	26705348	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_194248.2	-1	reviewed	p.S502L	0.998	56	1.8%	67	16.4%	0	-	probably_damaging(0.996)	deleterious(0.05)	deleterious(0.807)	HMMPfam_C2,HMMSmart_SM00239,superfamily_C2 domain (Calcium/lipid-binding domain CaLB)
OTOF	9381	genome.wustl.edu	37	2	26781421	26781421	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_194248.2	-1	reviewed	p.L7F	1.000	29	0%	42	23.8%	0	-	probably_damaging(1)	deleterious(0.03)	deleterious(0.865)	HMMSmart_SM00239
KCNK3	3777	genome.wustl.edu	37	2	26950545	26950545	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_002246.2	+1	reviewed	p.H98	0.999	28	0%	76	21.1%	3	0%	-	-	-	HMMPfam_Ion_trans_2,superfamily_Voltage-gated potassium channels
KCNK3	3777	genome.wustl.edu	37	2	26950607	26950607	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_002246.2	+1	reviewed	p.P119L	1.000	30	0%	93	33.3%	2	0%	probably_damaging(1)	deleterious(0)	deleterious(0.945)	HMMPfam_Ion_trans_2,superfamily_Voltage-gated potassium channels
KCNK3	3777	genome.wustl.edu	37	2	26950852	26950852	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_002246.2	+1	reviewed	p.G201S	1.000	42	0%	67	26.9%	6	0%	probably_damaging(1)	deleterious(0)	deleterious(0.945)	HMMPfam_Ion_trans_2,superfamily_Voltage-gated potassium channels
KCNK3	3777	genome.wustl.edu	37	2	26950957	26950957	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_002246.2	+1	reviewed	p.G236S	1.000	43	0%	92	27.2%	0	-	benign(0.024)	tolerated(0.46)	neutral(0.013)	HMMPfam_Ion_trans_2,superfamily_Voltage-gated potassium channels
TMEM214	54867	genome.wustl.edu	37	2	27259586	27259586	+	Silent	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	ENST00000425720	+1	known	p.S39*	1.000	84	0%	120	10%	17	5.8%	-	-	-	HMMPfam_DUF2359
TMEM214	54867	genome.wustl.edu	37	2	27259972	27259972	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	ENST00000425720	+1	known	p.S71L	0.997	222	0.5%	350	23.7%	17	23.5%	possibly_damaging(0.598)	deleterious(0.01)	deleterious(0.613)	HMMPfam_DUF2359
AGBL5	60509	genome.wustl.edu	37	2	27278006	27278006	+	Missense_Mutation	SNP	T	T	G	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_021831.5	+1	validated	p.F265V	1.000	211	0%	307	25.1%	8	0%	possibly_damaging(0.515)	tolerated(0.05)	deleterious(0.519)	HMMPfam_Peptidase_M14,superfamily_Zn-dependent exopeptidases
EMILIN1	11117	genome.wustl.edu	37	2	27305118	27305118	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_007046.3	+1	reviewed	p.A227T	0.856	10	0%	24	29.2%	43	0%	probably_damaging(0.969)	tolerated(0.56)	neutral(0.418)	NULL
EMILIN1	11117	genome.wustl.edu	37	2	27306676	27306676	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_007046.3	+1	reviewed	p.G746D	0.998	35	0%	78	21.8%	58	1.7%	probably_damaging(0.996)	tolerated(0.19)	deleterious(0.511)	NULL
KHK	3795	genome.wustl.edu	37	2	27322612	27322612	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_000221.2	+1	reviewed	p.I297	0.901	94	0%	73	12.3%	2	0%	-	-	-	NULL
CGREF1	10669	genome.wustl.edu	37	2	27323408	27323408	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	ENST00000452318	-1	known	p.P54H	0.002	156	0%	155	18.7%	0	-	benign(0)	tolerated(0.57)	neutral(0.006)	NULL
ABHD1	84696	genome.wustl.edu	37	2	27353583	27353583	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_032604.3	+1	reviewed	p.L397I	0.001	105	0%	177	11.3%	1	0%	benign(0.382)	tolerated(0.34)	neutral(0.145)	superfamily_alpha/beta-Hydrolases
PREB	10113	genome.wustl.edu	37	2	27354540	27354540	+	Splice_Site	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	ENST00000456259	-1	known	e3+2	0.999	79	0%	132	18.9%	42	7.1%	-	-	-	-
CAD	790	genome.wustl.edu	37	2	27459323	27459323	+	Nonsense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_004341.3	+1	reviewed	p.R1416*	1.000	103	1%	74	18.9%	4	0%	-	-	-	HMMPfam_MGS,superfamily_SSF52335
TRIM54	57159	genome.wustl.edu	37	2	27521556	27521556	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_032546.2	+1	reviewed	p.R97Q	1.000	67	0%	44	43.2%	0	-	probably_damaging(0.997)	deleterious(0)	deleterious(0.911)	superfamily_SSF57850
TRIM54	57159	genome.wustl.edu	37	2	27522227	27522227	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_032546.2	+1	reviewed	p.F152	0.596	129	0%	109	20.2%	0	-	-	-	-	HMMPfam_zf-B_box,HMMSmart_BBOX
TRIM54	57159	genome.wustl.edu	37	2	27522277	27522277	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_032546.2	+1	reviewed	p.R169H	1.000	98	0%	96	11.5%	0	-	probably_damaging(0.997)	tolerated(0.1)	deleterious(0.752)	NULL
MPV17	4358	genome.wustl.edu	37	2	27532787	27532787	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_002437.4	-1	reviewed	p.R175L	0.964	189	0%	242	31.8%	107	12.1%	benign(0.007)	deleterious(0.01)	neutral(0.406)	HMMPfam_Mpv17_PMP22
GTF3C2	2976	genome.wustl.edu	37	2	27552096	27552096	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001035521.1	-1	validated	p.R644Q	1.000	257	0.4%	125	21.6%	10	0%	probably_damaging(0.979)	tolerated(0.15)	deleterious(0.663)	superfamily_WD40 repeat-like
GTF3C2	2976	genome.wustl.edu	37	2	27560155	27560155	+	Silent	SNP	T	T	C	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001035521.1	-1	validated	p.Q361	0.931	125	0%	90	34.4%	3	0%	-	-	-	NULL
GTF3C2	2976	genome.wustl.edu	37	2	27565762	27565762	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001035521.1	-1	validated	p.S167Y	0.997	228	0%	130	21.5%	5	40%	benign(0)	tolerated(0.08)	neutral(0.300)	NULL
PPM1G	5496	genome.wustl.edu	37	2	27605074	27605074	+	Missense_Mutation	SNP	T	T	G	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_177983.1	-1	reviewed	p.E451D	1.000	245	0%	361	23.3%	131	22.9%	benign(0.307)	tolerated(0.08)	neutral(0.395)	HMMSmart_SM00332,superfamily_Protein serine/threonine phosphatase 2C catalytic domain,HMMPfam_PP2C
KRTCAP3	200634	genome.wustl.edu	37	2	27665953	27665953	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	ENST00000453171	+1	known	p.A34V	0.998	82	0%	163	12.9%	19	5.2%	unknown(0)	-	-	NULL
KRTCAP3	200634	genome.wustl.edu	37	2	27666336	27666336	+	Nonsense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_173853.3	+1	validated	p.C184*	1.000	195	0%	278	20.1%	28	21.4%	-	-	-	NULL
IFT172	26160	genome.wustl.edu	37	2	27672588	27672588	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_015662.1	-1	validated	p.A1377V	1.000	202	0%	204	15.2%	9	11.1%	probably_damaging(1)	deleterious(0)	deleterious(0.945)	NULL
IFT172	26160	genome.wustl.edu	37	2	27680767	27680767	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_015662.1	-1	validated	p.R1018C	1.000	342	0%	153	18.3%	3	0%	possibly_damaging(0.601)	deleterious(0.03)	deleterious(0.573)	superfamily_HCP-like
GCKR	2646	genome.wustl.edu	37	2	27719779	27719779	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001486.3	+1	reviewed	p.G3D	0.116	189	0%	279	13.6%	0	-	benign(0.418)	deleterious(0.05)	deleterious(0.481)	NULL
GCKR	2646	genome.wustl.edu	37	2	27722273	27722273	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001486.3	+1	reviewed	p.G169R	0.999	454	0.7%	480	22.9%	2	0%	probably_damaging(0.999)	tolerated(0.19)	deleterious(0.540)	superfamily_SIS domain
C2orf16	84226	genome.wustl.edu	37	2	27801331	27801331	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_032266.3	+1	validated	p.C631Y	0.000	189	0%	89	23.6%	0	-	benign(0.024)	deleterious(0)	neutral(0.446)	NULL
C2orf16	84226	genome.wustl.edu	37	2	27804354	27804354	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_032266.3	+1	validated	p.R1639C	0.000	120	0%	65	12.3%	0	-	unknown(0)	deleterious(0)	-	NULL
C2orf16	84226	genome.wustl.edu	37	2	27804403	27804403	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_032266.3	+1	validated	p.R1655H	0.000	148	0%	82	14.6%	0	-	unknown(0)	deleterious(0.01)	-	NULL
ZNF512	84450	genome.wustl.edu	37	2	27826107	27826107	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_032434.2	+1	validated	p.H290R	1.000	212	0%	187	21.9%	3	0%	possibly_damaging(0.697)	tolerated(0.47)	neutral(0.261)	HMMPfam_zf-C2H2,PatternScan_ZINC_FINGER_C2H2_1,HMMSmart_ZnF_C2H2
ZNF512	84450	genome.wustl.edu	37	2	27839131	27839131	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_032434.2	+1	validated	p.G412	0.991	522	0%	197	11.7%	6	0%	-	-	-	HMMSmart_ZnF_C2H2
ZNF512	84450	genome.wustl.edu	37	2	27844104	27844104	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_032434.2	+1	validated	p.R494W	1.000	126	0%	64	18.8%	7	0%	probably_damaging(0.97)	deleterious(0.02)	deleterious(0.795)	NULL
CCDC121	79635	genome.wustl.edu	37	2	27851363	27851363	+	Silent	SNP	A	A	G	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001142683.2	-1	validated	p.L90	0.000	57	0%	44	22.7%	2	0%	-	-	-	NULL
GPN1	11321	genome.wustl.edu	37	2	27873033	27873033	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_007266.3	+1	reviewed	p.S378L	1.000	346	0.3%	102	26.5%	9	11.1%	benign(0.011)	tolerated(0.34)	neutral(0.024)	NULL
SLC4A1AP	22950	genome.wustl.edu	37	2	27886870	27886870	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_018158.2	+1	validated	p.A84V	0.004	45	0%	33	24.2%	0	-	benign(0.001)	tolerated(0.08)	neutral(0.300)	NULL
PLB1	151056	genome.wustl.edu	37	2	28763248	28763248	+	Silent	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	ENST00000404858	+1	known	p.P248H	0.002	139	0.7%	75	29.3%	0	-	-	-	-	NULL
PPP1CB	5500	genome.wustl.edu	37	2	29001836	29001836	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_002709.2	+1	reviewed	p.N116D	1.000	343	0%	108	20.4%	16	18.7%	possibly_damaging(0.941)	deleterious(0)	deleterious(0.831)	HMMPfam_Metallophos,HMMSmart_SM00156,superfamily_Metallo-dependent phosphatases
FAM179A	165186	genome.wustl.edu	37	2	29226399	29226399	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_199280.2	+1	validated	p.K227N	1.000	56	0%	60	23.3%	0	-	probably_damaging(0.978)	deleterious(0)	deleterious(0.865)	NULL
FAM179A	165186	genome.wustl.edu	37	2	29259414	29259414	+	Missense_Mutation	SNP	A	A	C	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_199280.2	+1	validated	p.D809A	1.000	275	0%	155	12.9%	1	0%	probably_damaging(1)	deleterious(0)	deleterious(0.945)	superfamily_ARM repeat
C2orf71	388939	genome.wustl.edu	37	2	29295587	29295587	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001029883.1	-1	provisional	p.P514Q	0.993	49	0%	57	24.6%	0	-	probably_damaging(0.998)	deleterious(0)	deleterious(0.919)	NULL
C2orf71	388939	genome.wustl.edu	37	2	29296524	29296524	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001029883.1	-1	provisional	p.L202M	0.003	224	0%	216	22.2%	0	-	possibly_damaging(0.91)	tolerated(0.06)	deleterious(0.685)	NULL
CLIP4	79745	genome.wustl.edu	37	2	29356671	29356671	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_024692.4	+1	validated	p.S173L	0.998	298	0%	60	16.7%	2	0%	possibly_damaging(0.599)	deleterious(0.02)	deleterious(0.591)	HMMPfam_Ank,HMMSmart_SM00248,superfamily_Ankyrin repeat
ALK	238	genome.wustl.edu	37	2	29455189	29455189	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_004304.3	-1	reviewed	p.N871	0.996	132	0%	68	29.4%	0	-	-	-	-	NULL
ALK	238	genome.wustl.edu	37	2	29606702	29606702	+	Missense_Mutation	SNP	A	A	C	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_004304.3	-1	reviewed	p.I393S	1.000	126	0%	32	21.9%	0	-	possibly_damaging(0.8)	deleterious(0)	deleterious(0.746)	NULL
LCLAT1	253558	genome.wustl.edu	37	2	30748496	30748496	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_182551.3	+1	validated	p.F52L	0.998	504	0%	174	10.3%	1	0%	benign(0.002)	tolerated(0.57)	neutral(0.006)	superfamily_Glycerol-3-phosphate (1)-acyltransferase
LCLAT1	253558	genome.wustl.edu	37	2	30785080	30785080	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_182551.3	+1	validated	p.E183K	1.000	216	0%	79	21.5%	1	0%	benign(0.034)	tolerated(0.49)	neutral(0.013)	HMMPfam_Acyltransferase,HMMSmart_SM00563,superfamily_Glycerol-3-phosphate (1)-acyltransferase
LCLAT1	253558	genome.wustl.edu	37	2	30791001	30791001	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_182551.3	+1	validated	p.R234I	1.000	196	0%	64	23.4%	0	-	probably_damaging(1)	deleterious(0)	deleterious(0.945)	HMMPfam_Acyltransferase,HMMSmart_SM00563
CAPN13	92291	genome.wustl.edu	37	2	30980924	30980924	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_144575.2	-1	validated	p.R285H	0.997	171	0%	66	25.8%	4	25%	probably_damaging(1)	tolerated(0.16)	deleterious(0.559)	HMMPfam_Peptidase_C2,HMMSmart_SM00230,superfamily_Cysteine proteinases
GALNT14	79623	genome.wustl.edu	37	2	31133911	31133911	+	Silent	SNP	A	A	C	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_024572.2	-1	validated	p.T505	0.011	311	0%	151	27.2%	4	50%	-	-	-	HMMPfam_Ricin_B_lectin,HMMSmart_SM00458,superfamily_Ricin B-like lectins
CAPN14	440854	genome.wustl.edu	37	2	31428309	31428309	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001145122.1	-1	validated	p.S2Y	0.974	87	0%	64	20.3%	0	-	benign(0.156)	deleterious(0)	neutral(0.459)	superfamily_Cysteine proteinases
MEMO1	51072	genome.wustl.edu	37	2	32157196	32157196	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_015955.2	-1	validated	p.G51V	1.000	206	0%	53	35.8%	11	36.3%	probably_damaging(1)	deleterious(0)	deleterious(0.945)	HMMPfam_Memo
SLC30A6	55676	genome.wustl.edu	37	2	32429695	32429695	+	Silent	SNP	T	T	G	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_017964.2	+1	provisional	p.A234	1.000	416	0%	125	24%	1	0%	-	-	-	HMMPfam_Cation_efflux
NLRC4	58484	genome.wustl.edu	37	2	32466122	32466122	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	ENST00000360906	-1	known	p.E777G	0.998	793	0.3%	233	12%	0	-	probably_damaging(0.98)	deleterious(0.02)	deleterious(0.807)	superfamily_RNI-like
NLRC4	58484	genome.wustl.edu	37	2	32476150	32476150	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	ENST00000360906	-1	known	p.I261	0.594	111	0%	48	14.6%	2	0%	-	-	-	HMMPfam_NACHT,superfamily_P-loop containing nucleoside triphosphate hydrolases
YIPF4	84272	genome.wustl.edu	37	2	32523378	32523378	+	Nonsense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_032312.3	+1	validated	p.E161*	1.000	589	0%	647	11%	23	0%	-	-	-	HMMPfam_Yip1
BIRC6	57448	genome.wustl.edu	37	2	32640326	32640326	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_016252.3	+1	reviewed	p.S656I	1.000	252	0%	135	27.4%	0	-	possibly_damaging(0.805)	deleterious(0.01)	deleterious(0.709)	NULL
BIRC6	57448	genome.wustl.edu	37	2	32667224	32667224	+	Nonsense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_016252.3	+1	reviewed	p.E1346*	1.000	212	0%	182	29.7%	0	-	-	-	-	NULL
BIRC6	57448	genome.wustl.edu	37	2	32667398	32667398	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_016252.3	+1	reviewed	p.K1371N	0.979	384	0%	387	11.6%	1	0%	benign(0.244)	deleterious(0.03)	neutral(0.389)	NULL
BIRC6	57448	genome.wustl.edu	37	2	32667407	32667407	+	Silent	SNP	T	T	C	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_016252.3	+1	reviewed	p.N1374	0.999	385	0%	397	12.8%	1	0%	-	-	-	NULL
BIRC6	57448	genome.wustl.edu	37	2	32715171	32715171	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_016252.3	+1	reviewed	p.C2720Y	1.000	409	0%	100	14%	0	-	probably_damaging(0.996)	deleterious(0)	deleterious(0.906)	NULL
BIRC6	57448	genome.wustl.edu	37	2	32724990	32724990	+	Missense_Mutation	SNP	A	A	C	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_016252.3	+1	reviewed	p.N2949H	1.000	222	0%	112	24.1%	0	-	benign(0.123)	tolerated(0.18)	neutral(0.066)	NULL
BIRC6	57448	genome.wustl.edu	37	2	32733196	32733196	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_016252.3	+1	reviewed	p.R3284C	1.000	225	0%	113	29.2%	2	50%	probably_damaging(1)	deleterious(0)	deleterious(0.945)	superfamily_Galactose-binding domain-like
BIRC6	57448	genome.wustl.edu	37	2	32822821	32822821	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_016252.3	+1	reviewed	p.T4539M	1.000	377	0%	107	19.6%	8	25%	probably_damaging(1)	deleterious(0)	deleterious(0.945)	NULL
BIRC6	57448	genome.wustl.edu	37	2	32822934	32822934	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_016252.3	+1	reviewed	p.R4577C	1.000	252	0%	57	26.3%	13	15.3%	probably_damaging(1)	deleterious(0)	deleterious(0.945)	HMMPfam_UQ_con,HMMSmart_SM00212,superfamily_UBC-like
TTC27	55622	genome.wustl.edu	37	2	32865408	32865408	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_017735.3	+1	provisional	p.S156	0.000	358	0.3%	109	23.9%	2	0%	-	-	-	NULL
TTC27	55622	genome.wustl.edu	37	2	32897401	32897401	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_017735.3	+1	provisional	p.F334	1.000	446	0%	141	29.1%	2	0%	-	-	-	NULL
TTC27	55622	genome.wustl.edu	37	2	32983561	32983561	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_017735.3	+1	provisional	p.R552H	1.000	143	0%	149	26.8%	6	16.6%	possibly_damaging(0.93)	tolerated(0.15)	deleterious(0.617)	HMMPfam_TPR_1,HMMSmart_TPR,superfamily_SSF48452
TTC27	55622	genome.wustl.edu	37	2	33036243	33036243	+	Silent	SNP	C	C	T	rs191393726	by1000genomes	TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_017735.3	+1	provisional	p.H717	0.276	310	0%	139	20.9%	9	11.1%	-	-	-	superfamily_SSF48452
LTBP1	4052	genome.wustl.edu	37	2	33411978	33411978	+	Silent	SNP	T	T	C	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_206943.2	+1	reviewed	p.C419	1.000	300	0%	114	9.6%	3	0%	-	-	-	HMMPfam_EGF,HMMSmart_SM00181,PatternScan_EGF_1,superfamily_EGF/Laminin
LTBP1	4052	genome.wustl.edu	37	2	33468803	33468803	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_206943.2	+1	reviewed	p.T651A	1.000	416	0%	95	20%	3	0%	benign(0.046)	tolerated(0.12)	neutral(0.263)	PatternScan_ASX_HYDROXYL,HMMSmart_SM00179,HMMSmart_SM00181,PatternScan_EGF_2,HMMPfam_EGF_CA,superfamily_EGF/Laminin
LTBP1	4052	genome.wustl.edu	37	2	33590411	33590411	+	Nonsense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_206943.2	+1	reviewed	p.E1519*	1.000	210	0%	79	20.3%	33	0%	-	-	-	superfamily_TB module/8-cys domain
RASGRP3	25780	genome.wustl.edu	37	2	33745672	33745672	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001139488.1	+1	validated	p.R97C	1.000	524	0%	113	27.4%	0	-	probably_damaging(0.999)	deleterious(0.01)	deleterious(0.896)	HMMPfam_RasGEF_N,HMMSmart_SM00229,superfamily_Ras GEF
RASGRP3	25780	genome.wustl.edu	37	2	33749515	33749515	+	Missense_Mutation	SNP	A	A	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001139488.1	+1	validated	p.K236I	1.000	237	0%	54	11.1%	0	-	benign(0.084)	deleterious(0)	neutral(0.451)	HMMPfam_RasGEF,HMMSmart_SM00147,superfamily_Ras GEF
FAM98A	25940	genome.wustl.edu	37	2	33810031	33810031	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_015475.3	-1	validated	p.R457C	0.996	304	0%	322	26.7%	5	0%	unknown(0)	deleterious(0)	-	NULL
VIT	5212	genome.wustl.edu	37	2	37032714	37032714	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_053276.3	+1	validated	p.A432	0.592	144	0%	59	30.5%	0	-	-	-	-	HMMPfam_VWA,HMMSmart_VWA,superfamily_SSF53300
VIT	5212	genome.wustl.edu	37	2	37035707	37035707	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_053276.3	+1	validated	p.C494	0.988	32	0%	12	50%	0	-	-	-	-	superfamily_SSF53300
VIT	5212	genome.wustl.edu	37	2	37035854	37035854	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_053276.3	+1	validated	p.S543	0.055	82	0%	39	38.5%	0	-	-	-	-	HMMPfam_VWA,HMMSmart_VWA,superfamily_SSF53300
HEATR5B	54497	genome.wustl.edu	37	2	37208717	37208717	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_019024.1	-1	validated	p.A2044	0.034	119	0%	66	21.2%	18	16.6%	-	-	-	NULL
HEATR5B	54497	genome.wustl.edu	37	2	37235781	37235781	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_019024.1	-1	validated	p.E1499K	1.000	385	0.5%	143	24.5%	1	0%	probably_damaging(0.973)	deleterious(0.02)	deleterious(0.798)	superfamily_ARM repeat
EIF2AK2	5610	genome.wustl.edu	37	2	37347276	37347276	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001135651.1	-1	validated	p.K358N	0.212	329	0%	101	10.9%	6	0%	benign(0.349)	deleterious(0.02)	deleterious(0.493)	HMMSmart_SM00219,HMMSmart_SM00220,superfamily_Protein kinase-like (PK-like),HMMPfam_Pkinase
EIF2AK2	5610	genome.wustl.edu	37	2	37353450	37353450	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001135651.1	-1	validated	p.R297H	1.000	283	0.4%	76	22.4%	2	0%	probably_damaging(1)	deleterious(0.02)	deleterious(0.883)	HMMSmart_SM00219,HMMSmart_SM00220,superfamily_Protein kinase-like (PK-like),HMMPfam_Pkinase
CEBPZ	10153	genome.wustl.edu	37	2	37429965	37429965	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_005760.2	-1	validated	p.N996S	0.998	241	0%	158	20.3%	74	10.8%	benign(0.04)	tolerated(0.07)	neutral(0.322)	NULL
CEBPZ	10153	genome.wustl.edu	37	2	37441025	37441025	+	Nonsense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_005760.2	-1	validated	p.E843*	0.998	1122	0%	492	19.7%	30	6.6%	-	-	-	superfamily_ARM repeat
CEBPZ	10153	genome.wustl.edu	37	2	37454884	37454884	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_005760.2	-1	validated	p.S484	0.999	207	0%	162	27.2%	9	22.2%	-	-	-	superfamily_ARM repeat
CEBPZ	10153	genome.wustl.edu	37	2	37455560	37455560	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_005760.2	-1	validated	p.A259V	1.000	199	0%	140	24.3%	4	25%	possibly_damaging(0.797)	deleterious(0.02)	deleterious(0.682)	NULL
CEBPZ	10153	genome.wustl.edu	37	2	37455665	37455665	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_005760.2	-1	validated	p.T224M	0.945	218	0%	185	12.4%	3	33.3%	probably_damaging(0.982)	tolerated(0.09)	deleterious(0.723)	NULL
C2orf56	55471	genome.wustl.edu	37	2	37471030	37471030	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_144736.4	+1	validated	p.V236L	0.997	523	0%	166	29.5%	5	20%	benign(0.043)	tolerated(0.06)	neutral(0.325)	HMMPfam_DUF185
QPCT	25797	genome.wustl.edu	37	2	37594509	37594509	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_012413.3	+1	reviewed	p.P227	0.003	153	0%	42	11.9%	19	5.2%	-	-	-	HMMPfam_Peptidase_M28,superfamily_Zn-dependent exopeptidases
CDC42EP3	10602	genome.wustl.edu	37	2	37873013	37873013	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_006449.3	-1	reviewed	p.P240S	1.000	149	0%	75	22.7%	33	3%	probably_damaging(0.996)	deleterious(0)	deleterious(0.906)	NULL
FAM82A1	151393	genome.wustl.edu	37	2	38178795	38178795	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_144713.3	+1	validated	p.P146H	0.001	283	0%	96	31.2%	0	-	probably_damaging(0.99)	tolerated(0.36)	neutral(0.462)	NULL
CYP1B1	1545	genome.wustl.edu	37	2	38302374	38302374	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_000104.3	-1	reviewed	p.G53D	0.999	22	0%	33	39.4%	0	-	probably_damaging(1)	deleterious(0)	deleterious(0.945)	HMMPfam_p450,superfamily_Cytochrome_P450
CYP1B1-AS1	285154	genome.wustl.edu	37	2	38407960	38407960	+	RNA	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NR_027252.1	+1	predicted	NULL	0.003	452	0%	107	11.2%	0	-	-	-	-	-
ATL2	64225	genome.wustl.edu	37	2	38526416	38526416	+	Silent	SNP	A	A	G	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001135673.1	-1	validated	p.Y394	1.000	79	0%	23	17.4%	8	12.5%	-	-	-	superfamily_Interferon-induced guanylate-binding protein 1 (GBP1) C-terminal domain
DHX57	90957	genome.wustl.edu	37	2	39050326	39050326	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_198963.1	-1	provisional	p.R1034C	0.998	93	0%	38	39.5%	5	0%	probably_damaging(0.953)	tolerated(0.05)	deleterious(0.742)	superfamily_P-loop containing nucleoside triphosphate hydrolases
ARHGEF33	100271715	genome.wustl.edu	37	2	39156928	39156928	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001145451.2	+1	validated	p.L107F	1.000	239	0%	69	34.8%	0	-	probably_damaging(0.998)	deleterious(0)	deleterious(0.919)	NULL
ARHGEF33	100271715	genome.wustl.edu	37	2	39178259	39178259	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001145451.2	+1	validated	p.D350	1.000	337	0%	205	21.5%	0	-	-	-	-	HMMSmart_SM00325,superfamily_DBL homology domain (DH-domain)
SOS1	6654	genome.wustl.edu	37	2	39224119	39224119	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_005633.3	-1	reviewed	p.L1009I	1.000	360	0%	80	22.5%	5	20%	possibly_damaging(0.872)	deleterious(0.01)	deleterious(0.745)	HMMSmart_SM00147,superfamily_Ras GEF
CDKL4	344387	genome.wustl.edu	37	2	39411763	39411763	+	Missense_Mutation	SNP	T	T	G	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001009565.1	-1	provisional	p.D254A	0.016	280	0%	97	11.3%	1	0%	benign(0.002)	tolerated(0.45)	neutral(0.012)	HMMSmart_S_TKc,superfamily_Kinase_like,HMMPfam_Pkinase
MAP4K3	8491	genome.wustl.edu	37	2	39487797	39487797	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_003618.2	-1	reviewed	p.R753Q	1.000	233	0.4%	125	11.2%	2	0%	benign(0.012)	tolerated(0.33)	neutral(0.025)	HMMPfam_CNH,HMMSmart_SM00036
MAP4K3	8491	genome.wustl.edu	37	2	39517453	39517453	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_003618.2	-1	reviewed	p.P432S	1.000	448	0%	115	14.8%	1	0%	benign(0.206)	tolerated(0.34)	neutral(0.043)	superfamily_Protein kinase-like (PK-like)
MAP4K3	8491	genome.wustl.edu	37	2	39552745	39552745	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_003618.2	-1	reviewed	p.T278A	1.000	286	0%	47	14.9%	1	0%	benign(0.018)	deleterious(0.05)	neutral(0.346)	superfamily_Protein kinase-like (PK-like)
THUMPD2	80745	genome.wustl.edu	37	2	39963965	39963965	+	Silent	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_025264.4	-1	validated	p.S444	0.519	427	0.2%	78	15.4%	14	35.7%	-	-	-	NULL
SLC8A1	6546	genome.wustl.edu	37	2	40342635	40342635	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_021097.2	-1	validated	p.A894S	0.200	107	0%	89	13.5%	0	-	possibly_damaging(0.838)	tolerated(0.33)	neutral(0.344)	HMMPfam_Na_Ca_ex
EML4	27436	genome.wustl.edu	37	2	42522274	42522274	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_019063.3	+1	validated	p.E410K	1.000	476	0%	95	20%	2	0%	probably_damaging(0.995)	deleterious(0.01)	deleterious(0.863)	HMMSmart_SM00320,superfamily_WD40 repeat-like
EML4	27436	genome.wustl.edu	37	2	42543154	42543154	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_019063.3	+1	validated	p.G674R	1.000	175	0%	35	25.7%	7	0%	probably_damaging(1)	deleterious(0)	deleterious(0.945)	HMMSmart_SM00320,superfamily_WD40 repeat-like
EML4	27436	genome.wustl.edu	37	2	42557101	42557101	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_019063.3	+1	validated	p.P900	0.000	296	0.3%	121	24%	11	36.3%	-	-	-	NULL
OXER1	165140	genome.wustl.edu	37	2	42990328	42990328	+	Missense_Mutation	SNP	T	T	G	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_148962.4	-1	validated	p.D331A	0.000	69	1.4%	68	19.1%	6	0%	benign(0.004)	tolerated(0.54)	neutral(0.007)	HMMPfam_7tm_1,superfamily_SSF81321
HAAO	23498	genome.wustl.edu	37	2	43015684	43015684	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_012205.2	-1	reviewed	p.I48	0.989	223	0%	237	23.2%	5	0%	-	-	-	HMMPfam_3-HAO,superfamily_RmlC-like cupins
THADA	63892	genome.wustl.edu	37	2	43520075	43520075	+	Silent	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001083953.1	-1	validated	p.A1572	0.041	60	0%	87	24.1%	14	21.4%	-	-	-	NULL
THADA	63892	genome.wustl.edu	37	2	43801576	43801576	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001083953.1	-1	validated	p.S543Y	1.000	183	0%	47	23.4%	0	-	possibly_damaging(0.673)	deleterious(0.04)	deleterious(0.588)	NULL
LOC728819	728819	genome.wustl.edu	37	2	43902849	43902849	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001101330.1	-1	provisional	p.C205R	0.979	123	0%	222	25.2%	0	-	-	-	-	NULL
LOC728819	728819	genome.wustl.edu	37	2	43903065	43903065	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001101330.1	-1	provisional	p.D133N	0.002	348	0%	551	26%	1	0%	-	-	-	NULL
PLEKHH2	130271	genome.wustl.edu	37	2	43927155	43927155	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_172069.3	+1	validated	p.S353F	1.000	141	0%	81	28.4%	0	-	probably_damaging(0.991)	deleterious(0.01)	deleterious(0.850)	NULL
PLEKHH2	130271	genome.wustl.edu	37	2	43937135	43937135	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_172069.3	+1	validated	p.S658Y	1.000	497	0%	127	13.4%	1	0%	probably_damaging(0.981)	deleterious(0)	deleterious(0.870)	NULL
PLEKHH2	130271	genome.wustl.edu	37	2	43947856	43947856	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_172069.3	+1	validated	p.T837A	0.250	466	0%	116	22.4%	2	0%	benign(0.003)	tolerated(0.21)	neutral(0.044)	HMMPfam_PH,HMMSmart_SM00233,superfamily_PH domain-like
PLEKHH2	130271	genome.wustl.edu	37	2	43965538	43965538	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_172069.3	+1	validated	p.S1001Y	1.000	175	0%	54	22.2%	0	-	probably_damaging(0.981)	deleterious(0.03)	deleterious(0.790)	HMMPfam_MyTH4,HMMSmart_SM00139
ABCG8	64241	genome.wustl.edu	37	2	44099404	44099404	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_022437.2	+1	reviewed	p.T390	0.000	86	0%	47	25.5%	0	-	-	-	-	NULL
ABCG8	64241	genome.wustl.edu	37	2	44100942	44100942	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_022437.2	+1	reviewed	p.D410N	1.000	201	0%	88	21.6%	0	-	probably_damaging(0.98)	tolerated(0.18)	deleterious(0.480)	HMMPfam_ABC2_membrane
LRPPRC	10128	genome.wustl.edu	37	2	44128511	44128511	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_133259.3	-1	reviewed	p.G1173R	0.285	271	0%	65	23.1%	38	15.7%	benign(0.009)	tolerated(0.49)	neutral(0.011)	superfamily_SSF48452
LRPPRC	10128	genome.wustl.edu	37	2	44145412	44145412	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_133259.3	-1	reviewed	p.P1008S	1.000	382	0%	65	23.1%	9	44.4%	probably_damaging(1)	deleterious(0)	deleterious(0.945)	NULL
SLC3A1	6519	genome.wustl.edu	37	2	44528147	44528147	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_000341.3	+1	reviewed	p.T339	0.000	96	0%	31	25.8%	2	0%	-	-	-	HMMPfam_Alpha-amylase,HMMSmart_Aamy,superfamily_Glyco_hydro_cat
SIX3	6496	genome.wustl.edu	37	2	45169297	45169297	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_005413.3	+1	reviewed	p.N18K	1.000	140	0%	200	22.5%	1	0%	benign(0.242)	deleterious(0.01)	neutral(0.430)	NULL
SRBD1	55133	genome.wustl.edu	37	2	45826722	45826722	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_018079.4	-1	validated	p.D172N	0.998	549	0.7%	256	17.2%	2	0%	possibly_damaging(0.951)	deleterious(0.04)	deleterious(0.743)	NULL
PRKCE	5581	genome.wustl.edu	37	2	46228635	46228635	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_005400.2	+1	reviewed	p.L306M	1.000	132	0%	34	14.7%	0	-	benign(0.362)	tolerated(0.33)	neutral(0.139)	NULL
EPAS1	2034	genome.wustl.edu	37	2	46574053	46574053	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001430.4	+1	reviewed	p.A23V	0.999	87	0%	30	13.3%	12	0%	probably_damaging(0.996)	deleterious(0)	deleterious(0.906)	HMMPfam_HLH,HMMSmart_HLH,superfamily_HLH_basic
LOC388946	388946	genome.wustl.edu	37	2	46707894	46707894	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001145051.1	+1	validated	p.A156	0.000	18	0%	27	18.5%	0	-	-	-	-	NULL
ENSG00000187600	0	genome.wustl.edu	37	2	46711382	46711382	+	Splice_Site	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	ENST00000432241	+1	known	NULL	1.000	267	0%	282	26.6%	0	-	-	-	-	-
TTC7A	57217	genome.wustl.edu	37	2	47184034	47184034	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	ENST00000441914	+1	known	p.A135V	0.989	180	0%	95	33.7%	0	-	-	-	-	NULL
TTC7A	57217	genome.wustl.edu	37	2	47287908	47287908	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_020458.2	+1	validated	p.A718D	0.998	90	0%	67	25.4%	7	14.2%	probably_damaging(0.994)	deleterious(0)	deleterious(0.897)	HMMSmart_SM00028,superfamily_TPR-like
C2orf61	285051	genome.wustl.edu	37	2	47314166	47314166	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	ENST00000449846	-1	known	p.T123A	0.997	596	0%	383	11%	1	0%	benign(0.001)	tolerated(0.96)	-	NULL
MSH2	4436	genome.wustl.edu	37	2	47635547	47635547	+	Missense_Mutation	SNP	G	G	T	rs1800150	byCluster	TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_000251.1	+1	reviewed	p.K73N	0.777	166	0%	198	26.8%	1	0%	benign(0.004)	tolerated(0.27)	neutral(0.034)	HMMPfam_MutS_I
MSH6	2956	genome.wustl.edu	37	2	48027811	48027811	+	Missense_Mutation	SNP	A	A	C	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_000179.2	+1	reviewed	p.N897H	0.995	199	0%	69	13%	6	16.6%	benign(0)	tolerated(0.24)	neutral(0.037)	HMMSmart_SM00533,superfamily_DNA repair protein MutS domain III
MSH6	2956	genome.wustl.edu	37	2	48027998	48027998	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_000179.2	+1	reviewed	p.R959H	1.000	126	0%	32	25%	12	16.6%	probably_damaging(0.999)	deleterious(0.02)	deleterious(0.873)	HMMSmart_SM00533,superfamily_DNA repair protein MutS domain III,HMMPfam_MutS_IV
MSH6	2956	genome.wustl.edu	37	2	48028161	48028161	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_000179.2	+1	reviewed	p.K1013N	1.000	207	0%	86	15.1%	16	0%	benign(0.171)	tolerated(0.41)	neutral(0.030)	HMMSmart_SM00533,superfamily_DNA repair protein MutS domain III,HMMPfam_MutS_IV
MSH6	2956	genome.wustl.edu	37	2	48033753	48033753	+	Nonsense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_000179.2	+1	reviewed	p.E1322*	1.000	120	0%	53	20.8%	96	32.2%	-	-	-	HMMPfam_MutS_V,superfamily_P-loop containing nucleoside triphosphate hydrolases
MSH6	2956	genome.wustl.edu	37	2	48033781	48033781	+	Missense_Mutation	SNP	G	G	A	rs184131049	by1000genomes	TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_000179.2	+1	reviewed	p.R1331Q	0.942	130	0%	32	37.5%	71	26.7%	benign(0.003)	tolerated(0.47)	neutral(0.011)	NULL
FBXO11	80204	genome.wustl.edu	37	2	48035348	48035348	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_025133.3	-1	reviewed	p.P814H	1.000	400	0%	127	23.6%	36	19.4%	benign(0)	tolerated(0.19)	neutral(0.050)	HMMPfam_zf-UBR
FOXN2	3344	genome.wustl.edu	37	2	48573679	48573679	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_002158.3	+1	reviewed	p.A109V	0.996	376	0%	124	25%	2	0%	benign(0.097)	tolerated(0.53)	neutral(0.015)	NULL
PPP1R21	129285	genome.wustl.edu	37	2	48725652	48725652	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001135629.1	+1	validated	p.K571	1.000	341	0%	124	19.4%	12	25%	-	-	-	HMMPfam_TTKRSYEDQ
ENSG00000205011	0	genome.wustl.edu	37	2	48757086	48757086	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	ENST00000378305	+1	known	p.R30K	0.003	36	0%	72	18.1%	1	0%	unknown(0)	-	-	NULL
STON1-GTF2A1L	286749	genome.wustl.edu	37	2	48807847	48807847	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_172311.1	+1	reviewed	p.K25	0.802	173	0%	119	12.6%	7	0%	-	-	-	NULL
FSHR	2492	genome.wustl.edu	37	2	49189991	49189991	+	Nonsense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_000145.3	-1	reviewed	p.E657*	1.000	284	0%	90	25.6%	0	-	-	-	-	superfamily_Family A G protein-coupled receptor-like
FSHR	2492	genome.wustl.edu	37	2	49190218	49190218	+	Missense_Mutation	SNP	T	T	G	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_000145.3	-1	reviewed	p.D581A	1.000	178	0%	62	19.4%	0	-	probably_damaging(1)	deleterious(0)	deleterious(0.945)	HMMPfam_7tm_1,superfamily_Family A G protein-coupled receptor-like
FSHR	2492	genome.wustl.edu	37	2	49190249	49190249	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_000145.3	-1	reviewed	p.A571T	1.000	154	0%	51	13.7%	0	-	probably_damaging(1)	deleterious(0)	deleterious(0.945)	HMMPfam_7tm_1,superfamily_Family A G protein-coupled receptor-like
FSHR	2492	genome.wustl.edu	37	2	49217745	49217745	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_000145.3	-1	reviewed	p.P136S	1.000	417	0%	229	26.2%	0	-	probably_damaging(1)	deleterious(0)	deleterious(0.945)	superfamily_L domain-like
GPR75	10936	genome.wustl.edu	37	2	54080989	54080989	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_006794.2	-1	validated	p.R302Q	1.000	465	0.2%	437	20.8%	0	-	probably_damaging(0.999)	tolerated(0.37)	deleterious(0.509)	HMMPfam_7tm_1,superfamily_Family A G protein-coupled receptor-like
PSME4	23198	genome.wustl.edu	37	2	54159832	54159832	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_014614.2	-1	validated	p.Y341	0.998	286	0%	96	32.3%	0	-	-	-	-	NULL
SPTBN1	6711	genome.wustl.edu	37	2	54857113	54857113	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_003128.2	+1	reviewed	p.S918	0.061	101	0%	78	26.9%	7	0%	-	-	-	HMMPfam_Spectrin,HMMSmart_SM00150,superfamily_Spectrin repeat
EML6	400954	genome.wustl.edu	37	2	55071369	55071369	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001039753.2	+1	validated	p.D345N	1.000	80	0%	34	35.3%	0	-	probably_damaging(0.998)	tolerated(0.08)	deleterious(0.774)	HMMSmart_SM00320,superfamily_YVTN repeat-like/Quinoprotein amine dehydrogenase,superfamily_WD40 repeat-like,HMMPfam_WD40
EML6	400954	genome.wustl.edu	37	2	55077240	55077240	+	Missense_Mutation	SNP	A	A	C	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001039753.2	+1	validated	p.K443N	1.000	448	0%	105	18.1%	0	-	probably_damaging(0.998)	tolerated(0.21)	deleterious(0.518)	superfamily_WD40 repeat-like
EML6	400954	genome.wustl.edu	37	2	55080912	55080912	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001039753.2	+1	validated	p.A526V	0.999	280	0%	63	27%	0	-	benign(0.12)	tolerated(0.68)	neutral(0.011)	HMMSmart_SM00320,superfamily_WD40 repeat-like
EML6	400954	genome.wustl.edu	37	2	55130237	55130237	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001039753.2	+1	validated	p.D1061N	1.000	230	0%	58	29.3%	0	-	probably_damaging(0.999)	tolerated(0.31)	deleterious(0.517)	HMMSmart_SM00320,superfamily_YVTN repeat-like/Quinoprotein amine dehydrogenase,superfamily_WD40 repeat-like
EML6	400954	genome.wustl.edu	37	2	55138172	55138172	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001039753.2	+1	validated	p.P1164H	0.099	345	0%	66	21.2%	0	-	benign(0.061)	tolerated(0.09)	neutral(0.300)	superfamily_WD40 repeat-like
EML6	400954	genome.wustl.edu	37	2	55155819	55155819	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001039753.2	+1	validated	p.A1312V	1.000	204	0%	107	19.6%	0	-	possibly_damaging(0.608)	tolerated(0.34)	neutral(0.233)	NULL
EML6	400954	genome.wustl.edu	37	2	55179775	55179775	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001039753.2	+1	validated	p.L1420I	1.000	120	0%	60	25%	0	-	probably_damaging(0.987)	tolerated(0.15)	deleterious(0.677)	HMMSmart_SM00320,superfamily_YVTN repeat-like/Quinoprotein amine dehydrogenase
EML6	400954	genome.wustl.edu	37	2	55191215	55191215	+	Nonsense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001039753.2	+1	validated	p.E1751*	1.000	321	0%	140	19.3%	0	-	-	-	-	HMMSmart_SM00320,superfamily_YVTN repeat-like/Quinoprotein amine dehydrogenase
EML6	400954	genome.wustl.edu	37	2	55194157	55194157	+	Missense_Mutation	SNP	C	C	T	rs187186310	by1000genomes	TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001039753.2	+1	validated	p.R1839C	1.000	103	0%	35	22.9%	1	100%	probably_damaging(1)	deleterious(0.04)	deleterious(0.849)	superfamily_YVTN repeat-like/Quinoprotein amine dehydrogenase
RTN4	57142	genome.wustl.edu	37	2	55252495	55252495	+	Nonsense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_020532.4	-1	reviewed	p.E914*	0.987	180	0%	53	15.1%	0	-	-	-	-	NULL
C2orf63	130162	genome.wustl.edu	37	2	55449431	55449431	+	Silent	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_152385.2	-1	validated	p.G39	1.000	777	0%	1036	26.1%	1	0%	-	-	-	NULL
RPS27A	6233	genome.wustl.edu	37	2	55462068	55462068	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001135592.2	+1	reviewed	p.K97N	1.000	281	0%	285	35.1%	1449	20.5%	unknown(0)	deleterious(0.03)	-	superfamily_Ubiquitin-like
RPS27A	6233	genome.wustl.edu	37	2	55462577	55462577	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001135592.2	+1	reviewed	p.G112D	1.000	431	0%	443	14.4%	1799	4.1%	benign(0.008)	deleterious(0)	neutral(0.445)	HMMPfam_Ribosomal_S27
MTIF2	4528	genome.wustl.edu	37	2	55467222	55467222	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001005369.1	-1	reviewed	p.I599V	1.000	210	0%	156	25%	35	34.2%	possibly_damaging(0.69)	tolerated(0.08)	deleterious(0.547)	superfamily_SSF52156
CCDC88A	55704	genome.wustl.edu	37	2	55522924	55522924	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001135597.1	-1	validated	p.S1786F	0.970	372	0%	159	11.3%	0	-	benign(0.229)	deleterious(0.02)	neutral(0.406)	NULL
CCDC88A	55704	genome.wustl.edu	37	2	55523483	55523483	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001135597.1	-1	validated	p.H1667Y	0.735	340	0%	113	22.1%	4	0%	benign(0)	tolerated(1)	-	NULL
CCDC88A	55704	genome.wustl.edu	37	2	55523519	55523519	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001135597.1	-1	validated	p.L1655F	1.000	385	0%	137	24.8%	2	0%	probably_damaging(0.986)	tolerated(0.25)	deleterious(0.471)	NULL
CCDC88A	55704	genome.wustl.edu	37	2	55528359	55528359	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001135597.1	-1	validated	p.T1575M	1.000	303	0%	82	26.8%	3	0%	probably_damaging(0.991)	tolerated(0.08)	deleterious(0.744)	NULL
CCDC88A	55704	genome.wustl.edu	37	2	55571581	55571581	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001135597.1	-1	validated	p.R371C	1.000	655	0.2%	182	22.5%	0	-	probably_damaging(0.965)	deleterious(0)	deleterious(0.851)	NULL
EFEMP1	2202	genome.wustl.edu	37	2	56098194	56098194	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001039348.1	-1	reviewed	p.G355	0.061	310	0%	82	15.9%	69	0%	-	-	-	HMMSmart_SM00179,HMMSmart_SM00181,HMMPfam_EGF_CA,PatternScan_EGF_CA,superfamily_EGF/Laminin
MIR217	406999	genome.wustl.edu	37	2	56210151	56210151	+	RNA	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	ENST00000384817	-1	known	NULL	0.998	283	0%	33	15.2%	0	-	-	-	-	-
CCDC85A	114800	genome.wustl.edu	37	2	56602955	56602955	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001080433.1	+1	provisional	p.S486Y	1.000	323	0%	72	27.8%	0	-	benign(0.139)	tolerated(0.22)	neutral(0.054)	NULL
CCDC85A	114800	genome.wustl.edu	37	2	56611479	56611479	+	Nonsense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001080433.1	+1	provisional	p.G551*	1.000	281	0%	77	13%	0	-	-	-	-	NULL
BCL11A	53335	genome.wustl.edu	37	2	60689275	60689275	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_022893.3	-1	reviewed	p.R258C	1.000	89	0%	152	27%	1	0%	probably_damaging(1)	deleterious(0)	deleterious(0.945)	NULL
BCL11A	53335	genome.wustl.edu	37	2	60689326	60689326	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_022893.3	-1	reviewed	p.L241	1.000	248	0%	346	24%	1	0%	-	-	-	NULL
REL	5966	genome.wustl.edu	37	2	61145543	61145543	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_002908.2	+1	validated	p.R219C	1.000	256	0%	76	30.3%	1	100%	probably_damaging(0.991)	deleterious(0.03)	deleterious(0.808)	HMMPfam_TIG,HMMSmart_IPT,superfamily_Ig_E-set
REL	5966	genome.wustl.edu	37	2	61149428	61149428	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_002908.2	+1	validated	p.S540P	0.921	159	0%	41	14.6%	2	0%	benign(0.001)	tolerated(0.17)	neutral(0.059)	NULL
C2orf74	339804	genome.wustl.edu	37	2	61389668	61389668	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001143959.1	+1	validated	p.A14S	0.121	764	0.1%	398	21.6%	0	-	possibly_damaging(0.482)	deleterious(0)	deleterious(0.605)	NULL
USP34	9736	genome.wustl.edu	37	2	61459655	61459655	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_014709.3	-1	validated	p.R2349C	1.000	325	0.3%	60	30%	1	100%	benign(0.038)	-	-	NULL
XPO1	7514	genome.wustl.edu	37	2	61719749	61719749	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_003400.3	-1	reviewed	p.A507S	1.000	198	0%	63	25.4%	9	11.1%	benign(0.019)	tolerated(0.28)	neutral(0.033)	superfamily_ARM-type_fold
XPO1	7514	genome.wustl.edu	37	2	61722723	61722723	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_003400.3	-1	reviewed	p.R305Q	1.000	309	0%	87	24.1%	2	0%	benign(0.027)	tolerated(0.18)	neutral(0.058)	superfamily_ARM-type_fold
XPO1	7514	genome.wustl.edu	37	2	61729157	61729157	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_003400.3	-1	reviewed	p.G128R	1.000	185	0%	64	12.5%	4	25%	benign(0.082)	deleterious(0)	neutral(0.451)	HMMPfam_Xpo1,superfamily_ARM-type_fold
XPO1	7514	genome.wustl.edu	37	2	61753652	61753652	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_003400.3	-1	reviewed	p.R44I	1.000	401	0%	235	18.3%	3	33.3%	benign(0.023)	deleterious(0.01)	neutral(0.407)	superfamily_ARM-type_fold
COMMD1	150684	genome.wustl.edu	37	2	62227995	62227995	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_152516.2	+1	validated	p.R114C	1.000	178	0%	50	34%	68	23.5%	benign(0.075)	tolerated(0.1)	neutral(0.291)	HMMPfam_HCaRG
EHBP1	23301	genome.wustl.edu	37	2	63169943	63169943	+	Nonsense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_015252.3	+1	reviewed	p.R461*	1.000	244	0%	45	28.9%	0	-	-	-	-	HMMPfam_CH,HMMSmart_SM00033,superfamily_Calponin-homology domain CH-domain
EHBP1	23301	genome.wustl.edu	37	2	63206344	63206344	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_015252.3	+1	reviewed	p.R863W	1.000	174	0.6%	30	23.3%	7	14.2%	probably_damaging(1)	deleterious(0)	deleterious(0.945)	NULL
EHBP1	23301	genome.wustl.edu	37	2	63223837	63223837	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_015252.3	+1	reviewed	p.E1084D	1.000	254	0%	27	18.5%	15	0%	probably_damaging(0.999)	deleterious(0)	deleterious(0.935)	NULL
WDPCP	51057	genome.wustl.edu	37	2	63631651	63631651	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_015910.4	-1	validated	p.R323W	0.999	186	0.5%	41	26.8%	2	0%	probably_damaging(1)	deleterious(0.01)	deleterious(0.905)	NULL
UGP2	7360	genome.wustl.edu	37	2	64083472	64083472	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_006759.3	+1	reviewed	p.S18P	0.999	481	0.2%	155	23.9%	14	21.4%	benign(0.092)	tolerated(0.2)	neutral(0.056)	superfamily_Nucleotide-diphospho-sugar transferases
AFTPH	54812	genome.wustl.edu	37	2	64819110	64819110	+	Silent	SNP	T	T	C	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_203437.2	+1	validated	p.L918	1.000	270	0%	85	25.9%	29	17.2%	-	-	-	NULL
SERTAD2	9792	genome.wustl.edu	37	2	64863430	64863430	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_014755.2	-1	validated	p.A192	0.000	82	0%	137	27%	1	0%	-	-	-	NULL
CEP68	23177	genome.wustl.edu	37	2	65309695	65309695	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_015147.2	+1	validated	p.I710	0.003	371	0%	154	26.6%	3	0%	-	-	-	superfamily_Spectrin repeat
RAB1A	5861	genome.wustl.edu	37	2	65318185	65318185	+	Nonsense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_004161.4	-1	reviewed	p.R74*	1.000	383	0%	126	21.4%	76	1.3%	-	-	-	HMMSmart_SM00176,HMMSmart_SM00173,HMMSmart_SM00174,HMMSmart_SM00175,HMMSmart_SM00177,HMMPfam_Ras,superfamily_P-loop containing nucleoside triphosphate hydrolases
ACTR2	10097	genome.wustl.edu	37	2	65473786	65473786	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001005386.2	+1	reviewed	p.E101	1.000	396	0%	128	25%	10	10%	-	-	-	HMMPfam_Actin,HMMSmart_SM00268,superfamily_Actin-like ATPase domain
LOC100289180	100289180	genome.wustl.edu	37	2	65571937	65571937	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	XM_002342220.1	+1	model	p.A21T	0.907	163	0%	138	25.4%	7	14.2%	-	-	-	NULL
C1D	10438	genome.wustl.edu	37	2	68273489	68273489	+	Missense_Mutation	SNP	A	A	C	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_006333.3	-1	reviewed	p.N64K	1.000	324	0%	113	16.8%	9	0%	probably_damaging(1)	deleterious(0.01)	deleterious(0.905)	HMMPfam_Sas10_Utp3
PROKR1	10887	genome.wustl.edu	37	2	68873383	68873383	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_138964.2	+1	validated	p.R144C	1.000	99	0%	150	28%	0	-	probably_damaging(1)	deleterious(0)	deleterious(0.945)	HMMPfam_7tm_1,superfamily_SSF81321
ARHGAP25	9938	genome.wustl.edu	37	2	69034494	69034494	+	Nonsense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001007231.2	+1	validated	p.E185*	1.000	181	0%	62	21%	3	0%	-	-	-	HMMPfam_RhoGAP,HMMSmart_SM00324,superfamily_GTPase activation domain GAP
GKN1	56287	genome.wustl.edu	37	2	69207114	69207114	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_019617.3	+1	reviewed	p.D143N	0.002	182	0%	62	22.6%	0	-	benign(0.002)	tolerated(0.48)	neutral(0.011)	HMMPfam_BRICHOS
AAK1	22848	genome.wustl.edu	37	2	69704062	69704062	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_014911.3	-1	reviewed	p.A914V	1.000	462	0%	87	25.3%	0	-	possibly_damaging(0.893)	tolerated(0.06)	deleterious(0.674)	NULL
ANXA4	307	genome.wustl.edu	37	2	70015195	70015195	+	Nonsense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001153.3	+1	reviewed	p.G7*	1.000	175	0%	32	21.9%	16	25%	-	-	-	superfamily_Annexin
ANXA4	307	genome.wustl.edu	37	2	70047943	70047943	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001153.3	+1	reviewed	p.S299L	1.000	168	0%	142	28.9%	95	27.3%	probably_damaging(0.998)	deleterious(0.01)	deleterious(0.880)	superfamily_Annexin,PatternScan_ANNEXIN,HMMPfam_Annexin,HMMSmart_ANX
PCBP1	5093	genome.wustl.edu	37	2	70315683	70315683	+	Missense_Mutation	SNP	T	T	G	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_006196.3	+1	reviewed	p.Y270D	1.000	150	0%	260	18.8%	452	11.9%	benign(0.177)	tolerated(0.2)	neutral(0.066)	superfamily_Eukaryotic type KH-domain (KH-domain type I)
PCYOX1	51449	genome.wustl.edu	37	2	70502186	70502186	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_016297.3	+1	validated	p.R197Q	0.380	315	0%	206	21.4%	3	0%	benign(0.004)	tolerated(0.47)	neutral(0.011)	HMMPfam_Prenylcys_lyase,superfamily_NAD(P)-binding Rossmann-fold domains,superfamily_FAD/NAD(P)-binding domain
ADD2	119	genome.wustl.edu	37	2	70890610	70890610	+	Nonsense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001617.3	-1	reviewed	p.R710*	1.000	256	0%	107	13.1%	0	-	-	-	-	NULL
CLEC4F	165530	genome.wustl.edu	37	2	71043935	71043935	+	Nonsense_Mutation	SNP	A	A	C	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_173535.2	-1	validated	p.L193*	0.000	330	0%	97	12.4%	0	-	-	-	-	NULL
ATP6V1B1	525	genome.wustl.edu	37	2	71185231	71185231	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001692.3	+1	reviewed	p.S77I	1.000	203	0%	194	10.8%	0	-	benign(0.121)	tolerated(0.14)	neutral(0.259)	HMMPfam_ATP-synt_ab_N
MCEE	84693	genome.wustl.edu	37	2	71351338	71351338	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_032601.3	-1	reviewed	p.E126K	1.000	55	0%	38	21.1%	8	37.5%	probably_damaging(0.997)	deleterious(0)	deleterious(0.911)	HMMPfam_Glyoxalase,superfamily_Glyoxalase/Bleomycin resistance protein/Dihydroxybiphenyl dioxygenase
MPHOSPH10	10199	genome.wustl.edu	37	2	71376443	71376443	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_005791.1	+1	reviewed	p.R586C	0.839	244	0%	152	21.1%	89	23.5%	probably_damaging(0.998)	deleterious(0)	deleterious(0.919)	HMMPfam_Mpp10
ZNF638	27332	genome.wustl.edu	37	2	71577007	71577007	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001014972.1	+1	reviewed	p.I308T	0.998	163	0%	99	18.2%	1	0%	benign(0.028)	deleterious(0.01)	neutral(0.407)	NULL
ZNF638	27332	genome.wustl.edu	37	2	71654180	71654180	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001014972.1	+1	reviewed	p.P1727	0.995	256	0%	138	16.7%	31	12.9%	-	-	-	NULL
DYSF	8291	genome.wustl.edu	37	2	71742778	71742778	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001130987.1	+1	reviewed	p.R262H	1.000	56	0%	67	28.4%	0	-	probably_damaging(0.999)	deleterious(0)	deleterious(0.935)	HMMPfam_C2,HMMSmart_C2,superfamily_C2_CaLB
DYSF	8291	genome.wustl.edu	37	2	71788950	71788950	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001130987.1	+1	reviewed	p.R762H	0.998	94	0%	122	26.2%	1	0%	possibly_damaging(0.904)	deleterious(0)	deleterious(0.803)	HMMPfam_FerA
DYSF	8291	genome.wustl.edu	37	2	71891443	71891443	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001130987.1	+1	reviewed	p.K1683N	0.999	62	0%	43	11.6%	8	0%	possibly_damaging(0.534)	deleterious(0.01)	deleterious(0.586)	HMMPfam_C2,HMMSmart_C2,superfamily_C2_CaLB
DYSF	8291	genome.wustl.edu	37	2	71896274	71896274	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001130987.1	+1	reviewed	p.R1860I	0.996	134	0%	114	21.9%	6	0%	benign(0.06)	tolerated(0.12)	neutral(0.265)	HMMSmart_C2,superfamily_C2_CaLB
DYSF	8291	genome.wustl.edu	37	2	71909753	71909753	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001130987.1	+1	reviewed	p.F2089	0.998	344	0%	250	25.6%	34	0%	-	-	-	NULL
CYP26B1	56603	genome.wustl.edu	37	2	72359597	72359597	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_019885.2	-1	reviewed	p.P433L	1.000	17	0%	57	28.1%	2	0%	probably_damaging(1)	deleterious(0)	deleterious(0.945)	HMMPfam_p450,superfamily_Cytochrome_P450
CYP26B1	56603	genome.wustl.edu	37	2	72359658	72359658	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_019885.2	-1	reviewed	p.D413N	1.000	18	0%	49	28.6%	1	0%	probably_damaging(0.993)	tolerated(0.33)	deleterious(0.474)	HMMPfam_p450,superfamily_Cytochrome_P450
CYP26B1	56603	genome.wustl.edu	37	2	72359740	72359740	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_019885.2	-1	reviewed	p.Q385H	1.000	12	0%	30	23.3%	1	0%	probably_damaging(1)	deleterious(0.05)	deleterious(0.845)	HMMPfam_p450,superfamily_Cytochrome_P450
CYP26B1	56603	genome.wustl.edu	37	2	72362423	72362423	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_019885.2	-1	reviewed	p.A185	0.953	27	0%	76	17.1%	0	-	-	-	-	HMMPfam_p450,superfamily_Cytochrome_P450
EXOC6B	23233	genome.wustl.edu	37	2	72740271	72740271	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_015189.1	-1	validated	p.R386H	1.000	472	0%	158	10.8%	2	0%	benign(0.078)	tolerated(0.05)	neutral(0.351)	NULL
SFXN5	94097	genome.wustl.edu	37	2	73215470	73215470	+	Missense_Mutation	SNP	A	A	C	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_144579.2	-1	validated	p.L181R	1.000	320	0%	353	26.9%	1	0%	probably_damaging(1)	deleterious(0)	deleterious(0.945)	HMMPfam_Mtc
RAB11FIP5	26056	genome.wustl.edu	37	2	73315307	73315307	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_015470.2	-1	validated	p.R480Q	0.677	32	0%	37	29.7%	2	0%	probably_damaging(0.994)	tolerated(0.53)	neutral(0.460)	NULL
SMYD5	10322	genome.wustl.edu	37	2	73450654	73450654	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_006062.2	+1	validated	p.E293K	1.000	44	0%	58	13.8%	6	50%	probably_damaging(0.991)	tolerated(0.12)	deleterious(0.705)	HMMSmart_SET,superfamily_SSF82199
FBXO41	150726	genome.wustl.edu	37	2	73490373	73490373	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001080410.2	-1	validated	p.I774	0.396	55	3.6%	100	26%	0	-	-	-	-	superfamily_RNI-like
FBXO41	150726	genome.wustl.edu	37	2	73492560	73492560	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001080410.2	-1	validated	p.R533C	1.000	17	0%	23	43.5%	0	-	probably_damaging(1)	deleterious(0.01)	deleterious(0.905)	NULL
ALMS1	7840	genome.wustl.edu	37	2	73679460	73679460	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_015120.4	+1	reviewed	p.V1935L	0.000	69	0%	30	36.7%	0	-	benign(0.132)	tolerated(0.4)	neutral(0.027)	NULL
ALMS1	7840	genome.wustl.edu	37	2	73680164	73680164	+	Silent	SNP	T	T	C	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_015120.4	+1	reviewed	p.S2169	0.001	205	0%	29	31%	2	0%	-	-	-	NULL
ALMS1	7840	genome.wustl.edu	37	2	73800036	73800036	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_015120.4	+1	reviewed	p.R3677W	0.138	115	0%	34	20.6%	1	0%	probably_damaging(1)	tolerated(0.15)	deleterious(0.741)	NULL
DUSP11	8446	genome.wustl.edu	37	2	73993587	73993587	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_003584.2	-1	reviewed	p.R298Q	0.000	436	0.2%	148	23.6%	35	8.5%	benign(0.034)	tolerated(0.29)	neutral(0.031)	NULL
DUSP11	8446	genome.wustl.edu	37	2	74002092	74002092	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_003584.2	-1	reviewed	p.E133G	1.000	507	0%	191	12%	10	0%	possibly_damaging(0.784)	tolerated(0.05)	deleterious(0.639)	HMMSmart_SM00195,superfamily_(Phosphotyrosine protein) phosphatases II
ACTG2	72	genome.wustl.edu	37	2	74140688	74140688	+	Silent	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001615.3	+1	reviewed	p.I176	1.000	142	0%	53	18.9%	1764	0%	-	-	-	HMMPfam_Actin,HMMSmart_SM00268,superfamily_Actin-like ATPase domain
TET3	200424	genome.wustl.edu	37	2	74328146	74328146	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_144993.1	+1	provisional	p.P1276S	0.463	89	0%	133	10.5%	0	-	benign(0)	tolerated(0.06)	neutral(0.323)	NULL
TET3	200424	genome.wustl.edu	37	2	74328546	74328546	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_144993.1	+1	provisional	p.S1409L	0.995	19	0%	57	31.6%	0	-	possibly_damaging(0.652)	tolerated(0.17)	neutral(0.288)	NULL
DCTN1	1639	genome.wustl.edu	37	2	74589788	74589788	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_004082.3	-1	reviewed	p.E1200K	1.000	87	0%	56	21.4%	207	17.8%	benign(0.03)	tolerated(0.08)	neutral(0.301)	NULL
LOC100287788	100287788	genome.wustl.edu	37	2	74597938	74597938	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	XM_002342212.1	+1	model	p.R177C	0.000	162	0%	194	12.9%	13	0%	-	-	-	NULL
LOC100130009	100130009	genome.wustl.edu	37	2	74645558	74645558	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	XM_001718914.2	-1	model	p.S4	0.295	34	0%	58	29.3%	1	0%	-	-	-	NULL
WDR54	84058	genome.wustl.edu	37	2	74650493	74650493	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_032118.2	+1	provisional	p.D111	0.168	214	0%	322	14.3%	10	10%	-	-	-	superfamily_YVTN repeat-like/Quinoprotein amine dehydrogenase
RTKN	6242	genome.wustl.edu	37	2	74656978	74656978	+	Silent	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001015055.1	-1	reviewed	p.I244	0.999	18	0%	42	21.4%	11	0%	-	-	-	NULL
INO80B	83444	genome.wustl.edu	37	2	74683379	74683379	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_031288.2	+1	validated	p.R174W	1.000	330	0%	459	27.2%	46	23.9%	probably_damaging(0.966)	deleterious(0.01)	deleterious(0.814)	NULL
WBP1	23559	genome.wustl.edu	37	2	74687760	74687760	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_012477.2	+1	reviewed	p.P254	0.001	91	1.1%	152	28.3%	139	23%	-	-	-	NULL
TLX2	3196	genome.wustl.edu	37	2	74742977	74742977	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_016170.4	+1	reviewed	p.Q206H	1.000	9	0.000	28	0.321	0	-	probably_damaging(1)	deleterious(0)	deleterious(0.945)	HMMPfam_Homeobox,HMMSmart_HOX,superfamily_Homeodomain_like,PatternScan_HOMEOBOX_1
DQX1	165545	genome.wustl.edu	37	2	74746292	74746292	+	Silent	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_133637.2	-1	validated	p.L624	0.953	173	0%	245	22.4%	0	-	-	-	-	HMMPfam_DUF1605
C2orf65	130951	genome.wustl.edu	37	2	74802595	74802595	+	Silent	SNP	T	T	C	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_138804.3	-1	predicted	p.Q348	0.997	114	0%	30	13.3%	1	100%	-	-	-	NULL
SEMA4F	10505	genome.wustl.edu	37	2	74900818	74900818	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_004263.3	+1	provisional	p.A229T	0.537	110	0.9%	50	26%	0	-	benign(0.064)	tolerated(0.36)	neutral(0.024)	HMMPfam_Sema,HMMSmart_SM00630,superfamily_Sema domain
HK2	3099	genome.wustl.edu	37	2	75118017	75118017	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_000189.4	+1	reviewed	p.A901	0.007	77	0%	62	25.8%	5	0%	-	-	-	HMMPfam_Hexokinase_2,superfamily_SSF53067
TACR1	6869	genome.wustl.edu	37	2	75276592	75276592	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001058.3	-1	reviewed	p.E397	0.999	117	0%	34	32.4%	0	-	-	-	-	NULL
TACR1	6869	genome.wustl.edu	37	2	75425721	75425721	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001058.3	-1	reviewed	p.A114T	0.993	223	0.4%	252	23%	0	-	benign(0.002)	tolerated(0.97)	-	HMMPfam_7tm_1,superfamily_Family A G protein-coupled receptor-like
MRPL19	9801	genome.wustl.edu	37	2	75879329	75879329	+	Nonsense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_014763.3	+1	reviewed	p.E95*	1.000	149	1.3%	122	27.9%	12	0%	-	-	-	NULL
GCFC2	6936	genome.wustl.edu	37	2	75916208	75916208	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_003203.4	-1	validated	p.P495S	1.000	275	0%	65	10.8%	4	0%	probably_damaging(0.998)	deleterious(0.01)	deleterious(0.880)	HMMPfam_GCFC
REG3G	130120	genome.wustl.edu	37	2	79255019	79255019	+	Silent	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001008387.1	+1	validated	p.I140	0.000	221	0%	52	23.1%	0	-	-	-	-	HMMPfam_Lectin_C,HMMSmart_SM00034,superfamily_C-type lectin-like
REG1B	5968	genome.wustl.edu	37	2	79312539	79312539	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	ENST00000454188	-1	known	p.R122I	0.000	107	0%	55	16.4%	0	-	unknown(0)	-	-	NULL
CTNNA2	1496	genome.wustl.edu	37	2	80136806	80136806	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_004389.3	+1	validated	p.G313	0.001	19	0%	31	32.3%	0	-	-	-	-	HMMPfam_Vinculin
CTNNA2	1496	genome.wustl.edu	37	2	80136812	80136812	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_004389.3	+1	validated	p.A315	0.259	18	0%	32	40.6%	0	-	-	-	-	HMMPfam_Vinculin
LRRTM1	347730	genome.wustl.edu	37	2	80529542	80529542	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_178839.4	-1	validated	p.R468H	1.000	109	0%	182	13.2%	0	-	benign(0.28)	tolerated(0.07)	neutral(0.405)	NULL
DNAH6	1768	genome.wustl.edu	37	2	84752747	84752747	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001370.1	+1	validated	p.R95Q	0.989	249	0%	118	18.6%	0	-	possibly_damaging(0.904)	tolerated(0.08)	deleterious(0.658)	NULL
DNAH6	1768	genome.wustl.edu	37	2	84756178	84756178	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001370.1	+1	validated	p.R184C	0.059	304	0%	165	27.9%	2	0%	benign(0.001)	tolerated(0.09)	neutral(0.296)	NULL
DNAH6	1768	genome.wustl.edu	37	2	84989915	84989915	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001370.1	+1	validated	p.L3517F	1.000	258	0%	62	21%	0	-	benign(0.418)	tolerated(0.06)	neutral(0.458)	HMMPfam_Dynein_heavy
GGCX	2677	genome.wustl.edu	37	2	85777850	85777850	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_000821.4	-1	reviewed	p.L638M	1.000	201	0%	110	11.8%	3	0%	probably_damaging(1)	deleterious(0.01)	deleterious(0.905)	NULL
SFTPB	6439	genome.wustl.edu	37	2	85892741	85892741	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	ENST00000428225	-1	known	p.A187T	0.836	25	0%	33	21.2%	0	-	-	-	-	NULL
ATOH8	84913	genome.wustl.edu	37	2	85981917	85981917	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_032827.6	+1	validated	p.N202S	1.000	11	0%	26	26.9%	1	0%	possibly_damaging(0.806)	tolerated(0.23)	neutral(0.345)	NULL
PTCD3	55037	genome.wustl.edu	37	2	86335503	86335503	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_017952.5	+1	validated	p.K45N	0.004	636	0%	387	10.9%	1	0%	benign(0.044)	tolerated(0.14)	neutral(0.252)	NULL
PTCD3	55037	genome.wustl.edu	37	2	86335651	86335651	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_017952.5	+1	validated	p.K62N	1.000	378	0%	228	11%	0	-	probably_damaging(0.999)	deleterious(0.02)	deleterious(0.873)	NULL
IMMT	10989	genome.wustl.edu	37	2	86378593	86378593	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_006839.2	-1	validated	p.R410C	1.000	497	0.2%	177	21.5%	20	20%	probably_damaging(1)	deleterious(0.01)	deleterious(0.905)	HMMPfam_Mitofilin
MRPL35	51318	genome.wustl.edu	37	2	86437660	86437660	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_016622.3	+1	reviewed	p.E146K	1.000	195	0%	101	26.7%	34	41.1%	probably_damaging(1)	tolerated(0.09)	deleterious(0.796)	HMMPfam_MRP-L35
RNF103	7844	genome.wustl.edu	37	2	86831207	86831207	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_005667.2	-1	reviewed	p.P606H	1.000	408	0.2%	160	15%	26	3.8%	probably_damaging(0.968)	deleterious(0)	deleterious(0.855)	superfamily_SSF57850
LINC00152	112597	genome.wustl.edu	37	2	87820769	87820769	+	RNA	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NR_024204.1	+1	validated	NULL	1.000	185	0%	78	24.4%	71	16.9%	-	-	-	-
SMYD1	150572	genome.wustl.edu	37	2	88387424	88387424	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_198274.2	+1	provisional	p.G120R	1.000	26	0%	26	19.2%	0	-	probably_damaging(1)	tolerated(0.53)	deleterious(0.507)	HMMSmart_SET,superfamily_SSF82199
THNSL2	55258	genome.wustl.edu	37	2	88478314	88478314	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_018271.3	+1	validated	p.S195N	0.998	140	0%	139	10.8%	4	0%	probably_damaging(1)	deleterious(0.03)	deleterious(0.865)	HMMPfam_PALP,superfamily_Tryptophan synthase beta subunit-like PLP-dependent enzymes
THNSL2	55258	genome.wustl.edu	37	2	88478333	88478333	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_018271.3	+1	validated	p.P201	0.987	188	0%	184	10.9%	4	0%	-	-	-	HMMPfam_PALP,superfamily_Tryptophan synthase beta subunit-like PLP-dependent enzymes
RPIA	22934	genome.wustl.edu	37	2	89036060	89036060	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_144563.2	+1	reviewed	p.S202L	1.000	164	0%	111	18.9%	23	26%	probably_damaging(1)	deleterious(0.01)	deleterious(0.905)	HMMPfam_Rib_5-P_isom_A,superfamily_SSF100950
IGKV2D-24	28885	genome.wustl.edu	37	2	90044308	90044308	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	ENST00000462693	+1	known	p.S77P	0.054	330	0%	78	19.2%	1	0%	probably_damaging(0.964)	deleterious(0.02)	deleterious(0.789)	HMMSmart_IGv,HMMPfam_V-set,superfamily_SSF48726
TEKT4	150483	genome.wustl.edu	37	2	95539794	95539794	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_144705.2	+1	provisional	p.R218	0.756	31	0%	61	23%	0	-	-	-	-	HMMPfam_Tektin
LOC442028	442028	genome.wustl.edu	37	2	95613764	95613764	+	RNA	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	XR_017781.2	-1	model	NULL	0.998	136	0%	88	22.7%	0	-	-	-	-	-
MRPS5	64969	genome.wustl.edu	37	2	95756148	95756148	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_031902.3	-1	reviewed	p.R351C	0.916	147	0%	97	30.9%	69	8.6%	possibly_damaging(0.509)	tolerated(0.06)	deleterious(0.493)	HMMPfam_Ribosomal_S5_C,superfamily_Ribosomal protein S5 domain 2-like
LOC344065	344065	genome.wustl.edu	37	2	95880856	95880856	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	XM_292895.7	+1	model	p.E374	1.000	42	0%	35	22.9%	0	-	-	-	-	superfamily_C2H2 and C2HC zinc fingers
LOC344065	344065	genome.wustl.edu	37	2	95881119	95881119	+	Missense_Mutation	SNP	A	A	C	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	XM_292895.7	+1	model	p.K462T	0.573	22	0%	52	23.1%	0	-	-	-	-	HMMPfam_zf-C2H2,HMMSmart_SM00355,superfamily_C2H2 and C2HC zinc fingers
KCNIP3	30818	genome.wustl.edu	37	2	96040052	96040052	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_013434.4	+1	reviewed	p.D64N	1.000	90	0%	57	15.8%	0	-	benign(0.15)	tolerated(0.05)	neutral(0.358)	NULL
FAHD2A	51011	genome.wustl.edu	37	2	96072906	96072906	+	Splice_Site	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_016044.2	+1	validated	e2+1	1.000	241	0%	262	18.3%	1	0%	-	-	-	-
LOC400986	400986	genome.wustl.edu	37	2	96591118	96591118	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	XM_001717763.2	-1	model	p.G360S	0.000	991	0%	157	21%	0	-	benign(0.181)	deleterious(0)	neutral(0.461)	NULL
GPAT2	150763	genome.wustl.edu	37	2	96698044	96698044	+	Splice_Site	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_207328.2	-1	validated	e1+1	0.993	123	0%	199	15.6%	0	-	-	-	-	-
ADRA2B	151	genome.wustl.edu	37	2	96780815	96780815	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	ENST00000409345	-1	known	p.A358	0.002	61	0%	139	28.8%	1	0%	-	-	-	HMMPfam_7tm_1,superfamily_Family A G protein-coupled receptor-like
STARD7	56910	genome.wustl.edu	37	2	96852977	96852977	+	Silent	SNP	A	A	G	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_020151.3	-1	validated	p.C302	0.994	303	0%	138	27.5%	6	0%	-	-	-	HMMPfam_START,HMMSmart_START,superfamily_SSF55961
SNRNP200	23020	genome.wustl.edu	37	2	96942657	96942657	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_014014.3	-1	reviewed	p.A2053	0.306	27	3.7%	27	14.8%	129	18.6%	-	-	-	HMMPfam_Sec63,HMMSmart_SM00611
SNRNP200	23020	genome.wustl.edu	37	2	96944650	96944650	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_014014.3	-1	reviewed	p.I1740	0.990	184	0%	143	22.4%	54	11.1%	-	-	-	superfamily_P-loop containing nucleoside triphosphate hydrolases
ARID5A	10865	genome.wustl.edu	37	2	97218026	97218026	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	ENST00000359765	+1	known	p.S526F	1.000	27	0%	51	39.2%	227	10.5%	unknown(0)	deleterious(0)	-	NULL
KANSL3	55683	genome.wustl.edu	37	2	97267477	97267477	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001115016.1	-1	validated	p.R840H	0.906	148	0%	40	12.5%	5	0%	probably_damaging(0.999)	deleterious(0)	deleterious(0.935)	NULL
KANSL3	55683	genome.wustl.edu	37	2	97302862	97302862	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001115016.1	-1	validated	p.R4Q	0.997	43	0%	97	16.5%	1	0%	probably_damaging(0.994)	tolerated(0.11)	deleterious(0.724)	NULL
FER1L5	90342	genome.wustl.edu	37	2	97351097	97351097	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001113382.1	+1	provisional	p.R604Q	0.682	91	0%	106	18.9%	0	-	probably_damaging(0.999)	tolerated(0.15)	deleterious(0.732)	NULL
FER1L5	90342	genome.wustl.edu	37	2	97359388	97359388	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001113382.1	+1	provisional	p.P1173	0.004	96	0%	163	17.8%	0	-	-	-	-	HMMSmart_SM00239,superfamily_C2 domain (Calcium/lipid-binding domain CaLB)
FER1L5	90342	genome.wustl.edu	37	2	97365351	97365351	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001113382.1	+1	provisional	p.D1586N	1.000	183	0%	154	11%	0	-	probably_damaging(0.999)	deleterious(0)	deleterious(0.935)	HMMPfam_C2,HMMSmart_SM00239,superfamily_C2 domain (Calcium/lipid-binding domain CaLB)
FER1L5	90342	genome.wustl.edu	37	2	97368346	97368346	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001113382.1	+1	provisional	p.Y1791	0.000	47	0%	33	24.2%	0	-	-	-	-	HMMSmart_SM00239,superfamily_C2 domain (Calcium/lipid-binding domain CaLB)
CNNM4	26504	genome.wustl.edu	37	2	97426903	97426903	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_020184.3	+1	reviewed	p.K56R	1.000	29	0%	51	31.4%	0	-	benign(0.046)	tolerated(0.39)	neutral(0.018)	NULL
ANKRD23	200539	genome.wustl.edu	37	2	97506182	97506182	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_144994.7	-1	reviewed	p.A166T	0.180	31	0%	43	23.3%	1	100%	probably_damaging(0.999)	tolerated(0.44)	deleterious(0.503)	HMMPfam_Ank,HMMSmart_SM00248,superfamily_Ankyrin repeat
ANKRD23	200539	genome.wustl.edu	37	2	97506611	97506611	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_144994.7	-1	reviewed	p.E113D	0.604	103	1%	178	10.1%	1	100%	benign(0.141)	tolerated(0.34)	neutral(0.035)	superfamily_Ankyrin repeat
ANKRD23	200539	genome.wustl.edu	37	2	97508200	97508200	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_144994.7	-1	reviewed	p.V26I	0.028	191	0%	274	28.1%	0	-	benign(0.005)	tolerated(0.48)	neutral(0.011)	NULL
SEMA4C	54910	genome.wustl.edu	37	2	97531464	97531464	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_017789.4	-1	validated	p.Y120C	1.000	204	0.5%	307	23.5%	24	8.3%	probably_damaging(1)	tolerated(0.06)	deleterious(0.823)	HMMPfam_Sema,HMMSmart_Sema,superfamily_Sema
FAM178B	51252	genome.wustl.edu	37	2	97589285	97589285	+	Missense_Mutation	SNP	T	T	G	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001122646.2	-1	validated	p.E378A	0.082	70	0%	49	18.4%	0	-	possibly_damaging(0.776)	tolerated(0.07)	deleterious(0.609)	NULL
FAHD2B	151313	genome.wustl.edu	37	2	97751482	97751482	+	Silent	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_199336.1	-1	provisional	p.T213	1.000	174	0%	178	28.7%	3	0%	-	-	-	HMMPfam_FAA_hydrolase,superfamily_Fumarylacetoacetase_C-rel
FAHD2B	151313	genome.wustl.edu	37	2	97757347	97757347	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_199336.1	-1	provisional	p.R33W	0.716	221	0%	253	23.7%	10	0%	probably_damaging(0.96)	tolerated(0.21)	neutral(0.447)	NULL
ANKRD36B	57730	genome.wustl.edu	37	2	98201512	98201512	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	ENST00000258459	-1	known	p.T115	0.027	288	0%	233	22.3%	0	-	-	-	-	HMMPfam_Ank,superfamily_Ankyrin repeat
ZAP70	7535	genome.wustl.edu	37	2	98354040	98354040	+	Missense_Mutation	SNP	G	G	A	rs137853201		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001079.3	+1	reviewed	p.R465H	1.000	53	0%	121	27.3%	13	0%	probably_damaging(1)	deleterious(0)	deleterious(0.945)	HMMPfam_Pkinase_Tyr,HMMSmart_SM00219,HMMSmart_SM00220,PatternScan_PROTEIN_KINASE_TYR,superfamily_Protein kinase-like (PK-like)
ZAP70	7535	genome.wustl.edu	37	2	98354298	98354298	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001079.3	+1	reviewed	p.D521N	1.000	98	0%	171	24.6%	26	0%	probably_damaging(1)	deleterious(0)	deleterious(0.945)	HMMPfam_Pkinase_Tyr,HMMSmart_SM00219,HMMSmart_SM00220,superfamily_Protein kinase-like (PK-like)
TMEM131	23505	genome.wustl.edu	37	2	98375414	98375414	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_015348.1	-1	validated	p.A1770V	0.002	67	0%	79	24.1%	20	10%	benign(0.022)	deleterious(0.02)	neutral(0.384)	NULL
TMEM131	23505	genome.wustl.edu	37	2	98409313	98409313	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_015348.1	-1	validated	p.R1227I	0.987	325	0%	401	22.7%	5	20%	possibly_damaging(0.808)	tolerated(0.16)	neutral(0.363)	NULL
TMEM131	23505	genome.wustl.edu	37	2	98419241	98419241	+	Silent	SNP	T	T	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_015348.1	-1	validated	p.I805	0.030	452	0.2%	204	19.6%	0	-	-	-	-	NULL
TMEM131	23505	genome.wustl.edu	37	2	98451358	98451358	+	Missense_Mutation	SNP	T	T	G	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_015348.1	-1	validated	p.M279L	1.000	411	0%	280	28.2%	0	-	benign(0.104)	tolerated(0.26)	neutral(0.042)	NULL
VWA3B	200403	genome.wustl.edu	37	2	98846599	98846599	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_144992.4	+1	provisional	p.S746Y	0.001	303	0%	218	24.8%	0	-	possibly_damaging(0.852)	deleterious(0.01)	deleterious(0.733)	NULL
VWA3B	200403	genome.wustl.edu	37	2	98928525	98928525	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	ENST00000451075	+1	known	p.I1255	0.000	37	0%	31	19.4%	1	0%	-	-	-	NULL
MGAT4A	11320	genome.wustl.edu	37	2	99260419	99260419	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_012214.2	-1	reviewed	p.L329	1.000	269	0%	124	25%	4	75%	-	-	-	HMMPfam_Glyco_transf_54
C2orf55	343990	genome.wustl.edu	37	2	99413989	99413989	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_207362.2	-1	validated	p.P810S	0.004	95	0%	47	21.3%	3	66.6%	unknown(0)	deleterious(0)	-	NULL
C2orf55	343990	genome.wustl.edu	37	2	99438728	99438728	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_207362.2	-1	validated	p.A670T	0.000	32	0%	67	34.3%	1	0%	unknown(0)	tolerated(0.16)	-	NULL
C2orf55	343990	genome.wustl.edu	37	2	99449404	99449404	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_207362.2	-1	validated	p.P99H	1.000	155	0%	112	18.8%	0	-	possibly_damaging(0.91)	deleterious(0)	deleterious(0.807)	NULL
TSGA10	80705	genome.wustl.edu	37	2	99651698	99651698	+	Nonsense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_025244.2	-1	validated	p.E537*	1.000	170	0%	29	24.1%	0	-	-	-	-	NULL
TXNDC9	10190	genome.wustl.edu	37	2	99944085	99944085	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_005783.3	-1	reviewed	p.R74I	1.000	546	0%	308	20.8%	8	0%	benign(0.286)	tolerated(0.08)	neutral(0.388)	superfamily_Thiordxn-like_fd
EIF5B	9669	genome.wustl.edu	37	2	99977768	99977768	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_015904.3	+1	reviewed	p.S135Y	1.000	103	1%	32	12.5%	137	5.1%	unknown(0)	deleterious(0)	-	NULL
REV1	51455	genome.wustl.edu	37	2	100019164	100019164	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_016316.2	-1	reviewed	p.A1162T	1.000	216	0%	63	11.1%	10	10%	probably_damaging(0.999)	tolerated(0.09)	deleterious(0.787)	NULL
AFF3	3899	genome.wustl.edu	37	2	100170859	100170859	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001025108.1	-1	reviewed	p.A1183V	1.000	184	0%	112	10.7%	1	0%	probably_damaging(0.973)	deleterious(0.01)	deleterious(0.821)	HMMPfam_AF-4
AFF3	3899	genome.wustl.edu	37	2	100199420	100199420	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001025108.1	-1	reviewed	p.S903L	1.000	476	0.2%	302	19.5%	0	-	possibly_damaging(0.812)	tolerated(0.06)	deleterious(0.628)	HMMPfam_AF-4
AFF3	3899	genome.wustl.edu	37	2	100623193	100623193	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	ENST00000430789	-1	known	p.R39C	0.000	94	0%	42	21.4%	2	0%	-	-	-	HMMPfam_AF-4
C2orf29	55571	genome.wustl.edu	37	2	101881418	101881418	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_017546.4	+1	validated	p.S315L	1.000	333	0%	205	12.7%	14	0%	possibly_damaging(0.872)	deleterious(0.02)	deleterious(0.722)	NULL
CREG2	200407	genome.wustl.edu	37	2	101967481	101967481	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_153836.3	-1	validated	p.K259N	1.000	238	0%	118	21.2%	0	-	probably_damaging(1)	deleterious(0)	deleterious(0.945)	superfamily_FMN_binding
RFX8	731220	genome.wustl.edu	37	2	102014040	102014040	+	Missense_Mutation	SNP	A	A	C	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001145664.1	-1	validated	p.I464M	0.003	548	0%	336	25%	0	-	benign(0.156)	tolerated(0.08)	neutral(0.314)	NULL
RFX8	731220	genome.wustl.edu	37	2	102038203	102038203	+	Nonsense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001145664.1	-1	validated	p.R74*	1.000	380	0%	171	19.9%	0	-	-	-	-	NULL
IL18R1	8809	genome.wustl.edu	37	2	102979145	102979145	+	Missense_Mutation	SNP	A	A	C	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_003855.2	+1	reviewed	p.T9P	0.000	315	0%	234	11.5%	0	-	possibly_damaging(0.923)	tolerated(0.08)	deleterious(0.672)	NULL
IL18R1	8809	genome.wustl.edu	37	2	103006539	103006539	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_003855.2	+1	reviewed	p.H325Y	0.072	546	0%	366	30.6%	0	-	benign(0)	tolerated(0.55)	neutral(0.007)	NULL
IL18RAP	8807	genome.wustl.edu	37	2	103040325	103040325	+	Missense_Mutation	SNP	T	T	G	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_003853.2	+1	reviewed	p.F42C	0.122	180	0%	63	27%	0	-	probably_damaging(0.995)	deleterious(0)	deleterious(0.902)	NULL
IL18RAP	8807	genome.wustl.edu	37	2	103040775	103040775	+	Silent	SNP	A	A	G	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_003853.2	+1	reviewed	p.S160	0.000	372	0%	79	35.4%	0	-	-	-	-	HMMSmart_SM00409
IL18RAP	8807	genome.wustl.edu	37	2	103061722	103061722	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_003853.2	+1	reviewed	p.R332C	0.001	263	0%	156	30.1%	0	-	probably_damaging(0.955)	deleterious(0.04)	deleterious(0.748)	HMMSmart_SM00409,superfamily_Immunoglobulin
IL18RAP	8807	genome.wustl.edu	37	2	103068383	103068383	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_003853.2	+1	reviewed	p.F514L	0.570	263	0%	139	27.3%	0	-	benign(0.186)	tolerated(0.47)	neutral(0.029)	HMMPfam_TIR,HMMSmart_SM00255,superfamily_Toll/Interleukin receptor TIR domain
SLC9A4	389015	genome.wustl.edu	37	2	103119909	103119909	+	Silent	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001011552.3	+1	validated	p.V241	1.000	589	0.2%	238	31.1%	0	-	-	-	-	HMMPfam_Na_H_Exchanger
SLC9A2	6549	genome.wustl.edu	37	2	103274325	103274325	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_003048.3	+1	validated	p.G198S	1.000	409	0%	120	24.2%	1	0%	benign(0.218)	tolerated(0.07)	neutral(0.341)	HMMPfam_Na_H_Exchanger
SLC9A2	6549	genome.wustl.edu	37	2	103281631	103281631	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_003048.3	+1	validated	p.A276T	0.997	528	0%	213	23.9%	0	-	benign(0.002)	tolerated(0.09)	neutral(0.296)	HMMPfam_Na_H_Exchanger
SLC9A2	6549	genome.wustl.edu	37	2	103311519	103311519	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_003048.3	+1	validated	p.K511N	1.000	716	0%	204	12.7%	0	-	benign(0.218)	deleterious(0.01)	neutral(0.427)	NULL
MFSD9	84804	genome.wustl.edu	37	2	103334942	103334942	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_032718.3	-1	validated	p.F454L	0.000	64	0%	66	16.7%	14	50%	benign(0)	tolerated(1)	-	superfamily_MFS_gen_substrate_transporter
MRPS9	64965	genome.wustl.edu	37	2	105716191	105716191	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_182640.2	+1	reviewed	p.R388H	1.000	263	0%	181	26%	88	28.4%	probably_damaging(1)	deleterious(0)	deleterious(0.945)	HMMPfam_Ribosomal_S9,superfamily_Ribosomal_S5_D2-typ_fold
GPR45	11250	genome.wustl.edu	37	2	105858802	105858802	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_007227.3	+1	reviewed	p.A163T	0.051	26	0%	48	29.2%	0	-	benign(0.096)	tolerated(0.77)	neutral(0.008)	HMMPfam_7tm_1,superfamily_Family A G protein-coupled receptor-like
GPR45	11250	genome.wustl.edu	37	2	105859240	105859240	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_007227.3	+1	reviewed	p.V309I	0.373	136	0%	256	23.4%	0	-	benign(0)	tolerated(0.28)	neutral(0.032)	HMMPfam_7tm_1,superfamily_Family A G protein-coupled receptor-like
TGFBRAP1	9392	genome.wustl.edu	37	2	105894093	105894093	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001142621.1	-1	validated	p.N500S	0.967	260	0%	178	20.2%	1	100%	benign(0)	tolerated(0.35)	neutral(0.021)	HMMPfam_Vps39_1
TGFBRAP1	9392	genome.wustl.edu	37	2	105897081	105897081	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001142621.1	-1	validated	p.Y407	0.570	302	0.3%	152	25%	3	0%	-	-	-	NULL
TGFBRAP1	9392	genome.wustl.edu	37	2	105912957	105912957	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001142621.1	-1	validated	p.I298	0.997	218	0.5%	70	10%	2	0%	-	-	-	NULL
LOC100287152	100287152	genome.wustl.edu	37	2	105924384	105924384	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	XM_002342237.1	+1	model	p.V135I	0.940	47	0%	24	54.2%	2	0%	-	-	-	NULL
C2orf49	79074	genome.wustl.edu	37	2	105959565	105959565	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_024093.1	+1	provisional	p.D176G	0.978	310	0%	195	22.6%	16	43.7%	possibly_damaging(0.545)	tolerated(0.23)	neutral(0.227)	NULL
NCK2	8440	genome.wustl.edu	37	2	106509466	106509466	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001004720.2	+1	reviewed	p.A326V	1.000	54	0%	118	28%	15	0%	possibly_damaging(0.835)	deleterious(0)	deleterious(0.763)	HMMPfam_SH2,HMMSmart_SH2,superfamily_SSF55550
RGPD3	653489	genome.wustl.edu	37	2	107032334	107032334	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001144013.1	-1	validated	p.T1679I	1.000	1008	0%	162	14.2%	3	0%	unknown(0)	deleterious(0)	-	NULL
ST6GAL2	84620	genome.wustl.edu	37	2	107459645	107459645	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001142351.1	-1	validated	p.T263	0.162	5	0.000	21	0.286	0	-	-	-	-	HMMPfam_Glyco_transf_29
ST6GAL2	84620	genome.wustl.edu	37	2	107459718	107459718	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001142351.1	-1	validated	p.R239H	0.019	17	0%	50	30%	0	-	possibly_damaging(0.938)	deleterious(0.02)	deleterious(0.766)	HMMPfam_Glyco_transf_29
ST6GAL2	84620	genome.wustl.edu	37	2	107460391	107460391	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001142351.1	-1	validated	p.G15R	0.892	69	0%	136	22.8%	0	-	possibly_damaging(0.822)	deleterious(0)	deleterious(0.756)	NULL
RGPD4	285190	genome.wustl.edu	37	2	108487478	108487478	+	Silent	SNP	A	A	G	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_182588.2	+1	validated	p.S1006	0.852	303	0%	108	25.9%	0	-	-	-	-	NULL
SULT1C4	27233	genome.wustl.edu	37	2	108998302	108998302	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_006588.2	+1	reviewed	p.R85Q	0.079	198	0%	73	27.4%	0	-	probably_damaging(0.999)	deleterious(0.03)	deleterious(0.855)	HMMPfam_Sulfotransfer_1,superfamily_P-loop containing nucleoside triphosphate hydrolases
GCC2	9648	genome.wustl.edu	37	2	109086502	109086502	+	Missense_Mutation	SNP	A	A	C	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_181453.3	+1	reviewed	p.E239D	0.998	100	0%	33	12.1%	1	100%	possibly_damaging(0.913)	tolerated(0.25)	neutral(0.401)	NULL
GCC2	9648	genome.wustl.edu	37	2	109087762	109087762	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_181453.3	+1	reviewed	p.K659N	0.270	156	0%	71	25.4%	0	-	probably_damaging(0.996)	-	-	NULL
GCC2	9648	genome.wustl.edu	37	2	109116051	109116051	+	Nonsense_Mutation	SNP	C	C	T	rs3835171		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_181453.3	+1	reviewed	p.R1609*	0.994	2189	0.2%	646	12.8%	5	0%	-	-	-	NULL
RANBP2	5903	genome.wustl.edu	37	2	109381260	109381260	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_006267.4	+1	reviewed	p.S1422N	0.049	211	0%	43	11.6%	2	0%	possibly_damaging(0.767)	-	-	HMMPfam_zf-RanBP,HMMSmart_ZnF_RBZ,PatternScan_ZF_RANBP2_1
CCDC138	165055	genome.wustl.edu	37	2	109432453	109432453	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	ENST00000456512	+1	known	p.R263Q	0.930	313	0%	87	14.9%	1	0%	-	-	-	NULL
SH3RF3	344558	genome.wustl.edu	37	2	109964258	109964258	+	Silent	SNP	C	C	T	rs139133729	by1000genomes	TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	ENST00000309415	+1	known	p.G234	0.090	66	0%	45	26.7%	1	0%	-	-	-	HMMPfam_SH3_1,HMMSmart_SH3,superfamily_SH3
SH3RF3	344558	genome.wustl.edu	37	2	110259125	110259125	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	ENST00000444352	+1	known	p.R16*	0.462	88	0%	68	32.4%	1	0%	-	-	-	HMMPfam_SH3_1,HMMSmart_SM00326,superfamily_SH3-domain
SOWAHC	65124	genome.wustl.edu	37	2	110373350	110373350	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_023016.3	+1	validated	p.L428	0.999	63	0%	115	24.3%	2	0%	-	-	-	NULL
NPHP1	4867	genome.wustl.edu	37	2	110905498	110905498	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_000272.3	-1	reviewed	p.R478C	1.000	220	0%	89	13.5%	3	0%	probably_damaging(0.972)	deleterious(0)	deleterious(0.859)	NULL
ANAPC1	64682	genome.wustl.edu	37	2	112541917	112541917	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_022662.2	-1	validated	p.L1660F	1.000	772	0%	390	13.6%	4	25%	benign(0.008)	deleterious(0.05)	neutral(0.345)	NULL
ANAPC1	64682	genome.wustl.edu	37	2	112552436	112552436	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	ENST00000427997	-1	known	p.R979*	0.992	291	0%	311	16.1%	1	0%	-	-	-	NULL
MERTK	10461	genome.wustl.edu	37	2	112779110	112779110	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	ENST00000449344	+1	known	p.S92L	0.995	196	0%	92	25%	7	28.5%	-	-	-	HMMPfam_Pkinase_Tyr,HMMSmart_SM00219,HMMSmart_SM00220,superfamily_Protein kinase-like (PK-like)
TMEM87B	84910	genome.wustl.edu	37	2	112856195	112856195	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_032824.2	+1	validated	p.D432	0.990	881	0.1%	195	27.2%	4	25%	-	-	-	HMMPfam_Lung_7-TM_R
TMEM87B	84910	genome.wustl.edu	37	2	112873711	112873711	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_032824.2	+1	validated	p.K553	1.000	311	0%	90	12.2%	8	25%	-	-	-	NULL
ZC3H6	376940	genome.wustl.edu	37	2	113057533	113057533	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_198581.2	+1	validated	p.R47I	1.000	339	0%	95	22.1%	2	50%	-	-	-	NULL
ZC3H6	376940	genome.wustl.edu	37	2	113069498	113069498	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_198581.2	+1	validated	p.S244L	0.183	384	0%	99	32.3%	3	66.6%	benign(0)	tolerated(0.11)	neutral(0.272)	NULL
ZC3H6	376940	genome.wustl.edu	37	2	113069499	113069499	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_198581.2	+1	validated	p.S244	0.226	381	0%	97	22.7%	3	0%	-	-	-	NULL
ZC3H6	376940	genome.wustl.edu	37	2	113081764	113081764	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_198581.2	+1	validated	p.G459V	1.000	281	0%	89	22.5%	0	-	probably_damaging(0.999)	tolerated(0.11)	deleterious(0.762)	NULL
ZC3H6	376940	genome.wustl.edu	37	2	113088958	113088958	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_198581.2	+1	validated	p.G821	0.962	135	0%	57	21.1%	0	-	-	-	-	NULL
POLR1B	84172	genome.wustl.edu	37	2	113315624	113315624	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_019014.4	+1	validated	p.Y432	1.000	322	0%	120	22.5%	0	-	-	-	-	superfamily_beta and beta-prime subunits of DNA dependent RNA-polymerase
CHCHD5	84269	genome.wustl.edu	37	2	113343978	113343978	+	Silent	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	ENST00000409719	+1	known	p.S115	0.002	39	0%	22	27.3%	0	-	-	-	-	NULL
CKAP2L	150468	genome.wustl.edu	37	2	113496516	113496516	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_152515.3	-1	validated	p.D708N	0.077	125	0%	51	11.8%	2	0%	possibly_damaging(0.722)	tolerated(0.15)	deleterious(0.503)	NULL
CKAP2L	150468	genome.wustl.edu	37	2	113514388	113514388	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_152515.3	-1	validated	p.N187S	1.000	516	0%	342	29.5%	1	0%	probably_damaging(0.99)	deleterious(0)	deleterious(0.886)	NULL
IL1B	3553	genome.wustl.edu	37	2	113588108	113588108	+	Nonsense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_000576.2	-1	reviewed	p.R214*	0.935	389	0.3%	190	23.2%	5	60%	-	-	-	HMMPfam_IL1,HMMSmart_IL1,superfamily_Cytok_IL1_like
PSD4	23550	genome.wustl.edu	37	2	113941000	113941000	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_012455.2	+1	validated	p.P323S	1.000	31	0%	20	25%	2	0%	probably_damaging(1)	deleterious(0)	deleterious(0.945)	NULL
PSD4	23550	genome.wustl.edu	37	2	113950927	113950927	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_012455.2	+1	validated	p.P671L	0.985	110	0%	121	14.9%	4	0%	benign(0.001)	deleterious(0)	neutral(0.445)	HMMPfam_Sec7,HMMSmart_SM00222,superfamily_Sec7 domain
PAX8	7849	genome.wustl.edu	37	2	113999265	113999265	+	Missense_Mutation	SNP	T	T	G	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_003466.3	-1	reviewed	p.S214R	1.000	141	0%	179	26.3%	20	0%	possibly_damaging(0.5)	tolerated(0.44)	neutral(0.180)	NULL
PAX8	7849	genome.wustl.edu	37	2	114002075	114002075	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_003466.3	-1	reviewed	p.E106D	1.000	144	0%	152	23.7%	1	0%	probably_damaging(0.98)	deleterious(0)	deleterious(0.869)	HMMPfam_PAX,HMMSmart_SM00351,superfamily_Homeodomain-like
SLC35F5	80255	genome.wustl.edu	37	2	114476741	114476741	+	Nonsense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_025181.2	-1	provisional	p.R496*	1.000	244	0%	148	21.6%	7	28.5%	-	-	-	NULL
DPP10	57628	genome.wustl.edu	37	2	116257091	116257091	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_020868.3	+1	validated	p.D93Y	1.000	583	0%	116	19%	0	-	possibly_damaging(0.502)	deleterious(0)	deleterious(0.612)	superfamily_Dipeptidyl peptidase IV/CD26 N-terminal domain
DPP10	57628	genome.wustl.edu	37	2	116520162	116520162	+	Silent	SNP	A	A	C	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_020868.3	+1	validated	p.T363	0.985	569	0%	143	23.1%	0	-	-	-	-	HMMPfam_DPPIV_N,superfamily_Dipeptidyl peptidase IV/CD26 N-terminal domain
DPP10	57628	genome.wustl.edu	37	2	116534809	116534809	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_020868.3	+1	validated	p.R416Q	1.000	363	0%	90	11.1%	0	-	probably_damaging(1)	tolerated(1)	deleterious(0.500)	HMMPfam_DPPIV_N,superfamily_Dipeptidyl peptidase IV/CD26 N-terminal domain
DDX18	8886	genome.wustl.edu	37	2	118577299	118577299	+	Missense_Mutation	SNP	A	A	C	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_006773.3	+1	reviewed	p.N149H	0.004	344	0%	391	19.9%	7	42.8%	benign(0)	tolerated(0.12)	neutral(0.261)	superfamily_SSF52540
DDX18	8886	genome.wustl.edu	37	2	118582185	118582185	+	Silent	SNP	A	A	G	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_006773.3	+1	reviewed	p.R369	0.388	363	0%	255	25.5%	4	0%	-	-	-	HMMPfam_DEAD,HMMSmart_DEXDc,superfamily_SSF52540
DDX18	8886	genome.wustl.edu	37	2	118583101	118583101	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_006773.3	+1	reviewed	p.D483N	1.000	281	0%	206	11.7%	10	0%	probably_damaging(0.999)	tolerated(0.08)	deleterious(0.790)	HMMPfam_Helicase_C,HMMSmart_HELICc,superfamily_SSF52540
INSIG2	51141	genome.wustl.edu	37	2	118864362	118864362	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_016133.2	+1	reviewed	p.L140P	1.000	636	0%	194	21.1%	14	21.4%	probably_damaging(0.998)	deleterious(0)	deleterious(0.919)	HMMPfam_INSIG
EN1	2019	genome.wustl.edu	37	2	119600627	119600627	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001426.3	-1	reviewed	p.A356T	1.000	153	0%	237	12.7%	0	-	probably_damaging(1)	tolerated(0.05)	deleterious(0.845)	HMMPfam_Homeobox,HMMSmart_HOX,superfamily_Homeodomain_like,PatternScan_HOMEOBOX_1
MARCO	8685	genome.wustl.edu	37	2	119750808	119750808	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_006770.3	+1	reviewed	p.S454F	0.000	287	0%	84	13.1%	2	0%	possibly_damaging(0.813)	-	-	HMMPfam_SRCR,PatternScan_SRCR_1,HMMSmart_SM00202,superfamily_SRCR-like
STEAP3	55240	genome.wustl.edu	37	2	120005431	120005431	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_182915.2	+1	validated	p.F233	0.090	43	0%	63	12.7%	0	-	-	-	-	superfamily_NAD(P)-binding Rossmann-fold domains
STEAP3	55240	genome.wustl.edu	37	2	120020644	120020644	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_182915.2	+1	validated	p.G409	1.000	37	0%	36	22.2%	3	33.3%	-	-	-	HMMPfam_Ferric_reduct
C2orf76	130355	genome.wustl.edu	37	2	120097479	120097479	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001017927.2	-1	predicted	p.R19	0.953	262	0%	123	20.3%	10	30%	-	-	-	HMMPfam_DUF2340
SCTR	6344	genome.wustl.edu	37	2	120252109	120252109	+	Nonsense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_002980.2	-1	reviewed	p.R30*	0.000	64	0%	31	12.9%	0	-	-	-	-	superfamily_Hormone receptor domain (HRM Pfam 02793)
ENSG00000163075	0	genome.wustl.edu	37	2	120404537	120404537	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	ENST00000443972	+1	known	p.A302V	0.006	310	0%	115	25.2%	0	-	-	-	-	NULL
TMEM177	80775	genome.wustl.edu	37	2	120439072	120439072	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001105198.1	+1	validated	p.A215T	0.995	35	0%	49	24.5%	15	46.6%	benign(0.001)	tolerated(0.7)	neutral(0.002)	NULL
PTPN4	5775	genome.wustl.edu	37	2	120620175	120620175	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_002830.2	+1	reviewed	p.D68N	1.000	574	0.2%	180	14.4%	0	-	probably_damaging(0.999)	deleterious(0)	deleterious(0.935)	HMMPfam_FERM_N,HMMSmart_B41,superfamily_SSF54236
PTPN4	5775	genome.wustl.edu	37	2	120702818	120702818	+	Splice_Site	SNP	T	T	C	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_002830.2	+1	reviewed	e15+2	1.000	265	0%	79	26.6%	1	100%	-	-	-	-
PTPN4	5775	genome.wustl.edu	37	2	120714641	120714641	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_002830.2	+1	reviewed	p.A707	1.000	132	0%	31	38.7%	3	33.3%	-	-	-	HMMPfam_Y_phosphatase,HMMSmart_PTPc,superfamily_SSF52799
EPB41L5	57669	genome.wustl.edu	37	2	120776668	120776668	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_020909.3	+1	validated	p.S3I	1.000	274	0%	270	26.3%	4	25%	probably_damaging(0.994)	deleterious(0.01)	deleterious(0.858)	NULL
EPB41L5	57669	genome.wustl.edu	37	2	120834820	120834820	+	Silent	SNP	A	A	G	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_020909.3	+1	validated	p.A214	1.000	378	0%	103	18.4%	1	0%	-	-	-	PatternScan_FERM_2,HMMPfam_FERM_M,superfamily_Second domain of FERM,HMMSmart_SM00295
GLI2	2736	genome.wustl.edu	37	2	121555028	121555028	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_005270.4	+1	reviewed	p.A44	0.000	44	0%	29	17.2%	0	-	-	-	-	NULL
GLI2	2736	genome.wustl.edu	37	2	121743900	121743900	+	Missense_Mutation	SNP	C	C	T	rs183782085	by1000genomes	TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_005270.4	+1	reviewed	p.P668L	1.000	17	0%	46	30.4%	0	-	possibly_damaging(0.729)	tolerated(0.2)	neutral(0.315)	NULL
TFCP2L1	29842	genome.wustl.edu	37	2	121997139	121997139	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_014553.2	-1	validated	p.G285	0.147	138	0%	92	20.7%	1	100%	-	-	-	superfamily_SAM_homology
CLASP1	23332	genome.wustl.edu	37	2	122363461	122363461	+	Missense_Mutation	SNP	C	C	T	rs116427811	by1000genomes	TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_015282.2	-1	validated	p.R4H	1.000	175	0%	41	9.8%	1	0%	benign(0.314)	tolerated(0.11)	neutral(0.370)	superfamily_ARM repeat
MKI67IP	84365	genome.wustl.edu	37	2	122493249	122493249	+	Silent	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_032390.4	-1	reviewed	p.I61	0.935	554	0%	821	25.8%	25	16%	-	-	-	HMMPfam_RRM_1,HMMSmart_SM00360,superfamily_RNA-binding domain RBD
CNTNAP5	129684	genome.wustl.edu	37	2	124999901	124999901	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_130773.2	+1	reviewed	p.T104	0.009	178	0%	53	13.2%	0	-	-	-	-	HMMPfam_F5_F8_type_C,HMMSmart_FA58C,superfamily_Gal_bind_like
CYP27C1	339761	genome.wustl.edu	37	2	127950710	127950710	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001001665.3	-1	reviewed	p.R321Q	0.782	140	0.7%	129	27.9%	0	-	probably_damaging(0.996)	deleterious(0.01)	deleterious(0.867)	HMMPfam_p450,superfamily_Cytochrome P450
ERCC3	2071	genome.wustl.edu	37	2	128050365	128050365	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_000122.1	-1	reviewed	p.D98Y	1.000	134	0%	234	11.5%	3	33.3%	probably_damaging(1)	deleterious(0)	deleterious(0.945)	NULL
MAP3K2	10746	genome.wustl.edu	37	2	128075798	128075798	+	Nonsense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_006609.3	-1	reviewed	p.E381*	1.000	167	0%	54	16.7%	2	0%	-	-	-	HMMSmart_SM00219,HMMSmart_SM00220,superfamily_Protein kinase-like (PK-like),PatternScan_PROTEIN_KINASE_ATP,HMMPfam_Pkinase
MAP3K2	10746	genome.wustl.edu	37	2	128075887	128075887	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_006609.3	-1	reviewed	p.R351Q	1.000	139	0%	38	18.4%	1	100%	benign(0.301)	tolerated(0.37)	neutral(0.112)	superfamily_Protein kinase-like (PK-like)
MAP3K2	10746	genome.wustl.edu	37	2	128096544	128096544	+	Missense_Mutation	SNP	T	T	G	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_006609.3	-1	reviewed	p.E29D	1.000	508	0%	120	27.5%	0	-	benign(0)	tolerated(0.83)	neutral(0.001)	NULL
MYO7B	4648	genome.wustl.edu	37	2	128345977	128345977	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001080527.1	+1	provisional	p.E567	1.000	90	0%	88	33%	0	-	-	-	-	HMMPfam_Myosin_head,HMMSmart_SM00242,superfamily_P-loop containing nucleoside triphosphate hydrolases
MYO7B	4648	genome.wustl.edu	37	2	128388466	128388466	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001080527.1	+1	provisional	p.F1614L	1.000	60	0%	81	21%	0	-	probably_damaging(1)	tolerated(0.31)	deleterious(0.527)	NULL
MYO7B	4648	genome.wustl.edu	37	2	128392205	128392205	+	Missense_Mutation	SNP	A	A	C	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001080527.1	+1	provisional	p.D1861A	1.000	245	0%	363	24.5%	3	66.6%	probably_damaging(1)	deleterious(0)	deleterious(0.945)	HMMSmart_SM00295
LIMS2	55679	genome.wustl.edu	37	2	128400617	128400617	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_017980.4	-1	validated	p.E154	1.000	34	0%	99	16.2%	59	0%	-	-	-	HMMPfam_LIM,superfamily_SSF57716
GPR17	2840	genome.wustl.edu	37	2	128409222	128409222	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_005291.2	+1	validated	p.R333C	1.000	41	0%	75	28%	0	-	probably_damaging(1)	deleterious(0)	deleterious(0.945)	superfamily_Family A G protein-coupled receptor-like
WDR33	55339	genome.wustl.edu	37	2	128479416	128479416	+	Silent	SNP	A	A	C	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_018383.3	-1	reviewed	p.L555	0.998	736	0%	415	23.9%	8	12.5%	-	-	-	NULL
WDR33	55339	genome.wustl.edu	37	2	128481935	128481935	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_018383.3	-1	reviewed	p.L390I	1.000	201	0%	94	11.7%	1	0%	unknown(0)	deleterious(0.01)	-	HMMSmart_WD40,superfamily_WD40_like,HMMPfam_WD40
WDR33	55339	genome.wustl.edu	37	2	128482484	128482484	+	Silent	SNP	A	A	G	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_018383.3	-1	reviewed	p.G354	0.777	168	0.6%	114	29.8%	2	0%	-	-	-	HMMSmart_WD40,superfamily_WD40_like,HMMPfam_WD40
SAP130	79595	genome.wustl.edu	37	2	128770602	128770602	+	Splice_Site	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_024545.3	-1	validated	e6+2	0.638	97	0%	53	26.4%	0	-	-	-	-	-
HS6ST1	9394	genome.wustl.edu	37	2	129026218	129026218	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_004807.2	-1	reviewed	p.R252C	1.000	31	0%	61	23%	2	100%	probably_damaging(1)	deleterious(0)	deleterious(0.945)	HMMPfam_HS6ST
POTEF	728378	genome.wustl.edu	37	2	130832779	130832779	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001099771.2	-1	validated	p.K756E	1.000	159	0%	100	26%	0	-	benign(0.001)	deleterious(0.01)	neutral(0.406)	HMMPfam_Actin,HMMSmart_ACTIN,superfamily_SSF53067
POTEF	728378	genome.wustl.edu	37	2	130858265	130858265	+	Missense_Mutation	SNP	T	T	G	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001099771.2	-1	validated	p.K409T	0.020	1100	0%	172	11%	0	-	-	-	-	NULL
POTEF	728378	genome.wustl.edu	37	2	130859724	130859724	+	Nonsense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001099771.2	-1	validated	p.E386*	0.315	1164	0%	241	10.4%	0	-	-	-	-	NULL
POTEF	728378	genome.wustl.edu	37	2	130877938	130877938	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001099771.2	-1	validated	p.D51N	0.026	244	0%	368	17.7%	0	-	probably_damaging(0.998)	deleterious(0)	deleterious(0.919)	NULL
CCDC74B	91409	genome.wustl.edu	37	2	130897490	130897490	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	ENST00000409488	-1	known	p.S225Y	0.033	161	0%	214	36%	4	0%	unknown(0)	-	-	NULL
CCDC74B	91409	genome.wustl.edu	37	2	130897664	130897664	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	ENST00000409488	-1	known	p.S192N	1.000	87	0%	161	13.7%	3	0%	benign(0.069)	tolerated(0.31)	neutral(0.032)	NULL
CCDC74B	91409	genome.wustl.edu	37	2	130900780	130900780	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	ENST00000409234	-1	known	p.Q119H	0.011	195	0%	254	34.3%	0	-	benign(0.388)	-	-	NULL
SMPD4	55627	genome.wustl.edu	37	2	130911917	130911917	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_017951.3	-1	validated	p.H570R	1.000	130	0%	158	10.8%	15	20%	possibly_damaging(0.61)	deleterious(0.03)	deleterious(0.576)	NULL
SMPD4	55627	genome.wustl.edu	37	2	130925060	130925060	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_017951.3	-1	validated	p.E294K	1.000	197	0%	198	17.2%	3	0%	probably_damaging(1)	deleterious(0.01)	deleterious(0.905)	NULL
TUBA3E	112714	genome.wustl.edu	37	2	130951687	130951687	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_207312.2	-1	validated	p.R243Q	0.996	359	0%	442	21.7%	0	-	probably_damaging(0.998)	deleterious(0)	deleterious(0.919)	HMMPfam_Tubulin,superfamily_Tubulin_FtsZ
TUBA3E	112714	genome.wustl.edu	37	2	130951757	130951757	+	Nonsense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_207312.2	-1	validated	p.E220*	1.000	332	0%	389	17%	0	-	-	-	-	HMMPfam_Tubulin,superfamily_Tubulin_FtsZ
LOC653781	653781	genome.wustl.edu	37	2	131403723	131403723	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	XM_929706.3	+1	model	p.E503K	0.002	744	0%	139	15.1%	0	-	possibly_damaging(0.609)	deleterious(0)	deleterious(0.655)	NULL
GPR148	344561	genome.wustl.edu	37	2	131486990	131486990	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_207364.2	+1	validated	p.P89L	0.986	166	0%	227	24.2%	0	-	benign(0)	tolerated(1)	-	HMMPfam_7tm_1,superfamily_Family A G protein-coupled receptor-like
ARHGEF4	50649	genome.wustl.edu	37	2	131797875	131797875	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_015320.2	+1	reviewed	p.S322	0.961	31	0%	58	27.6%	0	-	-	-	-	HMMPfam_RhoGEF,HMMSmart_SM00325,superfamily_DBL homology domain (DH-domain)
ARHGEF4	50649	genome.wustl.edu	37	2	131799475	131799475	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_015320.2	+1	reviewed	p.I475	0.673	60	0%	107	14%	1	0%	-	-	-	superfamily_DBL homology domain (DH-domain),superfamily_PH domain-like
POTEE	445582	genome.wustl.edu	37	2	131995807	131995807	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001083538.1	+1	validated	p.R413I	0.257	442	0%	90	7.8%	0	-	possibly_damaging(0.681)	deleterious(0)	deleterious(0.688)	NULL
LOC100127989	100127989	genome.wustl.edu	37	2	132294214	132294214	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	XM_001724172.1	-1	model	p.K127R	1.000	16	0%	32	25%	0	-	-	-	-	NULL
ZNF806	646915	genome.wustl.edu	37	2	133075427	133075427	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	XM_001724242.2	+1	model	p.C296	0.014	145	0.7%	56	14.3%	1	0%	-	-	-	NULL
ZNF806	646915	genome.wustl.edu	37	2	133075521	133075521	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	XM_001724242.2	+1	model	p.S328P	0.001	316	0%	89	16.9%	0	-	-	-	-	HMMPfam_zf-C2H2,PatternScan_ZINC_FINGER_C2H2_1,HMMSmart_ZnF_C2H2,superfamily_SSF57667
NCKAP5	344148	genome.wustl.edu	37	2	133489552	133489552	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_207363.2	-1	validated	p.S1734L	0.028	190	0%	82	23.2%	0	-	probably_damaging(0.99)	deleterious(0)	deleterious(0.886)	NULL
NCKAP5	344148	genome.wustl.edu	37	2	133541805	133541805	+	Missense_Mutation	SNP	C	C	T	rs144491492	by1000genomes	TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_207363.2	-1	validated	p.R860Q	0.000	83	0%	55	21.8%	0	-	benign(0.012)	tolerated(1)	neutral(0.001)	NULL
NCKAP5	344148	genome.wustl.edu	37	2	133542690	133542690	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_207363.2	-1	validated	p.P565Q	0.001	78	0%	26	42.3%	0	-	benign(0.139)	deleterious(0)	neutral(0.457)	NULL
MGAT5	4249	genome.wustl.edu	37	2	135012114	135012114	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_002410.3	+1	validated	p.R47H	0.960	248	0.4%	90	31.1%	0	-	probably_damaging(0.969)	deleterious(0.01)	deleterious(0.817)	NULL
ACMSD	130013	genome.wustl.edu	37	2	135655982	135655982	+	Silent	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_138326.2	+1	validated	p.S307	0.988	398	0%	75	14.7%	0	-	-	-	-	HMMPfam_Amidohydro_2,superfamily_Metallo-dependent hydrolases
CCNT2	905	genome.wustl.edu	37	2	135710270	135710270	+	Nonsense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_058241.1	+1	reviewed	p.R255*	1.000	446	0%	177	11.3%	1	0%	-	-	-	superfamily_Cyclin-like
CCNT2	905	genome.wustl.edu	37	2	135711553	135711553	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_058241.1	+1	reviewed	p.P510T	1.000	122	0%	82	15.9%	3	0%	probably_damaging(0.99)	deleterious(0)	deleterious(0.886)	NULL
CCNT2	905	genome.wustl.edu	37	2	135712173	135712173	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	ENST00000452521	+1	known	p.R135*	1.000	211	0%	88	26.1%	1	100%	-	-	-	NULL
YSK4	80122	genome.wustl.edu	37	2	135738847	135738847	+	Missense_Mutation	SNP	A	A	C	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_025052.3	-1	validated	p.F1155C	1.000	183	0%	121	9.9%	0	-	probably_damaging(1)	deleterious(0.01)	deleterious(0.905)	HMMSmart_SM00219,HMMSmart_SM00220,superfamily_Protein kinase-like (PK-like),HMMPfam_Pkinase
YSK4	80122	genome.wustl.edu	37	2	135739083	135739083	+	Nonsense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_025052.3	-1	validated	p.Y1076*	1.000	77	0%	74	28.4%	0	-	-	-	-	HMMSmart_SM00219,HMMSmart_SM00220,superfamily_Protein kinase-like (PK-like),PatternScan_PROTEIN_KINASE_ATP,HMMPfam_Pkinase
YSK4	80122	genome.wustl.edu	37	2	135744566	135744566	+	Missense_Mutation	SNP	A	A	C	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_025052.3	-1	validated	p.S626A	0.001	138	0%	53	17%	0	-	possibly_damaging(0.643)	tolerated(0.05)	deleterious(0.571)	NULL
YSK4	80122	genome.wustl.edu	37	2	135745372	135745372	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_025052.3	-1	validated	p.R357Q	0.000	184	0%	74	25.7%	0	-	benign(0.034)	tolerated(0.42)	neutral(0.016)	NULL
ZRANB3	84083	genome.wustl.edu	37	2	135965229	135965229	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_032143.2	-1	provisional	p.A928	0.000	343	0.3%	56	10.7%	0	-	-	-	-	NULL
LCT	3938	genome.wustl.edu	37	2	136546012	136546012	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_002299.2	-1	reviewed	p.S1889Y	0.903	144	0%	101	25.7%	0	-	possibly_damaging(0.746)	deleterious(0)	deleterious(0.719)	NULL
LCT	3938	genome.wustl.edu	37	2	136548388	136548388	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_002299.2	-1	reviewed	p.T1725	0.026	200	0%	180	31.7%	0	-	-	-	-	HMMPfam_Glyco_hydro_1,superfamily_Glyco_hydro_cat
MCM6	4175	genome.wustl.edu	37	2	136609023	136609023	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_005915.4	-1	reviewed	p.E622D	1.000	221	0%	42	26.2%	23	0%	probably_damaging(1)	deleterious(0)	deleterious(0.945)	HMMPfam_MCM,HMMSmart_SM00350,superfamily_P-loop containing nucleoside triphosphate hydrolases
DARS	1615	genome.wustl.edu	37	2	136678140	136678140	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001349.2	-1	validated	p.R281I	1.000	384	0%	93	26.9%	35	14.2%	probably_damaging(1)	deleterious(0)	deleterious(0.945)	HMMPfam_tRNA-synt_2,superfamily_Class II aaRS and biotin synthetases
DARS	1615	genome.wustl.edu	37	2	136682013	136682013	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001349.2	-1	validated	p.R207Q	1.000	177	0%	27	14.8%	17	0%	probably_damaging(0.996)	deleterious(0.03)	deleterious(0.826)	HMMPfam_tRNA-synt_2,superfamily_Class II aaRS and biotin synthetases
DARS	1615	genome.wustl.edu	37	2	136690381	136690381	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001349.2	-1	validated	p.R179I	1.000	312	0%	92	10.9%	22	0%	probably_damaging(1)	deleterious(0)	deleterious(0.945)	HMMPfam_tRNA-synt_2,superfamily_Class II aaRS and biotin synthetases
THSD7B	80731	genome.wustl.edu	37	2	137917796	137917796	+	Silent	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001080427.1	+1	provisional	p.V430	0.998	333	0%	70	10%	0	-	-	-	-	superfamily_TSP-1 type 1 repeat
THSD7B	80731	genome.wustl.edu	37	2	137917850	137917850	+	Silent	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001080427.1	+1	provisional	p.I448	0.070	359	0%	62	24.2%	0	-	-	-	-	superfamily_TSP-1 type 1 repeat
THSD7B	80731	genome.wustl.edu	37	2	138208550	138208550	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001080427.1	+1	provisional	p.Y1001C	1.000	301	0%	153	28.8%	0	-	probably_damaging(0.999)	deleterious(0.02)	deleterious(0.873)	HMMPfam_TSP_1,HMMSmart_SM00209,superfamily_TSP-1 type 1 repeat
HNMT	3176	genome.wustl.edu	37	2	138771519	138771519	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_006895.2	+1	reviewed	p.G233D	1.000	381	0%	92	26.1%	22	9%	probably_damaging(1)	deleterious(0.01)	deleterious(0.905)	superfamily_S-adenosyl-L-methionine-dependent methyltransferases
LOC440917	440917	genome.wustl.edu	37	2	139045818	139045818	+	RNA	SNP	G	G	A	rs61753539		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	XR_041289.2	-1	model	NULL	0.996	273	0%	90	21.1%	0	-	-	-	-	-
LRP1B	53353	genome.wustl.edu	37	2	140992404	140992404	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_018557.2	-1	validated	p.A4537V	1.000	408	0%	70	27.1%	0	-	possibly_damaging(0.922)	deleterious(0)	deleterious(0.816)	NULL
LRP1B	53353	genome.wustl.edu	37	2	141473606	141473606	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_018557.2	-1	validated	p.R1987C	1.000	421	0%	68	16.2%	0	-	probably_damaging(1)	deleterious(0)	deleterious(0.945)	HMMPfam_Ldl_recept_b,HMMSmart_LY,superfamily_SSF63825
LRP1B	53353	genome.wustl.edu	37	2	141739804	141739804	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_018557.2	-1	validated	p.R938C	1.000	168	0.6%	61	27.9%	0	-	probably_damaging(1)	deleterious(0.04)	deleterious(0.849)	HMMPfam_Ldl_recept_a,HMMSmart_LDLa,superfamily_LDL_rcpt_classA_cys-rich
LRP1B	53353	genome.wustl.edu	37	2	141751607	141751607	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_018557.2	-1	validated	p.D867	0.635	281	0%	55	25.5%	0	-	-	-	-	HMMPfam_Ldl_recept_a,HMMSmart_LDLa,PatternScan_LDLRA_1,superfamily_LDL_rcpt_classA_cys-rich
LRP1B	53353	genome.wustl.edu	37	2	141806623	141806623	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_018557.2	-1	validated	p.D574G	1.000	450	0%	92	8.7%	0	-	probably_damaging(1)	deleterious(0)	deleterious(0.945)	HMMPfam_Ldl_recept_b,HMMSmart_LY,superfamily_SSF63825
KYNU	8942	genome.wustl.edu	37	2	143643069	143643069	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_003937.2	+1	reviewed	p.C45R	0.003	193	0%	82	24.4%	1	0%	benign(0.029)	tolerated(0.44)	neutral(0.014)	superfamily_PLP-dependent transferases
ARHGAP15	55843	genome.wustl.edu	37	2	144313979	144313979	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_018460.3	+1	validated	p.L310I	1.000	534	0%	122	11.5%	8	0%	possibly_damaging(0.763)	-	-	HMMPfam_RhoGAP,HMMSmart_RhoGAP,superfamily_Rho_GAP
ZEB2	9839	genome.wustl.edu	37	2	145147129	145147129	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_014795.3	-1	reviewed	p.T1178	1.000	310	0%	295	30.2%	7	0%	-	-	-	NULL
ZEB2	9839	genome.wustl.edu	37	2	145147456	145147456	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_014795.3	-1	reviewed	p.S1069	0.063	80	0%	70	24.3%	7	0%	-	-	-	HMMPfam_zf-C2H2,HMMSmart_ZnF_C2H2,superfamily_SSF57667
ZEB2	9839	genome.wustl.edu	37	2	145182381	145182381	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_014795.3	-1	reviewed	p.A129T	0.865	543	0%	138	23.9%	0	-	benign(0)	tolerated(0.54)	neutral(0.007)	NULL
ACVR2A	92	genome.wustl.edu	37	2	148602746	148602746	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001616.3	+1	reviewed	p.F9L	1.000	154	0%	217	13.4%	3	0%	possibly_damaging(0.882)	tolerated(0.75)	neutral(0.346)	NULL
ACVR2A	92	genome.wustl.edu	37	2	148672871	148672871	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001616.3	+1	reviewed	p.E214K	1.000	531	0%	92	19.6%	0	-	benign(0.3)	tolerated(0.06)	neutral(0.415)	HMMSmart_SM00219,HMMSmart_SM00220,superfamily_Protein kinase-like (PK-like),HMMPfam_Pkinase
ORC4	5000	genome.wustl.edu	37	2	148695939	148695939	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_002552.2	-1	reviewed	p.L328I	1.000	113	0%	21	19%	11	0%	probably_damaging(1)	deleterious(0.01)	deleterious(0.905)	NULL
ORC4	5000	genome.wustl.edu	37	2	148701025	148701025	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_002552.2	-1	reviewed	p.R277W	1.000	512	0%	164	17.1%	8	0%	probably_damaging(0.998)	deleterious(0.01)	deleterious(0.880)	superfamily_SSF52540
MBD5	55777	genome.wustl.edu	37	2	149247787	149247787	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_018328.4	+1	reviewed	p.R1296Q	0.935	158	0%	42	16.7%	1	0%	unknown(0)	tolerated(0.32)	-	NULL
MBD5	55777	genome.wustl.edu	37	2	149248067	149248067	+	Silent	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_018328.4	+1	reviewed	p.V1389	1.000	161	0%	41	17.1%	4	0%	-	-	-	HMMPfam_PWWP,superfamily_Tudor/PWWP/MBT
RBM43	375287	genome.wustl.edu	37	2	152107901	152107901	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_198557.2	-1	validated	p.R198I	0.000	421	0%	225	23.6%	1	0%	possibly_damaging(0.893)	deleterious(0.01)	deleterious(0.758)	NULL
NMI	9111	genome.wustl.edu	37	2	152127377	152127377	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_004688.2	-1	reviewed	p.T252A	0.232	374	0%	221	13.1%	38	15.7%	benign(0)	tolerated(0.31)	neutral(0.027)	HMMPfam_NID
RIF1	55183	genome.wustl.edu	37	2	152267787	152267787	+	Nonsense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_018151.4	+1	reviewed	p.E40*	1.000	386	0%	479	23.8%	1	0%	-	-	-	NULL
NEB	4703	genome.wustl.edu	37	2	152348274	152348274	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_004543.4	-1	reviewed	p.R6502H	1.000	191	0%	31	19.4%	0	-	probably_damaging(1)	-	-	NULL
NEB	4703	genome.wustl.edu	37	2	152362045	152362045	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_004543.4	-1	reviewed	p.P6196S	1.000	480	0%	102	15.7%	0	-	probably_damaging(1)	-	-	HMMSmart_SM00227
NEB	4703	genome.wustl.edu	37	2	152387534	152387534	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_004543.4	-1	reviewed	p.R5501C	1.000	497	0%	116	25%	1	0%	probably_damaging(1)	deleterious(0.01)	deleterious(0.905)	HMMPfam_Nebulin,HMMSmart_SM00227
NEB	4703	genome.wustl.edu	37	2	152396929	152396929	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_004543.4	-1	reviewed	p.D5240Y	1.000	458	0%	97	22.7%	0	-	possibly_damaging(0.759)	tolerated(0.28)	neutral(0.312)	NULL
NEB	4703	genome.wustl.edu	37	2	152473967	152473967	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_004543.4	-1	reviewed	p.A3455T	1.000	233	0%	39	23.1%	0	-	possibly_damaging(0.72)	tolerated(0.07)	deleterious(0.580)	HMMPfam_Nebulin,HMMSmart_SM00227
NEB	4703	genome.wustl.edu	37	2	152506894	152506894	+	Splice_Site	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_004543.4	-1	reviewed	e52-1	1.000	200	0%	70	21.4%	0	-	-	-	-	-
NEB	4703	genome.wustl.edu	37	2	152507122	152507122	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_004543.4	-1	reviewed	p.V2398A	0.952	187	0%	90	24.4%	0	-	benign(0.009)	deleterious(0.02)	neutral(0.384)	HMMPfam_Nebulin,HMMSmart_SM00227
NEB	4703	genome.wustl.edu	37	2	152507310	152507310	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_004543.4	-1	reviewed	p.M2335I	1.000	260	0%	70	21.4%	0	-	benign(0.429)	tolerated(0.14)	neutral(0.389)	HMMPfam_Nebulin,HMMSmart_SM00227
NEB	4703	genome.wustl.edu	37	2	152520329	152520329	+	Silent	SNP	A	A	G	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_004543.4	-1	reviewed	p.I1832	0.999	194	0%	88	12.5%	0	-	-	-	-	NULL
NEB	4703	genome.wustl.edu	37	2	152529073	152529073	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_004543.4	-1	reviewed	p.Y1370C	1.000	185	0%	85	22.4%	0	-	probably_damaging(1)	deleterious(0)	deleterious(0.945)	HMMPfam_Nebulin,HMMSmart_SM00227
NEB	4703	genome.wustl.edu	37	2	152534651	152534651	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_004543.4	-1	reviewed	p.F1102	1.000	225	0%	76	25%	0	-	-	-	-	HMMSmart_SM00227
NEB	4703	genome.wustl.edu	37	2	152541387	152541387	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_004543.4	-1	reviewed	p.D914N	1.000	375	0%	73	17.8%	0	-	probably_damaging(0.998)	tolerated(0.62)	deleterious(0.478)	HMMSmart_SM00227
NEB	4703	genome.wustl.edu	37	2	152551048	152551048	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_004543.4	-1	reviewed	p.K590N	0.995	516	0%	103	9.7%	0	-	possibly_damaging(0.526)	tolerated(0.32)	neutral(0.201)	HMMPfam_Nebulin,HMMSmart_SM00227
NEB	4703	genome.wustl.edu	37	2	152566180	152566180	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_004543.4	-1	reviewed	p.A342V	0.942	436	0%	172	20.3%	0	-	benign(0.001)	tolerated(0.67)	neutral(0.003)	HMMPfam_Nebulin,HMMSmart_SM00227
NEB	4703	genome.wustl.edu	37	2	152584281	152584281	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_004543.4	-1	reviewed	p.R73Q	1.000	209	0%	49	16.3%	0	-	probably_damaging(0.975)	tolerated(0.1)	deleterious(0.704)	NULL
CACNB4	785	genome.wustl.edu	37	2	152698520	152698520	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_000726.3	-1	reviewed	p.R400H	1.000	210	0%	71	29.6%	0	-	probably_damaging(0.98)	tolerated(0.16)	deleterious(0.483)	HMMPfam_Ca_channel_B,superfamily_P-loop containing nucleoside triphosphate hydrolases
CACNB4	785	genome.wustl.edu	37	2	152727044	152727044	+	Splice_Site	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_000726.3	-1	reviewed	e8+1	1.000	175	0%	202	25.7%	1	100%	-	-	-	-
CACNB4	785	genome.wustl.edu	37	2	152732980	152732980	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_000726.3	-1	reviewed	p.R161W	1.000	499	0.2%	697	24.5%	0	-	probably_damaging(1)	deleterious(0)	deleterious(0.945)	superfamily_SH3-domain
FMNL2	114793	genome.wustl.edu	37	2	153475603	153475603	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_052905.3	+1	reviewed	p.A520T	0.977	106	0%	74	27%	1	0%	benign(0.355)	tolerated(0.11)	neutral(0.384)	NULL
PRPF40A	55660	genome.wustl.edu	37	2	153514431	153514431	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_017892.3	-1	validated	p.S891L	1.000	997	0%	216	24.1%	38	28.9%	unknown(0)	deleterious(0.05)	-	NULL
PRPF40A	55660	genome.wustl.edu	37	2	153520401	153520401	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_017892.3	-1	validated	p.D654Y	1.000	218	0%	53	20.8%	10	20%	probably_damaging(0.991)	deleterious(0)	deleterious(0.889)	NULL
GALNT13	114805	genome.wustl.edu	37	2	154801061	154801061	+	Nonsense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_052917.2	+1	validated	p.W17*	1.000	411	0%	94	20.2%	1	0%	-	-	-	NULL
KCNJ3	3760	genome.wustl.edu	37	2	155555701	155555701	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_002239.2	+1	reviewed	p.I138	1.000	100	0%	145	21.4%	0	-	-	-	-	HMMPfam_IRK,superfamily_SSF81324
NR4A2	4929	genome.wustl.edu	37	2	157183285	157183285	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_006186.3	-1	reviewed	p.D436Y	1.000	104	0%	159	16.4%	2	0%	probably_damaging(0.996)	deleterious(0.03)	deleterious(0.826)	HMMPfam_Hormone_recep,HMMSmart_SM00430,superfamily_Nuclear receptor ligand-binding domain
GPD2	2820	genome.wustl.edu	37	2	157352682	157352682	+	Nonsense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_000408.4	+1	reviewed	p.G77*	1.000	170	0%	49	24.5%	1	100%	-	-	-	PatternScan_FAD_G3PDH_1,HMMPfam_DAO,superfamily_FAD/NAD(P)-binding domain
GALNT5	11227	genome.wustl.edu	37	2	158162326	158162326	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_014568.1	+1	provisional	p.C835	0.986	543	0%	133	14.3%	0	-	-	-	-	HMMPfam_Ricin_B_lectin,HMMSmart_SM00458,superfamily_Ricin B-like lectins
ERMN	57471	genome.wustl.edu	37	2	158177817	158177817	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001009959.1	-1	validated	p.R287K	1.000	231	0%	43	14%	1	100%	probably_damaging(0.968)	deleterious(0)	deleterious(0.855)	NULL
TANC1	85461	genome.wustl.edu	37	2	160084399	160084399	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_033394.2	+1	validated	p.G1325R	1.000	202	0%	79	10.1%	2	0%	probably_damaging(0.98)	deleterious(0)	deleterious(0.869)	superfamily_TPR-like
WDSUB1	151525	genome.wustl.edu	37	2	160139542	160139542	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001128212.1	-1	validated	p.D13	1.000	115	0%	171	14%	1	0%	-	-	-	HMMSmart_SM00320,superfamily_WD40 repeat-like,HMMPfam_WD40
BAZ2B	29994	genome.wustl.edu	37	2	160194179	160194179	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_013450.2	-1	validated	p.G1853	0.733	329	0%	80	26.3%	5	0%	-	-	-	NULL
BAZ2B	29994	genome.wustl.edu	37	2	160205227	160205227	+	Missense_Mutation	SNP	A	A	C	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_013450.2	-1	validated	p.L1752W	1.000	496	0.4%	119	18.5%	0	-	probably_damaging(0.999)	tolerated(0.06)	deleterious(0.813)	NULL
BAZ2B	29994	genome.wustl.edu	37	2	160289504	160289504	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_013450.2	-1	validated	p.A555V	1.000	449	0%	113	19.5%	2	50%	benign(0.013)	deleterious(0.04)	neutral(0.349)	NULL
BAZ2B	29994	genome.wustl.edu	37	2	160295587	160295587	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_013450.2	-1	validated	p.S278I	1.000	885	0%	274	26.3%	1	0%	possibly_damaging(0.822)	tolerated(0.68)	neutral(0.313)	NULL
LY75	4065	genome.wustl.edu	37	2	160735803	160735803	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_002349.2	-1	validated	p.D494	0.024	719	0%	171	26.9%	0	-	-	-	-	NULL
LY75	4065	genome.wustl.edu	37	2	160741776	160741776	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_002349.2	-1	validated	p.G314	0.241	139	0%	45	28.9%	0	-	-	-	-	HMMPfam_Lectin_C,HMMSmart_SM00034,superfamily_C-type lectin-like
PLA2R1	22925	genome.wustl.edu	37	2	160889486	160889486	+	Missense_Mutation	SNP	T	T	G	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_007366.3	-1	validated	p.E275D	1.000	280	0%	118	25.4%	0	-	probably_damaging(0.999)	deleterious(0)	deleterious(0.935)	HMMPfam_Lectin_C,HMMSmart_SM00034,superfamily_C-type lectin-like
SLC4A10	57282	genome.wustl.edu	37	2	162751194	162751194	+	Missense_Mutation	SNP	T	T	G	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_022058.3	+1	reviewed	p.F370L	1.000	254	0%	70	24.3%	0	-	probably_damaging(1)	deleterious(0)	deleterious(0.945)	HMMPfam_Band_3_cyto,superfamily_Phoshotransferase/anion transport protein
SLC4A10	57282	genome.wustl.edu	37	2	162805661	162805661	+	Nonsense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_022058.3	+1	reviewed	p.R727*	1.000	468	0.2%	101	28.7%	0	-	-	-	-	HMMPfam_HCO3_cotransp
DPP4	1803	genome.wustl.edu	37	2	162868404	162868404	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001935.3	-1	reviewed	p.S577R	1.000	300	0%	199	11.6%	4	0%	probably_damaging(0.999)	tolerated(0.1)	deleterious(0.777)	HMMPfam_Peptidase_S9,superfamily_alpha/beta-Hydrolases
DPP4	1803	genome.wustl.edu	37	2	162881357	162881357	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001935.3	-1	reviewed	p.I327T	1.000	242	0%	221	25.3%	2	0%	benign(0.018)	tolerated(0.06)	neutral(0.323)	HMMPfam_DPPIV_N,superfamily_Dipeptidyl peptidase IV/CD26 N-terminal domain
DPP4	1803	genome.wustl.edu	37	2	162894908	162894908	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001935.3	-1	reviewed	p.Y173H	1.000	293	0%	59	23.7%	0	-	probably_damaging(1)	deleterious(0)	deleterious(0.945)	HMMPfam_DPPIV_N,superfamily_Dipeptidyl peptidase IV/CD26 N-terminal domain
DPP4	1803	genome.wustl.edu	37	2	162903987	162903987	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001935.3	-1	reviewed	p.R40H	0.913	316	0%	52	25%	1	0%	probably_damaging(1)	deleterious(0)	deleterious(0.945)	superfamily_Dipeptidyl peptidase IV/CD26 N-terminal domain
GCG	2641	genome.wustl.edu	37	2	163003964	163003964	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_002054.3	-1	reviewed	p.K51N	1.000	350	0%	64	15.6%	0	-	probably_damaging(0.999)	deleterious(0)	deleterious(0.935)	NULL
KCNH7	90134	genome.wustl.edu	37	2	163236428	163236428	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_033272.2	-1	reviewed	p.T1022	0.001	272	0%	43	23.3%	0	-	-	-	-	NULL
FIGN	55137	genome.wustl.edu	37	2	164467310	164467310	+	Silent	SNP	T	T	C	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_018086.2	-1	validated	p.T344	1.000	188	0%	52	9.6%	0	-	-	-	-	NULL
COBLL1	22837	genome.wustl.edu	37	2	165551063	165551063	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_014900.3	-1	validated	p.S985P	0.139	222	0%	74	14.9%	2	0%	possibly_damaging(0.677)	tolerated(0.12)	deleterious(0.502)	NULL
COBLL1	22837	genome.wustl.edu	37	2	165551324	165551324	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_014900.3	-1	validated	p.A898T	1.000	124	0.8%	41	31.7%	2	0%	benign(0.002)	tolerated(0.16)	neutral(0.059)	NULL
COBLL1	22837	genome.wustl.edu	37	2	165551735	165551735	+	Nonsense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_014900.3	-1	validated	p.R761*	1.000	634	0%	222	10.4%	2	0%	-	-	-	NULL
SCN3A	6328	genome.wustl.edu	37	2	165953982	165953982	+	Missense_Mutation	SNP	A	A	C	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_006922.3	-1	reviewed	p.L1340W	1.000	309	0%	72	27.8%	0	-	probably_damaging(1)	deleterious(0)	deleterious(0.945)	HMMPfam_Ion_trans,superfamily_SSF81324
SCN2A	6326	genome.wustl.edu	37	2	166165304	166165304	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001040142.1	+1	reviewed	p.A202V	1.000	521	0%	187	27.8%	0	-	possibly_damaging(0.604)	deleterious(0)	deleterious(0.654)	HMMPfam_Ion_trans,superfamily_Voltage-gated potassium channels
SCN2A	6326	genome.wustl.edu	37	2	166198892	166198892	+	Missense_Mutation	SNP	T	T	G	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001040142.1	+1	reviewed	p.I825M	0.998	659	0%	298	24.8%	0	-	possibly_damaging(0.909)	deleterious(0)	deleterious(0.806)	HMMPfam_Ion_trans,superfamily_Voltage-gated potassium channels
SCN2A	6326	genome.wustl.edu	37	2	166246162	166246162	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001040142.1	+1	reviewed	p.T1949N	0.161	144	0%	59	28.8%	0	-	benign(0.004)	deleterious(0.01)	neutral(0.406)	NULL
GALNT3	2591	genome.wustl.edu	37	2	166613637	166613637	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_004482.3	-1	reviewed	p.R438C	1.000	422	0%	97	11.3%	2	50%	probably_damaging(1)	deleterious(0)	deleterious(0.945)	superfamily_Nucleotide-diphospho-sugar transferases
GALNT3	2591	genome.wustl.edu	37	2	166626927	166626927	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_004482.3	-1	reviewed	p.R95I	0.879	363	0%	89	22.5%	0	-	benign(0.275)	deleterious(0.01)	neutral(0.435)	NULL
TTC21B	79809	genome.wustl.edu	37	2	166747443	166747443	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_024753.3	-1	validated	p.L1002	1.000	215	0%	24	16.7%	4	0%	-	-	-	superfamily_TPR-like
TTC21B	79809	genome.wustl.edu	37	2	166785697	166785697	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_024753.3	-1	validated	p.P445H	1.000	198	0%	50	28%	1	0%	probably_damaging(1)	deleterious(0)	deleterious(0.945)	NULL
TTC21B	79809	genome.wustl.edu	37	2	166786161	166786161	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_024753.3	-1	validated	p.A395V	1.000	235	0%	74	25.7%	1	0%	benign(0.001)	tolerated(0.18)	neutral(0.056)	superfamily_TPR-like
TTC21B	79809	genome.wustl.edu	37	2	166797585	166797585	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_024753.3	-1	validated	p.L221S	1.000	322	0%	153	11.8%	0	-	possibly_damaging(0.952)	deleterious(0.02)	deleterious(0.778)	superfamily_TPR-like
TTC21B	79809	genome.wustl.edu	37	2	166797632	166797632	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_024753.3	-1	validated	p.I205	0.018	270	0%	125	19.2%	0	-	-	-	-	HMMSmart_SM00028,superfamily_TPR-like
SCN1A	6323	genome.wustl.edu	37	2	166848562	166848562	+	Silent	SNP	A	A	G	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_006920.4	-1	reviewed	p.C1730	1.000	529	0%	125	23.2%	0	-	-	-	-	HMMPfam_Ion_trans,superfamily_SSF81324
SCN1A	6323	genome.wustl.edu	37	2	166892580	166892580	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_006920.4	-1	reviewed	p.S1125L	1.000	448	0.2%	116	19%	1	0%	possibly_damaging(0.919)	tolerated(0.06)	deleterious(0.692)	HMMPfam_Na_trans_assoc,superfamily_SSF81324
SCN9A	6335	genome.wustl.edu	37	2	167055776	167055776	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_002977.3	-1	reviewed	p.P1780	0.001	471	0%	287	22%	0	-	-	-	-	NULL
SCN9A	6335	genome.wustl.edu	37	2	167055908	167055908	+	Silent	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_002977.3	-1	reviewed	p.S1736	0.063	420	0%	340	23.5%	0	-	-	-	-	HMMPfam_Ion_trans,superfamily_Voltage-gated potassium channels
SCN9A	6335	genome.wustl.edu	37	2	167085231	167085231	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_002977.3	-1	reviewed	p.V1381	1.000	301	0%	99	17.2%	0	-	-	-	-	HMMPfam_Ion_trans,superfamily_Voltage-gated potassium channels
SCN9A	6335	genome.wustl.edu	37	2	167141159	167141159	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_002977.3	-1	reviewed	p.R593I	0.991	108	0%	32	28.1%	0	-	possibly_damaging(0.904)	deleterious(0.02)	deleterious(0.742)	NULL
SCN9A	6335	genome.wustl.edu	37	2	167141179	167141179	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_002977.3	-1	reviewed	p.G586	1.000	136	0%	40	27.5%	0	-	-	-	-	NULL
SCN9A	6335	genome.wustl.edu	37	2	167151116	167151116	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_002977.3	-1	reviewed	p.D320Y	1.000	224	0%	43	20.9%	0	-	probably_damaging(1)	deleterious(0)	deleterious(0.945)	HMMPfam_Ion_trans,superfamily_Voltage-gated potassium channels
SCN9A	6335	genome.wustl.edu	37	2	167168243	167168243	+	Silent	SNP	T	T	C	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_002977.3	-1	reviewed	p.G8	1.000	259	0%	106	24.5%	0	-	-	-	-	NULL
SCN7A	6332	genome.wustl.edu	37	2	167262667	167262667	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_002976.2	-1	validated	p.Y1491C	1.000	94	0%	32	40.6%	0	-	probably_damaging(1)	deleterious(0)	deleterious(0.945)	HMMPfam_Ion_trans,superfamily_Voltage-gated potassium channels
SCN7A	6332	genome.wustl.edu	37	2	167313404	167313404	+	Silent	SNP	A	A	G	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_002976.2	-1	validated	p.L422	0.036	319	0%	72	25%	0	-	-	-	-	NULL
SCN7A	6332	genome.wustl.edu	37	2	167322294	167322294	+	Nonsense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_002976.2	-1	validated	p.R290*	0.001	327	0%	56	23.2%	0	-	-	-	-	HMMPfam_Ion_trans,superfamily_Voltage-gated potassium channels
SCN7A	6332	genome.wustl.edu	37	2	167334126	167334126	+	Missense_Mutation	SNP	T	T	G	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_002976.2	-1	validated	p.K27N	0.103	342	0%	57	22.8%	0	-	possibly_damaging(0.767)	tolerated(0.08)	deleterious(0.585)	NULL
XIRP2	129446	genome.wustl.edu	37	2	168097237	168097237	+	Nonsense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_152381.4	+1	validated	p.Q345*	1.000	332	0%	87	19.5%	0	-	-	-	-	NULL
XIRP2	129446	genome.wustl.edu	37	2	168100491	168100491	+	Silent	SNP	A	A	G	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_152381.4	+1	validated	p.Q863	0.000	128	0%	51	23.5%	0	-	-	-	-	NULL
XIRP2	129446	genome.wustl.edu	37	2	168102020	168102020	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_152381.4	+1	validated	p.S1373Y	1.000	133	0%	46	28.3%	0	-	possibly_damaging(0.772)	deleterious(0)	deleterious(0.732)	NULL
XIRP2	129446	genome.wustl.edu	37	2	168102709	168102709	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_152381.4	+1	validated	p.A1603T	0.997	64	0%	23	30.4%	0	-	benign(0.248)	deleterious(0.03)	neutral(0.390)	NULL
XIRP2	129446	genome.wustl.edu	37	2	168102914	168102914	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_152381.4	+1	validated	p.R1671I	0.006	158	0%	59	28.8%	0	-	possibly_damaging(0.91)	tolerated(0.06)	deleterious(0.685)	NULL
XIRP2	129446	genome.wustl.edu	37	2	168115025	168115025	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001079810.2	+1	validated	p.D657Y	1.000	84	0%	58	27.6%	0	-	probably_damaging(0.979)	deleterious(0)	deleterious(0.867)	NULL
B3GALT1	8708	genome.wustl.edu	37	2	168725564	168725564	+	Silent	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_020981.2	+1	reviewed	p.V5	1.000	249	0%	119	34.5%	0	-	-	-	-	NULL
B3GALT1	8708	genome.wustl.edu	37	2	168726265	168726265	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_020981.2	+1	reviewed	p.T239I	1.000	181	0%	80	17.5%	0	-	probably_damaging(0.996)	tolerated(0.09)	deleterious(0.758)	HMMPfam_Galactosyl_T
STK39	27347	genome.wustl.edu	37	2	168994668	168994668	+	Missense_Mutation	SNP	T	T	G	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_013233.2	-1	reviewed	p.M302L	1.000	535	0%	154	13%	2	0%	benign(0)	tolerated(0.11)	neutral(0.272)	HMMSmart_SM00219,HMMSmart_SM00220,superfamily_Protein kinase-like (PK-like),HMMPfam_Pkinase
ABCB11	8647	genome.wustl.edu	37	2	169869924	169869924	+	Missense_Mutation	SNP	A	A	C	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_003742.2	-1	reviewed	p.F83V	1.000	185	0%	56	16.1%	0	-	possibly_damaging(0.872)	deleterious(0)	deleterious(0.784)	HMMPfam_ABC_membrane,superfamily_Multidrug resistance ABC transporter MsbA N-terminal domain
LRP2	4036	genome.wustl.edu	37	2	170022517	170022517	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_004525.2	-1	reviewed	p.R3895C	1.000	390	0.3%	148	11.5%	0	-	probably_damaging(1)	deleterious(0)	deleterious(0.945)	HMMPfam_Ldl_recept_a,HMMSmart_LDLa,superfamily_LDL_rcpt_classA_cys-rich
LRP2	4036	genome.wustl.edu	37	2	170044766	170044766	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_004525.2	-1	reviewed	p.R3014	0.576	202	0%	63	28.6%	0	-	-	-	-	HMMPfam_Ldl_recept_a,HMMSmart_LDLa,PatternScan_LDLRA_1,superfamily_LDL_rcpt_classA_cys-rich
LRP2	4036	genome.wustl.edu	37	2	170147444	170147444	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_004525.2	-1	reviewed	p.R278Q	0.262	471	0%	126	15.1%	0	-	benign(0.006)	tolerated(0.53)	neutral(0.007)	HMMPfam_Ldl_recept_a,HMMSmart_LDLa,superfamily_LDL_rcpt_classA_cys-rich
LRP2	4036	genome.wustl.edu	37	2	170148780	170148780	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_004525.2	-1	reviewed	p.G251V	0.384	528	0%	167	24.6%	0	-	possibly_damaging(0.649)	deleterious(0.01)	deleterious(0.634)	HMMPfam_Ldl_recept_a,HMMSmart_LDLa,PatternScan_LDLRA_1,superfamily_LDL_rcpt_classA_cys-rich
LRP2	4036	genome.wustl.edu	37	2	170177328	170177328	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_004525.2	-1	reviewed	p.G49E	0.999	303	0%	246	31.7%	0	-	probably_damaging(1)	deleterious(0.03)	deleterious(0.865)	HMMPfam_Ldl_recept_a,HMMSmart_LDLa,PatternScan_LDLRA_1,superfamily_LDL_rcpt_classA_cys-rich
BBS5	129880	genome.wustl.edu	37	2	170349409	170349409	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_152384.2	+1	reviewed	p.R138C	1.000	327	0.3%	256	21.9%	3	0%	probably_damaging(1)	deleterious(0)	deleterious(0.945)	HMMPfam_DUF1448
KBTBD10	10324	genome.wustl.edu	37	2	170366364	170366364	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_006063.2	+1	validated	p.L26I	1.000	195	0%	229	14.4%	0	-	probably_damaging(0.998)	tolerated(0.25)	deleterious(0.511)	superfamily_POZ domain,HMMPfam_BTB
PPIG	9360	genome.wustl.edu	37	2	170471187	170471187	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_004792.2	+1	validated	p.A167V	1.000	310	0%	63	31.7%	9	33.3%	unknown(0)	tolerated(0.21)	-	HMMPfam_Pro_isomerase,superfamily_Cyclophilin-like
PPIG	9360	genome.wustl.edu	37	2	170489743	170489743	+	Nonsense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_004792.2	+1	validated	p.G335*	1.000	367	0%	61	14.8%	34	0%	-	-	-	NULL
PPIG	9360	genome.wustl.edu	37	2	170492646	170492646	+	Silent	SNP	A	A	G	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_004792.2	+1	validated	p.R354	0.884	314	0%	93	23.7%	46	13%	-	-	-	NULL
PPIG	9360	genome.wustl.edu	37	2	170493518	170493518	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_004792.2	+1	validated	p.R584C	0.901	415	0%	307	25.7%	60	33.3%	probably_damaging(1)	deleterious(0)	deleterious(0.945)	NULL
C2orf77	129881	genome.wustl.edu	37	2	170502561	170502561	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001085447.1	-1	validated	p.S483	0.919	393	0%	97	17.5%	3	33.3%	-	-	-	NULL
PHOSPHO2	493911	genome.wustl.edu	37	2	170557988	170557988	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001008489.2	+1	provisional	p.V169	0.960	127	0%	116	9.5%	2	0%	-	-	-	HMMPfam_Put_Phosphatase,superfamily_HAD-like
KLHL23	151230	genome.wustl.edu	37	2	170591740	170591740	+	Missense_Mutation	SNP	A	A	C	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_144711.4	+1	validated	p.E72D	1.000	111	0%	128	29.7%	3	0%	probably_damaging(0.998)	deleterious(0)	deleterious(0.919)	HMMSmart_BTB,superfamily_BTB/POZ_fold,HMMPfam_BTB
METTL5	29081	genome.wustl.edu	37	2	170677647	170677647	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_014168.2	-1	provisional	p.D121N	1.000	318	0.6%	345	20.6%	82	28%	probably_damaging(1)	deleterious(0)	deleterious(0.945)	HMMPfam_MTS,superfamily_SSF53335
UBR3	130507	genome.wustl.edu	37	2	170762558	170762558	+	Nonsense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_172070.3	+1	validated	p.R555*	1.000	237	0%	75	26.7%	1	0%	-	-	-	NULL
UBR3	130507	genome.wustl.edu	37	2	170806302	170806302	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_172070.3	+1	validated	p.S1091Y	1.000	342	0%	92	13%	2	0%	probably_damaging(0.991)	deleterious(0)	deleterious(0.889)	NULL
UBR3	130507	genome.wustl.edu	37	2	170912049	170912049	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	ENST00000392632	+1	known	p.A642V	0.945	331	0%	95	20%	3	0%	-	-	-	NULL
MYO3B	140469	genome.wustl.edu	37	2	171256757	171256757	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_138995.3	+1	validated	p.F617	1.000	450	0.2%	131	24.4%	0	-	-	-	-	HMMPfam_Myosin_head,HMMSmart_SM00242,superfamily_P-loop containing nucleoside triphosphate hydrolases
GORASP2	26003	genome.wustl.edu	37	2	171818188	171818188	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_015530.3	+1	reviewed	p.P280L	1.000	345	0%	300	24%	56	10.7%	possibly_damaging(0.951)	deleterious(0.05)	deleterious(0.740)	HMMPfam_GRASP55_65
TLK1	9874	genome.wustl.edu	37	2	171867957	171867957	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_012290.4	-1	validated	p.D448Y	1.000	252	0.4%	136	14%	6	0%	probably_damaging(0.998)	deleterious(0.01)	deleterious(0.880)	superfamily_Protein kinase-like (PK-like)
METTL8	79828	genome.wustl.edu	37	2	172180809	172180809	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	ENST00000375258	-1	known	p.R366H	1.000	460	0.4%	122	10.7%	9	22.2%	probably_damaging(1)	deleterious(0)	deleterious(0.945)	superfamily_S-adenosyl-L-methionine-dependent methyltransferases
CYBRD1	79901	genome.wustl.edu	37	2	172409927	172409927	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_024843.3	+1	validated	p.I158M	0.841	430	0%	101	30.7%	5	0%	unknown(0)	-	-	HMMPfam_Cytochrom_B561,HMMSmart_B561
DYNC1I2	1781	genome.wustl.edu	37	2	172571894	172571894	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001378.1	+1	provisional	p.R151Q	1.000	223	0.4%	76	9.2%	35	0%	benign(0.269)	tolerated(0.09)	neutral(0.325)	NULL
DYNC1I2	1781	genome.wustl.edu	37	2	172582799	172582799	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001378.1	+1	provisional	p.S289F	1.000	516	0%	109	22.9%	26	3.8%	benign(0.247)	deleterious(0.02)	neutral(0.408)	superfamily_WD40 repeat-like
SLC25A12	8604	genome.wustl.edu	37	2	172693643	172693643	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_003705.3	-1	reviewed	p.E200D	1.000	327	0%	87	17.2%	2	0%	benign(0.003)	tolerated(0.43)	neutral(0.013)	superfamily_SSF47473
HAT1	8520	genome.wustl.edu	37	2	172822368	172822368	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_003642.3	+1	reviewed	p.W184R	1.000	554	0%	129	24%	13	0%	probably_damaging(1)	deleterious(0)	deleterious(0.945)	superfamily_Acyl_CoA_acyltransferase,HMMPfam_Hat1_N
ITGA6	3655	genome.wustl.edu	37	2	173338826	173338826	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001079818.1	+1	reviewed	p.E273D	0.268	491	0.2%	239	20.9%	2	0%	benign(0)	tolerated(0.3)	neutral(0.029)	HMMSmart_SM00191,superfamily_Integrin alpha N-terminal domain
ITGA6	3655	genome.wustl.edu	37	2	173354325	173354325	+	Missense_Mutation	SNP	C	C	G	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001079818.1	+1	reviewed	p.S873C	0.996	271	0%	90	20%	3	0%	possibly_damaging(0.92)	tolerated(0.07)	deleterious(0.690)	HMMPfam_Integrin_alpha2,superfamily_Integrin domains
RAPGEF4	11069	genome.wustl.edu	37	2	173679007	173679007	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_007023.3	+1	validated	p.D100Y	1.000	211	0%	76	23.7%	0	-	probably_damaging(1)	deleterious(0.04)	deleterious(0.849)	HMMPfam_cNMP_binding,HMMSmart_SM00100,superfamily_cAMP-binding domain-like
ZAK	51776	genome.wustl.edu	37	2	174085891	174085891	+	Missense_Mutation	SNP	T	T	G	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_133646.2	+1	reviewed	p.L334R	1.000	148	0%	99	22.2%	5	20%	probably_damaging(0.982)	deleterious(0.04)	deleterious(0.775)	NULL
ZAK	51776	genome.wustl.edu	37	2	174131367	174131367	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_016653.2	+1	reviewed	p.S764	0.348	83	0%	29	31%	2	0%	-	-	-	NULL
CDCA7	83879	genome.wustl.edu	37	2	174227991	174227991	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_031942.4	+1	reviewed	p.S141I	0.993	73	0%	59	30.5%	3	0%	probably_damaging(0.984)	tolerated(0.14)	deleterious(0.680)	NULL
SP3	6670	genome.wustl.edu	37	2	174820452	174820452	+	Missense_Mutation	SNP	T	T	G	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_003111.4	-1	reviewed	p.N263T	1.000	231	0%	170	11.8%	4	25%	probably_damaging(0.979)	tolerated(0.11)	deleterious(0.694)	NULL
CIR1	9541	genome.wustl.edu	37	2	175213808	175213808	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_004882.3	-1	validated	p.S257F	0.250	92	0%	109	29.4%	38	21%	unknown(0)	tolerated(0.06)	-	NULL
CIR1	9541	genome.wustl.edu	37	2	175216390	175216390	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_004882.3	-1	validated	p.R183Q	1.000	376	0%	269	20.4%	37	18.9%	unknown(0)	tolerated(0.3)	-	NULL
SCRN3	79634	genome.wustl.edu	37	2	175263070	175263070	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_024583.3	+1	validated	p.R20M	0.978	377	0%	471	25.3%	1	0%	benign(0.257)	tolerated(0.24)	neutral(0.064)	NULL
SCRN3	79634	genome.wustl.edu	37	2	175292498	175292498	+	Nonsense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_024583.3	+1	validated	p.E384*	0.922	257	0%	64	25%	3	33.3%	-	-	-	NULL
GPR155	151556	genome.wustl.edu	37	2	175304647	175304647	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001033045.2	-1	validated	p.R764Q	0.834	579	0%	229	28.8%	1	100%	benign(0.01)	tolerated(0.45)	neutral(0.013)	"HMMSmart_SM00049,superfamily_""Winged helix"" DNA-binding domain"
GPR155	151556	genome.wustl.edu	37	2	175326397	175326397	+	Missense_Mutation	SNP	A	A	C	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001033045.2	-1	validated	p.L463R	1.000	150	0%	58	19%	0	-	probably_damaging(0.996)	deleterious(0.01)	deleterious(0.867)	NULL
GPR155	151556	genome.wustl.edu	37	2	175337764	175337764	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001033045.2	-1	validated	p.T263	0.989	141	0%	89	12.4%	1	0%	-	-	-	HMMPfam_Mem_trans
GPR155	151556	genome.wustl.edu	37	2	175337829	175337829	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001033045.2	-1	validated	p.E242K	1.000	198	0%	119	19.3%	0	-	benign(0.053)	tolerated(0.12)	neutral(0.264)	HMMPfam_Mem_trans
WIPF1	7456	genome.wustl.edu	37	2	175437030	175437030	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001077269.1	-1	reviewed	p.R168Q	1.000	67	0%	90	10%	9	0%	probably_damaging(0.994)	tolerated(0.29)	deleterious(0.481)	NULL
WIPF1	7456	genome.wustl.edu	37	2	175437119	175437119	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001077269.1	-1	reviewed	p.A138	1.000	148	0%	118	28%	20	0%	-	-	-	NULL
LOC100133109	100133109	genome.wustl.edu	37	2	175584910	175584910	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	XM_001716442.2	-1	model	p.S23N	1.000	106	0%	142	7.7%	210	0%	-	-	-	NULL
CHRNA1	1134	genome.wustl.edu	37	2	175613349	175613349	+	Missense_Mutation	SNP	A	A	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001039523.2	-1	reviewed	p.Y426N	1.000	354	0%	98	13.3%	0	-	probably_damaging(1)	deleterious(0.01)	deleterious(0.905)	HMMPfam_Neur_chan_memb,superfamily_Neurotransmitter-gated ion-channel transmembrane pore
CHN1	1123	genome.wustl.edu	37	2	175676251	175676251	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001822.4	-1	reviewed	p.A318T	1.000	326	0%	118	11%	5	0%	possibly_damaging(0.799)	deleterious(0.01)	deleterious(0.707)	HMMPfam_RhoGAP,HMMSmart_SM00324,superfamily_GTPase activation domain GAP
ATF2	1386	genome.wustl.edu	37	2	175939496	175939496	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001880.2	-1	reviewed	p.Q453H	1.000	198	0%	36	11.1%	9	0%	probably_damaging(1)	deleterious(0)	deleterious(0.945)	NULL
ATF2	1386	genome.wustl.edu	37	2	175962219	175962219	+	Nonsense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001880.2	-1	reviewed	p.R311*	0.774	165	0%	60	13.3%	6	0%	-	-	-	NULL
ATF2	1386	genome.wustl.edu	37	2	175978733	175978733	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001880.2	-1	reviewed	p.A244T	1.000	207	0%	203	24.6%	5	0%	benign(0)	tolerated(0.21)	neutral(0.044)	NULL
KIAA1715	80856	genome.wustl.edu	37	2	176812340	176812340	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_030650.1	-1	validated	p.P192S	1.000	309	0%	86	25.6%	2	0%	benign(0.006)	tolerated(0.18)	neutral(0.056)	NULL
HOXD13	3239	genome.wustl.edu	37	2	176958282	176958282	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_000523.3	+1	reviewed	p.A222T	0.412	20	0%	40	27.5%	0	-	benign(0)	tolerated(0.47)	neutral(0.011)	NULL
HOXD11	3237	genome.wustl.edu	37	2	176972185	176972185	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_021192.2	+1	reviewed	p.F34	1.000	29	0%	42	23.8%	5	40%	-	-	-	NULL
HOXD10	3236	genome.wustl.edu	37	2	176981721	176981721	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_002148.3	+1	reviewed	p.L54I	1.000	204	0%	346	28.3%	24	0%	benign(0.075)	tolerated(0.21)	neutral(0.049)	NULL
HOXD3	3232	genome.wustl.edu	37	2	177033956	177033956	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_006898.4	+1	reviewed	p.T38	0.835	111	0%	156	28.8%	0	-	-	-	-	NULL
HOXD1	3231	genome.wustl.edu	37	2	177054313	177054313	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	ENST00000375170	+1	known	p.R169Q	0.000	5	0.000	16	0.250	0	-	unknown(0)	deleterious(0.05)	-	NULL
TTC30A	92104	genome.wustl.edu	37	2	178482167	178482167	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_152275.3	-1	validated	p.E421D	1.000	603	0%	718	14.5%	1	0%	benign(0.033)	tolerated(0.12)	neutral(0.262)	superfamily_SSF48452
TTC30A	92104	genome.wustl.edu	37	2	178483169	178483169	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_152275.3	-1	validated	p.Q87	1.000	45	0%	84	23.8%	1	0%	-	-	-	superfamily_SSF48452
LOC100128904	100128904	genome.wustl.edu	37	2	178483193	178483193	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	XM_001722332.2	+1	model	p.L90F	1.000	44	0%	66	15.2%	1	0%	-	-	-	NULL
PDE11A	50940	genome.wustl.edu	37	2	178762823	178762823	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_016953.3	-1	reviewed	p.R422C	1.000	445	0%	65	24.6%	0	-	probably_damaging(0.998)	deleterious(0)	deleterious(0.919)	HMMPfam_GAF,HMMSmart_SM00065,superfamily_GAF domain-like
RBM45	129831	genome.wustl.edu	37	2	178990822	178990822	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_152945.2	+1	provisional	p.K448N	0.992	383	0%	173	26.6%	12	0%	possibly_damaging(0.739)	tolerated(0.13)	deleterious(0.523)	HMMPfam_RRM_1,HMMSmart_SM00360,superfamily_RNA-binding domain RBD
OSBPL6	114880	genome.wustl.edu	37	2	179201129	179201129	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_145739.1	+1	reviewed	p.Q232H	1.000	119	0%	32	25%	0	-	possibly_damaging(0.654)	tolerated(0.07)	deleterious(0.549)	NULL
OSBPL6	114880	genome.wustl.edu	37	2	179238699	179238699	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_145739.1	+1	reviewed	p.S497Y	1.000	302	0%	88	15.9%	0	-	benign(0.225)	deleterious(0)	neutral(0.467)	NULL
DFNB59	494513	genome.wustl.edu	37	2	179320829	179320829	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001042702.3	+1	reviewed	p.R167Q	0.984	132	0%	133	13.5%	0	-	benign(0.275)	tolerated(1)	neutral(0.029)	HMMPfam_Gasdermin
TTN	7273	genome.wustl.edu	37	2	179393076	179393076	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	ENST00000356127	-1	known	p.D33198N	1.000	435	0%	118	27.1%	0	-	benign(0.002)	-	-	HMMSmart_SM00408,HMMSmart_SM00409,HMMPfam_I-set
TTN	7273	genome.wustl.edu	37	2	179393620	179393620	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	ENST00000356127	-1	known	p.E33050K	0.976	479	0%	137	27%	0	-	possibly_damaging(0.662)	-	-	HMMSmart_SM00408,HMMSmart_SM00409,HMMPfam_I-set
TTN	7273	genome.wustl.edu	37	2	179395862	179395862	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	ENST00000356127	-1	known	p.V32590	0.981	193	0%	63	12.7%	0	-	-	-	-	HMMSmart_SM00406,HMMSmart_SM00408,HMMSmart_SM00409,HMMPfam_I-set
TTN	7273	genome.wustl.edu	37	2	179396060	179396060	+	Silent	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_133378.4	-1	reviewed	p.P32526H	0.009	165	0%	48	16.7%	0	-	-	-	-	NULL
TTN	7273	genome.wustl.edu	37	2	179402501	179402501	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	ENST00000356127	-1	known	p.R30575W	1.000	141	0%	35	31.4%	0	-	probably_damaging(1)	-	-	HMMSmart_SM00408,HMMSmart_SM00409,HMMPfam_I-set
TTN	7273	genome.wustl.edu	37	2	179403940	179403940	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	ENST00000356127	-1	known	p.D30338N	1.000	369	0%	91	11%	1	100%	probably_damaging(1)	-	-	HMMPfam_fn3,HMMSmart_SM00060
TTN	7273	genome.wustl.edu	37	2	179403975	179403975	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	ENST00000356127	-1	known	p.P30326H	1.000	347	0%	90	22.2%	3	0%	probably_damaging(0.999)	-	-	NULL
TTN	7273	genome.wustl.edu	37	2	179403976	179403976	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	ENST00000356127	-1	known	p.P30326T	1.000	342	0%	85	11.8%	3	0%	possibly_damaging(0.925)	-	-	NULL
TTN	7273	genome.wustl.edu	37	2	179405008	179405008	+	Nonsense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	ENST00000356127	-1	known	p.G30059*	1.000	525	0%	141	19.1%	0	-	-	-	-	HMMPfam_fn3,HMMSmart_SM00060
TTN	7273	genome.wustl.edu	37	2	179408016	179408016	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_133378.4	-1	reviewed	p.T29660M	0.030	210	0%	47	38.3%	0	-	-	-	-	NULL
TTN	7273	genome.wustl.edu	37	2	179415916	179415916	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	ENST00000356127	-1	known	p.R27878C	1.000	256	0%	49	10.2%	1	0%	probably_damaging(0.999)	-	-	HMMPfam_fn3,HMMSmart_SM00060
TTN	7273	genome.wustl.edu	37	2	179425461	179425461	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	ENST00000356127	-1	known	p.E25896D	1.000	107	0%	59	16.9%	0	-	probably_damaging(0.974)	-	-	HMMPfam_fn3,HMMSmart_SM00060
TTN	7273	genome.wustl.edu	37	2	179425602	179425602	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_133378.4	-1	reviewed	p.T25851I	1.000	342	0%	66	30.3%	0	-	-	-	-	NULL
TTN	7273	genome.wustl.edu	37	2	179428118	179428118	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	ENST00000356127	-1	known	p.D25011N	1.000	149	0%	54	33.3%	0	-	probably_damaging(0.992)	-	-	HMMPfam_fn3,HMMSmart_SM00060
TTN	7273	genome.wustl.edu	37	2	179431190	179431190	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	ENST00000356127	-1	known	p.Q23987K	1.000	190	0%	48	35.4%	0	-	possibly_damaging(0.662)	-	-	HMMPfam_fn3,HMMSmart_SM00060
TTN	7273	genome.wustl.edu	37	2	179431650	179431650	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	ENST00000356127	-1	known	p.M23833I	1.000	84	0%	27	33.3%	0	-	benign(0.03)	-	-	HMMPfam_fn3,HMMSmart_SM00060
TTN	7273	genome.wustl.edu	37	2	179432795	179432795	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	ENST00000356127	-1	known	p.V23452I	0.939	441	0%	87	14.9%	0	-	possibly_damaging(0.444)	-	-	HMMPfam_fn3,HMMSmart_SM00060
TTN	7273	genome.wustl.edu	37	2	179434772	179434772	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	ENST00000356127	-1	known	p.R22793C	1.000	367	0%	113	12.4%	0	-	probably_damaging(0.995)	-	-	HMMPfam_fn3,HMMSmart_SM00060
TTN	7273	genome.wustl.edu	37	2	179437667	179437667	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	ENST00000356127	-1	known	p.R21828C	0.996	256	0%	61	23%	0	-	probably_damaging(1)	-	-	HMMPfam_fn3,HMMSmart_SM00060
TTN	7273	genome.wustl.edu	37	2	179439460	179439460	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	ENST00000356127	-1	known	p.R21230H	1.000	278	0.4%	59	18.6%	0	-	probably_damaging(1)	-	-	HMMPfam_fn3,HMMSmart_SM00060
TTN	7273	genome.wustl.edu	37	2	179440281	179440281	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_133378.4	-1	reviewed	p.P20958L	0.122	250	0%	44	15.9%	0	-	-	-	-	NULL
TTN	7273	genome.wustl.edu	37	2	179442356	179442356	+	Nonsense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	ENST00000356127	-1	known	p.E20363*	1.000	385	0%	97	14.4%	0	-	-	-	-	NULL
TTN	7273	genome.wustl.edu	37	2	179446352	179446352	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	ENST00000356127	-1	known	p.T19645A	1.000	260	0.4%	36	22.2%	0	-	possibly_damaging(0.888)	-	-	HMMPfam_fn3,HMMSmart_SM00060
TTN	7273	genome.wustl.edu	37	2	179458949	179458949	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	ENST00000356127	-1	known	p.D16821N	0.999	185	0%	33	24.2%	0	-	benign(0.29)	-	-	HMMPfam_I-set
TTN	7273	genome.wustl.edu	37	2	179470279	179470279	+	Nonsense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	ENST00000356127	-1	known	p.R15347*	0.005	258	0%	40	37.5%	0	-	-	-	-	HMMPfam_fn3,HMMSmart_SM00060
TTN	7273	genome.wustl.edu	37	2	179480173	179480173	+	Nonsense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	ENST00000356127	-1	known	p.R13599*	1.000	215	0%	76	15.8%	0	-	-	-	-	HMMPfam_fn3,HMMSmart_SM00060
TTN	7273	genome.wustl.edu	37	2	179482119	179482119	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	ENST00000356127	-1	known	p.R13330Q	0.904	388	0%	69	27.5%	1	0%	benign(0.287)	-	-	HMMPfam_fn3,HMMSmart_SM00060
TTN	7273	genome.wustl.edu	37	2	179485877	179485877	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	ENST00000356127	-1	known	p.V12622I	0.837	366	0.3%	145	22.1%	0	-	possibly_damaging(0.539)	-	-	HMMSmart_SM00408,HMMSmart_SM00409,HMMPfam_I-set
TTN	7273	genome.wustl.edu	37	2	179486292	179486292	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	ENST00000356127	-1	known	p.L12519M	1.000	430	0%	124	33.1%	0	-	possibly_damaging(0.741)	-	-	HMMSmart_SM00408,HMMSmart_SM00409,HMMPfam_ig
TTN	7273	genome.wustl.edu	37	2	179489336	179489336	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	ENST00000356127	-1	known	p.E12323K	1.000	205	0%	59	27.1%	0	-	benign(0.099)	-	-	HMMSmart_SM00408,HMMSmart_SM00409,HMMPfam_I-set
TTN	7273	genome.wustl.edu	37	2	179490023	179490023	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	ENST00000356127	-1	known	p.T12274N	1.000	506	0%	98	19.4%	0	-	possibly_damaging(0.539)	-	-	HMMSmart_SM00408,HMMSmart_SM00409,HMMPfam_I-set
TTN	7273	genome.wustl.edu	37	2	179504785	179504785	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	ENST00000426232	-1	known	p.A247T	1.000	507	0%	143	25.2%	0	-	-	-	-	NULL
TTN	7273	genome.wustl.edu	37	2	179509307	179509307	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	ENST00000356127	-1	known	p.V10914A	0.997	519	0%	106	24.5%	0	-	unknown(0)	tolerated(0.17)	-	NULL
TTN	7273	genome.wustl.edu	37	2	179528071	179528071	+	Nonsense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	ENST00000392423	-1	known	p.E482*	0.073	582	0%	102	22.5%	0	-	-	-	-	NULL
TTN	7273	genome.wustl.edu	37	2	179542633	179542633	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	ENST00000356127	-1	known	p.R10092C	0.360	264	0%	86	30.2%	0	-	unknown(0)	-	-	NULL
TTN	7273	genome.wustl.edu	37	2	179543208	179543208	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	ENST00000356127	-1	known	p.K10037N	1.000	205	0%	64	10.9%	0	-	unknown(0)	tolerated(0.28)	-	HMMPfam_PPAK
TTN	7273	genome.wustl.edu	37	2	179559599	179559599	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	ENST00000356127	-1	known	p.K9191	1.000	544	0%	210	22.4%	0	-	-	-	-	NULL
TTN	7273	genome.wustl.edu	37	2	179560832	179560832	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	ENST00000356127	-1	known	p.E9079K	0.154	833	0%	433	20.1%	0	-	unknown(0)	deleterious(0)	-	NULL
TTN	7273	genome.wustl.edu	37	2	179571353	179571353	+	Missense_Mutation	SNP	T	T	G	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	ENST00000356127	-1	known	p.K8506Q	1.000	333	0%	110	20%	0	-	unknown(0)	-	-	HMMSmart_SM00408,HMMSmart_SM00409,HMMPfam_I-set
TTN	7273	genome.wustl.edu	37	2	179581892	179581892	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	ENST00000356127	-1	known	p.A7279	0.998	132	0%	36	33.3%	0	-	-	-	-	HMMSmart_SM00406,HMMSmart_SM00408,HMMSmart_SM00409,HMMPfam_I-set
TTN	7273	genome.wustl.edu	37	2	179582026	179582026	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	ENST00000356127	-1	known	p.V7235I	0.739	161	0%	57	26.3%	0	-	unknown(0)	-	-	HMMSmart_SM00406,HMMSmart_SM00408,HMMSmart_SM00409,HMMPfam_I-set
TTN	7273	genome.wustl.edu	37	2	179582782	179582782	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	ENST00000356127	-1	known	p.N7073	0.001	463	0%	86	26.7%	0	-	-	-	-	HMMSmart_SM00406,HMMSmart_SM00408,HMMSmart_SM00409,HMMPfam_I-set
TTN	7273	genome.wustl.edu	37	2	179584166	179584166	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	ENST00000356127	-1	known	p.P6740H	1.000	131	0%	35	22.9%	0	-	unknown(0)	-	-	NULL
TTN	7273	genome.wustl.edu	37	2	179585876	179585876	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	ENST00000356127	-1	known	p.E6380K	0.999	330	0%	76	14.5%	0	-	unknown(0)	-	-	HMMSmart_SM00408,HMMSmart_SM00409,HMMPfam_I-set
TTN	7273	genome.wustl.edu	37	2	179590558	179590558	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	ENST00000356127	-1	known	p.Y5587H	1.000	383	0%	90	17.8%	0	-	unknown(0)	-	-	HMMSmart_SM00408,HMMSmart_SM00409,HMMPfam_I-set
TTN	7273	genome.wustl.edu	37	2	179592998	179592998	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	ENST00000356127	-1	known	p.G5274V	1.000	209	0%	42	9.5%	1	0%	unknown(0)	-	-	HMMSmart_SM00406,HMMSmart_SM00408,HMMSmart_SM00409,HMMPfam_I-set
TTN	7273	genome.wustl.edu	37	2	179593050	179593050	+	Nonsense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	ENST00000356127	-1	known	p.E5257*	1.000	272	0.7%	61	11.5%	0	-	-	-	-	HMMSmart_SM00406,HMMSmart_SM00408,HMMSmart_SM00409,HMMPfam_I-set
TTN	7273	genome.wustl.edu	37	2	179599652	179599652	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	ENST00000356127	-1	known	p.R3756H	1.000	126	0%	42	16.7%	0	-	unknown(0)	-	-	HMMSmart_SM00406,HMMSmart_SM00408,HMMSmart_SM00409,HMMPfam_I-set
TTN	7273	genome.wustl.edu	37	2	179604620	179604620	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	ENST00000342175	-1	known	p.S4276L	0.080	242	0%	79	8.9%	0	-	benign(0.29)	-	-	NULL
TTN	7273	genome.wustl.edu	37	2	179613368	179613368	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_133379.3	-1	reviewed	p.D4587N	0.030	334	0%	71	12.7%	2	0%	benign(0.023)	deleterious(0)	neutral(0.446)	NULL
TTN	7273	genome.wustl.edu	37	2	179613743	179613743	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_133379.3	-1	reviewed	p.E4462K	0.055	307	0%	84	27.4%	0	-	benign(0.121)	tolerated(0.2)	neutral(0.059)	NULL
TTN	7273	genome.wustl.edu	37	2	179614838	179614838	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_133379.3	-1	reviewed	p.E4097K	0.158	234	0%	56	14.3%	0	-	possibly_damaging(0.662)	tolerated(0.47)	neutral(0.245)	NULL
TTN	7273	genome.wustl.edu	37	2	179641678	179641678	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_133379.3	-1	reviewed	p.R1638I	1.000	275	0%	74	25.7%	0	-	benign(0.014)	-	-	HMMSmart_IG,HMMPfam_I-set,superfamily_SSF48726
TTN	7273	genome.wustl.edu	37	2	179643755	179643755	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_133379.3	-1	reviewed	p.P1352S	1.000	288	0%	42	11.9%	0	-	benign(0.014)	-	-	HMMSmart_IGc2,HMMPfam_I-set,superfamily_SSF48726
TTN	7273	genome.wustl.edu	37	2	179659911	179659911	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_133379.3	-1	reviewed	p.R328H	0.985	144	0%	46	21.7%	0	-	unknown(0)	-	-	NULL
TTN	7273	genome.wustl.edu	37	2	179664626	179664626	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_133379.3	-1	reviewed	p.V199L	0.999	473	0%	114	19.3%	0	-	benign(0.058)	-	-	NULL
ZNF385B	151126	genome.wustl.edu	37	2	180310426	180310426	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_152520.4	-1	validated	p.R316C	1.000	358	0.3%	248	31%	1	100%	probably_damaging(1)	deleterious(0)	deleterious(0.945)	HMMSmart_SM00451
ITGA4	3676	genome.wustl.edu	37	2	182360127	182360127	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_000885.4	+1	reviewed	p.S457P	1.000	809	0%	257	21.4%	1	0%	probably_damaging(0.991)	deleterious(0.05)	deleterious(0.789)	HMMSmart_SM00191,superfamily_Integrin alpha N-terminal domain
CERKL	375298	genome.wustl.edu	37	2	182430215	182430215	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001030311.2	-1	reviewed	p.A234T	0.000	304	0%	68	33.8%	0	-	benign(0.016)	tolerated(0.82)	neutral(0.001)	HMMPfam_DAGK_cat
NEUROD1	4760	genome.wustl.edu	37	2	182543103	182543103	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_002500.2	-1	reviewed	p.S162N	1.000	80	0%	121	24.8%	0	-	probably_damaging(0.963)	tolerated(0.28)	neutral(0.437)	NULL
SSFA2	6744	genome.wustl.edu	37	2	182774685	182774685	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001130445.1	+1	validated	p.T491	0.790	187	0%	69	17.4%	5	0%	-	-	-	NULL
DNAJC10	54431	genome.wustl.edu	37	2	183582839	183582839	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_018981.1	+1	provisional	p.D9G	0.066	366	0%	502	20.3%	3	0%	benign(0)	deleterious(0.01)	neutral(0.406)	NULL
NUP35	129401	genome.wustl.edu	37	2	184016243	184016243	+	Silent	SNP	T	T	C	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_138285.3	+1	reviewed	p.S135	0.977	234	0%	41	24.4%	7	28.5%	-	-	-	NULL
FSIP2	401024	genome.wustl.edu	37	2	186678360	186678360	+	Missense_Mutation	SNP	T	T	G	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	ENST00000424728	+1	known	p.L6639R	1.000	179	0%	23	21.7%	0	-	probably_damaging(0.991)	deleterious(0)	deleterious(0.889)	NULL
FSIP2	401024	genome.wustl.edu	37	2	186696583	186696583	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	ENST00000424728	+1	known	p.A6854E	0.000	501	0%	119	29.4%	0	-	benign(0.104)	deleterious(0.02)	neutral(0.391)	NULL
ZC3H15	55854	genome.wustl.edu	37	2	187373395	187373395	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_018471.2	+1	validated	p.L406I	1.000	491	0%	248	12.1%	29	3.4%	probably_damaging(0.999)	deleterious(0)	deleterious(0.935)	NULL
ITGAV	3685	genome.wustl.edu	37	2	187521027	187521027	+	Nonsense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_002210.3	+1	reviewed	p.R540*	0.983	521	0.2%	249	10.8%	0	-	-	-	-	HMMPfam_Integrin_alpha2,superfamily_Integrin domains
ITGAV	3685	genome.wustl.edu	37	2	187529285	187529285	+	Nonsense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_002210.3	+1	reviewed	p.Q664*	1.000	200	0%	51	21.6%	1	0%	-	-	-	HMMPfam_Integrin_alpha2,superfamily_Integrin domains
FAM171B	165215	genome.wustl.edu	37	2	187626988	187626988	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_177454.3	+1	validated	p.A640V	1.000	177	0%	30	30%	0	-	probably_damaging(0.989)	deleterious(0.02)	deleterious(0.823)	HMMPfam_UPF0560
ZSWIM2	151112	genome.wustl.edu	37	2	187693069	187693069	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_182521.2	-1	validated	p.P515H	0.985	241	0%	73	24.7%	0	-	probably_damaging(1)	deleterious(0)	deleterious(0.945)	NULL
ZSWIM2	151112	genome.wustl.edu	37	2	187693137	187693137	+	Missense_Mutation	SNP	A	A	C	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_182521.2	-1	validated	p.H492Q	1.000	147	0%	49	20.4%	0	-	benign(0.027)	tolerated(0.75)	neutral(0.003)	NULL
ZSWIM2	151112	genome.wustl.edu	37	2	187702089	187702089	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_182521.2	-1	validated	p.H229	0.999	437	0.2%	130	26.2%	0	-	-	-	-	HMMSmart_ZnF_ZZ,superfamily_SSF57850
TFPI	7035	genome.wustl.edu	37	2	188343494	188343494	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001032281.2	-1	reviewed	p.A222V	1.000	336	0.3%	80	28.7%	2	0%	probably_damaging(0.983)	deleterious(0)	deleterious(0.873)	NULL
COL3A1	1281	genome.wustl.edu	37	2	189871143	189871143	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_000090.3	+1	reviewed	p.G1056S	1.000	201	0%	70	18.6%	343	0%	probably_damaging(1)	deleterious(0.01)	deleterious(0.905)	HMMPfam_Collagen
COL3A1	1281	genome.wustl.edu	37	2	189873774	189873774	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_000090.3	+1	reviewed	p.A1217V	0.993	229	0%	85	25.9%	602	0%	unknown(0)	tolerated(0.25)	-	NULL
COL3A1	1281	genome.wustl.edu	37	2	189875082	189875082	+	Silent	SNP	T	T	G	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_000090.3	+1	reviewed	p.G1334	0.717	356	0.8%	120	26.7%	1253	0.3%	-	-	-	HMMPfam_COLFI,HMMSmart_SM00038
COL5A2	1290	genome.wustl.edu	37	2	189899755	189899755	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_000393.3	-1	reviewed	p.D1414N	1.000	590	0%	129	26.4%	46	0%	possibly_damaging(0.774)	-	-	HMMPfam_COLFI,HMMSmart_COLFI
COL5A2	1290	genome.wustl.edu	37	2	189925480	189925480	+	Silent	SNP	T	T	C	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_000393.3	-1	reviewed	p.G687	0.099	294	0%	75	16%	8	0%	-	-	-	HMMPfam_Collagen
WDR75	84128	genome.wustl.edu	37	2	190315633	190315633	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_032168.1	+1	provisional	p.Y74C	1.000	822	0%	263	26.6%	3	0%	probably_damaging(1)	deleterious(0)	deleterious(0.945)	HMMSmart_WD40,superfamily_WD40_like,HMMPfam_WD40
SLC40A1	30061	genome.wustl.edu	37	2	190428825	190428825	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_014585.5	-1	reviewed	p.R296Q	0.998	148	0%	44	9.1%	20	0%	benign(0.161)	tolerated(0.34)	neutral(0.037)	HMMPfam_FPN1,superfamily_MFS general substrate transporter
ASNSD1	54529	genome.wustl.edu	37	2	190535186	190535186	+	Missense_Mutation	SNP	A	A	C	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_019048.2	+1	validated	p.N556H	1.000	251	0%	303	29.4%	67	10.4%	benign(0.103)	deleterious(0.02)	neutral(0.391)	HMMPfam_Asn_synthase,superfamily_Adenine nucleotide alpha hydrolases-like
ANKAR	150709	genome.wustl.edu	37	2	190541448	190541448	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_144708.3	+1	validated	p.V7I	0.001	190	0%	240	27.5%	0	-	benign(0.002)	tolerated(0.69)	neutral(0.002)	NULL
PMS1	5378	genome.wustl.edu	37	2	190656631	190656631	+	Silent	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_000534.4	+1	reviewed	p.S32	0.655	346	0%	275	21.1%	0	-	-	-	-	HMMPfam_HATPase_c,HMMSmart_HATPase_c,superfamily_ATP_bd_ATPase
MSTN	2660	genome.wustl.edu	37	2	190924966	190924966	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_005259.2	-1	reviewed	p.R190Q	1.000	455	0%	102	20.6%	0	-	probably_damaging(0.994)	tolerated(0.11)	deleterious(0.724)	HMMPfam_TGFb_propeptide
MFSD6	54842	genome.wustl.edu	37	2	191301982	191301982	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_017694.3	+1	validated	p.P409	0.092	234	0%	187	27.3%	0	-	-	-	-	superfamily_MFS_gen_substrate_transporter
GLS	2744	genome.wustl.edu	37	2	191827564	191827564	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_014905.3	+1	validated	p.N621S	1.000	161	0%	24	29.2%	3	33.3%	benign(0.178)	tolerated(0.15)	neutral(0.258)	HMMPfam_Ank,HMMSmart_SM00248,superfamily_Ankyrin repeat
STAT1	6772	genome.wustl.edu	37	2	191841680	191841680	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_007315.3	-1	reviewed	p.R649C	1.000	370	0%	110	16.4%	32	0%	probably_damaging(1)	deleterious(0.05)	deleterious(0.845)	HMMPfam_SH2,superfamily_SH2 domain
STAT4	6775	genome.wustl.edu	37	2	191905836	191905836	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_003151.2	-1	reviewed	p.T430	0.995	159	0%	49	40.8%	1	0%	-	-	-	superfamily_P53_like_DNA_bnd,HMMPfam_STAT_bind
STAT4	6775	genome.wustl.edu	37	2	191941006	191941006	+	Missense_Mutation	SNP	T	T	G	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_003151.2	-1	reviewed	p.N107H	1.000	282	0%	126	13.5%	0	-	possibly_damaging(0.891)	tolerated(0.07)	deleterious(0.669)	HMMPfam_STAT_int,superfamily_STAT
MYO1B	4430	genome.wustl.edu	37	2	192225402	192225402	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001130158.1	+1	validated	p.R203I	1.000	434	0%	202	29.2%	0	-	probably_damaging(1)	deleterious(0)	deleterious(0.945)	HMMPfam_Myosin_head,HMMSmart_SM00242,superfamily_P-loop containing nucleoside triphosphate hydrolases
DNAH7	56171	genome.wustl.edu	37	2	196619132	196619132	+	Missense_Mutation	SNP	A	A	C	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_018897.2	-1	validated	p.I3898S	1.000	261	0%	100	22%	2	100%	probably_damaging(0.998)	deleterious(0)	deleterious(0.919)	HMMPfam_Dynein_heavy
DNAH7	56171	genome.wustl.edu	37	2	196659121	196659121	+	Nonsense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_018897.2	-1	validated	p.R3553*	1.000	334	0%	63	19%	0	-	-	-	-	HMMPfam_Dynein_heavy
DNAH7	56171	genome.wustl.edu	37	2	196664154	196664154	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_018897.2	-1	validated	p.R3407C	0.164	164	0%	41	29.3%	0	-	probably_damaging(0.996)	deleterious(0.03)	deleterious(0.826)	HMMPfam_Dynein_heavy
DNAH7	56171	genome.wustl.edu	37	2	196671489	196671489	+	Missense_Mutation	SNP	A	A	C	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_018897.2	-1	validated	p.I3384S	0.992	386	0%	104	23.1%	1	0%	benign(0.041)	deleterious(0)	neutral(0.447)	HMMPfam_Dynein_heavy
DNAH7	56171	genome.wustl.edu	37	2	196673444	196673444	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_018897.2	-1	validated	p.R3349C	0.003	485	0%	112	17.9%	0	-	benign(0.389)	tolerated(0.05)	deleterious(0.470)	HMMPfam_Dynein_heavy
DNAH7	56171	genome.wustl.edu	37	2	196723313	196723313	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_018897.2	-1	validated	p.A2651V	1.000	460	0%	87	24.1%	0	-	probably_damaging(1)	deleterious(0)	deleterious(0.945)	NULL
DNAH7	56171	genome.wustl.edu	37	2	196765218	196765218	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_018897.2	-1	validated	p.A1446T	1.000	183	0%	31	12.9%	0	-	probably_damaging(1)	deleterious(0.01)	deleterious(0.905)	HMMSmart_SM00382,superfamily_P-loop containing nucleoside triphosphate hydrolases
DNAH7	56171	genome.wustl.edu	37	2	196791174	196791174	+	Missense_Mutation	SNP	T	T	G	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_018897.2	-1	validated	p.Q1196H	0.979	317	0%	84	28.6%	0	-	benign(0)	tolerated(0.39)	neutral(0.016)	NULL
DNAH7	56171	genome.wustl.edu	37	2	196891628	196891628	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_018897.2	-1	validated	p.D175Y	1.000	384	0%	99	14.1%	0	-	possibly_damaging(0.901)	deleterious(0.04)	deleterious(0.706)	NULL
CCDC150	284992	genome.wustl.edu	37	2	197521495	197521495	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001080539.1	+1	provisional	p.C105	0.995	400	0%	117	19.7%	0	-	-	-	-	NULL
CCDC150	284992	genome.wustl.edu	37	2	197559844	197559844	+	Silent	SNP	T	T	G	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001080539.1	+1	provisional	p.A528	0.939	264	0%	172	25%	0	-	-	-	-	NULL
CCDC150	284992	genome.wustl.edu	37	2	197586393	197586393	+	Nonsense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001080539.1	+1	provisional	p.R803*	1.000	240	0%	75	18.7%	1	100%	-	-	-	NULL
CCDC150	284992	genome.wustl.edu	37	2	197597218	197597218	+	Nonsense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001080539.1	+1	provisional	p.R1080*	0.988	279	0%	40	30%	10	20%	-	-	-	NULL
GTF3C3	9330	genome.wustl.edu	37	2	197637787	197637787	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_012086.2	-1	provisional	p.R641Q	1.000	274	0%	158	23.4%	6	33.3%	probably_damaging(0.989)	deleterious(0)	deleterious(0.884)	superfamily_TPR-like
PGAP1	80055	genome.wustl.edu	37	2	197757937	197757937	+	Silent	SNP	A	A	G	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_024989.3	-1	validated	p.V320	0.997	708	0%	307	11.7%	0	-	-	-	-	NULL
ANKRD44	91526	genome.wustl.edu	37	2	197865173	197865173	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_153697.1	-1	provisional	p.S805I	1.000	362	0%	191	18.3%	0	-	benign(0.013)	tolerated(0.17)	neutral(0.059)	HMMSmart_ANK,superfamily_ANK
ANKRD44	91526	genome.wustl.edu	37	2	197872608	197872608	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_153697.1	-1	provisional	p.D659	1.000	236	0%	267	13.1%	0	-	-	-	-	HMMPfam_Ank,HMMSmart_ANK,superfamily_ANK
SF3B1	23451	genome.wustl.edu	37	2	198264806	198264806	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_012433.2	-1	reviewed	p.A996S	1.000	501	0%	145	21.4%	52	13.4%	probably_damaging(0.995)	deleterious(0.02)	deleterious(0.841)	superfamily_ARM repeat
COQ10B	80219	genome.wustl.edu	37	2	198334813	198334813	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_025147.3	+1	provisional	p.R156I	0.662	649	0.2%	232	25%	8	25%	benign(0.004)	tolerated(0.17)	neutral(0.059)	HMMPfam_Polyketide_cyc
MARS2	92935	genome.wustl.edu	37	2	198570281	198570281	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_138395.2	+1	validated	p.I51T	1.000	15	0%	17	29.4%	1	100%	probably_damaging(0.995)	deleterious(0)	deleterious(0.902)	HMMPfam_tRNA-synt_1g,superfamily_SSF52374
PLCL1	5334	genome.wustl.edu	37	2	198949078	198949078	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_006226.3	+1	validated	p.K181N	1.000	288	0%	96	25%	1	0%	possibly_damaging(0.946)	tolerated(0.13)	deleterious(0.643)	superfamily_SSF47473
PLCL1	5334	genome.wustl.edu	37	2	198950790	198950790	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_006226.3	+1	validated	p.R752Q	1.000	291	0%	59	28.8%	1	0%	probably_damaging(0.998)	tolerated(0.1)	deleterious(0.761)	NULL
SATB2	23314	genome.wustl.edu	37	2	200213541	200213541	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_015265.3	-1	reviewed	p.E352D	1.000	498	0%	178	24.2%	1	0%	benign(0.097)	tolerated(0.43)	neutral(0.021)	NULL
C2orf69	205327	genome.wustl.edu	37	2	200790090	200790090	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_153689.5	+1	validated	p.D213E	0.105	102	0%	50	28%	1	0%	benign(0.046)	tolerated(0.1)	neutral(0.289)	HMMPfam_UPF0565
C2orf47	79568	genome.wustl.edu	37	2	200824532	200824532	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_024520.2	+1	validated	p.A193V	1.000	264	0%	235	28.9%	15	6.6%	probably_damaging(0.999)	tolerated(0.32)	deleterious(0.514)	NULL
C2orf47	79568	genome.wustl.edu	37	2	200824581	200824581	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	ENST00000435773	+1	known	p.S202F	1.000	215	0%	227	22%	12	8.3%	-	-	-	NULL
SPATS2L	26010	genome.wustl.edu	37	2	201284140	201284140	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001100422.1	+1	validated	p.N122	0.000	76	0%	22	22.7%	17	0%	-	-	-	HMMPfam_DUF1387
SPATS2L	26010	genome.wustl.edu	37	2	201305407	201305407	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001100422.1	+1	validated	p.R230C	1.000	231	0%	53	24.5%	12	0%	probably_damaging(1)	deleterious(0)	deleterious(0.945)	HMMPfam_DUF1387
AOX1	316	genome.wustl.edu	37	2	201480707	201480707	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001159.3	+1	reviewed	p.Y542C	0.035	337	0%	72	22.2%	0	-	benign(0.002)	tolerated(0.18)	neutral(0.056)	NULL
ENSG00000207116	0	genome.wustl.edu	37	2	201694812	201694812	+	RNA	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	ENST00000384388	+1	novel	NULL	0.130	42	0%	133	11.3%	0	-	-	-	-	-
CLK1	1195	genome.wustl.edu	37	2	201718138	201718138	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_004071.3	-1	reviewed	p.R449H	1.000	221	0%	157	28%	121	17.3%	benign(0)	tolerated(0.09)	neutral(0.296)	HMMSmart_SM00219,HMMSmart_SM00220,superfamily_Protein kinase-like (PK-like),HMMPfam_Pkinase
ORC2	4999	genome.wustl.edu	37	2	201800587	201800587	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_006190.3	-1	reviewed	p.S181	1.000	386	0.5%	120	25%	0	-	-	-	-	NULL
CASP10	843	genome.wustl.edu	37	2	202060603	202060603	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_032977.3	+1	reviewed	p.E206K	0.033	329	0%	79	16.5%	5	20%	probably_damaging(0.971)	tolerated(0.17)	deleterious(0.472)	NULL
CASP10	843	genome.wustl.edu	37	2	202093725	202093725	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_032974.3	+1	reviewed	p.Q495H	0.000	145	0%	105	23.8%	1	0%	benign(0.31)	deleterious(0.04)	neutral(0.446)	HMMSmart_SM00115
STRADB	55437	genome.wustl.edu	37	2	202342910	202342910	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_018571.5	+1	reviewed	p.T274I	1.000	141	0%	61	31.1%	2	0%	probably_damaging(0.988)	tolerated(0.06)	deleterious(0.760)	HMMSmart_SM00219,HMMSmart_SM00220,superfamily_Protein kinase-like (PK-like),HMMPfam_Pkinase
STRADB	55437	genome.wustl.edu	37	2	202343091	202343091	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_018571.5	+1	reviewed	p.Q279H	1.000	131	0%	63	25.4%	3	0%	possibly_damaging(0.598)	deleterious(0)	deleterious(0.651)	HMMSmart_SM00219,HMMSmart_SM00220,superfamily_Protein kinase-like (PK-like),HMMPfam_Pkinase
ALS2CR11	151254	genome.wustl.edu	37	2	202356147	202356147	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	ENST00000439140	-1	known	p.F1639L	0.001	407	0%	208	27.4%	0	-	benign(0.011)	tolerated(0.08)	neutral(0.300)	NULL
TMEM237	65062	genome.wustl.edu	37	2	202494050	202494050	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001044385.1	-1	validated	p.L258I	0.062	285	0%	187	12.3%	4	25%	benign(0.011)	tolerated(0.35)	neutral(0.021)	NULL
MPP4	58538	genome.wustl.edu	37	2	202514852	202514852	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_033066.2	-1	reviewed	p.G473E	1.000	447	0%	343	22.2%	0	-	probably_damaging(0.989)	deleterious(0)	deleterious(0.884)	HMMPfam_Guanylate_kin,HMMSmart_SM00072,PatternScan_GUANYLATE_KINASE_1,superfamily_P-loop containing nucleoside triphosphate hydrolases
ALS2	57679	genome.wustl.edu	37	2	202617878	202617878	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_020919.3	-1	reviewed	p.A576	0.023	254	0%	71	11.3%	0	-	-	-	-	superfamily_RCC1/BLIP-II
BMPR2	659	genome.wustl.edu	37	2	203417496	203417496	+	Missense_Mutation	SNP	C	C	T	rs137852746		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001204.6	+1	reviewed	p.R491W	1.000	167	0%	80	23.7%	5	0%	probably_damaging(1)	deleterious(0)	deleterious(0.945)	superfamily_Kinase_like,HMMPfam_Pkinase
ICA1L	130026	genome.wustl.edu	37	2	203690480	203690480	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_138468.4	-1	validated	p.S58Y	1.000	237	0%	100	16%	0	-	probably_damaging(0.994)	deleterious(0.01)	deleterious(0.858)	HMMPfam_Arfaptin
WDR12	55759	genome.wustl.edu	37	2	203764346	203764346	+	Missense_Mutation	SNP	T	T	G	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_018256.3	-1	reviewed	p.E82D	0.997	291	0%	118	12.7%	5	0%	benign(0.054)	tolerated(0.25)	neutral(0.041)	superfamily_WD40 repeat-like
NBEAL1	65065	genome.wustl.edu	37	2	203933136	203933136	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001114132.1	+1	validated	p.E179G	1.000	420	0%	591	26.7%	0	-	possibly_damaging(0.875)	deleterious(0)	deleterious(0.784)	superfamily_ARM repeat
NBEAL1	65065	genome.wustl.edu	37	2	203972159	203972159	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001114132.1	+1	validated	p.R400I	1.000	262	0%	74	29.7%	0	-	probably_damaging(0.991)	deleterious(0.02)	deleterious(0.827)	superfamily_ARM repeat
NBEAL1	65065	genome.wustl.edu	37	2	203976738	203976738	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001114132.1	+1	validated	p.P678S	1.000	268	0%	89	23.6%	0	-	probably_damaging(0.996)	deleterious(0.02)	deleterious(0.845)	NULL
NBEAL1	65065	genome.wustl.edu	37	2	204000669	204000669	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001114132.1	+1	validated	p.E1332D	0.900	209	0%	46	32.6%	0	-	possibly_damaging(0.741)	tolerated(0.61)	neutral(0.276)	NULL
NBEAL1	65065	genome.wustl.edu	37	2	204037515	204037515	+	Nonsense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001114132.1	+1	validated	p.R2059*	1.000	434	0%	113	15%	0	-	-	-	-	HMMPfam_Beach,superfamily_BEACH domain
RAPH1	65059	genome.wustl.edu	37	2	204355993	204355993	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_213589.1	-1	validated	p.R57H	1.000	581	0%	201	21.9%	2	0%	benign(0.003)	tolerated(0.12)	neutral(0.261)	NULL
PARD3B	117583	genome.wustl.edu	37	2	205969210	205969210	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_152526.4	+1	validated	p.T189A	0.000	255	0%	50	22%	0	-	benign(0.001)	tolerated(0.74)	neutral(0.002)	superfamily_PDZ
PARD3B	117583	genome.wustl.edu	37	2	205986465	205986465	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_152526.4	+1	validated	p.P319	0.000	270	0%	133	27.1%	0	-	-	-	-	NULL
PARD3B	117583	genome.wustl.edu	37	2	205989180	205989180	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_152526.4	+1	validated	p.R432I	1.000	251	0.4%	97	13.4%	0	-	probably_damaging(1)	deleterious(0)	deleterious(0.945)	HMMPfam_PDZ,HMMSmart_PDZ,superfamily_PDZ
PARD3B	117583	genome.wustl.edu	37	2	206166361	206166361	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_152526.4	+1	validated	p.R794C	0.814	288	0%	69	13%	0	-	possibly_damaging(0.9)	deleterious(0.04)	deleterious(0.706)	NULL
NRP2	8828	genome.wustl.edu	37	2	206562278	206562278	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_201266.1	+1	reviewed	p.C28	0.997	305	0.3%	189	10.6%	9	11.1%	-	-	-	HMMPfam_CUB,HMMSmart_SM00042,superfamily_Spermadhesin CUB domain
NRP2	8828	genome.wustl.edu	37	2	206588596	206588596	+	Missense_Mutation	SNP	C	C	T	rs113330212		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_201266.1	+1	reviewed	p.T251M	1.000	211	0%	71	14.1%	2	0%	probably_damaging(1)	deleterious(0)	deleterious(0.945)	HMMPfam_CUB,HMMSmart_SM00042,superfamily_Spermadhesin CUB domain
INO80D	54891	genome.wustl.edu	37	2	206921026	206921026	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_017759.4	-1	validated	p.A287V	1.000	228	0%	105	11.4%	0	-	possibly_damaging(0.83)	tolerated(0.07)	deleterious(0.635)	NULL
NDUFS1	4719	genome.wustl.edu	37	2	206991490	206991490	+	Nonsense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_005006.5	-1	reviewed	p.R655*	0.999	387	0%	226	23.9%	31	0%	-	-	-	superfamily_SSF53706
ZDBF2	57683	genome.wustl.edu	37	2	207169556	207169556	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_020923.1	+1	validated	p.A102T	0.000	252	0%	89	15.7%	0	-	benign(0.138)	tolerated(0.13)	neutral(0.264)	NULL
ZDBF2	57683	genome.wustl.edu	37	2	207171071	207171071	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_020923.1	+1	validated	p.G607C	0.000	289	0%	74	13.5%	0	-	probably_damaging(0.997)	deleterious(0.03)	deleterious(0.831)	NULL
ZDBF2	57683	genome.wustl.edu	37	2	207174949	207174949	+	Silent	SNP	T	T	C	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_020923.1	+1	validated	p.I1899	0.000	97	0%	32	25%	0	-	-	-	-	NULL
ZDBF2	57683	genome.wustl.edu	37	2	207176130	207176130	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_020923.1	+1	validated	p.R2293Q	0.000	83	0%	21	23.8%	0	-	benign(0)	-	-	NULL
ADAM23	8745	genome.wustl.edu	37	2	207310194	207310194	+	Missense_Mutation	SNP	A	A	C	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_003812.2	+1	reviewed	p.E126D	0.997	146	0%	196	12.2%	0	-	probably_damaging(1)	deleterious(0.01)	deleterious(0.905)	HMMPfam_Pep_M12B_propep
DYTN	391475	genome.wustl.edu	37	2	207557973	207557973	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001093730.1	-1	provisional	p.K302N	0.000	181	0%	50	36%	0	-	possibly_damaging(0.545)	tolerated(0.19)	neutral(0.234)	NULL
MDH1B	130752	genome.wustl.edu	37	2	207604378	207604378	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001039845.1	-1	validated	p.E489	0.000	531	0%	133	10.5%	1	0%	-	-	-	NULL
MDH1B	130752	genome.wustl.edu	37	2	207610376	207610376	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001039845.1	-1	validated	p.D460Y	0.996	317	0%	56	30.4%	0	-	possibly_damaging(0.931)	deleterious(0.01)	deleterious(0.783)	superfamily_LDH C-terminal domain-like
CPO	130749	genome.wustl.edu	37	2	207823118	207823118	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_173077.2	+1	validated	p.F121L	1.000	238	0%	81	19.8%	0	-	probably_damaging(0.996)	deleterious(0.02)	deleterious(0.845)	HMMPfam_Peptidase_M14,HMMSmart_Zn_pept,PatternScan_CARBOXYPEPT_ZN_1,superfamily_SSF53187
CPO	130749	genome.wustl.edu	37	2	207833911	207833911	+	Silent	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_173077.2	+1	validated	p.G292	0.068	328	0%	92	20.7%	1	0%	-	-	-	HMMPfam_Peptidase_M14,HMMSmart_Zn_pept,superfamily_SSF53187
KLF7	8609	genome.wustl.edu	37	2	207988633	207988633	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_003709.2	-1	provisional	p.D200N	1.000	112	0%	76	15.8%	0	-	possibly_damaging(0.824)	tolerated(0.5)	neutral(0.322)	NULL
KLF7	8609	genome.wustl.edu	37	2	207989085	207989085	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_003709.2	-1	provisional	p.R49M	1.000	103	0%	52	15.4%	1	0%	possibly_damaging(0.66)	tolerated(0.06)	deleterious(0.555)	NULL
FZD5	7855	genome.wustl.edu	37	2	208632389	208632389	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_003468.3	-1	reviewed	p.Y359H	1.000	59	0%	95	10.5%	3	33.3%	probably_damaging(0.97)	deleterious(0)	deleterious(0.857)	HMMPfam_Frizzled
CRYGD	1421	genome.wustl.edu	37	2	208986520	208986520	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_006891.3	-1	reviewed	p.Y134	0.610	124	0%	164	11%	0	-	-	-	-	HMMPfam_Crystall,HMMSmart_XTALbg,superfamily_G_crystallin_SF
PIKFYVE	200576	genome.wustl.edu	37	2	209168945	209168945	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_015040.3	+1	reviewed	p.S457	0.991	238	0%	50	16%	1	100%	-	-	-	"superfamily_""Winged helix"" DNA-binding domain"
PIKFYVE	200576	genome.wustl.edu	37	2	209188924	209188924	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_015040.3	+1	reviewed	p.V750A	1.000	486	0%	108	12%	0	-	probably_damaging(0.953)	deleterious(0.01)	deleterious(0.802)	HMMPfam_Cpn60_TCP1,superfamily_GroEL apical domain-like,superfamily_GroEL-intermediate domain like
PIKFYVE	200576	genome.wustl.edu	37	2	209193006	209193006	+	Splice_Site	SNP	T	T	C	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_015040.3	+1	reviewed	e20+2	1.000	300	0.3%	126	22.2%	0	-	-	-	-	-
PTH2R	5746	genome.wustl.edu	37	2	209358024	209358024	+	Nonsense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_005048.2	+1	reviewed	p.W431*	1.000	99	0%	90	15.6%	0	-	-	-	-	superfamily_SSF81321
MAP2	4133	genome.wustl.edu	37	2	210557772	210557772	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_002374.3	+1	reviewed	p.R293K	1.000	77	0%	24	25%	0	-	benign(0)	tolerated(0.47)	neutral(0.011)	NULL
MAP2	4133	genome.wustl.edu	37	2	210559734	210559734	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_002374.3	+1	reviewed	p.S947N	0.000	222	0%	58	13.8%	0	-	benign(0.086)	deleterious(0)	neutral(0.451)	HMMPfam_MAP2_projctn
MAP2	4133	genome.wustl.edu	37	2	210560565	210560565	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_002374.3	+1	reviewed	p.T1224M	0.020	177	0%	47	31.9%	0	-	benign(0.068)	deleterious(0)	neutral(0.449)	HMMPfam_MAP2_projctn
MAP2	4133	genome.wustl.edu	37	2	210570401	210570401	+	Missense_Mutation	SNP	A	A	C	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_002374.3	+1	reviewed	p.N1561T	1.000	268	0%	68	33.8%	0	-	probably_damaging(0.998)	deleterious(0.02)	deleterious(0.857)	NULL
MAP2	4133	genome.wustl.edu	37	2	210595012	210595012	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_002374.3	+1	reviewed	p.R1792Q	0.998	110	0.9%	31	12.9%	0	-	probably_damaging(0.993)	deleterious(0.01)	deleterious(0.856)	NULL
UNC80	285175	genome.wustl.edu	37	2	210678358	210678358	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_032504.1	+1	validated	p.D331	0.003	220	0%	149	19.5%	0	-	-	-	-	NULL
UNC80	285175	genome.wustl.edu	37	2	210683778	210683778	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_032504.1	+1	validated	p.N585	0.927	215	0%	81	24.7%	0	-	-	-	-	NULL
UNC80	285175	genome.wustl.edu	37	2	210696276	210696276	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_032504.1	+1	validated	p.C912	0.998	195	0%	57	19.3%	0	-	-	-	-	NULL
UNC80	285175	genome.wustl.edu	37	2	210761098	210761098	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_032504.1	+1	validated	p.G1448	0.871	260	0%	76	30.3%	0	-	-	-	-	NULL
UNC80	285175	genome.wustl.edu	37	2	210769611	210769611	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_032504.1	+1	validated	p.L1502	0.974	179	0%	42	9.5%	0	-	-	-	-	NULL
UNC80	285175	genome.wustl.edu	37	2	210808137	210808137	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_032504.1	+1	validated	p.R2251C	1.000	295	0.3%	90	8.9%	0	-	probably_damaging(1)	tolerated(0.08)	deleterious(0.800)	NULL
UNC80	285175	genome.wustl.edu	37	2	210818926	210818926	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_032504.1	+1	validated	p.E2397D	1.000	160	0%	51	11.8%	0	-	probably_damaging(0.971)	tolerated(0.07)	deleterious(0.732)	NULL
UNC80	285175	genome.wustl.edu	37	2	210818949	210818949	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_032504.1	+1	validated	p.A2405V	1.000	177	0%	58	19%	0	-	probably_damaging(0.99)	deleterious(0)	deleterious(0.886)	NULL
UNC80	285175	genome.wustl.edu	37	2	210837006	210837006	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_032504.1	+1	validated	p.L2714M	1.000	363	0%	134	24.6%	0	-	probably_damaging(0.998)	deleterious(0.01)	deleterious(0.880)	NULL
UNC80	285175	genome.wustl.edu	37	2	210846941	210846941	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_032504.1	+1	validated	p.E2987K	1.000	259	0%	59	16.9%	0	-	probably_damaging(0.982)	deleterious(0.01)	deleterious(0.832)	NULL
UNC80	285175	genome.wustl.edu	37	2	210858888	210858888	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_032504.1	+1	validated	p.S3137I	1.000	65	0%	74	32.4%	0	-	possibly_damaging(0.918)	deleterious(0.02)	deleterious(0.752)	NULL
RPE	6120	genome.wustl.edu	37	2	210880779	210880779	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_199229.1	+1	provisional	p.L95	0.001	307	0%	120	11.7%	4	0%	-	-	-	HMMPfam_Ribul_P_3_epim,superfamily_Ribulose-phoshate binding barrel
KANSL1L	151050	genome.wustl.edu	37	2	210887784	210887784	+	Silent	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_152519.2	-1	validated	p.I951	0.727	468	0%	182	21.4%	7	0%	-	-	-	NULL
ACADL	33	genome.wustl.edu	37	2	211057609	211057609	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001608.3	-1	reviewed	p.S373Y	1.000	180	0.6%	40	22.5%	0	-	probably_damaging(0.964)	deleterious(0)	deleterious(0.851)	HMMPfam_Acyl-CoA_dh_1,superfamily_AcylCoADH_C_like
ACADL	33	genome.wustl.edu	37	2	211068098	211068098	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001608.3	-1	reviewed	p.V314A	1.000	364	0%	127	29.1%	0	-	possibly_damaging(0.785)	tolerated(0.19)	neutral(0.343)	HMMPfam_Acyl-CoA_dh_1,superfamily_AcylCoADH_C_like
LANCL1	10314	genome.wustl.edu	37	2	211306111	211306111	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001136574.1	-1	reviewed	p.R155Q	0.994	368	0%	72	11.1%	4	0%	probably_damaging(1)	deleterious(0)	deleterious(0.945)	HMMPfam_LANC_like
CPS1	1373	genome.wustl.edu	37	2	211539636	211539636	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001122633.1	+1	reviewed	p.R1377Q	1.000	319	0%	49	18.4%	0	-	benign(0.011)	tolerated(0.1)	neutral(0.287)	superfamily_Methylglyoxal synthase-like
ERBB4	2066	genome.wustl.edu	37	2	212488769	212488769	+	Missense_Mutation	SNP	A	A	C	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_005235.2	-1	reviewed	p.L694V	0.665	243	0%	76	30.3%	0	-	benign(0.059)	tolerated(0.07)	neutral(0.323)	NULL
ERBB4	2066	genome.wustl.edu	37	2	212576844	212576844	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_005235.2	-1	reviewed	p.N352S	1.000	212	0%	114	19.3%	0	-	benign(0.097)	deleterious(0)	neutral(0.452)	superfamily_L domain-like
SPAG16	79582	genome.wustl.edu	37	2	214162060	214162060	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_024532.3	+1	validated	p.Q86H	0.091	285	0%	125	26.4%	7	0%	probably_damaging(0.992)	tolerated(0.07)	deleterious(0.766)	superfamily_WD40 repeat-like
SPAG16	79582	genome.wustl.edu	37	2	214878774	214878774	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_024532.3	+1	validated	p.K500N	0.996	398	0%	63	15.9%	0	-	probably_damaging(1)	deleterious(0)	deleterious(0.945)	HMMSmart_SM00320,superfamily_WD40 repeat-like,PatternScan_WD_REPEATS_1,HMMPfam_WD40
VWC2L	402117	genome.wustl.edu	37	2	215279088	215279088	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001080500.2	+1	provisional	p.S57	1.000	210	0%	55	30.9%	0	-	-	-	-	HMMSmart_SM00214
BARD1	580	genome.wustl.edu	37	2	215595214	215595214	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_000465.2	-1	reviewed	p.R641Q	0.992	341	0%	130	21.5%	0	-	benign(0.009)	tolerated(0.95)	neutral(0.001)	HMMSmart_BRCT,superfamily_BRCT
BARD1	580	genome.wustl.edu	37	2	215645381	215645381	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_000465.2	-1	reviewed	p.R406Q	0.105	250	0%	41	9.8%	4	25%	benign(0.027)	tolerated(0.72)	neutral(0.003)	NULL
ABCA12	26154	genome.wustl.edu	37	2	215840739	215840739	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_173076.2	-1	reviewed	p.E1717	0.054	265	0%	68	19.1%	0	-	-	-	-	NULL
ABCA12	26154	genome.wustl.edu	37	2	215852457	215852457	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_173076.2	-1	reviewed	p.R1297Q	0.983	217	0%	57	31.6%	0	-	possibly_damaging(0.928)	tolerated(0.38)	neutral(0.393)	NULL
ABCA12	26154	genome.wustl.edu	37	2	215865550	215865550	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_173076.2	-1	reviewed	p.A1020T	1.000	303	0%	77	11.7%	0	-	possibly_damaging(0.616)	tolerated(0.09)	deleterious(0.511)	NULL
ABCA12	26154	genome.wustl.edu	37	2	215891582	215891582	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_173076.2	-1	reviewed	p.V381A	1.000	245	0%	127	22%	0	-	benign(0.427)	deleterious(0.02)	deleterious(0.522)	NULL
ATIC	471	genome.wustl.edu	37	2	216211528	216211528	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_004044.6	+1	reviewed	p.R456H	1.000	219	0%	59	23.7%	86	16.2%	probably_damaging(1)	deleterious(0)	deleterious(0.945)	HMMPfam_AICARFT_IMPCHas,HMMSmart_AICARFT_IMPCHas,superfamily_AICARFT_IMPCHas_formly
FN1	2335	genome.wustl.edu	37	2	216229641	216229641	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_212482.1	-1	reviewed	p.L2404	0.002	132	0%	45	22.2%	149	0%	-	-	-	HMMPfam_fn1,HMMSmart_SM00058,PatternScan_FN1_1,superfamily_Fibronectin type I module
FN1	2335	genome.wustl.edu	37	2	216256433	216256433	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_212482.1	-1	reviewed	p.R1392C	0.994	237	0%	72	23.6%	12	0%	probably_damaging(1)	deleterious(0)	deleterious(0.945)	HMMPfam_fn3,HMMSmart_SM00060,superfamily_Fibronectin type III
FN1	2335	genome.wustl.edu	37	2	216259329	216259329	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_212482.1	-1	reviewed	p.G1240S	1.000	305	0.3%	78	32.1%	16	0%	probably_damaging(1)	deleterious(0.01)	deleterious(0.905)	HMMPfam_fn3,HMMSmart_SM00060,superfamily_Fibronectin type III
FN1	2335	genome.wustl.edu	37	2	216288145	216288145	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_212482.1	-1	reviewed	p.D441Y	1.000	286	0%	134	14.9%	6	0%	probably_damaging(1)	deleterious(0)	deleterious(0.945)	HMMPfam_fn2,HMMSmart_SM00059,PatternScan_FN2_1,superfamily_Kringle-like
TMEM169	92691	genome.wustl.edu	37	2	216960853	216960853	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001142310.1	+1	validated	p.R56H	1.000	230	0.9%	142	24.6%	0	-	probably_damaging(0.997)	deleterious(0.01)	deleterious(0.872)	NULL
TMEM169	92691	genome.wustl.edu	37	2	216964917	216964917	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001142310.1	+1	validated	p.Y182	0.996	415	0.5%	182	12.1%	0	-	-	-	-	NULL
XRCC5	7520	genome.wustl.edu	37	2	216990662	216990662	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_021141.3	+1	reviewed	p.V236I	1.000	241	0%	62	16.1%	32	0%	benign(0)	tolerated(1)	-	HMMSmart_VWA,HMMPfam_Ku_N,superfamily_SSF53300
XRCC5	7520	genome.wustl.edu	37	2	217069114	217069114	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_021141.3	+1	reviewed	p.D727N	1.000	283	0%	52	19.2%	319	22.2%	probably_damaging(1)	deleterious(0)	deleterious(0.945)	NULL
SMARCAL1	50485	genome.wustl.edu	37	2	217279494	217279494	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001127207.1	+1	reviewed	p.R23C	1.000	101	0%	72	25%	4	0%	probably_damaging(1)	deleterious(0)	deleterious(0.945)	NULL
SMARCAL1	50485	genome.wustl.edu	37	2	217280163	217280163	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001127207.1	+1	reviewed	p.D246N	0.981	238	0%	159	14.5%	2	0%	benign(0.052)	deleterious(0.01)	neutral(0.409)	NULL
SMARCAL1	50485	genome.wustl.edu	37	2	217288393	217288393	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001127207.1	+1	reviewed	p.E378D	0.999	727	0.1%	265	26.4%	5	0%	benign(0.002)	tolerated(1)	-	HMMPfam_HARP
IGFBP5	3488	genome.wustl.edu	37	2	217541495	217541495	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_000599.3	-1	validated	p.F266	0.999	69	0%	35	17.1%	26	0%	-	-	-	HMMSmart_TY,superfamily_Thyroglobulin_1
TNP1	7141	genome.wustl.edu	37	2	217724631	217724631	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_003284.3	-1	validated	p.R43W	0.242	464	0%	162	22.2%	0	-	probably_damaging(0.991)	-	-	HMMPfam_TP1
ARPC2	10109	genome.wustl.edu	37	2	219103404	219103404	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_005731.2	+1	reviewed	p.L96I	1.000	225	0%	109	19.3%	119	6.7%	benign(0.043)	tolerated(0.21)	neutral(0.046)	HMMPfam_P34-Arc,superfamily_Arp2/3 complex subunits
VIL1	7429	genome.wustl.edu	37	2	219300044	219300044	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_007127.2	+1	reviewed	p.K571N	0.985	112	0%	84	9.5%	0	-	probably_damaging(1)	deleterious(0.01)	deleterious(0.905)	HMMSmart_GEL,HMMPfam_Gelsolin,superfamily_SSF55753
RQCD1	9125	genome.wustl.edu	37	2	219457377	219457377	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_005444.1	+1	provisional	p.A226	1.000	279	0%	96	18.8%	13	15.3%	-	-	-	HMMPfam_Rcd1,superfamily_ARM repeat
PLCD4	84812	genome.wustl.edu	37	2	219492801	219492801	+	Nonsense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_032726.2	+1	provisional	p.C274*	0.998	160	0%	56	10.7%	0	-	-	-	-	HMMPfam_efhand_like,superfamily_EF-hand
ZNF142	7701	genome.wustl.edu	37	2	219508064	219508064	+	Nonsense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001105537.1	-1	validated	p.R1059*	0.800	95	0%	55	16.4%	2	0%	-	-	-	NULL
STK36	27148	genome.wustl.edu	37	2	219537620	219537620	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_015690.3	+1	validated	p.R23I	0.989	527	0%	241	15.8%	0	-	benign(0.058)	tolerated(0.1)	neutral(0.290)	HMMSmart_SM00219,HMMSmart_SM00220,superfamily_Protein kinase-like (PK-like),PatternScan_PROTEIN_KINASE_ATP,HMMPfam_Pkinase
STK36	27148	genome.wustl.edu	37	2	219540175	219540175	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_015690.3	+1	validated	p.G138D	1.000	251	0%	134	22.4%	0	-	possibly_damaging(0.767)	tolerated(0.63)	neutral(0.288)	HMMSmart_SM00219,HMMSmart_SM00220,superfamily_Protein kinase-like (PK-like),HMMPfam_Pkinase
TTLL4	9654	genome.wustl.edu	37	2	219610941	219610941	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_014640.4	+1	validated	p.R654Q	1.000	171	0%	64	25%	3	0%	benign(0.026)	tolerated(0.22)	neutral(0.043)	HMMPfam_TTL
CYP27A1	1593	genome.wustl.edu	37	2	219678840	219678840	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_000784.3	+1	reviewed	p.G372R	0.989	133	0%	71	22.5%	39	5.1%	benign(0.361)	tolerated(0.34)	neutral(0.138)	HMMPfam_p450,superfamily_Cytochrome P450
PRKAG3	53632	genome.wustl.edu	37	2	219695553	219695553	+	Missense_Mutation	SNP	T	T	G	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_017431.2	-1	reviewed	p.I49L	0.107	489	0%	442	28.3%	0	-	benign(0)	deleterious(0.04)	neutral(0.349)	NULL
CDK5R2	8941	genome.wustl.edu	37	2	219825346	219825346	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_003936.3	+1	reviewed	p.L268	1.000	68	0%	64	18.8%	0	-	-	-	-	HMMPfam_CDK5_activator,superfamily_Cyclin_like
CCDC108	255101	genome.wustl.edu	37	2	219868976	219868976	+	Silent	SNP	T	T	C	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_194302.2	-1	provisional	p.P1751	0.000	583	0%	729	24.3%	0	-	-	-	-	NULL
SLC23A3	151295	genome.wustl.edu	37	2	220033814	220033814	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001144890.1	-1	validated	p.M151I	0.000	297	0%	366	25.7%	2	0%	benign(0.223)	tolerated(0.47)	neutral(0.033)	HMMPfam_Xan_ur_permease
ATG9A	79065	genome.wustl.edu	37	2	220088895	220088895	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001077198.1	-1	validated	p.D400Y	1.000	33	0%	55	20%	12	16.6%	probably_damaging(1)	deleterious(0.02)	deleterious(0.883)	HMMPfam_APG9
ATG9A	79065	genome.wustl.edu	37	2	220089123	220089123	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001077198.1	-1	validated	p.P324S	1.000	26	0%	63	17.5%	8	0%	probably_damaging(1)	deleterious(0)	deleterious(0.945)	HMMPfam_APG9
ATG9A	79065	genome.wustl.edu	37	2	220089531	220089531	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001077198.1	-1	validated	p.V188M	0.994	152	0%	201	23.4%	3	0%	benign(0.027)	tolerated(0.17)	neutral(0.060)	HMMPfam_APG9
GLB1L	79411	genome.wustl.edu	37	2	220101812	220101812	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_024506.3	-1	provisional	p.M649I	0.992	236	0%	204	19.6%	4	25%	benign(0.01)	tolerated(0.21)	neutral(0.044)	NULL
GLB1L	79411	genome.wustl.edu	37	2	220102674	220102674	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_024506.3	-1	provisional	p.F449	0.991	189	0%	166	22.9%	3	0%	-	-	-	NULL
PTPRN	5798	genome.wustl.edu	37	2	220155559	220155559	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_002846.2	-1	reviewed	p.R928H	1.000	110	0%	163	28.2%	0	-	probably_damaging(1)	deleterious(0)	deleterious(0.945)	HMMPfam_Y_phosphatase,HMMSmart_SM00194,HMMSmart_SM00404,superfamily_(Phosphotyrosine protein) phosphatases II
PTPRN	5798	genome.wustl.edu	37	2	220167413	220167413	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_002846.2	-1	reviewed	p.P175H	1.000	48	0%	76	11.8%	0	-	benign(0.293)	deleterious(0)	deleterious(0.535)	NULL
RESP18	389075	genome.wustl.edu	37	2	220193646	220193646	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001007089.3	-1	validated	p.R214W	0.000	211	0%	279	25.8%	0	-	probably_damaging(0.982)	deleterious(0.02)	deleterious(0.809)	NULL
DNPEP	23549	genome.wustl.edu	37	2	220251467	220251467	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_012100.2	-1	reviewed	p.A85T	1.000	107	0.9%	170	10.6%	24	16.6%	probably_damaging(1)	deleterious(0)	deleterious(0.945)	HMMPfam_Peptidase_M18,superfamily_SSF53187
SPEG	10290	genome.wustl.edu	37	2	220338527	220338527	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_005876.4	+1	validated	p.R1450Q	0.998	26	0%	44	20.5%	0	-	probably_damaging(0.995)	tolerated(0.35)	deleterious(0.478)	HMMSmart_SM00408,HMMSmart_SM00409,HMMPfam_I-set,superfamily_Immunoglobulin
SPEG	10290	genome.wustl.edu	37	2	220342097	220342097	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_005876.4	+1	validated	p.G1553	0.526	62	0%	99	12.1%	2	0%	-	-	-	HMMSmart_SM00408,HMMSmart_SM00409,HMMPfam_I-set,superfamily_Immunoglobulin
SPEG	10290	genome.wustl.edu	37	2	220352997	220352997	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_005876.4	+1	validated	p.A2608V	0.987	75	0%	127	12.6%	6	0%	possibly_damaging(0.842)	tolerated(0.27)	neutral(0.356)	HMMSmart_SM00408,HMMSmart_SM00409,HMMPfam_I-set,superfamily_Immunoglobulin
GMPPA	29926	genome.wustl.edu	37	2	220370711	220370711	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_013335.2	+1	reviewed	p.N304D	1.000	55	0%	102	23.5%	45	8.8%	probably_damaging(1)	tolerated(0.05)	deleterious(0.845)	HMMPfam_Hexapep,superfamily_Trimeric LpxA-like enzymes,PatternScan_HEXAPEP_TRANSFERASES
ASIC4	55515	genome.wustl.edu	37	2	220396815	220396815	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_018674.4	+1	reviewed	p.G401C	1.000	86	0%	88	22.7%	0	-	probably_damaging(1)	deleterious(0)	deleterious(0.945)	HMMPfam_ASC
CHPF	79586	genome.wustl.edu	37	2	220404305	220404305	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_024536.5	-1	validated	p.L710M	1.000	13	0%	30	30%	125	28.8%	benign(0.005)	tolerated(0.47)	neutral(0.011)	HMMPfam_CHGN
OBSL1	23363	genome.wustl.edu	37	2	220420868	220420868	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_015311.2	-1	reviewed	p.R1495C	0.002	35	0%	57	17.5%	19	0%	probably_damaging(0.996)	deleterious(0)	deleterious(0.906)	HMMSmart_IG,HMMPfam_I-set,superfamily_SSF48726
OBSL1	23363	genome.wustl.edu	37	2	220420907	220420907	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_015311.2	-1	reviewed	p.R1482C	1.000	20	0%	47	29.8%	16	0%	probably_damaging(1)	deleterious(0.04)	deleterious(0.849)	HMMSmart_IG,HMMPfam_I-set,superfamily_SSF48726
OBSL1	23363	genome.wustl.edu	37	2	220424077	220424077	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	ENST00000456147	-1	known	p.A26V	0.131	127	0%	260	25.4%	7	28.5%	-	-	-	HMMSmart_SM00408,HMMSmart_SM00409,PatternScan_TONB_DEPENDENT_REC_1,HMMPfam_ig,superfamily_Immunoglobulin
OBSL1	23363	genome.wustl.edu	37	2	220427362	220427362	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_015311.2	-1	reviewed	p.K905	0.998	34	0%	75	12%	60	1.6%	-	-	-	HMMPfam_I-set
SLC4A3	6508	genome.wustl.edu	37	2	220494134	220494134	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_201574.2	+1	validated	p.Q162H	0.001	99	0%	147	31.3%	0	-	benign(0.132)	tolerated(0.1)	neutral(0.297)	NULL
SLC4A3	6508	genome.wustl.edu	37	2	220503471	220503471	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_201574.2	+1	validated	p.R995H	1.000	75	0%	76	27.6%	5	20%	probably_damaging(1)	deleterious(0)	deleterious(0.945)	HMMPfam_HCO3_cotransp
EPHA4	2043	genome.wustl.edu	37	2	222294768	222294768	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_004438.3	-1	reviewed	p.D867G	1.000	233	0%	54	24.1%	0	-	possibly_damaging(0.533)	tolerated(0.26)	neutral(0.214)	HMMPfam_Pkinase_Tyr,HMMSmart_TyrKc,superfamily_Kinase_like
EPHA4	2043	genome.wustl.edu	37	2	222308301	222308301	+	Silent	SNP	A	A	G	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_004438.3	-1	reviewed	p.F600	1.000	279	0%	106	12.3%	0	-	-	-	-	superfamily_Kinase_like
EPHA4	2043	genome.wustl.edu	37	2	222321377	222321377	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_004438.3	-1	reviewed	p.G520D	1.000	257	0%	72	15.3%	0	-	possibly_damaging(0.937)	deleterious(0)	deleterious(0.828)	HMMPfam_fn3,HMMSmart_FN3,superfamily_FN_III-like
LOC646644	646644	genome.wustl.edu	37	2	222809055	222809055	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	XM_929587.4	+1	model	p.D38	0.933	482	0%	207	13.5%	0	-	-	-	-	HMMPfam_Laps
PAX3	5077	genome.wustl.edu	37	2	223158448	223158448	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_013942.3	-1	reviewed	p.S205	0.000	127	0%	219	25.1%	0	-	-	-	-	NULL
CCDC140	151278	genome.wustl.edu	37	2	223168954	223168954	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_153038.1	+1	validated	p.S111	0.000	47	0%	83	10.8%	0	-	-	-	-	NULL
SGPP2	130367	genome.wustl.edu	37	2	223423450	223423450	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_152386.2	+1	provisional	p.L345F	0.956	209	0%	108	13.9%	15	0%	probably_damaging(0.954)	deleterious(0.05)	deleterious(0.743)	NULL
ACSL3	2181	genome.wustl.edu	37	2	223773856	223773856	+	Missense_Mutation	SNP	A	A	C	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_004457.3	+1	reviewed	p.K122N	0.998	132	0%	51	29.4%	0	-	probably_damaging(0.976)	deleterious(0)	deleterious(0.863)	superfamily_SSF56801
SCG2	7857	genome.wustl.edu	37	2	224463659	224463659	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_003469.3	-1	reviewed	p.I114M	0.997	453	0%	181	13.3%	2	0%	benign(0.001)	tolerated(0.68)	neutral(0.002)	HMMPfam_Granin
SCG2	7857	genome.wustl.edu	37	2	224463922	224463922	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_003469.3	-1	reviewed	p.A27S	1.000	179	0%	74	23%	0	-	probably_damaging(0.969)	deleterious(0.02)	deleterious(0.794)	HMMPfam_Granin
WDFY1	57590	genome.wustl.edu	37	2	224758956	224758956	+	Nonsense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_020830.3	-1	reviewed	p.E276*	1.000	180	0%	42	31%	2	0%	-	-	-	HMMSmart_SM00064,superfamily_FYVE/PHD zinc finger,superfamily_WD40 repeat-like
SERPINE2	5270	genome.wustl.edu	37	2	224866577	224866577	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001136530.1	-1	validated	p.T26M	0.812	238	0%	104	24%	4	0%	probably_damaging(0.994)	tolerated(0.06)	deleterious(0.774)	NULL
DOCK10	55619	genome.wustl.edu	37	2	225651840	225651840	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_014689.2	-1	validated	p.L1852I	1.000	229	0%	85	20%	2	0%	benign(0.422)	tolerated(0.48)	neutral(0.148)	NULL
DOCK10	55619	genome.wustl.edu	37	2	225661079	225661079	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_014689.2	-1	validated	p.S1631L	1.000	340	0%	81	22.2%	3	0%	probably_damaging(1)	deleterious(0)	deleterious(0.945)	NULL
DOCK10	55619	genome.wustl.edu	37	2	225661092	225661092	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_014689.2	-1	validated	p.R1627W	1.000	342	0.6%	75	28%	3	0%	probably_damaging(1)	deleterious(0)	deleterious(0.945)	NULL
DOCK10	55619	genome.wustl.edu	37	2	225666730	225666730	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	ENST00000409802	-1	known	p.P158S	0.279	677	0.1%	151	27.2%	0	-	-	-	-	NULL
DOCK10	55619	genome.wustl.edu	37	2	225669924	225669924	+	Silent	SNP	G	G	A	rs139394216	by1000genomes	TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	ENST00000409802	-1	known	p.R76*	0.999	167	0%	28	17.9%	0	-	-	-	-	NULL
DOCK10	55619	genome.wustl.edu	37	2	225714259	225714259	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_014689.2	-1	validated	p.L734M	0.997	222	0%	54	14.8%	0	-	probably_damaging(0.999)	deleterious(0.01)	deleterious(0.896)	NULL
DOCK10	55619	genome.wustl.edu	37	2	225729339	225729339	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_014689.2	-1	validated	p.I511	0.036	342	0%	129	19.4%	0	-	-	-	-	NULL
COL4A4	1286	genome.wustl.edu	37	2	227924201	227924201	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_000092.4	-1	reviewed	p.G768V	0.998	168	0%	80	12.5%	0	-	probably_damaging(1)	deleterious(0)	deleterious(0.945)	NULL
COL4A4	1286	genome.wustl.edu	37	2	227945200	227945200	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_000092.4	-1	reviewed	p.R588W	0.008	193	0%	67	16.4%	0	-	probably_damaging(0.985)	deleterious(0.01)	deleterious(0.838)	HMMPfam_Collagen
COL4A3	1285	genome.wustl.edu	37	2	228111436	228111436	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_000091.3	+1	reviewed	p.L141	0.993	218	0%	71	29.6%	0	-	-	-	-	HMMPfam_Collagen
COL4A3	1285	genome.wustl.edu	37	2	228122321	228122321	+	Silent	SNP	A	A	G	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_000091.3	+1	reviewed	p.G330	0.993	460	0%	88	19.3%	1	0%	-	-	-	HMMPfam_Collagen
COL4A3	1285	genome.wustl.edu	37	2	228163401	228163401	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_000091.3	+1	reviewed	p.A1252V	0.890	65	0%	37	24.3%	0	-	unknown(0)	tolerated(0.5)	-	NULL
MFF	56947	genome.wustl.edu	37	2	228197173	228197173	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_020194.4	+1	provisional	p.L100I	1.000	248	0%	198	27.3%	66	18.1%	probably_damaging(0.998)	tolerated(0.5)	deleterious(0.484)	HMMPfam_DUF800
TM4SF20	79853	genome.wustl.edu	37	2	228243972	228243972	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_024795.3	-1	validated	p.E5K	0.999	121	0%	92	21.7%	0	-	unknown(0)	-	-	HMMPfam_L6_membrane
TM4SF20	79853	genome.wustl.edu	37	2	228243973	228243973	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_024795.3	-1	validated	p.C4	0.992	120	0.8%	88	23.9%	0	-	-	-	-	HMMPfam_L6_membrane
AGFG1	3267	genome.wustl.edu	37	2	228395861	228395861	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001135187.1	+1	reviewed	p.S250I	1.000	387	0%	64	12.5%	10	0%	probably_damaging(0.996)	deleterious(0.03)	deleterious(0.826)	NULL
SPHKAP	80309	genome.wustl.edu	37	2	228883860	228883860	+	Silent	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001142644.1	-1	validated	p.V570	1.000	36	0%	19	26.3%	0	-	-	-	-	NULL
SPHKAP	80309	genome.wustl.edu	37	2	228890201	228890201	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001142644.1	-1	validated	p.S117Y	0.999	362	0%	72	25%	0	-	probably_damaging(0.998)	deleterious(0)	deleterious(0.919)	NULL
PID1	55022	genome.wustl.edu	37	2	229890587	229890587	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_017933.4	-1	validated	p.D170N	1.000	171	0%	45	11.1%	8	0%	probably_damaging(0.998)	tolerated(0.23)	deleterious(0.516)	superfamily_SSF50729
DNER	92737	genome.wustl.edu	37	2	230282896	230282896	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_139072.3	-1	validated	p.P513S	0.999	194	0%	59	20.3%	2	0%	benign(0.009)	deleterious(0)	neutral(0.445)	HMMSmart_EGF_CA,HMMPfam_EGF,PatternScan_EGF_CA,superfamily_SSF57196
DNER	92737	genome.wustl.edu	37	2	230282938	230282938	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_139072.3	-1	validated	p.G499S	1.000	155	0%	41	19.5%	2	0%	possibly_damaging(0.947)	deleterious(0.01)	deleterious(0.796)	HMMPfam_EGF,HMMSmart_EGF,PatternScan_EGF_1,PatternScan_EGF_2,superfamily_SSF57196
DNER	92737	genome.wustl.edu	37	2	230456341	230456341	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_139072.3	-1	validated	p.P180	0.144	164	0%	66	22.7%	0	-	-	-	-	NULL
TRIP12	9320	genome.wustl.edu	37	2	230655930	230655930	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_004238.1	-1	provisional	p.D1410Y	1.000	726	0%	224	22.3%	10	10%	probably_damaging(0.957)	deleterious(0.04)	deleterious(0.750)	NULL
TRIP12	9320	genome.wustl.edu	37	2	230660021	230660021	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_004238.1	-1	provisional	p.R1206I	1.000	163	0%	52	15.4%	2	0%	benign(0.097)	tolerated(0.18)	neutral(0.064)	NULL
TRIP12	9320	genome.wustl.edu	37	2	230673086	230673086	+	Splice_Site	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_004238.1	-1	provisional	e14-1	1.000	158	0%	62	19.4%	0	-	-	-	-	-
SLC16A14	151473	genome.wustl.edu	37	2	230910757	230910757	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_152527.4	-1	validated	p.V362A	0.712	169	0%	85	25.9%	1	0%	benign(0.01)	tolerated(0.43)	neutral(0.014)	HMMPfam_MFS_1,superfamily_MFS general substrate transporter
SP140	11262	genome.wustl.edu	37	2	231106123	231106123	+	Nonsense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_007237.4	+1	validated	p.C137*	0.001	469	0%	150	32%	1	0%	-	-	-	HMMPfam_Sp100
SP140	11262	genome.wustl.edu	37	2	231112658	231112658	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_007237.4	+1	validated	p.A257V	0.000	501	0%	209	13.9%	0	-	possibly_damaging(0.93)	tolerated(0.88)	neutral(0.377)	NULL
SP140	11262	genome.wustl.edu	37	2	231175491	231175491	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_007237.4	+1	validated	p.K736N	0.000	387	0%	293	20.8%	2	0%	probably_damaging(0.999)	tolerated(0.11)	deleterious(0.762)	superfamily_FYVE/PHD zinc finger,HMMPfam_PHD
SP100	6672	genome.wustl.edu	37	2	231282365	231282365	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001080391.1	+1	validated	p.S31N	0.009	388	0%	440	19.3%	6	0%	possibly_damaging(0.662)	tolerated(0.05)	deleterious(0.580)	NULL
CAB39	51719	genome.wustl.edu	37	2	231655632	231655632	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001130849.1	+1	validated	p.L54M	1.000	226	0%	129	24%	5	0%	possibly_damaging(0.804)	deleterious(0)	deleterious(0.747)	HMMPfam_Mo25,superfamily_ARM repeat
SPATA3	130560	genome.wustl.edu	37	2	231861160	231861160	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_139073.3	+1	validated	p.A71V	0.001	304	0%	367	18.5%	0	-	probably_damaging(0.974)	tolerated(0.23)	neutral(0.457)	NULL
PSMD1	5707	genome.wustl.edu	37	2	231941835	231941835	+	Nonsense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_002807.2	+1	reviewed	p.R344*	1.000	271	0%	88	31.8%	10	0%	-	-	-	NULL
PSMD1	5707	genome.wustl.edu	37	2	232035369	232035369	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_002807.2	+1	reviewed	p.I935	0.042	296	0%	97	13.4%	157	22.2%	-	-	-	NULL
B3GNT7	93010	genome.wustl.edu	37	2	232263033	232263033	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_145236.2	+1	validated	p.G201	0.809	35	0%	54	22.2%	1	0%	-	-	-	HMMPfam_Galactosyl_T
B3GNT7	93010	genome.wustl.edu	37	2	232263243	232263243	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_145236.2	+1	validated	p.H271	0.745	67	0%	102	24.5%	1	0%	-	-	-	HMMPfam_Galactosyl_T
B3GNT7	93010	genome.wustl.edu	37	2	232263405	232263405	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_145236.2	+1	validated	p.I325	0.997	19	0%	56	17.9%	0	-	-	-	-	HMMPfam_Galactosyl_T
NMUR1	10316	genome.wustl.edu	37	2	232393435	232393435	+	Silent	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_006056.4	-1	validated	p.L99	0.995	39	0%	80	22.5%	0	-	-	-	-	HMMPfam_7tm_1,superfamily_SSF81321
DIS3L2	129563	genome.wustl.edu	37	2	233194658	233194658	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	ENST00000390005	+1	known	p.A601V	0.008	37	0%	77	13%	13	7.6%	unknown(0)	-	-	NULL
ALPP	250	genome.wustl.edu	37	2	233245020	233245020	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001632.3	+1	reviewed	p.A261V	0.227	65	0%	102	13.7%	0	-	benign(0.205)	tolerated(0.24)	neutral(0.057)	HMMPfam_Alk_phosphatase,HMMSmart_alkPPc,superfamily_Alkaline_phosphatase_core
ALPP	250	genome.wustl.edu	37	2	233245555	233245555	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001632.3	+1	reviewed	p.R336C	1.000	154	0%	267	15%	0	-	probably_damaging(1)	deleterious(0)	deleterious(0.945)	HMMPfam_Alk_phosphatase,HMMSmart_alkPPc,superfamily_Alkaline_phosphatase_core
ALPPL2	251	genome.wustl.edu	37	2	233272700	233272700	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_031313.2	+1	reviewed	p.T207	0.002	25	0%	54	22.2%	0	-	-	-	-	HMMPfam_Alk_phosphatase,HMMSmart_alkPPc,superfamily_Alkaline_phosphatase_core
ECEL1	9427	genome.wustl.edu	37	2	233345437	233345437	+	Silent	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_004826.2	-1	validated	p.A714	1.000	127	0%	218	24.8%	4	0%	-	-	-	"HMMPfam_Peptidase_M13,superfamily_Metalloproteases (""zincins"") catalytic domain"
ECEL1	9427	genome.wustl.edu	37	2	233348867	233348867	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_004826.2	-1	validated	p.F417	1.000	39	0%	68	30.9%	4	0%	-	-	-	"HMMPfam_Peptidase_M13_N,superfamily_Metalloproteases (""zincins"") catalytic domain"
ECEL1	9427	genome.wustl.edu	37	2	233348906	233348906	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_004826.2	-1	validated	p.R404	0.317	30	0%	42	14.3%	4	0%	-	-	-	"HMMPfam_Peptidase_M13_N,superfamily_Metalloproteases (""zincins"") catalytic domain"
ECEL1	9427	genome.wustl.edu	37	2	233349574	233349574	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_004826.2	-1	validated	p.R332	0.237	93	0%	168	15.5%	0	-	-	-	-	"HMMPfam_Peptidase_M13_N,superfamily_Metalloproteases (""zincins"") catalytic domain"
CHRNG	1146	genome.wustl.edu	37	2	233410295	233410295	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_005199.4	+1	reviewed	p.V475I	0.999	57	0%	71	9.9%	0	-	probably_damaging(0.975)	tolerated(0.09)	deleterious(0.714)	HMMPfam_Neur_chan_memb,superfamily_Neu_channel_TM
TIGD1	200765	genome.wustl.edu	37	2	233413012	233413012	+	Silent	SNP	G	G	A	rs184548685	by1000genomes	TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_145702.1	-1	validated	p.I527	0.909	334	0.3%	383	26.1%	27	55.5%	-	-	-	NULL
TIGD1	200765	genome.wustl.edu	37	2	233413169	233413169	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_145702.1	-1	validated	p.S475Y	0.993	24	0%	42	16.7%	14	42.8%	probably_damaging(0.976)	deleterious(0)	deleterious(0.863)	NULL
EFHD1	80303	genome.wustl.edu	37	2	233527605	233527605	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_025202.3	+1	validated	p.K132N	1.000	129	0%	64	10.9%	16	0%	probably_damaging(0.999)	deleterious(0)	deleterious(0.935)	HMMSmart_EFh,HMMPfam_efhand,superfamily_SSF47473
GIGYF2	26058	genome.wustl.edu	37	2	233721536	233721536	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001103147.1	+1	reviewed	p.N1310S	1.000	227	0%	124	23.4%	13	0%	unknown(0)	tolerated(0.1)	-	NULL
INPP5D	3635	genome.wustl.edu	37	2	233925232	233925232	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	ENST00000359570	+1	known	p.A15V	1.000	20	0%	44	27.3%	0	-	probably_damaging(0.998)	deleterious(0.01)	deleterious(0.880)	HMMPfam_SH2,HMMSmart_SM00252,superfamily_SH2 domain
INPP5D	3635	genome.wustl.edu	37	2	234102603	234102603	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	ENST00000359570	+1	known	p.L864	0.790	65	0%	31	32.3%	1	0%	-	-	-	NULL
ATG16L1	55054	genome.wustl.edu	37	2	234200809	234200809	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_030803.6	+1	validated	p.G489E	1.000	275	0%	99	25.3%	3	33.3%	unknown(0)	deleterious(0)	-	HMMSmart_SM00320,superfamily_WD40 repeat-like
SAG	6295	genome.wustl.edu	37	2	234227612	234227612	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	ENST00000415974	+1	known	p.R118C	0.000	140	0%	84	21.4%	0	-	unknown(0)	-	-	NULL
SAG	6295	genome.wustl.edu	37	2	234247400	234247400	+	Splice_Site	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_000541.4	+1	reviewed	e11+1	1.000	230	0.4%	130	21.5%	0	-	-	-	-	-
DGKD	8527	genome.wustl.edu	37	2	234345025	234345025	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_152879.2	+1	reviewed	p.D253N	1.000	69	0%	95	18.9%	1	100%	benign(0.038)	deleterious(0.04)	neutral(0.351)	HMMPfam_C1_1,HMMSmart_SM00109,PatternScan_ZF_DAG_PE_1,superfamily_Cysteine-rich domain
DGKD	8527	genome.wustl.edu	37	2	234371306	234371306	+	Silent	SNP	C	C	T	rs190346249	by1000genomes	TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_152879.2	+1	reviewed	p.F1037	0.649	112	0%	134	14.9%	2	0%	-	-	-	NULL
DGKD	8527	genome.wustl.edu	37	2	234378071	234378071	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_152879.2	+1	reviewed	p.E1204K	1.000	40	0%	59	10.2%	3	0%	benign(0.016)	deleterious(0.02)	neutral(0.384)	HMMSmart_SM00454,superfamily_SAM/Pointed domain,HMMPfam_SAM_2
USP40	55230	genome.wustl.edu	37	2	234432099	234432099	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_018218.2	-1	validated	p.E651K	0.935	152	0%	54	29.6%	4	50%	probably_damaging(0.956)	deleterious(0)	deleterious(0.844)	NULL
USP40	55230	genome.wustl.edu	37	2	234436071	234436071	+	Silent	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_018218.2	-1	validated	p.L580	0.356	319	0%	77	24.7%	1	0%	-	-	-	NULL
USP40	55230	genome.wustl.edu	37	2	234449396	234449396	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_018218.2	-1	validated	p.P372H	0.999	435	0%	72	26.4%	0	-	probably_damaging(0.984)	deleterious(0)	deleterious(0.875)	HMMPfam_UCH,superfamily_Cysteine proteinases
UGT1A10	54575	genome.wustl.edu	37	2	234545560	234545560	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_019075.2	+1	reviewed	p.R131Q	0.000	551	0%	127	14.2%	0	-	benign(0.001)	tolerated(0.34)	neutral(0.023)	HMMPfam_UDPGT,superfamily_UDP-Glycosyltransferase/glycogen phosphorylase
UGT1A7	54577	genome.wustl.edu	37	2	234591281	234591281	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_019077.2	+1	reviewed	p.E233G	0.316	378	0%	80	15%	0	-	benign(0.425)	deleterious(0)	deleterious(0.583)	HMMPfam_UDPGT,superfamily_UDP-Glycosyltransferase/glycogen phosphorylase
UGT1A5	54579	genome.wustl.edu	37	2	234621692	234621692	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_019078.1	+1	reviewed	p.L19I	0.000	50	0%	32	15.6%	0	-	probably_damaging(0.998)	deleterious(0.03)	deleterious(0.839)	NULL
UGT1A1	54658	genome.wustl.edu	37	2	234669503	234669503	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_000463.2	+1	reviewed	p.F190L	0.000	182	0%	194	18.6%	0	-	benign(0)	tolerated(1)	-	HMMPfam_UDPGT,superfamily_UDP-Glycosyltransferase/glycogen phosphorylase
TRPM8	79054	genome.wustl.edu	37	2	234839313	234839313	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_024080.4	+1	validated	p.D40N	1.000	246	0%	147	20.4%	0	-	benign(0.131)	tolerated(0.37)	neutral(0.030)	NULL
TRPM8	79054	genome.wustl.edu	37	2	234869622	234869622	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_024080.4	+1	validated	p.T522M	0.994	217	0%	102	24.5%	0	-	probably_damaging(1)	tolerated(0.11)	deleterious(0.772)	NULL
SH3BP4	23677	genome.wustl.edu	37	2	235949990	235949990	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_014521.2	+1	reviewed	p.L193F	1.000	61	0%	98	17.3%	7	28.5%	benign(0.214)	tolerated(0.09)	neutral(0.318)	NULL
SH3BP4	23677	genome.wustl.edu	37	2	235950307	235950307	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_014521.2	+1	reviewed	p.H298	0.160	28	0%	40	15%	0	-	-	-	-	NULL
SH3BP4	23677	genome.wustl.edu	37	2	235951057	235951057	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_014521.2	+1	reviewed	p.Y548	0.995	114	0%	134	13.4%	6	0%	-	-	-	NULL
ENSG00000207049	0	genome.wustl.edu	37	2	237061747	237061747	+	RNA	SNP	A	A	G	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	ENST00000384322	-1	novel	NULL	0.064	14	0.000	8	0.500	0	-	-	-	-	-
COL6A3	1293	genome.wustl.edu	37	2	238253186	238253186	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_004369.3	-1	reviewed	p.S2492L	0.986	117	0%	50	32%	87	0%	probably_damaging(0.985)	-	-	HMMPfam_VWA,HMMSmart_SM00327,superfamily_vWA-like
COL6A3	1293	genome.wustl.edu	37	2	238267722	238267722	+	Nonsense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_004369.3	-1	reviewed	p.G2122*	1.000	182	0%	125	20.8%	66	0%	-	-	-	HMMPfam_Collagen
COL6A3	1293	genome.wustl.edu	37	2	238269792	238269792	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_004369.3	-1	reviewed	p.R2061Q	1.000	263	0%	210	24.8%	36	0%	unknown(0)	-	-	HMMPfam_Collagen
COL6A3	1293	genome.wustl.edu	37	2	238277715	238277715	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_004369.3	-1	reviewed	p.R1464Q	0.001	147	0%	131	11.5%	22	0%	unknown(0)	-	-	HMMPfam_VWA,HMMSmart_SM00327,superfamily_vWA-like
COL6A3	1293	genome.wustl.edu	37	2	238283545	238283545	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_004369.3	-1	reviewed	p.D1063	1.000	58	0%	53	28.3%	6	0%	-	-	-	HMMPfam_VWA,HMMSmart_SM00327,superfamily_vWA-like
COL6A3	1293	genome.wustl.edu	37	2	238287378	238287378	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_004369.3	-1	reviewed	p.D800N	1.000	81	0%	42	16.7%	2	0%	possibly_damaging(0.492)	tolerated(0.55)	neutral(0.171)	HMMPfam_VWA,HMMSmart_SM00327,superfamily_vWA-like
COL6A3	1293	genome.wustl.edu	37	2	238289669	238289669	+	Missense_Mutation	SNP	C	C	T	rs34934127	byCluster;byFrequency;by1000genomes	TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_004369.3	-1	reviewed	p.A596T	0.976	82	0%	32	21.9%	6	0%	probably_damaging(1)	deleterious(0.01)	deleterious(0.905)	HMMPfam_VWA,HMMSmart_SM00327,superfamily_vWA-like
COL6A3	1293	genome.wustl.edu	37	2	238303257	238303257	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_004369.3	-1	reviewed	p.D228Y	0.952	282	0%	71	19.7%	1	0%	unknown(0)	-	-	NULL
COL6A3	1293	genome.wustl.edu	37	2	238303686	238303686	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_004369.3	-1	reviewed	p.G85R	1.000	139	0%	56	25%	0	-	unknown(0)	-	-	HMMPfam_VWA,HMMSmart_SM00327,superfamily_vWA-like
MLPH	79083	genome.wustl.edu	37	2	238428571	238428571	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_024101.5	+1	reviewed	p.V192I	0.004	109	0%	83	25.3%	37	13.5%	benign(0.001)	tolerated(0.4)	neutral(0.016)	NULL
PRLH	51052	genome.wustl.edu	37	2	238475760	238475760	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_015893.1	+1	provisional	p.R69Q	0.000	24	0%	29	17.2%	0	-	probably_damaging(0.999)	tolerated(0.28)	deleterious(0.522)	NULL
LRRFIP1	9208	genome.wustl.edu	37	2	238629456	238629456	+	Silent	SNP	A	A	G	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001137552.1	+1	validated	p.G80	0.996	348	0%	246	13%	2	0%	-	-	-	HMMPfam_DUF2051
LRRFIP1	9208	genome.wustl.edu	37	2	238632193	238632193	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001137550.1	+1	validated	p.S116	0.400	534	0%	385	24.9%	0	-	-	-	-	HMMPfam_DUF2051
LRRFIP1	9208	genome.wustl.edu	37	2	238647883	238647883	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001137550.1	+1	validated	p.E188D	0.999	34	0%	44	31.8%	1	0%	benign(0.287)	tolerated(0.41)	neutral(0.103)	HMMPfam_DUF2051
RBM44	375316	genome.wustl.edu	37	2	238742663	238742663	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001080504.2	+1	validated	p.Q971	0.016	221	0%	41	17.1%	1	0%	-	-	-	NULL
UBE2F	140739	genome.wustl.edu	37	2	238934009	238934009	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	ENST00000441728	+1	known	p.D81N	1.000	567	0%	340	22.9%	63	11.1%	benign(0.024)	-	-	NULL
SCLY	51540	genome.wustl.edu	37	2	239003069	239003069	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	ENST00000437134	+1	known	p.R154W	0.947	111	0%	173	27.2%	1	0%	-	-	-	superfamily_PLP-dependent transferases
SCLY	51540	genome.wustl.edu	37	2	239003116	239003116	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_016510.4	+1	validated	p.R354Q	0.002	148	0%	211	13.3%	1	0%	probably_damaging(0.999)	deleterious(0.01)	deleterious(0.896)	HMMPfam_Aminotran_5,superfamily_PLP-dependent transferases
KLHL30	377007	genome.wustl.edu	37	2	239049614	239049614	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_198582.3	+1	validated	p.R55	0.612	19	0%	40	25%	0	-	-	-	-	HMMSmart_SM00225,superfamily_POZ domain,HMMPfam_BTB
PER2	8864	genome.wustl.edu	37	2	239176769	239176769	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_022817.2	-1	reviewed	p.R299W	0.045	208	0%	177	18.6%	1	0%	benign(0.002)	deleterious(0)	neutral(0.445)	NULL
TRAF3IP1	26146	genome.wustl.edu	37	2	239237907	239237907	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_015650.3	+1	validated	p.R280Q	0.008	322	0.9%	333	10.2%	11	9%	possibly_damaging(0.91)	tolerated(0.47)	neutral(0.373)	HMMPfam_MIP-T3
ASB1	51665	genome.wustl.edu	37	2	239355131	239355131	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001040445.1	+1	reviewed	p.K329N	0.083	231	0%	181	22.7%	26	19.2%	possibly_damaging(0.444)	deleterious(0.03)	deleterious(0.509)	HMMPfam_SOCS_box
TWIST2	117581	genome.wustl.edu	37	2	239757311	239757311	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_057179.1	+1	reviewed	p.G152D	1.000	10	0%	28	35.7%	30	0%	probably_damaging(0.995)	deleterious(0.03)	deleterious(0.822)	NULL
HDAC4	9759	genome.wustl.edu	37	2	239976475	239976475	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_006037.3	-1	reviewed	p.R1015C	0.982	263	0%	364	26.6%	0	-	benign(0.004)	tolerated(0.06)	neutral(0.323)	superfamily_Arginase/deacetylase
HDAC4	9759	genome.wustl.edu	37	2	240011775	240011775	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_006037.3	-1	reviewed	p.A768V	0.990	41	0%	60	21.7%	2	100%	benign(0.039)	deleterious(0.04)	neutral(0.351)	HMMPfam_Hist_deacetyl,superfamily_Arginase/deacetylase
FLJ45964	401040	genome.wustl.edu	37	2	240500093	240500093	+	RNA	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	XR_041563.1	+1	model	NULL	0.066	83	0%	48	18.8%	0	-	-	-	-	-
NDUFA10	4705	genome.wustl.edu	37	2	240958048	240958048	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_004544.3	-1	reviewed	p.V157I	0.963	144	0%	172	22.7%	30	23.3%	probably_damaging(0.998)	deleterious(0.01)	deleterious(0.880)	HMMPfam_dNK,superfamily_SSF52540
OR6B3	150681	genome.wustl.edu	37	2	240984566	240984566	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_173351.1	-1	provisional	p.T308	0.000	125	0%	103	18.4%	0	-	-	-	-	superfamily_SSF81321
GPC1	2817	genome.wustl.edu	37	2	241401640	241401640	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_002081.2	+1	reviewed	p.R120W	0.902	9	0.000	21	0.476	9	0%	probably_damaging(0.999)	deleterious(0.01)	deleterious(0.896)	HMMPfam_Glypican
GPC1	2817	genome.wustl.edu	37	2	241401727	241401727	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_002081.2	+1	reviewed	p.R149C	1.000	13	0%	23	21.7%	4	50%	probably_damaging(1)	deleterious(0)	deleterious(0.945)	HMMPfam_Glypican
ANKMY1	51281	genome.wustl.edu	37	2	241419037	241419037	+	Nonsense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_016552.2	-1	validated	p.E939*	0.001	86	0%	89	18%	9	55.5%	-	-	-	NULL
ANKMY1	51281	genome.wustl.edu	37	2	241448781	241448781	+	Nonsense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	ENST00000391988	-1	known	p.C133*	0.989	46	0%	55	23.6%	0	-	probably_damaging(1)	deleterious(0.04)	deleterious(0.849)	HMMPfam_Ank,HMMSmart_SM00248,superfamily_Ankyrin repeat
ANKMY1	51281	genome.wustl.edu	37	2	241463799	241463799	+	Splice_Site	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_016552.2	-1	validated	e6-1	0.379	25	0%	39	38.5%	1	100%	-	-	-	-
ANKMY1	51281	genome.wustl.edu	37	2	241494361	241494361	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_017844.2	-1	validated	p.Q86	0.881	186	0%	277	24.5%	1	100%	-	-	-	superfamily_SSF82185
CAPN10	11132	genome.wustl.edu	37	2	241537444	241537444	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_023083.2	+1	reviewed	p.S628F	1.000	18	0%	37	29.7%	38	39.4%	probably_damaging(1)	deleterious(0)	deleterious(0.945)	HMMPfam_Calpain_III,HMMSmart_SM00720,superfamily_Calpain large subunit middle domain (domain III)
SNED1	25992	genome.wustl.edu	37	2	241979571	241979571	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	ENST00000401644	+1	known	p.P72S	0.999	73	1.4%	99	38.4%	4	0%	-	-	-	HMMSmart_SM00179,HMMPfam_EGF,HMMSmart_SM00181,PatternScan_EGF_1,PatternScan_EGF_2,superfamily_EGF/Laminin
SNED1	25992	genome.wustl.edu	37	2	242002282	242002282	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001080437.1	+1	provisional	p.L778I	0.819	75	0%	160	22.5%	3	33.3%	benign(0.001)	tolerated(0.26)	neutral(0.034)	PatternScan_ASX_HYDROXYL,HMMSmart_SM00179,HMMPfam_EGF,HMMSmart_SM00181,PatternScan_EGF_1,PatternScan_EGF_2,superfamily_EGF/Laminin
SNED1	25992	genome.wustl.edu	37	2	242004880	242004880	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001080437.1	+1	provisional	p.R960M	0.396	33	0%	82	24.4%	3	0%	possibly_damaging(0.948)	deleterious(0)	deleterious(0.836)	HMMPfam_fn3,HMMSmart_SM00060,superfamily_Fibronectin type III
PASK	23178	genome.wustl.edu	37	2	242065812	242065812	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_015148.2	-1	validated	p.D840N	0.000	106	0%	103	25.2%	4	75%	benign(0.338)	tolerated(0.06)	neutral(0.429)	NULL
ANO7	50636	genome.wustl.edu	37	2	242129489	242129489	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001001891.3	+1	validated	p.R58Q	0.000	15	0%	39	28.2%	0	-	benign(0.267)	tolerated(0.1)	neutral(0.315)	NULL
ANO7	50636	genome.wustl.edu	37	2	242135234	242135234	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001001891.3	+1	validated	p.R149C	0.165	119	0%	143	35%	0	-	benign(0.056)	tolerated(0.12)	neutral(0.264)	NULL
ANO7	50636	genome.wustl.edu	37	2	242149765	242149765	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001001891.3	+1	validated	p.A526V	0.974	61	0%	151	21.9%	0	-	benign(0.091)	tolerated(0.21)	neutral(0.050)	NULL
ANO7	50636	genome.wustl.edu	37	2	242149769	242149769	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001001891.3	+1	validated	p.I527	0.822	62	0%	151	28.5%	0	-	-	-	-	NULL
HDLBP	3069	genome.wustl.edu	37	2	242170330	242170330	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_005336.3	-1	validated	p.Y1106	0.995	194	0%	220	26.4%	321	17.1%	-	-	-	HMMSmart_KH,HMMPfam_KH_1,superfamily_SSF54791
HDLBP	3069	genome.wustl.edu	37	2	242179456	242179456	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_005336.3	-1	validated	p.R751C	1.000	212	0%	196	19.4%	62	14.5%	possibly_damaging(0.924)	deleterious(0)	deleterious(0.818)	HMMSmart_KH,HMMPfam_KH_1,superfamily_SSF54791
HDLBP	3069	genome.wustl.edu	37	2	242195711	242195711	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_005336.3	-1	validated	p.T254M	0.997	200	0%	125	22.4%	28	10.7%	possibly_damaging(0.72)	deleterious(0.01)	deleterious(0.667)	HMMSmart_KH,HMMPfam_KH_1,superfamily_SSF54791
HDLBP	3069	genome.wustl.edu	37	2	242196083	242196083	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_005336.3	-1	validated	p.K197E	1.000	602	0%	324	24.7%	29	3.4%	benign(0.08)	tolerated(0.13)	neutral(0.258)	HMMSmart_KH,HMMPfam_KH_1,superfamily_SSF54791
ATG4B	23192	genome.wustl.edu	37	2	242594026	242594026	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_013325.4	+1	reviewed	p.D117N	1.000	141	0%	124	12.9%	29	0%	probably_damaging(1)	deleterious(0)	deleterious(0.945)	HMMPfam_Peptidase_C54
D2HGDH	728294	genome.wustl.edu	37	2	242690746	242690746	+	Silent	SNP	G	G	A	rs183342534		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	ENST00000432449	+1	known	p.A115T	0.000	33	0%	63	22.2%	4	50%	-	-	-	HMMPfam_FAD-oxidase_C,superfamily_FAD-linked oxidases C-terminal domain
CXXC11	285093	genome.wustl.edu	37	2	242814504	242814504	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_173821.2	+1	validated	p.G266E	0.000	23	0%	32	15.6%	0	-	possibly_damaging(0.586)	tolerated(0.16)	neutral(0.262)	NULL
CHL1	10752	genome.wustl.edu	37	3	423869	423869	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_006614.2	+1	reviewed	p.P628	0.026	175	0%	42	21.4%	0	-	-	-	-	HMMSmart_SM00060,superfamily_Fibronectin type III,superfamily_Immunoglobulin
CHL1	10752	genome.wustl.edu	37	3	423962	423962	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_006614.2	+1	reviewed	p.S659	0.020	142	0%	44	18.2%	0	-	-	-	-	HMMSmart_SM00060,superfamily_Fibronectin type III
CNTN6	27255	genome.wustl.edu	37	3	1424738	1424738	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_014461.2	+1	reviewed	p.R760M	0.933	350	0%	192	29.2%	0	-	probably_damaging(0.971)	deleterious(0)	deleterious(0.857)	HMMPfam_fn3,HMMSmart_FN3,superfamily_FN_III-like
CNTN4	152330	genome.wustl.edu	37	3	3081795	3081795	+	Silent	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_175607.1	+1	reviewed	p.I746	0.986	259	0%	74	25.7%	4	0%	-	-	-	HMMPfam_fn3,HMMSmart_SM00060,superfamily_Fibronectin type III
TRNT1	51095	genome.wustl.edu	37	3	3182305	3182305	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_182916.2	+1	validated	p.D152Y	1.000	224	0%	136	19.1%	3	0%	probably_damaging(1)	deleterious(0)	deleterious(0.945)	HMMPfam_PolyA_pol,superfamily_Nucleotidyltransferase
CRBN	51185	genome.wustl.edu	37	3	3195127	3195127	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_016302.3	-1	reviewed	p.T333A	1.000	560	0%	197	14.2%	13	0%	benign(0.055)	tolerated(0.73)	neutral(0.005)	NULL
CRBN	51185	genome.wustl.edu	37	3	3216892	3216892	+	Silent	SNP	T	T	C	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	ENST00000424814	-1	known	p.N39S	1.000	997	0%	935	24.5%	5	0%	-	-	-	NULL
SETMAR	6419	genome.wustl.edu	37	3	4354885	4354885	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_006515.3	+1	validated	p.R154C	0.524	122	0%	78	10.3%	1	0%	probably_damaging(0.998)	tolerated(0.11)	deleterious(0.746)	HMMPfam_SET,HMMSmart_SM00317,superfamily_SET domain
ITPR1	3708	genome.wustl.edu	37	3	4712531	4712531	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001099952.2	+1	reviewed	p.R709C	1.000	286	0%	115	24.3%	0	-	benign(0.007)	tolerated(0.16)	neutral(0.059)	NULL
ITPR1	3708	genome.wustl.edu	37	3	4747863	4747863	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001099952.2	+1	reviewed	p.A1548V	1.000	84	0%	40	30%	1	0%	benign(0.064)	deleterious(0.03)	neutral(0.368)	NULL
ITPR1	3708	genome.wustl.edu	37	3	4829801	4829801	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001099952.2	+1	reviewed	p.M2214I	1.000	114	0%	51	11.8%	1	0%	possibly_damaging(0.867)	deleterious(0.04)	deleterious(0.685)	NULL
BHLHE40	8553	genome.wustl.edu	37	3	5025215	5025215	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_003670.2	+1	reviewed	p.A359	0.001	252	0%	421	14.3%	146	29.4%	-	-	-	NULL
EDEM1	9695	genome.wustl.edu	37	3	5244745	5244745	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_014674.2	+1	validated	p.R318Q	1.000	137	0%	74	23%	4	0%	probably_damaging(0.984)	deleterious(0.01)	deleterious(0.836)	HMMPfam_Glyco_hydro_47,superfamily_Seven-hairpin glycosidases
GRM7	2917	genome.wustl.edu	37	3	7340418	7340418	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_181874.2	+1	reviewed	p.D262Y	1.000	164	0%	51	21.6%	0	-	probably_damaging(0.981)	deleterious(0.04)	deleterious(0.774)	HMMPfam_ANF_receptor,superfamily_SSF53822
GRM7	2917	genome.wustl.edu	37	3	7348288	7348288	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_181874.2	+1	reviewed	p.D328Y	1.000	214	0%	39	12.8%	0	-	possibly_damaging(0.785)	deleterious(0.02)	deleterious(0.677)	HMMPfam_ANF_receptor,superfamily_SSF53822
GRM7	2917	genome.wustl.edu	37	3	7503379	7503379	+	Silent	SNP	C	C	T	rs150784421	by1000genomes	TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_181874.2	+1	reviewed	p.I495	0.937	186	0%	54	31.5%	1	0%	-	-	-	superfamily_SSF53822
GRM7	2917	genome.wustl.edu	37	3	7620637	7620637	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_181874.2	+1	reviewed	p.R682C	1.000	296	0%	142	9.9%	0	-	probably_damaging(1)	deleterious(0)	deleterious(0.945)	HMMPfam_7tm_3
GRM7	2917	genome.wustl.edu	37	3	7721813	7721813	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_181874.2	+1	reviewed	p.P843	1.000	141	0%	34	26.5%	1	0%	-	-	-	HMMPfam_7tm_3
RAD18	56852	genome.wustl.edu	37	3	8940666	8940666	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_020165.3	-1	reviewed	p.E412K	0.000	509	0%	109	23.9%	3	0%	benign(0)	tolerated(1)	-	NULL
SRGAP3	9901	genome.wustl.edu	37	3	9032274	9032274	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_014850.2	-1	validated	p.S936	0.874	22	0%	43	25.6%	0	-	-	-	-	NULL
SRGAP3	9901	genome.wustl.edu	37	3	9036154	9036154	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_014850.2	-1	validated	p.R761C	0.997	57	0%	40	15%	1	0%	probably_damaging(1)	deleterious(0)	deleterious(0.945)	HMMPfam_SH3_1,HMMSmart_SM00326,superfamily_SH3-domain
MTMR14	64419	genome.wustl.edu	37	3	9730630	9730630	+	Nonsense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001077525.2	+1	reviewed	p.R433*	0.982	68	0%	54	20.4%	28	10.7%	-	-	-	superfamily_(Phosphotyrosine protein) phosphatases II
CPNE9	151835	genome.wustl.edu	37	3	9746616	9746616	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_153635.2	+1	validated	p.D66E	1.000	71	0%	111	24.3%	0	-	benign(0.175)	tolerated(1)	neutral(0.016)	HMMPfam_C2,HMMSmart_C2,superfamily_C2_CaLB
CPNE9	151835	genome.wustl.edu	37	3	9754741	9754741	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_153635.2	+1	validated	p.L210	0.980	50	0%	43	37.2%	0	-	-	-	-	HMMPfam_C2,HMMSmart_C2,superfamily_C2_CaLB
BRPF1	7862	genome.wustl.edu	37	3	9775909	9775909	+	Nonsense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001003694.1	+1	reviewed	p.R29*	1.000	204	0%	323	30.7%	3	0%	-	-	-	PatternScan_ZINC_FINGER_C2H2_1,HMMSmart_ZnF_C2H2
BRPF1	7862	genome.wustl.edu	37	3	9782578	9782578	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001003694.1	+1	reviewed	p.R559C	1.000	72	0%	54	20.4%	3	33.3%	probably_damaging(1)	deleterious(0)	deleterious(0.945)	NULL
BRPF1	7862	genome.wustl.edu	37	3	9788936	9788936	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001003694.1	+1	reviewed	p.N1189S	1.000	38	0%	43	18.6%	27	22.2%	benign(0.28)	tolerated(1)	neutral(0.086)	superfamily_SSF63748
OGG1	4968	genome.wustl.edu	37	3	9800906	9800906	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_016828.2	+1	reviewed	p.L328	0.000	317	0%	294	24.8%	2	50%	-	-	-	NULL
OGG1	4968	genome.wustl.edu	37	3	9807562	9807562	+	Nonsense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_016821.2	+1	reviewed	p.R340*	0.000	130	0%	201	21.9%	14	0%	-	-	-	NULL
TADA3	10474	genome.wustl.edu	37	3	9828739	9828739	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_006354.2	-1	reviewed	p.G254E	1.000	93	0%	108	27.8%	33	12.1%	benign(0.03)	tolerated(0.28)	neutral(0.033)	NULL
TTLL3	26140	genome.wustl.edu	37	3	9859436	9859436	+	Silent	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	ENST00000310252	+1	known	p.L97I	1.000	129	0%	119	14.3%	2	0%	-	-	-	NULL
TTLL3	26140	genome.wustl.edu	37	3	9876498	9876498	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001025930.2	+1	provisional	p.K610N	1.000	146	0%	127	12.6%	19	10.5%	probably_damaging(0.99)	deleterious(0)	deleterious(0.886)	NULL
TTLL3	26140	genome.wustl.edu	37	3	9877031	9877031	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001025930.2	+1	provisional	p.R726Q	0.000	159	0%	119	26.1%	17	23.5%	unknown(0)	-	-	NULL
RPUSD3	285367	genome.wustl.edu	37	3	9879724	9879724	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_173659.3	-1	validated	p.Q344H	0.000	59	0%	75	25.3%	72	40.2%	benign(0.243)	tolerated(0.13)	neutral(0.277)	superfamily_Pseudouridine synthase
IL17RE	132014	genome.wustl.edu	37	3	9952621	9952621	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_153480.1	+1	reviewed	p.T292I	0.956	61	0%	61	39.3%	0	-	probably_damaging(0.992)	deleterious(0.04)	deleterious(0.796)	NULL
CRELD1	78987	genome.wustl.edu	37	3	9985631	9985631	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001031717.3	+1	reviewed	p.R365H	0.000	193	0.5%	325	27.1%	1	0%	benign(0.005)	tolerated(0.07)	neutral(0.319)	NULL
PRRT3	285368	genome.wustl.edu	37	3	9991545	9991545	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_207351.3	-1	validated	p.E85D	0.001	66	0%	154	29.9%	0	-	possibly_damaging(0.837)	tolerated(0.16)	neutral(0.379)	NULL
FANCD2	2177	genome.wustl.edu	37	3	10089616	10089616	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_033084.3	+1	reviewed	p.C432R	0.964	547	0%	161	14.3%	0	-	possibly_damaging(0.749)	tolerated(0.1)	deleterious(0.561)	NULL
FANCD2	2177	genome.wustl.edu	37	3	10138089	10138089	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_033084.3	+1	reviewed	p.A1373D	1.000	256	0%	131	20.6%	9	22.2%	probably_damaging(1)	deleterious(0.03)	deleterious(0.865)	NULL
IRAK2	3656	genome.wustl.edu	37	3	10219626	10219626	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001570.3	+1	reviewed	p.R67W	1.000	23	0%	36	25%	1	100%	probably_damaging(1)	deleterious(0)	deleterious(0.945)	HMMPfam_Death,superfamily_DEATH_like
IRAK2	3656	genome.wustl.edu	37	3	10261425	10261425	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001570.3	+1	reviewed	p.A322V	0.248	78	0%	81	18.5%	2	0%	probably_damaging(1)	deleterious(0)	deleterious(0.945)	superfamily_Kinase_like,HMMPfam_Pkinase
GHRL	51738	genome.wustl.edu	37	3	10327454	10327454	+	RNA	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NR_024132.1	-1	reviewed	NULL	0.000	161	0%	105	24.8%	0	-	-	-	-	-
SEC13	6396	genome.wustl.edu	37	3	10357052	10357052	+	Silent	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_183352.1	-1	reviewed	p.I39	1.000	70	0%	64	28.1%	50	14%	-	-	-	HMMSmart_WD40,superfamily_WD40_like,HMMPfam_WD40
ATP2B2	491	genome.wustl.edu	37	3	10400553	10400553	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001001331.2	-1	reviewed	p.R653Q	1.000	22	0%	23	21.7%	0	-	possibly_damaging(0.649)	tolerated(0.37)	neutral(0.247)	HMMPfam_Hydrolase,superfamily_HAD-like,superfamily_Metal cation-transporting ATPase ATP-binding domain N,superfamily_Calcium ATPase transmembrane domain M
ATP2B2	491	genome.wustl.edu	37	3	10413674	10413674	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001001331.2	-1	reviewed	p.A493V	1.000	294	0%	171	23.4%	0	-	possibly_damaging(0.747)	deleterious(0)	deleterious(0.719)	HMMPfam_Hydrolase,superfamily_HAD-like,superfamily_Calcium ATPase transmembrane domain M
ATP2B2	491	genome.wustl.edu	37	3	10430013	10430013	+	Silent	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001001331.2	-1	reviewed	p.I285	1.000	448	0%	203	23.2%	0	-	-	-	-	HMMPfam_E1-E2_ATPase,superfamily_Calcium ATPase transduction domain A,superfamily_Calcium ATPase transmembrane domain M
ATP2B2	491	genome.wustl.edu	37	3	10443806	10443806	+	Silent	SNP	G	G	A	rs138013890	by1000genomes	TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001001331.2	-1	reviewed	p.I208	0.994	95	0%	68	35.3%	0	-	-	-	-	HMMPfam_E1-E2_ATPase,superfamily_Calcium ATPase transduction domain A,superfamily_Calcium ATPase transmembrane domain M
ATP2B2	491	genome.wustl.edu	37	3	10491116	10491116	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001001331.2	-1	reviewed	p.R38W	1.000	161	0%	203	28.1%	0	-	probably_damaging(1)	deleterious(0)	deleterious(0.945)	NULL
SLC6A11	6538	genome.wustl.edu	37	3	10975765	10975765	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_014229.1	+1	provisional	p.F496L	1.000	210	0%	164	12.8%	0	-	benign(0.31)	tolerated(0.08)	neutral(0.396)	HMMPfam_SNF
SLC6A1	6529	genome.wustl.edu	37	3	11059533	11059533	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_003042.3	+1	validated	p.A81	1.000	222	0%	271	21.8%	0	-	-	-	-	HMMPfam_SNF,PatternScan_NA_NEUROTRAN_SYMP_1
SLC6A1	6529	genome.wustl.edu	37	3	11071012	11071012	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_003042.3	+1	validated	p.L433M	1.000	121	0%	58	10.3%	0	-	possibly_damaging(0.464)	deleterious(0)	deleterious(0.597)	HMMPfam_SNF
TIMP4	7079	genome.wustl.edu	37	3	12198387	12198387	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_003256.2	-1	reviewed	p.T95	0.041	336	0%	473	11%	0	-	-	-	-	HMMPfam_TIMP,HMMSmart_SM00206,superfamily_TIMP-like
SYN2	6854	genome.wustl.edu	37	3	12203616	12203616	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	ENST00000426379	+1	known	p.S323F	1.000	177	0%	240	28.3%	0	-	unknown(0)	-	-	NULL
PPARG	5468	genome.wustl.edu	37	3	12434164	12434164	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_015869.4	+1	reviewed	p.L178I	1.000	302	0%	50	22%	4	0%	benign(0.004)	tolerated(0.06)	neutral(0.323)	HMMPfam_zf-C4,HMMSmart_SM00399,superfamily_Glucocorticoid receptor-like (DNA-binding domain)
CAND2	23066	genome.wustl.edu	37	3	12849778	12849778	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	ENST00000456430	+1	known	p.E146G	1.000	46	0%	63	28.6%	0	-	possibly_damaging(0.795)	deleterious(0.04)	deleterious(0.647)	superfamily_ARM repeat
IQSEC1	9922	genome.wustl.edu	37	3	12944311	12944311	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_014869.4	-1	validated	p.R937C	1.000	83	0%	134	17.2%	4	0%	benign(0.034)	deleterious(0)	neutral(0.447)	NULL
IQSEC1	9922	genome.wustl.edu	37	3	12963730	12963730	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	ENST00000450726	-1	known	p.R596*	0.918	85	0%	123	16.3%	0	-	-	-	-	HMMPfam_Sec7,HMMSmart_SM00222,superfamily_Sec7 domain
IQSEC1	9922	genome.wustl.edu	37	3	12977903	12977903	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_014869.4	-1	validated	p.E219K	0.064	27	0%	54	24.1%	3	0%	benign(0.072)	tolerated(0.29)	neutral(0.034)	NULL
NUP210	23225	genome.wustl.edu	37	3	13377107	13377107	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_024923.2	-1	reviewed	p.S1230	0.000	77	0%	82	20.7%	2	50%	-	-	-	NULL
FBLN2	2199	genome.wustl.edu	37	3	13672274	13672274	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001004019.1	+1	reviewed	p.R1015H	1.000	38	0%	57	29.8%	22	0%	probably_damaging(1)	tolerated(0.16)	deleterious(0.559)	HMMSmart_SM00179,HMMSmart_SM00181,PatternScan_EGF_2,HMMPfam_EGF_CA,superfamily_EGF/Laminin
WNT7A	7476	genome.wustl.edu	37	3	13860852	13860852	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_004625.3	-1	reviewed	p.T213	0.953	69	0%	107	27.1%	8	12.5%	-	-	-	HMMPfam_wnt,HMMSmart_SM00097
XPC	7508	genome.wustl.edu	37	3	14209854	14209854	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_004628.4	-1	reviewed	p.V147M	0.000	136	0%	86	27.9%	6	16.6%	benign(0)	tolerated(0.36)	neutral(0.020)	NULL
GRIP2	80852	genome.wustl.edu	37	3	14555183	14555183	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001080423.1	-1	provisional	p.F641	0.510	54	0%	108	29.6%	0	-	-	-	-	HMMSmart_SM00228,superfamily_PDZ domain-like
C3orf19	51244	genome.wustl.edu	37	3	14708364	14708364	+	Nonsense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_016474.4	+1	validated	p.E212*	1.000	274	0%	102	19.6%	9	0%	-	-	-	NULL
C3orf20	84077	genome.wustl.edu	37	3	14744743	14744743	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_032137.4	+1	validated	p.E284	0.998	56	0%	35	20%	0	-	-	-	-	NULL
FGD5	152273	genome.wustl.edu	37	3	14861295	14861295	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_152536.3	+1	validated	p.T239	0.000	25	0%	48	14.6%	1	0%	-	-	-	NULL
NR2C2	7182	genome.wustl.edu	37	3	15062384	15062384	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_003298.3	+1	validated	p.N186K	1.000	319	0%	110	15.5%	0	-	probably_damaging(0.979)	deleterious(0)	deleterious(0.867)	HMMPfam_zf-C4,HMMSmart_SM00399,superfamily_Nuclear receptor ligand-binding domain,superfamily_Glucocorticoid receptor-like (DNA-binding domain)
NR2C2	7182	genome.wustl.edu	37	3	15065695	15065695	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_003298.3	+1	validated	p.L279F	0.999	197	0%	68	30.9%	3	0%	possibly_damaging(0.762)	deleterious(0.04)	deleterious(0.631)	superfamily_Nuclear receptor ligand-binding domain
NR2C2	7182	genome.wustl.edu	37	3	15071824	15071824	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_003298.3	+1	validated	p.S344R	0.779	334	0%	128	11.7%	1	0%	benign(0)	tolerated(0.44)	neutral(0.013)	superfamily_Nuclear receptor ligand-binding domain
ZFYVE20	64145	genome.wustl.edu	37	3	15115415	15115415	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_022340.2	-1	validated	p.I743	0.945	134	0%	99	28.3%	1	100%	-	-	-	NULL
CAPN7	23473	genome.wustl.edu	37	3	15270491	15270491	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_014296.2	+1	reviewed	p.S288L	1.000	319	0.3%	72	26.4%	5	0%	probably_damaging(0.999)	deleterious(0)	deleterious(0.935)	HMMPfam_Peptidase_C2,HMMSmart_CysPc,superfamily_SSF54001
SH3BP5	9467	genome.wustl.edu	37	3	15303665	15303665	+	Splice_Site	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_004844.3	-1	validated	e5+1	1.000	168	0%	90	23.3%	2	50%	-	-	-	-
COLQ	8292	genome.wustl.edu	37	3	15497428	15497428	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_005677.3	-1	reviewed	p.S391	0.000	110	0%	53	24.5%	1	0%	-	-	-	NULL
BTD	686	genome.wustl.edu	37	3	15686796	15686796	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_000060.2	+1	reviewed	p.A478V	1.000	199	0%	78	15.4%	10	10%	probably_damaging(0.989)	deleterious(0)	deleterious(0.884)	NULL
RFTN1	23180	genome.wustl.edu	37	3	16411713	16411713	+	Silent	SNP	A	A	G	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_015150.1	-1	validated	p.I300	0.632	363	0%	162	24.1%	23	0%	-	-	-	NULL
RFTN1	23180	genome.wustl.edu	37	3	16419311	16419311	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_015150.1	-1	validated	p.G247E	0.000	79	0%	54	25.9%	15	0%	benign(0.001)	tolerated(0.23)	neutral(0.042)	NULL
DAZL	1618	genome.wustl.edu	37	3	16630190	16630190	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001351.2	-1	reviewed	p.R289W	1.000	404	0.2%	93	12.9%	0	-	probably_damaging(0.987)	deleterious(0)	deleterious(0.881)	NULL
DAZL	1618	genome.wustl.edu	37	3	16633557	16633557	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001351.2	-1	reviewed	p.K278N	1.000	727	0%	241	23.2%	0	-	possibly_damaging(0.712)	deleterious(0)	deleterious(0.702)	NULL
PLCL2	23228	genome.wustl.edu	37	3	17051713	17051713	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_015184.5	+1	validated	p.A166D	1.000	144	0%	26	19.2%	1	0%	possibly_damaging(0.949)	deleterious(0.01)	deleterious(0.798)	superfamily_SSF47473
PLCL2	23228	genome.wustl.edu	37	3	17052367	17052367	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_015184.5	+1	validated	p.A384D	1.000	286	0%	66	34.8%	0	-	possibly_damaging(0.908)	tolerated(0.2)	neutral(0.410)	HMMPfam_PI-PLC-X,HMMSmart_PLCXc,superfamily_PLC-like_Pdiesterase_TIM-brl
SATB1	6304	genome.wustl.edu	37	3	18458493	18458493	+	Nonsense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001131010.1	-1	validated	p.E97*	1.000	251	0%	155	26.5%	0	-	-	-	-	NULL
KCNH8	131096	genome.wustl.edu	37	3	19389398	19389398	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_144633.2	+1	reviewed	p.L251P	0.971	349	0%	104	20.2%	0	-	benign(0)	tolerated(0.29)	neutral(0.029)	superfamily_SSF81324
KCNH8	131096	genome.wustl.edu	37	3	19479779	19479779	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_144633.2	+1	reviewed	p.S434N	1.000	136	0%	45	17.8%	0	-	probably_damaging(0.999)	deleterious(0)	deleterious(0.935)	HMMPfam_Ion_trans,superfamily_SSF81324
KCNH8	131096	genome.wustl.edu	37	3	19554586	19554586	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_144633.2	+1	reviewed	p.S735Y	0.285	129	0%	38	26.3%	0	-	benign(0.051)	deleterious(0)	neutral(0.448)	NULL
KAT2B	8850	genome.wustl.edu	37	3	20153174	20153174	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_003884.4	+1	reviewed	p.R313H	1.000	229	0%	61	27.9%	1	0%	probably_damaging(0.993)	tolerated(0.07)	deleterious(0.769)	HMMPfam_PCAF_N
UBE2E1	7324	genome.wustl.edu	37	3	23848788	23848788	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_003341.3	+1	reviewed	p.T10A	1.000	170	0%	314	11.1%	16	0%	unknown(0)	tolerated(0.29)	-	NULL
NKIRAS1	28512	genome.wustl.edu	37	3	23942393	23942393	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_020345.3	-1	validated	p.G81V	1.000	362	0%	150	22%	4	0%	possibly_damaging(0.943)	tolerated(0.07)	deleterious(0.707)	HMMPfam_Ras,superfamily_SSF52540
TOP2B	7155	genome.wustl.edu	37	3	25662278	25662278	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001068.2	-1	reviewed	p.T914	0.017	474	0%	96	26%	16	6.2%	-	-	-	HMMPfam_DNA_topoisoIV,HMMSmart_TOP4c,superfamily_Topo_IIA_cen
OXSM	54995	genome.wustl.edu	37	3	25832505	25832505	+	RNA	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NR_026937.1	+1	reviewed	NULL	0.000	144	0%	168	22.6%	2	50%	-	-	-	-
OXSM	54995	genome.wustl.edu	37	3	25835811	25835811	+	Missense_Mutation	SNP	T	T	G	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_017897.2	+1	reviewed	p.C402W	1.000	207	0%	189	25.4%	34	41.1%	probably_damaging(1)	deleterious(0)	deleterious(0.945)	HMMPfam_Ketoacyl-synt_C,superfamily_Thiolase-like
LRRC3B	116135	genome.wustl.edu	37	3	26751199	26751199	+	Silent	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_052953.2	+1	provisional	p.L12	1.000	470	0%	80	25%	0	-	-	-	-	NULL
LRRC3B	116135	genome.wustl.edu	37	3	26751498	26751498	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_052953.2	+1	provisional	p.A112V	0.995	144	0%	31	22.6%	0	-	possibly_damaging(0.741)	tolerated(0.31)	neutral(0.299)	superfamily_SSF52058
NEK10	152110	genome.wustl.edu	37	3	27216003	27216003	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	ENST00000396636	-1	known	p.E901D	0.997	248	0%	62	11.3%	0	-	possibly_damaging(0.889)	tolerated(0.34)	neutral(0.372)	NULL
NEK10	152110	genome.wustl.edu	37	3	27244044	27244044	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	ENST00000396636	-1	known	p.E699K	1.000	135	0%	30	30%	0	-	probably_damaging(0.997)	deleterious(0)	deleterious(0.911)	HMMSmart_SM00219,HMMSmart_SM00220,superfamily_Protein kinase-like (PK-like),HMMPfam_Pkinase
SLC4A7	9497	genome.wustl.edu	37	3	27427460	27427460	+	Nonsense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_003615.3	-1	validated	p.E1130*	1.000	268	0%	87	27.6%	2	100%	-	-	-	NULL
SLC4A7	9497	genome.wustl.edu	37	3	27431578	27431578	+	Missense_Mutation	SNP	T	T	G	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_003615.3	-1	validated	p.K1059N	0.969	123	0%	47	31.9%	0	-	probably_damaging(0.953)	tolerated(0.16)	neutral(0.456)	HMMPfam_HCO3_cotransp
SLC4A7	9497	genome.wustl.edu	37	3	27436057	27436057	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_003615.3	-1	validated	p.M1014I	1.000	169	0%	58	19%	1	0%	benign(0.063)	tolerated(0.33)	neutral(0.028)	HMMPfam_HCO3_cotransp
SLC4A7	9497	genome.wustl.edu	37	3	27436564	27436564	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_003615.3	-1	validated	p.D907Y	0.410	253	0%	61	11.5%	0	-	benign(0.149)	deleterious(0.03)	neutral(0.378)	HMMPfam_HCO3_cotransp
CMC1	152100	genome.wustl.edu	37	3	28357890	28357890	+	Nonsense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	ENST00000418849	+1	known	p.C65*	1.000	408	0%	74	23%	30	13.3%	probably_damaging(0.99)	deleterious(0.02)	deleterious(0.825)	HMMPfam_Cmc1
AZI2	64343	genome.wustl.edu	37	3	28365575	28365575	+	Silent	SNP	A	A	G	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_022461.3	-1	validated	p.H379	0.743	360	0%	55	21.8%	10	10%	-	-	-	NULL
RBMS3	27303	genome.wustl.edu	37	3	29985714	29985714	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001003793.2	+1	reviewed	p.R356M	1.000	457	0%	123	18.7%	0	-	possibly_damaging(0.678)	tolerated(0.08)	deleterious(0.541)	NULL
GADL1	339896	genome.wustl.edu	37	3	30880506	30880506	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_207359.2	-1	validated	p.L296I	0.999	118	0%	31	22.6%	0	-	benign(0.234)	tolerated(0.22)	neutral(0.066)	HMMPfam_Pyridoxal_deC,superfamily_PLP-dependent transferases
STT3B	201595	genome.wustl.edu	37	3	31656646	31656646	+	Silent	SNP	T	T	G	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	ENST00000436236	+1	known	p.F70V	0.778	562	0%	100	24%	6	0%	-	-	-	HMMPfam_STT3
OSBPL10	114884	genome.wustl.edu	37	3	31725424	31725424	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	ENST00000429492	-1	known	p.R245K	1.000	153	0%	85	24.7%	2	0%	-	-	-	HMMPfam_Oxysterol_BP
CMTM7	112616	genome.wustl.edu	37	3	32490967	32490967	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_138410.2	+1	reviewed	p.G119S	0.998	303	0.3%	137	27.7%	39	15.3%	unknown(0)	tolerated(0.37)	-	HMMPfam_MARVEL
DYNC1LI1	51143	genome.wustl.edu	37	3	32576071	32576071	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_016141.2	-1	validated	p.I300	0.249	391	0%	98	16.3%	26	7.6%	-	-	-	HMMPfam_DLIC,superfamily_P-loop containing nucleoside triphosphate hydrolases
DYNC1LI1	51143	genome.wustl.edu	37	3	32586563	32586563	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_016141.2	-1	validated	p.D125N	1.000	254	0%	86	17.4%	17	11.7%	possibly_damaging(0.652)	tolerated(0.07)	deleterious(0.548)	HMMPfam_DLIC,superfamily_P-loop containing nucleoside triphosphate hydrolases
SUSD5	26032	genome.wustl.edu	37	3	33194302	33194302	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_015551.1	-1	validated	p.Y608H	1.000	82	0%	44	18.2%	0	-	probably_damaging(0.998)	deleterious(0)	deleterious(0.919)	NULL
SUSD5	26032	genome.wustl.edu	37	3	33194726	33194726	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_015551.1	-1	validated	p.T466	0.000	260	0.4%	85	16.5%	2	0%	-	-	-	NULL
CLASP2	23122	genome.wustl.edu	37	3	33602457	33602457	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_015097.1	-1	validated	p.S925G	1.000	387	0%	154	10.4%	1	100%	possibly_damaging(0.495)	tolerated(0.06)	deleterious(0.488)	superfamily_ARM repeat
CLASP2	23122	genome.wustl.edu	37	3	33686514	33686514	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	ENST00000333778	-1	known	p.S9	0.000	57	0%	17	29.4%	0	-	-	-	-	NULL
PDCD6IP	10015	genome.wustl.edu	37	3	33868042	33868042	+	Silent	SNP	A	A	G	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_013374.4	+1	validated	p.K229	0.997	511	0%	157	20.4%	4	0%	-	-	-	HMMPfam_BRO1
PDCD6IP	10015	genome.wustl.edu	37	3	33879764	33879764	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_013374.4	+1	validated	p.D376N	1.000	258	0%	137	15.3%	5	0%	benign(0.061)	deleterious(0)	neutral(0.449)	HMMPfam_BRO1
ARPP21	10777	genome.wustl.edu	37	3	35723367	35723367	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_016300.4	+1	validated	p.L42	0.735	215	0%	52	23.1%	0	-	-	-	-	NULL
ARPP21	10777	genome.wustl.edu	37	3	35748524	35748524	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_016300.4	+1	validated	p.R249W	1.000	379	0%	124	11.3%	0	-	probably_damaging(1)	deleterious(0)	deleterious(0.945)	NULL
TRANK1	9881	genome.wustl.edu	37	3	36874163	36874163	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_014831.2	-1	provisional	p.R1710I	0.005	325	0%	116	12.1%	0	-	benign(0.107)	deleterious(0.02)	neutral(0.392)	NULL
TRANK1	9881	genome.wustl.edu	37	3	36898545	36898545	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_014831.2	-1	provisional	p.E296K	1.000	89	0%	31	32.3%	0	-	possibly_damaging(0.722)	tolerated(0.09)	deleterious(0.558)	NULL
TRANK1	9881	genome.wustl.edu	37	3	36902601	36902601	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	ENST00000429976	-1	known	p.V380F	0.969	253	0%	76	25%	0	-	benign(0)	tolerated(1)	-	superfamily_Ankyrin repeat
MLH1	4292	genome.wustl.edu	37	3	37090469	37090469	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_000249.3	+1	reviewed	p.K688	1.000	372	0%	87	21.8%	32	21.8%	-	-	-	NULL
GOLGA4	2803	genome.wustl.edu	37	3	37323653	37323653	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_002078.4	+1	reviewed	p.E123K	1.000	168	0%	174	29.3%	0	-	probably_damaging(0.998)	deleterious(0.01)	deleterious(0.880)	NULL
ITGA9	3680	genome.wustl.edu	37	3	37559059	37559059	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_002207.2	+1	reviewed	p.S367I	1.000	97	0%	45	33.3%	0	-	possibly_damaging(0.905)	deleterious(0.01)	deleterious(0.765)	HMMPfam_FG-GAP,HMMSmart_Int_alpha,superfamily_SSF69318
ITGA9	3680	genome.wustl.edu	37	3	37560811	37560811	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_002207.2	+1	reviewed	p.G401V	1.000	474	0%	157	25.5%	5	0%	probably_damaging(1)	deleterious(0)	deleterious(0.945)	HMMSmart_Int_alpha,superfamily_SSF69318
ITGA9	3680	genome.wustl.edu	37	3	37583928	37583928	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_002207.2	+1	reviewed	p.V514A	0.916	330	0%	123	22%	5	0%	benign(0.001)	tolerated(0.37)	neutral(0.019)	HMMPfam_Integrin_alpha2,superfamily_SSF69179
CTDSPL	10217	genome.wustl.edu	37	3	37988606	37988606	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001008392.1	+1	validated	p.F46L	1.000	75	0%	47	25.5%	4	50%	benign(0)	tolerated(1)	-	NULL
VILL	50853	genome.wustl.edu	37	3	38039127	38039127	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_015873.3	+1	reviewed	p.P239S	0.951	51	0%	125	28%	1	0%	possibly_damaging(0.521)	tolerated(0.15)	neutral(0.416)	superfamily_C-terminal gelsolin-like domain of Sec23/24
PLCD1	5333	genome.wustl.edu	37	3	38061815	38061815	+	Silent	SNP	C	C	T	rs139499771	by1000genomes	TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001130964.1	-1	validated	p.A42	0.810	56	0%	77	35.1%	2	0%	-	-	-	superfamily_SSF50729
DLEC1	9940	genome.wustl.edu	37	3	38137296	38137296	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	ENST00000452631	+1	known	p.R711I	0.000	75	0%	53	28.3%	0	-	-	-	-	NULL
DLEC1	9940	genome.wustl.edu	37	3	38149144	38149144	+	Missense_Mutation	SNP	A	A	C	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_007337.2	+1	reviewed	p.R978S	0.127	209	0%	126	17.5%	0	-	benign(0.001)	tolerated(0.9)	-	NULL
DLEC1	9940	genome.wustl.edu	37	3	38151596	38151596	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_007337.2	+1	reviewed	p.E1089D	0.002	37	0%	38	15.8%	0	-	benign(0.156)	tolerated(0.43)	neutral(0.028)	NULL
DLEC1	9940	genome.wustl.edu	37	3	38158002	38158002	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_007337.2	+1	reviewed	p.E1305	0.995	29	0%	20	30%	0	-	-	-	-	NULL
DLEC1	9940	genome.wustl.edu	37	3	38158497	38158497	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_007337.2	+1	reviewed	p.Y1404C	0.000	90	0%	79	10.1%	2	0%	benign(0.004)	deleterious(0.02)	neutral(0.383)	NULL
ACAA1	30	genome.wustl.edu	37	3	38175461	38175461	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001607.3	-1	reviewed	p.R102Q	0.962	137	0%	164	31.1%	17	29.4%	probably_damaging(1)	deleterious(0)	deleterious(0.945)	HMMPfam_Thiolase_N,superfamily_Thiolase-like
SLC22A13	9390	genome.wustl.edu	37	3	38315866	38315866	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_004256.3	+1	reviewed	p.R161Q	1.000	125	0%	65	18.5%	0	-	probably_damaging(0.976)	tolerated(0.32)	neutral(0.442)	HMMPfam_MFS_1,superfamily_MFS general substrate transporter
SLC22A14	9389	genome.wustl.edu	37	3	38350472	38350472	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_004803.3	+1	validated	p.R268Q	0.909	249	0%	209	26.8%	0	-	probably_damaging(1)	deleterious(0.03)	deleterious(0.865)	HMMPfam_MFS_1,superfamily_MFS general substrate transporter
SLC22A14	9389	genome.wustl.edu	37	3	38357921	38357921	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_004803.3	+1	validated	p.V547I	0.000	130	0%	150	16.7%	0	-	benign(0.001)	tolerated(0.95)	-	superfamily_MFS general substrate transporter
SCN5A	6331	genome.wustl.edu	37	3	38592162	38592162	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001099404.1	-1	reviewed	p.E1901K	1.000	369	0.3%	231	28.1%	2	0%	probably_damaging(0.998)	deleterious(0)	deleterious(0.919)	NULL
SCN5A	6331	genome.wustl.edu	37	3	38592428	38592428	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001099404.1	-1	reviewed	p.S1812L	0.417	123	0%	109	25.7%	0	-	benign(0)	tolerated(0.18)	neutral(0.056)	NULL
SCN5A	6331	genome.wustl.edu	37	3	38616791	38616791	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001099404.1	-1	reviewed	p.A1221	0.008	52	0%	74	24.3%	0	-	-	-	-	superfamily_Voltage-gated potassium channels
SCN10A	6336	genome.wustl.edu	37	3	38764989	38764989	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_006514.2	-1	validated	p.E1095G	0.907	180	0%	49	24.5%	0	-	possibly_damaging(0.949)	tolerated(0.19)	neutral(0.443)	HMMPfam_Na_trans_assoc
SCN10A	6336	genome.wustl.edu	37	3	38770388	38770388	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_006514.2	-1	validated	p.R762H	1.000	194	0%	70	24.3%	0	-	probably_damaging(1)	deleterious(0)	deleterious(0.945)	HMMPfam_Ion_trans,superfamily_SSF81324
SCN10A	6336	genome.wustl.edu	37	3	38783898	38783898	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_006514.2	-1	validated	p.D664N	1.000	87	0%	50	30%	0	-	probably_damaging(1)	deleterious(0)	deleterious(0.945)	NULL
SCN10A	6336	genome.wustl.edu	37	3	38805068	38805068	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_006514.2	-1	validated	p.D207N	0.997	249	0%	67	13.4%	0	-	benign(0.012)	tolerated(0.38)	neutral(0.018)	HMMPfam_Ion_trans,superfamily_SSF81324
SCN10A	6336	genome.wustl.edu	37	3	38812842	38812842	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_006514.2	-1	validated	p.G176E	1.000	336	0%	76	21.1%	0	-	probably_damaging(1)	deleterious(0)	deleterious(0.945)	HMMPfam_Ion_trans,superfamily_SSF81324
SCN11A	11280	genome.wustl.edu	37	3	38888445	38888445	+	Missense_Mutation	SNP	T	T	G	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_014139.2	-1	validated	p.M1706L	0.563	384	0%	104	18.3%	0	-	benign(0.014)	tolerated(0.14)	neutral(0.250)	NULL
SCN11A	11280	genome.wustl.edu	37	3	38888876	38888876	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_014139.2	-1	validated	p.R1562Q	0.000	262	0%	56	25%	0	-	benign(0.007)	deleterious(0.02)	neutral(0.383)	HMMPfam_Ion_trans,superfamily_Voltage-gated potassium channels
SCN11A	11280	genome.wustl.edu	37	3	38889082	38889082	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_014139.2	-1	validated	p.S1493	0.204	216	0%	68	17.6%	0	-	-	-	-	HMMPfam_Ion_trans,superfamily_Voltage-gated potassium channels
SCN11A	11280	genome.wustl.edu	37	3	38936395	38936395	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_014139.2	-1	validated	p.N822D	0.010	334	0%	78	10.3%	0	-	benign(0.002)	tolerated(0.58)	neutral(0.005)	NULL
SCN11A	11280	genome.wustl.edu	37	3	38991804	38991804	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_014139.2	-1	validated	p.R17H	1.000	112	0%	155	18.7%	0	-	probably_damaging(0.997)	deleterious(0.03)	deleterious(0.831)	NULL
GORASP1	64689	genome.wustl.edu	37	3	39142553	39142553	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_031899.2	-1	reviewed	p.R130H	0.976	111	0%	108	28.7%	3	33.3%	possibly_damaging(0.931)	tolerated(0.14)	deleterious(0.627)	superfamily_PDZ domain-like,HMMPfam_GRASP55_65
TTC21A	199223	genome.wustl.edu	37	3	39162549	39162549	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001105513.2	+1	validated	p.A329V	0.001	375	0%	198	32.8%	0	-	benign(0.253)	tolerated(0.15)	neutral(0.267)	superfamily_TPR-like
TTC21A	199223	genome.wustl.edu	37	3	39166824	39166824	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001105513.2	+1	validated	p.V406A	1.000	89	0%	38	31.6%	0	-	benign(0.026)	tolerated(0.53)	neutral(0.009)	superfamily_TPR-like
TTC21A	199223	genome.wustl.edu	37	3	39176624	39176624	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001105513.2	+1	validated	p.A976V	0.005	211	0%	148	27.7%	2	0%	benign(0.029)	tolerated(0.12)	neutral(0.262)	HMMPfam_TPR_1,HMMSmart_SM00028,superfamily_TPR-like
CSRNP1	64651	genome.wustl.edu	37	3	39185751	39185751	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_033027.3	-1	reviewed	p.I219	0.897	53	0%	37	16.2%	10	20%	-	-	-	NULL
XIRP1	165904	genome.wustl.edu	37	3	39229856	39229856	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_194293.2	-1	provisional	p.E361K	0.040	83	0%	86	31.4%	0	-	benign(0.098)	tolerated(0.45)	neutral(0.019)	NULL
XIRP1	165904	genome.wustl.edu	37	3	39229950	39229950	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_194293.2	-1	provisional	p.F329	1.000	67	0%	75	24%	0	-	-	-	-	NULL
XIRP1	165904	genome.wustl.edu	37	3	39230186	39230186	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_194293.2	-1	provisional	p.H251N	1.000	25	0%	48	22.9%	0	-	probably_damaging(1)	tolerated(0.06)	deleterious(0.823)	NULL
XIRP1	165904	genome.wustl.edu	37	3	39230654	39230654	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_194293.2	-1	provisional	p.R95C	1.000	45	0%	48	22.9%	0	-	probably_damaging(1)	deleterious(0)	deleterious(0.945)	HMMPfam_Xin
RPL14	9045	genome.wustl.edu	37	3	40503638	40503638	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001034996.1	+1	reviewed	p.A188V	0.964	91	0%	128	14.1%	3435	21.1%	unknown(0)	deleterious(0)	-	NULL
ZNF619	285267	genome.wustl.edu	37	3	40529865	40529865	+	RNA	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NR_026746.2	+1	validated	NULL	0.005	32	0%	55	18.2%	0	-	-	-	-	-
ZNF620	253639	genome.wustl.edu	37	3	40558110	40558110	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_175888.2	+1	validated	p.G342V	0.997	176	0%	182	12.1%	1	0%	probably_damaging(0.996)	deleterious(0)	deleterious(0.906)	HMMPfam_zf-C2H2,PatternScan_ZINC_FINGER_C2H2_1,HMMSmart_SM00355,superfamily_C2H2 and C2HC zinc fingers
ZNF621	285268	genome.wustl.edu	37	3	40574109	40574109	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001098414.1	+1	validated	p.R283I	0.075	270	0%	244	25%	0	-	probably_damaging(0.997)	deleterious(0.03)	deleterious(0.831)	HMMPfam_zf-C2H2,PatternScan_ZINC_FINGER_C2H2_1,HMMSmart_SM00355,superfamily_C2H2 and C2HC zinc fingers
LOC729505	729505	genome.wustl.edu	37	3	40740861	40740861	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	XM_001130480.3	-1	model	p.R40H	0.000	7	0.000	8	0.500	0	-	-	-	-	NULL
CTNNB1	1499	genome.wustl.edu	37	3	41266527	41266527	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001098209.1	+1	reviewed	p.Q108	1.000	249	0%	54	16.7%	35	2.8%	-	-	-	NULL
CTNNB1	1499	genome.wustl.edu	37	3	41275709	41275709	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001098209.1	+1	reviewed	p.R535Q	1.000	269	0.4%	66	12.1%	93	2.1%	probably_damaging(0.985)	tolerated(0.09)	deleterious(0.728)	HMMSmart_SM00185,superfamily_ARM repeat
ULK4	54986	genome.wustl.edu	37	3	41497025	41497025	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_017886.2	-1	validated	p.R1152I	0.979	173	0%	35	17.1%	20	0%	possibly_damaging(0.778)	deleterious(0.01)	deleterious(0.697)	superfamily_ARM-type_fold
ULK4	54986	genome.wustl.edu	37	3	41497081	41497081	+	Missense_Mutation	SNP	C	C	A	rs187256967	by1000genomes	TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_017886.2	-1	validated	p.Q1133H	1.000	143	0%	21	38.1%	27	0%	possibly_damaging(0.843)	deleterious(0.05)	deleterious(0.668)	superfamily_ARM-type_fold
TRAK1	22906	genome.wustl.edu	37	3	42201898	42201898	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_014965.3	+1	validated	p.Y15	0.599	180	0%	141	22%	0	-	-	-	-	HMMPfam_HAP1_N
TRAK1	22906	genome.wustl.edu	37	3	42218379	42218379	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001042646.1	+1	validated	p.E120D	1.000	343	0.3%	187	26.2%	5	20%	probably_damaging(0.997)	deleterious(0.04)	deleterious(0.815)	HMMPfam_HAP1_N
TRAK1	22906	genome.wustl.edu	37	3	42251735	42251735	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_014965.3	+1	validated	p.R683C	1.000	156	0%	151	13.2%	4	25%	probably_damaging(0.999)	deleterious(0)	deleterious(0.935)	NULL
TRAK1	22906	genome.wustl.edu	37	3	42264716	42264716	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001042646.1	+1	validated	p.P783	0.025	200	0%	174	24.7%	12	50%	-	-	-	NULL
VIPR1	7433	genome.wustl.edu	37	3	42568935	42568935	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_004624.3	+1	validated	p.Y150	1.000	59	0%	63	25.4%	0	-	-	-	-	HMMPfam_7tm_2,superfamily_Hormone receptor domain (HRM Pfam 02793),superfamily_Family A G protein-coupled receptor-like
VIPR1	7433	genome.wustl.edu	37	3	42569614	42569614	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_004624.3	+1	validated	p.S212L	1.000	79	0%	71	38%	0	-	possibly_damaging(0.893)	tolerated(0.11)	deleterious(0.623)	HMMPfam_7tm_2,superfamily_Family A G protein-coupled receptor-like
VIPR1	7433	genome.wustl.edu	37	3	42576528	42576528	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_004624.3	+1	validated	p.A358T	1.000	387	0.8%	513	13.1%	0	-	probably_damaging(0.999)	tolerated(0.05)	deleterious(0.836)	HMMPfam_7tm_2,superfamily_Family A G protein-coupled receptor-like
LOC100287203	100287203	genome.wustl.edu	37	3	42728256	42728256	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	XM_002342329.1	-1	model	p.E183K	1.000	8	0.000	18	0.278	0	-	-	-	-	NULL
KBTBD5	131377	genome.wustl.edu	37	3	42732400	42732400	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_152393.2	+1	validated	p.V553I	1.000	73	0%	103	19.4%	0	-	benign(0.036)	tolerated(0.19)	neutral(0.052)	HMMPfam_Kelch_1,HMMSmart_SM00612,superfamily_Galactose oxidase central domain
CCDC13	152206	genome.wustl.edu	37	3	42798572	42798572	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_144719.3	-1	validated	p.R119K	0.990	506	0%	282	23%	2	50%	probably_damaging(0.971)	tolerated(0.18)	deleterious(0.469)	NULL
CCBP2	1238	genome.wustl.edu	37	3	42906952	42906952	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001296.4	+1	reviewed	p.R320C	0.998	132	0%	56	26.8%	2	0%	probably_damaging(1)	deleterious(0)	deleterious(0.945)	superfamily_SSF81321
ZNF662	389114	genome.wustl.edu	37	3	42949531	42949531	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001134656.1	+1	validated	p.E36D	0.998	445	0.2%	701	12.1%	0	-	benign(0.395)	tolerated(0.07)	neutral(0.446)	HMMPfam_KRAB,HMMSmart_SM00349,superfamily_KRAB domain (Kruppel-associated box Pfam 01352)
ZNF662	389114	genome.wustl.edu	37	3	42950307	42950307	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001134656.1	+1	validated	p.P79	0.763	235	0%	402	26.6%	1	0%	-	-	-	HMMSmart_SM00349,superfamily_KRAB domain (Kruppel-associated box Pfam 01352)
ZNF662	389114	genome.wustl.edu	37	3	42956156	42956156	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001134656.1	+1	validated	p.C223	1.000	159	0.6%	185	27%	0	-	-	-	-	HMMPfam_zf-C2H2,PatternScan_ZINC_FINGER_C2H2_1,HMMSmart_SM00355,superfamily_C2H2 and C2HC zinc fingers
ZNF662	389114	genome.wustl.edu	37	3	42956368	42956368	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001134656.1	+1	validated	p.R294I	1.000	198	0%	191	27.7%	0	-	probably_damaging(0.997)	deleterious(0)	deleterious(0.911)	HMMPfam_zf-C2H2,PatternScan_ZINC_FINGER_C2H2_1,HMMSmart_SM00355,superfamily_C2H2 and C2HC zinc fingers
ZNF445	353274	genome.wustl.edu	37	3	44490006	44490006	+	Missense_Mutation	SNP	T	T	G	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_181489.5	-1	validated	p.K386T	0.097	179	0%	96	33.3%	0	-	probably_damaging(0.954)	tolerated(0.06)	deleterious(0.720)	NULL
ZNF167	55888	genome.wustl.edu	37	3	44612360	44612360	+	Missense_Mutation	SNP	A	A	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_018651.2	+1	validated	p.K586N	0.990	195	0%	160	11.9%	0	-	probably_damaging(0.995)	deleterious(0)	deleterious(0.902)	HMMPfam_zf-C2H2,PatternScan_ZINC_FINGER_C2H2_1,HMMSmart_SM00355,superfamily_C2H2 and C2HC zinc fingers
ZNF660	285349	genome.wustl.edu	37	3	44635904	44635904	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_173658.1	+1	provisional	p.T73	0.961	216	0%	165	15.8%	2	0%	-	-	-	superfamily_SSF57667
ZNF660	285349	genome.wustl.edu	37	3	44636407	44636407	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_173658.1	+1	provisional	p.R241H	1.000	154	0%	123	24.4%	0	-	probably_damaging(0.985)	deleterious(0)	deleterious(0.877)	superfamily_SSF57667
ZNF502	91392	genome.wustl.edu	37	3	44762977	44762977	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001134440.1	+1	validated	p.R223Q	0.000	155	0.6%	139	28.8%	0	-	benign(0.002)	tolerated(0.49)	neutral(0.011)	HMMPfam_zf-C2H2,PatternScan_ZINC_FINGER_C2H2_1,HMMSmart_ZnF_C2H2,superfamily_SSF57667
ZNF502	91392	genome.wustl.edu	37	3	44763242	44763242	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001134440.1	+1	validated	p.T311	0.000	132	0%	146	26%	1	0%	unknown(0)	tolerated(0.58)	-	HMMPfam_zf-C2H2,PatternScan_ZINC_FINGER_C2H2_1,HMMSmart_ZnF_C2H2,superfamily_SSF57667
ZNF501	115560	genome.wustl.edu	37	3	44776222	44776222	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_145044.2	+1	validated	p.E103D	0.998	264	0.4%	260	29.6%	1	0%	possibly_damaging(0.931)	deleterious(0.03)	deleterious(0.742)	superfamily_C2H2 and C2HC zinc fingers
KIF15	56992	genome.wustl.edu	37	3	44826375	44826375	+	Nonsense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_020242.2	+1	validated	p.G134*	1.000	193	0%	65	12.3%	1	0%	-	-	-	HMMPfam_Kinesin,HMMSmart_SM00129,superfamily_P-loop containing nucleoside triphosphate hydrolases
KIF15	56992	genome.wustl.edu	37	3	44842962	44842962	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_020242.2	+1	validated	p.M415V	0.439	225	0%	80	15%	0	-	benign(0)	tolerated(0.45)	neutral(0.012)	NULL
KIF15	56992	genome.wustl.edu	37	3	44844373	44844373	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_020242.2	+1	validated	p.R526K	0.051	279	0%	110	21.8%	0	-	benign(0.001)	tolerated(0.44)	neutral(0.013)	NULL
KIF15	56992	genome.wustl.edu	37	3	44894180	44894180	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_020242.2	+1	validated	p.R1374C	1.000	219	0%	142	28.9%	3	0%	possibly_damaging(0.923)	deleterious(0)	deleterious(0.817)	NULL
EXOSC7	23016	genome.wustl.edu	37	3	45031125	45031125	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_015004.3	+1	validated	p.F81L	1.000	345	0.3%	385	11.2%	21	4.7%	possibly_damaging(0.944)	deleterious(0.03)	deleterious(0.753)	HMMPfam_RNase_PH,superfamily_Ribosomal protein S5 domain 2-like
CLEC3B	7123	genome.wustl.edu	37	3	45077109	45077109	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_003278.2	+1	validated	p.R101H	0.716	28	0%	59	27.1%	76	0%	benign(0.393)	deleterious(0.03)	deleterious(0.490)	HMMPfam_Lectin_C,HMMSmart_SM00034,superfamily_C-type lectin-like
CDCP1	64866	genome.wustl.edu	37	3	45136944	45136944	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_022842.3	-1	reviewed	p.R381W	0.368	318	0%	129	11.6%	2	0%	benign(0.058)	deleterious(0)	neutral(0.448)	NULL
LARS2	23395	genome.wustl.edu	37	3	45541936	45541936	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_015340.3	+1	reviewed	p.P542L	1.000	417	0%	142	21.8%	3	33.3%	probably_damaging(0.991)	tolerated(0.32)	neutral(0.468)	superfamily_SSF52374
LIMD1	8994	genome.wustl.edu	37	3	45636515	45636515	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_014240.2	+1	validated	p.F48	0.992	34	0%	57	14%	0	-	-	-	-	NULL
LIMD1	8994	genome.wustl.edu	37	3	45636687	45636687	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_014240.2	+1	validated	p.P106S	1.000	6	0.000	21	0.333	0	-	possibly_damaging(0.894)	deleterious(0)	deleterious(0.796)	NULL
SLC6A20	54716	genome.wustl.edu	37	3	45814048	45814048	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_020208.3	-1	reviewed	p.G214	0.997	102	0%	92	28.3%	1	0%	-	-	-	HMMPfam_SNF
XCR1	2829	genome.wustl.edu	37	3	46063024	46063024	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001024644.1	-1	reviewed	p.R139H	0.002	118	0%	207	15.5%	0	-	probably_damaging(0.996)	deleterious(0.02)	deleterious(0.845)	HMMPfam_7tm_1,superfamily_SSF81321
CCR1	1230	genome.wustl.edu	37	3	46245480	46245480	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001295.2	-1	reviewed	p.L109I	0.588	243	0%	74	16.2%	0	-	possibly_damaging(0.68)	tolerated(0.19)	neutral(0.292)	HMMPfam_7tm_1,superfamily_Family A G protein-coupled receptor-like
CCRL2	9034	genome.wustl.edu	37	3	46450592	46450592	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001130910.1	+1	reviewed	p.S353F	0.000	120	0%	58	27.6%	2	0%	probably_damaging(0.981)	deleterious(0)	deleterious(0.870)	superfamily_SSF81321
LTF	4057	genome.wustl.edu	37	3	46480853	46480853	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_002343.2	-1	reviewed	p.P614	0.000	81	0%	63	23.8%	15	0%	-	-	-	HMMPfam_Transferrin,HMMSmart_TR_FER,PatternScan_TRANSFERRIN_3,superfamily_SSF53850
LTF	4057	genome.wustl.edu	37	3	46482917	46482917	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_002343.2	-1	reviewed	p.Q571H	0.839	247	0%	138	24.6%	15	0%	benign(0.008)	deleterious(0)	neutral(0.445)	HMMPfam_Transferrin,HMMSmart_TR_FER,superfamily_SSF53850
LRRC2	79442	genome.wustl.edu	37	3	46574350	46574350	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_024512.3	-1	validated	p.K180N	0.646	352	0%	101	31.7%	1	0%	possibly_damaging(0.793)	tolerated(0.33)	neutral(0.322)	HMMPfam_LRR_1,HMMSmart_LRR_TYP,superfamily_SSF52058
NBEAL2	23218	genome.wustl.edu	37	3	47030858	47030858	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_015175.1	+1	validated	p.R154C	1.000	47	0%	81	11.1%	2	0%	probably_damaging(0.96)	deleterious(0)	deleterious(0.848)	NULL
SETD2	29072	genome.wustl.edu	37	3	47059177	47059177	+	Missense_Mutation	SNP	T	T	G	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_014159.6	-1	reviewed	p.K2495T	1.000	261	0%	199	24.1%	32	9.3%	possibly_damaging(0.893)	deleterious(0.01)	deleterious(0.758)	HMMPfam_SRI_2
SETD2	29072	genome.wustl.edu	37	3	47139459	47139459	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_014159.6	-1	reviewed	p.R1710C	0.999	209	0%	66	27.3%	2	0%	probably_damaging(1)	deleterious(0)	deleterious(0.945)	NULL
SETD2	29072	genome.wustl.edu	37	3	47147496	47147496	+	Nonsense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	ENST00000445387	-1	known	p.E1244*	1.000	361	0%	108	22.2%	4	0%	possibly_damaging(0.939)	deleterious(0.03)	deleterious(0.749)	HMMPfam_SET,HMMSmart_SM00317,superfamily_SET domain
SETD2	29072	genome.wustl.edu	37	3	47161694	47161694	+	Nonsense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_014159.6	-1	reviewed	p.E1478*	1.000	146	0%	47	21.3%	1	0%	-	-	-	superfamily_SET domain
SETD2	29072	genome.wustl.edu	37	3	47164557	47164557	+	Missense_Mutation	SNP	T	T	G	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_014159.6	-1	reviewed	p.E523D	1.000	258	0%	58	27.6%	1	0%	probably_damaging(0.973)	deleterious(0)	deleterious(0.859)	NULL
KIF9	64147	genome.wustl.edu	37	3	47282501	47282501	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001134878.1	-1	validated	p.D572N	0.970	144	0%	92	21.7%	0	-	benign(0)	tolerated(0.37)	neutral(0.019)	NULL
KIF9	64147	genome.wustl.edu	37	3	47307323	47307323	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001134878.1	-1	validated	p.S271	0.462	255	0%	178	21.3%	0	-	-	-	-	HMMPfam_Kinesin,HMMSmart_SM00129,superfamily_P-loop containing nucleoside triphosphate hydrolases
KLHL18	23276	genome.wustl.edu	37	3	47364188	47364188	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_025010.4	+1	validated	p.L131I	1.000	176	0%	77	14.3%	0	-	possibly_damaging(0.535)	deleterious(0.05)	deleterious(0.526)	HMMSmart_SM00225,superfamily_POZ domain,HMMPfam_BTB
KLHL18	23276	genome.wustl.edu	37	3	47385140	47385140	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_025010.4	+1	validated	p.K478N	1.000	39	0%	45	24.4%	2	50%	benign(0.002)	tolerated(0.31)	neutral(0.027)	HMMPfam_Kelch_1,HMMSmart_SM00612,superfamily_Galactose oxidase central domain
PTPN23	25930	genome.wustl.edu	37	3	47449425	47449425	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_015466.2	+1	validated	p.E388D	0.948	228	0%	344	12.2%	3	0%	benign(0.146)	tolerated(0.08)	neutral(0.312)	NULL
SCAP	22937	genome.wustl.edu	37	3	47467093	47467093	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_012235.2	-1	reviewed	p.D307N	1.000	48	0%	59	35.6%	9	11.1%	possibly_damaging(0.866)	deleterious(0.01)	deleterious(0.741)	superfamily_Multidrug efflux transporter AcrB transmembrane domain
SCAP	22937	genome.wustl.edu	37	3	47484444	47484444	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_012235.2	-1	reviewed	p.A14T	1.000	329	0%	137	19%	8	0%	probably_damaging(0.99)	tolerated(0.16)	deleterious(0.501)	NULL
CSPG5	10675	genome.wustl.edu	37	3	47618886	47618886	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_006574.3	-1	validated	p.I210	0.994	82	0%	188	12.2%	2	0%	-	-	-	HMMPfam_Chon_Sulph_att
DHX30	22907	genome.wustl.edu	37	3	47882588	47882588	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_138615.2	+1	reviewed	p.E196	1.000	111	0%	121	20.7%	8	37.5%	-	-	-	NULL
DHX30	22907	genome.wustl.edu	37	3	47888077	47888077	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_138615.2	+1	reviewed	p.H505	0.132	40	0%	39	17.9%	21	9.5%	-	-	-	HMMSmart_SM00487,superfamily_P-loop containing nucleoside triphosphate hydrolases
MAP4	4134	genome.wustl.edu	37	3	47950978	47950978	+	Missense_Mutation	SNP	T	T	G	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_030884.3	-1	reviewed	p.N252H	0.000	175	0%	72	20.8%	0	-	probably_damaging(0.983)	deleterious(0)	deleterious(0.873)	NULL
MAP4	4134	genome.wustl.edu	37	3	47963311	47963311	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_002375.4	-1	reviewed	p.A158V	0.012	302	0%	88	21.6%	13	15.3%	unknown(0)	deleterious(0)	-	NULL
CDC25A	993	genome.wustl.edu	37	3	48200944	48200944	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001789.2	-1	reviewed	p.C442R	1.000	171	0%	78	25.6%	0	-	probably_damaging(1)	deleterious(0)	deleterious(0.945)	HMMPfam_Rhodanese,HMMSmart_SM00450,superfamily_Rhodanese/Cell cycle control phosphatase
NME6	10201	genome.wustl.edu	37	3	48336643	48336643	+	Nonsense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_005793.3	-1	provisional	p.R114*	1.000	75	0%	93	26.9%	5	0%	-	-	-	HMMPfam_NDK,HMMSmart_SM00562,superfamily_Nucleoside diphosphate kinases
CCDC51	79714	genome.wustl.edu	37	3	48474473	48474473	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_024661.3	-1	validated	p.R194H	0.658	42	0%	58	19%	7	0%	probably_damaging(1)	deleterious(0)	deleterious(0.945)	NULL
ATRIP	84126	genome.wustl.edu	37	3	48498742	48498742	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_130384.1	+1	reviewed	p.S252Y	1.000	276	0%	188	34.6%	4	0%	probably_damaging(0.998)	deleterious(0.01)	deleterious(0.880)	NULL
PFKFB4	5210	genome.wustl.edu	37	3	48563100	48563100	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_004567.2	-1	provisional	p.G330	0.134	74	1.4%	45	24.4%	1	0%	-	-	-	HMMPfam_PGAM,superfamily_SSF53254
PFKFB4	5210	genome.wustl.edu	37	3	48587662	48587662	+	Missense_Mutation	SNP	T	T	G	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_004567.2	-1	provisional	p.M35L	1.000	124	0%	109	32.1%	0	-	benign(0.001)	tolerated(0.38)	neutral(0.018)	HMMPfam_6PF2K
COL7A1	1294	genome.wustl.edu	37	3	48606863	48606863	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_000094.3	-1	reviewed	p.R2544Q	0.486	280	0%	363	29.5%	4	0%	unknown(0)	tolerated(0.45)	-	NULL
COL7A1	1294	genome.wustl.edu	37	3	48623268	48623268	+	Nonsense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_000094.3	-1	reviewed	p.E1261*	0.269	110	0%	189	23.8%	0	-	-	-	-	NULL
COL7A1	1294	genome.wustl.edu	37	3	48624484	48624484	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_000094.3	-1	reviewed	p.A1066V	0.144	73	0%	98	28.6%	1	0%	unknown(0)	deleterious(0)	-	HMMPfam_VWA,superfamily_vWA-like
COL7A1	1294	genome.wustl.edu	37	3	48626089	48626089	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_000094.3	-1	reviewed	p.I858T	1.000	54	0%	112	24.1%	0	-	unknown(0)	deleterious(0.01)	-	superfamily_Fibronectin type III
COL7A1	1294	genome.wustl.edu	37	3	48630102	48630102	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_000094.3	-1	reviewed	p.R293W	0.000	23	0%	46	19.6%	1	0%	unknown(0)	deleterious(0.03)	-	HMMPfam_fn3,HMMSmart_SM00060,superfamily_Fibronectin type III
UQCRC1	7384	genome.wustl.edu	37	3	48641052	48641052	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_003365.2	-1	validated	p.T217	0.003	121	0%	169	12.4%	130	13%	-	-	-	HMMPfam_Peptidase_M16_C,superfamily_LuxS/MPP-like metallohydrolase
TMEM89	440955	genome.wustl.edu	37	3	48658296	48658296	+	Silent	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001008269.1	-1	provisional	p.G153	0.111	150	0%	163	17.8%	0	-	-	-	-	NULL
CELSR3	1951	genome.wustl.edu	37	3	48677614	48677614	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001407.2	-1	reviewed	p.A3135V	0.562	11	0%	39	35.9%	1	0%	benign(0.073)	deleterious(0)	neutral(0.450)	NULL
CELSR3	1951	genome.wustl.edu	37	3	48679369	48679369	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001407.2	-1	reviewed	p.S2913	0.446	16	0%	47	21.3%	2	50%	-	-	-	NULL
CELSR3	1951	genome.wustl.edu	37	3	48697855	48697855	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001407.2	-1	reviewed	p.A738V	1.000	38	0%	70	25.7%	0	-	probably_damaging(0.975)	deleterious(0.01)	deleterious(0.823)	HMMPfam_Cadherin,HMMSmart_SM00112,superfamily_Cadherin-like
CELSR3	1951	genome.wustl.edu	37	3	48698430	48698430	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001407.2	-1	reviewed	p.S546	0.967	15	0%	46	30.4%	0	-	-	-	-	superfamily_Cadherin-like
ENSG00000232483	0	genome.wustl.edu	37	3	48732319	48732319	+	RNA	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	ENST00000421921	+1	novel	NULL	0.872	10	0%	24	25%	5	20%	-	-	-	-
PRKAR2A	5576	genome.wustl.edu	37	3	48802467	48802467	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_004157.2	-1	reviewed	p.I281	0.850	312	0%	133	27.8%	2	50%	-	-	-	HMMPfam_cNMP_binding,HMMSmart_cNMP,superfamily_cNMP_binding
ARIH2	10425	genome.wustl.edu	37	3	49017027	49017027	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_006321.2	+1	provisional	p.A358	1.000	199	0%	122	27.9%	26	23%	-	-	-	NULL
P4HTM	54681	genome.wustl.edu	37	3	49039994	49039994	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_177938.2	+1	reviewed	p.M230T	1.000	171	0%	192	21.9%	20	30%	probably_damaging(0.958)	deleterious(0)	deleterious(0.846)	HMMSmart_P4Hc,superfamily_SSF47473
P4HTM	54681	genome.wustl.edu	37	3	49040029	49040029	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_177938.2	+1	reviewed	p.G242R	1.000	141	0%	156	24.4%	16	0%	probably_damaging(1)	deleterious(0.01)	deleterious(0.905)	HMMSmart_P4Hc,PatternScan_EF_HAND_1,superfamily_SSF47473
P4HTM	54681	genome.wustl.edu	37	3	49044306	49044306	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_177938.2	+1	reviewed	p.D553G	1.000	12	0%	22	27.3%	43	4.6%	probably_damaging(0.999)	tolerated(0.06)	deleterious(0.813)	NULL
WDR6	11180	genome.wustl.edu	37	3	49048913	49048913	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	ENST00000452875	+1	known	p.E54K	0.057	14	0%	45	31.1%	0	-	unknown(0)	-	-	NULL
WDR6	11180	genome.wustl.edu	37	3	49052141	49052141	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_018031.3	+1	reviewed	p.G994	0.118	100	0%	142	14.8%	89	8.9%	-	-	-	superfamily_WD40 repeat-like
IMPDH2	3615	genome.wustl.edu	37	3	49065295	49065295	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_000884.2	-1	reviewed	p.V127M	1.000	114	0%	178	11.2%	44	6.8%	probably_damaging(0.994)	deleterious(0)	deleterious(0.897)	HMMPfam_CBS,HMMSmart_CBS,HMMPfam_IMPDH,superfamily_SSF51412,superfamily_SSF54631
IMPDH2	3615	genome.wustl.edu	37	3	49065747	49065747	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	ENST00000429182	-1	known	p.R18W	0.001	274	0%	391	15.3%	30	10%	-	-	-	HMMPfam_IMPDH,superfamily_Inosine monophosphate dehydrogenase (IMPDH)
IMPDH2	3615	genome.wustl.edu	37	3	49066721	49066721	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_000884.2	-1	reviewed	p.Q21	1.000	47	0%	75	14.7%	21	9.5%	-	-	-	superfamily_SSF51412
QRICH1	54870	genome.wustl.edu	37	3	49095113	49095113	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_017730.2	-1	validated	p.V174M	0.997	238	0%	171	24.6%	9	11.1%	unknown(0)	tolerated(0.1)	-	NULL
USP19	10869	genome.wustl.edu	37	3	49149127	49149127	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_006677.1	-1	provisional	p.R905I	0.242	30	0%	53	13.2%	16	25%	probably_damaging(0.983)	tolerated(0.06)	deleterious(0.752)	HMMPfam_UCH,superfamily_Cysteine proteinases
LAMB2	3913	genome.wustl.edu	37	3	49159505	49159505	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_002292.3	-1	reviewed	p.D1599N	0.516	74	0%	131	26.7%	192	11.4%	benign(0.008)	tolerated(0.55)	neutral(0.007)	NULL
LAMB2	3913	genome.wustl.edu	37	3	49165954	49165954	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_002292.3	-1	reviewed	p.S652N	1.000	50	0%	83	30.1%	17	17.6%	benign(0.194)	tolerated(0.09)	neutral(0.315)	NULL
CCDC71	64925	genome.wustl.edu	37	3	49200920	49200920	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_022903.3	-1	validated	p.R241H	0.000	254	0%	335	11%	15	6.6%	unknown(0)	tolerated(0.24)	-	NULL
CCDC36	339834	genome.wustl.edu	37	3	49294525	49294525	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001135197.1	+1	validated	p.R532I	0.000	96	0%	49	18.4%	0	-	benign(0.198)	tolerated(0.09)	neutral(0.316)	NULL
TCTA	6988	genome.wustl.edu	37	3	49450540	49450540	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_022171.2	+1	validated	p.S89L	0.636	160	0%	216	23.1%	9	0%	benign(0.067)	tolerated(0.58)	neutral(0.009)	NULL
BSN	8927	genome.wustl.edu	37	3	49688222	49688222	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_003458.3	+1	reviewed	p.G566C	1.000	35	0%	66	21.2%	0	-	probably_damaging(0.999)	-	-	NULL
BSN	8927	genome.wustl.edu	37	3	49688401	49688401	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_003458.3	+1	reviewed	p.E625D	0.525	119	0%	176	22.2%	0	-	possibly_damaging(0.94)	-	-	NULL
BSN	8927	genome.wustl.edu	37	3	49694940	49694940	+	Missense_Mutation	SNP	T	T	G	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_003458.3	+1	reviewed	p.S2651A	0.006	8	0.000	24	0.250	0	-	unknown(0)	-	-	NULL
BSN	8927	genome.wustl.edu	37	3	49699693	49699693	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_003458.3	+1	reviewed	p.A3472V	0.030	46	0%	75	16%	0	-	unknown(0)	-	-	NULL
BSN	8927	genome.wustl.edu	37	3	49699874	49699874	+	Nonsense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_003458.3	+1	reviewed	p.C3532*	1.000	25	0%	41	22%	0	-	-	-	-	NULL
BSN	8927	genome.wustl.edu	37	3	49699977	49699977	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_003458.3	+1	reviewed	p.V3567M	1.000	35	0%	62	19.4%	1	0%	unknown(0)	-	-	NULL
BSN	8927	genome.wustl.edu	37	3	49701953	49701953	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_003458.3	+1	reviewed	p.G3902	0.968	55	0%	84	11.9%	0	-	-	-	-	NULL
APEH	327	genome.wustl.edu	37	3	49719209	49719209	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001640.3	+1	reviewed	p.T498I	0.960	102	0%	175	12.6%	44	0%	benign(0.008)	tolerated(0.21)	neutral(0.044)	superfamily_SSF53474
MST1	4485	genome.wustl.edu	37	3	49723304	49723304	+	Silent	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_020998.3	-1	reviewed	p.P413	0.997	15	0%	38	23.7%	4	25%	-	-	-	HMMPfam_Kringle,HMMSmart_SM00130,superfamily_Kringle-like
RNF123	63891	genome.wustl.edu	37	3	49736430	49736430	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_022064.2	+1	reviewed	p.G219V	1.000	59	0%	97	12.4%	0	-	probably_damaging(1)	deleterious(0)	deleterious(0.945)	HMMPfam_SPRY,HMMSmart_SM00449
RNF123	63891	genome.wustl.edu	37	3	49751230	49751230	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_022064.2	+1	reviewed	p.R937W	1.000	34	0%	53	28.3%	8	12.5%	probably_damaging(1)	deleterious(0)	deleterious(0.945)	NULL
AMIGO3	386724	genome.wustl.edu	37	3	49755839	49755839	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_198722.2	-1	validated	p.A354S	1.000	12	0%	49	26.5%	0	-	probably_damaging(1)	deleterious(0)	deleterious(0.945)	HMMSmart_IG,superfamily_SSF48726
IP6K1	9807	genome.wustl.edu	37	3	49764895	49764895	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_153273.3	-1	reviewed	p.R329H	1.000	33	0%	51	13.7%	7	14.2%	probably_damaging(1)	deleterious(0)	deleterious(0.945)	HMMPfam_IPK,superfamily_SAICAR synthase-like
IP6K1	9807	genome.wustl.edu	37	3	49775854	49775854	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_153273.3	-1	reviewed	p.G75	0.059	110	0.9%	66	25.8%	6	0%	-	-	-	superfamily_SAICAR synthase-like
UBA7	7318	genome.wustl.edu	37	3	49847012	49847012	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_003335.2	-1	reviewed	p.G684V	0.676	70	0%	95	17.9%	10	0%	benign(0.141)	tolerated(0.22)	neutral(0.054)	superfamily_MoeB
UBA7	7318	genome.wustl.edu	37	3	49848496	49848496	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_003335.2	-1	reviewed	p.D384G	0.999	79	0%	116	24.1%	4	0%	probably_damaging(0.996)	tolerated(0.32)	deleterious(0.486)	superfamily_MoeB
UBA7	7318	genome.wustl.edu	37	3	49848721	49848721	+	Silent	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_003335.2	-1	reviewed	p.A369	1.000	128	0%	183	24%	4	0%	-	-	-	superfamily_MoeB
CAMKV	79012	genome.wustl.edu	37	3	49898939	49898939	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_024046.3	-1	validated	p.V125A	1.000	74	0%	106	28.3%	0	-	benign(0.007)	tolerated(0.07)	neutral(0.319)	HMMSmart_SM00219,HMMSmart_SM00220,superfamily_Protein kinase-like (PK-like),HMMPfam_Pkinase
MST1R	4486	genome.wustl.edu	37	3	49927438	49927438	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_002447.2	-1	validated	p.R1289H	1.000	193	0%	175	18.9%	10	30%	benign(0.171)	deleterious(0)	neutral(0.460)	HMMPfam_Pkinase_Tyr,HMMSmart_SM00219,HMMSmart_SM00220,superfamily_Protein kinase-like (PK-like)
MST1R	4486	genome.wustl.edu	37	3	49935514	49935514	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_002447.2	-1	validated	p.R617Q	0.047	78	0%	126	23%	1	100%	benign(0.005)	tolerated(0.06)	neutral(0.323)	HMMPfam_TIG,HMMSmart_SM00429,superfamily_E set domains
MST1R	4486	genome.wustl.edu	37	3	49940854	49940854	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_002447.2	-1	validated	p.G63	0.001	73	1.4%	133	10.5%	0	-	-	-	-	HMMPfam_Sema,HMMSmart_SM00630,superfamily_Sema domain
RBM6	10180	genome.wustl.edu	37	3	50000091	50000091	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_005777.2	+1	validated	p.R6Q	1.000	319	0%	147	10.9%	8	0%	benign(0.41)	deleterious(0)	deleterious(0.577)	NULL
RBM6	10180	genome.wustl.edu	37	3	50112664	50112664	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_005777.2	+1	validated	p.I1049	0.000	157	0.6%	155	26.5%	110	20.9%	-	-	-	HMMSmart_G_patch
RBM5	10181	genome.wustl.edu	37	3	50131276	50131276	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_005778.1	+1	provisional	p.R103C	0.997	237	0%	252	25%	7	14.2%	probably_damaging(1)	tolerated(0.08)	deleterious(0.800)	HMMPfam_RRM_1,HMMSmart_SM00360,superfamily_RNA-binding domain RBD
SEMA3F	6405	genome.wustl.edu	37	3	50211374	50211374	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_004186.3	+1	validated	p.R87	0.055	131	1.5%	191	15.7%	2	0%	-	-	-	HMMPfam_Sema,HMMSmart_Sema,superfamily_Sema
SEMA3F	6405	genome.wustl.edu	37	3	50220106	50220106	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_004186.3	+1	validated	p.P265S	1.000	51	0%	77	22.1%	7	0%	possibly_damaging(0.585)	tolerated(0.17)	neutral(0.261)	HMMPfam_Sema,HMMSmart_Sema,superfamily_Sema
SEMA3B	7869	genome.wustl.edu	37	3	50308850	50308850	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_004636.2	+1	reviewed	p.F201S	1.000	72	0%	138	14.5%	3	0%	unknown(0)	-	-	NULL
HYAL3	8372	genome.wustl.edu	37	3	50331102	50331102	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_003549.2	-1	reviewed	p.G315	1.000	52	1.9%	107	22.4%	1	0%	-	-	-	HMMPfam_Glyco_hydro_56,superfamily_(Trans)glycosidases
HYAL1	3373	genome.wustl.edu	37	3	50339751	50339751	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_007312.3	-1	reviewed	p.L213I	0.003	15	0%	50	36%	0	-	benign(0.019)	tolerated(0.12)	neutral(0.262)	HMMPfam_Glyco_hydro_56,superfamily_(Trans)glycosidases
HYAL2	8692	genome.wustl.edu	37	3	50357092	50357092	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_003773.4	-1	reviewed	p.R277C	0.988	88	0%	147	32%	60	3.3%	probably_damaging(1)	deleterious(0)	deleterious(0.945)	HMMPfam_Glyco_hydro_56,superfamily_(Trans)glycosidases
ZMYND10	51364	genome.wustl.edu	37	3	50379984	50379984	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_015896.2	-1	validated	p.F239	1.000	64	0%	128	33.6%	5	20%	-	-	-	NULL
CYB561D2	11068	genome.wustl.edu	37	3	50388931	50388931	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_007022.3	+1	provisional	p.A23T	0.988	74	0%	130	25.4%	11	18.1%	benign(0.025)	tolerated(0.21)	neutral(0.045)	HMMPfam_Cytochrom_B561
CACNA2D2	9254	genome.wustl.edu	37	3	50403761	50403761	+	Silent	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001005505.1	-1	reviewed	p.L882	1.000	373	0%	596	27.3%	3	0%	-	-	-	NULL
CACNA2D2	9254	genome.wustl.edu	37	3	50417159	50417159	+	Silent	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001005505.1	-1	reviewed	p.A330	1.000	74	0%	121	12.4%	0	-	-	-	-	HMMPfam_VWA,HMMSmart_SM00327,superfamily_vWA-like
MAPKAPK3	7867	genome.wustl.edu	37	3	50685384	50685384	+	Nonsense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	ENST00000451680	+1	known	p.G67*	0.996	109	0%	63	25.4%	8	12.5%	probably_damaging(1)	deleterious(0.01)	deleterious(0.905)	NULL
DOCK3	1795	genome.wustl.edu	37	3	51127768	51127768	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_004947.3	+1	validated	p.T233	0.117	261	0%	77	22.1%	0	-	-	-	-	NULL
DOCK3	1795	genome.wustl.edu	37	3	51196730	51196730	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_004947.3	+1	validated	p.R295Q	1.000	316	0.6%	76	28.9%	0	-	probably_damaging(1)	deleterious(0)	deleterious(0.945)	NULL
DOCK3	1795	genome.wustl.edu	37	3	51386330	51386330	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_004947.3	+1	validated	p.Y1321	0.919	170	0%	74	10.8%	0	-	-	-	-	NULL
VPRBP	9730	genome.wustl.edu	37	3	51466849	51466849	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_014703.2	-1	validated	p.R461H	1.000	342	1.2%	90	27.8%	0	-	probably_damaging(1)	deleterious(0.01)	deleterious(0.905)	superfamily_ARM repeat
RAD54L2	23132	genome.wustl.edu	37	3	51667774	51667774	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_015106.2	+1	validated	p.P336L	1.000	193	0%	53	28.3%	0	-	probably_damaging(1)	deleterious(0)	deleterious(0.945)	HMMPfam_SNF2_N,HMMSmart_SM00487,superfamily_P-loop containing nucleoside triphosphate hydrolases
RAD54L2	23132	genome.wustl.edu	37	3	51673632	51673632	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	ENST00000432863	+1	known	p.R515C	0.776	136	0%	54	14.8%	1	0%	-	-	-	NULL
RAD54L2	23132	genome.wustl.edu	37	3	51697263	51697263	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_015106.2	+1	validated	p.R1411W	0.966	270	0.4%	198	17.2%	3	0%	probably_damaging(0.994)	deleterious(0)	deleterious(0.897)	NULL
GRM2	2912	genome.wustl.edu	37	3	51746624	51746624	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_000839.3	+1	reviewed	p.A196T	1.000	209	0%	314	13.7%	0	-	possibly_damaging(0.873)	deleterious(0)	deleterious(0.784)	HMMPfam_ANF_receptor,superfamily_Periplasmic binding protein-like I
IQCF3	401067	genome.wustl.edu	37	3	51864587	51864587	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001085479.1	+1	provisional	p.R79W	0.000	97	1%	44	20.5%	0	-	probably_damaging(0.97)	deleterious(0)	deleterious(0.857)	superfamily_P-loop containing nucleoside triphosphate hydrolases
PARP3	10039	genome.wustl.edu	37	3	51978880	51978880	+	Silent	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001003931.2	+1	reviewed	p.I203	1.000	67	0%	76	22.4%	2	0%	-	-	-	HMMPfam_PARP_reg,superfamily_PARP_reg
ABHD14A	25864	genome.wustl.edu	37	3	52018073	52018073	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	ENST00000458031	+1	known	p.R88H	0.000	44	0%	75	33.3%	7	14.2%	unknown(0)	deleterious(0.04)	-	NULL
ACY1	95	genome.wustl.edu	37	3	52019951	52019951	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_000666.1	+1	reviewed	p.C116	1.000	125	0%	238	12.2%	10	20%	-	-	-	PatternScan_ARGE_DAPE_CPG2_2,HMMPfam_Peptidase_M20,superfamily_SSF53187
ALAS1	211	genome.wustl.edu	37	3	52242102	52242102	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_000688.4	+1	validated	p.A390V	0.999	170	0.6%	133	12.8%	15	40%	possibly_damaging(0.842)	deleterious(0.01)	deleterious(0.728)	HMMPfam_Aminotran_1_2,superfamily_PLP-dependent transferases
TLR9	54106	genome.wustl.edu	37	3	52255598	52255598	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_017442.2	-1	reviewed	p.D912N	1.000	12	0%	29	34.5%	5	20%	probably_damaging(1)	deleterious(0)	deleterious(0.945)	HMMPfam_TIR,HMMSmart_SM00255,superfamily_Toll/Interleukin receptor TIR domain
GLYCTK	132158	genome.wustl.edu	37	3	52326914	52326914	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_145262.3	+1	reviewed	p.S448	0.384	68	0%	104	24%	8	0%	-	-	-	HMMPfam_MOFRL,superfamily_GckA/TtuD-like
DNAH1	25981	genome.wustl.edu	37	3	52380713	52380713	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_015512.4	+1	validated	p.D628N	0.992	75	0%	72	27.8%	0	-	benign(0.361)	tolerated(0.29)	neutral(0.144)	NULL
DNAH1	25981	genome.wustl.edu	37	3	52394358	52394358	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_015512.4	+1	validated	p.R1535S	1.000	236	0%	257	26.5%	0	-	probably_damaging(0.954)	tolerated(0.09)	deleterious(0.694)	superfamily_P-loop containing nucleoside triphosphate hydrolases
DNAH1	25981	genome.wustl.edu	37	3	52397049	52397049	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_015512.4	+1	validated	p.Y1711	0.984	279	0%	327	25.4%	0	-	-	-	-	superfamily_P-loop containing nucleoside triphosphate hydrolases
DNAH1	25981	genome.wustl.edu	37	3	52425297	52425297	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_015512.4	+1	validated	p.V3282M	1.000	47	0%	83	27.7%	1	100%	probably_damaging(1)	deleterious(0)	deleterious(0.945)	NULL
DNAH1	25981	genome.wustl.edu	37	3	52429587	52429587	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_015512.4	+1	validated	p.R3718C	0.986	41	0%	99	13.1%	3	0%	possibly_damaging(0.861)	deleterious(0.02)	deleterious(0.716)	HMMPfam_Dynein_heavy
PHF7	51533	genome.wustl.edu	37	3	52453868	52453868	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_016483.4	+1	reviewed	p.P69H	0.998	138	0%	115	27%	0	-	probably_damaging(1)	tolerated(0.55)	deleterious(0.507)	NULL
SEMA3G	56920	genome.wustl.edu	37	3	52475349	52475349	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_020163.1	-1	provisional	p.S248	0.850	46	0%	78	16.7%	2	0%	-	-	-	HMMPfam_Sema,HMMSmart_Sema,superfamily_Sema
NISCH	11188	genome.wustl.edu	37	3	52522194	52522194	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_007184.3	+1	validated	p.A896T	0.024	34	0%	57	12.3%	16	12.5%	benign(0.41)	tolerated(0.37)	neutral(0.151)	NULL
NISCH	11188	genome.wustl.edu	37	3	52525448	52525448	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_007184.3	+1	validated	p.V1275M	0.998	41	0%	77	29.9%	27	25.9%	benign(0.256)	deleterious(0)	deleterious(0.471)	NULL
STAB1	23166	genome.wustl.edu	37	3	52535185	52535185	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_015136.2	+1	reviewed	p.L28M	0.003	65	0%	113	19.5%	0	-	benign(0.044)	tolerated(0.22)	neutral(0.045)	NULL
NT5DC2	64943	genome.wustl.edu	37	3	52562307	52562307	+	Nonsense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	ENST00000498608	-1	known	p.S165*	1.000	71	0%	138	22.5%	9	22.2%	benign(0.002)	tolerated(1)	-	HMMPfam_5_nucleotid
NT5DC2	64943	genome.wustl.edu	37	3	52568572	52568572	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_022908.2	-1	validated	p.A33V	0.000	59	0%	134	19.4%	1	0%	unknown(0)	-	-	NULL
LOC440957	440957	genome.wustl.edu	37	3	52570885	52570885	+	Nonsense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001124767.1	+1	validated	p.W38*	1.000	272	0.4%	429	13.5%	36	8.3%	-	-	-	NULL
GNL3	26354	genome.wustl.edu	37	3	52722129	52722129	+	Missense_Mutation	SNP	T	T	G	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_014366.4	+1	validated	p.F110C	0.000	567	0%	770	25.6%	9	44.4%	benign(0.075)	tolerated(0.06)	neutral(0.328)	NULL
NEK4	6787	genome.wustl.edu	37	3	52780125	52780125	+	Silent	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_003157.3	-1	validated	p.V593	0.000	374	0%	131	11.5%	1	0%	-	-	-	NULL
ITIH1	3697	genome.wustl.edu	37	3	52816982	52816982	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_002215.2	+1	reviewed	p.A314T	1.000	104	0%	83	24.1%	0	-	probably_damaging(1)	deleterious(0)	deleterious(0.945)	HMMPfam_VWA,HMMSmart_SM00327,superfamily_vWA-like
ITIH1	3697	genome.wustl.edu	37	3	52821099	52821099	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	ENST00000484844	+1	known	p.R94*	0.907	210	0.5%	188	28.2%	0	-	-	-	-	NULL
ITIH1	3697	genome.wustl.edu	37	3	52825804	52825804	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_002215.2	+1	reviewed	p.L871	0.992	129	0%	114	26.3%	0	-	-	-	-	HMMPfam_ITI_HC_C
ITIH3	3699	genome.wustl.edu	37	3	52840374	52840374	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_002217.3	+1	validated	p.D670N	0.239	86	1.2%	69	14.5%	1	0%	benign(0.019)	tolerated(0.75)	neutral(0.003)	NULL
ITIH4	3700	genome.wustl.edu	37	3	52854794	52854794	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_002218.4	-1	reviewed	p.A563T	0.050	167	0%	119	12.6%	6	16.6%	benign(0.202)	tolerated(0.22)	neutral(0.061)	NULL
ITIH4	3700	genome.wustl.edu	37	3	52858458	52858458	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_002218.4	-1	reviewed	p.V334M	0.002	138	0%	119	16%	1	0%	possibly_damaging(0.45)	deleterious(0.01)	deleterious(0.553)	HMMPfam_VWA,HMMSmart_SM00327,superfamily_vWA-like
ITIH4	3700	genome.wustl.edu	37	3	52860878	52860878	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_002218.4	-1	reviewed	p.L150F	1.000	65	0%	65	30.8%	1	100%	probably_damaging(1)	deleterious(0.02)	deleterious(0.883)	NULL
TMEM110	375346	genome.wustl.edu	37	3	52877755	52877755	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_198563.1	-1	provisional	p.I200	0.998	209	0%	138	26.1%	4	25%	-	-	-	NULL
SFMBT1	51460	genome.wustl.edu	37	3	52941656	52941656	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001005158.1	-1	reviewed	p.R667M	1.000	629	0%	341	20.5%	3	33.3%	probably_damaging(0.999)	deleterious(0)	deleterious(0.935)	NULL
SFMBT1	51460	genome.wustl.edu	37	3	52954561	52954561	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001005158.1	-1	reviewed	p.R455Q	1.000	152	0%	69	14.5%	0	-	possibly_damaging(0.515)	tolerated(0.11)	neutral(0.445)	HMMPfam_MBT,superfamily_Tudor/PWWP/MBT
RFT1	91869	genome.wustl.edu	37	3	53145909	53145909	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_052859.3	-1	reviewed	p.K238E	0.996	185	0%	79	16.5%	10	0%	benign(0)	tolerated(1)	-	HMMPfam_Rft-1
TKT	7086	genome.wustl.edu	37	3	53265548	53265548	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001064.2	-1	validated	p.S256Y	0.000	261	0%	184	10.9%	251	1.9%	possibly_damaging(0.575)	deleterious(0.01)	deleterious(0.603)	HMMPfam_Transketolase_N,superfamily_Thiamin diphosphate-binding fold (THDP-binding)
CACNA1D	776	genome.wustl.edu	37	3	53756494	53756494	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_000720.2	+1	validated	p.Q573	1.000	199	0%	145	13.8%	0	-	-	-	-	superfamily_SSF81324
CACNA1D	776	genome.wustl.edu	37	3	53787673	53787673	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_000720.2	+1	validated	p.V1270	0.591	297	0.3%	131	18.3%	0	-	-	-	-	HMMPfam_Ion_trans,superfamily_SSF81324
CACNA1D	776	genome.wustl.edu	37	3	53796067	53796067	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_000720.2	+1	validated	p.V1297I	1.000	202	0%	112	13.4%	1	0%	probably_damaging(0.982)	deleterious(0.02)	deleterious(0.809)	HMMPfam_Ion_trans,superfamily_SSF81324
ACTR8	93973	genome.wustl.edu	37	3	53907118	53907118	+	Nonsense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_022899.4	-1	validated	p.R368*	1.000	194	0%	156	28.2%	8	12.5%	-	-	-	HMMPfam_Actin,HMMSmart_ACTIN,superfamily_SSF53067
CACNA2D3	55799	genome.wustl.edu	37	3	54905607	54905607	+	Silent	SNP	C	C	T	rs189295019	by1000genomes	TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_018398.2	+1	reviewed	p.S556	0.362	463	0.2%	82	11%	0	-	-	-	-	NULL
CACNA2D3	55799	genome.wustl.edu	37	3	54914835	54914835	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	ENST00000477024	+1	known	p.A505T	1.000	506	0%	143	23.8%	0	-	benign(0.021)	tolerated(0.12)	neutral(0.262)	NULL
CACNA2D3	55799	genome.wustl.edu	37	3	55107864	55107864	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_018398.2	+1	reviewed	p.S1054F	1.000	254	0%	77	19.5%	1	0%	possibly_damaging(0.716)	deleterious(0.01)	deleterious(0.665)	NULL
ERC2	26059	genome.wustl.edu	37	3	55922452	55922452	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_015576.1	-1	validated	p.E843D	0.997	300	0%	67	32.8%	0	-	possibly_damaging(0.74)	tolerated(0.11)	deleterious(0.542)	HMMPfam_Cast
ERC2	26059	genome.wustl.edu	37	3	56330259	56330259	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_015576.1	-1	validated	p.E288K	1.000	525	0%	198	28.3%	0	-	probably_damaging(1)	deleterious(0)	deleterious(0.945)	HMMPfam_Cast
CCDC66	285331	genome.wustl.edu	37	3	56601043	56601043	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001141947.1	+1	validated	p.S259L	1.000	537	0%	420	12.4%	5	0%	benign(0)	tolerated(1)	-	NULL
FAM208A	23272	genome.wustl.edu	37	3	56657394	56657394	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_015224.3	-1	validated	p.D1125Y	1.000	343	0%	94	34%	13	15.3%	probably_damaging(0.999)	deleterious(0.02)	deleterious(0.873)	NULL
FAM208A	23272	genome.wustl.edu	37	3	56658514	56658514	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001112736.1	-1	validated	p.S1492	0.016	429	0.2%	86	27.9%	10	10%	-	-	-	NULL
FAM208A	23272	genome.wustl.edu	37	3	56680588	56680588	+	Missense_Mutation	SNP	T	T	G	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001112736.1	-1	validated	p.K726T	1.000	529	0%	158	13.3%	1	0%	probably_damaging(0.99)	deleterious(0.01)	deleterious(0.847)	NULL
FAM208A	23272	genome.wustl.edu	37	3	56680718	56680718	+	Nonsense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001112736.1	-1	validated	p.E683*	1.000	607	0%	237	15.2%	3	0%	-	-	-	NULL
ARHGEF3	50650	genome.wustl.edu	37	3	56779406	56779406	+	Nonsense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001128615.1	-1	reviewed	p.R265*	1.000	309	0%	120	12.5%	5	0%	-	-	-	HMMPfam_RhoGEF,HMMSmart_RhoGEF,superfamily_DH-domain
IL17RD	54756	genome.wustl.edu	37	3	57139996	57139996	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_017563.3	-1	validated	p.S212	0.000	188	0%	108	16.7%	0	-	-	-	-	NULL
HESX1	8820	genome.wustl.edu	37	3	57232472	57232472	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_003865.2	-1	reviewed	p.D136N	1.000	194	0%	89	18%	1	0%	probably_damaging(0.988)	tolerated(1)	neutral(0.438)	HMMPfam_Homeobox,HMMSmart_HOX,superfamily_Homeodomain_like
APPL1	26060	genome.wustl.edu	37	3	57276896	57276896	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_012096.2	+1	reviewed	p.A143V	1.000	744	0.1%	303	18.5%	2	0%	probably_damaging(0.996)	tolerated(0.05)	deleterious(0.807)	NULL
APPL1	26060	genome.wustl.edu	37	3	57282278	57282278	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_012096.2	+1	reviewed	p.L254F	1.000	244	0%	114	9.6%	0	-	benign(0.125)	tolerated(0.13)	neutral(0.263)	NULL
APPL1	26060	genome.wustl.edu	37	3	57293057	57293057	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_012096.2	+1	reviewed	p.R478C	1.000	369	0%	146	20.5%	2	0%	probably_damaging(1)	deleterious(0)	deleterious(0.945)	NULL
ASB14	142686	genome.wustl.edu	37	3	57317356	57317356	+	Missense_Mutation	SNP	C	C	G	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001142733.2	-1	reviewed	p.G30A	1.000	182	0.5%	38	18.4%	0	-	probably_damaging(1)	deleterious(0.01)	deleterious(0.905)	HMMPfam_Ank,HMMSmart_SM00248,superfamily_Ankyrin repeat
DNAH12	201625	genome.wustl.edu	37	3	57326125	57326125	+	Silent	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	ENST00000295941	-1	known	p.L2449	0.003	242	0%	81	13.6%	0	-	-	-	-	NULL
DNAH12	201625	genome.wustl.edu	37	3	57389049	57389049	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_178504.4	-1	validated	p.R2293I	1.000	415	0%	118	25.4%	0	-	probably_damaging(0.993)	deleterious(0.01)	deleterious(0.856)	superfamily_P-loop containing nucleoside triphosphate hydrolases
DNAH12	201625	genome.wustl.edu	37	3	57401218	57401218	+	Nonsense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_178504.4	-1	validated	p.E1911*	1.000	277	0%	110	11.8%	0	-	-	-	-	HMMSmart_SM00382,HMMPfam_AAA_5,superfamily_P-loop containing nucleoside triphosphate hydrolases
DNAH12	201625	genome.wustl.edu	37	3	57454616	57454616	+	Missense_Mutation	SNP	T	T	G	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_178504.4	-1	validated	p.K732N	0.992	340	0%	108	13%	0	-	probably_damaging(0.999)	deleterious(0.01)	deleterious(0.896)	HMMPfam_DHC_N2
DNAH12	201625	genome.wustl.edu	37	3	57484235	57484235	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_198564.3	-1	validated	p.Y456H	0.001	251	0%	141	11.3%	0	-	benign(0.263)	-	-	NULL
DNAH12	201625	genome.wustl.edu	37	3	57489796	57489796	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_178504.4	-1	validated	p.D345Y	1.000	327	0%	173	28.3%	0	-	probably_damaging(0.996)	deleterious(0.03)	deleterious(0.826)	NULL
DNAH12	201625	genome.wustl.edu	37	3	57494220	57494220	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_178504.4	-1	validated	p.R197K	1.000	172	0%	87	26.4%	0	-	benign(0.01)	tolerated(0.42)	neutral(0.015)	NULL
FAM116A	201627	genome.wustl.edu	37	3	57620288	57620288	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_152678.2	-1	validated	p.Q420H	1.000	261	0%	141	24.8%	2	50%	possibly_damaging(0.746)	tolerated(0.26)	neutral(0.308)	HMMPfam_DUF1630
FAM116A	201627	genome.wustl.edu	37	3	57632053	57632053	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_152678.2	-1	validated	p.A311T	1.000	161	0%	281	12.5%	4	0%	probably_damaging(0.987)	tolerated(0.12)	deleterious(0.697)	HMMPfam_DUF1630
SLMAP	7871	genome.wustl.edu	37	3	57850367	57850367	+	Silent	SNP	A	A	G	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	ENST00000416658	+1	known	p.T19A	1.000	289	0%	70	21.4%	2	100%	-	-	-	NULL
FLNB	2317	genome.wustl.edu	37	3	58062900	58062900	+	Silent	SNP	G	G	A	rs192491895	by1000genomes	TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001457.3	+1	reviewed	p.T140	0.048	132	0%	32	28.1%	2	50%	-	-	-	HMMPfam_CH,superfamily_Calponin-homology
FLNB	2317	genome.wustl.edu	37	3	58108871	58108871	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001457.3	+1	reviewed	p.E1060K	0.960	125	0%	54	33.3%	1	0%	possibly_damaging(0.785)	tolerated(0.61)	neutral(0.298)	HMMSmart_IG_FLMN,superfamily_Ig_E-set,HMMPfam_Filamin
FLNB	2317	genome.wustl.edu	37	3	58116552	58116552	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001457.3	+1	reviewed	p.R1436Q	1.000	44	0%	10	40%	0	-	possibly_damaging(0.931)	deleterious(0.01)	deleterious(0.783)	HMMSmart_IG_FLMN,superfamily_Ig_E-set,HMMPfam_Filamin
DNASE1L3	1776	genome.wustl.edu	37	3	58186795	58186795	+	Nonsense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_004944.2	-1	reviewed	p.E159*	0.273	218	0%	75	22.7%	1	0%	-	-	-	HMMPfam_Exo_endo_phos,superfamily_DNase I-like,HMMSmart_SM00476,PatternScan_DNASE_I_1
ABHD6	57406	genome.wustl.edu	37	3	58255091	58255091	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_020676.5	+1	validated	p.G107V	1.000	149	0%	42	11.9%	1	0%	probably_damaging(1)	deleterious(0)	deleterious(0.945)	HMMPfam_Abhydrolase_1,superfamily_SSF53474
ACOX2	8309	genome.wustl.edu	37	3	58494665	58494665	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_003500.3	-1	reviewed	p.Y646	0.993	247	0%	109	9.2%	4	0%	-	-	-	HMMPfam_ACOX,superfamily_AcylCoADH_C_like
FAM3D	131177	genome.wustl.edu	37	3	58639469	58639469	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_138805.2	-1	validated	p.T18M	0.002	65	0%	47	21.3%	1	0%	probably_damaging(0.996)	tolerated(0.06)	deleterious(0.784)	NULL
C3orf67	200844	genome.wustl.edu	37	3	58899485	58899485	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_198463.2	-1	validated	p.R42W	0.997	308	0%	74	18.9%	0	-	probably_damaging(1)	deleterious(0)	deleterious(0.945)	NULL
C3orf67	200844	genome.wustl.edu	37	3	58923404	58923404	+	Silent	SNP	T	T	C	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	ENST00000468415	-1	known	p.K121	1.000	597	0%	199	19.1%	0	-	-	-	-	HMMPfam_DUF667
PTPRG	5793	genome.wustl.edu	37	3	61975387	61975387	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_002841.3	+1	reviewed	p.A93	0.010	275	0%	73	23.3%	3	0%	-	-	-	HMMPfam_Carb_anhydrase,superfamily_Carbonic anhydrase
PTPRG	5793	genome.wustl.edu	37	3	62189043	62189043	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_002841.3	+1	reviewed	p.G525V	1.000	39	0%	69	21.7%	1	0%	benign(0.001)	tolerated(0.22)	neutral(0.042)	NULL
FEZF2	55079	genome.wustl.edu	37	3	62356998	62356998	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_018008.3	-1	validated	p.C338	1.000	169	0.6%	335	14.6%	0	-	-	-	-	HMMPfam_zf-C2H2,PatternScan_ZINC_FINGER_C2H2_1,HMMSmart_SM00355,superfamily_C2H2 and C2HC zinc fingers
CADPS	8618	genome.wustl.edu	37	3	62499370	62499370	+	Nonsense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_183394.2	-1	reviewed	p.E865*	1.000	211	0%	68	10.3%	0	-	-	-	-	HMMPfam_DUF1041
CADPS	8618	genome.wustl.edu	37	3	62556582	62556582	+	Nonsense_Mutation	SNP	T	T	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_003716.3	-1	reviewed	p.K537*	1.000	358	0%	91	22%	0	-	-	-	-	HMMPfam_PH,HMMSmart_SM00233,superfamily_PH domain-like
CADPS	8618	genome.wustl.edu	37	3	62570979	62570979	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_003716.3	-1	reviewed	p.P486	0.054	733	0.1%	263	28.1%	0	-	-	-	-	NULL
CADPS	8618	genome.wustl.edu	37	3	62631468	62631468	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_003716.3	-1	reviewed	p.I418	0.832	379	0.5%	82	9.8%	0	-	-	-	-	HMMPfam_C2
SNTN	132203	genome.wustl.edu	37	3	63638398	63638398	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001080537.1	+1	provisional	p.S12Y	0.001	139	0%	38	26.3%	0	-	benign(0.092)	deleterious(0.03)	neutral(0.371)	NULL
PRICKLE2	166336	genome.wustl.edu	37	3	64084883	64084883	+	Silent	SNP	T	T	C	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_198859.3	-1	validated	p.E793	0.955	135	0%	140	26.4%	2	0%	-	-	-	NULL
ADAMTS9	56999	genome.wustl.edu	37	3	64640046	64640046	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_182920.1	-1	reviewed	p.A433	1.000	260	0%	99	25.3%	0	-	-	-	-	"HMMPfam_Reprolysin,superfamily_Metalloproteases (""zincins"") catalytic domain"
ADAMTS9	56999	genome.wustl.edu	37	3	64672510	64672510	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_182920.1	-1	reviewed	p.P84S	1.000	114	0%	186	21%	1	0%	benign(0.144)	tolerated(0.09)	neutral(0.309)	HMMPfam_Pep_M12B_propep
MAGI1	9223	genome.wustl.edu	37	3	65361458	65361458	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001033057.1	-1	reviewed	p.A1053V	1.000	367	0%	462	10.4%	1	0%	possibly_damaging(0.88)	deleterious(0)	deleterious(0.788)	HMMPfam_PDZ,HMMSmart_SM00228,superfamily_PDZ domain-like
MAGI1	9223	genome.wustl.edu	37	3	65415647	65415647	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001033057.1	-1	reviewed	p.S572L	1.000	311	0%	63	19%	2	0%	probably_damaging(0.996)	deleterious(0.05)	deleterious(0.807)	NULL
MAGI1	9223	genome.wustl.edu	37	3	65416445	65416445	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001033057.1	-1	reviewed	p.P492L	1.000	253	0%	47	17%	1	0%	probably_damaging(1)	deleterious(0)	deleterious(0.945)	HMMPfam_PDZ,HMMSmart_SM00228,superfamily_PDZ domain-like
MAGI1	9223	genome.wustl.edu	37	3	65416475	65416475	+	Missense_Mutation	SNP	A	A	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001033057.1	-1	reviewed	p.F482Y	1.000	254	0%	50	26%	1	0%	probably_damaging(0.999)	deleterious(0.01)	deleterious(0.896)	HMMPfam_PDZ,HMMSmart_SM00228,superfamily_PDZ domain-like
MAGI1	9223	genome.wustl.edu	37	3	65456015	65456015	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001033057.1	-1	reviewed	p.P301H	1.000	303	0%	87	28.7%	4	50%	probably_damaging(1)	deleterious(0)	deleterious(0.945)	HMMSmart_SM00456,superfamily_WW domain
LRIG1	26018	genome.wustl.edu	37	3	66436418	66436418	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_015541.2	-1	validated	p.R592	1.000	179	0%	123	21.1%	16	12.5%	-	-	-	HMMSmart_SM00409,HMMPfam_I-set,superfamily_Immunoglobulin
KBTBD8	84541	genome.wustl.edu	37	3	67054146	67054146	+	Missense_Mutation	SNP	A	A	C	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_032505.2	+1	validated	p.K226T	1.000	216	0%	275	26.9%	1	0%	benign(0.014)	tolerated(0.16)	neutral(0.060)	HMMPfam_BACK
KBTBD8	84541	genome.wustl.edu	37	3	67058664	67058664	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_032505.2	+1	validated	p.R528I	1.000	198	0%	120	25.8%	1	0%	probably_damaging(0.98)	tolerated(0.15)	deleterious(0.665)	superfamily_Galactose oxidase central domain
C3orf64	285203	genome.wustl.edu	37	3	69026859	69026859	+	Silent	SNP	T	T	C	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_173654.1	-1	provisional	p.V414	0.992	214	0%	62	27.4%	10	10%	-	-	-	NULL
UBA3	9039	genome.wustl.edu	37	3	69110976	69110976	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_003968.3	-1	reviewed	p.R300M	1.000	505	0%	168	20.2%	10	10%	probably_damaging(1)	tolerated(0.09)	deleterious(0.796)	HMMPfam_UBACT,superfamily_Activating enzymes of the ubiquitin-like proteins
ARL6IP5	10550	genome.wustl.edu	37	3	69151015	69151015	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_006407.3	+1	reviewed	p.L68M	0.996	359	0%	141	10.6%	44	0%	possibly_damaging(0.793)	tolerated(0.06)	deleterious(0.621)	HMMPfam_PRA1
ARL6IP5	10550	genome.wustl.edu	37	3	69151116	69151116	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	ENST00000412089	+1	known	p.R88C	0.998	409	0%	127	21.3%	55	16.3%	benign(0.258)	deleterious(0)	deleterious(0.472)	HMMPfam_PRA1
LMOD3	56203	genome.wustl.edu	37	3	69168172	69168172	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_198271.3	-1	validated	p.E445G	0.148	217	0%	51	11.8%	0	-	possibly_damaging(0.895)	tolerated(0.09)	deleterious(0.649)	NULL
FOXP1	27086	genome.wustl.edu	37	3	71026822	71026822	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_032682.4	-1	reviewed	p.P467Q	1.000	501	0.2%	308	12%	8	25%	probably_damaging(1)	deleterious(0)	deleterious(0.945)	"HMMPfam_Fork_head,HMMSmart_SM00339,superfamily_""Winged helix"" DNA-binding domain"
FOXP1	27086	genome.wustl.edu	37	3	71027015	71027015	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_032682.4	-1	reviewed	p.R438W	1.000	343	0%	276	27.2%	15	20%	probably_damaging(1)	deleterious(0)	deleterious(0.945)	NULL
FOXP1	27086	genome.wustl.edu	37	3	71096119	71096119	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_032682.4	-1	reviewed	p.A213V	1.000	119	0%	39	25.6%	6	0%	benign(0.005)	deleterious(0.04)	neutral(0.349)	NULL
PDZRN3	23024	genome.wustl.edu	37	3	73432615	73432615	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	ENST00000494559	-1	known	p.S350L	0.271	307	0%	477	26%	16	0%	-	-	-	NULL
PDZRN3	23024	genome.wustl.edu	37	3	73433045	73433045	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_015009.1	-1	provisional	p.S891L	1.000	49	0%	91	31.9%	25	0%	possibly_damaging(0.717)	deleterious(0.01)	deleterious(0.665)	NULL
PDZRN3	23024	genome.wustl.edu	37	3	73433094	73433094	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_015009.1	-1	provisional	p.A875T	1.000	78	0%	110	11.8%	22	0%	benign(0.096)	tolerated(0.06)	neutral(0.330)	NULL
PDZRN3	23024	genome.wustl.edu	37	3	73433281	73433281	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_015009.1	-1	provisional	p.T812	0.753	84	0%	120	22.5%	17	0%	-	-	-	NULL
PDZRN3	23024	genome.wustl.edu	37	3	73433569	73433569	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_015009.1	-1	provisional	p.R716	0.732	43	0%	73	16.4%	13	0%	-	-	-	NULL
PDZRN3	23024	genome.wustl.edu	37	3	73657821	73657821	+	Missense_Mutation	SNP	T	T	G	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_015009.1	-1	provisional	p.K246N	1.000	163	0.6%	64	23.4%	3	0%	probably_damaging(0.985)	deleterious(0.04)	deleterious(0.781)	superfamily_PDZ domain-like
CNTN3	5067	genome.wustl.edu	37	3	74413673	74413673	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_020872.1	-1	validated	p.C386	1.000	475	0%	157	19.1%	0	-	-	-	-	HMMSmart_SM00408,HMMSmart_SM00409,HMMPfam_I-set,superfamily_Immunoglobulin
CNTN3	5067	genome.wustl.edu	37	3	74474047	74474047	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_020872.1	-1	validated	p.R135C	1.000	193	0%	55	20%	0	-	probably_damaging(0.999)	deleterious(0)	deleterious(0.935)	HMMSmart_SM00408,HMMSmart_SM00409,HMMPfam_V-set,superfamily_Immunoglobulin
ROBO2	6092	genome.wustl.edu	37	3	77638008	77638008	+	Nonsense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_002942.3	+1	reviewed	p.C869*	1.000	561	0%	190	23.7%	0	-	-	-	-	NULL
ROBO2	6092	genome.wustl.edu	37	3	77693983	77693983	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_002942.3	+1	reviewed	p.R1355C	1.000	241	0%	100	34%	0	-	probably_damaging(1)	deleterious(0.01)	deleterious(0.905)	NULL
ROBO1	6091	genome.wustl.edu	37	3	78706323	78706323	+	Nonsense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_002941.3	-1	reviewed	p.R847*	0.997	145	0%	41	48.8%	0	-	-	-	-	HMMPfam_fn3,HMMSmart_SM00060,superfamily_Fibronectin type III
GBE1	2632	genome.wustl.edu	37	3	81630387	81630387	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	ENST00000264326	-1	known	p.D459N	0.998	480	0%	92	10.9%	21	0%	benign(0)	tolerated(1)	-	HMMSmart_SM00642,superfamily_(Trans)glycosidases
GBE1	2632	genome.wustl.edu	37	3	81643118	81643118	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	ENST00000264326	-1	known	p.R350H	0.990	353	0%	76	13.2%	20	0%	benign(0)	tolerated(0.67)	neutral(0.003)	HMMSmart_SM00642,superfamily_(Trans)glycosidases
CADM2	253559	genome.wustl.edu	37	3	86010737	86010737	+	Nonsense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_153184.3	+1	validated	p.R297*	1.000	151	0%	13	46.2%	0	-	-	-	-	HMMSmart_IGc2,HMMPfam_ig,superfamily_SSF48726
HTR1F	3355	genome.wustl.edu	37	3	88040318	88040318	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_000866.3	+1	validated	p.A140D	1.000	152	0%	73	31.5%	0	-	probably_damaging(0.999)	deleterious(0)	deleterious(0.935)	HMMPfam_7tm_1,superfamily_SSF81321
HTR1F	3355	genome.wustl.edu	37	3	88040460	88040460	+	Silent	SNP	T	T	C	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_000866.3	+1	validated	p.F187	1.000	156	0%	44	27.3%	0	-	-	-	-	HMMPfam_7tm_1,superfamily_SSF81321
HTR1F	3355	genome.wustl.edu	37	3	88040648	88040648	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_000866.3	+1	validated	p.S250Y	1.000	178	0%	51	21.6%	0	-	possibly_damaging(0.901)	tolerated(0.07)	deleterious(0.676)	HMMPfam_7tm_1,superfamily_SSF81321
HTR1F	3355	genome.wustl.edu	37	3	88040986	88040986	+	Nonsense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_000866.3	+1	validated	p.R363*	1.000	124	0%	41	26.8%	0	-	-	-	-	superfamily_SSF81321
CGGBP1	8545	genome.wustl.edu	37	3	88105074	88105074	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001008390.1	-1	validated	p.A18D	1.000	162	0%	196	21.4%	47	46.8%	possibly_damaging(0.861)	deleterious(0)	deleterious(0.778)	NULL
ZNF654	55279	genome.wustl.edu	37	3	88190016	88190016	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_018293.2	+1	validated	p.R519H	1.000	213	0%	133	23.3%	2	0%	probably_damaging(1)	deleterious(0)	deleterious(0.945)	NULL
EPHA3	2042	genome.wustl.edu	37	3	89259600	89259600	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_005233.5	+1	reviewed	p.G248	0.000	123	0%	68	25%	0	-	-	-	-	PatternScan_RECEPTOR_TYR_KIN_V_2
EPHA3	2042	genome.wustl.edu	37	3	89462320	89462320	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_005233.5	+1	reviewed	p.D598N	1.000	225	0%	56	21.4%	0	-	probably_damaging(0.992)	deleterious(0)	deleterious(0.892)	superfamily_Protein kinase-like (PK-like)
EPHA3	2042	genome.wustl.edu	37	3	89498434	89498434	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_005233.5	+1	reviewed	p.T802	0.128	418	0%	169	19.5%	0	-	-	-	-	HMMPfam_Pkinase_Tyr,HMMSmart_SM00219,HMMSmart_SM00220,superfamily_Protein kinase-like (PK-like)
PROS1	5627	genome.wustl.edu	37	3	93615490	93615490	+	Missense_Mutation	SNP	A	A	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_000313.3	-1	reviewed	p.L299I	0.999	187	0%	87	28.7%	2	0%	probably_damaging(0.996)	tolerated(0.31)	deleterious(0.489)	superfamily_ConA_like_lec_gl
PROS1	5627	genome.wustl.edu	37	3	93629537	93629537	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_000313.3	-1	reviewed	p.S91Y	0.922	304	0%	244	20.5%	1	0%	possibly_damaging(0.937)	tolerated(0.06)	deleterious(0.706)	superfamily_VitK_dep_GLA
EPHA6	285220	genome.wustl.edu	37	3	96963003	96963003	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001080448.2	+1	provisional	p.S493Y	1.000	264	0%	102	21.6%	0	-	probably_damaging(0.978)	tolerated(0.74)	neutral(0.422)	HMMPfam_fn3,HMMSmart_SM00060,superfamily_Fibronectin type III
EPHA6	285220	genome.wustl.edu	37	3	97202879	97202879	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001080448.2	+1	provisional	p.R726C	1.000	402	0%	530	28.3%	0	-	probably_damaging(1)	deleterious(0.01)	deleterious(0.905)	HMMPfam_Pkinase_Tyr,HMMSmart_SM00219,HMMSmart_SM00220,superfamily_Protein kinase-like (PK-like)
EPHA6	285220	genome.wustl.edu	37	3	97454844	97454844	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001080448.2	+1	provisional	p.L1004I	1.000	197	0%	44	31.8%	0	-	probably_damaging(0.969)	deleterious(0.03)	deleterious(0.776)	HMMPfam_Pkinase_Tyr,HMMSmart_SM00219,HMMSmart_SM00220,superfamily_Protein kinase-like (PK-like)
CRYBG3	131544	genome.wustl.edu	37	3	97595953	97595953	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_153605.2	+1	validated	p.D24G	0.002	169	0%	41	41.5%	0	-	benign(0)	deleterious(0.02)	neutral(0.383)	NULL
CRYBG3	131544	genome.wustl.edu	37	3	97596774	97596774	+	Missense_Mutation	SNP	A	A	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_153605.2	+1	validated	p.S298C	0.007	206	0%	38	34.2%	1	0%	benign(0.14)	deleterious(0)	neutral(0.457)	NULL
CRYBG3	131544	genome.wustl.edu	37	3	97614926	97614926	+	Missense_Mutation	SNP	A	A	C	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_153605.2	+1	validated	p.Q618H	1.000	331	0%	80	26.3%	3	0%	probably_damaging(0.996)	tolerated(0.3)	deleterious(0.490)	superfamily_gamma-Crystallin-like
CRYBG3	131544	genome.wustl.edu	37	3	97618093	97618093	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_153605.2	+1	validated	p.R705W	0.876	272	0%	84	27.4%	3	0%	probably_damaging(1)	deleterious(0)	deleterious(0.945)	HMMPfam_Crystall,HMMSmart_SM00247,superfamily_gamma-Crystallin-like
MINA	84864	genome.wustl.edu	37	3	97664732	97664732	+	Splice_Site	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001042533.1	-1	validated	e8-1	1.000	422	0%	112	18.8%	0	-	-	-	-	-
GABRR3	200959	genome.wustl.edu	37	3	97731224	97731224	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001105580.1	-1	provisional	p.R165H	0.955	277	0%	64	25%	0	-	possibly_damaging(0.591)	deleterious(0)	deleterious(0.648)	HMMPfam_Neur_chan_LBD,superfamily_Nicotinic receptor ligand binding domain-like
OR5AC2	81050	genome.wustl.edu	37	3	97806323	97806323	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_054106.1	+1	provisional	p.F103L	0.120	267	0%	123	14.6%	0	-	benign(0.045)	tolerated(0.28)	neutral(0.034)	HMMPfam_7tm_1,superfamily_SSF81321
OR5H15	403274	genome.wustl.edu	37	3	97887821	97887821	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001005515.1	+1	provisional	p.S93Y	0.030	458	0.2%	89	15.7%	0	-	possibly_damaging(0.933)	deleterious(0)	deleterious(0.824)	HMMPfam_7tm_1,superfamily_SSF81321
OR5H15	403274	genome.wustl.edu	37	3	97888382	97888382	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001005515.1	+1	provisional	p.V280A	0.006	399	0%	133	21.8%	0	-	possibly_damaging(0.725)	deleterious(0)	deleterious(0.708)	HMMPfam_7tm_1,superfamily_SSF81321
OR5H2	79310	genome.wustl.edu	37	3	98001806	98001806	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001005482.1	+1	provisional	p.Q25	0.000	490	0%	140	22.9%	0	-	-	-	-	superfamily_SSF81321
OR5H2	79310	genome.wustl.edu	37	3	98002088	98002088	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001005482.1	+1	provisional	p.L119	0.010	284	0%	78	26.9%	0	-	-	-	-	HMMPfam_7tm_1,PatternScan_G_PROTEIN_RECEP_F1_1,superfamily_SSF81321
OR5H2	79310	genome.wustl.edu	37	3	98002173	98002173	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001005482.1	+1	provisional	p.R148W	0.000	309	0.3%	77	19.5%	0	-	benign(0.005)	tolerated(0.14)	neutral(0.249)	HMMPfam_7tm_1,superfamily_SSF81321
OR5K4	403278	genome.wustl.edu	37	3	98073321	98073321	+	Silent	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001005517.1	+1	provisional	p.I208	0.001	335	0%	98	17.3%	0	-	-	-	-	HMMPfam_7tm_1,superfamily_SSF81321
DCBLD2	131566	genome.wustl.edu	37	3	98530160	98530160	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_080927.3	-1	validated	p.R485H	1.000	558	0%	152	9.9%	6	0%	benign(0.301)	tolerated(0.17)	neutral(0.152)	NULL
COL8A1	1295	genome.wustl.edu	37	3	99514494	99514494	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001850.3	+1	reviewed	p.E583D	1.000	59	0%	40	27.5%	3	0%	possibly_damaging(0.806)	tolerated(0.57)	neutral(0.309)	NULL
FILIP1L	11259	genome.wustl.edu	37	3	99568174	99568174	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_182909.2	-1	validated	p.R782	0.989	397	0%	141	21.3%	69	0%	-	-	-	superfamily_Prefoldin
FILIP1L	11259	genome.wustl.edu	37	3	99569559	99569559	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_182909.2	-1	validated	p.R321C	1.000	438	0%	189	23.8%	34	0%	benign(0.142)	deleterious(0.02)	neutral(0.395)	superfamily_Prefoldin,HMMPfam_CortBP2
FILIP1L	11259	genome.wustl.edu	37	3	99569795	99569795	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_182909.2	-1	validated	p.V242A	1.000	247	0%	101	20.8%	33	0%	probably_damaging(0.973)	deleterious(0.01)	deleterious(0.821)	HMMPfam_CortBP2
TBC1D23	55773	genome.wustl.edu	37	3	100021006	100021006	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_018309.2	+1	validated	p.E396D	1.000	282	0%	89	24.7%	3	0%	probably_damaging(1)	deleterious(0.02)	deleterious(0.883)	superfamily_Rhodanese/Cell cycle control phosphatase
TOMM70A	9868	genome.wustl.edu	37	3	100093932	100093932	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_014820.3	-1	validated	p.S386F	1.000	148	0%	34	23.5%	14	21.4%	benign(0.093)	deleterious(0.01)	neutral(0.413)	HMMPfam_TPR_1,HMMSmart_TPR,superfamily_SSF48452
LNP1	348801	genome.wustl.edu	37	3	100148686	100148686	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001085451.1	+1	validated	p.R38Q	0.015	103	0%	45	17.8%	1	100%	possibly_damaging(0.785)	tolerated(0.44)	neutral(0.306)	NULL
LNP1	348801	genome.wustl.edu	37	3	100170780	100170780	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001085451.1	+1	validated	p.R125H	0.018	159	0%	73	13.7%	1	100%	probably_damaging(0.997)	deleterious(0)	deleterious(0.911)	NULL
TMEM45A	55076	genome.wustl.edu	37	3	100274089	100274089	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_018004.1	+1	provisional	p.T12A	0.998	563	0%	179	24%	3	0%	benign(0.059)	tolerated(0.39)	neutral(0.020)	NULL
TMEM45A	55076	genome.wustl.edu	37	3	100277367	100277367	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_018004.1	+1	provisional	p.R174	0.008	408	0%	133	17.3%	6	0%	-	-	-	HMMPfam_DUF716
GPR128	84873	genome.wustl.edu	37	3	100378595	100378595	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_032787.2	+1	validated	p.I629	0.001	526	0%	145	27.6%	0	-	-	-	-	HMMPfam_7tm_2
GPR128	84873	genome.wustl.edu	37	3	100378648	100378648	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_032787.2	+1	validated	p.S647L	0.006	493	0%	118	23.7%	0	-	benign(0.001)	tolerated(0.4)	neutral(0.016)	HMMPfam_7tm_2
GPR128	84873	genome.wustl.edu	37	3	100387911	100387911	+	Missense_Mutation	SNP	G	G	A	rs116022671	byCluster;byFrequency;by1000genomes	TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_032787.2	+1	validated	p.V700I	0.000	242	0.4%	78	28.2%	0	-	benign(0)	tolerated(0.68)	neutral(0.002)	HMMPfam_7tm_2
TFG	10342	genome.wustl.edu	37	3	100432707	100432707	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001007565.1	+1	validated	p.D60Y	1.000	139	0%	153	22.9%	20	5%	probably_damaging(1)	deleterious(0)	deleterious(0.945)	HMMPfam_PB1,HMMSmart_PB1,superfamily_SSF54277
ABI3BP	25890	genome.wustl.edu	37	3	100569566	100569566	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_015429.3	-1	validated	p.R413H	0.921	467	0%	95	23.2%	0	-	benign(0.003)	tolerated(0.05)	neutral(0.345)	NULL
IMPG2	50939	genome.wustl.edu	37	3	100976420	100976420	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_016247.2	-1	validated	p.G369E	0.990	162	0%	29	27.6%	0	-	benign(0.157)	tolerated(0.27)	neutral(0.048)	NULL
SENP7	57337	genome.wustl.edu	37	3	101136487	101136487	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_020654.3	-1	validated	p.E144D	1.000	336	0%	129	18.6%	2	0%	probably_damaging(0.991)	deleterious(0)	deleterious(0.889)	NULL
RPL24	6152	genome.wustl.edu	37	3	101404729	101404729	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_000986.3	-1	reviewed	p.S42Y	1.000	183	0%	139	25.2%	2127	18.7%	benign(0.133)	tolerated(0.2)	neutral(0.060)	HMMPfam_Ribosomal_L24e,HMMSmart_SM00746,superfamily_Glucocorticoid receptor-like (DNA-binding domain)
CEP97	79598	genome.wustl.edu	37	3	101477118	101477118	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_024548.2	+1	provisional	p.Q556H	0.982	129	0%	66	13.6%	1	0%	probably_damaging(0.992)	tolerated(0.18)	deleterious(0.504)	NULL
NFKBIZ	64332	genome.wustl.edu	37	3	101572506	101572506	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_031419.2	+1	reviewed	p.S379N	0.000	128	0%	150	26.7%	3	0%	benign(0)	tolerated(0.23)	neutral(0.042)	NULL
ZPLD1	131368	genome.wustl.edu	37	3	102175036	102175036	+	Splice_Site	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_175056.1	+1	provisional	e4-1	1.000	331	0.3%	81	11.1%	0	-	-	-	-	-
BBX	56987	genome.wustl.edu	37	3	107435526	107435526	+	Nonsense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001142568.1	+1	validated	p.R79*	1.000	166	0%	47	31.9%	0	-	-	-	-	HMMSmart_SM00398,superfamily_HMG-box
BBX	56987	genome.wustl.edu	37	3	107524234	107524234	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001142568.1	+1	validated	p.P919L	0.985	237	0%	71	23.9%	1	100%	unknown(0)	-	-	NULL
CD47	961	genome.wustl.edu	37	3	107778343	107778343	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001777.3	-1	reviewed	p.S216Y	0.948	288	0%	77	10.4%	50	28%	possibly_damaging(0.931)	deleterious(0.01)	deleterious(0.783)	HMMPfam_CD47
MYH15	22989	genome.wustl.edu	37	3	108147373	108147373	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_014981.1	-1	validated	p.L1243P	0.008	456	0%	167	24.6%	0	-	probably_damaging(0.999)	deleterious(0)	deleterious(0.935)	HMMPfam_Myosin_tail_1
MYH15	22989	genome.wustl.edu	37	3	108189684	108189684	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_014981.1	-1	validated	p.A435V	0.388	216	0%	81	21%	0	-	possibly_damaging(0.824)	deleterious(0)	deleterious(0.756)	HMMPfam_Myosin_head,HMMSmart_SM00242,superfamily_P-loop containing nucleoside triphosphate hydrolases
MYH15	22989	genome.wustl.edu	37	3	108220687	108220687	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_014981.1	-1	validated	p.E91K	0.991	191	0%	51	19.6%	0	-	probably_damaging(0.986)	tolerated(0.79)	neutral(0.435)	HMMPfam_Myosin_N,superfamily_P-loop containing nucleoside triphosphate hydrolases
DZIP3	9666	genome.wustl.edu	37	3	108365497	108365497	+	Splice_Site	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_014648.3	+1	validated	e14+1	1.000	239	0%	65	21.5%	0	-	-	-	-	-
GUCA1C	9626	genome.wustl.edu	37	3	108672487	108672487	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_005459.3	-1	validated	p.K41N	0.998	416	0%	97	12.4%	0	-	probably_damaging(1)	deleterious(0)	deleterious(0.945)	superfamily_EF-hand
MORC1	27136	genome.wustl.edu	37	3	108677821	108677821	+	Silent	SNP	C	C	T	rs2197737	byCluster;byFrequency;by2Hit2Allele;by1000genomes	TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_014429.3	-1	reviewed	p.S982	0.001	211	0.5%	44	20.5%	0	-	-	-	-	NULL
MORC1	27136	genome.wustl.edu	37	3	108698373	108698373	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_014429.3	-1	reviewed	p.K822	0.002	212	0%	85	23.5%	0	-	-	-	-	NULL
MORC1	27136	genome.wustl.edu	37	3	108818259	108818259	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_014429.3	-1	reviewed	p.T123	0.966	471	0%	102	24.5%	0	-	-	-	-	superfamily_ATPase domain of HSP90 chaperone/DNA topoisomerase II/histidine kinase
MORC1	27136	genome.wustl.edu	37	3	108819324	108819324	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_014429.3	-1	reviewed	p.R85Q	0.999	338	0%	95	22.1%	0	-	benign(0.374)	tolerated(0.4)	neutral(0.135)	superfamily_ATPase domain of HSP90 chaperone/DNA topoisomerase II/histidine kinase
ZBED2	79413	genome.wustl.edu	37	3	111312980	111312980	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_024508.3	-1	validated	p.K23N	0.999	651	0%	351	10.8%	1	0%	possibly_damaging(0.793)	deleterious(0)	deleterious(0.742)	NULL
PLCXD2	257068	genome.wustl.edu	37	3	111426955	111426955	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_153268.3	+1	validated	p.R116C	0.998	152	0.7%	54	20.4%	0	-	probably_damaging(1)	deleterious(0)	deleterious(0.945)	superfamily_PLC-like_Pdiesterase_TIM-brl
PHLDB2	90102	genome.wustl.edu	37	3	111685501	111685501	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001134438.1	+1	validated	p.R1040I	1.000	218	0%	88	17%	6	16.6%	probably_damaging(0.997)	deleterious(0.02)	deleterious(0.849)	NULL
ABHD10	55347	genome.wustl.edu	37	3	111700804	111700804	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_018394.2	+1	validated	p.A106T	1.000	196	0%	241	25.3%	3	0%	possibly_damaging(0.879)	tolerated(0.06)	deleterious(0.665)	HMMPfam_Abhydrolase_1,superfamily_SSF53474
TMPRSS7	344805	genome.wustl.edu	37	3	111768742	111768742	+	Silent	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001042575.2	+1	validated	p.L211	1.000	418	0%	118	28.8%	0	-	-	-	-	HMMPfam_CUB,HMMSmart_SM00042,superfamily_Spermadhesin CUB domain
TMPRSS7	344805	genome.wustl.edu	37	3	111775907	111775907	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001042575.2	+1	validated	p.F287L	1.000	442	0%	90	15.6%	0	-	probably_damaging(0.998)	tolerated(0.1)	deleterious(0.761)	superfamily_Spermadhesin CUB domain
GCET2	257144	genome.wustl.edu	37	3	111849358	111849358	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_152785.3	-1	reviewed	p.R11Q	1.000	602	0%	188	14.4%	2	0%	benign(0.08)	tolerated(0.36)	neutral(0.026)	NULL
SLC9A10	285335	genome.wustl.edu	37	3	111918263	111918263	+	Nonsense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_183061.1	-1	validated	p.E810*	0.897	483	0%	152	10.5%	0	-	-	-	-	NULL
SLC9A10	285335	genome.wustl.edu	37	3	111927084	111927084	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_183061.1	-1	validated	p.E643K	0.745	287	0%	59	16.9%	0	-	probably_damaging(0.998)	tolerated(0.43)	deleterious(0.488)	superfamily_Voltage-gated potassium channels
SLC9A10	285335	genome.wustl.edu	37	3	111988913	111988913	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_183061.1	-1	validated	p.V209M	0.000	100	0%	29	24.1%	0	-	benign(0.001)	tolerated(0.27)	neutral(0.034)	HMMPfam_Na_H_Exchanger
CCDC80	151887	genome.wustl.edu	37	3	112358605	112358605	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_199511.1	-1	validated	p.R50W	0.001	62	0%	58	25.9%	43	0%	probably_damaging(0.982)	deleterious(0)	deleterious(0.871)	NULL
CD200R1	131450	genome.wustl.edu	37	3	112666716	112666716	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_138806.3	-1	reviewed	p.E41D	0.000	426	0%	121	20.7%	0	-	benign(0.181)	tolerated(0.68)	neutral(0.019)	NULL
C3orf17	25871	genome.wustl.edu	37	3	112724477	112724477	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_015412.3	-1	validated	p.S537L	0.003	548	0%	206	26.7%	16	12.5%	benign(0.022)	tolerated(1)	neutral(0.001)	NULL
WDR52	55779	genome.wustl.edu	37	3	113027012	113027012	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	ENST00000465636	-1	known	p.P677S	0.772	386	0%	100	13%	0	-	-	-	-	NULL
WDR52	55779	genome.wustl.edu	37	3	113082108	113082108	+	Nonsense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_018338.3	-1	validated	p.E940*	1.000	313	0%	74	16.2%	2	50%	-	-	-	NULL
SIDT1	54847	genome.wustl.edu	37	3	113321985	113321985	+	Silent	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_017699.2	+1	validated	p.I417	1.000	106	0%	26	19.2%	0	-	-	-	-	NULL
SIDT1	54847	genome.wustl.edu	37	3	113327011	113327011	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_017699.2	+1	validated	p.R517C	0.910	182	0%	74	14.9%	0	-	benign(0.167)	deleterious(0)	neutral(0.460)	NULL
KIAA2018	205717	genome.wustl.edu	37	3	113375516	113375516	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001009899.2	-1	validated	p.E1671D	1.000	217	0%	84	19%	0	-	probably_damaging(0.999)	deleterious(0)	deleterious(0.935)	NULL
ATP6V1A	523	genome.wustl.edu	37	3	113503146	113503146	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001690.2	+1	reviewed	p.G96E	1.000	349	0%	114	12.3%	5	20%	benign(0.02)	tolerated(1)	neutral(0.001)	NULL
GRAMD1C	54762	genome.wustl.edu	37	3	113563454	113563454	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_017577.4	+1	validated	p.Q44	1.000	450	0%	560	24.5%	0	-	-	-	-	NULL
GRAMD1C	54762	genome.wustl.edu	37	3	113634647	113634647	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_017577.4	+1	validated	p.R351H	0.762	526	0%	93	11.8%	0	-	benign(0.006)	tolerated(0.22)	neutral(0.042)	NULL
ZDHHC23	254887	genome.wustl.edu	37	3	113672618	113672618	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_173570.3	+1	validated	p.R78Q	1.000	182	0%	151	12.6%	0	-	probably_damaging(1)	deleterious(0)	deleterious(0.945)	NULL
DRD3	1814	genome.wustl.edu	37	3	113858530	113858530	+	Silent	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_000796.3	-1	reviewed	p.V180	1.000	174	0%	101	15.8%	0	-	-	-	-	HMMPfam_7tm_1,superfamily_Family A G protein-coupled receptor-like
TIGIT	201633	genome.wustl.edu	37	3	114018542	114018542	+	Missense_Mutation	SNP	A	A	C	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_173799.3	+1	validated	p.T164P	0.001	85	0%	36	22.2%	16	0%	benign(0.02)	tolerated(0.06)	neutral(0.324)	NULL
TIGIT	201633	genome.wustl.edu	37	3	114026886	114026886	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_173799.3	+1	validated	p.R215W	0.000	75	1.3%	25	16%	15	0%	possibly_damaging(0.938)	deleterious(0.04)	deleterious(0.732)	NULL
ZBTB20	26137	genome.wustl.edu	37	3	114069854	114069854	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_015642.4	-1	validated	p.T284	0.834	69	0%	138	28.3%	0	-	-	-	-	NULL
IGSF11	152404	genome.wustl.edu	37	3	118644958	118644958	+	Silent	SNP	T	T	C	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001015887.1	-1	validated	p.T190	1.000	248	0%	87	12.6%	1	100%	-	-	-	HMMSmart_SM00408,HMMSmart_SM00409,HMMPfam_ig,superfamily_Immunoglobulin
UPK1B	7348	genome.wustl.edu	37	3	118917921	118917921	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_006952.3	+1	reviewed	p.I222	0.978	277	0%	90	11.1%	0	-	-	-	-	superfamily_Tetraspanin,HMMPfam_Tetraspannin
ARHGAP31	57514	genome.wustl.edu	37	3	119101985	119101985	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_020754.2	+1	reviewed	p.V198	0.796	236	0%	91	20.9%	0	-	-	-	-	HMMSmart_SM00324,superfamily_GTPase activation domain GAP
ARHGAP31	57514	genome.wustl.edu	37	3	119120898	119120898	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_020754.2	+1	reviewed	p.K433N	1.000	121	0%	55	23.6%	0	-	probably_damaging(1)	deleterious(0.04)	deleterious(0.849)	NULL
ARHGAP31	57514	genome.wustl.edu	37	3	119132837	119132837	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_020754.2	+1	reviewed	p.E687D	0.000	148	0.7%	51	15.7%	0	-	benign(0.014)	deleterious(0)	neutral(0.445)	NULL
ARHGAP31	57514	genome.wustl.edu	37	3	119133873	119133873	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_020754.2	+1	reviewed	p.A1033T	0.044	128	0%	39	12.8%	2	0%	benign(0.108)	deleterious(0.01)	neutral(0.414)	NULL
POGLUT1	56983	genome.wustl.edu	37	3	119210387	119210387	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_152305.2	+1	validated	p.A330T	1.000	656	0%	374	11.2%	4	0%	benign(0.001)	tolerated(0.25)	neutral(0.037)	HMMSmart_SM00672,HMMPfam_DUF821
CD80	941	genome.wustl.edu	37	3	119246649	119246649	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_005191.3	-1	validated	p.R279I	0.000	790	0.4%	169	21.3%	3	0%	unknown(0)	-	-	NULL
C3orf15	89876	genome.wustl.edu	37	3	119445078	119445078	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_033364.3	+1	validated	p.R248H	1.000	134	0%	37	27%	0	-	probably_damaging(1)	deleterious(0)	deleterious(0.945)	NULL
C3orf15	89876	genome.wustl.edu	37	3	119466109	119466109	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_033364.3	+1	validated	p.R684C	0.963	100	0%	51	27.5%	1	0%	probably_damaging(1)	deleterious(0.04)	deleterious(0.849)	NULL
LRRC58	116064	genome.wustl.edu	37	3	120054684	120054684	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001099678.1	-1	validated	p.P206H	1.000	404	0%	249	10.8%	0	-	probably_damaging(0.998)	tolerated(0.06)	deleterious(0.797)	HMMPfam_LRR_1,superfamily_SSF52058
FSTL1	11167	genome.wustl.edu	37	3	120123780	120123780	+	Silent	SNP	T	T	C	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_007085.4	-1	reviewed	p.E167	0.998	525	0.2%	273	19%	25	4%	-	-	-	HMMSmart_EFh,superfamily_SSF47473
STXBP5L	9515	genome.wustl.edu	37	3	120957903	120957903	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_014980.2	+1	validated	p.D424N	1.000	241	0%	50	22%	0	-	probably_damaging(0.998)	deleterious(0)	deleterious(0.919)	HMMSmart_SM00320,superfamily_WD40 repeat-like,HMMPfam_WD40
STXBP5L	9515	genome.wustl.edu	37	3	120976044	120976044	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_014980.2	+1	validated	p.I566V	1.000	241	0%	66	21.2%	1	0%	benign(0)	tolerated(0.7)	neutral(0.002)	NULL
STXBP5L	9515	genome.wustl.edu	37	3	120978001	120978001	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_014980.2	+1	validated	p.S648R	1.000	225	0%	79	19%	0	-	possibly_damaging(0.914)	deleterious(0)	deleterious(0.810)	NULL
ARGFX	503582	genome.wustl.edu	37	3	121305236	121305236	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001012659.1	+1	validated	p.S246Y	0.024	304	0.3%	128	23.4%	0	-	probably_damaging(0.99)	tolerated(0.12)	deleterious(0.702)	NULL
FBXO40	51725	genome.wustl.edu	37	3	121341764	121341764	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_016298.3	+1	validated	p.H496	1.000	153	0%	68	33.8%	0	-	-	-	-	NULL
FBXO40	51725	genome.wustl.edu	37	3	121345715	121345715	+	Silent	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_016298.3	+1	validated	p.V696	0.986	186	0%	85	21.2%	0	-	-	-	-	NULL
HCLS1	3059	genome.wustl.edu	37	3	121350739	121350739	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_005335.4	-1	validated	p.G472D	1.000	181	0%	67	32.8%	73	8.2%	probably_damaging(0.999)	tolerated(0.12)	deleterious(0.751)	HMMPfam_SH3_1,HMMSmart_SM00326,superfamily_SH3-domain
HCLS1	3059	genome.wustl.edu	37	3	121361819	121361819	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_005335.4	-1	validated	p.G137S	1.000	239	0.4%	158	31%	18	5.5%	probably_damaging(0.986)	deleterious(0)	deleterious(0.879)	HMMPfam_HS1_rep
GOLGB1	2804	genome.wustl.edu	37	3	121383778	121383778	+	Nonsense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_004487.3	-1	validated	p.R3214*	0.995	604	0%	231	13%	33	6%	-	-	-	NULL
GOLGB1	2804	genome.wustl.edu	37	3	121388154	121388154	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_004487.3	-1	validated	p.D3071N	0.005	289	0%	148	21.6%	18	0%	benign(0.227)	tolerated(0.11)	neutral(0.294)	NULL
GOLGB1	2804	genome.wustl.edu	37	3	121409637	121409637	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_004487.3	-1	validated	p.E2853D	0.437	193	0%	266	24.4%	12	16.6%	benign(0.209)	tolerated(0.22)	neutral(0.062)	superfamily_Prefoldin
GOLGB1	2804	genome.wustl.edu	37	3	121409849	121409849	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_004487.3	-1	validated	p.A2783T	0.000	388	0%	507	22.7%	12	8.3%	benign(0)	tolerated(0.55)	neutral(0.007)	NULL
IQCB1	9657	genome.wustl.edu	37	3	121514362	121514362	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001023570.2	-1	reviewed	p.T310A	1.000	329	0.3%	148	11.5%	1	0%	probably_damaging(0.989)	tolerated(0.11)	deleterious(0.711)	HMMPfam_IQ,HMMSmart_SM00015,superfamily_P-loop containing nucleoside triphosphate hydrolases
ILDR1	286676	genome.wustl.edu	37	3	121720191	121720191	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_175924.2	-1	provisional	p.P204S	1.000	146	0%	112	17%	1	0%	possibly_damaging(0.915)	deleterious(0)	deleterious(0.811)	HMMPfam_LSR
CASR	846	genome.wustl.edu	37	3	121980735	121980735	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_000388.3	+1	reviewed	p.R285W	1.000	65	0%	11	36.4%	0	-	probably_damaging(0.997)	tolerated(0.18)	deleterious(0.522)	HMMPfam_ANF_receptor,superfamily_Periplasmic binding protein-like I
CASR	846	genome.wustl.edu	37	3	122003238	122003238	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_000388.3	+1	reviewed	p.I813V	1.000	65	0%	123	11.4%	0	-	possibly_damaging(0.712)	tolerated(0.24)	neutral(0.295)	HMMPfam_7tm_3
CASR	846	genome.wustl.edu	37	3	122003439	122003439	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_000388.3	+1	reviewed	p.A880T	1.000	32	0%	57	28.1%	0	-	probably_damaging(0.99)	tolerated(0.05)	deleterious(0.787)	NULL
PARP9	83666	genome.wustl.edu	37	3	122255058	122255058	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_031458.2	-1	validated	p.V714	0.000	275	0%	88	19.3%	23	4.3%	-	-	-	HMMPfam_PARP,superfamily_ADP-ribosylation
PARP9	83666	genome.wustl.edu	37	3	122259619	122259619	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_031458.2	-1	validated	p.V524M	0.000	169	0%	74	16.2%	9	22.2%	benign(0)	tolerated(0.22)	neutral(0.042)	NULL
PARP15	165631	genome.wustl.edu	37	3	122354800	122354800	+	Silent	SNP	A	A	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001113523.1	+1	validated	p.A630	0.000	300	0%	79	11.4%	3	0%	-	-	-	HMMPfam_PARP,superfamily_ADP-ribosylation
SEMA5B	54437	genome.wustl.edu	37	3	122641145	122641145	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001031702.2	-1	validated	p.L474	0.999	35	0%	67	11.9%	0	-	-	-	-	HMMPfam_Sema,HMMSmart_SM00630,superfamily_Sema domain
ADCY5	111	genome.wustl.edu	37	3	123009974	123009974	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_183357.1	-1	validated	p.A1105T	1.000	45	0%	29	17.2%	1	0%	probably_damaging(1)	deleterious(0)	deleterious(0.945)	HMMPfam_Guanylate_cyc,HMMSmart_CYCc,superfamily_A/G_cyclase
ADCY5	111	genome.wustl.edu	37	3	123046525	123046525	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_183357.1	-1	validated	p.N629	0.941	68	0%	64	25%	1	0%	-	-	-	HMMPfam_Guanylate_cyc,superfamily_A/G_cyclase
MYLK	4638	genome.wustl.edu	37	3	123348364	123348364	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_053025.3	-1	reviewed	p.D1691N	0.992	154	0%	85	18.8%	49	8.1%	possibly_damaging(0.862)	tolerated(0.23)	neutral(0.374)	HMMSmart_SM00219,HMMSmart_SM00220,superfamily_Protein kinase-like (PK-like),HMMPfam_Pkinase
MYLK	4638	genome.wustl.edu	37	3	123366251	123366251	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_053025.3	-1	reviewed	p.R1480Q	1.000	203	0%	73	11%	21	0%	probably_damaging(0.988)	deleterious(0.02)	deleterious(0.821)	HMMSmart_SM00219,HMMSmart_SM00220,superfamily_Protein kinase-like (PK-like),PatternScan_PROTEIN_KINASE_ATP,HMMPfam_Pkinase
MYLK	4638	genome.wustl.edu	37	3	123419105	123419105	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_053025.3	-1	reviewed	p.D1070	0.003	323	0%	222	19.4%	17	0%	-	-	-	NULL
MYLK	4638	genome.wustl.edu	37	3	123451945	123451945	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_053025.3	-1	reviewed	p.S438	1.000	58	0%	23	21.7%	0	-	-	-	-	HMMSmart_SM00408,HMMSmart_SM00409,HMMPfam_I-set,superfamily_Immunoglobulin
CCDC14	64770	genome.wustl.edu	37	3	123633887	123633887	+	Silent	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_022757.4	-1	validated	p.I826	1.000	187	0%	37	21.6%	37	45.9%	-	-	-	NULL
ROPN1	54763	genome.wustl.edu	37	3	123695803	123695803	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_017578.2	-1	provisional	p.E48K	1.000	347	0%	148	24.3%	0	-	benign(0.139)	deleterious(0.02)	neutral(0.395)	HMMPfam_RIIa,superfamily_Dimerization-anchoring domain of cAMP-dependent type II PK regulatory subunit
KALRN	8997	genome.wustl.edu	37	3	123987731	123987731	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001024660.3	+1	reviewed	p.V198M	0.936	75	1.3%	43	30.2%	2	0%	benign(0)	tolerated(0.13)	neutral(0.253)	HMMPfam_Spectrin,HMMSmart_SM00150
KALRN	8997	genome.wustl.edu	37	3	124103696	124103696	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001024660.3	+1	reviewed	p.T590M	1.000	55	0%	81	12.3%	2	50%	probably_damaging(1)	deleterious(0)	deleterious(0.945)	HMMPfam_Spectrin,HMMSmart_SM00150,superfamily_Spectrin repeat
KALRN	8997	genome.wustl.edu	37	3	124132335	124132335	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001024660.3	+1	reviewed	p.A787T	1.000	70	0%	19	26.3%	1	0%	benign(0.018)	tolerated(0.8)	neutral(0.001)	NULL
KALRN	8997	genome.wustl.edu	37	3	124351416	124351416	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001024660.3	+1	reviewed	p.R1776C	1.000	99	0%	34	35.3%	3	0%	probably_damaging(1)	deleterious(0)	deleterious(0.945)	NULL
KALRN	8997	genome.wustl.edu	37	3	124438132	124438132	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001024660.3	+1	reviewed	p.R2926W	1.000	45	0%	28	14.3%	0	-	probably_damaging(1)	deleterious(0)	deleterious(0.945)	HMMSmart_SM00219,HMMSmart_SM00220,superfamily_Protein kinase-like (PK-like),HMMPfam_Pkinase
UMPS	7372	genome.wustl.edu	37	3	124456509	124456509	+	Silent	SNP	T	T	G	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_000373.3	+1	reviewed	p.T135	0.987	294	0%	275	20.7%	11	0%	-	-	-	HMMPfam_Pribosyltran,superfamily_PRTase-like
UMPS	7372	genome.wustl.edu	37	3	124462839	124462839	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_000373.3	+1	reviewed	p.R451C	1.000	321	0%	306	28.1%	24	25%	probably_damaging(1)	deleterious(0.01)	deleterious(0.905)	HMMPfam_OMPdecase,superfamily_Ribulose-phoshate binding barrel
ITGB5	3693	genome.wustl.edu	37	3	124578153	124578153	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_002213.3	-1	provisional	p.S99	0.894	72	1.4%	25	20%	24	4.1%	-	-	-	HMMPfam_Integrin_beta,HMMSmart_INB
ITGB5	3693	genome.wustl.edu	37	3	124592337	124592337	+	Nonsense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_002213.3	-1	provisional	p.E38*	1.000	600	0%	271	13.3%	7	0%	-	-	-	HMMPfam_Integrin_beta,HMMSmart_INB,HMMSmart_PSI
MUC13	56667	genome.wustl.edu	37	3	124627007	124627007	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_033049.2	-1	validated	p.R508L	0.000	193	0%	62	25.8%	0	-	probably_damaging(0.985)	deleterious(0.02)	deleterious(0.815)	NULL
MUC13	56667	genome.wustl.edu	37	3	124632438	124632438	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_033049.2	-1	validated	p.R351M	0.090	105	0%	40	22.5%	0	-	probably_damaging(1)	tolerated(0.1)	deleterious(0.786)	HMMSmart_SM00181
HEG1	57493	genome.wustl.edu	37	3	124731598	124731598	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_020733.1	-1	validated	p.R942H	0.000	408	0%	212	32.5%	2	0%	benign(0)	tolerated(0.23)	neutral(0.042)	NULL
HEG1	57493	genome.wustl.edu	37	3	124738306	124738306	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_020733.1	-1	validated	p.S463N	0.001	137	0%	51	17.6%	0	-	possibly_damaging(0.494)	tolerated(0.06)	deleterious(0.487)	NULL
ZNF148	7707	genome.wustl.edu	37	3	124952147	124952147	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_021964.2	-1	validated	p.R475W	1.000	210	0%	45	11.1%	0	-	probably_damaging(1)	deleterious(0)	deleterious(0.945)	NULL
SNX4	8723	genome.wustl.edu	37	3	125176128	125176128	+	Silent	SNP	A	A	G	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_003794.2	-1	reviewed	p.C342	0.988	293	0%	102	24.5%	11	18.1%	-	-	-	NULL
OSBPL11	114885	genome.wustl.edu	37	3	125250857	125250857	+	Nonsense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_022776.4	-1	reviewed	p.R676*	1.000	359	0.3%	198	11.6%	2	0%	-	-	-	HMMPfam_Oxysterol_BP
OSBPL11	114885	genome.wustl.edu	37	3	125313546	125313546	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_022776.4	-1	reviewed	p.S33	0.970	173	0%	256	13.7%	1	0%	-	-	-	NULL
ALDH1L1	10840	genome.wustl.edu	37	3	125854467	125854467	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_012190.2	-1	reviewed	p.V461	0.261	160	0%	101	22.8%	2	0%	-	-	-	HMMPfam_Aldedh,superfamily_Aldehyde_DH/Histidinol_DH
ALDH1L1	10840	genome.wustl.edu	37	3	125865696	125865696	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_012190.2	-1	reviewed	p.A353V	0.991	80	0%	45	11.1%	0	-	possibly_damaging(0.484)	deleterious(0)	deleterious(0.605)	superfamily_ACP_like
CCDC37	348807	genome.wustl.edu	37	3	126135316	126135316	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_182628.2	+1	validated	p.R128H	0.000	9	0.000	19	0.211	0	-	benign(0.047)	tolerated(0.18)	neutral(0.059)	NULL
CCDC37	348807	genome.wustl.edu	37	3	126154468	126154468	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_182628.2	+1	validated	p.A565	0.835	48	0%	67	14.9%	0	-	-	-	-	NULL
ZXDC	79364	genome.wustl.edu	37	3	126189753	126189753	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_025112.4	-1	validated	p.E419K	0.937	214	0.5%	295	24.1%	4	0%	benign(0.007)	tolerated(0.91)	-	HMMSmart_SM00355,superfamily_C2H2 and C2HC zinc fingers
UROC1	131669	genome.wustl.edu	37	3	126218197	126218197	+	Silent	SNP	A	A	G	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_144639.2	-1	reviewed	p.Y433	0.330	16	0%	23	26.1%	0	-	-	-	-	HMMPfam_Urocanase,superfamily_Urocanase
UROC1	131669	genome.wustl.edu	37	3	126219597	126219597	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_144639.2	-1	reviewed	p.T362	0.023	71	0%	54	22.2%	0	-	-	-	-	HMMPfam_Urocanase,superfamily_Urocanase
UROC1	131669	genome.wustl.edu	37	3	126229551	126229551	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_144639.2	-1	reviewed	p.Y71	0.962	87	0%	91	23.1%	0	-	-	-	-	NULL
C3orf22	152065	genome.wustl.edu	37	3	126268860	126268860	+	Missense_Mutation	SNP	A	A	C	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_152533.1	-1	predicted	p.S93A	0.000	170	0%	221	28.5%	0	-	benign(0.094)	tolerated(0.24)	neutral(0.044)	NULL
PLXNA1	5361	genome.wustl.edu	37	3	126710379	126710379	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_032242.3	+1	validated	p.F426	0.885	8	0.000	27	0.222	0	-	-	-	-	HMMPfam_Sema,HMMSmart_SM00630,superfamily_Sema domain
PLXNA1	5361	genome.wustl.edu	37	3	126733390	126733390	+	Nonsense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_032242.3	+1	validated	p.R869*	1.000	53	0%	83	21.7%	0	-	-	-	-	HMMPfam_TIG,HMMSmart_SM00429,superfamily_E set domains
PLXNA1	5361	genome.wustl.edu	37	3	126733575	126733575	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_032242.3	+1	validated	p.D903	0.860	20	0%	54	29.6%	1	0%	-	-	-	HMMPfam_TIG,HMMSmart_SM00429,superfamily_E set domains
PLXNA1	5361	genome.wustl.edu	37	3	126736332	126736332	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_032242.3	+1	validated	p.R1091H	1.000	38	0%	95	14.7%	4	75%	benign(0.071)	tolerated(0.14)	neutral(0.255)	HMMPfam_TIG,HMMSmart_SM00429,superfamily_E set domains
C3orf56	285311	genome.wustl.edu	37	3	126916433	126916434	+	RNA	INS	-	-	TTC	rs10623171	byCluster	TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	-	-					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	XR_078289.1	+1	model	NULL	0.043:0.029	-	-	-	-	-	-	-	-	-	-
MCM2	4171	genome.wustl.edu	37	3	127318295	127318295	+	Silent	SNP	A	A	G	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_004526.2	+1	reviewed	p.P47	0.733	140	0%	192	16.7%	0	-	-	-	-	NULL
ABTB1	80325	genome.wustl.edu	37	3	127395254	127395254	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_172027.2	+1	reviewed	p.V154M	0.963	157	0%	290	10.7%	17	5.8%	probably_damaging(0.971)	deleterious(0.01)	deleterious(0.819)	HMMSmart_SM00225,superfamily_POZ domain,HMMPfam_BTB
MGLL	11343	genome.wustl.edu	37	3	127429498	127429498	+	Nonsense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	ENST00000496306	-1	known	p.R70*	0.886	142	0%	70	11.4%	6	0%	possibly_damaging(0.745)	tolerated(0.06)	deleterious(0.596)	superfamily_alpha/beta-Hydrolases
KBTBD12	166348	genome.wustl.edu	37	3	127646812	127646812	+	Missense_Mutation	SNP	T	T	G	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_207335.2	+1	validated	p.L426V	0.004	225	0%	88	11.4%	0	-	probably_damaging(0.999)	tolerated(0.5)	deleterious(0.500)	HMMPfam_Kelch_1,HMMSmart_SM00612,superfamily_Galactose oxidase central domain
SEC61A1	29927	genome.wustl.edu	37	3	127775570	127775570	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_013336.3	+1	reviewed	p.G80E	1.000	170	0%	187	24.6%	9	0%	probably_damaging(1)	deleterious(0)	deleterious(0.945)	HMMPfam_SecY,PatternScan_SECY_1,superfamily_Preprotein translocase SecY subunit
EEFSEC	60678	genome.wustl.edu	37	3	127983488	127983488	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_021937.3	+1	validated	p.T217M	0.014	148	0%	92	29.3%	9	11.1%	possibly_damaging(0.732)	tolerated(0.1)	deleterious(0.554)	superfamily_Translation proteins,superfamily_P-loop containing nucleoside triphosphate hydrolases
GATA2	2624	genome.wustl.edu	37	3	128204594	128204594	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001145661.1	-1	reviewed	p.R283C	1.000	127	0%	169	25.4%	9	0%	probably_damaging(0.999)	deleterious(0)	deleterious(0.935)	NULL
ACAD9	28976	genome.wustl.edu	37	3	128627081	128627081	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_014049.4	+1	reviewed	p.A444	0.029	73	0%	96	25%	21	14.2%	-	-	-	superfamily_AcylCoADH_C_like
RAB43	339122	genome.wustl.edu	37	3	128810155	128810155	+	Silent	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_198490.1	-1	validated	p.V141	0.086	51	0%	65	23.1%	9	22.2%	-	-	-	HMMSmart_SM00176,HMMSmart_SM00173,HMMSmart_SM00174,HMMSmart_SM00175,HMMPfam_Ras,superfamily_P-loop containing nucleoside triphosphate hydrolases
SNORA7B	677797	genome.wustl.edu	37	3	129116060	129116060	+	RNA	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NR_002992.2	-1	provisional	NULL	0.979	60	0%	24	29.2%	0	-	-	-	-	-
C3orf25	90288	genome.wustl.edu	37	3	129120603	129120603	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	ENST00000326085	-1	known	p.L518M	0.990	323	0%	170	11.8%	0	-	probably_damaging(1)	deleterious(0)	deleterious(0.945)	NULL
C3orf25	90288	genome.wustl.edu	37	3	129123188	129123188	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	ENST00000326085	-1	known	p.R436	0.999	98	0%	60	26.7%	0	-	-	-	-	NULL
C3orf25	90288	genome.wustl.edu	37	3	129140524	129140524	+	Nonsense_Mutation	SNP	G	G	A	rs61752596	byFrequency	TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	ENST00000326085	-1	known	p.R58*	0.773	172	0%	117	27.4%	1	0%	-	-	-	NULL
MBD4	8930	genome.wustl.edu	37	3	129156651	129156651	+	Nonsense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	ENST00000393278	-1	known	p.Q83*	0.006	556	0.2%	674	25.4%	7	14.2%	-	-	-	NULL
IFT122	55764	genome.wustl.edu	37	3	129207046	129207046	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	ENST00000446384	+1	known	p.L5I	0.000	118	0%	60	13.3%	0	-	-	-	-	NULL
RHO	6010	genome.wustl.edu	37	3	129249825	129249825	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	ENST00000511172	+1	known	p.R99C	0.791	99	0%	107	26.2%	0	-	-	-	-	HMMPfam_7tm_1,superfamily_Family A G protein-coupled receptor-like
RHO	6010	genome.wustl.edu	37	3	129251136	129251136	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_000539.3	+1	reviewed	p.Y191	1.000	282	0%	261	22.2%	0	-	-	-	-	HMMPfam_7tm_1,superfamily_SSF81321
PLXND1	23129	genome.wustl.edu	37	3	129290410	129290410	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_015103.2	-1	validated	p.R1093H	0.057	12	0%	50	24%	5	0%	probably_damaging(0.996)	deleterious(0.05)	deleterious(0.807)	HMMPfam_TIG,HMMSmart_SM00429,superfamily_E set domains
PLXND1	23129	genome.wustl.edu	37	3	129291781	129291781	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_015103.2	-1	validated	p.I947	0.678	26	0%	63	14.3%	0	-	-	-	-	HMMPfam_TIG,HMMSmart_SM00429,superfamily_E set domains
TRH	7200	genome.wustl.edu	37	3	129695582	129695582	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_007117.2	+1	validated	p.Q84	1.000	120	0%	198	14.1%	0	-	-	-	-	HMMPfam_TRH
ALG1L2	644974	genome.wustl.edu	37	3	129811973	129811973	+	Missense_Mutation	SNP	A	A	C	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001136152.1	+1	validated	p.N95H	0.139	312	0.3%	291	28.2%	0	-	-	-	-	NULL
ALG1L2	644974	genome.wustl.edu	37	3	129816050	129816050	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001136152.1	+1	validated	p.R191H	1.000	299	0%	285	26%	0	-	-	-	-	HMMPfam_Glycos_transf_1
COL6A5	256076	genome.wustl.edu	37	3	130107816	130107816	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_153264.5	+1	validated	p.R752Q	0.972	192	0%	42	21.4%	0	-	probably_damaging(1)	-	-	HMMPfam_VWA,HMMSmart_VWA,superfamily_SSF53300
COL6A6	131873	genome.wustl.edu	37	3	130282296	130282296	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001102608.1	+1	provisional	p.A150V	0.897	118	0%	89	25.8%	0	-	probably_damaging(0.992)	-	-	HMMPfam_VWA,HMMSmart_SM00327,superfamily_vWA-like
COL6A6	131873	genome.wustl.edu	37	3	130293213	130293213	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001102608.1	+1	provisional	p.D1131N	0.471	67	1.5%	28	35.7%	0	-	benign(0.001)	-	-	HMMPfam_VWA,HMMSmart_SM00327,superfamily_vWA-like
COL6A6	131873	genome.wustl.edu	37	3	130368271	130368271	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001102608.1	+1	provisional	p.I1866	0.895	42	0%	25	16%	0	-	-	-	-	HMMSmart_SM00327,superfamily_vWA-like
PIK3R4	30849	genome.wustl.edu	37	3	130454820	130454820	+	Nonsense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_014602.2	-1	validated	p.E254*	1.000	336	0%	145	15.2%	0	-	-	-	-	HMMPfam_Pkinase_Tyr,superfamily_Kinase_like
PIK3R4	30849	genome.wustl.edu	37	3	130463817	130463817	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_014602.2	-1	validated	p.Q82H	1.000	301	0%	125	12%	0	-	benign(0.003)	tolerated(0.22)	neutral(0.042)	HMMPfam_Pkinase_Tyr,superfamily_Kinase_like
ATP2C1	27032	genome.wustl.edu	37	3	130712870	130712870	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001001486.1	+1	reviewed	p.G662D	1.000	336	0%	69	21.7%	14	21.4%	probably_damaging(1)	deleterious(0)	deleterious(0.945)	HMMPfam_Hydrolase,superfamily_HAD-like,superfamily_Calcium ATPase transmembrane domain M
ASTE1	28990	genome.wustl.edu	37	3	130737348	130737348	+	Splice_Site	SNP	A	A	G	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_014065.2	-1	validated	e2+2	1.000	318	0%	162	13.6%	0	-	-	-	-	-
ASTE1	28990	genome.wustl.edu	37	3	130743868	130743868	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_014065.2	-1	validated	p.R95G	0.013	460	0%	536	26.9%	1	0%	probably_damaging(1)	deleterious(0)	deleterious(0.945)	HMMPfam_XPG_N,superfamily_SSF88723
NEK11	79858	genome.wustl.edu	37	3	130884308	130884308	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_024800.4	+1	reviewed	p.R374Q	0.538	389	0%	183	25.7%	2	0%	probably_damaging(1)	tolerated(0.07)	deleterious(0.819)	NULL
CPNE4	131034	genome.wustl.edu	37	3	131388530	131388530	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_130808.1	-1	reviewed	p.R224C	1.000	196	0%	51	15.7%	0	-	probably_damaging(1)	deleterious(0)	deleterious(0.945)	HMMPfam_C2,HMMSmart_SM00239,superfamily_C2 domain (Calcium/lipid-binding domain CaLB)
CPNE4	131034	genome.wustl.edu	37	3	131415403	131415403	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_130808.1	-1	reviewed	p.R164W	0.998	275	0%	60	21.7%	0	-	possibly_damaging(0.793)	deleterious(0.01)	deleterious(0.704)	HMMPfam_C2,HMMSmart_SM00239,superfamily_C2 domain (Calcium/lipid-binding domain CaLB)
DNAJC13	23317	genome.wustl.edu	37	3	132209855	132209855	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_015268.3	+1	validated	p.E1195K	1.000	145	0%	28	32.1%	1	0%	probably_damaging(0.999)	deleterious(0.01)	deleterious(0.896)	superfamily_ARM repeat
DNAJC13	23317	genome.wustl.edu	37	3	132215426	132215426	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_015268.3	+1	validated	p.K1359E	1.000	304	0%	65	21.5%	1	0%	benign(0)	tolerated(0.61)	neutral(0.004)	HMMPfam_DnaJ,superfamily_ARM repeat
ACAD11	84129	genome.wustl.edu	37	3	132347272	132347272	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_032169.4	-1	validated	p.L328I	1.000	257	0%	73	23.3%	1	0%	benign(0.255)	tolerated(0.09)	neutral(0.323)	superfamily_Protein kinase-like (PK-like)
TF	7018	genome.wustl.edu	37	3	133478170	133478170	+	Silent	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001063.3	+1	reviewed	p.I400	0.013	203	0%	117	17.1%	0	-	-	-	-	HMMPfam_Transferrin,HMMSmart_SM00094,superfamily_Periplasmic binding protein-like II
TF	7018	genome.wustl.edu	37	3	133495892	133495892	+	Splice_Site	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001063.3	+1	reviewed	e16-1	0.982	223	0%	235	10.6%	0	-	-	-	-	-
RYK	6259	genome.wustl.edu	37	3	133878114	133878114	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	ENST00000296084	-1	known	p.R561Q	1.000	198	0%	77	24.7%	20	10%	probably_damaging(1)	deleterious(0)	deleterious(0.945)	HMMPfam_Pkinase_Tyr,HMMSmart_SM00219,HMMSmart_SM00220,superfamily_Protein kinase-like (PK-like)
AMOTL2	51421	genome.wustl.edu	37	3	134077396	134077396	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_016201.2	-1	reviewed	p.R757I	0.630	31	0%	60	23.3%	11	18.1%	probably_damaging(0.983)	deleterious(0)	deleterious(0.873)	NULL
KY	339855	genome.wustl.edu	37	3	134322882	134322882	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_178554.4	-1	validated	p.R509W	0.985	80	0%	71	14.1%	0	-	probably_damaging(1)	deleterious(0.01)	deleterious(0.905)	NULL
KY	339855	genome.wustl.edu	37	3	134366283	134366283	+	Missense_Mutation	SNP	A	A	C	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_178554.4	-1	validated	p.F65V	0.001	411	0%	511	25.6%	0	-	benign(0)	tolerated(0.35)	neutral(0.021)	NULL
EPHB1	2047	genome.wustl.edu	37	3	134670598	134670598	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_004441.4	+1	reviewed	p.R170Q	1.000	490	0%	144	20.8%	0	-	benign(0.201)	tolerated(0.15)	neutral(0.260)	HMMPfam_Ephrin_lbd,HMMSmart_SM00615,superfamily_Galactose-binding domain-like
EPHB1	2047	genome.wustl.edu	37	3	134670789	134670789	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_004441.4	+1	reviewed	p.V234M	1.000	170	0%	44	9.1%	0	-	benign(0.088)	tolerated(0.1)	neutral(0.293)	NULL
EPHB1	2047	genome.wustl.edu	37	3	134851843	134851843	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_004441.4	+1	reviewed	p.P417T	1.000	39	0%	27	14.8%	0	-	probably_damaging(1)	tolerated(0.13)	deleterious(0.752)	superfamily_Fibronectin type III
EPHB1	2047	genome.wustl.edu	37	3	134920468	134920468	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_004441.4	+1	reviewed	p.S761	0.001	226	0%	76	26.3%	0	-	-	-	-	HMMPfam_Pkinase_Tyr,HMMSmart_SM00219,HMMSmart_SM00220,superfamily_Protein kinase-like (PK-like)
EPHB1	2047	genome.wustl.edu	37	3	134977855	134977855	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_004441.4	+1	reviewed	p.D950N	1.000	153	0%	46	26.1%	0	-	probably_damaging(0.999)	deleterious(0)	deleterious(0.935)	HMMPfam_SAM_1,HMMSmart_SM00454,superfamily_SAM/Pointed domain
PPP2R3A	5523	genome.wustl.edu	37	3	135745886	135745886	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_002718.3	+1	reviewed	p.F736L	0.999	144	0%	31	22.6%	3	66.6%	probably_damaging(1)	tolerated(0.06)	deleterious(0.823)	superfamily_EF-hand
MSL2	55167	genome.wustl.edu	37	3	135871401	135871401	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_018133.3	-1	validated	p.E108K	1.000	543	0%	196	16.3%	3	0%	probably_damaging(0.981)	tolerated(0.21)	deleterious(0.469)	NULL
PCCB	5096	genome.wustl.edu	37	3	135979125	135979125	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	ENST00000468777	+1	known	p.S131	0.006	34	0%	26	19.2%	1	0%	-	-	-	HMMPfam_Carboxyl_trans
PCCB	5096	genome.wustl.edu	37	3	135980900	135980900	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_000532.4	+1	reviewed	p.I179T	1.000	176	0%	83	19.3%	9	11.1%	probably_damaging(0.989)	deleterious(0)	deleterious(0.884)	HMMPfam_Carboxyl_trans,superfamily_SSF52096
STAG1	10274	genome.wustl.edu	37	3	136088110	136088110	+	Silent	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_005862.2	-1	reviewed	p.L795	1.000	211	0%	61	9.8%	1	100%	-	-	-	superfamily_ARM-type_fold
SLC35G2	80723	genome.wustl.edu	37	3	136573405	136573405	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001097599.1	+1	validated	p.D35N	1.000	131	0%	137	27.7%	0	-	benign(0.351)	deleterious(0.01)	deleterious(0.517)	NULL
SLC35G2	80723	genome.wustl.edu	37	3	136574129	136574129	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001097599.1	+1	validated	p.R276I	1.000	496	0%	377	24.9%	3	0%	probably_damaging(1)	deleterious(0)	deleterious(0.945)	HMMPfam_DUF6
IL20RB	53833	genome.wustl.edu	37	3	136699347	136699347	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_144717.2	+1	validated	p.V43A	0.961	422	0.2%	411	24.8%	1	0%	probably_damaging(0.979)	deleterious(0.04)	deleterious(0.771)	HMMPfam_fn3,superfamily_Fibronectin type III
IL20RB	53833	genome.wustl.edu	37	3	136701124	136701124	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_144717.2	+1	validated	p.V113A	0.997	90	0%	83	19.3%	0	-	probably_damaging(0.996)	deleterious(0.01)	deleterious(0.867)	HMMPfam_fn3,superfamily_Fibronectin type III
DZIP1L	199221	genome.wustl.edu	37	3	137822608	137822608	+	Missense_Mutation	SNP	C	C	T	rs182819610	by1000genomes	TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_173543.2	-1	validated	p.R69Q	0.000	19	0%	34	23.5%	1	0%	benign(0.025)	tolerated(0.23)	neutral(0.043)	NULL
A4GNT	51146	genome.wustl.edu	37	3	137843624	137843624	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_016161.2	-1	reviewed	p.D169N	0.977	95	0%	111	20.7%	0	-	probably_damaging(1)	deleterious(0)	deleterious(0.945)	HMMPfam_Gly_transf_sug
ESYT3	83850	genome.wustl.edu	37	3	138183258	138183258	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_031913.3	+1	validated	p.G329	1.000	114	0%	59	16.9%	0	-	-	-	-	HMMPfam_C2,HMMSmart_SM00239,superfamily_C2 domain (Calcium/lipid-binding domain CaLB)
PRR23B	389151	genome.wustl.edu	37	3	138739247	138739247	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001013650.2	-1	validated	p.S86L	0.001	25	0%	32	18.8%	1	0%	possibly_damaging(0.832)	deleterious(0)	deleterious(0.762)	HMMPfam_DUF2476
PRR23C	389152	genome.wustl.edu	37	3	138763172	138763172	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001134657.1	-1	validated	p.L97	0.006	22	0%	41	17.1%	0	-	-	-	-	HMMPfam_DUF2476
MRPS22	56945	genome.wustl.edu	37	3	139065745	139065745	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	ENST00000466690	+1	known	p.E62K	0.841	131	0%	51	17.6%	24	8.3%	-	-	-	NULL
COPB2	9276	genome.wustl.edu	37	3	139090575	139090575	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_004766.2	-1	validated	p.D399N	1.000	339	0%	105	16.2%	15	20%	benign(0.101)	tolerated(0.22)	neutral(0.050)	HMMPfam_Coatomer_WDAD,superfamily_Amine_DH_B_like
COPB2	9276	genome.wustl.edu	37	3	139102214	139102214	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_004766.2	-1	validated	p.L23	1.000	408	0%	234	15.4%	7	28.5%	-	-	-	HMMSmart_WD40,superfamily_WD40_like,HMMPfam_WD40
CLSTN2	64084	genome.wustl.edu	37	3	140185523	140185523	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_022131.2	+1	validated	p.D432N	1.000	94	0%	22	40.9%	0	-	benign(0.221)	tolerated(0.52)	neutral(0.030)	superfamily_Concanavalin A-like lectins/glucanases
RASA2	5922	genome.wustl.edu	37	3	141299275	141299275	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_006506.2	+1	reviewed	p.G552	0.155	245	0%	68	29.4%	1	0%	-	-	-	HMMSmart_RasGAP,superfamily_Rho_GAP
GK5	256356	genome.wustl.edu	37	3	141891223	141891223	+	Nonsense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001039547.2	-1	validated	p.R407*	0.997	292	0%	127	15.7%	1	100%	-	-	-	PatternScan_FGGY_KINASES_2,HMMPfam_FGGY_C,superfamily_Actin-like ATPase domain
XRN1	54464	genome.wustl.edu	37	3	142137372	142137372	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_019001.3	-1	validated	p.T440	0.956	443	0%	172	12.8%	2	50%	-	-	-	NULL
ATR	545	genome.wustl.edu	37	3	142186842	142186842	+	Silent	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	ENST00000513291	-1	known	p.L54I	0.525	445	0.2%	90	24.4%	1	0%	-	-	-	NULL
ATR	545	genome.wustl.edu	37	3	142217505	142217505	+	Missense_Mutation	SNP	A	A	C	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001184.3	-1	reviewed	p.I1831S	1.000	297	0%	55	16.4%	0	-	benign(0.015)	tolerated(0.05)	neutral(0.346)	HMMPfam_FAT,superfamily_ARM repeat,superfamily_TPR-like
ATR	545	genome.wustl.edu	37	3	142241618	142241618	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001184.3	-1	reviewed	p.A1406	0.875	242	0%	55	10.9%	1	0%	-	-	-	superfamily_ARM repeat
ATR	545	genome.wustl.edu	37	3	142257364	142257364	+	Nonsense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001184.3	-1	reviewed	p.E1229*	1.000	364	0%	75	26.7%	0	-	-	-	-	superfamily_ARM repeat
ATR	545	genome.wustl.edu	37	3	142281351	142281351	+	Missense_Mutation	SNP	A	A	C	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001184.3	-1	reviewed	p.L298R	0.996	179	0%	145	13.1%	0	-	unknown(0)	deleterious(0)	-	superfamily_ARM repeat
PLS1	5357	genome.wustl.edu	37	3	142389877	142389877	+	Nonsense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001145319.1	+1	reviewed	p.R93*	1.000	356	0%	97	26.8%	1	100%	-	-	-	superfamily_SSF47473
PAQR9	344838	genome.wustl.edu	37	3	142681066	142681066	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	ENST00000492509	-1	known	p.R112*	0.021	75	0%	114	28.1%	0	-	-	-	-	NULL
PAQR9	344838	genome.wustl.edu	37	3	142681741	142681741	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_198504.2	-1	validated	p.S146	0.999	21	0%	39	20.5%	0	-	-	-	-	HMMPfam_HlyIII
U2SURP	23350	genome.wustl.edu	37	3	142729659	142729659	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001080415.1	+1	provisional	p.T16	1.000	502	0%	137	24.8%	0	-	-	-	-	NULL
U2SURP	23350	genome.wustl.edu	37	3	142769797	142769797	+	Missense_Mutation	SNP	T	T	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001080415.1	+1	provisional	p.F854Y	1.000	253	0%	247	22.7%	30	10%	benign(0.003)	tolerated(1)	-	NULL
SLC9A9	285195	genome.wustl.edu	37	3	142987786	142987786	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_173653.3	-1	reviewed	p.P547	0.079	365	0%	119	31.9%	0	-	-	-	-	NULL
PLOD2	5352	genome.wustl.edu	37	3	145804669	145804669	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_182943.2	-1	reviewed	p.K344N	0.995	328	0%	153	20.3%	4	25%	benign(0.008)	tolerated(0.39)	neutral(0.016)	NULL
PLSCR4	57088	genome.wustl.edu	37	3	145917718	145917718	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_020353.2	-1	validated	p.R169Q	0.824	168	0.6%	67	28.4%	2	0%	possibly_damaging(0.781)	deleterious(0.01)	deleterious(0.698)	HMMPfam_Scramblase
PLSCR2	57047	genome.wustl.edu	37	3	146167088	146167088	+	Nonsense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_020359.1	-1	provisional	p.E184*	0.685	371	0.3%	133	9.8%	0	-	-	-	-	HMMPfam_Scramblase
CPA3	1359	genome.wustl.edu	37	3	148601549	148601549	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001870.2	+1	reviewed	p.L310	0.998	116	0%	36	16.7%	5	0%	-	-	-	HMMPfam_Peptidase_M14,HMMSmart_SM00631,PatternScan_CARBOXYPEPT_ZN_2,superfamily_Zn-dependent exopeptidases
GYG1	2992	genome.wustl.edu	37	3	148714612	148714612	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_004130.3	+1	validated	p.S134	0.033	207	0%	261	23%	19	10.5%	-	-	-	HMMPfam_Glyco_transf_8,superfamily_Nucleotide-diphospho-sugar transferases
HLTF	6596	genome.wustl.edu	37	3	148778579	148778579	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_003071.3	-1	reviewed	p.P409	0.967	351	0.6%	192	20.8%	1	0%	-	-	-	HMMPfam_SNF2_N,HMMSmart_SM00487,superfamily_P-loop containing nucleoside triphosphate hydrolases
CP	1356	genome.wustl.edu	37	3	148901256	148901256	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_000096.3	-1	reviewed	p.L808I	1.000	274	0%	89	19.1%	5	60%	probably_damaging(0.99)	deleterious(0.01)	deleterious(0.847)	superfamily_Cupredoxins,HMMPfam_Cu-oxidase_3
CP	1356	genome.wustl.edu	37	3	148903118	148903118	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_000096.3	-1	reviewed	p.E731D	0.180	334	0%	97	23.7%	2	0%	benign(0.224)	tolerated(0.56)	neutral(0.028)	superfamily_Cupredoxins
TM4SF1	4071	genome.wustl.edu	37	3	149095249	149095249	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_014220.2	-1	reviewed	p.Y29C	0.997	153	0%	166	22.3%	56	19.6%	probably_damaging(0.999)	deleterious(0)	deleterious(0.935)	HMMPfam_L6_membrane
COMMD2	51122	genome.wustl.edu	37	3	149469113	149469113	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	ENST00000483708	-1	known	p.G102D	0.000	140	0%	246	26%	0	-	benign(0.024)	tolerated(0.7)	neutral(0.003)	NULL
ANKUB1	389161	genome.wustl.edu	37	3	149485274	149485274	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001144960.1	-1	predicted	p.P392H	0.001	375	0%	172	10.5%	0	-	possibly_damaging(0.734)	deleterious(0)	deleterious(0.713)	NULL
ANKUB1	389161	genome.wustl.edu	37	3	149510116	149510116	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001144960.1	-1	predicted	p.P13L	0.951	184	1.1%	41	34.1%	0	-	benign(0.013)	tolerated(0.12)	neutral(0.261)	superfamily_Ubiquitin-like
RNF13	11342	genome.wustl.edu	37	3	149678834	149678834	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	ENST00000468289	+1	known	p.R165C	0.966	264	0%	150	29.3%	6	0%	-	-	-	NULL
TSC22D2	9819	genome.wustl.edu	37	3	150128509	150128509	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_014779.2	+1	provisional	p.P458S	0.238	13	0%	16	31.2%	2	0%	benign(0.079)	tolerated(0.09)	neutral(0.302)	NULL
SIAH2	6478	genome.wustl.edu	37	3	150480234	150480234	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_005067.5	-1	reviewed	p.L135M	1.000	18	0%	41	22%	18	11.1%	benign(0)	tolerated(0.17)	neutral(0.059)	superfamily_Traf_like,HMMPfam_Sina,superfamily_SSF57850
GPR171	29909	genome.wustl.edu	37	3	150916839	150916839	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_013308.3	-1	validated	p.R112H	1.000	123	0%	36	22.2%	0	-	probably_damaging(1)	deleterious(0)	deleterious(0.945)	HMMPfam_7tm_1,PatternScan_G_PROTEIN_RECEP_F1_1,superfamily_SSF81321
MED12L	116931	genome.wustl.edu	37	3	151100490	151100490	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_053002.4	+1	reviewed	p.A1511V	1.000	185	0%	58	19%	0	-	benign(0.097)	tolerated(0.1)	neutral(0.294)	NULL
MED12L	116931	genome.wustl.edu	37	3	151107912	151107912	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_053002.4	+1	reviewed	p.S1831Y	0.660	169	0%	43	30.2%	0	-	possibly_damaging(0.509)	deleterious(0.01)	deleterious(0.576)	NULL
IGSF10	285313	genome.wustl.edu	37	3	151155184	151155184	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_178822.4	-1	validated	p.L2389M	0.007	318	0.9%	104	25%	0	-	benign(0.013)	tolerated(0.15)	neutral(0.241)	HMMSmart_SM00408,HMMSmart_SM00409,HMMPfam_I-set,superfamily_Immunoglobulin
IGSF10	285313	genome.wustl.edu	37	3	151160964	151160964	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_178822.4	-1	validated	p.G1924D	1.000	201	0%	54	27.8%	0	-	probably_damaging(1)	deleterious(0.04)	deleterious(0.849)	HMMSmart_SM00408,HMMSmart_SM00409,HMMPfam_I-set,superfamily_Immunoglobulin
IGSF10	285313	genome.wustl.edu	37	3	151164278	151164278	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_178822.4	-1	validated	p.R1164H	0.000	399	0%	183	23%	0	-	possibly_damaging(0.544)	deleterious(0)	deleterious(0.629)	NULL
IGSF10	285313	genome.wustl.edu	37	3	151165908	151165908	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_178822.4	-1	validated	p.D621Y	0.980	435	0%	160	13.8%	0	-	probably_damaging(0.958)	deleterious(0.04)	deleterious(0.750)	HMMSmart_SM00406,HMMSmart_SM00408,HMMSmart_SM00409,HMMPfam_I-set,superfamily_Immunoglobulin
AADACL2	344752	genome.wustl.edu	37	3	151463455	151463455	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_207365.3	+1	validated	p.A197V	0.994	134	0%	27	22.2%	0	-	probably_damaging(0.989)	deleterious(0.01)	deleterious(0.845)	HMMPfam_Abhydrolase_3,superfamily_alpha/beta-Hydrolases
ARHGEF26	26084	genome.wustl.edu	37	3	153840617	153840617	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_015595.3	+1	validated	p.R279H	1.000	86	0%	187	24.6%	0	-	probably_damaging(0.999)	tolerated(0.17)	deleterious(0.549)	NULL
ARHGEF26	26084	genome.wustl.edu	37	3	153840682	153840682	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_015595.3	+1	validated	p.D301N	0.997	117	0%	226	26.1%	0	-	probably_damaging(0.995)	deleterious(0.01)	deleterious(0.863)	NULL
ARHGEF26	26084	genome.wustl.edu	37	3	153840739	153840739	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_015595.3	+1	validated	p.A320T	1.000	117	0%	193	19.7%	0	-	probably_damaging(0.999)	deleterious(0)	deleterious(0.935)	NULL
ARHGEF26	26084	genome.wustl.edu	37	3	153958330	153958330	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_015595.3	+1	validated	p.A754	0.000	153	0%	65	16.9%	1	0%	-	-	-	HMMPfam_PH,HMMSmart_SM00233,superfamily_PH domain-like
DHX36	170506	genome.wustl.edu	37	3	154022722	154022722	+	Silent	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_020865.2	-1	validated	p.I336	0.839	160	0%	55	16.4%	1	100%	-	-	-	PatternScan_DEAH_ATP_HELICASE,HMMPfam_DEAD,HMMSmart_DEXDc,superfamily_SSF52540
GPR149	344758	genome.wustl.edu	37	3	154138833	154138833	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001038705.1	-1	provisional	p.R540C	1.000	256	0%	172	32%	0	-	probably_damaging(1)	deleterious(0)	deleterious(0.945)	NULL
GPR149	344758	genome.wustl.edu	37	3	154146478	154146478	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001038705.1	-1	provisional	p.K309	1.000	43	0%	76	25%	0	-	-	-	-	NULL
PLCH1	23007	genome.wustl.edu	37	3	155199730	155199730	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001130960.1	-1	validated	p.S1370Y	0.761	90	0%	85	24.7%	0	-	possibly_damaging(0.849)	deleterious(0.05)	deleterious(0.671)	NULL
C3orf33	285315	genome.wustl.edu	37	3	155481662	155481662	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_173657.1	-1	predicted	p.G134C	1.000	85	1.2%	33	15.2%	2	0%	probably_damaging(1)	deleterious(0)	deleterious(0.945)	superfamily_Staphylococal_nuclease_OB-fold
SLC33A1	9197	genome.wustl.edu	37	3	155571030	155571030	+	Nonsense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_004733.2	-1	reviewed	p.G253*	1.000	93	0%	143	17.5%	1	0%	-	-	-	superfamily_MFS general substrate transporter
SLC33A1	9197	genome.wustl.edu	37	3	155571223	155571223	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_004733.2	-1	reviewed	p.F188L	1.000	98	0%	162	11.1%	4	0%	possibly_damaging(0.838)	tolerated(0.15)	deleterious(0.561)	superfamily_MFS general substrate transporter
GMPS	8833	genome.wustl.edu	37	3	155629063	155629063	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_003875.2	+1	reviewed	p.V294A	1.000	252	0%	60	15%	16	0%	benign(0.128)	deleterious(0.02)	neutral(0.394)	superfamily_Adenine nucleotide alpha hydrolases-like
KCNAB1	7881	genome.wustl.edu	37	3	155861160	155861160	+	Nonsense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_003471.3	+1	reviewed	p.G65*	1.000	64	0%	15	33.3%	0	-	-	-	-	NULL
KCNAB1	7881	genome.wustl.edu	37	3	156177653	156177653	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_172160.2	+1	reviewed	p.G159C	1.000	466	0%	100	17%	0	-	benign(0.005)	deleterious(0.01)	neutral(0.406)	HMMPfam_Aldo_ket_red,superfamily_NAD(P)-linked oxidoreductase
LEKR1	389170	genome.wustl.edu	37	3	156763158	156763158	+	Missense_Mutation	SNP	A	A	C	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001004316.2	+1	validated	p.R262S	0.995	170	0%	45	20%	0	-	probably_damaging(1)	tolerated(0.19)	deleterious(0.549)	NULL
CCNL1	57018	genome.wustl.edu	37	3	156867154	156867154	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_020307.2	-1	validated	p.R385I	1.000	610	0%	312	10.9%	25	4%	benign(0.195)	deleterious(0.04)	neutral(0.367)	NULL
RSRC1	51319	genome.wustl.edu	37	3	157839924	157839924	+	Nonsense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_016625.2	+1	provisional	p.E11*	1.000	279	0%	162	14.2%	6	0%	-	-	-	NULL
GFM1	85476	genome.wustl.edu	37	3	158364642	158364642	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_024996.5	+1	reviewed	p.R160C	0.995	372	0%	420	22.9%	2	0%	probably_damaging(1)	deleterious(0)	deleterious(0.945)	HMMPfam_GTP_EFTU,superfamily_SSF52540
GFM1	85476	genome.wustl.edu	37	3	158369896	158369896	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_024996.5	+1	reviewed	p.R234Q	0.769	220	0%	114	23.7%	0	-	possibly_damaging(0.908)	tolerated(0.21)	neutral(0.405)	HMMPfam_GTP_EFTU,superfamily_SSF52540
LXN	56925	genome.wustl.edu	37	3	158390164	158390164	+	Missense_Mutation	SNP	T	T	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_020169.3	-1	reviewed	p.Q35L	0.134	179	0%	48	10.4%	22	0%	possibly_damaging(0.656)	tolerated(0.3)	neutral(0.260)	HMMPfam_Latexin
IQCJ	654502	genome.wustl.edu	37	3	158983118	158983118	+	Missense_Mutation	SNP	G	G	C	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001042705.1	+1	provisional	p.A136P	0.001	281	0%	57	22.8%	0	-	unknown(0)	tolerated(0.09)	-	NULL
IFT80	57560	genome.wustl.edu	37	3	160073854	160073854	+	Nonsense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_020800.1	-1	validated	p.E242*	1.000	286	0%	89	21.3%	1	0%	-	-	-	HMMSmart_WD40,superfamily_WD40_like,superfamily_Cyt_cd1_haem_C,HMMPfam_WD40
SMC4	10051	genome.wustl.edu	37	3	160122152	160122152	+	Missense_Mutation	SNP	T	T	G	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001002800.1	+1	validated	p.F183V	1.000	310	0%	330	25.5%	1	0%	possibly_damaging(0.945)	deleterious(0.01)	deleterious(0.795)	HMMPfam_SMC_N,superfamily_P-loop containing nucleoside triphosphate hydrolases
TRIM59	286827	genome.wustl.edu	37	3	160155873	160155873	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_173084.2	-1	validated	p.A367T	0.078	252	0%	136	20.6%	1	0%	benign(0.016)	tolerated(0.14)	neutral(0.250)	NULL
TRIM59	286827	genome.wustl.edu	37	3	160156497	160156497	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_173084.2	-1	validated	p.D159Y	0.066	297	0%	182	27.5%	0	-	possibly_damaging(0.921)	deleterious(0.02)	deleterious(0.754)	NULL
TRIM59	286827	genome.wustl.edu	37	3	160156820	160156820	+	Missense_Mutation	SNP	C	C	T	rs139273294	by1000genomes	TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_173084.2	-1	validated	p.R51Q	1.000	339	0%	161	46.6%	0	-	possibly_damaging(0.451)	tolerated(0.25)	neutral(0.184)	HMMSmart_SM00184,HMMPfam_zf-C3HC4,superfamily_RING/U-box
B3GALNT1	8706	genome.wustl.edu	37	3	160803765	160803765	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001038628.1	-1	reviewed	p.V260I	0.951	144	0%	67	16.4%	0	-	benign(0.018)	tolerated(0.6)	neutral(0.005)	HMMPfam_Galactosyl_T
SI	6476	genome.wustl.edu	37	3	164700136	164700136	+	Silent	SNP	T	T	C	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001041.3	-1	reviewed	p.G1770	0.002	563	0%	75	26.7%	0	-	-	-	-	NULL
SI	6476	genome.wustl.edu	37	3	164716420	164716420	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001041.3	-1	reviewed	p.S1483F	1.000	476	0%	93	20.4%	0	-	probably_damaging(0.998)	deleterious(0)	deleterious(0.919)	HMMPfam_Glyco_hydro_31,superfamily_(Trans)glycosidases
SI	6476	genome.wustl.edu	37	3	164724618	164724618	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001041.3	-1	reviewed	p.M1464I	0.000	249	0%	51	33.3%	0	-	benign(0.004)	tolerated(0.49)	neutral(0.011)	HMMPfam_Glyco_hydro_31,superfamily_(Trans)glycosidases
SI	6476	genome.wustl.edu	37	3	164773063	164773063	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001041.3	-1	reviewed	p.F477L	1.000	309	0%	55	10.9%	0	-	probably_damaging(0.967)	deleterious(0.01)	deleterious(0.815)	HMMPfam_Glyco_hydro_31,superfamily_(Trans)glycosidases
SI	6476	genome.wustl.edu	37	3	164777038	164777038	+	Missense_Mutation	SNP	G	G	T	rs75188774	byCluster;by1000genomes	TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001041.3	-1	reviewed	p.T399N	1.000	376	0%	65	21.5%	0	-	probably_damaging(1)	deleterious(0)	deleterious(0.945)	HMMPfam_Glyco_hydro_31,superfamily_(Trans)glycosidases
SI	6476	genome.wustl.edu	37	3	164785126	164785126	+	Splice_Site	SNP	A	A	G	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001041.3	-1	reviewed	e5+2	1.000	239	0%	46	21.7%	0	-	-	-	-	-
SI	6476	genome.wustl.edu	37	3	164786614	164786614	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001041.3	-1	reviewed	p.E127K	0.995	305	0%	58	19%	0	-	benign(0.002)	tolerated(0.9)	-	NULL
SLITRK3	22865	genome.wustl.edu	37	3	164906575	164906575	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_014926.2	-1	validated	p.R682C	0.986	92	0%	72	26.4%	0	-	probably_damaging(1)	deleterious(0)	deleterious(0.945)	NULL
SLITRK3	22865	genome.wustl.edu	37	3	164907324	164907324	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_014926.2	-1	validated	p.S432Y	1.000	159	0%	128	25.8%	0	-	probably_damaging(0.953)	deleterious(0.05)	deleterious(0.742)	superfamily_SSF52058
SLITRK3	22865	genome.wustl.edu	37	3	164907873	164907873	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_014926.2	-1	validated	p.R249H	1.000	148	0%	139	20.9%	0	-	probably_damaging(0.994)	deleterious(0.04)	deleterious(0.801)	HMMSmart_LRRCT,superfamily_SSF52058
WDR49	151790	genome.wustl.edu	37	3	167246922	167246922	+	Nonsense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	ENST00000472600	-1	known	p.R499*	0.850	330	0%	42	26.2%	0	-	possibly_damaging(0.83)	tolerated(0.14)	deleterious(0.565)	HMMSmart_SM00320,superfamily_WD40 repeat-like,HMMPfam_WD40
WDR49	151790	genome.wustl.edu	37	3	167293868	167293868	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_178824.3	-1	provisional	p.Q108H	1.000	338	0%	60	21.7%	0	-	probably_damaging(0.961)	tolerated(0.3)	neutral(0.433)	NULL
WDR49	151790	genome.wustl.edu	37	3	167322164	167322164	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_178824.3	-1	provisional	p.R10C	0.014	397	0%	79	39.2%	0	-	possibly_damaging(0.889)	tolerated(0.07)	deleterious(0.668)	HMMSmart_SM00320,superfamily_WD40 repeat-like
GOLIM4	27333	genome.wustl.edu	37	3	167762653	167762653	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_014498.3	-1	reviewed	p.R110I	1.000	243	0%	57	12.3%	4	0%	probably_damaging(1)	deleterious(0)	deleterious(0.945)	NULL
LRRIQ4	344657	genome.wustl.edu	37	3	169540079	169540079	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001080460.1	+1	provisional	p.R124W	0.934	99	0%	76	27.6%	0	-	probably_damaging(1)	tolerated(0.19)	deleterious(0.549)	superfamily_SSF52058
LRRIQ4	344657	genome.wustl.edu	37	3	169555390	169555390	+	Nonsense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001080460.1	+1	provisional	p.G552*	0.936	234	0%	111	24.3%	0	-	-	-	-	NULL
LRRC31	79782	genome.wustl.edu	37	3	169557957	169557957	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_024727.2	-1	validated	p.R491Q	0.992	233	0%	78	20.5%	0	-	probably_damaging(1)	deleterious(0.03)	deleterious(0.865)	NULL
GPR160	26996	genome.wustl.edu	37	3	169802415	169802415	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_014373.2	+1	validated	p.E219K	0.814	368	0%	73	12.3%	2	50%	benign(0.088)	tolerated(1)	neutral(0.006)	NULL
PRKCI	5584	genome.wustl.edu	37	3	170011256	170011256	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_002740.5	+1	reviewed	p.S459	0.995	460	0%	166	29.5%	3	0%	-	-	-	HMMSmart_S_TKc,superfamily_Kinase_like,HMMPfam_Pkinase
SLC7A14	57709	genome.wustl.edu	37	3	170185084	170185084	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_020949.2	-1	validated	p.T692M	0.997	69	0%	27	22.2%	0	-	possibly_damaging(0.952)	deleterious(0.03)	deleterious(0.760)	NULL
SLC7A14	57709	genome.wustl.edu	37	3	170244644	170244644	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_020949.2	-1	validated	p.R28C	1.000	202	0%	63	12.7%	0	-	probably_damaging(1)	deleterious(0)	deleterious(0.945)	NULL
TNIK	23043	genome.wustl.edu	37	3	170819342	170819342	+	Nonsense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_015028.2	-1	validated	p.Y829*	1.000	760	0.1%	264	25%	0	-	-	-	-	NULL
TNIK	23043	genome.wustl.edu	37	3	170828615	170828615	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_015028.2	-1	validated	p.R724	1.000	163	0%	71	11.3%	0	-	-	-	-	NULL
TNIK	23043	genome.wustl.edu	37	3	170856069	170856069	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_015028.2	-1	validated	p.R507W	1.000	313	0%	144	17.4%	2	0%	probably_damaging(0.997)	deleterious(0.01)	deleterious(0.872)	NULL
PLD1	5337	genome.wustl.edu	37	3	171379891	171379891	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_002662.3	-1	validated	p.V767I	0.001	230	0.4%	70	22.9%	2	0%	benign(0)	tolerated(1)	-	superfamily_Phospholipase D/nuclease
PLD1	5337	genome.wustl.edu	37	3	171410196	171410196	+	Nonsense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_002662.3	-1	validated	p.E422*	1.000	338	0%	78	14.1%	2	0%	-	-	-	superfamily_Phospholipase D/nuclease
PLD1	5337	genome.wustl.edu	37	3	171455712	171455712	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_002662.3	-1	validated	p.V44M	0.012	275	0.4%	164	28%	1	0%	benign(0.039)	tolerated(0.28)	neutral(0.034)	NULL
FNDC3B	64778	genome.wustl.edu	37	3	171969145	171969145	+	Missense_Mutation	SNP	C	C	T	rs190147254	by1000genomes	TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001135095.1	+1	validated	p.R202C	1.000	147	0%	39	25.6%	4	0%	probably_damaging(1)	tolerated(0.06)	deleterious(0.823)	NULL
FNDC3B	64778	genome.wustl.edu	37	3	172065021	172065021	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001135095.1	+1	validated	p.A795V	0.991	250	0%	63	14.3%	8	12.5%	possibly_damaging(0.593)	deleterious(0.03)	deleterious(0.570)	HMMPfam_fn3,HMMSmart_SM00060,superfamily_Fibronectin type III
ECT2	1894	genome.wustl.edu	37	3	172534593	172534593	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_018098.4	+1	reviewed	p.V843A	0.005	222	0%	34	20.6%	2	100%	benign(0)	tolerated(0.67)	neutral(0.003)	NULL
SPATA16	83893	genome.wustl.edu	37	3	172674553	172674553	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_031955.5	-1	reviewed	p.A332V	0.998	583	0%	73	31.5%	0	-	benign(0.017)	tolerated(0.38)	neutral(0.018)	superfamily_TPR-like
TBL1XR1	79718	genome.wustl.edu	37	3	176756133	176756133	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_024665.4	-1	reviewed	p.D339Y	1.000	498	0%	70	21.4%	1	100%	possibly_damaging(0.904)	deleterious(0.01)	deleterious(0.764)	HMMSmart_WD40,superfamily_WD40_like,HMMPfam_WD40
ZMAT3	64393	genome.wustl.edu	37	3	178745257	178745257	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_022470.3	-1	reviewed	p.K204N	0.999	277	0%	263	21.3%	2	0%	probably_damaging(0.978)	tolerated(0.26)	neutral(0.455)	NULL
ZMAT3	64393	genome.wustl.edu	37	3	178748762	178748762	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_022470.3	-1	reviewed	p.R99Q	1.000	267	0.4%	407	11.3%	1	0%	probably_damaging(1)	deleterious(0)	deleterious(0.945)	HMMSmart_ZnF_U1
ZMAT3	64393	genome.wustl.edu	37	3	178785387	178785387	+	Nonsense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_022470.3	-1	reviewed	p.E52*	0.997	250	0%	342	26.9%	0	-	-	-	-	NULL
PIK3CA	5290	genome.wustl.edu	37	3	178917634	178917634	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_006218.2	+1	reviewed	p.N170S	1.000	339	0%	128	25%	1	0%	benign(0.106)	tolerated(0.13)	neutral(0.261)	superfamily_SSF54236
PIK3CA	5290	genome.wustl.edu	37	3	178921353	178921353	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_006218.2	+1	reviewed	p.L279I	1.000	176	0%	59	32.2%	0	-	benign(0.001)	tolerated(0.17)	neutral(0.059)	HMMPfam_PI3K_rbd,HMMSmart_PI3K_rbd,superfamily_SSF54236
PIK3CA	5290	genome.wustl.edu	37	3	178921566	178921566	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_006218.2	+1	reviewed	p.D350N	1.000	101	0%	64	39.1%	1	100%	possibly_damaging(0.644)	tolerated(0.08)	deleterious(0.525)	HMMSmart_C2,HMMPfam_PI3K_C2,HMMSmart_PI3K_C2,superfamily_C2_CaLB
PIK3CA	5290	genome.wustl.edu	37	3	178928082	178928082	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_006218.2	+1	reviewed	p.D454Y	1.000	403	0%	111	28.8%	4	25%	probably_damaging(0.955)	deleterious(0)	deleterious(0.843)	HMMPfam_PI3K_C2,superfamily_C2_CaLB
PIK3CA	5290	genome.wustl.edu	37	3	178943785	178943785	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_006218.2	+1	reviewed	p.R818C	1.000	332	0%	52	13.5%	9	0%	possibly_damaging(0.95)	deleterious(0)	deleterious(0.838)	HMMPfam_PI3_PI4_kinase,HMMSmart_PI3Kc,superfamily_Kinase_like
USP13	8975	genome.wustl.edu	37	3	179458059	179458059	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_003940.2	+1	validated	p.R427C	1.000	152	0.7%	84	23.8%	0	-	benign(0.102)	deleterious(0.01)	neutral(0.414)	HMMPfam_UCH,superfamily_SSF54001
PEX5L	51555	genome.wustl.edu	37	3	179525600	179525600	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_016559.1	-1	provisional	p.R513H	1.000	68	0%	42	23.8%	0	-	probably_damaging(0.999)	deleterious(0)	deleterious(0.935)	HMMPfam_TPR_1,HMMSmart_SM00028,superfamily_TPR-like
PEX5L	51555	genome.wustl.edu	37	3	179527283	179527283	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_016559.1	-1	provisional	p.R443Q	0.837	291	0%	142	26.1%	0	-	benign(0.269)	tolerated(0.17)	neutral(0.087)	superfamily_TPR-like
PEX5L	51555	genome.wustl.edu	37	3	179593237	179593237	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_016559.1	-1	provisional	p.D178	1.000	449	0.4%	422	24.2%	0	-	-	-	-	NULL
TTC14	151613	genome.wustl.edu	37	3	180325488	180325488	+	Missense_Mutation	SNP	T	T	G	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_133462.3	+1	validated	p.L409V	1.000	328	0%	258	11.6%	3	0%	possibly_damaging(0.737)	tolerated(0.06)	deleterious(0.592)	HMMPfam_TPR_1,HMMSmart_SM00028,superfamily_TPR-like
TTC14	151613	genome.wustl.edu	37	3	180328158	180328158	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_133462.3	+1	validated	p.R714K	0.883	201	0%	130	25.4%	11	45.4%	possibly_damaging(0.595)	tolerated(0.85)	neutral(0.206)	NULL
CCDC39	339829	genome.wustl.edu	37	3	180359932	180359932	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_181426.1	-1	validated	p.L575I	1.000	510	0%	142	26.1%	2	100%	probably_damaging(0.999)	tolerated(0.1)	deleterious(0.777)	NULL
CCDC39	339829	genome.wustl.edu	37	3	180377504	180377504	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_181426.1	-1	validated	p.K190N	0.837	675	0%	178	27.5%	0	-	probably_damaging(0.996)	tolerated(0.06)	deleterious(0.784)	NULL
FXR1	8087	genome.wustl.edu	37	3	180666165	180666165	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_005087.2	+1	reviewed	p.A101T	1.000	182	0%	55	29.1%	16	6.2%	probably_damaging(0.998)	tolerated(0.31)	deleterious(0.501)	HMMPfam_Agenet
SOX2	6657	genome.wustl.edu	37	3	181430846	181430846	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_003106.2	+1	reviewed	p.P233H	1.000	12	0%	28	25%	0	-	probably_damaging(0.992)	deleterious(0)	deleterious(0.892)	NULL
ATP11B	23200	genome.wustl.edu	37	3	182635825	182635825	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_014616.1	+1	validated	p.S1156L	1.000	361	0%	91	19.8%	5	0%	benign(0.079)	tolerated(0.07)	neutral(0.325)	NULL
LAMP3	27074	genome.wustl.edu	37	3	182870287	182870287	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_014398.3	-1	validated	p.F255S	0.964	254	0%	162	30.2%	0	-	benign(0.008)	tolerated(0.49)	neutral(0.011)	HMMPfam_Lamp
MCF2L2	23101	genome.wustl.edu	37	3	182897888	182897888	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_015078.2	-1	validated	p.D1026Y	0.796	245	0%	385	26%	0	-	possibly_damaging(0.592)	tolerated(0.07)	deleterious(0.523)	NULL
MCF2L2	23101	genome.wustl.edu	37	3	182925541	182925541	+	Missense_Mutation	SNP	C	C	T	rs139337758	by1000genomes	TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_015078.2	-1	validated	p.R856H	0.753	462	0%	106	29.2%	0	-	probably_damaging(0.999)	deleterious(0.04)	deleterious(0.839)	HMMPfam_PH,HMMSmart_SM00233,superfamily_PH domain-like
KLHL6	89857	genome.wustl.edu	37	3	183211893	183211893	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_130446.2	-1	validated	p.D442N	1.000	294	0%	372	23.7%	0	-	probably_damaging(0.999)	tolerated(0.15)	deleterious(0.732)	HMMPfam_Kelch_1,HMMSmart_Kelch,superfamily_Gal_oxid_central
KLHL6	89857	genome.wustl.edu	37	3	183217608	183217608	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_130446.2	-1	validated	p.S306L	1.000	89	0%	71	18.3%	0	-	benign(0.079)	deleterious(0)	neutral(0.450)	superfamily_Gal_oxid_central
KLHL6	89857	genome.wustl.edu	37	3	183273319	183273319	+	Silent	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_130446.2	-1	validated	p.I41	1.000	301	0%	115	19.1%	0	-	-	-	-	NULL
YEATS2	55689	genome.wustl.edu	37	3	183442277	183442277	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_018023.4	+1	validated	p.R203Q	1.000	334	0%	126	12.7%	2	0%	probably_damaging(0.998)	deleterious(0.04)	deleterious(0.823)	NULL
YEATS2	55689	genome.wustl.edu	37	3	183503992	183503992	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_018023.4	+1	validated	p.S939L	1.000	87	0%	36	13.9%	0	-	benign(0.323)	deleterious(0.03)	neutral(0.466)	NULL
YEATS2	55689	genome.wustl.edu	37	3	183521049	183521049	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_018023.4	+1	validated	p.D1170Y	1.000	276	0%	125	21.6%	3	0%	probably_damaging(1)	deleterious(0)	deleterious(0.945)	NULL
ABCC5	10057	genome.wustl.edu	37	3	183667823	183667823	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_005688.2	-1	reviewed	p.P1012L	1.000	153	0.7%	65	33.8%	3	0%	probably_damaging(1)	deleterious(0)	deleterious(0.945)	HMMPfam_ABC_membrane,superfamily_Multidrug resistance ABC transporter MsbA N-terminal domain
ABCC5	10057	genome.wustl.edu	37	3	183669654	183669654	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_005688.2	-1	reviewed	p.V935	0.985	126	0%	44	20.5%	1	0%	-	-	-	HMMPfam_ABC_membrane,superfamily_Multidrug resistance ABC transporter MsbA N-terminal domain
HTR3E	285242	genome.wustl.edu	37	3	183822630	183822630	+	Missense_Mutation	SNP	C	C	T	rs181115598	by1000genomes	TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_182589.2	+1	reviewed	p.R164C	0.840	183	0%	115	21.7%	0	-	probably_damaging(0.994)	deleterious(0.05)	deleterious(0.797)	HMMPfam_Neur_chan_LBD,superfamily_Neur_chan_LBD
PSMD2	5708	genome.wustl.edu	37	3	184018174	184018174	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_002808.3	+1	reviewed	p.R100H	1.000	191	0%	303	10.9%	12	16.6%	probably_damaging(1)	deleterious(0)	deleterious(0.945)	superfamily_ARM-type_fold
EIF4G1	1981	genome.wustl.edu	37	3	184039336	184039336	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_182917.3	+1	reviewed	p.E322K	0.997	103	0%	134	25.4%	14	21.4%	possibly_damaging(0.609)	deleterious(0)	deleterious(0.655)	NULL
FAM131A	131408	genome.wustl.edu	37	3	184060583	184060583	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_144635.4	+1	validated	p.S156L	1.000	112	0%	139	13.7%	4	0%	probably_damaging(0.963)	deleterious(0)	deleterious(0.850)	NULL
THPO	7066	genome.wustl.edu	37	3	184090609	184090609	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_000460.2	-1	reviewed	p.E252K	0.000	332	0.3%	377	25.2%	1	0%	benign(0.301)	tolerated(0.34)	neutral(0.116)	NULL
CHRD	8646	genome.wustl.edu	37	3	184099783	184099783	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_003741.2	+1	reviewed	p.P225H	1.000	91	0%	132	27.3%	5	0%	probably_damaging(0.999)	tolerated(0.08)	deleterious(0.790)	HMMPfam_CHRD,HMMSmart_SM00754
CHRD	8646	genome.wustl.edu	37	3	184100253	184100253	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_003741.2	+1	reviewed	p.V259A	0.991	114	0%	221	29.4%	9	0%	possibly_damaging(0.88)	tolerated(0.15)	deleterious(0.584)	HMMPfam_CHRD,HMMSmart_SM00754
CHRD	8646	genome.wustl.edu	37	3	184102807	184102807	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_003741.2	+1	reviewed	p.T533	0.720	55	0%	102	25.5%	18	0%	-	-	-	HMMPfam_CHRD,HMMSmart_SM00754
CHRD	8646	genome.wustl.edu	37	3	184107198	184107198	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_003741.2	+1	reviewed	p.A952	0.000	106	0%	208	14.9%	47	0%	-	-	-	NULL
EPHB3	2049	genome.wustl.edu	37	3	184297347	184297347	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_004443.3	+1	reviewed	p.I628	0.047	111	0%	191	26.2%	4	25%	-	-	-	superfamily_Kinase_like
VPS8	23355	genome.wustl.edu	37	3	184769784	184769784	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001009921.2	+1	validated	p.L1420F	1.000	74	0%	32	31.2%	37	13.5%	probably_damaging(0.998)	deleterious(0)	deleterious(0.919)	NULL
LIPH	200879	genome.wustl.edu	37	3	185232221	185232221	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	ENST00000435679	-1	known	p.T35I	0.001	864	0.1%	323	22.6%	0	-	-	-	-	NULL
SENP2	59343	genome.wustl.edu	37	3	185318562	185318562	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_021627.2	+1	validated	p.S123Y	1.000	280	0%	105	10.5%	1	0%	possibly_damaging(0.8)	deleterious(0)	deleterious(0.746)	NULL
SENP2	59343	genome.wustl.edu	37	3	185330447	185330447	+	Splice_Site	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_021627.2	+1	validated	e9+1	1.000	331	0%	151	23.8%	1	100%	-	-	-	-
IGF2BP2	10644	genome.wustl.edu	37	3	185390421	185390421	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_006548.4	-1	reviewed	p.A370T	1.000	143	0%	40	27.5%	3	0%	possibly_damaging(0.897)	tolerated(0.17)	neutral(0.413)	superfamily_Eukaryotic type KH-domain (KH-domain type I)
TRA2B	6434	genome.wustl.edu	37	3	185644412	185644412	+	Missense_Mutation	SNP	C	C	A	rs183437086	by1000genomes	TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_004593.2	-1	validated	p.K49N	1.000	221	0%	124	27.4%	26	15.3%	unknown(0)	tolerated(0.51)	-	NULL
DNAJB11	51726	genome.wustl.edu	37	3	186300547	186300547	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_016306.4	+1	validated	p.R242Q	1.000	384	0%	243	28%	101	16.8%	benign(0.141)	tolerated(0.3)	neutral(0.041)	HMMPfam_DnaJ_C,superfamily_HSP40/DnaJ peptide-binding domain
HRG	3273	genome.wustl.edu	37	3	186389447	186389447	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_000412.2	+1	reviewed	p.V143I	0.169	238	0%	45	35.6%	0	-	probably_damaging(0.965)	tolerated(0.1)	deleterious(0.694)	HMMSmart_SM00043
RTP1	132112	genome.wustl.edu	37	3	186915332	186915332	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_153708.2	+1	validated	p.R10H	1.000	190	0%	259	25.9%	0	-	benign(0.004)	deleterious(0.02)	neutral(0.383)	NULL
RTP1	132112	genome.wustl.edu	37	3	186917628	186917628	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_153708.2	+1	validated	p.G188R	0.469	29	0%	38	39.5%	0	-	benign(0.013)	tolerated(0.13)	neutral(0.253)	NULL
MASP1	5648	genome.wustl.edu	37	3	186971011	186971011	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_139125.3	-1	reviewed	p.F279	1.000	248	0%	61	36.1%	7	0%	-	-	-	HMMPfam_CUB,HMMSmart_CUB,superfamily_CUB
MASP1	5648	genome.wustl.edu	37	3	186978566	186978566	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_139125.3	-1	reviewed	p.F170	0.986	84	0%	21	28.6%	12	0%	-	-	-	HMMSmart_EGF_CA,PatternScan_EGF_2,superfamily_SSF57196
MASP1	5648	genome.wustl.edu	37	3	186980402	186980402	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_139125.3	-1	reviewed	p.S115Y	0.968	84	0%	32	28.1%	4	0%	possibly_damaging(0.949)	deleterious(0)	deleterious(0.838)	HMMPfam_CUB,HMMSmart_CUB,superfamily_CUB
MASP1	5648	genome.wustl.edu	37	3	186980497	186980497	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_139125.3	-1	reviewed	p.E83D	0.997	99	0%	38	15.8%	8	0%	benign(0)	tolerated(0.56)	neutral(0.006)	HMMPfam_CUB,HMMSmart_CUB,superfamily_CUB
RTP4	64108	genome.wustl.edu	37	3	187088744	187088744	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_022147.2	+1	validated	p.S108	0.000	145	0%	180	21.7%	1	0%	-	-	-	NULL
BCL6	604	genome.wustl.edu	37	3	187440320	187440320	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001130845.1	-1	reviewed	p.A683T	1.000	130	0%	156	24.4%	23	21.7%	probably_damaging(1)	deleterious(0)	deleterious(0.945)	superfamily_C2H2 and C2HC zinc fingers
BCL6	604	genome.wustl.edu	37	3	187440334	187440334	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001130845.1	-1	reviewed	p.R678H	1.000	126	0%	158	29.7%	26	15.3%	probably_damaging(1)	deleterious(0)	deleterious(0.945)	HMMPfam_zf-C2H2,PatternScan_ZINC_FINGER_C2H2_1,HMMSmart_SM00355,superfamily_C2H2 and C2HC zinc fingers
BCL6	604	genome.wustl.edu	37	3	187447260	187447260	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001130845.1	-1	reviewed	p.E311D	1.000	172	0%	223	11.7%	9	0%	benign(0.009)	tolerated(0.3)	neutral(0.029)	NULL
BCL6	604	genome.wustl.edu	37	3	187449515	187449515	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001130845.1	-1	reviewed	p.R122Q	1.000	97	0%	92	27.2%	6	16.6%	benign(0.106)	tolerated(0.77)	neutral(0.009)	HMMSmart_SM00225,superfamily_POZ domain,HMMPfam_BTB
TP63	8626	genome.wustl.edu	37	3	189586459	189586459	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_003722.4	+1	reviewed	p.K361	1.000	200	0%	84	23.8%	0	-	-	-	-	NULL
TP63	8626	genome.wustl.edu	37	3	189612028	189612028	+	Nonsense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_003722.4	+1	reviewed	p.R594*	1.000	126	0%	41	26.8%	1	0%	-	-	-	HMMSmart_SM00454,superfamily_SAM/Pointed domain,HMMPfam_SAM_2
CCDC50	152137	genome.wustl.edu	37	3	191093211	191093211	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_178335.2	+1	reviewed	p.R270Q	0.002	236	0.4%	55	16.4%	5	60%	benign(0.003)	tolerated(0.4)	neutral(0.016)	NULL
FGF12	2257	genome.wustl.edu	37	3	191888337	191888337	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_021032.3	-1	reviewed	p.L175M	1.000	405	0%	111	21.6%	2	50%	benign(0.11)	deleterious(0.04)	neutral(0.357)	HMMPfam_FGF,HMMSmart_SM00442,superfamily_Cytokine
MB21D2	151963	genome.wustl.edu	37	3	192516630	192516630	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_178496.3	-1	validated	p.D341N	1.000	70	0%	50	34%	3	0%	probably_damaging(0.998)	deleterious(0.01)	deleterious(0.880)	NULL
MB21D2	151963	genome.wustl.edu	37	3	192516820	192516820	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_178496.3	-1	validated	p.C277	1.000	109	0%	80	26.3%	3	0%	-	-	-	NULL
ATP13A5	344905	genome.wustl.edu	37	3	193025132	193025132	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_198505.2	-1	provisional	p.G851E	1.000	189	0%	47	17%	0	-	probably_damaging(1)	deleterious(0)	deleterious(0.945)	superfamily_SSF56784,superfamily_SSF81665
ATP13A4	84239	genome.wustl.edu	37	3	193185118	193185118	+	Silent	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	ENST00000428352	-1	known	p.W7L	0.855	92	0%	47	31.9%	1	100%	-	-	-	HMMPfam_E1-E2_ATPase
OPA1	4976	genome.wustl.edu	37	3	193372671	193372671	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_130837.2	+1	reviewed	p.S678Y	0.996	201	0%	35	20%	3	0%	benign(0.018)	deleterious(0)	neutral(0.445)	NULL
LRRC15	131578	genome.wustl.edu	37	3	194080133	194080133	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001135057.2	-1	validated	p.G553D	0.815	149	0%	107	35.5%	0	-	probably_damaging(0.998)	deleterious(0)	deleterious(0.919)	NULL
ATP13A3	79572	genome.wustl.edu	37	3	194180199	194180199	+	Splice_Site	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_024524.3	-1	validated	e4+1	1.000	150	0%	37	21.6%	0	-	-	-	-	-
TMEM44	93109	genome.wustl.edu	37	3	194338460	194338460	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	ENST00000392432	-1	known	p.R220W	0.002	87	0%	55	12.7%	1	100%	benign(0.235)	deleterious(0)	neutral(0.468)	NULL
TMEM44	93109	genome.wustl.edu	37	3	194344296	194344296	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_138399.4	-1	validated	p.R163W	0.060	15	0%	19	42.1%	3	0%	unknown(0)	deleterious(0)	-	NULL
XXYLT1	152002	genome.wustl.edu	37	3	194790519	194790519	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_152531.4	-1	validated	p.F369	0.887	62	0%	128	23.4%	11	18.1%	-	-	-	superfamily_Nucleotide-diphospho-sugar transferases
ACAP2	23527	genome.wustl.edu	37	3	195006529	195006529	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_012287.5	-1	validated	p.Q744H	1.000	721	0%	274	23.4%	4	0%	probably_damaging(0.991)	deleterious(0.03)	deleterious(0.808)	NULL
ACAP2	23527	genome.wustl.edu	37	3	195101749	195101749	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_012287.5	-1	validated	p.N92D	1.000	259	0%	85	14.1%	0	-	benign(0.418)	deleterious(0.02)	deleterious(0.518)	NULL
MUC4	4585	genome.wustl.edu	37	3	195477774	195477774	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_018406.5	-1	reviewed	p.R5158H	0.000	36	0%	55	12.7%	0	-	unknown(0)	tolerated(0.14)	-	NULL
MUC4	4585	genome.wustl.edu	37	3	195508550	195508550	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_018406.5	-1	reviewed	p.E3173K	0.001	214	0%	257	12.5%	0	-	benign(0.352)	-	-	NULL
MUC4	4585	genome.wustl.edu	37	3	195509318	195509318	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_018406.5	-1	reviewed	p.D2917N	0.013	411	1%	391	17.6%	0	-	possibly_damaging(0.509)	-	-	NULL
MUC4	4585	genome.wustl.edu	37	3	195512819	195512819	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_018406.5	-1	reviewed	p.A1878T	0.001	385	0%	317	22.4%	0	-	possibly_damaging(0.748)	-	-	NULL
MUC4	4585	genome.wustl.edu	37	3	195512967	195512967	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_018406.5	-1	reviewed	p.T1828	0.059	465	1.1%	432	13.4%	1	0%	-	-	-	NULL
TNK2	10188	genome.wustl.edu	37	3	195594352	195594352	+	Silent	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001010938.1	-1	reviewed	p.S1002	0.998	30	0%	64	21.9%	1	100%	-	-	-	NULL
TFRC	7037	genome.wustl.edu	37	3	195800926	195800926	+	Silent	SNP	T	T	C	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001128148.1	-1	validated	p.G103	0.000	126	5.6%	101	11.9%	2	0%	-	-	-	NULL
ZDHHC19	131540	genome.wustl.edu	37	3	195937508	195937508	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001039617.1	-1	validated	p.D83Y	1.000	149	0%	197	20.3%	0	-	probably_damaging(1)	deleterious(0)	deleterious(0.945)	NULL
PCYT1A	5130	genome.wustl.edu	37	3	195997312	195997312	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_005017.2	-1	provisional	p.P31S	0.003	381	0%	430	14.7%	5	60%	benign(0)	tolerated(0.28)	neutral(0.032)	NULL
TCTEX1D2	255758	genome.wustl.edu	37	3	196022929	196022929	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_152773.3	-1	validated	p.R110H	1.000	195	0%	177	19.8%	21	19%	probably_damaging(1)	deleterious(0)	deleterious(0.945)	HMMPfam_Tctex-1
TM4SF19	116211	genome.wustl.edu	37	3	196050847	196050847	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	ENST00000446879	-1	known	p.R156H	0.000	153	0%	174	11.5%	0	-	unknown(0)	-	-	HMMPfam_L6_membrane
UBXN7	26043	genome.wustl.edu	37	3	196120466	196120466	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_015562.1	-1	validated	p.R105H	1.000	232	0%	153	26.8%	0	-	probably_damaging(0.969)	tolerated(0.1)	deleterious(0.698)	NULL
LRRC33	375387	genome.wustl.edu	37	3	196386811	196386811	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_198565.1	+1	provisional	p.G99	0.000	42	0%	55	14.5%	1	0%	-	-	-	superfamily_SSF52058
SENP5	205564	genome.wustl.edu	37	3	196612859	196612859	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_152699.4	+1	validated	p.Q269H	1.000	80	0%	40	20%	1	0%	probably_damaging(0.996)	deleterious(0)	deleterious(0.906)	NULL
NCBP2	22916	genome.wustl.edu	37	3	196664432	196664432	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_007362.3	-1	reviewed	p.D116	0.553	139	0%	146	26%	45	20%	-	-	-	superfamily_RNA-binding domain RBD
MFI2	4241	genome.wustl.edu	37	3	196733430	196733430	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_005929.4	-1	reviewed	p.D643G	1.000	104	0%	150	20.7%	0	-	benign(0.221)	tolerated(0.43)	neutral(0.035)	HMMPfam_Transferrin,HMMSmart_SM00094,superfamily_Periplasmic binding protein-like II
MFI2	4241	genome.wustl.edu	37	3	196736683	196736683	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_005929.4	-1	reviewed	p.P444L	0.582	28	0%	20	45%	0	-	benign(0.027)	tolerated(0.12)	neutral(0.262)	HMMPfam_Transferrin,HMMSmart_SM00094,superfamily_Periplasmic binding protein-like II
MFI2	4241	genome.wustl.edu	37	3	196746497	196746497	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_033316.3	-1	reviewed	p.K296N	0.001	307	0%	423	22%	1	0%	unknown(0)	tolerated(0.69)	-	HMMSmart_SM00094
BDH1	622	genome.wustl.edu	37	3	197238825	197238825	+	Nonsense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_004051.4	-1	reviewed	p.R325*	1.000	121	0%	237	28.7%	31	38.7%	-	-	-	superfamily_NAD(P)-bd
KIAA0226	9711	genome.wustl.edu	37	3	197409417	197409417	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001145642.2	-1	validated	p.R639W	1.000	101	0%	97	24.7%	4	25%	probably_damaging(0.999)	deleterious(0)	deleterious(0.935)	NULL
KIAA0226	9711	genome.wustl.edu	37	3	197431557	197431557	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001145642.2	-1	validated	p.E47K	0.999	92	0%	37	24.3%	1	0%	probably_damaging(0.996)	tolerated(0.17)	deleterious(0.520)	NULL
FYTTD1	84248	genome.wustl.edu	37	3	197483421	197483421	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_032288.6	+1	validated	p.Q76H	1.000	350	0%	345	10.4%	13	23%	possibly_damaging(0.806)	deleterious(0)	deleterious(0.748)	HMMPfam_FYTT
LOC100287931	100287931	genome.wustl.edu	37	4	124254	124254	+	RNA	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	XR_078685.1	-1	model	NULL	0.000	8	0.000	11	0.455	0	-	-	-	-	-
ZNF732	654254	genome.wustl.edu	37	4	265585	265585	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001137608.1	-1	provisional	p.R354K	0.159	165	0%	95	21.1%	0	-	benign(0.003)	tolerated(0.31)	neutral(0.027)	HMMPfam_zf-C2H2,PatternScan_ZINC_FINGER_C2H2_1,HMMSmart_ZnF_C2H2,superfamily_SSF48695,superfamily_SSF57667
ZNF732	654254	genome.wustl.edu	37	4	266369	266369	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001137608.1	-1	provisional	p.D93Y	0.002	233	0%	157	29.3%	0	-	benign(0.209)	deleterious(0.03)	neutral(0.385)	NULL
ZNF141	7700	genome.wustl.edu	37	4	366751	366751	+	Missense_Mutation	SNP	A	A	C	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	ENST00000240499	+1	known	p.E175D	0.739	222	0%	123	22.8%	0	-	benign(0.256)	tolerated(0.07)	neutral(0.346)	HMMSmart_ZnF_C2H2,superfamily_SSF57667
ZNF721	170960	genome.wustl.edu	37	4	436499	436499	+	Missense_Mutation	SNP	T	T	G	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_133474.2	-1	validated	p.K586T	0.004	426	0%	131	17.6%	1	0%	benign(0.199)	deleterious(0.04)	neutral(0.368)	HMMPfam_zf-C2H2,HMMSmart_SM00355,superfamily_C2H2 and C2HC zinc fingers
ZNF721	170960	genome.wustl.edu	37	4	437751	437751	+	Nonsense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_133474.2	-1	validated	p.E169*	0.055	500	0%	191	24.6%	0	-	-	-	-	HMMPfam_zf-C2H2,PatternScan_ZINC_FINGER_C2H2_1,HMMSmart_SM00355,superfamily_C2H2 and C2HC zinc fingers
PDE6B	5158	genome.wustl.edu	37	4	657911	657911	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_000283.3	+1	reviewed	p.A677V	0.996	89	0%	161	21.1%	1	0%	benign(0.004)	tolerated(0.18)	neutral(0.056)	HMMPfam_PDEase_I,HMMSmart_SM00471,superfamily_HD-domain/PDEase-like
MFSD7	84179	genome.wustl.edu	37	4	679907	679907	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_032219.2	-1	provisional	p.R160Q	1.000	38	0%	56	14.3%	1	0%	probably_damaging(1)	deleterious(0.01)	deleterious(0.905)	HMMPfam_MFS_1,superfamily_MFS_gen_substrate_transporter
MFSD7	84179	genome.wustl.edu	37	4	680360	680360	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_032219.2	-1	provisional	p.A85	0.000	28	0%	59	28.8%	2	0%	-	-	-	HMMPfam_MFS_1,superfamily_MFS_gen_substrate_transporter
GAK	2580	genome.wustl.edu	37	4	925895	925895	+	Missense_Mutation	SNP	G	G	C	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_005255.2	-1	validated	p.D27E	1.000	6	0.000	16	0.500	0	-	probably_damaging(0.988)	tolerated(0.51)	neutral(0.447)	superfamily_Kinase_like
DGKQ	1609	genome.wustl.edu	37	4	955614	955614	+	Missense_Mutation	SNP	T	T	G	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001347.2	-1	reviewed	p.N775T	1.000	52	0%	109	12.8%	0	-	probably_damaging(1)	deleterious(0)	deleterious(0.945)	HMMPfam_DAGK_acc,HMMSmart_SM00045
SLC26A1	10861	genome.wustl.edu	37	4	985180	985180	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_022042.2	-1	reviewed	p.T104	0.072	38	0%	75	24%	1	100%	-	-	-	PatternScan_SLC26A
FGFRL1	53834	genome.wustl.edu	37	4	1016128	1016128	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001004356.2	+1	reviewed	p.G73S	1.000	13	0%	28	39.3%	2	50%	benign(0.075)	tolerated(0.23)	neutral(0.046)	HMMSmart_IGc2,HMMPfam_I-set,superfamily_SSF48726
FGFRL1	53834	genome.wustl.edu	37	4	1016257	1016257	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001004356.2	+1	reviewed	p.V116M	0.999	17	0%	46	32.6%	0	-	possibly_damaging(0.698)	deleterious(0)	deleterious(0.696)	HMMPfam_I-set,superfamily_SSF48726
RNF212	285498	genome.wustl.edu	37	4	1067427	1067427	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001131034.1	-1	validated	p.A178	0.010	239	0%	169	24.9%	0	-	-	-	-	NULL
LETM1	3954	genome.wustl.edu	37	4	1816168	1816168	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_012318.2	-1	reviewed	p.A735T	0.063	786	0%	1053	11%	31	6.4%	unknown(0)	tolerated(0.61)	-	NULL
LETM1	3954	genome.wustl.edu	37	4	1817406	1817406	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_012318.2	-1	reviewed	p.I685	0.810	202	0%	335	11%	18	5.5%	-	-	-	PatternScan_EF_HAND_1
LETM1	3954	genome.wustl.edu	37	4	1836590	1836590	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_012318.2	-1	reviewed	p.F286L	1.000	106	0%	115	11.3%	2	0%	possibly_damaging(0.523)	tolerated(0.06)	deleterious(0.499)	HMMPfam_LETM1
LETM1	3954	genome.wustl.edu	37	4	1836685	1836685	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_012318.2	-1	reviewed	p.R255W	1.000	84	0%	87	23%	5	40%	probably_damaging(0.999)	deleterious(0)	deleterious(0.935)	HMMPfam_LETM1
WHSC1	7468	genome.wustl.edu	37	4	1902506	1902506	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001042424.2	+1	reviewed	p.R42H	0.970	90	0%	32	37.5%	0	-	benign(0.001)	tolerated(0.76)	neutral(0.001)	NULL
WHSC1	7468	genome.wustl.edu	37	4	1920189	1920189	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001042424.2	+1	reviewed	p.D417N	0.025	100	0%	43	23.3%	4	0%	benign(0.001)	tolerated(0.48)	neutral(0.011)	NULL
WHSC1	7468	genome.wustl.edu	37	4	1955177	1955177	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001042424.2	+1	reviewed	p.R755Q	1.000	173	0%	167	22.2%	2	0%	probably_damaging(0.997)	tolerated(0.13)	deleterious(0.719)	HMMSmart_SM00184,HMMSmart_SM00249
WHSC1	7468	genome.wustl.edu	37	4	1957481	1957481	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	ENST00000514329	+1	known	p.R184*	0.983	76	0%	74	25.7%	2	50%	-	-	-	HMMSmart_SM00249,superfamily_FYVE/PHD zinc finger,PatternScan_ZF_PHD_1,HMMPfam_PHD
WHSC1	7468	genome.wustl.edu	37	4	1961404	1961404	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001042424.2	+1	reviewed	p.E1064D	1.000	96	0%	72	30.6%	5	20%	benign(0.003)	tolerated(0.73)	neutral(0.002)	HMMPfam_SET,HMMSmart_SM00317,superfamily_SET domain
WHSC1	7468	genome.wustl.edu	37	4	1962830	1962830	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001042424.2	+1	reviewed	p.H1108	0.004	312	0%	194	24.7%	7	0%	-	-	-	HMMPfam_SET,HMMSmart_SM00317,superfamily_SET domain
WHSC2	7469	genome.wustl.edu	37	4	1985582	1985582	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_005663.3	-1	reviewed	p.S443F	1.000	65	0%	111	25.2%	40	22.5%	probably_damaging(0.991)	deleterious(0)	deleterious(0.889)	NULL
MIR943	100126332	genome.wustl.edu	37	4	1988177	1988177	+	RNA	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	ENST00000401286	-1	known	NULL	0.000	49	0%	75	33.3%	0	-	-	-	-	-
POLN	353497	genome.wustl.edu	37	4	2083387	2083387	+	Nonsense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_181808.2	-1	validated	p.R761*	1.000	221	0%	339	23.3%	1	100%	-	-	-	HMMPfam_DNA_pol_A,HMMSmart_SM00482,superfamily_DNA/RNA polymerases
POLN	353497	genome.wustl.edu	37	4	2097618	2097618	+	Missense_Mutation	SNP	C	C	G	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_181808.2	-1	validated	p.E675D	1.000	230	0%	126	22.2%	0	-	probably_damaging(1)	tolerated(0.17)	deleterious(0.559)	HMMPfam_DNA_pol_A,HMMSmart_SM00482,superfamily_DNA/RNA polymerases
POLN	353497	genome.wustl.edu	37	4	2209722	2209722	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_181808.2	-1	validated	p.A236T	0.000	144	0%	47	10.6%	0	-	benign(0.058)	deleterious(0)	neutral(0.448)	NULL
POLN	353497	genome.wustl.edu	37	4	2230911	2230911	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_181808.2	-1	validated	p.P16	0.122	351	0%	152	19.1%	2	0%	-	-	-	NULL
FAM193A	8603	genome.wustl.edu	37	4	2632845	2632845	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_003704.3	+1	validated	p.Y38	0.743	24	0%	14	28.6%	1	0%	-	-	-	NULL
SH3BP2	6452	genome.wustl.edu	37	4	2833686	2833686	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001122681.1	+1	reviewed	p.E463K	0.998	41	0%	49	16.3%	20	15%	probably_damaging(0.98)	deleterious(0)	deleterious(0.869)	HMMSmart_SM00252,superfamily_SH2 domain
ADD1	118	genome.wustl.edu	37	4	2886320	2886320	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_014189.2	+1	reviewed	p.R146Q	1.000	564	0.4%	209	22%	13	7.6%	probably_damaging(0.995)	deleterious(0)	deleterious(0.902)	superfamily_Aldolase_II_N
ADD1	118	genome.wustl.edu	37	4	2906764	2906764	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_014189.2	+1	reviewed	p.D479N	1.000	114	0%	39	25.6%	4	0%	possibly_damaging(0.507)	deleterious(0.01)	deleterious(0.575)	NULL
ADD1	118	genome.wustl.edu	37	4	2909482	2909482	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_014189.2	+1	reviewed	p.D507N	1.000	227	0%	118	22.9%	32	15.6%	benign(0.313)	deleterious(0.03)	neutral(0.462)	NULL
NOP14	8602	genome.wustl.edu	37	4	2946856	2946856	+	Missense_Mutation	SNP	T	T	G	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_003703.1	-1	validated	p.K579T	1.000	36	0%	48	25%	6	50%	benign(0.311)	deleterious(0.02)	deleterious(0.480)	HMMPfam_Nop14
GRK4	2868	genome.wustl.edu	37	4	3037140	3037140	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_182982.2	+1	reviewed	p.L433	0.759	81	0%	95	20%	3	0%	-	-	-	HMMSmart_SM00219,HMMSmart_SM00220,superfamily_Protein kinase-like (PK-like),HMMPfam_Pkinase
HTT	3064	genome.wustl.edu	37	4	3109116	3109116	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_002111.6	+1	reviewed	p.S238Y	1.000	149	0%	94	26.6%	2	0%	probably_damaging(0.955)	deleterious(0.01)	deleterious(0.804)	superfamily_ARM repeat
HTT	3064	genome.wustl.edu	37	4	3162073	3162073	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_002111.6	+1	reviewed	p.V1273A	1.000	598	0%	194	13.4%	1	0%	probably_damaging(0.994)	tolerated(0.1)	deleterious(0.738)	superfamily_ARM repeat
HTT	3064	genome.wustl.edu	37	4	3176734	3176734	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_002111.6	+1	reviewed	p.Y1436C	1.000	472	0%	212	25.5%	1	0%	probably_damaging(1)	deleterious(0)	deleterious(0.945)	superfamily_ARM repeat
HTT	3064	genome.wustl.edu	37	4	3210534	3210534	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_002111.6	+1	reviewed	p.R2063C	1.000	152	0%	72	29.2%	2	0%	probably_damaging(1)	deleterious(0)	deleterious(0.945)	NULL
RGS12	6002	genome.wustl.edu	37	4	3318062	3318062	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_198229.2	+1	reviewed	p.F55	0.000	70	0%	103	29.1%	1	0%	-	-	-	HMMPfam_PDZ,HMMSmart_SM00228,superfamily_PDZ domain-like
RGS12	6002	genome.wustl.edu	37	4	3418743	3418743	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_198229.2	+1	reviewed	p.S844L	0.907	37	0%	86	25.6%	5	0%	possibly_damaging(0.732)	tolerated(0.13)	deleterious(0.520)	NULL
DOK7	285489	genome.wustl.edu	37	4	3475196	3475196	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_173660.4	+1	reviewed	p.S55N	1.000	24	0%	43	16.3%	0	-	benign(0.003)	tolerated(0.11)	neutral(0.272)	HMMSmart_SM00233,superfamily_PH domain-like
LRPAP1	4043	genome.wustl.edu	37	4	3516626	3516626	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_002337.2	-1	validated	p.I288	0.590	114	0%	190	12.1%	216	0.4%	-	-	-	HMMPfam_Alpha-2-MRAP_C
OTOP1	133060	genome.wustl.edu	37	4	4190660	4190660	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_177998.1	-1	provisional	p.D570G	1.000	192	0%	96	7.3%	0	-	probably_damaging(0.995)	deleterious(0.03)	deleterious(0.822)	NULL
LYAR	55646	genome.wustl.edu	37	4	4276258	4276258	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001145725.1	-1	validated	p.R223H	0.860	787	0%	532	22.9%	22	9%	probably_damaging(0.995)	tolerated(0.08)	deleterious(0.758)	NULL
D4S234E	27065	genome.wustl.edu	37	4	4419143	4419143	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001040101.1	+1	validated	p.A180V	1.000	105	0%	91	23.1%	11	54.5%	probably_damaging(0.979)	tolerated(0.06)	deleterious(0.744)	HMMPfam_Calcyon
STK32B	55351	genome.wustl.edu	37	4	5141658	5141658	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_018401.1	+1	provisional	p.R27W	1.000	726	0%	304	22.4%	0	-	unknown(0)	deleterious(0)	-	HMMSmart_SM00219,HMMSmart_SM00220,superfamily_Protein kinase-like (PK-like),HMMPfam_Pkinase
STK32B	55351	genome.wustl.edu	37	4	5170114	5170114	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_018401.1	+1	provisional	p.R66Q	0.942	207	0%	77	14.3%	0	-	probably_damaging(0.994)	tolerated(0.53)	neutral(0.460)	HMMSmart_SM00219,HMMSmart_SM00220,superfamily_Protein kinase-like (PK-like),HMMPfam_Pkinase
STK32B	55351	genome.wustl.edu	37	4	5468527	5468527	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_018401.1	+1	provisional	p.R336I	0.977	193	0%	128	10.9%	0	-	possibly_damaging(0.816)	deleterious(0.02)	deleterious(0.692)	NULL
EVC2	132884	genome.wustl.edu	37	4	5624289	5624289	+	Nonsense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_147127.4	-1	reviewed	p.R826*	0.918	30	0%	29	34.5%	1	0%	-	-	-	NULL
EVC2	132884	genome.wustl.edu	37	4	5642310	5642310	+	Missense_Mutation	SNP	T	T	G	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_147127.4	-1	reviewed	p.E467D	0.008	430	0%	246	28.5%	2	0%	possibly_damaging(0.851)	tolerated(0.29)	neutral(0.356)	NULL
EVC	2121	genome.wustl.edu	37	4	5809983	5809983	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_153717.2	+1	reviewed	p.R873C	0.901	63	0%	41	26.8%	0	-	probably_damaging(0.999)	deleterious(0.02)	deleterious(0.873)	NULL
CRMP1	1400	genome.wustl.edu	37	4	5837659	5837659	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001014809.1	-1	reviewed	p.A536S	1.000	128	0%	109	11.9%	21	0%	benign(0.005)	deleterious(0.04)	neutral(0.349)	superfamily_Metalo_hydrolase
CRMP1	1400	genome.wustl.edu	37	4	5841362	5841362	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001014809.1	-1	reviewed	p.T399	0.477	67	0%	101	11.9%	18	0%	-	-	-	HMMPfam_Amidohydro_1,superfamily_Metalo_hydrolase,superfamily_SSF51556
C4orf50	389197	genome.wustl.edu	37	4	5961253	5961253	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_207405.1	-1	predicted	p.G227E	0.000	120	0%	74	28.4%	0	-	probably_damaging(0.998)	deleterious(0)	deleterious(0.919)	NULL
C4orf50	389197	genome.wustl.edu	37	4	5977676	5977676	+	Nonsense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_207405.1	-1	predicted	p.E59*	0.003	313	0%	196	21.9%	0	-	-	-	-	NULL
JAKMIP1	152789	genome.wustl.edu	37	4	6055779	6055779	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001099433.1	-1	validated	p.E602K	1.000	431	0%	367	27.5%	1	0%	possibly_damaging(0.791)	deleterious(0)	deleterious(0.741)	NULL
WFS1	7466	genome.wustl.edu	37	4	6302542	6302542	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_006005.3	+1	reviewed	p.F340L	1.000	452	0%	675	12.6%	50	0%	benign(0.038)	tolerated(0.95)	neutral(0.002)	NULL
MAN2B2	23324	genome.wustl.edu	37	4	6588778	6588778	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	ENST00000505907	+1	known	p.T148M	1.000	72	0%	122	16.4%	2	50%	-	-	-	HMMPfam_Glyco_hydro_38,superfamily_Glycoside hydrolase/deacetylase
KIAA0232	9778	genome.wustl.edu	37	4	6826397	6826397	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001100590.1	+1	validated	p.D73N	1.000	205	0%	90	13.3%	0	-	unknown(0)	deleterious(0)	-	NULL
KIAA0232	9778	genome.wustl.edu	37	4	6865549	6865549	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001100590.1	+1	validated	p.P1147L	1.000	183	0%	45	13.3%	1	0%	probably_damaging(0.974)	deleterious(0)	deleterious(0.861)	NULL
TBC1D14	57533	genome.wustl.edu	37	4	6925665	6925665	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001113361.1	+1	validated	p.T183	0.627	40	0%	54	20.4%	3	0%	-	-	-	NULL
CCDC96	257236	genome.wustl.edu	37	4	7043265	7043265	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_153376.2	-1	validated	p.I467	0.026	222	0.5%	333	11.1%	12	8.3%	-	-	-	NULL
GRPEL1	80273	genome.wustl.edu	37	4	7062633	7062633	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_025196.2	-1	provisional	p.R204C	1.000	92	0%	113	28.3%	20	15%	probably_damaging(1)	deleterious(0)	deleterious(0.945)	HMMPfam_GrpE,PatternScan_GRPE,superfamily_Head domain of nucleotide exchange factor GrpE
GRPEL1	80273	genome.wustl.edu	37	4	7062733	7062733	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_025196.2	-1	provisional	p.F170	0.995	155	0%	163	13.5%	49	2%	-	-	-	HMMPfam_GrpE,PatternScan_GRPE,superfamily_Head domain of nucleotide exchange factor GrpE
PSAPL1	768239	genome.wustl.edu	37	4	7435496	7435496	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001085382.1	-1	validated	p.R371W	0.001	28	0%	31	48.4%	0	-	benign(0.066)	deleterious(0.02)	neutral(0.388)	superfamily_Saposin_like
PSAPL1	768239	genome.wustl.edu	37	4	7436359	7436359	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001085382.1	-1	validated	p.T83M	0.000	43	0%	48	18.8%	0	-	probably_damaging(1)	deleterious(0)	deleterious(0.945)	HMMPfam_SapB_1,HMMSmart_SapB,superfamily_Saposin_like
SORCS2	57537	genome.wustl.edu	37	4	7668922	7668922	+	Silent	SNP	G	G	A	rs142723320	by1000genomes	TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	ENST00000507866	+1	known	p.E348K	0.741	238	0.4%	233	23.2%	0	-	-	-	-	HMMSmart_SM00602,superfamily_Oligoxyloglucan reducing end-specific cellobiohydrolase
AFAP1	60312	genome.wustl.edu	37	4	7770735	7770735	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001134647.1	-1	reviewed	p.S752P	1.000	82	0%	95	27.4%	11	0%	probably_damaging(0.998)	deleterious(0.03)	deleterious(0.839)	NULL
AFAP1	60312	genome.wustl.edu	37	4	7780517	7780517	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001134647.1	-1	reviewed	p.P623	0.000	112	0%	88	25%	6	0%	-	-	-	NULL
ABLIM2	84448	genome.wustl.edu	37	4	7968819	7968819	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001130083.1	-1	validated	p.S612	0.020	115	0%	147	23.8%	1	0%	-	-	-	HMMPfam_VHP,HMMSmart_SM00153,superfamily_VHP Villin headpiece domain
MIR95	407052	genome.wustl.edu	37	4	8007067	8007067	+	RNA	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	ENST00000385072	-1	known	NULL	0.835	66	0%	101	20.8%	0	-	-	-	-	-
ABLIM2	84448	genome.wustl.edu	37	4	8010811	8010811	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001130083.1	-1	validated	p.G481E	0.046	233	0%	284	14.4%	1	0%	possibly_damaging(0.879)	tolerated(0.14)	deleterious(0.592)	NULL
ABLIM2	84448	genome.wustl.edu	37	4	8062707	8062707	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001130083.1	-1	validated	p.E250D	1.000	108	0%	140	19.3%	0	-	probably_damaging(0.999)	deleterious(0)	deleterious(0.935)	HMMPfam_LIM,HMMSmart_SM00132
ABLIM2	84448	genome.wustl.edu	37	4	8062752	8062752	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001130083.1	-1	validated	p.C235	0.987	133	0%	176	30.1%	0	-	-	-	-	HMMPfam_LIM,HMMSmart_SM00132,PatternScan_LIM_DOMAIN_1,superfamily_Glucocorticoid receptor-like (DNA-binding domain)
ABLIM2	84448	genome.wustl.edu	37	4	8098873	8098873	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001130083.1	-1	validated	p.A97	0.964	22	0%	40	22.5%	0	-	-	-	-	HMMPfam_LIM,HMMSmart_SM00132,PatternScan_LIM_DOMAIN_1,superfamily_Glucocorticoid receptor-like (DNA-binding domain)
SH3TC1	54436	genome.wustl.edu	37	4	8217837	8217837	+	Splice_Site	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_018986.3	+1	validated	e5-1	1.000	52	0%	120	14.2%	0	-	-	-	-	-
HTRA3	94031	genome.wustl.edu	37	4	8295892	8295892	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_053044.2	+1	provisional	p.R339W	0.360	102	0%	97	14.4%	91	0%	probably_damaging(0.999)	deleterious(0)	deleterious(0.935)	HMMPfam_Trypsin,superfamily_Trypsin-like serine proteases
GPR78	27201	genome.wustl.edu	37	4	8584293	8584293	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_080819.2	+1	validated	p.R235H	0.022	64	0%	149	14.8%	0	-	probably_damaging(1)	deleterious(0.01)	deleterious(0.905)	HMMPfam_7tm_1,superfamily_Family A G protein-coupled receptor-like
CPZ	8532	genome.wustl.edu	37	4	8621060	8621060	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001014447.1	+1	reviewed	p.A559T	0.051	56	0%	139	23.7%	52	0%	benign(0)	tolerated(0.55)	neutral(0.007)	HMMSmart_SM00631,superfamily_Carboxypeptidase regulatory domain
LOC650293	650293	genome.wustl.edu	37	4	8951918	8951918	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001040071.1	+1	provisional	p.P148S	0.018	531	0%	363	28.7%	0	-	-	-	-	HMMPfam_7tm_1,superfamily_SSF81321
ENSG00000219492	0	genome.wustl.edu	37	4	9388027	9388027	+	Nonsense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	ENST00000508324	-1	known	p.E71*	0.029	221	0%	160	24.4%	0	-	-	-	-	NULL
DRD5	1816	genome.wustl.edu	37	4	9784343	9784343	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_000798.4	+1	reviewed	p.S230	0.766	90	0%	129	24.8%	0	-	-	-	-	HMMPfam_7tm_1,superfamily_Family A G protein-coupled receptor-like
DRD5	1816	genome.wustl.edu	37	4	9784747	9784747	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_000798.4	+1	reviewed	p.F365S	1.000	113	0%	187	25.7%	0	-	probably_damaging(1)	deleterious(0)	deleterious(0.945)	superfamily_Family A G protein-coupled receptor-like
DRD5	1816	genome.wustl.edu	37	4	9784959	9784959	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_000798.4	+1	reviewed	p.R436C	0.261	116	0%	183	12%	0	-	possibly_damaging(0.93)	deleterious(0.01)	deleterious(0.782)	NULL
SLC2A9	56606	genome.wustl.edu	37	4	9987320	9987320	+	Nonsense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_020041.2	-1	reviewed	p.G170*	1.000	155	0%	49	20.4%	1	100%	-	-	-	HMMPfam_Sugar_tr,superfamily_MFS general substrate transporter
WDR1	9948	genome.wustl.edu	37	4	10105609	10105609	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_017491.3	-1	reviewed	p.N47S	1.000	113	0%	143	11.9%	54	7.4%	probably_damaging(0.964)	tolerated(0.1)	deleterious(0.693)	HMMSmart_SM00320,superfamily_WD40 repeat-like
CLNK	116449	genome.wustl.edu	37	4	10599639	10599639	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_052964.2	-1	validated	p.D16N	0.259	493	0.2%	148	20.9%	0	-	probably_damaging(0.999)	deleterious(0)	deleterious(0.935)	NULL
CLNK	116449	genome.wustl.edu	37	4	10599661	10599661	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_052964.2	-1	validated	p.K8	0.997	459	0%	142	14.8%	0	-	-	-	-	NULL
HS3ST1	9957	genome.wustl.edu	37	4	11401039	11401039	+	Silent	SNP	G	G	A	rs138931078	by1000genomes	TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_005114.2	-1	reviewed	p.H197	0.997	56	0%	92	32.6%	4	0%	-	-	-	HMMPfam_Sulfotransfer_1,superfamily_P-loop containing nucleoside triphosphate hydrolases
HS3ST1	9957	genome.wustl.edu	37	4	11401503	11401503	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_005114.2	-1	reviewed	p.D43N	0.001	11	0%	21	42.9%	2	0%	possibly_damaging(0.803)	tolerated(0.47)	neutral(0.314)	NULL
HS3ST1	9957	genome.wustl.edu	37	4	11401509	11401509	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_005114.2	-1	reviewed	p.V41I	0.000	11	0%	22	22.7%	2	0%	benign(0.009)	tolerated(0.97)	neutral(0.001)	NULL
BOD1L	259282	genome.wustl.edu	37	4	13597545	13597545	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_148894.2	-1	validated	p.E2681D	0.992	310	0%	86	11.6%	1	0%	benign(0.002)	tolerated(0.55)	neutral(0.007)	NULL
BOD1L	259282	genome.wustl.edu	37	4	13601487	13601487	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_148894.2	-1	validated	p.R2346K	0.000	232	0%	84	28.6%	4	0%	possibly_damaging(0.94)	deleterious(0)	deleterious(0.830)	NULL
BOD1L	259282	genome.wustl.edu	37	4	13603510	13603510	+	Nonsense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_148894.2	-1	validated	p.E1672*	0.016	333	0%	137	26.3%	3	0%	-	-	-	superfamily_SSF81995
CPEB2	132864	genome.wustl.edu	37	4	15060121	15060121	+	Missense_Mutation	SNP	A	A	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_182485.2	+1	reviewed	p.K401N	1.000	471	0%	91	22%	4	0%	probably_damaging(0.981)	tolerated(0.09)	deleterious(0.722)	HMMSmart_SM00360
CC2D2A	57545	genome.wustl.edu	37	4	15511837	15511837	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001080522.2	+1	reviewed	p.A172T	0.476	301	0%	68	13.2%	5	0%	benign(0.323)	tolerated(0.24)	neutral(0.139)	NULL
CC2D2A	57545	genome.wustl.edu	37	4	15518312	15518312	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001080522.2	+1	reviewed	p.P361H	0.970	172	0%	62	11.3%	0	-	possibly_damaging(0.7)	tolerated(0.1)	deleterious(0.538)	NULL
FBXL5	26234	genome.wustl.edu	37	4	15646301	15646301	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_012161.2	-1	reviewed	p.D39N	1.000	200	0%	139	33.1%	3	0%	probably_damaging(1)	deleterious(0)	deleterious(0.945)	NULL
FAM200B	285550	genome.wustl.edu	37	4	15689677	15689677	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001145191.1	+1	validated	p.S359R	0.880	160	0%	128	29.7%	2	50%	benign(0.054)	tolerated(0.83)	neutral(0.004)	NULL
FGFBP1	9982	genome.wustl.edu	37	4	15938066	15938066	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_005130.3	-1	validated	p.D64Y	1.000	85	0%	40	35%	3	33.3%	probably_damaging(1)	deleterious(0.01)	deleterious(0.905)	HMMPfam_FGF-BP1
PROM1	8842	genome.wustl.edu	37	4	16020091	16020091	+	Missense_Mutation	SNP	T	T	G	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_006017.2	-1	reviewed	p.Q286P	0.000	317	0%	104	27.9%	1	0%	possibly_damaging(0.891)	tolerated(0.09)	deleterious(0.647)	HMMPfam_Prominin
TAPT1	202018	genome.wustl.edu	37	4	16181251	16181251	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_153365.2	-1	reviewed	p.L316F	1.000	232	0%	45	24.4%	4	0%	probably_damaging(1)	tolerated(0.09)	deleterious(0.796)	HMMPfam_DUF747
LDB2	9079	genome.wustl.edu	37	4	16513690	16513690	+	Nonsense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	ENST00000507464	-1	known	p.R140*	1.000	148	0%	42	16.7%	19	0%	possibly_damaging(0.945)	deleterious(0)	deleterious(0.834)	HMMPfam_LIM_bind
CLRN2	645104	genome.wustl.edu	37	4	17517082	17517082	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001079827.2	+1	reviewed	p.L65I	1.000	286	0%	307	14%	0	-	probably_damaging(0.99)	deleterious(0)	deleterious(0.886)	NULL
LAP3	51056	genome.wustl.edu	37	4	17600150	17600150	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_015907.2	+1	validated	p.P383	0.526	205	0%	102	13.7%	30	6.6%	-	-	-	HMMPfam_Peptidase_M17,superfamily_Zn-dependent exopeptidases
FAM184B	27146	genome.wustl.edu	37	4	17709371	17709371	+	Missense_Mutation	SNP	T	T	G	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_015688.1	-1	validated	p.N311H	0.999	240	0%	122	18%	0	-	probably_damaging(0.996)	tolerated(0.16)	deleterious(0.521)	NULL
SLIT2	9353	genome.wustl.edu	37	4	20487893	20487893	+	Missense_Mutation	SNP	T	T	G	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_004787.1	+1	provisional	p.F204V	1.000	357	0%	126	14.3%	0	-	benign(0.024)	tolerated(0.06)	neutral(0.324)	superfamily_L domain-like
SLIT2	9353	genome.wustl.edu	37	4	20521072	20521072	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_004787.1	+1	provisional	p.L376F	1.000	304	0%	360	10.3%	0	-	probably_damaging(1)	deleterious(0)	deleterious(0.945)	HMMSmart_SM00369,superfamily_L domain-like
SLIT2	9353	genome.wustl.edu	37	4	20619270	20619270	+	Nonsense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_004787.1	+1	provisional	p.R1449*	0.725	100	0%	43	16.3%	2	0%	-	-	-	superfamily_EGF/Laminin
SLIT2	9353	genome.wustl.edu	37	4	20620420	20620420	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_004787.1	+1	provisional	p.D1460Y	1.000	154	0%	53	26.4%	3	0%	probably_damaging(0.995)	tolerated(0.11)	deleterious(0.729)	HMMSmart_SM00041
GPR125	166647	genome.wustl.edu	37	4	22439935	22439935	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_145290.2	-1	validated	p.E343D	0.990	292	0%	74	23%	3	33.3%	possibly_damaging(0.757)	tolerated(0.12)	deleterious(0.540)	superfamily_Hormone receptor domain (HRM Pfam 02793),superfamily_Immunoglobulin
GBA3	57733	genome.wustl.edu	37	4	22737633	22737633	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_020973.3	+1	validated	p.C30R	0.998	366	0%	104	15.4%	0	-	possibly_damaging(0.624)	deleterious(0)	deleterious(0.662)	HMMPfam_Glyco_hydro_1,superfamily_(Trans)glycosidases
GBA3	57733	genome.wustl.edu	37	4	22820428	22820428	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_020973.3	+1	validated	p.S431I	0.000	323	0%	75	10.7%	0	-	benign(0.007)	tolerated(0.14)	neutral(0.249)	HMMPfam_Glyco_hydro_1,superfamily_(Trans)glycosidases
PPARGC1A	10891	genome.wustl.edu	37	4	23814706	23814706	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_013261.3	-1	reviewed	p.T612	0.000	229	0%	90	25.6%	0	-	-	-	-	NULL
PPARGC1A	10891	genome.wustl.edu	37	4	23814716	23814716	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_013261.3	-1	reviewed	p.R609I	1.000	220	0%	93	25.8%	0	-	unknown(0)	tolerated(0.11)	-	NULL
PPARGC1A	10891	genome.wustl.edu	37	4	23831137	23831137	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_013261.3	-1	reviewed	p.Q167H	1.000	653	0%	175	30.3%	0	-	benign(0.005)	tolerated(0.28)	neutral(0.032)	NULL
PPARGC1A	10891	genome.wustl.edu	37	4	23833276	23833276	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_013261.3	-1	reviewed	p.A111	0.778	257	0%	59	23.7%	1	0%	-	-	-	NULL
LGI2	55203	genome.wustl.edu	37	4	25005432	25005432	+	Nonsense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_018176.3	-1	validated	p.R427*	0.163	85	0%	42	14.3%	9	0%	-	-	-	HMMPfam_EPTP
LGI2	55203	genome.wustl.edu	37	4	25026458	25026458	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_018176.3	-1	validated	p.R133C	1.000	344	0%	350	10.3%	5	0%	probably_damaging(1)	deleterious(0)	deleterious(0.945)	HMMSmart_SM00369,superfamily_L domain-like
ANAPC4	29945	genome.wustl.edu	37	4	25404628	25404628	+	Missense_Mutation	SNP	T	T	G	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_013367.2	+1	reviewed	p.F417C	1.000	641	0%	131	18.3%	3	66.6%	probably_damaging(1)	deleterious(0)	deleterious(0.945)	NULL
RBPJ	3516	genome.wustl.edu	37	4	26417170	26417170	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_005349.2	+1	validated	p.D90N	1.000	215	0%	101	27.7%	13	7.6%	benign(0.001)	tolerated(0.39)	neutral(0.016)	superfamily_p53-like transcription factors,HMMPfam_LAG1-DNAbind
CCKAR	886	genome.wustl.edu	37	4	26483749	26483749	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_000730.2	-1	reviewed	p.S266	0.473	92	0%	103	11.7%	0	-	-	-	-	HMMPfam_7tm_1,superfamily_Family A G protein-coupled receptor-like
CCKAR	886	genome.wustl.edu	37	4	26484821	26484821	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_000730.2	-1	reviewed	p.Y237	1.000	334	0%	261	26.4%	0	-	-	-	-	HMMPfam_7tm_1,superfamily_Family A G protein-coupled receptor-like
CCKAR	886	genome.wustl.edu	37	4	26491001	26491001	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_000730.2	-1	reviewed	p.R73Q	1.000	164	0%	116	14.7%	0	-	probably_damaging(0.991)	deleterious(0)	deleterious(0.889)	HMMPfam_7tm_1,superfamily_Family A G protein-coupled receptor-like
PCDH7	5099	genome.wustl.edu	37	4	30725852	30725852	+	Nonsense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	ENST00000511884	+1	known	p.G626*	1.000	280	0%	437	20.8%	3	0%	benign(0.228)	tolerated(0.07)	neutral(0.342)	HMMPfam_Protocadherin
ARAP2	116984	genome.wustl.edu	37	4	36230270	36230270	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_015230.2	-1	reviewed	p.R280Q	1.000	305	0%	88	17%	0	-	benign(0.031)	tolerated(0.12)	neutral(0.262)	NULL
DTHD1	401124	genome.wustl.edu	37	4	36285597	36285597	+	Nonsense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	ENST00000507598	+1	known	p.E6*	1.000	17	0.000	9	0.444	0	-	-	-	-	NULL
DTHD1	401124	genome.wustl.edu	37	4	36295186	36295186	+	Silent	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001136536.3	+1	validated	p.I129	0.992	282	0%	82	15.9%	0	-	-	-	-	NULL
DTHD1	401124	genome.wustl.edu	37	4	36309926	36309926	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001136536.3	+1	validated	p.V346L	0.060	202	0%	70	22.9%	0	-	benign(0.007)	tolerated(0.21)	neutral(0.044)	NULL
KIAA1239	57495	genome.wustl.edu	37	4	37446853	37446853	+	Silent	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001144990.1	+1	validated	p.V1081	1.000	247	0%	148	37.8%	0	-	-	-	-	superfamily_WD40_like
KIAA1239	57495	genome.wustl.edu	37	4	37447325	37447325	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001144990.1	+1	validated	p.L1239M	1.000	119	0%	81	12.3%	0	-	probably_damaging(0.996)	tolerated(0.28)	deleterious(0.493)	superfamily_WD40_like
KIAA1239	57495	genome.wustl.edu	37	4	37448208	37448208	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001144990.1	+1	validated	p.S1533Y	1.000	244	0%	191	27.7%	0	-	probably_damaging(0.991)	deleterious(0.02)	deleterious(0.827)	superfamily_WD40_like
TBC1D1	23216	genome.wustl.edu	37	4	38091583	38091583	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_015173.2	+1	validated	p.R694Q	0.366	108	0%	29	20.7%	38	0%	probably_damaging(1)	tolerated(0.36)	deleterious(0.520)	NULL
TLR6	10333	genome.wustl.edu	37	4	38829616	38829616	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_006068.3	-1	validated	p.S493	0.037	247	0.4%	229	24.5%	2	0%	-	-	-	superfamily_SSF52058
FAM114A1	92689	genome.wustl.edu	37	4	38910314	38910314	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_138389.2	+1	validated	p.K253N	1.000	194	0%	62	12.9%	11	0%	probably_damaging(1)	deleterious(0)	deleterious(0.945)	HMMPfam_DUF719
KLHL5	51088	genome.wustl.edu	37	4	39088137	39088137	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	ENST00000381933	+1	known	p.S352N	0.998	136	0%	24	16.7%	3	0%	-	-	-	HMMPfam_BACK
WDR19	57728	genome.wustl.edu	37	4	39233857	39233857	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_025132.3	+1	reviewed	p.Y740H	1.000	251	0%	63	27%	6	16.6%	possibly_damaging(0.882)	deleterious(0.03)	deleterious(0.709)	NULL
WDR19	57728	genome.wustl.edu	37	4	39257491	39257491	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_025132.3	+1	reviewed	p.D1009Y	1.000	339	0%	82	23.2%	4	25%	probably_damaging(0.989)	deleterious(0.01)	deleterious(0.845)	superfamily_TPR-like
WDR19	57728	genome.wustl.edu	37	4	39278719	39278719	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_025132.3	+1	reviewed	p.L1266F	1.000	302	0%	169	26.6%	48	18.7%	possibly_damaging(0.637)	tolerated(0.1)	deleterious(0.509)	NULL
RFC1	5981	genome.wustl.edu	37	4	39304418	39304418	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_002913.3	-1	reviewed	p.R760H	1.000	174	0%	39	15.4%	11	0%	probably_damaging(1)	deleterious(0)	deleterious(0.945)	HMMSmart_AAA,superfamily_SSF52540
RFC1	5981	genome.wustl.edu	37	4	39310548	39310548	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_002913.3	-1	reviewed	p.P531	0.057	304	0%	118	22.9%	6	0%	-	-	-	NULL
RFC1	5981	genome.wustl.edu	37	4	39314446	39314446	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_002913.3	-1	reviewed	p.V437L	1.000	344	0.3%	120	16.7%	2	0%	possibly_damaging(0.872)	deleterious(0.01)	deleterious(0.745)	HMMPfam_BRCT,HMMSmart_BRCT,superfamily_BRCT
RFC1	5981	genome.wustl.edu	37	4	39353002	39353002	+	Missense_Mutation	SNP	G	G	C	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_002913.3	-1	reviewed	p.T33S	0.856	748	0%	241	28.2%	3	33.3%	benign(0.004)	tolerated(0.35)	neutral(0.021)	NULL
LIAS	11019	genome.wustl.edu	37	4	39472861	39472861	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_006859.2	+1	reviewed	p.R297C	1.000	411	0%	307	23.5%	4	0%	probably_damaging(1)	deleterious(0)	deleterious(0.945)	HMMSmart_Elp3,superfamily_SSF102114
UBE2K	3093	genome.wustl.edu	37	4	39776532	39776532	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_005339.4	+1	reviewed	p.Q126H	1.000	147	0%	177	16.4%	37	2.7%	possibly_damaging(0.849)	deleterious(0)	deleterious(0.770)	HMMPfam_UQ_con,HMMSmart_SM00212,superfamily_UBC-like
PDS5A	23244	genome.wustl.edu	37	4	39929623	39929623	+	Silent	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	ENST00000513798	-1	known	p.S35Y	1.000	277	0%	82	13.4%	3	0%	-	-	-	NULL
N4BP2	55728	genome.wustl.edu	37	4	40122331	40122331	+	Missense_Mutation	SNP	A	A	C	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_018177.3	+1	reviewed	p.K867T	0.003	177	0%	53	30.2%	0	-	benign(0.071)	deleterious(0.02)	neutral(0.388)	NULL
RHOH	399	genome.wustl.edu	37	4	40245164	40245164	+	Missense_Mutation	SNP	G	G	C	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_004310.3	+1	validated	p.S53T	1.000	161	0%	62	16.1%	4	0%	possibly_damaging(0.875)	tolerated(0.5)	neutral(0.350)	HMMSmart_SM00173,HMMSmart_SM00174,HMMSmart_SM00175,HMMPfam_Ras,superfamily_P-loop containing nucleoside triphosphate hydrolases
RHOH	399	genome.wustl.edu	37	4	40245552	40245552	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_004310.3	+1	validated	p.L182	0.770	32	0%	19	26.3%	16	0%	-	-	-	NULL
CHRNA9	55584	genome.wustl.edu	37	4	40339290	40339290	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_017581.2	+1	reviewed	p.L92I	1.000	110	0%	28	28.6%	0	-	probably_damaging(0.994)	deleterious(0)	deleterious(0.897)	HMMPfam_Neur_chan_LBD,superfamily_Nicotinic receptor ligand binding domain-like
CHRNA9	55584	genome.wustl.edu	37	4	40351171	40351171	+	Missense_Mutation	SNP	A	A	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_017581.2	+1	reviewed	p.N213I	1.000	210	0%	67	22.4%	0	-	probably_damaging(0.997)	deleterious(0)	deleterious(0.911)	HMMPfam_Neur_chan_LBD,superfamily_Nicotinic receptor ligand binding domain-like
RBM47	54502	genome.wustl.edu	37	4	40438530	40438530	+	Nonsense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001098634.1	-1	validated	p.E420*	1.000	393	0%	631	22.7%	0	-	-	-	-	NULL
RBM47	54502	genome.wustl.edu	37	4	40439985	40439985	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001098634.1	-1	validated	p.S309L	1.000	26	0%	56	33.9%	1	100%	benign(0.046)	tolerated(0.18)	neutral(0.059)	HMMPfam_RRM_1,HMMSmart_SM00360,superfamily_RNA-binding domain RBD
RBM47	54502	genome.wustl.edu	37	4	40440206	40440206	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001098634.1	-1	validated	p.I235	1.000	44	0%	87	19.5%	2	0%	-	-	-	NULL
LIMCH1	22998	genome.wustl.edu	37	4	41652466	41652466	+	Missense_Mutation	SNP	A	A	C	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_014988.2	+1	validated	p.E574D	0.035	434	0%	360	24.7%	1	100%	benign(0.049)	tolerated(0.09)	neutral(0.299)	NULL
LIMCH1	22998	genome.wustl.edu	37	4	41699184	41699184	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	ENST00000508466	+1	known	p.G912D	1.000	420	0%	86	15.1%	4	0%	-	-	-	NULL
PHOX2B	8929	genome.wustl.edu	37	4	41749702	41749702	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	ENST00000510424	-1	known	p.S8Y	0.001	7	0.000	15	0.333	0	-	possibly_damaging(0.873)	tolerated(0.12)	deleterious(0.600)	NULL
SLC30A9	10463	genome.wustl.edu	37	4	42080323	42080323	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_006345.3	+1	validated	p.R548K	1.000	177	0%	43	11.6%	10	20%	probably_damaging(0.958)	deleterious(0.04)	deleterious(0.750)	NULL
ATP8A1	10396	genome.wustl.edu	37	4	42416729	42416729	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_006095.2	-1	reviewed	p.T1104	0.322	241	0%	66	30.3%	2	0%	-	-	-	NULL
ATP8A1	10396	genome.wustl.edu	37	4	42553235	42553235	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_006095.2	-1	reviewed	p.D528N	0.989	276	0%	150	20%	0	-	benign(0.001)	tolerated(0.51)	neutral(0.009)	HMMPfam_Hydrolase,superfamily_HAD-like,superfamily_Metal cation-transporting ATPase ATP-binding domain N
ATP8A1	10396	genome.wustl.edu	37	4	42554588	42554588	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_006095.2	-1	reviewed	p.A485T	1.000	355	0%	169	21.3%	1	0%	probably_damaging(0.998)	deleterious(0)	deleterious(0.919)	HMMPfam_Hydrolase,superfamily_HAD-like,superfamily_Metal cation-transporting ATPase ATP-binding domain N
GRXCR1	389207	genome.wustl.edu	37	4	42895363	42895363	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001080476.1	+1	provisional	p.R27Q	1.000	229	0%	59	13.6%	0	-	probably_damaging(0.999)	deleterious(0)	deleterious(0.935)	NULL
GRXCR1	389207	genome.wustl.edu	37	4	42965087	42965087	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001080476.1	+1	provisional	p.R188Q	0.960	394	0.5%	69	20.3%	0	-	probably_damaging(1)	tolerated(0.1)	deleterious(0.786)	HMMPfam_Glutaredoxin,superfamily_Thiordxn-like_fd
GUF1	60558	genome.wustl.edu	37	4	44682715	44682715	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	ENST00000513775	+1	known	p.Q57R	1.000	249	0%	345	15.7%	0	-	benign(0.001)	-	-	NULL
GUF1	60558	genome.wustl.edu	37	4	44688623	44688623	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_021927.2	+1	validated	p.D277	0.900	396	0%	206	25.7%	0	-	-	-	-	HMMPfam_GTP_EFTU_D2,superfamily_Translat_factor
GABRG1	2565	genome.wustl.edu	37	4	46099269	46099269	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_173536.3	-1	reviewed	p.L68M	1.000	547	0%	126	20.6%	0	-	probably_damaging(0.998)	deleterious(0)	deleterious(0.919)	HMMPfam_Neur_chan_LBD,superfamily_Neur_chan_LBD
ATP10D	57205	genome.wustl.edu	37	4	47578899	47578899	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_020453.3	+1	validated	p.P1159H	1.000	538	0%	217	23%	0	-	probably_damaging(1)	deleterious(0)	deleterious(0.945)	NULL
CORIN	10699	genome.wustl.edu	37	4	47605525	47605525	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_006587.2	-1	reviewed	p.D901Y	0.995	134	0%	36	27.8%	0	-	benign(0.355)	deleterious(0.04)	neutral(0.461)	HMMPfam_Trypsin,HMMSmart_SM00020,superfamily_Trypsin-like serine proteases
NIPAL1	152519	genome.wustl.edu	37	4	48032152	48032152	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_207330.1	+1	provisional	p.S110Y	1.000	515	0%	247	10.5%	0	-	probably_damaging(0.987)	deleterious(0)	deleterious(0.881)	HMMPfam_DUF803
TXK	7294	genome.wustl.edu	37	4	48096150	48096150	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_003328.2	-1	validated	p.R218I	1.000	332	0%	170	24.1%	0	-	probably_damaging(0.961)	deleterious(0)	deleterious(0.849)	HMMPfam_SH2,HMMSmart_SH2,superfamily_SSF55550
TEC	7006	genome.wustl.edu	37	4	48230548	48230548	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_003215.2	-1	reviewed	p.E28D	1.000	509	0%	141	23.4%	1	100%	possibly_damaging(0.546)	tolerated(0.12)	neutral(0.446)	HMMPfam_PH,HMMSmart_SM00233,superfamily_PH domain-like
SLAIN2	57606	genome.wustl.edu	37	4	48422342	48422342	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_020846.1	+1	validated	p.A521T	0.977	306	0%	56	23.2%	23	21.7%	benign(0)	tolerated(0.99)	-	NULL
FRYL	285527	genome.wustl.edu	37	4	48542830	48542830	+	Silent	SNP	A	A	G	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	ENST00000514617	-1	known	p.F815L	1.000	284	0%	52	21.2%	0	-	-	-	-	NULL
FRYL	285527	genome.wustl.edu	37	4	48559647	48559647	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	ENST00000514617	-1	known	p.R187*	0.348	149	0%	52	11.5%	2	0%	-	-	-	NULL
FRYL	285527	genome.wustl.edu	37	4	48569347	48569347	+	Silent	SNP	T	T	C	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_015030.1	-1	validated	p.E1029	1.000	607	0%	133	12%	0	-	-	-	-	NULL
OCIAD1	54940	genome.wustl.edu	37	4	48850463	48850463	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001079839.2	+1	validated	p.L81F	1.000	277	0%	59	25.4%	46	8.6%	benign(0)	tolerated(1)	-	HMMPfam_OCIA
LRRC66	339977	genome.wustl.edu	37	4	52861871	52861871	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001024611.1	-1	provisional	p.E439D	0.001	141	0%	59	23.7%	1	100%	benign(0.261)	tolerated(0.34)	neutral(0.050)	NULL
SPATA18	132671	genome.wustl.edu	37	4	52948646	52948646	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_145263.2	+1	provisional	p.K483N	1.000	243	0%	153	34%	0	-	probably_damaging(1)	deleterious(0)	deleterious(0.945)	NULL
USP46	64854	genome.wustl.edu	37	4	53464861	53464861	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_022832.3	-1	validated	p.R311H	1.000	289	0%	106	12.3%	2	0%	benign(0.063)	tolerated(1)	neutral(0.004)	HMMPfam_UCH,PatternScan_UCH_2_2,superfamily_Cysteine proteinases
SCFD2	152579	genome.wustl.edu	37	4	53786966	53786966	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_152540.3	-1	validated	p.R545W	0.674	221	0.5%	48	20.8%	5	80%	probably_damaging(0.996)	deleterious(0)	deleterious(0.906)	superfamily_Sec1/munc18-like (SM) proteins
SCFD2	152579	genome.wustl.edu	37	4	54231667	54231667	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_152540.3	-1	validated	p.N148D	1.000	81	0%	113	13.3%	0	-	probably_damaging(0.996)	tolerated(0.46)	deleterious(0.474)	NULL
FIP1L1	81608	genome.wustl.edu	37	4	54325596	54325596	+	Nonsense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_030917.3	+1	reviewed	p.E589*	0.962	130	0%	50	32%	32	15.6%	-	-	-	NULL
GSX2	170825	genome.wustl.edu	37	4	54967983	54967983	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_133267.2	+1	validated	p.A270V	0.951	78	0%	144	13.2%	0	-	benign(0.004)	tolerated(0.22)	neutral(0.042)	NULL
PDGFRA	5156	genome.wustl.edu	37	4	55127381	55127381	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_006206.4	+1	reviewed	p.W57R	1.000	271	0%	99	10.1%	0	-	probably_damaging(1)	deleterious(0)	deleterious(0.945)	HMMSmart_SM00408,HMMSmart_SM00409,HMMPfam_ig,superfamily_Immunoglobulin
PDGFRA	5156	genome.wustl.edu	37	4	55129977	55129977	+	Missense_Mutation	SNP	T	T	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_006206.4	+1	reviewed	p.S171T	1.000	211	0%	95	24.2%	2	0%	benign(0.026)	tolerated(0.31)	neutral(0.028)	HMMSmart_SM00409,superfamily_Immunoglobulin
PDGFRA	5156	genome.wustl.edu	37	4	55152120	55152120	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_006206.4	+1	reviewed	p.S851L	0.923	187	0.5%	55	18.2%	5	0%	probably_damaging(1)	deleterious(0.05)	deleterious(0.845)	HMMPfam_Pkinase_Tyr,HMMSmart_SM00219,HMMSmart_SM00220,superfamily_Protein kinase-like (PK-like)
KIT	3815	genome.wustl.edu	37	4	55524206	55524206	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_000222.2	+1	reviewed	p.D9N	1.000	35	0%	53	11.3%	0	-	probably_damaging(0.996)	deleterious(0.02)	deleterious(0.845)	NULL
KIT	3815	genome.wustl.edu	37	4	55594177	55594177	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_000222.2	+1	reviewed	p.P627L	1.000	203	0%	36	44.4%	3	0%	probably_damaging(0.969)	deleterious(0)	deleterious(0.856)	HMMPfam_Pkinase_Tyr,HMMSmart_TyrKc,superfamily_Kinase_like
KDR	3791	genome.wustl.edu	37	4	55946206	55946206	+	Nonsense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_002253.2	-1	reviewed	p.E1325*	1.000	366	0%	459	24.2%	21	0%	-	-	-	NULL
KDR	3791	genome.wustl.edu	37	4	55973957	55973957	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_002253.2	-1	reviewed	p.P453	0.000	321	0%	103	18.4%	1	0%	-	-	-	HMMSmart_IG,superfamily_SSF48726
CLOCK	9575	genome.wustl.edu	37	4	56308687	56308687	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_004898.2	-1	reviewed	p.G673R	0.959	384	0%	249	17.3%	6	16.6%	possibly_damaging(0.539)	deleterious(0.04)	deleterious(0.531)	NULL
CLOCK	9575	genome.wustl.edu	37	4	56322401	56322401	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_004898.2	-1	reviewed	p.L287M	1.000	200	0%	113	13.3%	0	-	probably_damaging(0.996)	deleterious(0)	deleterious(0.906)	HMMSmart_SM00091,HMMPfam_PAS_3,superfamily_PYP-like sensor domain (PAS domain)
CLOCK	9575	genome.wustl.edu	37	4	56325133	56325133	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_004898.2	-1	reviewed	p.T240A	1.000	193	0%	89	20.2%	0	-	benign(0)	tolerated(0.16)	neutral(0.059)	NULL
EXOC1	55763	genome.wustl.edu	37	4	56750054	56750054	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001024924.1	+1	reviewed	p.K430N	1.000	259	0%	31	12.9%	7	0%	probably_damaging(0.955)	deleterious(0)	deleterious(0.843)	HMMPfam_Sec3
EXOC1	55763	genome.wustl.edu	37	4	56770599	56770599	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001024924.1	+1	reviewed	p.T875A	1.000	462	0%	116	22.4%	21	9.5%	probably_damaging(0.966)	deleterious(0.01)	deleterious(0.814)	NULL
KIAA1211	57482	genome.wustl.edu	37	4	57181003	57181003	+	Silent	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_020722.1	+1	validated	p.S445	0.000	56	0%	115	31.3%	2	0%	-	-	-	NULL
KIAA1211	57482	genome.wustl.edu	37	4	57181132	57181132	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_020722.1	+1	validated	p.T488	0.000	28	0%	53	13.2%	0	-	-	-	-	NULL
KIAA1211	57482	genome.wustl.edu	37	4	57181664	57181664	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_020722.1	+1	validated	p.A666T	0.984	8	0.000	23	0.217	3	33.3%	probably_damaging(1)	deleterious(0)	deleterious(0.945)	NULL
AASDH	132949	genome.wustl.edu	37	4	57219632	57219632	+	Missense_Mutation	SNP	A	A	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_181806.2	-1	validated	p.L505H	1.000	257	0%	65	18.5%	0	-	probably_damaging(1)	deleterious(0)	deleterious(0.945)	superfamily_Acetyl-CoA synthetase-like
AASDH	132949	genome.wustl.edu	37	4	57244433	57244433	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_181806.2	-1	validated	p.H183	0.027	412	0%	182	29.7%	0	-	-	-	-	HMMPfam_AMP-binding,superfamily_Acetyl-CoA synthetase-like
AASDH	132949	genome.wustl.edu	37	4	57250508	57250508	+	Splice_Site	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_181806.2	-1	validated	e1-1	0.001	94	0%	56	14.3%	0	-	-	-	-	-
PPAT	5471	genome.wustl.edu	37	4	57269293	57269293	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_002703.3	-1	reviewed	p.D192Y	1.000	371	0%	152	19.1%	0	-	probably_damaging(0.997)	deleterious(0)	deleterious(0.911)	HMMPfam_GATase_2,superfamily_N-terminal nucleophile aminohydrolases (Ntn hydrolases)
ARL9	132946	genome.wustl.edu	37	4	57389933	57389933	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_206919.1	+1	validated	p.R88K	1.000	237	0%	199	24.1%	2	50%	probably_damaging(0.998)	deleterious(0.03)	deleterious(0.839)	HMMPfam_Arf,superfamily_P-loop containing nucleoside triphosphate hydrolases
REST	5978	genome.wustl.edu	37	4	57777709	57777709	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	ENST00000358605	+1	known	p.R302K	0.014	23	0%	48	35.4%	0	-	possibly_damaging(0.88)	tolerated(0.07)	deleterious(0.662)	superfamily_C2H2 and C2HC zinc fingers
REST	5978	genome.wustl.edu	37	4	57786025	57786025	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_005612.3	+1	reviewed	p.R324H	1.000	289	0.3%	170	12.9%	0	-	probably_damaging(1)	deleterious(0)	deleterious(0.945)	HMMPfam_zf-C2H2,HMMSmart_ZnF_C2H2,superfamily_SSF57667
REST	5978	genome.wustl.edu	37	4	57796436	57796436	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_005612.3	+1	reviewed	p.R471I	1.000	100	0%	81	24.7%	6	16.6%	possibly_damaging(0.667)	deleterious(0.03)	deleterious(0.601)	NULL
POLR2B	5431	genome.wustl.edu	37	4	57856935	57856935	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_000938.1	+1	reviewed	p.G38	0.966	419	0%	407	24.8%	2	0%	-	-	-	HMMPfam_RNA_pol_Rpb2_1,superfamily_beta and beta-prime subunits of DNA dependent RNA-polymerase
POLR2B	5431	genome.wustl.edu	37	4	57860967	57860967	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_000938.1	+1	reviewed	p.L171I	1.000	313	0%	201	10.9%	4	0%	probably_damaging(0.987)	tolerated(0.07)	deleterious(0.756)	HMMPfam_RNA_pol_Rpb2_1,superfamily_beta and beta-prime subunits of DNA dependent RNA-polymerase
LPHN3	23284	genome.wustl.edu	37	4	62910216	62910216	+	Nonsense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_015236.4	+1	reviewed	p.E1187*	1.000	233	0%	52	11.5%	0	-	-	-	-	HMMPfam_Latrophilin
LPHN3	23284	genome.wustl.edu	37	4	62935918	62935918	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	ENST00000502815	+1	known	p.R683*	0.800	77	1.3%	36	22.2%	0	-	-	-	-	HMMPfam_Latrophilin
LOC644578	644578	genome.wustl.edu	37	4	64216475	64216475	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	XM_927694.2	+1	model	p.T270A	0.983	75	0%	126	22.2%	0	-	-	-	-	"HMMPfam_La,HMMSmart_SM00715,superfamily_""Winged helix"" DNA-binding domain"
TECRL	253017	genome.wustl.edu	37	4	65175614	65175614	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001010874.4	-1	validated	p.R196Q	0.644	239	0%	47	14.9%	0	-	probably_damaging(1)	deleterious(0)	deleterious(0.945)	NULL
EPHA5	2044	genome.wustl.edu	37	4	66201822	66201822	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_004439.5	-1	reviewed	p.G894S	1.000	239	0%	103	23.3%	0	-	possibly_damaging(0.733)	deleterious(0.01)	deleterious(0.673)	HMMPfam_Pkinase_Tyr,HMMSmart_SM00219,HMMSmart_SM00220,superfamily_Protein kinase-like (PK-like)
EPHA5	2044	genome.wustl.edu	37	4	66217299	66217299	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_004439.5	-1	reviewed	p.F772	1.000	174	0%	62	19.4%	0	-	-	-	-	HMMPfam_Pkinase_Tyr,HMMSmart_SM00219,HMMSmart_SM00220,superfamily_Protein kinase-like (PK-like)
EPHA5	2044	genome.wustl.edu	37	4	66361179	66361179	+	Missense_Mutation	SNP	T	T	G	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_004439.5	-1	reviewed	p.E331D	1.000	310	0%	62	24.2%	0	-	benign(0.012)	tolerated(0.31)	neutral(0.028)	NULL
EPHA5	2044	genome.wustl.edu	37	4	66467866	66467866	+	Missense_Mutation	SNP	G	G	A	rs56375573		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_004439.5	-1	reviewed	p.R135W	1.000	191	0%	58	19%	0	-	probably_damaging(1)	deleterious(0)	deleterious(0.945)	HMMPfam_Ephrin_lbd,HMMSmart_SM00615,superfamily_Galactose-binding domain-like
CENPC1	1060	genome.wustl.edu	37	4	68338373	68338373	+	Missense_Mutation	SNP	T	T	G	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001812.2	-1	reviewed	p.N928H	1.000	265	0%	51	29.4%	21	19%	probably_damaging(0.997)	deleterious(0)	deleterious(0.911)	superfamily_RmlC-like cupins,HMMPfam_Cupin_2
CENPC1	1060	genome.wustl.edu	37	4	68379879	68379879	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001812.2	-1	reviewed	p.E453K	0.068	511	0%	114	30.7%	4	0%	benign(0)	tolerated(1)	-	NULL
CENPC1	1060	genome.wustl.edu	37	4	68385038	68385038	+	Missense_Mutation	SNP	T	T	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001812.2	-1	reviewed	p.N172Y	0.042	351	0%	65	29.2%	1	0%	probably_damaging(0.982)	deleterious(0.01)	deleterious(0.832)	NULL
CENPC1	1060	genome.wustl.edu	37	4	68405598	68405598	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001812.2	-1	reviewed	p.R64H	0.301	615	0%	410	22%	0	-	benign(0)	tolerated(0.14)	neutral(0.249)	NULL
STAP1	26228	genome.wustl.edu	37	4	68441127	68441127	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_012108.2	+1	reviewed	p.D73Y	0.986	284	0%	73	21.9%	0	-	probably_damaging(0.971)	tolerated(0.05)	deleterious(0.758)	HMMPfam_PH,HMMSmart_SM00233,superfamily_PH domain-like
UBA6	55236	genome.wustl.edu	37	4	68534388	68534388	+	Missense_Mutation	SNP	T	T	G	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_018227.5	-1	validated	p.N225T	1.000	369	0%	71	19.7%	3	33.3%	benign(0.122)	tolerated(0.21)	neutral(0.054)	superfamily_Activating enzymes of the ubiquitin-like proteins
UBA6	55236	genome.wustl.edu	37	4	68543398	68543398	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_018227.5	-1	validated	p.Y132	1.000	493	0%	90	26.7%	1	0%	-	-	-	HMMPfam_ThiF,superfamily_Activating enzymes of the ubiquitin-like proteins
TMPRSS11A	339967	genome.wustl.edu	37	4	68777071	68777071	+	Missense_Mutation	SNP	T	T	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_182606.3	-1	validated	p.T419S	1.000	578	0%	270	24.1%	0	-	possibly_damaging(0.935)	deleterious(0)	deleterious(0.825)	superfamily_Trypsin-like serine proteases
TMPRSS11A	339967	genome.wustl.edu	37	4	68784939	68784939	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_182606.3	-1	validated	p.P238Q	0.084	279	0%	117	20.5%	0	-	probably_damaging(0.999)	deleterious(0)	deleterious(0.935)	HMMPfam_Trypsin,HMMSmart_SM00020,superfamily_Trypsin-like serine proteases
TMPRSS11A	339967	genome.wustl.edu	37	4	68789864	68789864	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_182606.3	-1	validated	p.E171K	0.935	372	0%	148	24.3%	0	-	benign(0)	tolerated(0.21)	neutral(0.044)	NULL
TMPRSS11F	389208	genome.wustl.edu	37	4	68930602	68930602	+	Silent	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_207407.2	-1	validated	p.V272	0.094	404	0%	81	29.6%	0	-	-	-	-	HMMPfam_Trypsin,HMMSmart_Tryp_SPc,superfamily_Pept_Ser_Cys
YTHDC1	91746	genome.wustl.edu	37	4	69203573	69203573	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001031732.2	-1	validated	p.R59Q	1.000	405	0%	154	11%	10	10%	probably_damaging(0.995)	deleterious(0.01)	deleterious(0.863)	NULL
YTHDC1	91746	genome.wustl.edu	37	4	69204057	69204057	+	Missense_Mutation	SNP	T	T	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001031732.2	-1	validated	p.E25V	1.000	633	0%	231	19.9%	7	0%	probably_damaging(0.98)	deleterious(0)	deleterious(0.869)	NULL
UGT2B10	7365	genome.wustl.edu	37	4	69696412	69696412	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001075.4	+1	validated	p.R468C	1.000	467	0.2%	111	13.5%	2	0%	benign(0.02)	deleterious(0.01)	neutral(0.407)	HMMPfam_UDPGT,superfamily_UDP-Glycosyltransferase/glycogen phosphorylase
UGT2B7	7364	genome.wustl.edu	37	4	69978308	69978308	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001074.2	+1	validated	p.D482N	0.784	585	0.2%	634	28.7%	22	45.4%	benign(0.003)	tolerated(0.31)	neutral(0.027)	HMMPfam_UDPGT
UGT2B11	10720	genome.wustl.edu	37	4	70070151	70070151	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001073.1	-1	provisional	p.P436L	1.000	513	0%	79	15.2%	0	-	probably_damaging(0.984)	deleterious(0)	deleterious(0.875)	HMMPfam_UDPGT,superfamily_SSF53756
UGT2B28	54490	genome.wustl.edu	37	4	70152578	70152578	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_053039.1	+1	provisional	p.A327T	1.000	745	0%	118	22.9%	0	-	possibly_damaging(0.575)	deleterious(0.04)	deleterious(0.546)	HMMPfam_UDPGT,superfamily_UDP-Glycosyltransferase/glycogen phosphorylase
UGT2B28	54490	genome.wustl.edu	37	4	70160257	70160257	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_053039.1	+1	provisional	p.E440D	1.000	214	0%	37	29.7%	0	-	benign(0.001)	deleterious(0.01)	neutral(0.406)	HMMPfam_UDPGT,superfamily_UDP-Glycosyltransferase/glycogen phosphorylase
UGT2B4	7363	genome.wustl.edu	37	4	70361011	70361011	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_021139.2	-1	validated	p.P190H	0.996	209	0%	68	13.2%	0	-	probably_damaging(0.997)	deleterious(0)	deleterious(0.911)	HMMPfam_UDPGT,superfamily_UDP-Glycosyltransferase/glycogen phosphorylase
UGT2A1	10941	genome.wustl.edu	37	4	70455304	70455304	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_006798.2	-1	validated	p.R457Q	1.000	342	0%	106	16%	0	-	probably_damaging(1)	tolerated(0.36)	deleterious(0.520)	HMMPfam_UDPGT,superfamily_UDP-Glycosyltransferase/glycogen phosphorylase
UGT2A2	574537	genome.wustl.edu	37	4	70504705	70504705	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001105677.1	-1	inferred	p.R210	1.000	125	0%	64	31.2%	0	-	-	-	-	HMMPfam_UDPGT,superfamily_UDP-Glycosyltransferase/glycogen phosphorylase
UGT2A2	574537	genome.wustl.edu	37	4	70504836	70504836	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001105677.1	-1	inferred	p.P167T	1.000	140	0%	82	13.4%	0	-	probably_damaging(1)	deleterious(0.01)	deleterious(0.905)	HMMPfam_UDPGT,superfamily_UDP-Glycosyltransferase/glycogen phosphorylase
UGT2A1	10941	genome.wustl.edu	37	4	70513122	70513122	+	Nonsense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_006798.2	-1	validated	p.E81*	0.979	203	0%	97	15.5%	0	-	-	-	-	HMMPfam_UDPGT,superfamily_UDP-Glycosyltransferase/glycogen phosphorylase
FDCSP	260436	genome.wustl.edu	37	4	71099798	71099798	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_152997.2	+1	validated	p.R51H	0.000	420	0%	115	23.5%	75	0%	probably_damaging(0.973)	-	-	NULL
ENAM	10117	genome.wustl.edu	37	4	71510512	71510512	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_031889.2	+1	reviewed	p.F1123	0.162	154	0%	37	16.2%	0	-	-	-	-	NULL
UTP3	57050	genome.wustl.edu	37	4	71554743	71554743	+	Missense_Mutation	SNP	A	A	C	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_020368.2	+1	validated	p.S117R	1.000	108	0%	77	22.1%	9	22.2%	probably_damaging(0.963)	tolerated(0.39)	neutral(0.422)	NULL
GRSF1	2926	genome.wustl.edu	37	4	71697330	71697330	+	Missense_Mutation	SNP	T	T	G	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_002092.3	-1	reviewed	p.E292D	1.000	443	0%	342	11.4%	32	25%	possibly_damaging(0.721)	tolerated(0.05)	deleterious(0.607)	HMMPfam_RRM_1,HMMSmart_SM00360,superfamily_RNA-binding domain RBD
GRSF1	2926	genome.wustl.edu	37	4	71698036	71698036	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_002092.3	-1	reviewed	p.D268Y	0.641	288	0%	275	11.3%	31	3.2%	possibly_damaging(0.909)	deleterious(0.01)	deleterious(0.768)	HMMPfam_RRM_1,HMMSmart_SM00360,superfamily_RNA-binding domain RBD
SLC4A4	8671	genome.wustl.edu	37	4	72121049	72121049	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001134742.1	+1	reviewed	p.E62D	1.000	324	0%	83	24.1%	0	-	benign(0.07)	tolerated(0.44)	neutral(0.018)	NULL
SLC4A4	8671	genome.wustl.edu	37	4	72222723	72222723	+	Splice_Site	SNP	A	A	C	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001134742.1	+1	reviewed	e5-2	1.000	224	0%	57	31.6%	0	-	-	-	-	-
SLC4A4	8671	genome.wustl.edu	37	4	72319251	72319251	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001134742.1	+1	reviewed	p.A454	0.995	637	0%	186	23.1%	0	-	-	-	-	HMMPfam_HCO3_cotransp
SLC4A4	8671	genome.wustl.edu	37	4	72332291	72332291	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001134742.1	+1	reviewed	p.S543N	1.000	456	0%	77	15.6%	0	-	possibly_damaging(0.832)	deleterious(0)	deleterious(0.762)	HMMPfam_HCO3_cotransp
SLC4A4	8671	genome.wustl.edu	37	4	72423507	72423507	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001134742.1	+1	reviewed	p.R948C	1.000	331	0%	60	30%	0	-	probably_damaging(1)	deleterious(0.01)	deleterious(0.905)	HMMPfam_HCO3_cotransp
NPFFR2	10886	genome.wustl.edu	37	4	72897715	72897715	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_004885.2	+1	reviewed	p.A33T	0.031	35	0%	40	25%	0	-	benign(0.355)	-	-	NULL
NPFFR2	10886	genome.wustl.edu	37	4	73013278	73013278	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_004885.2	+1	reviewed	p.E440K	1.000	90	0%	27	22.2%	0	-	benign(0.048)	tolerated(0.21)	neutral(0.047)	superfamily_Family A G protein-coupled receptor-like
ADAMTS3	9508	genome.wustl.edu	37	4	73149032	73149032	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_014243.1	-1	reviewed	p.V1147I	0.000	280	0%	65	36.9%	0	-	benign(0)	tolerated(0.18)	neutral(0.056)	NULL
ADAMTS3	9508	genome.wustl.edu	37	4	73185120	73185120	+	Silent	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_014243.1	-1	reviewed	p.P427	0.942	161	0%	45	17.8%	0	-	-	-	-	"HMMPfam_Reprolysin,superfamily_Metalloproteases (""zincins"") catalytic domain"
ADAMTS3	9508	genome.wustl.edu	37	4	73280597	73280597	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_014243.1	-1	reviewed	p.V199A	1.000	626	0%	163	16.6%	0	-	possibly_damaging(0.536)	deleterious(0)	deleterious(0.625)	HMMPfam_Pep_M12B_propep
ADAMTS3	9508	genome.wustl.edu	37	4	73414498	73414498	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_014243.1	-1	reviewed	p.K67N	1.000	260	0%	72	26.4%	0	-	benign(0.082)	tolerated(0.24)	neutral(0.043)	HMMPfam_Pep_M12B_propep
ANKRD17	26057	genome.wustl.edu	37	4	73968111	73968111	+	Nonsense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_032217.3	-1	reviewed	p.E1519*	1.000	817	0%	508	24%	4	0%	-	-	-	NULL
ANKRD17	26057	genome.wustl.edu	37	4	74021836	74021836	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_032217.3	-1	reviewed	p.R251Q	1.000	263	0%	107	15.9%	3	100%	probably_damaging(0.996)	deleterious(0.05)	deleterious(0.807)	HMMPfam_Ank,HMMSmart_SM00248,superfamily_Ankyrin repeat
AFP	174	genome.wustl.edu	37	4	74318267	74318267	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001134.1	+1	reviewed	p.F526L	1.000	264	0%	89	21.3%	0	-	benign(0.392)	tolerated(0.22)	neutral(0.168)	superfamily_Serum_albumin,HMMPfam_Serum_albumin,HMMSmart_ALBUMIN
AFM	173	genome.wustl.edu	37	4	74352724	74352724	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001133.2	+1	reviewed	p.A175T	0.791	435	0%	187	20.3%	0	-	benign(0.293)	deleterious(0)	deleterious(0.535)	superfamily_Serum albumin-like,HMMPfam_Serum_albumin,HMMSmart_SM00103
RASSF6	166824	genome.wustl.edu	37	4	74447586	74447586	+	Splice_Site	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_201431.1	-1	validated	e8-1	1.000	382	0%	113	19.5%	0	-	-	-	-	-
IL8	3576	genome.wustl.edu	37	4	74607285	74607285	+	Nonsense_Mutation	SNP	G	G	T	rs188378669	by1000genomes	TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_000584.2	+1	reviewed	p.E31*	0.993	280	0%	86	11.6%	7	14.2%	-	-	-	HMMPfam_IL8,HMMSmart_SM00199,superfamily_Interleukin 8-like chemokines
PPBPL1	728045	genome.wustl.edu	37	4	74713676	74713676	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	ENST00000424295	+1	known	p.A32T	0.000	152	0%	108	25%	0	-	-	-	-	NULL
PF4	5196	genome.wustl.edu	37	4	74846960	74846960	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_002619.2	-1	validated	p.P89	0.000	324	0%	482	12.4%	0	-	-	-	-	HMMPfam_IL8,HMMSmart_SCY,superfamily_Chemokine_IL8
MTHFD2L	441024	genome.wustl.edu	37	4	75091079	75091079	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001144978.1	+1	provisional	p.T258M	0.077	280	0%	45	8.9%	0	-	probably_damaging(0.998)	deleterious(0.01)	deleterious(0.880)	HMMPfam_THF_DHG_CYH_C,superfamily_NAD(P)-binding Rossmann-fold domains
EPGN	255324	genome.wustl.edu	37	4	75174830	75174830	+	Nonsense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001013442.1	+1	provisional	p.E22*	0.213	156	0.6%	43	9.3%	0	-	-	-	-	NULL
G3BP2	9908	genome.wustl.edu	37	4	76570750	76570750	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_012297.4	-1	validated	p.R438H	1.000	539	0%	276	26.4%	15	13.3%	possibly_damaging(0.783)	deleterious(0.01)	deleterious(0.699)	superfamily_RNA-binding domain RBD
NAAA	27163	genome.wustl.edu	37	4	76846891	76846891	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	ENST00000513045	-1	known	p.R26C	0.998	130	0%	56	23.2%	5	0%	-	-	-	NULL
SDAD1	55153	genome.wustl.edu	37	4	76881240	76881240	+	Nonsense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_018115.2	-1	validated	p.E488*	0.983	617	0%	165	20%	14	0%	-	-	-	HMMPfam_SDA1,superfamily_ARM repeat
SDAD1	55153	genome.wustl.edu	37	4	76885337	76885337	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_018115.2	-1	validated	p.A378T	1.000	398	0%	93	18.3%	5	20%	probably_damaging(0.986)	deleterious(0.01)	deleterious(0.840)	superfamily_ARM repeat
CXCL9	4283	genome.wustl.edu	37	4	76926006	76926006	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_002416.1	-1	reviewed	p.D78Y	0.988	439	0%	248	22.2%	23	0%	probably_damaging(0.988)	deleterious(0)	deleterious(0.882)	HMMPfam_IL8,HMMSmart_SCY,superfamily_Chemokine_IL8
ART3	419	genome.wustl.edu	37	4	77003659	77003659	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001130016.1	+1	validated	p.C251Y	1.000	315	0%	116	23.3%	0	-	probably_damaging(1)	deleterious(0.03)	deleterious(0.865)	HMMPfam_ART,superfamily_ADP-ribosylation
CCDC158	339965	genome.wustl.edu	37	4	77272207	77272207	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001042784.1	-1	validated	p.V869A	0.020	326	0.3%	81	24.7%	0	-	benign(0)	tolerated(0.56)	neutral(0.006)	NULL
CCDC158	339965	genome.wustl.edu	37	4	77288600	77288600	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001042784.1	-1	validated	p.E559	0.860	273	0%	116	22.4%	0	-	-	-	-	NULL
SOWAHB	345079	genome.wustl.edu	37	4	77817022	77817022	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001029870.1	-1	provisional	p.L661I	0.182	106	0%	182	28.6%	0	-	probably_damaging(0.996)	tolerated(0.06)	deleterious(0.784)	superfamily_ANK
SOWAHB	345079	genome.wustl.edu	37	4	77817313	77817313	+	Nonsense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001029870.1	-1	provisional	p.R564*	0.000	19	0%	37	27%	0	-	-	-	-	NULL
SEPT11	55752	genome.wustl.edu	37	4	77932959	77932959	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_018243.2	+1	validated	p.R137H	1.000	236	0%	51	11.8%	4	0%	probably_damaging(0.997)	deleterious(0)	deleterious(0.911)	HMMPfam_Septin,superfamily_SSF52540
SEPT11	55752	genome.wustl.edu	37	4	77951942	77951942	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_018243.2	+1	validated	p.E365K	1.000	373	0%	129	13.2%	12	0%	benign(0.006)	tolerated(0.23)	neutral(0.042)	NULL
CNOT6L	246175	genome.wustl.edu	37	4	78665937	78665937	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_144571.2	-1	validated	p.E218K	1.000	239	0%	73	30.1%	1	100%	possibly_damaging(0.736)	deleterious(0.03)	deleterious(0.633)	HMMPfam_Exo_endo_phos,superfamily_DNase I-like
MRPL1	65008	genome.wustl.edu	37	4	78808396	78808396	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_020236.3	+1	reviewed	p.A170V	1.000	355	0%	63	12.7%	26	0%	probably_damaging(1)	deleterious(0)	deleterious(0.945)	HMMPfam_Ribosomal_L1,superfamily_Ribosomal protein L1
MRPL1	65008	genome.wustl.edu	37	4	78815360	78815360	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_020236.3	+1	reviewed	p.R209Q	1.000	237	0%	72	19.4%	28	21.4%	benign(0.028)	tolerated(0.08)	neutral(0.301)	HMMPfam_Ribosomal_L1,superfamily_Ribosomal protein L1
FRAS1	80144	genome.wustl.edu	37	4	79291090	79291090	+	Missense_Mutation	SNP	A	A	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_025074.6	+1	reviewed	p.S941C	1.000	264	0%	48	16.7%	0	-	probably_damaging(0.998)	deleterious(0.03)	deleterious(0.839)	HMMSmart_SM00261,superfamily_Growth factor receptor domain
FRAS1	80144	genome.wustl.edu	37	4	79387502	79387502	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	ENST00000512123	+1	known	p.R619W	0.463	144	0%	25	20%	0	-	-	-	-	NULL
FRAS1	80144	genome.wustl.edu	37	4	79410099	79410099	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	ENST00000512123	+1	known	p.H1170Y	0.024	204	0%	54	16.7%	1	0%	-	-	-	HMMSmart_SM00237
FRAS1	80144	genome.wustl.edu	37	4	79429971	79429971	+	Silent	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	ENST00000512123	+1	known	p.L1426M	1.000	149	0%	40	27.5%	2	50%	-	-	-	NULL
GK2	2712	genome.wustl.edu	37	4	80328037	80328037	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_033214.2	-1	validated	p.D440Y	1.000	366	0%	392	18.4%	0	-	probably_damaging(1)	deleterious(0)	deleterious(0.945)	HMMPfam_FGGY_C,superfamily_SSF53067
C4orf22	255119	genome.wustl.edu	37	4	81791203	81791203	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_152770.1	+1	predicted	p.I130	0.818	317	0%	63	14.3%	0	-	-	-	-	NULL
RASGEF1B	153020	genome.wustl.edu	37	4	82362038	82362038	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_152545.1	-1	provisional	p.L352I	1.000	345	0%	143	22.4%	4	0%	probably_damaging(0.966)	tolerated(0.11)	deleterious(0.679)	HMMPfam_RasGEF,HMMSmart_SM00147,superfamily_Ras GEF
RASGEF1B	153020	genome.wustl.edu	37	4	82369436	82369436	+	Splice_Site	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	ENST00000395570	-1	known	e4-1	1.000	214	0%	79	22.8%	0	-	-	-	-	-
ENOPH1	58478	genome.wustl.edu	37	4	83375965	83375965	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_021204.3	+1	validated	p.Q160H	1.000	637	0%	349	10.9%	19	0%	probably_damaging(1)	deleterious(0)	deleterious(0.945)	HMMPfam_Hydrolase,superfamily_HAD-like
SCD5	79966	genome.wustl.edu	37	4	83582188	83582188	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_024906.2	-1	validated	p.E204D	0.002	169	0%	87	11.5%	0	-	unknown(0)	deleterious(0.04)	-	NULL
SCD5	79966	genome.wustl.edu	37	4	83601933	83601933	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001037582.2	-1	validated	p.D166N	1.000	162	0%	70	28.6%	7	42.8%	probably_damaging(0.991)	deleterious(0.02)	deleterious(0.827)	HMMPfam_FA_desaturase
COPS4	51138	genome.wustl.edu	37	4	83989599	83989599	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_016129.2	+1	reviewed	p.K337N	1.000	388	0%	90	28.9%	26	7.6%	benign(0.283)	tolerated(0.06)	neutral(0.409)	"HMMPfam_PCI,HMMSmart_SM00088,superfamily_""Winged helix"" DNA-binding domain"
HPSE	10855	genome.wustl.edu	37	4	84222192	84222192	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001098540.1	-1	validated	p.R465W	0.955	408	0%	113	10.6%	1	0%	probably_damaging(0.985)	deleterious(0.01)	deleterious(0.838)	NULL
HELQ	113510	genome.wustl.edu	37	4	84374566	84374566	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_133636.2	-1	validated	p.A277V	1.000	488	0%	216	22.2%	17	29.4%	benign(0.066)	tolerated(0.1)	neutral(0.291)	superfamily_P-loop containing nucleoside triphosphate hydrolases
HELQ	113510	genome.wustl.edu	37	4	84374797	84374797	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_133636.2	-1	validated	p.A200D	0.004	278	0%	137	10.2%	8	0%	benign(0.317)	deleterious(0.02)	deleterious(0.482)	NULL
FAM175A	84142	genome.wustl.edu	37	4	84383773	84383773	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_139076.2	-1	validated	p.S360F	0.004	650	0.2%	154	29.2%	2	0%	possibly_damaging(0.46)	tolerated(0.1)	neutral(0.438)	NULL
WDFY3	23001	genome.wustl.edu	37	4	85634327	85634327	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_014991.4	-1	reviewed	p.T2676M	1.000	299	0%	137	24.1%	2	0%	possibly_damaging(0.909)	tolerated(0.09)	deleterious(0.658)	superfamily_BEACH domain
WDFY3	23001	genome.wustl.edu	37	4	85657353	85657353	+	Silent	SNP	A	A	G	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_014991.4	-1	reviewed	p.S2295	1.000	732	0%	246	23.6%	3	33.3%	-	-	-	NULL
WDFY3	23001	genome.wustl.edu	37	4	85707251	85707251	+	Missense_Mutation	SNP	A	A	C	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_014991.4	-1	reviewed	p.S1315A	0.997	269	0%	73	21.9%	0	-	benign(0.002)	tolerated(1)	-	NULL
MAPK10	5602	genome.wustl.edu	37	4	86952523	86952523	+	Missense_Mutation	SNP	T	T	G	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_138982.2	-1	reviewed	p.K391T	1.000	498	0%	296	25.7%	7	0%	probably_damaging(0.972)	deleterious(0)	deleterious(0.859)	superfamily_Protein kinase-like (PK-like)
MAPK10	5602	genome.wustl.edu	37	4	86985475	86985475	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_138982.2	-1	reviewed	p.D352N	0.998	311	0%	126	28.6%	7	0%	benign(0.006)	deleterious(0.02)	neutral(0.383)	HMMSmart_SM00220,superfamily_Protein kinase-like (PK-like),HMMPfam_Pkinase
PTPN13	5783	genome.wustl.edu	37	4	87662964	87662964	+	Missense_Mutation	SNP	T	T	G	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_080685.2	+1	reviewed	p.F828V	1.000	302	0%	63	17.5%	0	-	probably_damaging(0.998)	deleterious(0)	deleterious(0.919)	HMMPfam_FERM_C,superfamily_SSF50729
PTPN13	5783	genome.wustl.edu	37	4	87732239	87732239	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_080685.2	+1	reviewed	p.R2452I	0.998	380	0%	158	12%	14	0%	probably_damaging(1)	deleterious(0)	deleterious(0.945)	HMMPfam_Y_phosphatase,HMMSmart_PTPc,superfamily_SSF52799
SLC10A6	345274	genome.wustl.edu	37	4	87749282	87749282	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_197965.2	-1	validated	p.A209T	0.000	154	0.6%	62	12.9%	0	-	benign(0.001)	tolerated(0.46)	neutral(0.012)	HMMPfam_SBF
AFF1	4299	genome.wustl.edu	37	4	87968116	87968116	+	Silent	SNP	G	G	A	rs144461444	by1000genomes	TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_005935.2	+1	validated	p.A136	0.926	126	0%	59	30.5%	1	0%	-	-	-	HMMPfam_AF-4
AFF1	4299	genome.wustl.edu	37	4	88056733	88056733	+	Missense_Mutation	SNP	A	A	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_005935.2	+1	validated	p.E1171D	0.885	108	0%	59	10.2%	2	0%	unknown(0)	tolerated(0.06)	-	HMMPfam_AF-4
DSPP	1834	genome.wustl.edu	37	4	88533707	88533707	+	Silent	SNP	A	A	C	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_014208.3	+1	reviewed	p.G123	0.003	441	0%	214	25.7%	0	-	-	-	-	NULL
DSPP	1834	genome.wustl.edu	37	4	88534158	88534158	+	Missense_Mutation	SNP	A	A	C	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_014208.3	+1	reviewed	p.S274R	0.000	440	0%	196	24%	0	-	possibly_damaging(0.847)	-	-	NULL
DSPP	1834	genome.wustl.edu	37	4	88537304	88537304	+	Missense_Mutation	SNP	G	G	A	rs71902617		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_014208.3	+1	reviewed	p.D1164N	0.000	277	0%	40	20%	0	-	unknown(0)	-	-	NULL
DMP1	1758	genome.wustl.edu	37	4	88583222	88583222	+	Nonsense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_004407.3	+1	reviewed	p.G98*	0.000	184	0%	120	13.3%	0	-	-	-	-	HMMPfam_DMP1
DMP1	1758	genome.wustl.edu	37	4	88583727	88583727	+	Missense_Mutation	SNP	A	A	C	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_004407.3	+1	reviewed	p.K266T	0.006	150	0%	128	20.3%	0	-	possibly_damaging(0.806)	deleterious(0)	deleterious(0.748)	HMMPfam_DMP1
DMP1	1758	genome.wustl.edu	37	4	88584187	88584187	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_004407.3	+1	reviewed	p.P419	0.000	103	0%	69	23.2%	0	-	-	-	-	HMMPfam_DMP1
ABCG2	9429	genome.wustl.edu	37	4	89060954	89060954	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_004827.2	-1	reviewed	p.S65L	0.000	233	0%	74	13.5%	3	0%	benign(0.006)	tolerated(0.06)	neutral(0.323)	superfamily_P-loop containing nucleoside triphosphate hydrolases
ABCG2	9429	genome.wustl.edu	37	4	89061084	89061084	+	Missense_Mutation	SNP	C	C	T	rs191389789	by1000genomes	TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_004827.2	-1	reviewed	p.A22T	0.000	199	0%	42	19%	1	0%	benign(0)	tolerated(0.41)	neutral(0.015)	NULL
PPM1K	152926	genome.wustl.edu	37	4	89186241	89186241	+	Missense_Mutation	SNP	A	A	C	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_152542.3	-1	validated	p.I300S	1.000	282	0%	102	18.6%	8	12.5%	probably_damaging(0.991)	deleterious(0)	deleterious(0.889)	HMMSmart_SM00331,HMMSmart_SM00332,superfamily_Protein serine/threonine phosphatase 2C catalytic domain,HMMPfam_PP2C
HERC6	55008	genome.wustl.edu	37	4	89349828	89349828	+	Nonsense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_017912.3	+1	validated	p.R678*	1.000	139	0%	20	25%	1	0%	-	-	-	superfamily_Hect E3 ligase catalytic domain
HERC5	51191	genome.wustl.edu	37	4	89426989	89426989	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_016323.2	+1	reviewed	p.A1012V	0.921	149	0%	43	27.9%	21	4.7%	probably_damaging(0.959)	deleterious(0.04)	deleterious(0.752)	HMMPfam_HECT,HMMSmart_SM00119,superfamily_Hect E3 ligase catalytic domain
HERC3	8916	genome.wustl.edu	37	4	89574207	89574207	+	Silent	SNP	T	T	C	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_014606.1	+1	provisional	p.N217	1.000	249	0%	59	28.8%	2	100%	-	-	-	HMMPfam_RCC1,superfamily_RCC1/BLIP-II
HERC3	8916	genome.wustl.edu	37	4	89579630	89579630	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_014606.1	+1	provisional	p.C378	1.000	448	0%	56	10.7%	1	0%	-	-	-	superfamily_RCC1/BLIP-II
HERC3	8916	genome.wustl.edu	37	4	89599229	89599229	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_014606.1	+1	provisional	p.D714Y	1.000	295	0%	56	19.6%	0	-	probably_damaging(1)	deleterious(0)	deleterious(0.945)	superfamily_Hect E3 ligase catalytic domain
TIGD2	166815	genome.wustl.edu	37	4	90034221	90034221	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_145715.2	+1	reviewed	p.S32	0.009	291	0%	451	25.3%	3	33.3%	-	-	-	HMMPfam_CENP-B_N,superfamily_Homeodomain_like
MMRN1	22915	genome.wustl.edu	37	4	90816473	90816473	+	Silent	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_007351.2	+1	reviewed	p.L117	0.000	265	0%	58	27.6%	0	-	-	-	-	NULL
MMRN1	22915	genome.wustl.edu	37	4	90856331	90856331	+	Silent	SNP	T	T	C	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_007351.2	+1	reviewed	p.I500	0.014	166	0%	35	11.4%	0	-	-	-	-	NULL
FAM190A	401145	genome.wustl.edu	37	4	91230275	91230275	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001145065.1	+1	validated	p.M280I	0.768	239	0%	52	30.8%	0	-	benign(0.005)	tolerated(0.1)	neutral(0.286)	NULL
GRID2	2895	genome.wustl.edu	37	4	94032002	94032002	+	Silent	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001510.2	+1	validated	p.L211	1.000	260	0%	59	25.4%	0	-	-	-	-	HMMPfam_ANF_receptor,superfamily_SSF53822
GRID2	2895	genome.wustl.edu	37	4	94693290	94693290	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001510.2	+1	validated	p.D889N	1.000	249	0%	159	27%	0	-	benign(0)	deleterious(0)	neutral(0.445)	NULL
SMARCAD1	56916	genome.wustl.edu	37	4	95162065	95162065	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001128429.1	+1	validated	p.P205S	1.000	399	0%	115	17.4%	0	-	benign(0.001)	deleterious(0.04)	neutral(0.349)	NULL
SMARCAD1	56916	genome.wustl.edu	37	4	95174064	95174064	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001128429.1	+1	validated	p.A396D	1.000	156	0%	31	29%	2	50%	possibly_damaging(0.653)	deleterious(0)	deleterious(0.674)	superfamily_P-loop containing nucleoside triphosphate hydrolases
SMARCAD1	56916	genome.wustl.edu	37	4	95185996	95185996	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001128429.1	+1	validated	p.T474A	1.000	239	0%	44	13.6%	2	50%	benign(0.002)	tolerated(0.53)	neutral(0.007)	superfamily_P-loop containing nucleoside triphosphate hydrolases
HPGDS	27306	genome.wustl.edu	37	4	95220769	95220769	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_014485.2	-1	reviewed	p.E154D	0.940	300	0%	74	28.4%	2	0%	benign(0)	tolerated(0.77)	neutral(0.001)	HMMPfam_GST_C,superfamily_Glutathione S-transferase (GST) C-terminal domain
PDLIM5	10611	genome.wustl.edu	37	4	95585306	95585306	+	RNA	SNP	T	T	C	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NR_024179.1	+1	reviewed	NULL	0.009	68	0%	31	16.1%	15	0%	-	-	-	-
UNC5C	8633	genome.wustl.edu	37	4	96106287	96106287	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_003728.2	-1	reviewed	p.H733N	1.000	243	0%	93	9.7%	0	-	benign(0)	tolerated(0.31)	neutral(0.027)	NULL
UNC5C	8633	genome.wustl.edu	37	4	96124041	96124041	+	Silent	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_003728.2	-1	reviewed	p.I659	1.000	173	0%	65	29.2%	0	-	-	-	-	NULL
PDHA2	5161	genome.wustl.edu	37	4	96761509	96761509	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_005390.4	+1	validated	p.R70C	0.822	149	0%	196	14.3%	0	-	probably_damaging(1)	deleterious(0)	deleterious(0.945)	HMMPfam_E1_dh,superfamily_SSF52518
PDHA2	5161	genome.wustl.edu	37	4	96762263	96762263	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_005390.4	+1	validated	p.R321I	0.011	181	0%	312	13.1%	0	-	probably_damaging(0.989)	tolerated(0.1)	deleterious(0.726)	HMMPfam_E1_dh,superfamily_SSF52518
C4orf37	285555	genome.wustl.edu	37	4	98761994	98761994	+	Silent	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_174952.2	-1	validated	p.V378	0.891	280	0%	46	10.9%	0	-	-	-	-	NULL
C4orf37	285555	genome.wustl.edu	37	4	99030362	99030362	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_174952.2	-1	validated	p.G161V	0.998	209	0%	41	41.5%	0	-	probably_damaging(1)	deleterious(0.01)	deleterious(0.905)	NULL
ADH1A	124	genome.wustl.edu	37	4	100203666	100203666	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_000667.2	-1	reviewed	p.A222V	0.067	577	0%	165	25.5%	0	-	possibly_damaging(0.945)	deleterious(0.04)	deleterious(0.738)	HMMPfam_ADH_zinc_N,superfamily_NAD(P)-binding Rossmann-fold domains
ADH1C	126	genome.wustl.edu	37	4	100261747	100261747	+	Nonsense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_000669.3	-1	reviewed	p.G317*	1.000	359	0%	100	23%	9	11.1%	-	-	-	HMMPfam_ADH_zinc_N,superfamily_NAD(P)-binding Rossmann-fold domains
RG9MTD2	93587	genome.wustl.edu	37	4	100474948	100474948	+	Silent	SNP	A	A	G	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001134665.1	-1	validated	p.H213	1.000	332	0%	115	28.7%	1	0%	-	-	-	HMMPfam_tRNA_m1G_MT
RG9MTD2	93587	genome.wustl.edu	37	4	100479276	100479276	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001134665.1	-1	validated	p.R93Q	0.993	645	0.3%	252	23%	4	50%	probably_damaging(0.999)	tolerated(0.17)	deleterious(0.549)	NULL
MTTP	4547	genome.wustl.edu	37	4	100504578	100504578	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_000253.2	+1	reviewed	p.K99N	1.000	322	0%	122	29.5%	0	-	benign(0.009)	tolerated(0.85)	neutral(0.001)	HMMPfam_Vitellogenin_N,HMMSmart_LPD_N,superfamily_Lipid_transp_b-sht_shell
DAPP1	27071	genome.wustl.edu	37	4	100774419	100774419	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_014395.2	+1	validated	p.E135K	1.000	298	0%	110	20%	2	0%	probably_damaging(0.999)	tolerated(0.07)	deleterious(0.809)	superfamily_SH2 domain
DDIT4L	115265	genome.wustl.edu	37	4	101109156	101109156	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_145244.2	-1	provisional	p.R87I	1.000	221	0%	318	26.4%	3	66.6%	probably_damaging(0.998)	deleterious(0.01)	deleterious(0.880)	HMMPfam_RTP801_C
PPP3CA	5530	genome.wustl.edu	37	4	102020771	102020771	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_000944.4	-1	validated	p.E165K	1.000	215	0%	40	22.5%	0	-	probably_damaging(1)	deleterious(0)	deleterious(0.945)	HMMPfam_Metallophos,HMMSmart_SM00156,superfamily_Metallo-dependent phosphatases
SLC39A8	64116	genome.wustl.edu	37	4	103226245	103226245	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001135146.1	-1	reviewed	p.V192	0.008	248	0%	55	12.7%	2	0%	-	-	-	HMMPfam_Zip
NFKB1	4790	genome.wustl.edu	37	4	103514670	103514670	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_003998.3	+1	reviewed	p.G385	0.735	340	0%	176	29.5%	3	0%	-	-	-	superfamily_ANK,superfamily_Ig_E-set
NFKB1	4790	genome.wustl.edu	37	4	103527794	103527794	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_003998.3	+1	reviewed	p.L632F	0.705	323	0%	107	24.3%	5	0%	probably_damaging(0.996)	deleterious(0)	deleterious(0.906)	HMMPfam_Ank,HMMSmart_ANK,superfamily_ANK
MANBA	4126	genome.wustl.edu	37	4	103557155	103557155	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_005908.3	-1	reviewed	p.G675V	1.000	218	0%	46	8.7%	10	0%	probably_damaging(0.999)	deleterious(0)	deleterious(0.935)	superfamily_Glyco_hydro_cat
SLC9B2	133308	genome.wustl.edu	37	4	103947646	103947646	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_178833.4	-1	validated	p.L499I	1.000	312	1%	225	12%	1	0%	benign(0.084)	tolerated(0.47)	neutral(0.017)	HMMPfam_Na_H_Exchanger
CENPE	1062	genome.wustl.edu	37	4	104062219	104062219	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001813.2	-1	validated	p.K1836E	0.731	410	0%	216	26.4%	1	0%	probably_damaging(0.971)	tolerated(0.28)	neutral(0.445)	NULL
TACR3	6870	genome.wustl.edu	37	4	104640301	104640301	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001059.1	-1	reviewed	p.A178T	1.000	82	0%	137	13.9%	0	-	probably_damaging(1)	deleterious(0.02)	deleterious(0.883)	HMMPfam_7tm_1,PatternScan_G_PROTEIN_RECEP_F1_1,superfamily_SSF81321
PPA2	27068	genome.wustl.edu	37	4	106359107	106359107	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_176869.2	-1	reviewed	p.K176N	1.000	460	0%	119	23.5%	17	0%	probably_damaging(0.998)	tolerated(0.15)	deleterious(0.716)	HMMPfam_Pyrophosphatase,superfamily_Inorganic pyrophosphatase
GSTCD	79807	genome.wustl.edu	37	4	106639142	106639142	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001031720.2	+1	validated	p.K124N	1.000	221	0%	123	26.8%	0	-	benign(0.407)	tolerated(0.18)	neutral(0.188)	NULL
NPNT	255743	genome.wustl.edu	37	4	106819082	106819082	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	ENST00000514837	+1	known	p.D9N	0.449	386	0%	625	14.4%	0	-	-	-	-	NULL
TBCK	93627	genome.wustl.edu	37	4	107163722	107163722	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_033115.3	-1	validated	p.L296I	1.000	198	0%	34	26.5%	1	0%	benign(0.008)	tolerated(0.34)	neutral(0.023)	NULL
TBCK	93627	genome.wustl.edu	37	4	107168356	107168356	+	Missense_Mutation	SNP	A	A	C	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_033115.3	-1	validated	p.S228A	1.000	378	0%	153	13.7%	1	0%	probably_damaging(0.995)	tolerated(0.09)	deleterious(0.754)	superfamily_Kinase_like
TBCK	93627	genome.wustl.edu	37	4	107229997	107229997	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_033115.3	-1	validated	p.R41C	1.000	505	0%	301	16.9%	0	-	probably_damaging(1)	deleterious(0)	deleterious(0.945)	NULL
PAPSS1	9061	genome.wustl.edu	37	4	108574695	108574695	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_005443.4	-1	validated	p.R397C	1.000	423	0%	96	27.1%	22	18.1%	probably_damaging(1)	deleterious(0)	deleterious(0.945)	HMMPfam_ATP-sulfurylase,superfamily_Nucleotidylyl transferase
LEF1	51176	genome.wustl.edu	37	4	109002824	109002824	+	Nonsense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_016269.4	-1	reviewed	p.Q214*	1.000	136	0%	144	18.8%	1	0%	-	-	-	NULL
LEF1	51176	genome.wustl.edu	37	4	109087430	109087430	+	Nonsense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	ENST00000510624	-1	known	p.E3*	1.000	208	0%	379	23%	0	-	-	-	-	HMMPfam_CTNNB1_binding
CFI	3426	genome.wustl.edu	37	4	110670704	110670704	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_000204.3	-1	reviewed	p.R332I	0.000	439	0%	116	13.8%	13	7.6%	benign(0.026)	tolerated(0.18)	neutral(0.057)	superfamily_Trypsin-like serine proteases
LRIT3	345193	genome.wustl.edu	37	4	110791634	110791634	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_198506.2	+1	validated	p.D532Y	0.000	367	0%	89	20.2%	0	-	benign(0.095)	deleterious(0.03)	neutral(0.371)	NULL
EGF	1950	genome.wustl.edu	37	4	110865041	110865041	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001963.4	+1	reviewed	p.A185S	0.962	661	0%	238	21.4%	0	-	possibly_damaging(0.719)	tolerated(0.31)	neutral(0.288)	HMMSmart_LY,superfamily_SSF63825
ELOVL6	79071	genome.wustl.edu	37	4	111119447	111119447	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001130721.1	-1	validated	p.K15N	1.000	228	0%	314	14.6%	6	66.6%	benign(0.024)	tolerated(0.73)	neutral(0.003)	NULL
ENPEP	2028	genome.wustl.edu	37	4	111397813	111397813	+	Silent	SNP	T	T	C	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001977.3	+1	validated	p.S81	0.000	113	0%	99	26.3%	6	0%	-	-	-	NULL
ENPEP	2028	genome.wustl.edu	37	4	111397844	111397844	+	Nonsense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001977.3	+1	validated	p.R92*	1.000	91	0%	80	10%	5	0%	-	-	-	superfamily_Leukotriene A4 hydrolase N-terminal domain
ENPEP	2028	genome.wustl.edu	37	4	111397949	111397949	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001977.3	+1	validated	p.A127T	0.000	29	0%	19	21.1%	4	0%	benign(0.012)	tolerated(0.06)	neutral(0.323)	HMMPfam_Peptidase_M1,superfamily_Leukotriene A4 hydrolase N-terminal domain
ENPEP	2028	genome.wustl.edu	37	4	111398053	111398053	+	Silent	SNP	C	C	T	rs146450390		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001977.3	+1	validated	p.F161	0.392	45	0%	27	14.8%	10	0%	-	-	-	HMMPfam_Peptidase_M1,superfamily_Leukotriene A4 hydrolase N-terminal domain
AP1AR	55435	genome.wustl.edu	37	4	113186168	113186168	+	Nonsense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_018569.4	+1	validated	p.E129*	1.000	281	0%	61	18%	8	0%	-	-	-	NULL
ALPK1	80216	genome.wustl.edu	37	4	113352008	113352008	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001102406.1	+1	validated	p.E435	1.000	230	0%	46	10.9%	0	-	-	-	-	NULL
ALPK1	80216	genome.wustl.edu	37	4	113352513	113352513	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001102406.1	+1	validated	p.D604N	0.003	165	0%	38	21.1%	0	-	benign(0.395)	deleterious(0)	deleterious(0.572)	NULL
C4orf21	55345	genome.wustl.edu	37	4	113539498	113539498	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	ENST00000505019	-1	known	p.D567G	0.000	264	0%	101	11.9%	0	-	possibly_damaging(0.664)	tolerated(0.06)	deleterious(0.557)	NULL
C4orf21	55345	genome.wustl.edu	37	4	113540688	113540688	+	Missense_Mutation	SNP	A	A	C	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	ENST00000505019	-1	known	p.N170K	0.000	178	0%	62	14.5%	0	-	benign(0.059)	tolerated(0.63)	neutral(0.007)	NULL
LARP7	51574	genome.wustl.edu	37	4	113565914	113565914	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_015454.1	+1	validated	p.R30Q	0.998	156	0%	56	19.6%	7	14.2%	possibly_damaging(0.867)	deleterious(0.01)	deleterious(0.742)	"superfamily_""Winged helix"" DNA-binding domain"
ANK2	287	genome.wustl.edu	37	4	114158156	114158156	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001148.4	+1	reviewed	p.P166H	1.000	219	0%	85	11.8%	0	-	probably_damaging(0.999)	deleterious(0)	deleterious(0.935)	HMMPfam_Ank,HMMSmart_ANK,superfamily_ANK
ANK2	287	genome.wustl.edu	37	4	114163336	114163336	+	Nonsense_Mutation	SNP	C	C	T	rs146907003		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001148.4	+1	reviewed	p.R288*	1.000	415	0.2%	143	11.9%	0	-	-	-	-	HMMPfam_Ank,HMMSmart_ANK,superfamily_ANK
ANK2	287	genome.wustl.edu	37	4	114239725	114239725	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001148.4	+1	reviewed	p.G950D	1.000	476	0%	125	12%	4	0%	benign(0.002)	tolerated(0.57)	neutral(0.006)	NULL
ANK2	287	genome.wustl.edu	37	4	114279996	114279996	+	Nonsense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001148.4	+1	reviewed	p.R3408*	1.000	208	0%	90	28.9%	0	-	-	-	-	NULL
ANK2	287	genome.wustl.edu	37	4	114286282	114286282	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001148.4	+1	reviewed	p.R3659H	0.201	166	0%	40	32.5%	5	0%	benign(0.007)	-	-	superfamily_DEATH_like
ARSJ	79642	genome.wustl.edu	37	4	114824646	114824646	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_024590.3	-1	validated	p.T195I	1.000	400	0%	131	19.8%	0	-	probably_damaging(0.974)	deleterious(0.01)	deleterious(0.822)	HMMPfam_Sulfatase,superfamily_Alkaline phosphatase-like
NDST3	9348	genome.wustl.edu	37	4	118975835	118975835	+	Missense_Mutation	SNP	T	T	G	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_004784.2	+1	reviewed	p.I257S	0.746	554	0%	118	22.9%	0	-	benign(0.119)	deleterious(0)	neutral(0.454)	NULL
NDST3	9348	genome.wustl.edu	37	4	119161758	119161758	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_004784.2	+1	reviewed	p.S733L	0.000	132	0%	38	15.8%	0	-	benign(0)	tolerated(0.33)	neutral(0.024)	HMMPfam_Sulfotransfer_1,superfamily_P-loop containing nucleoside triphosphate hydrolases
PRSS12	8492	genome.wustl.edu	37	4	119216970	119216970	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_003619.2	-1	reviewed	p.R627W	0.996	149	0%	35	40%	1	100%	probably_damaging(1)	deleterious(0.02)	deleterious(0.883)	superfamily_Trypsin-like serine proteases
PRSS12	8492	genome.wustl.edu	37	4	119219982	119219982	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_003619.2	-1	reviewed	p.K581N	1.000	297	0%	66	37.9%	1	0%	benign(0.116)	tolerated(0.19)	neutral(0.059)	HMMPfam_SRCR,HMMSmart_SM00202,superfamily_SRCR-like
PRSS12	8492	genome.wustl.edu	37	4	119239663	119239663	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_003619.2	-1	reviewed	p.G340	0.997	286	0%	65	40%	0	-	-	-	-	HMMPfam_SRCR,HMMSmart_SM00202,superfamily_SRCR-like
PRSS12	8492	genome.wustl.edu	37	4	119239691	119239691	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_003619.2	-1	reviewed	p.H331R	0.184	282	0%	53	17%	1	100%	benign(0)	tolerated(0.72)	neutral(0.002)	HMMPfam_SRCR,HMMSmart_SM00202,superfamily_SRCR-like
METTL14	57721	genome.wustl.edu	37	4	119610597	119610597	+	Missense_Mutation	SNP	A	A	C	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_020961.2	+1	provisional	p.K76N	0.638	422	0%	240	23.7%	2	0%	benign(0.011)	tolerated(0.47)	neutral(0.011)	NULL
SYNPO2	171024	genome.wustl.edu	37	4	119978874	119978874	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_133477.2	+1	validated	p.M1191V	0.000	120	0%	69	29%	8	0%	benign(0)	tolerated(0.43)	neutral(0.013)	NULL
PDE5A	8654	genome.wustl.edu	37	4	120425693	120425693	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001083.3	-1	reviewed	p.R777W	1.000	462	0%	78	17.9%	0	-	probably_damaging(1)	deleterious(0)	deleterious(0.945)	HMMPfam_PDEase_I,HMMSmart_SM00471,superfamily_HD-domain/PDEase-like
PDE5A	8654	genome.wustl.edu	37	4	120446792	120446792	+	Missense_Mutation	SNP	A	A	C	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001083.3	-1	reviewed	p.F564C	1.000	283	0%	68	32.4%	0	-	probably_damaging(0.999)	deleterious(0)	deleterious(0.935)	superfamily_HD-domain/PDEase-like
PDE5A	8654	genome.wustl.edu	37	4	120528077	120528077	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001083.3	-1	reviewed	p.I176	1.000	231	0%	69	26.1%	0	-	-	-	-	HMMPfam_GAF,HMMSmart_SM00065,superfamily_GAF domain-like
MAD2L1	4085	genome.wustl.edu	37	4	120986966	120986966	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_002358.3	-1	reviewed	p.G27	1.000	211	0%	230	24.3%	0	-	-	-	-	HMMPfam_HORMA,superfamily_The spindle assembly checkpoint protein mad2
PRDM5	11107	genome.wustl.edu	37	4	121742341	121742341	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_018699.2	-1	reviewed	p.T154A	0.000	812	0.1%	374	20.9%	0	-	benign(0)	tolerated(0.25)	neutral(0.037)	NULL
NDNF	79625	genome.wustl.edu	37	4	121957425	121957425	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_024574.3	-1	validated	p.F567L	1.000	220	0%	32	25%	0	-	benign(0.014)	tolerated(0.65)	neutral(0.004)	HMMPfam_DUF2369
TNIP3	79931	genome.wustl.edu	37	4	122071348	122071348	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001128843.1	-1	validated	p.K173	0.000	294	0%	138	19.6%	0	-	-	-	-	NULL
TNIP3	79931	genome.wustl.edu	37	4	122078339	122078339	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001128843.1	-1	validated	p.K91N	0.008	177	0%	148	16.2%	1	0%	probably_damaging(0.99)	tolerated(0.32)	neutral(0.466)	NULL
QRFPR	84109	genome.wustl.edu	37	4	122257962	122257962	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_198179.2	-1	validated	p.E187	1.000	154	0%	44	13.6%	0	-	-	-	-	HMMPfam_7tm_1,superfamily_SSF81321
QRFPR	84109	genome.wustl.edu	37	4	122301668	122301668	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_198179.2	-1	validated	p.K45	0.961	26	0%	59	37.3%	0	-	-	-	-	superfamily_SSF81321
CCNA2	890	genome.wustl.edu	37	4	122743651	122743651	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001237.3	-1	validated	p.R122C	0.000	425	0.2%	578	22.7%	3	33.3%	benign(0)	tolerated(0.07)	neutral(0.319)	NULL
BBS7	55212	genome.wustl.edu	37	4	122774222	122774222	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_176824.1	-1	reviewed	p.S246	1.000	616	0%	222	22.1%	2	50%	-	-	-	NULL
TRPC3	7222	genome.wustl.edu	37	4	122800995	122800995	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001130698.1	-1	validated	p.R888C	1.000	448	0.9%	151	12.6%	0	-	probably_damaging(1)	deleterious(0)	deleterious(0.945)	NULL
TRPC3	7222	genome.wustl.edu	37	4	122824087	122824087	+	Nonsense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001130698.1	-1	validated	p.R795*	0.998	417	0%	88	17%	0	-	-	-	-	NULL
TRPC3	7222	genome.wustl.edu	37	4	122828542	122828542	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001130698.1	-1	validated	p.I658T	1.000	234	0%	49	24.5%	0	-	benign(0.012)	tolerated(0.49)	neutral(0.011)	HMMPfam_Ion_trans
TRPC3	7222	genome.wustl.edu	37	4	122854059	122854059	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001130698.1	-1	validated	p.D118	1.000	22	0%	35	17.1%	0	-	-	-	-	HMMSmart_ANK,superfamily_ANK
KIAA1109	84162	genome.wustl.edu	37	4	123168477	123168477	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_015312.3	+1	reviewed	p.R1826Q	1.000	476	0%	108	12%	1	0%	probably_damaging(0.994)	deleterious(0.01)	deleterious(0.858)	NULL
KIAA1109	84162	genome.wustl.edu	37	4	123192520	123192520	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_015312.3	+1	reviewed	p.R2614Q	1.000	252	0%	104	26%	0	-	probably_damaging(0.994)	tolerated(0.29)	deleterious(0.481)	NULL
KIAA1109	84162	genome.wustl.edu	37	4	123265667	123265667	+	Silent	SNP	T	T	G	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	ENST00000306802	+1	known	p.L604R	1.000	325	0%	109	29.4%	1	0%	-	-	-	NULL
KIAA1109	84162	genome.wustl.edu	37	4	123274229	123274229	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_015312.3	+1	reviewed	p.R4674C	1.000	368	0%	53	15.1%	10	0%	probably_damaging(1)	deleterious(0)	deleterious(0.945)	HMMPfam_FSA_C
KIAA1109	84162	genome.wustl.edu	37	4	123283345	123283345	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	ENST00000306802	+1	known	p.S1363L	0.178	285	0%	88	25%	34	14.7%	-	-	-	HMMPfam_FSA_C
ADAD1	132612	genome.wustl.edu	37	4	123301394	123301394	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_139243.3	+1	validated	p.T57M	1.000	149	0%	182	14.8%	0	-	probably_damaging(0.98)	deleterious(0)	deleterious(0.869)	NULL
SPATA5	166378	genome.wustl.edu	37	4	123868469	123868469	+	Nonsense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_145207.2	+1	validated	p.R514*	0.999	131	0%	58	25.9%	0	-	-	-	-	HMMSmart_SM00382,HMMPfam_AAA,superfamily_P-loop containing nucleoside triphosphate hydrolases
ANKRD50	57182	genome.wustl.edu	37	4	125591680	125591680	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_020337.2	-1	validated	p.R918W	0.995	187	0%	71	22.5%	1	0%	probably_damaging(1)	deleterious(0.02)	deleterious(0.883)	HMMPfam_Ank,HMMSmart_ANK,superfamily_ANK
ANKRD50	57182	genome.wustl.edu	37	4	125592470	125592470	+	Silent	SNP	T	T	C	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_020337.2	-1	validated	p.G654	1.000	245	0%	96	20.8%	4	0%	-	-	-	HMMPfam_Ank,HMMSmart_ANK,superfamily_ANK
ANKRD50	57182	genome.wustl.edu	37	4	125593338	125593338	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_020337.2	-1	validated	p.T365I	1.000	307	0%	110	30%	0	-	probably_damaging(0.996)	deleterious(0.02)	deleterious(0.845)	NULL
FAT4	79633	genome.wustl.edu	37	4	126240494	126240494	+	Silent	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_024582.4	+1	validated	p.L976	0.890	148	0%	188	23.9%	1	0%	-	-	-	HMMPfam_Cadherin,HMMSmart_SM00112,superfamily_Cadherin-like
FAT4	79633	genome.wustl.edu	37	4	126241072	126241072	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_024582.4	+1	validated	p.R1169Q	0.998	167	0%	197	23.4%	0	-	benign(0.005)	tolerated(0.62)	neutral(0.004)	HMMPfam_Cadherin,HMMSmart_SM00112,superfamily_Cadherin-like
FAT4	79633	genome.wustl.edu	37	4	126242741	126242741	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_024582.4	+1	validated	p.E1725D	1.000	87	0%	88	22.7%	0	-	possibly_damaging(0.906)	deleterious(0.01)	deleterious(0.765)	HMMPfam_Cadherin,HMMSmart_SM00112,superfamily_Cadherin-like
FAT4	79633	genome.wustl.edu	37	4	126336299	126336299	+	Nonsense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_024582.4	+1	validated	p.E2061*	1.000	314	0%	56	16.1%	0	-	-	-	-	HMMPfam_Cadherin,superfamily_Cadherin-like
FAT4	79633	genome.wustl.edu	37	4	126336500	126336500	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_024582.4	+1	validated	p.D2128N	1.000	132	0%	30	30%	0	-	probably_damaging(1)	deleterious(0)	deleterious(0.945)	HMMPfam_Cadherin,HMMSmart_SM00112,superfamily_Cadherin-like
FAT4	79633	genome.wustl.edu	37	4	126367550	126367550	+	Silent	SNP	T	T	G	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_024582.4	+1	validated	p.T2432	0.022	287	0%	78	19.2%	0	-	-	-	-	HMMPfam_Cadherin,HMMSmart_SM00112,superfamily_Cadherin-like
FAT4	79633	genome.wustl.edu	37	4	126371338	126371338	+	Missense_Mutation	SNP	T	T	G	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_024582.4	+1	validated	p.F3056C	0.008	248	0%	61	36.1%	0	-	benign(0.039)	tolerated(0.19)	neutral(0.052)	HMMPfam_Cadherin,HMMSmart_SM00112,superfamily_Cadherin-like
FAT4	79633	genome.wustl.edu	37	4	126372126	126372126	+	Nonsense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_024582.4	+1	validated	p.E3319*	1.000	263	0%	72	16.7%	0	-	-	-	-	HMMPfam_Cadherin,superfamily_Cadherin-like
FAT4	79633	genome.wustl.edu	37	4	126372354	126372354	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_024582.4	+1	validated	p.V3395M	0.107	269	0%	64	17.2%	0	-	possibly_damaging(0.804)	deleterious(0.01)	deleterious(0.708)	HMMPfam_Cadherin,HMMSmart_SM00112,superfamily_Cadherin-like
FAT4	79633	genome.wustl.edu	37	4	126372542	126372542	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_024582.4	+1	validated	p.P3457	0.007	205	0%	68	44.1%	0	-	-	-	-	HMMPfam_Cadherin,HMMSmart_SM00112,superfamily_Cadherin-like
FAT4	79633	genome.wustl.edu	37	4	126373374	126373374	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_024582.4	+1	validated	p.R3735C	1.000	213	0%	40	17.5%	0	-	probably_damaging(1)	deleterious(0.01)	deleterious(0.905)	NULL
FAT4	79633	genome.wustl.edu	37	4	126373428	126373428	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_024582.4	+1	validated	p.A3753T	0.219	189	0%	42	21.4%	0	-	benign(0.15)	tolerated(0.05)	neutral(0.358)	NULL
FAT4	79633	genome.wustl.edu	37	4	126397365	126397365	+	Nonsense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_024582.4	+1	validated	p.E4083*	1.000	347	0%	93	26.9%	0	-	-	-	-	HMMSmart_SM00282,superfamily_Concanavalin A-like lectins/glucanases,HMMPfam_Laminin_G_2
FAT4	79633	genome.wustl.edu	37	4	126411425	126411425	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_024582.4	+1	validated	p.S4483N	0.001	106	0%	64	12.5%	0	-	benign(0.001)	deleterious(0)	neutral(0.445)	NULL
FAT4	79633	genome.wustl.edu	37	4	126411471	126411471	+	Silent	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_024582.4	+1	validated	p.I4498	0.999	124	0%	51	29.4%	0	-	-	-	-	NULL
FAT4	79633	genome.wustl.edu	37	4	126412160	126412160	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_024582.4	+1	validated	p.G4728D	1.000	149	0%	91	26.4%	1	0%	probably_damaging(0.981)	tolerated(0.12)	deleterious(0.686)	NULL
INTU	27152	genome.wustl.edu	37	4	128564680	128564680	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_015693.3	+1	validated	p.L51I	0.998	139	0%	62	12.9%	0	-	benign(0.041)	tolerated(0.19)	neutral(0.052)	NULL
INTU	27152	genome.wustl.edu	37	4	128595309	128595309	+	Missense_Mutation	SNP	T	T	G	rs184601561	by1000genomes	TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_015693.3	+1	validated	p.I374M	0.975	544	0%	118	22%	1	100%	possibly_damaging(0.459)	deleterious(0.01)	deleterious(0.556)	NULL
INTU	27152	genome.wustl.edu	37	4	128626894	128626894	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_015693.3	+1	validated	p.R572Q	0.135	226	0%	79	31.6%	1	0%	benign(0)	tolerated(1)	-	NULL
HSPA4L	22824	genome.wustl.edu	37	4	128722979	128722979	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_014278.2	+1	provisional	p.P190Q	0.000	449	0.2%	86	16.3%	0	-	benign(0.003)	tolerated(0.13)	neutral(0.253)	HMMPfam_HSP70
PLK4	10733	genome.wustl.edu	37	4	128814972	128814972	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_014264.3	+1	reviewed	p.S833Y	0.036	123	0%	73	15.1%	2	100%	benign(0.128)	deleterious(0.01)	neutral(0.416)	superfamily_Kinase_like
LARP1B	55132	genome.wustl.edu	37	4	129099702	129099702	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_018078.2	+1	reviewed	p.T601A	0.050	334	0%	57	31.6%	0	-	possibly_damaging(0.916)	tolerated(0.06)	deleterious(0.690)	NULL
SCLT1	132320	genome.wustl.edu	37	4	129867197	129867197	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_144643.2	-1	validated	p.T468	0.986	422	0%	82	17.1%	3	0%	-	-	-	NULL
PCDH10	57575	genome.wustl.edu	37	4	134072727	134072727	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_032961.1	+1	reviewed	p.P478S	1.000	34	0%	53	28.3%	0	-	probably_damaging(1)	deleterious(0.01)	deleterious(0.905)	HMMPfam_Cadherin,superfamily_Cadherin-like
PCDH10	57575	genome.wustl.edu	37	4	134073466	134073466	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_032961.1	+1	reviewed	p.S724L	1.000	67	0%	126	24.6%	0	-	probably_damaging(0.987)	deleterious(0.02)	deleterious(0.820)	NULL
PCDH10	57575	genome.wustl.edu	37	4	134084325	134084325	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_032961.1	+1	reviewed	p.E997	1.000	123	0%	81	9.9%	0	-	-	-	-	NULL
PCDH18	54510	genome.wustl.edu	37	4	138442834	138442834	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_019035.3	-1	reviewed	p.T919	0.993	160	0%	45	22.2%	5	0%	-	-	-	NULL
PCDH18	54510	genome.wustl.edu	37	4	138451322	138451322	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_019035.3	-1	reviewed	p.N641D	1.000	100	0%	40	27.5%	3	0%	probably_damaging(1)	tolerated(0.16)	deleterious(0.559)	HMMPfam_Cadherin,HMMSmart_SM00112,superfamily_Cadherin-like
NAA15	80155	genome.wustl.edu	37	4	140299993	140299993	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_057175.3	+1	validated	p.R714C	1.000	751	0%	233	12.9%	4	0%	probably_damaging(1)	deleterious(0)	deleterious(0.945)	superfamily_TPR-like
MAML3	55534	genome.wustl.edu	37	4	140640638	140640638	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_018717.4	-1	validated	p.R1081W	1.000	80	0%	48	20.8%	0	-	probably_damaging(1)	deleterious(0)	deleterious(0.945)	NULL
MAML3	55534	genome.wustl.edu	37	4	140812085	140812085	+	Nonsense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_018717.4	-1	validated	p.R169*	1.000	218	0.5%	116	12.9%	1	0%	-	-	-	NULL
CLGN	1047	genome.wustl.edu	37	4	141331764	141331764	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001130675.1	-1	reviewed	p.P54H	1.000	303	0%	211	16.1%	0	-	probably_damaging(1)	deleterious(0)	deleterious(0.945)	superfamily_Concanavalin A-like lectins/glucanases
UCP1	7350	genome.wustl.edu	37	4	141483481	141483481	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_021833.4	-1	reviewed	p.C225	1.000	251	0%	184	39.1%	0	-	-	-	-	superfamily_Mitoch_carrier,HMMPfam_Mito_carr
TBC1D9	23158	genome.wustl.edu	37	4	141543476	141543476	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_015130.2	-1	validated	p.A1225V	1.000	117	0%	146	16.4%	23	0%	benign(0.006)	tolerated(0.55)	neutral(0.007)	NULL
TBC1D9	23158	genome.wustl.edu	37	4	141578278	141578278	+	Silent	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_015130.2	-1	validated	p.I770	1.000	295	0%	156	16%	3	0%	-	-	-	superfamily_Ypt/Rab-GAP domain of gyp1p
TBC1D9	23158	genome.wustl.edu	37	4	141590886	141590886	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_015130.2	-1	validated	p.R447C	1.000	103	0%	51	29.4%	2	0%	possibly_damaging(0.92)	tolerated(0.09)	deleterious(0.667)	NULL
IL15	3600	genome.wustl.edu	37	4	142651123	142651123	+	Missense_Mutation	SNP	T	T	G	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_000585.3	+1	reviewed	p.L122V	0.033	284	0%	108	15.7%	3	0%	benign(0.046)	deleterious(0)	neutral(0.447)	HMMPfam_IL15
USP38	84640	genome.wustl.edu	37	4	144106796	144106796	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_032557.5	+1	validated	p.L65	1.000	47	0%	63	27%	0	-	-	-	-	NULL
USP38	84640	genome.wustl.edu	37	4	144109000	144109000	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_032557.5	+1	validated	p.V235A	1.000	280	0%	381	20.2%	0	-	possibly_damaging(0.657)	tolerated(0.66)	neutral(0.234)	NULL
GAB1	2549	genome.wustl.edu	37	4	144336678	144336678	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_207123.2	+1	reviewed	p.D41Y	1.000	337	0%	87	17.2%	0	-	probably_damaging(1)	deleterious(0)	deleterious(0.945)	HMMPfam_PH,HMMSmart_PH,superfamily_SSF50729
GAB1	2549	genome.wustl.edu	37	4	144359619	144359619	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_207123.2	+1	reviewed	p.R354Q	1.000	279	0%	112	17%	1	0%	probably_damaging(0.999)	tolerated(0.27)	deleterious(0.524)	NULL
FREM3	166752	genome.wustl.edu	37	4	144545333	144545333	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	ENST00000329798	-1	known	p.L1861M	1.000	390	0.3%	133	14.3%	0	-	probably_damaging(0.994)	deleterious(0.01)	deleterious(0.858)	HMMPfam_Calx-beta,HMMSmart_SM00237
FREM3	166752	genome.wustl.edu	37	4	144616811	144616811	+	Missense_Mutation	SNP	C	C	T	rs187342274	by1000genomes	TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	ENST00000329798	-1	known	p.R1673H	0.000	311	0%	328	29.6%	0	-	benign(0.004)	tolerated(0.61)	neutral(0.004)	NULL
FREM3	166752	genome.wustl.edu	37	4	144617281	144617281	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	ENST00000329798	-1	known	p.I1516	0.990	208	0%	229	21.8%	0	-	-	-	-	NULL
FREM3	166752	genome.wustl.edu	37	4	144618793	144618793	+	Silent	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	ENST00000329798	-1	known	p.L1012	1.000	141	0%	175	24%	0	-	-	-	-	NULL
FREM3	166752	genome.wustl.edu	37	4	144619342	144619342	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	ENST00000329798	-1	known	p.P829	0.989	227	0%	337	12.8%	0	-	-	-	-	NULL
FREM3	166752	genome.wustl.edu	37	4	144619807	144619807	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	ENST00000329798	-1	known	p.F674	1.000	143	0%	206	32%	0	-	-	-	-	NULL
GYPA	2993	genome.wustl.edu	37	4	145038026	145038026	+	Splice_Site	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	ENST00000394119	-1	known	e4-1	0.000	385	0%	91	20.9%	0	-	benign(0.184)	tolerated(0.13)	neutral(0.270)	-
ABCE1	6059	genome.wustl.edu	37	4	146030400	146030400	+	Missense_Mutation	SNP	A	A	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001040876.1	+1	reviewed	p.D135V	1.000	311	0%	137	24.1%	4	0%	benign(0.002)	deleterious(0.01)	neutral(0.406)	HMMPfam_ABC_tran,HMMSmart_SM00382,superfamily_P-loop containing nucleoside triphosphate hydrolases
OTUD4	54726	genome.wustl.edu	37	4	146059239	146059239	+	Silent	SNP	A	A	G	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001102653.1	-1	reviewed	p.N831	0.767	130	0%	38	15.8%	2	0%	-	-	-	NULL
OTUD4	54726	genome.wustl.edu	37	4	146072045	146072045	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001102653.1	-1	reviewed	p.K262N	1.000	384	0%	90	15.6%	1	0%	probably_damaging(0.997)	deleterious(0.05)	deleterious(0.811)	NULL
OTUD4	54726	genome.wustl.edu	37	4	146073719	146073719	+	Silent	SNP	T	T	G	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001102653.1	-1	reviewed	p.P249	1.000	235	0%	69	11.6%	0	-	-	-	-	NULL
MMAA	166785	genome.wustl.edu	37	4	146560413	146560413	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_172250.2	+1	reviewed	p.A41V	0.001	272	0%	95	12.6%	3	66.6%	benign(0.01)	deleterious(0.02)	neutral(0.384)	NULL
MMAA	166785	genome.wustl.edu	37	4	146575237	146575237	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_172250.2	+1	reviewed	p.A304V	0.983	348	0%	168	19%	11	36.3%	benign(0.014)	tolerated(0.1)	neutral(0.287)	HMMPfam_ArgK,superfamily_P-loop containing nucleoside triphosphate hydrolases
C4orf51	646603	genome.wustl.edu	37	4	146650365	146650365	+	Silent	SNP	A	A	G	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	ENST00000511965	+1	known	p.Q97R	0.000	554	0%	613	14.2%	0	-	-	-	-	NULL
ZNF827	152485	genome.wustl.edu	37	4	146823496	146823496	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_178835.3	-1	validated	p.E305	1.000	192	0%	95	26.3%	1	100%	-	-	-	NULL
POU4F2	5458	genome.wustl.edu	37	4	147561630	147561630	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_004575.2	+1	validated	p.C300	1.000	80	0%	116	35.3%	0	-	-	-	-	HMMPfam_Pou,HMMSmart_SM00352,PatternScan_POU_2,superfamily_lambda repressor-like DNA-binding domains
MIR548G	100313938	genome.wustl.edu	37	4	148265848	148265848	+	RNA	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	ENST00000408442	-1	known	NULL	0.023	73	0%	49	10.2%	0	-	-	-	-	-
TMEM184C	55751	genome.wustl.edu	37	4	148544995	148544995	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_018241.2	+1	validated	p.H45R	1.000	544	0%	162	16%	2	0%	benign(0.151)	tolerated(0.06)	neutral(0.336)	HMMPfam_DUF300
PRMT10	90826	genome.wustl.edu	37	4	148591790	148591790	+	Splice_Site	SNP	A	A	G	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_138364.2	-1	provisional	e5+2	1.000	348	0%	101	22.8%	0	-	-	-	-	-
PRMT10	90826	genome.wustl.edu	37	4	148594151	148594151	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_138364.2	-1	provisional	p.T234	1.000	279	0%	144	24.3%	1	0%	-	-	-	superfamily_S-adenosyl-L-methionine-dependent methyltransferases
ARHGAP10	79658	genome.wustl.edu	37	4	148768338	148768338	+	Nonsense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_024605.3	+1	validated	p.E117*	1.000	540	0.2%	172	13.4%	3	0%	-	-	-	NULL
ARHGAP10	79658	genome.wustl.edu	37	4	148830882	148830882	+	Splice_Site	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_024605.3	+1	validated	e12-1	0.995	544	0%	210	24.3%	0	-	-	-	-	-
ARHGAP10	79658	genome.wustl.edu	37	4	148944496	148944496	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_024605.3	+1	validated	p.S600L	0.993	248	0.4%	82	24.4%	5	0%	benign(0.096)	tolerated(0.12)	neutral(0.268)	NULL
ARHGAP10	79658	genome.wustl.edu	37	4	148984317	148984317	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_024605.3	+1	validated	p.S682	0.000	272	0.4%	127	23.6%	10	20%	-	-	-	NULL
NR3C2	4306	genome.wustl.edu	37	4	149356636	149356636	+	Silent	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_000901.4	-1	reviewed	p.S459	1.000	171	0%	127	18.1%	0	-	-	-	-	NULL
DCLK2	166614	genome.wustl.edu	37	4	151023665	151023665	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001040260.2	+1	validated	p.R153C	1.000	98	1%	24	50%	2	0%	probably_damaging(0.999)	deleterious(0)	deleterious(0.935)	HMMPfam_DCX,HMMSmart_SM00537,superfamily_Doublecortin (DC)
DCLK2	166614	genome.wustl.edu	37	4	151141893	151141893	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001040260.2	+1	validated	p.N365	0.633	359	0%	121	18.2%	1	0%	-	-	-	NULL
LRBA	987	genome.wustl.edu	37	4	151223843	151223843	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_006726.2	-1	validated	p.R2662C	1.000	353	0%	146	11%	11	0%	probably_damaging(1)	deleterious(0.01)	deleterious(0.905)	HMMSmart_SM00320,superfamily_WD40 repeat-like,HMMPfam_WD40
LRBA	987	genome.wustl.edu	37	4	151231440	151231440	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_006726.2	-1	validated	p.R2608H	1.000	365	0.5%	71	12.7%	3	0%	probably_damaging(1)	deleterious(0)	deleterious(0.945)	HMMSmart_SM00320,superfamily_WD40 repeat-like
LRBA	987	genome.wustl.edu	37	4	151336643	151336643	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_006726.2	-1	validated	p.E2392K	1.000	359	0%	197	23.9%	0	-	benign(0.037)	tolerated(0.77)	neutral(0.003)	HMMPfam_Beach,superfamily_BEACH domain
MAB21L2	10586	genome.wustl.edu	37	4	151504445	151504445	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_006439.4	+1	reviewed	p.F88	1.000	64	0%	102	27.5%	0	-	-	-	-	HMMPfam_Mab-21
MAB21L2	10586	genome.wustl.edu	37	4	151504637	151504637	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_006439.4	+1	reviewed	p.I152	1.000	62	0%	107	25.2%	0	-	-	-	-	HMMPfam_Mab-21
PET112	5188	genome.wustl.edu	37	4	152609822	152609822	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_004564.2	-1	validated	p.L431M	0.987	311	0%	147	25.2%	19	26.3%	benign(0.161)	tolerated(0.11)	neutral(0.286)	superfamily_GatB/YqeY domain,HMMPfam_GatB_Yqey
FBXW7	55294	genome.wustl.edu	37	4	153247289	153247289	+	Missense_Mutation	SNP	G	G	A	rs149680468		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_033632.2	-1	reviewed	p.R505C	1.000	324	0%	80	11.3%	0	-	probably_damaging(1)	deleterious(0)	deleterious(0.945)	HMMSmart_SM00320,superfamily_WD40 repeat-like,HMMPfam_WD40
TMEM154	201799	genome.wustl.edu	37	4	153573946	153573946	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_152680.1	-1	provisional	p.N66K	0.000	409	0%	381	24.1%	0	-	benign(0.045)	tolerated(0.09)	neutral(0.299)	NULL
TIGD4	201798	genome.wustl.edu	37	4	153690664	153690664	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_145720.2	-1	reviewed	p.S498Y	1.000	90	0%	116	12.1%	0	-	possibly_damaging(0.733)	deleterious(0.01)	deleterious(0.673)	NULL
TIGD4	201798	genome.wustl.edu	37	4	153691166	153691166	+	Nonsense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_145720.2	-1	reviewed	p.R331*	0.742	192	0.5%	243	23%	0	-	-	-	-	HMMPfam_DDE
FHDC1	85462	genome.wustl.edu	37	4	153881743	153881743	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_033393.2	+1	validated	p.G230	0.431	462	0%	179	22.9%	0	-	-	-	-	HMMSmart_FH2,HMMPfam_FH2,superfamily_FH2_actin_bd
FHDC1	85462	genome.wustl.edu	37	4	153881915	153881915	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_033393.2	+1	validated	p.A257T	1.000	540	0%	226	20.8%	0	-	possibly_damaging(0.476)	tolerated(0.05)	deleterious(0.502)	HMMSmart_FH2,HMMPfam_FH2,superfamily_FH2_actin_bd
LOC100287377	100287377	genome.wustl.edu	37	4	153895898	153895898	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	XM_002342473.1	-1	model	p.A682T	0.000	56	0%	88	13.6%	0	-	-	-	-	NULL
FHDC1	85462	genome.wustl.edu	37	4	153896355	153896355	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_033393.2	+1	validated	p.R638W	0.000	17	0%	28	32.1%	0	-	probably_damaging(0.982)	deleterious(0.03)	deleterious(0.791)	NULL
FHDC1	85462	genome.wustl.edu	37	4	153896376	153896376	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_033393.2	+1	validated	p.L645I	0.042	18	0%	31	19.4%	0	-	possibly_damaging(0.849)	tolerated(0.18)	neutral(0.382)	NULL
KIAA0922	23240	genome.wustl.edu	37	4	154510093	154510093	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_015196.3	+1	validated	p.V534A	0.890	372	0%	59	35.6%	2	0%	possibly_damaging(0.909)	tolerated(0.24)	neutral(0.399)	NULL
KIAA0922	23240	genome.wustl.edu	37	4	154512284	154512284	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_015196.3	+1	validated	p.R583C	1.000	348	0%	87	31%	0	-	probably_damaging(1)	deleterious(0)	deleterious(0.945)	NULL
KIAA0922	23240	genome.wustl.edu	37	4	154512322	154512322	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_015196.3	+1	validated	p.S595	0.985	262	0%	63	23.8%	0	-	-	-	-	NULL
DCHS2	54798	genome.wustl.edu	37	4	155157839	155157839	+	Silent	SNP	T	T	C	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_017639.3	-1	validated	p.V2200	0.003	96	0%	33	12.1%	0	-	-	-	-	HMMPfam_Cadherin,HMMSmart_SM00112,PatternScan_CADHERIN_1,superfamily_Cadherin-like
DCHS2	54798	genome.wustl.edu	37	4	155157881	155157881	+	Silent	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_017639.3	-1	validated	p.G2186	0.000	131	0%	23	21.7%	0	-	-	-	-	HMMPfam_Cadherin,HMMSmart_SM00112,superfamily_Cadherin-like
DCHS2	54798	genome.wustl.edu	37	4	155219066	155219066	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_017639.3	-1	validated	p.D1679N	0.897	194	0%	51	15.7%	0	-	benign(0.323)	tolerated(0.5)	neutral(0.111)	HMMSmart_SM00112
DCHS2	54798	genome.wustl.edu	37	4	155219751	155219751	+	Nonsense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_017639.3	-1	validated	p.C1450*	0.405	231	0%	77	19.5%	0	-	-	-	-	HMMPfam_Cadherin,HMMSmart_SM00112,superfamily_Cadherin-like
DCHS2	54798	genome.wustl.edu	37	4	155253797	155253797	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_017639.3	-1	validated	p.S689Y	1.000	208	0%	280	14.6%	0	-	probably_damaging(0.996)	deleterious(0.05)	deleterious(0.807)	HMMSmart_SM00112,PatternScan_CADHERIN_1,superfamily_Cadherin-like
DCHS2	54798	genome.wustl.edu	37	4	155312445	155312445	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_017639.3	-1	validated	p.R2I	0.000	421	0%	117	17.1%	0	-	benign(0)	-	-	NULL
PLRG1	5356	genome.wustl.edu	37	4	155458497	155458497	+	Nonsense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_002669.2	-1	provisional	p.R476*	1.000	271	0%	100	12%	86	8.1%	-	-	-	HMMSmart_SM00320,superfamily_WD40 repeat-like,HMMPfam_WD40
PLRG1	5356	genome.wustl.edu	37	4	155467062	155467062	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_002669.2	-1	provisional	p.R140C	1.000	196	0%	86	22.1%	9	0%	probably_damaging(1)	deleterious(0.02)	deleterious(0.883)	NULL
FGA	2243	genome.wustl.edu	37	4	155506735	155506735	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_000508.3	-1	reviewed	p.T616A	0.000	277	0%	78	15.4%	0	-	benign(0.013)	tolerated(0.65)	neutral(0.004)	NULL
RBM46	166863	genome.wustl.edu	37	4	155720519	155720519	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_144979.3	+1	validated	p.C402Y	1.000	111	0%	37	10.8%	0	-	probably_damaging(1)	deleterious(0)	deleterious(0.945)	NULL
NPY2R	4887	genome.wustl.edu	37	4	156136153	156136153	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_000910.2	+1	provisional	p.S354	0.175	153	2%	126	23.8%	0	-	-	-	-	NULL
MAP9	79884	genome.wustl.edu	37	4	156278645	156278645	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001039580.1	-1	validated	p.K359N	0.993	502	0%	100	17%	8	0%	probably_damaging(0.998)	tolerated(0.44)	deleterious(0.487)	NULL
ASIC5	51802	genome.wustl.edu	37	4	156764899	156764899	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_017419.2	-1	reviewed	p.Q265	0.921	190	0%	34	20.6%	0	-	-	-	-	HMMPfam_ASC
ASIC5	51802	genome.wustl.edu	37	4	156773408	156773408	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_017419.2	-1	reviewed	p.L216I	0.610	343	0%	62	29%	0	-	benign(0)	tolerated(0.31)	neutral(0.027)	HMMPfam_ASC
TDO2	6999	genome.wustl.edu	37	4	156825188	156825188	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_005651.2	+1	validated	p.L18	0.000	275	0%	243	25.1%	0	-	-	-	-	NULL
TDO2	6999	genome.wustl.edu	37	4	156839334	156839334	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_005651.2	+1	validated	p.G337D	1.000	170	0%	110	15.5%	0	-	probably_damaging(1)	deleterious(0)	deleterious(0.945)	HMMPfam_Trp_dioxygenase
GLRB	2743	genome.wustl.edu	37	4	158074159	158074159	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_000824.4	+1	reviewed	p.L398	0.998	201	0%	57	28.1%	1	0%	-	-	-	HMMPfam_Neur_chan_memb,superfamily_Neurotransmitter-gated ion-channel transmembrane pore
GRIA2	2891	genome.wustl.edu	37	4	158233939	158233939	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_000826.3	+1	reviewed	p.R193Q	1.000	295	0%	60	30%	0	-	probably_damaging(0.994)	tolerated(0.16)	deleterious(0.512)	HMMPfam_ANF_receptor,superfamily_SSF53822
RXFP1	59350	genome.wustl.edu	37	4	159520535	159520535	+	Missense_Mutation	SNP	A	A	C	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_021634.2	+1	provisional	p.E115A	0.998	452	0%	129	14.7%	0	-	benign(0)	tolerated(0.68)	neutral(0.002)	superfamily_L domain-like
RXFP1	59350	genome.wustl.edu	37	4	159520559	159520559	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_021634.2	+1	provisional	p.S123L	1.000	420	0.2%	116	22.4%	0	-	benign(0)	tolerated(0.31)	neutral(0.027)	superfamily_L domain-like
RXFP1	59350	genome.wustl.edu	37	4	159572991	159572991	+	Silent	SNP	A	A	G	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_021634.2	+1	provisional	p.R686	1.000	253	0%	120	20%	12	33.3%	-	-	-	superfamily_Family A G protein-coupled receptor-like
RXFP1	59350	genome.wustl.edu	37	4	159573044	159573044	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_021634.2	+1	provisional	p.S704Y	0.993	246	0%	126	23%	14	35.7%	possibly_damaging(0.612)	tolerated(0.07)	deleterious(0.531)	superfamily_Family A G protein-coupled receptor-like
ETFDH	2110	genome.wustl.edu	37	4	159627394	159627394	+	Nonsense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_004453.2	+1	reviewed	p.E447*	1.000	334	0%	115	15.7%	11	9%	-	-	-	superfamily_FAD/NAD(P)-binding domain
RAPGEF2	9693	genome.wustl.edu	37	4	160251610	160251610	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_014247.2	+1	validated	p.K315R	1.000	286	0%	102	27.5%	1	0%	benign(0.1)	tolerated(0.24)	neutral(0.045)	HMMPfam_RasGEF_N,HMMSmart_RasGEFN,superfamily_Ras_GEF
RAPGEF2	9693	genome.wustl.edu	37	4	160252653	160252653	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_014247.2	+1	validated	p.R352Q	1.000	262	0%	55	18.2%	0	-	benign(0.021)	tolerated(0.41)	neutral(0.016)	HMMPfam_RasGEF_N,HMMSmart_RasGEFN,superfamily_Ras_GEF
RAPGEF2	9693	genome.wustl.edu	37	4	160252815	160252815	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_014247.2	+1	validated	p.A376T	1.000	172	0%	28	25%	0	-	probably_damaging(0.999)	deleterious(0)	deleterious(0.935)	HMMSmart_RasGEFN,superfamily_PDZ,superfamily_Ras_GEF
RAPGEF2	9693	genome.wustl.edu	37	4	160266331	160266331	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_014247.2	+1	validated	p.R957C	1.000	205	0%	96	20.8%	0	-	probably_damaging(1)	deleterious(0)	deleterious(0.945)	superfamily_Ras_GEF
RAPGEF2	9693	genome.wustl.edu	37	4	160268109	160268109	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_014247.2	+1	validated	p.P1063L	1.000	190	0%	83	26.5%	1	0%	probably_damaging(0.997)	deleterious(0.03)	deleterious(0.831)	NULL
FSTL5	56884	genome.wustl.edu	37	4	162307403	162307403	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_020116.3	-1	validated	p.D680	0.699	192	0%	34	11.8%	0	-	-	-	-	superfamily_Amine_DH_B_like
FSTL5	56884	genome.wustl.edu	37	4	163032496	163032496	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_020116.3	-1	validated	p.S18L	0.590	275	0%	92	23.9%	0	-	benign(0.014)	deleterious(0.01)	neutral(0.406)	NULL
NPY1R	4886	genome.wustl.edu	37	4	164246499	164246499	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_000909.4	-1	validated	p.A371T	0.007	309	0.3%	288	19.4%	1	0%	benign(0)	deleterious(0.03)	neutral(0.364)	NULL
NPY5R	4889	genome.wustl.edu	37	4	164271783	164271783	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_006174.2	+1	provisional	p.L120I	0.998	657	0%	612	10.8%	0	-	possibly_damaging(0.905)	tolerated(0.85)	neutral(0.360)	HMMPfam_7tm_1,superfamily_SSF81321
TKTL2	84076	genome.wustl.edu	37	4	164393571	164393571	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_032136.4	-1	validated	p.A439V	1.000	175	0%	238	10.9%	0	-	probably_damaging(0.998)	deleterious(0)	deleterious(0.919)	HMMPfam_Transket_pyr,superfamily_SSF52518
TKTL2	84076	genome.wustl.edu	37	4	164394012	164394012	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_032136.4	-1	validated	p.S292L	0.018	210	0%	342	24.3%	0	-	benign(0)	tolerated(0.39)	neutral(0.016)	superfamily_SSF52518
FAM218A	152756	genome.wustl.edu	37	4	165878634	165878634	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_153027.1	+1	predicted	p.S154P	0.001	109	0%	99	25.3%	0	-	benign(0)	-	-	NULL
CPE	1363	genome.wustl.edu	37	4	166418702	166418702	+	Missense_Mutation	SNP	A	A	C	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001873.2	+1	reviewed	p.E457D	1.000	563	0%	184	18.5%	32	0%	unknown(0)	tolerated(0.25)	-	HMMSmart_SM00631,superfamily_Carboxypeptidase regulatory domain
TLL1	7092	genome.wustl.edu	37	4	166976416	166976416	+	Silent	SNP	T	T	C	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_012464.3	+1	reviewed	p.F571	1.000	339	0%	65	20%	0	-	-	-	-	HMMPfam_CUB,HMMSmart_SM00042,superfamily_Spermadhesin CUB domain
TLL1	7092	genome.wustl.edu	37	4	167020441	167020441	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_012464.3	+1	reviewed	p.R890Q	0.991	207	0%	43	27.9%	0	-	benign(0.131)	tolerated(0.29)	neutral(0.040)	HMMPfam_CUB,HMMSmart_SM00042,superfamily_Spermadhesin CUB domain
DDX60	55601	genome.wustl.edu	37	4	169196648	169196648	+	Nonsense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_017631.5	-1	validated	p.E718*	0.001	232	0%	70	27.1%	0	-	-	-	-	superfamily_P-loop containing nucleoside triphosphate hydrolases
DDX60	55601	genome.wustl.edu	37	4	169197318	169197318	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_017631.5	-1	validated	p.D665Y	0.997	477	0.2%	104	13.5%	0	-	probably_damaging(0.996)	tolerated(1)	neutral(0.462)	NULL
DDX60L	91351	genome.wustl.edu	37	4	169379110	169379110	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001012967.1	-1	validated	p.E219G	0.010	480	0%	129	19.4%	0	-	probably_damaging(0.991)	deleterious(0)	deleterious(0.889)	NULL
CLCN3	1182	genome.wustl.edu	37	4	170618862	170618862	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_173872.2	+1	validated	p.T514A	1.000	170	0.6%	50	28%	2	100%	probably_damaging(0.973)	tolerated(0.38)	neutral(0.432)	HMMPfam_Voltage_CLC,superfamily_Cl-channel_core
C4orf27	54969	genome.wustl.edu	37	4	170663134	170663134	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_017867.2	-1	validated	p.V208M	0.000	699	0%	315	24.8%	33	18.1%	benign(0)	tolerated(0.12)	neutral(0.261)	HMMPfam_DUF2228
MFAP3L	9848	genome.wustl.edu	37	4	170927022	170927022	+	Nonsense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_021647.6	-1	validated	p.R3*	0.144	183	0%	46	13%	1	0%	-	-	-	NULL
AADAT	51166	genome.wustl.edu	37	4	170990359	170990359	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_016228.3	-1	reviewed	p.S248F	1.000	220	0.5%	58	8.6%	1	0%	probably_damaging(1)	deleterious(0)	deleterious(0.945)	HMMPfam_Aminotran_1_2,superfamily_PLP-dependent transferases
GALNTL6	442117	genome.wustl.edu	37	4	172735751	172735751	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001034845.2	+1	validated	p.R7K	1.000	391	0%	680	23.1%	0	-	probably_damaging(0.988)	deleterious(0.02)	deleterious(0.821)	NULL
GALNTL6	442117	genome.wustl.edu	37	4	173150916	173150916	+	Splice_Site	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001034845.2	+1	validated	e2+1	1.000	264	0%	64	21.9%	0	-	-	-	-	-
SAP30	8819	genome.wustl.edu	37	4	174295188	174295188	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_003864.3	+1	reviewed	p.E180	1.000	357	0.3%	465	24.9%	32	0%	-	-	-	NULL
FBXO8	26269	genome.wustl.edu	37	4	175184113	175184113	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_012180.2	-1	reviewed	p.R44H	0.997	552	0%	291	17.9%	3	0%	probably_damaging(0.959)	deleterious(0)	deleterious(0.847)	NULL
GLRA3	8001	genome.wustl.edu	37	4	175603979	175603979	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_006529.2	-1	validated	p.R229Q	0.983	326	0.3%	199	12.6%	0	-	benign(0.222)	tolerated(0.55)	neutral(0.029)	HMMPfam_Neur_chan_LBD,superfamily_Nicotinic receptor ligand binding domain-like
GLRA3	8001	genome.wustl.edu	37	4	175688128	175688128	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_006529.2	-1	validated	p.A85T	0.993	366	0%	187	20.9%	0	-	benign(0.001)	tolerated(0.66)	neutral(0.003)	HMMPfam_Neur_chan_LBD,superfamily_Nicotinic receptor ligand binding domain-like
ADAM29	11086	genome.wustl.edu	37	4	175897297	175897297	+	Missense_Mutation	SNP	T	T	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001130703.1	+1	reviewed	p.D207E	0.000	385	0%	68	22.1%	0	-	probably_damaging(0.985)	deleterious(0.04)	deleterious(0.781)	"HMMPfam_Reprolysin,superfamily_Metalloproteases (""zincins"") catalytic domain"
ADAM29	11086	genome.wustl.edu	37	4	175897843	175897843	+	Silent	SNP	A	A	G	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001130703.1	+1	reviewed	p.V389	0.000	420	0.2%	134	21.6%	0	-	-	-	-	HMMPfam_Reprolysin
ADAM29	11086	genome.wustl.edu	37	4	175897871	175897871	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001130703.1	+1	reviewed	p.R399C	0.468	466	0%	150	24%	0	-	probably_damaging(1)	tolerated(0.17)	deleterious(0.559)	NULL
ADAM29	11086	genome.wustl.edu	37	4	175898248	175898248	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001130703.1	+1	reviewed	p.L524	0.005	140	0%	56	23.2%	0	-	-	-	-	HMMPfam_ADAM_CR,HMMSmart_SM00608
GPM6A	2823	genome.wustl.edu	37	4	176622885	176622885	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_005277.3	-1	validated	p.G24D	1.000	106	0%	33	15.2%	0	-	probably_damaging(0.992)	deleterious(0.03)	deleterious(0.812)	HMMPfam_Myelin_PLP
SPCS3	60559	genome.wustl.edu	37	4	177248334	177248334	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_021928.3	+1	validated	p.W106R	0.997	306	0%	204	11.3%	36	19.4%	possibly_damaging(0.648)	deleterious(0)	deleterious(0.672)	HMMPfam_SPC22
VEGFC	7424	genome.wustl.edu	37	4	177632699	177632699	+	Nonsense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	ENST00000280193	-1	known	p.Q220*	1.000	357	0.3%	103	19.4%	33	0%	-	-	-	NULL
VEGFC	7424	genome.wustl.edu	37	4	177713333	177713333	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	ENST00000280193	-1	known	p.A45T	0.391	15	0%	33	27.3%	3	0%	benign(0.005)	tolerated(0.08)	neutral(0.300)	NULL
ODZ3	55714	genome.wustl.edu	37	4	183267815	183267815	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001080477.1	+1	provisional	p.T82A	1.000	205	0%	94	12.8%	2	0%	benign(0.006)	tolerated(0.21)	neutral(0.044)	HMMPfam_Ten_N
ODZ3	55714	genome.wustl.edu	37	4	183652169	183652169	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001080477.1	+1	provisional	p.E948D	1.000	407	0.5%	94	22.3%	0	-	benign(0.19)	tolerated(0.17)	neutral(0.077)	superfamily_ConA_like_lec_gl
ODZ3	55714	genome.wustl.edu	37	4	183713559	183713559	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001080477.1	+1	provisional	p.R1912C	1.000	46	0%	53	18.9%	0	-	probably_damaging(1)	deleterious(0)	deleterious(0.945)	NULL
ODZ3	55714	genome.wustl.edu	37	4	183714115	183714115	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001080477.1	+1	provisional	p.S2097L	1.000	115	0%	104	16.3%	0	-	probably_damaging(0.988)	tolerated(0.65)	neutral(0.441)	NULL
ODZ3	55714	genome.wustl.edu	37	4	183721038	183721038	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001080477.1	+1	provisional	p.D2545G	1.000	21	0%	44	22.7%	7	14.2%	probably_damaging(1)	deleterious(0)	deleterious(0.945)	NULL
STOX2	56977	genome.wustl.edu	37	4	184932061	184932061	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	ENST00000506529	+1	known	p.L46F	0.999	60	0%	46	32.6%	1	0%	-	-	-	NULL
ENPP6	133121	genome.wustl.edu	37	4	185012359	185012359	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_153343.3	-1	validated	p.A432T	0.462	58	0%	39	20.5%	0	-	benign(0.017)	tolerated(0.56)	neutral(0.007)	NULL
CCDC111	201973	genome.wustl.edu	37	4	185603480	185603480	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_152683.2	+1	validated	p.I362	0.001	456	0%	224	10.7%	2	0%	-	-	-	NULL
ACSL1	2180	genome.wustl.edu	37	4	185691410	185691410	+	Missense_Mutation	SNP	T	T	G	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	ENST00000513317	-1	known	p.K331T	0.004	121	0%	60	15%	0	-	benign(0)	deleterious(0.02)	neutral(0.383)	HMMPfam_AMP-binding,superfamily_SSF56801
SLC25A4	291	genome.wustl.edu	37	4	186066164	186066164	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001151.3	+1	reviewed	p.G120S	1.000	175	0%	225	13.8%	20	5%	possibly_damaging(0.822)	deleterious(0.02)	deleterious(0.694)	superfamily_Mitoch_carrier,HMMPfam_Mito_carr
KIAA1430	57587	genome.wustl.edu	37	4	186097094	186097094	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_020827.1	-1	validated	p.R389Q	1.000	575	0.3%	173	31.2%	0	-	benign(0.285)	deleterious(0)	deleterious(0.532)	NULL
SNX25	83891	genome.wustl.edu	37	4	186283089	186283089	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_031953.2	+1	validated	p.D724G	1.000	188	0%	117	29.1%	23	13%	probably_damaging(0.969)	deleterious(0.01)	deleterious(0.817)	HMMPfam_Nexin_C
UFSP2	55325	genome.wustl.edu	37	4	186326973	186326973	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_018359.3	-1	validated	p.A387S	1.000	328	0%	185	27%	35	17.1%	benign(0.061)	tolerated(0.08)	neutral(0.304)	HMMPfam_Peptidase_C78
C4orf47	441054	genome.wustl.edu	37	4	186361698	186361698	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001114357.1	+1	predicted	p.A180V	0.715	147	0.7%	92	23.9%	2	0%	benign(0.03)	tolerated(0.12)	neutral(0.262)	NULL
PDLIM3	27295	genome.wustl.edu	37	4	186435457	186435457	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_014476.3	-1	reviewed	p.R122Q	1.000	209	0%	83	12%	2	0%	probably_damaging(0.97)	tolerated(0.09)	deleterious(0.709)	NULL
PDLIM3	27295	genome.wustl.edu	37	4	186435955	186435955	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001114107.2	-1	reviewed	p.S140	1.000	236	0%	96	30.2%	282	0%	-	-	-	HMMSmart_ZM
SORBS2	8470	genome.wustl.edu	37	4	186544361	186544361	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_021069.4	-1	reviewed	p.D737G	1.000	191	0%	161	11.8%	0	-	probably_damaging(0.998)	deleterious(0)	deleterious(0.919)	NULL
SORBS2	8470	genome.wustl.edu	37	4	186545235	186545235	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_021069.4	-1	reviewed	p.A446T	0.848	159	0%	130	21.5%	0	-	benign(0.003)	tolerated(0.13)	neutral(0.253)	NULL
SORBS2	8470	genome.wustl.edu	37	4	186545458	186545458	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_021069.4	-1	reviewed	p.T371	0.001	140	0%	118	33.9%	0	-	-	-	-	NULL
SORBS2	8470	genome.wustl.edu	37	4	186559310	186559310	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_003603.5	-1	reviewed	p.R277C	1.000	391	0%	457	24.9%	0	-	unknown(0)	tolerated(0.06)	-	NULL
SORBS2	8470	genome.wustl.edu	37	4	186578641	186578641	+	Silent	SNP	T	T	C	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	ENST00000438278	-1	known	p.S12G	1.000	223	0%	71	25.4%	2	50%	-	-	-	HMMPfam_Sorb,HMMSmart_SM00459
TLR3	7098	genome.wustl.edu	37	4	187005918	187005918	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_003265.2	+1	reviewed	p.G869E	1.000	220	0%	121	24%	1	0%	-	-	-	HMMPfam_TIR,HMMSmart_TIR,superfamily_TIR
FAM149A	25854	genome.wustl.edu	37	4	187088180	187088180	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001006655.2	+1	validated	p.R408Q	0.000	147	0.7%	92	23.9%	22	22.7%	possibly_damaging(0.938)	tolerated(0.23)	neutral(0.425)	NULL
CYP4V2	285440	genome.wustl.edu	37	4	187115703	187115703	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_207352.3	+1	reviewed	p.P88	0.051	335	0%	420	21.9%	0	-	-	-	-	HMMPfam_p450,superfamily_Cytochrome P450
KLKB1	3818	genome.wustl.edu	37	4	187155159	187155159	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_000892.3	+1	reviewed	p.R92Q	0.000	398	0%	279	30.1%	1	0%	benign(0.128)	deleterious(0.02)	neutral(0.394)	HMMSmart_APPLE,PatternScan_APPLE,HMMPfam_PAN_1
KLKB1	3818	genome.wustl.edu	37	4	187177217	187177217	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_000892.3	+1	reviewed	p.G521R	1.000	245	0%	231	12.1%	1	0%	probably_damaging(1)	deleterious(0)	deleterious(0.945)	HMMPfam_Trypsin,HMMSmart_Tryp_SPc,superfamily_Pept_Ser_Cys
F11	2160	genome.wustl.edu	37	4	187196992	187196992	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_000128.3	+1	reviewed	p.T179	0.000	274	0%	116	19%	0	-	-	-	-	HMMSmart_SM00223,PatternScan_APPLE,HMMPfam_PAN_1
F11	2160	genome.wustl.edu	37	4	187209669	187209669	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	ENST00000264691	+1	known	p.R127Q	0.039	215	0.5%	181	27.6%	0	-	-	-	-	HMMPfam_Trypsin,HMMSmart_SM00020,superfamily_Trypsin-like serine proteases
MTNR1A	4543	genome.wustl.edu	37	4	187455358	187455358	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_005958.3	-1	reviewed	p.A180T	0.053	108	0%	69	18.8%	0	-	benign(0)	tolerated(0.69)	neutral(0.002)	HMMPfam_7tm_1,superfamily_Family A G protein-coupled receptor-like
FAT1	2195	genome.wustl.edu	37	4	187509809	187509809	+	Silent	SNP	G	G	A	rs1552691		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	ENST00000512772	-1	known	p.R348*	0.451	85	0%	32	28.1%	17	5.8%	-	-	-	NULL
FAT1	2195	genome.wustl.edu	37	4	187524804	187524804	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_005245.3	-1	reviewed	p.D3626N	0.997	159	0%	80	18.8%	2	0%	possibly_damaging(0.837)	tolerated(0.61)	neutral(0.324)	HMMPfam_Cadherin,HMMSmart_SM00112,superfamily_Concanavalin A-like lectins/glucanases,superfamily_Cadherin-like
FAT1	2195	genome.wustl.edu	37	4	187527290	187527290	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_005245.3	-1	reviewed	p.I3428	0.630	194	0%	98	25.5%	2	0%	-	-	-	HMMPfam_Cadherin,HMMSmart_SM00112,PatternScan_CADHERIN_1,superfamily_Concanavalin A-like lectins/glucanases,superfamily_Cadherin-like
FAT1	2195	genome.wustl.edu	37	4	187534356	187534356	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_005245.3	-1	reviewed	p.E3124K	0.990	172	0%	72	22.2%	0	-	benign(0.001)	tolerated(1)	-	superfamily_Concanavalin A-like lectins/glucanases,superfamily_Cadherin-like
FAT1	2195	genome.wustl.edu	37	4	187538291	187538291	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_005245.3	-1	reviewed	p.K2981N	1.000	505	0%	151	25.8%	1	0%	benign(0.177)	tolerated(0.07)	neutral(0.336)	HMMPfam_Cadherin,HMMSmart_SM00112,superfamily_Concanavalin A-like lectins/glucanases,superfamily_Cadherin-like
FAT1	2195	genome.wustl.edu	37	4	187541129	187541129	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_005245.3	-1	reviewed	p.V2204A	0.186	181	0%	61	11.5%	0	-	benign(0.028)	deleterious(0.01)	neutral(0.407)	HMMPfam_Cadherin,HMMSmart_SM00112,superfamily_Concanavalin A-like lectins/glucanases,superfamily_Cadherin-like
FAT1	2195	genome.wustl.edu	37	4	187557901	187557901	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_005245.3	-1	reviewed	p.P1270	0.000	269	0%	141	31.9%	0	-	-	-	-	HMMPfam_Cadherin,superfamily_Concanavalin A-like lectins/glucanases,superfamily_Cadherin-like
FAT1	2195	genome.wustl.edu	37	4	187628003	187628003	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_005245.3	-1	reviewed	p.K993N	1.000	228	0%	125	18.4%	2	0%	benign(0.177)	tolerated(0.34)	neutral(0.040)	HMMPfam_Cadherin,HMMSmart_SM00112,superfamily_Concanavalin A-like lectins/glucanases,superfamily_Cadherin-like
FAT1	2195	genome.wustl.edu	37	4	187629400	187629400	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_005245.3	-1	reviewed	p.E528K	1.000	103	0%	73	28.8%	0	-	probably_damaging(0.999)	deleterious(0.01)	deleterious(0.896)	HMMPfam_Cadherin,HMMSmart_SM00112,superfamily_Cadherin-like
FAT1	2195	genome.wustl.edu	37	4	187630240	187630240	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_005245.3	-1	reviewed	p.E248K	1.000	97	0%	70	11.4%	0	-	possibly_damaging(0.912)	tolerated(0.29)	neutral(0.393)	HMMPfam_Cadherin,HMMSmart_SM00112,superfamily_Cadherin-like
ZFP42	132625	genome.wustl.edu	37	4	188924181	188924181	+	Nonsense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_174900.3	+1	validated	p.E74*	1.000	175	0%	176	27.8%	0	-	-	-	-	NULL
TRIML2	205860	genome.wustl.edu	37	4	189018266	189018266	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_173553.1	-1	provisional	p.L182M	0.989	243	0%	177	20.9%	0	-	probably_damaging(1)	tolerated(0.07)	deleterious(0.819)	NULL
TRIML1	339976	genome.wustl.edu	37	4	189067986	189067986	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_178556.3	+1	provisional	p.T289	0.029	54	0%	35	11.4%	0	-	-	-	-	HMMSmart_PRY
PLEKHG4B	153478	genome.wustl.edu	37	5	162927	162927	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_052909.3	+1	validated	p.S558P	0.000	30	0%	62	25.8%	0	-	possibly_damaging(0.686)	deleterious(0.01)	deleterious(0.651)	NULL
PLEKHG4B	153478	genome.wustl.edu	37	5	163435	163435	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_052909.3	+1	validated	p.T727M	0.968	77	0%	119	15.1%	0	-	possibly_damaging(0.843)	deleterious(0.03)	deleterious(0.688)	NULL
PLEKHG4B	153478	genome.wustl.edu	37	5	181652	181652	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_052909.3	+1	validated	p.S1120P	0.998	60	0%	90	28.9%	0	-	probably_damaging(0.996)	deleterious(0.02)	deleterious(0.845)	NULL
LRRC14B	389257	genome.wustl.edu	37	5	195448	195448	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001080478.1	+1	provisional	p.A509S	0.069	48	0%	95	22.1%	0	-	benign(0.001)	deleterious(0)	neutral(0.445)	NULL
SDHA	6389	genome.wustl.edu	37	5	240566	240566	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_004168.2	+1	reviewed	p.S509L	0.982	106	0%	45	26.7%	68	19.1%	possibly_damaging(0.927)	deleterious(0)	deleterious(0.820)	superfamily_Succinate dehydrogenase/fumarate reductase flavoprotein C-terminal domain
SDHA	6389	genome.wustl.edu	37	5	251211	251211	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_004168.2	+1	reviewed	p.F552	0.995	136	0%	72	13.9%	69	2.8%	-	-	-	HMMPfam_Succ_DH_flav_C,superfamily_Succinate dehydrogenase/fumarate reductase flavoprotein C-terminal domain
SDHA	6389	genome.wustl.edu	37	5	254486	254486	+	Missense_Mutation	SNP	G	G	A	rs185310988	by1000genomes	TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	ENST00000515815	+1	known	p.V74M	0.000	125	0%	80	11.3%	0	-	benign(0.001)	tolerated(0.89)	-	NULL
AHRR	57491	genome.wustl.edu	37	5	434769	434769	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_020731.3	+1	reviewed	p.G660	0.002	22	0%	44	22.7%	0	-	-	-	-	NULL
C5orf55	116349	genome.wustl.edu	37	5	442832	442832	+	Nonsense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_138464.2	-1	validated	p.E36*	0.001	68	0%	122	21.3%	2	0%	-	-	-	NULL
CEP72	55722	genome.wustl.edu	37	5	640597	640597	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_018140.3	+1	reviewed	p.D473Y	0.004	165	0%	198	11.1%	2	50%	possibly_damaging(0.925)	tolerated(0.09)	deleterious(0.670)	NULL
TPPP	11076	genome.wustl.edu	37	5	665336	665336	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_007030.2	-1	validated	p.D181N	1.000	71	0%	130	34.6%	1	0%	probably_damaging(0.99)	deleterious(0.02)	deleterious(0.825)	HMMPfam_p25-alpha
ZDHHC11	79844	genome.wustl.edu	37	5	819692	819692	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_024786.2	-1	validated	p.R365H	0.000	101	0%	173	21.4%	1	0%	possibly_damaging(0.865)	-	-	NULL
TRIP13	9319	genome.wustl.edu	37	5	901542	901542	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	ENST00000513435	+1	known	p.S173F	0.937	319	0%	343	12%	5	0%	-	-	-	HMMPfam_AAA,superfamily_P-loop containing nucleoside triphosphate hydrolases
SLC12A7	10723	genome.wustl.edu	37	5	1076350	1076350	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_006598.2	-1	validated	p.F584L	1.000	59	0%	117	31.6%	6	33.3%	probably_damaging(1)	deleterious(0)	deleterious(0.945)	HMMPfam_AA_permease
SLC12A7	10723	genome.wustl.edu	37	5	1079572	1079572	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_006598.2	-1	validated	p.D446G	1.000	77	0%	160	11.9%	1	0%	probably_damaging(0.995)	deleterious(0)	deleterious(0.902)	HMMPfam_AA_permease
SLC6A19	340024	genome.wustl.edu	37	5	1213643	1213643	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	ENST00000452116	+1	known	p.A213T	0.856	54	0%	92	20.7%	0	-	unknown(0)	deleterious(0)	-	NULL
SLC6A19	340024	genome.wustl.edu	37	5	1216672	1216672	+	Splice_Site	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001003841.2	+1	reviewed	e7-1	1.000	84	0%	131	26.7%	0	-	-	-	-	-
SLC6A19	340024	genome.wustl.edu	37	5	1217022	1217022	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001003841.2	+1	reviewed	p.V379M	0.000	41	0%	68	23.5%	0	-	benign(0.062)	tolerated(0.23)	neutral(0.045)	HMMPfam_SNF
SLC6A18	348932	genome.wustl.edu	37	5	1232354	1232354	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_182632.2	+1	validated	p.V61I	0.041	40	0%	70	28.6%	0	-	benign(0.002)	tolerated(0.3)	neutral(0.029)	HMMPfam_SNF
SLC6A18	348932	genome.wustl.edu	37	5	1232420	1232420	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_182632.2	+1	validated	p.R83W	1.000	18	0%	38	21.1%	0	-	probably_damaging(1)	deleterious(0)	deleterious(0.945)	HMMPfam_SNF
SLC6A18	348932	genome.wustl.edu	37	5	1244741	1244741	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_182632.2	+1	validated	p.A505	0.000	61	0%	117	25.6%	0	-	-	-	-	HMMPfam_SNF
TERT	7015	genome.wustl.edu	37	5	1293440	1293440	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_198253.2	-1	reviewed	p.R521C	0.658	33	0%	46	26.1%	0	-	probably_damaging(0.998)	deleterious(0)	deleterious(0.919)	NULL
SLC6A3	6531	genome.wustl.edu	37	5	1406383	1406383	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001044.4	-1	reviewed	p.D507N	0.999	13	0%	37	32.4%	0	-	possibly_damaging(0.735)	tolerated(0.15)	deleterious(0.510)	HMMPfam_SNF
SLC6A3	6531	genome.wustl.edu	37	5	1416305	1416305	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001044.4	-1	reviewed	p.D313	0.851	83	0%	188	29.8%	0	-	-	-	-	HMMPfam_SNF
IRX2	153572	genome.wustl.edu	37	5	2749655	2749655	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001134222.1	-1	validated	p.A166T	1.000	348	0.3%	537	11%	1	0%	probably_damaging(1)	deleterious(0)	deleterious(0.945)	HMMPfam_Homeobox,HMMSmart_HOX,superfamily_Homeodomain_like,PatternScan_HOMEOBOX_1
IRX2	153572	genome.wustl.edu	37	5	2749656	2749656	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001134222.1	-1	validated	p.F165	1.000	350	0.3%	542	13.8%	1	0%	-	-	-	HMMPfam_Homeobox,HMMSmart_HOX,superfamily_Homeodomain_like,PatternScan_HOMEOBOX_1
C5orf38	153571	genome.wustl.edu	37	5	2752556	2752556	+	Nonsense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_178569.2	+1	provisional	p.R60*	0.000	22	0%	55	20%	0	-	-	-	-	NULL
IRX1	79192	genome.wustl.edu	37	5	3599610	3599610	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_024337.3	+1	validated	p.R183Q	1.000	164	0.6%	270	25.2%	0	-	probably_damaging(0.994)	deleterious(0.01)	deleterious(0.858)	HMMPfam_Homeobox,HMMSmart_HOX,superfamily_Homeodomain_like,PatternScan_HOMEOBOX_1
ADAMTS16	170690	genome.wustl.edu	37	5	5146414	5146414	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_139056.2	+1	reviewed	p.S116N	0.018	81	0%	69	13%	0	-	benign(0)	tolerated(0.54)	neutral(0.007)	HMMPfam_Pep_M12B_propep
KIAA0947	23379	genome.wustl.edu	37	5	5464907	5464907	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_015325.1	+1	validated	p.D1820E	0.000	106	0%	65	10.8%	1	0%	benign(0.046)	tolerated(0.08)	neutral(0.302)	NULL
KIAA0947	23379	genome.wustl.edu	37	5	5465286	5465286	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_015325.1	+1	validated	p.V1947I	0.930	419	0.2%	226	23%	5	0%	possibly_damaging(0.495)	tolerated(0.3)	neutral(0.194)	NULL
KIAA0947	23379	genome.wustl.edu	37	5	5468991	5468991	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_015325.1	+1	validated	p.D2038Y	0.913	314	0%	161	29.2%	2	0%	probably_damaging(0.964)	deleterious(0.02)	deleterious(0.789)	NULL
KIAA0947	23379	genome.wustl.edu	37	5	5486894	5486894	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_015325.1	+1	validated	p.S2194L	0.006	414	0%	309	19.7%	8	12.5%	possibly_damaging(0.9)	deleterious(0.02)	deleterious(0.740)	NULL
KIAA0947	23379	genome.wustl.edu	37	5	5489388	5489388	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_015325.1	+1	validated	p.A2249V	0.227	115	0%	115	27%	25	12%	probably_damaging(0.996)	deleterious(0)	deleterious(0.906)	NULL
UBE2QL1	134111	genome.wustl.edu	37	5	6491376	6491376	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001145161.1	+1	provisional	p.R134C	1.000	164	0%	64	14.1%	0	-	probably_damaging(1)	deleterious(0.02)	deleterious(0.883)	HMMPfam_UQ_con,HMMSmart_UBCc,superfamily_UBQ-conjugat/RWD-like
LOC442132	442132	genome.wustl.edu	37	5	7302390	7302390	+	RNA	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	XR_040018.2	-1	model	NULL	0.022	142	0%	132	43.9%	0	-	-	-	-	-
ADCY2	108	genome.wustl.edu	37	5	7695897	7695897	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_020546.2	+1	reviewed	p.R301Q	0.999	453	0%	187	28.3%	2	0%	benign(0.243)	tolerated(0.32)	neutral(0.049)	HMMPfam_Guanylate_cyc,HMMSmart_CYCc,superfamily_A/G_cyclase
ADCY2	108	genome.wustl.edu	37	5	7707836	7707836	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_020546.2	+1	reviewed	p.S429F	0.727	342	0%	182	19.8%	3	0%	possibly_damaging(0.936)	deleterious(0.01)	deleterious(0.787)	HMMPfam_Guanylate_cyc,HMMSmart_CYCc,superfamily_A/G_cyclase
ADCY2	108	genome.wustl.edu	37	5	7802441	7802441	+	Silent	SNP	T	T	C	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_020546.2	+1	reviewed	p.L913	0.010	158	0%	74	16.2%	2	0%	-	-	-	HMMPfam_Guanylate_cyc,HMMSmart_CYCc,superfamily_A/G_cyclase
FASTKD3	79072	genome.wustl.edu	37	5	7861280	7861280	+	Silent	SNP	G	G	A	rs138245860	by1000genomes	TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_024091.2	-1	validated	p.L622	0.981	355	0%	302	11.6%	12	8.3%	-	-	-	HMMPfam_RAP
SEMA5A	9037	genome.wustl.edu	37	5	9044506	9044506	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_003966.2	-1	reviewed	p.Y1028	0.048	313	0%	138	21.7%	0	-	-	-	-	NULL
SEMA5A	9037	genome.wustl.edu	37	5	9224962	9224962	+	Nonsense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	ENST00000514923	-1	known	p.W104*	1.000	165	0%	56	12.5%	0	-	probably_damaging(1)	deleterious(0)	deleterious(0.945)	HMMPfam_Sema,HMMSmart_SM00630,superfamily_Sema domain
MARCH6	10299	genome.wustl.edu	37	5	10378897	10378897	+	Missense_Mutation	SNP	G	G	A	rs189021041	by1000genomes	TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_005885.2	+1	provisional	p.R48Q	1.000	410	0%	477	25.8%	1	0%	benign(0.279)	tolerated(0.08)	neutral(0.330)	HMMSmart_SM00744,HMMPfam_zf-C3HC4,superfamily_RING/U-box
MARCH6	10299	genome.wustl.edu	37	5	10390556	10390556	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_005885.2	+1	provisional	p.I174V	0.025	230	0%	151	12.6%	1	0%	benign(0.004)	tolerated(0.23)	neutral(0.042)	NULL
MARCH6	10299	genome.wustl.edu	37	5	10403556	10403556	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_005885.2	+1	provisional	p.S412I	1.000	357	0%	112	13.4%	8	25%	probably_damaging(0.99)	deleterious(0.01)	deleterious(0.847)	NULL
MARCH6	10299	genome.wustl.edu	37	5	10433723	10433723	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_005885.2	+1	provisional	p.R887Q	1.000	348	0%	202	24.3%	79	27.8%	probably_damaging(0.999)	tolerated(0.14)	deleterious(0.740)	NULL
CTNND2	1501	genome.wustl.edu	37	5	11022929	11022929	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001332.2	-1	validated	p.A984V	1.000	249	0%	57	12.3%	0	-	probably_damaging(0.999)	deleterious(0.05)	deleterious(0.836)	HMMSmart_SM00185,superfamily_ARM repeat
CTNND2	1501	genome.wustl.edu	37	5	11022936	11022936	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001332.2	-1	validated	p.R982W	1.000	255	0%	55	25.5%	0	-	probably_damaging(1)	deleterious(0.02)	deleterious(0.883)	HMMSmart_SM00185,superfamily_ARM repeat
CTNND2	1501	genome.wustl.edu	37	5	11117664	11117664	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001332.2	-1	validated	p.A725	0.955	176	0%	63	27%	0	-	-	-	-	superfamily_ARM repeat
CTNND2	1501	genome.wustl.edu	37	5	11159709	11159709	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001332.2	-1	validated	p.R713H	1.000	142	0%	51	35.3%	0	-	probably_damaging(0.953)	deleterious(0.01)	deleterious(0.802)	HMMSmart_SM00185,superfamily_ARM repeat
DNAH5	1767	genome.wustl.edu	37	5	13735279	13735279	+	Missense_Mutation	SNP	T	T	G	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001369.2	-1	reviewed	p.N3908H	1.000	222	0.5%	57	21.1%	0	-	benign(0.066)	deleterious(0.04)	neutral(0.353)	NULL
DNAH5	1767	genome.wustl.edu	37	5	13759060	13759060	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001369.2	-1	reviewed	p.L3438	0.005	150	0%	30	16.7%	0	-	-	-	-	NULL
DNAH5	1767	genome.wustl.edu	37	5	13769682	13769682	+	Silent	SNP	A	A	G	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001369.2	-1	reviewed	p.S3216	0.873	480	0%	71	25.4%	0	-	-	-	-	NULL
DNAH5	1767	genome.wustl.edu	37	5	13781039	13781039	+	Silent	SNP	T	T	C	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001369.2	-1	reviewed	p.G2950	0.994	151	0%	39	23.1%	1	0%	-	-	-	superfamily_SSF52540
DNAH5	1767	genome.wustl.edu	37	5	13809271	13809271	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001369.2	-1	reviewed	p.R2545H	0.989	292	0%	392	25.3%	0	-	benign(0.003)	tolerated(0.13)	neutral(0.253)	superfamily_SSF52540
DNAH5	1767	genome.wustl.edu	37	5	13811840	13811840	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001369.2	-1	reviewed	p.Q2441H	1.000	227	0%	307	29.3%	0	-	benign(0.006)	tolerated(0.12)	neutral(0.261)	NULL
DNAH5	1767	genome.wustl.edu	37	5	13862826	13862826	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001369.2	-1	reviewed	p.D1543Y	1.000	421	0.2%	113	19.5%	0	-	probably_damaging(0.999)	deleterious(0)	deleterious(0.935)	HMMPfam_DHC_N2
DNAH5	1767	genome.wustl.edu	37	5	13901442	13901442	+	Silent	SNP	T	T	C	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001369.2	-1	reviewed	p.K657	0.461	162	0%	63	27%	0	-	-	-	-	HMMPfam_DHC_N1
DNAH5	1767	genome.wustl.edu	37	5	13914644	13914644	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001369.2	-1	reviewed	p.A435	0.005	433	0%	84	13.1%	0	-	-	-	-	HMMPfam_DHC_N1
TRIO	7204	genome.wustl.edu	37	5	14297305	14297305	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_007118.2	+1	validated	p.A434V	1.000	58	0%	26	19.2%	1	0%	unknown(0)	tolerated(0.12)	-	HMMPfam_Spectrin,HMMSmart_SM00150,superfamily_Spectrin repeat
TRIO	7204	genome.wustl.edu	37	5	14368958	14368958	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_007118.2	+1	validated	p.R1006C	1.000	143	0%	85	21.2%	2	50%	unknown(0)	deleterious(0)	-	HMMPfam_Spectrin,HMMSmart_SM00150,superfamily_Spectrin repeat
TRIO	7204	genome.wustl.edu	37	5	14387901	14387901	+	Nonsense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_007118.2	+1	validated	p.R1276*	0.991	227	0.4%	109	16.5%	2	0%	-	-	-	NULL
TRIO	7204	genome.wustl.edu	37	5	14480112	14480112	+	Missense_Mutation	SNP	T	T	G	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_007118.2	+1	validated	p.L2110V	0.994	330	0.3%	241	28.6%	2	0%	unknown(0)	deleterious(0)	-	HMMPfam_RhoGEF,HMMSmart_SM00325,superfamily_DBL homology domain (DH-domain)
FAM105A	54491	genome.wustl.edu	37	5	14609098	14609098	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_019018.2	+1	validated	p.S290Y	0.294	163	0%	124	23.4%	5	0%	possibly_damaging(0.839)	tolerated(0.14)	deleterious(0.570)	NULL
FAM105B	90268	genome.wustl.edu	37	5	14692993	14692993	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_138348.4	+1	validated	p.R299C	0.989	207	0%	60	28.3%	2	0%	benign(0.004)	deleterious(0.01)	neutral(0.406)	NULL
ANKH	56172	genome.wustl.edu	37	5	14716837	14716837	+	Silent	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_054027.4	-1	reviewed	p.I373	1.000	224	0%	109	17.4%	16	0%	-	-	-	NULL
MARCH11	441061	genome.wustl.edu	37	5	16067799	16067799	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001102562.1	-1	provisional	p.I330	0.991	276	0.7%	71	19.7%	0	-	-	-	-	NULL
FAM134B	54463	genome.wustl.edu	37	5	16475002	16475002	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001034850.1	-1	reviewed	p.D448N	1.000	204	0%	144	23.6%	10	20%	probably_damaging(1)	deleterious(0.01)	deleterious(0.905)	NULL
MYO10	4651	genome.wustl.edu	37	5	16672835	16672835	+	Nonsense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_012334.2	-1	validated	p.R1758*	0.992	298	0.3%	140	22.1%	6	0%	-	-	-	HMMSmart_B41
MYO10	4651	genome.wustl.edu	37	5	16675127	16675127	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_012334.2	-1	validated	p.R1600Q	0.960	161	0%	73	24.7%	3	0%	probably_damaging(0.989)	deleterious(0.04)	deleterious(0.788)	HMMPfam_MyTH4,HMMSmart_MyTH4
MYO10	4651	genome.wustl.edu	37	5	16681497	16681497	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_012334.2	-1	validated	p.N1435	0.868	253	0%	96	13.5%	6	0%	-	-	-	HMMPfam_PH,HMMSmart_PH,superfamily_SSF50729
MYO10	4651	genome.wustl.edu	37	5	16781879	16781879	+	Missense_Mutation	SNP	A	A	C	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_012334.2	-1	validated	p.F221C	1.000	443	0%	201	19.4%	0	-	probably_damaging(1)	deleterious(0)	deleterious(0.945)	HMMPfam_Myosin_head,HMMSmart_MYSc,superfamily_SSF52540
MYO10	4651	genome.wustl.edu	37	5	16794882	16794882	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_012334.2	-1	validated	p.E114K	1.000	53	0%	72	20.8%	3	0%	benign(0.011)	tolerated(0.11)	neutral(0.272)	HMMPfam_Myosin_head,HMMSmart_MYSc,superfamily_SSF52540
CDH12	1010	genome.wustl.edu	37	5	21752186	21752186	+	Missense_Mutation	SNP	T	T	G	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_004061.3	-1	reviewed	p.K682T	1.000	522	0%	139	12.9%	0	-	probably_damaging(0.995)	tolerated(0.49)	neutral(0.468)	HMMPfam_Cadherin_C
CDH12	1010	genome.wustl.edu	37	5	21755864	21755864	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_004061.3	-1	reviewed	p.S574N	1.000	271	0%	65	24.6%	0	-	benign(0.002)	tolerated(1)	-	HMMPfam_Cadherin,HMMSmart_CA,superfamily_Cadherin
PRDM9	56979	genome.wustl.edu	37	5	23521174	23521174	+	Missense_Mutation	SNP	G	G	C	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_020227.2	+1	provisional	p.E132Q	0.007	336	0%	110	18.2%	0	-	possibly_damaging(0.647)	deleterious(0)	deleterious(0.671)	NULL
CDH10	1008	genome.wustl.edu	37	5	24487843	24487843	+	Nonsense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_006727.2	-1	reviewed	p.R766*	1.000	323	0%	57	15.8%	0	-	-	-	-	HMMPfam_Cadherin_C
CDH10	1008	genome.wustl.edu	37	5	24488080	24488080	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_006727.2	-1	reviewed	p.R687W	0.976	201	0.5%	55	32.7%	0	-	probably_damaging(1)	deleterious(0.04)	deleterious(0.849)	HMMPfam_Cadherin_C
CDH10	1008	genome.wustl.edu	37	5	24491874	24491874	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_006727.2	-1	reviewed	p.L563I	1.000	284	0%	93	19.4%	0	-	benign(0.007)	tolerated(0.05)	neutral(0.345)	HMMPfam_Cadherin,HMMSmart_CA,superfamily_Cadherin
CDH10	1008	genome.wustl.edu	37	5	24491905	24491905	+	Silent	SNP	A	A	G	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_006727.2	-1	reviewed	p.N552	1.000	243	0%	80	31.2%	0	-	-	-	-	HMMPfam_Cadherin,HMMSmart_CA,superfamily_Cadherin
CDH10	1008	genome.wustl.edu	37	5	24537632	24537632	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_006727.2	-1	reviewed	p.R128H	1.000	430	0.5%	74	23%	0	-	probably_damaging(0.999)	tolerated(0.15)	deleterious(0.732)	HMMPfam_Cadherin,HMMSmart_CA,superfamily_Cadherin
CDH10	1008	genome.wustl.edu	37	5	24593496	24593496	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_006727.2	-1	reviewed	p.R35I	0.233	201	0%	82	28%	0	-	benign(0)	tolerated(0.13)	neutral(0.253)	NULL
CDH9	1007	genome.wustl.edu	37	5	26885847	26885847	+	Silent	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_016279.3	-1	reviewed	p.I586	0.507	100	0%	25	16%	0	-	-	-	-	HMMPfam_Cadherin,HMMSmart_CA,superfamily_Cadherin
DROSHA	29102	genome.wustl.edu	37	5	31511234	31511234	+	Missense_Mutation	SNP	T	T	G	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_013235.4	-1	validated	p.K447T	1.000	311	0%	100	25%	0	-	possibly_damaging(0.545)	tolerated(0.17)	neutral(0.244)	NULL
C5orf22	55322	genome.wustl.edu	37	5	31541443	31541443	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_018356.2	+1	validated	p.A309V	1.000	494	0%	237	22.8%	1	0%	probably_damaging(0.997)	tolerated(0.1)	deleterious(0.752)	NULL
PDZD2	23037	genome.wustl.edu	37	5	32088081	32088081	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_178140.2	+1	reviewed	p.P1509	0.949	60	0%	67	13.4%	0	-	-	-	-	NULL
PDZD2	23037	genome.wustl.edu	37	5	32091035	32091035	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_178140.2	+1	reviewed	p.D2494G	1.000	29	0%	39	25.6%	2	0%	probably_damaging(1)	deleterious(0)	deleterious(0.945)	NULL
GOLPH3	64083	genome.wustl.edu	37	5	32126688	32126688	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_022130.3	-1	reviewed	p.R176Q	1.000	392	0%	123	27.6%	16	6.2%	probably_damaging(0.971)	deleterious(0)	deleterious(0.857)	HMMPfam_GPP34
SUB1	10923	genome.wustl.edu	37	5	32588626	32588626	+	Missense_Mutation	SNP	A	A	C	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_006713.3	+1	validated	p.K3T	1.000	361	0%	453	24.3%	221	15.8%	unknown(0)	deleterious(0)	-	NULL
SUB1	10923	genome.wustl.edu	37	5	32599097	32599097	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_006713.3	+1	validated	p.D76N	1.000	485	0.2%	243	21%	393	19.8%	possibly_damaging(0.719)	tolerated(0.12)	deleterious(0.521)	HMMPfam_PC4,superfamily_ssDNA-binding transcriptional regulator domain
TARS	6897	genome.wustl.edu	37	5	33455087	33455087	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_152295.3	+1	reviewed	p.A164D	1.000	362	0%	103	20.4%	11	9%	probably_damaging(0.974)	deleterious(0)	deleterious(0.861)	superfamily_ThrRS/AlaRS common domain
ADAMTS12	81792	genome.wustl.edu	37	5	33576174	33576174	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_030955.2	-1	reviewed	p.V1319	0.951	194	0%	88	11.4%	0	-	-	-	-	HMMPfam_TSP_1,HMMSmart_SM00209,superfamily_TSP-1 type 1 repeat
ADAMTS12	81792	genome.wustl.edu	37	5	33614349	33614349	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_030955.2	-1	reviewed	p.G841R	1.000	151	0%	45	13.3%	0	-	probably_damaging(0.999)	deleterious(0)	deleterious(0.935)	HMMPfam_TSP_1,HMMSmart_SM00209,superfamily_TSP-1 type 1 repeat
ADAMTS12	81792	genome.wustl.edu	37	5	33649718	33649718	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_030955.2	-1	reviewed	p.Y425	0.947	163	0%	46	13%	0	-	-	-	-	"HMMPfam_Reprolysin,superfamily_Metalloproteases (""zincins"") catalytic domain"
RXFP3	51289	genome.wustl.edu	37	5	33937810	33937810	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_016568.3	+1	validated	p.S322L	1.000	44	0%	75	21.3%	0	-	benign(0.413)	tolerated(0.32)	neutral(0.158)	HMMPfam_7tm_1,superfamily_SSF81321
RXFP3	51289	genome.wustl.edu	37	5	33938068	33938068	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_016568.3	+1	validated	p.A408V	0.952	24	0%	46	21.7%	0	-	benign(0.158)	tolerated(0.17)	neutral(0.073)	superfamily_SSF81321
SLC45A2	51151	genome.wustl.edu	37	5	33944830	33944830	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_016180.3	-1	reviewed	p.V506I	0.025	80	0%	78	24.4%	0	-	possibly_damaging(0.54)	tolerated(0.23)	neutral(0.225)	superfamily_MFS general substrate transporter
SLC45A2	51151	genome.wustl.edu	37	5	33947400	33947400	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_016180.3	-1	reviewed	p.T412	0.974	278	0%	152	20.4%	0	-	-	-	-	superfamily_MFS general substrate transporter
SLC45A2	51151	genome.wustl.edu	37	5	33964078	33964078	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_016180.3	-1	reviewed	p.W202C	1.000	187	0%	60	23.3%	0	-	probably_damaging(1)	deleterious(0)	deleterious(0.945)	superfamily_MFS general substrate transporter
DNAJC21	134218	genome.wustl.edu	37	5	34937630	34937630	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_194283.3	+1	validated	p.R213I	1.000	135	0%	143	21.7%	10	20%	probably_damaging(1)	deleterious(0)	deleterious(0.945)	NULL
DNAJC21	134218	genome.wustl.edu	37	5	34944985	34944985	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_194283.3	+1	validated	p.E333K	0.997	174	0%	125	18.4%	18	22.2%	possibly_damaging(0.936)	tolerated(0.23)	neutral(0.423)	HMMSmart_SM00451,HMMPfam_zf-C2H2,PatternScan_ZINC_FINGER_C2H2_1,HMMSmart_SM00355
DNAJC21	134218	genome.wustl.edu	37	5	34954083	34954083	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_194283.3	+1	validated	p.V516I	0.008	321	0%	134	17.2%	29	6.8%	benign(0.027)	tolerated(0.19)	neutral(0.051)	NULL
AGXT2	64902	genome.wustl.edu	37	5	34998924	34998924	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_031900.3	-1	reviewed	p.R482H	1.000	545	0%	130	19.2%	0	-	probably_damaging(1)	deleterious(0)	deleterious(0.945)	superfamily_PyrdxlP-dep_Trfase_major
AGXT2	64902	genome.wustl.edu	37	5	35035413	35035413	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_031900.3	-1	reviewed	p.F165L	0.995	133	0%	38	18.4%	0	-	probably_damaging(0.972)	deleterious(0.03)	deleterious(0.778)	HMMPfam_Aminotran_3,superfamily_PyrdxlP-dep_Trfase_major
AGXT2	64902	genome.wustl.edu	37	5	35037140	35037140	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_031900.3	-1	reviewed	p.L131	0.002	113	0%	26	15.4%	0	-	-	-	-	HMMPfam_Aminotran_3,superfamily_PyrdxlP-dep_Trfase_major
AGXT2	64902	genome.wustl.edu	37	5	35039571	35039571	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_031900.3	-1	reviewed	p.L74I	0.884	201	0%	45	24.4%	0	-	probably_damaging(0.997)	deleterious(0.01)	deleterious(0.872)	superfamily_PyrdxlP-dep_Trfase_major
PRLR	5618	genome.wustl.edu	37	5	35068936	35068936	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_000949.4	-1	validated	p.L244I	0.917	267	0%	108	27.8%	0	-	probably_damaging(0.998)	deleterious(0.02)	deleterious(0.857)	NULL
PRLR	5618	genome.wustl.edu	37	5	35086414	35086414	+	Silent	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_000949.4	-1	validated	p.I33	0.001	135	0%	28	21.4%	1	0%	-	-	-	HMMPfam_fn3,HMMSmart_SM00060,superfamily_Fibronectin type III
SPEF2	79925	genome.wustl.edu	37	5	35659160	35659160	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_024867.3	+1	validated	p.R340W	0.999	121	0%	40	20%	8	25%	probably_damaging(1)	deleterious(0)	deleterious(0.945)	NULL
CAPSL	133690	genome.wustl.edu	37	5	35910623	35910623	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001042625.1	-1	validated	p.D54N	0.998	244	0%	119	10.9%	0	-	benign(0.005)	tolerated(0.23)	neutral(0.042)	HMMSmart_SM00054,PatternScan_EF_HAND_1,superfamily_EF-hand
RANBP3L	202151	genome.wustl.edu	37	5	36262132	36262132	+	Missense_Mutation	SNP	T	T	G	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_145000.3	-1	validated	p.N165H	0.000	233	0%	68	27.9%	0	-	possibly_damaging(0.839)	deleterious(0.05)	deleterious(0.666)	NULL
SLC1A3	6507	genome.wustl.edu	37	5	36674152	36674152	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_004172.4	+1	reviewed	p.N176D	1.000	428	0%	140	24.3%	0	-	probably_damaging(0.994)	deleterious(0)	deleterious(0.897)	HMMPfam_SDF
NIPBL	25836	genome.wustl.edu	37	5	36976272	36976272	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_133433.3	+1	reviewed	p.S421	1.000	168	0%	67	25.4%	0	-	-	-	-	superfamily_ARM repeat
NIPBL	25836	genome.wustl.edu	37	5	36985224	36985224	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_133433.3	+1	reviewed	p.T648A	0.992	192	0%	85	17.6%	0	-	benign(0.067)	tolerated(0.27)	neutral(0.038)	superfamily_ARM repeat
NIPBL	25836	genome.wustl.edu	37	5	37022190	37022190	+	Missense_Mutation	SNP	G	G	A	rs80358380		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_133433.3	+1	reviewed	p.R1789Q	1.000	556	0%	324	24.7%	2	50%	probably_damaging(1)	deleterious(0)	deleterious(0.945)	superfamily_ARM repeat
NIPBL	25836	genome.wustl.edu	37	5	37060996	37060996	+	Nonsense_Mutation	SNP	C	C	T	rs148519494	by1000genomes	TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	ENST00000507919	+1	known	p.R85*	1.000	291	0.3%	91	24.2%	23	43.4%	benign(0.025)	tolerated(0.07)	neutral(0.320)	NULL
NIPBL	25836	genome.wustl.edu	37	5	37063968	37063968	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_133433.3	+1	reviewed	p.R2646Q	1.000	399	0%	121	24%	37	24.3%	probably_damaging(0.999)	tolerated(0.08)	deleterious(0.790)	NULL
C5orf42	65250	genome.wustl.edu	37	5	37138874	37138874	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_023073.3	-1	predicted	p.G1758R	0.881	414	0%	78	30.8%	5	40%	probably_damaging(0.988)	deleterious(0)	deleterious(0.882)	NULL
C5orf42	65250	genome.wustl.edu	37	5	37157953	37157953	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_023073.3	-1	predicted	p.I1490M	0.996	200	0%	162	16%	0	-	possibly_damaging(0.951)	deleterious(0)	deleterious(0.839)	NULL
C5orf42	65250	genome.wustl.edu	37	5	37183728	37183728	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_023073.3	-1	predicted	p.E400K	0.471	57	0%	23	21.7%	0	-	probably_damaging(0.99)	deleterious(0)	deleterious(0.886)	NULL
WDR70	55100	genome.wustl.edu	37	5	37605273	37605273	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_018034.2	+1	provisional	p.R342K	1.000	162	0%	188	27.7%	7	14.2%	possibly_damaging(0.527)	tolerated(0.06)	deleterious(0.500)	HMMSmart_WD40,superfamily_WD40_like,HMMPfam_WD40
LIFR	3977	genome.wustl.edu	37	5	38490384	38490384	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001127671.1	-1	reviewed	p.R692Q	0.011	396	0%	70	18.6%	0	-	benign(0.074)	tolerated(0.41)	neutral(0.020)	superfamily_Fibronectin type III
OSMR	9180	genome.wustl.edu	37	5	38921751	38921751	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_003999.2	+1	reviewed	p.E540D	0.014	431	0%	114	14.9%	1	0%	benign(0)	tolerated(1)	-	PatternScan_HEMATOPO_REC_L_F2,HMMPfam_fn3,HMMSmart_SM00060,superfamily_Fibronectin type III
RICTOR	253260	genome.wustl.edu	37	5	38950642	38950642	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_152756.3	-1	validated	p.T1103I	1.000	476	0%	98	10.2%	0	-	benign(0.004)	tolerated(0.35)	neutral(0.021)	superfamily_ARM repeat
RICTOR	253260	genome.wustl.edu	37	5	38950648	38950648	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_152756.3	-1	validated	p.S1101L	1.000	451	0.4%	83	18.1%	0	-	probably_damaging(0.978)	deleterious(0)	deleterious(0.865)	superfamily_ARM repeat
FYB	2533	genome.wustl.edu	37	5	39119000	39119000	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001465.3	-1	validated	p.L793I	1.000	666	0%	155	24.5%	2	0%	possibly_damaging(0.638)	tolerated(0.32)	neutral(0.247)	superfamily_SH3-domain,HMMPfam_SH3_2
C9	735	genome.wustl.edu	37	5	39306779	39306779	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001737.3	-1	reviewed	p.V452	0.706	381	0%	64	25%	0	-	-	-	-	HMMPfam_MACPF,HMMSmart_MACPF
C9	735	genome.wustl.edu	37	5	39311417	39311417	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001737.3	-1	reviewed	p.R311	0.002	367	0%	82	30.5%	0	-	-	-	-	HMMPfam_MACPF,HMMSmart_MACPF
C9	735	genome.wustl.edu	37	5	39342213	39342213	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001737.3	-1	reviewed	p.D55N	0.998	221	0%	177	17.5%	0	-	possibly_damaging(0.779)	tolerated(0.53)	neutral(0.299)	HMMPfam_TSP_1,HMMSmart_TSP1,superfamily_TSP1
DAB2	1601	genome.wustl.edu	37	5	39382759	39382759	+	Silent	SNP	T	T	C	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001343.2	-1	validated	p.P434	1.000	464	0%	73	30.1%	19	0%	-	-	-	NULL
DAB2	1601	genome.wustl.edu	37	5	39393354	39393354	+	Splice_Site	SNP	A	A	C	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001343.2	-1	validated	e2+2	1.000	658	0.2%	191	23.6%	0	-	-	-	-	-
PTGER4	5734	genome.wustl.edu	37	5	40681118	40681118	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_000958.2	+1	reviewed	p.S8L	0.018	29	0%	60	26.7%	0	-	benign(0)	deleterious(0.03)	neutral(0.364)	superfamily_SSF81321
PTGER4	5734	genome.wustl.edu	37	5	40681348	40681348	+	Missense_Mutation	SNP	T	T	G	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_000958.2	+1	reviewed	p.W85G	1.000	32	0%	61	31.1%	0	-	probably_damaging(0.998)	deleterious(0.02)	deleterious(0.857)	HMMPfam_7tm_1,superfamily_SSF81321
PTGER4	5734	genome.wustl.edu	37	5	40681441	40681441	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_000958.2	+1	reviewed	p.E116K	1.000	31	0%	56	33.9%	3	0%	probably_damaging(1)	deleterious(0)	deleterious(0.945)	HMMPfam_7tm_1,PatternScan_G_PROTEIN_RECEP_F1_1,superfamily_SSF81321
CARD6	84674	genome.wustl.edu	37	5	40852695	40852695	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_032587.3	+1	reviewed	p.L421	1.000	204	0%	35	14.3%	0	-	-	-	-	NULL
CARD6	84674	genome.wustl.edu	37	5	40853807	40853807	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_032587.3	+1	reviewed	p.Q791H	0.995	144	0%	44	9.1%	4	0%	possibly_damaging(0.926)	tolerated(0.26)	neutral(0.408)	NULL
CARD6	84674	genome.wustl.edu	37	5	40853978	40853978	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_032587.3	+1	reviewed	p.K848N	0.347	81	0%	38	26.3%	0	-	benign(0)	tolerated(0.19)	neutral(0.050)	NULL
C7	730	genome.wustl.edu	37	5	40934511	40934511	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_000587.2	+1	reviewed	p.P75S	0.998	578	0%	127	29.1%	1	0%	benign(0.293)	tolerated(0.33)	neutral(0.114)	HMMPfam_TSP_1,HMMSmart_TSP1
C7	730	genome.wustl.edu	37	5	40947743	40947743	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_000587.2	+1	reviewed	p.A260T	1.000	274	0.4%	51	19.6%	2	0%	probably_damaging(0.999)	deleterious(0.04)	deleterious(0.839)	HMMPfam_MACPF,HMMSmart_MACPF
HEATR7B2	133558	genome.wustl.edu	37	5	40998161	40998161	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_173489.4	-1	validated	p.P1584H	0.000	277	0%	49	14.3%	0	-	benign(0.001)	tolerated(0.47)	neutral(0.011)	NULL
HEATR7B2	133558	genome.wustl.edu	37	5	41009403	41009403	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_173489.4	-1	validated	p.I1133	0.000	201	0%	39	15.4%	0	-	-	-	-	superfamily_ARM repeat
HEATR7B2	133558	genome.wustl.edu	37	5	41039625	41039625	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_173489.4	-1	validated	p.E662D	0.980	190	0%	39	15.4%	0	-	probably_damaging(0.985)	tolerated(0.58)	neutral(0.437)	superfamily_ARM repeat
HEATR7B2	133558	genome.wustl.edu	37	5	41067262	41067262	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_173489.4	-1	validated	p.A50V	1.000	223	0%	49	12.2%	0	-	probably_damaging(0.978)	tolerated(0.19)	deleterious(0.470)	NULL
C6	729	genome.wustl.edu	37	5	41201734	41201734	+	Nonsense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_000065.2	-1	reviewed	p.Q76*	1.000	295	0%	65	40%	0	-	-	-	-	HMMPfam_TSP_1,HMMSmart_TSP1,superfamily_TSP1
OXCT1	5019	genome.wustl.edu	37	5	41794170	41794170	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_000436.3	-1	reviewed	p.D395N	0.553	175	0%	73	15.1%	5	20%	benign(0.001)	tolerated(0.24)	neutral(0.037)	HMMPfam_CoA_trans,superfamily_SSF100950
GHR	2690	genome.wustl.edu	37	5	42719061	42719061	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_000163.2	+1	reviewed	p.I484	0.181	114	0%	44	18.2%	0	-	-	-	-	NULL
SEPP1	6414	genome.wustl.edu	37	5	42801326	42801326	+	Silent	SNP	T	T	G	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001093726.1	-1	reviewed	p.G244	0.828	362	0%	128	28.1%	63	3.1%	-	-	-	HMMPfam_SelP_N
SEPP1	6414	genome.wustl.edu	37	5	42801405	42801405	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001093726.1	-1	reviewed	p.R218H	0.031	253	0%	114	28.9%	58	3.4%	benign(0.002)	tolerated(0.05)	neutral(0.345)	HMMPfam_SelP_N
ZNF131	7690	genome.wustl.edu	37	5	43174678	43174678	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_003432.1	+1	validated	p.L405I	1.000	138	0%	43	34.9%	4	0%	probably_damaging(0.993)	tolerated(0.18)	deleterious(0.506)	PatternScan_ZINC_FINGER_C2H2_1,HMMSmart_ZnF_C2H2,superfamily_SSF57667
NIM1	167359	genome.wustl.edu	37	5	43277227	43277227	+	Nonsense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_153361.2	+1	provisional	p.E121*	1.000	280	0%	73	19.2%	1	0%	-	-	-	HMMSmart_SM00219,HMMSmart_SM00220,superfamily_Protein kinase-like (PK-like),HMMPfam_Pkinase
NIM1	167359	genome.wustl.edu	37	5	43280506	43280506	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_153361.2	+1	provisional	p.P329Q	0.926	75	0%	33	27.3%	2	0%	benign(0.001)	tolerated(0.56)	neutral(0.006)	superfamily_Protein kinase-like (PK-like)
NIM1	167359	genome.wustl.edu	37	5	43280596	43280596	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_153361.2	+1	provisional	p.S359I	0.998	49	0%	18	22.2%	2	0%	benign(0.141)	tolerated(0.17)	neutral(0.071)	NULL
HMGCS1	3157	genome.wustl.edu	37	5	43292989	43292989	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001098272.1	-1	validated	p.A424T	1.000	192	0%	44	11.4%	4	25%	benign(0)	tolerated(0.88)	-	HMMPfam_HMG_CoA_synt_C,superfamily_Thiolase-like
HMGCS1	3157	genome.wustl.edu	37	5	43298903	43298903	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001098272.1	-1	validated	p.K55N	1.000	169	0%	66	13.6%	1	0%	possibly_damaging(0.599)	tolerated(0.55)	neutral(0.214)	HMMPfam_HMG_CoA_synt_N,superfamily_Thiolase-like
C5orf34	375444	genome.wustl.edu	37	5	43492917	43492917	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	ENST00000306862	-1	known	p.L464I	1.000	187	0%	113	19.5%	1	0%	benign(0.122)	tolerated(0.18)	neutral(0.066)	NULL
FGF10	2255	genome.wustl.edu	37	5	44305272	44305272	+	Missense_Mutation	SNP	T	T	G	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_004465.1	-1	reviewed	p.K151T	1.000	615	0%	134	18.7%	0	-	probably_damaging(0.957)	tolerated(0.35)	neutral(0.421)	HMMPfam_FGF,HMMSmart_FGF,PatternScan_HBGF_FGF,superfamily_Cytok_IL1_like
HCN1	348980	genome.wustl.edu	37	5	45262787	45262787	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_021072.2	-1	validated	p.A637T	0.993	351	0%	485	12.4%	0	-	benign(0.025)	tolerated(0.57)	neutral(0.007)	NULL
HCN1	348980	genome.wustl.edu	37	5	45262833	45262833	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_021072.2	-1	validated	p.I621	1.000	280	0%	387	27.4%	0	-	-	-	-	NULL
HCN1	348980	genome.wustl.edu	37	5	45353349	45353349	+	Splice_Site	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_021072.2	-1	validated	e5-1	1.000	337	0%	87	10.3%	0	-	-	-	-	-
PARP8	79668	genome.wustl.edu	37	5	50073945	50073945	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_024615.3	+1	validated	p.I187	0.996	553	0%	558	10.4%	0	-	-	-	-	NULL
ITGA1	3672	genome.wustl.edu	37	5	52201628	52201628	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_181501.1	+1	reviewed	p.D449Y	0.909	265	0%	135	36.3%	3	0%	possibly_damaging(0.657)	tolerated(0.07)	deleterious(0.550)	HMMSmart_Int_alpha,superfamily_SSF69318
ITGA2	3673	genome.wustl.edu	37	5	52338052	52338052	+	Splice_Site	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_002203.3	+1	reviewed	e3+1	1.000	252	0%	38	15.8%	0	-	-	-	-	-
ITGA2	3673	genome.wustl.edu	37	5	52361767	52361767	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_002203.3	+1	reviewed	p.D635N	0.998	370	0%	48	20.8%	1	0%	probably_damaging(1)	deleterious(0)	deleterious(0.945)	HMMSmart_SM00191,superfamily_Integrin alpha N-terminal domain
FST	10468	genome.wustl.edu	37	5	52779452	52779452	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_013409.1	+1	reviewed	p.C132	0.953	126	0%	195	22.6%	4	0%	-	-	-	HMMPfam_Kazal_1,HMMSmart_SM00280,superfamily_Kazal-type serine protease inhibitors
FST	10468	genome.wustl.edu	37	5	52779900	52779900	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_013409.1	+1	reviewed	p.K166N	1.000	728	0%	844	24.5%	4	0%	possibly_damaging(0.819)	tolerated(0.11)	deleterious(0.581)	NULL
HSPB3	8988	genome.wustl.edu	37	5	53751666	53751666	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_006308.1	+1	provisional	p.Y16C	1.000	129	0%	36	16.7%	4	0%	probably_damaging(1)	deleterious(0)	deleterious(0.945)	superfamily_HSP20-like chaperones
SNX18	112574	genome.wustl.edu	37	5	53814964	53814964	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_052870.2	+1	reviewed	p.K394	1.000	55	0%	73	12.3%	2	0%	-	-	-	HMMPfam_BAR_3_WASP_bdg
CDC20B	166979	genome.wustl.edu	37	5	54468474	54468474	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_152623.2	-1	validated	p.S23N	0.256	348	0%	519	25%	3	100%	benign(0)	tolerated(1)	-	superfamily_WD40_like
DHX29	54505	genome.wustl.edu	37	5	54557205	54557205	+	Missense_Mutation	SNP	G	G	C	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_019030.2	-1	validated	p.I1317M	1.000	206	0%	49	34.7%	30	13.3%	possibly_damaging(0.506)	tolerated(0.1)	neutral(0.456)	NULL
DHX29	54505	genome.wustl.edu	37	5	54557230	54557230	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_019030.2	-1	validated	p.R1309H	1.000	267	0.4%	60	31.7%	38	31.5%	benign(0.012)	tolerated(0.56)	neutral(0.007)	NULL
SKIV2L2	23517	genome.wustl.edu	37	5	54639161	54639161	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_015360.4	+1	validated	p.R262C	1.000	390	0%	106	33%	1	0%	probably_damaging(1)	deleterious(0)	deleterious(0.945)	HMMPfam_DEAD,HMMSmart_DEXDc,superfamily_SSF52540
SKIV2L2	23517	genome.wustl.edu	37	5	54710055	54710055	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_015360.4	+1	validated	p.R933C	1.000	415	0%	113	22.1%	43	11.6%	probably_damaging(1)	deleterious(0.01)	deleterious(0.905)	HMMPfam_DSHCT
SLC38A9	153129	genome.wustl.edu	37	5	54965416	54965416	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_173514.2	-1	validated	p.S134Y	1.000	476	0%	217	12%	1	0%	probably_damaging(0.998)	deleterious(0)	deleterious(0.919)	HMMPfam_Aa_trans
IL6ST	3572	genome.wustl.edu	37	5	55237331	55237331	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_002184.2	-1	reviewed	p.R779I	1.000	313	0%	74	23%	3	0%	probably_damaging(1)	deleterious(0)	deleterious(0.945)	NULL
ANKRD55	79722	genome.wustl.edu	37	5	55422898	55422898	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_024669.2	-1	validated	p.S216	1.000	153	0%	64	32.8%	0	-	-	-	-	HMMPfam_Ank,HMMSmart_ANK,superfamily_ANK
LOC345645	345645	genome.wustl.edu	37	5	55571395	55571395	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	XM_002342506.1	-1	model	p.E327K	1.000	138	0%	53	20.8%	0	-	-	-	-	HMMSmart_SM00382,HMMPfam_AAA,superfamily_P-loop containing nucleoside triphosphate hydrolases
MAP3K1	4214	genome.wustl.edu	37	5	56177719	56177719	+	Nonsense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_005921.1	+1	validated	p.E898*	0.391	148	0%	43	25.6%	0	-	-	-	-	NULL
MIER3	166968	genome.wustl.edu	37	5	56229110	56229110	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_152622.3	-1	validated	p.R237S	0.001	603	0%	125	22.4%	0	-	benign(0.219)	tolerated(0.76)	neutral(0.022)	NULL
MIER3	166968	genome.wustl.edu	37	5	56231271	56231271	+	Silent	SNP	G	G	A	rs189631707	by1000genomes	TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_152622.3	-1	validated	p.Y193	0.567	387	0%	123	27.6%	0	-	-	-	-	HMMPfam_ELM2
GPBP1	65056	genome.wustl.edu	37	5	56542248	56542248	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001127235.2	+1	validated	p.K220N	1.000	297	0%	129	21.7%	31	12.9%	possibly_damaging(0.948)	tolerated(0.29)	neutral(0.420)	NULL
GPBP1	65056	genome.wustl.edu	37	5	56545377	56545377	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001127235.2	+1	validated	p.D336Y	1.000	303	0%	186	13.4%	47	4.2%	probably_damaging(1)	deleterious(0.01)	deleterious(0.905)	NULL
GPBP1	65056	genome.wustl.edu	37	5	56558571	56558571	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001127235.2	+1	validated	p.D492N	1.000	282	0%	78	19.2%	96	31.2%	unknown(0)	-	-	NULL
PLK2	10769	genome.wustl.edu	37	5	57751901	57751901	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_006622.2	-1	validated	p.R446W	1.000	299	0%	370	12.2%	12	0%	probably_damaging(0.997)	deleterious(0.01)	deleterious(0.872)	NULL
DEPDC1B	55789	genome.wustl.edu	37	5	59934662	59934662	+	Silent	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_018369.2	-1	validated	p.V271	1.000	348	0%	149	14.1%	0	-	-	-	-	superfamily_GTPase activation domain GAP
DEPDC1B	55789	genome.wustl.edu	37	5	59983002	59983002	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_018369.2	-1	validated	p.R34H	1.000	162	0%	60	15%	0	-	probably_damaging(0.999)	deleterious(0.03)	deleterious(0.855)	"HMMPfam_DEP,HMMSmart_SM00049,superfamily_""Winged helix"" DNA-binding domain"
ERCC8	1161	genome.wustl.edu	37	5	60199493	60199493	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_000082.3	-1	reviewed	p.C178R	1.000	205	0%	59	28.8%	3	33.3%	benign(0.001)	tolerated(0.44)	neutral(0.013)	HMMSmart_SM00320,superfamily_WD40 repeat-like,HMMPfam_WD40
ERCC8	1161	genome.wustl.edu	37	5	60214214	60214214	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_000082.3	-1	reviewed	p.D93Y	0.997	236	0%	58	31%	4	0%	benign(0.02)	deleterious(0.01)	neutral(0.407)	HMMSmart_SM00320,superfamily_WD40 repeat-like
DIMT1	27292	genome.wustl.edu	37	5	61686778	61686778	+	Missense_Mutation	SNP	T	T	G	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_014473.2	-1	validated	p.K275T	1.000	611	0%	311	24.1%	52	25%	benign(0.386)	tolerated(0.45)	neutral(0.136)	HMMPfam_RrnaAD,superfamily_SSF53335
HTR1A	3350	genome.wustl.edu	37	5	63256549	63256549	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_000524.2	-1	validated	p.R333H	1.000	63	0%	80	17.5%	0	-	probably_damaging(0.997)	deleterious(0.01)	deleterious(0.872)	HMMPfam_7tm_1,superfamily_Family A G protein-coupled receptor-like
RNF180	285671	genome.wustl.edu	37	5	63496650	63496650	+	Nonsense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001113561.1	+1	validated	p.E6*	1.000	404	0%	102	27.5%	0	-	-	-	-	NULL
RNF180	285671	genome.wustl.edu	37	5	63665629	63665629	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001113561.1	+1	validated	p.F589L	1.000	567	0%	236	21.2%	3	0%	unknown(0)	tolerated(0.52)	-	NULL
CWC27	10283	genome.wustl.edu	37	5	64314075	64314075	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_005869.2	+1	validated	p.P449L	1.000	310	0%	111	24.3%	56	23.2%	probably_damaging(1)	deleterious(0)	deleterious(0.945)	NULL
ADAMTS6	11174	genome.wustl.edu	37	5	64520824	64520824	+	Silent	SNP	A	A	G	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_197941.2	-1	reviewed	p.C706	1.000	315	0%	86	18.6%	0	-	-	-	-	NULL
ADAMTS6	11174	genome.wustl.edu	37	5	64747413	64747413	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_197941.2	-1	reviewed	p.S321F	1.000	371	0%	104	28.8%	1	0%	probably_damaging(0.999)	deleterious(0)	deleterious(0.935)	"HMMPfam_Reprolysin,superfamily_Metalloproteases (""zincins"") catalytic domain"
TRIM23	373	genome.wustl.edu	37	5	64887633	64887633	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001656.3	-1	reviewed	p.R563Q	1.000	214	0.5%	91	20.9%	1	0%	probably_damaging(0.997)	tolerated(0.15)	deleterious(0.707)	HMMSmart_SM00175,HMMSmart_SM00178,HMMSmart_SM00177,HMMPfam_Arf,superfamily_P-loop containing nucleoside triphosphate hydrolases
TRIM23	373	genome.wustl.edu	37	5	64906802	64906802	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001656.3	-1	reviewed	p.R238	0.994	454	0%	141	29.1%	0	-	-	-	-	HMMSmart_SM00502
C5orf44	80006	genome.wustl.edu	37	5	64957880	64957880	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001093755.1	+1	validated	p.P301S	1.000	546	0%	109	25.7%	6	16.6%	possibly_damaging(0.934)	tolerated(0.26)	neutral(0.414)	HMMPfam_DUF974
NLN	57486	genome.wustl.edu	37	5	65105866	65105866	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_020726.3	+1	provisional	p.L573I	1.000	138	0%	44	9.1%	3	0%	possibly_damaging(0.758)	tolerated(0.11)	deleterious(0.552)	HMMPfam_Peptidase_M3,superfamily_SSF55486
ERBB2IP	55914	genome.wustl.edu	37	5	65346722	65346722	+	Missense_Mutation	SNP	C	C	G	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_018695.2	+1	reviewed	p.T672S	1.000	341	0%	75	21.3%	3	0%	probably_damaging(0.999)	deleterious(0)	deleterious(0.935)	NULL
ERBB2IP	55914	genome.wustl.edu	37	5	65350608	65350608	+	Nonsense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	ENST00000511671	+1	known	p.E50*	1.000	127	0%	34	17.6%	8	37.5%	probably_damaging(0.999)	deleterious(0)	deleterious(0.935)	NULL
SREK1	140890	genome.wustl.edu	37	5	65466482	65466482	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001077199.1	+1	validated	p.K397N	0.996	424	0%	259	9.3%	29	10.3%	unknown(0)	deleterious(0.02)	-	superfamily_SSF54928
SREK1	140890	genome.wustl.edu	37	5	65466757	65466757	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001077199.1	+1	validated	p.R489I	1.000	220	0%	84	10.7%	17	11.7%	possibly_damaging(0.951)	deleterious(0)	deleterious(0.839)	superfamily_SSF54928
MAST4	375449	genome.wustl.edu	37	5	66084565	66084565	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	ENST00000452953	+1	known	p.S68L	1.000	62	0%	108	24.1%	0	-	-	-	-	NULL
MAST4	375449	genome.wustl.edu	37	5	66448467	66448467	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_015183.2	+1	validated	p.M911V	1.000	178	0.6%	87	16.1%	1	0%	benign(0)	tolerated(0.08)	neutral(0.300)	NULL
MAST4	375449	genome.wustl.edu	37	5	66459305	66459305	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_015183.2	+1	validated	p.A1244V	1.000	16	0%	44	18.2%	0	-	probably_damaging(0.999)	deleterious(0)	deleterious(0.935)	NULL
MAST4	375449	genome.wustl.edu	37	5	66461545	66461545	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_015183.2	+1	validated	p.P1991S	0.001	24	0%	31	29%	1	0%	benign(0.139)	deleterious(0.01)	neutral(0.418)	NULL
CD180	4064	genome.wustl.edu	37	5	66479383	66479383	+	Missense_Mutation	SNP	T	T	G	rs2230523	byCluster;byFrequency;bySubmitter;by1000genomes	TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_005582.2	-1	validated	p.T430P	0.980	421	0%	190	24.7%	2	0%	probably_damaging(0.999)	deleterious(0)	deleterious(0.935)	superfamily_L domain-like
SLC30A5	64924	genome.wustl.edu	37	5	68423836	68423836	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_022902.2	+1	provisional	p.Q668H	1.000	406	0%	170	12.9%	32	0%	benign(0.021)	tolerated(0.15)	neutral(0.242)	HMMPfam_Cation_efflux
CCDC125	202243	genome.wustl.edu	37	5	68616152	68616152	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_176816.3	-1	validated	p.A72	0.000	420	0%	211	29.4%	4	25%	-	-	-	NULL
TAF9	6880	genome.wustl.edu	37	5	68661299	68661299	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001015892.1	-1	validated	p.R89I	1.000	299	0.3%	330	24.8%	35	25.7%	possibly_damaging(0.862)	deleterious(0.03)	deleterious(0.698)	HMMPfam_TFIID-31kDa
RAD17	5884	genome.wustl.edu	37	5	68695882	68695882	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_133339.1	+1	reviewed	p.E538K	1.000	188	0%	96	28.1%	12	8.3%	possibly_damaging(0.881)	deleterious(0.02)	deleterious(0.727)	HMMPfam_Rad17
RAD17	5884	genome.wustl.edu	37	5	68706340	68706340	+	Splice_Site	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	ENST00000504177	+1	known	NULL	1.000	230	0%	248	13.3%	13	0%	-	-	-	-
MARVELD2	153562	genome.wustl.edu	37	5	68716051	68716051	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001038603.2	+1	validated	p.R280Q	1.000	555	0%	606	13.2%	0	-	probably_damaging(0.999)	deleterious(0)	deleterious(0.935)	HMMPfam_MARVEL
MAP1B	4131	genome.wustl.edu	37	5	71493808	71493808	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_005909.3	+1	validated	p.T1542	0.254	121	0.8%	42	19%	3	0%	-	-	-	NULL
MAP1B	4131	genome.wustl.edu	37	5	71495435	71495435	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_005909.3	+1	validated	p.V2085M	1.000	190	0%	74	20.3%	0	-	unknown(0)	deleterious(0)	-	NULL
PTCD2	79810	genome.wustl.edu	37	5	71622476	71622476	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_024754.3	+1	validated	p.Q86	0.968	207	0%	109	21.1%	1	0%	-	-	-	NULL
ZNF366	167465	genome.wustl.edu	37	5	71756273	71756273	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_152625.1	-1	provisional	p.E351K	1.000	62	0%	120	26.7%	1	0%	probably_damaging(0.997)	deleterious(0.04)	deleterious(0.815)	HMMPfam_zf-C2H2,PatternScan_ZINC_FINGER_C2H2_1,HMMSmart_SM00355,superfamily_C2H2 and C2HC zinc fingers
ZNF366	167465	genome.wustl.edu	37	5	71756306	71756306	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_152625.1	-1	provisional	p.R340C	1.000	49	0%	96	33.3%	0	-	probably_damaging(0.999)	deleterious(0)	deleterious(0.935)	HMMPfam_zf-C2H2,PatternScan_ZINC_FINGER_C2H2_1,HMMSmart_SM00355,superfamily_C2H2 and C2HC zinc fingers
TMEM171	134285	genome.wustl.edu	37	5	72419622	72419622	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_173490.6	+1	validated	p.A141V	0.000	328	0.3%	397	15.9%	1	0%	benign(0)	tolerated(0.35)	neutral(0.021)	NULL
TMEM171	134285	genome.wustl.edu	37	5	72419638	72419638	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_173490.6	+1	validated	p.N146	0.011	406	0%	466	24.7%	1	0%	-	-	-	NULL
RGNEF	64283	genome.wustl.edu	37	5	73144844	73144844	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001080479.2	+1	reviewed	p.S560L	1.000	333	0%	86	15.1%	2	0%	probably_damaging(0.998)	deleterious(0)	deleterious(0.919)	NULL
RGNEF	64283	genome.wustl.edu	37	5	73169046	73169046	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001080479.2	+1	reviewed	p.R930Q	0.942	175	0%	47	21.3%	0	-	benign(0.011)	tolerated(0.49)	neutral(0.011)	HMMPfam_RhoGEF,HMMSmart_SM00325,superfamily_DBL homology domain (DH-domain)
RGNEF	64283	genome.wustl.edu	37	5	73190252	73190252	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001080479.2	+1	reviewed	p.A1231	0.000	246	0%	89	21.3%	4	25%	-	-	-	NULL
ANKRD31	256006	genome.wustl.edu	37	5	74364409	74364409	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	ENST00000274361	-1	known	p.L1853F	1.000	475	0%	178	12.9%	0	-	probably_damaging(0.983)	deleterious(0)	deleterious(0.873)	NULL
ANKRD31	256006	genome.wustl.edu	37	5	74489266	74489266	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	ENST00000274361	-1	known	p.L390I	0.754	410	0%	84	27.4%	0	-	probably_damaging(0.967)	deleterious(0)	deleterious(0.853)	NULL
ANKRD31	256006	genome.wustl.edu	37	5	74526387	74526387	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	ENST00000274361	-1	known	p.G60C	0.998	253	0%	204	27.5%	0	-	probably_damaging(0.998)	-	-	NULL
HMGCR	3156	genome.wustl.edu	37	5	74654542	74654542	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_000859.2	+1	reviewed	p.V683I	0.916	348	0.3%	96	22.9%	0	-	benign(0.003)	tolerated(0.05)	neutral(0.345)	HMMPfam_HMG-CoA_red,superfamily_NAD-binding domain of HMG-CoA reductase,superfamily_Substrate-binding domain of HMG-CoA reductase
POLK	51426	genome.wustl.edu	37	5	74848405	74848405	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_016218.2	+1	validated	p.A82S	1.000	322	0%	69	24.6%	2	0%	benign(0.078)	tolerated(0.19)	neutral(0.055)	superfamily_DNA/RNA polymerases
POLK	51426	genome.wustl.edu	37	5	74886193	74886193	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_016218.2	+1	validated	p.A428	1.000	302	0%	71	19.7%	1	0%	-	-	-	HMMPfam_IMS,superfamily_Lesion bypass DNA polymerase (Y-family) little finger domain
POC5	134359	genome.wustl.edu	37	5	74984931	74984931	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001099271.1	-1	validated	p.E345D	0.996	511	0%	218	21.6%	7	28.5%	benign(0.001)	tolerated(0.38)	neutral(0.018)	NULL
SV2C	22987	genome.wustl.edu	37	5	75505588	75505588	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_014979.1	+1	provisional	p.F263L	1.000	175	0%	70	37.1%	0	-	probably_damaging(0.999)	deleterious(0.03)	deleterious(0.855)	HMMPfam_MFS_1,superfamily_MFS_gen_substrate_transporter
SV2C	22987	genome.wustl.edu	37	5	75596734	75596734	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_014979.1	+1	provisional	p.R606I	1.000	289	0%	65	12.3%	0	-	possibly_damaging(0.946)	deleterious(0.01)	deleterious(0.796)	HMMPfam_MFS_1,superfamily_MFS_gen_substrate_transporter
F2RL2	2151	genome.wustl.edu	37	5	75913599	75913599	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_004101.2	-1	reviewed	p.T311	0.846	241	0%	115	24.3%	1	0%	-	-	-	HMMPfam_7tm_1,superfamily_Family A G protein-coupled receptor-like
IQGAP2	10788	genome.wustl.edu	37	5	75969847	75969847	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_006633.2	+1	validated	p.D1094N	1.000	338	0%	70	27.1%	3	33.3%	benign(0.022)	tolerated(0.17)	neutral(0.060)	HMMPfam_RasGAP,HMMSmart_SM00323,superfamily_GTPase activation domain GAP
IQGAP2	10788	genome.wustl.edu	37	5	75993969	75993969	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_006633.2	+1	validated	p.R1455I	1.000	139	0%	43	25.6%	1	0%	possibly_damaging(0.446)	tolerated(0.08)	neutral(0.446)	HMMPfam_RasGAP_C
IQGAP2	10788	genome.wustl.edu	37	5	75996912	75996912	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_006633.2	+1	validated	p.R1460I	1.000	239	0%	99	29.3%	1	0%	possibly_damaging(0.913)	deleterious(0.01)	deleterious(0.770)	HMMPfam_RasGAP_C
F2RL1	2150	genome.wustl.edu	37	5	76129398	76129398	+	Silent	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_005242.4	+1	validated	p.V322	1.000	220	0%	120	25%	8	62.5%	-	-	-	HMMPfam_7tm_1,superfamily_Family A G protein-coupled receptor-like
S100Z	170591	genome.wustl.edu	37	5	76173568	76173568	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_130772.3	+1	validated	p.D71N	1.000	443	0%	286	21%	0	-	probably_damaging(1)	tolerated(0.2)	deleterious(0.549)	PatternScan_S100_CABP,HMMSmart_SM00054,PatternScan_EF_HAND_1,HMMPfam_efhand,superfamily_EF-hand
CRHBP	1393	genome.wustl.edu	37	5	76248965	76248965	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001882.3	+1	reviewed	p.S2	0.001	94	0%	172	13.4%	0	-	-	-	-	HMMPfam_CRF-BP
AGGF1	55109	genome.wustl.edu	37	5	76344094	76344094	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_018046.3	+1	validated	p.G437E	1.000	369	0%	383	10.7%	7	0%	probably_damaging(1)	deleterious(0)	deleterious(0.945)	HMMPfam_FHA,HMMSmart_SM00240,superfamily_SMAD/FHA domain
AGGF1	55109	genome.wustl.edu	37	5	76355464	76355464	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_018046.3	+1	validated	p.K580N	0.996	254	0%	86	9.3%	17	23.5%	probably_damaging(1)	tolerated(0.24)	deleterious(0.537)	NULL
PDE8B	8622	genome.wustl.edu	37	5	76714063	76714063	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_003719.2	+1	validated	p.D641N	1.000	68	0%	30	33.3%	3	33.3%	benign(0.214)	tolerated(0.11)	neutral(0.293)	HMMPfam_PDEase_I,HMMSmart_SM00471,superfamily_HD-domain/PDEase-like
PDE8B	8622	genome.wustl.edu	37	5	76721644	76721644	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_003719.2	+1	validated	p.R824Q	1.000	341	0%	74	10.8%	4	0%	probably_damaging(1)	deleterious(0)	deleterious(0.945)	HMMPfam_PDEase_I,superfamily_HD-domain/PDEase-like
WDR41	55255	genome.wustl.edu	37	5	76785398	76785398	+	Splice_Site	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_018268.2	-1	validated	e2-1	1.000	324	0%	489	11.2%	0	-	-	-	-	-
AP3B1	8546	genome.wustl.edu	37	5	77298752	77298752	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_003664.3	-1	reviewed	p.L1087M	1.000	285	0%	123	16.3%	49	0%	possibly_damaging(0.634)	deleterious(0.02)	deleterious(0.605)	NULL
AP3B1	8546	genome.wustl.edu	37	5	77473172	77473172	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_003664.3	-1	reviewed	p.R344H	1.000	374	0%	92	10.9%	2	0%	possibly_damaging(0.906)	tolerated(0.08)	deleterious(0.659)	HMMPfam_Adaptin_N,superfamily_ARM repeat
JMY	133746	genome.wustl.edu	37	5	78585946	78585946	+	Missense_Mutation	SNP	T	T	G	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_152405.4	+1	validated	p.I403M	1.000	150	0%	43	16.3%	1	0%	probably_damaging(0.989)	deleterious(0.04)	deleterious(0.788)	NULL
HOMER1	9456	genome.wustl.edu	37	5	78671929	78671929	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_004272.3	-1	validated	p.R323H	1.000	341	0%	82	25.6%	0	-	benign(0.418)	deleterious(0.02)	deleterious(0.518)	NULL
HOMER1	9456	genome.wustl.edu	37	5	78697767	78697767	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_004272.3	-1	validated	p.Q213	1.000	338	0%	49	18.4%	0	-	-	-	-	NULL
PAPD4	167153	genome.wustl.edu	37	5	78944929	78944929	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001114393.1	+1	validated	p.A315T	1.000	440	0%	88	21.6%	8	12.5%	probably_damaging(1)	deleterious(0)	deleterious(0.945)	superfamily_PAP/OAS1 substrate-binding domain
CMYA5	202333	genome.wustl.edu	37	5	79029107	79029107	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_153610.3	+1	validated	p.R1507C	0.001	190	0%	41	24.4%	0	-	probably_damaging(0.974)	deleterious(0)	deleterious(0.861)	NULL
CMYA5	202333	genome.wustl.edu	37	5	79031681	79031681	+	Nonsense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_153610.3	+1	validated	p.E2365*	0.066	60	0%	16	25%	1	0%	-	-	-	NULL
CMYA5	202333	genome.wustl.edu	37	5	79033840	79033840	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_153610.3	+1	validated	p.K3084N	0.009	110	0%	37	18.9%	1	0%	benign(0.133)	deleterious(0.01)	neutral(0.417)	NULL
SPZ1	84654	genome.wustl.edu	37	5	79616145	79616145	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_032567.3	+1	validated	p.F37	0.000	314	0%	227	22.5%	0	-	-	-	-	NULL
ZFYVE16	9765	genome.wustl.edu	37	5	79733762	79733762	+	Missense_Mutation	SNP	A	A	C	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001105251.1	+1	validated	p.S420R	0.004	95	0%	37	29.7%	0	-	benign(0.155)	deleterious(0.01)	neutral(0.419)	NULL
ZFYVE16	9765	genome.wustl.edu	37	5	79734813	79734813	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001105251.1	+1	validated	p.R770Q	1.000	126	0%	30	26.7%	3	0%	probably_damaging(1)	deleterious(0)	deleterious(0.945)	HMMPfam_FYVE,HMMSmart_SM00064,superfamily_FYVE/PHD zinc finger
ZFYVE16	9765	genome.wustl.edu	37	5	79755242	79755242	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001105251.1	+1	validated	p.A1318V	1.000	737	0%	350	24.6%	3	0%	possibly_damaging(0.861)	deleterious(0)	deleterious(0.778)	NULL
DHFR	1719	genome.wustl.edu	37	5	79933712	79933712	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_000791.3	-1	reviewed	p.S120Y	1.000	470	0%	161	18.6%	1	100%	possibly_damaging(0.904)	deleterious(0.01)	deleterious(0.764)	HMMPfam_DHFR_1,superfamily_Dihydrofolate reductases
RASGRF2	5924	genome.wustl.edu	37	5	80382692	80382692	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_006909.1	+1	validated	p.R437M	1.000	171	0%	220	18.6%	3	0%	probably_damaging(1)	deleterious(0.03)	deleterious(0.865)	superfamily_DBL homology domain (DH-domain),superfamily_PH domain-like
CKMT2	1160	genome.wustl.edu	37	5	80546983	80546983	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001099735.1	+1	reviewed	p.G11D	1.000	132	0%	120	32.5%	0	-	benign(0.408)	deleterious(0.03)	deleterious(0.496)	NULL
ACOT12	134526	genome.wustl.edu	37	5	80640799	80640799	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_130767.2	-1	validated	p.R279C	1.000	117	0%	52	19.2%	0	-	probably_damaging(1)	deleterious(0)	deleterious(0.945)	superfamily_Thioesterase/thiol ester dehydrase-isomerase
VCAN	1462	genome.wustl.edu	37	5	82786034	82786034	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_004385.4	+1	reviewed	p.R63H	0.993	113	0%	49	18.4%	0	-	probably_damaging(1)	deleterious(0.01)	deleterious(0.905)	HMMSmart_SM00409,HMMPfam_V-set,superfamily_Immunoglobulin
VCAN	1462	genome.wustl.edu	37	5	82817945	82817945	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_004385.4	+1	reviewed	p.D1274N	0.995	179	0%	62	25.8%	0	-	probably_damaging(0.987)	deleterious(0.03)	deleterious(0.801)	NULL
VCAN	1462	genome.wustl.edu	37	5	82835979	82835979	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_004385.4	+1	reviewed	p.S2386Y	0.006	168	0%	52	15.4%	0	-	probably_damaging(0.998)	-	-	NULL
VCAN	1462	genome.wustl.edu	37	5	82837315	82837315	+	Silent	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_004385.4	+1	reviewed	p.I2831	0.000	195	0%	49	10.2%	2	0%	-	-	-	NULL
VCAN	1462	genome.wustl.edu	37	5	82837712	82837712	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_004385.4	+1	reviewed	p.D2964N	0.000	129	0%	23	34.8%	6	0%	benign(0.001)	-	-	NULL
VCAN	1462	genome.wustl.edu	37	5	82837889	82837889	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_004385.4	+1	reviewed	p.D3023N	0.001	189	0%	49	14.3%	15	0%	probably_damaging(0.998)	-	-	NULL
VCAN	1462	genome.wustl.edu	37	5	82841383	82841383	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_004385.4	+1	reviewed	p.C3098Y	1.000	234	0%	54	25.9%	19	0%	possibly_damaging(0.922)	deleterious(0)	deleterious(0.816)	HMMSmart_SM00179,HMMPfam_EGF,HMMSmart_SM00181,superfamily_EGF/Laminin
HAPLN1	1404	genome.wustl.edu	37	5	82937602	82937602	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001884.3	-1	validated	p.R260C	0.987	203	0%	88	26.1%	0	-	probably_damaging(1)	deleterious(0.01)	deleterious(0.905)	HMMPfam_Xlink,HMMSmart_SM00445
RASA1	5921	genome.wustl.edu	37	5	86645121	86645121	+	Missense_Mutation	SNP	G	G	A	rs137853214		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_002890.1	+1	reviewed	p.R398Q	1.000	383	0.3%	60	33.3%	0	-	probably_damaging(1)	deleterious(0.02)	deleterious(0.883)	HMMPfam_SH2,HMMSmart_SM00252,superfamily_SH2 domain
TMEM161B	153396	genome.wustl.edu	37	5	87494938	87494938	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_153354.3	-1	provisional	p.R315Q	1.000	144	0%	88	28.4%	0	-	probably_damaging(0.994)	deleterious(0)	deleterious(0.897)	HMMPfam_Tmemb_161AB
MEF2C	4208	genome.wustl.edu	37	5	88100420	88100420	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_002397.3	-1	validated	p.V85M	1.000	290	0%	42	31%	0	-	probably_damaging(0.998)	deleterious(0)	deleterious(0.919)	superfamily_SRF-like
MEF2C	4208	genome.wustl.edu	37	5	88119580	88119580	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_002397.3	-1	validated	p.T9M	1.000	825	0.1%	237	21.1%	3	0%	probably_damaging(0.994)	deleterious(0.01)	deleterious(0.858)	HMMPfam_SRF-TF,HMMSmart_SM00432,PatternScan_MADS_BOX_1,superfamily_SRF-like
GPR98	84059	genome.wustl.edu	37	5	89918425	89918425	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_032119.3	+1	reviewed	p.I155	0.937	241	0%	62	21%	0	-	-	-	-	HMMSmart_SM00237
GPR98	84059	genome.wustl.edu	37	5	90077349	90077349	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_032119.3	+1	reviewed	p.N4395	1.000	224	0%	60	23.3%	0	-	-	-	-	HMMPfam_Calx-beta,HMMSmart_SM00237
GPR98	84059	genome.wustl.edu	37	5	90106107	90106107	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_032119.3	+1	reviewed	p.S5010	0.469	178	0%	55	25.5%	0	-	-	-	-	HMMSmart_SM00237
NR2F1	7025	genome.wustl.edu	37	5	92923863	92923863	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_005654.4	+1	provisional	p.R235H	1.000	59	0%	119	26.9%	6	0%	probably_damaging(0.982)	deleterious(0)	deleterious(0.871)	HMMPfam_Hormone_recep,HMMSmart_HOLI,superfamily_Str_ncl_receptor
POU5F2	134187	genome.wustl.edu	37	5	93076769	93076769	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_153216.1	-1	provisional	p.F167	0.975	204	0%	298	26.8%	0	-	-	-	-	HMMPfam_Pou,HMMSmart_POU,PatternScan_POU_2,superfamily_Lambda_like_DNA
FAM172A	83989	genome.wustl.edu	37	5	93410360	93410360	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_032042.5	-1	validated	p.A33S	1.000	521	0%	83	14.5%	0	-	possibly_damaging(0.942)	tolerated(0.42)	neutral(0.401)	NULL
KIAA0825	285600	genome.wustl.edu	37	5	93856491	93856491	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001145678.1	-1	validated	p.T144	0.989	245	0%	158	22.8%	0	-	-	-	-	NULL
LOC100131573	100131573	genome.wustl.edu	37	5	93929200	93929200	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	XM_001716404.1	+1	model	p.Y260C	0.374	90	0%	25	36%	0	-	-	-	-	NULL
MCTP1	79772	genome.wustl.edu	37	5	94248612	94248612	+	Missense_Mutation	SNP	T	T	G	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_024717.4	-1	validated	p.I474L	1.000	283	0%	67	25.4%	1	0%	benign(0.002)	deleterious(0.04)	neutral(0.349)	HMMPfam_C2,HMMSmart_SM00239,superfamily_C2 domain (Calcium/lipid-binding domain CaLB)
RHOBTB3	22836	genome.wustl.edu	37	5	95128827	95128827	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	ENST00000503737	+1	known	p.G98R	0.772	370	0%	85	16.5%	2	0%	-	-	-	NULL
PCSK1	5122	genome.wustl.edu	37	5	95746640	95746640	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_000439.4	-1	reviewed	p.G311	0.039	155	0%	57	12.3%	1	0%	-	-	-	HMMPfam_Peptidase_S8,superfamily_Pept_S8_S53
CAST	831	genome.wustl.edu	37	5	96079433	96079433	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_173061.2	+1	reviewed	p.R35C	0.001	217	0%	53	20.8%	0	-	possibly_damaging(0.638)	tolerated(0.07)	deleterious(0.542)	NULL
CAST	831	genome.wustl.edu	37	5	96100978	96100978	+	Silent	SNP	A	A	G	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	ENST00000510500	+1	known	p.T336A	0.910	197	0%	75	28%	93	17.2%	-	-	-	HMMPfam_Calpain_inhib
CAST	831	genome.wustl.edu	37	5	96101787	96101787	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001750.5	+1	reviewed	p.L690F	1.000	224	0%	37	16.2%	99	15.1%	probably_damaging(0.996)	deleterious(0.03)	deleterious(0.826)	HMMPfam_Calpain_inhib
ERAP1	51752	genome.wustl.edu	37	5	96129595	96129595	+	Nonsense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_016442.3	-1	validated	p.E329*	1.000	194	0%	83	19.3%	3	0%	-	-	-	HMMPfam_Peptidase_M1,superfamily_SSF55486
ERAP2	64167	genome.wustl.edu	37	5	96249129	96249129	+	Silent	SNP	T	T	C	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	ENST00000512869	+1	known	p.C30R	1.000	168	0%	101	15.8%	44	9%	-	-	-	NULL
LNPEP	4012	genome.wustl.edu	37	5	96341890	96341890	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_005575.2	+1	reviewed	p.E633D	0.998	150	0%	27	33.3%	0	-	probably_damaging(1)	deleterious(0.02)	deleterious(0.883)	NULL
CHD1	1105	genome.wustl.edu	37	5	98262088	98262088	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001270.2	-1	reviewed	p.M1I	1.000	465	0%	650	10.9%	0	-	benign(0.012)	deleterious(0)	neutral(0.445)	NULL
SLCO6A1	133482	genome.wustl.edu	37	5	101816050	101816050	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_173488.3	-1	validated	p.K149	0.000	369	0%	213	25.4%	0	-	-	-	-	HMMPfam_OATP,superfamily_MFS general substrate transporter
PAM	5066	genome.wustl.edu	37	5	102364747	102364747	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_000919.3	+1	reviewed	p.A968V	0.001	182	0%	107	13.1%	193	12.9%	unknown(0)	tolerated(0.3)	-	NULL
GIN1	54826	genome.wustl.edu	37	5	102433319	102433319	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_017676.2	-1	validated	p.S269L	1.000	503	0%	115	19.1%	3	33.3%	benign(0.073)	tolerated(0.69)	neutral(0.007)	HMMPfam_rve,superfamily_Ribonuclease H-like
PPIP5K2	23262	genome.wustl.edu	37	5	102493898	102493898	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_015216.2	+1	provisional	p.R499Q	0.997	286	0%	68	25%	1	0%	benign(0.031)	tolerated(0.69)	neutral(0.004)	HMMPfam_Acid_phosphat_A,superfamily_SSF53254
PPIP5K2	23262	genome.wustl.edu	37	5	102503880	102503880	+	Missense_Mutation	SNP	A	A	C	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_015216.2	+1	provisional	p.I723L	1.000	243	0%	40	25%	1	0%	possibly_damaging(0.761)	deleterious(0.01)	deleterious(0.688)	HMMPfam_Acid_phosphat_A,superfamily_SSF53254
PPIP5K2	23262	genome.wustl.edu	37	5	102522052	102522052	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_015216.2	+1	provisional	p.S1067	0.963	220	0%	29	17.2%	0	-	-	-	-	NULL
PJA2	9867	genome.wustl.edu	37	5	108680446	108680446	+	Silent	SNP	A	A	G	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_014819.4	-1	validated	p.I613	0.067	216	0%	279	12.9%	12	0%	-	-	-	superfamily_SSF57850
PJA2	9867	genome.wustl.edu	37	5	108713915	108713915	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_014819.4	-1	validated	p.D425Y	1.000	374	0%	133	26.3%	4	0%	probably_damaging(1)	deleterious(0)	deleterious(0.945)	NULL
MAN2A1	4124	genome.wustl.edu	37	5	109152994	109152994	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_002372.2	+1	reviewed	p.P655H	1.000	317	0%	98	12.2%	2	50%	probably_damaging(0.993)	deleterious(0)	deleterious(0.895)	superfamily_Gal_mut_like,HMMPfam_Glyco_hydro_38C
MAN2A1	4124	genome.wustl.edu	37	5	109178114	109178114	+	Silent	SNP	T	T	G	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_002372.2	+1	reviewed	p.S884	0.990	271	0%	105	21.9%	4	0%	-	-	-	superfamily_Gal_mut_like,HMMPfam_Glyco_hydro_38C
TMEM232	642987	genome.wustl.edu	37	5	109940954	109940954	+	Nonsense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001039763.3	-1	validated	p.R378*	0.553	201	0.5%	38	15.8%	1	0%	-	-	-	NULL
TMEM232	642987	genome.wustl.edu	37	5	109954180	109954180	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001039763.3	-1	validated	p.N284	0.000	257	0%	55	30.9%	0	-	-	-	-	NULL
TMEM232	642987	genome.wustl.edu	37	5	109974040	109974040	+	Silent	SNP	A	A	C	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001039763.3	-1	validated	p.L120	0.398	304	0%	77	32.5%	0	-	-	-	-	NULL
SLC25A46	91137	genome.wustl.edu	37	5	110077749	110077749	+	Missense_Mutation	SNP	A	A	C	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_138773.1	+1	provisional	p.E95D	1.000	487	0%	466	22.5%	1	0%	benign(0.001)	tolerated(0.06)	neutral(0.323)	superfamily_Mitochondrial carrier
TSLP	85480	genome.wustl.edu	37	5	110407709	110407709	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_033035.4	+1	reviewed	p.A41S	0.000	419	0%	509	30.3%	0	-	benign(0.092)	tolerated(0.52)	neutral(0.015)	NULL
WDR36	134430	genome.wustl.edu	37	5	110439575	110439575	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_139281.2	+1	reviewed	p.R286C	1.000	282	0%	75	10.7%	0	-	possibly_damaging(0.946)	tolerated(0.05)	deleterious(0.736)	HMMSmart_WD40,superfamily_Amine_DH_B_like,superfamily_WD40_like
WDR36	134430	genome.wustl.edu	37	5	110440993	110440993	+	Splice_Site	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_139281.2	+1	reviewed	e10-1	1.000	349	0%	72	13.9%	0	-	-	-	-	-
STARD4	134429	genome.wustl.edu	37	5	110836754	110836754	+	Nonsense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_139164.1	-1	provisional	p.E115*	1.000	259	0%	159	20.8%	5	80%	-	-	-	HMMPfam_START,superfamily_SSF55961
NREP	9315	genome.wustl.edu	37	5	111066712	111066712	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001142475.1	-1	validated	p.R82H	1.000	455	0%	107	28%	12	8.3%	benign(0.008)	deleterious(0.02)	neutral(0.383)	NULL
EPB41L4A	64097	genome.wustl.edu	37	5	111540148	111540148	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_022140.3	-1	validated	p.P434S	1.000	328	0%	98	17.3%	9	11.1%	possibly_damaging(0.525)	deleterious(0)	deleterious(0.621)	NULL
EPB41L4A	64097	genome.wustl.edu	37	5	111545644	111545644	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_022140.3	-1	validated	p.E375K	0.998	827	0%	303	17.5%	4	0%	benign(0.028)	tolerated(0.19)	neutral(0.051)	NULL
EPB41L4A	64097	genome.wustl.edu	37	5	111594954	111594954	+	Missense_Mutation	SNP	T	T	G	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_022140.3	-1	validated	p.Q256P	1.000	539	0%	124	26.6%	2	0%	probably_damaging(0.985)	tolerated(0.08)	deleterious(0.732)	HMMPfam_FERM_C,superfamily_PH domain-like
APC	324	genome.wustl.edu	37	5	112103079	112103079	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_000038.4	+1	reviewed	p.E138	0.998	233	0%	47	25.5%	0	-	-	-	-	superfamily_ARM repeat
APC	324	genome.wustl.edu	37	5	112174631	112174631	+	Nonsense_Mutation	SNP	C	C	T	rs121913331		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_000038.4	+1	reviewed	p.R1114*	1.000	148	0%	48	22.9%	0	-	-	-	-	NULL
APC	324	genome.wustl.edu	37	5	112175278	112175278	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_000038.4	+1	reviewed	p.H1329	0.400	134	0%	30	16.7%	0	-	-	-	-	NULL
APC	324	genome.wustl.edu	37	5	112178048	112178048	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_000038.4	+1	reviewed	p.L2253I	0.811	184	0%	62	11.3%	0	-	benign(0.098)	tolerated(0.23)	neutral(0.049)	HMMPfam_APC_basic
APC	324	genome.wustl.edu	37	5	112178493	112178493	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_000038.4	+1	reviewed	p.L2401P	0.619	172	0%	79	17.7%	2	50%	probably_damaging(1)	tolerated(0.07)	deleterious(0.819)	HMMPfam_APC_basic
APC	324	genome.wustl.edu	37	5	112178864	112178864	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_000038.4	+1	reviewed	p.R2525C	1.000	107	0%	44	13.6%	3	0%	probably_damaging(1)	deleterious(0)	deleterious(0.945)	HMMPfam_APC_basic
SRP19	6728	genome.wustl.edu	37	5	112200348	112200348	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_003135.1	+1	provisional	p.R74C	1.000	207	0.5%	115	20%	34	8.8%	benign(0.101)	deleterious(0)	neutral(0.452)	HMMPfam_SRP19,superfamily_SRP19
MCC	4163	genome.wustl.edu	37	5	112389555	112389555	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001085377.1	-1	reviewed	p.A772V	0.985	132	0%	54	13%	1	0%	possibly_damaging(0.901)	tolerated(0.75)	neutral(0.358)	NULL
MCC	4163	genome.wustl.edu	37	5	112458452	112458452	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001085377.1	-1	reviewed	p.R319Q	0.998	209	0%	70	22.9%	3	0%	possibly_damaging(0.581)	tolerated(0.3)	neutral(0.229)	NULL
TSSK1B	83942	genome.wustl.edu	37	5	112769636	112769636	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_032028.3	-1	validated	p.E301K	0.590	121	0%	193	10.9%	0	-	benign(0.002)	tolerated(0.18)	neutral(0.056)	superfamily_Protein kinase-like (PK-like)
TSSK1B	83942	genome.wustl.edu	37	5	112770370	112770370	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_032028.3	-1	validated	p.F56S	1.000	187	0%	269	11.2%	0	-	probably_damaging(1)	deleterious(0)	deleterious(0.945)	HMMSmart_SM00219,HMMSmart_SM00220,superfamily_Protein kinase-like (PK-like),HMMPfam_Pkinase
YTHDC2	64848	genome.wustl.edu	37	5	112849690	112849690	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_022828.3	+1	validated	p.A33V	0.997	16	0%	32	28.1%	0	-	benign(0)	tolerated(0.31)	neutral(0.027)	NULL
YTHDC2	64848	genome.wustl.edu	37	5	112901606	112901606	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_022828.3	+1	validated	p.R911Q	1.000	362	0%	72	26.4%	1	0%	probably_damaging(0.983)	deleterious(0.02)	deleterious(0.812)	NULL
PGGT1B	5229	genome.wustl.edu	37	5	114557703	114557703	+	Nonsense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_005023.3	-1	validated	p.G221*	1.000	339	0%	100	11%	2	0%	-	-	-	HMMPfam_Prenyltrans,superfamily_Terpenoid cyclases/Protein prenyltransferases
CCDC112	153733	genome.wustl.edu	37	5	114615347	114615347	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001040440.2	-1	validated	p.E120K	1.000	470	0%	200	19.5%	3	33.3%	probably_damaging(1)	deleterious(0)	deleterious(0.945)	NULL
CCDC112	153733	genome.wustl.edu	37	5	114615446	114615446	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001040440.2	-1	validated	p.D87Y	1.000	565	0%	172	16.3%	1	0%	probably_damaging(0.991)	deleterious(0.01)	deleterious(0.850)	NULL
FEM1C	56929	genome.wustl.edu	37	5	114860293	114860293	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_020177.2	-1	validated	p.N522	0.998	285	0%	98	20.4%	1	100%	-	-	-	HMMPfam_Ank,HMMSmart_ANK,superfamily_ANK
FEM1C	56929	genome.wustl.edu	37	5	114878712	114878712	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_020177.2	-1	validated	p.G160V	1.000	193	0%	313	25.6%	2	0%	probably_damaging(1)	deleterious(0)	deleterious(0.945)	HMMPfam_Ank,HMMSmart_ANK,superfamily_ANK
CDO1	1036	genome.wustl.edu	37	5	115151980	115151980	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001801.2	-1	validated	p.A39S	1.000	67	0%	132	28.8%	1	0%	benign(0)	tolerated(1)	-	HMMPfam_CDO_I
AQPEP	206338	genome.wustl.edu	37	5	115319019	115319019	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_173800.4	+1	validated	p.A244V	1.000	329	0%	65	24.6%	0	-	probably_damaging(1)	deleterious(0)	deleterious(0.945)	HMMPfam_Peptidase_M1,superfamily_Leukotriene A4 hydrolase N-terminal domain
AQPEP	206338	genome.wustl.edu	37	5	115351338	115351338	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_173800.4	+1	validated	p.A878T	0.991	257	0%	59	28.8%	0	-	possibly_damaging(0.819)	tolerated(1)	neutral(0.309)	NULL
SEMA6A	57556	genome.wustl.edu	37	5	115782912	115782912	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	ENST00000515129	-1	known	p.W345*	1.000	66	0%	74	13.5%	0	-	-	-	-	NULL
DMXL1	1657	genome.wustl.edu	37	5	118454680	118454680	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_005509.4	+1	validated	p.R305Q	1.000	375	0%	454	11.5%	11	18.1%	benign(0.262)	deleterious(0.03)	neutral(0.392)	superfamily_WD40 repeat-like
DMXL1	1657	genome.wustl.edu	37	5	118506884	118506884	+	Missense_Mutation	SNP	T	T	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_005509.4	+1	validated	p.F2133Y	1.000	234	0%	68	22.1%	2	0%	probably_damaging(1)	deleterious(0.04)	deleterious(0.849)	NULL
HSD17B4	3295	genome.wustl.edu	37	5	118865611	118865611	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_000414.2	+1	reviewed	p.V597A	0.980	200	0%	78	21.8%	52	15.3%	benign(0.406)	tolerated(0.26)	neutral(0.165)	HMMPfam_MaoC_dehydratas,superfamily_SSF54637
FAM170A	340069	genome.wustl.edu	37	5	118968444	118968444	+	Silent	SNP	A	A	G	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_182761.3	+1	validated	p.G24	0.734	143	0%	90	20%	0	-	-	-	-	NULL
FAM170A	340069	genome.wustl.edu	37	5	118970356	118970356	+	Nonsense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_182761.3	+1	validated	p.E305*	0.000	226	0%	152	13.2%	0	-	-	-	-	NULL
FTMT	94033	genome.wustl.edu	37	5	121188335	121188335	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_177478.1	+1	validated	p.A226V	0.974	164	0%	248	20.6%	0	-	possibly_damaging(0.808)	deleterious(0.01)	deleterious(0.710)	superfamily_Ferritin/RR_like
SNX24	28966	genome.wustl.edu	37	5	122343425	122343425	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_014035.2	+1	validated	p.P164H	1.000	322	0%	124	22.6%	2	50%	possibly_damaging(0.436)	deleterious(0.01)	deleterious(0.547)	NULL
PRDM6	93166	genome.wustl.edu	37	5	122506483	122506483	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001136239.1	+1	validated	p.E393K	1.000	105	0%	73	17.8%	0	-	benign(0.244)	tolerated(0.15)	neutral(0.266)	NULL
ZNF608	57507	genome.wustl.edu	37	5	123977004	123977004	+	Missense_Mutation	SNP	T	T	G	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_020747.2	-1	validated	p.H1464P	1.000	184	0%	131	12.2%	7	0%	probably_damaging(0.982)	deleterious(0)	deleterious(0.871)	NULL
ZNF608	57507	genome.wustl.edu	37	5	124080385	124080385	+	Nonsense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_020747.2	-1	validated	p.E100*	1.000	449	0%	409	20.8%	0	-	-	-	-	NULL
MEGF10	84466	genome.wustl.edu	37	5	126770443	126770443	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_032446.2	+1	validated	p.S635	0.990	41	0%	18	22.2%	0	-	-	-	-	HMMSmart_SM00180,HMMSmart_SM00181
SLC12A2	6558	genome.wustl.edu	37	5	127450338	127450338	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001046.2	+1	validated	p.T338N	0.998	453	0.2%	272	12.5%	0	-	probably_damaging(0.982)	deleterious(0.02)	deleterious(0.809)	HMMPfam_AA_permease
FBN2	2201	genome.wustl.edu	37	5	127782193	127782193	+	Missense_Mutation	SNP	T	T	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001999.3	-1	reviewed	p.E311D	0.993	312	0%	268	20.9%	0	-	benign(0.105)	tolerated(0.54)	neutral(0.015)	HMMSmart_SM00179,HMMSmart_SM00181,superfamily_Concanavalin A-like lectins/glucanases,HMMPfam_EGF_CA
SLC27A6	28965	genome.wustl.edu	37	5	128302249	128302249	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001017372.1	+1	reviewed	p.R140H	0.677	32	3.1%	75	16%	1	0%	probably_damaging(0.999)	deleterious(0)	deleterious(0.935)	HMMPfam_AMP-binding,superfamily_SSF56801
ADAMTS19	171019	genome.wustl.edu	37	5	128956316	128956316	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_133638.3	+1	reviewed	p.G489D	1.000	193	0%	35	20%	2	0%	probably_damaging(1)	deleterious(0)	deleterious(0.945)	"HMMPfam_Reprolysin,superfamily_Metalloproteases (""zincins"") catalytic domain"
ADAMTS19	171019	genome.wustl.edu	37	5	128977604	128977604	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_133638.3	+1	reviewed	p.R602I	0.957	502	0%	204	20.1%	1	0%	benign(0.083)	tolerated(0.11)	neutral(0.278)	HMMSmart_SM00608
ADAMTS19	171019	genome.wustl.edu	37	5	128990026	128990026	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_133638.3	+1	reviewed	p.P729H	1.000	379	0.3%	120	22.5%	0	-	probably_damaging(0.996)	deleterious(0)	deleterious(0.906)	NULL
ADAMTS19	171019	genome.wustl.edu	37	5	128990096	128990096	+	Silent	SNP	A	A	G	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_133638.3	+1	reviewed	p.G752	0.054	307	0.3%	113	12.4%	0	-	-	-	-	NULL
ADAMTS19	171019	genome.wustl.edu	37	5	128994395	128994395	+	Missense_Mutation	SNP	T	T	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_133638.3	+1	reviewed	p.I791N	1.000	445	0%	94	26.6%	0	-	possibly_damaging(0.846)	deleterious(0.03)	deleterious(0.690)	HMMPfam_ADAM_spacer1
CHSY3	337876	genome.wustl.edu	37	5	129244040	129244040	+	Missense_Mutation	SNP	T	T	G	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_175856.4	+1	validated	p.V358G	1.000	344	0%	529	23.1%	0	-	possibly_damaging(0.937)	deleterious(0.01)	deleterious(0.788)	HMMPfam_CHGN
LYRM7	90624	genome.wustl.edu	37	5	130517985	130517985	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_181705.2	+1	validated	p.I52T	1.000	66	0%	13	38.5%	0	-	probably_damaging(0.999)	deleterious(0)	deleterious(0.935)	NULL
RAPGEF6	51735	genome.wustl.edu	37	5	130771676	130771676	+	Nonsense_Mutation	SNP	G	G	A	rs183985113	by1000genomes	TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	ENST00000308008	-1	known	p.R1382*	0.004	528	0%	152	23%	0	-	-	-	-	NULL
RAPGEF6	51735	genome.wustl.edu	37	5	130782298	130782298	+	Missense_Mutation	SNP	T	T	G	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_016340.5	-1	validated	p.K1100T	1.000	345	0%	89	10.1%	1	0%	probably_damaging(1)	deleterious(0)	deleterious(0.945)	HMMSmart_SM00147,superfamily_Ras GEF
RAPGEF6	51735	genome.wustl.edu	37	5	130828286	130828286	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_016340.5	-1	validated	p.R574C	1.000	486	0%	181	24.9%	0	-	probably_damaging(1)	deleterious(0)	deleterious(0.945)	HMMPfam_PDZ,HMMSmart_SM00228,superfamily_PDZ domain-like,superfamily_Ras GEF
FNIP1	96459	genome.wustl.edu	37	5	130987596	130987596	+	Missense_Mutation	SNP	T	T	G	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_133372.2	-1	validated	p.T1069P	0.534	219	0%	76	13.2%	2	0%	possibly_damaging(0.644)	tolerated(0.25)	neutral(0.263)	NULL
FNIP1	96459	genome.wustl.edu	37	5	131006311	131006311	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_133372.2	-1	validated	p.E985K	1.000	137	0%	49	14.3%	1	100%	possibly_damaging(0.759)	tolerated(0.2)	neutral(0.330)	NULL
FNIP1	96459	genome.wustl.edu	37	5	131007731	131007731	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_133372.2	-1	validated	p.K802N	1.000	306	0.3%	171	19.9%	0	-	benign(0.032)	tolerated(0.12)	neutral(0.262)	NULL
ACSL6	23305	genome.wustl.edu	37	5	131323840	131323840	+	Silent	SNP	T	T	C	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001009185.1	-1	validated	p.P244	0.347	262	0%	174	13.2%	0	-	-	-	-	HMMPfam_AMP-binding,superfamily_SSF56801
IL3	3562	genome.wustl.edu	37	5	131398444	131398444	+	Missense_Mutation	SNP	C	C	T	rs183170475	by1000genomes	TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_000588.3	+1	reviewed	p.A140V	0.000	162	0%	131	19.1%	0	-	benign(0.317)	tolerated(0.13)	neutral(0.352)	superfamily_4_helix_cytokine
P4HA2	8974	genome.wustl.edu	37	5	131539797	131539797	+	Missense_Mutation	SNP	C	C	T	rs147398523	by1000genomes	TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001142599.1	-1	reviewed	p.A377T	0.998	342	0%	329	21.9%	15	6.6%	possibly_damaging(0.922)	deleterious(0.03)	deleterious(0.736)	HMMSmart_SM00702
P4HA2	8974	genome.wustl.edu	37	5	131544864	131544864	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001142599.1	-1	reviewed	p.Y290	0.906	368	0.3%	490	13.9%	9	11.1%	-	-	-	NULL
P4HA2	8974	genome.wustl.edu	37	5	131549738	131549738	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001142599.1	-1	reviewed	p.A114T	1.000	159	0%	167	24%	10	10%	benign(0.001)	tolerated(0.21)	neutral(0.044)	HMMPfam_P4Ha_N
SLC22A5	6584	genome.wustl.edu	37	5	131719914	131719914	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_003060.3	+1	reviewed	p.K191	0.010	362	0%	212	25%	1	100%	-	-	-	HMMPfam_MFS_1,superfamily_MFS general substrate transporter
SLC22A5	6584	genome.wustl.edu	37	5	131728157	131728157	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_003060.3	+1	reviewed	p.V434M	0.574	312	0%	142	29.6%	1	100%	benign(0.004)	tolerated(0.07)	neutral(0.319)	HMMPfam_MFS_1,superfamily_MFS general substrate transporter
RAD50	10111	genome.wustl.edu	37	5	131911557	131911557	+	Splice_Site	SNP	T	T	C	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	ENST00000378810	+1	known	e0+2	0.999	439	0%	155	24.5%	0	-	-	-	-	-
RAD50	10111	genome.wustl.edu	37	5	131915615	131915615	+	Nonsense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_005732.3	+1	reviewed	p.E205*	1.000	289	0%	98	14.3%	2	0%	-	-	-	HMMPfam_SMC_N,superfamily_P-loop containing nucleoside triphosphate hydrolases
KIF3A	11127	genome.wustl.edu	37	5	132036358	132036358	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_007054.5	-1	validated	p.D613G	1.000	232	0%	85	17.6%	2	50%	probably_damaging(0.994)	deleterious(0)	deleterious(0.897)	NULL
KIF3A	11127	genome.wustl.edu	37	5	132038301	132038301	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_007054.5	-1	validated	p.K542N	1.000	448	0%	127	22.8%	1	100%	probably_damaging(0.999)	deleterious(0)	deleterious(0.935)	NULL
SEPT8	23176	genome.wustl.edu	37	5	132097208	132097208	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001098811.1	-1	validated	p.R302C	1.000	100	0%	102	16.7%	5	40%	benign(0.324)	tolerated(0.22)	neutral(0.144)	HMMPfam_Septin
GDF9	2661	genome.wustl.edu	37	5	132197446	132197446	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_005260.3	-1	reviewed	p.T400	1.000	134	0%	127	26.8%	1	0%	-	-	-	HMMPfam_TGF_beta,HMMSmart_TGFB,superfamily_SSF57501
GDF9	2661	genome.wustl.edu	37	5	132200035	132200035	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_005260.3	-1	reviewed	p.A64V	0.951	213	0%	219	24.2%	0	-	benign(0.011)	tolerated(0.06)	neutral(0.323)	NULL
AFF4	27125	genome.wustl.edu	37	5	132228042	132228042	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_014423.3	-1	validated	p.G817	1.000	220	0%	68	26.5%	2	0%	-	-	-	HMMPfam_AF-4
HSPA4	3308	genome.wustl.edu	37	5	132412347	132412347	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_002154.3	+1	validated	p.V222A	1.000	246	0%	67	28.4%	9	0%	possibly_damaging(0.862)	deleterious(0.01)	deleterious(0.739)	HMMPfam_HSP70,superfamily_SSF53067
HSPA4	3308	genome.wustl.edu	37	5	132440002	132440002	+	Silent	SNP	T	T	C	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_002154.3	+1	validated	p.N799	0.034	174	0%	187	28.3%	461	34.4%	-	-	-	NULL
FSTL4	23105	genome.wustl.edu	37	5	132535095	132535095	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_015082.1	-1	validated	p.R741C	0.999	163	0%	103	27.2%	0	-	possibly_damaging(0.946)	deleterious(0)	deleterious(0.835)	superfamily_YVTN repeat-like/Quinoprotein amine dehydrogenase
FSTL4	23105	genome.wustl.edu	37	5	132560876	132560876	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	ENST00000360575	-1	known	p.P33L	1.000	210	0%	107	26.2%	0	-	-	-	-	NULL
LOC100288556	100288556	genome.wustl.edu	37	5	133417728	133417728	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	XM_002342553.1	-1	model	p.L2I	0.006	45	0%	20	35%	0	-	-	-	-	NULL
TCF7	6932	genome.wustl.edu	37	5	133480540	133480540	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001134851.2	+1	validated	p.T261	1.000	201	0%	114	24.6%	0	-	-	-	-	NULL
PPP2CA	5515	genome.wustl.edu	37	5	133537648	133537648	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_002715.2	-1	reviewed	p.V126A	1.000	440	0%	159	15.7%	50	0%	probably_damaging(0.985)	deleterious(0)	deleterious(0.877)	HMMPfam_Metallophos,HMMSmart_SM00156,superfamily_Metallo-dependent phosphatases
CDKL3	51265	genome.wustl.edu	37	5	133638344	133638344	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001113575.1	-1	reviewed	p.K552N	1.000	586	0%	144	25%	0	-	probably_damaging(0.994)	deleterious(0.01)	deleterious(0.858)	NULL
UBE2B	7320	genome.wustl.edu	37	5	133724057	133724057	+	Nonsense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_003337.2	+1	reviewed	p.R95*	1.000	654	0.2%	257	20.2%	115	7.8%	-	-	-	HMMPfam_UQ_con,HMMSmart_SM00212,superfamily_UBC-like
UBE2B	7320	genome.wustl.edu	37	5	133726010	133726010	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_003337.2	+1	reviewed	p.S142L	1.000	289	0%	92	29.3%	139	12.9%	benign(0.011)	tolerated(0.18)	neutral(0.057)	HMMPfam_UQ_con,HMMSmart_SM00212,superfamily_UBC-like
SAR1B	51128	genome.wustl.edu	37	5	133945293	133945293	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001033503.2	-1	reviewed	p.E106K	1.000	387	0%	105	14.3%	18	5.5%	benign(0)	tolerated(0.06)	neutral(0.323)	HMMSmart_SAR,HMMPfam_Arf,superfamily_SSF52540
SEC24A	10802	genome.wustl.edu	37	5	133997008	133997008	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_021982.1	+1	validated	p.S99	0.001	308	0%	216	11.1%	2	0%	-	-	-	NULL
TXNDC15	79770	genome.wustl.edu	37	5	134229209	134229209	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_024715.3	+1	validated	p.G207S	0.946	264	0%	253	22.5%	22	9%	benign(0.079)	tolerated(0.3)	neutral(0.034)	superfamily_Thioredoxin-like,HMMPfam_Thioredoxin
CATSPER3	347732	genome.wustl.edu	37	5	134345143	134345143	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_178019.2	+1	validated	p.R300Q	0.235	116	0%	110	28.2%	2	50%	probably_damaging(0.985)	deleterious(0.04)	deleterious(0.781)	NULL
TIFAB	497189	genome.wustl.edu	37	5	134785249	134785249	+	Nonsense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001099221.1	-1	validated	p.C127*	0.952	65	0%	24	29.2%	0	-	-	-	-	NULL
NEUROG1	4762	genome.wustl.edu	37	5	134870690	134870690	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_006161.2	-1	validated	p.P231S	0.916	222	0%	355	25.4%	0	-	probably_damaging(0.991)	tolerated(0.36)	neutral(0.464)	NULL
FBXL21	26223	genome.wustl.edu	37	5	135272472	135272472	+	Silent	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_012159.4	+1	validated	p.A63	0.999	440	0%	339	20.9%	0	-	-	-	-	HMMPfam_F-box,HMMSmart_SM00256,superfamily_F-box domain
SMAD5	4090	genome.wustl.edu	37	5	135489514	135489514	+	Missense_Mutation	SNP	A	A	C	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	ENST00000398807	+1	known	p.K22T	1.000	340	0%	128	17.2%	3	0%	probably_damaging(1)	deleterious(0)	deleterious(0.945)	superfamily_SMAD MH1 domain
TRPC7	57113	genome.wustl.edu	37	5	135549185	135549185	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	ENST00000513104	-1	known	p.E843K	1.000	223	0%	106	24.5%	0	-	benign(0)	deleterious(0.02)	neutral(0.383)	NULL
SPOCK1	6695	genome.wustl.edu	37	5	136328268	136328268	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_004598.3	-1	reviewed	p.R204Q	1.000	215	0%	53	15.1%	10	0%	probably_damaging(0.999)	tolerated(0.5)	deleterious(0.500)	HMMPfam_SPARC_Ca_bdg,superfamily_SSF47473
SPOCK1	6695	genome.wustl.edu	37	5	136476303	136476303	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_004598.3	-1	reviewed	p.A105T	1.000	147	0%	56	25%	5	20%	possibly_damaging(0.952)	deleterious(0.01)	deleterious(0.801)	NULL
MYOT	9499	genome.wustl.edu	37	5	137213209	137213209	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_006790.2	+1	reviewed	p.R178C	1.000	177	0%	77	27.3%	0	-	probably_damaging(1)	deleterious(0)	deleterious(0.945)	NULL
PKD2L2	27039	genome.wustl.edu	37	5	137242040	137242040	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_014386.2	+1	validated	p.T298A	0.187	491	0%	154	21.4%	0	-	benign(0.032)	tolerated(0.15)	neutral(0.242)	HMMPfam_PKD_channel
PKD2L2	27039	genome.wustl.edu	37	5	137261574	137261574	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_014386.2	+1	validated	p.G543R	0.000	473	0%	113	26.5%	0	-	benign(0)	tolerated(0.4)	neutral(0.016)	NULL
FAM13B	51306	genome.wustl.edu	37	5	137292177	137292177	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001101801.1	-1	validated	p.R381K	1.000	343	0.6%	128	20.3%	0	-	benign(0)	tolerated(1)	-	NULL
FAM13B	51306	genome.wustl.edu	37	5	137295432	137295432	+	Silent	SNP	A	A	G	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_016603.2	-1	validated	p.C438	1.000	291	0%	93	20.4%	1	0%	-	-	-	NULL
BRD8	10902	genome.wustl.edu	37	5	137497813	137497813	+	Nonsense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_139199.1	-1	reviewed	p.E704*	1.000	383	0%	125	20%	19	10.5%	-	-	-	superfamily_Bromodomain
GFRA3	2676	genome.wustl.edu	37	5	137589803	137589803	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001496.3	-1	reviewed	p.L278I	0.101	372	0%	483	25.3%	0	-	possibly_damaging(0.872)	tolerated(0.2)	neutral(0.388)	HMMPfam_GDNF,superfamily_GDNF receptor-like (Pfam 02351)
KDM3B	51780	genome.wustl.edu	37	5	137710857	137710857	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_016604.3	+1	validated	p.R146W	0.999	508	0%	216	26.9%	3	0%	probably_damaging(0.999)	deleterious(0.02)	deleterious(0.873)	NULL
KDM3B	51780	genome.wustl.edu	37	5	137726720	137726720	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_016604.3	+1	validated	p.L467M	0.969	58	0%	21	33.3%	0	-	benign(0.286)	deleterious(0.01)	deleterious(0.494)	NULL
KDM3B	51780	genome.wustl.edu	37	5	137726818	137726818	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_016604.3	+1	validated	p.E499	0.998	180	0%	62	21%	3	0%	-	-	-	NULL
KDM3B	51780	genome.wustl.edu	37	5	137727623	137727623	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_016604.3	+1	validated	p.V768I	0.935	60	1.7%	27	22.2%	1	0%	benign(0.079)	tolerated(0.06)	neutral(0.328)	NULL
KDM3B	51780	genome.wustl.edu	37	5	137756560	137756560	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_016604.3	+1	validated	p.R1294Q	1.000	150	0%	79	11.4%	7	0%	probably_damaging(1)	deleterious(0.01)	deleterious(0.905)	NULL
KDM3B	51780	genome.wustl.edu	37	5	137762735	137762735	+	Nonsense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_016604.3	+1	validated	p.R1495*	1.000	162	0%	61	19.7%	9	0%	-	-	-	superfamily_Clavaminate synthase-like
EGR1	1958	genome.wustl.edu	37	5	137803141	137803141	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001964.2	+1	reviewed	p.E335K	1.000	98	0%	276	12.7%	55	1.8%	unknown(0)	deleterious(0)	-	superfamily_C2H2 and C2HC zinc fingers
EGR1	1958	genome.wustl.edu	37	5	137803217	137803217	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001964.2	+1	reviewed	p.R360H	1.000	105	0%	232	25%	40	15%	unknown(0)	deleterious(0)	-	HMMPfam_zf-C2H2,PatternScan_ZINC_FINGER_C2H2_1,HMMSmart_SM00355,superfamily_C2H2 and C2HC zinc fingers
EGR1	1958	genome.wustl.edu	37	5	137803616	137803616	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001964.2	+1	reviewed	p.P493L	0.996	106	0%	149	22.1%	74	14.8%	probably_damaging(1)	deleterious(0)	deleterious(0.945)	NULL
LRRTM2	26045	genome.wustl.edu	37	5	138209696	138209696	+	Missense_Mutation	SNP	A	A	C	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_015564.2	-1	validated	p.F185C	1.000	176	0%	88	27.3%	0	-	probably_damaging(0.999)	deleterious(0)	deleterious(0.935)	HMMPfam_LRR_1,HMMSmart_SM00369,superfamily_L domain-like
LRRTM2	26045	genome.wustl.edu	37	5	138209727	138209727	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_015564.2	-1	validated	p.R175C	1.000	210	0%	97	27.8%	0	-	unknown(0)	-	-	HMMPfam_LRR_1,HMMSmart_SM00369,superfamily_L domain-like
CTNNA1	1495	genome.wustl.edu	37	5	138223262	138223262	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001903.2	+1	validated	p.K409N	1.000	379	0%	126	28.6%	52	13.4%	benign(0.174)	deleterious(0.01)	neutral(0.422)	HMMPfam_Vinculin,superfamily_alpha-catenin/vinculin
CTNNA1	1495	genome.wustl.edu	37	5	138268318	138268318	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001903.2	+1	validated	p.A784T	1.000	66	0%	46	23.9%	168	17.2%	benign(0.017)	tolerated(0.7)	neutral(0.003)	HMMPfam_Vinculin,superfamily_alpha-catenin/vinculin
CTNNA1	1495	genome.wustl.edu	37	5	138268361	138268361	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001903.2	+1	validated	p.A798V	1.000	86	0%	71	29.6%	158	20.8%	probably_damaging(1)	deleterious(0)	deleterious(0.945)	HMMPfam_Vinculin,superfamily_alpha-catenin/vinculin
SLC23A1	9963	genome.wustl.edu	37	5	138714984	138714984	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_152685.3	-1	reviewed	p.L333M	0.387	97	0%	135	27.4%	0	-	benign(0.229)	tolerated(0.1)	neutral(0.309)	HMMPfam_Xan_ur_permease
SLC23A1	9963	genome.wustl.edu	37	5	138717666	138717666	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_152685.3	-1	reviewed	p.D75N	1.000	54	0%	84	13.1%	0	-	probably_damaging(0.991)	deleterious(0.02)	deleterious(0.827)	HMMPfam_Xan_ur_permease
DNAJC18	202052	genome.wustl.edu	37	5	138749751	138749751	+	Splice_Site	SNP	A	A	C	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	ENST00000515559	-1	known	NULL	0.729	204	0%	114	21.9%	0	-	-	-	-	-
PSD2	84249	genome.wustl.edu	37	5	139193211	139193211	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_032289.2	+1	provisional	p.R230H	1.000	24	0%	21	33.3%	0	-	probably_damaging(0.997)	deleterious(0.03)	deleterious(0.831)	NULL
NRG2	9542	genome.wustl.edu	37	5	139232130	139232130	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	ENST00000378238	-1	known	p.R331C	0.950	339	0.3%	525	12%	0	-	-	-	-	HMMPfam_Neuregulin
SLC4A9	83697	genome.wustl.edu	37	5	139745813	139745813	+	Silent	SNP	A	A	G	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_031467.2	+1	validated	p.L659	0.846	116	0%	105	20%	0	-	-	-	-	HMMPfam_HCO3_cotransp
ANKHD1-EIF4EBP3	404734	genome.wustl.edu	37	5	139908937	139908937	+	Nonsense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_020690.4	+1	reviewed	p.R2136*	1.000	269	0%	131	28.2%	9	11.1%	-	-	-	NULL
APBB3	10307	genome.wustl.edu	37	5	139941577	139941577	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	ENST00000419006	-1	known	p.L214F	1.000	77	0%	173	32.9%	2	0%	unknown(0)	-	-	NULL
IK	3550	genome.wustl.edu	37	5	140035429	140035429	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_006083.3	+1	reviewed	p.R218Q	1.000	188	0%	129	22.5%	52	15.3%	benign(0.13)	tolerated(0.2)	neutral(0.060)	HMMPfam_RED_N
PCDHA1	56147	genome.wustl.edu	37	5	140167564	140167564	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_018900.2	+1	reviewed	p.P563	0.000	47	0%	136	25%	0	-	-	-	-	HMMSmart_SM00112,PatternScan_CADHERIN_1,superfamily_Cadherin-like
PCDHA1	56147	genome.wustl.edu	37	5	140167673	140167673	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_018900.2	+1	reviewed	p.D600N	0.996	61	0%	144	29.9%	0	-	probably_damaging(1)	deleterious(0)	deleterious(0.945)	HMMPfam_Cadherin,HMMSmart_SM00112,superfamily_Cadherin-like
PCDHA2	56146	genome.wustl.edu	37	5	140175117	140175117	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_018905.2	+1	reviewed	p.E190K	0.001	310	0%	478	13%	0	-	benign(0)	tolerated(1)	-	HMMPfam_Cadherin,HMMSmart_SM00112,superfamily_Cadherin-like
PCDHA2	56146	genome.wustl.edu	37	5	140175915	140175915	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_018905.2	+1	reviewed	p.A456T	0.020	43	0%	102	16.7%	0	-	benign(0.007)	tolerated(0.32)	neutral(0.024)	superfamily_Cadherin-like
PCDHA3	56145	genome.wustl.edu	37	5	140181681	140181681	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_018906.2	+1	reviewed	p.G300E	1.000	191	0%	360	25.8%	0	-	probably_damaging(1)	deleterious(0)	deleterious(0.945)	HMMPfam_Cadherin,HMMSmart_SM00112,superfamily_Cadherin-like
PCDHA3	56145	genome.wustl.edu	37	5	140182240	140182240	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_018906.2	+1	reviewed	p.E486	0.970	66	0%	128	21.9%	0	-	-	-	-	HMMPfam_Cadherin,HMMSmart_SM00112,superfamily_Cadherin-like
PCDHA3	56145	genome.wustl.edu	37	5	140182358	140182358	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_018906.2	+1	reviewed	p.E526K	1.000	46	0%	75	17.3%	0	-	probably_damaging(1)	deleterious(0)	deleterious(0.945)	HMMPfam_Cadherin,HMMSmart_SM00112,superfamily_Cadherin-like
PCDHA4	56144	genome.wustl.edu	37	5	140187806	140187806	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_018907.2	+1	reviewed	p.D345G	1.000	76	0%	154	22.7%	0	-	probably_damaging(1)	deleterious(0)	deleterious(0.945)	HMMSmart_SM00112,PatternScan_CADHERIN_1,superfamily_Cadherin-like
PCDHA4	56144	genome.wustl.edu	37	5	140188051	140188051	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_018907.2	+1	reviewed	p.A427T	0.971	72	0%	149	30.2%	0	-	possibly_damaging(0.793)	deleterious(0.01)	deleterious(0.704)	HMMPfam_Cadherin,HMMSmart_SM00112,superfamily_Cadherin-like
PCDHA4	56144	genome.wustl.edu	37	5	140188628	140188628	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_018907.2	+1	reviewed	p.R619H	0.134	43	0%	84	29.8%	0	-	benign(0.249)	tolerated(0.09)	neutral(0.322)	HMMPfam_Cadherin,HMMSmart_SM00112,superfamily_Cadherin-like
PCDHA4	56144	genome.wustl.edu	37	5	140188696	140188696	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_018907.2	+1	reviewed	p.A642T	0.464	33	0%	75	18.7%	0	-	benign(0.135)	tolerated(0.05)	neutral(0.357)	HMMPfam_Cadherin,HMMSmart_SM00112,superfamily_Cadherin-like
PCDHA5	56143	genome.wustl.edu	37	5	140202640	140202640	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_018908.2	+1	reviewed	p.R427Q	0.000	58	0%	111	12.6%	0	-	benign(0.421)	tolerated(0.22)	neutral(0.179)	HMMPfam_Cadherin,HMMSmart_SM00112,superfamily_Cadherin-like
PCDHA6	56142	genome.wustl.edu	37	5	140208211	140208211	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_018909.2	+1	reviewed	p.G179R	0.000	149	0%	278	29.5%	1	0%	benign(0.015)	tolerated(0.35)	neutral(0.021)	HMMPfam_Cadherin,HMMSmart_SM00112,superfamily_Cadherin-like
PCDHA6	56142	genome.wustl.edu	37	5	140208403	140208403	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_018909.2	+1	reviewed	p.E243K	0.002	120	0%	219	26.5%	0	-	benign(0.103)	deleterious(0.03)	neutral(0.372)	superfamily_Cadherin-like
PCDHA6	56142	genome.wustl.edu	37	5	140208566	140208566	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_018909.2	+1	reviewed	p.R297Q	0.000	167	0%	289	21.1%	0	-	benign(0.011)	tolerated(0.09)	neutral(0.297)	HMMPfam_Cadherin,HMMSmart_SM00112,superfamily_Cadherin-like
PCDHA6	56142	genome.wustl.edu	37	5	140208808	140208808	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_018909.2	+1	reviewed	p.D378N	0.999	156	0%	261	21.1%	0	-	probably_damaging(1)	deleterious(0)	deleterious(0.945)	HMMPfam_Cadherin,HMMSmart_SM00112,superfamily_Cadherin-like
PCDHA6	56142	genome.wustl.edu	37	5	140209015	140209015	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_018909.2	+1	reviewed	p.D447N	1.000	57	0%	90	17.8%	2	0%	probably_damaging(1)	deleterious(0)	deleterious(0.945)	HMMSmart_SM00112,PatternScan_CADHERIN_1,superfamily_Cadherin-like
PCDHA6	56142	genome.wustl.edu	37	5	140209360	140209360	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_018909.2	+1	reviewed	p.A562T	1.000	52	0%	92	27.2%	0	-	possibly_damaging(0.732)	deleterious(0)	deleterious(0.712)	HMMSmart_SM00112,PatternScan_CADHERIN_1,superfamily_Cadherin-like
PCDHA6	56142	genome.wustl.edu	37	5	140209737	140209737	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_018909.2	+1	reviewed	p.A687	0.000	27	0%	54	18.5%	0	-	-	-	-	NULL
PCDHA6	56142	genome.wustl.edu	37	5	140209783	140209783	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_018909.2	+1	reviewed	p.A703T	0.731	33	0%	72	23.6%	0	-	probably_damaging(1)	tolerated(0.14)	deleterious(0.750)	NULL
PCDHA7	56141	genome.wustl.edu	37	5	140215088	140215088	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_018910.2	+1	reviewed	p.V374M	0.507	169	0%	295	11.5%	0	-	probably_damaging(0.993)	deleterious(0)	deleterious(0.895)	HMMPfam_Cadherin,HMMSmart_SM00112,superfamily_Cadherin-like
PCDHA7	56141	genome.wustl.edu	37	5	140215358	140215358	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_018910.2	+1	reviewed	p.V464M	0.935	64	0%	77	26%	1	0%	probably_damaging(1)	deleterious(0)	deleterious(0.945)	HMMPfam_Cadherin,superfamily_Cadherin-like
PCDHA7	56141	genome.wustl.edu	37	5	140215555	140215555	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_018910.2	+1	reviewed	p.E529D	1.000	38	0%	81	27.2%	0	-	probably_damaging(0.988)	deleterious(0)	deleterious(0.882)	HMMPfam_Cadherin,HMMSmart_SM00112,superfamily_Cadherin-like
PCDHA7	56141	genome.wustl.edu	37	5	140215822	140215822	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_018910.2	+1	reviewed	p.A618	0.000	61	0%	162	13%	1	0%	-	-	-	HMMPfam_Cadherin,HMMSmart_SM00112,superfamily_Cadherin-like
PCDHA7	56141	genome.wustl.edu	37	5	140216075	140216075	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_018910.2	+1	reviewed	p.A703T	1.000	76	0%	137	24.1%	1	0%	probably_damaging(0.991)	tolerated(0.11)	deleterious(0.716)	NULL
PCDHA7	56141	genome.wustl.edu	37	5	140216266	140216266	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_018910.2	+1	reviewed	p.K766N	0.871	112	0%	182	20.9%	0	-	probably_damaging(0.998)	deleterious(0)	deleterious(0.919)	NULL
PCDHA8	56140	genome.wustl.edu	37	5	140221645	140221645	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_018911.2	+1	reviewed	p.Y247H	0.819	108	0%	193	26.9%	0	-	possibly_damaging(0.611)	deleterious(0)	deleterious(0.656)	HMMPfam_Cadherin,superfamily_Cadherin-like
PCDHA8	56140	genome.wustl.edu	37	5	140221875	140221875	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_018911.2	+1	reviewed	p.T323	0.000	182	0%	350	9.4%	0	-	-	-	-	HMMPfam_Cadherin,HMMSmart_SM00112,superfamily_Cadherin-like
PCDHA8	56140	genome.wustl.edu	37	5	140222014	140222014	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_018911.2	+1	reviewed	p.A370T	0.953	169	0.6%	293	24.2%	0	-	benign(0.077)	deleterious(0.03)	neutral(0.370)	HMMPfam_Cadherin,superfamily_Cadherin-like
PCDHA8	56140	genome.wustl.edu	37	5	140222245	140222245	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_018911.2	+1	reviewed	p.D447N	1.000	54	0%	84	34.5%	0	-	probably_damaging(1)	deleterious(0)	deleterious(0.945)	HMMSmart_SM00112,PatternScan_CADHERIN_1,superfamily_Cadherin-like
PCDHA8	56140	genome.wustl.edu	37	5	140222358	140222358	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_018911.2	+1	reviewed	p.A484	0.016	48	0%	121	9.9%	0	-	-	-	-	HMMPfam_Cadherin,HMMSmart_SM00112,superfamily_Cadherin-like
PCDHA9	9752	genome.wustl.edu	37	5	140230009	140230009	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_031857.1	+1	reviewed	p.P643	0.004	22	0%	82	17.1%	0	-	-	-	-	HMMPfam_Cadherin,HMMSmart_SM00112,superfamily_Cadherin-like
PCDHA9	9752	genome.wustl.edu	37	5	140230196	140230196	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_031857.1	+1	reviewed	p.A706T	0.977	65	0%	111	11.7%	0	-	possibly_damaging(0.857)	tolerated(0.21)	neutral(0.375)	NULL
PCDHA10	56139	genome.wustl.edu	37	5	140237534	140237534	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_018901.2	+1	reviewed	p.R634H	0.969	51	0%	113	23%	1	0%	probably_damaging(1)	deleterious(0.01)	deleterious(0.905)	HMMPfam_Cadherin,HMMSmart_SM00112,superfamily_Cadherin-like
PCDHA11	56138	genome.wustl.edu	37	5	140249445	140249445	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_018902.3	+1	reviewed	p.E253K	1.000	96	0%	151	25.8%	0	-	probably_damaging(0.998)	deleterious(0)	deleterious(0.919)	HMMPfam_Cadherin,superfamily_Cadherin-like
PCDHA11	56138	genome.wustl.edu	37	5	140250011	140250011	+	Silent	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_018902.3	+1	reviewed	p.S441	0.000	118	0%	211	27.5%	0	-	-	-	-	HMMPfam_Cadherin,HMMSmart_SM00112,superfamily_Cadherin-like
PCDHA11	56138	genome.wustl.edu	37	5	140250741	140250741	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_018902.3	+1	reviewed	p.A685T	0.000	11	0%	33	24.2%	0	-	benign(0.001)	tolerated(0.18)	neutral(0.056)	NULL
PCDHA12	56137	genome.wustl.edu	37	5	140255328	140255328	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_018903.2	+1	reviewed	p.D91N	1.000	101	0%	181	27.1%	0	-	probably_damaging(1)	deleterious(0.01)	deleterious(0.905)	HMMSmart_SM00112,HMMPfam_Cadherin_2,superfamily_Cadherin-like
PCDHA12	56137	genome.wustl.edu	37	5	140255332	140255332	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_018903.2	+1	reviewed	p.R92H	0.995	101	0%	175	29.1%	0	-	probably_damaging(1)	deleterious(0)	deleterious(0.945)	HMMSmart_SM00112,HMMPfam_Cadherin_2,superfamily_Cadherin-like
PCDHA12	56137	genome.wustl.edu	37	5	140255703	140255703	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_018903.2	+1	reviewed	p.D216N	0.992	254	0.4%	447	25.7%	0	-	probably_damaging(1)	deleterious(0)	deleterious(0.945)	HMMPfam_Cadherin,HMMSmart_SM00112,superfamily_Cadherin-like
PCDHA12	56137	genome.wustl.edu	37	5	140256572	140256572	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_018903.2	+1	reviewed	p.S505	1.000	27	3.7%	59	30.5%	0	-	-	-	-	HMMPfam_Cadherin,HMMSmart_SM00112,superfamily_Cadherin-like
PCDHA13	56136	genome.wustl.edu	37	5	140263212	140263212	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_018904.2	+1	reviewed	p.P453	0.000	37	2.7%	118	30.5%	0	-	-	-	-	HMMSmart_SM00112,PatternScan_CADHERIN_1,superfamily_Cadherin-like
PCDHAC1	56135	genome.wustl.edu	37	5	140307018	140307018	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_018898.3	+1	reviewed	p.E181K	0.000	48	0%	86	22.1%	0	-	benign(0)	tolerated(1)	-	HMMPfam_Cadherin,HMMSmart_SM00112,superfamily_Cadherin-like
PCDHAC1	56135	genome.wustl.edu	37	5	140307948	140307948	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_018898.3	+1	reviewed	p.G491W	0.027	79	0%	116	27.6%	0	-	probably_damaging(0.997)	deleterious(0)	deleterious(0.911)	HMMPfam_Cadherin,HMMSmart_SM00112,superfamily_Cadherin-like
PCDHAC1	56135	genome.wustl.edu	37	5	140308729	140308729	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_018898.3	+1	reviewed	p.S751F	0.999	312	0%	390	25.1%	0	-	possibly_damaging(0.862)	deleterious(0.01)	deleterious(0.739)	NULL
PCDHB1	29930	genome.wustl.edu	37	5	140431977	140431977	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_013340.2	+1	reviewed	p.D308N	1.000	222	0%	82	25.6%	0	-	probably_damaging(0.97)	deleterious(0.03)	deleterious(0.777)	HMMPfam_Cadherin,HMMSmart_CA,superfamily_Cadherin
PCDHB1	29930	genome.wustl.edu	37	5	140432327	140432327	+	Silent	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_013340.2	+1	reviewed	p.A424	0.009	122	0%	55	21.8%	0	-	-	-	-	HMMPfam_Cadherin,HMMSmart_CA,superfamily_Cadherin
PCDHB1	29930	genome.wustl.edu	37	5	140432387	140432387	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_013340.2	+1	reviewed	p.D444	0.706	134	0%	56	32.1%	0	-	-	-	-	HMMSmart_CA,PatternScan_CADHERIN_1,superfamily_Cadherin
PCDHB2	56133	genome.wustl.edu	37	5	140475066	140475066	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_018936.2	+1	reviewed	p.R231Q	0.000	57	0%	102	11.8%	3	0%	benign(0.048)	tolerated(0.33)	neutral(0.027)	HMMPfam_Cadherin,HMMSmart_CA,superfamily_Cadherin
PCDHB2	56133	genome.wustl.edu	37	5	140475983	140475983	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_018936.2	+1	reviewed	p.D537Y	0.995	68	0%	123	30.1%	1	0%	probably_damaging(1)	deleterious(0)	deleterious(0.945)	HMMPfam_Cadherin,HMMSmart_CA,superfamily_Cadherin
PCDHB2	56133	genome.wustl.edu	37	5	140476046	140476046	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_018936.2	+1	reviewed	p.D558N	1.000	36	0%	59	22%	1	0%	probably_damaging(1)	deleterious(0)	deleterious(0.945)	HMMSmart_CA,PatternScan_CADHERIN_1,superfamily_Cadherin
PCDHB3	56132	genome.wustl.edu	37	5	140480241	140480241	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_018937.2	+1	reviewed	p.A3V	0.006	391	0%	558	23.5%	1	0%	benign(0.001)	tolerated(0.11)	neutral(0.272)	NULL
PCDHB3	56132	genome.wustl.edu	37	5	140481868	140481868	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_018937.2	+1	reviewed	p.A545	0.207	59	0%	80	15%	5	0%	-	-	-	HMMPfam_Cadherin,HMMSmart_SM00112,superfamily_Cadherin-like
PCDHB4	56131	genome.wustl.edu	37	5	140502021	140502021	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_018938.2	+1	reviewed	p.P147	0.985	159	0%	286	26.2%	1	0%	-	-	-	HMMPfam_Cadherin,superfamily_Cadherin
PCDHB4	56131	genome.wustl.edu	37	5	140502714	140502714	+	Silent	SNP	A	A	C	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_018938.2	+1	reviewed	p.G378	0.070	144	0%	254	17.7%	2	0%	-	-	-	HMMPfam_Cadherin,HMMSmart_CA,superfamily_Cadherin
PCDHB4	56131	genome.wustl.edu	37	5	140502820	140502820	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_018938.2	+1	reviewed	p.A414T	0.003	179	0%	299	29.1%	5	0%	benign(0.185)	tolerated(0.1)	neutral(0.303)	HMMPfam_Cadherin,HMMSmart_CA,superfamily_Cadherin
PCDHB5	26167	genome.wustl.edu	37	5	140516658	140516658	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_015669.2	+1	reviewed	p.V548M	0.918	29	0%	61	21.3%	0	-	possibly_damaging(0.509)	deleterious(0.02)	deleterious(0.553)	HMMPfam_Cadherin,HMMSmart_CA,PatternScan_CADHERIN_1,superfamily_Cadherin
PCDHB5	26167	genome.wustl.edu	37	5	140516886	140516886	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_015669.2	+1	reviewed	p.R624C	0.999	11	0%	26	26.9%	0	-	probably_damaging(1)	deleterious(0)	deleterious(0.945)	HMMPfam_Cadherin,HMMSmart_CA,superfamily_Cadherin
PCDHB6	56130	genome.wustl.edu	37	5	140529917	140529917	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_018939.2	+1	reviewed	p.S27P	0.002	616	0%	841	23.8%	0	-	benign(0.004)	tolerated(0.08)	neutral(0.300)	NULL
PCDHB6	56130	genome.wustl.edu	37	5	140530050	140530050	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_018939.2	+1	reviewed	p.R71I	0.007	240	0%	392	24%	0	-	benign(0.002)	deleterious(0.05)	neutral(0.345)	HMMSmart_CA,HMMPfam_Cadherin_2,superfamily_Cadherin
PCDHB6	56130	genome.wustl.edu	37	5	140531158	140531158	+	Silent	SNP	C	C	T	rs146356849	by1000genomes	TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_018939.2	+1	reviewed	p.S440	0.365	177	0%	340	14.7%	1	0%	-	-	-	HMMPfam_Cadherin,HMMSmart_CA,PatternScan_CADHERIN_1,superfamily_Cadherin
PCDHB6	56130	genome.wustl.edu	37	5	140531524	140531524	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_018939.2	+1	reviewed	p.P562	0.002	30	0%	53	34%	0	-	benign(0.232)	deleterious(0.01)	neutral(0.429)	superfamily_Cadherin
PCDHB7	56129	genome.wustl.edu	37	5	140554007	140554007	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_018940.2	+1	reviewed	p.V531M	1.000	64	0%	112	11.6%	0	-	probably_damaging(1)	deleterious(0)	deleterious(0.945)	HMMPfam_Cadherin,HMMSmart_SM00112,superfamily_Cadherin-like
PCDHB8	56128	genome.wustl.edu	37	5	140558278	140558278	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_019120.2	+1	reviewed	p.P221	0.001	177	0%	272	26.1%	0	-	-	-	-	HMMPfam_Cadherin,HMMSmart_CA,superfamily_Cadherin
PCDHB8	56128	genome.wustl.edu	37	5	140559200	140559200	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_019120.2	+1	reviewed	p.E529K	0.949	104	1%	154	19.5%	0	-	benign(0.003)	tolerated(0.19)	neutral(0.050)	HMMPfam_Cadherin,HMMSmart_CA,superfamily_Cadherin
PCDHB8	56128	genome.wustl.edu	37	5	140559511	140559511	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_019120.2	+1	reviewed	p.S632	0.947	19	0%	23	21.7%	0	-	-	-	-	HMMPfam_Cadherin,HMMSmart_CA,superfamily_Cadherin
PCDHB16	57717	genome.wustl.edu	37	5	140562159	140562159	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_020957.1	+1	reviewed	p.R9W	0.001	266	0.4%	426	12.2%	0	-	probably_damaging(0.992)	tolerated(0.1)	deleterious(0.734)	NULL
PCDHB10	56126	genome.wustl.edu	37	5	140573332	140573332	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_018930.3	+1	reviewed	p.L403I	0.092	246	0%	388	27.3%	8	0%	possibly_damaging(0.584)	deleterious(0.02)	deleterious(0.584)	HMMPfam_Cadherin,HMMSmart_CA,superfamily_Cadherin
PCDHB11	56125	genome.wustl.edu	37	5	140579779	140579779	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_018931.2	+1	reviewed	p.E144	0.004	269	0%	448	20.1%	0	-	-	-	-	HMMPfam_Cadherin,superfamily_Cadherin
PCDHB11	56125	genome.wustl.edu	37	5	140580314	140580314	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_018931.2	+1	reviewed	p.D323Y	0.997	244	0%	465	14.4%	0	-	probably_damaging(1)	deleterious(0)	deleterious(0.945)	HMMPfam_Cadherin,HMMSmart_CA,superfamily_Cadherin
PCDHB11	56125	genome.wustl.edu	37	5	140580814	140580814	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_018931.2	+1	reviewed	p.S489	0.879	73	0%	124	25%	1	0%	-	-	-	HMMPfam_Cadherin,HMMSmart_CA,superfamily_Cadherin
PCDHB11	56125	genome.wustl.edu	37	5	140581092	140581092	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_018931.2	+1	reviewed	p.P582L	0.054	19	0%	39	20.5%	2	0%	possibly_damaging(0.787)	deleterious(0.03)	deleterious(0.659)	HMMPfam_Cadherin,superfamily_Cadherin
PCDHB12	56124	genome.wustl.edu	37	5	140589502	140589502	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_018932.3	+1	reviewed	p.N341	0.990	253	0%	452	24.8%	3	0%	-	-	-	HMMSmart_CA,PatternScan_CADHERIN_1,superfamily_Cadherin
PCDHB12	56124	genome.wustl.edu	37	5	140590557	140590557	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_018932.3	+1	reviewed	p.A693E	0.778	60	0%	75	10.7%	2	0%	probably_damaging(0.978)	deleterious(0)	deleterious(0.865)	NULL
PCDHB13	56123	genome.wustl.edu	37	5	140593941	140593941	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_018933.2	+1	reviewed	p.T82	0.000	265	0%	438	15.1%	3	0%	-	-	-	HMMSmart_CA,HMMPfam_Cadherin_2,superfamily_Cadherin
PCDHB13	56123	genome.wustl.edu	37	5	140595282	140595282	+	Silent	SNP	C	C	T	rs149085736		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_018933.2	+1	reviewed	p.F529	0.001	95	0%	120	19.2%	2	0%	-	-	-	HMMPfam_Cadherin,HMMSmart_CA,superfamily_Cadherin
PCDHB13	56123	genome.wustl.edu	37	5	140595877	140595877	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_018933.2	+1	reviewed	p.P728S	0.317	109	0%	151	31.8%	8	0%	benign(0.041)	deleterious(0.01)	neutral(0.408)	NULL
PCDHB14	56122	genome.wustl.edu	37	5	140603644	140603644	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_018934.2	+1	reviewed	p.K189N	0.991	197	0%	337	23.1%	6	16.6%	benign(0)	tolerated(0.48)	neutral(0.011)	HMMPfam_Cadherin,HMMSmart_CA,superfamily_Cadherin
PCDHB14	56122	genome.wustl.edu	37	5	140604666	140604666	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_018934.2	+1	reviewed	p.R530H	0.000	65	0%	98	25.5%	4	25%	benign(0.002)	tolerated(0.63)	neutral(0.004)	HMMPfam_Cadherin,HMMSmart_CA,superfamily_Cadherin
ENSG00000251462	0	genome.wustl.edu	37	5	140621113	140621113	+	RNA	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	ENST00000503443	-1	known	NULL	1.000	44	0%	88	34.1%	0	-	-	-	-	-
ENSG00000251462	0	genome.wustl.edu	37	5	140621698	140621698	+	RNA	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	ENST00000503443	-1	known	NULL	0.034	26	0%	46	28.3%	0	-	-	-	-	-
PCDHB15	56121	genome.wustl.edu	37	5	140625746	140625746	+	Silent	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_018935.2	+1	reviewed	p.L200	0.996	92	0%	159	17.6%	5	20%	-	-	-	HMMPfam_Cadherin,HMMSmart_CA,superfamily_Cadherin
PCDHB15	56121	genome.wustl.edu	37	5	140627283	140627283	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_018935.2	+1	reviewed	p.L713	0.018	72	0%	91	29.7%	2	0%	-	-	-	NULL
PCDHGA1	56114	genome.wustl.edu	37	5	140711458	140711458	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_018912.2	+1	reviewed	p.R403C	0.056	156	0%	262	13%	0	-	probably_damaging(0.992)	deleterious(0.01)	deleterious(0.853)	HMMPfam_Cadherin,HMMSmart_SM00112,superfamily_Cadherin-like
PCDHGA1	56114	genome.wustl.edu	37	5	140711565	140711565	+	Missense_Mutation	SNP	T	T	G	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_018912.2	+1	reviewed	p.I438M	0.000	229	0%	420	24.8%	0	-	benign(0.141)	deleterious(0.03)	neutral(0.377)	HMMPfam_Cadherin,HMMSmart_SM00112,superfamily_Cadherin-like
PCDHGA1	56114	genome.wustl.edu	37	5	140712123	140712123	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_018912.2	+1	reviewed	p.G624	0.385	38	0%	68	26.5%	0	-	-	-	-	HMMPfam_Cadherin,HMMSmart_SM00112,superfamily_Cadherin-like
PCDHGA1	56114	genome.wustl.edu	37	5	140712539	140712539	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_018912.2	+1	reviewed	p.S763L	0.997	215	0%	385	12.2%	1	0%	probably_damaging(1)	deleterious(0.01)	deleterious(0.905)	NULL
PCDHGA2	56113	genome.wustl.edu	37	5	140718776	140718776	+	Nonsense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_018915.2	+1	reviewed	p.R80*	0.001	75	0%	156	15.4%	1	0%	-	-	-	HMMSmart_SM00112,HMMPfam_Cadherin_2,superfamily_Cadherin-like
PCDHGA2	56113	genome.wustl.edu	37	5	140719613	140719613	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_018915.2	+1	reviewed	p.D359Y	0.997	110	0%	179	17.9%	1	0%	possibly_damaging(0.828)	deleterious(0.01)	deleterious(0.720)	HMMPfam_Cadherin,superfamily_Cadherin-like
PCDHGA2	56113	genome.wustl.edu	37	5	140719845	140719845	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_018915.2	+1	reviewed	p.A436V	0.000	228	0%	431	25.8%	2	0%	benign(0.001)	tolerated(0.22)	neutral(0.042)	HMMPfam_Cadherin,HMMSmart_SM00112,superfamily_Cadherin-like
PCDHGA2	56113	genome.wustl.edu	37	5	140720828	140720828	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_018915.2	+1	reviewed	p.R764W	0.083	211	0%	409	26.2%	1	0%	benign(0.076)	deleterious(0)	neutral(0.450)	NULL
PCDHGA2	56113	genome.wustl.edu	37	5	140720956	140720956	+	Missense_Mutation	SNP	T	T	G	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_018915.2	+1	reviewed	p.F806L	0.000	165	0%	319	13.8%	1	0%	benign(0)	tolerated(0.76)	neutral(0.001)	NULL
PCDHGA3	56112	genome.wustl.edu	37	5	140725526	140725526	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_018916.3	+1	reviewed	p.L642	0.892	52	0%	88	20.5%	0	-	-	-	-	HMMPfam_Cadherin,HMMSmart_SM00112,superfamily_Cadherin-like
PCDHGB1	56104	genome.wustl.edu	37	5	140730620	140730620	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_018922.2	+1	reviewed	p.D265Y	0.999	113	0%	189	32.3%	0	-	probably_damaging(1)	deleterious(0)	deleterious(0.945)	HMMPfam_Cadherin,HMMSmart_SM00112,superfamily_Cadherin-like
PCDHGB1	56104	genome.wustl.edu	37	5	140730788	140730788	+	Nonsense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_018922.2	+1	reviewed	p.G321*	1.000	171	0%	263	20.5%	0	-	-	-	-	HMMPfam_Cadherin,HMMSmart_SM00112,superfamily_Cadherin-like
PCDHGB1	56104	genome.wustl.edu	37	5	140731240	140731240	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_018922.2	+1	reviewed	p.S471	0.071	42	0%	70	31.4%	0	-	-	-	-	HMMPfam_Cadherin,HMMSmart_SM00112,superfamily_Cadherin-like
PCDHGA4	56111	genome.wustl.edu	37	5	140736646	140736646	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_018917.2	+1	reviewed	p.R627C	1.000	31	0%	77	26%	1	0%	-	-	-	HMMPfam_Cadherin,HMMSmart_SM00112,superfamily_Cadherin-like
PCDHGA4	56111	genome.wustl.edu	37	5	140736780	140736780	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_018917.2	+1	reviewed	p.V671	0.131	38	0%	56	16.1%	0	-	-	-	-	NULL
PCDHGB2	56103	genome.wustl.edu	37	5	140741028	140741028	+	Silent	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_018923.2	+1	reviewed	p.I442	0.007	75	0%	180	26.1%	0	-	-	-	-	HMMPfam_Cadherin,HMMSmart_SM00112,PatternScan_CADHERIN_1,superfamily_Cadherin-like
PCDHGA5	56110	genome.wustl.edu	37	5	140744194	140744194	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_018918.2	+1	reviewed	p.S99	0.000	69	0%	162	26.5%	2	0%	-	-	-	HMMSmart_SM00112,HMMPfam_Cadherin_2,superfamily_Cadherin-like
PCDHGA5	56110	genome.wustl.edu	37	5	140744298	140744298	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_018918.2	+1	reviewed	p.R134Q	0.026	91	0%	205	31.2%	0	-	benign(0.008)	tolerated(0.69)	neutral(0.002)	superfamily_Cadherin-like
PCDHGB3	56102	genome.wustl.edu	37	5	140750309	140750309	+	Missense_Mutation	SNP	T	T	G	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_018924.2	+1	reviewed	p.F116L	0.999	72	0%	115	28.7%	0	-	-	-	-	HMMSmart_SM00112,superfamily_Cadherin-like
PCDHGB3	56102	genome.wustl.edu	37	5	140751840	140751840	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_018924.2	+1	reviewed	p.R627C	0.748	18	0%	25	32%	0	-	-	-	-	HMMPfam_Cadherin,HMMSmart_SM00112,superfamily_Cadherin-like
PCDHGB3	56102	genome.wustl.edu	37	5	140751919	140751919	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_018924.2	+1	reviewed	p.P653H	0.778	32	0%	74	27%	0	-	-	-	-	HMMPfam_Cadherin,HMMSmart_SM00112,superfamily_Cadherin-like
PCDHGB3	56102	genome.wustl.edu	37	5	140752140	140752140	+	Missense_Mutation	SNP	T	T	G	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_018924.2	+1	reviewed	p.F727V	0.166	180	0%	310	11.6%	0	-	-	-	-	NULL
PCDHGA6	56109	genome.wustl.edu	37	5	140754085	140754085	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_018919.2	+1	reviewed	p.N145	0.393	97	0%	191	25.1%	1	0%	-	-	-	HMMPfam_Cadherin,superfamily_Cadherin-like
PCDHGA6	56109	genome.wustl.edu	37	5	140754490	140754490	+	Silent	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_018919.2	+1	reviewed	p.S280	0.317	91	0%	174	25.3%	0	-	-	-	-	HMMPfam_Cadherin,HMMSmart_SM00112,superfamily_Cadherin-like
PCDHGA6	56109	genome.wustl.edu	37	5	140755105	140755105	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_018919.2	+1	reviewed	p.A485	0.093	92	0%	189	22.8%	0	-	-	-	-	HMMPfam_Cadherin,HMMSmart_SM00112,superfamily_Cadherin-like
PCDHGA6	56109	genome.wustl.edu	37	5	140755393	140755393	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_018919.2	+1	reviewed	p.S581	0.007	65	0%	134	23.1%	1	0%	-	-	-	superfamily_Cadherin-like
PCDHGA7	56108	genome.wustl.edu	37	5	140762767	140762767	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_018920.2	+1	reviewed	p.R101W	0.497	63	0%	95	14.7%	0	-	possibly_damaging(0.905)	tolerated(0.19)	neutral(0.409)	HMMSmart_SM00112,HMMPfam_Cadherin_2,superfamily_Cadherin-like
PCDHGA7	56108	genome.wustl.edu	37	5	140764244	140764244	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_018920.2	+1	reviewed	p.A593V	0.999	92	0%	109	13.8%	0	-	probably_damaging(0.998)	deleterious(0)	deleterious(0.919)	HMMPfam_Cadherin,HMMSmart_SM00112,superfamily_Cadherin-like
PCDHGA7	56108	genome.wustl.edu	37	5	140764587	140764587	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_018920.2	+1	reviewed	p.F707	0.838	59	0%	90	21.1%	2	0%	-	-	-	NULL
PCDHGB4	8641	genome.wustl.edu	37	5	140767699	140767699	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_003736.2	+1	reviewed	p.E83G	0.387	251	0%	428	7%	0	-	benign(0.004)	tolerated(0.38)	neutral(0.018)	HMMSmart_SM00112,HMMPfam_Cadherin_2,superfamily_Cadherin-like
PCDHGB4	8641	genome.wustl.edu	37	5	140768978	140768978	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_003736.2	+1	reviewed	p.S509	1.000	22	0%	53	28.3%	2	0%	-	-	-	HMMPfam_Cadherin,HMMSmart_SM00112,superfamily_Cadherin-like
PCDHGB4	8641	genome.wustl.edu	37	5	140769650	140769650	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_003736.2	+1	reviewed	p.S733	0.806	273	0.4%	490	26.9%	2	50%	-	-	-	NULL
PCDHGA8	9708	genome.wustl.edu	37	5	140772623	140772623	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_032088.1	+1	reviewed	p.S81	0.234	37	0%	80	21.2%	0	-	-	-	-	HMMSmart_SM00112,HMMPfam_Cadherin_2,superfamily_Cadherin-like
PCDHGA8	9708	genome.wustl.edu	37	5	140772728	140772728	+	Silent	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_032088.1	+1	reviewed	p.L116	0.289	40	0%	65	18.5%	0	-	-	-	-	HMMSmart_SM00112,superfamily_Cadherin-like
PCDHGA8	9708	genome.wustl.edu	37	5	140773429	140773429	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_032088.1	+1	reviewed	p.T350M	0.600	149	0.7%	234	24.8%	0	-	probably_damaging(1)	tolerated(0.18)	deleterious(0.556)	superfamily_Cadherin-like
PCDHGA8	9708	genome.wustl.edu	37	5	140773860	140773860	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_032088.1	+1	reviewed	p.D494Y	0.000	101	0%	189	27.5%	0	-	benign(0.004)	deleterious(0.03)	neutral(0.364)	HMMPfam_Cadherin,HMMSmart_SM00112,superfamily_Cadherin-like
PCDHGA8	9708	genome.wustl.edu	37	5	140774060	140774060	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_032088.1	+1	reviewed	p.P560	0.699	106	0%	172	12.2%	1	0%	-	-	-	HMMSmart_SM00112,PatternScan_CADHERIN_1,superfamily_Cadherin-like
PCDHGB5	56101	genome.wustl.edu	37	5	140779163	140779163	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_018925.2	+1	reviewed	p.S490I	0.596	38	0%	83	26.5%	1	0%	-	-	-	HMMPfam_Cadherin,HMMSmart_SM00112,superfamily_Cadherin-like
PCDHGA9	56107	genome.wustl.edu	37	5	140782970	140782970	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_018921.2	+1	reviewed	p.R151C	0.008	67	0%	107	14%	3	0%	-	-	-	superfamily_Cadherin-like
PCDHGA9	56107	genome.wustl.edu	37	5	140783571	140783571	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_018921.2	+1	reviewed	p.S351Y	0.964	154	0%	277	12.6%	0	-	-	-	-	superfamily_Cadherin-like
PCDHGB6	56100	genome.wustl.edu	37	5	140790186	140790186	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_018926.2	+1	reviewed	p.S806L	0.013	294	0.3%	506	30.2%	1	0%	benign(0.03)	deleterious(0.01)	neutral(0.407)	NULL
PCDHGB7	56099	genome.wustl.edu	37	5	140797815	140797815	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_018927.2	+1	reviewed	p.A130V	0.992	523	0%	889	27.7%	0	-	benign(0.253)	deleterious(0.04)	neutral(0.375)	HMMSmart_SM00112,PatternScan_CADHERIN_1,superfamily_Cadherin-like
PCDHGA12	26025	genome.wustl.edu	37	5	140810510	140810510	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_003735.2	+1	reviewed	p.R62C	0.016	95	0%	160	23.1%	0	-	probably_damaging(0.998)	deleterious(0)	deleterious(0.919)	HMMSmart_SM00112,HMMPfam_Cadherin_2,superfamily_Cadherin-like
PCDHGA12	26025	genome.wustl.edu	37	5	140810727	140810727	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_003735.2	+1	reviewed	p.R134H	0.000	92	0%	144	11.1%	2	0%	benign(0.006)	tolerated(0.16)	neutral(0.059)	superfamily_Cadherin-like
PCDHGA12	26025	genome.wustl.edu	37	5	140811390	140811390	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_003735.2	+1	reviewed	p.S355L	0.337	130	0%	201	11.4%	0	-	benign(0.005)	deleterious(0.05)	neutral(0.345)	HMMPfam_Cadherin,superfamily_Cadherin-like
PCDHGA12	26025	genome.wustl.edu	37	5	140812447	140812447	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_003735.2	+1	reviewed	p.F707	0.663	95	0%	141	12.1%	2	0%	-	-	-	NULL
PCDHGA12	26025	genome.wustl.edu	37	5	140812614	140812614	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_003735.2	+1	reviewed	p.S763L	0.961	132	0%	184	14.7%	2	50%	probably_damaging(1)	deleterious(0.03)	deleterious(0.865)	NULL
PCDHGC3	5098	genome.wustl.edu	37	5	140857253	140857253	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_002588.2	+1	reviewed	p.P524T	0.866	96	0%	77	16.9%	6	0%	benign(0.001)	tolerated(0.06)	neutral(0.323)	HMMPfam_Cadherin,HMMSmart_SM00112,superfamily_Cadherin-like
PCDHGC5	56097	genome.wustl.edu	37	5	140868902	140868902	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_018929.2	+1	reviewed	p.R32H	0.967	336	0%	555	10.5%	0	-	benign(0.329)	tolerated(0.26)	neutral(0.137)	HMMPfam_Cadherin_2,superfamily_Cadherin-like
PCDHGC5	56097	genome.wustl.edu	37	5	140884981	140884981	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_018929.2	+1	reviewed	p.T847	0.446	195	1%	165	23%	25	0%	-	-	-	NULL
DIAPH1	1729	genome.wustl.edu	37	5	140908486	140908486	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_005219.4	-1	reviewed	p.R934Q	1.000	92	0%	46	19.6%	9	22.2%	unknown(0)	tolerated(0.65)	-	HMMSmart_SM00498,HMMPfam_FH2,superfamily_Formin homology 2 domain (FH2 domain)
DIAPH1	1729	genome.wustl.edu	37	5	140957879	140957879	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_005219.4	-1	reviewed	p.R359I	0.653	193	0%	135	28.9%	2	50%	benign(0.043)	tolerated(0.21)	neutral(0.046)	HMMPfam_Drf_FH3
DIAPH1	1729	genome.wustl.edu	37	5	140963163	140963163	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_005219.4	-1	reviewed	p.S141I	1.000	57	0%	30	13.3%	1	0%	possibly_damaging(0.941)	tolerated(0.15)	deleterious(0.627)	HMMPfam_Drf_GBD
HDAC3	8841	genome.wustl.edu	37	5	141005323	141005323	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_003883.3	-1	reviewed	p.E330K	1.000	519	0%	493	20.1%	11	0%	possibly_damaging(0.884)	tolerated(0.06)	deleterious(0.667)	superfamily_Arginase/deacetylase
HDAC3	8841	genome.wustl.edu	37	5	141014504	141014504	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_003883.3	-1	reviewed	p.Q52R	1.000	163	0%	225	14.2%	5	0%	benign(0.004)	tolerated(0.56)	neutral(0.006)	HMMPfam_Hist_deacetyl,superfamily_Arginase/deacetylase
HDAC3	8841	genome.wustl.edu	37	5	141016121	141016121	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_003883.3	-1	reviewed	p.K44N	1.000	101	0%	223	11.2%	0	-	possibly_damaging(0.607)	tolerated(0.05)	deleterious(0.556)	HMMPfam_Hist_deacetyl,superfamily_Arginase/deacetylase
FCHSD1	89848	genome.wustl.edu	37	5	141024670	141024670	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_033449.1	-1	provisional	p.G453R	0.999	58	0%	98	23.5%	6	33.3%	probably_damaging(0.996)	tolerated(0.48)	deleterious(0.472)	superfamily_SH3-domain
FCHSD1	89848	genome.wustl.edu	37	5	141026985	141026985	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_033449.1	-1	provisional	p.G270R	0.007	50	0%	85	22.4%	7	0%	possibly_damaging(0.555)	deleterious(0.02)	deleterious(0.573)	NULL
PCDH1	5097	genome.wustl.edu	37	5	141233645	141233645	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_032420.2	-1	reviewed	p.A1226T	1.000	89	0%	172	12.2%	2	0%	benign(0.002)	tolerated(0.31)	neutral(0.027)	NULL
PCDH12	51294	genome.wustl.edu	37	5	141337195	141337195	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_016580.2	-1	reviewed	p.A74	0.001	27	0%	38	23.7%	2	0%	-	-	-	HMMSmart_CA,HMMPfam_Cadherin_2,superfamily_Cadherin
RNF14	9604	genome.wustl.edu	37	5	141354400	141354400	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_004290.3	+1	reviewed	p.G62	1.000	312	0%	288	11.8%	1	0%	-	-	-	HMMPfam_RWD,HMMSmart_SM00591,superfamily_UBC-like
ARHGAP26	23092	genome.wustl.edu	37	5	142281548	142281548	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_015071.4	+1	reviewed	p.E216K	1.000	484	0%	129	12.4%	4	25%	probably_damaging(1)	deleterious(0)	deleterious(0.945)	NULL
NR3C1	2908	genome.wustl.edu	37	5	142675062	142675062	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001024094.1	-1	reviewed	p.E663D	0.997	290	0%	63	12.7%	0	-	probably_damaging(0.999)	deleterious(0)	deleterious(0.935)	HMMPfam_Hormone_recep,HMMSmart_HOLI,superfamily_Str_ncl_receptor
YIPF5	81555	genome.wustl.edu	37	5	143545123	143545123	+	Silent	SNP	A	A	G	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001024947.2	-1	validated	p.P52	0.924	426	0%	173	13.9%	7	14.2%	-	-	-	NULL
PRELID2	153768	genome.wustl.edu	37	5	145197538	145197538	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_182960.2	-1	validated	p.R108Q	0.060	215	0%	48	12.5%	1	0%	benign(0.377)	tolerated(0.35)	neutral(0.141)	HMMPfam_PRELI
PRELID2	153768	genome.wustl.edu	37	5	145197579	145197579	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_182960.2	-1	validated	p.E94D	1.000	228	0%	57	22.8%	0	-	probably_damaging(1)	deleterious(0)	deleterious(0.945)	HMMPfam_PRELI
LARS	51520	genome.wustl.edu	37	5	145510647	145510647	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_020117.9	-1	reviewed	p.T808A	1.000	731	0%	156	21.2%	13	15.3%	possibly_damaging(0.463)	deleterious(0.01)	deleterious(0.557)	superfamily_Anticodon-binding domain of a subclass of class I aminoacyl-tRNA synthetases,HMMPfam_Anticodon_1
LARS	51520	genome.wustl.edu	37	5	145547762	145547762	+	Nonsense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_020117.9	-1	reviewed	p.E121*	1.000	446	0%	299	22.1%	1	0%	-	-	-	superfamily_Nucleotidylyl transferase
RBM27	54439	genome.wustl.edu	37	5	145634604	145634604	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_018989.1	+1	validated	p.R515C	1.000	174	0%	67	17.9%	0	-	probably_damaging(0.999)	deleterious(0.02)	deleterious(0.873)	NULL
TCERG1	10915	genome.wustl.edu	37	5	145836766	145836766	+	Silent	SNP	T	T	C	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_006706.3	+1	reviewed	p.P102	0.995	326	0%	497	11.9%	2	0%	-	-	-	NULL
TCERG1	10915	genome.wustl.edu	37	5	145858127	145858127	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_006706.3	+1	reviewed	p.R558Q	1.000	361	0%	73	13.7%	2	0%	probably_damaging(0.982)	deleterious(0.01)	deleterious(0.832)	HMMPfam_WW,HMMSmart_SM00456,superfamily_WW domain
PPP2R2B	5521	genome.wustl.edu	37	5	146070775	146070775	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_181676.2	-1	reviewed	p.S124	1.000	294	0%	104	32.7%	0	-	-	-	-	superfamily_WD40 repeat-like,HMMPfam_PP2A_B_N
PPP2R2B	5521	genome.wustl.edu	37	5	146077671	146077671	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_181676.2	-1	reviewed	p.V72I	1.000	285	0%	92	25%	0	-	benign(0.168)	tolerated(0.08)	neutral(0.315)	superfamily_WD40 repeat-like,HMMPfam_PP2A_B_N
DPYSL3	1809	genome.wustl.edu	37	5	146785176	146785176	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001387.2	-1	validated	p.K270E	1.000	348	0%	168	35.1%	54	1.8%	benign(0)	tolerated(0.35)	neutral(0.021)	HMMPfam_Amidohydro_1,superfamily_Metalo_hydrolase,superfamily_SSF51556
JAKMIP2	9832	genome.wustl.edu	37	5	147021279	147021279	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_014790.3	-1	provisional	p.P425S	1.000	728	0%	201	25.4%	0	-	possibly_damaging(0.926)	deleterious(0.02)	deleterious(0.758)	NULL
SPINK5	11005	genome.wustl.edu	37	5	147466095	147466095	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001127698.1	+1	reviewed	p.A137V	0.013	559	0%	128	15.6%	2	50%	benign(0)	tolerated(0.47)	neutral(0.011)	HMMSmart_SM00280,HMMPfam_Kazal_2,superfamily_Kazal-type serine protease inhibitors
FBXO38	81545	genome.wustl.edu	37	5	147796677	147796677	+	Missense_Mutation	SNP	G	G	A	rs187292361	by1000genomes	TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_205836.1	+1	validated	p.D510N	0.941	363	0%	125	32%	2	0%	possibly_damaging(0.792)	tolerated(1)	neutral(0.297)	NULL
ADRB2	154	genome.wustl.edu	37	5	148206508	148206508	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_000024.5	+1	reviewed	p.I38	0.313	154	0.6%	275	22.9%	0	-	-	-	-	superfamily_Family A G protein-coupled receptor-like
ADRB2	154	genome.wustl.edu	37	5	148206964	148206964	+	Nonsense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_000024.5	+1	reviewed	p.C190*	1.000	268	0%	415	15.7%	0	-	-	-	-	HMMPfam_7tm_1,superfamily_Family A G protein-coupled receptor-like
SH3TC2	79628	genome.wustl.edu	37	5	148406372	148406372	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	ENST00000394358	-1	known	p.S522G	0.000	176	0%	148	12.8%	0	-	benign(0.005)	tolerated(0.07)	neutral(0.319)	NULL
SH3TC2	79628	genome.wustl.edu	37	5	148407846	148407846	+	Silent	SNP	A	A	G	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_024577.3	-1	reviewed	p.F483	0.001	34	0%	42	31%	0	-	-	-	-	NULL
SH3TC2	79628	genome.wustl.edu	37	5	148417964	148417964	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_024577.3	-1	reviewed	p.G299S	0.996	226	0%	83	22.9%	0	-	probably_damaging(0.999)	deleterious(0)	deleterious(0.935)	HMMPfam_SH3_1,HMMSmart_SM00326,superfamily_SH3-domain
ABLIM3	22885	genome.wustl.edu	37	5	148630930	148630930	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_014945.2	+1	validated	p.S599	1.000	89	0%	30	33.3%	1	0%	-	-	-	NULL
AFAP1L1	134265	genome.wustl.edu	37	5	148681986	148681986	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_152406.2	+1	validated	p.A111	0.000	42	0%	38	28.9%	1	0%	-	-	-	NULL
AFAP1L1	134265	genome.wustl.edu	37	5	148697447	148697447	+	Nonsense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_152406.2	+1	validated	p.R475*	1.000	61	0%	24	25%	3	0%	-	-	-	HMMPfam_PH,HMMSmart_SM00233,superfamily_PH domain-like
PCYOX1L	78991	genome.wustl.edu	37	5	148747915	148747915	+	Nonsense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_024028.3	+1	validated	p.R395*	1.000	116	0%	179	12.3%	2	0%	-	-	-	HMMPfam_Prenylcys_lyase,superfamily_FAD/NAD(P)-binding domain
HMGXB3	22993	genome.wustl.edu	37	5	149404031	149404031	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_014983.2	+1	validated	p.E416D	1.000	167	0%	72	16.7%	5	40%	probably_damaging(0.988)	deleterious(0)	deleterious(0.882)	NULL
HMGXB3	22993	genome.wustl.edu	37	5	149425129	149425129	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_014983.2	+1	validated	p.S944I	1.000	252	0%	92	21.7%	18	50%	probably_damaging(0.999)	deleterious(0.02)	deleterious(0.873)	NULL
HMGXB3	22993	genome.wustl.edu	37	5	149428165	149428165	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_014983.2	+1	validated	p.E1040K	0.996	332	0%	163	28.8%	12	41.6%	benign(0.418)	tolerated(0.1)	neutral(0.422)	NULL
SLC6A7	6534	genome.wustl.edu	37	5	149576301	149576301	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_014228.3	+1	validated	p.F80	1.000	105	0%	124	25%	0	-	-	-	-	HMMPfam_SNF
SLC6A7	6534	genome.wustl.edu	37	5	149578828	149578828	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_014228.3	+1	validated	p.G208S	1.000	126	0.8%	157	29.3%	0	-	benign(0.025)	tolerated(0.38)	neutral(0.019)	HMMPfam_SNF
SLC6A7	6534	genome.wustl.edu	37	5	149582238	149582238	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_014228.3	+1	validated	p.G353	0.171	54	0%	44	20.5%	0	-	-	-	-	HMMPfam_SNF
CAMK2A	815	genome.wustl.edu	37	5	149631347	149631347	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_015981.3	-1	reviewed	p.R220H	1.000	72	0%	41	24.4%	0	-	probably_damaging(0.999)	deleterious(0.01)	deleterious(0.896)	HMMSmart_SM00219,HMMSmart_SM00220,superfamily_Protein kinase-like (PK-like),HMMPfam_Pkinase
LOC100287940	100287940	genome.wustl.edu	37	5	149677842	149677842	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	XM_002342566.1	+1	model	p.A231T	0.034	34	0%	70	15.7%	0	-	-	-	-	NULL
ARSI	340075	genome.wustl.edu	37	5	149681718	149681718	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001012301.2	-1	validated	p.T73	0.910	71	0%	134	13.4%	1	0%	-	-	-	HMMPfam_Sulfatase,superfamily_Alkaline phosphatase-like
CD74	972	genome.wustl.edu	37	5	149782805	149782805	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001025159.1	-1	validated	p.C232	0.991	110	0%	74	12.2%	193	0%	-	-	-	HMMPfam_Thyroglobulin_1,HMMSmart_SM00211,PatternScan_THYROGLOBULIN_1_1,superfamily_Thyroglobulin type-1 domain
NDST1	3340	genome.wustl.edu	37	5	149924914	149924914	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001543.4	+1	validated	p.D671N	1.000	127	0%	125	12%	4	0%	possibly_damaging(0.801)	tolerated(0.23)	neutral(0.343)	HMMPfam_Sulfotransfer_1,superfamily_P-loop containing nucleoside triphosphate hydrolases
RBM22	55696	genome.wustl.edu	37	5	150072503	150072503	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_018047.2	-1	reviewed	p.N362	1.000	51	0%	39	15.4%	10	30%	-	-	-	NULL
ZNF300	91975	genome.wustl.edu	37	5	150275118	150275118	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_052860.2	-1	reviewed	p.K561	0.010	303	0%	87	21.8%	3	33.3%	-	-	-	HMMPfam_zf-C2H2,PatternScan_ZINC_FINGER_C2H2_1,HMMSmart_SM00355,superfamily_C2H2 and C2HC zinc fingers
ZNF300	91975	genome.wustl.edu	37	5	150276059	150276059	+	Missense_Mutation	SNP	T	T	G	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_052860.2	-1	reviewed	p.N248H	0.970	202	0%	69	30.4%	2	50%	possibly_damaging(0.644)	deleterious(0.01)	deleterious(0.631)	superfamily_C2H2 and C2HC zinc fingers
TNIP1	10318	genome.wustl.edu	37	5	150411857	150411857	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_006058.3	-1	validated	p.T623A	0.186	200	0%	136	28.7%	65	23%	benign(0)	tolerated(0.95)	-	NULL
ANXA6	309	genome.wustl.edu	37	5	150512715	150512715	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001155.3	-1	reviewed	p.T194A	1.000	270	0%	117	28.2%	19	0%	probably_damaging(0.995)	deleterious(0)	deleterious(0.902)	superfamily_Annexin,PatternScan_ANNEXIN,HMMPfam_Annexin,HMMSmart_ANX
CCDC69	26112	genome.wustl.edu	37	5	150563997	150563997	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_015621.2	-1	validated	p.E207D	0.997	217	0%	94	11.7%	3	0%	possibly_damaging(0.93)	tolerated(0.07)	deleterious(0.696)	NULL
SLC36A2	153201	genome.wustl.edu	37	5	150701765	150701765	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_181776.2	-1	validated	p.S341F	0.827	161	0%	62	30.6%	0	-	possibly_damaging(0.935)	tolerated(0.08)	deleterious(0.680)	HMMPfam_Aa_trans
FAT2	2196	genome.wustl.edu	37	5	150908773	150908773	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001447.2	-1	reviewed	p.L3331S	0.000	162	0%	223	21.5%	0	-	benign(0)	tolerated(0.43)	neutral(0.013)	HMMPfam_Cadherin,superfamily_Concanavalin A-like lectins/glucanases,superfamily_Cadherin-like
FAT2	2196	genome.wustl.edu	37	5	150917480	150917480	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001447.2	-1	reviewed	p.D3023Y	1.000	223	0%	206	23.8%	0	-	probably_damaging(0.998)	deleterious(0.01)	deleterious(0.880)	HMMPfam_Cadherin,superfamily_Concanavalin A-like lectins/glucanases,superfamily_Cadherin-like
FAT2	2196	genome.wustl.edu	37	5	150929040	150929040	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001447.2	-1	reviewed	p.K1535N	1.000	117	0%	37	16.2%	0	-	probably_damaging(1)	deleterious(0)	deleterious(0.945)	HMMPfam_Cadherin,HMMSmart_SM00112,superfamily_Cadherin-like
FAT2	2196	genome.wustl.edu	37	5	150930395	150930395	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001447.2	-1	reviewed	p.R1445Q	1.000	264	0.4%	103	30.1%	0	-	probably_damaging(1)	tolerated(0.11)	deleterious(0.772)	HMMSmart_SM00112,superfamily_Cadherin-like
FAT2	2196	genome.wustl.edu	37	5	150934010	150934010	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001447.2	-1	reviewed	p.S1286	0.416	147	0%	40	15%	0	-	-	-	-	HMMPfam_Cadherin,HMMSmart_SM00112,superfamily_Cadherin-like
FAT2	2196	genome.wustl.edu	37	5	150947475	150947475	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001447.2	-1	reviewed	p.G340S	0.000	135	0%	59	20.3%	0	-	benign(0.005)	tolerated(0.83)	neutral(0.001)	NULL
FAT2	2196	genome.wustl.edu	37	5	150948304	150948304	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001447.2	-1	reviewed	p.A63	0.000	190	0%	88	21.6%	0	-	-	-	-	HMMPfam_Cadherin,HMMSmart_SM00112,superfamily_Cadherin-like
G3BP1	10146	genome.wustl.edu	37	5	151176900	151176900	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_005754.2	+1	reviewed	p.V218I	0.808	231	0%	64	20.3%	10	20%	benign(0.005)	tolerated(0.16)	neutral(0.059)	NULL
GLRA1	2741	genome.wustl.edu	37	5	151230961	151230961	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_000171.3	-1	reviewed	p.S301F	1.000	166	0%	86	15.1%	0	-	probably_damaging(0.999)	deleterious(0)	deleterious(0.935)	HMMPfam_Neur_chan_memb,superfamily_Neurotransmitter-gated ion-channel transmembrane pore
NMUR2	56923	genome.wustl.edu	37	5	151784167	151784167	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_020167.4	-1	reviewed	p.V170I	0.141	118	0%	173	30.6%	0	-	benign(0.14)	tolerated(1)	neutral(0.012)	HMMPfam_7tm_1,superfamily_Family A G protein-coupled receptor-like
GRIA1	2890	genome.wustl.edu	37	5	153077648	153077648	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_000827.3	+1	reviewed	p.T393	0.004	160	0%	40	30%	0	-	-	-	-	superfamily_Periplasmic binding protein-like I
FAM114A2	10827	genome.wustl.edu	37	5	153409092	153409092	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_018691.2	-1	validated	p.A151V	0.773	230	0%	80	21.2%	1	0%	benign(0.341)	tolerated(0.44)	neutral(0.120)	HMMPfam_DUF719
GALNT10	55568	genome.wustl.edu	37	5	153765930	153765930	+	Silent	SNP	C	C	T	rs185134666	by1000genomes	TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_198321.3	+1	reviewed	p.L332	1.000	128	0%	46	30.4%	0	-	-	-	-	HMMPfam_Glycos_transf_2,superfamily_Nucleotide-diphospho-sugar transferases
LARP1	23367	genome.wustl.edu	37	5	154173816	154173816	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_015315.3	+1	validated	p.R332H	1.000	183	0%	321	23.4%	6	0%	possibly_damaging(0.765)	deleterious(0.05)	deleterious(0.629)	HMMPfam_La,HMMSmart_LA,superfamily_SSF46785
LARP1	23367	genome.wustl.edu	37	5	154179440	154179440	+	Silent	SNP	A	A	G	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_015315.3	+1	validated	p.A441	0.502	93	0%	135	23.7%	11	18.1%	-	-	-	NULL
LARP1	23367	genome.wustl.edu	37	5	154181731	154181731	+	Silent	SNP	T	T	C	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_015315.3	+1	validated	p.S550	0.999	281	0%	240	10.8%	2	50%	-	-	-	NULL
LARP1	23367	genome.wustl.edu	37	5	154190896	154190896	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_015315.3	+1	validated	p.T901M	1.000	288	0%	128	11.7%	8	0%	probably_damaging(1)	deleterious(0)	deleterious(0.945)	HMMSmart_DM15
GEMIN5	25929	genome.wustl.edu	37	5	154267810	154267810	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_015465.3	-1	validated	p.T1496M	0.004	312	0%	105	11.4%	18	16.6%	probably_damaging(0.998)	deleterious(0.01)	deleterious(0.880)	NULL
GEMIN5	25929	genome.wustl.edu	37	5	154287153	154287153	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_015465.3	-1	validated	p.A798V	0.000	303	0%	89	23.6%	0	-	benign(0)	tolerated(0.93)	-	NULL
GEMIN5	25929	genome.wustl.edu	37	5	154316719	154316719	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_015465.3	-1	validated	p.E65K	0.998	288	0%	406	12.1%	0	-	probably_damaging(0.979)	tolerated(0.13)	deleterious(0.674)	HMMSmart_SM00320,superfamily_WD40 repeat-like,HMMPfam_WD40
TIMD4	91937	genome.wustl.edu	37	5	156349123	156349123	+	Silent	SNP	C	C	T	rs188217458	by1000genomes	TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_138379.2	-1	validated	p.A333	0.000	306	0%	96	10.4%	2	0%	-	-	-	NULL
HAVCR1	26762	genome.wustl.edu	37	5	156482311	156482311	+	Missense_Mutation	SNP	T	T	G	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001099414.1	-1	reviewed	p.N94H	0.001	175	0%	67	31.3%	0	-	unknown(0)	deleterious(0.01)	-	HMMSmart_SM00409,HMMPfam_V-set,superfamily_Immunoglobulin
HAVCR2	84868	genome.wustl.edu	37	5	156533837	156533837	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_032782.3	-1	validated	p.N65	0.000	124	0%	47	25.5%	1	0%	-	-	-	HMMSmart_SM00409,HMMPfam_V-set,superfamily_Immunoglobulin
ITK	3702	genome.wustl.edu	37	5	156672743	156672743	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_005546.3	+1	reviewed	p.R486I	0.992	314	0%	109	23.9%	0	-	probably_damaging(1)	deleterious(0)	deleterious(0.945)	HMMPfam_Pkinase_Tyr,HMMSmart_SM00219,HMMSmart_SM00220,PatternScan_PROTEIN_KINASE_TYR,superfamily_Protein kinase-like (PK-like)
CYFIP2	26999	genome.wustl.edu	37	5	156721844	156721844	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001037332.2	+1	validated	p.R87H	1.000	372	0%	133	18.8%	4	0%	probably_damaging(1)	deleterious(0)	deleterious(0.945)	HMMPfam_FragX_IP
CYFIP2	26999	genome.wustl.edu	37	5	156752564	156752564	+	Nonsense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001037332.2	+1	validated	p.R634*	1.000	261	0.4%	127	29.1%	6	0%	-	-	-	HMMPfam_FragX_IP
CYFIP2	26999	genome.wustl.edu	37	5	156766140	156766140	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001037332.2	+1	validated	p.D821N	1.000	105	0%	44	27.3%	13	0%	benign(0.02)	tolerated(0.07)	neutral(0.320)	HMMPfam_FragX_IP
CYFIP2	26999	genome.wustl.edu	37	5	156809615	156809615	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001037332.2	+1	validated	p.C1019	0.998	225	0%	108	13%	16	0%	-	-	-	HMMPfam_FragX_IP
ADAM19	8728	genome.wustl.edu	37	5	156946857	156946857	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_033274.2	-1	reviewed	p.R197Q	0.134	123	0%	48	22.9%	1	0%	benign(0.017)	tolerated(0.38)	neutral(0.018)	NULL
SOX30	11063	genome.wustl.edu	37	5	157078328	157078328	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_178424.1	-1	reviewed	p.P253	0.001	61	0%	90	27.8%	0	-	-	-	-	NULL
C5orf52	100190949	genome.wustl.edu	37	5	157106972	157106972	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001145132.1	+1	validated	p.R149W	0.023	172	0%	170	18.8%	0	-	possibly_damaging(0.922)	deleterious(0.02)	deleterious(0.754)	NULL
LSM11	134353	genome.wustl.edu	37	5	157178487	157178487	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_173491.2	+1	provisional	p.R180W	1.000	247	0.4%	221	14%	3	0%	probably_damaging(1)	deleterious(0)	deleterious(0.945)	superfamily_Sm_like_riboprot
CLINT1	9685	genome.wustl.edu	37	5	157244512	157244512	+	Nonsense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_014666.2	-1	validated	p.R29*	1.000	244	0%	60	28.3%	2	0%	-	-	-	HMMPfam_ENTH,superfamily_ENTH/VHS domain,HMMSmart_SM00273
EBF1	1879	genome.wustl.edu	37	5	158139228	158139228	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_024007.3	-1	validated	p.A495T	1.000	99	2%	53	15.1%	3	0%	benign(0)	tolerated(0.13)	neutral(0.253)	NULL
UBLCP1	134510	genome.wustl.edu	37	5	158705275	158705275	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_145049.3	+1	validated	p.K238	1.000	360	0%	158	19%	14	7.1%	-	-	-	HMMPfam_NIF,HMMSmart_SM00577,superfamily_HAD-like
UBLCP1	134510	genome.wustl.edu	37	5	158705298	158705298	+	Missense_Mutation	SNP	A	A	C	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_145049.3	+1	validated	p.K246T	0.997	379	0%	178	25.8%	12	8.3%	benign(0.341)	tolerated(0.18)	neutral(0.164)	HMMPfam_NIF,HMMSmart_SM00577,superfamily_HAD-like
IL12B	3593	genome.wustl.edu	37	5	158743790	158743790	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_002187.2	-1	reviewed	p.T297M	0.105	140	0%	119	16.8%	0	-	probably_damaging(0.953)	tolerated(0.06)	deleterious(0.719)	HMMPfam_fn3,superfamily_FN_III-like
IL12B	3593	genome.wustl.edu	37	5	158749491	158749491	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_002187.2	-1	reviewed	p.C131	0.452	336	0%	224	26.8%	0	-	-	-	-	superfamily_FN_III-like,HMMPfam_IL12p40_C
TTC1	7265	genome.wustl.edu	37	5	159463770	159463770	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_003314.1	+1	provisional	p.S155L	0.979	343	0.3%	71	25.4%	39	23%	possibly_damaging(0.872)	deleterious(0)	deleterious(0.784)	HMMPfam_TPR_1,HMMSmart_SM00028,superfamily_TPR-like
FABP6	2172	genome.wustl.edu	37	5	159661895	159661895	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001040442.1	+1	reviewed	p.I153	0.857	168	0%	105	22.9%	2	100%	-	-	-	HMMPfam_Lipocalin,superfamily_Calycin
C5orf54	63920	genome.wustl.edu	37	5	159820930	159820930	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_022090.3	-1	validated	p.A523V	0.975	241	0%	79	20.3%	5	20%	benign(0)	tolerated(0.26)	neutral(0.034)	NULL
SLU7	10569	genome.wustl.edu	37	5	159842175	159842175	+	Nonsense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_006425.4	-1	reviewed	p.R43*	0.998	631	0%	492	11%	5	20%	-	-	-	NULL
PTTG1	9232	genome.wustl.edu	37	5	159855640	159855640	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_004219.2	+1	reviewed	p.S187	0.000	752	0%	548	11.3%	156	1.2%	-	-	-	HMMPfam_Securin
ATP10B	23120	genome.wustl.edu	37	5	159996531	159996531	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_025153.2	-1	validated	p.L1304I	1.000	188	0%	58	27.6%	0	-	benign(0.032)	tolerated(0.24)	neutral(0.039)	NULL
ATP10B	23120	genome.wustl.edu	37	5	160025933	160025933	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_025153.2	-1	validated	p.F1136L	1.000	185	0%	35	25.7%	0	-	probably_damaging(1)	deleterious(0.03)	deleterious(0.865)	NULL
ATP10B	23120	genome.wustl.edu	37	5	160039781	160039781	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_025153.2	-1	validated	p.T935	0.000	150	0%	30	16.7%	0	-	-	-	-	superfamily_HAD-like
ATP10B	23120	genome.wustl.edu	37	5	160042858	160042858	+	Silent	SNP	T	T	C	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_025153.2	-1	validated	p.Q880	0.428	104	0%	34	26.5%	0	-	-	-	-	superfamily_HAD-like,superfamily_Metal cation-transporting ATPase ATP-binding domain N
ATP10B	23120	genome.wustl.edu	37	5	160047625	160047625	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_025153.2	-1	validated	p.F715L	0.987	31	0.032	9	0.444	0	-	benign(0)	tolerated(1)	-	superfamily_HAD-like
ATP10B	23120	genome.wustl.edu	37	5	160049461	160049461	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_025153.2	-1	validated	p.F584	0.999	158	0%	42	11.9%	0	-	-	-	-	superfamily_HAD-like
ATP10B	23120	genome.wustl.edu	37	5	160114996	160114996	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_025153.2	-1	validated	p.P29L	0.996	187	0%	61	27.9%	0	-	benign(0.007)	tolerated(0.31)	neutral(0.027)	NULL
GABRB2	2561	genome.wustl.edu	37	5	160757907	160757907	+	Missense_Mutation	SNP	G	G	A	rs41298406		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_021911.2	-1	reviewed	p.R354C	1.000	106	0%	98	22.4%	0	-	probably_damaging(0.999)	deleterious(0)	deleterious(0.935)	HMMPfam_Neur_chan_memb,superfamily_Neu_channel_TM
GABRA6	2559	genome.wustl.edu	37	5	161113336	161113336	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_000811.2	+1	reviewed	p.L47	1.000	102	0%	39	10.3%	0	-	-	-	-	HMMPfam_Neur_chan_LBD,superfamily_Nicotinic receptor ligand binding domain-like
CCNG1	900	genome.wustl.edu	37	5	162868186	162868186	+	Nonsense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_004060.3	+1	reviewed	p.R123*	1.000	337	0%	351	23.9%	13	0%	-	-	-	HMMSmart_SM00385,HMMPfam_Cyclin_N,superfamily_Cyclin-like
CCNG1	900	genome.wustl.edu	37	5	162868318	162868318	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_004060.3	+1	reviewed	p.E167K	1.000	258	0%	273	22%	20	0%	benign(0.02)	tolerated(0.34)	neutral(0.024)	NULL
NUDCD2	134492	genome.wustl.edu	37	5	162881024	162881024	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_145266.4	-1	provisional	p.I141	1.000	351	0%	287	25.8%	41	9.7%	-	-	-	NULL
HMMR	3161	genome.wustl.edu	37	5	162896763	162896763	+	Silent	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001142556.1	+1	reviewed	p.L130	0.792	339	0.3%	197	22.3%	0	-	-	-	-	NULL
HMMR	3161	genome.wustl.edu	37	5	162900245	162900245	+	Nonsense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001142556.1	+1	reviewed	p.Y237*	1.000	190	0%	58	20.7%	0	-	-	-	-	NULL
ODZ2	57451	genome.wustl.edu	37	5	167545382	167545382	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001122679.1	+1	inferred	p.C633	0.994	65	0%	41	29.3%	0	-	-	-	-	HMMSmart_SM00181,PatternScan_EGF_1,PatternScan_EGF_2,superfamily_EGF/Laminin
ODZ2	57451	genome.wustl.edu	37	5	167630771	167630771	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001122679.1	+1	inferred	p.E1161K	1.000	223	0.4%	75	18.7%	0	-	probably_damaging(1)	deleterious(0.01)	deleterious(0.905)	superfamily_Concanavalin A-like lectins/glucanases
ODZ2	57451	genome.wustl.edu	37	5	167642103	167642103	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001122679.1	+1	inferred	p.V1293M	1.000	165	0%	70	25.7%	0	-	possibly_damaging(0.472)	deleterious(0.01)	deleterious(0.561)	HMMPfam_NHL,superfamily_Concanavalin A-like lectins/glucanases,superfamily_NHL repeat
ODZ2	57451	genome.wustl.edu	37	5	167645246	167645246	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001122679.1	+1	inferred	p.A1441	0.257	146	0%	89	18%	0	-	-	-	-	superfamily_Concanavalin A-like lectins/glucanases,superfamily_NHL repeat
ODZ2	57451	genome.wustl.edu	37	5	167671592	167671592	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001122679.1	+1	inferred	p.F1887L	0.993	55	0%	27	37%	0	-	benign(0.134)	deleterious(0.02)	neutral(0.395)	superfamily_Concanavalin A-like lectins/glucanases
ODZ2	57451	genome.wustl.edu	37	5	167689330	167689330	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001122679.1	+1	inferred	p.E2605K	1.000	48	0%	29	20.7%	1	0%	possibly_damaging(0.508)	tolerated(0.08)	deleterious(0.470)	NULL
RARS	5917	genome.wustl.edu	37	5	167924291	167924291	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_002887.3	+1	reviewed	p.D254Y	1.000	303	0%	125	24.8%	7	14.2%	probably_damaging(0.999)	deleterious(0)	deleterious(0.935)	HMMPfam_tRNA-synt_1d,superfamily_Nucleotidylyl transferase
SLIT3	6586	genome.wustl.edu	37	5	168212969	168212969	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_003062.2	-1	validated	p.N365S	1.000	175	0%	82	24.4%	4	0%	probably_damaging(0.997)	deleterious(0)	deleterious(0.911)	HMMPfam_LRR_1,HMMSmart_SM00369,HMMSmart_SM00365,superfamily_RNI-like
DOCK2	1794	genome.wustl.edu	37	5	169108833	169108833	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_004946.2	+1	validated	p.A186T	1.000	265	0.4%	60	11.7%	0	-	possibly_damaging(0.95)	tolerated(0.41)	neutral(0.409)	NULL
DOCK2	1794	genome.wustl.edu	37	5	169111249	169111249	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_004946.2	+1	validated	p.P219L	1.000	360	0%	107	29.9%	0	-	possibly_damaging(0.888)	tolerated(0.32)	neutral(0.371)	NULL
DOCK2	1794	genome.wustl.edu	37	5	169116301	169116301	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_004946.2	+1	validated	p.E269D	1.000	148	0%	35	11.4%	1	0%	benign(0.005)	tolerated(1)	-	NULL
DOCK2	1794	genome.wustl.edu	37	5	169135219	169135219	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_004946.2	+1	validated	p.R477H	0.996	258	0%	50	24%	0	-	benign(0.003)	tolerated(0.45)	neutral(0.012)	NULL
DOCK2	1794	genome.wustl.edu	37	5	169230162	169230162	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_004946.2	+1	validated	p.C885	0.460	161	0%	86	14%	0	-	-	-	-	NULL
LCP2	3937	genome.wustl.edu	37	5	169689734	169689734	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_005565.3	-1	reviewed	p.E277	0.392	322	0%	155	21.3%	6	0%	-	-	-	NULL
LCP2	3937	genome.wustl.edu	37	5	169697814	169697814	+	Missense_Mutation	SNP	A	A	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_005565.3	-1	reviewed	p.D144E	0.012	201	0%	201	28.9%	5	0%	probably_damaging(0.981)	tolerated(0.08)	deleterious(0.726)	NULL
STK10	6793	genome.wustl.edu	37	5	171471926	171471926	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_005990.3	-1	reviewed	p.A956V	0.999	94	0%	63	12.7%	6	0%	benign(0)	tolerated(0.5)	neutral(0.010)	NULL
STK10	6793	genome.wustl.edu	37	5	171481612	171481612	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_005990.3	-1	reviewed	p.A871	0.013	48	0%	41	19.5%	3	0%	-	-	-	NULL
CREBRF	153222	genome.wustl.edu	37	5	172513547	172513547	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_153607.2	+1	validated	p.R18Q	1.000	197	0%	60	26.7%	4	0%	benign(0.131)	tolerated(0.41)	neutral(0.026)	NULL
CREBRF	153222	genome.wustl.edu	37	5	172539316	172539316	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_153607.2	+1	validated	p.R539W	1.000	246	0.4%	96	25%	1	0%	probably_damaging(1)	deleterious(0)	deleterious(0.945)	PatternScan_BZIP_BASIC
BOD1	91272	genome.wustl.edu	37	5	173040161	173040161	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_138369.2	-1	validated	p.R112Q	1.000	495	0%	534	21.3%	29	10.3%	probably_damaging(0.987)	deleterious(0.01)	deleterious(0.842)	NULL
DRD1	1812	genome.wustl.edu	37	5	174869978	174869978	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_000794.3	-1	reviewed	p.T42K	1.000	57	0%	116	26.7%	0	-	possibly_damaging(0.852)	deleterious(0.04)	deleterious(0.676)	HMMPfam_7tm_1,superfamily_Family A G protein-coupled receptor-like
SFXN1	94081	genome.wustl.edu	37	5	174919150	174919150	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_022754.5	+1	validated	p.R15Q	1.000	172	0%	132	25.8%	3	0%	benign(0.102)	tolerated(0.1)	neutral(0.294)	NULL
HRH2	3274	genome.wustl.edu	37	5	175110994	175110994	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001131055.1	+1	reviewed	p.A253V	0.035	84	0%	70	20%	1	0%	benign(0)	tolerated(1)	-	HMMPfam_7tm_1,superfamily_SSF81321
THOC3	84321	genome.wustl.edu	37	5	175392070	175392070	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_032361.2	-1	validated	p.K171N	1.000	641	0.2%	770	13.5%	23	4.3%	benign(0.062)	deleterious(0.01)	neutral(0.410)	superfamily_WD40_like
C5orf25	375484	genome.wustl.edu	37	5	175772396	175772396	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_198567.4	+1	validated	p.A441V	0.024	89	0%	35	22.9%	8	0%	probably_damaging(0.996)	deleterious(0)	deleterious(0.906)	NULL
ARL10	285598	genome.wustl.edu	37	5	175793460	175793460	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_173664.4	+1	validated	p.G87	0.995	43	0%	83	22.9%	0	-	-	-	-	HMMPfam_Arf,superfamily_SSF52540
ARL10	285598	genome.wustl.edu	37	5	175795902	175795902	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_173664.4	+1	validated	p.R160W	0.996	39	0%	107	27.1%	2	0%	probably_damaging(0.99)	deleterious(0)	deleterious(0.886)	HMMPfam_Arf,superfamily_SSF52540
NOP16	51491	genome.wustl.edu	37	5	175812204	175812204	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	ENST00000509257	-1	known	p.P137	0.000	158	0%	146	34.2%	0	-	-	-	-	HMMPfam_Nop16
HIGD2A	192286	genome.wustl.edu	37	5	175815923	175815923	+	Missense_Mutation	SNP	T	T	G	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_138820.2	+1	provisional	p.F35V	0.999	126	0%	118	36.4%	296	17.5%	benign(0.002)	tolerated(0.21)	neutral(0.044)	HMMPfam_HIG_1_N
CLTB	1212	genome.wustl.edu	37	5	175824619	175824619	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	ENST00000310418	-1	known	p.K151N	0.998	265	0%	374	27.3%	241	32.3%	probably_damaging(0.998)	deleterious(0)	deleterious(0.919)	HMMPfam_Clathrin_lg_ch
RNF44	22838	genome.wustl.edu	37	5	175956244	175956244	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	ENST00000506378	-1	known	p.R182W	0.000	46	0%	68	29.4%	0	-	-	-	-	HMMSmart_SM00184
RNF44	22838	genome.wustl.edu	37	5	175957641	175957641	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_014901.4	-1	reviewed	p.S248L	0.969	14	0%	36	27.8%	4	25%	probably_damaging(0.998)	deleterious(0)	deleterious(0.919)	NULL
CDHR2	54825	genome.wustl.edu	37	5	175992692	175992692	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_017675.4	+1	reviewed	p.P24	0.000	68	0%	84	25%	0	-	-	-	-	superfamily_Cadherin
CDHR2	54825	genome.wustl.edu	37	5	176002181	176002181	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_017675.4	+1	reviewed	p.A198T	0.996	56	0%	89	22.5%	0	-	benign(0.002)	tolerated(0.24)	neutral(0.037)	HMMPfam_Cadherin,HMMSmart_CA,superfamily_Cadherin
CDHR2	54825	genome.wustl.edu	37	5	176004676	176004676	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_017675.4	+1	reviewed	p.V463	0.000	108	0%	133	28.6%	0	-	-	-	-	HMMSmart_CA,superfamily_Cadherin
CDHR2	54825	genome.wustl.edu	37	5	176011569	176011569	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_017675.4	+1	reviewed	p.D763N	0.223	32	0%	50	28%	0	-	probably_damaging(0.988)	tolerated(0.25)	deleterious(0.474)	HMMPfam_Cadherin,HMMSmart_CA,superfamily_Cadherin
CDHR2	54825	genome.wustl.edu	37	5	176016107	176016107	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_017675.4	+1	reviewed	p.G978R	0.131	113	0%	166	15.7%	0	-	probably_damaging(1)	deleterious(0.01)	deleterious(0.905)	HMMPfam_Cadherin,HMMSmart_CA,superfamily_Cadherin
CDHR2	54825	genome.wustl.edu	37	5	176017603	176017603	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_017675.4	+1	reviewed	p.L1152F	0.289	287	0%	390	25.4%	0	-	probably_damaging(0.99)	deleterious(0)	deleterious(0.886)	NULL
CDHR2	54825	genome.wustl.edu	37	5	176022611	176022611	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_017675.4	+1	reviewed	p.A1291T	0.000	61	0%	137	23.4%	0	-	benign(0)	tolerated(0.39)	neutral(0.016)	NULL
UNC5A	90249	genome.wustl.edu	37	5	176306788	176306788	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_133369.2	+1	validated	p.R810	1.000	35	0%	74	14.9%	0	-	-	-	-	HMMPfam_Death,HMMSmart_DEATH,superfamily_DEATH_like
HK3	3101	genome.wustl.edu	37	5	176318214	176318214	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	ENST00000509717	-1	known	p.S73Y	0.002	28	0%	49	38.8%	0	-	unknown(0)	-	-	NULL
UIMC1	51720	genome.wustl.edu	37	5	176370377	176370377	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_016290.3	-1	provisional	p.R519Q	0.384	394	0%	116	14.7%	32	3.1%	benign(0.011)	tolerated(0.56)	neutral(0.007)	NULL
ZNF346	23567	genome.wustl.edu	37	5	176468188	176468188	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_012279.2	+1	reviewed	p.C79	0.947	302	0%	117	27.4%	1	0%	-	-	-	HMMSmart_SM00451,PatternScan_ZINC_FINGER_C2H2_1,HMMSmart_SM00355
FGFR4	2264	genome.wustl.edu	37	5	176518094	176518094	+	Nonsense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_002011.3	+1	reviewed	p.G198*	1.000	124	0%	215	13.5%	0	-	-	-	-	HMMSmart_SM00408,HMMSmart_SM00409,HMMPfam_I-set,superfamily_Immunoglobulin
FGFR4	2264	genome.wustl.edu	37	5	176518689	176518689	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_002011.3	+1	reviewed	p.R203C	1.000	63	0%	134	16.4%	0	-	probably_damaging(1)	deleterious(0)	deleterious(0.945)	HMMSmart_SM00408,HMMSmart_SM00409,HMMPfam_I-set,superfamily_Immunoglobulin
NSD1	64324	genome.wustl.edu	37	5	176637034	176637034	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_022455.4	+1	reviewed	p.T545M	0.992	122	0%	62	35.5%	0	-	benign(0.275)	deleterious(0)	deleterious(0.474)	NULL
NSD1	64324	genome.wustl.edu	37	5	176639147	176639147	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_022455.4	+1	reviewed	p.K1249N	0.972	64	0%	37	21.6%	2	0%	possibly_damaging(0.949)	deleterious(0)	deleterious(0.838)	NULL
NSD1	64324	genome.wustl.edu	37	5	176665281	176665281	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_022455.4	+1	reviewed	p.R1322Q	0.949	126	0%	36	19.4%	3	0%	benign(0.006)	tolerated(0.28)	neutral(0.032)	NULL
NSD1	64324	genome.wustl.edu	37	5	176722138	176722138	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_022455.4	+1	reviewed	p.P2590L	0.999	58	0%	44	9.1%	17	17.6%	probably_damaging(0.995)	deleterious(0)	deleterious(0.902)	NULL
RAB24	53917	genome.wustl.edu	37	5	176729180	176729180	+	Splice_Site	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001031677.2	-1	validated	e6-1	1.000	130	0.8%	248	24.6%	34	23.5%	-	-	-	-
RAB24	53917	genome.wustl.edu	37	5	176730032	176730032	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001031677.2	-1	validated	p.R55Q	0.413	45	0%	118	36.4%	26	23%	benign(0.009)	tolerated(0.34)	neutral(0.024)	HMMSmart_RAB,HMMPfam_Ras,superfamily_SSF52540
F12	2161	genome.wustl.edu	37	5	176832968	176832968	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_000505.3	-1	reviewed	p.Q70	0.004	109	0%	196	25%	0	-	-	-	-	HMMPfam_fn2,HMMSmart_SM00059,PatternScan_FN2_1,superfamily_Kringle-like
F12	2161	genome.wustl.edu	37	5	176836473	176836473	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_000505.3	-1	reviewed	p.S19L	0.052	68	0%	73	27.4%	0	-	benign(0.321)	tolerated(0.37)	neutral(0.120)	NULL
DBN1	1627	genome.wustl.edu	37	5	176887488	176887488	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_080881.2	-1	reviewed	p.V302	0.614	196	0%	274	12.8%	104	9.6%	-	-	-	NULL
PROP1	5626	genome.wustl.edu	37	5	177420046	177420046	+	Silent	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_006261.4	-1	reviewed	p.V115	1.000	186	0%	292	15.4%	0	-	-	-	-	HMMPfam_Homeobox,HMMSmart_SM00389,superfamily_Homeodomain-like,PatternScan_HOMEOBOX_1
N4BP3	23138	genome.wustl.edu	37	5	177547598	177547598	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_015111.1	+1	validated	p.F250L	1.000	20	0%	43	20.9%	9	55.5%	probably_damaging(0.971)	tolerated(0.65)	neutral(0.416)	NULL
CLK4	57396	genome.wustl.edu	37	5	178050347	178050347	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_020666.2	-1	reviewed	p.R24H	0.983	621	0.2%	664	25%	4	0%	possibly_damaging(0.736)	tolerated(0.09)	deleterious(0.566)	NULL
ZNF354A	6940	genome.wustl.edu	37	5	178139970	178139970	+	Silent	SNP	A	A	G	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_005649.2	-1	validated	p.C303	1.000	172	0%	99	21.2%	1	0%	-	-	-	HMMPfam_zf-C2H2,PatternScan_ZINC_FINGER_C2H2_1,HMMSmart_ZnF_C2H2,superfamily_SSF57667
ZNF354A	6940	genome.wustl.edu	37	5	178152422	178152422	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_005649.2	-1	validated	p.D71Y	1.000	317	0%	401	22.2%	4	25%	probably_damaging(0.975)	deleterious(0.01)	deleterious(0.823)	HMMSmart_KRAB
ZNF354B	117608	genome.wustl.edu	37	5	178311078	178311078	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_058230.2	+1	validated	p.R542M	0.997	340	0.3%	165	14.5%	2	50%	probably_damaging(1)	deleterious(0)	deleterious(0.945)	HMMPfam_zf-C2H2,PatternScan_ZINC_FINGER_C2H2_1,HMMSmart_ZnF_C2H2,superfamily_SSF57667
ZNF354B	117608	genome.wustl.edu	37	5	178311278	178311278	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_058230.2	+1	validated	p.D609N	0.000	67	1.5%	49	14.3%	10	0%	benign(0)	tolerated(0.75)	neutral(0.002)	NULL
ZFP2	80108	genome.wustl.edu	37	5	178359134	178359134	+	Nonsense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_030613.2	+1	provisional	p.Q274*	0.988	173	0%	109	31.2%	1	0%	-	-	-	HMMPfam_zf-C2H2,PatternScan_ZINC_FINGER_C2H2_1,HMMSmart_SM00355,superfamily_C2H2 and C2HC zinc fingers
ZFP2	80108	genome.wustl.edu	37	5	178359223	178359223	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_030613.2	+1	provisional	p.C303	1.000	191	0%	124	33.9%	0	-	-	-	-	HMMPfam_zf-C2H2,PatternScan_ZINC_FINGER_C2H2_1,HMMSmart_SM00355,superfamily_C2H2 and C2HC zinc fingers
ENSG00000249299	0	genome.wustl.edu	37	5	178359846	178359846	+	RNA	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	ENST00000503510	-1	novel	NULL	0.045	9	0.000	17	0.294	3	33.3%	-	-	-	-
GRM6	2916	genome.wustl.edu	37	5	178413398	178413398	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_000843.3	-1	reviewed	p.S619	0.060	44	0%	74	21.6%	0	-	-	-	-	HMMPfam_7tm_3
GRM6	2916	genome.wustl.edu	37	5	178413683	178413683	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_000843.3	-1	reviewed	p.P524	0.011	28	0%	43	30.2%	0	-	-	-	-	HMMPfam_NCD3G,superfamily_SSF53822
ZNF354C	30832	genome.wustl.edu	37	5	178505729	178505729	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_014594.1	+1	provisional	p.D99G	0.000	144	0%	46	23.9%	0	-	benign(0)	tolerated(0.27)	neutral(0.034)	NULL
ZNF354C	30832	genome.wustl.edu	37	5	178506330	178506330	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_014594.1	+1	provisional	p.P299	0.755	206	0%	78	17.9%	0	-	-	-	-	superfamily_SSF57667
ADAMTS2	9509	genome.wustl.edu	37	5	178552110	178552110	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_014244.2	-1	reviewed	p.R941H	1.000	28	0%	58	19%	4	0%	probably_damaging(0.987)	tolerated(0.44)	neutral(0.449)	HMMPfam_TSP_1,HMMSmart_SM00209,superfamily_TSP-1 type 1 repeat
ADAMTS2	9509	genome.wustl.edu	37	5	178556936	178556936	+	Silent	SNP	A	A	C	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_014244.2	-1	reviewed	p.V818	0.022	74	0%	110	11.8%	3	0%	-	-	-	HMMPfam_ADAM_spacer1
ADAMTS2	9509	genome.wustl.edu	37	5	178634615	178634615	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_014244.2	-1	reviewed	p.D264N	0.486	43	0%	59	16.9%	3	0%	benign(0.418)	tolerated(0.76)	neutral(0.137)	"superfamily_Metalloproteases (""zincins"") catalytic domain"
LOC100289470	100289470	genome.wustl.edu	37	5	178951587	178951587	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	XM_002342585.1	+1	model	p.R210W	0.001	313	0%	329	13.1%	0	-	-	-	-	NULL
C5orf60	285679	genome.wustl.edu	37	5	179069889	179069889	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001142306.1	-1	provisional	p.S222G	0.004	323	0%	397	12.1%	0	-	benign(0.014)	tolerated(0.15)	neutral(0.241)	NULL
C5orf60	285679	genome.wustl.edu	37	5	179069990	179069990	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001142306.1	-1	provisional	p.S188Y	0.000	216	0%	275	27.3%	0	-	benign(0)	tolerated(0.07)	neutral(0.319)	NULL
CANX	821	genome.wustl.edu	37	5	179136891	179136891	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001024649.1	+1	reviewed	p.K182N	1.000	322	0%	236	19.9%	45	2.2%	benign(0.267)	tolerated(0.15)	neutral(0.269)	HMMPfam_Calreticulin,superfamily_Concanavalin A-like lectins/glucanases
MAML1	9794	genome.wustl.edu	37	5	179192533	179192533	+	Missense_Mutation	SNP	G	G	C	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_014757.4	+1	reviewed	p.Q174H	0.002	74	0%	59	23.7%	0	-	benign(0.038)	deleterious(0.02)	neutral(0.385)	NULL
SQSTM1	8878	genome.wustl.edu	37	5	179250038	179250038	+	Nonsense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_003900.4	+1	reviewed	p.R96*	1.000	247	0%	314	16.2%	105	0%	-	-	-	HMMPfam_PB1,HMMSmart_SM00666,superfamily_CAD  PB1 domains
C5orf45	51149	genome.wustl.edu	37	5	179271182	179271182	+	Silent	SNP	T	T	C	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_016175.3	-1	validated	p.G87	0.000	193	0%	207	20.8%	13	0%	-	-	-	NULL
TBC1D9B	23061	genome.wustl.edu	37	5	179292281	179292281	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_198868.2	-1	validated	p.T1015	0.069	228	0%	341	25.8%	31	16.1%	-	-	-	NULL
TBC1D9B	23061	genome.wustl.edu	37	5	179302123	179302123	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_198868.2	-1	validated	p.E655D	1.000	54	0%	75	22.7%	18	16.6%	benign(0.362)	tolerated(0.65)	neutral(0.118)	HMMPfam_TBC,HMMSmart_SM00164,superfamily_Ypt/Rab-GAP domain of gyp1p
TBC1D9B	23061	genome.wustl.edu	37	5	179318572	179318572	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_198868.2	-1	validated	p.R284Q	0.998	66	0%	58	22.4%	5	0%	probably_damaging(1)	tolerated(0.05)	deleterious(0.845)	NULL
RNF130	55819	genome.wustl.edu	37	5	179393827	179393827	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_018434.4	-1	reviewed	p.E377K	1.000	218	0%	195	16.4%	196	6.1%	possibly_damaging(0.848)	deleterious(0.01)	deleterious(0.731)	NULL
RNF130	55819	genome.wustl.edu	37	5	179440209	179440209	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_018434.4	-1	reviewed	p.G182V	0.999	207	0%	52	19.2%	57	3.5%	probably_damaging(1)	deleterious(0)	deleterious(0.945)	superfamily_SSF52025
GFPT2	9945	genome.wustl.edu	37	5	179745905	179745905	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_005110.2	-1	provisional	p.I282	0.405	77	0%	84	14.3%	5	0%	-	-	-	superfamily_SSF56235
GFPT2	9945	genome.wustl.edu	37	5	179765502	179765502	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_005110.2	-1	provisional	p.D36N	1.000	64	0%	59	16.9%	2	0%	probably_damaging(1)	deleterious(0)	deleterious(0.945)	HMMPfam_GATase_2,superfamily_SSF56235
MGAT1	4245	genome.wustl.edu	37	5	180218780	180218780	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001114617.1	-1	reviewed	p.A398T	1.000	77	0%	129	25.6%	48	10.4%	possibly_damaging(0.62)	tolerated(0.26)	neutral(0.250)	HMMPfam_GNT-I,superfamily_SSF53448
LOC100289003	100289003	genome.wustl.edu	37	5	180218889	180218889	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	XM_002342577.1	+1	model	p.A344T	0.351	57	0%	118	27.1%	50	2%	-	-	-	NULL
BTNL8	79908	genome.wustl.edu	37	5	180335641	180335641	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001040462.2	+1	validated	p.D35	0.004	89	0%	89	15.7%	0	-	-	-	-	HMMSmart_SM00409,HMMPfam_V-set,superfamily_Immunoglobulin
BTNL8	79908	genome.wustl.edu	37	5	180374631	180374631	+	Nonsense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_024850.2	+1	validated	p.R265*	0.021	287	0%	98	22.4%	0	-	-	-	-	NULL
TRIM7	81786	genome.wustl.edu	37	5	180625197	180625197	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_203293.1	-1	reviewed	p.E337G	1.000	310	0%	458	21%	0	-	benign(0.001)	tolerated(0.24)	neutral(0.037)	NULL
TRIM7	81786	genome.wustl.edu	37	5	180630635	180630635	+	Silent	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_203293.1	-1	reviewed	p.L176	0.872	165	0%	198	26.3%	2	0%	-	-	-	NULL
TRIM41	90933	genome.wustl.edu	37	5	180651150	180651150	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_033549.3	+1	validated	p.E51K	1.000	60	0%	130	25.4%	2	0%	unknown(0)	deleterious(0)	-	HMMSmart_SM00184,superfamily_RING/U-box
TRIM41	90933	genome.wustl.edu	37	5	180661715	180661715	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_033549.3	+1	validated	p.E611	1.000	67	0%	127	11.8%	12	0%	-	-	-	HMMPfam_SPRY,HMMSmart_SM00449
IRF4	3662	genome.wustl.edu	37	6	397188	397188	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_002460.2	+1	validated	p.P191	0.051	77	0%	113	28.3%	0	-	-	-	-	NULL
EXOC2	55770	genome.wustl.edu	37	6	629907	629907	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_018303.4	-1	reviewed	p.R117H	1.000	270	0.7%	121	22.3%	0	-	probably_damaging(1)	tolerated(0.08)	deleterious(0.800)	NULL
FOXF2	2295	genome.wustl.edu	37	6	1395009	1395009	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001452.1	+1	reviewed	p.S417F	1.000	382	0%	591	25%	0	-	probably_damaging(0.981)	deleterious(0)	deleterious(0.870)	NULL
FOXC1	2296	genome.wustl.edu	37	6	1611048	1611048	+	Missense_Mutation	SNP	A	A	C	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001453.2	+1	reviewed	p.Q123P	1.000	67	0%	132	11.4%	0	-	probably_damaging(0.999)	deleterious(0)	deleterious(0.935)	HMMPfam_Fork_head,HMMSmart_FH,PatternScan_FORK_HEAD_2,superfamily_SSF46785
MYLK4	340156	genome.wustl.edu	37	6	2679681	2679681	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	ENST00000268446	-1	known	p.I241	0.000	130	0.8%	62	21%	0	-	-	-	-	HMMSmart_SM00219,HMMSmart_SM00220,superfamily_Protein kinase-like (PK-like),HMMPfam_Pkinase
NQO2	4835	genome.wustl.edu	37	6	3010309	3010309	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_000904.3	+1	validated	p.G20R	0.507	150	0%	150	21.3%	25	44%	possibly_damaging(0.949)	deleterious(0.03)	deleterious(0.758)	HMMPfam_Flavodoxin_2,superfamily_Flavoproteins
NQO2	4835	genome.wustl.edu	37	6	3010360	3010360	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_000904.3	+1	validated	p.V37I	0.992	140	0%	101	29.7%	20	25%	possibly_damaging(0.642)	deleterious(0.04)	deleterious(0.574)	HMMPfam_Flavodoxin_2,superfamily_Flavoproteins
RIPK1	8737	genome.wustl.edu	37	6	3106171	3106171	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_003804.3	+1	validated	p.V488F	0.009	101	0%	69	14.5%	3	0%	possibly_damaging(0.654)	tolerated(0.1)	deleterious(0.516)	NULL
BPHL	670	genome.wustl.edu	37	6	3119668	3119668	+	RNA	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NR_026648.1	+1	reviewed	NULL	0.009	305	0%	519	25%	0	-	-	-	-	-
TUBB2A	7280	genome.wustl.edu	37	6	3154823	3154823	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001069.2	-1	validated	p.N204	0.985	167	0%	272	16.5%	69	2.8%	-	-	-	HMMPfam_Tubulin,superfamily_Tubulin nucleotide-binding domain-like
FAM50B	26240	genome.wustl.edu	37	6	3850483	3850483	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_012135.1	+1	provisional	p.P146	0.655	12	0%	23	21.7%	3	0%	-	-	-	HMMPfam_XAP5
PRPF4B	8899	genome.wustl.edu	37	6	4032697	4032697	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_003913.4	+1	reviewed	p.R316W	0.960	104	0%	71	11.3%	2	0%	probably_damaging(1)	deleterious(0)	deleterious(0.945)	NULL
FAM217A	222826	genome.wustl.edu	37	6	4069647	4069647	+	Missense_Mutation	SNP	G	G	C	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_173563.1	-1	predicted	p.D270E	0.398	390	0%	270	12.6%	0	-	benign(0.004)	tolerated(1)	-	NULL
ECI2	10455	genome.wustl.edu	37	6	4125529	4125529	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_006117.2	-1	validated	p.S220	0.088	143	0%	121	24.8%	60	30%	-	-	-	HMMPfam_ECH,superfamily_SSF52096
CDYL	9425	genome.wustl.edu	37	6	4935807	4935807	+	Silent	SNP	T	T	C	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_004824.3	+1	reviewed	p.S250	0.830	107	0%	42	19%	6	0%	-	-	-	NULL
CDYL	9425	genome.wustl.edu	37	6	4943876	4943876	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_004824.3	+1	reviewed	p.C406	0.991	344	0%	230	11.3%	9	11.1%	-	-	-	HMMPfam_ECH,superfamily_SSF52096
RPP40	10799	genome.wustl.edu	37	6	4995396	4995396	+	Missense_Mutation	SNP	T	T	G	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_006638.2	-1	validated	p.E336D	1.000	203	0%	168	29.2%	25	24%	probably_damaging(0.967)	tolerated(0.4)	neutral(0.425)	HMMPfam_Ribonuc_P_40
RPP40	10799	genome.wustl.edu	37	6	4996538	4996538	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_006638.2	-1	validated	p.E226K	0.000	125	0%	63	27%	14	35.7%	benign(0.001)	tolerated(0.64)	neutral(0.003)	HMMPfam_Ribonuc_P_40
RPP40	10799	genome.wustl.edu	37	6	5002393	5002393	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_006638.2	-1	validated	p.K70	1.000	407	0%	530	11.5%	2	0%	-	-	-	NULL
F13A1	2162	genome.wustl.edu	37	6	6251104	6251104	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_000129.3	-1	reviewed	p.I210	0.576	378	0%	83	26.5%	2	0%	-	-	-	superfamily_SSF54001
RREB1	6239	genome.wustl.edu	37	6	7229401	7229401	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001003699.3	+1	reviewed	p.A357T	0.000	25	0%	43	14%	1	100%	benign(0)	tolerated(0.31)	neutral(0.027)	NULL
CAGE1	285782	genome.wustl.edu	37	6	7327129	7327129	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_205864.2	-1	validated	p.P630S	0.489	286	0%	174	28.2%	0	-	possibly_damaging(0.949)	tolerated(0.89)	neutral(0.393)	NULL
RIOK1	83732	genome.wustl.edu	37	6	7405481	7405481	+	Splice_Site	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_031480.2	+1	reviewed	e12-1	1.000	215	0%	83	15.7%	1	100%	-	-	-	-
DSP	1832	genome.wustl.edu	37	6	7565703	7565703	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_004415.2	+1	reviewed	p.D297N	1.000	119	0%	48	18.8%	2	50%	probably_damaging(0.998)	deleterious(0)	deleterious(0.919)	HMMSmart_SM00150,superfamily_Spectrin repeat
DSP	1832	genome.wustl.edu	37	6	7570686	7570686	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_004415.2	+1	reviewed	p.E531K	1.000	150	0%	59	25.4%	4	0%	possibly_damaging(0.548)	deleterious(0.01)	deleterious(0.592)	superfamily_Spectrin repeat
DSP	1832	genome.wustl.edu	37	6	7580622	7580622	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_004415.2	+1	reviewed	p.R1400Q	0.434	160	0%	136	25%	0	-	possibly_damaging(0.793)	tolerated(1)	neutral(0.298)	NULL
DSP	1832	genome.wustl.edu	37	6	7583631	7583631	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_004415.2	+1	reviewed	p.V2046I	0.762	56	0%	82	30.5%	2	0%	benign(0.008)	tolerated(0.91)	-	HMMPfam_Plectin,HMMSmart_SM00250,superfamily_Plakin repeat
SNRNP48	154007	genome.wustl.edu	37	6	7602962	7602962	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_152551.3	+1	validated	p.K234N	1.000	231	0%	111	17.1%	4	25%	probably_damaging(1)	deleterious(0.01)	deleterious(0.905)	NULL
EEF1E1	9521	genome.wustl.edu	37	6	8090499	8090499	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_004280.4	-1	reviewed	p.L102I	1.000	171	0%	114	14.9%	29	0%	probably_damaging(1)	deleterious(0.03)	deleterious(0.865)	HMMPfam_GST_C,superfamily_GST_C_like
TFAP2A	7020	genome.wustl.edu	37	6	10400787	10400787	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_003220.2	-1	reviewed	p.V307M	1.000	214	0%	321	24.6%	13	15.3%	possibly_damaging(0.687)	deleterious(0)	deleterious(0.690)	HMMPfam_TF_AP-2
TFAP2A	7020	genome.wustl.edu	37	6	10410244	10410244	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_003220.2	-1	reviewed	p.R124C	1.000	60	0%	99	29.3%	6	16.6%	probably_damaging(0.99)	deleterious(0)	deleterious(0.886)	NULL
GCNT2	2651	genome.wustl.edu	37	6	10586489	10586489	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_145655.3	+1	reviewed	p.S89	0.000	215	0.5%	86	22.1%	0	-	-	-	-	NULL
C6orf52	347744	genome.wustl.edu	37	6	10687314	10687314	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001145020.1	-1	provisional	p.G52D	0.002	150	0%	61	23%	8	50%	benign(0.002)	tolerated(0.63)	neutral(0.004)	NULL
PAK1IP1	55003	genome.wustl.edu	37	6	10702630	10702630	+	Silent	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_017906.2	+1	validated	p.G92	0.998	267	0%	114	28.1%	12	16.6%	-	-	-	HMMSmart_WD40,superfamily_WD40_like,HMMPfam_WD40
GCM2	9247	genome.wustl.edu	37	6	10874564	10874564	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_004752.3	-1	reviewed	p.Q395	0.999	336	0%	260	13.8%	0	-	-	-	-	NULL
LOC100288888	100288888	genome.wustl.edu	37	6	10882012	10882012	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	XM_002342614.1	+1	model	p.R156C	0.000	30	0%	27	18.5%	0	-	-	-	-	NULL
SYCP2L	221711	genome.wustl.edu	37	6	10961771	10961771	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001040274.2	+1	validated	p.F798L	1.000	318	0%	133	25.6%	0	-	possibly_damaging(0.945)	deleterious(0)	deleterious(0.834)	NULL
ELOVL2	54898	genome.wustl.edu	37	6	10984140	10984140	+	Splice_Site	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_017770.3	-1	validated	e8-1	1.000	620	0%	229	13.1%	0	-	-	-	-	-
ELOVL2	54898	genome.wustl.edu	37	6	10995312	10995312	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_017770.3	-1	validated	p.L145I	1.000	336	0%	93	33.3%	0	-	probably_damaging(1)	deleterious(0)	deleterious(0.945)	HMMPfam_ELO,PatternScan_ELO
ELOVL2	54898	genome.wustl.edu	37	6	11011037	11011037	+	Silent	SNP	A	A	G	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_017770.3	-1	validated	p.H3	0.826	232	0%	43	20.9%	0	-	-	-	-	NULL
ERVFRD-1	405754	genome.wustl.edu	37	6	11103978	11103978	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_207582.2	-1	validated	p.T522	0.001	194	0%	103	33%	0	-	-	-	-	NULL
NEDD9	4739	genome.wustl.edu	37	6	11193886	11193886	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001142393.1	-1	validated	p.E167K	1.000	232	0%	102	10.8%	3	66.6%	benign(0.102)	deleterious(0.01)	neutral(0.414)	NULL
HIVEP1	3096	genome.wustl.edu	37	6	12125060	12125060	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_002114.2	+1	validated	p.P1678T	1.000	155	0%	84	16.7%	0	-	probably_damaging(1)	deleterious(0)	deleterious(0.945)	NULL
HIVEP1	3096	genome.wustl.edu	37	6	12163944	12163944	+	Silent	SNP	C	C	T	rs143661710	by1000genomes	TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_002114.2	+1	validated	p.I2469	0.000	113	0%	65	24.6%	6	0%	-	-	-	NULL
TBC1D7	51256	genome.wustl.edu	37	6	13316875	13316875	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001143964.1	-1	validated	p.V149	0.000	394	0.3%	171	25.1%	25	20%	-	-	-	NULL
TBC1D7	51256	genome.wustl.edu	37	6	13327111	13327111	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001143964.1	-1	validated	p.R7K	1.000	303	0%	474	19.8%	2	100%	probably_damaging(0.999)	deleterious(0)	deleterious(0.935)	NULL
GFOD1	54438	genome.wustl.edu	37	6	13365113	13365113	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_018988.2	-1	provisional	p.C345	0.997	31	0%	65	23.1%	2	0%	-	-	-	NULL
GFOD1	54438	genome.wustl.edu	37	6	13470382	13470382	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_033069.2	-1	predicted	p.T44I	0.000	129	0%	52	32.7%	0	-	unknown(0)	-	-	NULL
SIRT5	23408	genome.wustl.edu	37	6	13612045	13612045	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_012241.3	+1	reviewed	p.G294E	0.995	552	0%	670	18.2%	12	33.3%	probably_damaging(1)	tolerated(0.08)	deleterious(0.800)	superfamily_DHS-like NAD/FAD-binding domain
NOL7	51406	genome.wustl.edu	37	6	13615974	13615974	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	ENST00000420088	+1	known	p.A37T	1.000	145	0%	208	28.8%	54	33.3%	-	-	-	NULL
ATXN1	6310	genome.wustl.edu	37	6	16328251	16328251	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_000332.3	-1	reviewed	p.P97	0.347	41	0%	112	12.5%	2	50%	-	-	-	NULL
RBM24	221662	genome.wustl.edu	37	6	17281911	17281911	+	Silent	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001143942.1	+1	validated	p.V33	0.935	23	0%	43	25.6%	1	0%	-	-	-	HMMPfam_RRM_1,HMMSmart_SM00360,superfamily_RNA-binding domain RBD
NUP153	9972	genome.wustl.edu	37	6	17616370	17616370	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_005124.2	-1	reviewed	p.F1462L	0.998	240	0.4%	88	12.5%	12	8.3%	benign(0)	tolerated(0.46)	neutral(0.012)	HMMPfam_Nup_retrotrp_bd
NUP153	9972	genome.wustl.edu	37	6	17629013	17629013	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_005124.2	-1	reviewed	p.E1139	1.000	272	0%	57	24.6%	3	0%	-	-	-	NULL
NUP153	9972	genome.wustl.edu	37	6	17637988	17637988	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_005124.2	-1	reviewed	p.P620	0.019	199	0%	73	24.7%	3	0%	-	-	-	HMMPfam_Nup153
KIF13A	63971	genome.wustl.edu	37	6	17764843	17764843	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_022113.4	-1	validated	p.S1639L	0.013	223	0%	96	24%	9	11.1%	benign(0.039)	deleterious(0.01)	neutral(0.408)	NULL
KIF13A	63971	genome.wustl.edu	37	6	17781111	17781111	+	Silent	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	ENST00000358380	-1	known	p.P626H	0.986	327	0%	171	25.7%	2	0%	-	-	-	NULL
KDM1B	221656	genome.wustl.edu	37	6	18213975	18213975	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_153042.3	+1	validated	p.R459Q	1.000	401	0%	117	16.2%	0	-	probably_damaging(0.999)	deleterious(0.01)	deleterious(0.896)	HMMPfam_Amino_oxidase,superfamily_SSF51905,superfamily_SSF54373
CDKAL1	54901	genome.wustl.edu	37	6	21065312	21065312	+	Silent	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_017774.3	+1	reviewed	p.I363	1.000	293	0%	80	33.8%	3	33.3%	-	-	-	HMMSmart_SM00729,HMMPfam_Radical_SAM,superfamily_Radical SAM enzymes
NRSN1	140767	genome.wustl.edu	37	6	24146120	24146120	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_080723.4	+1	validated	p.K178N	1.000	141	0%	43	25.6%	0	-	possibly_damaging(0.952)	deleterious(0)	deleterious(0.840)	NULL
DCDC2	51473	genome.wustl.edu	37	6	24291216	24291216	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_016356.3	-1	reviewed	p.K216N	1.000	438	0%	203	13.3%	2	50%	probably_damaging(1)	deleterious(0)	deleterious(0.945)	HMMPfam_DCX,HMMSmart_SM00537,superfamily_Doublecortin (DC)
ALDH5A1	7915	genome.wustl.edu	37	6	24503518	24503518	+	Nonsense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_170740.1	+1	reviewed	p.E156*	1.000	118	0%	92	27.2%	1	0%	-	-	-	HMMPfam_Aldedh,superfamily_ALDH-like
KIAA0319	9856	genome.wustl.edu	37	6	24588919	24588919	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_014809.3	-1	reviewed	p.S299I	0.000	205	0%	90	13.3%	0	-	benign(0.338)	deleterious(0.01)	deleterious(0.512)	NULL
TDP2	51567	genome.wustl.edu	37	6	24651165	24651165	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_016614.2	-1	reviewed	p.R314C	1.000	324	0%	334	25.7%	6	0%	probably_damaging(1)	deleterious(0)	deleterious(0.945)	HMMPfam_Exo_endo_phos,superfamily_Exo_endo_phos
FAM65B	9750	genome.wustl.edu	37	6	24828518	24828518	+	Nonsense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_014722.2	-1	validated	p.R859*	0.238	78	1.3%	51	23.5%	3	0%	-	-	-	NULL
SCGN	10590	genome.wustl.edu	37	6	25661856	25661856	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_006998.3	+1	reviewed	p.R77H	0.009	362	0%	215	21.9%	0	-	benign(0.008)	deleterious(0.03)	neutral(0.364)	superfamily_EF-hand
HIST1H2AA	221613	genome.wustl.edu	37	6	25726524	25726524	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_170745.3	-1	reviewed	p.R78C	0.898	652	0%	382	22.3%	0	-	probably_damaging(1)	deleterious(0)	deleterious(0.945)	HMMSmart_H2A,HMMPfam_Histone,superfamily_Histone-fold
SLC17A4	10050	genome.wustl.edu	37	6	25770524	25770524	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_005495.2	+1	validated	p.A176V	0.005	335	0%	73	16.4%	0	-	benign(0.007)	tolerated(0.09)	neutral(0.296)	HMMPfam_MFS_1,superfamily_MFS general substrate transporter
SLC17A3	10786	genome.wustl.edu	37	6	25862064	25862064	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001098486.1	-1	validated	p.V166A	0.000	231	0%	78	15.4%	0	-	benign(0)	tolerated(1)	-	HMMPfam_MFS_1,superfamily_MFS_gen_substrate_transporter
SLC17A3	10786	genome.wustl.edu	37	6	25862531	25862531	+	Missense_Mutation	SNP	T	T	G	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001098486.1	-1	validated	p.D78A	0.000	288	0%	52	23.1%	0	-	benign(0)	tolerated(0.76)	neutral(0.001)	HMMPfam_MFS_1,superfamily_MFS_gen_substrate_transporter
SLC17A2	10246	genome.wustl.edu	37	6	25915985	25915985	+	Nonsense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_005835.2	-1	validated	p.R348*	0.986	137	0%	54	14.8%	0	-	-	-	-	NULL
TRIM38	10475	genome.wustl.edu	37	6	25972210	25972210	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_006355.2	+1	reviewed	p.Q207H	0.000	194	0%	74	21.6%	8	12.5%	probably_damaging(0.99)	tolerated(0.06)	deleterious(0.764)	NULL
HIST1H1A	3024	genome.wustl.edu	37	6	26017380	26017380	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_005325.3	-1	reviewed	p.A194V	0.862	290	0%	457	30.9%	0	-	unknown(0)	tolerated(0.44)	-	NULL
HIST1H1A	3024	genome.wustl.edu	37	6	26017482	26017482	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_005325.3	-1	reviewed	p.A160V	0.942	475	0%	701	11.8%	0	-	unknown(0)	deleterious(0.01)	-	NULL
HIST1H1A	3024	genome.wustl.edu	37	6	26017923	26017923	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_005325.3	-1	reviewed	p.A13V	0.014	35	0%	49	10.2%	0	-	unknown(0)	deleterious(0.04)	-	NULL
HIST1H2AB	8335	genome.wustl.edu	37	6	26033753	26033753	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_003513.2	-1	reviewed	p.A15V	1.000	77	0%	99	14.1%	2	0%	unknown(0)	deleterious(0.04)	-	HMMSmart_SM00414,superfamily_Histone-fold
HIST1H1E	3008	genome.wustl.edu	37	6	26157090	26157090	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_005321.2	+1	reviewed	p.A158T	0.930	31	0%	67	23.9%	4	25%	unknown(0)	tolerated(0.05)	-	NULL
HIST1H1D	3007	genome.wustl.edu	37	6	26234598	26234598	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_005320.2	-1	reviewed	p.K188N	1.000	262	0%	177	32.2%	1	0%	unknown(0)	deleterious(0.02)	-	NULL
BTN3A3	10384	genome.wustl.edu	37	6	26444393	26444393	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_006994.4	+1	validated	p.S98	0.000	490	0%	181	9.4%	3	0%	-	-	-	HMMSmart_IG,HMMPfam_V-set,superfamily_SSF48726
BTN3A3	10384	genome.wustl.edu	37	6	26446179	26446179	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_006994.4	+1	validated	p.L227	0.000	255	0%	70	14.3%	3	0%	-	-	-	superfamily_SSF48726
BTN1A1	696	genome.wustl.edu	37	6	26506947	26506947	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001732.2	+1	validated	p.A249D	0.147	229	0%	226	25.2%	0	-	possibly_damaging(0.932)	deleterious(0.02)	deleterious(0.762)	NULL
BTN1A1	696	genome.wustl.edu	37	6	26509000	26509000	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001732.2	+1	validated	p.F393L	1.000	194	0%	214	11.7%	0	-	possibly_damaging(0.775)	deleterious(0.01)	deleterious(0.694)	HMMPfam_SPRY,HMMSmart_SM00449
BTN1A1	696	genome.wustl.edu	37	6	26509240	26509240	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001732.2	+1	validated	p.C473	0.997	119	0%	95	20%	0	-	-	-	-	HMMPfam_SPRY,HMMSmart_SM00449
HMGN4	10473	genome.wustl.edu	37	6	26545568	26545568	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_006353.2	+1	reviewed	p.S45Y	0.636	147	0%	168	23.8%	14	7.1%	benign(0.009)	deleterious(0)	neutral(0.445)	HMMPfam_HMG14_17,HMMSmart_SM00527
ABT1	29777	genome.wustl.edu	37	6	26598655	26598655	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_013375.2	+1	reviewed	p.D201N	0.926	59	0%	92	22.8%	24	16.6%	possibly_damaging(0.642)	tolerated(0.28)	neutral(0.257)	NULL
POM121L2	94026	genome.wustl.edu	37	6	27276864	27276864	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	ENST00000444565	-1	known	p.R1029M	0.412	278	0%	210	28.1%	0	-	benign(0.425)	deleterious(0)	deleterious(0.583)	NULL
POM121L2	94026	genome.wustl.edu	37	6	27277961	27277961	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	ENST00000444565	-1	known	p.D663	0.002	199	0%	209	24.4%	0	-	-	-	-	NULL
POM121L2	94026	genome.wustl.edu	37	6	27279201	27279201	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	ENST00000444565	-1	known	p.S250N	0.014	70	0%	87	27.6%	0	-	benign(0.044)	tolerated(0.26)	neutral(0.037)	NULL
POM121L2	94026	genome.wustl.edu	37	6	27279679	27279679	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	ENST00000444565	-1	known	p.P91S	0.065	66	0%	79	29.1%	0	-	benign(0.115)	tolerated(0.62)	neutral(0.013)	NULL
ZNF391	346157	genome.wustl.edu	37	6	27368801	27368801	+	Nonsense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001076781.1	+1	validated	p.E218*	1.000	215	0%	132	29.5%	2	0%	-	-	-	superfamily_C2H2 and C2HC zinc fingers
ZNF184	7738	genome.wustl.edu	37	6	27420083	27420083	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_007149.2	-1	validated	p.E419K	0.005	338	0%	126	26.2%	3	0%	possibly_damaging(0.711)	tolerated(0.32)	neutral(0.281)	HMMPfam_zf-C2H2,HMMSmart_SM00355,superfamily_C2H2 and C2HC zinc fingers
HIST1H3I	8354	genome.wustl.edu	37	6	27839884	27839884	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_003533.2	-1	reviewed	p.R70	0.220	102	0%	165	24.2%	1	100%	-	-	-	HMMSmart_SM00428,PatternScan_HISTONE_H3_2,HMMPfam_Histone,superfamily_Histone-fold
HIST1H3J	8356	genome.wustl.edu	37	6	27858296	27858296	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_003535.2	-1	reviewed	p.A92V	1.000	49	0%	51	27.5%	1	0%	probably_damaging(0.995)	-	-	HMMSmart_SM00428,HMMPfam_Histone,superfamily_Histone-fold
OR2B2	81697	genome.wustl.edu	37	6	27879636	27879636	+	Missense_Mutation	SNP	G	G	C	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_033057.2	-1	validated	p.S154R	0.000	112	0%	63	28.6%	0	-	possibly_damaging(0.87)	tolerated(0.29)	neutral(0.367)	HMMPfam_7tm_1,superfamily_Family A G protein-coupled receptor-like
ZSCAN16	80345	genome.wustl.edu	37	6	28097486	28097486	+	Missense_Mutation	SNP	T	T	G	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_025231.1	+1	provisional	p.C269G	0.998	204	0%	150	16.7%	12	41.6%	probably_damaging(1)	deleterious(0.01)	deleterious(0.905)	HMMPfam_zf-C2H2,PatternScan_ZINC_FINGER_C2H2_1,HMMSmart_ZnF_C2H2,superfamily_SSF57667
ZNF192P1	651302	genome.wustl.edu	37	6	28134377	28134377	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001145129.1	+1	provisional	p.D14G	0.002	142	0%	95	30.5%	1	0%	-	-	-	NULL
ZNF193	7746	genome.wustl.edu	37	6	28194911	28194911	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_006299.3	+1	provisional	p.E17K	0.000	86	0%	95	29.5%	4	50%	benign(0.002)	tolerated(0.07)	neutral(0.319)	NULL
ZKSCAN4	387032	genome.wustl.edu	37	6	28213513	28213513	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_019110.3	-1	provisional	p.R340I	0.996	356	0%	284	25%	1	100%	probably_damaging(0.994)	tolerated(0.05)	deleterious(0.797)	HMMPfam_zf-C2H2,PatternScan_ZINC_FINGER_C2H2_1,HMMSmart_ZnF_C2H2,superfamily_SSF57667
NKAPL	222698	genome.wustl.edu	37	6	28227727	28227727	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001007531.1	+1	provisional	p.S193L	0.032	53	0%	50	10%	0	-	unknown(0)	deleterious(0.03)	-	NULL
PGBD1	84547	genome.wustl.edu	37	6	28251796	28251796	+	Missense_Mutation	SNP	G	G	C	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_032507.3	+1	reviewed	p.C69S	0.684	138	0%	194	12.9%	2	0%	probably_damaging(0.957)	deleterious(0)	deleterious(0.845)	HMMPfam_SCAN,HMMSmart_SCAN
PGBD1	84547	genome.wustl.edu	37	6	28254904	28254904	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_032507.3	+1	reviewed	p.D201Y	0.020	233	0%	258	27.1%	2	0%	probably_damaging(0.981)	deleterious(0)	deleterious(0.870)	NULL
PGBD1	84547	genome.wustl.edu	37	6	28268604	28268604	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_032507.3	+1	reviewed	p.R325C	0.617	128	0%	31	41.9%	4	50%	probably_damaging(0.997)	deleterious(0)	deleterious(0.911)	NULL
ZNF323	64288	genome.wustl.edu	37	6	28293992	28293992	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001135215.1	-1	validated	p.R391Q	0.000	372	0%	119	23.5%	6	33.3%	possibly_damaging(0.909)	tolerated(0.31)	neutral(0.389)	HMMPfam_zf-C2H2,PatternScan_ZINC_FINGER_C2H2_1,HMMSmart_ZnF_C2H2,superfamily_SSF57667
ZKSCAN3	80317	genome.wustl.edu	37	6	28331539	28331539	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_024493.2	+1	validated	p.G235E	0.011	262	0%	185	29.7%	1	0%	benign(0.086)	tolerated(0.06)	neutral(0.329)	HMMPfam_KRAB,HMMSmart_KRAB,superfamily_Krueppel-associated_box
GPX6	257202	genome.wustl.edu	37	6	28472190	28472190	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_182701.1	-1	reviewed	p.N182S	1.000	241	0%	361	23.8%	0	-	probably_damaging(0.982)	deleterious(0.04)	deleterious(0.775)	superfamily_Thioredoxin-like
GPX6	257202	genome.wustl.edu	37	6	28478649	28478649	+	Silent	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_182701.1	-1	reviewed	p.I40	1.000	239	0%	375	22.9%	0	-	-	-	-	HMMPfam_GSHPx,superfamily_Thioredoxin-like
SCAND3	114821	genome.wustl.edu	37	6	28542797	28542797	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_052923.1	-1	provisional	p.R562K	0.117	303	0%	91	12.1%	0	-	benign(0.007)	tolerated(0.75)	neutral(0.002)	NULL
SCAND3	114821	genome.wustl.edu	37	6	28543199	28543199	+	Missense_Mutation	SNP	A	A	C	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_052923.1	-1	provisional	p.I428S	1.000	111	0%	44	20.5%	0	-	benign(0.037)	tolerated(0.19)	neutral(0.052)	HMMPfam_rve,superfamily_RNaseH_fold
SCAND3	114821	genome.wustl.edu	37	6	28543475	28543475	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_052923.1	-1	provisional	p.N336S	1.000	591	0%	212	17.9%	0	-	possibly_damaging(0.892)	deleterious(0)	deleterious(0.796)	NULL
OR2B3	442184	genome.wustl.edu	37	6	29054392	29054392	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001005226.2	-1	validated	p.T212A	0.000	71	0%	33	27.3%	0	-	benign(0.004)	tolerated(0.48)	neutral(0.011)	HMMPfam_7tm_1,superfamily_Family A G protein-coupled receptor-like
OR2J3	442186	genome.wustl.edu	37	6	29080191	29080191	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001005216.2	+1	validated	p.R175H	0.000	63	0%	31	32.3%	0	-	benign(0.007)	tolerated(0.35)	neutral(0.021)	HMMPfam_7tm_1,superfamily_SSF81321
OR2J2	26707	genome.wustl.edu	37	6	29141464	29141464	+	Missense_Mutation	SNP	T	T	G	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_030905.2	+1	validated	p.F18V	0.893	210	0%	172	23.3%	0	-	probably_damaging(0.984)	deleterious(0.03)	deleterious(0.795)	superfamily_Family A G protein-coupled receptor-like
OR5V1	81696	genome.wustl.edu	37	6	29323855	29323855	+	Nonsense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_030876.5	-1	validated	p.G40*	0.001	227	0%	60	13.3%	0	-	-	-	-	superfamily_Family A G protein-coupled receptor-like
GABBR1	2550	genome.wustl.edu	37	6	29580360	29580360	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001470.2	-1	reviewed	p.R533Q	1.000	172	0%	91	17.6%	3	0%	probably_damaging(1)	deleterious(0.03)	deleterious(0.865)	HMMPfam_ANF_receptor,superfamily_Periplasmic binding protein-like I
HLA-E	3133	genome.wustl.edu	37	6	30459062	30459062	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_005516.4	+1	reviewed	p.E253D	0.993	73	0%	99	32.3%	217	4.1%	possibly_damaging(0.695)	deleterious(0.01)	deleterious(0.655)	HMMPfam_C1-set,HMMSmart_IGc1,superfamily_SSF48726
DPCR1	135656	genome.wustl.edu	37	6	30917022	30917022	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	ENST00000462446	+1	known	p.L261F	0.000	313	0%	419	12.4%	0	-	benign(0.02)	tolerated(0.13)	neutral(0.254)	NULL
DPCR1	135656	genome.wustl.edu	37	6	30917430	30917430	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	ENST00000462446	+1	known	p.A397S	0.000	689	0%	719	11.4%	0	-	possibly_damaging(0.93)	tolerated(0.64)	neutral(0.380)	NULL
DPCR1	135656	genome.wustl.edu	37	6	30917750	30917750	+	Silent	SNP	A	A	G	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	ENST00000462446	+1	known	p.Q503	0.001	587	0%	642	24.6%	0	-	-	-	-	NULL
DPCR1	135656	genome.wustl.edu	37	6	30919773	30919773	+	Nonsense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_080870.3	+1	validated	p.E20*	0.000	411	0%	566	24.7%	0	-	-	-	-	NULL
LTA	4049	genome.wustl.edu	37	6	31541147	31541147	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_000595.2	+1	reviewed	p.L99I	1.000	172	0%	224	14.7%	1	0%	probably_damaging(0.995)	tolerated(0.32)	deleterious(0.482)	HMMPfam_TNF,HMMSmart_SM00207,PatternScan_TNF_1,superfamily_TNF-like
PRRC2A	7916	genome.wustl.edu	37	6	31591560	31591560	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_080686.2	+1	reviewed	p.R55H	1.000	94	0%	119	21.8%	5	20%	unknown(0)	deleterious(0.03)	-	HMMPfam_BAT2_N
APOM	55937	genome.wustl.edu	37	6	31624284	31624284	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_019101.2	+1	reviewed	p.I50	0.984	273	0%	421	11.2%	5	40%	-	-	-	superfamily_Lipocalins
MSH5	4439	genome.wustl.edu	37	6	31729895	31729895	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_025259.5	+1	reviewed	p.D793Y	1.000	285	0%	195	11.3%	8	37.5%	probably_damaging(0.982)	tolerated(0.09)	deleterious(0.723)	HMMPfam_MutS_V,HMMSmart_MUTSac,superfamily_SSF52540
HSPA1L	3305	genome.wustl.edu	37	6	31779382	31779382	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_005527.3	-1	reviewed	p.S123L	1.000	238	0%	338	23.4%	0	-	probably_damaging(0.994)	deleterious(0)	deleterious(0.897)	HMMPfam_HSP70,superfamily_SSF53067
SLC44A4	80736	genome.wustl.edu	37	6	31833838	31833838	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	ENST00000414427	-1	known	p.A317V	0.780	157	0%	135	20.7%	7	14.2%	-	-	-	HMMPfam_DUF580
DOM3Z	1797	genome.wustl.edu	37	6	31937907	31937907	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_005510.3	-1	reviewed	p.T341M	0.497	29	0%	80	17.5%	38	21%	probably_damaging(0.988)	tolerated(0.09)	deleterious(0.734)	NULL
CYP21A2	1589	genome.wustl.edu	37	6	32008324	32008324	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_000500.5	+1	reviewed	p.P361S	1.000	99	0%	172	18%	1	0%	probably_damaging(1)	deleterious(0)	deleterious(0.945)	HMMPfam_p450,superfamily_Cytochrome_P450
CYP21A2	1589	genome.wustl.edu	37	6	32008458	32008458	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_000500.5	+1	reviewed	p.D378N	0.885	195	0%	289	11.8%	2	0%	possibly_damaging(0.937)	tolerated(0.19)	neutral(0.432)	HMMPfam_p450,superfamily_Cytochrome_P450
TNXB	7148	genome.wustl.edu	37	6	32010130	32010130	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_019105.6	-1	reviewed	p.R4072C	1.000	210	0%	401	20%	117	0%	probably_damaging(1)	deleterious(0)	deleterious(0.945)	HMMPfam_Fibrinogen_C,HMMSmart_SM00186,superfamily_Fibrinogen C-terminal domain-like
TNXB	7148	genome.wustl.edu	37	6	32010288	32010288	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_019105.6	-1	reviewed	p.R4050C	1.000	46	0%	122	20.5%	250	0%	probably_damaging(0.998)	deleterious(0)	deleterious(0.919)	HMMPfam_Fibrinogen_C,HMMSmart_SM00186,superfamily_Fibrinogen C-terminal domain-like
TNXB	7148	genome.wustl.edu	37	6	32041667	32041667	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_019105.6	-1	reviewed	p.L1480	1.000	12	0%	21	28.6%	3	0%	-	-	-	HMMPfam_fn3,HMMSmart_SM00060,superfamily_Fibronectin type III
RNF5	6048	genome.wustl.edu	37	6	32147516	32147516	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_006913.3	+1	reviewed	p.G83V	1.000	144	0%	168	27.4%	56	10.7%	probably_damaging(1)	deleterious(0)	deleterious(0.945)	NULL
HLA-DQB1	3119	genome.wustl.edu	37	6	32634285	32634285	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_002123.3	-1	reviewed	p.D34N	0.003	64	0%	117	13.7%	38	0%	probably_damaging(0.991)	deleterious(0.03)	deleterious(0.808)	superfamily_MHC antigen-recognition domain
HLA-DQB2	3120	genome.wustl.edu	37	6	32726789	32726789	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	ENST00000435145	-1	known	p.D162Y	1.000	28	0%	64	20.3%	2	0%	probably_damaging(0.99)	deleterious(0)	deleterious(0.886)	HMMPfam_C1-set,HMMSmart_IGc1,superfamily_SSF48726
HLA-DQB2	3120	genome.wustl.edu	37	6	32729616	32729616	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	ENST00000435145	-1	known	p.R62H	0.015	24	4.2%	25	28%	0	-	probably_damaging(0.957)	deleterious(0.01)	deleterious(0.806)	HMMPfam_MHC_II_beta,superfamily_MHC_I/II-like_Ag-recog
HLA-DOB	3112	genome.wustl.edu	37	6	32782999	32782999	+	Nonsense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	ENST00000447394	-1	known	p.G48*	1.000	157	0%	78	11.5%	2	0%	possibly_damaging(0.762)	deleterious(0.02)	deleterious(0.665)	HMMPfam_MHC_II_beta,superfamily_MHC antigen-recognition domain
LOC100287516	100287516	genome.wustl.edu	37	6	32940675	32940675	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	XM_002342622.1	-1	model	p.L92I	1.000	41	0%	57	28.1%	8	12.5%	-	-	-	NULL
SLC39A7	7922	genome.wustl.edu	37	6	33169343	33169343	+	Silent	SNP	A	A	G	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001077516.1	+1	validated	p.G107	1.000	85	0%	128	29.7%	23	8.6%	-	-	-	NULL
RPS18	6222	genome.wustl.edu	37	6	33240496	33240496	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_022551.2	+1	reviewed	p.A32V	1.000	147	0%	197	13.2%	3894	2.4%	benign(0.258)	deleterious(0.05)	neutral(0.372)	HMMPfam_Ribosomal_S13,superfamily_S13-like H2TH domain
WDR46	9277	genome.wustl.edu	37	6	33247299	33247299	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_005452.5	-1	validated	p.R570M	0.599	229	0%	359	25.6%	118	22.8%	benign(0.314)	deleterious(0.01)	deleterious(0.504)	NULL
ZBTB22	9278	genome.wustl.edu	37	6	33283117	33283117	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001145338.1	-1	validated	p.H526R	1.000	28	0%	82	20.7%	17	17.6%	benign(0.409)	deleterious(0.02)	deleterious(0.515)	HMMPfam_zf-C2H2,PatternScan_ZINC_FINGER_C2H2_1,HMMSmart_SM00355,superfamily_C2H2 and C2HC zinc fingers
PHF1	5252	genome.wustl.edu	37	6	33383661	33383661	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_024165.2	+1	reviewed	p.S497F	0.998	28	0%	68	25%	135	13.3%	possibly_damaging(0.449)	deleterious(0.05)	deleterious(0.492)	NULL
PHF1	5252	genome.wustl.edu	37	6	33383820	33383820	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_024165.2	+1	reviewed	p.R550L	0.989	72	0%	94	30.9%	111	21.6%	possibly_damaging(0.444)	tolerated(0.1)	neutral(0.431)	NULL
SYNGAP1	8831	genome.wustl.edu	37	6	33409048	33409048	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_006772.2	+1	reviewed	p.D671G	1.000	232	0%	339	25.4%	1	0%	possibly_damaging(0.93)	tolerated(0.09)	deleterious(0.673)	HMMSmart_SM00323,superfamily_GTPase activation domain GAP
BAK1	578	genome.wustl.edu	37	6	33543162	33543162	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001188.3	-1	reviewed	p.R88H	1.000	138	0%	170	28.2%	6	16.6%	probably_damaging(0.999)	deleterious(0.01)	deleterious(0.896)	HMMPfam_Bcl-2,HMMSmart_SM00337,PatternScan_BH3,superfamily_Bcl-2 inhibitors of programmed cell death
ENSG00000248398	0	genome.wustl.edu	37	6	33651204	33651204	+	RNA	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	ENST00000511225	-1	known	NULL	0.000	6	0.000	12	0.583	0	-	-	-	-	-
ITPR3	3710	genome.wustl.edu	37	6	33661431	33661431	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_002224.2	+1	validated	p.K2578	0.993	165	0%	164	10.4%	72	6.9%	-	-	-	NULL
GRM4	2914	genome.wustl.edu	37	6	34003669	34003669	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_000841.1	-1	reviewed	p.A740T	1.000	57	0%	89	21.3%	0	-	benign(0.077)	tolerated(0.38)	neutral(0.023)	HMMPfam_7tm_3
HMGA1	3159	genome.wustl.edu	37	6	34210557	34210557	+	Splice_Site	SNP	T	T	C	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	ENST00000395004	+1	known	e2+2	0.610	132	0%	186	18.3%	46	0%	-	-	-	-
C6orf106	64771	genome.wustl.edu	37	6	34574493	34574493	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_024294.2	-1	validated	p.E234K	0.998	336	0%	127	16.5%	5	40%	benign(0.007)	tolerated(0.35)	neutral(0.021)	NULL
UHRF1BP1	54887	genome.wustl.edu	37	6	34825645	34825645	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_017754.3	+1	validated	p.S573I	0.906	374	0%	125	13.6%	0	-	possibly_damaging(0.837)	deleterious(0.01)	deleterious(0.725)	NULL
ANKS1A	23294	genome.wustl.edu	37	6	34949577	34949577	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_015245.2	+1	validated	p.F182	0.043	194	0%	84	16.7%	3	0%	-	-	-	HMMPfam_Ank,HMMSmart_ANK,superfamily_ANK
ANKS1A	23294	genome.wustl.edu	37	6	35047693	35047693	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_015245.2	+1	validated	p.F844L	0.984	68	0%	75	21.3%	1	0%	benign(0.005)	tolerated(0.63)	neutral(0.004)	NULL
TCP11	6954	genome.wustl.edu	37	6	35087064	35087064	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001093728.1	-1	validated	p.S420Y	0.675	595	0%	209	26.3%	4	50%	possibly_damaging(0.637)	tolerated(0.07)	deleterious(0.542)	HMMPfam_Tcp11
SCUBE3	222663	genome.wustl.edu	37	6	35205795	35205795	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_152753.2	+1	provisional	p.D277Y	1.000	102	0%	70	21.4%	0	-	probably_damaging(1)	deleterious(0)	deleterious(0.945)	HMMSmart_SM00179,PatternScan_EGF_CA,superfamily_EGF/Laminin
SCUBE3	222663	genome.wustl.edu	37	6	35213122	35213122	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_152753.2	+1	provisional	p.R840H	1.000	168	0%	161	17.4%	0	-	probably_damaging(1)	deleterious(0)	deleterious(0.945)	HMMPfam_CUB,HMMSmart_SM00042,superfamily_Spermadhesin CUB domain
ZNF76	7629	genome.wustl.edu	37	6	35260463	35260463	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_003427.3	+1	provisional	p.R355Q	1.000	65	0%	60	15%	16	25%	possibly_damaging(0.743)	tolerated(0.06)	deleterious(0.595)	HMMPfam_zf-C2H2,PatternScan_ZINC_FINGER_C2H2_1,HMMSmart_SM00355,superfamily_C2H2 and C2HC zinc fingers
DEF6	50619	genome.wustl.edu	37	6	35277540	35277540	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_022047.3	+1	validated	p.S64P	1.000	96	0%	132	25.8%	2	0%	possibly_damaging(0.513)	deleterious(0.03)	deleterious(0.537)	superfamily_SSF47473
DEF6	50619	genome.wustl.edu	37	6	35287713	35287713	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_022047.3	+1	validated	p.Q500H	0.106	42	0%	92	10.9%	9	0%	benign(0.003)	tolerated(0.14)	neutral(0.249)	NULL
FANCE	2178	genome.wustl.edu	37	6	35423697	35423697	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_021922.2	+1	reviewed	p.R141Q	0.481	52	0%	78	19.2%	0	-	benign(0.004)	deleterious(0.03)	neutral(0.364)	NULL
FANCE	2178	genome.wustl.edu	37	6	35428358	35428358	+	Missense_Mutation	SNP	A	A	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_021922.2	+1	reviewed	p.E449V	0.797	191	0%	189	18.5%	1	0%	benign(0.388)	deleterious(0.04)	deleterious(0.473)	NULL
FANCE	2178	genome.wustl.edu	37	6	35430629	35430629	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_021922.2	+1	reviewed	p.A483T	0.620	124	0%	164	16.5%	4	0%	probably_damaging(0.998)	tolerated(0.08)	deleterious(0.774)	NULL
TEAD3	7005	genome.wustl.edu	37	6	35443699	35443699	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	ENST00000402886	-1	known	p.F239L	1.000	107	0%	119	11.8%	16	6.2%	probably_damaging(0.997)	deleterious(0.01)	deleterious(0.872)	HMMPfam_TEA
TULP1	7287	genome.wustl.edu	37	6	35479503	35479503	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_003322.3	-1	reviewed	p.F91L	1.000	21	0%	29	27.6%	0	-	possibly_damaging(0.942)	tolerated(0.34)	neutral(0.410)	NULL
TULP1	7287	genome.wustl.edu	37	6	35480430	35480430	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_003322.3	-1	reviewed	p.R29W	0.069	127	0%	195	17.9%	0	-	possibly_damaging(0.926)	deleterious(0.02)	deleterious(0.758)	NULL
TULP1	7287	genome.wustl.edu	37	6	35480611	35480611	+	Nonsense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_003322.3	-1	reviewed	p.R9*	1.000	48	0%	82	24.4%	0	-	-	-	-	NULL
FKBP5	2289	genome.wustl.edu	37	6	35554823	35554823	+	Missense_Mutation	SNP	G	G	A	rs180672585	by1000genomes	TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001145777.1	-1	reviewed	p.P246L	0.248	551	0%	146	17.1%	3	0%	benign(0.014)	-	-	NULL
FKBP5	2289	genome.wustl.edu	37	6	35604902	35604902	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001145775.1	-1	reviewed	p.P47T	0.999	335	0%	88	17%	0	-	probably_damaging(1)	deleterious(0)	deleterious(0.945)	HMMPfam_FKBP_C,superfamily_FKBP-like
ARMC12	221481	genome.wustl.edu	37	6	35706187	35706187	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_145028.3	+1	predicted	p.I139	0.915	160	0%	168	27.4%	2	50%	-	-	-	HMMPfam_DUF634,superfamily_ARM-type_fold
SRPK1	6732	genome.wustl.edu	37	6	35803113	35803113	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_003137.3	-1	reviewed	p.E646K	0.938	152	0%	43	14%	2	100%	benign(0.078)	deleterious(0.02)	neutral(0.389)	HMMSmart_SM00220,superfamily_Protein kinase-like (PK-like),HMMPfam_Pkinase
SLC26A8	116369	genome.wustl.edu	37	6	35919041	35919041	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_052961.2	-1	reviewed	p.A791T	0.839	201	0%	90	20%	0	-	possibly_damaging(0.893)	deleterious(0)	deleterious(0.796)	HMMPfam_STAS,superfamily_Anti-sigma factor antagonist SpoIIaa
SLC26A8	116369	genome.wustl.edu	37	6	35980079	35980079	+	Nonsense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_052961.2	-1	reviewed	p.R87*	1.000	295	0%	177	26.6%	1	0%	-	-	-	NULL
BRPF3	27154	genome.wustl.edu	37	6	36168436	36168436	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_015695.2	+1	validated	p.H113N	1.000	68	0%	94	19.1%	0	-	benign(0.002)	tolerated(0.51)	neutral(0.009)	HMMPfam_EPL1
BRPF3	27154	genome.wustl.edu	37	6	36168931	36168931	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_015695.2	+1	validated	p.A278T	1.000	58	0%	88	20.5%	0	-	probably_damaging(0.999)	deleterious(0)	deleterious(0.935)	NULL
LOC100287642	100287642	genome.wustl.edu	37	6	36178292	36178292	+	Nonsense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	XM_002342625.1	-1	model	p.E131*	1.000	57	0%	58	31%	0	-	benign(0.271)	tolerated(0.26)	neutral(0.063)	NULL
BRPF3	27154	genome.wustl.edu	37	6	36198326	36198326	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	ENST00000441730	+1	known	p.D140N	0.538	43	0%	22	40.9%	4	0%	-	-	-	superfamily_Tudor/PWWP/MBT
PNPLA1	285848	genome.wustl.edu	37	6	36238357	36238357	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	ENST00000457797	+1	known	p.R41W	0.999	35	0%	34	32.4%	0	-	probably_damaging(0.966)	deleterious(0.01)	deleterious(0.814)	HMMPfam_Patatin,superfamily_FabD/lysophospholipase-like
C6orf222	389384	genome.wustl.edu	37	6	36287203	36287203	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001010903.4	-1	validated	p.A618V	0.000	90	0%	72	20.8%	0	-	possibly_damaging(0.799)	tolerated(0.14)	deleterious(0.550)	NULL
C6orf222	389384	genome.wustl.edu	37	6	36291169	36291169	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001010903.4	-1	validated	p.A458T	0.003	272	0%	141	16.3%	0	-	benign(0.186)	tolerated(1)	neutral(0.018)	NULL
STK38	11329	genome.wustl.edu	37	6	36465577	36465577	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_007271.2	-1	provisional	p.G384	0.330	148	0%	42	21.4%	13	38.4%	-	-	-	HMMSmart_SM00133,superfamily_Protein kinase-like (PK-like)
STK38	11329	genome.wustl.edu	37	6	36466197	36466197	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_007271.2	-1	provisional	p.T340N	1.000	402	0%	91	26.4%	7	14.2%	probably_damaging(0.974)	tolerated(0.32)	neutral(0.440)	HMMSmart_SM00219,HMMSmart_SM00220,superfamily_Protein kinase-like (PK-like),HMMPfam_Pkinase
SRSF3	6428	genome.wustl.edu	37	6	36566756	36566756	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_003017.4	+1	validated	p.R113C	1.000	178	0%	207	14%	114	4.3%	unknown(0)	deleterious(0)	-	superfamily_RNA-binding domain RBD
CPNE5	57699	genome.wustl.edu	37	6	36724036	36724036	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_020939.1	-1	reviewed	p.V299M	1.000	295	0%	271	23.2%	0	-	benign(0.394)	deleterious(0.01)	deleterious(0.532)	NULL
CPNE5	57699	genome.wustl.edu	37	6	36733121	36733121	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_020939.1	-1	reviewed	p.R257Q	0.997	160	0.6%	131	14.5%	0	-	probably_damaging(0.997)	tolerated(0.1)	deleterious(0.752)	HMMPfam_C2,HMMSmart_C2,superfamily_C2_CaLB
FGD2	221472	genome.wustl.edu	37	6	36982788	36982788	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_173558.3	+1	validated	p.D335N	0.998	77	1.3%	63	22.2%	0	-	benign(0.021)	tolerated(0.29)	neutral(0.030)	HMMPfam_PH,HMMSmart_SM00233,superfamily_PH domain-like
PIM1	5292	genome.wustl.edu	37	6	37140900	37140900	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_002648.3	+1	validated	p.E246K	1.000	400	0%	460	26.5%	60	8.3%	benign(0.013)	tolerated(0.35)	neutral(0.021)	HMMSmart_SM00219,HMMSmart_SM00220,superfamily_Protein kinase-like (PK-like),HMMPfam_Pkinase
MDGA1	266727	genome.wustl.edu	37	6	37623536	37623536	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_153487.3	-1	validated	p.S173	0.012	102	0%	138	10.9%	0	-	-	-	-	HMMSmart_SM00408,HMMSmart_SM00409,HMMPfam_ig,superfamily_Immunoglobulin
DNAH8	1769	genome.wustl.edu	37	6	38838246	38838246	+	Missense_Mutation	SNP	A	A	C	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001371.2	+1	validated	p.N2083H	0.039	224	0%	83	16.9%	0	-	benign(0)	tolerated(0.14)	neutral(0.249)	superfamily_P-loop containing nucleoside triphosphate hydrolases
DNAH8	1769	genome.wustl.edu	37	6	38883061	38883061	+	Missense_Mutation	SNP	A	A	C	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001371.2	+1	validated	p.I3133L	1.000	229	0%	47	25.5%	0	-	benign(0.002)	tolerated(0.73)	neutral(0.002)	NULL
DNAH8	1769	genome.wustl.edu	37	6	38939447	38939447	+	Silent	SNP	T	T	C	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	ENST00000449981	+1	known	p.C4165	0.188	186	0%	111	22.5%	1	0%	-	-	-	NULL
GLP1R	2740	genome.wustl.edu	37	6	39024237	39024237	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_002062.3	+1	validated	p.R48H	0.039	23	0%	29	24.1%	0	-	benign(0.003)	tolerated(0.33)	neutral(0.024)	superfamily_Hormone receptor domain (HRM Pfam 02793)
GLP1R	2740	genome.wustl.edu	37	6	39041401	39041401	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_002062.3	+1	validated	p.R227C	1.000	174	0.6%	104	17.3%	0	-	probably_damaging(1)	deleterious(0)	deleterious(0.945)	HMMPfam_7tm_2,superfamily_Family A G protein-coupled receptor-like
KCNK17	89822	genome.wustl.edu	37	6	39271749	39271749	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_031460.3	-1	reviewed	p.F224	0.999	44	0%	73	11%	0	-	-	-	-	HMMPfam_Ion_trans_2,superfamily_SSF81324
KCNK17	89822	genome.wustl.edu	37	6	39278712	39278712	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_031460.3	-1	reviewed	p.L103	0.000	101	0%	150	24.7%	0	-	-	-	-	HMMPfam_Ion_trans_2,superfamily_SSF81324
KCNK16	83795	genome.wustl.edu	37	6	39283165	39283165	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001135105.1	-1	reviewed	p.S235F	0.007	228	0%	359	30.1%	0	-	unknown(0)	deleterious(0)	-	NULL
KIF6	221458	genome.wustl.edu	37	6	39554124	39554124	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_145027.4	-1	validated	p.M301I	1.000	476	0%	156	25%	0	-	benign(0.016)	tolerated(0.33)	neutral(0.025)	HMMPfam_Kinesin,HMMSmart_SM00129,superfamily_P-loop containing nucleoside triphosphate hydrolases
DAAM2	23500	genome.wustl.edu	37	6	39828731	39828731	+	Nonsense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_015345.2	+1	validated	p.R66*	1.000	337	0.3%	110	27.3%	2	50%	-	-	-	HMMPfam_Drf_GBD
MOCS1	4337	genome.wustl.edu	37	6	39881154	39881154	+	Nonsense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001075098.3	-1	reviewed	p.R222*	1.000	123	0%	79	12.7%	2	0%	-	-	-	HMMSmart_Elp3,HMMPfam_Radical_SAM,superfamily_SSF102114
MOCS1	4337	genome.wustl.edu	37	6	39893482	39893482	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001075098.3	-1	reviewed	p.D120N	0.993	74	0%	98	10.2%	2	0%	benign(0.018)	tolerated(0.51)	neutral(0.009)	HMMSmart_Elp3,HMMPfam_Radical_SAM,superfamily_SSF102114
LRFN2	57497	genome.wustl.edu	37	6	40360365	40360365	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_020737.1	-1	provisional	p.E563K	0.014	18	0%	40	25%	0	-	benign(0)	tolerated(0.87)	neutral(0.001)	NULL
LRFN2	57497	genome.wustl.edu	37	6	40399633	40399633	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_020737.1	-1	provisional	p.R407Q	0.999	80	0%	47	29.8%	0	-	benign(0.137)	tolerated(0.47)	neutral(0.022)	NULL
LRFN2	57497	genome.wustl.edu	37	6	40400153	40400153	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_020737.1	-1	provisional	p.P234S	0.128	72	0%	66	34.8%	0	-	benign(0.001)	tolerated(0.72)	neutral(0.002)	superfamily_L domain-like
UNC5CL	222643	genome.wustl.edu	37	6	41002498	41002498	+	Nonsense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_173561.1	-1	provisional	p.R106*	0.923	196	0%	240	27.9%	0	-	-	-	-	HMMPfam_ZU5
APOBEC2	10930	genome.wustl.edu	37	6	41029196	41029196	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_006789.3	+1	validated	p.R87	0.444	84	0%	48	14.6%	2	0%	-	-	-	HMMPfam_APOBEC_N
C6orf130	221443	genome.wustl.edu	37	6	41035124	41035124	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_145063.2	-1	predicted	p.E137K	1.000	360	0%	339	27.1%	11	0%	benign(0)	tolerated(0.75)	neutral(0.002)	superfamily_SSF52949
TREM2	54209	genome.wustl.edu	37	6	41126737	41126737	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_018965.2	-1	reviewed	p.L184F	0.679	209	0%	93	25.8%	2	0%	probably_damaging(0.991)	deleterious(0)	deleterious(0.889)	NULL
TREM2	54209	genome.wustl.edu	37	6	41129099	41129099	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_018965.2	-1	reviewed	p.R98Q	0.012	105	0%	66	10.6%	2	0%	benign(0.076)	tolerated(0.09)	neutral(0.302)	HMMPfam_V-set,superfamily_Immunoglobulin
TREML2	79865	genome.wustl.edu	37	6	41162434	41162434	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_024807.2	-1	validated	p.L172F	0.000	221	0%	188	20.7%	0	-	benign(0.104)	deleterious(0)	neutral(0.453)	NULL
NCR2	9436	genome.wustl.edu	37	6	41304125	41304125	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_004828.3	+1	validated	p.S118Y	0.001	146	0%	59	30.5%	0	-	probably_damaging(0.978)	tolerated(0.6)	neutral(0.425)	HMMSmart_SM00409,HMMPfam_V-set,superfamily_Immunoglobulin
FOXP4	116113	genome.wustl.edu	37	6	41557834	41557834	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001012426.1	+1	reviewed	p.G428D	1.000	31	0%	78	25.6%	6	33.3%	benign(0)	tolerated(0.25)	neutral(0.037)	NULL
FOXP4	116113	genome.wustl.edu	37	6	41562613	41562613	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001012426.1	+1	reviewed	p.A514	0.960	96	0%	127	13.4%	19	21%	-	-	-	"HMMPfam_Fork_head,HMMSmart_SM00339,PatternScan_FORK_HEAD_2,superfamily_""Winged helix"" DNA-binding domain"
TFEB	7942	genome.wustl.edu	37	6	41655674	41655674	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_007162.2	-1	validated	p.A214	0.005	211	0%	228	11.4%	10	0%	-	-	-	NULL
PGC	5225	genome.wustl.edu	37	6	41708820	41708820	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	ENST00000425343	-1	known	p.T281A	0.013	324	0%	334	25.1%	0	-	unknown(0)	tolerated(0.24)	-	HMMPfam_Asp
PGC	5225	genome.wustl.edu	37	6	41710065	41710065	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_002630.3	-1	reviewed	p.A204T	0.000	29	0%	21	19%	1	0%	benign(0.001)	deleterious(0.02)	neutral(0.383)	HMMPfam_Asp,superfamily_Pept_Aspartic
ENSG00000206875	0	genome.wustl.edu	37	6	41986186	41986186	+	RNA	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	ENST00000384148	-1	novel	NULL	0.147	4	0.000	45	0.222	0	-	-	-	-	-
GUCA1B	2979	genome.wustl.edu	37	6	42162369	42162369	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_002098.5	-1	reviewed	p.A64T	1.000	120	0%	48	25%	1	0%	possibly_damaging(0.851)	tolerated(1)	neutral(0.327)	HMMSmart_EFh,HMMPfam_efhand,superfamily_SSF47473
TRERF1	55809	genome.wustl.edu	37	6	42231304	42231304	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_033502.2	-1	reviewed	p.E546	1.000	33	0%	80	12.5%	0	-	-	-	-	NULL
UBR2	23304	genome.wustl.edu	37	6	42658785	42658785	+	Silent	SNP	A	A	G	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_015255.2	+1	reviewed	p.L1714	0.997	189	0%	206	22.3%	59	33.8%	-	-	-	NULL
RPL7L1	285855	genome.wustl.edu	37	6	42854005	42854005	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_198486.2	+1	provisional	p.V182I	1.000	687	0%	549	21.9%	9	11.1%	benign(0.003)	tolerated(1)	-	superfamily_Ribosomal_L30
CNPY3	10695	genome.wustl.edu	37	6	42903398	42903398	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_006586.3	+1	validated	p.R121Q	1.000	128	0%	143	28%	94	18%	probably_damaging(0.999)	deleterious(0.01)	deleterious(0.896)	NULL
PPP2R5D	5528	genome.wustl.edu	37	6	42975949	42975949	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_006245.2	+1	reviewed	p.E290K	1.000	203	0.5%	251	25.5%	10	60%	probably_damaging(1)	deleterious(0)	deleterious(0.945)	HMMPfam_B56
KLHDC3	116138	genome.wustl.edu	37	6	42985040	42985040	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_057161.2	+1	reviewed	p.D37G	1.000	93	0%	182	26.9%	18	27.7%	probably_damaging(0.995)	tolerated(0.1)	deleterious(0.744)	superfamily_Galactose oxidase central domain,HMMPfam_Kelch_2
RRP36	88745	genome.wustl.edu	37	6	42993782	42993782	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_033112.2	+1	provisional	p.R118Q	0.986	450	0%	559	10.9%	26	0%	probably_damaging(1)	tolerated(0.06)	deleterious(0.823)	HMMPfam_DUF947
CUL7	9820	genome.wustl.edu	37	6	43017322	43017322	+	Nonsense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_014780.4	-1	reviewed	p.R550*	0.640	170	0%	220	25%	7	0%	-	-	-	NULL
CUL7	9820	genome.wustl.edu	37	6	43018850	43018850	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_014780.4	-1	reviewed	p.F363	0.506	115	0%	185	24.3%	2	0%	-	-	-	NULL
MRPL2	51069	genome.wustl.edu	37	6	43022145	43022145	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_015950.3	-1	reviewed	p.R262H	1.000	53	0%	109	16.5%	83	28.9%	probably_damaging(0.999)	deleterious(0)	deleterious(0.935)	HMMPfam_Ribosomal_L2_C,superfamily_Transl_SH3_like
PTK7	5754	genome.wustl.edu	37	6	43098150	43098150	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_002821.3	+1	reviewed	p.S218I	1.000	61	0%	67	13.4%	16	0%	probably_damaging(0.98)	tolerated(0.21)	neutral(0.468)	HMMSmart_SM00409,superfamily_Immunoglobulin
PTK7	5754	genome.wustl.edu	37	6	43111255	43111255	+	Silent	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_002821.3	+1	reviewed	p.I716	1.000	77	0%	98	26.5%	39	2.5%	-	-	-	NULL
PTK7	5754	genome.wustl.edu	37	6	43112233	43112233	+	Missense_Mutation	SNP	G	G	A	rs56216742		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_002821.3	+1	reviewed	p.E766K	1.000	113	0%	124	34.7%	60	11.6%	possibly_damaging(0.435)	deleterious(0.02)	deleterious(0.525)	NULL
CUL9	23113	genome.wustl.edu	37	6	43153241	43153241	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_015089.2	+1	validated	p.E215K	1.000	207	0%	261	11.5%	1	0%	unknown(0)	deleterious(0)	-	NULL
CUL9	23113	genome.wustl.edu	37	6	43155033	43155033	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_015089.2	+1	validated	p.P479	0.818	300	0%	345	26.1%	1	0%	-	-	-	NULL
CUL9	23113	genome.wustl.edu	37	6	43168205	43168205	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_015089.2	+1	validated	p.R1139Q	1.000	546	0%	353	24.9%	0	-	probably_damaging(1)	deleterious(0)	deleterious(0.945)	superfamily_Galactose-binding domain-like
CUL9	23113	genome.wustl.edu	37	6	43188297	43188297	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_015089.2	+1	validated	p.F2128S	1.000	127	0%	134	24.6%	16	18.7%	probably_damaging(1)	tolerated(0.06)	deleterious(0.823)	superfamily_RING/U-box
SLC22A7	10864	genome.wustl.edu	37	6	43267506	43267506	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_153320.2	+1	reviewed	p.I215	0.406	84	1.2%	111	23.4%	0	-	-	-	-	HMMPfam_MFS_1,superfamily_MFS general substrate transporter
SLC22A7	10864	genome.wustl.edu	37	6	43269349	43269349	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_153320.2	+1	reviewed	p.R327Q	0.001	56	0%	60	18.3%	0	-	benign(0.147)	tolerated(0.62)	neutral(0.017)	HMMPfam_MFS_1,superfamily_MFS general substrate transporter
SLC22A7	10864	genome.wustl.edu	37	6	43269947	43269947	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_153320.2	+1	reviewed	p.V357	0.999	98	0%	144	30.6%	0	-	-	-	-	HMMPfam_MFS_1,superfamily_MFS general substrate transporter
ZNF318	24149	genome.wustl.edu	37	6	43323119	43323119	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_014345.2	-1	validated	p.R651	0.027	196	0%	70	18.6%	2	0%	-	-	-	NULL
ABCC10	89845	genome.wustl.edu	37	6	43401089	43401089	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_033450.2	+1	reviewed	p.A414	0.040	84	0%	97	13.4%	2	50%	-	-	-	HMMPfam_ABC_membrane,superfamily_ABC_TM_1
XPO5	57510	genome.wustl.edu	37	6	43521111	43521111	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_020750.2	-1	validated	p.E524G	1.000	205	0%	101	24.8%	2	0%	probably_damaging(0.999)	deleterious(0.03)	deleterious(0.855)	superfamily_ARM repeat
GTPBP2	54676	genome.wustl.edu	37	6	43592392	43592392	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_019096.3	-1	validated	p.D319N	1.000	67	0%	104	14.4%	4	25%	probably_damaging(1)	deleterious(0)	deleterious(0.945)	HMMPfam_GTP_EFTU,superfamily_P-loop containing nucleoside triphosphate hydrolases
RSPH9	221421	genome.wustl.edu	37	6	43618165	43618165	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_152732.3	+1	provisional	p.A94V	0.000	273	0.4%	232	14.7%	1	0%	benign(0.001)	tolerated(0.46)	neutral(0.012)	NULL
TMEM63B	55362	genome.wustl.edu	37	6	44122437	44122437	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_018426.1	+1	validated	p.I772	1.000	36	0%	79	27.8%	27	29.6%	-	-	-	NULL
CAPN11	11131	genome.wustl.edu	37	6	44149048	44149048	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_007058.3	+1	reviewed	p.K643N	0.992	214	0%	124	28.2%	0	-	probably_damaging(0.999)	deleterious(0.03)	deleterious(0.855)	superfamily_SSF47473
SLC29A1	2030	genome.wustl.edu	37	6	44199127	44199127	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001078174.1	+1	reviewed	p.E265K	0.891	253	0%	298	25.8%	13	0%	benign(0)	tolerated(0.73)	neutral(0.002)	HMMPfam_Nucleoside_tran
HSP90AB1	3326	genome.wustl.edu	37	6	44218163	44218163	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_007355.2	+1	provisional	p.G262S	0.007	376	0.3%	514	26.7%	197	10.6%	benign(0.032)	tolerated(0.29)	neutral(0.031)	HMMPfam_HSP90
HSP90AB1	3326	genome.wustl.edu	37	6	44218286	44218286	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_007355.2	+1	provisional	p.E303K	1.000	236	0%	351	25.4%	222	16.6%	benign(0.323)	deleterious(0.04)	neutral(0.450)	superfamily_Ribosomal protein S5 domain 2-like,HMMPfam_HSP90
HSP90AB1	3326	genome.wustl.edu	37	6	44219798	44219798	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_007355.2	+1	provisional	p.E509K	1.000	257	0.4%	417	21.8%	443	20.3%	benign(0.249)	deleterious(0)	deleterious(0.470)	superfamily_Ribosomal protein S5 domain 2-like,HMMPfam_HSP90
SLC35B2	347734	genome.wustl.edu	37	6	44222510	44222510	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_178148.2	-1	validated	p.A411V	1.000	119	0%	215	27%	19	5.2%	probably_damaging(0.996)	tolerated(0.47)	deleterious(0.473)	HMMPfam_UAA,superfamily_Multidrug resistance efflux transporter EmrE
SLC35B2	347734	genome.wustl.edu	37	6	44222744	44222744	+	Missense_Mutation	SNP	C	C	T	rs185368084	by1000genomes	TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_178148.2	-1	validated	p.R333Q	1.000	62	0%	150	12.7%	16	31.2%	possibly_damaging(0.827)	tolerated(0.2)	neutral(0.363)	HMMPfam_UAA,superfamily_Multidrug resistance efflux transporter EmrE
SLC35B2	347734	genome.wustl.edu	37	6	44224176	44224176	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_178148.2	-1	validated	p.A88V	0.983	74	0%	102	20.6%	4	0%	benign(0.05)	tolerated(0.2)	neutral(0.052)	NULL
TCTE1	202500	genome.wustl.edu	37	6	44255254	44255254	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	ENST00000412569	-1	known	p.E103D	0.001	36	0%	67	31.3%	0	-	-	-	-	NULL
TCTE1	202500	genome.wustl.edu	37	6	44255389	44255389	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_182539.3	-1	validated	p.I58	0.000	171	0%	236	24.2%	2	0%	-	-	-	NULL
AARS2	57505	genome.wustl.edu	37	6	44275060	44275060	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_020745.2	-1	validated	p.R322	0.060	49	0%	64	29.7%	1	0%	-	-	-	superfamily_Ala-tRNA-synth_IIc_anticod-bd,HMMPfam_tRNA-synt_2c
AARS2	57505	genome.wustl.edu	37	6	44279877	44279877	+	Nonsense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_020745.2	-1	validated	p.R123*	1.000	196	0.5%	304	10.5%	1	0%	-	-	-	HMMPfam_tRNA-synt_2c,superfamily_SSF55681
SPATS1	221409	genome.wustl.edu	37	6	44329636	44329636	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_145026.3	+1	validated	p.G161R	0.978	254	0%	105	15.2%	1	0%	probably_damaging(1)	deleterious(0)	deleterious(0.945)	NULL
CDC5L	988	genome.wustl.edu	37	6	44361282	44361282	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001253.2	+1	reviewed	p.A137	0.838	271	0%	262	23.3%	6	16.6%	-	-	-	NULL
CDC5L	988	genome.wustl.edu	37	6	44376338	44376338	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001253.2	+1	reviewed	p.R354Q	0.902	168	0%	75	17.3%	4	25%	benign(0.047)	deleterious(0.01)	neutral(0.409)	NULL
CDC5L	988	genome.wustl.edu	37	6	44394267	44394267	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001253.2	+1	reviewed	p.D567Y	1.000	235	0%	40	22.5%	18	11.1%	benign(0)	deleterious(0)	neutral(0.445)	NULL
ENPP4	22875	genome.wustl.edu	37	6	46108867	46108867	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_014936.4	+1	validated	p.R302I	0.976	337	0%	111	29.7%	2	0%	probably_damaging(0.988)	deleterious(0)	deleterious(0.882)	HMMPfam_Phosphodiest,superfamily_Alkaline_phosphatase_core
ENPP5	59084	genome.wustl.edu	37	6	46135740	46135740	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_021572.4	-1	validated	p.N87S	1.000	188	0%	206	12.6%	0	-	benign(0)	tolerated(1)	-	HMMPfam_Phosphodiest,superfamily_Alkaline phosphatase-like
CYP39A1	51302	genome.wustl.edu	37	6	46593221	46593221	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_016593.3	-1	reviewed	p.V289I	0.003	342	0%	75	32%	0	-	benign(0.001)	tolerated(1)	-	HMMPfam_p450,superfamily_Cytochrome P450
SLC25A27	9481	genome.wustl.edu	37	6	46623609	46623609	+	Nonsense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_004277.3	+1	reviewed	p.R46*	1.000	158	0%	162	26.5%	1	0%	-	-	-	superfamily_Mitochondrial carrier,HMMPfam_Mito_carr
TDRD6	221400	genome.wustl.edu	37	6	46660015	46660015	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001010870.2	+1	validated	p.S1384P	0.001	302	0%	347	27.7%	0	-	benign(0.015)	tolerated(0.12)	neutral(0.261)	HMMSmart_TUDOR,HMMPfam_TUDOR,superfamily_SSF63748
TDRD6	221400	genome.wustl.edu	37	6	46660100	46660100	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001010870.2	+1	validated	p.P1412L	0.998	247	0.4%	295	25.4%	0	-	probably_damaging(1)	deleterious(0.01)	deleterious(0.905)	HMMPfam_TUDOR
TDRD6	221400	genome.wustl.edu	37	6	46661170	46661170	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001010870.2	+1	validated	p.R1769C	0.000	79	0%	99	20.2%	0	-	benign(0.002)	deleterious(0.03)	neutral(0.364)	NULL
PLA2G7	7941	genome.wustl.edu	37	6	46672922	46672922	+	Missense_Mutation	SNP	T	T	G	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_005084.3	-1	reviewed	p.K386T	1.000	312	0%	65	18.5%	17	0%	benign(0.034)	tolerated(0.17)	neutral(0.061)	HMMPfam_PAF-AH_p_II,superfamily_SSF53474
PLA2G7	7941	genome.wustl.edu	37	6	46677142	46677142	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_005084.3	-1	reviewed	p.R264M	0.046	287	0%	60	23.3%	4	0%	benign(0.003)	tolerated(0.31)	neutral(0.027)	HMMPfam_PAF-AH_p_II,superfamily_SSF53474
MEP1A	4224	genome.wustl.edu	37	6	46761149	46761149	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_005588.2	+1	validated	p.R5I	0.000	492	0%	101	23.8%	0	-	benign(0.02)	tolerated(0.13)	neutral(0.254)	NULL
TNFRSF21	27242	genome.wustl.edu	37	6	47251873	47251873	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_014452.3	-1	reviewed	p.E348	1.000	341	0%	84	31%	6	0%	-	-	-	NULL
TNFRSF21	27242	genome.wustl.edu	37	6	47253798	47253798	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_014452.3	-1	reviewed	p.V210	1.000	150	0%	37	21.6%	19	0%	-	-	-	HMMSmart_TNFR
TNFRSF21	27242	genome.wustl.edu	37	6	47254284	47254284	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_014452.3	-1	reviewed	p.S48	0.000	126	0%	44	20.5%	4	0%	-	-	-	superfamily_SSF57586
GPR115	221393	genome.wustl.edu	37	6	47685075	47685075	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_153838.3	+1	validated	p.S674	0.032	302	0%	64	20.3%	0	-	-	-	-	NULL
OPN5	221391	genome.wustl.edu	37	6	47775895	47775895	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_181744.2	+1	reviewed	p.A254	0.265	564	0%	166	13.3%	0	-	-	-	-	HMMPfam_7tm_1,superfamily_SSF81321
CRISP2	7180	genome.wustl.edu	37	6	49663582	49663582	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001142407.1	-1	validated	p.G191S	0.909	460	0%	109	19.3%	0	-	benign(0)	tolerated(0.69)	neutral(0.002)	HMMPfam_Crisp
DEFB114	245928	genome.wustl.edu	37	6	49928133	49928133	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001037499.1	-1	provisional	p.R28C	0.004	313	0.3%	75	34.7%	0	-	probably_damaging(0.958)	deleterious(0)	deleterious(0.846)	HMMPfam_Defensin_beta
TFAP2D	83741	genome.wustl.edu	37	6	50683101	50683101	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_172238.3	+1	validated	p.Q104H	1.000	273	0%	438	11.9%	0	-	possibly_damaging(0.528)	deleterious(0.04)	deleterious(0.527)	NULL
TFAP2B	7021	genome.wustl.edu	37	6	50803969	50803969	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_003221.3	+1	reviewed	p.S266Y	1.000	80	0%	111	27.9%	0	-	benign(0.282)	deleterious(0)	deleterious(0.531)	HMMPfam_TF_AP-2
TFAP2B	7021	genome.wustl.edu	37	6	50810958	50810958	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_003221.3	+1	reviewed	p.A412	0.937	52	0%	96	12.5%	0	-	-	-	-	HMMPfam_TF_AP-2
PKHD1	5314	genome.wustl.edu	37	6	51524014	51524014	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_138694.3	-1	reviewed	p.R3637H	0.148	255	0%	57	19.3%	0	-	benign(0.091)	tolerated(0.12)	neutral(0.267)	NULL
PKHD1	5314	genome.wustl.edu	37	6	51524427	51524427	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_138694.3	-1	reviewed	p.F3499	1.000	175	0%	41	14.6%	0	-	-	-	-	NULL
PKHD1	5314	genome.wustl.edu	37	6	51613011	51613011	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_138694.3	-1	reviewed	p.E3135K	0.331	133	0%	40	20%	0	-	benign(0.002)	tolerated(0.35)	neutral(0.021)	superfamily_Pectin lyase-like
PKHD1	5314	genome.wustl.edu	37	6	51618085	51618085	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_138694.3	-1	reviewed	p.R2955Q	1.000	152	0.7%	42	21.4%	0	-	probably_damaging(1)	deleterious(0)	deleterious(0.945)	NULL
PKHD1	5314	genome.wustl.edu	37	6	51907773	51907773	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_138694.3	-1	reviewed	p.R994Q	0.000	158	1.3%	39	20.5%	0	-	benign(0.003)	tolerated(0.63)	neutral(0.004)	HMMPfam_TIG,superfamily_E set domains
MCM3	4172	genome.wustl.edu	37	6	52132671	52132671	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_002388.3	-1	reviewed	p.K688N	0.981	1039	0%	569	23.4%	53	22.6%	possibly_damaging(0.467)	tolerated(0.1)	neutral(0.440)	NULL
PAQR8	85315	genome.wustl.edu	37	6	52268286	52268286	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_133367.4	+1	validated	p.R92Q	0.971	51	0%	109	12.8%	1	0%	possibly_damaging(0.892)	tolerated(0.19)	neutral(0.401)	HMMPfam_HlyIII
PAQR8	85315	genome.wustl.edu	37	6	52269050	52269050	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_133367.4	+1	validated	p.A347T	0.731	30	0%	65	13.8%	3	0%	benign(0.001)	tolerated(0.55)	neutral(0.007)	NULL
EFHC1	114327	genome.wustl.edu	37	6	52355048	52355048	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_018100.3	+1	reviewed	p.Q584R	0.813	308	0%	68	16.2%	9	0%	benign(0)	tolerated(0.37)	neutral(0.019)	HMMPfam_efhand,superfamily_EF-hand
ICK	22858	genome.wustl.edu	37	6	52871165	52871165	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_014920.3	-1	reviewed	p.I564	0.000	293	0%	110	20%	4	0%	-	-	-	NULL
GCLC	2729	genome.wustl.edu	37	6	53387280	53387280	+	Missense_Mutation	SNP	G	G	A	rs143809584	by1000genomes	TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001498.2	-1	reviewed	p.R66W	0.866	386	0.3%	123	25.2%	0	-	probably_damaging(0.96)	deleterious(0)	deleterious(0.848)	superfamily_Glutamine synthetase/guanido kinase
LRRC1	55227	genome.wustl.edu	37	6	53707019	53707019	+	Nonsense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_018214.4	+1	validated	p.R91*	1.000	415	0%	160	18.8%	1	0%	-	-	-	HMMPfam_LRR_1,HMMSmart_SM00369,HMMSmart_SM00364,superfamily_L domain-like
MLIP	90523	genome.wustl.edu	37	6	54034367	54034367	+	Missense_Mutation	SNP	A	A	C	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_138569.2	+1	validated	p.K312N	1.000	500	0%	82	11%	0	-	benign(0.025)	deleterious(0.05)	neutral(0.346)	NULL
FAM83B	222584	genome.wustl.edu	37	6	54806560	54806560	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001010872.1	+1	validated	p.R931W	0.828	184	0%	30	26.7%	1	0%	probably_damaging(0.992)	deleterious(0)	deleterious(0.892)	NULL
FAM83B	222584	genome.wustl.edu	37	6	54806648	54806648	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001010872.1	+1	validated	p.R960H	0.918	182	0%	45	20%	0	-	benign(0.001)	tolerated(0.16)	neutral(0.059)	NULL
HCRTR2	3062	genome.wustl.edu	37	6	55145214	55145214	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001526.3	+1	reviewed	p.A359	0.989	573	0.2%	139	23%	0	-	-	-	-	HMMPfam_7tm_1,superfamily_SSF81321
GFRAL	389400	genome.wustl.edu	37	6	55198737	55198737	+	Missense_Mutation	SNP	A	A	C	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_207410.2	+1	validated	p.K104T	0.440	210	0%	45	31.1%	0	-	benign(0.282)	tolerated(0.07)	neutral(0.405)	NULL
GFRAL	389400	genome.wustl.edu	37	6	55266627	55266627	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_207410.2	+1	validated	p.S387	0.000	433	0.2%	197	33.5%	0	-	-	-	-	NULL
DST	667	genome.wustl.edu	37	6	56335913	56335913	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_015548.4	-1	reviewed	p.L4815I	1.000	284	0%	94	28.7%	64	0%	possibly_damaging(0.925)	-	-	HMMSmart_SM00054,HMMPfam_efhand,superfamily_EF-hand
DST	667	genome.wustl.edu	37	6	56338681	56338681	+	Silent	SNP	T	T	C	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_015548.4	-1	reviewed	p.G4705	0.903	357	0%	86	23.3%	58	0%	-	-	-	HMMPfam_Spectrin,HMMSmart_SM00150,superfamily_EF-hand
DST	667	genome.wustl.edu	37	6	56347545	56347545	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_015548.4	-1	reviewed	p.R4490H	1.000	101	0%	62	21%	22	0%	probably_damaging(0.999)	-	-	HMMPfam_Spectrin,HMMSmart_SM00150,superfamily_Spectrin repeat
DST	667	genome.wustl.edu	37	6	56374627	56374627	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_015548.4	-1	reviewed	p.I3652	0.008	393	0%	72	11.1%	15	0%	-	-	-	HMMPfam_Spectrin,HMMSmart_SM00150,superfamily_Spectrin repeat
DST	667	genome.wustl.edu	37	6	56391253	56391253	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_015548.4	-1	reviewed	p.M3389T	1.000	553	0%	109	13.8%	3	0%	benign(0)	-	-	HMMSmart_SM00150,superfamily_Spectrin repeat
DST	667	genome.wustl.edu	37	6	56394339	56394339	+	Missense_Mutation	SNP	C	C	G	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_015548.4	-1	reviewed	p.M3211I	1.000	314	0%	108	21.3%	3	0%	benign(0.176)	-	-	HMMSmart_SM00150,superfamily_Spectrin repeat
DST	667	genome.wustl.edu	37	6	56418058	56418058	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_015548.4	-1	reviewed	p.L2555I	0.953	435	0%	215	25.6%	0	-	possibly_damaging(0.932)	-	-	HMMPfam_Spectrin,HMMSmart_SM00150,superfamily_Spectrin repeat
DST	667	genome.wustl.edu	37	6	56469397	56469397	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	ENST00000370769	-1	known	p.Q3132H	0.007	262	0%	63	20.6%	0	-	possibly_damaging(0.855)	tolerated(1)	neutral(0.330)	NULL
DST	667	genome.wustl.edu	37	6	56469825	56469825	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	ENST00000370769	-1	known	p.E2990K	0.000	443	0%	117	17.1%	0	-	benign(0.002)	deleterious(0)	neutral(0.445)	NULL
DST	667	genome.wustl.edu	37	6	56469953	56469953	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	ENST00000370769	-1	known	p.T2947I	0.000	219	0%	72	13.9%	0	-	benign(0.06)	deleterious(0)	neutral(0.449)	NULL
DST	667	genome.wustl.edu	37	6	56472306	56472306	+	Silent	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	ENST00000370769	-1	known	p.R2163	0.013	430	0%	88	30.7%	0	-	-	-	-	NULL
DST	667	genome.wustl.edu	37	6	56480333	56480333	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001723.5	-1	reviewed	p.S2644	1.000	285	0%	70	12.9%	0	-	-	-	-	NULL
DST	667	genome.wustl.edu	37	6	56481317	56481317	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001723.5	-1	reviewed	p.S2316	0.846	187	0%	49	22.4%	0	-	-	-	-	superfamily_SSF75399
DST	667	genome.wustl.edu	37	6	56481810	56481810	+	Nonsense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001723.5	-1	reviewed	p.S2152*	0.925	168	0%	30	36.7%	0	-	-	-	-	HMMSmart_PLEC,superfamily_SSF75399
DST	667	genome.wustl.edu	37	6	56483050	56483050	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001723.5	-1	reviewed	p.R1928W	0.000	306	0%	75	12%	0	-	probably_damaging(0.999)	deleterious(0.01)	deleterious(0.896)	NULL
DST	667	genome.wustl.edu	37	6	56483428	56483428	+	Nonsense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001723.5	-1	reviewed	p.E1802*	0.934	432	0%	128	10.9%	0	-	-	-	-	NULL
DST	667	genome.wustl.edu	37	6	56484811	56484811	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001723.5	-1	reviewed	p.T1341A	0.000	391	0%	209	28.2%	0	-	unknown(0)	tolerated(0.77)	-	NULL
DST	667	genome.wustl.edu	37	6	56485366	56485366	+	Nonsense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001723.5	-1	reviewed	p.R1156*	0.013	477	0.2%	141	20.6%	0	-	-	-	-	NULL
DST	667	genome.wustl.edu	37	6	56504509	56504509	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_015548.4	-1	reviewed	p.Q357H	1.000	311	0%	93	11.8%	1	0%	probably_damaging(0.995)	deleterious(0)	deleterious(0.902)	HMMSmart_SM00150,superfamily_Spectrin repeat
DST	667	genome.wustl.edu	37	6	56716358	56716358	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	ENST00000370754	-1	known	p.A154	1.000	156	0%	122	21.3%	0	-	-	-	-	superfamily_Multidrug resistance ABC transporter MsbA N-terminal domain,superfamily_Calponin-homology domain CH-domain
RAB23	51715	genome.wustl.edu	37	6	57061318	57061318	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_016277.3	-1	reviewed	p.E110K	1.000	439	0%	150	24.7%	17	0%	probably_damaging(0.999)	tolerated(0.05)	deleterious(0.836)	HMMSmart_SM00176,HMMSmart_SM00173,HMMSmart_SM00174,HMMSmart_SM00175,HMMPfam_Ras,superfamily_P-loop containing nucleoside triphosphate hydrolases
KHDRBS2	202559	genome.wustl.edu	37	6	62887176	62887176	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_152688.2	-1	validated	p.E45K	1.000	628	0%	120	18.3%	0	-	benign(0.313)	tolerated(0.27)	neutral(0.131)	NULL
PTP4A1	7803	genome.wustl.edu	37	6	64288920	64288920	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_003463.3	+1	reviewed	p.A106T	1.000	339	0.3%	294	21.8%	25	8%	benign(0.201)	deleterious(0.04)	neutral(0.368)	HMMPfam_DSPc,HMMSmart_SM00404,superfamily_(Phosphotyrosine protein) phosphatases II
PHF3	23469	genome.wustl.edu	37	6	64394861	64394861	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_015153.2	+1	provisional	p.S413I	0.000	223	0%	213	24.9%	2	50%	possibly_damaging(0.476)	deleterious(0)	deleterious(0.602)	NULL
PHF3	23469	genome.wustl.edu	37	6	64421967	64421967	+	Nonsense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_015153.2	+1	provisional	p.E1495*	1.000	95	0%	31	29%	10	0%	-	-	-	NULL
PHF3	23469	genome.wustl.edu	37	6	64422269	64422269	+	Silent	SNP	A	A	G	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_015153.2	+1	provisional	p.R1595	0.025	189	0%	45	24.4%	5	40%	-	-	-	NULL
PHF3	23469	genome.wustl.edu	37	6	64422457	64422457	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_015153.2	+1	provisional	p.R1658Q	0.979	88	0%	29	24.1%	16	6.2%	probably_damaging(0.999)	deleterious(0)	deleterious(0.935)	NULL
PHF3	23469	genome.wustl.edu	37	6	64423420	64423420	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_015153.2	+1	provisional	p.R1979Q	0.982	370	0%	188	9%	49	8.1%	probably_damaging(0.999)	deleterious(0)	deleterious(0.935)	NULL
EYS	346007	genome.wustl.edu	37	6	64430984	64430984	+	Silent	SNP	A	A	G	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001142800.1	-1	reviewed	p.T2981	0.000	213	0%	35	17.1%	0	-	-	-	-	HMMSmart_SM00282,superfamily_Concanavalin A-like lectins/glucanases
EYS	346007	genome.wustl.edu	37	6	64498113	64498113	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	ENST00000398580	-1	known	p.S308L	0.945	301	0%	65	15.4%	0	-	-	-	-	HMMSmart_SM00282,superfamily_Concanavalin A-like lectins/glucanases,HMMPfam_Laminin_G_2
EYS	346007	genome.wustl.edu	37	6	65146126	65146126	+	Missense_Mutation	SNP	A	A	C	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001142800.1	-1	reviewed	p.F1956L	0.000	451	0%	56	16.1%	0	-	benign(0)	-	-	HMMSmart_SM00282,superfamily_Concanavalin A-like lectins/glucanases,HMMPfam_Laminin_G_2
EYS	346007	genome.wustl.edu	37	6	65301366	65301366	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001142800.1	-1	reviewed	p.A1465V	0.354	181	0%	57	15.8%	0	-	possibly_damaging(0.753)	-	-	superfamily_Concanavalin A-like lectins/glucanases
EYS	346007	genome.wustl.edu	37	6	65301646	65301646	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001142800.1	-1	reviewed	p.P1372T	0.000	155	0%	55	21.8%	0	-	possibly_damaging(0.949)	-	-	superfamily_Concanavalin A-like lectins/glucanases
EYS	346007	genome.wustl.edu	37	6	65655771	65655771	+	Missense_Mutation	SNP	T	T	G	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001142800.1	-1	reviewed	p.N766H	0.023	492	0%	144	27.1%	0	-	possibly_damaging(0.906)	-	-	HMMSmart_SM00179,HMMSmart_SM00181,PatternScan_EGF_1,superfamily_EGF/Laminin
EYS	346007	genome.wustl.edu	37	6	66005908	66005908	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001142800.1	-1	reviewed	p.S624L	0.041	240	0%	114	22.8%	0	-	unknown(0)	-	-	NULL
EYS	346007	genome.wustl.edu	37	6	66205165	66205165	+	Nonsense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001142800.1	-1	reviewed	p.E47*	0.906	192	0%	44	27.3%	0	-	-	-	-	NULL
BAI3	577	genome.wustl.edu	37	6	69348889	69348889	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001704.2	+1	reviewed	p.I108V	1.000	159	0%	185	29.2%	0	-	benign(0.382)	tolerated(1)	neutral(0.122)	NULL
BAI3	577	genome.wustl.edu	37	6	69728309	69728309	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001704.2	+1	reviewed	p.M675I	1.000	655	0.2%	175	19.4%	0	-	possibly_damaging(0.598)	tolerated(0.08)	deleterious(0.507)	NULL
LMBRD1	55788	genome.wustl.edu	37	6	70451681	70451681	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_018368.3	-1	reviewed	p.H188Y	1.000	309	0%	123	22.8%	8	12.5%	benign(0.35)	tolerated(0.09)	neutral(0.407)	HMMPfam_LMBR1
LMBRD1	55788	genome.wustl.edu	37	6	70462239	70462239	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_018368.3	-1	reviewed	p.S106Y	1.000	261	0%	114	20.2%	1	100%	probably_damaging(0.986)	deleterious(0.01)	deleterious(0.840)	HMMPfam_LMBR1
COL19A1	1310	genome.wustl.edu	37	6	70589495	70589495	+	Nonsense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001858.4	+1	reviewed	p.W12*	0.995	300	0%	149	17.4%	0	-	-	-	-	NULL
COL19A1	1310	genome.wustl.edu	37	6	70642750	70642750	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001858.4	+1	reviewed	p.T248A	0.055	263	0%	50	26%	0	-	unknown(0)	tolerated(0.71)	-	NULL
COL19A1	1310	genome.wustl.edu	37	6	70873264	70873264	+	Silent	SNP	T	T	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001858.4	+1	reviewed	p.G792	0.949	238	0%	52	11.5%	0	-	-	-	-	HMMPfam_Collagen
COL19A1	1310	genome.wustl.edu	37	6	70877935	70877935	+	Nonsense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001858.4	+1	reviewed	p.R822*	0.988	242	0%	30	20%	0	-	-	-	-	NULL
COL9A1	1297	genome.wustl.edu	37	6	70935685	70935685	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001851.4	-1	reviewed	p.G844D	1.000	120	0%	43	20.9%	2	0%	probably_damaging(1)	deleterious(0)	deleterious(0.945)	HMMPfam_Collagen
COL9A1	1297	genome.wustl.edu	37	6	71004245	71004245	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001851.4	-1	reviewed	p.L107	0.998	220	0%	114	10.5%	0	-	-	-	-	HMMSmart_TSPN,superfamily_ConA_like_lec_gl
FAM135A	57579	genome.wustl.edu	37	6	71185235	71185235	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001105531.2	+1	validated	p.L94	1.000	270	0%	43	18.6%	1	0%	-	-	-	NULL
FAM135A	57579	genome.wustl.edu	37	6	71234664	71234664	+	Missense_Mutation	SNP	A	A	C	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001105531.2	+1	validated	p.E430A	1.000	94	0%	22	27.3%	1	0%	benign(0.291)	tolerated(0.18)	neutral(0.145)	NULL
FAM135A	57579	genome.wustl.edu	37	6	71235921	71235921	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001105531.2	+1	validated	p.S849Y	1.000	138	0%	69	18.8%	2	100%	benign(0.005)	deleterious(0)	neutral(0.445)	NULL
FAM135A	57579	genome.wustl.edu	37	6	71269547	71269547	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001105531.2	+1	validated	p.A1295T	1.000	337	0%	251	24.3%	7	0%	probably_damaging(0.999)	deleterious(0)	deleterious(0.935)	superfamily_SSF53474
B3GAT2	135152	genome.wustl.edu	37	6	71603871	71603871	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_080742.2	-1	reviewed	p.T232	0.336	80	0%	49	24.5%	1	0%	-	-	-	HMMPfam_Glyco_transf_43,superfamily_Nucleotide-diphospho-sugar transferases
OGFRL1	79627	genome.wustl.edu	37	6	72006399	72006399	+	Missense_Mutation	SNP	A	A	C	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_024576.3	+1	validated	p.I191L	1.000	239	0%	163	11.7%	2	0%	benign(0.132)	tolerated(0.23)	neutral(0.053)	HMMPfam_OGFr_N
OGFRL1	79627	genome.wustl.edu	37	6	72006505	72006505	+	Missense_Mutation	SNP	T	T	G	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_024576.3	+1	validated	p.F226C	1.000	185	0%	136	22.8%	4	0%	probably_damaging(0.999)	deleterious(0)	deleterious(0.935)	HMMPfam_OGFr_N
RIMS1	22999	genome.wustl.edu	37	6	72960088	72960088	+	Missense_Mutation	SNP	C	C	G	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_014989.4	+1	reviewed	p.A766G	1.000	318	0%	56	16.1%	0	-	probably_damaging(0.999)	deleterious(0.05)	deleterious(0.836)	HMMPfam_C2,HMMSmart_SM00239,superfamily_C2 domain (Calcium/lipid-binding domain CaLB)
RIMS1	22999	genome.wustl.edu	37	6	72960710	72960710	+	Missense_Mutation	SNP	G	G	A	rs121918302		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_014989.4	+1	reviewed	p.R820H	1.000	429	0%	101	22.8%	0	-	benign(0.001)	tolerated(0.05)	neutral(0.345)	HMMPfam_C2,HMMSmart_SM00239,superfamily_C2 domain (Calcium/lipid-binding domain CaLB)
RIMS1	22999	genome.wustl.edu	37	6	72974714	72974714	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_014989.4	+1	reviewed	p.K1051N	1.000	368	0%	88	20.5%	0	-	probably_damaging(0.976)	tolerated(0.46)	neutral(0.430)	NULL
RIMS1	22999	genome.wustl.edu	37	6	72993776	72993776	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_014989.4	+1	reviewed	p.S1170I	1.000	339	0%	104	22.1%	0	-	benign(0.053)	deleterious(0.05)	neutral(0.349)	NULL
RIMS1	22999	genome.wustl.edu	37	6	73110296	73110296	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_014989.4	+1	reviewed	p.I1653	0.446	244	0%	51	9.8%	0	-	-	-	-	HMMSmart_SM00239,superfamily_C2 domain (Calcium/lipid-binding domain CaLB)
KCNQ5	56479	genome.wustl.edu	37	6	73830223	73830223	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_019842.3	+1	reviewed	p.Y381	0.998	116	0%	72	22.2%	0	-	-	-	-	NULL
KCNQ5	56479	genome.wustl.edu	37	6	73904495	73904495	+	Silent	SNP	T	T	C	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_019842.3	+1	reviewed	p.S719	1.000	256	0%	206	21.8%	0	-	-	-	-	NULL
C6orf221	154288	genome.wustl.edu	37	6	74072873	74072873	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001017361.2	+1	validated	p.H75	0.000	96	0%	157	19.1%	0	-	-	-	-	NULL
DDX43	55510	genome.wustl.edu	37	6	74111647	74111647	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_018665.2	+1	reviewed	p.R168W	0.507	423	0%	348	22.1%	0	-	probably_damaging(0.999)	deleterious(0.01)	deleterious(0.896)	superfamily_SSF52540
MTO1	25821	genome.wustl.edu	37	6	74192205	74192205	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001123226.1	+1	reviewed	p.R540Q	0.997	381	0%	218	11.5%	2	0%	probably_damaging(0.963)	deleterious(0)	deleterious(0.850)	NULL
CD109	135228	genome.wustl.edu	37	6	74407123	74407123	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_133493.3	+1	reviewed	p.G25	0.999	233	0%	338	24.3%	2	50%	-	-	-	HMMPfam_A2M_N
CD109	135228	genome.wustl.edu	37	6	74528151	74528151	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_133493.3	+1	reviewed	p.V1318I	1.000	436	0.2%	135	20.7%	10	0%	possibly_damaging(0.922)	tolerated(0.22)	neutral(0.413)	HMMPfam_A2M_recep,superfamily_Alpha-macroglobulin receptor domain
COL12A1	1303	genome.wustl.edu	37	6	75799861	75799861	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_004370.5	-1	reviewed	p.G2969D	1.000	84	0%	113	28.3%	58	5.1%	unknown(0)	-	-	HMMPfam_Collagen
COL12A1	1303	genome.wustl.edu	37	6	75841697	75841697	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_004370.5	-1	reviewed	p.V1966I	0.006	245	0%	54	18.5%	8	0%	benign(0.004)	-	-	HMMPfam_fn3,HMMSmart_SM00060,superfamily_Fibronectin type III
COL12A1	1303	genome.wustl.edu	37	6	75861742	75861742	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_004370.5	-1	reviewed	p.A1281T	1.000	268	0%	66	28.8%	6	0%	probably_damaging(0.999)	-	-	HMMPfam_VWA,HMMSmart_SM00327,superfamily_vWA-like
COL12A1	1303	genome.wustl.edu	37	6	75866077	75866077	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_004370.5	-1	reviewed	p.S1049L	0.999	468	0%	170	23.5%	4	0%	possibly_damaging(0.837)	-	-	HMMPfam_fn3,HMMSmart_SM00060,superfamily_Fibronectin type III
COL12A1	1303	genome.wustl.edu	37	6	75912467	75912467	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_004370.5	-1	reviewed	p.A14	0.995	213	0%	283	29.7%	5	0%	-	-	-	NULL
TMEM30A	55754	genome.wustl.edu	37	6	75969140	75969140	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_018247.3	-1	validated	p.G203D	1.000	241	0%	40	20%	8	12.5%	possibly_damaging(0.728)	tolerated(0.11)	deleterious(0.536)	HMMPfam_CDC50
FILIP1	27145	genome.wustl.edu	37	6	76024130	76024130	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_015687.2	-1	validated	p.V473A	0.985	390	0%	223	19.7%	1	0%	benign(0.023)	deleterious(0.02)	neutral(0.384)	HMMPfam_CortBP2
FILIP1	27145	genome.wustl.edu	37	6	76024398	76024398	+	Nonsense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_015687.2	-1	validated	p.R384*	1.000	488	0%	243	25.5%	0	-	-	-	-	HMMPfam_CortBP2
FILIP1	27145	genome.wustl.edu	37	6	76072486	76072486	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_015687.2	-1	validated	p.D142Y	1.000	229	0%	48	10.4%	0	-	probably_damaging(0.976)	deleterious(0)	deleterious(0.863)	HMMPfam_CortBP2
SENP6	26054	genome.wustl.edu	37	6	76357511	76357511	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_015571.2	+1	validated	p.G182S	0.971	314	0%	80	12.5%	4	0%	benign(0.029)	deleterious(0.05)	neutral(0.347)	NULL
SENP6	26054	genome.wustl.edu	37	6	76407233	76407233	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_015571.2	+1	validated	p.A763V	1.000	299	0%	89	12.4%	9	11.1%	probably_damaging(0.985)	deleterious(0)	deleterious(0.877)	HMMPfam_Peptidase_C48,superfamily_Cysteine proteinases
HTR1B	3351	genome.wustl.edu	37	6	78172236	78172236	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_000863.1	-1	provisional	p.S295	0.938	63	0%	120	29.2%	0	-	-	-	-	HMMPfam_7tm_1,superfamily_Family A G protein-coupled receptor-like
PHIP	55023	genome.wustl.edu	37	6	79664991	79664991	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_017934.5	-1	validated	p.E1287D	1.000	307	0%	50	26%	0	-	benign(0.107)	tolerated(0.47)	neutral(0.019)	NULL
PHIP	55023	genome.wustl.edu	37	6	79668288	79668288	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_017934.5	-1	validated	p.R1229Q	1.000	206	0%	63	25.4%	1	0%	probably_damaging(0.997)	deleterious(0)	deleterious(0.911)	HMMPfam_Bromodomain,HMMSmart_SM00297,superfamily_Bromodomain
PHIP	55023	genome.wustl.edu	37	6	79735659	79735659	+	Splice_Site	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_017934.5	-1	validated	e8+1	1.000	149	0%	34	23.5%	0	-	-	-	-	-
TTK	7272	genome.wustl.edu	37	6	80715659	80715659	+	Silent	SNP	T	T	C	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_003318.4	+1	reviewed	p.T33	1.000	228	0%	355	10.4%	0	-	-	-	-	NULL
BCKDHB	594	genome.wustl.edu	37	6	80910652	80910652	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_000056.3	+1	reviewed	p.A248	1.000	129	0%	37	43.2%	3	0%	-	-	-	superfamily_Thiamin diphosphate-binding fold (THDP-binding)
IBTK	25998	genome.wustl.edu	37	6	82950116	82950116	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_015525.2	-1	reviewed	p.E30K	1.000	223	0%	179	15.1%	1	0%	probably_damaging(0.979)	tolerated(0.08)	deleterious(0.722)	superfamily_Ankyrin repeat
ME1	4199	genome.wustl.edu	37	6	84108180	84108180	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_002395.4	-1	reviewed	p.L90M	1.000	188	0%	44	20.5%	2	0%	possibly_damaging(0.706)	deleterious(0.02)	deleterious(0.637)	HMMPfam_malic,superfamily_SSF53223
PRSS35	167681	genome.wustl.edu	37	6	84233314	84233314	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_153362.2	+1	validated	p.A52T	1.000	241	0%	109	29.4%	0	-	probably_damaging(0.998)	deleterious(0.01)	deleterious(0.880)	NULL
PRSS35	167681	genome.wustl.edu	37	6	84233722	84233722	+	Silent	SNP	T	T	C	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_153362.2	+1	validated	p.L188	0.000	297	0%	202	10.4%	0	-	-	-	-	HMMPfam_Trypsin,HMMSmart_Tryp_SPc,superfamily_Pept_Ser_Cys
CYB5R4	51167	genome.wustl.edu	37	6	84644446	84644446	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_016230.3	+1	validated	p.P316H	0.145	266	0%	50	20%	2	0%	benign(0.002)	tolerated(0.11)	neutral(0.272)	HMMPfam_FAD_binding_6,superfamily_Riboflavin_synthase_like_b-brl
SYNCRIP	10492	genome.wustl.edu	37	6	86332391	86332391	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_006372.4	-1	validated	p.V273I	1.000	308	0%	155	18.1%	22	18.1%	probably_damaging(0.958)	tolerated(0.05)	deleterious(0.747)	HMMPfam_RRM_1,HMMSmart_SM00360,superfamily_RNA-binding domain RBD
HTR1E	3354	genome.wustl.edu	37	6	87725274	87725274	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_000865.2	+1	validated	p.L74	0.646	144	0.7%	172	28.5%	0	-	-	-	-	HMMPfam_7tm_1,superfamily_SSF81321
HTR1E	3354	genome.wustl.edu	37	6	87725471	87725471	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_000865.2	+1	validated	p.A140V	0.848	86	0%	104	26%	0	-	benign(0)	tolerated(0.11)	neutral(0.272)	HMMPfam_7tm_1,superfamily_SSF81321
HTR1E	3354	genome.wustl.edu	37	6	87725710	87725710	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_000865.2	+1	validated	p.R220W	1.000	253	0.4%	276	23.6%	0	-	probably_damaging(1)	deleterious(0)	deleterious(0.945)	HMMPfam_7tm_1,superfamily_SSF81321
HTR1E	3354	genome.wustl.edu	37	6	87725952	87725952	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_000865.2	+1	validated	p.F300L	1.000	197	0%	180	12.8%	0	-	probably_damaging(0.999)	deleterious(0)	deleterious(0.935)	HMMPfam_7tm_1,superfamily_SSF81321
ZNF292	23036	genome.wustl.edu	37	6	87966679	87966679	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_015021.1	+1	validated	p.S1111F	1.000	132	0%	58	27.6%	1	0%	probably_damaging(1)	deleterious(0)	deleterious(0.945)	HMMPfam_zf-C2H2,PatternScan_ZINC_FINGER_C2H2_1,HMMSmart_SM00355,superfamily_C2H2 and C2HC zinc fingers
ZNF292	23036	genome.wustl.edu	37	6	87968243	87968243	+	Missense_Mutation	SNP	G	G	T	rs114815908	byFrequency;by1000genomes	TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_015021.1	+1	validated	p.K1632N	1.000	145	0%	59	33.9%	0	-	probably_damaging(0.981)	deleterious(0)	deleterious(0.870)	NULL
ZNF292	23036	genome.wustl.edu	37	6	87968587	87968587	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_015021.1	+1	validated	p.S1747F	1.000	123	0%	36	13.9%	0	-	probably_damaging(0.966)	deleterious(0.01)	deleterious(0.814)	NULL
ZNF292	23036	genome.wustl.edu	37	6	87970574	87970574	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_015021.1	+1	validated	p.C2409	0.995	140	0%	43	14%	3	0%	-	-	-	PatternScan_ZINC_FINGER_C2H2_1,HMMSmart_SM00355,superfamily_C2H2 and C2HC zinc fingers
GJB7	375519	genome.wustl.edu	37	6	87994100	87994100	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_198568.2	-1	validated	p.T177	0.005	201	0%	52	38.5%	0	-	-	-	-	HMMPfam_Connexin_CCC
GJB7	375519	genome.wustl.edu	37	6	87994549	87994549	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_198568.2	-1	validated	p.V28M	0.002	147	0%	46	37%	0	-	probably_damaging(0.975)	deleterious(0)	deleterious(0.861)	HMMPfam_Connexin
C6orf165	154313	genome.wustl.edu	37	6	88123615	88123615	+	Nonsense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001031743.2	+1	validated	p.R94*	1.000	228	0%	179	25.7%	1	0%	-	-	-	NULL
RARS2	57038	genome.wustl.edu	37	6	88240649	88240649	+	Missense_Mutation	SNP	T	T	G	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_020320.3	-1	reviewed	p.Q208H	1.000	350	0%	118	12.7%	7	0%	possibly_damaging(0.918)	deleterious(0)	deleterious(0.813)	HMMPfam_tRNA-synt_1d,superfamily_Nucleotidylyl transferase
ORC3	23595	genome.wustl.edu	37	6	88299896	88299896	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_181837.1	+1	reviewed	p.S4P	1.000	109	0%	136	22.8%	3	0%	probably_damaging(0.984)	deleterious(0.03)	deleterious(0.795)	NULL
AKIRIN2	55122	genome.wustl.edu	37	6	88391422	88391422	+	Nonsense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_018064.3	-1	validated	p.E99*	1.000	419	0%	181	12.2%	20	0%	-	-	-	NULL
CNR1	1268	genome.wustl.edu	37	6	88853851	88853851	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_016083.4	-1	reviewed	p.F381L	1.000	185	0%	82	14.6%	0	-	probably_damaging(0.999)	tolerated(0.07)	deleterious(0.809)	HMMPfam_7tm_1,superfamily_Family A G protein-coupled receptor-like
RNGTT	8732	genome.wustl.edu	37	6	89479577	89479577	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_003800.3	-1	validated	p.R452Q	1.000	416	0%	73	17.8%	1	0%	possibly_damaging(0.596)	tolerated(0.13)	neutral(0.459)	HMMPfam_mRNA_cap_enzyme,superfamily_DNA ligase/mRNA capping enzyme catalytic domain
RNGTT	8732	genome.wustl.edu	37	6	89614670	89614670	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_003800.3	-1	validated	p.E150K	1.000	141	0%	43	30.2%	2	0%	probably_damaging(0.962)	deleterious(0.04)	deleterious(0.754)	HMMPfam_DSPc,superfamily_(Phosphotyrosine protein) phosphatases II
PM20D2	135293	genome.wustl.edu	37	6	89864616	89864616	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001010853.1	+1	validated	p.C303R	1.000	149	0%	137	16.8%	1	0%	probably_damaging(1)	deleterious(0)	deleterious(0.945)	superfamily_Bacterial exopeptidase dimerisation domain,superfamily_Zn-dependent exopeptidases
GABRR2	2570	genome.wustl.edu	37	6	89974215	89974215	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_002043.2	-1	reviewed	p.F359	0.993	162	0%	57	24.6%	0	-	-	-	-	HMMPfam_Neur_chan_memb,superfamily_Neurotransmitter-gated ion-channel transmembrane pore
GABRR2	2570	genome.wustl.edu	37	6	89977512	89977512	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_002043.2	-1	reviewed	p.L233	1.000	352	0%	109	14.7%	0	-	-	-	-	HMMPfam_Neur_chan_LBD,superfamily_Nicotinic receptor ligand binding domain-like
UBE2J1	51465	genome.wustl.edu	37	6	90039500	90039500	+	Silent	SNP	A	A	G	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_016021.2	-1	reviewed	p.G285	0.022	290	0%	70	20%	54	18.5%	-	-	-	NULL
RRAGD	58528	genome.wustl.edu	37	6	90089927	90089927	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_021244.4	-1	validated	p.D202N	1.000	399	0%	126	26.2%	6	0%	probably_damaging(0.976)	deleterious(0)	deleterious(0.863)	HMMPfam_Gtr1_RagA,superfamily_P-loop containing nucleoside triphosphate hydrolases
RRAGD	58528	genome.wustl.edu	37	6	90097198	90097198	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_021244.4	-1	validated	p.S87Y	1.000	237	0%	68	10.3%	4	0%	possibly_damaging(0.865)	deleterious(0.01)	deleterious(0.741)	superfamily_P-loop containing nucleoside triphosphate hydrolases
ANKRD6	22881	genome.wustl.edu	37	6	90340299	90340299	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_014942.3	+1	validated	p.R582Q	0.010	51	0%	39	25.6%	5	0%	possibly_damaging(0.612)	tolerated(0.06)	deleterious(0.534)	NULL
MDN1	23195	genome.wustl.edu	37	6	90354746	90354746	+	Silent	SNP	A	A	G	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_014611.1	-1	provisional	p.N5530	1.000	156	0.6%	130	25.4%	7	14.2%	-	-	-	HMMSmart_SM00327,superfamily_vWA-like
MDN1	23195	genome.wustl.edu	37	6	90374253	90374253	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_014611.1	-1	provisional	p.S4730L	1.000	527	0%	136	14.7%	5	40%	probably_damaging(0.999)	deleterious(0.01)	deleterious(0.896)	NULL
MDN1	23195	genome.wustl.edu	37	6	90383903	90383903	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_014611.1	-1	provisional	p.E4389D	0.992	333	0%	135	21.5%	0	-	possibly_damaging(0.923)	tolerated(0.42)	neutral(0.387)	NULL
MDN1	23195	genome.wustl.edu	37	6	90385236	90385236	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_014611.1	-1	provisional	p.L4236	0.555	93	0%	31	16.1%	1	0%	-	-	-	NULL
MDN1	23195	genome.wustl.edu	37	6	90393608	90393608	+	Missense_Mutation	SNP	A	A	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_014611.1	-1	provisional	p.S3949T	1.000	369	0%	125	24%	3	0%	probably_damaging(0.98)	tolerated(0.16)	deleterious(0.483)	NULL
MDN1	23195	genome.wustl.edu	37	6	90397868	90397868	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_014611.1	-1	provisional	p.R3762C	0.390	249	0%	103	13.6%	0	-	benign(0.002)	tolerated(0.2)	neutral(0.049)	NULL
MDN1	23195	genome.wustl.edu	37	6	90450000	90450000	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_014611.1	-1	provisional	p.R1516C	1.000	450	0.2%	123	29.3%	2	0%	probably_damaging(1)	deleterious(0)	deleterious(0.945)	HMMSmart_SM00382,HMMPfam_AAA_5,superfamily_P-loop containing nucleoside triphosphate hydrolases
CASP8AP2	9994	genome.wustl.edu	37	6	90565212	90565212	+	Missense_Mutation	SNP	T	T	G	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001137667.1	+1	reviewed	p.C83W	1.000	108	0%	42	26.2%	0	-	-	-	-	NULL
BACH2	60468	genome.wustl.edu	37	6	90642416	90642416	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_021813.2	-1	validated	p.P746H	0.994	141	0%	98	20.4%	0	-	benign(0.006)	tolerated(0.13)	neutral(0.253)	NULL
BACH2	60468	genome.wustl.edu	37	6	90642471	90642471	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_021813.2	-1	validated	p.R728W	1.000	164	0%	118	11.9%	0	-	probably_damaging(0.999)	deleterious(0)	deleterious(0.935)	NULL
BACH2	60468	genome.wustl.edu	37	6	90642535	90642535	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_021813.2	-1	validated	p.F706	1.000	198	0%	151	29.8%	1	0%	-	-	-	HMMSmart_BRLZ,HMMPfam_bZIP_1
BACH2	60468	genome.wustl.edu	37	6	90718332	90718332	+	Missense_Mutation	SNP	A	A	C	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_021813.2	-1	validated	p.L78V	1.000	116	0%	74	13.5%	1	0%	benign(0.085)	deleterious(0)	neutral(0.451)	HMMSmart_BTB,superfamily_BTB/POZ_fold,HMMPfam_BTB
EPHA7	2045	genome.wustl.edu	37	6	93953162	93953162	+	Silent	SNP	T	T	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_004440.3	-1	reviewed	p.G993	1.000	488	0%	106	11.3%	0	-	-	-	-	NULL
FUT9	10690	genome.wustl.edu	37	6	96652045	96652045	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_006581.3	+1	validated	p.C338	1.000	258	0%	63	14.3%	0	-	-	-	-	HMMPfam_Glyco_transf_10
FHL5	9457	genome.wustl.edu	37	6	97053911	97053911	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_020482.4	+1	reviewed	p.E156D	1.000	295	0%	75	18.7%	1	0%	possibly_damaging(0.851)	tolerated(0.11)	deleterious(0.599)	HMMPfam_LIM,superfamily_SSF57716
GPR63	81491	genome.wustl.edu	37	6	97247016	97247016	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001143957.1	-1	validated	p.L198M	1.000	95	0%	24	41.7%	0	-	benign(0.184)	tolerated(0.27)	neutral(0.051)	HMMPfam_7tm_1,superfamily_Family A G protein-coupled receptor-like
MMS22L	253714	genome.wustl.edu	37	6	97720750	97720750	+	Missense_Mutation	SNP	T	T	G	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_198468.2	-1	predicted	p.K146Q	1.000	181	0%	87	12.6%	0	-	benign(0.002)	tolerated(0.43)	neutral(0.013)	NULL
FAXC	84553	genome.wustl.edu	37	6	99739652	99739652	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_032511.2	-1	validated	p.A290T	1.000	242	0%	78	24.4%	1	0%	possibly_damaging(0.842)	tolerated(0.07)	deleterious(0.641)	superfamily_Glutathione S-transferase (GST) C-terminal domain,HMMPfam_Tom37
USP45	85015	genome.wustl.edu	37	6	99891489	99891489	+	Missense_Mutation	SNP	A	A	C	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001080481.1	-1	provisional	p.I675M	1.000	160	0%	26	19.2%	0	-	probably_damaging(1)	deleterious(0)	deleterious(0.945)	HMMPfam_UCH,superfamily_Cysteine proteinases
CCNC	892	genome.wustl.edu	37	6	100006346	100006346	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	ENST00000482541	-1	known	p.K125E	0.004	293	0%	88	25%	0	-	benign(0)	tolerated(0.85)	neutral(0.001)	HMMSmart_CYCLIN,superfamily_Cyclin_like
SIM1	6492	genome.wustl.edu	37	6	100896035	100896035	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_005068.2	-1	reviewed	p.C279	0.993	57	0%	63	25.4%	0	-	-	-	-	HMMSmart_PAS,HMMPfam_PAS_3,superfamily_SSF55785
SIM1	6492	genome.wustl.edu	37	6	100896061	100896061	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_005068.2	-1	reviewed	p.G271C	1.000	68	0%	73	31.5%	0	-	benign(0.003)	tolerated(0.07)	neutral(0.319)	HMMSmart_PAS,HMMPfam_PAS_3,superfamily_SSF55785
ASCC3	10973	genome.wustl.edu	37	6	100957860	100957860	+	Nonsense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_006828.2	-1	validated	p.R2137*	1.000	273	0.4%	145	24.1%	8	12.5%	-	-	-	HMMPfam_Sec63,HMMSmart_SEC63
ASCC3	10973	genome.wustl.edu	37	6	101075556	101075556	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_006828.2	-1	validated	p.R1518C	1.000	257	0%	32	18.8%	0	-	probably_damaging(1)	deleterious(0)	deleterious(0.945)	HMMSmart_DEXDc,superfamily_SSF52540
ASCC3	10973	genome.wustl.edu	37	6	101109738	101109738	+	Nonsense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_006828.2	-1	validated	p.R883*	1.000	506	0.2%	97	13.4%	1	0%	-	-	-	superfamily_SSF52540
ASCC3	10973	genome.wustl.edu	37	6	101296418	101296418	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_006828.2	-1	validated	p.R136Q	0.997	137	0.7%	38	44.7%	0	-	benign(0.07)	tolerated(0.65)	neutral(0.008)	NULL
ASCC3	10973	genome.wustl.edu	37	6	101311967	101311967	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_006828.2	-1	validated	p.D72Y	1.000	415	0%	95	23.2%	1	100%	benign(0.011)	deleterious(0.01)	neutral(0.406)	NULL
GRIK2	2898	genome.wustl.edu	37	6	102503326	102503326	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_021956.4	+1	reviewed	p.E811D	1.000	287	0%	62	16.1%	0	-	benign(0.325)	tolerated(0.08)	neutral(0.401)	HMMPfam_Lig_chan
HACE1	57531	genome.wustl.edu	37	6	105177600	105177600	+	Silent	SNP	T	T	C	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_020771.3	-1	validated	p.E889	1.000	407	0%	202	19.3%	4	0%	-	-	-	HMMPfam_HECT,HMMSmart_SM00119,superfamily_Hect E3 ligase catalytic domain
PREP	5550	genome.wustl.edu	37	6	105726223	105726223	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_002726.3	-1	reviewed	p.R643	0.002	181	0%	74	27%	25	12%	-	-	-	HMMPfam_Peptidase_S9,superfamily_SSF53474
AIM1	202	genome.wustl.edu	37	6	106968888	106968888	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001624.2	+1	validated	p.A861T	0.008	113	0%	100	15%	0	-	benign(0)	deleterious(0)	neutral(0.445)	NULL
AIM1	202	genome.wustl.edu	37	6	107009221	107009221	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001624.2	+1	validated	p.R1587Q	0.999	242	0%	58	15.5%	1	100%	probably_damaging(1)	tolerated(0.06)	deleterious(0.823)	HMMSmart_RICIN,superfamily_RicinB_like
BEND3	57673	genome.wustl.edu	37	6	107390103	107390103	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001080450.2	-1	validated	p.S764	0.033	51	0%	82	20.7%	0	-	-	-	-	HMMPfam_BEN
SOBP	55084	genome.wustl.edu	37	6	107954860	107954860	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_018013.3	+1	validated	p.L271P	1.000	116	0%	214	13.1%	0	-	probably_damaging(1)	deleterious(0)	deleterious(0.945)	NULL
SEC63	11231	genome.wustl.edu	37	6	108202409	108202409	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_007214.4	-1	reviewed	p.L627I	0.997	831	0%	179	24.6%	22	13.6%	benign(0.123)	tolerated(0.66)	neutral(0.013)	HMMSmart_SEC63
NR2E1	7101	genome.wustl.edu	37	6	108502019	108502019	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_003269.3	+1	validated	p.G250S	1.000	180	0%	186	23.7%	0	-	benign(0)	tolerated(1)	-	HMMPfam_Hormone_recep,HMMSmart_SM00430,superfamily_Nuclear receptor ligand-binding domain
SNX3	8724	genome.wustl.edu	37	6	108581976	108581976	+	Missense_Mutation	SNP	T	T	G	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_003795.4	-1	reviewed	p.E50D	0.906	87	0%	171	29.2%	61	18%	possibly_damaging(0.892)	deleterious(0)	deleterious(0.796)	HMMPfam_PX,HMMSmart_SM00312,superfamily_PX domain
SMPD2	6610	genome.wustl.edu	37	6	109763873	109763873	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	ENST00000458487	+1	known	p.G34R	0.039	141	0%	217	30%	1	0%	unknown(0)	tolerated(0.37)	-	HMMPfam_Exo_endo_phos
SMPD2	6610	genome.wustl.edu	37	6	109764917	109764917	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_003080.2	+1	validated	p.S361G	0.213	181	0%	293	25.3%	18	44.4%	benign(0.001)	tolerated(0.44)	neutral(0.013)	NULL
MICAL1	64780	genome.wustl.edu	37	6	109769085	109769085	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_022765.3	-1	validated	p.R646Q	0.997	122	0%	246	16.7%	20	0%	probably_damaging(0.976)	deleterious(0.01)	deleterious(0.824)	NULL
MICAL1	64780	genome.wustl.edu	37	6	109769946	109769946	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_022765.3	-1	validated	p.Q551H	1.000	29	0%	52	21.2%	23	4.3%	benign(0.301)	deleterious(0)	deleterious(0.537)	HMMPfam_CH,HMMSmart_SM00033,superfamily_Calponin-homology domain CH-domain
MICAL1	64780	genome.wustl.edu	37	6	109772807	109772807	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_022765.3	-1	validated	p.R310H	0.142	80	0%	118	18.6%	1	0%	benign(0.001)	tolerated(0.13)	neutral(0.253)	superfamily_FAD/NAD(P)-binding domain
ZBTB24	9841	genome.wustl.edu	37	6	109803014	109803014	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_014797.2	-1	validated	p.I72	0.000	249	0%	331	11.8%	0	-	-	-	-	HMMSmart_SM00225,superfamily_POZ domain,HMMPfam_BTB
AKD1	221264	genome.wustl.edu	37	6	109837170	109837170	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	ENST00000424296	-1	known	p.R398C	1.000	574	0%	163	23.9%	0	-	probably_damaging(1)	deleterious(0.02)	deleterious(0.883)	NULL
AKD1	221264	genome.wustl.edu	37	6	109854549	109854549	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	ENST00000424296	-1	known	p.R238C	1.000	546	0.2%	114	22.8%	0	-	probably_damaging(1)	deleterious(0)	deleterious(0.945)	HMMPfam_ADK,superfamily_SSF52540
AKD1	221264	genome.wustl.edu	37	6	109954507	109954507	+	Missense_Mutation	SNP	A	A	C	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001145128.2	-1	provisional	p.L318R	0.150	373	0%	164	22.6%	0	-	probably_damaging(0.989)	deleterious(0)	deleterious(0.884)	NULL
GPR6	2830	genome.wustl.edu	37	6	110301378	110301378	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_005284.3	+1	validated	p.R355C	1.000	89	1.1%	157	28.7%	0	-	benign(0.265)	deleterious(0.03)	neutral(0.392)	superfamily_SSF81321
CDC40	51362	genome.wustl.edu	37	6	110550120	110550120	+	Missense_Mutation	SNP	T	T	G	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_015891.2	+1	reviewed	p.I501M	1.000	163	0%	57	26.3%	6	0%	possibly_damaging(0.795)	tolerated(0.1)	deleterious(0.585)	HMMSmart_WD40,superfamily_WD40_like
METTL24	728464	genome.wustl.edu	37	6	110567241	110567241	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001123364.1	-1	inferred	p.D337N	1.000	405	0%	100	21%	1	0%	benign(0.104)	tolerated(0.63)	neutral(0.011)	NULL
DDO	8528	genome.wustl.edu	37	6	110714441	110714441	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_003649.2	-1	reviewed	p.R216I	0.714	105	0%	75	30.7%	0	-	probably_damaging(0.979)	tolerated(0.06)	deleterious(0.744)	HMMPfam_DAO,superfamily_Nucleotide-binding domain
SLC22A16	85413	genome.wustl.edu	37	6	110763907	110763907	+	Nonsense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_033125.2	-1	provisional	p.W241*	1.000	98	0%	34	35.3%	0	-	-	-	-	HMMPfam_MFS_1,superfamily_MFS general substrate transporter
SLC22A16	85413	genome.wustl.edu	37	6	110768130	110768130	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_033125.2	-1	provisional	p.A199	0.341	132	0%	41	19.5%	0	-	-	-	-	HMMPfam_MFS_1,superfamily_MFS general substrate transporter
CDK19	23097	genome.wustl.edu	37	6	110942366	110942366	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_015076.3	-1	reviewed	p.P440S	0.995	98	0%	170	14.1%	1	0%	possibly_damaging(0.796)	tolerated(0.35)	neutral(0.320)	NULL
CDK19	23097	genome.wustl.edu	37	6	110948286	110948286	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_015076.3	-1	reviewed	p.R237C	1.000	369	0%	270	24.4%	4	0%	probably_damaging(1)	deleterious(0.01)	deleterious(0.905)	HMMSmart_SM00219,HMMSmart_SM00220,superfamily_Protein kinase-like (PK-like),HMMPfam_Pkinase
GTF3C6	112495	genome.wustl.edu	37	6	111281806	111281806	+	Missense_Mutation	SNP	A	A	C	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_138408.3	+1	validated	p.E78D	0.994	625	0%	787	23.8%	118	22.8%	probably_damaging(0.999)	tolerated(0.21)	deleterious(0.534)	NULL
GTF3C6	112495	genome.wustl.edu	37	6	111288758	111288758	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_138408.3	+1	validated	p.R136Q	0.999	119	0%	108	20.4%	132	35.6%	probably_damaging(0.999)	tolerated(0.22)	deleterious(0.532)	NULL
SLC16A10	117247	genome.wustl.edu	37	6	111543273	111543273	+	Silent	SNP	T	T	C	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_018593.4	+1	validated	p.I461	0.045	410	0%	131	31.3%	1	100%	-	-	-	superfamily_MFS_gen_substrate_transporter
KIAA1919	91749	genome.wustl.edu	37	6	111587332	111587332	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_153369.2	+1	validated	p.I189	0.228	328	0%	280	24.6%	0	-	-	-	-	HMMPfam_MFS_1,superfamily_MFS general substrate transporter
REV3L	5980	genome.wustl.edu	37	6	111694649	111694649	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_002912.3	-1	validated	p.D1637Y	1.000	182	0%	58	15.5%	1	0%	probably_damaging(1)	deleterious(0)	deleterious(0.945)	superfamily_Ribonuclease H-like
TRAF3IP2	10758	genome.wustl.edu	37	6	111901500	111901500	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_147686.2	-1	reviewed	p.H308N	0.066	68	0%	34	14.7%	24	8.3%	benign(0.244)	deleterious(0.04)	neutral(0.373)	NULL
FYN	2534	genome.wustl.edu	37	6	112017578	112017578	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_002037.3	-1	reviewed	p.A315V	1.000	369	0%	105	24.8%	50	0%	probably_damaging(1)	deleterious(0)	deleterious(0.945)	HMMPfam_Pkinase_Tyr,HMMSmart_SM00219,HMMSmart_SM00220,superfamily_Protein kinase-like (PK-like)
LAMA4	3910	genome.wustl.edu	37	6	112430782	112430782	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001105206.1	-1	reviewed	p.S1777F	1.000	165	0.6%	74	21.6%	164	3.6%	probably_damaging(0.999)	deleterious(0.01)	deleterious(0.896)	HMMSmart_SM00282,superfamily_Concanavalin A-like lectins/glucanases,HMMPfam_Laminin_G_2
LAMA4	3910	genome.wustl.edu	37	6	112435894	112435894	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001105206.1	-1	reviewed	p.L1726	1.000	330	0%	73	13.7%	106	3.7%	-	-	-	HMMSmart_SM00282,superfamily_Concanavalin A-like lectins/glucanases,HMMPfam_Laminin_G_2
LAMA4	3910	genome.wustl.edu	37	6	112457366	112457366	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001105206.1	-1	reviewed	p.T1125A	0.999	364	0.3%	87	33.3%	9	0%	benign(0.117)	tolerated(0.15)	neutral(0.251)	HMMSmart_SM00282,superfamily_Concanavalin A-like lectins/glucanases,HMMPfam_Laminin_G_2
LAMA4	3910	genome.wustl.edu	37	6	112493824	112493824	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001105206.1	-1	reviewed	p.R514W	1.000	160	0%	29	51.7%	13	7.6%	probably_damaging(0.986)	deleterious(0.02)	deleterious(0.818)	HMMPfam_Laminin_I
RFPL4B	442247	genome.wustl.edu	37	6	112671146	112671146	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001013734.2	+1	validated	p.R79Q	0.000	199	0%	127	18.1%	0	-	benign(0)	tolerated(0.33)	neutral(0.024)	NULL
HS3ST5	222537	genome.wustl.edu	37	6	114378489	114378489	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_153612.3	-1	validated	p.R325C	1.000	125	0%	52	17.3%	0	-	benign(0.002)	deleterious(0.04)	neutral(0.349)	HMMPfam_Sulfotransfer_1,superfamily_P-loop containing nucleoside triphosphate hydrolases
HS3ST5	222537	genome.wustl.edu	37	6	114383940	114383940	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_153612.3	-1	validated	p.L24F	1.000	213	0%	52	28.8%	0	-	benign(0.085)	deleterious(0.03)	neutral(0.370)	NULL
COL10A1	1300	genome.wustl.edu	37	6	116441506	116441506	+	Silent	SNP	A	A	G	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_000493.3	-1	reviewed	p.C591	0.018	238	0%	62	30.6%	0	-	-	-	-	HMMPfam_C1q,HMMSmart_SM00110,superfamily_TNF-like
TSPYL1	7259	genome.wustl.edu	37	6	116600097	116600097	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_003309.3	-1	reviewed	p.E299D	0.991	234	0%	347	14.1%	7	57.1%	unknown(0)	-	-	HMMPfam_NAP
DSE	29940	genome.wustl.edu	37	6	116720749	116720749	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001080976.1	+1	reviewed	p.F112L	1.000	115	0%	81	19.8%	0	-	benign(0.366)	tolerated(0.16)	neutral(0.176)	NULL
DSE	29940	genome.wustl.edu	37	6	116757777	116757777	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001080976.1	+1	reviewed	p.R716C	0.988	86	1.2%	27	25.9%	6	0%	possibly_damaging(0.95)	deleterious(0.01)	deleterious(0.799)	NULL
DSE	29940	genome.wustl.edu	37	6	116758212	116758212	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001080976.1	+1	reviewed	p.D861Y	1.000	277	0%	80	20%	2	0%	probably_damaging(0.99)	deleterious(0)	deleterious(0.886)	NULL
FAM26E	254228	genome.wustl.edu	37	6	116833024	116833024	+	Silent	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_153711.2	+1	validated	p.L55	0.602	246	0%	85	24.7%	0	-	-	-	-	NULL
FAM26D	221301	genome.wustl.edu	37	6	116878987	116878987	+	Splice_Site	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_153036.2	+1	validated	e1-1	1.000	309	0%	260	18.5%	0	-	-	-	-	-
KPNA5	3841	genome.wustl.edu	37	6	117043317	117043317	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_002269.2	+1	reviewed	p.R262Q	1.000	468	0%	99	23.2%	3	33.3%	probably_damaging(0.994)	tolerated(0.37)	deleterious(0.471)	HMMPfam_Arm,HMMSmart_SM00185,superfamily_ARM repeat
FAM162B	221303	genome.wustl.edu	37	6	117083219	117083219	+	Missense_Mutation	SNP	T	T	G	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001085480.2	-1	validated	p.K104T	1.000	524	0%	579	26.1%	0	-	probably_damaging(0.957)	deleterious(0.01)	deleterious(0.806)	HMMPfam_DUF1075
GPRC6A	222545	genome.wustl.edu	37	6	117113962	117113962	+	Silent	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_148963.2	-1	validated	p.I708	0.021	148	0%	31	22.6%	0	-	-	-	-	HMMPfam_7tm_3
GPRC6A	222545	genome.wustl.edu	37	6	117114146	117114146	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_148963.2	-1	validated	p.T647M	0.449	258	0%	93	28%	0	-	probably_damaging(0.998)	deleterious(0.04)	deleterious(0.823)	HMMPfam_7tm_3
GPRC6A	222545	genome.wustl.edu	37	6	117128327	117128327	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_148963.2	-1	validated	p.R181C	0.309	185	0%	79	25.3%	0	-	probably_damaging(1)	deleterious(0)	deleterious(0.945)	HMMPfam_ANF_receptor,superfamily_Periplasmic binding protein-like I
RFX6	222546	genome.wustl.edu	37	6	117250119	117250119	+	Nonsense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_173560.2	+1	validated	p.R866*	1.000	132	0%	33	30.3%	0	-	-	-	-	NULL
ROS1	6098	genome.wustl.edu	37	6	117704638	117704638	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_002944.2	-1	reviewed	p.D780Y	0.999	253	0%	154	13%	0	-	probably_damaging(1)	deleterious(0.03)	deleterious(0.865)	HMMSmart_LY,superfamily_SSF63825
ENSG00000207461	0	genome.wustl.edu	37	6	117778955	117778955	+	RNA	SNP	T	T	G	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	ENST00000384730	-1	novel	NULL	0.001	45	0%	119	20.2%	0	-	-	-	-	-
DCBLD1	285761	genome.wustl.edu	37	6	117858368	117858368	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_173674.1	+1	provisional	p.R247Q	1.000	567	0%	282	9.6%	1	0%	probably_damaging(0.984)	tolerated(0.31)	neutral(0.458)	HMMPfam_LCCL,superfamily_LCCL domain
DCBLD1	285761	genome.wustl.edu	37	6	117860447	117860447	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_173674.1	+1	provisional	p.N336D	0.978	138	0%	102	19.6%	0	-	benign(0.001)	tolerated(0.41)	neutral(0.015)	HMMPfam_F5_F8_type_C,HMMSmart_SM00231,superfamily_Galactose-binding domain-like
NUS1	116150	genome.wustl.edu	37	6	117997158	117997158	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_138459.3	+1	validated	p.E109K	1.000	44	0%	78	16.7%	0	-	benign(0.005)	tolerated(0.73)	neutral(0.002)	superfamily_Undecaprenyl diphosphate synthase
CEP85L	387119	genome.wustl.edu	37	6	118844965	118844965	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001042475.2	-1	validated	p.R380Q	1.000	327	0%	116	20.7%	3	0%	probably_damaging(1)	deleterious(0.02)	deleterious(0.883)	NULL
CEP85L	387119	genome.wustl.edu	37	6	118953699	118953699	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001042475.2	-1	validated	p.R50Q	0.999	168	0%	44	13.6%	0	-	benign(0.006)	tolerated(0.45)	neutral(0.012)	NULL
ASF1A	25842	genome.wustl.edu	37	6	119226865	119226865	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_014034.2	+1	reviewed	p.V92I	1.000	358	0%	242	19.4%	26	23%	benign(0.331)	deleterious(0)	deleterious(0.548)	HMMPfam_ASF1_hist_chap,superfamily_ASF1-like
MCM9	254394	genome.wustl.edu	37	6	119238766	119238766	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_153255.3	-1	reviewed	p.F288	1.000	264	0.4%	98	18.4%	6	16.6%	-	-	-	HMMPfam_MCM,HMMSmart_MCM
C6orf170	221322	genome.wustl.edu	37	6	121605039	121605039	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_152730.4	-1	validated	p.D464N	0.996	296	0%	64	15.6%	0	-	benign(0.002)	tolerated(0.45)	neutral(0.012)	NULL
C6orf170	221322	genome.wustl.edu	37	6	121625739	121625739	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_152730.4	-1	validated	p.E268K	1.000	204	0%	49	36.7%	0	-	probably_damaging(0.974)	tolerated(0.62)	neutral(0.420)	NULL
GJA1	2697	genome.wustl.edu	37	6	121768644	121768644	+	Silent	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_000165.3	+1	reviewed	p.S217	0.022	381	0%	208	24.5%	21	0%	-	-	-	HMMPfam_Connexin_CCC
HSF2	3298	genome.wustl.edu	37	6	122733552	122733552	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_004506.3	+1	validated	p.R43Q	1.000	491	0%	212	23.6%	1	0%	probably_damaging(1)	tolerated(0.27)	deleterious(0.533)	HMMPfam_HSF_DNA-bind,HMMSmart_HSF,superfamily_SSF46785
FABP7	2173	genome.wustl.edu	37	6	123102450	123102450	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	ENST00000356535	+1	known	p.F153L	0.001	97	0%	79	24.1%	0	-	unknown(0)	-	-	NULL
CLVS2	134829	genome.wustl.edu	37	6	123369781	123369781	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001010852.2	+1	provisional	p.A193	0.899	429	0%	89	22.5%	0	-	-	-	-	HMMPfam_CRAL_TRIO,HMMSmart_SM00516,superfamily_CRAL/TRIO domain
TRDN	10345	genome.wustl.edu	37	6	123760143	123760143	+	Nonsense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_006073.2	-1	validated	p.E313*	0.995	543	0%	169	17.8%	0	-	-	-	-	NULL
TRDN	10345	genome.wustl.edu	37	6	123837305	123837305	+	Missense_Mutation	SNP	T	T	G	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_006073.2	-1	validated	p.K177N	0.994	375	0%	68	26.5%	0	-	unknown(0)	-	-	HMMPfam_Triadin
RNF217	154214	genome.wustl.edu	37	6	125366442	125366442	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_152553.2	+1	provisional	p.T31M	1.000	243	0%	57	17.5%	2	0%	possibly_damaging(0.7)	tolerated(0.14)	deleterious(0.501)	NULL
NCOA7	135112	genome.wustl.edu	37	6	126196106	126196106	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_181782.3	+1	validated	p.E115K	1.000	297	0%	61	9.8%	0	-	probably_damaging(0.996)	tolerated(0.06)	deleterious(0.784)	HMMSmart_SM00257,superfamily_LysM domain
NCOA7	135112	genome.wustl.edu	37	6	126202348	126202348	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_181782.3	+1	validated	p.P191H	1.000	456	0%	77	22.1%	4	50%	probably_damaging(1)	deleterious(0.02)	deleterious(0.883)	NULL
NCOA7	135112	genome.wustl.edu	37	6	126206490	126206490	+	Splice_Site	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_181782.3	+1	validated	e7+1	1.000	314	0.3%	111	21.6%	6	83.3%	-	-	-	-
NCOA7	135112	genome.wustl.edu	37	6	126210229	126210229	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_181782.3	+1	validated	p.S343	0.000	148	0%	53	20.8%	0	-	-	-	-	NULL
LOC728666	728666	genome.wustl.edu	37	6	126965253	126965253	+	RNA	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	XR_015645.3	+1	model	NULL	1.000	170	0%	269	27.1%	9	0%	-	-	-	-
RSPO3	84870	genome.wustl.edu	37	6	127476481	127476481	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_032784.3	+1	reviewed	p.E178K	1.000	313	0%	103	18.4%	50	2%	benign(0.117)	tolerated(0.14)	neutral(0.259)	HMMPfam_TSP_1,HMMSmart_SM00209,superfamily_TSP-1 type 1 repeat
RNF146	81847	genome.wustl.edu	37	6	127608740	127608740	+	Nonsense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_030963.2	+1	provisional	p.R327*	0.797	149	0%	47	29.8%	38	13.1%	-	-	-	NULL
SOGA3	387104	genome.wustl.edu	37	6	127796936	127796936	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001012279.2	-1	validated	p.R745	0.628	23	0%	17	23.5%	0	-	-	-	-	NULL
SOGA3	387104	genome.wustl.edu	37	6	127797254	127797254	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001012279.2	-1	validated	p.S639	0.991	64	0%	114	19.3%	0	-	-	-	-	NULL
THEMIS	387357	genome.wustl.edu	37	6	128134820	128134820	+	Missense_Mutation	SNP	T	T	G	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001010923.2	-1	reviewed	p.E322D	1.000	383	0%	127	26.8%	0	-	probably_damaging(1)	tolerated(0.2)	deleterious(0.549)	NULL
LAMA2	3908	genome.wustl.edu	37	6	129601282	129601282	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_000426.3	+1	reviewed	p.R843C	1.000	338	0%	98	12.2%	0	-	probably_damaging(0.999)	tolerated(0.18)	deleterious(0.546)	HMMPfam_Laminin_EGF,HMMSmart_EGF_Lam,PatternScan_EGF_LAM_1,superfamily_ConA_like_lec_gl,superfamily_SSF57196
LAMA2	3908	genome.wustl.edu	37	6	129618931	129618931	+	Nonsense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_000426.3	+1	reviewed	p.W986*	1.000	171	0%	89	21.3%	0	-	-	-	-	HMMPfam_Laminin_EGF,HMMSmart_EGF_Lam,PatternScan_EGF_LAM_1,superfamily_ConA_like_lec_gl,PatternScan_EGF_1,superfamily_SSF57196
LAMA2	3908	genome.wustl.edu	37	6	129637245	129637245	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_000426.3	+1	reviewed	p.F1329L	1.000	282	0%	123	26.8%	0	-	probably_damaging(1)	tolerated(0.66)	deleterious(0.502)	HMMPfam_Laminin_B,superfamily_ConA_like_lec_gl,HMMSmart_LamB
LAMA2	3908	genome.wustl.edu	37	6	129670461	129670461	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_000426.3	+1	reviewed	p.V1485	0.067	225	0%	55	18.2%	0	-	-	-	-	HMMPfam_Laminin_EGF,HMMSmart_EGF_Lam,superfamily_ConA_like_lec_gl,superfamily_SSF57196
LAMA2	3908	genome.wustl.edu	37	6	129799899	129799899	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_000426.3	+1	reviewed	p.P2505S	1.000	333	0%	80	22.5%	4	0%	probably_damaging(1)	tolerated(0.51)	deleterious(0.509)	superfamily_ConA_like_lec_gl,HMMPfam_Laminin_G_1
LAMA2	3908	genome.wustl.edu	37	6	129813049	129813049	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_000426.3	+1	reviewed	p.I2634	0.990	173	0%	43	23.3%	1	0%	-	-	-	HMMSmart_LamG,superfamily_ConA_like_lec_gl,HMMPfam_Laminin_G_1
TMEM200A	114801	genome.wustl.edu	37	6	130762198	130762198	+	Missense_Mutation	SNP	G	G	A	rs13215027	byCluster	TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_052913.2	+1	provisional	p.A211T	0.738	173	0%	39	20.5%	10	0%	possibly_damaging(0.894)	tolerated(0.51)	neutral(0.361)	NULL
EPB41L2	2037	genome.wustl.edu	37	6	131276265	131276265	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001431.3	-1	validated	p.E229K	0.993	619	0.3%	234	20.1%	1	100%	possibly_damaging(0.649)	tolerated(0.67)	neutral(0.231)	HMMPfam_FERM_N,HMMSmart_B41,superfamily_SSF54236
EPB41L2	2037	genome.wustl.edu	37	6	131277247	131277247	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001431.3	-1	validated	p.G127C	0.844	555	0%	214	28%	3	0%	probably_damaging(0.977)	deleterious(0.04)	deleterious(0.768)	NULL
MED23	9439	genome.wustl.edu	37	6	131921227	131921227	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_004830.2	-1	reviewed	p.P724H	1.000	308	0.3%	56	17.9%	1	100%	probably_damaging(0.997)	deleterious(0)	deleterious(0.911)	NULL
MED23	9439	genome.wustl.edu	37	6	131926556	131926556	+	Silent	SNP	A	A	G	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_004830.2	-1	reviewed	p.N479	1.000	291	0%	61	18%	0	-	-	-	-	NULL
TAAR9	134860	genome.wustl.edu	37	6	132859929	132859929	+	Silent	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_175057.3	+1	reviewed	p.I167	0.004	276	0%	104	27.9%	0	-	-	-	-	HMMPfam_7tm_1,superfamily_Family A G protein-coupled receptor-like
TAAR9	134860	genome.wustl.edu	37	6	132860415	132860415	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_175057.3	+1	reviewed	p.K329N	0.052	281	0%	95	27.4%	0	-	benign(0.003)	deleterious(0.05)	neutral(0.345)	superfamily_Family A G protein-coupled receptor-like
TAAR6	319100	genome.wustl.edu	37	6	132891593	132891593	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_175067.1	+1	reviewed	p.L45M	0.973	472	0%	149	20.8%	0	-	possibly_damaging(0.561)	tolerated(0.79)	neutral(0.193)	superfamily_SSF81321
TAAR5	9038	genome.wustl.edu	37	6	132910056	132910056	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_003967.2	-1	validated	p.A257D	0.168	97	0%	23	39.1%	0	-	probably_damaging(1)	deleterious(0)	deleterious(0.945)	HMMPfam_7tm_1,superfamily_SSF81321
TAAR1	134864	genome.wustl.edu	37	6	132966781	132966781	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_138327.1	-1	provisional	p.R121H	1.000	126	0%	42	14.3%	0	-	probably_damaging(1)	deleterious(0)	deleterious(0.945)	HMMPfam_7tm_1,PatternScan_G_PROTEIN_RECEP_F1_1,superfamily_SSF81321
TAAR1	134864	genome.wustl.edu	37	6	132966799	132966799	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_138327.1	-1	provisional	p.S115Y	0.998	139	0%	44	18.2%	0	-	probably_damaging(0.975)	deleterious(0)	deleterious(0.861)	HMMPfam_7tm_1,PatternScan_G_PROTEIN_RECEP_F1_1,superfamily_SSF81321
VNN2	8875	genome.wustl.edu	37	6	133070881	133070881	+	Missense_Mutation	SNP	G	G	C	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_004665.2	-1	reviewed	p.P442A	1.000	180	0%	57	12.3%	7	0%	probably_damaging(1)	deleterious(0)	deleterious(0.945)	NULL
EYA4	2070	genome.wustl.edu	37	6	133777693	133777693	+	Splice_Site	SNP	G	G	C	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_004100.4	+1	reviewed	e5-1	1.000	222	0%	51	17.6%	0	-	-	-	-	-
EYA4	2070	genome.wustl.edu	37	6	133789848	133789848	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_004100.4	+1	reviewed	p.P317S	0.992	259	0%	35	31.4%	0	-	benign(0)	tolerated(0.54)	neutral(0.007)	NULL
TCF21	6943	genome.wustl.edu	37	6	134210781	134210781	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_003206.3	+1	reviewed	p.N82	0.999	31	0%	66	30.3%	1	0%	-	-	-	HMMPfam_HLH,superfamily_HLH helix-loop-helix DNA-binding domain
TBPL1	9519	genome.wustl.edu	37	6	134303712	134303712	+	Silent	SNP	T	T	C	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_004865.2	+1	reviewed	p.L48	1.000	312	0%	72	23.6%	5	0%	-	-	-	HMMPfam_TBP,superfamily_TATA-box binding protein-like
SLC2A12	154091	genome.wustl.edu	37	6	134373605	134373605	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_145176.2	-1	validated	p.E5G	1.000	95	0%	31	29%	0	-	benign(0.327)	deleterious(0)	deleterious(0.547)	NULL
SGK1	6446	genome.wustl.edu	37	6	134492314	134492314	+	Silent	SNP	C	C	T	rs190276895	by1000genomes	TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001143676.1	-1	reviewed	p.P390	1.000	300	0%	319	21.3%	13	0%	-	-	-	HMMSmart_S_TKc,superfamily_Kinase_like,HMMPfam_Pkinase
ALDH8A1	64577	genome.wustl.edu	37	6	135263603	135263603	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_022568.2	-1	reviewed	p.T129M	0.998	131	0.8%	115	28.7%	0	-	possibly_damaging(0.825)	tolerated(0.21)	neutral(0.356)	HMMPfam_Aldedh,superfamily_ALDH-like
MYB	4602	genome.wustl.edu	37	6	135522786	135522786	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001130173.1	+1	reviewed	p.P654S	1.000	140	0%	24	29.2%	0	-	probably_damaging(0.998)	deleterious(0.04)	deleterious(0.823)	HMMPfam_Cmyb_C
AHI1	54806	genome.wustl.edu	37	6	135787246	135787246	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001134830.1	-1	reviewed	p.S152Y	0.000	959	0%	472	28%	6	0%	benign(0.001)	deleterious(0)	neutral(0.445)	superfamily_WD40 repeat-like
MAP3K5	4217	genome.wustl.edu	37	6	136901477	136901477	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_005923.3	-1	reviewed	p.R1160Q	1.000	358	0.3%	85	22.4%	47	0%	probably_damaging(1)	deleterious(0.01)	deleterious(0.905)	NULL
SLC35D3	340146	genome.wustl.edu	37	6	137245311	137245311	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001008783.1	+1	provisional	p.T243M	1.000	42	0%	83	13.3%	0	-	probably_damaging(1)	tolerated(0.33)	deleterious(0.524)	HMMPfam_UAA
SLC35D3	340146	genome.wustl.edu	37	6	137245813	137245813	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001008783.1	+1	provisional	p.N410	0.979	236	0%	375	25.1%	0	-	-	-	-	NULL
IFNGR1	3459	genome.wustl.edu	37	6	137522131	137522131	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_000416.2	-1	reviewed	p.P250T	0.719	217	0%	64	23.4%	22	4.5%	probably_damaging(0.996)	tolerated(0.13)	deleterious(0.714)	HMMPfam_IFNGR1
KIAA1244	57221	genome.wustl.edu	37	6	138576784	138576784	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_020340.4	+1	validated	p.E328K	1.000	43	0%	22	22.7%	0	-	probably_damaging(0.995)	deleterious(0.01)	deleterious(0.863)	NULL
KIAA1244	57221	genome.wustl.edu	37	6	138599679	138599679	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_020340.4	+1	validated	p.C740	0.950	132	0%	66	30.3%	0	-	-	-	-	HMMSmart_Sec7
KIAA1244	57221	genome.wustl.edu	37	6	138607887	138607887	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_020340.4	+1	validated	p.I873	0.913	114	0%	142	11.3%	0	-	-	-	-	NULL
KIAA1244	57221	genome.wustl.edu	37	6	138608227	138608227	+	Silent	SNP	C	C	T	rs181897498	by1000genomes	TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_020340.4	+1	validated	p.C934	0.086	120	0%	143	21%	0	-	-	-	-	NULL
KIAA1244	57221	genome.wustl.edu	37	6	138655515	138655515	+	Silent	SNP	C	C	T	rs187322188	by1000genomes	TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_020340.4	+1	validated	p.D1844	0.591	79	0%	50	30%	0	-	-	-	-	NULL
NHSL1	57224	genome.wustl.edu	37	6	138752406	138752406	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001144060.1	-1	validated	p.L1026I	0.322	80	0%	128	16.4%	0	-	possibly_damaging(0.882)	tolerated(0.09)	deleterious(0.641)	NULL
NHSL1	57224	genome.wustl.edu	37	6	138752699	138752699	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001144060.1	-1	validated	p.P928L	0.000	109	0%	185	23.8%	2	0%	benign(0)	tolerated(0.91)	-	NULL
NHSL1	57224	genome.wustl.edu	37	6	138754032	138754032	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001144060.1	-1	validated	p.D484Y	0.367	167	0%	200	15%	2	0%	possibly_damaging(0.944)	deleterious(0.01)	deleterious(0.794)	NULL
NHSL1	57224	genome.wustl.edu	37	6	138763222	138763222	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001144060.1	-1	validated	p.R188W	1.000	231	0.4%	125	26.4%	0	-	probably_damaging(1)	deleterious(0)	deleterious(0.945)	NULL
NHSL1	57224	genome.wustl.edu	37	6	138892931	138892931	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	ENST00000342260	-1	known	p.R40C	1.000	191	0%	59	23.7%	2	50%	probably_damaging(1)	deleterious(0)	deleterious(0.945)	NULL
ECT2L	345930	genome.wustl.edu	37	6	139135694	139135694	+	Missense_Mutation	SNP	G	G	A	rs182121766	by1000genomes	TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001077706.1	+1	validated	p.E45K	1.000	341	0%	76	18.4%	0	-	possibly_damaging(0.664)	tolerated(0.95)	neutral(0.235)	NULL
REPS1	85021	genome.wustl.edu	37	6	139235834	139235834	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_031922.3	-1	validated	p.Q594	1.000	364	0%	148	24.3%	26	7.6%	-	-	-	NULL
REPS1	85021	genome.wustl.edu	37	6	139265696	139265696	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_031922.3	-1	validated	p.V231A	1.000	352	0%	104	15.4%	9	0%	possibly_damaging(0.855)	tolerated(0.15)	deleterious(0.571)	NULL
REPS1	85021	genome.wustl.edu	37	6	139266426	139266426	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_031922.3	-1	validated	p.S186	0.975	301	0%	46	19.6%	6	0%	-	-	-	NULL
REPS1	85021	genome.wustl.edu	37	6	139266780	139266780	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_031922.3	-1	validated	p.R111H	1.000	270	0%	53	18.9%	4	0%	probably_damaging(1)	deleterious(0.01)	deleterious(0.905)	NULL
HECA	51696	genome.wustl.edu	37	6	139487483	139487483	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_016217.2	+1	reviewed	p.D112N	1.000	25	0%	31	19.4%	3	0%	possibly_damaging(0.888)	tolerated(0.22)	neutral(0.389)	NULL
HECA	51696	genome.wustl.edu	37	6	139487657	139487657	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_016217.2	+1	reviewed	p.D170N	1.000	27	0%	33	15.2%	0	-	probably_damaging(0.99)	deleterious(0.02)	deleterious(0.825)	NULL
TXLNB	167838	genome.wustl.edu	37	6	139565752	139565752	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_153235.3	-1	validated	p.L416M	0.839	736	0%	410	23.2%	1	0%	probably_damaging(1)	deleterious(0.01)	deleterious(0.905)	HMMPfam_Taxilin
GPR126	57211	genome.wustl.edu	37	6	142630717	142630717	+	Nonsense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_198569.2	+1	reviewed	p.W13*	1.000	338	0%	288	14.2%	0	-	-	-	-	NULL
GPR126	57211	genome.wustl.edu	37	6	142691596	142691596	+	Missense_Mutation	SNP	T	T	G	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_198569.2	+1	reviewed	p.I245M	1.000	246	0%	87	24.1%	0	-	possibly_damaging(0.716)	deleterious(0.01)	deleterious(0.665)	superfamily_ConA_like_lec_gl
GPR126	57211	genome.wustl.edu	37	6	142704964	142704964	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_198569.2	+1	reviewed	p.I402	0.920	500	0%	165	27.9%	0	-	-	-	-	NULL
HIVEP2	3097	genome.wustl.edu	37	6	143074945	143074945	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_006734.3	-1	provisional	p.L2214I	1.000	189	0%	53	24.5%	6	16.6%	probably_damaging(0.998)	deleterious(0)	deleterious(0.919)	NULL
HIVEP2	3097	genome.wustl.edu	37	6	143082630	143082630	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_006734.3	-1	provisional	p.S1864L	1.000	211	0%	76	23.7%	4	25%	probably_damaging(0.999)	tolerated(1)	deleterious(0.490)	NULL
HIVEP2	3097	genome.wustl.edu	37	6	143091182	143091182	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_006734.3	-1	provisional	p.S1565Y	1.000	92	0%	62	17.7%	3	33.3%	probably_damaging(0.998)	tolerated(0.1)	deleterious(0.761)	NULL
HIVEP2	3097	genome.wustl.edu	37	6	143091902	143091902	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_006734.3	-1	provisional	p.S1325Y	0.356	95	0%	67	22.4%	0	-	possibly_damaging(0.613)	tolerated(0.07)	deleterious(0.531)	NULL
HIVEP2	3097	genome.wustl.edu	37	6	143093477	143093477	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_006734.3	-1	provisional	p.S800Y	1.000	193	0%	115	12.2%	0	-	probably_damaging(0.998)	deleterious(0.02)	deleterious(0.857)	NULL
HIVEP2	3097	genome.wustl.edu	37	6	143094157	143094157	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_006734.3	-1	provisional	p.S573	0.000	159	0%	116	27.6%	2	0%	-	-	-	NULL
HIVEP2	3097	genome.wustl.edu	37	6	143094673	143094673	+	Missense_Mutation	SNP	A	A	C	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_006734.3	-1	provisional	p.F401L	0.995	267	0%	168	29.2%	1	0%	probably_damaging(0.974)	deleterious(0)	deleterious(0.861)	NULL
HIVEP2	3097	genome.wustl.edu	37	6	143094851	143094851	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_006734.3	-1	provisional	p.S342F	1.000	181	0%	120	24.2%	1	0%	possibly_damaging(0.873)	deleterious(0.04)	deleterious(0.688)	NULL
ADAT2	134637	genome.wustl.edu	37	6	143749777	143749777	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_182503.2	-1	validated	p.K168N	1.000	199	0%	63	28.6%	3	0%	probably_damaging(1)	deleterious(0)	deleterious(0.945)	superfamily_Cytidine deaminase-like
ADAT2	134637	genome.wustl.edu	37	6	143759752	143759752	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_182503.2	-1	validated	p.R59K	1.000	638	0%	251	24.3%	1	100%	benign(0)	tolerated(0.27)	neutral(0.034)	HMMPfam_dCMP_cyt_deam_1,superfamily_Cytidine deaminase-like
PEX3	8504	genome.wustl.edu	37	6	143800251	143800251	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_003630.2	+1	reviewed	p.R286Q	1.000	394	0%	85	14.1%	12	33.3%	probably_damaging(0.998)	tolerated(0.21)	deleterious(0.518)	HMMPfam_Peroxin-3
STX11	8676	genome.wustl.edu	37	6	144507832	144507832	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_003764.3	+1	reviewed	p.D23G	0.216	33	0%	46	26.1%	1	0%	benign(0.029)	tolerated(0.08)	neutral(0.301)	NULL
STX11	8676	genome.wustl.edu	37	6	144508517	144508517	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_003764.3	+1	reviewed	p.K251N	0.550	32	0%	75	33.3%	0	-	benign(0.41)	tolerated(0.44)	neutral(0.145)	HMMPfam_SNARE,HMMSmart_t_SNARE,superfamily_t-snare
UTRN	7402	genome.wustl.edu	37	6	144613013	144613013	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_007124.2	+1	reviewed	p.E17K	0.864	254	0.4%	241	27.8%	2	0%	benign(0.009)	deleterious(0.02)	neutral(0.384)	superfamily_Calponin-homology
UTRN	7402	genome.wustl.edu	37	6	144780420	144780420	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_007124.2	+1	reviewed	p.F879	0.000	173	0.6%	86	32.6%	0	-	-	-	-	HMMPfam_Spectrin,HMMSmart_SPEC,superfamily_Spectrin
UTRN	7402	genome.wustl.edu	37	6	144795774	144795774	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_007124.2	+1	reviewed	p.S1072F	0.986	390	0%	378	23%	0	-	possibly_damaging(0.901)	deleterious(0.01)	deleterious(0.762)	HMMPfam_Spectrin,HMMSmart_SPEC,superfamily_Spectrin
UTRN	7402	genome.wustl.edu	37	6	145157443	145157443	+	Silent	SNP	A	A	G	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_007124.2	+1	reviewed	p.L3277	0.995	107	0%	29	17.2%	11	9%	-	-	-	NULL
SHPRH	257218	genome.wustl.edu	37	6	146215302	146215302	+	Missense_Mutation	SNP	C	C	G	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001042683.2	-1	validated	p.R1564P	1.000	373	0%	55	20%	3	0%	benign(0.044)	tolerated(0.26)	neutral(0.037)	HMMSmart_SM00490,superfamily_P-loop containing nucleoside triphosphate hydrolases
SHPRH	257218	genome.wustl.edu	37	6	146244781	146244781	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001042683.2	-1	validated	p.E1190D	0.950	604	0%	118	18.6%	0	-	benign(0.003)	tolerated(0.7)	neutral(0.002)	NULL
SHPRH	257218	genome.wustl.edu	37	6	146264362	146264362	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001042683.2	-1	validated	p.L719	1.000	140	0%	31	29%	1	100%	-	-	-	HMMPfam_SNF2_N,HMMSmart_SM00487,superfamily_P-loop containing nucleoside triphosphate hydrolases
SHPRH	257218	genome.wustl.edu	37	6	146276186	146276186	+	Missense_Mutation	SNP	A	A	C	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001042683.2	-1	validated	p.I91M	0.000	239	0%	124	31.5%	0	-	benign(0.066)	tolerated(0.14)	neutral(0.254)	NULL
GRM1	2911	genome.wustl.edu	37	6	146625920	146625920	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_000838.3	+1	reviewed	p.R375Q	1.000	218	0%	61	32.8%	0	-	possibly_damaging(0.941)	tolerated(0.14)	deleterious(0.636)	HMMPfam_ANF_receptor,superfamily_SSF53822
GRM1	2911	genome.wustl.edu	37	6	146755096	146755096	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_000838.3	+1	reviewed	p.V917M	1.000	53	0%	92	25%	0	-	probably_damaging(0.998)	deleterious(0)	deleterious(0.919)	NULL
ADGB	79747	genome.wustl.edu	37	6	147047273	147047273	+	Silent	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_024694.3	+1	provisional	p.I764	0.932	292	0%	100	16%	0	-	-	-	-	NULL
STXBP5	134957	genome.wustl.edu	37	6	147588287	147588287	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001127715.1	+1	reviewed	p.R233I	1.000	620	0%	103	30.1%	1	0%	probably_damaging(1)	deleterious(0)	deleterious(0.945)	HMMSmart_SM00320,superfamily_WD40 repeat-like
SASH1	23328	genome.wustl.edu	37	6	148865472	148865472	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_015278.3	+1	validated	p.E956K	0.040	57	0%	113	18.6%	4	0%	benign(0.11)	tolerated(0.11)	neutral(0.280)	NULL
SASH1	23328	genome.wustl.edu	37	6	148869462	148869462	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_015278.3	+1	validated	p.R1171Q	0.928	107	0%	128	22.7%	7	14.2%	probably_damaging(0.997)	deleterious(0.01)	deleterious(0.872)	superfamily_SAM/Pointed domain
UST	10090	genome.wustl.edu	37	6	149340369	149340369	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_005715.2	+1	validated	p.C259F	1.000	255	0%	69	11.6%	4	0%	probably_damaging(1)	deleterious(0)	deleterious(0.945)	HMMPfam_HS2ST
ZC3H12D	340152	genome.wustl.edu	37	6	149773789	149773789	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	ENST00000458251	-1	known	p.E92K	0.237	101	0%	158	25.3%	0	-	-	-	-	NULL
PPIL4	85313	genome.wustl.edu	37	6	149833402	149833402	+	Missense_Mutation	SNP	T	T	G	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_139126.2	-1	reviewed	p.E372D	0.998	832	0%	203	26.6%	24	20.8%	unknown(0)	-	-	superfamily_RNA-binding domain RBD
LATS1	9113	genome.wustl.edu	37	6	150004404	150004404	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_004690.2	-1	reviewed	p.K607N	1.000	554	0%	256	21.9%	6	16.6%	benign(0.001)	deleterious(0.04)	neutral(0.349)	NULL
RAET1G	353091	genome.wustl.edu	37	6	150238089	150238089	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001001788.2	-1	provisional	p.A322T	0.002	55	0%	34	17.6%	0	-	unknown(0)	-	-	NULL
RAET1G	353091	genome.wustl.edu	37	6	150239478	150239478	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001001788.2	-1	provisional	p.T225M	0.001	839	0.2%	763	23.1%	0	-	possibly_damaging(0.726)	tolerated(0.06)	deleterious(0.587)	NULL
ULBP2	80328	genome.wustl.edu	37	6	150267756	150267756	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_025217.2	+1	provisional	p.G200S	0.000	576	0%	636	26.4%	1	0%	benign(0)	tolerated(0.44)	neutral(0.013)	HMMPfam_MHC_I,superfamily_MHC antigen-recognition domain
ULBP1	80329	genome.wustl.edu	37	6	150290275	150290275	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_025218.2	+1	provisional	p.G135D	0.000	149	0%	131	26%	0	-	possibly_damaging(0.909)	tolerated(0.21)	neutral(0.406)	HMMPfam_MHC_I,superfamily_MHC antigen-recognition domain
RAET1L	154064	genome.wustl.edu	37	6	150343351	150343351	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_130900.2	-1	validated	p.T38	0.000	410	0.7%	445	15.1%	0	-	-	-	-	superfamily_MHC_I/II-like_Ag-recog
IYD	389434	genome.wustl.edu	37	6	150690196	150690196	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_203395.2	+1	reviewed	p.A10V	0.759	184	0%	44	18.2%	0	-	benign(0.049)	tolerated(0.14)	neutral(0.253)	NULL
IYD	389434	genome.wustl.edu	37	6	150710531	150710531	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	ENST00000422583	+1	known	p.S15Y	0.973	252	0%	83	31.3%	0	-	-	-	-	NULL
IYD	389434	genome.wustl.edu	37	6	150710610	150710610	+	Missense_Mutation	SNP	C	C	T	rs121918138		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_203395.2	+1	reviewed	p.R101W	1.000	330	0.3%	98	21.4%	0	-	probably_damaging(1)	deleterious(0)	deleterious(0.945)	HMMPfam_Nitroreductase,superfamily_FMN-dependent nitroreductase-like
MTHFD1L	25902	genome.wustl.edu	37	6	151247284	151247284	+	Missense_Mutation	SNP	C	C	G	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_015440.3	+1	validated	p.T370S	1.000	322	0%	112	29.5%	3	0%	benign(0.078)	tolerated(0.65)	neutral(0.009)	HMMPfam_FTHFS,superfamily_P-loop containing nucleoside triphosphate hydrolases
MTHFD1L	25902	genome.wustl.edu	37	6	151265691	151265691	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_015440.3	+1	validated	p.D504N	1.000	135	0%	40	32.5%	8	62.5%	probably_damaging(1)	deleterious(0.01)	deleterious(0.905)	HMMPfam_FTHFS,superfamily_P-loop containing nucleoside triphosphate hydrolases
AKAP12	9590	genome.wustl.edu	37	6	151671400	151671400	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_005100.3	+1	reviewed	p.R625Q	0.980	150	0%	127	23.6%	4	0%	probably_damaging(0.997)	deleterious(0)	deleterious(0.911)	HMMPfam_WSK
AKAP12	9590	genome.wustl.edu	37	6	151673094	151673094	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_005100.3	+1	reviewed	p.E1190K	0.000	135	0%	104	12.5%	6	0%	benign(0)	deleterious(0.02)	neutral(0.383)	NULL
AKAP12	9590	genome.wustl.edu	37	6	151673357	151673357	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_005100.3	+1	reviewed	p.D1277	0.000	98	0%	76	13.2%	1	0%	-	-	-	NULL
AKAP12	9590	genome.wustl.edu	37	6	151673457	151673457	+	Nonsense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_005100.3	+1	reviewed	p.E1311*	0.002	130	0%	80	23.7%	3	0%	-	-	-	NULL
AKAP12	9590	genome.wustl.edu	37	6	151673854	151673854	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_005100.3	+1	reviewed	p.T1443M	0.001	168	0%	101	19.8%	4	0%	probably_damaging(0.999)	deleterious(0.01)	deleterious(0.896)	NULL
AKAP12	9590	genome.wustl.edu	37	6	151674176	151674176	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_005100.3	+1	reviewed	p.V1550	0.000	151	0%	103	11.7%	5	0%	-	-	-	HMMPfam_RII_binding_1
ZBTB2	57621	genome.wustl.edu	37	6	151687930	151687930	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_020861.1	-1	provisional	p.D91N	1.000	68	0%	42	35.7%	5	0%	probably_damaging(1)	deleterious(0.01)	deleterious(0.905)	HMMSmart_SM00225,superfamily_POZ domain
ESR1	2099	genome.wustl.edu	37	6	152382138	152382138	+	Missense_Mutation	SNP	A	A	C	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_000125.3	+1	reviewed	p.K416N	1.000	261	0%	77	11.7%	2	0%	possibly_damaging(0.707)	tolerated(0.15)	deleterious(0.496)	HMMPfam_Hormone_recep,HMMSmart_SM00430,superfamily_Nuclear receptor ligand-binding domain
SYNE1	23345	genome.wustl.edu	37	6	152443751	152443751	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_182961.2	-1	reviewed	p.R8738	0.199	95	0%	46	28.3%	49	0%	-	-	-	HMMPfam_KASH
SYNE1	23345	genome.wustl.edu	37	6	152577827	152577827	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_182961.2	-1	reviewed	p.S6349Y	0.090	223	0%	89	19.1%	2	0%	benign(0.171)	deleterious(0.04)	neutral(0.364)	superfamily_Spectrin repeat
SYNE1	23345	genome.wustl.edu	37	6	152647615	152647615	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_182961.2	-1	reviewed	p.E5037K	1.000	311	0%	177	10.7%	1	0%	possibly_damaging(0.68)	-	-	HMMSmart_SM00150,superfamily_Spectrin repeat
SYNE1	23345	genome.wustl.edu	37	6	152651530	152651530	+	Nonsense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_182961.2	-1	reviewed	p.R4764*	0.997	210	0%	95	17.9%	1	0%	-	-	-	HMMPfam_Spectrin,HMMSmart_SM00150,superfamily_Spectrin repeat
SYNE1	23345	genome.wustl.edu	37	6	152653023	152653023	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_182961.2	-1	reviewed	p.S4266F	0.998	138	0%	42	33.3%	0	-	probably_damaging(0.983)	-	-	superfamily_Spectrin repeat
SYNE1	23345	genome.wustl.edu	37	6	152668273	152668273	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_182961.2	-1	reviewed	p.A4000V	0.815	361	0%	101	25.7%	0	-	probably_damaging(0.977)	-	-	HMMPfam_Spectrin,HMMSmart_SM00150
SYNE1	23345	genome.wustl.edu	37	6	152671402	152671402	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_182961.2	-1	reviewed	p.V3934	0.351	180	0%	61	11.5%	0	-	-	-	-	HMMPfam_Spectrin,HMMSmart_SM00150,superfamily_Spectrin repeat
SYNE1	23345	genome.wustl.edu	37	6	152708419	152708419	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_182961.2	-1	reviewed	p.P2759S	0.991	474	0%	116	24.1%	0	-	probably_damaging(0.954)	-	-	superfamily_Spectrin repeat
SYNE1	23345	genome.wustl.edu	37	6	152711464	152711464	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_182961.2	-1	reviewed	p.L2710I	0.960	432	0%	117	12.8%	0	-	probably_damaging(0.978)	-	-	HMMSmart_SM00150,superfamily_Spectrin repeat
SYNE1	23345	genome.wustl.edu	37	6	152737803	152737803	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_182961.2	-1	reviewed	p.A1923	0.002	322	0%	84	15.5%	0	-	-	-	-	superfamily_Spectrin repeat
SYNE1	23345	genome.wustl.edu	37	6	152737872	152737872	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_182961.2	-1	reviewed	p.N1900	0.953	371	0%	97	20.6%	0	-	-	-	-	NULL
SYNE1	23345	genome.wustl.edu	37	6	152740787	152740787	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_182961.2	-1	reviewed	p.W1780R	0.994	325	0%	103	30.1%	0	-	probably_damaging(0.996)	-	-	superfamily_Spectrin repeat
SYNE1	23345	genome.wustl.edu	37	6	152751736	152751736	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_182961.2	-1	reviewed	p.A1524T	1.000	319	0%	78	25.6%	0	-	probably_damaging(0.979)	-	-	HMMSmart_SM00150,superfamily_Spectrin repeat
SYNE1	23345	genome.wustl.edu	37	6	152823873	152823873	+	Silent	SNP	A	A	G	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_182961.2	-1	reviewed	p.V261	0.998	232	0%	68	29.4%	0	-	-	-	-	HMMPfam_CH,HMMSmart_SM00033,superfamily_Calponin-homology domain CH-domain
FBXO5	26271	genome.wustl.edu	37	6	153293427	153293427	+	Nonsense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_012177.3	-1	reviewed	p.R358*	1.000	439	0%	436	10.6%	3	0%	-	-	-	NULL
OPRM1	4988	genome.wustl.edu	37	6	154412542	154412542	+	Nonsense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001145279.1	+1	reviewed	p.R460*	1.000	38	0%	36	25%	0	-	-	-	-	superfamily_SSF81321
IPCEF1	26034	genome.wustl.edu	37	6	154533946	154533946	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001130699.1	-1	validated	p.A165	0.167	343	0%	95	10.5%	0	-	-	-	-	NULL
SCAF8	22828	genome.wustl.edu	37	6	155109136	155109136	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_014892.3	+1	validated	p.R101C	1.000	502	0%	182	24.7%	1	0%	unknown(0)	deleterious(0)	-	HMMSmart_RPR,HMMPfam_DUF618,superfamily_ENTH_VHS
SCAF8	22828	genome.wustl.edu	37	6	155126549	155126549	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_014892.3	+1	validated	p.A304S	1.000	376	0%	129	14.7%	1	0%	unknown(0)	tolerated(0.07)	-	NULL
TIAM2	26230	genome.wustl.edu	37	6	155486460	155486460	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_012454.3	+1	reviewed	p.N760D	0.014	263	0%	97	25.8%	0	-	benign(0.014)	deleterious(0.02)	neutral(0.384)	NULL
TIAM2	26230	genome.wustl.edu	37	6	155575144	155575144	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_012454.3	+1	reviewed	p.T1421	0.041	281	0%	313	11.2%	1	0%	-	-	-	HMMSmart_SM00233,superfamily_PH domain-like
NOX3	50508	genome.wustl.edu	37	6	155728320	155728320	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_015718.2	-1	reviewed	p.F508L	0.963	499	0.2%	129	20.9%	0	-	benign(0)	tolerated(0.69)	neutral(0.002)	HMMPfam_NAD_binding_6,superfamily_SSF52343
NOX3	50508	genome.wustl.edu	37	6	155752006	155752006	+	Nonsense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_015718.2	-1	reviewed	p.R288*	1.000	300	0%	95	20%	0	-	-	-	-	NULL
ARID1B	57492	genome.wustl.edu	37	6	157099435	157099435	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_017519.2	+1	validated	p.Q66	1.000	20	0%	38	28.9%	0	-	-	-	-	NULL
ARID1B	57492	genome.wustl.edu	37	6	157527906	157527906	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_017519.2	+1	validated	p.I1859	0.770	126	0%	83	20.5%	5	20%	-	-	-	NULL
SNX9	51429	genome.wustl.edu	37	6	158330949	158330949	+	Nonsense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_016224.3	+1	reviewed	p.R281*	1.000	599	0.2%	230	10.4%	30	3.3%	-	-	-	HMMPfam_PX,HMMSmart_PX,superfamily_PX
SYNJ2	8871	genome.wustl.edu	37	6	158483094	158483094	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_003898.3	+1	reviewed	p.K342R	1.000	170	0%	181	25.4%	0	-	possibly_damaging(0.88)	tolerated(0.33)	neutral(0.367)	HMMPfam_Syja_N
TMEM181	57583	genome.wustl.edu	37	6	159046769	159046769	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_020823.1	+1	validated	p.F501	1.000	567	0%	784	10.3%	1	0%	-	-	-	NULL
TAGAP	117289	genome.wustl.edu	37	6	159457059	159457059	+	Nonsense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_054114.3	-1	reviewed	p.R666*	0.003	111	0%	51	23.5%	1	0%	-	-	-	NULL
TAGAP	117289	genome.wustl.edu	37	6	159457181	159457181	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_054114.3	-1	reviewed	p.A625V	0.067	55	0%	34	29.4%	3	0%	possibly_damaging(0.692)	tolerated(0.06)	deleterious(0.570)	NULL
FNDC1	84624	genome.wustl.edu	37	6	159618480	159618480	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_032532.2	+1	validated	p.P43S	1.000	172	0%	41	19.5%	0	-	unknown(0)	deleterious(0.01)	-	HMMPfam_fn3,HMMSmart_FN3,superfamily_FN_III-like
FNDC1	84624	genome.wustl.edu	37	6	159646690	159646690	+	Silent	SNP	T	T	C	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	ENST00000329629	+1	known	p.Y295H	0.985	294	0%	255	11.4%	1	0%	-	-	-	HMMPfam_fn3,HMMSmart_SM00060,superfamily_Fibronectin type III
FNDC1	84624	genome.wustl.edu	37	6	159654255	159654255	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_032532.2	+1	validated	p.R904Q	0.000	69	1.4%	175	13.1%	2	0%	unknown(0)	tolerated(0.2)	-	NULL
FNDC1	84624	genome.wustl.edu	37	6	159654470	159654470	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_032532.2	+1	validated	p.A976T	0.001	56	0%	123	32.5%	0	-	unknown(0)	tolerated(0.2)	-	NULL
FNDC1	84624	genome.wustl.edu	37	6	159687122	159687122	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_032532.2	+1	validated	p.E1764G	1.000	221	0%	52	28.8%	8	0%	probably_damaging(0.99)	deleterious(0)	deleterious(0.886)	NULL
TCP1	6950	genome.wustl.edu	37	6	160201508	160201508	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_030752.2	-1	reviewed	p.R355I	1.000	423	0%	341	24.6%	93	17.2%	benign(0.422)	deleterious(0)	deleterious(0.582)	HMMPfam_Cpn60_TCP1,superfamily_GroEL-ATPase,superfamily_SSF52029,superfamily_SSF54849
TCP1	6950	genome.wustl.edu	37	6	160206517	160206517	+	Missense_Mutation	SNP	C	C	T	rs192689013	by1000genomes	TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_030752.2	-1	reviewed	p.R130H	1.000	331	0%	374	23.3%	49	8.1%	possibly_damaging(0.939)	deleterious(0.01)	deleterious(0.790)	HMMPfam_Cpn60_TCP1,superfamily_GroEL-ATPase
PNLDC1	154197	genome.wustl.edu	37	6	160230078	160230078	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_173516.1	+1	provisional	p.R213H	0.997	318	0%	305	26.2%	0	-	probably_damaging(0.984)	deleterious(0.01)	deleterious(0.836)	HMMPfam_CAF1,superfamily_Ribonuclease H-like
PNLDC1	154197	genome.wustl.edu	37	6	160240303	160240303	+	Missense_Mutation	SNP	A	A	C	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_173516.1	+1	provisional	p.K473T	0.980	78	0%	123	32.5%	1	0%	benign(0.086)	deleterious(0.04)	neutral(0.355)	NULL
IGF2R	3482	genome.wustl.edu	37	6	160471625	160471625	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_000876.2	+1	reviewed	p.D879N	0.966	78	0%	23	17.4%	2	0%	benign(0.008)	tolerated(0.14)	neutral(0.249)	superfamily_Mannose 6-phosphate receptor domain
IGF2R	3482	genome.wustl.edu	37	6	160480004	160480004	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_000876.2	+1	reviewed	p.A989S	0.388	183	0%	86	22.1%	1	0%	benign(0.317)	tolerated(0.34)	neutral(0.122)	superfamily_Mannose 6-phosphate receptor domain
IGF2R	3482	genome.wustl.edu	37	6	160489365	160489365	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_000876.2	+1	reviewed	p.P1400	0.118	111	0%	94	34%	3	0%	-	-	-	HMMPfam_CIMR,superfamily_Mannose 6-phosphate receptor domain
IGF2R	3482	genome.wustl.edu	37	6	160494894	160494894	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_000876.2	+1	reviewed	p.D1685N	0.425	218	0.5%	210	25.2%	4	0%	possibly_damaging(0.749)	tolerated(0.22)	neutral(0.317)	HMMPfam_CIMR,superfamily_Mannose 6-phosphate receptor domain
IGF2R	3482	genome.wustl.edu	37	6	160511093	160511093	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_000876.2	+1	reviewed	p.R2205W	0.996	150	0%	173	27.7%	25	32%	probably_damaging(1)	deleterious(0.04)	deleterious(0.849)	superfamily_Mannose 6-phosphate receptor domain
LOC100289162	100289162	genome.wustl.edu	37	6	160555208	160555208	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	XM_002342677.1	-1	model	p.P296S	0.000	33	0%	43	18.6%	0	-	-	-	-	NULL
SLC22A1	6580	genome.wustl.edu	37	6	160557593	160557593	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_003057.2	+1	reviewed	p.E324D	0.995	141	0%	177	26%	0	-	benign(0.001)	tolerated(0.29)	neutral(0.029)	HMMPfam_MFS_1,superfamily_MFS general substrate transporter
SLC22A1	6580	genome.wustl.edu	37	6	160564676	160564676	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_003057.2	+1	reviewed	p.F460	0.004	158	0%	84	16.7%	3	33.3%	-	-	-	HMMPfam_MFS_1,superfamily_MFS general substrate transporter
SLC22A2	6582	genome.wustl.edu	37	6	160666545	160666545	+	Silent	SNP	T	T	C	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_003058.2	-1	reviewed	p.K330	0.886	297	0%	74	32.4%	0	-	-	-	-	HMMPfam_Sugar_tr,superfamily_MFS general substrate transporter
SLC22A2	6582	genome.wustl.edu	37	6	160677663	160677663	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_003058.2	-1	reviewed	p.I167	1.000	202	0%	187	16.6%	0	-	-	-	-	HMMPfam_Sugar_tr,PatternScan_SUGAR_TRANSPORT_1,superfamily_MFS general substrate transporter
SLC22A2	6582	genome.wustl.edu	37	6	160679548	160679548	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_003058.2	-1	reviewed	p.A81V	0.000	47	0%	57	21.1%	0	-	benign(0.039)	tolerated(0.21)	neutral(0.046)	NULL
SLC22A3	6581	genome.wustl.edu	37	6	160829921	160829921	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_021977.2	+1	reviewed	p.T275	0.970	322	0.3%	108	19.4%	0	-	-	-	-	HMMPfam_MFS_1,superfamily_MFS general substrate transporter
LPA	4018	genome.wustl.edu	37	6	161016520	161016520	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_005577.2	-1	reviewed	p.P1112H	0.981	215	0%	51	11.8%	0	-	probably_damaging(1)	deleterious(0)	deleterious(0.945)	HMMPfam_Kringle,HMMSmart_SM00130,superfamily_Kringle-like,PatternScan_KRINGLE_1
LPA	4018	genome.wustl.edu	37	6	161022043	161022043	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_005577.2	-1	reviewed	p.Y1011	0.823	151	0%	31	25.8%	0	-	-	-	-	HMMPfam_Kringle,HMMSmart_SM00130,superfamily_Kringle-like
LPA	4018	genome.wustl.edu	37	6	161026151	161026151	+	Nonsense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_005577.2	-1	reviewed	p.G958*	0.073	577	0.3%	107	27.1%	0	-	-	-	-	HMMPfam_Kringle,HMMSmart_SM00130,superfamily_Kringle-like
MAP3K4	4216	genome.wustl.edu	37	6	161470167	161470167	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_005922.2	+1	reviewed	p.R288H	0.033	153	0%	22	22.7%	2	0%	probably_damaging(1)	deleterious(0)	deleterious(0.945)	NULL
MAP3K4	4216	genome.wustl.edu	37	6	161528980	161528980	+	Silent	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_005922.2	+1	reviewed	p.G1366	1.000	108	0%	47	21.3%	16	0%	-	-	-	HMMSmart_SM00219,HMMSmart_SM00220,superfamily_Protein kinase-like (PK-like),PatternScan_PROTEIN_KINASE_ATP,HMMPfam_Pkinase
AGPAT4	56895	genome.wustl.edu	37	6	161560485	161560485	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_020133.2	-1	reviewed	p.T337	1.000	42	0%	81	11.1%	21	0%	-	-	-	NULL
PARK2	5071	genome.wustl.edu	37	6	161771164	161771164	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_004562.2	-1	reviewed	p.R455	0.994	30	0%	39	20.5%	0	-	-	-	-	HMMSmart_SM00647,superfamily_RING/U-box
QKI	9444	genome.wustl.edu	37	6	163899877	163899877	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_006775.2	+1	validated	p.T117	1.000	191	0.5%	39	12.8%	10	10%	-	-	-	HMMSmart_SM00322,superfamily_Eukaryotic type KH-domain (KH-domain type I)
C6orf118	168090	genome.wustl.edu	37	6	165715270	165715270	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_144980.3	-1	validated	p.D181N	0.000	33	0%	42	16.7%	0	-	possibly_damaging(0.658)	deleterious(0.03)	deleterious(0.597)	NULL
PDE10A	10846	genome.wustl.edu	37	6	165801865	165801865	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001130690.1	-1	validated	p.F578	1.000	127	0%	73	30.1%	1	0%	-	-	-	HMMPfam_PDEase_I,HMMSmart_HDc,superfamily_SSF109604
PDE10A	10846	genome.wustl.edu	37	6	165848820	165848820	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001130690.1	-1	validated	p.R148C	0.486	306	0%	91	26.4%	0	-	possibly_damaging(0.598)	deleterious(0.02)	deleterious(0.590)	HMMPfam_GAF,HMMSmart_GAF,superfamily_SSF55781
RPS6KA2	6196	genome.wustl.edu	37	6	166827369	166827369	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001006932.1	-1	reviewed	p.A671	0.824	119	0%	189	11.1%	6	0%	-	-	-	HMMSmart_S_TKc,superfamily_Kinase_like,HMMPfam_Pkinase
RPS6KA2	6196	genome.wustl.edu	37	6	166831732	166831732	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001006932.1	-1	reviewed	p.S648L	1.000	135	0%	116	29.3%	10	10%	benign(0)	tolerated(0.54)	neutral(0.007)	HMMSmart_S_TKc,superfamily_Kinase_like,HMMPfam_Pkinase
FGFR1OP	11116	genome.wustl.edu	37	6	167417241	167417241	+	Missense_Mutation	SNP	T	T	G	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_007045.2	+1	reviewed	p.F81C	0.998	616	0%	638	21.8%	5	20%	probably_damaging(1)	deleterious(0)	deleterious(0.945)	HMMPfam_FOP_dimer
CCR6	1235	genome.wustl.edu	37	6	167550090	167550090	+	Silent	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_004367.5	+1	reviewed	p.I124	1.000	147	0%	153	23.5%	0	-	-	-	-	HMMPfam_7tm_1,superfamily_SSF81321
TTLL2	83887	genome.wustl.edu	37	6	167752203	167752203	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_031949.4	+1	validated	p.P39L	0.000	272	0%	241	29%	0	-	unknown(0)	deleterious(0)	-	NULL
KIF25	3834	genome.wustl.edu	37	6	168440763	168440763	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_030615.2	+1	reviewed	p.S171	0.000	55	0%	93	29%	0	-	-	-	-	HMMPfam_Kinesin,HMMSmart_SM00129,superfamily_P-loop containing nucleoside triphosphate hydrolases
FRMD1	79981	genome.wustl.edu	37	6	168467458	168467458	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_024919.3	-1	validated	p.Y146	0.989	118	0%	187	24.6%	0	-	-	-	-	HMMPfam_FERM_N,HMMSmart_SM00295,superfamily_Ubiquitin-like
THBS2	7058	genome.wustl.edu	37	6	169622501	169622501	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_003247.2	-1	reviewed	p.D1022N	1.000	58	0%	70	14.3%	29	0%	probably_damaging(1)	deleterious(0.04)	deleterious(0.849)	HMMPfam_TSP_C,superfamily_ConA_like_lec_gl
THBS2	7058	genome.wustl.edu	37	6	169623400	169623400	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_003247.2	-1	reviewed	p.R982C	1.000	158	0%	182	9.9%	28	3.5%	probably_damaging(1)	deleterious(0.04)	deleterious(0.849)	HMMPfam_TSP_C,superfamily_ConA_like_lec_gl
THBS2	7058	genome.wustl.edu	37	6	169628245	169628245	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_003247.2	-1	reviewed	p.D797	0.967	229	0%	445	11.9%	13	0%	-	-	-	HMMPfam_TSP_3,superfamily_SSF103647
TCTE3	6991	genome.wustl.edu	37	6	170143306	170143306	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_174910.1	-1	provisional	p.D119G	0.804	233	0%	160	10.6%	0	-	benign(0.001)	tolerated(0.37)	neutral(0.019)	HMMPfam_Tctex-1
TCTE3	6991	genome.wustl.edu	37	6	170144353	170144353	+	Silent	SNP	T	T	C	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_174910.1	-1	provisional	p.R46	0.187	267	0%	219	24.7%	0	-	-	-	-	NULL
DLL1	28514	genome.wustl.edu	37	6	170594101	170594101	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_005618.3	-1	reviewed	p.P385	0.010	78	0%	185	14.6%	5	0%	-	-	-	HMMSmart_SM00179,HMMPfam_EGF,HMMSmart_SM00181,superfamily_EGF/Laminin
DLL1	28514	genome.wustl.edu	37	6	170597275	170597275	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	ENST00000406743	-1	known	p.A241V	0.002	18	0%	46	37%	0	-	-	-	-	NULL
FAM120B	84498	genome.wustl.edu	37	6	170627061	170627061	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_032448.1	+1	provisional	p.E195K	0.989	115	0%	76	13.2%	0	-	benign(0.002)	tolerated(0.97)	-	superfamily_PIN domain-like
FAM120B	84498	genome.wustl.edu	37	6	170627336	170627336	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_032448.1	+1	provisional	p.E286D	0.009	84	0%	48	14.6%	1	0%	benign(0.002)	tolerated(0.44)	neutral(0.013)	NULL
PRKAR1B	5575	genome.wustl.edu	37	7	635853	635853	+	Nonsense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	ENST00000400758	-1	known	p.R74*	1.000	51	0%	73	15.1%	22	22.7%	probably_damaging(1)	deleterious(0)	deleterious(0.945)	HMMPfam_cNMP_binding,HMMSmart_SM00100,PatternScan_CNMP_BINDING_2,superfamily_cAMP-binding domain-like
LOC100290924	100290924	genome.wustl.edu	37	7	796586	796586	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	XM_002346938.1	-1	model	p.D6N	0.011	41	0%	59	16.9%	2	0%	-	-	-	PatternScan_ZINC_FINGER_C2H2_1
HEATR2	54919	genome.wustl.edu	37	7	803601	803601	+	Silent	SNP	C	C	T	rs185154075	by1000genomes	TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	ENST00000440747	+1	known	p.R393C	0.033	10	0%	29	24.1%	8	25%	-	-	-	superfamily_ARM repeat
SUN1	23353	genome.wustl.edu	37	7	892452	892452	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001130965.2	+1	reviewed	p.L306I	0.000	328	0.3%	560	11.8%	11	0%	possibly_damaging(0.918)	tolerated(0.08)	deleterious(0.668)	NULL
SUN1	23353	genome.wustl.edu	37	7	892547	892547	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	ENST00000433212	+1	known	p.R186C	0.000	184	0%	304	25.7%	14	0%	-	-	-	NULL
GPR146	115330	genome.wustl.edu	37	7	1097614	1097614	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_138445.2	+1	provisional	p.A155T	0.999	14	0%	53	18.9%	5	0%	probably_damaging(1)	deleterious(0.02)	deleterious(0.883)	HMMPfam_7tm_1,superfamily_Family A G protein-coupled receptor-like
TMEM184A	202915	genome.wustl.edu	37	7	1590531	1590531	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001097620.1	-1	validated	p.D103N	1.000	101	1%	165	31.5%	1	100%	probably_damaging(0.99)	tolerated(0.4)	neutral(0.458)	HMMPfam_DUF300
MAD1L1	8379	genome.wustl.edu	37	7	1976519	1976519	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001013836.1	-1	reviewed	p.Q537H	0.992	28	0%	54	33.3%	22	27.2%	possibly_damaging(0.875)	tolerated(0.08)	deleterious(0.640)	HMMPfam_MAD
MAD1L1	8379	genome.wustl.edu	37	7	2108888	2108888	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001013836.1	-1	reviewed	p.R387C	1.000	40	0%	72	27.8%	10	0%	probably_damaging(1)	deleterious(0.04)	deleterious(0.849)	HMMPfam_MAD
IQCE	23288	genome.wustl.edu	37	7	2611851	2611851	+	Silent	SNP	A	A	G	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_152558.3	+1	validated	p.S95	0.002	90	0%	118	19.5%	0	-	-	-	-	NULL
IQCE	23288	genome.wustl.edu	37	7	2625968	2625968	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_152558.3	+1	validated	p.R317	0.079	48	0%	127	30.7%	5	20%	-	-	-	NULL
IQCE	23288	genome.wustl.edu	37	7	2629577	2629577	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_152558.3	+1	validated	p.A361T	0.000	27	0%	29	37.9%	2	50%	benign(0.021)	tolerated(0.47)	neutral(0.012)	NULL
TTYH3	80727	genome.wustl.edu	37	7	2698609	2698609	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_025250.2	+1	reviewed	p.E487G	1.000	115	0%	171	32.7%	10	20%	probably_damaging(0.999)	deleterious(0)	deleterious(0.935)	NULL
GNA12	2768	genome.wustl.edu	37	7	2770892	2770892	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_007353.2	-1	validated	p.E357K	1.000	100	0%	121	20.7%	13	0%	probably_damaging(0.994)	tolerated(0.13)	deleterious(0.705)	HMMPfam_G-alpha,superfamily_SSF52540
CARD11	84433	genome.wustl.edu	37	7	2979560	2979560	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_032415.3	-1	validated	p.I229	0.526	381	0.3%	424	30.9%	1	0%	-	-	-	NULL
CARD11	84433	genome.wustl.edu	37	7	2987395	2987395	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_032415.3	-1	validated	p.M12V	1.000	357	0%	233	12.9%	0	-	benign(0.122)	tolerated(0.17)	neutral(0.069)	NULL
SDK1	221935	genome.wustl.edu	37	7	4002354	4002354	+	Nonsense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_152744.3	+1	validated	p.R434*	0.978	135	0%	61	26.2%	0	-	-	-	-	HMMSmart_SM00408,HMMSmart_SM00409,HMMPfam_I-set,superfamily_Immunoglobulin
SDK1	221935	genome.wustl.edu	37	7	4056877	4056877	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_152744.3	+1	validated	p.V832A	0.998	104	0%	50	12%	0	-	benign(0.253)	tolerated(0.06)	neutral(0.349)	HMMPfam_fn3,HMMSmart_SM00060,superfamily_Fibronectin type III
SDK1	221935	genome.wustl.edu	37	7	4116696	4116696	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_152744.3	+1	validated	p.T1026M	0.004	179	0%	127	22%	0	-	benign(0.262)	tolerated(0.09)	neutral(0.324)	HMMPfam_fn3,HMMSmart_SM00060,superfamily_Fibronectin type III
SDK1	221935	genome.wustl.edu	37	7	4119163	4119163	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_152744.3	+1	validated	p.R1091W	1.000	246	0%	167	12.6%	1	0%	probably_damaging(0.999)	deleterious(0.02)	deleterious(0.873)	HMMPfam_fn3,HMMSmart_SM00060,superfamily_Fibronectin type III
FOXK1	221937	genome.wustl.edu	37	7	4796634	4796634	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001037165.1	+1	validated	p.R354W	1.000	219	0%	311	10.6%	3	0%	probably_damaging(1)	deleterious(0)	deleterious(0.945)	"HMMPfam_Fork_head,HMMSmart_SM00339,PatternScan_FORK_HEAD_2,superfamily_""Winged helix"" DNA-binding domain"
KIAA0415	9907	genome.wustl.edu	37	7	4825902	4825902	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_014855.1	+1	validated	p.S385L	0.889	37	0%	70	32.9%	15	13.3%	benign(0.273)	tolerated(0.07)	neutral(0.348)	NULL
KIAA0415	9907	genome.wustl.edu	37	7	4830402	4830402	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_014855.1	+1	validated	p.F679	0.879	44	0%	83	28.9%	39	35.8%	-	-	-	NULL
RADIL	55698	genome.wustl.edu	37	7	4856058	4856058	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_018059.4	-1	validated	p.P589	1.000	7	0.000	24	0.375	1	0%	unknown(0)	-	-	NULL
PAPOLB	56903	genome.wustl.edu	37	7	4900391	4900391	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_020144.4	-1	validated	p.E351K	1.000	513	0%	780	27.1%	0	-	possibly_damaging(0.489)	tolerated(0.11)	neutral(0.434)	HMMPfam_PAP_central,superfamily_SSF81631
PAPOLB	56903	genome.wustl.edu	37	7	4900735	4900735	+	Missense_Mutation	SNP	T	T	G	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_020144.4	-1	validated	p.N236T	0.991	181	0%	318	25.2%	0	-	possibly_damaging(0.829)	deleterious(0)	deleterious(0.759)	HMMPfam_PAP_central,superfamily_SSF81631
PAPOLB	56903	genome.wustl.edu	37	7	4901006	4901006	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_020144.4	-1	validated	p.D146Y	1.000	223	0%	400	26.3%	0	-	benign(0.318)	deleterious(0)	deleterious(0.544)	HMMPfam_NTP_transf_2,HMMPfam_PAP_central,superfamily_SSF81301
WIPI2	26100	genome.wustl.edu	37	7	5256273	5256273	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_015610.3	+1	validated	p.T154M	1.000	158	0%	144	14.6%	27	3.7%	probably_damaging(0.998)	deleterious(0.05)	deleterious(0.820)	superfamily_WD40 repeat-like
SLC29A4	222962	genome.wustl.edu	37	7	5336811	5336811	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001040661.1	+1	reviewed	p.V288	0.038	8	0.000	25	0.200	3	0%	-	-	-	HMMPfam_Nucleoside_tran,superfamily_MFS general substrate transporter
TNRC18	84629	genome.wustl.edu	37	7	5391461	5391461	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001080495.2	-1	provisional	p.S1820L	1.000	30	3.3%	46	15.2%	24	4.1%	benign(0.429)	deleterious(0)	deleterious(0.584)	NULL
TNRC18	84629	genome.wustl.edu	37	7	5396674	5396674	+	Missense_Mutation	SNP	T	T	G	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001080495.2	-1	provisional	p.K1689N	0.116	121	0%	195	28.7%	9	0%	probably_damaging(0.99)	deleterious(0)	deleterious(0.886)	NULL
TNRC18	84629	genome.wustl.edu	37	7	5410586	5410586	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001080495.2	-1	provisional	p.C1213	0.000	18	0%	34	26.5%	8	0%	-	-	-	NULL
FSCN1	6624	genome.wustl.edu	37	7	5642956	5642956	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_003088.2	+1	validated	p.D301N	0.997	27	0%	65	21.5%	30	0%	benign(0.128)	tolerated(0.31)	neutral(0.037)	superfamily_Actin_crosslink,HMMPfam_Fascin
PMS2	5395	genome.wustl.edu	37	7	6043687	6043687	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_000535.5	-1	reviewed	p.L56I	0.057	504	0%	471	12.1%	1	0%	possibly_damaging(0.696)	tolerated(1)	neutral(0.249)	HMMPfam_HATPase_c,superfamily_ATPase domain of HSP90 chaperone/DNA topoisomerase II/histidine kinase
AIMP2	7965	genome.wustl.edu	37	7	6057468	6057468	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_006303.3	+1	validated	p.I122	0.859	75	1.3%	64	28.1%	25	20%	-	-	-	NULL
AIMP2	7965	genome.wustl.edu	37	7	6063042	6063042	+	Missense_Mutation	SNP	T	T	G	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_006303.3	+1	validated	p.V228G	0.884	240	0%	148	20.9%	30	26.6%	possibly_damaging(0.909)	tolerated(0.3)	neutral(0.391)	superfamily_GST_C_like
EIF2AK1	27102	genome.wustl.edu	37	7	6080770	6080770	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_014413.3	-1	reviewed	p.R291H	0.000	370	0%	141	13.5%	10	10%	benign(0.133)	tolerated(0.13)	neutral(0.264)	HMMSmart_SM00219,HMMSmart_SM00220,superfamily_Protein kinase-like (PK-like),HMMPfam_Pkinase
DAGLB	221955	genome.wustl.edu	37	7	6485717	6485717	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_139179.3	-1	validated	p.T38	0.006	70	0%	116	20.7%	0	-	-	-	-	NULL
GRID2IP	392862	genome.wustl.edu	37	7	6537700	6537700	+	Missense_Mutation	SNP	A	A	C	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001145118.1	-1	validated	p.F1187V	1.000	59	0%	102	16.7%	0	-	probably_damaging(0.998)	deleterious(0.01)	deleterious(0.880)	HMMSmart_FH2,HMMPfam_FH2,superfamily_FH2_actin_bd
GRID2IP	392862	genome.wustl.edu	37	7	6541439	6541439	+	Silent	SNP	G	G	A	rs144875801	by1000genomes	TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001145118.1	-1	validated	p.S1124	0.072	35	0%	83	21.7%	0	-	-	-	-	HMMSmart_FH2,HMMPfam_FH2,superfamily_FH2_actin_bd
GRID2IP	392862	genome.wustl.edu	37	7	6542474	6542474	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001145118.1	-1	validated	p.N1031	0.980	235	0%	363	11.6%	0	-	-	-	-	HMMSmart_FH2,HMMPfam_FH2,superfamily_FH2_actin_bd
ZDHHC4	55146	genome.wustl.edu	37	7	6621274	6621274	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001134387.1	+1	validated	p.A52T	0.987	618	0%	842	22.3%	17	11.7%	benign(0.235)	tolerated(0.41)	neutral(0.038)	NULL
C7orf26	79034	genome.wustl.edu	37	7	6639559	6639559	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_024067.2	+1	predicted	p.A227V	0.982	241	0%	299	24.1%	19	5.2%	benign(0.355)	tolerated(0.23)	neutral(0.154)	NULL
ZNF853	54753	genome.wustl.edu	37	7	6656896	6656896	+	Nonsense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_017560.1	+1	provisional	p.Q30*	0.139	41	0%	92	17.4%	2	50%	-	-	-	NULL
LOC100131257	100131257	genome.wustl.edu	37	7	7118600	7118600	+	Silent	SNP	T	T	G	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	XM_001716696.1	-1	model	p.R202	0.238	98	0%	28	21.4%	0	-	-	-	-	HMMPfam_zf-C2H2,PatternScan_ZINC_FINGER_C2H2_1,HMMSmart_SM00355,superfamily_C2H2 and C2HC zinc fingers
RPA3	6119	genome.wustl.edu	37	7	7678706	7678706	+	Nonsense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_002947.3	-1	validated	p.E57*	1.000	227	0%	101	24.8%	53	1.8%	-	-	-	HMMPfam_Rep_fac-A_3,superfamily_Nucleic acid-binding proteins
LOC340268	340268	genome.wustl.edu	37	7	9766086	9766086	+	RNA	SNP	A	A	G	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	XR_041608.1	+1	model	NULL	0.988	43	0%	104	26.9%	0	-	-	-	-	-
LOC340268	340268	genome.wustl.edu	37	7	9766628	9766628	+	RNA	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	XR_041608.1	+1	model	NULL	0.985	110	0%	186	30.1%	0	-	-	-	-	-
PHF14	9678	genome.wustl.edu	37	7	11014563	11014563	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	ENST00000303905	+1	known	p.D35N	1.000	587	0%	785	24.3%	7	0%	possibly_damaging(0.507)	-	-	NULL
PHF14	9678	genome.wustl.edu	37	7	11076623	11076623	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	ENST00000303905	+1	known	p.R629C	1.000	246	0%	59	33.9%	6	33.3%	probably_damaging(1)	deleterious(0)	deleterious(0.945)	NULL
THSD7A	221981	genome.wustl.edu	37	7	11422234	11422234	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_015204.2	-1	validated	p.C1474Y	1.000	282	0%	41	12.2%	0	-	probably_damaging(1)	deleterious(0)	deleterious(0.945)	HMMPfam_TSP_1,HMMSmart_SM00209,superfamily_TSP-1 type 1 repeat
THSD7A	221981	genome.wustl.edu	37	7	11446656	11446656	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_015204.2	-1	validated	p.T1315A	0.998	313	0%	67	20.9%	2	0%	benign(0.07)	tolerated(0.39)	neutral(0.021)	HMMPfam_TSP_1,HMMSmart_SM00209,superfamily_TSP-1 type 1 repeat
THSD7A	221981	genome.wustl.edu	37	7	11468645	11468645	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_015204.2	-1	validated	p.R1058C	0.997	230	0%	98	14.3%	0	-	probably_damaging(1)	deleterious(0)	deleterious(0.945)	HMMPfam_TSP_1,HMMSmart_SM00209,superfamily_TSP-1 type 1 repeat
THSD7A	221981	genome.wustl.edu	37	7	11581199	11581199	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_015204.2	-1	validated	p.G557R	0.994	170	0%	148	32.4%	0	-	possibly_damaging(0.839)	tolerated(0.09)	deleterious(0.617)	HMMPfam_TSP_1,HMMSmart_SM00209,superfamily_TSP-1 type 1 repeat
THSD7A	221981	genome.wustl.edu	37	7	11632983	11632983	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_015204.2	-1	validated	p.R390Q	0.999	286	0%	78	10.3%	0	-	probably_damaging(1)	deleterious(0.01)	deleterious(0.905)	HMMPfam_TSP_1,HMMSmart_SM00209,superfamily_TSP-1 type 1 repeat
VWDE	221806	genome.wustl.edu	37	7	12376848	12376848	+	Missense_Mutation	SNP	C	C	G	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001135924.1	-1	provisional	p.V1473L	0.967	333	0%	81	28.4%	2	0%	probably_damaging(0.999)	tolerated(0.96)	deleterious(0.490)	HMMSmart_SM00181,superfamily_Growth factor receptor domain
VWDE	221806	genome.wustl.edu	37	7	12395895	12395895	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001135924.1	-1	provisional	p.S1196Y	0.993	89	0%	83	27.7%	0	-	benign(0.114)	deleterious(0)	neutral(0.454)	HMMPfam_EGF,HMMSmart_SM00181,superfamily_EGF/Laminin
ETV1	2115	genome.wustl.edu	37	7	13935579	13935579	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_004956.4	-1	validated	p.P449H	1.000	202	0%	52	19.2%	1	0%	probably_damaging(0.994)	deleterious(0)	deleterious(0.897)	"superfamily_""Winged helix"" DNA-binding domain"
ETV1	2115	genome.wustl.edu	37	7	13975515	13975515	+	Nonsense_Mutation	SNP	A	A	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_004956.4	-1	validated	p.Y124*	1.000	254	0%	133	25.6%	0	-	-	-	-	HMMPfam_ETS_PEA3_N
ETV1	2115	genome.wustl.edu	37	7	14027772	14027772	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_004956.4	-1	validated	p.E24D	1.000	575	0%	399	23.1%	0	-	benign(0)	tolerated(0.69)	neutral(0.002)	HMMPfam_ETS_PEA3_N
DGKB	1607	genome.wustl.edu	37	7	14188838	14188838	+	Missense_Mutation	SNP	G	G	C	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_004080.2	-1	reviewed	p.A778G	1.000	387	0%	161	20.5%	0	-	probably_damaging(0.954)	deleterious(0.02)	deleterious(0.780)	NULL
AGMO	392636	genome.wustl.edu	37	7	15425114	15425114	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001004320.1	-1	provisional	p.A344V	0.896	330	0%	157	22.9%	0	-	benign(0)	tolerated(0.81)	neutral(0.001)	NULL
AGMO	392636	genome.wustl.edu	37	7	15584408	15584408	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001004320.1	-1	provisional	p.R133H	1.000	179	0%	160	25%	0	-	probably_damaging(1)	deleterious(0)	deleterious(0.945)	HMMPfam_FA_hydroxylase
ISPD	729920	genome.wustl.edu	37	7	16348233	16348233	+	Missense_Mutation	SNP	T	T	G	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001101426.3	-1	validated	p.E235A	1.000	426	0%	151	25.8%	1	0%	probably_damaging(0.984)	tolerated(0.11)	deleterious(0.702)	HMMPfam_IspD,superfamily_SSF53448
ANKMY2	57037	genome.wustl.edu	37	7	16655453	16655453	+	Silent	SNP	T	T	G	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_020319.2	-1	validated	p.G149	0.998	399	0.3%	470	23.2%	1	0%	-	-	-	NULL
BZW2	28969	genome.wustl.edu	37	7	16714165	16714165	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_014038.2	+1	validated	p.R63C	1.000	230	0%	61	29.5%	7	28.5%	probably_damaging(1)	deleterious(0)	deleterious(0.945)	NULL
LOC100287613	100287613	genome.wustl.edu	37	7	16890250	16890250	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	XM_002342695.1	-1	model	p.L105	0.911	29	0%	54	25.9%	0	-	-	-	-	NULL
HDAC9	9734	genome.wustl.edu	37	7	18625080	18625080	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_178425.2	+1	reviewed	p.E67K	1.000	132	0%	39	20.5%	1	0%	possibly_damaging(0.806)	deleterious(0.02)	deleterious(0.686)	NULL
HDAC9	9734	genome.wustl.edu	37	7	18687597	18687597	+	Nonsense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_178425.2	+1	reviewed	p.R409*	1.000	114	0%	27	25.9%	3	0%	-	-	-	NULL
HDAC9	9734	genome.wustl.edu	37	7	18801781	18801781	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_178425.2	+1	reviewed	p.R682Q	1.000	231	0%	57	10.5%	0	-	probably_damaging(0.988)	tolerated(0.34)	neutral(0.461)	HMMPfam_Hist_deacetyl,superfamily_SSF52768
HDAC9	9734	genome.wustl.edu	37	7	18832975	18832975	+	Missense_Mutation	SNP	G	G	C	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_178425.2	+1	reviewed	p.S741T	1.000	227	0%	137	33.6%	0	-	benign(0.087)	tolerated(0.41)	neutral(0.021)	HMMPfam_Hist_deacetyl,superfamily_SSF52768
FERD3L	222894	genome.wustl.edu	37	7	19184587	19184587	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_152898.2	-1	validated	p.Y133	0.997	146	0%	183	27.9%	0	-	-	-	-	HMMPfam_HLH,HMMSmart_HLH,superfamily_HLH_basic
TWISTNB	221830	genome.wustl.edu	37	7	19738220	19738220	+	Missense_Mutation	SNP	T	T	G	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001002926.1	-1	validated	p.K246Q	0.130	149	0%	142	20.4%	6	33.3%	benign(0.006)	tolerated(0.28)	neutral(0.032)	NULL
ITGB8	3696	genome.wustl.edu	37	7	20406803	20406803	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_002214.2	+1	reviewed	p.R128C	0.964	221	0%	80	23.7%	0	-	possibly_damaging(0.89)	deleterious(0)	deleterious(0.794)	HMMPfam_Integrin_beta,HMMSmart_SM00187
ITGB8	3696	genome.wustl.edu	37	7	20431055	20431055	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_002214.2	+1	reviewed	p.E330D	0.998	273	0%	111	22.5%	1	0%	possibly_damaging(0.719)	tolerated(0.43)	neutral(0.274)	HMMPfam_Integrin_beta,HMMSmart_SM00187,superfamily_vWA-like
ABCB5	340273	genome.wustl.edu	37	7	20778696	20778696	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_178559.5	+1	validated	p.A541	0.110	227	0%	60	21.7%	0	-	-	-	-	superfamily_Multidrug resistance ABC transporter MsbA N-terminal domain
SP8	221833	genome.wustl.edu	37	7	20825307	20825307	+	Silent	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_182700.4	-1	validated	p.S43	0.999	43	0%	69	17.4%	0	-	-	-	-	NULL
SP4	6671	genome.wustl.edu	37	7	21469023	21469023	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_003112.3	+1	validated	p.L80F	1.000	172	0%	268	29.9%	0	-	probably_damaging(0.962)	deleterious(0.05)	deleterious(0.750)	NULL
DNAH11	8701	genome.wustl.edu	37	7	21627780	21627780	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_003777.3	+1	reviewed	p.L603	1.000	332	0%	83	14.5%	0	-	-	-	-	HMMPfam_DHC_N1
DNAH11	8701	genome.wustl.edu	37	7	21675610	21675610	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_003777.3	+1	reviewed	p.R1546Q	1.000	351	0%	62	11.3%	0	-	possibly_damaging(0.935)	deleterious(0)	deleterious(0.825)	HMMPfam_DHC_N2
DNAH11	8701	genome.wustl.edu	37	7	21788202	21788202	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_003777.3	+1	reviewed	p.R2846C	0.991	169	0%	34	35.3%	1	0%	probably_damaging(1)	deleterious(0)	deleterious(0.945)	superfamily_P-loop containing nucleoside triphosphate hydrolases
DNAH11	8701	genome.wustl.edu	37	7	21893968	21893968	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	ENST00000421290	+1	known	p.R94*	0.993	476	0%	188	16%	0	-	-	-	-	NULL
DNAH11	8701	genome.wustl.edu	37	7	21923982	21923982	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_003777.3	+1	reviewed	p.R4161H	1.000	281	0%	67	25.4%	1	100%	probably_damaging(1)	deleterious(0)	deleterious(0.945)	HMMPfam_Dynein_heavy
DNAH11	8701	genome.wustl.edu	37	7	21940749	21940749	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_003777.3	+1	reviewed	p.Y4483	0.175	120	0%	45	15.6%	72	20.8%	-	-	-	HMMPfam_Dynein_heavy
CDCA7L	55536	genome.wustl.edu	37	7	21942655	21942655	+	Silent	SNP	T	T	G	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_018719.4	-1	validated	p.G425	0.047	134	0%	40	20%	4	0%	unknown(0)	-	-	HMMPfam_zf-4CXXC_R1
CDCA7L	55536	genome.wustl.edu	37	7	21943855	21943855	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_018719.4	-1	validated	p.R357Q	1.000	118	0.8%	41	29.3%	12	33.3%	unknown(0)	-	-	HMMPfam_zf-4CXXC_R1
RAPGEF5	9771	genome.wustl.edu	37	7	22197487	22197487	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_012294.3	-1	validated	p.S362P	1.000	369	0%	103	14.6%	0	-	benign(0.1)	tolerated(0.44)	neutral(0.020)	superfamily_Ras GEF
KLHL7	55975	genome.wustl.edu	37	7	23205431	23205431	+	Nonsense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001031710.2	+1	reviewed	p.R351*	1.000	247	0.4%	101	22.8%	8	0%	-	-	-	HMMPfam_Kelch_1,HMMSmart_Kelch,superfamily_Gal_oxid_central
GPNMB	10457	genome.wustl.edu	37	7	23309650	23309650	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001005340.1	+1	reviewed	p.C441R	0.956	166	0%	52	11.5%	171	10.5%	probably_damaging(1)	deleterious(0)	deleterious(0.945)	NULL
IGF2BP3	10643	genome.wustl.edu	37	7	23390981	23390981	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_006547.2	-1	reviewed	p.A209V	1.000	231	0%	78	14.1%	0	-	probably_damaging(1)	tolerated(0.12)	deleterious(0.760)	HMMSmart_SM00322,HMMPfam_KH_1,superfamily_Eukaryotic type KH-domain (KH-domain type I)
C7orf46	340277	genome.wustl.edu	37	7	23724192	23724192	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_199136.3	+1	validated	p.P47H	1.000	341	0.3%	413	11.9%	1	0%	probably_damaging(0.999)	deleterious(0)	deleterious(0.935)	NULL
DFNA5	1687	genome.wustl.edu	37	7	24742438	24742438	+	Missense_Mutation	SNP	C	C	T	rs140321823	by1000genomes	TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001127453.1	-1	reviewed	p.A400T	0.074	189	0%	104	10.6%	24	0%	benign(0.001)	tolerated(0.35)	neutral(0.021)	HMMPfam_Gasdermin
OSBPL3	26031	genome.wustl.edu	37	7	24874201	24874201	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_015550.2	-1	reviewed	p.N550	0.948	61	0%	20	30%	2	100%	-	-	-	HMMPfam_Oxysterol_BP
OSBPL3	26031	genome.wustl.edu	37	7	24905821	24905821	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_015550.2	-1	reviewed	p.S139	0.823	220	0.5%	82	18.3%	0	-	-	-	-	HMMPfam_PH,HMMSmart_SM00233,superfamily_PH domain-like
C7orf31	136895	genome.wustl.edu	37	7	25194754	25194754	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_138811.3	-1	validated	p.G157	0.006	493	0%	222	25.7%	1	100%	-	-	-	NULL
NFE2L3	9603	genome.wustl.edu	37	7	26224729	26224729	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_004289.6	+1	reviewed	p.E471K	0.925	390	0%	276	24.3%	2	0%	benign(0.4)	tolerated(0.2)	neutral(0.177)	NULL
HOXA2	3199	genome.wustl.edu	37	7	27140419	27140419	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_006735.3	-1	reviewed	p.D353Y	1.000	65	0%	136	28.7%	0	-	possibly_damaging(0.697)	deleterious(0.01)	deleterious(0.655)	NULL
HOXA2	3199	genome.wustl.edu	37	7	27140535	27140535	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_006735.3	-1	reviewed	p.P314H	1.000	130	0%	220	12.3%	1	0%	probably_damaging(0.985)	deleterious(0)	deleterious(0.877)	NULL
HOXA3	3200	genome.wustl.edu	37	7	27147900	27147900	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_030661.4	-1	reviewed	p.P322	0.915	11	0%	24	25%	0	-	-	-	-	NULL
HOXA3	3200	genome.wustl.edu	37	7	27148122	27148122	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_030661.4	-1	reviewed	p.K248N	1.000	157	0%	254	24%	6	0%	probably_damaging(0.978)	deleterious(0)	deleterious(0.865)	HMMPfam_Homeobox,HMMSmart_SM00389,superfamily_Homeodomain-like
HOXA7	3204	genome.wustl.edu	37	7	27194676	27194676	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_006896.3	-1	reviewed	p.R182H	1.000	165	0%	276	21.7%	3	100%	probably_damaging(1)	deleterious(0)	deleterious(0.945)	HMMPfam_Homeobox,HMMSmart_HOX,superfamily_Homeodomain_like,PatternScan_HOMEOBOX_1
HOXA7	3204	genome.wustl.edu	37	7	27195972	27195972	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_006896.3	-1	reviewed	p.P65S	1.000	29	0%	81	19.8%	6	66.6%	benign(0.012)	tolerated(0.49)	neutral(0.011)	NULL
HOXA9	3205	genome.wustl.edu	37	7	27203271	27203271	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_152739.3	-1	reviewed	p.R257L	1.000	391	0%	602	10.6%	14	0%	probably_damaging(1)	deleterious(0)	deleterious(0.945)	HMMPfam_Homeobox,HMMSmart_HOX,superfamily_Homeodomain_like,PatternScan_HOMEOBOX_1
ENSG00000248357	0	genome.wustl.edu	37	7	27497981	27497981	+	RNA	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	ENST00000506075	+1	novel	NULL	0.195	136	0.7%	157	11.5%	1	0%	-	-	-	-
JAZF1	221895	genome.wustl.edu	37	7	28031622	28031622	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	ENST00000427814	-1	known	p.I18	0.039	275	0%	289	13.5%	0	-	benign(0.01)	-	-	NULL
CHN2	1124	genome.wustl.edu	37	7	29539612	29539612	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_004067.2	+1	reviewed	p.R290I	1.000	193	0%	68	26.5%	0	-	probably_damaging(0.999)	tolerated(0.95)	deleterious(0.490)	HMMSmart_SM00324,superfamily_GTPase activation domain GAP
ENSG00000212024	0	genome.wustl.edu	37	7	29720385	29720385	+	RNA	SNP	A	A	G	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	ENST00000390735	-1	novel	NULL	0.309	237	0%	267	19.9%	0	-	-	-	-	-
WIPF3	644150	genome.wustl.edu	37	7	29915470	29915470	+	Nonsense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	ENST00000242140	+1	known	p.R39*	0.028	69	0%	80	23.7%	3	0%	-	-	-	NULL
NOD1	10392	genome.wustl.edu	37	7	30494808	30494808	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_006092.2	-1	reviewed	p.I107	0.002	71	0%	49	26.5%	4	0%	-	-	-	superfamily_DEATH_like
NOD1	10392	genome.wustl.edu	37	7	30494880	30494880	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_006092.2	-1	reviewed	p.S83	0.124	60	0%	49	14.3%	3	66.6%	-	-	-	HMMPfam_CARD,superfamily_DEATH_like
LOC100287825	100287825	genome.wustl.edu	37	7	30565808	30565808	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	XM_002342697.1	-1	model	p.R6Q	0.004	27	0%	16	31.2%	0	-	-	-	-	NULL
GARS	2617	genome.wustl.edu	37	7	30642707	30642707	+	Silent	SNP	A	A	G	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_002047.2	+1	reviewed	p.G209	0.999	354	0%	241	12%	16	12.5%	-	-	-	HMMPfam_tRNA-synt_2b,superfamily_Class II aaRS and biotin synthetases
GARS	2617	genome.wustl.edu	37	7	30649259	30649259	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_002047.2	+1	reviewed	p.S265Y	1.000	320	0%	209	22.5%	13	0%	probably_damaging(1)	deleterious(0)	deleterious(0.945)	HMMPfam_tRNA-synt_2b,superfamily_Class II aaRS and biotin synthetases
CRHR2	1395	genome.wustl.edu	37	7	30695572	30695572	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001883.3	-1	validated	p.A296	0.002	189	0%	129	27.1%	0	-	-	-	-	HMMPfam_7tm_2,superfamily_Family A G protein-coupled receptor-like
GHRHR	2692	genome.wustl.edu	37	7	31013718	31013718	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_000823.3	+1	reviewed	p.R239M	0.001	89	0%	54	24.1%	0	-	probably_damaging(0.994)	deleterious(0)	deleterious(0.897)	HMMPfam_7tm_2,superfamily_SSF81321
NEUROD6	63974	genome.wustl.edu	37	7	31377935	31377935	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_022728.2	-1	provisional	p.Y316	0.998	221	0%	325	11.4%	0	-	-	-	-	NULL
CCDC129	223075	genome.wustl.edu	37	7	31594103	31594103	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_194300.2	+1	validated	p.E60K	1.000	443	0%	201	25.9%	0	-	possibly_damaging(0.571)	tolerated(0.13)	neutral(0.448)	NULL
CCDC129	223075	genome.wustl.edu	37	7	31611802	31611802	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_194300.2	+1	validated	p.S132I	1.000	324	0%	35	34.3%	0	-	probably_damaging(0.998)	deleterious(0)	deleterious(0.919)	NULL
CCDC129	223075	genome.wustl.edu	37	7	31617799	31617799	+	Silent	SNP	T	T	C	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_194300.2	+1	validated	p.N307	0.000	222	0%	43	23.3%	0	-	-	-	-	NULL
CCDC129	223075	genome.wustl.edu	37	7	31682744	31682744	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_194300.2	+1	validated	p.G587V	0.001	168	0%	52	15.4%	0	-	probably_damaging(1)	deleterious(0.02)	deleterious(0.883)	NULL
PDE1C	5137	genome.wustl.edu	37	7	31904603	31904603	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_005020.1	-1	provisional	p.D235N	0.999	335	0.3%	73	28.8%	0	-	probably_damaging(1)	deleterious(0)	deleterious(0.945)	HMMPfam_PDEase_I,HMMSmart_HDc,superfamily_SSF109604
AVL9	23080	genome.wustl.edu	37	7	32582761	32582761	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_015060.1	+1	provisional	p.F34L	1.000	265	0%	91	13.2%	0	-	probably_damaging(0.972)	deleterious(0.01)	deleterious(0.820)	HMMPfam_Avl9
AVL9	23080	genome.wustl.edu	37	7	32609739	32609739	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_015060.1	+1	provisional	p.Q441H	1.000	343	0%	118	19.5%	3	33.3%	probably_damaging(0.986)	deleterious(0.01)	deleterious(0.840)	HMMPfam_Avl9
KBTBD2	25948	genome.wustl.edu	37	7	32909661	32909661	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_015483.2	-1	validated	p.V390I	1.000	422	0.5%	149	11.4%	12	0%	benign(0.178)	tolerated(0.39)	neutral(0.033)	HMMPfam_Kelch_1,HMMSmart_SM00612,superfamily_Galactose oxidase central domain
KBTBD2	25948	genome.wustl.edu	37	7	32910425	32910425	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_015483.2	-1	validated	p.R135Q	1.000	144	0%	47	14.9%	6	16.6%	possibly_damaging(0.95)	tolerated(0.12)	deleterious(0.654)	HMMPfam_BACK
FKBP9	11328	genome.wustl.edu	37	7	33014956	33014956	+	Missense_Mutation	SNP	T	T	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_007270.3	+1	validated	p.F177Y	1.000	237	0%	97	25.8%	11	9%	possibly_damaging(0.805)	deleterious(0.04)	deleterious(0.652)	HMMPfam_FKBP_C,superfamily_SSF54534
RP9	6100	genome.wustl.edu	37	7	33138995	33138995	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_203288.1	-1	reviewed	p.H79	0.794	420	0%	239	27.6%	17	23.5%	-	-	-	NULL
BBS9	27241	genome.wustl.edu	37	7	33644524	33644524	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_198428.2	+1	reviewed	p.E857K	0.075	211	0%	31	16.1%	7	14.2%	benign(0.02)	tolerated(0.12)	neutral(0.262)	NULL
BMPER	168667	genome.wustl.edu	37	7	34014327	34014327	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_133468.3	+1	validated	p.E169D	0.980	482	0%	139	10.8%	0	-	unknown(0)	-	-	HMMPfam_VWC,HMMSmart_VWC
ENSG00000251528	0	genome.wustl.edu	37	7	34980259	34980259	+	RNA	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	ENST00000508348	+1	novel	NULL	0.000	141	0%	30	20%	0	-	-	-	-	-
TBX20	57057	genome.wustl.edu	37	7	35271190	35271190	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001077653.2	-1	reviewed	p.I272M	1.000	262	0%	74	20.3%	0	-	probably_damaging(0.998)	deleterious(0)	deleterious(0.919)	HMMPfam_T-box,HMMSmart_TBOX,superfamily_P53_like_DNA_bnd
EEPD1	80820	genome.wustl.edu	37	7	36194009	36194009	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_030636.2	+1	validated	p.A26T	1.000	80	0%	125	28.8%	2	50%	probably_damaging(0.999)	deleterious(0.05)	deleterious(0.836)	NULL
EEPD1	80820	genome.wustl.edu	37	7	36336765	36336765	+	Nonsense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_030636.2	+1	validated	p.W493*	1.000	404	0%	201	24.4%	5	20%	-	-	-	HMMPfam_Exo_endo_phos,superfamily_DNase I-like
ANLN	54443	genome.wustl.edu	37	7	36446101	36446101	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_018685.2	+1	validated	p.A267T	0.447	329	0%	120	25.8%	0	-	benign(0.032)	tolerated(1)	neutral(0.002)	NULL
ELMO1	9844	genome.wustl.edu	37	7	37172816	37172816	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	ENST00000433246	-1	known	p.T150I	1.000	244	0%	43	9.3%	5	0%	-	-	-	HMMPfam_ELMO_CED12
ELMO1	9844	genome.wustl.edu	37	7	37283994	37283994	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_014800.9	-1	reviewed	p.R139Q	1.000	334	0%	104	16.3%	2	0%	benign(0.047)	tolerated(0.59)	neutral(0.007)	superfamily_ARM repeat
ELMO1	9844	genome.wustl.edu	37	7	37382247	37382247	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_014800.9	-1	reviewed	p.G16	0.973	130	0%	50	18%	2	0%	-	-	-	NULL
TXNDC3	51314	genome.wustl.edu	37	7	37907365	37907365	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_016616.4	+1	reviewed	p.S228Y	0.772	354	0%	80	21.2%	0	-	possibly_damaging(0.949)	deleterious(0)	deleterious(0.838)	superfamily_NDK
TXNDC3	51314	genome.wustl.edu	37	7	37927897	37927897	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_016616.4	+1	reviewed	p.A422	0.062	286	0%	58	31%	0	-	-	-	-	HMMSmart_NDK,superfamily_NDK
TRGC2	6967	genome.wustl.edu	37	7	38279703	38279703	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	ENST00000436911	-1	known	p.R164I	1.000	708	0.1%	169	15.4%	4	0%	probably_damaging(0.995)	deleterious(0.01)	deleterious(0.863)	NULL
TRGV8	6982	genome.wustl.edu	37	7	38370108	38370108	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	ENST00000390343	-1	known	p.R64C	0.005	302	0%	81	11.1%	0	-	benign(0.341)	deleterious(0.01)	deleterious(0.513)	HMMPfam_V-set,superfamily_SSF48726
TRGV1	6973	genome.wustl.edu	37	7	38407640	38407640	+	Missense_Mutation	SNP	G	G	A	rs183043885	by1000genomes	TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	ENST00000390348	-1	known	p.A6V	0.000	276	0%	118	19.5%	1	0%	benign(0.135)	tolerated(1)	neutral(0.011)	NULL
AMPH	273	genome.wustl.edu	37	7	38429466	38429466	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001635.2	-1	reviewed	p.E640G	1.000	245	0%	138	12.3%	0	-	probably_damaging(1)	deleterious(0)	deleterious(0.945)	HMMPfam_SH3_1,HMMSmart_SM00326,superfamily_SH3-domain
AMPH	273	genome.wustl.edu	37	7	38574606	38574606	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001635.2	-1	reviewed	p.L25	1.000	541	0%	120	28.3%	0	-	-	-	-	HMMPfam_BAR,HMMSmart_SM00721
POU6F2	11281	genome.wustl.edu	37	7	39125620	39125620	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_007252.3	+1	reviewed	p.S60N	1.000	221	0%	47	25.5%	0	-	possibly_damaging(0.711)	tolerated(0.32)	neutral(0.281)	NULL
POU6F2	11281	genome.wustl.edu	37	7	39379530	39379530	+	Missense_Mutation	SNP	G	G	C	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_007252.3	+1	reviewed	p.Q267H	1.000	408	0%	728	27.5%	0	-	unknown(0)	deleterious(0.02)	-	NULL
POU6F2	11281	genome.wustl.edu	37	7	39446284	39446284	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_007252.3	+1	reviewed	p.A324D	1.000	131	0%	80	22.5%	0	-	probably_damaging(0.978)	deleterious(0)	deleterious(0.865)	NULL
RALA	5898	genome.wustl.edu	37	7	39730012	39730012	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_005402.2	+1	reviewed	p.D49G	1.000	202	0%	73	13.7%	35	20%	probably_damaging(0.996)	deleterious(0)	deleterious(0.906)	HMMSmart_SM00176,HMMSmart_SM00173,HMMSmart_SM00174,HMMSmart_SM00175,HMMPfam_Ras,superfamily_P-loop containing nucleoside triphosphate hydrolases
ENSG00000249078	0	genome.wustl.edu	37	7	39894127	39894127	+	RNA	SNP	T	T	C	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	ENST00000507268	+1	known	NULL	0.972	663	0%	885	24.3%	10	0%	-	-	-	-
CDK13	8621	genome.wustl.edu	37	7	40133798	40133798	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_003718.4	+1	reviewed	p.R1253Q	0.884	165	0%	61	14.8%	9	22.2%	probably_damaging(0.968)	deleterious(0)	deleterious(0.855)	NULL
MPLKIP	136647	genome.wustl.edu	37	7	40173864	40173864	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_138701.3	-1	reviewed	p.F101	0.993	51	0%	97	23.7%	15	26.6%	-	-	-	NULL
C7orf10	79783	genome.wustl.edu	37	7	40723679	40723679	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_024728.1	+1	provisional	p.L342	0.001	363	0%	80	25%	0	-	-	-	-	superfamily_CoA-Trfase_fam_III
GLI3	2737	genome.wustl.edu	37	7	42018306	42018306	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_000168.5	-1	reviewed	p.F513	0.985	209	0%	102	20.6%	0	-	-	-	-	HMMPfam_zf-C2H2,HMMSmart_SM00355
GLI3	2737	genome.wustl.edu	37	7	42065804	42065804	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_000168.5	-1	reviewed	p.S412	1.000	168	0%	86	23.3%	0	-	-	-	-	NULL
GLI3	2737	genome.wustl.edu	37	7	42079764	42079764	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_000168.5	-1	reviewed	p.D301N	1.000	365	0%	102	23.5%	1	0%	possibly_damaging(0.929)	deleterious(0)	deleterious(0.821)	NULL
GLI3	2737	genome.wustl.edu	37	7	42085115	42085115	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_000168.5	-1	reviewed	p.V232I	1.000	91	0%	33	36.4%	1	0%	benign(0.009)	tolerated(0.36)	neutral(0.021)	NULL
C7orf25	79020	genome.wustl.edu	37	7	42949888	42949888	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001099858.1	-1	validated	p.E262D	0.786	146	0%	239	13.8%	10	10%	benign(0)	tolerated(0.48)	neutral(0.011)	HMMPfam_DUF1308
PSMA2	5683	genome.wustl.edu	37	7	42957376	42957376	+	Splice_Site	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_002787.4	-1	reviewed	e7+1	1.000	406	0%	347	24.5%	1	100%	-	-	-	-
MRPL32	64983	genome.wustl.edu	37	7	42977149	42977149	+	Nonsense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_031903.2	+1	reviewed	p.R181*	1.000	124	0%	67	19.4%	99	20.2%	-	-	-	NULL
HECW1	23072	genome.wustl.edu	37	7	43436412	43436412	+	Splice_Site	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_015052.3	+1	validated	e5-1	1.000	384	0%	159	23.3%	0	-	-	-	-	-
HECW1	23072	genome.wustl.edu	37	7	43590095	43590095	+	Missense_Mutation	SNP	A	A	C	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_015052.3	+1	validated	p.K1434Q	1.000	280	0%	391	26.9%	0	-	possibly_damaging(0.868)	deleterious(0.01)	deleterious(0.743)	HMMPfam_HECT,HMMSmart_HECTc,superfamily_HECT
HECW1	23072	genome.wustl.edu	37	7	43594343	43594343	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_015052.3	+1	validated	p.R1555W	0.984	96	0%	110	22.7%	1	0%	probably_damaging(1)	deleterious(0)	deleterious(0.945)	HMMPfam_HECT,HMMSmart_HECTc,superfamily_HECT
SPDYE1	285955	genome.wustl.edu	37	7	44040762	44040762	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_175064.2	+1	validated	p.L46	0.020	146	0%	84	17.9%	0	-	-	-	-	NULL
POLM	27434	genome.wustl.edu	37	7	44119490	44119490	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	ENST00000418926	-1	known	p.A12T	0.511	95	0%	182	10.4%	2	0%	-	-	-	superfamily_DNA polymerase beta N-terminal domain-like
AEBP1	165	genome.wustl.edu	37	7	44146369	44146369	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001129.3	+1	reviewed	p.A160T	1.000	205	0%	361	10.2%	21	0%	unknown(0)	tolerated(0.24)	-	NULL
AEBP1	165	genome.wustl.edu	37	7	44149708	44149708	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001129.3	+1	reviewed	p.G415	0.999	32	0%	84	27.4%	77	0%	-	-	-	HMMPfam_F5_F8_type_C,HMMSmart_SM00231,superfamily_Galactose-binding domain-like
POLD2	5425	genome.wustl.edu	37	7	44156068	44156068	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001127218.1	-1	validated	p.E274D	0.993	181	0%	296	12.8%	49	4%	benign(0.051)	tolerated(0.21)	neutral(0.047)	HMMPfam_DNA_pol_E_B
POLD2	5425	genome.wustl.edu	37	7	44157611	44157611	+	Nonsense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001127218.1	-1	validated	p.C91*	1.000	64	0%	154	26.6%	15	0%	-	-	-	NULL
GCK	2645	genome.wustl.edu	37	7	44190669	44190669	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_033507.1	-1	reviewed	p.F124	0.971	100	0%	132	29.5%	0	-	-	-	-	HMMPfam_Hexokinase_1,superfamily_SSF53067
GCK	2645	genome.wustl.edu	37	7	44192979	44192979	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_033507.1	-1	reviewed	p.R44	0.003	176	0%	167	23.4%	0	-	-	-	-	HMMPfam_Hexokinase_1,superfamily_SSF53067
GCK	2645	genome.wustl.edu	37	7	44198715	44198715	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_033507.1	-1	reviewed	p.A2V	0.012	88	0%	68	13.2%	0	-	possibly_damaging(0.568)	tolerated(0.31)	neutral(0.222)	NULL
YKT6	10652	genome.wustl.edu	37	7	44250649	44250649	+	Nonsense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_006555.3	+1	reviewed	p.R163*	1.000	288	0%	256	20.7%	28	7.1%	-	-	-	HMMPfam_Synaptobrevin
NPC1L1	29881	genome.wustl.edu	37	7	44579246	44579246	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_013389.2	-1	reviewed	p.D250	0.000	57	0%	46	21.7%	0	-	-	-	-	NULL
OGDH	4967	genome.wustl.edu	37	7	44706439	44706439	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_002541.3	+1	reviewed	p.R208C	1.000	153	1.3%	64	12.5%	9	0%	probably_damaging(0.99)	deleterious(0.04)	deleterious(0.790)	superfamily_SSF52518
OGDH	4967	genome.wustl.edu	37	7	44737348	44737348	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_002541.3	+1	reviewed	p.I775	0.506	103	0%	57	15.8%	20	0%	-	-	-	HMMPfam_Transket_pyr,superfamily_SSF52518
OGDH	4967	genome.wustl.edu	37	7	44737812	44737812	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_002541.3	+1	reviewed	p.R794C	1.000	132	0%	91	24.2%	29	6.8%	probably_damaging(1)	deleterious(0)	deleterious(0.945)	HMMPfam_Transket_pyr,superfamily_SSF52518
OGDH	4967	genome.wustl.edu	37	7	44739760	44739760	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_002541.3	+1	reviewed	p.F817	0.387	147	0%	92	27.2%	27	7.4%	-	-	-	HMMPfam_Transket_pyr,superfamily_SSF52518
ZMIZ2	83637	genome.wustl.edu	37	7	44798891	44798891	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_031449.3	+1	validated	p.G275	0.996	39	0%	76	11.8%	6	0%	-	-	-	NULL
PURB	5814	genome.wustl.edu	37	7	44924204	44924204	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_033224.3	-1	reviewed	p.S248	1.000	93	0%	211	24.2%	2	100%	-	-	-	HMMPfam_PurA,HMMSmart_SM00712
MYO1G	64005	genome.wustl.edu	37	7	45006354	45006354	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_033054.2	-1	validated	p.V622	0.613	54	0%	78	24.4%	4	0%	-	-	-	HMMPfam_Myosin_head,HMMSmart_SM00242,superfamily_P-loop containing nucleoside triphosphate hydrolases
MYO1G	64005	genome.wustl.edu	37	7	45014822	45014822	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_033054.2	-1	validated	p.R190Q	1.000	185	0%	265	17%	1	0%	benign(0.014)	deleterious(0)	neutral(0.445)	HMMPfam_Myosin_head,HMMSmart_SM00242,superfamily_P-loop containing nucleoside triphosphate hydrolases
CCM2	83605	genome.wustl.edu	37	7	45115611	45115611	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001029835.2	+1	reviewed	p.S451	0.376	20	0%	36	16.7%	110	1.8%	-	-	-	NULL
NACAD	23148	genome.wustl.edu	37	7	45124752	45124752	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	ENST00000258775	-1	known	p.D343N	0.000	37	0%	61	32.8%	0	-	benign(0.092)	tolerated(0.28)	neutral(0.038)	NULL
TBRG4	9238	genome.wustl.edu	37	7	45141457	45141457	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_004749.2	-1	validated	p.L512I	0.601	23	4.3%	39	25.6%	57	22.8%	possibly_damaging(0.685)	tolerated(0.39)	neutral(0.261)	HMMPfam_FAST_2
TBRG4	9238	genome.wustl.edu	37	7	45141940	45141940	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	ENST00000483615	-1	known	p.A135V	0.018	98	0%	98	23.5%	0	-	unknown(0)	tolerated(1)	-	NULL
TBRG4	9238	genome.wustl.edu	37	7	45143707	45143707	+	Silent	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	ENST00000483615	-1	known	p.L45I	1.000	49	0%	54	24.1%	19	36.8%	-	-	-	NULL
ADCY1	107	genome.wustl.edu	37	7	45688397	45688397	+	Splice_Site	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_021116.2	+1	reviewed	e5+1	1.000	89	0%	50	28%	0	-	-	-	-	-
ADCY1	107	genome.wustl.edu	37	7	45697411	45697411	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_021116.2	+1	reviewed	p.R412C	1.000	82	0%	62	22.6%	0	-	possibly_damaging(0.805)	deleterious(0.04)	deleterious(0.652)	HMMPfam_Guanylate_cyc,HMMSmart_CYCc,superfamily_A/G_cyclase,PatternScan_GUANYLATE_CYCLASE_1
ADCY1	107	genome.wustl.edu	37	7	45699747	45699747	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_021116.2	+1	reviewed	p.E472K	0.994	284	0%	159	25.2%	1	0%	benign(0.002)	tolerated(0.43)	neutral(0.013)	HMMPfam_Guanylate_cyc,superfamily_A/G_cyclase
ADCY1	107	genome.wustl.edu	37	7	45717528	45717528	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_021116.2	+1	reviewed	p.V556I	0.004	141	0%	85	24.7%	0	-	benign(0.005)	tolerated(0.28)	neutral(0.032)	NULL
TNS3	64759	genome.wustl.edu	37	7	47385895	47385895	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_022748.10	-1	validated	p.D781N	0.998	61	0%	42	31%	2	0%	probably_damaging(0.982)	tolerated(0.3)	neutral(0.455)	NULL
TNS3	64759	genome.wustl.edu	37	7	47408741	47408741	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_022748.10	-1	validated	p.G501V	1.000	47	0%	42	16.7%	3	0%	probably_damaging(1)	deleterious(0)	deleterious(0.945)	NULL
PKD1L1	168507	genome.wustl.edu	37	7	47944200	47944200	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_138295.2	-1	reviewed	p.V569A	0.422	81	0%	30	23.3%	0	-	probably_damaging(0.998)	deleterious(0)	deleterious(0.919)	HMMSmart_SM00089
PKD1L1	168507	genome.wustl.edu	37	7	47979908	47979908	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_138295.2	-1	reviewed	p.Y56C	0.000	222	0%	170	11.2%	0	-	benign(0)	-	-	NULL
SUN3	256979	genome.wustl.edu	37	7	48026965	48026965	+	Nonsense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001030019.1	-1	validated	p.R346*	1.000	322	0%	302	15.6%	0	-	-	-	-	HMMPfam_Sad1_UNC
ABCA13	154664	genome.wustl.edu	37	7	48232643	48232643	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_152701.3	+1	reviewed	p.D53N	1.000	494	0%	283	20.8%	0	-	possibly_damaging(0.801)	-	-	NULL
ABCA13	154664	genome.wustl.edu	37	7	48288940	48288940	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_152701.3	+1	reviewed	p.R666I	0.000	153	0%	33	36.4%	0	-	benign(0.327)	-	-	NULL
ABCA13	154664	genome.wustl.edu	37	7	48319131	48319131	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_152701.3	+1	reviewed	p.E2780D	0.008	107	0%	33	18.2%	0	-	probably_damaging(0.955)	-	-	NULL
ABCA13	154664	genome.wustl.edu	37	7	48353907	48353907	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_152701.3	+1	reviewed	p.A3254S	0.004	420	0%	146	23.3%	0	-	benign(0.209)	-	-	NULL
ABCA13	154664	genome.wustl.edu	37	7	48428801	48428801	+	Frame_Shift_Del	DEL	G	G	-	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_152701.3	+1	reviewed	p.T3882fs	1.000	-	-	-	-	-	-	-	-	-	HMMPfam_ABC_tran,HMMSmart_SM00382,superfamily_P-loop containing nucleoside triphosphate hydrolases
ABCA13	154664	genome.wustl.edu	37	7	48528907	48528907	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	ENST00000453246	+1	known	p.A685T	0.000	442	0%	114	23.7%	0	-	-	-	-	NULL
VWC2	375567	genome.wustl.edu	37	7	49951737	49951737	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_198570.3	+1	reviewed	p.E312K	1.000	94	0%	20	20%	5	0%	probably_damaging(0.992)	deleterious(0.01)	deleterious(0.853)	NULL
ZPBP	11055	genome.wustl.edu	37	7	50121384	50121384	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_007009.2	-1	validated	p.G107V	0.792	347	0%	151	31.1%	0	-	probably_damaging(1)	tolerated(0.08)	deleterious(0.800)	HMMPfam_Sp38
ZPBP	11055	genome.wustl.edu	37	7	50121432	50121432	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_007009.2	-1	validated	p.R91Q	0.995	422	0%	196	12.2%	0	-	probably_damaging(1)	tolerated(0.1)	deleterious(0.786)	HMMPfam_Sp38
ZPBP	11055	genome.wustl.edu	37	7	50132603	50132603	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	ENST00000413331	-1	known	p.R63Q	0.008	9	0.000	8	0.500	0	-	unknown(0)	-	-	NULL
C7orf72	100130988	genome.wustl.edu	37	7	50180942	50180942	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	ENST00000297001	+1	known	p.A348V	0.621	288	0%	71	31%	0	-	benign(0.253)	tolerated(0.08)	neutral(0.326)	NULL
DDC	1644	genome.wustl.edu	37	7	50531015	50531015	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_000790.3	-1	reviewed	p.R453C	0.992	327	0%	374	24.6%	0	-	probably_damaging(0.991)	deleterious(0)	deleterious(0.889)	superfamily_PLP-dependent transferases
DDC	1644	genome.wustl.edu	37	7	50547491	50547491	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_000790.3	-1	reviewed	p.D339N	1.000	386	0%	130	13.1%	0	-	possibly_damaging(0.507)	tolerated(0.16)	neutral(0.229)	HMMPfam_Pyridoxal_deC,superfamily_PLP-dependent transferases
COBL	23242	genome.wustl.edu	37	7	51096628	51096628	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_015198.3	-1	validated	p.R722K	0.588	173	0%	86	22.1%	1	0%	possibly_damaging(0.583)	deleterious(0)	deleterious(0.645)	NULL
COBL	23242	genome.wustl.edu	37	7	51203927	51203927	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	ENST00000452534	-1	known	p.G214R	0.917	121	0%	38	18.4%	0	-	-	-	-	HMMPfam_Cobl
POM121L12	285877	genome.wustl.edu	37	7	53103857	53103857	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_182595.3	+1	validated	p.A165T	0.000	16	0%	37	27%	0	-	possibly_damaging(0.676)	deleterious(0.05)	deleterious(0.586)	NULL
POM121L12	285877	genome.wustl.edu	37	7	53103958	53103958	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_182595.3	+1	validated	p.F198	0.001	41	0%	75	22.7%	0	-	-	-	-	NULL
VSTM2A	222008	genome.wustl.edu	37	7	54617728	54617728	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_182546.2	+1	validated	p.L167M	1.000	97	0%	181	25.4%	0	-	probably_damaging(1)	deleterious(0.03)	deleterious(0.865)	NULL
EGFR	1956	genome.wustl.edu	37	7	55227843	55227843	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_005228.3	+1	reviewed	p.S437Y	1.000	192	0%	165	27.9%	3	33.3%	probably_damaging(0.989)	deleterious(0)	deleterious(0.884)	HMMPfam_Recep_L_domain,superfamily_L domain-like
LANCL2	55915	genome.wustl.edu	37	7	55493090	55493090	+	Silent	SNP	G	G	A	rs185586029	by1000genomes	TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_018697.3	+1	validated	p.T384	0.001	214	0%	165	23.6%	25	16%	-	-	-	HMMPfam_LANC_like,superfamily_Glyco_trans_6hp
CCT6A	908	genome.wustl.edu	37	7	56128005	56128005	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001762.3	+1	reviewed	p.R370H	0.991	250	0%	335	23.6%	92	15.2%	benign(0.002)	tolerated(0.21)	neutral(0.044)	HMMPfam_Cpn60_TCP1,superfamily_GroEL-ATPase,superfamily_SSF52029,superfamily_SSF54849
SUMF2	25870	genome.wustl.edu	37	7	56136261	56136261	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001130069.1	+1	reviewed	p.G71W	0.988	166	0%	201	24.9%	16	12.5%	probably_damaging(1)	deleterious(0.01)	deleterious(0.905)	HMMPfam_DUF323
ZNF479	90827	genome.wustl.edu	37	7	57187710	57187710	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_033273.1	-1	provisional	p.G471D	0.996	228	0%	50	10%	0	-	possibly_damaging(0.591)	deleterious(0.04)	deleterious(0.553)	HMMPfam_zf-C2H2,PatternScan_ZINC_FINGER_C2H2_1,HMMSmart_ZnF_C2H2,superfamily_SSF57667
ZNF479	90827	genome.wustl.edu	37	7	57188060	57188060	+	Silent	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_033273.1	-1	provisional	p.A354	0.023	136	0%	28	17.9%	0	-	-	-	-	HMMPfam_zf-C2H2,HMMSmart_ZnF_C2H2,superfamily_SSF57667
ZNF479	90827	genome.wustl.edu	37	7	57193766	57193766	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_033273.1	-1	provisional	p.S74F	0.034	730	0.1%	164	11%	0	-	benign(0)	deleterious(0.05)	neutral(0.345)	HMMSmart_KRAB
ZNF716	441234	genome.wustl.edu	37	7	57529087	57529087	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	ENST00000420713	+1	known	p.R307H	0.000	111	0%	37	18.9%	0	-	benign(0.001)	tolerated(0.55)	neutral(0.007)	HMMPfam_zf-C2H2,PatternScan_ZINC_FINGER_C2H2_1,HMMSmart_SM00355,superfamily_C2H2 and C2HC zinc fingers
ZNF716	441234	genome.wustl.edu	37	7	57529247	57529247	+	Silent	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	XM_002342727.1	+1	model	p.A277	0.362	227	0%	60	11.7%	0	-	-	-	-	HMMPfam_zf-C2H2,PatternScan_ZINC_FINGER_C2H2_1,HMMSmart_SM00355,superfamily_C2H2 and C2HC zinc fingers
ZNF716	441234	genome.wustl.edu	37	7	57529550	57529550	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	XM_002342727.1	+1	model	p.E378D	1.000	183	0%	52	15.4%	0	-	probably_damaging(0.981)	tolerated(0.07)	deleterious(0.744)	superfamily_C2H2 and C2HC zinc fingers
ZNF679	168417	genome.wustl.edu	37	7	63721222	63721222	+	Silent	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_153363.2	+1	validated	p.V59	0.662	529	0%	87	21.8%	0	-	-	-	-	HMMSmart_SM00349,superfamily_KRAB domain (Kruppel-associated box Pfam 01352)
ZNF679	168417	genome.wustl.edu	37	7	63726574	63726574	+	Missense_Mutation	SNP	A	A	C	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_153363.2	+1	validated	p.K188T	0.011	266	0%	97	30.9%	0	-	benign(0.141)	deleterious(0)	neutral(0.457)	HMMSmart_SM00355,superfamily_C2H2 and C2HC zinc fingers
ZNF679	168417	genome.wustl.edu	37	7	63726790	63726790	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_153363.2	+1	validated	p.R260K	0.999	101	0%	41	17.1%	0	-	benign(0.4)	tolerated(0.52)	neutral(0.137)	HMMPfam_zf-C2H2,PatternScan_ZINC_FINGER_C2H2_1,HMMSmart_SM00355,superfamily_C2H2 and C2HC zinc fingers
ZNF679	168417	genome.wustl.edu	37	7	63727100	63727100	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_153363.2	+1	validated	p.F363L	0.000	137	0%	54	11.1%	0	-	benign(0)	tolerated(0.68)	neutral(0.002)	HMMPfam_zf-C2H2,PatternScan_ZINC_FINGER_C2H2_1,HMMSmart_SM00355,superfamily_C2H2 and C2HC zinc fingers
ZNF680	340252	genome.wustl.edu	37	7	63981630	63981630	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_178558.4	-1	validated	p.R501Q	0.001	229	0%	107	13.1%	2	0%	benign(0.207)	tolerated(1)	neutral(0.020)	HMMPfam_zf-C2H2,PatternScan_ZINC_FINGER_C2H2_1,HMMSmart_SM00355,superfamily_C2H2 and C2HC zinc fingers
ZNF680	340252	genome.wustl.edu	37	7	63982235	63982235	+	Silent	SNP	A	A	G	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_178558.4	-1	validated	p.C299	1.000	132	0%	45	31.1%	0	-	-	-	-	HMMPfam_zf-C2H2,PatternScan_ZINC_FINGER_C2H2_1,HMMSmart_SM00355,superfamily_C2H2 and C2HC zinc fingers
ZNF107	51427	genome.wustl.edu	37	7	64166846	64166846	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001013746.1	+1	validated	p.T55M	0.000	250	0%	166	16.9%	1	0%	possibly_damaging(0.871)	deleterious(0)	deleterious(0.783)	NULL
ZNF107	51427	genome.wustl.edu	37	7	64167621	64167621	+	Silent	SNP	A	A	G	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001013746.1	+1	validated	p.L313	0.000	51	0%	45	24.4%	1	0%	-	-	-	HMMSmart_ZnF_C2H2,superfamily_SSF57667
ZNF138	7697	genome.wustl.edu	37	7	64275370	64275370	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	ENST00000307355	+1	known	p.R26	0.013	363	0%	385	23.9%	5	40%	-	-	-	HMMPfam_KRAB,HMMSmart_SM00349,superfamily_KRAB domain (Kruppel-associated box Pfam 01352)
ERV3-1	2086	genome.wustl.edu	37	7	64453056	64453056	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001007253.3	-1	reviewed	p.V117I	0.077	156	0%	55	18.2%	1	0%	benign(0.081)	tolerated(1)	neutral(0.006)	NULL
ZNF92	168374	genome.wustl.edu	37	7	64864002	64864002	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_152626.2	+1	validated	p.F325L	0.001	98	0%	46	26.1%	1	0%	benign(0.355)	tolerated(0.29)	neutral(0.142)	HMMPfam_zf-C2H2,PatternScan_ZINC_FINGER_C2H2_1,HMMSmart_SM00355,superfamily_C2H2 and C2HC zinc fingers
GUSB	2990	genome.wustl.edu	37	7	65444795	65444795	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_000181.3	-1	reviewed	p.R167Q	1.000	389	0%	589	13.6%	6	33.3%	probably_damaging(0.996)	deleterious(0)	deleterious(0.906)	HMMPfam_Glyco_hydro_2_N,superfamily_Galactose-binding domain-like
GUSB	2990	genome.wustl.edu	37	7	65445280	65445280	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_000181.3	-1	reviewed	p.E109	0.960	50	0%	87	21.8%	4	25%	-	-	-	HMMPfam_Glyco_hydro_2_N,superfamily_Galactose-binding domain-like
RABGEF1	27342	genome.wustl.edu	37	7	66236964	66236964	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_014504.2	+1	validated	p.Y26	0.826	166	0%	37	16.2%	3	0%	-	-	-	HMMPfam_zf-A20,HMMSmart_ZnF_A20
RABGEF1	27342	genome.wustl.edu	37	7	66273956	66273956	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_014504.2	+1	validated	p.G387	1.000	280	0%	95	24.2%	11	9%	-	-	-	superfamily_SSF109993
SBDS	51119	genome.wustl.edu	37	7	66456124	66456124	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_016038.2	-1	reviewed	p.I208	0.992	565	0.2%	582	23.9%	73	15%	-	-	-	HMMPfam_SBDS_C
AUTS2	26053	genome.wustl.edu	37	7	70236592	70236592	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_015570.2	+1	validated	p.G598C	1.000	340	0%	299	11.7%	12	8.3%	probably_damaging(1)	deleterious(0.01)	deleterious(0.905)	NULL
TRIM50	135892	genome.wustl.edu	37	7	72727001	72727001	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_178125.2	-1	provisional	p.E460	0.197	13	0%	31	32.3%	0	-	-	-	-	HMMSmart_SM00449
BAZ1B	9031	genome.wustl.edu	37	7	72891592	72891592	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_032408.3	-1	validated	p.E733D	0.999	233	0%	147	28.6%	5	0%	benign(0.197)	tolerated(0.08)	neutral(0.319)	NULL
TBL2	26608	genome.wustl.edu	37	7	72985585	72985585	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_012453.2	-1	reviewed	p.R271Q	1.000	123	0%	221	18.1%	12	8.3%	probably_damaging(0.999)	deleterious(0.02)	deleterious(0.873)	HMMSmart_WD40,superfamily_WD40_like,HMMPfam_WD40
TBL2	26608	genome.wustl.edu	37	7	72987777	72987777	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	ENST00000450285	-1	known	p.R150W	0.791	144	0%	209	10.5%	6	0%	unknown(0)	-	-	NULL
DNAJC30	84277	genome.wustl.edu	37	7	73097647	73097647	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_032317.2	-1	reviewed	p.R36K	0.002	63	0%	99	27.3%	13	30.7%	benign(0.253)	deleterious(0)	deleterious(0.471)	superfamily_DnaJ_N
WBSCR22	114049	genome.wustl.edu	37	7	73107984	73107984	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	ENST00000442099	+1	known	p.D89N	0.007	361	0.6%	376	23.1%	145	26.2%	-	-	-	NULL
ABHD11	83451	genome.wustl.edu	37	7	73152787	73152787	+	Silent	SNP	A	A	G	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	ENST00000412965	-1	known	p.F34S	1.000	31	0%	98	27.6%	11	45.4%	-	-	-	NULL
WBSCR27	155368	genome.wustl.edu	37	7	73249247	73249247	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_152559.2	-1	reviewed	p.E188D	0.997	35	0%	67	22.4%	3	0%	probably_damaging(0.998)	deleterious(0.02)	deleterious(0.857)	superfamily_S-adenosyl-L-methionine-dependent methyltransferases
WBSCR27	155368	genome.wustl.edu	37	7	73254442	73254442	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_152559.2	-1	reviewed	p.D133N	0.016	64	0%	108	21.3%	4	0%	probably_damaging(0.988)	tolerated(0.06)	deleterious(0.760)	HMMPfam_Methyltransf_12,superfamily_S-adenosyl-L-methionine-dependent methyltransferases
LIMK1	3984	genome.wustl.edu	37	7	73500114	73500114	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_002314.2	+1	reviewed	p.R31M	1.000	56	1.8%	96	30.2%	3	0%	benign(0.394)	tolerated(0.22)	neutral(0.169)	HMMPfam_LIM,HMMSmart_SM00132,PatternScan_LIM_DOMAIN_1,superfamily_Glucocorticoid receptor-like (DNA-binding domain)
EIF4H	7458	genome.wustl.edu	37	7	73609149	73609149	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_022170.1	+1	reviewed	p.R183H	0.989	106	0%	80	10%	34	5.8%	probably_damaging(0.999)	deleterious(0.04)	deleterious(0.839)	NULL
RFC2	5982	genome.wustl.edu	37	7	73654306	73654306	+	Nonsense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_181471.1	-1	reviewed	p.E219*	1.000	143	0%	79	13.9%	32	0%	-	-	-	HMMPfam_AAA,superfamily_P-loop containing nucleoside triphosphate hydrolases
RFC2	5982	genome.wustl.edu	37	7	73657509	73657509	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_181471.1	-1	reviewed	p.A168T	1.000	326	0%	245	23.3%	26	7.6%	possibly_damaging(0.687)	deleterious(0.02)	deleterious(0.629)	HMMSmart_SM00382,HMMPfam_AAA,superfamily_P-loop containing nucleoside triphosphate hydrolases
CLIP2	7461	genome.wustl.edu	37	7	73790968	73790968	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_003388.4	+1	reviewed	p.A746V	0.997	37	0%	67	13.4%	8	0%	benign(0.033)	tolerated(0.09)	neutral(0.298)	NULL
CLIP2	7461	genome.wustl.edu	37	7	73791042	73791042	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_003388.4	+1	reviewed	p.R771W	0.986	28	0%	38	36.8%	6	0%	probably_damaging(0.986)	deleterious(0)	deleterious(0.879)	NULL
CLIP2	7461	genome.wustl.edu	37	7	73818168	73818168	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_003388.4	+1	reviewed	p.D1044G	1.000	95	0%	83	12%	15	0%	benign(0.019)	deleterious(0)	neutral(0.446)	NULL
WBSCR16	81554	genome.wustl.edu	37	7	74482580	74482580	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_030798.3	-1	reviewed	p.E160D	1.000	59	0%	83	21.7%	5	0%	probably_damaging(0.98)	tolerated(0.21)	neutral(0.468)	superfamily_RCC1/BLIP-II
WBSCR16	81554	genome.wustl.edu	37	7	74486521	74486521	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_030798.3	-1	reviewed	p.T129	0.947	256	0%	316	22.5%	4	25%	-	-	-	superfamily_RCC1/BLIP-II
POM121C	100101267	genome.wustl.edu	37	7	75052243	75052243	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001099415.1	-1	validated	p.P431L	0.017	221	0%	372	19.6%	3	33.3%	probably_damaging(0.999)	tolerated(0.12)	deleterious(0.751)	NULL
HIP1	3092	genome.wustl.edu	37	7	75184825	75184825	+	Nonsense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_005338.4	-1	reviewed	p.R620*	0.149	112	0%	138	17.4%	3	0%	-	-	-	NULL
RHBDD2	57414	genome.wustl.edu	37	7	75511177	75511177	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001040456.1	+1	validated	p.Y70C	0.997	67	0%	80	27.5%	31	16.1%	possibly_damaging(0.881)	deleterious(0.01)	deleterious(0.749)	HMMPfam_Rhomboid
MDH2	4191	genome.wustl.edu	37	7	75694234	75694234	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_005918.2	+1	reviewed	p.T283M	1.000	212	0%	208	25%	146	13%	probably_damaging(0.992)	deleterious(0)	deleterious(0.892)	HMMPfam_Ldh_1_C,superfamily_Lactate_DH/Glyco_hydro_4_C
SRCRB4D	136853	genome.wustl.edu	37	7	76028101	76028101	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_080744.1	-1	provisional	p.T163	0.930	517	0%	849	13.1%	0	-	-	-	-	superfamily_SRCR-like
UPK3B	80761	genome.wustl.edu	37	7	76144557	76144557	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_030570.2	+1	validated	p.R318C	0.000	22	0%	40	27.5%	3	0%	unknown(0)	-	-	NULL
FGL2	10875	genome.wustl.edu	37	7	76828847	76828847	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_006682.2	-1	reviewed	p.I88	0.000	208	0%	79	21.5%	1	0%	-	-	-	NULL
CCDC146	57639	genome.wustl.edu	37	7	76924044	76924044	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_020879.2	+1	validated	p.P910L	1.000	168	0.6%	49	18.4%	1	0%	probably_damaging(1)	deleterious(0)	deleterious(0.945)	NULL
PION	54103	genome.wustl.edu	37	7	76950714	76950714	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_017439.3	-1	validated	p.L644F	0.990	229	0%	61	24.6%	2	0%	probably_damaging(0.998)	deleterious(0)	deleterious(0.919)	NULL
PION	54103	genome.wustl.edu	37	7	76953025	76953025	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_017439.3	-1	validated	p.H621R	1.000	330	0%	86	23.3%	1	0%	probably_damaging(0.991)	deleterious(0)	deleterious(0.889)	NULL
PION	54103	genome.wustl.edu	37	7	76982938	76982938	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_017439.3	-1	validated	p.E453D	0.989	338	0%	69	27.5%	1	0%	possibly_damaging(0.717)	tolerated(0.39)	neutral(0.276)	NULL
PHTF2	57157	genome.wustl.edu	37	7	77569545	77569545	+	Missense_Mutation	SNP	A	A	C	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001127357.1	+1	validated	p.S522R	1.000	656	0%	384	25.3%	8	50%	possibly_damaging(0.662)	tolerated(0.1)	deleterious(0.520)	NULL
MAGI2	9863	genome.wustl.edu	37	7	77762210	77762210	+	Missense_Mutation	SNP	T	T	G	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_012301.3	-1	reviewed	p.N1067H	1.000	286	0%	275	29.1%	0	-	benign(0.132)	deleterious(0.01)	neutral(0.417)	NULL
MAGI2	9863	genome.wustl.edu	37	7	77789452	77789452	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_012301.3	-1	reviewed	p.A912V	0.997	168	0%	51	25.5%	0	-	benign(0.012)	tolerated(0.44)	neutral(0.013)	superfamily_PDZ domain-like
MAGI2	9863	genome.wustl.edu	37	7	77973142	77973142	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_012301.3	-1	reviewed	p.S454I	1.000	404	0%	107	25.2%	1	0%	probably_damaging(0.998)	deleterious(0)	deleterious(0.919)	HMMPfam_PDZ,HMMSmart_SM00228,superfamily_PDZ domain-like
MAGI2	9863	genome.wustl.edu	37	7	78130932	78130932	+	Missense_Mutation	SNP	T	T	G	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_012301.3	-1	reviewed	p.E309D	1.000	599	0%	466	23%	0	-	probably_damaging(0.999)	deleterious(0)	deleterious(0.935)	HMMPfam_WW,HMMSmart_SM00456,PatternScan_WW_DOMAIN_1,superfamily_WW domain
GNAI1	2770	genome.wustl.edu	37	7	79840336	79840336	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_002069.5	+1	validated	p.C214	1.000	388	0%	102	18.6%	11	9%	-	-	-	HMMPfam_G-alpha,HMMSmart_SM00275,superfamily_P-loop containing nucleoside triphosphate hydrolases
HGF	3082	genome.wustl.edu	37	7	81331908	81331908	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_000601.4	-1	reviewed	p.P726S	0.031	283	0%	79	20.3%	0	-	benign(0.016)	deleterious(0.03)	neutral(0.365)	NULL
HGF	3082	genome.wustl.edu	37	7	81336606	81336606	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_000601.4	-1	reviewed	p.R539Q	1.000	270	0.4%	44	29.5%	0	-	probably_damaging(0.983)	tolerated(0.58)	neutral(0.434)	HMMPfam_Trypsin,HMMSmart_SM00020,superfamily_Trypsin-like serine proteases
CACNA2D1	781	genome.wustl.edu	37	7	81611940	81611940	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_000722.2	-1	reviewed	p.S633L	1.000	308	0.3%	66	30.3%	0	-	benign(0.004)	tolerated(0.68)	neutral(0.002)	HMMPfam_VGCC_alpha2
CACNA2D1	781	genome.wustl.edu	37	7	81626530	81626530	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_000722.2	-1	reviewed	p.L543I	1.000	467	0%	93	11.8%	0	-	probably_damaging(0.999)	tolerated(0.32)	deleterious(0.514)	HMMPfam_VGCC_alpha2
CACNA2D1	781	genome.wustl.edu	37	7	81746471	81746471	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_000722.2	-1	reviewed	p.E139K	1.000	344	0%	86	24.4%	0	-	benign(0.245)	deleterious(0.02)	neutral(0.408)	HMMPfam_VWA_N
CACNA2D1	781	genome.wustl.edu	37	7	81964464	81964464	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_000722.2	-1	reviewed	p.S94Y	1.000	442	0.2%	138	19.6%	0	-	probably_damaging(0.953)	deleterious(0.03)	deleterious(0.761)	NULL
PCLO	27445	genome.wustl.edu	37	7	82390704	82390704	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_033026.5	-1	validated	p.Y5038C	1.000	521	0%	93	25.8%	0	-	unknown(0)	-	-	HMMPfam_C2,HMMSmart_SM00239,superfamily_C2 domain (Calcium/lipid-binding domain CaLB)
PCLO	27445	genome.wustl.edu	37	7	82545637	82545637	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_033026.5	-1	validated	p.Q3889K	1.000	906	0.1%	405	25.2%	1	0%	probably_damaging(0.991)	tolerated(0.61)	neutral(0.448)	NULL
PCLO	27445	genome.wustl.edu	37	7	82579883	82579883	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_033026.5	-1	validated	p.Y3341H	1.000	195	0%	90	15.6%	0	-	probably_damaging(0.998)	-	-	NULL
PCLO	27445	genome.wustl.edu	37	7	82580252	82580252	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_033026.5	-1	validated	p.R3218C	1.000	100	0%	53	22.6%	0	-	probably_damaging(1)	-	-	NULL
PCLO	27445	genome.wustl.edu	37	7	82580365	82580365	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_033026.5	-1	validated	p.S3180Y	0.863	120	0%	45	17.8%	0	-	probably_damaging(0.995)	-	-	NULL
PCLO	27445	genome.wustl.edu	37	7	82581541	82581541	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_033026.5	-1	validated	p.V2910I	1.000	298	0%	126	26.2%	0	-	possibly_damaging(0.94)	-	-	NULL
PCLO	27445	genome.wustl.edu	37	7	82582136	82582136	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_033026.5	-1	validated	p.E2711	0.998	225	0%	87	16.1%	0	-	-	-	-	NULL
PCLO	27445	genome.wustl.edu	37	7	82582381	82582381	+	Nonsense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_033026.5	-1	validated	p.E2630*	0.009	210	0%	79	26.6%	0	-	-	-	-	NULL
PCLO	27445	genome.wustl.edu	37	7	82583422	82583422	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_033026.5	-1	validated	p.G2283W	0.000	240	0%	104	9.6%	0	-	probably_damaging(0.988)	-	-	NULL
SEMA3A	10371	genome.wustl.edu	37	7	83592544	83592544	+	Nonsense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_006080.2	-1	reviewed	p.R613*	0.978	354	0.3%	71	29.6%	1	100%	-	-	-	HMMSmart_IG,HMMPfam_ig,superfamily_SSF48726
SEMA3A	10371	genome.wustl.edu	37	7	83675658	83675658	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_006080.2	-1	reviewed	p.D217Y	1.000	381	0%	139	19.4%	0	-	probably_damaging(0.999)	deleterious(0)	deleterious(0.935)	HMMPfam_Sema,HMMSmart_Sema,superfamily_Sema
SEMA3D	223117	genome.wustl.edu	37	7	84628806	84628806	+	Nonsense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_152754.2	-1	validated	p.R762*	0.745	420	0%	166	12%	0	-	-	-	-	NULL
GRM3	2913	genome.wustl.edu	37	7	86394651	86394651	+	Nonsense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_000840.2	+1	reviewed	p.R64*	0.998	287	0.3%	75	12%	1	0%	-	-	-	superfamily_Periplasmic binding protein-like I
GRM3	2913	genome.wustl.edu	37	7	86415763	86415763	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_000840.2	+1	reviewed	p.E219K	1.000	55	0%	108	20.4%	0	-	probably_damaging(0.993)	deleterious(0)	deleterious(0.895)	HMMPfam_ANF_receptor,superfamily_Periplasmic binding protein-like I
GRM3	2913	genome.wustl.edu	37	7	86415892	86415892	+	Nonsense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_000840.2	+1	reviewed	p.E262*	0.995	24	0%	40	20%	0	-	-	-	-	HMMPfam_ANF_receptor,superfamily_Periplasmic binding protein-like I
GRM3	2913	genome.wustl.edu	37	7	86468302	86468302	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_000840.2	+1	reviewed	p.S491L	0.984	131	0%	31	25.8%	0	-	benign(0.055)	tolerated(0.23)	neutral(0.045)	superfamily_Periplasmic binding protein-like I
GRM3	2913	genome.wustl.edu	37	7	86468665	86468665	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_000840.2	+1	reviewed	p.R612Q	1.000	251	0%	70	15.7%	2	0%	probably_damaging(1)	deleterious(0)	deleterious(0.945)	HMMPfam_7tm_3
GRM3	2913	genome.wustl.edu	37	7	86493637	86493637	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_000840.2	+1	reviewed	p.R869Q	1.000	416	0%	105	22.9%	1	0%	probably_damaging(0.986)	deleterious(0.02)	deleterious(0.818)	NULL
KIAA1324L	222223	genome.wustl.edu	37	7	86542449	86542449	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	ENST00000423294	-1	known	p.V562I	0.285	179	0.6%	27	14.8%	1	0%	-	-	-	superfamily_Growth factor receptor domain
KIAA1324L	222223	genome.wustl.edu	37	7	86548543	86548543	+	Nonsense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001142749.2	-1	validated	p.G495*	1.000	261	0%	52	17.3%	1	0%	-	-	-	superfamily_Growth factor receptor domain
KIAA1324L	222223	genome.wustl.edu	37	7	86569355	86569355	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001142749.2	-1	validated	p.P273L	1.000	363	0%	79	24.1%	0	-	probably_damaging(1)	deleterious(0)	deleterious(0.945)	superfamily_Growth factor receptor domain
KIAA1324L	222223	genome.wustl.edu	37	7	86574309	86574309	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001142749.2	-1	validated	p.T187M	0.999	149	0%	49	32.7%	0	-	probably_damaging(0.995)	deleterious(0)	deleterious(0.902)	superfamily_Growth factor receptor domain
DMTF1	9988	genome.wustl.edu	37	7	86815288	86815288	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001142327.1	+1	reviewed	p.S398L	1.000	409	0%	66	31.8%	4	100%	probably_damaging(0.965)	deleterious(0.01)	deleterious(0.812)	NULL
CROT	54677	genome.wustl.edu	37	7	87011406	87011406	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001143935.1	+1	reviewed	p.R388Q	1.000	228	0.4%	50	14%	1	100%	probably_damaging(1)	deleterious(0.03)	deleterious(0.865)	HMMPfam_Carn_acyltransf,superfamily_CoA-dependent acyltransferases
ABCB4	5244	genome.wustl.edu	37	7	87080990	87080990	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_018849.2	-1	reviewed	p.V219	1.000	271	0%	56	23.2%	0	-	-	-	-	HMMPfam_ABC_membrane,superfamily_Multidrug resistance ABC transporter MsbA N-terminal domain
ABCB4	5244	genome.wustl.edu	37	7	87092089	87092089	+	Missense_Mutation	SNP	T	T	G	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_018849.2	-1	reviewed	p.N91H	0.933	184	0%	87	19.5%	0	-	benign(0.394)	tolerated(0.1)	neutral(0.413)	HMMPfam_ABC_membrane,superfamily_Multidrug resistance ABC transporter MsbA N-terminal domain
ABCB4	5244	genome.wustl.edu	37	7	87104761	87104761	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_018849.2	-1	reviewed	p.K7N	0.015	53	0%	100	29%	0	-	benign(0.004)	deleterious(0.03)	neutral(0.364)	NULL
ABCB1	5243	genome.wustl.edu	37	7	87178761	87178761	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_000927.3	-1	reviewed	p.R543H	0.989	205	0%	66	37.9%	1	0%	probably_damaging(1)	deleterious(0)	deleterious(0.945)	HMMPfam_ABC_tran,HMMSmart_SM00382,PatternScan_ABC_TRANSPORTER_1,superfamily_P-loop containing nucleoside triphosphate hydrolases
RUNDC3B	154661	genome.wustl.edu	37	7	87399955	87399955	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_138290.2	+1	validated	p.E247K	1.000	178	0%	60	20%	0	-	probably_damaging(0.999)	tolerated(0.12)	deleterious(0.751)	NULL
RUNDC3B	154661	genome.wustl.edu	37	7	87436836	87436836	+	Splice_Site	SNP	T	T	C	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_138290.2	+1	validated	e10+2	1.000	273	0%	58	22.4%	0	-	-	-	-	-
DBF4	10926	genome.wustl.edu	37	7	87536849	87536849	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_006716.3	+1	validated	p.E466K	0.093	180	0%	42	28.6%	4	25%	benign(0.001)	tolerated(0.58)	neutral(0.005)	NULL
ADAM22	53616	genome.wustl.edu	37	7	87797453	87797453	+	Silent	SNP	T	T	C	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	ENST00000413139	+1	known	p.C31R	1.000	334	0%	91	28.6%	0	-	-	-	-	NULL
SRI	6717	genome.wustl.edu	37	7	87839378	87839378	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_003130.2	-1	validated	p.R106I	1.000	379	0%	186	10.8%	85	10.5%	possibly_damaging(0.883)	deleterious(0)	deleterious(0.789)	HMMSmart_SM00054,HMMPfam_efhand,superfamily_EF-hand
C7orf62	219557	genome.wustl.edu	37	7	88423956	88423956	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_152706.2	-1	predicted	p.E101K	0.978	226	0.4%	59	28.8%	0	-	probably_damaging(0.998)	deleterious(0)	deleterious(0.919)	NULL
ZNF804B	219578	genome.wustl.edu	37	7	88956763	88956763	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_181646.2	+1	provisional	p.A119T	1.000	304	0%	77	15.6%	0	-	probably_damaging(0.992)	deleterious(0)	deleterious(0.892)	NULL
ZNF804B	219578	genome.wustl.edu	37	7	88964093	88964093	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_181646.2	+1	provisional	p.E599	0.001	163	0%	58	17.2%	0	-	-	-	-	NULL
ZNF804B	219578	genome.wustl.edu	37	7	88964817	88964817	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_181646.2	+1	provisional	p.K841E	0.011	73	0%	51	13.7%	0	-	benign(0)	tolerated(1)	-	NULL
ZNF804B	219578	genome.wustl.edu	37	7	88964976	88964976	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_181646.2	+1	provisional	p.G894R	0.001	140	0%	77	26%	0	-	possibly_damaging(0.619)	deleterious(0)	deleterious(0.660)	NULL
ZNF804B	219578	genome.wustl.edu	37	7	88965101	88965101	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_181646.2	+1	provisional	p.K935N	1.000	125	0%	69	36.2%	0	-	probably_damaging(0.991)	deleterious(0)	deleterious(0.889)	NULL
STEAP1	26872	genome.wustl.edu	37	7	89789177	89789177	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_012449.2	+1	reviewed	p.D25	0.967	423	0%	364	12.1%	2	0%	-	-	-	NULL
AKAP9	10142	genome.wustl.edu	37	7	91643571	91643571	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_005751.4	+1	reviewed	p.G1181R	0.871	372	0%	329	18.2%	0	-	benign(0.002)	tolerated(0.07)	neutral(0.319)	NULL
AKAP9	10142	genome.wustl.edu	37	7	91651621	91651621	+	Nonsense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_005751.4	+1	reviewed	p.E1303*	0.000	374	0%	417	13.4%	0	-	-	-	-	NULL
AKAP9	10142	genome.wustl.edu	37	7	91659239	91659239	+	Missense_Mutation	SNP	A	A	C	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_005751.4	+1	reviewed	p.E1393D	0.975	530	0%	612	11.8%	2	0%	possibly_damaging(0.902)	tolerated(0.54)	neutral(0.364)	NULL
AKAP9	10142	genome.wustl.edu	37	7	91672032	91672032	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_005751.4	+1	reviewed	p.K1703N	1.000	344	0%	93	12.9%	0	-	probably_damaging(0.98)	deleterious(0.02)	deleterious(0.807)	NULL
AKAP9	10142	genome.wustl.edu	37	7	91707021	91707021	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_005751.4	+1	reviewed	p.E2259D	1.000	255	0%	63	25.4%	3	33.3%	benign(0.119)	tolerated(0.15)	neutral(0.251)	NULL
ENSG00000240720	0	genome.wustl.edu	37	7	91788463	91788463	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	ENST00000430130	-1	known	p.I658V	1.000	455	0%	169	27.2%	0	-	possibly_damaging(0.942)	tolerated(0.31)	neutral(0.414)	HMMPfam_LRR_1,HMMSmart_SM00369,HMMSmart_SM00364,HMMSmart_SM00365,superfamily_L domain-like
ANKIB1	54467	genome.wustl.edu	37	7	92000822	92000822	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_019004.1	+1	validated	p.A506	0.965	228	0%	67	32.8%	1	0%	-	-	-	HMMSmart_IBR
ERVW-1	30816	genome.wustl.edu	37	7	92098613	92098613	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_014590.3	-1	reviewed	p.V361	0.709	114	0%	42	28.6%	0	-	-	-	-	HMMPfam_TLV_coat
PEX1	5189	genome.wustl.edu	37	7	92123885	92123885	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_000466.2	-1	reviewed	p.R948W	1.000	312	0.3%	72	29.2%	2	0%	probably_damaging(1)	deleterious(0)	deleterious(0.945)	HMMSmart_SM00382,HMMPfam_AAA,superfamily_P-loop containing nucleoside triphosphate hydrolases
PEX1	5189	genome.wustl.edu	37	7	92146930	92146930	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_000466.2	-1	reviewed	p.A300V	0.000	249	0%	117	18.8%	0	-	benign(0)	tolerated(0.33)	neutral(0.024)	NULL
FAM133B	257415	genome.wustl.edu	37	7	92195372	92195372	+	Nonsense_Mutation	SNP	G	G	A	rs182615762	by1000genomes	TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_152789.2	-1	validated	p.R205*	1.000	698	0%	292	21.2%	5	20%	-	-	-	NULL
CDK6	1021	genome.wustl.edu	37	7	92252396	92252396	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001145306.1	-1	reviewed	p.L218I	1.000	225	0%	78	20.5%	0	-	probably_damaging(0.984)	deleterious(0.04)	deleterious(0.779)	HMMSmart_SM00219,HMMSmart_SM00220,superfamily_Protein kinase-like (PK-like),HMMPfam_Pkinase
SAMD9	54809	genome.wustl.edu	37	7	92732142	92732142	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_017654.2	-1	validated	p.R1090I	1.000	155	0%	73	23.3%	2	0%	probably_damaging(0.981)	deleterious(0)	deleterious(0.870)	NULL
SAMD9	54809	genome.wustl.edu	37	7	92732182	92732182	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_017654.2	-1	validated	p.R1077W	0.003	157	0%	83	10.8%	1	0%	probably_damaging(0.984)	deleterious(0.03)	deleterious(0.795)	NULL
SAMD9L	219285	genome.wustl.edu	37	7	92760636	92760636	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_152703.2	-1	validated	p.S1550F	0.990	306	0%	53	15.1%	3	0%	possibly_damaging(0.805)	deleterious(0.01)	deleterious(0.709)	NULL
SAMD9L	219285	genome.wustl.edu	37	7	92760895	92760895	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_152703.2	-1	validated	p.K1464E	0.058	149	0%	45	28.9%	5	0%	benign(0.054)	deleterious(0.02)	neutral(0.387)	NULL
SAMD9L	219285	genome.wustl.edu	37	7	92763168	92763168	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_152703.2	-1	validated	p.S706F	0.997	81	0%	28	25%	3	0%	benign(0.422)	deleterious(0.03)	deleterious(0.502)	NULL
SAMD9L	219285	genome.wustl.edu	37	7	92764618	92764618	+	Nonsense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_152703.2	-1	validated	p.R223*	1.000	280	0%	58	15.5%	0	-	-	-	-	NULL
HEPACAM2	253012	genome.wustl.edu	37	7	92837898	92837898	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001039372.1	-1	provisional	p.S336F	0.991	149	0%	42	21.4%	0	-	probably_damaging(0.992)	deleterious(0.01)	deleterious(0.853)	NULL
CCDC132	55610	genome.wustl.edu	37	7	92963446	92963446	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_017667.2	+1	validated	p.L665	0.975	313	0%	85	11.8%	0	-	-	-	-	NULL
CCDC132	55610	genome.wustl.edu	37	7	92983000	92983000	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_017667.2	+1	validated	p.R838C	1.000	451	0%	124	24.2%	4	25%	probably_damaging(0.999)	tolerated(0.18)	deleterious(0.546)	HMMPfam_DUF2451
COL1A2	1278	genome.wustl.edu	37	7	94057026	94057026	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_000089.3	+1	reviewed	p.A1119T	1.000	130	0%	40	12.5%	890	0.2%	probably_damaging(1)	tolerated(0.22)	deleterious(0.542)	NULL
SGCE	8910	genome.wustl.edu	37	7	94259103	94259103	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001099401.1	-1	reviewed	p.A54S	1.000	284	0%	66	22.7%	10	0%	benign(0.003)	tolerated(0.3)	neutral(0.029)	HMMSmart_SM00736,HMMPfam_Sarcoglycan_2,superfamily_Cadherin-like
PPP1R9A	55607	genome.wustl.edu	37	7	94540298	94540298	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_017650.2	+1	validated	p.S291	0.000	76	0%	130	26.2%	0	-	-	-	-	NULL
PPP1R9A	55607	genome.wustl.edu	37	7	94913591	94913591	+	Silent	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	ENST00000433360	+1	known	p.I1186	0.802	517	0%	140	24.3%	0	-	-	-	-	NULL
PON1	5444	genome.wustl.edu	37	7	94928314	94928314	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_000446.5	-1	reviewed	p.Y337C	1.000	246	0%	50	24%	0	-	probably_damaging(1)	deleterious(0)	deleterious(0.945)	superfamily_Calcium-dependent phosphotriesterase
PON1	5444	genome.wustl.edu	37	7	94946060	94946060	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_000446.5	-1	reviewed	p.A63T	1.000	312	0%	205	20%	0	-	possibly_damaging(0.481)	deleterious(0.04)	deleterious(0.508)	superfamily_Calcium-dependent phosphotriesterase
PON2	5445	genome.wustl.edu	37	7	95039341	95039341	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_000305.2	-1	reviewed	p.F189L	0.998	323	0%	128	23.4%	19	10.5%	benign(0)	tolerated(0.54)	neutral(0.007)	HMMPfam_Arylesterase,superfamily_SSF63829
PON2	5445	genome.wustl.edu	37	7	95045602	95045602	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_000305.2	-1	reviewed	p.G51	0.701	414	0%	123	12.2%	5	0%	-	-	-	superfamily_SSF63829
ASB4	51666	genome.wustl.edu	37	7	95166954	95166954	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_016116.1	+1	reviewed	p.S388	0.957	343	0%	190	22.6%	0	-	-	-	-	HMMPfam_SOCS_box
PDK4	5166	genome.wustl.edu	37	7	95215020	95215020	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_002612.3	-1	reviewed	p.S390Y	0.000	366	0%	175	25.1%	8	0%	benign(0.001)	tolerated(0.12)	neutral(0.261)	NULL
SLC25A13	10165	genome.wustl.edu	37	7	95906626	95906626	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_014251.2	-1	reviewed	p.E32K	1.000	232	0%	33	24.2%	1	0%	possibly_damaging(0.551)	tolerated(0.07)	deleterious(0.506)	superfamily_SSF47473
OCM2	4951	genome.wustl.edu	37	7	97616397	97616397	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_006188.3	-1	reviewed	p.A89V	0.224	828	0%	399	16%	0	-	probably_damaging(0.996)	deleterious(0)	deleterious(0.906)	HMMSmart_EFh,HMMPfam_efhand,superfamily_SSF47473
LMTK2	22853	genome.wustl.edu	37	7	97784093	97784093	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_014916.3	+1	reviewed	p.T158	0.416	256	0%	111	33.3%	0	-	-	-	-	HMMPfam_Pkinase_Tyr,HMMSmart_SM00219,HMMSmart_SM00220,superfamily_Protein kinase-like (PK-like),PatternScan_PROTEIN_KINASE_ATP
BHLHA15	168620	genome.wustl.edu	37	7	97841938	97841938	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_177455.3	+1	validated	p.R106H	0.989	32	0%	52	26.9%	1	0%	probably_damaging(0.998)	deleterious(0.03)	deleterious(0.839)	HMMPfam_HLH,HMMSmart_HLH,superfamily_HLH_basic
TECPR1	25851	genome.wustl.edu	37	7	97861233	97861233	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_015395.1	-1	provisional	p.C619	0.053	28	0%	45	28.9%	4	25%	-	-	-	superfamily_PH domain-like
BAIAP2L1	55971	genome.wustl.edu	37	7	97946561	97946561	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_018842.4	-1	reviewed	p.N152	0.993	651	0%	457	27.4%	5	20%	-	-	-	HMMPfam_IMD
NPTX2	4885	genome.wustl.edu	37	7	98249101	98249101	+	Silent	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_002523.2	+1	reviewed	p.T191	0.399	26	0%	48	35.4%	0	-	-	-	-	NULL
TRRAP	8295	genome.wustl.edu	37	7	98508033	98508033	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_003496.2	+1	validated	p.A569S	1.000	158	0%	210	12.9%	0	-	benign(0.002)	tolerated(0.57)	neutral(0.006)	NULL
TRRAP	8295	genome.wustl.edu	37	7	98513384	98513384	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	ENST00000456197	+1	known	p.S461L	0.081	161	0%	133	17.3%	0	-	-	-	-	superfamily_ARM repeat
TRRAP	8295	genome.wustl.edu	37	7	98534828	98534828	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	ENST00000456197	+1	known	p.S1102L	0.952	214	0%	99	14.1%	1	0%	-	-	-	superfamily_ARM repeat
TRRAP	8295	genome.wustl.edu	37	7	98550955	98550955	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_003496.2	+1	validated	p.L1852F	1.000	68	0%	85	11.8%	6	0%	probably_damaging(1)	deleterious(0.02)	deleterious(0.883)	superfamily_ARM repeat
TRRAP	8295	genome.wustl.edu	37	7	98560013	98560013	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	ENST00000456197	+1	known	p.T1979M	0.935	105	0%	81	21%	0	-	-	-	-	superfamily_ARM repeat
TRRAP	8295	genome.wustl.edu	37	7	98609124	98609124	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_003496.2	+1	validated	p.A3725V	1.000	72	0%	133	12.8%	27	0%	probably_damaging(1)	deleterious(0)	deleterious(0.945)	HMMSmart_SM00146,superfamily_Protein kinase-like (PK-like),superfamily_ARM repeat
TRRAP	8295	genome.wustl.edu	37	7	98609888	98609888	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	ENST00000456197	+1	known	p.A3559V	0.072	40	0%	90	31.1%	32	9.3%	-	-	-	NULL
SMURF1	57154	genome.wustl.edu	37	7	98645367	98645367	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_020429.1	-1	reviewed	p.S390	0.006	142	1.4%	103	12.6%	3	0%	-	-	-	NULL
SMURF1	57154	genome.wustl.edu	37	7	98649896	98649896	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_020429.1	-1	reviewed	p.R218Q	1.000	181	0%	138	13%	3	0%	benign(0.373)	tolerated(0.58)	neutral(0.124)	NULL
ARPC1A	10552	genome.wustl.edu	37	7	98955969	98955969	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_006409.2	+1	reviewed	p.S240	0.812	270	0%	153	22.2%	93	15%	-	-	-	HMMSmart_SM00320,superfamily_WD40 repeat-like
BUD31	8896	genome.wustl.edu	37	7	99013850	99013850	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_003910.3	+1	validated	p.D62N	1.000	320	0.3%	291	20.6%	211	25.5%	benign(0.352)	tolerated(0.06)	neutral(0.434)	HMMPfam_G10
PTCD1	26024	genome.wustl.edu	37	7	99022600	99022600	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_015545.2	-1	validated	p.D519N	0.996	81	0%	129	24.8%	7	42.8%	probably_damaging(1)	deleterious(0)	deleterious(0.945)	NULL
ZNF789	285989	genome.wustl.edu	37	7	99084330	99084330	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_213603.2	+1	validated	p.A166V	0.000	152	0%	114	27.2%	8	12.5%	benign(0.002)	tolerated(0.54)	neutral(0.007)	NULL
ZNF394	84124	genome.wustl.edu	37	7	99091705	99091705	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_032164.2	-1	provisional	p.R378I	0.999	330	0%	178	23.6%	10	10%	probably_damaging(1)	deleterious(0)	deleterious(0.945)	HMMPfam_zf-C2H2,PatternScan_ZINC_FINGER_C2H2_1,HMMSmart_SM00355,superfamily_C2H2 and C2HC zinc fingers
ZKSCAN5	23660	genome.wustl.edu	37	7	99123508	99123508	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_014569.3	+1	reviewed	p.A282V	0.022	109	0%	52	19.2%	0	-	benign(0.061)	tolerated(0.35)	neutral(0.025)	NULL
ZNF655	79027	genome.wustl.edu	37	7	99160005	99160005	+	Nonsense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	ENST00000449244	+1	known	p.R86*	1.000	467	0%	515	25.4%	5	0%	-	-	-	NULL
ZNF655	79027	genome.wustl.edu	37	7	99169894	99169894	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001083956.1	+1	reviewed	p.L90	0.985	227	0%	202	14.4%	1	100%	-	-	-	NULL
CYP3A5	1577	genome.wustl.edu	37	7	99273820	99273820	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_000777.2	-1	reviewed	p.R28H	0.000	433	0%	578	12.6%	0	-	benign(0.002)	tolerated(0.32)	neutral(0.024)	NULL
CYP3A4	1576	genome.wustl.edu	37	7	99358581	99358581	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_017460.3	-1	reviewed	p.N426S	0.002	912	0%	205	11.2%	0	-	benign(0)	tolerated(1)	-	HMMPfam_p450,superfamily_Cytochrome P450
OR2AE1	81392	genome.wustl.edu	37	7	99474137	99474137	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001005276.1	-1	provisional	p.V174I	0.007	96	0%	97	26.8%	0	-	benign(0)	tolerated(1)	-	HMMPfam_7tm_1,superfamily_SSF81321
OR2AE1	81392	genome.wustl.edu	37	7	99474174	99474174	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001005276.1	-1	provisional	p.A161	0.000	101	0%	109	11.9%	0	-	-	-	-	HMMPfam_7tm_1,superfamily_SSF81321
OR2AE1	81392	genome.wustl.edu	37	7	99474479	99474479	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001005276.1	-1	provisional	p.Y60H	1.000	143	0%	129	20.9%	0	-	probably_damaging(0.975)	deleterious(0)	deleterious(0.861)	HMMPfam_7tm_1,superfamily_SSF81321
ZKSCAN1	7586	genome.wustl.edu	37	7	99631289	99631289	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_003439.1	+1	validated	p.T387	0.000	138	0%	56	17.9%	1	0%	-	-	-	HMMPfam_zf-C2H2,PatternScan_ZINC_FINGER_C2H2_1,HMMSmart_SM00355,superfamily_C2H2 and C2HC zinc fingers
COPS6	10980	genome.wustl.edu	37	7	99689296	99689296	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_006833.4	+1	reviewed	p.A290T	1.000	144	0%	202	22.8%	327	28.7%	benign(0.001)	tolerated(1)	-	NULL
MIR93	407050	genome.wustl.edu	37	7	99691448	99691448	+	RNA	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	ENST00000385024	-1	known	NULL	1.000	58	0%	102	27.5%	0	-	-	-	-	-
TAF6	6878	genome.wustl.edu	37	7	99709389	99709389	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_005641.2	-1	reviewed	p.A288S	1.000	193	0%	194	24.2%	35	25.7%	probably_damaging(0.958)	tolerated(0.22)	neutral(0.444)	NULL
GPC2	221914	genome.wustl.edu	37	7	99771610	99771610	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_152742.1	-1	provisional	p.S247Y	0.072	26	0%	83	22.9%	2	0%	possibly_damaging(0.44)	deleterious(0.02)	deleterious(0.526)	HMMPfam_Glypican
STAG3	10734	genome.wustl.edu	37	7	99808780	99808780	+	Missense_Mutation	SNP	G	G	T	rs112524836		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_012447.2	+1	validated	p.D1129Y	0.006	138	0%	84	28.6%	3	66.6%	possibly_damaging(0.745)	tolerated(0.1)	deleterious(0.560)	superfamily_ARM repeat
GATS	352954	genome.wustl.edu	37	7	99821544	99821544	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_178831.6	-1	validated	p.S124	0.993	327	0.3%	436	26.6%	11	18.1%	-	-	-	NULL
PILRA	29992	genome.wustl.edu	37	7	99971334	99971334	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_013439.2	+1	reviewed	p.L19	0.001	70	0%	96	14.6%	2	0%	-	-	-	NULL
MEPCE	56257	genome.wustl.edu	37	7	100028872	100028872	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_019606.4	+1	provisional	p.R411C	0.001	77	0%	161	22.4%	10	0%	benign(0)	tolerated(0.05)	neutral(0.345)	superfamily_SSF53335
MEPCE	56257	genome.wustl.edu	37	7	100029074	100029074	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_019606.4	+1	provisional	p.R478Q	0.005	58	0%	88	18.2%	15	0%	benign(0)	tolerated(0.46)	neutral(0.012)	superfamily_SSF53335
NYAP1	222950	genome.wustl.edu	37	7	100086034	100086034	+	Silent	SNP	T	T	C	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_173564.2	+1	predicted	p.S230	0.959	9	0.000	36	0.361	0	-	-	-	-	NULL
NYAP1	222950	genome.wustl.edu	37	7	100087265	100087265	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_173564.2	+1	predicted	p.G641W	1.000	15	0%	36	30.6%	0	-	probably_damaging(1)	deleterious(0)	deleterious(0.945)	NULL
AGFG2	3268	genome.wustl.edu	37	7	100151071	100151071	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_006076.4	+1	reviewed	p.L178P	1.000	175	0%	112	10.7%	9	0%	probably_damaging(1)	deleterious(0)	deleterious(0.945)	NULL
LRCH4	4034	genome.wustl.edu	37	7	100175853	100175853	+	Missense_Mutation	SNP	G	G	A	rs187288824	by1000genomes	TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_002319.3	-1	reviewed	p.R293W	0.730	160	0%	259	27.4%	15	6.6%	probably_damaging(1)	deleterious(0.04)	deleterious(0.849)	NULL
FBXO24	26261	genome.wustl.edu	37	7	100192819	100192819	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_033506.2	+1	reviewed	p.M349I	1.000	151	0%	171	23.4%	0	-	benign(0.091)	deleterious(0.02)	neutral(0.390)	superfamily_RCC1/BLIP-II
PCOLCE	5118	genome.wustl.edu	37	7	100205426	100205426	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_002593.3	+1	reviewed	p.K393N	0.999	230	0%	392	13.3%	328	0%	possibly_damaging(0.896)	deleterious(0.01)	deleterious(0.759)	superfamily_TIMP-like,HMMPfam_NTR,HMMSmart_SM00643
ACTL6B	51412	genome.wustl.edu	37	7	100245112	100245112	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_016188.4	-1	reviewed	p.E238D	1.000	51	0%	88	31.8%	0	-	benign(0.002)	tolerated(0.65)	neutral(0.003)	HMMPfam_Actin,HMMSmart_ACTIN,superfamily_SSF53067
GIGYF1	64599	genome.wustl.edu	37	7	100280070	100280070	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_022574.4	-1	validated	p.R879H	1.000	52	0%	79	24.1%	12	16.6%	unknown(0)	deleterious(0.02)	-	NULL
GIGYF1	64599	genome.wustl.edu	37	7	100285608	100285608	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_022574.4	-1	validated	p.N54S	1.000	115	0%	213	19.2%	2	0%	benign(0)	tolerated(0.44)	neutral(0.013)	NULL
POP7	10248	genome.wustl.edu	37	7	100304873	100304873	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_005837.2	+1	validated	p.K140N	1.000	208	0%	302	24.2%	121	33%	possibly_damaging(0.901)	deleterious(0.02)	deleterious(0.740)	NULL
ZAN	7455	genome.wustl.edu	37	7	100346036	100346036	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_003386.1	+1	reviewed	p.G398R	0.075	118	0%	156	23.7%	0	-	probably_damaging(0.999)	-	-	HMMPfam_MAM,HMMSmart_SM00137
ZAN	7455	genome.wustl.edu	37	7	100350626	100350626	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_003386.1	+1	reviewed	p.T966	0.000	1128	0%	1284	28.3%	0	-	-	-	-	NULL
ZAN	7455	genome.wustl.edu	37	7	100358080	100358080	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_003386.1	+1	reviewed	p.R1255W	0.961	348	0%	323	14.2%	0	-	probably_damaging(1)	-	-	HMMPfam_VWD,HMMSmart_SM00216
ZAN	7455	genome.wustl.edu	37	7	100383636	100383636	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_003386.1	+1	reviewed	p.S2284Y	0.015	35	0%	42	11.9%	0	-	unknown(0)	-	-	NULL
ZAN	7455	genome.wustl.edu	37	7	100388726	100388726	+	Missense_Mutation	SNP	G	G	A	rs148793581	by1000genomes	TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_003386.1	+1	reviewed	p.A2507T	0.348	95	1.1%	101	28.7%	0	-	unknown(0)	-	-	NULL
TRIP6	7205	genome.wustl.edu	37	7	100468036	100468036	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	ENST00000429658	+1	known	p.R34Q	1.000	60	0%	127	28.3%	45	6.6%	-	-	-	NULL
TRIP6	7205	genome.wustl.edu	37	7	100470335	100470335	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_003302.2	+1	reviewed	p.R423Q	1.000	190	0%	298	24.5%	167	8.3%	probably_damaging(0.999)	deleterious(0.01)	deleterious(0.896)	HMMPfam_LIM,HMMSmart_SM00132,superfamily_Glucocorticoid receptor-like (DNA-binding domain)
SRRT	51593	genome.wustl.edu	37	7	100484467	100484467	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_015908.5	+1	validated	p.E567K	1.000	117	0%	187	13.9%	65	9.2%	possibly_damaging(0.822)	deleterious(0.01)	deleterious(0.717)	NULL
UFSP1	402682	genome.wustl.edu	37	7	100486477	100486477	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001015072.3	-1	validated	p.R139H	0.000	191	0%	333	26.7%	9	0%	unknown(0)	tolerated(0.17)	-	NULL
ACHE	43	genome.wustl.edu	37	7	100490137	100490137	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_015831.2	-1	reviewed	p.Y457	0.982	26	0%	42	28.6%	2	0%	-	-	-	HMMPfam_COesterase,superfamily_SSF53474
MUC12	10071	genome.wustl.edu	37	7	100634368	100634368	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	ENST00000379442	+1	known	p.T318M	0.001	465	0%	467	10.7%	0	-	probably_damaging(0.995)	-	-	NULL
MUC12	10071	genome.wustl.edu	37	7	100634917	100634917	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	ENST00000379442	+1	known	p.S501Y	0.011	487	0%	474	13.9%	0	-	unknown(0)	-	-	NULL
MUC12	10071	genome.wustl.edu	37	7	100635141	100635141	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	ENST00000379442	+1	known	p.R576C	0.145	789	0.1%	654	16.2%	0	-	unknown(0)	-	-	NULL
MUC12	10071	genome.wustl.edu	37	7	100649792	100649792	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	ENST00000379442	+1	known	p.C5142	0.002	216	0%	186	24.7%	0	-	-	-	-	PatternScan_EGF_1,PatternScan_EGF_2
MUC12	10071	genome.wustl.edu	37	7	100658955	100658955	+	Missense_Mutation	SNP	A	A	C	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	ENST00000379442	+1	known	p.K5430T	0.378	100	0%	95	27.4%	0	-	unknown(0)	-	-	NULL
MUC17	140453	genome.wustl.edu	37	7	100663431	100663431	+	Silent	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001040105.1	+1	provisional	p.G5	0.004	70	0%	71	29.6%	0	-	-	-	-	NULL
MUC17	140453	genome.wustl.edu	37	7	100674975	100674975	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001040105.1	+1	provisional	p.S93L	0.000	190	0%	100	22%	0	-	unknown(0)	-	-	NULL
MUC17	140453	genome.wustl.edu	37	7	100676715	100676715	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001040105.1	+1	provisional	p.A673V	0.004	464	0.2%	207	12.6%	0	-	unknown(0)	-	-	NULL
MUC17	140453	genome.wustl.edu	37	7	100677503	100677503	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001040105.1	+1	provisional	p.V936I	0.000	400	0.3%	230	21.7%	0	-	unknown(0)	-	-	NULL
MUC17	140453	genome.wustl.edu	37	7	100680021	100680021	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001040105.1	+1	provisional	p.D1775G	0.000	299	0%	140	20%	0	-	unknown(0)	-	-	NULL
MUC17	140453	genome.wustl.edu	37	7	100684396	100684396	+	Silent	SNP	G	G	A	rs190193919	by1000genomes	TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001040105.1	+1	provisional	p.P3233	0.001	472	0%	171	12.9%	0	-	-	-	-	NULL
MUC17	140453	genome.wustl.edu	37	7	100685396	100685396	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001040105.1	+1	provisional	p.R3567C	0.000	219	0%	84	21.4%	0	-	probably_damaging(1)	-	-	NULL
MOGAT3	346606	genome.wustl.edu	37	7	100839208	100839208	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	ENST00000379423	-1	known	p.R281H	0.000	70	0%	108	20.4%	0	-	unknown(0)	-	-	NULL
MOGAT3	346606	genome.wustl.edu	37	7	100842039	100842039	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_178176.2	-1	provisional	p.T121A	0.000	98	0%	167	23.4%	0	-	benign(0.003)	tolerated(0.68)	neutral(0.002)	HMMPfam_DAGAT
PLOD3	8985	genome.wustl.edu	37	7	100854988	100854988	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	ENST00000421736	-1	known	p.S205L	0.622	15	0%	29	27.6%	36	11.1%	-	-	-	NULL
PLOD3	8985	genome.wustl.edu	37	7	100856429	100856429	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001084.4	-1	reviewed	p.D246N	1.000	50	0%	106	23.6%	19	10.5%	possibly_damaging(0.703)	tolerated(0.37)	neutral(0.272)	NULL
ZNHIT1	10467	genome.wustl.edu	37	7	100866799	100866799	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_006349.2	+1	validated	p.R79C	0.999	134	0%	246	22.8%	283	26.5%	probably_damaging(1)	deleterious(0)	deleterious(0.945)	NULL
CUX1	1523	genome.wustl.edu	37	7	101924139	101924139	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001913.2	+1	reviewed	p.A603V	1.000	76	0%	76	14.5%	78	0%	benign(0.35)	tolerated(0.65)	neutral(0.114)	HMMPfam_CASP_C
FBXL13	222235	genome.wustl.edu	37	7	102462523	102462523	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_145032.3	-1	validated	p.R661Q	1.000	280	0%	99	13.1%	1	100%	possibly_damaging(0.868)	tolerated(0.41)	neutral(0.352)	HMMSmart_SM00367,superfamily_RNI-like
ARMC10	83787	genome.wustl.edu	37	7	102738998	102738998	+	Nonstop_Mutation	SNP	T	T	C	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_031905.3	+1	validated	p.*344R	0.018	282	0%	241	20.3%	42	0%	-	-	-	NULL
NAPEPLD	222236	genome.wustl.edu	37	7	102760037	102760037	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001122838.1	-1	validated	p.A310T	1.000	116	0%	36	30.6%	3	66.6%	probably_damaging(0.997)	deleterious(0)	deleterious(0.911)	superfamily_SSF56281
PMPCB	9512	genome.wustl.edu	37	7	102952336	102952336	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_004279.2	+1	reviewed	p.R441I	1.000	288	0%	130	20.8%	124	16.9%	probably_damaging(0.991)	tolerated(0.06)	deleterious(0.766)	superfamily_Metalloenz_metal-bd
SLC26A5	375611	genome.wustl.edu	37	7	103014955	103014955	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_198999.2	-1	reviewed	p.A709V	1.000	150	0%	66	16.7%	0	-	probably_damaging(1)	deleterious(0)	deleterious(0.945)	HMMPfam_STAS,superfamily_Anti-sigma factor antagonist SpoIIaa
SLC26A5	375611	genome.wustl.edu	37	7	103017291	103017291	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_198999.2	-1	reviewed	p.D669Y	1.000	313	0%	127	16.5%	0	-	probably_damaging(0.98)	deleterious(0.02)	deleterious(0.807)	HMMPfam_STAS,superfamily_Anti-sigma factor antagonist SpoIIaa
SLC26A5	375611	genome.wustl.edu	37	7	103017297	103017297	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_198999.2	-1	reviewed	p.Y667H	1.000	315	0%	128	24.2%	0	-	probably_damaging(0.999)	deleterious(0)	deleterious(0.935)	HMMPfam_STAS,superfamily_Anti-sigma factor antagonist SpoIIaa
SLC26A5	375611	genome.wustl.edu	37	7	103038431	103038431	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_198999.2	-1	reviewed	p.F307L	0.995	285	0%	101	19.8%	0	-	benign(0)	tolerated(0.33)	neutral(0.024)	HMMPfam_Sulfate_transp
SLC26A5	375611	genome.wustl.edu	37	7	103051895	103051895	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_198999.2	-1	reviewed	p.S181Y	0.998	380	0%	52	15.4%	0	-	possibly_damaging(0.903)	deleterious(0)	deleterious(0.802)	NULL
SLC26A5	375611	genome.wustl.edu	37	7	103053550	103053550	+	Missense_Mutation	SNP	A	A	C	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_198999.2	-1	reviewed	p.F101C	1.000	169	0.6%	35	25.7%	0	-	probably_damaging(0.968)	deleterious(0)	deleterious(0.855)	NULL
RELN	5649	genome.wustl.edu	37	7	103179613	103179613	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_005045.3	-1	reviewed	p.Y2364	0.988	129	0%	36	19.4%	0	-	-	-	-	NULL
RELN	5649	genome.wustl.edu	37	7	103214566	103214566	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_005045.3	-1	reviewed	p.T1495M	1.000	167	0%	49	36.7%	0	-	probably_damaging(1)	deleterious(0)	deleterious(0.945)	NULL
ORC5	5001	genome.wustl.edu	37	7	103805683	103805683	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_002553.2	-1	reviewed	p.K346N	1.000	298	0%	93	16.1%	7	0%	benign(0.373)	deleterious(0.02)	deleterious(0.502)	NULL
MLL5	55904	genome.wustl.edu	37	7	104747098	104747098	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_018682.3	+1	reviewed	p.S909F	1.000	362	0%	134	25.4%	3	0%	unknown(0)	deleterious(0.04)	-	NULL
PUS7	54517	genome.wustl.edu	37	7	105105784	105105784	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_019042.3	-1	validated	p.D535N	1.000	376	0%	123	23.6%	1	100%	possibly_damaging(0.62)	tolerated(0.15)	neutral(0.457)	HMMPfam_TruD,superfamily_PsdUridine_synth_cat_dom
RINT1	60561	genome.wustl.edu	37	7	105187707	105187707	+	Nonsense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_021930.4	+1	validated	p.R256*	0.962	178	0%	84	17.9%	1	0%	-	-	-	NULL
CDHR3	222256	genome.wustl.edu	37	7	105660972	105660972	+	Missense_Mutation	SNP	C	C	T	rs144905888	by1000genomes	TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_152750.4	+1	validated	p.R603C	1.000	335	0%	220	22.3%	1	0%	probably_damaging(1)	deleterious(0)	deleterious(0.945)	HMMPfam_Cadherin,superfamily_Cadherin-like
PIK3CG	5294	genome.wustl.edu	37	7	106513170	106513170	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_002649.2	+1	reviewed	p.G692C	1.000	330	0%	460	20.4%	1	0%	probably_damaging(1)	deleterious(0)	deleterious(0.945)	HMMPfam_PI3Ka,HMMSmart_SM00145,superfamily_ARM repeat
COG5	10466	genome.wustl.edu	37	7	106844026	106844026	+	Nonsense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_006348.3	-1	validated	p.E840*	1.000	352	0%	95	26.3%	11	18.1%	-	-	-	NULL
COG5	10466	genome.wustl.edu	37	7	107002814	107002814	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_006348.3	-1	validated	p.R327H	1.000	326	0%	107	29.9%	2	0%	probably_damaging(1)	deleterious(0.01)	deleterious(0.905)	NULL
COG5	10466	genome.wustl.edu	37	7	107198435	107198435	+	Nonsense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_006348.3	-1	validated	p.E105*	1.000	346	0%	290	11.7%	2	0%	-	-	-	HMMPfam_COG5
DUS4L	11062	genome.wustl.edu	37	7	107211700	107211700	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_181581.1	+1	validated	p.T76I	1.000	251	0%	315	26.7%	1	0%	possibly_damaging(0.896)	deleterious(0)	deleterious(0.798)	HMMPfam_Dus,superfamily_FMN-linked oxidoreductases
SLC26A4	5172	genome.wustl.edu	37	7	107342278	107342278	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_000441.1	+1	reviewed	p.I604V	1.000	191	0%	45	37.8%	0	-	benign(0.003)	tolerated(0.48)	neutral(0.011)	HMMPfam_STAS,superfamily_STAS
SLC26A4	5172	genome.wustl.edu	37	7	107342440	107342440	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_000441.1	+1	reviewed	p.L658I	0.999	242	0.4%	77	18.2%	0	-	benign(0.141)	tolerated(0.35)	neutral(0.033)	HMMPfam_STAS,superfamily_STAS
SLC26A3	1811	genome.wustl.edu	37	7	107423767	107423767	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_000111.2	-1	reviewed	p.E334D	0.000	140	0%	50	26%	0	-	benign(0.023)	tolerated(0.16)	neutral(0.060)	HMMPfam_Sulfate_transp
SLC26A3	1811	genome.wustl.edu	37	7	107431670	107431670	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_000111.2	-1	reviewed	p.P131	0.994	318	0%	83	21.7%	0	-	-	-	-	NULL
LAMB1	3912	genome.wustl.edu	37	7	107591673	107591673	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_002291.2	-1	reviewed	p.R1130Q	1.000	46	0%	25	28%	41	0%	benign(0.068)	tolerated(0.09)	neutral(0.301)	PatternScan_EGF_LAM_1
LAMB1	3912	genome.wustl.edu	37	7	107605100	107605100	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_002291.2	-1	reviewed	p.R532Q	1.000	199	0%	72	25%	15	0%	probably_damaging(0.995)	deleterious(0.05)	deleterious(0.803)	HMMPfam_Laminin_EGF,HMMSmart_SM00180,PatternScan_EGF_1,superfamily_EGF/Laminin
LAMB1	3912	genome.wustl.edu	37	7	107613450	107613450	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_002291.2	-1	reviewed	p.A517T	1.000	307	0%	69	20.3%	15	0%	possibly_damaging(0.94)	deleterious(0.01)	deleterious(0.790)	HMMPfam_Laminin_EGF,HMMSmart_SM00180,superfamily_EGF/Laminin
LAMB4	22798	genome.wustl.edu	37	7	107746272	107746272	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_007356.2	-1	validated	p.P287H	0.963	146	0%	60	18.3%	0	-	possibly_damaging(0.774)	tolerated(0.08)	deleterious(0.589)	HMMPfam_Laminin_EGF,HMMSmart_SM00180,superfamily_EGF/Laminin
NRCAM	4897	genome.wustl.edu	37	7	107864197	107864197	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001037132.1	-1	reviewed	p.L288I	1.000	419	0.2%	124	12.1%	0	-	probably_damaging(0.998)	deleterious(0)	deleterious(0.919)	HMMSmart_SM00408,HMMSmart_SM00409,HMMPfam_I-set,superfamily_Immunoglobulin
DOCK4	9732	genome.wustl.edu	37	7	111375163	111375163	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_014705.3	-1	reviewed	p.S1780L	1.000	208	0%	164	24.4%	0	-	benign(0.026)	tolerated(0.3)	neutral(0.030)	NULL
DOCK4	9732	genome.wustl.edu	37	7	111409677	111409677	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_014705.3	-1	reviewed	p.L1237I	1.000	297	0%	73	24.7%	0	-	probably_damaging(0.999)	tolerated(0.14)	deleterious(0.740)	NULL
DOCK4	9732	genome.wustl.edu	37	7	111508093	111508093	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_014705.3	-1	reviewed	p.R743C	1.000	167	0.6%	61	11.5%	0	-	probably_damaging(0.999)	deleterious(0.05)	deleterious(0.836)	NULL
DOCK4	9732	genome.wustl.edu	37	7	111541816	111541816	+	Nonsense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_014705.3	-1	reviewed	p.E412*	1.000	293	0%	92	9.8%	1	0%	-	-	-	NULL
DOCK4	9732	genome.wustl.edu	37	7	111580247	111580247	+	Nonsense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_014705.3	-1	reviewed	p.R299*	0.999	308	0%	125	23.2%	0	-	-	-	-	NULL
DOCK4	9732	genome.wustl.edu	37	7	111584867	111584867	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	ENST00000445943	-1	known	p.S269L	0.119	400	0%	125	19.2%	0	-	-	-	-	NULL
ZNF277	11179	genome.wustl.edu	37	7	111979906	111979906	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_021994.2	+1	validated	p.H325	0.993	526	0.6%	102	16.7%	15	33.3%	-	-	-	HMMSmart_ZnF_C2H2
IFRD1	3475	genome.wustl.edu	37	7	112096080	112096080	+	Nonsense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001007245.1	+1	validated	p.G75*	1.000	219	0%	162	10.5%	14	0%	-	-	-	HMMPfam_IFRD,superfamily_ARM repeat
C7orf60	154743	genome.wustl.edu	37	7	112461939	112461939	+	Nonsense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_152556.2	-1	validated	p.R360*	1.000	152	0%	25	20%	1	0%	-	-	-	NULL
GPR85	54329	genome.wustl.edu	37	7	112724073	112724073	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_018970.6	-1	validated	p.A235V	1.000	116	0%	146	24%	1	0%	probably_damaging(0.999)	deleterious(0)	deleterious(0.935)	HMMPfam_7tm_1,superfamily_Family A G protein-coupled receptor-like
PPP1R3A	5506	genome.wustl.edu	37	7	113517950	113517950	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_002711.3	-1	reviewed	p.S1066Y	1.000	320	0.6%	107	20.6%	0	-	probably_damaging(1)	deleterious(0)	deleterious(0.945)	NULL
PPP1R3A	5506	genome.wustl.edu	37	7	113518709	113518709	+	Missense_Mutation	SNP	C	C	T	rs61756424		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_002711.3	-1	reviewed	p.R813H	0.856	294	0.3%	90	23.3%	0	-	benign(0.001)	tolerated(0.25)	neutral(0.037)	NULL
PPP1R3A	5506	genome.wustl.edu	37	7	113518873	113518873	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_002711.3	-1	reviewed	p.E758D	1.000	223	0%	78	25.6%	0	-	probably_damaging(0.999)	deleterious(0)	deleterious(0.935)	NULL
PPP1R3A	5506	genome.wustl.edu	37	7	113558447	113558447	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_002711.3	-1	reviewed	p.G202D	1.000	393	0.3%	91	20.9%	0	-	probably_damaging(1)	deleterious(0.01)	deleterious(0.905)	HMMPfam_CBM_21
FOXP2	93986	genome.wustl.edu	37	7	114284787	114284787	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_148898.2	+1	reviewed	p.G371E	1.000	231	0%	71	22.5%	0	-	probably_damaging(1)	deleterious(0)	deleterious(0.945)	HMMSmart_ZnF_C2H2
MET	4233	genome.wustl.edu	37	7	116339200	116339200	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001127500.1	+1	reviewed	p.R21M	0.977	167	0%	37	13.5%	1	0%	possibly_damaging(0.76)	deleterious(0.01)	deleterious(0.687)	NULL
MET	4233	genome.wustl.edu	37	7	116380017	116380017	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001127500.1	+1	reviewed	p.R469Q	1.000	615	0%	146	10.3%	0	-	probably_damaging(1)	deleterious(0.01)	deleterious(0.905)	HMMPfam_Sema,HMMSmart_Sema,superfamily_Sema
MET	4233	genome.wustl.edu	37	7	116414970	116414970	+	Nonsense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001127500.1	+1	reviewed	p.R1040*	1.000	166	0.6%	49	32.7%	2	0%	-	-	-	NULL
CAPZA2	830	genome.wustl.edu	37	7	116552168	116552168	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_006136.2	+1	reviewed	p.D211Y	1.000	460	0%	166	11.4%	26	0%	possibly_damaging(0.857)	deleterious(0)	deleterious(0.776)	HMMPfam_F-actin_cap_A,superfamily_Subunits of heterodimeric actin filament capping protein Capz
CAPZA2	830	genome.wustl.edu	37	7	116556175	116556175	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_006136.2	+1	reviewed	p.Q240R	1.000	110	0%	49	24.5%	51	7.8%	probably_damaging(0.978)	deleterious(0)	deleterious(0.865)	HMMPfam_F-actin_cap_A,superfamily_Subunits of heterodimeric actin filament capping protein Capz
ST7	7982	genome.wustl.edu	37	7	116830976	116830976	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_021908.2	+1	reviewed	p.P414S	1.000	123	0%	33	21.2%	9	55.5%	probably_damaging(1)	tolerated(0.06)	deleterious(0.823)	HMMPfam_ST7
CFTR	1080	genome.wustl.edu	37	7	117171088	117171088	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_000492.3	+1	reviewed	p.L137F	1.000	223	0%	41	19.5%	0	-	benign(0.172)	tolerated(0.08)	neutral(0.316)	HMMPfam_ABC_membrane,superfamily_Multidrug resistance ABC transporter MsbA N-terminal domain
CFTR	1080	genome.wustl.edu	37	7	117199682	117199682	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_000492.3	+1	reviewed	p.S519	1.000	192	0%	98	11.2%	0	-	-	-	-	HMMPfam_ABC_tran,HMMSmart_SM00382,superfamily_Multidrug resistance ABC transporter MsbA N-terminal domain,superfamily_P-loop containing nucleoside triphosphate hydrolases
CFTR	1080	genome.wustl.edu	37	7	117232461	117232461	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_000492.3	+1	reviewed	p.A747V	0.009	123	0.8%	159	17.6%	0	-	benign(0)	tolerated(0.18)	neutral(0.056)	NULL
CTTNBP2	83992	genome.wustl.edu	37	7	117386129	117386129	+	Missense_Mutation	SNP	A	A	C	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_033427.2	-1	reviewed	p.F1125V	1.000	370	0%	121	27.3%	1	0%	probably_damaging(0.998)	deleterious(0)	deleterious(0.919)	NULL
CTTNBP2	83992	genome.wustl.edu	37	7	117431991	117431991	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_033427.2	-1	reviewed	p.S420L	0.001	383	0%	298	29.2%	4	0%	benign(0.309)	tolerated(0.22)	neutral(0.139)	HMMPfam_CortBP2
NAA38	51691	genome.wustl.edu	37	7	117828458	117828458	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_016200.4	+1	reviewed	p.V67I	1.000	228	0.4%	282	12.1%	93	6.4%	benign(0.002)	tolerated(0.71)	neutral(0.002)	HMMPfam_LSM,HMMSmart_SM00651,superfamily_Sm-like ribonucleoproteins
KCND2	3751	genome.wustl.edu	37	7	120373048	120373048	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_012281.2	+1	reviewed	p.P403S	1.000	326	0%	51	17.6%	4	0%	probably_damaging(1)	deleterious(0.03)	deleterious(0.865)	HMMPfam_Ion_trans,superfamily_Voltage-gated potassium channels
KCND2	3751	genome.wustl.edu	37	7	120373049	120373049	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_012281.2	+1	reviewed	p.P403L	1.000	322	0.3%	48	18.8%	4	0%	probably_damaging(1)	deleterious(0)	deleterious(0.945)	HMMPfam_Ion_trans,superfamily_Voltage-gated potassium channels
KCND2	3751	genome.wustl.edu	37	7	120385851	120385851	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	ENST00000425288	+1	known	p.T81M	1.000	159	0%	34	32.4%	0	-	-	-	-	NULL
C7orf58	79974	genome.wustl.edu	37	7	120906783	120906783	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_024913.4	+1	validated	p.G852C	0.001	495	0%	95	27.4%	2	0%	possibly_damaging(0.802)	tolerated(0.06)	deleterious(0.625)	NULL
PTPRZ1	5803	genome.wustl.edu	37	7	121636477	121636477	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_002851.2	+1	reviewed	p.N324D	1.000	342	0%	116	22.4%	0	-	possibly_damaging(0.93)	deleterious(0)	deleterious(0.821)	HMMPfam_fn3,HMMSmart_SM00060,superfamily_Fibronectin type III
AASS	10157	genome.wustl.edu	37	7	121756943	121756943	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_005763.3	-1	reviewed	p.S252	0.155	191	0%	58	17.2%	0	-	-	-	-	HMMPfam_AlaDh_PNT_C
CADPS2	93664	genome.wustl.edu	37	7	122194694	122194694	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_017954.10	-1	reviewed	p.R462Q	1.000	639	0%	119	28.6%	1	0%	benign(0.362)	tolerated(0.08)	neutral(0.415)	NULL
RNF148	378925	genome.wustl.edu	37	7	122342131	122342131	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_198085.1	-1	validated	p.R225Q	0.054	274	0%	84	22.6%	0	-	benign(0.001)	tolerated(1)	-	NULL
TAS2R16	50833	genome.wustl.edu	37	7	122634901	122634901	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_016945.2	-1	reviewed	p.A263D	0.000	128	0%	57	19.3%	0	-	benign(0.054)	deleterious(0.01)	neutral(0.409)	HMMPfam_TAS2R
SLC13A1	6561	genome.wustl.edu	37	7	122755609	122755609	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_022444.3	-1	validated	p.S584L	0.005	206	0%	76	21.1%	0	-	possibly_damaging(0.598)	deleterious(0.04)	deleterious(0.556)	NULL
SLC13A1	6561	genome.wustl.edu	37	7	122759199	122759199	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_022444.3	-1	validated	p.S483Y	0.997	246	0%	65	21.5%	0	-	possibly_damaging(0.903)	tolerated(0.08)	deleterious(0.658)	HMMPfam_Na_sulph_symp
SLC13A1	6561	genome.wustl.edu	37	7	122765710	122765710	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_022444.3	-1	validated	p.D385Y	1.000	402	0%	82	25.6%	0	-	probably_damaging(1)	deleterious(0)	deleterious(0.945)	HMMPfam_Na_sulph_symp
IQUB	154865	genome.wustl.edu	37	7	123092926	123092926	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_178827.4	-1	validated	p.K749N	1.000	399	0%	352	15.3%	1	0%	probably_damaging(0.993)	deleterious(0.01)	deleterious(0.856)	NULL
IQUB	154865	genome.wustl.edu	37	7	123149983	123149983	+	Silent	SNP	T	T	G	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_178827.4	-1	validated	p.P168	0.060	288	0%	72	12.5%	0	-	-	-	-	HMMPfam_DUF2021,superfamily_Ubiquitin-like
NDUFA5	4698	genome.wustl.edu	37	7	123197829	123197829	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_005000.2	-1	reviewed	p.K7N	1.000	118	0.8%	76	10.5%	23	0%	probably_damaging(0.96)	deleterious(0.02)	deleterious(0.786)	NULL
ASB15	142685	genome.wustl.edu	37	7	123276892	123276892	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_080928.3	+1	validated	p.R542W	1.000	164	0.6%	138	16.7%	0	-	probably_damaging(0.999)	deleterious(0)	deleterious(0.935)	HMMPfam_SOCS_box,HMMSmart_SM00253
LMOD2	442721	genome.wustl.edu	37	7	123302206	123302206	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_207163.1	+1	validated	p.A189V	0.948	104	0%	63	28.6%	0	-	probably_damaging(0.996)	tolerated(0.18)	deleterious(0.518)	HMMPfam_Tropomodulin
LMOD2	442721	genome.wustl.edu	37	7	123302465	123302465	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_207163.1	+1	validated	p.V275	0.373	66	0%	30	16.7%	1	0%	-	-	-	HMMPfam_Tropomodulin,superfamily_RNI-like
WASL	8976	genome.wustl.edu	37	7	123324617	123324617	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_003941.2	-1	reviewed	p.D492N	1.000	384	0%	197	10.7%	7	0%	unknown(0)	-	-	superfamily_WASP_C
WASL	8976	genome.wustl.edu	37	7	123329095	123329095	+	Splice_Site	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_003941.2	-1	reviewed	e10+1	1.000	131	0%	84	17.9%	0	-	-	-	-	-
WASL	8976	genome.wustl.edu	37	7	123332445	123332445	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_003941.2	-1	reviewed	p.D435N	1.000	113	0.9%	84	23.8%	16	12.5%	unknown(0)	tolerated(0.57)	-	HMMPfam_WH2,HMMSmart_WH2,superfamily_WASP_C
WASL	8976	genome.wustl.edu	37	7	123332523	123332523	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_003941.2	-1	reviewed	p.L409I	1.000	166	0%	124	12.9%	5	20%	unknown(0)	deleterious(0.05)	-	HMMPfam_WH2,HMMSmart_WH2,superfamily_WASP_C
WASL	8976	genome.wustl.edu	37	7	123334774	123334774	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_003941.2	-1	reviewed	p.R274M	1.000	321	0%	263	25.5%	5	20%	probably_damaging(1)	deleterious(0.01)	deleterious(0.905)	superfamily_WASP_C
HYAL4	23553	genome.wustl.edu	37	7	123508871	123508871	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_012269.2	+1	reviewed	p.D182N	0.094	154	0%	51	19.6%	0	-	benign(0.086)	tolerated(0.08)	neutral(0.306)	HMMPfam_Glyco_hydro_56,superfamily_Glyco_hydro_cat
SPAM1	6677	genome.wustl.edu	37	7	123593694	123593694	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_003117.4	+1	reviewed	p.V24F	0.005	322	0%	66	28.8%	0	-	probably_damaging(0.987)	deleterious(0.01)	deleterious(0.842)	NULL
SPAM1	6677	genome.wustl.edu	37	7	123599832	123599832	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_003117.4	+1	reviewed	p.A447S	0.000	515	0%	126	9.5%	0	-	benign(0.039)	tolerated(0.46)	neutral(0.014)	NULL
GPR37	2861	genome.wustl.edu	37	7	124386598	124386598	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_005302.2	-1	provisional	p.S608Y	0.308	187	0%	67	23.9%	2	50%	probably_damaging(0.986)	deleterious(0)	deleterious(0.879)	NULL
GPR37	2861	genome.wustl.edu	37	7	124386666	124386666	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_005302.2	-1	provisional	p.N585	0.994	267	0%	85	10.6%	3	0%	-	-	-	superfamily_Family A G protein-coupled receptor-like
GRM8	2918	genome.wustl.edu	37	7	126086359	126086359	+	Missense_Mutation	SNP	A	A	C	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_000845.2	-1	reviewed	p.L833R	1.000	166	0%	34	35.3%	1	0%	probably_damaging(1)	deleterious(0)	deleterious(0.945)	HMMPfam_7tm_3
GRM8	2918	genome.wustl.edu	37	7	126883170	126883170	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_000845.2	-1	reviewed	p.R30I	1.000	93	0%	61	16.4%	0	-	benign(0.001)	tolerated(0.06)	neutral(0.323)	NULL
ZNF800	168850	genome.wustl.edu	37	7	127014150	127014150	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	ENST00000265827	-1	known	p.D414Y	1.000	278	0%	131	32.8%	3	0%	benign(0.345)	deleterious(0.04)	neutral(0.458)	NULL
ZNF800	168850	genome.wustl.edu	37	7	127017351	127017351	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	ENST00000265827	-1	known	p.D64Y	1.000	242	0%	94	17%	0	-	probably_damaging(0.991)	deleterious(0)	deleterious(0.889)	NULL
SND1	27044	genome.wustl.edu	37	7	127344974	127344974	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_014390.2	+1	validated	p.A308T	0.982	200	0%	40	30%	29	3.4%	benign(0.002)	tolerated(0.17)	neutral(0.059)	HMMPfam_SNase,HMMSmart_SNc,superfamily_Staphylococal_nuclease_OB-fold
LRRC4	64101	genome.wustl.edu	37	7	127670387	127670387	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_022143.4	-1	validated	p.V103I	1.000	271	0%	457	11.8%	2	0%	benign(0.001)	tolerated(1)	-	HMMPfam_LRR_1,HMMSmart_SM00369,superfamily_L domain-like
LEP	3952	genome.wustl.edu	37	7	127894591	127894591	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_000230.2	+1	reviewed	p.N93	0.000	174	0%	87	27.6%	0	-	-	-	-	HMMPfam_Leptin,superfamily_4-helical cytokines
RBM28	55131	genome.wustl.edu	37	7	127950888	127950888	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_018077.2	-1	reviewed	p.A748S	0.162	472	0%	165	30.3%	12	8.3%	benign(0.004)	tolerated(0.12)	neutral(0.261)	NULL
RBM28	55131	genome.wustl.edu	37	7	127978385	127978385	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_018077.2	-1	reviewed	p.R154C	1.000	336	0%	169	26.6%	3	0%	probably_damaging(1)	tolerated(0.14)	deleterious(0.750)	HMMPfam_RRM_1,HMMSmart_RRM,superfamily_SSF54928
PRRT4	401399	genome.wustl.edu	37	7	127998851	127998851	+	Missense_Mutation	SNP	A	A	C	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001114726.2	-1	validated	p.F254C	0.994	106	0%	180	10.6%	0	-	possibly_damaging(0.658)	deleterious(0.04)	deleterious(0.582)	NULL
IMPDH1	3614	genome.wustl.edu	37	7	128034949	128034949	+	Missense_Mutation	SNP	T	T	G	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_000883.3	-1	reviewed	p.Y515S	1.000	115	0%	138	29%	16	0%	probably_damaging(0.998)	deleterious(0)	deleterious(0.919)	HMMPfam_IMPDH,superfamily_SSF51412
METTL2B	55798	genome.wustl.edu	37	7	128119264	128119264	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_018396.2	+1	reviewed	p.H85	0.834	188	0%	119	26.9%	3	0%	-	-	-	superfamily_S-adenosyl-L-methionine-dependent methyltransferases
OPN1SW	611	genome.wustl.edu	37	7	128413835	128413835	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001708.2	-1	reviewed	p.Y265	0.514	98	0%	38	13.2%	0	-	-	-	-	HMMPfam_7tm_1,superfamily_Family A G protein-coupled receptor-like
OPN1SW	611	genome.wustl.edu	37	7	128414615	128414615	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001708.2	-1	reviewed	p.C208	1.000	293	0%	83	21.7%	0	-	-	-	-	HMMPfam_7tm_1,superfamily_Family A G protein-coupled receptor-like
OPN1SW	611	genome.wustl.edu	37	7	128415786	128415786	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001708.2	-1	reviewed	p.P20L	1.000	92	0%	41	31.7%	0	-	probably_damaging(0.999)	deleterious(0)	deleterious(0.935)	superfamily_Family A G protein-coupled receptor-like
CCDC136	64753	genome.wustl.edu	37	7	128452170	128452170	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_022742.3	+1	validated	p.S782N	0.695	141	0%	106	14.2%	3	0%	possibly_damaging(0.713)	deleterious(0.02)	deleterious(0.641)	superfamily_Spectrin repeat
FLNC	2318	genome.wustl.edu	37	7	128478081	128478081	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001458.4	+1	reviewed	p.A337D	1.000	182	0%	334	15%	5	0%	benign(0.004)	deleterious(0)	neutral(0.445)	HMMSmart_SM00557,superfamily_E set domains,HMMPfam_Filamin
FLNC	2318	genome.wustl.edu	37	7	128478354	128478354	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001458.4	+1	reviewed	p.R361C	0.999	158	0%	257	21.4%	3	0%	possibly_damaging(0.88)	deleterious(0)	deleterious(0.788)	HMMSmart_SM00557,superfamily_E set domains,HMMPfam_Filamin
FLNC	2318	genome.wustl.edu	37	7	128478355	128478355	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001458.4	+1	reviewed	p.R361H	0.999	158	0%	256	15.2%	3	0%	benign(0.003)	deleterious(0)	neutral(0.445)	HMMSmart_SM00557,superfamily_E set domains,HMMPfam_Filamin
FLNC	2318	genome.wustl.edu	37	7	128482916	128482916	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001458.4	+1	reviewed	p.D820N	1.000	43	0%	79	11.4%	5	0%	benign(0.011)	tolerated(0.06)	neutral(0.323)	HMMSmart_SM00557,superfamily_E set domains,HMMPfam_Filamin
FLNC	2318	genome.wustl.edu	37	7	128483292	128483292	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001458.4	+1	reviewed	p.A854T	0.962	91	0%	111	28.8%	9	0%	benign(0)	tolerated(0.86)	neutral(0.001)	HMMSmart_SM00557,superfamily_E set domains,HMMPfam_Filamin
FLNC	2318	genome.wustl.edu	37	7	128484714	128484714	+	Silent	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001458.4	+1	reviewed	p.V1065	0.711	28	0%	82	11%	5	0%	-	-	-	HMMSmart_SM00557,superfamily_E set domains,HMMPfam_Filamin
FLNC	2318	genome.wustl.edu	37	7	128485212	128485212	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001458.4	+1	reviewed	p.G1231	0.785	34	0%	72	12.5%	16	0%	-	-	-	HMMSmart_SM00557,superfamily_E set domains,HMMPfam_Filamin
FLNC	2318	genome.wustl.edu	37	7	128488042	128488042	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001458.4	+1	reviewed	p.T1500	1.000	19	0%	40	35%	12	0%	-	-	-	HMMSmart_SM00557,superfamily_E set domains,HMMPfam_Filamin
FLNC	2318	genome.wustl.edu	37	7	128490437	128490437	+	Splice_Site	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001458.4	+1	reviewed	e32-1	1.000	77	0%	125	33.6%	0	-	-	-	-	-
KCP	375616	genome.wustl.edu	37	7	128526516	128526516	+	Splice_Site	SNP	A	A	G	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	ENST00000297801	-1	known	NULL	0.992	29	0%	47	14.9%	0	-	-	-	-	-
IRF5	3663	genome.wustl.edu	37	7	128585974	128585974	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001098629.1	+1	reviewed	p.R91C	1.000	51	0%	93	29%	0	-	probably_damaging(1)	deleterious(0)	deleterious(0.945)	HMMPfam_IRF,HMMSmart_IRF,superfamily_SSF46785
IRF5	3663	genome.wustl.edu	37	7	128588357	128588357	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001098629.1	+1	reviewed	p.R425Q	0.999	221	0%	354	23.2%	2	0%	possibly_damaging(0.574)	tolerated(0.23)	neutral(0.239)	superfamily_SMAD_FHA,HMMPfam_IRF-3
TNPO3	23534	genome.wustl.edu	37	7	128597313	128597313	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_012470.2	-1	validated	p.R923Q	1.000	270	0%	178	10.7%	25	20%	probably_damaging(1)	deleterious(0)	deleterious(0.945)	NULL
SMO	6608	genome.wustl.edu	37	7	128850837	128850837	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_005631.3	+1	provisional	p.R562W	0.984	77	0%	76	26.3%	10	10%	probably_damaging(1)	deleterious(0)	deleterious(0.945)	NULL
SMO	6608	genome.wustl.edu	37	7	128851580	128851580	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_005631.3	+1	provisional	p.Q635H	1.000	85	0%	99	13.1%	11	0%	possibly_damaging(0.931)	tolerated(0.08)	deleterious(0.677)	NULL
FAM40B	57464	genome.wustl.edu	37	7	129122702	129122702	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_020704.2	+1	validated	p.S690L	1.000	195	0.5%	177	20.3%	1	0%	probably_damaging(1)	deleterious(0)	deleterious(0.945)	NULL
NRF1	4899	genome.wustl.edu	37	7	129367163	129367163	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001040110.1	+1	reviewed	p.A436T	1.000	73	0%	31	16.1%	3	0%	benign(0.355)	deleterious(0.01)	deleterious(0.518)	NULL
ZC3HC1	51530	genome.wustl.edu	37	7	129666066	129666066	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_016478.3	-1	validated	p.I236	0.431	323	0%	138	23.9%	5	0%	-	-	-	NULL
CPA4	51200	genome.wustl.edu	37	7	129939218	129939218	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_016352.3	+1	reviewed	p.Y87H	0.996	184	0%	76	10.5%	0	-	possibly_damaging(0.884)	tolerated(0.11)	deleterious(0.617)	HMMPfam_Propep_M14,superfamily_Protease propeptides/inhibitors
CPA5	93979	genome.wustl.edu	37	7	129989918	129989918	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001127441.1	+1	validated	p.L101F	0.349	119	0%	51	33.3%	0	-	possibly_damaging(0.951)	deleterious(0.01)	deleterious(0.800)	HMMPfam_Propep_M14,superfamily_Protease propeptides/inhibitors
CPA1	1357	genome.wustl.edu	37	7	130024381	130024381	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001868.2	+1	reviewed	p.R234H	0.943	56	0%	71	19.7%	0	-	probably_damaging(1)	deleterious(0)	deleterious(0.945)	HMMPfam_Peptidase_M14,HMMSmart_Zn_pept,superfamily_SSF53187
KLF14	136259	genome.wustl.edu	37	7	130418231	130418231	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_138693.2	-1	reviewed	p.S210	1.000	37	0%	88	27.3%	1	0%	-	-	-	HMMPfam_zf-C2H2,PatternScan_ZINC_FINGER_C2H2_1,HMMSmart_SM00355,superfamily_C2H2 and C2HC zinc fingers
LOC647030	647030	genome.wustl.edu	37	7	131347336	131347336	+	RNA	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	XR_017470.3	-1	model	NULL	0.997	124	0.8%	32	15.6%	0	-	-	-	-	-
PLXNA4	91584	genome.wustl.edu	37	7	131832744	131832744	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_020911.1	-1	validated	p.S1593	0.010	166	0%	83	30.1%	0	-	-	-	-	superfamily_GTPase activation domain GAP,HMMPfam_Plexin_cytopl
ENSG00000183470	0	genome.wustl.edu	37	7	132412462	132412462	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	ENST00000332558	+1	known	p.S105Y	0.022	362	0%	97	22.7%	0	-	unknown(0)	-	-	PatternScan_WD_REPEATS_1
CHCHD3	54927	genome.wustl.edu	37	7	132481280	132481280	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_017812.2	-1	provisional	p.R195C	1.000	311	0%	59	28.8%	20	10%	benign(0.004)	deleterious(0)	neutral(0.445)	HMMPfam_CHCH
ENSG00000232856	0	genome.wustl.edu	37	7	132719619	132719619	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	ENST00000448615	-1	known	p.K123N	1.000	135	0%	39	10.3%	2225	0%	probably_damaging(0.998)	deleterious(0)	deleterious(0.919)	HMMPfam_EF1G,superfamily_eEF1-gamma domain
EXOC4	60412	genome.wustl.edu	37	7	133059738	133059738	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_021807.3	+1	reviewed	p.K388	1.000	222	0%	39	15.4%	2	0%	-	-	-	NULL
EXOC4	60412	genome.wustl.edu	37	7	133164875	133164875	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_021807.3	+1	reviewed	p.R467Q	1.000	328	0%	55	29.1%	0	-	benign(0.101)	tolerated(0.59)	neutral(0.012)	NULL
EXOC4	60412	genome.wustl.edu	37	7	133602378	133602378	+	Silent	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_021807.3	+1	reviewed	p.S638	0.994	241	0%	68	30.9%	2	0%	-	-	-	NULL
LRGUK	136332	genome.wustl.edu	37	7	133906585	133906585	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_144648.1	+1	provisional	p.S633L	0.000	261	0%	85	40%	0	-	benign(0.002)	tolerated(1)	-	NULL
AKR1B10	57016	genome.wustl.edu	37	7	134221506	134221506	+	Silent	SNP	T	T	C	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_020299.4	+1	reviewed	p.Y178	0.997	234	0%	51	15.7%	0	-	-	-	-	HMMPfam_Aldo_ket_red,superfamily_NAD(P)-linked oxidoreductase
BPGM	669	genome.wustl.edu	37	7	134346662	134346662	+	Nonsense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001724.4	+1	reviewed	p.E135*	1.000	91	0%	25	16%	8	12.5%	-	-	-	HMMPfam_PGAM,superfamily_Phosphoglycerate mutase-like
CALD1	800	genome.wustl.edu	37	7	134618509	134618509	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_033138.3	+1	reviewed	p.R330M	0.067	1056	0.1%	1174	21.8%	53	0%	unknown(0)	deleterious(0)	-	HMMPfam_Caldesmon
AGBL3	340351	genome.wustl.edu	37	7	134800226	134800226	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_178563.3	+1	provisional	p.S735	0.996	275	0%	68	19.1%	0	-	-	-	-	NULL
C7orf49	78996	genome.wustl.edu	37	7	134851599	134851599	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_024033.2	-1	validated	p.E80K	0.033	47	0%	80	31.2%	8	50%	probably_damaging(0.981)	deleterious(0)	deleterious(0.870)	NULL
NUP205	23165	genome.wustl.edu	37	7	135298965	135298965	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_015135.2	+1	validated	p.R1085I	1.000	541	0%	197	13.7%	1	0%	probably_damaging(1)	deleterious(0)	deleterious(0.945)	NULL
NUP205	23165	genome.wustl.edu	37	7	135333240	135333240	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_015135.2	+1	validated	p.R1992Q	1.000	297	0%	113	14.2%	54	31.4%	probably_damaging(1)	tolerated(0.07)	deleterious(0.819)	NULL
SLC13A4	26266	genome.wustl.edu	37	7	135391034	135391034	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_012450.2	-1	validated	p.F127S	1.000	114	0%	76	32.9%	0	-	probably_damaging(0.994)	deleterious(0)	deleterious(0.897)	HMMPfam_Na_sulph_symp
PTN	5764	genome.wustl.edu	37	7	136936137	136936137	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_002825.5	-1	validated	p.A97	0.977	279	0%	91	12.1%	36	0%	-	-	-	HMMSmart_PTN,HMMPfam_PTN_MK_C,PatternScan_PTN_MK_2
DGKI	9162	genome.wustl.edu	37	7	137206631	137206631	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_004717.2	-1	reviewed	p.K743N	1.000	318	0.3%	34	23.5%	0	-	probably_damaging(0.998)	deleterious(0.01)	deleterious(0.880)	NULL
DGKI	9162	genome.wustl.edu	37	7	137257534	137257534	+	Silent	SNP	A	A	G	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_004717.2	-1	reviewed	p.C604	1.000	286	0%	197	28.9%	0	-	-	-	-	HMMPfam_DAGK_acc,HMMSmart_DAGKa
DGKI	9162	genome.wustl.edu	37	7	137270080	137270080	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_004717.2	-1	reviewed	p.E480K	1.000	246	0%	70	25.7%	1	0%	probably_damaging(1)	deleterious(0.01)	deleterious(0.905)	HMMPfam_DAGK_cat,HMMSmart_DAGKc
DGKI	9162	genome.wustl.edu	37	7	137531211	137531211	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_004717.2	-1	reviewed	p.Y133C	1.000	31	0%	34	41.2%	0	-	probably_damaging(0.976)	deleterious(0.02)	deleterious(0.801)	NULL
CREB3L2	64764	genome.wustl.edu	37	7	137586133	137586133	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_194071.2	-1	validated	p.R337L	1.000	277	0%	144	27.1%	3	0%	probably_damaging(0.996)	deleterious(0.03)	deleterious(0.826)	HMMSmart_SM00338,HMMPfam_bZIP_1
CREB3L2	64764	genome.wustl.edu	37	7	137597637	137597637	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	ENST00000452463	-1	known	p.R228I	0.000	42	0%	33	21.2%	1	100%	unknown(0)	-	-	NULL
CREB3L2	64764	genome.wustl.edu	37	7	137612936	137612936	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	ENST00000420629	-1	known	p.R27H	0.735	117	0%	30	20%	7	28.5%	unknown(0)	-	-	NULL
AKR1D1	6718	genome.wustl.edu	37	7	137782647	137782647	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_005989.2	+1	validated	p.G138	0.140	420	0%	99	25.3%	0	-	-	-	-	HMMPfam_Aldo_ket_red,superfamily_Aldo/ket_red
AKR1D1	6718	genome.wustl.edu	37	7	137782672	137782672	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_005989.2	+1	validated	p.L147M	0.994	448	0%	120	20.8%	0	-	probably_damaging(0.997)	deleterious(0.02)	deleterious(0.849)	HMMPfam_Aldo_ket_red,superfamily_Aldo/ket_red
AKR1D1	6718	genome.wustl.edu	37	7	137792320	137792320	+	Missense_Mutation	SNP	T	T	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_005989.2	+1	validated	p.N283K	1.000	214	0%	88	20.5%	0	-	probably_damaging(1)	deleterious(0)	deleterious(0.945)	HMMPfam_Aldo_ket_red,superfamily_Aldo/ket_red,PatternScan_ALDOKETO_REDUCTASE_3
TRIM24	8805	genome.wustl.edu	37	7	138239477	138239477	+	Silent	SNP	A	A	G	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_015905.2	+1	reviewed	p.P432	1.000	123	0%	26	19.2%	3	0%	-	-	-	NULL
TRIM24	8805	genome.wustl.edu	37	7	138261153	138261153	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_015905.2	+1	reviewed	p.R684C	1.000	417	0%	155	14.2%	4	25%	probably_damaging(1)	deleterious(0)	deleterious(0.945)	NULL
SVOPL	136306	genome.wustl.edu	37	7	138281212	138281212	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001139456.1	-1	validated	p.A473T	1.000	175	0%	40	40%	1	0%	probably_damaging(0.968)	tolerated(0.07)	deleterious(0.729)	superfamily_MFS general substrate transporter
SVOPL	136306	genome.wustl.edu	37	7	138312915	138312915	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001139456.1	-1	validated	p.G353S	0.854	124	0%	77	35.1%	0	-	probably_damaging(1)	tolerated(0.53)	deleterious(0.507)	superfamily_MFS general substrate transporter
KIAA1549	57670	genome.wustl.edu	37	7	138554475	138554475	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_020910.2	-1	validated	p.I1478	0.986	27	0%	48	18.8%	2	0%	-	-	-	NULL
ZC3HAV1	56829	genome.wustl.edu	37	7	138738720	138738720	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_020119.3	-1	reviewed	p.K770R	0.001	484	0%	192	34.4%	0	-	benign(0.001)	tolerated(0.66)	neutral(0.003)	HMMPfam_PARP,superfamily_ADP-ribosylation
ZC3HAV1	56829	genome.wustl.edu	37	7	138763369	138763369	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_020119.3	-1	reviewed	p.S501Y	0.006	262	0%	95	28.4%	2	50%	probably_damaging(0.996)	deleterious(0.01)	deleterious(0.867)	NULL
HIPK2	28996	genome.wustl.edu	37	7	139305272	139305272	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	ENST00000263551	-1	known	p.R553C	1.000	501	0%	206	24.8%	3	0%	benign(0.33)	deleterious(0.04)	neutral(0.452)	NULL
HIPK2	28996	genome.wustl.edu	37	7	139415824	139415824	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	ENST00000263551	-1	known	p.R337I	0.971	256	0%	119	26.1%	3	0%	probably_damaging(0.999)	deleterious(0)	deleterious(0.935)	HMMSmart_SM00219,HMMSmart_SM00220,superfamily_Protein kinase-like (PK-like),HMMPfam_Pkinase
HIPK2	28996	genome.wustl.edu	37	7	139416485	139416485	+	Nonsense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	ENST00000263551	-1	known	p.R117*	1.000	286	0%	186	27.4%	1	0%	-	-	-	NULL
PARP12	64761	genome.wustl.edu	37	7	139727145	139727145	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_022750.2	-1	provisional	p.T520M	0.998	224	0%	105	15.2%	7	42.8%	probably_damaging(1)	deleterious(0)	deleterious(0.945)	HMMPfam_PARP,superfamily_ADP-ribosylation
MKRN1	23608	genome.wustl.edu	37	7	140159651	140159651	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_013446.3	-1	validated	p.L134I	0.934	420	0%	232	12.1%	17	0%	possibly_damaging(0.879)	deleterious(0.04)	deleterious(0.692)	NULL
DENND2A	27147	genome.wustl.edu	37	7	140221700	140221700	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_015689.3	-1	validated	p.R956W	1.000	74	0%	40	10%	63	0%	probably_damaging(0.987)	deleterious(0.01)	deleterious(0.842)	HMMPfam_dDENN,HMMSmart_SM00801
DENND2A	27147	genome.wustl.edu	37	7	140255495	140255495	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_015689.3	-1	validated	p.R660C	1.000	168	0%	84	20.2%	28	0%	possibly_damaging(0.806)	tolerated(0.1)	deleterious(0.590)	HMMPfam_DENN,HMMSmart_SM00799
DENND2A	27147	genome.wustl.edu	37	7	140257953	140257953	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_015689.3	-1	validated	p.R650Q	1.000	138	0%	51	31.4%	27	0%	probably_damaging(0.999)	deleterious(0.01)	deleterious(0.896)	HMMPfam_uDENN,HMMSmart_SM00800
KIAA1147	57189	genome.wustl.edu	37	7	141385359	141385359	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001080392.1	-1	provisional	p.A149V	0.996	132	0%	66	18.2%	1	100%	possibly_damaging(0.568)	tolerated(0.37)	neutral(0.213)	HMMPfam_DUF2347
WEE2	494551	genome.wustl.edu	37	7	141418950	141418950	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001105558.1	+1	validated	p.E222K	0.974	582	0%	164	22%	0	-	probably_damaging(0.975)	deleterious(0.01)	deleterious(0.823)	superfamily_Kinase_like,PatternScan_PROTEIN_KINASE_ATP,HMMPfam_Pkinase
TAS2R5	54429	genome.wustl.edu	37	7	141491053	141491053	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_018980.2	+1	reviewed	p.G298S	0.000	149	0%	80	11.3%	0	-	probably_damaging(0.957)	deleterious(0)	deleterious(0.845)	NULL
PRSS37	136242	genome.wustl.edu	37	7	141536260	141536260	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001008270.2	-1	validated	p.V215I	0.193	260	0%	111	19.8%	0	-	benign(0.018)	tolerated(0.19)	neutral(0.050)	HMMSmart_Tryp_SPc,superfamily_Pept_Ser_Cys
PRSS37	136242	genome.wustl.edu	37	7	141537852	141537852	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001008270.2	-1	validated	p.I80V	0.639	300	0%	151	12.6%	0	-	possibly_damaging(0.875)	tolerated(0.57)	neutral(0.346)	HMMPfam_Trypsin,HMMSmart_Tryp_SPc,superfamily_Pept_Ser_Cys
CLEC5A	23601	genome.wustl.edu	37	7	141646037	141646037	+	Frame_Shift_Del	DEL	C	C	-	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_013252.2	-1	reviewed	p.G19fs	0.991	-	-	-	-	-	-	-	-	-	NULL
TAS2R38	5726	genome.wustl.edu	37	7	141672725	141672725	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_176817.4	-1	reviewed	p.F255L	0.214	83	0%	46	15.2%	0	-	benign(0)	tolerated(1)	-	HMMPfam_TAS2R,superfamily_SSF81321
TAS2R38	5726	genome.wustl.edu	37	7	141673349	141673349	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_176817.4	-1	reviewed	p.R47	0.062	125	0%	58	22.4%	0	-	-	-	-	HMMPfam_TAS2R,superfamily_SSF81321
MGAM	8972	genome.wustl.edu	37	7	141721509	141721509	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_004668.2	+1	reviewed	p.V228L	1.000	346	0%	59	15.3%	0	-	benign(0.047)	tolerated(0.07)	neutral(0.322)	NULL
MGAM	8972	genome.wustl.edu	37	7	141724853	141724853	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_004668.2	+1	reviewed	p.G296R	0.769	515	0%	104	12.5%	0	-	possibly_damaging(0.903)	tolerated(0.25)	neutral(0.395)	NULL
MGAM	8972	genome.wustl.edu	37	7	141727517	141727517	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_004668.2	+1	reviewed	p.R401	0.140	166	0%	31	12.9%	0	-	-	-	-	HMMPfam_Glyco_hydro_31
MGAM	8972	genome.wustl.edu	37	7	141762504	141762504	+	Splice_Site	SNP	T	T	C	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_004668.2	+1	reviewed	e34+2	1.000	379	0%	112	17.9%	0	-	-	-	-	-
MGAM	8972	genome.wustl.edu	37	7	141773887	141773887	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	ENST00000475668	+1	known	p.R1731Q	0.997	185	0%	30	30%	0	-	probably_damaging(1)	deleterious(0.01)	deleterious(0.905)	NULL
MGAM	8972	genome.wustl.edu	37	7	141781863	141781863	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	ENST00000475668	+1	known	p.G2009	1.000	316	0%	89	27%	0	-	-	-	-	NULL
MGAM	8972	genome.wustl.edu	37	7	141805625	141805625	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_004668.2	+1	reviewed	p.I1836	0.000	296	0%	99	16.2%	0	-	-	-	-	NULL
TRBV6-1	28606	genome.wustl.edu	37	7	142028186	142028186	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	ENST00000390353	+1	known	p.I3	0.000	237	0.4%	84	22.6%	3	0%	-	-	-	NULL
TRBV7-8	28590	genome.wustl.edu	37	7	142099554	142099554	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	ENST00000390359	-1	known	p.R83H	0.000	161	0%	46	34.8%	3	0%	probably_damaging(1)	deleterious(0)	deleterious(0.945)	HMMSmart_IG,HMMPfam_V-set,superfamily_SSF48726
TRBV6-4	28603	genome.wustl.edu	37	7	142251103	142251103	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	ENST00000390360	-1	known	p.S12Y	0.000	158	0%	49	12.2%	0	-	benign(0)	tolerated(0.28)	neutral(0.032)	NULL
TRBV19	28568	genome.wustl.edu	37	7	142326978	142326978	+	Silent	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	ENST00000390393	+1	known	p.S92	0.000	84	0%	36	16.7%	6	0%	-	-	-	HMMSmart_SM00406,HMMPfam_V-set,superfamily_Immunoglobulin
TRBV20-1	28567	genome.wustl.edu	37	7	142334748	142334748	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	ENST00000390394	+1	known	p.S57N	0.201	133	0%	66	25.8%	15	0%	benign(0.075)	tolerated(0.18)	neutral(0.061)	HMMSmart_SM00406,HMMPfam_V-set,superfamily_Immunoglobulin
TRBV27	28560	genome.wustl.edu	37	7	142423522	142423522	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	ENST00000390399	+1	known	p.L60	0.001	150	0%	37	27%	8	0%	-	-	-	HMMSmart_SM00406,HMMPfam_V-set,superfamily_Immunoglobulin
PRSS1	5644	genome.wustl.edu	37	7	142460772	142460772	+	Silent	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_002769.3	+1	reviewed	p.S215	1.000	197	0%	63	11.1%	0	-	-	-	-	HMMPfam_Trypsin,HMMSmart_Tryp_SPc,superfamily_Pept_Ser_Cys
PRSS1	5644	genome.wustl.edu	37	7	142470545	142470545	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	ENST00000438955	+1	known	p.R68H	1.000	172	0%	94	23.4%	0	-	-	-	-	HMMPfam_Trypsin,HMMSmart_SM00020,superfamily_Trypsin-like serine proteases
EPHB6	2051	genome.wustl.edu	37	7	142566264	142566264	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_004445.3	+1	reviewed	p.R685C	1.000	19	0%	39	17.9%	4	0%	benign(0.004)	tolerated(1)	-	HMMPfam_Pkinase_Tyr,HMMSmart_SM00219,HMMSmart_SM00220,superfamily_Protein kinase-like (PK-like)
TRPV6	55503	genome.wustl.edu	37	7	142574925	142574925	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_018646.2	-1	validated	p.R153C	0.449	40	0%	54	20.4%	0	-	benign(0.005)	deleterious(0)	neutral(0.445)	superfamily_Ankyrin repeat
TRPV6	55503	genome.wustl.edu	37	7	142575508	142575508	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_018646.2	-1	validated	p.A82V	0.975	148	0%	132	23.5%	1	0%	probably_damaging(0.997)	deleterious(0)	deleterious(0.911)	HMMPfam_Ank,HMMSmart_SM00248,superfamily_Ankyrin repeat
C7orf34	135927	genome.wustl.edu	37	7	142637498	142637498	+	Nonsense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_178829.4	+1	validated	p.Q90*	1.000	307	0%	192	24%	0	-	-	-	-	NULL
KEL	3792	genome.wustl.edu	37	7	142651452	142651452	+	Missense_Mutation	SNP	C	C	T	rs61729040		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_000420.2	-1	reviewed	p.R248Q	0.826	213	0.9%	89	20.2%	0	-	unknown(0)	tolerated(0.4)	-	"HMMPfam_Peptidase_M13_N,superfamily_Metalloproteases (""zincins"") catalytic domain"
KEL	3792	genome.wustl.edu	37	7	142658111	142658111	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_000420.2	-1	reviewed	p.D102N	0.578	203	0%	78	20.5%	0	-	probably_damaging(1)	deleterious(0)	deleterious(0.945)	"HMMPfam_Peptidase_M13_N,superfamily_Metalloproteases (""zincins"") catalytic domain"
OR6V1	346517	genome.wustl.edu	37	7	142749542	142749542	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001001667.1	+1	provisional	p.L35	0.000	355	0%	212	13.7%	0	-	-	-	-	superfamily_Family A G protein-coupled receptor-like
GSTK1	373156	genome.wustl.edu	37	7	142964766	142964766	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001143679.1	+1	reviewed	p.I215	0.000	149	0%	154	18.8%	182	32.9%	-	-	-	HMMPfam_DSBA,superfamily_Thiordxn-like_fd
CLCN1	1180	genome.wustl.edu	37	7	143048972	143048972	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_000083.2	+1	reviewed	p.G961W	0.981	38	0%	67	17.9%	0	-	probably_damaging(0.987)	deleterious(0.01)	deleterious(0.842)	NULL
ZYX	7791	genome.wustl.edu	37	7	143079710	143079710	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001010972.1	+1	reviewed	p.D145N	1.000	187	0%	289	25.3%	184	2.1%	unknown(0)	tolerated(0.19)	-	NULL
TAS2R41	259287	genome.wustl.edu	37	7	143175850	143175850	+	Silent	SNP	G	G	A	rs145885431	by1000genomes	TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_176883.2	+1	provisional	p.S295	0.013	424	0%	108	29.6%	0	-	-	-	-	HMMPfam_TAS2R,superfamily_SSF81321
CTAGE6P	340307	genome.wustl.edu	37	7	143453889	143453889	+	Missense_Mutation	SNP	G	G	A	rs74844825		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_178561.4	-1	validated	p.T288M	0.042	1033	6.4%	1237	13.4%	1	100%	-	-	-	NULL
CTAGE6P	340307	genome.wustl.edu	37	7	143453988	143453988	+	Missense_Mutation	SNP	G	G	C	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_178561.4	-1	validated	p.A255G	0.089	1150	0%	1467	9.9%	0	-	-	-	-	NULL
OR6B1	135946	genome.wustl.edu	37	7	143701650	143701650	+	Silent	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001005281.1	+1	provisional	p.L187	0.980	302	0%	157	21%	0	-	-	-	-	HMMPfam_7tm_1,superfamily_Family A G protein-coupled receptor-like
OR6B1	135946	genome.wustl.edu	37	7	143701729	143701729	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001005281.1	+1	provisional	p.T214A	0.834	306	0%	132	26.5%	0	-	possibly_damaging(0.943)	tolerated(0.14)	deleterious(0.637)	HMMPfam_7tm_1,superfamily_Family A G protein-coupled receptor-like
OR6B1	135946	genome.wustl.edu	37	7	143701967	143701967	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001005281.1	+1	provisional	p.R293Q	0.914	167	0%	74	21.6%	0	-	benign(0.01)	tolerated(0.27)	neutral(0.034)	superfamily_Family A G protein-coupled receptor-like
OR2A25	392138	genome.wustl.edu	37	7	143772104	143772104	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001004488.1	+1	provisional	p.E264D	0.002	335	0%	138	27.5%	0	-	benign(0)	tolerated(0.07)	neutral(0.319)	HMMPfam_7tm_1,superfamily_SSF81321
OR2A2	442361	genome.wustl.edu	37	7	143806774	143806774	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001005480.2	+1	validated	p.F33L	0.086	422	0%	119	24.4%	1	0%	benign(0.003)	tolerated(0.59)	neutral(0.004)	superfamily_SSF81321
OR2A14	135941	genome.wustl.edu	37	7	143826855	143826855	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001001659.1	+1	provisional	p.Y217C	0.973	148	0%	47	29.8%	0	-	probably_damaging(0.954)	deleterious(0)	deleterious(0.842)	HMMPfam_7tm_1,superfamily_Family A G protein-coupled receptor-like
OR2A42	402317	genome.wustl.edu	37	7	143929691	143929691	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001001802.1	-1	provisional	p.A76	0.000	114	0%	38	23.7%	0	-	-	-	-	HMMPfam_7tm_1,superfamily_Family A G protein-coupled receptor-like
ARHGEF5	7984	genome.wustl.edu	37	7	144070293	144070293	+	Silent	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	ENST00000474817	+1	known	p.S606Y	1.000	263	0%	180	16.7%	2	0%	-	-	-	HMMPfam_RhoGEF,HMMSmart_SM00325,superfamily_DBL homology domain (DH-domain)
TPK1	27010	genome.wustl.edu	37	7	144462991	144462991	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_022445.3	-1	reviewed	p.R33C	0.988	356	0%	81	13.6%	0	-	probably_damaging(0.963)	deleterious(0.04)	deleterious(0.754)	HMMPfam_TPK_catalytic,superfamily_TPK_catalytic
CNTNAP2	26047	genome.wustl.edu	37	7	147815262	147815262	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_014141.5	+1	reviewed	p.F812L	1.000	384	0%	136	21.3%	0	-	probably_damaging(0.998)	deleterious(0.04)	deleterious(0.823)	superfamily_Concanavalin A-like lectins/glucanases
CNTNAP2	26047	genome.wustl.edu	37	7	148080907	148080907	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_014141.5	+1	reviewed	p.C1214	1.000	34	0%	47	25.5%	0	-	-	-	-	NULL
EZH2	2146	genome.wustl.edu	37	7	148506479	148506479	+	Missense_Mutation	SNP	A	A	C	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_004456.3	-1	reviewed	p.F678C	1.000	229	0%	134	11.9%	20	10%	probably_damaging(1)	deleterious(0)	deleterious(0.945)	HMMPfam_SET,HMMSmart_SET,superfamily_SSF82199
EZH2	2146	genome.wustl.edu	37	7	148543575	148543575	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_004456.3	-1	reviewed	p.R78H	1.000	297	0%	166	15.1%	1	0%	probably_damaging(1)	deleterious(0.05)	deleterious(0.845)	NULL
ZNF786	136051	genome.wustl.edu	37	7	148771559	148771559	+	Nonsense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_152411.3	-1	validated	p.E73*	0.074	481	0%	703	12.8%	0	-	-	-	-	NULL
ZNF425	155054	genome.wustl.edu	37	7	148800990	148800990	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001001661.2	-1	validated	p.R658Q	0.000	119	0%	190	31.6%	2	50%	probably_damaging(1)	tolerated(0.28)	deleterious(0.531)	HMMPfam_zf-C2H2,PatternScan_ZINC_FINGER_C2H2_1,HMMSmart_ZnF_C2H2,superfamily_SSF57667
ZNF425	155054	genome.wustl.edu	37	7	148802269	148802269	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001001661.2	-1	validated	p.E232K	0.000	166	0%	251	23.5%	0	-	benign(0.321)	tolerated(0.9)	neutral(0.101)	superfamily_SSF57667
ZNF282	8427	genome.wustl.edu	37	7	148921453	148921453	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_003575.2	+1	validated	p.S577L	0.940	28	0%	64	17.2%	6	16.6%	benign(0.176)	tolerated(0.06)	neutral(0.339)	HMMPfam_zf-C2H2,PatternScan_ZINC_FINGER_C2H2_1,HMMSmart_ZnF_C2H2,superfamily_SSF57667
ZNF746	155061	genome.wustl.edu	37	7	149174750	149174750	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_152557.4	-1	validated	p.A206V	0.963	44	0%	61	34.4%	2	0%	possibly_damaging(0.792)	tolerated(0.06)	deleterious(0.619)	NULL
ZNF467	168544	genome.wustl.edu	37	7	149462926	149462926	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_207336.1	-1	provisional	p.D222G	0.983	14	0%	45	33.3%	1	0%	benign(0.023)	tolerated(1)	neutral(0.001)	HMMPfam_zf-C2H2,PatternScan_ZINC_FINGER_C2H2_1,HMMSmart_ZnF_C2H2,superfamily_SSF57667
SSPO	23145	genome.wustl.edu	37	7	149477454	149477454	+	Nonsense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	ENST00000378016	+1	known	p.R509*	0.000	48	0%	88	25%	1	0%	-	-	-	superfamily_Serine proterase inhibitors,HMMPfam_TIL
SSPO	23145	genome.wustl.edu	37	7	149480237	149480237	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	ENST00000378016	+1	known	p.D707N	1.000	144	0%	231	20.3%	0	-	-	-	-	HMMPfam_VWD,HMMSmart_SM00216
SSPO	23145	genome.wustl.edu	37	7	149485990	149485990	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	ENST00000378016	+1	known	p.G1403	0.648	183	0%	329	11.9%	0	-	-	-	-	HMMPfam_Ldl_recept_a,HMMSmart_SM00192,PatternScan_LDLRA_1,superfamily_LDL receptor-like module
SSPO	23145	genome.wustl.edu	37	7	149486790	149486790	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	ENST00000378016	+1	known	p.D1522N	0.999	34	0%	64	28.1%	0	-	-	-	-	HMMPfam_Ldl_recept_a,HMMSmart_SM00192,PatternScan_LDLRA_1,superfamily_LDL receptor-like module
SSPO	23145	genome.wustl.edu	37	7	149503059	149503059	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	ENST00000378016	+1	known	p.R2855C	0.778	42	0%	102	25.5%	0	-	-	-	-	HMMPfam_TSP_1,HMMSmart_SM00209,superfamily_TSP-1 type 1 repeat
SSPO	23145	genome.wustl.edu	37	7	149505657	149505657	+	Silent	SNP	C	C	G	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	ENST00000378016	+1	known	p.G3012	1.000	33	0%	70	24.3%	0	-	-	-	-	HMMPfam_TSP_1,HMMSmart_SM00209,superfamily_TSP-1 type 1 repeat
SSPO	23145	genome.wustl.edu	37	7	149515797	149515797	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	ENST00000378016	+1	known	p.A3900T	0.000	16	0%	39	33.3%	0	-	-	-	-	HMMPfam_TSP_1,HMMSmart_SM00209,superfamily_TSP-1 type 1 repeat
SSPO	23145	genome.wustl.edu	37	7	149519636	149519636	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	ENST00000378016	+1	known	p.R4376C	0.002	24	0%	15	33.3%	0	-	-	-	-	HMMPfam_TSP_1,HMMSmart_SM00209,superfamily_TSP-1 type 1 repeat
SSPO	23145	genome.wustl.edu	37	7	149521188	149521188	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	ENST00000378016	+1	known	p.G4510W	0.973	76	0%	125	11.2%	0	-	-	-	-	superfamily_PMP inhibitors
GIMAP8	155038	genome.wustl.edu	37	7	150171329	150171329	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_175571.2	+1	reviewed	p.P304	0.895	170	0%	56	25%	0	-	-	-	-	HMMPfam_AIG1,superfamily_SSF52540
GIMAP8	155038	genome.wustl.edu	37	7	150171657	150171657	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_175571.2	+1	reviewed	p.E414K	0.037	173	0%	71	26.8%	2	0%	benign(0.009)	tolerated(0.21)	neutral(0.044)	HMMPfam_AIG1,superfamily_SSF52540
GIMAP8	155038	genome.wustl.edu	37	7	150174326	150174326	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_175571.2	+1	reviewed	p.G486R	0.000	115	0%	40	12.5%	1	0%	probably_damaging(0.981)	deleterious(0.04)	deleterious(0.774)	HMMPfam_AIG1,superfamily_SSF52540
GIMAP6	474344	genome.wustl.edu	37	7	150325402	150325402	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_024711.4	-1	reviewed	p.D95G	1.000	79	0%	30	23.3%	1	0%	probably_damaging(1)	deleterious(0)	deleterious(0.945)	HMMPfam_AIG1,superfamily_P-loop containing nucleoside triphosphate hydrolases
TMEM176A	55365	genome.wustl.edu	37	7	150498760	150498760	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_018487.2	+1	validated	p.R41Q	0.000	9	0.000	19	0.263	4	0%	benign(0.044)	tolerated(0.36)	neutral(0.022)	HMMPfam_LR8
TMEM176A	55365	genome.wustl.edu	37	7	150500876	150500876	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_018487.2	+1	validated	p.V171I	0.001	96	0%	156	10.3%	21	0%	possibly_damaging(0.507)	tolerated(0.28)	neutral(0.201)	HMMPfam_LR8
ABP1	26	genome.wustl.edu	37	7	150557681	150557681	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001091.2	+1	reviewed	p.F650S	1.000	163	0%	154	14.9%	2	0%	probably_damaging(1)	deleterious(0)	deleterious(0.945)	HMMPfam_Cu_amine_oxid,superfamily_Amine oxidase catalytic domain
KCNH2	3757	genome.wustl.edu	37	7	150646129	150646129	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_000238.2	-1	reviewed	p.D803N	1.000	63	0%	157	13.4%	0	-	probably_damaging(1)	deleterious(0)	deleterious(0.945)	HMMPfam_cNMP_binding,HMMSmart_SM00100,superfamily_cAMP-binding domain-like
KCNH2	3757	genome.wustl.edu	37	7	150654404	150654404	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_000238.2	-1	reviewed	p.H368R	1.000	191	0%	361	26.6%	2	0%	benign(0.037)	tolerated(0.14)	neutral(0.252)	NULL
KCNH2	3757	genome.wustl.edu	37	7	150654410	150654410	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_000238.2	-1	reviewed	p.R366Q	1.000	205	0.5%	375	11.7%	2	0%	probably_damaging(1)	deleterious(0.02)	deleterious(0.883)	NULL
NOS3	4846	genome.wustl.edu	37	7	150692296	150692296	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_000603.4	+1	reviewed	p.P55L	0.997	85	0%	132	11.4%	0	-	benign(0)	tolerated(0.11)	neutral(0.272)	NULL
NOS3	4846	genome.wustl.edu	37	7	150698924	150698924	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_000603.4	+1	reviewed	p.S506	0.908	42	0%	60	15%	5	0%	-	-	-	NULL
ABCB8	11194	genome.wustl.edu	37	7	150731001	150731001	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_007188.3	+1	reviewed	p.V135	0.979	55	0%	51	31.4%	5	0%	-	-	-	HMMPfam_ABC_membrane,superfamily_ABC_TM_1
ABCB8	11194	genome.wustl.edu	37	7	150733221	150733221	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_007188.3	+1	reviewed	p.A359T	1.000	33	0%	33	18.2%	7	0%	probably_damaging(0.994)	deleterious(0.02)	deleterious(0.835)	HMMPfam_ABC_membrane,superfamily_ABC_TM_1
ASIC3	9311	genome.wustl.edu	37	7	150747989	150747989	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_020321.2	+1	reviewed	p.E320K	0.998	22	0%	54	27.8%	0	-	benign(0.016)	tolerated(0.07)	neutral(0.320)	HMMPfam_ASC,PatternScan_ASC
ASIC3	9311	genome.wustl.edu	37	7	150749767	150749767	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_020322.2	+1	reviewed	p.R522H	0.000	270	0%	428	20.8%	7	28.5%	probably_damaging(0.997)	-	-	NULL
SLC4A2	6522	genome.wustl.edu	37	7	150761714	150761714	+	Nonsense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_003040.3	+1	validated	p.R107*	0.993	78	0%	151	21.9%	9	11.1%	-	-	-	NULL
AGAP3	116988	genome.wustl.edu	37	7	150815328	150815328	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	ENST00000469901	+1	known	p.S182L	0.957	59	0%	111	26.1%	23	0%	-	-	-	HMMSmart_SM00173
GBX1	2636	genome.wustl.edu	37	7	150846021	150846021	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001098834.1	-1	provisional	p.P249	0.001	103	0%	72	25%	0	-	-	-	-	superfamily_Homeodomain_like
ABCF2	10061	genome.wustl.edu	37	7	150921072	150921072	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_005692.3	-1	reviewed	p.D166N	1.000	171	0%	184	21.2%	6	0%	possibly_damaging(0.839)	tolerated(0.08)	deleterious(0.621)	HMMPfam_ABC_tran,HMMSmart_AAA,superfamily_SSF52540
CHPF2	54480	genome.wustl.edu	37	7	150933555	150933555	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_019015.1	+1	provisional	p.S297L	0.000	151	0%	206	11.2%	9	0%	benign(0)	tolerated(0.32)	neutral(0.024)	HMMPfam_CHGN
PRKAG2	51422	genome.wustl.edu	37	7	151573600	151573600	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_016203.3	-1	reviewed	p.H36Y	1.000	66	0%	139	18.7%	1	100%	possibly_damaging(0.707)	deleterious(0)	deleterious(0.700)	NULL
GALNTL5	168391	genome.wustl.edu	37	7	151699867	151699867	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_145292.3	+1	validated	p.A243S	0.950	181	0%	59	15.3%	0	-	possibly_damaging(0.471)	tolerated(0.16)	neutral(0.215)	HMMPfam_Glycos_transf_2,superfamily_Nucleotide-diphospho-sugar transferases
GALNT11	63917	genome.wustl.edu	37	7	151805245	151805245	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_022087.2	+1	validated	p.A279T	0.976	64	0%	42	28.6%	4	0%	possibly_damaging(0.743)	deleterious(0.02)	deleterious(0.655)	HMMPfam_Glycos_transf_2,superfamily_Nucleotide-diphospho-sugar transferases
MLL3	58508	genome.wustl.edu	37	7	151859207	151859207	+	Nonsense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_170606.2	-1	reviewed	p.G3819*	0.965	143	0%	75	17.3%	0	-	-	-	-	NULL
MLL3	58508	genome.wustl.edu	37	7	151860294	151860294	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	ENST00000360104	-1	known	p.R962*	0.649	287	0%	186	23.1%	1	0%	-	-	-	NULL
MLL3	58508	genome.wustl.edu	37	7	151878508	151878508	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_170606.2	-1	reviewed	p.S2146Y	0.948	374	0%	166	33.1%	2	0%	probably_damaging(0.966)	-	-	NULL
DPP6	1804	genome.wustl.edu	37	7	154664396	154664396	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	ENST00000377770	+1	known	p.L626	1.000	255	0%	231	26%	31	0%	-	-	-	superfamily_alpha/beta-Hydrolases
DPP6	1804	genome.wustl.edu	37	7	154667767	154667767	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	ENST00000377770	+1	known	p.R679W	1.000	41	0%	48	12.5%	21	0%	probably_damaging(0.988)	deleterious(0)	deleterious(0.882)	HMMPfam_Peptidase_S9,superfamily_alpha/beta-Hydrolases
DPP6	1804	genome.wustl.edu	37	7	154681008	154681008	+	Silent	SNP	C	C	T	rs184591023	by1000genomes	TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	ENST00000377770	+1	known	p.S777	0.000	98	0%	148	24.3%	42	0%	-	-	-	HMMPfam_Peptidase_S9,superfamily_alpha/beta-Hydrolases
PAXIP1	22976	genome.wustl.edu	37	7	154738395	154738395	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_007349.3	-1	reviewed	p.Q1017H	0.995	156	0%	66	19.7%	20	20%	probably_damaging(0.992)	tolerated(0.06)	deleterious(0.770)	HMMSmart_SM00292
PAXIP1	22976	genome.wustl.edu	37	7	154760441	154760441	+	Silent	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_007349.3	-1	reviewed	p.P490	0.479	78	1.3%	50	20%	2	0%	-	-	-	NULL
PAXIP1	22976	genome.wustl.edu	37	7	154760532	154760532	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_007349.3	-1	reviewed	p.P460L	1.000	91	0%	79	19%	2	0%	unknown(0)	tolerated(0.16)	-	NULL
PAXIP1	22976	genome.wustl.edu	37	7	154768039	154768039	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_007349.3	-1	reviewed	p.E147D	1.000	130	0%	71	38%	0	-	unknown(0)	tolerated(0.58)	-	HMMPfam_BRCT,HMMSmart_SM00292,superfamily_BRCT domain
HTR5A	3361	genome.wustl.edu	37	7	154862827	154862827	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_024012.2	+1	reviewed	p.R73H	1.000	41	0%	97	23.7%	0	-	probably_damaging(1)	tolerated(0.05)	deleterious(0.845)	HMMPfam_7tm_1,superfamily_Family A G protein-coupled receptor-like
EN2	2020	genome.wustl.edu	37	7	155255214	155255214	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001427.3	+1	reviewed	p.A278	0.665	97	0%	175	14.3%	5	0%	-	-	-	HMMPfam_Homeobox,HMMSmart_HOX,superfamily_Homeodomain_like,PatternScan_HOMEOBOX_1
RBM33	155435	genome.wustl.edu	37	7	155503954	155503954	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_053043.2	+1	validated	p.F336L	1.000	82	0%	117	30.8%	1	0%	unknown(0)	tolerated(0.4)	-	NULL
RBM33	155435	genome.wustl.edu	37	7	155504032	155504032	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_053043.2	+1	validated	p.P362S	1.000	169	0%	231	24.2%	0	-	unknown(0)	deleterious(0.02)	-	NULL
RBM33	155435	genome.wustl.edu	37	7	155559268	155559268	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	ENST00000392761	+1	known	p.A871V	0.919	48	0%	61	14.8%	2	0%	-	-	-	NULL
SHH	6469	genome.wustl.edu	37	7	155604677	155604677	+	Missense_Mutation	SNP	A	A	C	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_000193.2	-1	reviewed	p.F47C	1.000	177	0%	310	25.8%	0	-	benign(0.186)	tolerated(0.07)	neutral(0.337)	HMMPfam_HH_signal,superfamily_Hedgehog_sig_N
LMBR1	64327	genome.wustl.edu	37	7	156629549	156629549	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_022458.3	-1	reviewed	p.V33I	0.000	346	0%	72	26.4%	1	0%	benign(0)	tolerated(1)	-	HMMPfam_LMBR1
NOM1	64434	genome.wustl.edu	37	7	156759760	156759760	+	Missense_Mutation	SNP	A	A	C	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_138400.1	+1	provisional	p.K758Q	0.994	505	0%	246	24.8%	3	100%	probably_damaging(0.996)	tolerated(0.21)	deleterious(0.506)	HMMPfam_MA3,HMMSmart_MA3
UBE3C	9690	genome.wustl.edu	37	7	157000200	157000200	+	Silent	SNP	T	T	C	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_014671.2	+1	validated	p.H509	0.336	492	0%	157	19.7%	6	50%	-	-	-	NULL
UBE3C	9690	genome.wustl.edu	37	7	157041215	157041215	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_014671.2	+1	validated	p.D879N	0.999	189	0%	125	11.2%	10	0%	probably_damaging(0.966)	deleterious(0)	deleterious(0.853)	HMMPfam_HECT,HMMSmart_SM00119,superfamily_Hect E3 ligase catalytic domain
DNAJB6	10049	genome.wustl.edu	37	7	157174997	157174997	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_058246.3	+1	reviewed	p.R135Q	0.984	662	0%	332	17.2%	56	0%	unknown(0)	tolerated(0.08)	-	NULL
PTPRN2	5799	genome.wustl.edu	37	7	157985041	157985041	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_002847.3	-1	reviewed	p.A176V	0.003	31	0%	61	14.8%	0	-	benign(0.002)	tolerated(0.49)	neutral(0.011)	NULL
PTPRN2	5799	genome.wustl.edu	37	7	157997888	157997888	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_002847.3	-1	reviewed	p.R119C	0.024	188	0%	239	26.8%	1	0%	possibly_damaging(0.905)	deleterious(0.01)	deleterious(0.765)	NULL
NCAPG2	54892	genome.wustl.edu	37	7	158478909	158478909	+	Missense_Mutation	SNP	T	T	G	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_017760.5	-1	validated	p.E264D	0.988	159	0%	46	30.4%	0	-	benign(0.197)	tolerated(0.17)	neutral(0.077)	NULL
NCAPG2	54892	genome.wustl.edu	37	7	158486103	158486103	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_017760.5	-1	validated	p.K55N	0.522	489	0%	315	13%	0	-	possibly_damaging(0.619)	tolerated(0.14)	neutral(0.465)	NULL
ESYT2	57488	genome.wustl.edu	37	7	158529800	158529800	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_020728.2	-1	validated	p.R807W	0.994	388	0%	279	28%	15	0%	benign(0.081)	tolerated(0.05)	neutral(0.351)	HMMPfam_C2,HMMSmart_C2,superfamily_C2_CaLB
ESYT2	57488	genome.wustl.edu	37	7	158534476	158534476	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_020728.2	-1	validated	p.S663P	0.062	66	0%	58	19%	13	0%	benign(0)	tolerated(0.22)	neutral(0.042)	NULL
ESYT2	57488	genome.wustl.edu	37	7	158536254	158536254	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_020728.2	-1	validated	p.P614L	0.999	116	0%	83	12%	13	0%	benign(0.27)	tolerated(0.62)	neutral(0.033)	NULL
ESYT2	57488	genome.wustl.edu	37	7	158540905	158540905	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_020728.2	-1	validated	p.R569C	1.000	500	0%	268	25.7%	10	10%	benign(0.108)	tolerated(0.11)	neutral(0.280)	HMMPfam_C2,HMMSmart_C2,superfamily_C2_CaLB
WDR60	55112	genome.wustl.edu	37	7	158663888	158663888	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_018051.4	+1	validated	p.R42H	0.000	184	0%	288	31.6%	6	16.6%	benign(0)	tolerated(0.53)	neutral(0.007)	superfamily_WD40 repeat-like
WDR60	55112	genome.wustl.edu	37	7	158663944	158663944	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_018051.4	+1	validated	p.D61N	0.019	234	0.4%	321	30.5%	6	33.3%	possibly_damaging(0.586)	tolerated(0.07)	deleterious(0.521)	superfamily_WD40 repeat-like
VIPR2	7434	genome.wustl.edu	37	7	158824716	158824716	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_003382.4	-1	validated	p.G338	0.566	108	0%	192	25.5%	6	0%	-	-	-	HMMPfam_7tm_2,superfamily_SSF81321
VIPR2	7434	genome.wustl.edu	37	7	158826927	158826927	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_003382.4	-1	validated	p.G316	0.669	104	0%	98	24.5%	3	0%	-	-	-	HMMPfam_7tm_2,superfamily_SSF81321
VIPR2	7434	genome.wustl.edu	37	7	158935201	158935201	+	Nonsense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	ENST00000418475	-1	known	p.W24*	1.000	487	0%	582	24.1%	0	-	probably_damaging(0.96)	tolerated(0.43)	neutral(0.417)	NULL
DLGAP2	9228	genome.wustl.edu	37	8	1497307	1497307	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_004745.3	+1	reviewed	p.R150C	0.998	11	0%	25	24%	0	-	probably_damaging(1)	deleterious(0)	deleterious(0.945)	NULL
DLGAP2	9228	genome.wustl.edu	37	8	1626512	1626512	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_004745.3	+1	reviewed	p.S727	0.110	95	0%	65	13.8%	0	-	-	-	-	HMMPfam_GKAP
CLN8	2055	genome.wustl.edu	37	8	1728615	1728615	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_018941.3	+1	reviewed	p.Y248C	0.989	129	0%	120	30.8%	5	20%	probably_damaging(0.975)	deleterious(0.02)	deleterious(0.800)	HMMPfam_TRAM_LAG1_CLN8,HMMSmart_TLC
ARHGEF10	9639	genome.wustl.edu	37	8	1791593	1791593	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_014629.2	+1	reviewed	p.A10T	0.002	35	0%	69	30.4%	1	100%	benign(0)	deleterious(0.02)	neutral(0.383)	NULL
ARHGEF10	9639	genome.wustl.edu	37	8	1828265	1828265	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_014629.2	+1	reviewed	p.D299Y	1.000	168	0%	220	22.7%	1	0%	possibly_damaging(0.921)	deleterious(0.01)	deleterious(0.776)	NULL
ARHGEF10	9639	genome.wustl.edu	37	8	1871717	1871717	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_014629.2	+1	reviewed	p.A781	0.830	74	0%	74	16.2%	0	-	-	-	-	superfamily_SSF50729
ARHGEF10	9639	genome.wustl.edu	37	8	1871952	1871952	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_014629.2	+1	reviewed	p.P800	0.010	123	0%	154	14.3%	0	-	-	-	-	superfamily_SSF50729
ARHGEF10	9639	genome.wustl.edu	37	8	1872033	1872033	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_014629.2	+1	reviewed	p.L827	0.203	102	0%	120	24.2%	0	-	-	-	-	superfamily_SSF50729
ARHGEF10	9639	genome.wustl.edu	37	8	1893647	1893647	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_014629.2	+1	reviewed	p.G1075S	0.032	52	0%	102	11.8%	2	0%	benign(0)	tolerated(0.18)	neutral(0.056)	superfamily_WD40_like
MYOM2	9172	genome.wustl.edu	37	8	2026919	2026919	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_003970.2	+1	validated	p.R456Q	1.000	129	0%	123	20.3%	0	-	probably_damaging(1)	deleterious(0)	deleterious(0.945)	HMMPfam_fn3,HMMSmart_FN3,superfamily_FN_III-like
MYOM2	9172	genome.wustl.edu	37	8	2033460	2033460	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_003970.2	+1	validated	p.V528I	1.000	82	0%	110	22.7%	0	-	probably_damaging(0.975)	tolerated(0.14)	deleterious(0.666)	HMMPfam_fn3,HMMSmart_FN3,superfamily_FN_III-like
MYOM2	9172	genome.wustl.edu	37	8	2071143	2071143	+	Nonsense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_003970.2	+1	validated	p.E1158*	1.000	180	0%	253	30.8%	2	0%	-	-	-	HMMPfam_ig,superfamily_SSF48726
CSMD1	64478	genome.wustl.edu	37	8	2832075	2832075	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_033225.5	-1	validated	p.V2881I	0.000	96	0%	26	30.8%	0	-	benign(0.001)	tolerated(0.13)	neutral(0.253)	HMMPfam_Sushi,HMMSmart_SM00032,superfamily_Complement control module/SCR domain
CSMD1	64478	genome.wustl.edu	37	8	2967840	2967840	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_033225.5	-1	validated	p.V2151I	0.976	202	0.5%	77	24.7%	0	-	benign(0.073)	tolerated(1)	neutral(0.005)	HMMPfam_CUB,HMMSmart_SM00042,superfamily_Spermadhesin CUB domain
CSMD1	64478	genome.wustl.edu	37	8	3141670	3141670	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_033225.5	-1	validated	p.F1384L	1.000	175	0%	69	20.3%	0	-	probably_damaging(0.99)	deleterious(0.05)	deleterious(0.787)	HMMPfam_CUB,HMMSmart_SM00042,superfamily_Spermadhesin CUB domain
CSMD1	64478	genome.wustl.edu	37	8	3226847	3226848	+	Frame_Shift_Ins	INS	-	-	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	-	-					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_033225.5	-1	validated	p.S944fs	1.000:1.000	-	-	-	-	-	-	-	-	-	HMMPfam_CUB,HMMSmart_SM00042,superfamily_Spermadhesin CUB domain
CSMD1	64478	genome.wustl.edu	37	8	3432528	3432528	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_033225.5	-1	validated	p.P429L	1.000	126	0%	36	25%	0	-	probably_damaging(1)	deleterious(0)	deleterious(0.945)	HMMPfam_CUB,HMMSmart_SM00042,superfamily_Spermadhesin CUB domain
MCPH1	79648	genome.wustl.edu	37	8	6479191	6479191	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_024596.3	+1	reviewed	p.L811M	0.149	86	0%	58	13.8%	4	0%	probably_damaging(0.962)	deleterious(0.01)	deleterious(0.810)	HMMPfam_BRCT,HMMSmart_SM00292,superfamily_BRCT domain
AGPAT5	55326	genome.wustl.edu	37	8	6614877	6614877	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_018361.3	+1	reviewed	p.L355F	0.007	248	0%	77	16.9%	7	57.1%	probably_damaging(0.989)	tolerated(0.15)	deleterious(0.680)	NULL
XKR5	389610	genome.wustl.edu	37	8	6669263	6669263	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	ENST00000409172	-1	known	p.T505M	0.000	354	0%	254	25.6%	2	100%	-	-	-	NULL
XKR5	389610	genome.wustl.edu	37	8	6673439	6673439	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_207411.4	-1	validated	p.V270A	0.987	92	0%	79	34.2%	0	-	-	-	-	HMMPfam_XK-related
DEFA4	1669	genome.wustl.edu	37	8	6793547	6793547	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001925.1	-1	reviewed	p.D97N	0.005	76	0%	69	27.5%	1	0%	probably_damaging(0.988)	-	-	NULL
FAM90A20P	728430	genome.wustl.edu	37	8	7153873	7153873	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	ENST00000360191	+1	known	p.P129L	0.001	121	0%	86	36%	0	-	-	-	-	NULL
ZNF705G	100131980	genome.wustl.edu	37	8	7215735	7215735	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	ENST00000400156	-1	known	p.H222	1.000	538	0%	670	25.4%	0	-	-	-	-	HMMPfam_zf-C2H2,PatternScan_ZINC_FINGER_C2H2_1,HMMSmart_ZnF_C2H2,superfamily_SSF57667
DEFB104A	140596	genome.wustl.edu	37	8	7698702	7698702	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_080389.2	+1	reviewed	p.R69C	0.000	939	0%	219	13.2%	0	-	probably_damaging(0.988)	tolerated(0.08)	deleterious(0.738)	NULL
SGK223	157285	genome.wustl.edu	37	8	8175779	8175779	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001080826.1	-1	validated	p.R1369H	0.994	50	0%	82	28%	17	29.4%	probably_damaging(0.999)	tolerated(0.06)	deleterious(0.813)	NULL
SGK223	157285	genome.wustl.edu	37	8	8235409	8235409	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001080826.1	-1	validated	p.R170	0.056	90	1.1%	127	11.8%	1	0%	-	-	-	NULL
MFHAS1	9258	genome.wustl.edu	37	8	8748876	8748876	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_004225.2	-1	reviewed	p.D565N	0.995	15	0%	46	28.3%	5	20%	probably_damaging(1)	tolerated(0.82)	deleterious(0.500)	superfamily_P-loop containing nucleoside triphosphate hydrolases
TNKS	8658	genome.wustl.edu	37	8	9538303	9538303	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_003747.2	+1	validated	p.G367E	1.000	239	0%	58	25.9%	2	50%	benign(0.156)	tolerated(0.11)	neutral(0.286)	superfamily_Ankyrin repeat
RP1L1	94137	genome.wustl.edu	37	8	10464927	10464927	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_178857.5	-1	validated	p.G2227	0.000	414	0%	525	27%	1	0%	-	-	-	HMMPfam_S-antigen
RP1L1	94137	genome.wustl.edu	37	8	10466633	10466633	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_178857.5	-1	validated	p.C1659R	0.998	50	0%	95	12.6%	0	-	unknown(0)	deleterious(0)	-	NULL
SOX7	83595	genome.wustl.edu	37	8	10584031	10584031	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_031439.2	-1	reviewed	p.R128	1.000	18	0%	49	26.5%	0	-	-	-	-	NULL
XKR6	286046	genome.wustl.edu	37	8	10755938	10755938	+	Missense_Mutation	SNP	A	A	C	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_173683.3	-1	provisional	p.F484V	1.000	174	0%	82	29.3%	0	-	probably_damaging(0.983)	deleterious(0)	deleterious(0.873)	HMMPfam_XK-related
XKR6	286046	genome.wustl.edu	37	8	10782300	10782300	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_173683.3	-1	provisional	p.R269W	1.000	82	0%	134	11.2%	0	-	probably_damaging(0.992)	deleterious(0.02)	deleterious(0.831)	HMMPfam_XK-related
MIR598	693183	genome.wustl.edu	37	8	10892799	10892799	+	RNA	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	ENST00000384868	-1	known	NULL	0.983	118	0%	70	22.9%	0	-	-	-	-	-
SLC35G5	83650	genome.wustl.edu	37	8	11188889	11188889	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_054028.1	+1	reviewed	p.D92N	0.952	380	0.3%	573	19.9%	0	-	benign(0)	tolerated(0.52)	neutral(0.009)	HMMPfam_DUF6,superfamily_SSF103481
BLK	640	genome.wustl.edu	37	8	11403593	11403593	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001715.2	+1	validated	p.P52	0.000	188	0%	94	27.7%	0	-	-	-	-	superfamily_SH3-domain
BLK	640	genome.wustl.edu	37	8	11405575	11405575	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001715.2	+1	validated	p.T70	0.000	237	0%	135	14.1%	1	0%	-	-	-	HMMPfam_SH3_1,HMMSmart_SM00326,superfamily_SH3-domain
BLK	640	genome.wustl.edu	37	8	11412316	11412316	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001715.2	+1	validated	p.I179	1.000	78	0%	79	30.4%	4	0%	-	-	-	HMMPfam_SH2,HMMSmart_SM00252,superfamily_SH2 domain
GATA4	2626	genome.wustl.edu	37	8	11614530	11614530	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_002052.3	+1	reviewed	p.R362C	1.000	47	0%	45	28.9%	0	-	probably_damaging(1)	deleterious(0.02)	deleterious(0.883)	NULL
NEIL2	252969	genome.wustl.edu	37	8	11637331	11637331	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001135746.1	+1	validated	p.D121	0.000	114	0%	108	30.6%	1	0%	-	-	-	NULL
USP17L2	377630	genome.wustl.edu	37	8	11995199	11995199	+	Silent	SNP	A	A	G	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_201402.2	-1	validated	p.C357	0.009	57	0%	14	50%	0	-	-	-	-	HMMPfam_UCH,superfamily_SSF54001
OR7E8P	346708	genome.wustl.edu	37	8	12542035	12542035	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	ENST00000317826	-1	known	p.V218I	0.069	557	0%	274	16.8%	0	-	-	-	-	HMMPfam_7tm_1,superfamily_SSF81321
OR7E8P	346708	genome.wustl.edu	37	8	12542145	12542145	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	ENST00000317826	-1	known	p.S181Y	0.651	310	0%	138	20.3%	0	-	-	-	-	HMMPfam_7tm_1,superfamily_SSF81321
LONRF1	91694	genome.wustl.edu	37	8	12580702	12580702	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_152271.3	-1	provisional	p.R742Q	0.963	197	0%	155	13.5%	14	7.1%	probably_damaging(0.997)	tolerated(0.65)	deleterious(0.469)	HMMPfam_LON,HMMSmart_SM00464
KIAA1456	57604	genome.wustl.edu	37	8	12870213	12870213	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_020844.2	+1	validated	p.L59F	1.000	280	0%	85	25.9%	1	100%	probably_damaging(1)	deleterious(0.04)	deleterious(0.849)	HMMPfam_Methyltransf_11,superfamily_S-adenosyl-L-methionine-dependent methyltransferases
DLC1	10395	genome.wustl.edu	37	8	12957935	12957935	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_182643.2	-1	reviewed	p.F637	0.992	79	0%	101	19.8%	1	0%	-	-	-	NULL
SGCZ	137868	genome.wustl.edu	37	8	14412322	14412322	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_139167.2	-1	reviewed	p.F51L	1.000	336	0%	188	18.1%	0	-	benign(0.004)	tolerated(0.91)	-	HMMPfam_Sarcoglycan_1
TUSC3	7991	genome.wustl.edu	37	8	15605946	15605946	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_006765.2	+1	reviewed	p.R334C	1.000	897	0%	201	10%	97	25.7%	probably_damaging(1)	deleterious(0)	deleterious(0.945)	HMMPfam_OST3_OST6
MSR1	4481	genome.wustl.edu	37	8	16026069	16026069	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_138715.2	-1	reviewed	p.I176	0.948	448	0%	115	18.3%	0	-	-	-	-	NULL
EFHA2	286097	genome.wustl.edu	37	8	16935305	16935305	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_181723.2	+1	validated	p.M194T	1.000	271	0%	45	8.9%	0	-	benign(0.01)	tolerated(0.2)	neutral(0.050)	NULL
ZDHHC2	51201	genome.wustl.edu	37	8	17072818	17072818	+	Silent	SNP	T	T	C	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_016353.4	+1	validated	p.S341	1.000	390	0%	77	27.3%	17	11.7%	-	-	-	NULL
MTMR7	9108	genome.wustl.edu	37	8	17159742	17159742	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_004686.4	-1	reviewed	p.R514Q	1.000	385	0%	105	22.9%	1	100%	benign(0.412)	tolerated(0.11)	neutral(0.405)	NULL
SLC7A2	6542	genome.wustl.edu	37	8	17400905	17400905	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_003046.5	+1	validated	p.I59	0.946	177	0%	79	22.8%	1	0%	-	-	-	NULL
MTUS1	57509	genome.wustl.edu	37	8	17611941	17611941	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001001924.2	-1	reviewed	p.R459Q	0.003	178	0%	120	22.5%	0	-	probably_damaging(1)	tolerated(0.06)	deleterious(0.823)	NULL
PCM1	5108	genome.wustl.edu	37	8	17822238	17822238	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_006197.3	+1	validated	p.V939A	0.001	436	0%	96	28.1%	6	0%	benign(0)	tolerated(0.29)	neutral(0.029)	NULL
ASAH1	427	genome.wustl.edu	37	8	17916887	17916887	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_004315.4	-1	reviewed	p.T351M	0.560	263	0%	80	11.3%	33	0%	benign(0.332)	deleterious(0.01)	deleterious(0.510)	HMMPfam_CBAH
ASAH1	427	genome.wustl.edu	37	8	17927343	17927343	+	Silent	SNP	G	G	A	rs138662754	by1000genomes	TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_004315.4	-1	reviewed	p.F103	0.983	516	0%	207	22.2%	41	9.7%	-	-	-	NULL
PSD3	23362	genome.wustl.edu	37	8	18432688	18432688	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_015310.3	-1	validated	p.N863	0.546	255	0%	43	20.9%	0	-	-	-	-	HMMPfam_PH,HMMSmart_PH,superfamily_SSF50729
PSD3	23362	genome.wustl.edu	37	8	18623006	18623006	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_015310.3	-1	validated	p.L709	1.000	362	0%	149	16.1%	0	-	-	-	-	HMMPfam_Sec7,HMMSmart_Sec7,superfamily_Sec7
PSD3	23362	genome.wustl.edu	37	8	18725332	18725332	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_015310.3	-1	validated	p.T496A	0.955	432	0%	88	20.5%	0	-	benign(0.037)	tolerated(0.05)	neutral(0.347)	NULL
PSD3	23362	genome.wustl.edu	37	8	18729368	18729368	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_015310.3	-1	validated	p.E336K	0.901	327	0%	92	28.3%	0	-	benign(0.014)	deleterious(0)	neutral(0.445)	NULL
CSGALNACT1	55790	genome.wustl.edu	37	8	19263548	19263548	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001130518.1	-1	validated	p.G448R	0.999	94	0%	43	18.6%	5	20%	probably_damaging(1)	tolerated(0.06)	deleterious(0.823)	HMMPfam_CHGN,superfamily_SSF53448
LPL	4023	genome.wustl.edu	37	8	19810912	19810912	+	Missense_Mutation	SNP	A	A	C	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	ENST00000311322	+1	known	p.K174T	0.914	197	0%	82	24.4%	2	0%	benign(0)	tolerated(0.29)	neutral(0.029)	HMMPfam_Lipase,superfamily_alpha/beta-Hydrolases
LPL	4023	genome.wustl.edu	37	8	19811837	19811837	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	ENST00000311322	+1	known	p.R250C	0.000	326	0%	111	18.9%	2	0%	probably_damaging(0.978)	deleterious(0.03)	deleterious(0.785)	HMMPfam_Lipase,superfamily_alpha/beta-Hydrolases
LPL	4023	genome.wustl.edu	37	8	19818460	19818460	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	ENST00000311322	+1	known	p.E396D	0.768	255	0%	67	23.9%	0	-	benign(0.067)	tolerated(0.86)	neutral(0.005)	HMMPfam_PLAT,HMMSmart_SM00308,superfamily_Lipase/lipooxygenase domain (PLAT/LH2 domain)
ATP6V1B2	526	genome.wustl.edu	37	8	20070412	20070412	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001693.3	+1	reviewed	p.R308Q	1.000	260	0%	105	21.9%	17	11.7%	probably_damaging(0.999)	deleterious(0)	deleterious(0.935)	HMMPfam_ATP-synt_ab,superfamily_P-loop containing nucleoside triphosphate hydrolases
LZTS1	11178	genome.wustl.edu	37	8	20107247	20107247	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_021020.2	-1	reviewed	p.A593S	1.000	45	0%	84	27.4%	1	0%	probably_damaging(0.998)	deleterious(0)	deleterious(0.919)	NULL
LZTS1	11178	genome.wustl.edu	37	8	20107658	20107658	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_021020.2	-1	reviewed	p.R456C	1.000	31	0%	69	14.5%	0	-	probably_damaging(1)	deleterious(0)	deleterious(0.945)	HMMPfam_Fez1
LZTS1	11178	genome.wustl.edu	37	8	20107759	20107759	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_021020.2	-1	reviewed	p.T422M	0.010	52	0%	85	14.1%	0	-	benign(0.016)	deleterious(0.04)	neutral(0.349)	HMMPfam_Fez1
LZTS1	11178	genome.wustl.edu	37	8	20112432	20112432	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_021020.2	-1	reviewed	p.S87	0.993	99	0%	140	24.3%	0	-	-	-	-	NULL
LZTS1	11178	genome.wustl.edu	37	8	20112630	20112630	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_021020.2	-1	reviewed	p.S21	0.132	90	0%	125	12%	1	0%	-	-	-	NULL
GFRA2	2675	genome.wustl.edu	37	8	21608118	21608118	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001495.4	-1	reviewed	p.R259Q	0.926	56	0%	59	23.7%	1	0%	probably_damaging(1)	tolerated(0.15)	deleterious(0.741)	HMMPfam_GDNF,superfamily_GDNF receptor-like (Pfam 02351)
DOK2	9046	genome.wustl.edu	37	8	21766827	21766827	+	Missense_Mutation	SNP	T	T	G	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_003974.2	-1	reviewed	p.K412Q	0.955	100	0%	136	23.5%	17	0%	possibly_damaging(0.893)	deleterious(0)	deleterious(0.796)	NULL
DOK2	9046	genome.wustl.edu	37	8	21767414	21767414	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_003974.2	-1	reviewed	p.R216H	1.000	66	0%	155	10.3%	0	-	unknown(0)	deleterious(0.03)	-	HMMPfam_IRS,HMMSmart_PTBI,superfamily_SSF50729
DOK2	9046	genome.wustl.edu	37	8	21768225	21768225	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_003974.2	-1	reviewed	p.D193N	0.001	136	0%	224	26.8%	2	0%	benign(0.004)	tolerated(0.46)	neutral(0.012)	HMMPfam_IRS,HMMSmart_PTBI,superfamily_SSF50729
NPM2	10361	genome.wustl.edu	37	8	21883284	21883284	+	Splice_Site	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_182795.1	+1	validated	e3+1	0.990	116	0%	161	29.2%	0	-	-	-	-	-
EPB49	2039	genome.wustl.edu	37	8	21929905	21929905	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001114135.2	+1	validated	p.D225N	1.000	177	0%	168	26.2%	6	0%	possibly_damaging(0.824)	tolerated(0.09)	deleterious(0.609)	NULL
HR	55806	genome.wustl.edu	37	8	21978605	21978605	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_005144.4	-1	reviewed	p.F780	0.982	39	0%	79	12.7%	0	-	-	-	-	NULL
HR	55806	genome.wustl.edu	37	8	21980080	21980080	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_005144.4	-1	reviewed	p.K683E	1.000	10	0%	48	20.8%	2	50%	probably_damaging(0.99)	tolerated(0.06)	deleterious(0.764)	NULL
HR	55806	genome.wustl.edu	37	8	21986363	21986363	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_005144.4	-1	reviewed	p.P107	0.052	26	0%	55	27.3%	0	-	-	-	-	NULL
LGI3	203190	genome.wustl.edu	37	8	22005876	22005876	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_139278.2	-1	validated	p.A482T	0.988	40	0%	61	11.5%	0	-	possibly_damaging(0.659)	deleterious(0.02)	deleterious(0.616)	HMMPfam_EPTP
LGI3	203190	genome.wustl.edu	37	8	22006329	22006329	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_139278.2	-1	validated	p.D331N	0.998	69	0%	117	12%	0	-	probably_damaging(1)	deleterious(0.01)	deleterious(0.905)	HMMPfam_EPTP
LGI3	203190	genome.wustl.edu	37	8	22012934	22012934	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_139278.2	-1	validated	p.A83	0.062	149	0%	247	13%	0	-	unknown(0)	-	-	superfamily_SSF52058
PHYHIP	9796	genome.wustl.edu	37	8	22079156	22079156	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001099335.1	-1	validated	p.A235T	0.996	21	0%	38	15.8%	4	0%	benign(0.013)	deleterious(0.03)	neutral(0.365)	NULL
POLR3D	661	genome.wustl.edu	37	8	22105518	22105518	+	Missense_Mutation	SNP	A	A	C	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001722.2	+1	reviewed	p.K120Q	1.000	357	0%	477	28.3%	0	-	possibly_damaging(0.919)	deleterious(0.03)	deleterious(0.734)	NULL
PIWIL2	55124	genome.wustl.edu	37	8	22145125	22145125	+	Silent	SNP	A	A	G	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001135721.1	+1	validated	p.G276	0.996	154	0%	68	25%	1	0%	-	-	-	superfamily_PAZ domain
PIWIL2	55124	genome.wustl.edu	37	8	22212953	22212953	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001135721.1	+1	validated	p.L953M	1.000	158	0%	76	28.9%	0	-	probably_damaging(0.998)	deleterious(0.01)	deleterious(0.880)	HMMPfam_Piwi,superfamily_Ribonuclease H-like
SLC39A14	23516	genome.wustl.edu	37	8	22262487	22262487	+	Silent	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001128431.2	+1	validated	p.L88	1.000	39	0%	41	22%	4	0%	-	-	-	NULL
SORBS3	10174	genome.wustl.edu	37	8	22428660	22428660	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_005775.4	+1	validated	p.D557N	0.926	15	0%	32	21.9%	48	0%	probably_damaging(0.981)	tolerated(0.26)	neutral(0.460)	NULL
C8orf58	541565	genome.wustl.edu	37	8	22458719	22458719	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001013842.1	+1	validated	p.R122L	0.000	16	0%	21	38.1%	0	-	possibly_damaging(0.849)	deleterious(0)	deleterious(0.770)	NULL
KIAA1967	57805	genome.wustl.edu	37	8	22476735	22476735	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_021174.4	+1	validated	p.R865Q	0.648	14	0%	35	20%	41	9.7%	benign(0.071)	deleterious(0.04)	neutral(0.354)	NULL
EGR3	1960	genome.wustl.edu	37	8	22548722	22548722	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_004430.2	-1	reviewed	p.A143V	1.000	35	0%	67	19.4%	0	-	possibly_damaging(0.753)	deleterious(0)	deleterious(0.721)	NULL
TNFRSF10B	8795	genome.wustl.edu	37	8	22885943	22885943	+	Nonsense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_003842.4	-1	reviewed	p.G217*	0.000	183	0%	126	31%	6	50%	-	-	-	NULL
CHMP7	91782	genome.wustl.edu	37	8	23113998	23113998	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_152272.3	+1	validated	p.R228H	1.000	221	0%	151	11.9%	5	0%	benign(0)	tolerated(0.4)	neutral(0.016)	NULL
CHMP7	91782	genome.wustl.edu	37	8	23114096	23114096	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_152272.3	+1	validated	p.E261K	1.000	170	0%	122	22.1%	4	0%	probably_damaging(0.995)	tolerated(0.06)	deleterious(0.780)	HMMPfam_Snf7
CHMP7	91782	genome.wustl.edu	37	8	23115896	23115896	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_152272.3	+1	validated	p.L298	0.993	55	0%	36	27.8%	8	12.5%	-	-	-	HMMPfam_Snf7
R3HCC1	203069	genome.wustl.edu	37	8	23147914	23147914	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001136108.1	+1	validated	p.E75K	0.000	295	0%	483	28.2%	24	12.5%	possibly_damaging(0.93)	deleterious(0)	deleterious(0.821)	NULL
SLC25A37	51312	genome.wustl.edu	37	8	23428859	23428859	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_016612.2	+1	provisional	p.R170C	1.000	54	0%	71	29.6%	27	22.2%	probably_damaging(1)	deleterious(0)	deleterious(0.945)	superfamily_Mitochondrial carrier,HMMPfam_Mito_carr
STC1	6781	genome.wustl.edu	37	8	23708950	23708950	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_003155.2	-1	reviewed	p.R119M	1.000	288	0%	266	27.4%	7	14.2%	possibly_damaging(0.496)	deleterious(0.03)	deleterious(0.530)	HMMPfam_Stanniocalcin
STC1	6781	genome.wustl.edu	37	8	23709775	23709775	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_003155.2	-1	reviewed	p.A81T	1.000	226	0%	203	10.3%	10	20%	possibly_damaging(0.88)	deleterious(0)	deleterious(0.788)	HMMPfam_Stanniocalcin
ADAM28	10863	genome.wustl.edu	37	8	24181448	24181448	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_014265.4	+1	reviewed	p.E274D	0.878	369	0%	86	25.6%	1	100%	possibly_damaging(0.937)	tolerated(1)	neutral(0.383)	"HMMPfam_Reprolysin,superfamily_Metalloproteases (""zincins"") catalytic domain"
ADAM7	8756	genome.wustl.edu	37	8	24349526	24349526	+	Silent	SNP	A	A	G	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	ENST00000380789	+1	known	p.G489	0.509	175	0.6%	37	24.3%	0	-	-	-	-	HMMPfam_ADAM_CR,HMMSmart_SM00608
ADAM7	8756	genome.wustl.edu	37	8	24349549	24349549	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	ENST00000380789	+1	known	p.G497D	1.000	168	0%	41	26.8%	0	-	probably_damaging(1)	deleterious(0)	deleterious(0.945)	HMMPfam_ADAM_CR,HMMSmart_SM00608
ADAM7	8756	genome.wustl.edu	37	8	24359034	24359034	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	ENST00000380789	+1	known	p.G718D	0.435	239	0%	53	20.8%	0	-	possibly_damaging(0.566)	tolerated(0.11)	neutral(0.465)	NULL
NEFM	4741	genome.wustl.edu	37	8	24771847	24771847	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_005382.2	+1	reviewed	p.D181Y	1.000	32	0%	41	12.2%	0	-	probably_damaging(0.999)	deleterious(0.01)	deleterious(0.896)	HMMPfam_Filament
NEFM	4741	genome.wustl.edu	37	8	24775108	24775108	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_005382.2	+1	reviewed	p.A580	0.000	208	0%	316	26.9%	1	0%	-	-	-	NULL
NEFM	4741	genome.wustl.edu	37	8	24775697	24775697	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_005382.2	+1	reviewed	p.A777S	0.069	192	0%	281	13.5%	0	-	benign(0.312)	tolerated(0.72)	neutral(0.099)	NULL
NEFL	4747	genome.wustl.edu	37	8	24810436	24810436	+	Nonsense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	ENST00000221169	-1	known	p.E507*	0.998	887	0%	1075	26.1%	0	-	-	-	-	NULL
NEFL	4747	genome.wustl.edu	37	8	24811123	24811123	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	ENST00000221169	-1	known	p.I452	0.003	235	0%	317	12.3%	0	-	-	-	-	NULL
NEFL	4747	genome.wustl.edu	37	8	24813234	24813234	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	ENST00000221169	-1	known	p.E266K	1.000	72	0%	138	31.2%	0	-	-	-	-	HMMPfam_Filament
NEFL	4747	genome.wustl.edu	37	8	24813397	24813397	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	ENST00000221169	-1	known	p.K211	1.000	21	0%	28	50%	0	-	-	-	-	HMMPfam_Filament
DOCK5	80005	genome.wustl.edu	37	8	25126365	25126365	+	Nonsense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_024940.6	+1	validated	p.W44*	1.000	402	0%	142	14.1%	1	0%	-	-	-	HMMPfam_SH3_1,HMMSmart_SM00326,superfamily_SH3-domain
DOCK5	80005	genome.wustl.edu	37	8	25191686	25191686	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_024940.6	+1	validated	p.K722N	1.000	360	0%	117	12%	0	-	probably_damaging(0.995)	tolerated(0.12)	deleterious(0.718)	NULL
DOCK5	80005	genome.wustl.edu	37	8	25226097	25226097	+	Missense_Mutation	SNP	A	A	C	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_024940.6	+1	validated	p.K1098N	1.000	213	0%	33	24.2%	1	100%	probably_damaging(1)	deleterious(0)	deleterious(0.945)	NULL
DOCK5	80005	genome.wustl.edu	37	8	25226166	25226166	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	ENST00000444569	+1	known	p.E893K	0.975	273	0%	46	10.9%	2	0%	-	-	-	NULL
DOCK5	80005	genome.wustl.edu	37	8	25234887	25234887	+	Nonsense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_024940.6	+1	validated	p.E1295*	1.000	366	0%	113	23.9%	1	0%	-	-	-	NULL
DOCK5	80005	genome.wustl.edu	37	8	25246734	25246734	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_024940.6	+1	validated	p.S1420L	0.128	133	0%	24	41.7%	0	-	benign(0.045)	deleterious(0.04)	neutral(0.351)	NULL
KCTD9	54793	genome.wustl.edu	37	8	25290947	25290947	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_017634.2	-1	validated	p.A273V	1.000	215	0%	48	18.8%	5	0%	benign(0.229)	deleterious(0)	neutral(0.468)	HMMPfam_Pentapeptide
CDCA2	157313	genome.wustl.edu	37	8	25323826	25323826	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_152562.2	+1	validated	p.E175K	0.000	142	0%	102	23.5%	1	0%	benign(0.001)	tolerated(1)	-	NULL
PPP2R2A	5520	genome.wustl.edu	37	8	26220316	26220316	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_002717.3	+1	reviewed	p.R252W	1.000	218	0.5%	43	30.2%	6	0%	probably_damaging(1)	deleterious(0)	deleterious(0.945)	HMMSmart_SM00320,superfamily_WD40 repeat-like
BNIP3L	665	genome.wustl.edu	37	8	26248874	26248874	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_004331.2	+1	reviewed	p.E72D	1.000	167	0%	211	19.9%	26	7.6%	probably_damaging(0.982)	deleterious(0.03)	deleterious(0.791)	HMMPfam_BNIP3
PNMA2	10687	genome.wustl.edu	37	8	26365827	26365827	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_007257.5	-1	validated	p.A149T	0.884	66	0%	60	10%	0	-	benign(0.002)	tolerated(0.56)	neutral(0.006)	NULL
ADRA1A	148	genome.wustl.edu	37	8	26721997	26721997	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_033303.3	-1	reviewed	p.G164S	1.000	33	0%	87	12.6%	0	-	probably_damaging(1)	deleterious(0.03)	deleterious(0.865)	HMMPfam_7tm_1,superfamily_SSF81321
ADRA1A	148	genome.wustl.edu	37	8	26722238	26722238	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_033303.3	-1	reviewed	p.S83	0.010	99	0%	182	17.6%	0	-	-	-	-	HMMPfam_7tm_1,superfamily_SSF81321
STMN4	81551	genome.wustl.edu	37	8	27099232	27099232	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_030795.2	-1	provisional	p.R51L	0.990	182	0%	152	22.4%	0	-	benign(0.018)	deleterious(0.01)	neutral(0.406)	NULL
PTK2B	2185	genome.wustl.edu	37	8	27288437	27288437	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_004103.3	+1	reviewed	p.Y238	0.398	102	0%	48	16.7%	2	0%	-	-	-	HMMPfam_FERM_M,superfamily_Second domain of FERM,HMMSmart_SM00295
PTK2B	2185	genome.wustl.edu	37	8	27296597	27296597	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_004103.3	+1	reviewed	p.L565M	1.000	207	0%	159	11.3%	3	0%	probably_damaging(1)	deleterious(0)	deleterious(0.945)	HMMPfam_Pkinase_Tyr,HMMSmart_SM00219,HMMSmart_SM00220,superfamily_Protein kinase-like (PK-like)
CHRNA2	1135	genome.wustl.edu	37	8	27320511	27320511	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_000742.3	-1	reviewed	p.E483D	1.000	44	0%	50	14%	0	-	probably_damaging(0.997)	tolerated(0.37)	deleterious(0.485)	HMMPfam_Neur_chan_memb,superfamily_Neurotransmitter-gated ion-channel transmembrane pore
EPHX2	2053	genome.wustl.edu	37	8	27362584	27362584	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001979.4	+1	reviewed	p.S153L	0.996	229	0%	126	15.1%	1	0%	probably_damaging(1)	deleterious(0)	deleterious(0.945)	HMMPfam_Hydrolase,superfamily_SSF56784
CLU	1191	genome.wustl.edu	37	8	27457333	27457333	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001831.2	-1	reviewed	p.T428	0.064	109	0%	64	23.4%	834	4.4%	-	-	-	HMMPfam_Clusterin,HMMSmart_CLa
CLU	1191	genome.wustl.edu	37	8	27462460	27462460	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001831.2	-1	reviewed	p.P322	0.000	156	0%	132	12.1%	599	0.3%	-	-	-	HMMPfam_Clusterin,HMMSmart_CLa
CLU	1191	genome.wustl.edu	37	8	27462760	27462760	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001831.2	-1	reviewed	p.T222	0.016	88	0%	65	12.3%	483	2.2%	-	-	-	HMMPfam_Clusterin,HMMSmart_CLb
SCARA3	51435	genome.wustl.edu	37	8	27516534	27516534	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_016240.2	+1	reviewed	p.L283	1.000	34	0%	20	30%	27	0%	-	-	-	NULL
PBK	55872	genome.wustl.edu	37	8	27667825	27667825	+	Silent	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_018492.2	-1	reviewed	p.V322	0.000	207	0%	90	42.2%	5	40%	-	-	-	NULL
C8orf80	389643	genome.wustl.edu	37	8	27903134	27903134	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001010906.1	-1	provisional	p.D452	0.981	481	0%	132	29.5%	1	0%	-	-	-	NULL
C8orf80	389643	genome.wustl.edu	37	8	27925807	27925807	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001010906.1	-1	provisional	p.T136A	0.206	185	0%	103	27.2%	1	0%	probably_damaging(0.998)	deleterious(0)	deleterious(0.919)	superfamily_P-loop containing nucleoside triphosphate hydrolases
ELP3	55140	genome.wustl.edu	37	8	28013464	28013464	+	Missense_Mutation	SNP	T	T	G	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_018091.5	+1	validated	p.I369S	1.000	224	0%	64	17.2%	10	40%	probably_damaging(0.996)	deleterious(0)	deleterious(0.906)	NULL
EXTL3	2137	genome.wustl.edu	37	8	28574623	28574623	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001440.2	+1	provisional	p.K349	1.000	93	0%	51	29.4%	2	0%	-	-	-	HMMPfam_Exostosin
INTS9	55756	genome.wustl.edu	37	8	28625704	28625704	+	Nonsense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_018250.3	-1	reviewed	p.R646*	0.290	175	0.6%	153	13.1%	19	31.5%	-	-	-	NULL
INTS9	55756	genome.wustl.edu	37	8	28638486	28638486	+	Missense_Mutation	SNP	T	T	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_018250.3	-1	reviewed	p.H375L	1.000	143	0%	53	24.5%	6	0%	benign(0.104)	tolerated(0.35)	neutral(0.029)	NULL
HMBOX1	79618	genome.wustl.edu	37	8	28837637	28837637	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001135726.1	+1	validated	p.R184W	1.000	529	0%	265	25.7%	2	50%	probably_damaging(0.997)	deleterious(0.01)	deleterious(0.872)	superfamily_lambda repressor-like DNA-binding domains
HMBOX1	79618	genome.wustl.edu	37	8	28908640	28908640	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001135726.1	+1	validated	p.E411K	1.000	222	0%	100	13%	2	0%	benign(0.323)	deleterious(0.02)	deleterious(0.484)	NULL
KIF13B	23303	genome.wustl.edu	37	8	28981558	28981558	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_015254.3	-1	validated	p.K1112R	1.000	719	0%	229	19.2%	2	0%	probably_damaging(0.965)	tolerated(0.18)	neutral(0.463)	NULL
KIF13B	23303	genome.wustl.edu	37	8	28989877	28989877	+	Missense_Mutation	SNP	C	C	T	rs12549991	byHapMap	TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_015254.3	-1	validated	p.A964T	1.000	339	0%	70	17.1%	2	0%	benign(0.023)	tolerated(0.5)	neutral(0.011)	NULL
KIF13B	23303	genome.wustl.edu	37	8	29005050	29005050	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_015254.3	-1	validated	p.R628H	1.000	279	0%	99	20.2%	1	0%	probably_damaging(0.998)	deleterious(0.01)	deleterious(0.880)	NULL
KIF13B	23303	genome.wustl.edu	37	8	29013254	29013254	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_015254.3	-1	validated	p.Q508H	0.887	335	0%	81	14.8%	4	0%	benign(0)	tolerated(0.19)	neutral(0.050)	HMMPfam_FHA,superfamily_SMAD/FHA domain
DUSP4	1846	genome.wustl.edu	37	8	29194807	29194807	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001394.5	-1	reviewed	p.F307	0.997	22	0%	26	19.2%	12	41.6%	-	-	-	HMMPfam_DSPc,HMMSmart_SM00404,HMMSmart_SM00195,superfamily_(Phosphotyrosine protein) phosphatases II
TMEM66	51669	genome.wustl.edu	37	8	29927302	29927302	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_016127.4	-1	provisional	p.A186T	1.000	147	0%	69	17.4%	137	0%	probably_damaging(0.959)	tolerated(0.28)	neutral(0.434)	HMMPfam_DUF1183
MBOAT4	619373	genome.wustl.edu	37	8	29990025	29990025	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001100916.1	-1	validated	p.A248S	0.920	171	0%	65	21.5%	1	0%	possibly_damaging(0.477)	tolerated(0.69)	neutral(0.160)	HMMPfam_MBOAT
DCTN6	10671	genome.wustl.edu	37	8	30021657	30021657	+	Silent	SNP	T	T	C	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_006571.2	+1	reviewed	p.C18	1.000	371	0%	217	11.5%	16	6.2%	possibly_damaging(0.952)	deleterious(0)	deleterious(0.840)	HMMPfam_Hexapep,superfamily_Trimeric LpxA-like enzymes
DCTN6	10671	genome.wustl.edu	37	8	30021691	30021691	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_006571.2	+1	reviewed	p.G30R	1.000	333	0.3%	163	12.3%	24	0%	probably_damaging(1)	deleterious(0)	deleterious(0.945)	HMMPfam_Hexapep,superfamily_Trimeric LpxA-like enzymes
TEX15	56154	genome.wustl.edu	37	8	30700762	30700762	+	Silent	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_031271.3	-1	validated	p.A1924	0.153	465	0%	94	23.4%	0	-	-	-	-	NULL
TEX15	56154	genome.wustl.edu	37	8	30701194	30701194	+	Nonsense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_031271.3	-1	validated	p.Y1780*	1.000	230	0%	63	23.8%	0	-	-	-	-	NULL
TEX15	56154	genome.wustl.edu	37	8	30703725	30703725	+	Nonsense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_031271.3	-1	validated	p.R937*	0.000	262	0.8%	92	18.5%	0	-	-	-	-	NULL
TEX15	56154	genome.wustl.edu	37	8	30704240	30704240	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_031271.3	-1	validated	p.T765I	0.000	173	0%	47	34%	0	-	benign(0.001)	tolerated(0.43)	neutral(0.013)	NULL
TEX15	56154	genome.wustl.edu	37	8	30704939	30704939	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_031271.3	-1	validated	p.S532F	0.988	260	0%	89	16.9%	0	-	probably_damaging(0.991)	deleterious(0)	deleterious(0.889)	NULL
PURG	29942	genome.wustl.edu	37	8	30889261	30889261	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_013357.2	-1	reviewed	p.L346	1.000	611	0%	851	12.2%	0	-	-	-	-	NULL
WRN	7486	genome.wustl.edu	37	8	30916001	30916001	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_000553.4	+1	reviewed	p.R13Q	0.954	424	0%	87	20.7%	0	-	probably_damaging(0.987)	deleterious(0)	deleterious(0.881)	NULL
WRN	7486	genome.wustl.edu	37	8	30998956	30998956	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_000553.4	+1	reviewed	p.R993H	1.000	248	0%	96	21.9%	0	-	probably_damaging(0.999)	deleterious(0)	deleterious(0.935)	HMMPfam_RQC,superfamily_P-loop containing nucleoside triphosphate hydrolases
WRN	7486	genome.wustl.edu	37	8	30999274	30999274	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_000553.4	+1	reviewed	p.K1072N	0.001	539	0%	218	27.1%	1	0%	benign(0.304)	deleterious(0.02)	deleterious(0.478)	NULL
NRG1	3084	genome.wustl.edu	37	8	32463192	32463192	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_013956.3	+1	reviewed	p.E131K	0.914	206	0%	39	20.5%	0	-	benign(0.041)	tolerated(0.06)	neutral(0.325)	superfamily_SSF48726
NRG1	3084	genome.wustl.edu	37	8	32611940	32611940	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_013956.3	+1	reviewed	p.I256V	1.000	259	0%	77	15.6%	0	-	possibly_damaging(0.485)	tolerated(0.96)	neutral(0.161)	HMMPfam_Neuregulin
NRG1	3084	genome.wustl.edu	37	8	32621515	32621515	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_013956.3	+1	reviewed	p.A511	0.092	114	0%	44	38.6%	1	0%	-	-	-	HMMPfam_Neuregulin
FUT10	84750	genome.wustl.edu	37	8	33318963	33318963	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_032664.3	-1	validated	p.R3Q	0.002	99	0%	35	17.1%	0	-	probably_damaging(0.971)	tolerated(0.25)	neutral(0.450)	NULL
MAK16	84549	genome.wustl.edu	37	8	33346658	33346658	+	Splice_Site	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_032509.3	+1	validated	e5+1	1.000	326	0%	337	23.1%	0	-	-	-	-	-
TTI2	80185	genome.wustl.edu	37	8	33361294	33361294	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001102401.1	-1	validated	p.A363T	0.970	102	0%	79	24.1%	22	9%	possibly_damaging(0.842)	tolerated(0.15)	deleterious(0.563)	HMMPfam_DUF2454
DUSP26	78986	genome.wustl.edu	37	8	33451237	33451237	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_024025.1	-1	provisional	p.R84C	0.948	58	0%	59	22%	0	-	possibly_damaging(0.473)	tolerated(0.1)	neutral(0.443)	HMMPfam_DSPc,HMMSmart_SM00195,superfamily_(Phosphotyrosine protein) phosphatases II
UNC5D	137970	genome.wustl.edu	37	8	35579744	35579744	+	Silent	SNP	C	C	T	rs188758803	by1000genomes	TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_080872.2	+1	validated	p.S378	0.969	332	0%	82	26.8%	0	-	-	-	-	NULL
UNC5D	137970	genome.wustl.edu	37	8	35583875	35583875	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_080872.2	+1	validated	p.G503	1.000	269	0%	69	23.2%	1	0%	-	-	-	NULL
UNC5D	137970	genome.wustl.edu	37	8	35616865	35616865	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_080872.2	+1	validated	p.G731C	1.000	260	0%	49	16.3%	0	-	probably_damaging(1)	deleterious(0)	deleterious(0.945)	NULL
KCNU1	157855	genome.wustl.edu	37	8	36642062	36642062	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001031836.2	+1	validated	p.F45S	0.000	424	0%	103	13.6%	0	-	benign(0.001)	tolerated(0.1)	neutral(0.286)	NULL
KCNU1	157855	genome.wustl.edu	37	8	36698508	36698508	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001031836.2	+1	validated	p.T564A	0.000	538	0%	240	11.3%	0	-	benign(0.105)	tolerated(0.27)	neutral(0.042)	NULL
BRF2	55290	genome.wustl.edu	37	8	37702170	37702170	+	Silent	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_018310.2	-1	reviewed	p.P366	0.076	91	0%	131	26.7%	6	0%	-	-	-	NULL
RAB11FIP1	80223	genome.wustl.edu	37	8	37729011	37729011	+	Silent	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001002814.2	-1	validated	p.I1103	0.002	435	0%	192	22.4%	2	50%	-	-	-	NULL
RAB11FIP1	80223	genome.wustl.edu	37	8	37729898	37729898	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001002814.2	-1	validated	p.R808C	0.945	69	0%	47	14.9%	0	-	probably_damaging(1)	deleterious(0)	deleterious(0.945)	NULL
ASH2L	9070	genome.wustl.edu	37	8	37991037	37991037	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_004674.3	+1	validated	p.K531N	1.000	193	0.5%	93	19.4%	9	0%	possibly_damaging(0.736)	deleterious(0)	deleterious(0.714)	HMMSmart_SM00449
ASH2L	9070	genome.wustl.edu	37	8	37996368	37996368	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_004674.3	+1	validated	p.P585H	1.000	527	0%	214	30.8%	24	12.5%	probably_damaging(0.999)	deleterious(0.01)	deleterious(0.896)	NULL
STAR	6770	genome.wustl.edu	37	8	38002748	38002748	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_000349.2	-1	reviewed	p.D246N	1.000	108	0.9%	84	16.7%	0	-	probably_damaging(1)	tolerated(0.08)	deleterious(0.800)	HMMPfam_START,HMMSmart_SM00234,superfamily_Bet v1-like
STAR	6770	genome.wustl.edu	37	8	38003626	38003626	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_000349.2	-1	reviewed	p.E169K	0.999	70	0%	46	28.3%	0	-	probably_damaging(1)	deleterious(0.01)	deleterious(0.905)	HMMPfam_START,HMMSmart_SM00234,superfamily_Bet v1-like
BAG4	9530	genome.wustl.edu	37	8	38067790	38067790	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_004874.2	+1	reviewed	p.H385N	1.000	111	0%	52	21.2%	4	50%	possibly_damaging(0.794)	deleterious(0.03)	deleterious(0.662)	HMMPfam_BAG,HMMSmart_BAG,superfamily_SSF63491
TACC1	6867	genome.wustl.edu	37	8	38677831	38677831	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_006283.2	+1	reviewed	p.G357C	0.768	117	0%	46	23.9%	2	0%	benign(0.002)	deleterious(0.02)	neutral(0.383)	NULL
PLEKHA2	59339	genome.wustl.edu	37	8	38803740	38803740	+	Splice_Site	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	ENST00000420274	+1	known	e4+1	0.999	238	0.4%	87	26.4%	0	-	-	-	-	-
ADAM9	8754	genome.wustl.edu	37	8	38874932	38874932	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_003816.2	+1	reviewed	p.R202Q	1.000	113	0%	66	18.2%	3	33.3%	probably_damaging(0.988)	deleterious(0.03)	deleterious(0.802)	NULL
ADAM2	2515	genome.wustl.edu	37	8	39679151	39679151	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001464.3	-1	reviewed	p.G100C	0.999	378	0%	66	18.2%	0	-	probably_damaging(1)	deleterious(0.02)	deleterious(0.883)	HMMPfam_Pep_M12B_propep
C8orf4	56892	genome.wustl.edu	37	8	40011188	40011188	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_020130.3	+1	reviewed	p.E46G	0.993	325	0%	116	25%	117	44.4%	benign(0.054)	deleterious(0.02)	neutral(0.387)	NULL
GINS4	84296	genome.wustl.edu	37	8	41397229	41397229	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_032336.2	+1	validated	p.K110N	1.000	135	0%	97	24.7%	3	100%	probably_damaging(0.997)	tolerated(0.23)	deleterious(0.508)	HMMPfam_Sld5
ANK1	286	genome.wustl.edu	37	8	41530063	41530063	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001142446.1	-1	reviewed	p.I1676	0.999	289	0.3%	246	14.2%	0	-	-	-	-	NULL
ANK1	286	genome.wustl.edu	37	8	41561903	41561903	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001142446.1	-1	reviewed	p.A762T	1.000	117	0%	161	26.1%	0	-	possibly_damaging(0.924)	tolerated(0.07)	deleterious(0.692)	HMMPfam_Ank,HMMSmart_ANK,superfamily_ANK
KAT6A	7994	genome.wustl.edu	37	8	41791549	41791549	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001099412.1	-1	validated	p.E1397K	0.999	302	0%	492	25.6%	4	25%	benign(0.073)	tolerated(0.25)	neutral(0.042)	NULL
KAT6A	7994	genome.wustl.edu	37	8	41906492	41906492	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001099412.1	-1	validated	p.V2I	1.000	325	0.3%	397	28.7%	0	-	unknown(0)	deleterious(0)	-	NULL
AP3M2	10947	genome.wustl.edu	37	8	42012468	42012468	+	Missense_Mutation	SNP	A	A	C	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001134296.1	+1	reviewed	p.D88A	1.000	249	0%	356	19.9%	0	-	benign(0.07)	tolerated(0.08)	neutral(0.305)	HMMPfam_Clat_adaptor_s,superfamily_SNARE-like
PLAT	5327	genome.wustl.edu	37	8	42033667	42033667	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_000930.3	-1	reviewed	p.G511	0.494	115	0.9%	103	24.3%	48	2%	-	-	-	HMMPfam_Trypsin,HMMSmart_SM00020,superfamily_Trypsin-like serine proteases,PatternScan_TRYPSIN_SER
PLAT	5327	genome.wustl.edu	37	8	42048920	42048920	+	Nonsense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_000930.3	-1	reviewed	p.R29*	0.288	172	0.6%	106	23.6%	9	0%	-	-	-	NULL
SLC20A2	6575	genome.wustl.edu	37	8	42297066	42297066	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_006749.3	-1	provisional	p.A279V	0.366	402	0.2%	392	13.8%	3	0%	benign(0)	tolerated(0.49)	neutral(0.011)	HMMPfam_PHO4
SLC20A2	6575	genome.wustl.edu	37	8	42329665	42329665	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_006749.3	-1	provisional	p.E82K	0.990	185	0%	72	26.4%	5	0%	benign(0.057)	tolerated(0.32)	neutral(0.028)	HMMPfam_PHO4
CHRNB3	1142	genome.wustl.edu	37	8	42586919	42586919	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_000749.3	+1	validated	p.V157I	1.000	82	0%	53	17%	0	-	benign(0.383)	deleterious(0.05)	neutral(0.468)	HMMPfam_Neur_chan_LBD,superfamily_Nicotinic receptor ligand binding domain-like,PatternScan_NEUROTR_ION_CHANNEL
CHRNB3	1142	genome.wustl.edu	37	8	42586945	42586945	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_000749.3	+1	validated	p.Q165H	1.000	94	0%	63	9.5%	0	-	probably_damaging(0.999)	deleterious(0)	deleterious(0.935)	HMMPfam_Neur_chan_LBD,superfamily_Nicotinic receptor ligand binding domain-like,PatternScan_NEUROTR_ION_CHANNEL
CHRNA6	8973	genome.wustl.edu	37	8	42612091	42612091	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_004198.2	-1	provisional	p.P118	0.992	346	0%	143	11.2%	0	-	-	-	-	HMMPfam_Neur_chan_LBD,superfamily_Nicotinic receptor ligand binding domain-like
POTEA	340441	genome.wustl.edu	37	8	43172521	43172521	+	Missense_Mutation	SNP	A	A	C	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001005365.2	+1	validated	p.N334H	0.004	412	0%	138	13.8%	0	-	-	-	-	NULL
KIAA0146	23514	genome.wustl.edu	37	8	48612970	48612970	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001080394.1	+1	predicted	p.A564V	0.002	420	0%	225	25.8%	6	0%	benign(0.001)	deleterious(0.03)	neutral(0.364)	NULL
PRKDC	5591	genome.wustl.edu	37	8	48710934	48710934	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	ENST00000314191	-1	known	p.A3440V	0.000	260	0%	97	23.7%	7	0%	benign(0)	tolerated(0.32)	neutral(0.024)	HMMPfam_FAT
PRKDC	5591	genome.wustl.edu	37	8	48713457	48713457	+	Nonsense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001081640.1	-1	validated	p.R3338*	0.997	245	0%	121	27.3%	4	0%	benign(0.327)	tolerated(0.85)	neutral(0.103)	NULL
PRKDC	5591	genome.wustl.edu	37	8	48761741	48761741	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	ENST00000314191	-1	known	p.K2417N	1.000	254	0%	122	17.2%	0	-	probably_damaging(0.995)	deleterious(0.02)	deleterious(0.841)	superfamily_ARM repeat
PRKDC	5591	genome.wustl.edu	37	8	48794065	48794065	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	ENST00000314191	-1	known	p.S1659Y	0.998	212	0%	98	20.4%	1	100%	possibly_damaging(0.682)	deleterious(0.05)	deleterious(0.589)	superfamily_ARM repeat
PRKDC	5591	genome.wustl.edu	37	8	48802881	48802881	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001081640.1	-1	validated	p.P1336L	0.110	476	0%	208	27.4%	1	100%	-	-	-	NULL
MCM4	4173	genome.wustl.edu	37	8	48882366	48882366	+	Nonsense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_005914.2	+1	reviewed	p.R395*	1.000	147	0%	135	25.9%	4	0%	-	-	-	HMMSmart_MCM,superfamily_Nucleic_acid_OB
MCM4	4173	genome.wustl.edu	37	8	48887405	48887405	+	Missense_Mutation	SNP	T	T	G	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_005914.2	+1	reviewed	p.S750A	1.000	192	0%	115	19.1%	15	40%	possibly_damaging(0.447)	deleterious(0.05)	deleterious(0.491)	HMMPfam_MCM,HMMSmart_MCM,superfamily_SSF52540
UBE2V2	7336	genome.wustl.edu	37	8	48955714	48955714	+	Nonsense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_003350.2	+1	reviewed	p.W46*	1.000	186	0%	77	13%	13	0%	-	-	-	HMMPfam_UQ_con,HMMSmart_SM00212,superfamily_UBC-like
SNTG1	54212	genome.wustl.edu	37	8	51449329	51449329	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_018967.2	+1	reviewed	p.S214L	0.997	328	0%	35	31.4%	0	-	benign(0.039)	deleterious(0)	neutral(0.447)	HMMSmart_SM00233,superfamily_PH domain-like
PXDNL	137902	genome.wustl.edu	37	8	52320918	52320918	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_144651.4	-1	validated	p.S1089F	0.961	147	0%	251	27.5%	0	-	benign(0)	tolerated(1)	-	HMMPfam_An_peroxidase,superfamily_Heme-dependent peroxidases
PXDNL	137902	genome.wustl.edu	37	8	52321055	52321055	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_144651.4	-1	validated	p.G1043	0.622	77	0%	124	24.2%	0	-	-	-	-	HMMPfam_An_peroxidase,superfamily_Heme-dependent peroxidases
ST18	9705	genome.wustl.edu	37	8	53084732	53084732	+	Missense_Mutation	SNP	A	A	C	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_014682.2	-1	validated	p.L230R	0.044	251	0%	120	11.7%	0	-	benign(0.235)	deleterious(0)	neutral(0.468)	NULL
ST18	9705	genome.wustl.edu	37	8	53126787	53126787	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_014682.2	-1	validated	p.R11C	0.200	319	0%	82	26.8%	0	-	benign(0.028)	deleterious(0.01)	neutral(0.407)	NULL
RB1CC1	9821	genome.wustl.edu	37	8	53569316	53569316	+	Missense_Mutation	SNP	T	T	G	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_014781.4	-1	reviewed	p.I1025L	0.619	228	0%	85	30.6%	6	0%	benign(0)	tolerated(0.66)	neutral(0.003)	NULL
RB1CC1	9821	genome.wustl.edu	37	8	53574279	53574279	+	Nonsense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_014781.4	-1	reviewed	p.G392*	1.000	200	0%	42	31%	1	0%	-	-	-	NULL
RB1CC1	9821	genome.wustl.edu	37	8	53596200	53596200	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_014781.4	-1	reviewed	p.S93L	1.000	144	0%	22	18.2%	1	0%	probably_damaging(0.958)	deleterious(0.04)	deleterious(0.750)	NULL
RGS20	8601	genome.wustl.edu	37	8	54866762	54866762	+	Silent	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_170587.2	+1	validated	p.L290	0.998	178	0.6%	84	25%	0	-	-	-	-	HMMPfam_RGS,HMMSmart_SM00315,superfamily_Regulator of G-protein signaling RGS
TCEA1	6917	genome.wustl.edu	37	8	54900802	54900802	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_006756.2	-1	validated	p.V113A	0.065	278	0%	120	20.8%	4	0%	benign(0)	tolerated(0.76)	neutral(0.001)	NULL
RP1	6101	genome.wustl.edu	37	8	55540443	55540443	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_006269.1	+1	reviewed	p.V1334A	0.000	155	0%	135	22.2%	0	-	benign(0.014)	deleterious(0)	neutral(0.445)	NULL
RP1	6101	genome.wustl.edu	37	8	55540838	55540838	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_006269.1	+1	reviewed	p.E1466K	1.000	91	0%	72	13.9%	0	-	probably_damaging(0.998)	tolerated(0.21)	deleterious(0.518)	NULL
RP1	6101	genome.wustl.edu	37	8	55541300	55541300	+	Nonsense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_006269.1	+1	reviewed	p.E1620*	0.780	124	0%	126	25.4%	0	-	-	-	-	NULL
RP1	6101	genome.wustl.edu	37	8	55542255	55542255	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_006269.1	+1	reviewed	p.R1938H	0.964	158	0%	97	27.8%	1	0%	probably_damaging(0.989)	tolerated(0.13)	deleterious(0.692)	NULL
XKR4	114786	genome.wustl.edu	37	8	56435862	56435862	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_052898.1	+1	provisional	p.L343	0.017	102	1%	91	35.2%	0	-	-	-	-	HMMPfam_XK-related
XKR4	114786	genome.wustl.edu	37	8	56436509	56436509	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_052898.1	+1	provisional	p.R559H	0.997	87	0%	59	32.2%	0	-	probably_damaging(0.996)	deleterious(0.04)	deleterious(0.810)	NULL
TMEM68	137695	genome.wustl.edu	37	8	56675283	56675283	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_152417.1	-1	provisional	p.V79A	0.986	155	0%	105	18.1%	5	20%	benign(0.009)	tolerated(0.66)	neutral(0.003)	NULL
TGS1	96764	genome.wustl.edu	37	8	56723456	56723456	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_024831.6	+1	validated	p.I720	0.712	513	0%	174	19.5%	4	25%	-	-	-	HMMPfam_Methyltransf_15,superfamily_S-adenosyl-L-methionine-dependent methyltransferases
LYN	4067	genome.wustl.edu	37	8	56866444	56866444	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_002350.2	+1	validated	p.P231S	1.000	278	0%	125	26.4%	5	0%	benign(0.006)	deleterious(0.02)	neutral(0.383)	superfamily_Protein kinase-like (PK-like),superfamily_SH2 domain
LYN	4067	genome.wustl.edu	37	8	56882302	56882302	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_002350.2	+1	validated	p.D334N	0.073	365	0%	138	13.8%	4	0%	benign(0.027)	tolerated(0.22)	neutral(0.044)	HMMPfam_Pkinase_Tyr,HMMSmart_SM00219,HMMSmart_SM00220,superfamily_Protein kinase-like (PK-like)
RPS20	6224	genome.wustl.edu	37	8	56985755	56985755	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001023.3	-1	reviewed	p.H85R	1.000	347	0%	507	24.3%	4644	25.6%	probably_damaging(0.995)	deleterious(0)	deleterious(0.902)	HMMPfam_Ribosomal_S10,superfamily_Ribosomal protein S10
MOS	4342	genome.wustl.edu	37	8	57025876	57025876	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_005372.1	-1	validated	p.C222	1.000	90	0%	154	25.3%	0	-	-	-	-	superfamily_Kinase_like,HMMPfam_Pkinase
MOS	4342	genome.wustl.edu	37	8	57026018	57026018	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_005372.1	-1	validated	p.L175S	0.095	46	0%	91	24.2%	0	-	probably_damaging(0.998)	deleterious(0)	deleterious(0.919)	superfamily_Kinase_like,HMMPfam_Pkinase
MOS	4342	genome.wustl.edu	37	8	57026409	57026409	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_005372.1	-1	validated	p.R45W	0.151	25	0%	54	22.2%	0	-	probably_damaging(0.991)	deleterious(0)	deleterious(0.889)	superfamily_Kinase_like
PLAG1	5324	genome.wustl.edu	37	8	57079301	57079301	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001114634.1	-1	reviewed	p.P335L	0.998	212	0%	135	17.8%	0	-	probably_damaging(0.996)	tolerated(0.05)	deleterious(0.807)	NULL
PENK	5179	genome.wustl.edu	37	8	57354481	57354481	+	Missense_Mutation	SNP	A	A	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001135690.1	-1	validated	p.C52S	1.000	115	0%	164	28.7%	0	-	probably_damaging(1)	deleterious(0)	deleterious(0.945)	HMMPfam_Opiods_neuropep,PatternScan_OPIOIDS_PRECURSOR
FAM110B	90362	genome.wustl.edu	37	8	59059116	59059116	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_147189.2	+1	validated	p.S109	0.873	29	0%	62	27.4%	0	-	-	-	-	NULL
FAM110B	90362	genome.wustl.edu	37	8	59059488	59059488	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_147189.2	+1	validated	p.I233	0.000	98	0%	209	27.3%	2	0%	-	-	-	NULL
NSMAF	8439	genome.wustl.edu	37	8	59522239	59522239	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001144772.1	-1	reviewed	p.T235M	0.997	247	0%	63	12.7%	0	-	possibly_damaging(0.933)	deleterious(0.03)	deleterious(0.744)	HMMPfam_GRAM,HMMSmart_SM00568,superfamily_PH domain-like
TOX	9760	genome.wustl.edu	37	8	59720727	59720727	+	Silent	SNP	T	T	C	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_014729.2	-1	reviewed	p.R498	1.000	166	0%	47	10.6%	4	0%	-	-	-	NULL
TOX	9760	genome.wustl.edu	37	8	59728223	59728223	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_014729.2	-1	reviewed	p.P356S	1.000	340	0%	160	26.3%	4	25%	benign(0.007)	tolerated(0.54)	neutral(0.007)	NULL
CHD7	55636	genome.wustl.edu	37	8	61757872	61757872	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_017780.2	+1	reviewed	p.P1705L	0.996	139	0%	53	20.8%	3	0%	benign(0.015)	tolerated(0.74)	neutral(0.002)	NULL
CHD7	55636	genome.wustl.edu	37	8	61764653	61764653	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_017780.2	+1	reviewed	p.R1914H	1.000	58	0%	21	19%	1	100%	probably_damaging(1)	deleterious(0)	deleterious(0.945)	NULL
ASPH	444	genome.wustl.edu	37	8	62588696	62588696	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	ENST00000379449	-1	known	p.T184A	1.000	351	0%	96	24%	0	-	benign(0.389)	tolerated(0.31)	neutral(0.151)	HMMPfam_Asp-B-Hydro_N
ENSG00000237810	0	genome.wustl.edu	37	8	63056776	63056776	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	ENST00000433538	-1	known	p.L147M	1.000	99	0%	95	26.3%	0	-	-	-	-	HMMSmart_SM00220,superfamily_Protein kinase-like (PK-like),HMMPfam_Pkinase
ENSG00000237810	0	genome.wustl.edu	37	8	63056971	63056971	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	ENST00000433538	-1	known	p.F88	0.813	64	0%	64	25%	0	-	-	-	-	HMMSmart_SM00220,superfamily_Protein kinase-like (PK-like),HMMPfam_Pkinase
NKAIN3	286183	genome.wustl.edu	37	8	63492147	63492147	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_173688.2	+1	provisional	p.A35V	0.997	615	0%	136	13.2%	0	-	probably_damaging(0.979)	deleterious(0.03)	deleterious(0.786)	HMMPfam_NKAIN
NKAIN3	286183	genome.wustl.edu	37	8	63659559	63659559	+	Silent	SNP	T	T	C	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_173688.2	+1	provisional	p.C114	1.000	248	0%	175	14.3%	0	-	-	-	-	HMMPfam_NKAIN
TTPA	7274	genome.wustl.edu	37	8	63976798	63976798	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_000370.3	-1	reviewed	p.I210	1.000	448	0%	180	13.9%	0	-	-	-	-	HMMPfam_CRAL_TRIO,HMMSmart_SEC14,superfamily_CRAL_TRIO_C
CYP7B1	9420	genome.wustl.edu	37	8	65517390	65517390	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_004820.3	-1	reviewed	p.R361Q	0.842	229	0%	71	16.9%	0	-	probably_damaging(1)	deleterious(0)	deleterious(0.945)	HMMPfam_p450,superfamily_Cytochrome P450
TRIM55	84675	genome.wustl.edu	37	8	67049423	67049423	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_184085.1	+1	reviewed	p.E201K	1.000	65	0%	21	19%	0	-	possibly_damaging(0.481)	tolerated(0.12)	neutral(0.420)	NULL
TRIM55	84675	genome.wustl.edu	37	8	67064700	67064700	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_184085.1	+1	reviewed	p.E358D	1.000	179	0%	91	18.7%	0	-	benign(0.168)	tolerated(0.27)	neutral(0.049)	NULL
RRS1	23212	genome.wustl.edu	37	8	67341477	67341477	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_015169.3	+1	validated	p.G37	0.822	28	0%	52	32.7%	7	0%	-	-	-	HMMPfam_RRS1
C8orf46	254778	genome.wustl.edu	37	8	67417667	67417667	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_152765.3	+1	validated	p.G62R	0.003	8	0.000	23	0.261	0	-	benign(0.042)	tolerated(0.17)	neutral(0.061)	NULL
C8orf46	254778	genome.wustl.edu	37	8	67425779	67425779	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_152765.3	+1	validated	p.P116L	0.996	77	0%	91	25.3%	0	-	probably_damaging(0.991)	deleterious(0)	deleterious(0.889)	NULL
VCPIP1	80124	genome.wustl.edu	37	8	67546885	67546885	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_025054.4	-1	validated	p.T1174A	1.000	210	0%	53	18.9%	7	71.4%	benign(0)	deleterious(0.01)	neutral(0.406)	NULL
VCPIP1	80124	genome.wustl.edu	37	8	67577934	67577934	+	Silent	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_025054.4	-1	validated	p.V420	1.000	165	0%	201	12.9%	1	0%	-	-	-	NULL
VCPIP1	80124	genome.wustl.edu	37	8	67578664	67578664	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_025054.4	-1	validated	p.T177I	1.000	92	0%	121	18.2%	3	33.3%	possibly_damaging(0.662)	tolerated(0.35)	neutral(0.255)	NULL
C8orf44	56260	genome.wustl.edu	37	8	67592036	67592036	+	Silent	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_019607.1	+1	provisional	p.I109	0.007	268	0.4%	186	11.8%	5	0%	-	-	-	NULL
CSPP1	79848	genome.wustl.edu	37	8	68105798	68105798	+	Nonsense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001077204.1	+1	validated	p.R1174*	1.000	365	0%	90	25.6%	5	40%	-	-	-	NULL
ARFGEF1	10565	genome.wustl.edu	37	8	68112705	68112705	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_006421.3	-1	reviewed	p.E1771K	1.000	412	0%	79	8.9%	7	0%	probably_damaging(0.973)	deleterious(0)	deleterious(0.859)	NULL
ARFGEF1	10565	genome.wustl.edu	37	8	68200271	68200271	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_006421.3	-1	reviewed	p.G316R	1.000	599	0%	105	21%	1	0%	benign(0)	tolerated(0.44)	neutral(0.013)	superfamily_ARM-type_fold
CPA6	57094	genome.wustl.edu	37	8	68396944	68396944	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_020361.4	-1	validated	p.N239	0.839	357	0%	116	17.2%	0	-	-	-	-	HMMPfam_Peptidase_M14,HMMSmart_SM00631,superfamily_Zn-dependent exopeptidases
CPA6	57094	genome.wustl.edu	37	8	68419114	68419114	+	Nonsense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_020361.4	-1	validated	p.R182*	1.000	309	0%	94	30.9%	0	-	-	-	-	HMMPfam_Peptidase_M14,HMMSmart_SM00631,superfamily_Zn-dependent exopeptidases
PREX2	80243	genome.wustl.edu	37	8	68930119	68930119	+	Missense_Mutation	SNP	A	A	C	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_024870.2	+1	validated	p.K60N	0.984	336	0%	72	25%	0	-	possibly_damaging(0.731)	deleterious(0.02)	deleterious(0.650)	HMMPfam_RhoGEF,HMMSmart_SM00325,superfamily_DBL homology domain (DH-domain)
PREX2	80243	genome.wustl.edu	37	8	68950500	68950500	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_024870.2	+1	validated	p.L271P	1.000	288	0%	48	25%	1	100%	probably_damaging(0.999)	deleterious(0)	deleterious(0.935)	HMMPfam_PH,HMMSmart_SM00233,superfamily_PH domain-like
PREX2	80243	genome.wustl.edu	37	8	68989631	68989631	+	Splice_Site	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_024870.2	+1	validated	e15-1	1.000	368	0%	89	12.4%	0	-	-	-	-	-
PREX2	80243	genome.wustl.edu	37	8	68992691	68992691	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_024870.2	+1	validated	p.S552	1.000	297	0%	78	17.9%	0	-	-	-	-	"HMMPfam_DEP,HMMSmart_SM00049,superfamily_""Winged helix"" DNA-binding domain"
PREX2	80243	genome.wustl.edu	37	8	69009347	69009347	+	Missense_Mutation	SNP	G	G	A	rs190776975	by1000genomes	TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_024870.2	+1	validated	p.V822M	0.995	214	0%	42	38.1%	0	-	benign(0.031)	tolerated(0.16)	neutral(0.061)	NULL
C8orf34	116328	genome.wustl.edu	37	8	69445285	69445285	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_052958.1	+1	predicted	p.A225T	1.000	320	0%	107	27.1%	1	0%	probably_damaging(1)	deleterious(0)	deleterious(0.945)	NULL
SULF1	23213	genome.wustl.edu	37	8	70476349	70476349	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001128204.1	+1	validated	p.L47I	0.998	266	0%	66	16.7%	6	0%	probably_damaging(0.988)	deleterious(0)	deleterious(0.882)	HMMPfam_Sulfatase,superfamily_Alkaline_phosphatase_core
SULF1	23213	genome.wustl.edu	37	8	70501205	70501205	+	Splice_Site	SNP	A	A	G	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001128204.1	+1	validated	e4-2	1.000	154	0%	49	12.2%	0	-	-	-	-	-
SULF1	23213	genome.wustl.edu	37	8	70539523	70539523	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001128204.1	+1	validated	p.K643N	1.000	393	0%	663	13.6%	6	0%	probably_damaging(1)	deleterious(0.01)	deleterious(0.905)	superfamily_Alkaline_phosphatase_core
LOC100288066	100288066	genome.wustl.edu	37	8	70585410	70585410	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	XM_002342855.1	+1	model	p.E180K	0.959	149	0%	45	35.6%	0	-	-	-	-	NULL
SLCO5A1	81796	genome.wustl.edu	37	8	70667679	70667679	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_030958.2	-1	reviewed	p.G413V	1.000	436	0%	109	22%	0	-	probably_damaging(0.997)	deleterious(0.02)	deleterious(0.849)	HMMPfam_OATP,superfamily_MFS_gen_substrate_transporter
SLCO5A1	81796	genome.wustl.edu	37	8	70667740	70667740	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_030958.2	-1	reviewed	p.D393N	1.000	455	0%	88	17%	0	-	possibly_damaging(0.741)	tolerated(0.18)	neutral(0.328)	HMMPfam_OATP,superfamily_MFS_gen_substrate_transporter
NCOA2	10499	genome.wustl.edu	37	8	71074996	71074996	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_006540.2	-1	validated	p.A309V	0.219	189	0%	55	27.3%	0	-	benign(0.005)	tolerated(0.53)	neutral(0.007)	superfamily_SSF55785
NCOA2	10499	genome.wustl.edu	37	8	71078841	71078841	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_006540.2	-1	validated	p.F230	0.999	258	0%	68	22.1%	2	0%	-	-	-	NULL
ENSG00000213003	0	genome.wustl.edu	37	8	71185729	71185729	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	ENST00000391685	+1	known	p.R41C	1.000	40	0%	21	19%	0	-	-	-	-	HMMPfam_NAC
XKR9	389668	genome.wustl.edu	37	8	71593311	71593311	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001011720.1	+1	provisional	p.Q6H	0.004	416	0%	150	20.7%	0	-	benign(0.003)	tolerated(0.19)	neutral(0.050)	NULL
EYA1	2138	genome.wustl.edu	37	8	72246547	72246548	+	Frame_Shift_Del	DEL	GC	GC	-	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	GC	GC					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	ENST00000388744	-1	known	p.M1fs	0.002:0.019	-	-	-	-	-	-	-	-	-	NULL
EYA1	2138	genome.wustl.edu	37	8	72246549	72246550	+	Frame_Shift_Ins	INS	-	-	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	-	-					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	ENST00000388744	-1	known	p.M1fs	0.025:0.073	-	-	-	-	-	-	-	-	-	NULL
TRPA1	8989	genome.wustl.edu	37	8	72936050	72936050	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_007332.2	-1	reviewed	p.R1050W	0.902	308	0%	88	10.2%	0	-	probably_damaging(1)	deleterious(0)	deleterious(0.945)	NULL
TRPA1	8989	genome.wustl.edu	37	8	72967962	72967962	+	Silent	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_007332.2	-1	reviewed	p.S441	0.960	282	0%	74	24.3%	0	-	-	-	-	HMMPfam_Ank,HMMSmart_SM00248,superfamily_Ankyrin repeat
RDH10	157506	genome.wustl.edu	37	8	74209455	74209455	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_172037.3	+1	validated	p.P106S	1.000	258	0.4%	328	22.6%	8	0%	possibly_damaging(0.777)	deleterious(0.02)	deleterious(0.673)	HMMPfam_adh_short,superfamily_NAD(P)-binding Rossmann-fold domains
RDH10	157506	genome.wustl.edu	37	8	74209551	74209551	+	Missense_Mutation	SNP	G	G	A	rs190882720	by1000genomes	TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_172037.3	+1	validated	p.E138K	1.000	363	0%	457	11.6%	14	0%	benign(0.005)	tolerated(0.13)	neutral(0.253)	HMMPfam_adh_short,superfamily_NAD(P)-binding Rossmann-fold domains
RDH10	157506	genome.wustl.edu	37	8	74231354	74231354	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_172037.3	+1	validated	p.T183	0.814	372	0%	137	29.9%	7	0%	-	-	-	HMMPfam_adh_short,superfamily_NAD(P)-binding Rossmann-fold domains
RDH10	157506	genome.wustl.edu	37	8	74234999	74234999	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_172037.3	+1	validated	p.M286V	1.000	153	0%	62	27.4%	26	3.8%	benign(0.021)	tolerated(0.39)	neutral(0.017)	superfamily_NAD(P)-binding Rossmann-fold domains
JPH1	56704	genome.wustl.edu	37	8	75227356	75227356	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_020647.2	-1	reviewed	p.F293	0.998	157	0%	326	27.3%	0	-	-	-	-	HMMPfam_MORN,HMMSmart_SM00698,superfamily_Histone H3 K4-specific methyltransferase SET7/9 N-terminal domain
JPH1	56704	genome.wustl.edu	37	8	75233335	75233335	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_020647.2	-1	reviewed	p.Y63C	1.000	47	0%	101	29.7%	0	-	probably_damaging(0.995)	deleterious(0.05)	deleterious(0.803)	HMMPfam_MORN,HMMSmart_SM00698,superfamily_Histone H3 K4-specific methyltransferase SET7/9 N-terminal domain
GDAP1	54332	genome.wustl.edu	37	8	75276499	75276499	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_018972.2	+1	reviewed	p.V325A	1.000	319	0%	123	23.6%	0	-	benign(0.014)	deleterious(0.01)	neutral(0.406)	NULL
HNF4G	3174	genome.wustl.edu	37	8	76470774	76470774	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_004133.4	+1	validated	p.R242H	1.000	211	0%	67	29.9%	0	-	probably_damaging(0.999)	deleterious(0)	deleterious(0.935)	HMMPfam_Hormone_recep,HMMSmart_HOLI,superfamily_Str_ncl_receptor
ZFHX4	79776	genome.wustl.edu	37	8	77617274	77617274	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_024721.4	+1	validated	p.C317	1.000	408	0.2%	158	18.4%	0	-	-	-	-	NULL
ZFHX4	79776	genome.wustl.edu	37	8	77763550	77763550	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_024721.4	+1	validated	p.V1420M	0.997	89	1.1%	37	16.2%	0	-	benign(0)	-	-	NULL
ZFHX4	79776	genome.wustl.edu	37	8	77764003	77764003	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_024721.4	+1	validated	p.L1571F	1.000	76	0%	48	29.2%	0	-	benign(0.189)	-	-	HMMSmart_SM00451,HMMPfam_zf-C2H2,PatternScan_ZINC_FINGER_C2H2_1,HMMSmart_SM00355,superfamily_C2H2 and C2HC zinc fingers
ZFHX4	79776	genome.wustl.edu	37	8	77764105	77764105	+	Silent	SNP	T	T	C	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_024721.4	+1	validated	p.L1605	0.860	134	0%	58	15.5%	0	-	-	-	-	NULL
ZFHX4	79776	genome.wustl.edu	37	8	77765104	77765104	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_024721.4	+1	validated	p.R1938C	1.000	171	0%	58	22.4%	0	-	possibly_damaging(0.806)	-	-	NULL
ZFHX4	79776	genome.wustl.edu	37	8	77766385	77766385	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_024721.4	+1	validated	p.A2365T	0.020	168	0%	107	20.6%	0	-	benign(0)	-	-	NULL
ZFHX4	79776	genome.wustl.edu	37	8	77767049	77767049	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_024721.4	+1	validated	p.T2586I	1.000	63	0%	31	25.8%	0	-	probably_damaging(0.99)	-	-	HMMPfam_Homeobox,HMMSmart_SM00389,superfamily_Homeodomain-like
ZFHX4	79776	genome.wustl.edu	37	8	77767959	77767959	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_024721.4	+1	validated	p.T2889	0.998	152	0%	56	30.4%	0	-	-	-	-	HMMPfam_Homeobox,HMMSmart_SM00389,superfamily_Homeodomain-like
ZFHX4	79776	genome.wustl.edu	37	8	77775381	77775381	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_024721.4	+1	validated	p.S3099L	1.000	245	0.4%	87	21.8%	0	-	possibly_damaging(0.9)	-	-	NULL
ZFHX4	79776	genome.wustl.edu	37	8	77776020	77776020	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_024721.4	+1	validated	p.P3312L	0.794	131	0%	45	48.9%	0	-	possibly_damaging(0.642)	-	-	NULL
ZFHX4	79776	genome.wustl.edu	37	8	77776202	77776202	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_024721.4	+1	validated	p.A3373T	1.000	132	0%	58	22.4%	0	-	benign(0.002)	-	-	HMMSmart_SM00355
ZFHX4	79776	genome.wustl.edu	37	8	77776298	77776298	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_024721.4	+1	validated	p.L3405I	1.000	196	0%	58	13.8%	0	-	benign(0.195)	-	-	HMMSmart_SM00451,PatternScan_ZINC_FINGER_C2H2_1,HMMSmart_SM00355,superfamily_C2H2 and C2HC zinc fingers
PAG1	55824	genome.wustl.edu	37	8	81889089	81889089	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_018440.3	-1	reviewed	p.S330L	0.001	177	0%	47	23.4%	1	0%	benign(0.007)	deleterious(0.04)	neutral(0.349)	NULL
PAG1	55824	genome.wustl.edu	37	8	81897241	81897241	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_018440.3	-1	reviewed	p.P216S	0.004	333	0%	125	23.2%	0	-	benign(0.001)	tolerated(0.12)	neutral(0.261)	NULL
FABP4	2167	genome.wustl.edu	37	8	82391672	82391672	+	Nonsense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001442.2	-1	reviewed	p.R109*	0.969	848	0%	171	21.1%	2	0%	-	-	-	HMMPfam_Lipocalin,superfamily_Lipocalins
FABP4	2167	genome.wustl.edu	37	8	82395392	82395392	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001442.2	-1	reviewed	p.A4D	0.393	518	0%	104	24%	0	-	benign(0.093)	tolerated(0.23)	neutral(0.049)	superfamily_Lipocalins
SLC10A5	347051	genome.wustl.edu	37	8	82605997	82605997	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001010893.2	-1	validated	p.A404D	1.000	143	0%	141	20.6%	0	-	probably_damaging(0.999)	deleterious(0.01)	deleterious(0.896)	NULL
SLC10A5	347051	genome.wustl.edu	37	8	82606960	82606960	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001010893.2	-1	validated	p.A83V	0.000	572	0%	357	13.4%	2	0%	benign(0)	tolerated(0.3)	neutral(0.029)	NULL
LRRCC1	85444	genome.wustl.edu	37	8	86021821	86021821	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	ENST00000414626	+1	known	p.F12L	0.995	182	0%	157	11.5%	0	-	unknown(0)	-	-	superfamily_SSF52075
LRRCC1	85444	genome.wustl.edu	37	8	86021899	86021899	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_033402.4	+1	validated	p.I58	0.003	274	0%	310	21.6%	0	-	-	-	-	superfamily_Outer arm dynein light chain 1
CA3	761	genome.wustl.edu	37	8	86358460	86358460	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_005181.3	+1	reviewed	p.T199	0.654	33	0%	30	13.3%	2	50%	-	-	-	HMMPfam_Carb_anhydrase,superfamily_Euk_COanhd
WWP1	11059	genome.wustl.edu	37	8	87437463	87437463	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_007013.3	+1	validated	p.R358I	1.000	249	0%	404	23.3%	3	0%	probably_damaging(0.999)	deleterious(0.01)	deleterious(0.896)	HMMPfam_WW,HMMSmart_SM00456,PatternScan_WW_DOMAIN_1,superfamily_WW domain
CPNE3	8895	genome.wustl.edu	37	8	87568333	87568333	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_003909.3	+1	reviewed	p.Y420H	1.000	215	0%	82	23.2%	8	25%	probably_damaging(1)	deleterious(0)	deleterious(0.945)	HMMSmart_VWA,HMMPfam_Copine,superfamily_SSF53300
CPNE3	8895	genome.wustl.edu	37	8	87568512	87568512	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_003909.3	+1	reviewed	p.G479	0.002	294	0%	87	25.3%	8	37.5%	-	-	-	HMMSmart_VWA,superfamily_SSF53300
CNGB3	54714	genome.wustl.edu	37	8	87623862	87623862	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_019098.4	-1	reviewed	p.R539K	1.000	310	0%	82	12.2%	0	-	benign(0.229)	tolerated(1)	neutral(0.023)	HMMSmart_SM00100,superfamily_cAMP-binding domain-like
CNBD1	168975	genome.wustl.edu	37	8	88298830	88298830	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_173538.2	+1	provisional	p.E325K	0.001	344	0%	53	17%	0	-	possibly_damaging(0.494)	tolerated(0.93)	neutral(0.165)	superfamily_cNMP_binding
DCAF4L2	138009	genome.wustl.edu	37	8	88885964	88885964	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_152418.3	-1	validated	p.A79V	0.991	239	0%	100	25%	0	-	probably_damaging(1)	tolerated(0.09)	deleterious(0.796)	superfamily_WD40_like
MMP16	4325	genome.wustl.edu	37	8	89053874	89053874	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_005941.4	-1	reviewed	p.D547Y	1.000	447	0%	106	28.3%	0	-	probably_damaging(0.99)	deleterious(0.01)	deleterious(0.847)	NULL
MMP16	4325	genome.wustl.edu	37	8	89179983	89179983	+	Silent	SNP	A	A	G	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_005941.4	-1	reviewed	p.H208	1.000	171	0%	39	25.6%	0	-	-	-	-	"HMMPfam_Peptidase_M10,HMMSmart_SM00235,superfamily_Metalloproteases (""zincins"") catalytic domain"
OSGIN2	734	genome.wustl.edu	37	8	90937648	90937648	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001126111.1	+1	validated	p.N513S	1.000	286	0%	95	10.5%	10	0%	probably_damaging(0.999)	deleterious(0)	deleterious(0.935)	NULL
NBN	4683	genome.wustl.edu	37	8	90965690	90965690	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_002485.4	-1	reviewed	p.E543K	0.050	712	0.1%	273	28.9%	7	28.5%	probably_damaging(0.989)	tolerated(0.22)	deleterious(0.481)	NULL
CALB1	793	genome.wustl.edu	37	8	91078156	91078156	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_004929.2	-1	reviewed	p.D140	0.898	484	0%	132	12.1%	3	0%	-	-	-	superfamily_EF-hand
SLC26A7	115111	genome.wustl.edu	37	8	92346559	92346559	+	Nonsense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_134266.1	+1	reviewed	p.R227*	0.004	467	0%	127	31.5%	0	-	-	-	-	HMMPfam_Sulfate_transp
RUNX1T1	862	genome.wustl.edu	37	8	92998377	92998377	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_175634.1	-1	reviewed	p.P418	0.003	136	0%	45	17.8%	0	-	-	-	-	NULL
RUNX1T1	862	genome.wustl.edu	37	8	93017486	93017486	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_175634.1	-1	reviewed	p.A200T	1.000	213	0%	64	17.2%	0	-	possibly_damaging(0.852)	deleterious(0)	deleterious(0.772)	HMMPfam_TAFH,HMMSmart_SM00549
RUNX1T1	862	genome.wustl.edu	37	8	93088278	93088278	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_175634.1	-1	reviewed	p.M1I	1.000	660	0%	226	11.9%	0	-	benign(0.036)	deleterious(0)	neutral(0.447)	NULL
RBM12B	389677	genome.wustl.edu	37	8	94747809	94747809	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_203390.2	-1	validated	p.R277H	0.979	225	0%	354	24.9%	2	0%	probably_damaging(0.986)	deleterious(0.01)	deleterious(0.840)	superfamily_RNA-binding domain RBD
RBM12B	389677	genome.wustl.edu	37	8	94748485	94748485	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_203390.2	-1	validated	p.D52Y	1.000	210	0%	322	12.7%	0	-	probably_damaging(1)	deleterious(0.03)	deleterious(0.865)	HMMSmart_SM00360,superfamily_RNA-binding domain RBD
TMEM67	91147	genome.wustl.edu	37	8	94815888	94815888	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_153704.5	+1	reviewed	p.F766	0.889	747	0%	184	22.8%	2	0%	-	-	-	HMMPfam_Meckelin
PDP1	54704	genome.wustl.edu	37	8	94934822	94934822	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_018444.3	+1	reviewed	p.A179T	1.000	125	0%	147	15%	1	0%	probably_damaging(0.998)	tolerated(0.11)	deleterious(0.746)	HMMSmart_SM00332,superfamily_Protein serine/threonine phosphatase 2C catalytic domain
RAD54B	25788	genome.wustl.edu	37	8	95392578	95392578	+	Missense_Mutation	SNP	T	T	G	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_012415.2	-1	reviewed	p.K681T	0.259	438	0%	222	23.9%	2	50%	benign(0)	tolerated(0.98)	-	HMMPfam_Helicase_C,HMMSmart_HELICc,superfamily_SSF52540
RAD54B	25788	genome.wustl.edu	37	8	95411716	95411716	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_012415.2	-1	reviewed	p.R435H	1.000	356	0%	69	17.4%	0	-	probably_damaging(1)	deleterious(0)	deleterious(0.945)	HMMPfam_SNF2_N,HMMSmart_DEXDc,superfamily_SSF52540
KIAA1429	25962	genome.wustl.edu	37	8	95507093	95507093	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_015496.3	-1	validated	p.D1546Y	1.000	169	0%	33	30.3%	10	20%	probably_damaging(0.996)	deleterious(0)	deleterious(0.906)	NULL
KIAA1429	25962	genome.wustl.edu	37	8	95539125	95539125	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_015496.3	-1	validated	p.I449	0.466	176	0%	61	27.9%	2	0%	-	-	-	NULL
KIAA1429	25962	genome.wustl.edu	37	8	95539308	95539308	+	Silent	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_015496.3	-1	validated	p.L388	0.105	410	0.2%	97	29.9%	2	50%	-	-	-	NULL
ESRP1	54845	genome.wustl.edu	37	8	95690534	95690534	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_017697.3	+1	validated	p.Q585	1.000	306	0%	66	22.7%	5	40%	-	-	-	NULL
DPY19L4	286148	genome.wustl.edu	37	8	95802050	95802050	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_181787.2	+1	validated	p.S695F	1.000	281	0%	150	10.7%	3	0%	probably_damaging(0.992)	tolerated(0.06)	deleterious(0.770)	HMMPfam_DUF2211
INTS8	55656	genome.wustl.edu	37	8	95837225	95837225	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_017864.2	+1	provisional	p.R79C	1.000	265	0%	352	23.3%	1	0%	probably_damaging(0.999)	deleterious(0.01)	deleterious(0.896)	NULL
INTS8	55656	genome.wustl.edu	37	8	95844279	95844279	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_017864.2	+1	provisional	p.K210N	1.000	206	0%	144	21.5%	1	0%	possibly_damaging(0.739)	tolerated(0.08)	deleterious(0.571)	NULL
INTS8	55656	genome.wustl.edu	37	8	95871751	95871751	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_017864.2	+1	provisional	p.R656H	1.000	657	0%	410	21.2%	17	11.7%	probably_damaging(1)	deleterious(0)	deleterious(0.945)	NULL
INTS8	55656	genome.wustl.edu	37	8	95871757	95871757	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_017864.2	+1	provisional	p.V658A	1.000	671	0%	414	21.3%	18	38.8%	benign(0.252)	tolerated(0.41)	neutral(0.041)	NULL
INTS8	55656	genome.wustl.edu	37	8	95877803	95877803	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_017864.2	+1	provisional	p.D716Y	1.000	375	0%	161	13.7%	16	6.2%	probably_damaging(0.959)	deleterious(0.01)	deleterious(0.808)	NULL
INTS8	55656	genome.wustl.edu	37	8	95886799	95886799	+	Missense_Mutation	SNP	A	A	C	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_017864.2	+1	provisional	p.K886T	1.000	491	0%	155	11.6%	52	15.3%	probably_damaging(0.995)	deleterious(0)	deleterious(0.902)	NULL
CCNE2	9134	genome.wustl.edu	37	8	95895071	95895071	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_057749.1	-1	reviewed	p.R294I	1.000	292	0%	178	13.5%	1	0%	probably_damaging(0.983)	deleterious(0.04)	deleterious(0.778)	HMMPfam_Cyclin_C
UQCRB	7381	genome.wustl.edu	37	8	97244124	97244124	+	Nonsense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_006294.3	-1	reviewed	p.E46*	1.000	297	0%	70	28.6%	611	1.9%	-	-	-	HMMPfam_UCR_14kD,superfamily_14 kDa protein of cytochrome bc1 complex (Ubiquinol-cytochrome c reductase)
TSPYL5	85453	genome.wustl.edu	37	8	98288962	98288962	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_033512.2	-1	validated	p.E371K	0.999	208	0%	338	34.6%	1	0%	possibly_damaging(0.942)	tolerated(0.27)	neutral(0.420)	HMMPfam_NAP
TSPYL5	85453	genome.wustl.edu	37	8	98289030	98289030	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_033512.2	-1	validated	p.R348H	0.233	196	0%	299	27.1%	1	0%	probably_damaging(0.995)	tolerated(0.55)	neutral(0.465)	HMMPfam_NAP
MATN2	4147	genome.wustl.edu	37	8	98991128	98991128	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_002380.3	+1	reviewed	p.A325T	0.867	390	0%	104	22.1%	16	0%	possibly_damaging(0.911)	deleterious(0.02)	deleterious(0.746)	HMMSmart_SM00179,HMMPfam_EGF,HMMSmart_SM00181,superfamily_EGF/Laminin
MATN2	4147	genome.wustl.edu	37	8	99045290	99045290	+	Missense_Mutation	SNP	A	A	C	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_002380.3	+1	reviewed	p.N868H	0.998	507	0%	157	26.8%	54	1.8%	benign(0.159)	deleterious(0.01)	neutral(0.420)	NULL
C8orf47	203111	genome.wustl.edu	37	8	99101455	99101455	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_173549.2	+1	validated	p.E70D	0.072	104	0%	46	30.4%	0	-	benign(0.105)	tolerated(0.14)	neutral(0.258)	NULL
HRSP12	10247	genome.wustl.edu	37	8	99120926	99120926	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_005836.2	-1	validated	p.D40G	1.000	271	0%	135	16.3%	5	20%	benign(0.329)	deleterious(0.01)	deleterious(0.509)	HMMPfam_Ribonuc_L-PSP,superfamily_YjgF-like
POP1	10940	genome.wustl.edu	37	8	99139824	99139824	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_015029.2	+1	reviewed	p.E48	0.018	178	0%	88	18.2%	1	100%	-	-	-	NULL
POP1	10940	genome.wustl.edu	37	8	99146251	99146251	+	Silent	SNP	T	T	C	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_015029.2	+1	reviewed	p.C270	1.000	666	0%	217	13.4%	0	-	-	-	-	NULL
KCNS2	3788	genome.wustl.edu	37	8	99440838	99440838	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_020697.2	+1	provisional	p.D211N	1.000	134	0%	253	20.9%	0	-	benign(0.208)	deleterious(0.05)	neutral(0.365)	superfamily_Voltage-gated potassium channels
KCNS2	3788	genome.wustl.edu	37	8	99441138	99441138	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_020697.2	+1	provisional	p.H311Y	1.000	213	0%	340	24.1%	0	-	probably_damaging(1)	deleterious(0)	deleterious(0.945)	HMMPfam_Ion_trans,superfamily_Voltage-gated potassium channels
STK3	6788	genome.wustl.edu	37	8	99718846	99718846	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_006281.2	-1	validated	p.R178H	1.000	246	0%	94	25.5%	2	0%	probably_damaging(1)	deleterious(0)	deleterious(0.945)	HMMSmart_SM00219,HMMSmart_SM00220,superfamily_Protein kinase-like (PK-like),HMMPfam_Pkinase
OSR2	116039	genome.wustl.edu	37	8	99963816	99963816	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001142462.1	+1	validated	p.L276I	1.000	66	0%	121	28.9%	54	0%	probably_damaging(0.989)	tolerated(0.21)	deleterious(0.483)	HMMPfam_zf-C2H2,PatternScan_ZINC_FINGER_C2H2_1,HMMSmart_SM00355,superfamily_C2H2 and C2HC zinc fingers
VPS13B	157680	genome.wustl.edu	37	8	100115234	100115234	+	Missense_Mutation	SNP	A	A	C	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_017890.3	+1	reviewed	p.N156H	1.000	372	0%	98	19.4%	0	-	possibly_damaging(0.445)	tolerated(0.86)	neutral(0.146)	NULL
VPS13B	157680	genome.wustl.edu	37	8	100123409	100123409	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_017890.3	+1	reviewed	p.E222K	1.000	451	0%	103	20.4%	0	-	probably_damaging(0.993)	deleterious(0.01)	deleterious(0.856)	NULL
VPS13B	157680	genome.wustl.edu	37	8	100454762	100454762	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_017890.3	+1	reviewed	p.V1115A	1.000	383	0.3%	97	11.3%	1	0%	benign(0.005)	tolerated(0.36)	neutral(0.020)	NULL
VPS13B	157680	genome.wustl.edu	37	8	100654041	100654041	+	Silent	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_017890.3	+1	reviewed	p.I1766	1.000	79	0%	20	45%	0	-	-	-	-	NULL
VPS13B	157680	genome.wustl.edu	37	8	100779068	100779068	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_017890.3	+1	reviewed	p.L2398M	1.000	248	0%	72	25%	0	-	probably_damaging(0.995)	deleterious(0)	deleterious(0.902)	NULL
RGS22	26166	genome.wustl.edu	37	8	100994291	100994291	+	Silent	SNP	A	A	G	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_015668.3	-1	validated	p.T1078	0.994	293	0%	94	14.9%	0	-	-	-	-	HMMPfam_RGS,HMMSmart_SM00315,superfamily_Regulator of G-protein signaling RGS
RGS22	26166	genome.wustl.edu	37	8	101083707	101083707	+	Nonsense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_015668.3	-1	validated	p.G162*	0.006	380	0.3%	78	19.2%	0	-	-	-	-	NULL
FBXO43	286151	genome.wustl.edu	37	8	101154018	101154018	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001029860.2	-1	validated	p.R155H	0.993	348	0%	422	25.4%	0	-	probably_damaging(1)	deleterious(0)	deleterious(0.945)	NULL
POLR2K	5440	genome.wustl.edu	37	8	101164109	101164109	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_005034.3	+1	reviewed	p.G40E	1.000	279	0%	393	22.4%	88	25%	probably_damaging(0.992)	tolerated(0.05)	deleterious(0.793)	HMMPfam_DNA_RNApol_7kD,HMMSmart_SM00659,superfamily_RNA polymerase subunits
RNF19A	25897	genome.wustl.edu	37	8	101300278	101300278	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_015435.3	-1	reviewed	p.R42Q	1.000	216	0.5%	67	29.9%	1	0%	possibly_damaging(0.937)	deleterious(0.02)	deleterious(0.766)	NULL
PABPC1	26986	genome.wustl.edu	37	8	101721360	101721360	+	Splice_Site	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_002568.3	-1	validated	e9+1	1.000	220	0.9%	134	26.9%	4	100%	-	-	-	-
GRHL2	79977	genome.wustl.edu	37	8	102589680	102589680	+	Missense_Mutation	SNP	A	A	C	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_024915.3	+1	reviewed	p.E312D	0.937	181	0%	82	14.6%	1	100%	probably_damaging(0.999)	tolerated(0.55)	deleterious(0.497)	HMMPfam_CP2
UBR5	51366	genome.wustl.edu	37	8	103298660	103298660	+	Nonsense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_015902.4	-1	reviewed	p.Q1715*	1.000	205	0%	61	19.7%	3	0%	-	-	-	NULL
UBR5	51366	genome.wustl.edu	37	8	103311162	103311162	+	Silent	SNP	A	A	G	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_015902.4	-1	reviewed	p.D1080	1.000	322	0%	70	20%	0	-	-	-	-	NULL
UBR5	51366	genome.wustl.edu	37	8	103324371	103324371	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_015902.4	-1	reviewed	p.D752Y	1.000	216	0%	62	25.8%	1	0%	probably_damaging(0.999)	deleterious(0)	deleterious(0.935)	NULL
UBR5	51366	genome.wustl.edu	37	8	103354779	103354779	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_015902.4	-1	reviewed	p.E340	1.000	380	0%	75	24%	0	-	-	-	-	NULL
ODF1	4956	genome.wustl.edu	37	8	103564137	103564137	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_024410.3	+1	reviewed	p.R61Q	0.517	378	0%	126	16.7%	0	-	possibly_damaging(0.827)	deleterious(0)	deleterious(0.758)	NULL
KLF10	7071	genome.wustl.edu	37	8	103662409	103662409	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_005655.2	-1	validated	p.S465I	1.000	290	0%	326	13.5%	16	0%	probably_damaging(0.999)	deleterious(0.01)	deleterious(0.896)	NULL
AZIN1	51582	genome.wustl.edu	37	8	103842099	103842099	+	Missense_Mutation	SNP	A	A	C	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_015878.4	-1	reviewed	p.F324V	1.000	436	0.2%	122	23%	32	15.6%	probably_damaging(1)	deleterious(0.02)	deleterious(0.883)	HMMPfam_Orn_DAP_Arg_deC,superfamily_Racem_decarbox_C
AZIN1	51582	genome.wustl.edu	37	8	103851075	103851075	+	Nonsense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_015878.4	-1	reviewed	p.Q116*	1.000	535	0%	158	17.7%	18	0%	-	-	-	HMMPfam_Orn_Arg_deC_N,superfamily_SSF51419
RIMS2	9699	genome.wustl.edu	37	8	104709439	104709439	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001100117.1	+1	validated	p.A101D	1.000	297	0%	83	25.3%	0	-	probably_damaging(1)	deleterious(0)	deleterious(0.945)	HMMPfam_RPH3A_effector,superfamily_FYVE/PHD zinc finger
RIMS2	9699	genome.wustl.edu	37	8	104987663	104987663	+	Silent	SNP	A	A	C	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001100117.1	+1	validated	p.S952	1.000	259	0%	66	13.6%	0	-	-	-	-	NULL
DPYS	1807	genome.wustl.edu	37	8	105436491	105436491	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001385.2	-1	reviewed	p.D407N	1.000	394	0%	83	20.5%	0	-	possibly_damaging(0.537)	tolerated(0.22)	neutral(0.224)	HMMPfam_Amidohydro_1,superfamily_Metalo_hydrolase
DPYS	1807	genome.wustl.edu	37	8	105440237	105440237	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001385.2	-1	reviewed	p.R355W	1.000	193	0.5%	58	22.4%	0	-	probably_damaging(1)	deleterious(0)	deleterious(0.945)	HMMPfam_Amidohydro_1,superfamily_SSF51556
LRP12	29967	genome.wustl.edu	37	8	105503739	105503739	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_013437.4	-1	reviewed	p.A581V	1.000	78	0%	32	18.8%	1	0%	probably_damaging(0.954)	deleterious(0)	deleterious(0.842)	NULL
LRP12	29967	genome.wustl.edu	37	8	105507359	105507359	+	Silent	SNP	A	A	G	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_013437.4	-1	reviewed	p.I553	0.942	366	0%	101	14.9%	1	0%	-	-	-	NULL
LRP12	29967	genome.wustl.edu	37	8	105509770	105509770	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_013437.4	-1	reviewed	p.S337Y	1.000	126	0%	51	17.6%	1	0%	probably_damaging(0.996)	deleterious(0.02)	deleterious(0.845)	HMMPfam_CUB,HMMSmart_SM00042,superfamily_Spermadhesin CUB domain
ZFPM2	23414	genome.wustl.edu	37	8	106810962	106810962	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_012082.3	+1	reviewed	p.F250L	1.000	328	0%	94	29.8%	0	-	probably_damaging(0.987)	deleterious(0)	deleterious(0.881)	HMMSmart_SM00355,superfamily_C2H2 and C2HC zinc fingers
ZFPM2	23414	genome.wustl.edu	37	8	106814510	106814510	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_012082.3	+1	reviewed	p.R734C	1.000	101	0%	50	28%	0	-	probably_damaging(1)	deleterious(0)	deleterious(0.945)	NULL
OXR1	55074	genome.wustl.edu	37	8	107722882	107722882	+	Nonsense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_018002.2	+1	validated	p.R553*	1.000	272	0%	63	22.2%	1	0%	-	-	-	NULL
ABRA	137735	genome.wustl.edu	37	8	107782290	107782290	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_139166.4	-1	validated	p.R43	1.000	177	0%	85	22.4%	0	-	-	-	-	NULL
ANGPT1	284	genome.wustl.edu	37	8	108334259	108334259	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001146.3	-1	reviewed	p.R225C	1.000	703	0%	149	25.5%	0	-	probably_damaging(0.998)	deleterious(0)	deleterious(0.919)	NULL
TTC35	9694	genome.wustl.edu	37	8	109488181	109488181	+	Nonsense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_014673.3	+1	provisional	p.Q194*	1.000	421	0%	66	10.6%	27	7.4%	-	-	-	superfamily_Prenyl_trans
TTC35	9694	genome.wustl.edu	37	8	109489044	109489044	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_014673.3	+1	provisional	p.E209K	1.000	544	0%	95	24.2%	37	10.8%	probably_damaging(0.999)	deleterious(0)	deleterious(0.935)	superfamily_Prenyl_trans
TMEM74	157753	genome.wustl.edu	37	8	109797168	109797168	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_153015.1	-1	provisional	p.E54K	0.000	290	0%	351	27.9%	0	-	benign(0.042)	tolerated(0.42)	neutral(0.017)	NULL
NUDCD1	84955	genome.wustl.edu	37	8	110257570	110257570	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_032869.3	-1	validated	p.I480	0.582	419	0.2%	90	28.9%	12	8.3%	-	-	-	NULL
PKHD1L1	93035	genome.wustl.edu	37	8	110442249	110442249	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_177531.4	+1	validated	p.A1071V	0.003	409	0%	164	13.4%	0	-	benign(0.043)	tolerated(0.11)	neutral(0.274)	HMMPfam_TIG,HMMSmart_SM00429,superfamily_E set domains
PKHD1L1	93035	genome.wustl.edu	37	8	110448616	110448616	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_177531.4	+1	validated	p.K1185N	0.001	403	0%	129	26.4%	0	-	benign(0.03)	tolerated(0.49)	neutral(0.012)	HMMPfam_TIG,HMMSmart_SM00429,superfamily_E set domains
PKHD1L1	93035	genome.wustl.edu	37	8	110454375	110454375	+	Silent	SNP	A	A	G	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_177531.4	+1	validated	p.V1448	0.858	446	0%	107	22.4%	2	0%	-	-	-	superfamily_Cupredoxins
PKHD1L1	93035	genome.wustl.edu	37	8	110456115	110456115	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_177531.4	+1	validated	p.L1592P	0.976	287	0%	68	20.6%	0	-	probably_damaging(0.969)	tolerated(0.36)	neutral(0.431)	HMMPfam_TIG,HMMSmart_SM00429,superfamily_E set domains
PKHD1L1	93035	genome.wustl.edu	37	8	110457602	110457602	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_177531.4	+1	validated	p.S1835Y	0.850	187	0%	58	25.9%	0	-	probably_damaging(1)	deleterious(0)	deleterious(0.945)	HMMPfam_TIG,HMMSmart_SM00429,superfamily_E set domains
PKHD1L1	93035	genome.wustl.edu	37	8	110477129	110477129	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_177531.4	+1	validated	p.A2690T	0.775	295	0%	114	25.4%	0	-	benign(0.033)	tolerated(1)	neutral(0.002)	NULL
PKHD1L1	93035	genome.wustl.edu	37	8	110497382	110497382	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_177531.4	+1	validated	p.S3229N	1.000	303	0%	65	29.2%	2	50%	benign(0.062)	tolerated(0.17)	neutral(0.063)	superfamily_Pectin lyase-like
PKHD1L1	93035	genome.wustl.edu	37	8	110520070	110520070	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_177531.4	+1	validated	p.L3725F	1.000	214	0%	90	17.8%	0	-	probably_damaging(0.967)	deleterious(0.03)	deleterious(0.773)	NULL
SYBU	55638	genome.wustl.edu	37	8	110587579	110587579	+	Silent	SNP	C	C	T	rs140751107	by1000genomes	TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001099744.1	-1	validated	p.S516	0.000	73	0%	49	28.6%	1	0%	-	-	-	NULL
KCNV1	27012	genome.wustl.edu	37	8	110984845	110984845	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_014379.2	-1	reviewed	p.I211	1.000	196	0%	304	21.1%	0	-	-	-	-	superfamily_Voltage-gated potassium channels
KCNV1	27012	genome.wustl.edu	37	8	110986344	110986344	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_014379.2	-1	reviewed	p.D92N	1.000	18	0%	35	25.7%	0	-	probably_damaging(1)	deleterious(0)	deleterious(0.945)	HMMSmart_SM00225,HMMPfam_K_tetra,superfamily_POZ domain
CSMD3	114788	genome.wustl.edu	37	8	113253991	113253991	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_198123.1	-1	validated	p.D3476Y	0.999	244	0%	59	10.2%	0	-	possibly_damaging(0.821)	deleterious(0.05)	deleterious(0.656)	NULL
CSMD3	114788	genome.wustl.edu	37	8	113267572	113267572	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_198123.1	-1	validated	p.S3316I	1.000	332	0%	54	20.4%	0	-	benign(0.205)	tolerated(0.37)	neutral(0.039)	HMMPfam_Sushi,HMMSmart_SM00032,superfamily_Complement control module/SCR domain
CSMD3	114788	genome.wustl.edu	37	8	113303819	113303819	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_198123.1	-1	validated	p.P2965H	1.000	364	0%	99	18.2%	0	-	probably_damaging(1)	tolerated(0.24)	deleterious(0.537)	HMMPfam_Sushi,HMMSmart_SM00032,superfamily_Complement control module/SCR domain
CSMD3	114788	genome.wustl.edu	37	8	113349034	113349034	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_198123.1	-1	validated	p.A2289E	1.000	222	0%	73	9.6%	0	-	possibly_damaging(0.616)	tolerated(0.57)	neutral(0.221)	HMMPfam_CUB,HMMSmart_SM00042,superfamily_Spermadhesin CUB domain
CSMD3	114788	genome.wustl.edu	37	8	113585826	113585826	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_198123.1	-1	validated	p.R1316C	0.889	357	0%	61	19.7%	0	-	probably_damaging(0.974)	tolerated(0.06)	deleterious(0.738)	HMMPfam_CUB,HMMSmart_SM00042,superfamily_Spermadhesin CUB domain
CSMD3	114788	genome.wustl.edu	37	8	113697738	113697738	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_198123.1	-1	validated	p.G793	0.778	186	0%	46	28.3%	0	-	-	-	-	HMMPfam_CUB,HMMSmart_SM00042,superfamily_Spermadhesin CUB domain
TRPS1	7227	genome.wustl.edu	37	8	116599720	116599720	+	Silent	SNP	T	T	C	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_014112.2	-1	reviewed	p.T736	1.000	236	0%	107	26.2%	1	0%	-	-	-	NULL
TRPS1	7227	genome.wustl.edu	37	8	116616218	116616218	+	Nonsense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_014112.2	-1	reviewed	p.E660*	0.997	312	0%	106	26.4%	3	0%	-	-	-	NULL
EIF3H	8667	genome.wustl.edu	37	8	117738277	117738277	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_003756.2	-1	validated	p.E89D	1.000	295	0%	91	24.2%	118	7.6%	benign(0.009)	tolerated(0.4)	neutral(0.017)	HMMPfam_Mov34,HMMSmart_SM00232
SLC30A8	169026	genome.wustl.edu	37	8	118159224	118159224	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_173851.2	+1	reviewed	p.D35Y	1.000	165	0%	62	17.7%	0	-	benign(0.004)	deleterious(0)	neutral(0.445)	NULL
TNFRSF11B	4982	genome.wustl.edu	37	8	119945274	119945274	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_002546.3	-1	reviewed	p.R99H	0.990	103	0%	45	24.4%	3	0%	possibly_damaging(0.934)	tolerated(0.12)	deleterious(0.641)	HMMPfam_TNFR_c6,HMMSmart_SM00208,PatternScan_TNFR_NGFR_1
TAF2	6873	genome.wustl.edu	37	8	120797488	120797488	+	Silent	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_003184.3	-1	reviewed	p.I604	1.000	320	0%	70	11.4%	1	0%	-	-	-	NULL
COL14A1	7373	genome.wustl.edu	37	8	121160107	121160107	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_021110.1	+1	validated	p.R9Q	0.897	428	0%	128	18.8%	0	-	benign(0)	tolerated(0.45)	neutral(0.012)	NULL
COL14A1	7373	genome.wustl.edu	37	8	121180432	121180432	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_021110.1	+1	validated	p.P128S	1.000	181	0%	40	22.5%	0	-	benign(0.001)	tolerated(0.57)	neutral(0.006)	NULL
MTBP	27085	genome.wustl.edu	37	8	121457818	121457818	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_022045.3	+1	provisional	p.E36D	0.003	234	0%	131	20.6%	1	0%	benign(0)	tolerated(0.54)	neutral(0.007)	NULL
MTBP	27085	genome.wustl.edu	37	8	121509639	121509639	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_022045.3	+1	provisional	p.R485Q	0.959	195	0%	66	27.3%	1	0%	benign(0.036)	tolerated(0.21)	neutral(0.046)	NULL
SNTB1	6641	genome.wustl.edu	37	8	121706096	121706096	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_021021.3	-1	reviewed	p.S208	0.001	239	0%	45	13.3%	1	0%	-	-	-	superfamily_PDZ domain-like,HMMSmart_SM00233,superfamily_PH domain-like
HAS2	3037	genome.wustl.edu	37	8	122626673	122626673	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_005328.2	-1	reviewed	p.S445	0.776	151	0%	42	23.8%	0	-	-	-	-	NULL
HAS2	3037	genome.wustl.edu	37	8	122641109	122641109	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_005328.2	-1	reviewed	p.G158S	0.517	417	0%	221	23.5%	0	-	benign(0.025)	tolerated(0.45)	neutral(0.013)	superfamily_SSF53448
ZHX2	22882	genome.wustl.edu	37	8	123964116	123964116	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_014943.3	+1	reviewed	p.Y122	0.990	149	0%	94	13.8%	6	0%	-	-	-	HMMSmart_ZnF_C2H2
DERL1	79139	genome.wustl.edu	37	8	124033687	124033687	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_024295.4	-1	validated	p.S169L	1.000	235	0%	61	29.5%	36	13.8%	possibly_damaging(0.757)	tolerated(0.07)	deleterious(0.599)	HMMPfam_DER1
WDR67	93594	genome.wustl.edu	37	8	124096453	124096453	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_145647.3	+1	validated	p.S131L	0.866	296	0%	150	22%	0	-	possibly_damaging(0.922)	tolerated(0.1)	deleterious(0.658)	HMMSmart_SM00320,superfamily_WD40 repeat-like,HMMPfam_WD40
ATAD2	29028	genome.wustl.edu	37	8	124357229	124357229	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_014109.3	-1	reviewed	p.P871	0.300	253	0.4%	49	20.4%	1	0%	-	-	-	superfamily_P-loop containing nucleoside triphosphate hydrolases
ATAD2	29028	genome.wustl.edu	37	8	124361548	124361548	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_014109.3	-1	reviewed	p.L595I	1.000	253	0%	55	29.1%	1	0%	probably_damaging(1)	tolerated(0.07)	deleterious(0.819)	HMMSmart_SM00382,HMMPfam_AAA,superfamily_P-loop containing nucleoside triphosphate hydrolases
ATAD2	29028	genome.wustl.edu	37	8	124371873	124371873	+	Nonsense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_014109.3	-1	reviewed	p.R404*	1.000	341	0.3%	72	16.7%	0	-	-	-	-	NULL
WDYHV1	55093	genome.wustl.edu	37	8	124442246	124442246	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_018024.1	+1	provisional	p.A69	0.878	328	0%	178	20.2%	6	0%	-	-	-	HMMPfam_WDYHV
FBXO32	114907	genome.wustl.edu	37	8	124526531	124526531	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_058229.2	-1	reviewed	p.G139S	1.000	151	0%	74	10.8%	80	1.2%	probably_damaging(1)	deleterious(0)	deleterious(0.945)	NULL
FBXO32	114907	genome.wustl.edu	37	8	124544230	124544230	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_058229.2	-1	reviewed	p.R94C	1.000	163	0%	118	27.1%	106	0%	probably_damaging(1)	tolerated(0.08)	deleterious(0.800)	NULL
KLHL38	340359	genome.wustl.edu	37	8	124664453	124664453	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001081675.2	-1	validated	p.N238	0.464	54	0%	25	20%	1	0%	-	-	-	NULL
KLHL38	340359	genome.wustl.edu	37	8	124665125	124665125	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001081675.2	-1	validated	p.H14	0.000	64	0%	20	20%	0	-	-	-	-	superfamily_POZ domain
ANXA13	312	genome.wustl.edu	37	8	124693555	124693555	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001003954.1	-1	reviewed	p.Q333H	0.999	264	0%	67	20.9%	4	0%	possibly_damaging(0.918)	deleterious(0.01)	deleterious(0.774)	superfamily_Annexin,PatternScan_ANNEXIN,HMMPfam_Annexin,HMMSmart_SM00335
FAM91A1	157769	genome.wustl.edu	37	8	124787411	124787411	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_144963.2	+1	validated	p.R61H	1.000	245	0%	194	22.7%	0	-	probably_damaging(0.978)	deleterious(0.03)	deleterious(0.785)	NULL
FAM91A1	157769	genome.wustl.edu	37	8	124796740	124796740	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_144963.2	+1	validated	p.R245Q	1.000	476	0%	122	16.4%	0	-	probably_damaging(1)	deleterious(0)	deleterious(0.945)	NULL
FAM91A1	157769	genome.wustl.edu	37	8	124818328	124818328	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_144963.2	+1	validated	p.R631C	1.000	264	0%	79	35.4%	3	0%	possibly_damaging(0.846)	tolerated(0.18)	neutral(0.381)	NULL
FER1L6	654463	genome.wustl.edu	37	8	125058133	125058133	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001039112.2	+1	validated	p.S905	0.037	139	0%	56	33.9%	0	-	-	-	-	HMMPfam_C2,HMMSmart_SM00239,superfamily_C2 domain (Calcium/lipid-binding domain CaLB)
FER1L6	654463	genome.wustl.edu	37	8	125103805	125103805	+	Silent	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001039112.2	+1	validated	p.I1511	0.379	231	0%	77	15.6%	0	-	-	-	-	NULL
MTSS1	9788	genome.wustl.edu	37	8	125565844	125565844	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_014751.4	-1	validated	p.D553N	1.000	51	0%	45	31.1%	1	0%	possibly_damaging(0.582)	tolerated(0.44)	neutral(0.213)	NULL
MTSS1	9788	genome.wustl.edu	37	8	125570107	125570107	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_014751.4	-1	validated	p.G349R	1.000	84	0%	95	28.4%	0	-	probably_damaging(0.979)	deleterious(0.02)	deleterious(0.805)	NULL
ZNF572	137209	genome.wustl.edu	37	8	125987952	125987952	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_152412.2	+1	validated	p.P24S	0.000	486	0%	192	21.4%	0	-	benign(0.058)	tolerated(0.13)	neutral(0.256)	NULL
ZNF572	137209	genome.wustl.edu	37	8	125989060	125989060	+	Nonsense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_152412.2	+1	validated	p.G184*	1.000	102	0%	51	13.7%	1	0%	-	-	-	superfamily_SSF57667
ZNF572	137209	genome.wustl.edu	37	8	125989527	125989527	+	Silent	SNP	T	T	C	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_152412.2	+1	validated	p.R339	0.955	236	0%	102	14.7%	2	0%	-	-	-	HMMPfam_zf-C2H2,PatternScan_ZINC_FINGER_C2H2_1,HMMSmart_ZnF_C2H2,superfamily_SSF57667
ZNF572	137209	genome.wustl.edu	37	8	125989637	125989637	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_152412.2	+1	validated	p.R376I	0.984	251	0%	113	17.7%	0	-	possibly_damaging(0.912)	deleterious(0.01)	deleterious(0.769)	superfamily_SSF57667
FAM49B	51571	genome.wustl.edu	37	8	130864430	130864430	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_016623.3	-1	predicted	p.A204V	1.000	337	0%	78	24.4%	7	0%	benign(0.001)	deleterious(0)	neutral(0.445)	HMMPfam_DUF1394
ASAP1	50807	genome.wustl.edu	37	8	131072852	131072852	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_018482.2	-1	validated	p.P1055	0.011	456	0%	206	24.3%	6	0%	-	-	-	superfamily_SH3
ASAP1	50807	genome.wustl.edu	37	8	131249176	131249176	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_018482.2	-1	validated	p.S84Y	1.000	406	0%	37	29.7%	1	0%	probably_damaging(0.996)	deleterious(0)	deleterious(0.906)	NULL
KCNQ3	3786	genome.wustl.edu	37	8	133142182	133142182	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_004519.2	-1	reviewed	p.R649Q	0.984	114	0%	40	15%	0	-	benign(0.001)	tolerated(0.33)	neutral(0.024)	HMMPfam_KCNQ_channel
LRRC6	23639	genome.wustl.edu	37	8	133637567	133637567	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_012472.3	-1	provisional	p.E263K	1.000	783	0.1%	211	23.2%	3	100%	possibly_damaging(0.929)	deleterious(0.02)	deleterious(0.759)	NULL
PHF20L1	51105	genome.wustl.edu	37	8	133811053	133811053	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_016018.4	+1	validated	p.R126C	1.000	326	0.3%	67	22.4%	3	0%	probably_damaging(1)	deleterious(0)	deleterious(0.945)	HMMSmart_SM00333,HMMSmart_SM00743,superfamily_Tudor/PWWP/MBT
TG	7038	genome.wustl.edu	37	8	133900426	133900426	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_003235.4	+1	reviewed	p.N792D	1.000	74	0%	41	24.4%	0	-	possibly_damaging(0.455)	deleterious(0)	deleterious(0.594)	superfamily_Thyroglobulin type-1 domain
TG	7038	genome.wustl.edu	37	8	133920566	133920566	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_003235.4	+1	reviewed	p.R1328H	0.884	152	0%	64	25%	0	-	probably_damaging(1)	deleterious(0)	deleterious(0.945)	NULL
TG	7038	genome.wustl.edu	37	8	133931747	133931747	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_003235.4	+1	reviewed	p.A1502V	0.000	172	0%	49	18.4%	0	-	benign(0.001)	tolerated(0.33)	neutral(0.024)	HMMPfam_GCC2_GCC3
SLA	6503	genome.wustl.edu	37	8	134063091	134063091	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_006748.3	-1	validated	p.R84H	0.799	112	0%	72	13.9%	1	0%	benign(0.181)	tolerated(0.3)	neutral(0.045)	HMMPfam_SH3_1,HMMSmart_SM00326
TG	7038	genome.wustl.edu	37	8	134125730	134125730	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_003235.4	+1	reviewed	p.S2546Y	0.969	172	0%	77	19.5%	1	0%	probably_damaging(1)	deleterious(0.03)	deleterious(0.865)	HMMPfam_COesterase,superfamily_alpha/beta-Hydrolases
WISP1	8840	genome.wustl.edu	37	8	134233038	134233038	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_003882.2	+1	reviewed	p.D188	0.000	15	0%	23	21.7%	1	0%	-	-	-	NULL
WISP1	8840	genome.wustl.edu	37	8	134239740	134239740	+	Silent	SNP	A	A	G	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_003882.2	+1	reviewed	p.Q297	1.000	188	0%	188	23.4%	0	-	benign(0.005)	deleterious(0)	neutral(0.445)	HMMSmart_SM00041,HMMPfam_Cys_knot
WISP1	8840	genome.wustl.edu	37	8	134239772	134239772	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_003882.2	+1	reviewed	p.R308M	1.000	217	0%	215	14.4%	0	-	-	-	-	HMMSmart_SM00041,HMMPfam_Cys_knot
ST3GAL1	6482	genome.wustl.edu	37	8	134474202	134474202	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_003033.3	-1	reviewed	p.V255	1.000	146	0%	159	28.9%	1	0%	-	-	-	HMMPfam_Glyco_transf_29
ZFAT	57623	genome.wustl.edu	37	8	135622861	135622861	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_020863.3	-1	reviewed	p.K162N	0.984	476	0%	196	19.9%	0	-	probably_damaging(0.957)	deleterious(0)	deleterious(0.845)	NULL
FAM135B	51059	genome.wustl.edu	37	8	139153553	139153553	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_015912.3	-1	validated	p.S1226	0.000	319	0%	123	18.7%	0	-	-	-	-	HMMPfam_DUF676,superfamily_alpha/beta-Hydrolases
FAM135B	51059	genome.wustl.edu	37	8	139163631	139163631	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_015912.3	-1	validated	p.E1029D	1.000	124	0%	40	22.5%	0	-	probably_damaging(0.997)	deleterious(0)	deleterious(0.911)	NULL
FAM135B	51059	genome.wustl.edu	37	8	139163742	139163742	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_015912.3	-1	validated	p.S992	0.000	128	0%	46	23.9%	0	-	-	-	-	NULL
FAM135B	51059	genome.wustl.edu	37	8	139165014	139165014	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_015912.3	-1	validated	p.P568	0.001	269	0%	80	16.3%	0	-	-	-	-	NULL
FAM135B	51059	genome.wustl.edu	37	8	139165433	139165433	+	Missense_Mutation	SNP	A	A	C	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_015912.3	-1	validated	p.F429V	0.367	101	0%	37	24.3%	0	-	probably_damaging(0.999)	tolerated(0.05)	deleterious(0.836)	NULL
FAM135B	51059	genome.wustl.edu	37	8	139180201	139180201	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_015912.3	-1	validated	p.D399N	0.995	73	0%	25	16%	1	0%	probably_damaging(0.999)	deleterious(0.02)	deleterious(0.873)	NULL
FAM135B	51059	genome.wustl.edu	37	8	139269003	139269003	+	Splice_Site	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_015912.3	-1	validated	e4-1	1.000	232	0%	74	17.6%	0	-	-	-	-	-
COL22A1	169044	genome.wustl.edu	37	8	139606314	139606314	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_152888.1	-1	validated	p.G1521S	1.000	35	0%	15	33.3%	3	0%	unknown(0)	deleterious(0.02)	-	HMMPfam_Collagen
COL22A1	169044	genome.wustl.edu	37	8	139618690	139618690	+	Nonsense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	ENST00000341807	-1	known	p.E575*	0.911	202	0%	63	22.2%	1	0%	unknown(0)	tolerated(0.1)	-	HMMPfam_Collagen
COL22A1	169044	genome.wustl.edu	37	8	139688872	139688872	+	Nonsense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_152888.1	-1	validated	p.R1027*	1.000	115	0%	57	14%	1	0%	-	-	-	NULL
COL22A1	169044	genome.wustl.edu	37	8	139706805	139706805	+	Splice_Site	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_152888.1	-1	validated	e33-1	1.000	96	0%	55	30.9%	0	-	-	-	-	-
COL22A1	169044	genome.wustl.edu	37	8	139737673	139737673	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_152888.1	-1	validated	p.G717E	1.000	105	0%	46	21.7%	1	0%	unknown(0)	deleterious(0.01)	-	HMMPfam_Collagen
COL22A1	169044	genome.wustl.edu	37	8	139774703	139774703	+	Nonsense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_152888.1	-1	validated	p.R604*	1.000	75	0%	39	17.9%	1	0%	-	-	-	HMMPfam_Collagen
LOC100288108	100288108	genome.wustl.edu	37	8	140631311	140631311	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	XM_002342878.1	+1	model	p.R352C	0.037	58	0%	85	22.4%	0	-	-	-	-	NULL
EIF2C2	27161	genome.wustl.edu	37	8	141566292	141566292	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	ENST00000220592	-1	known	p.D374N	1.000	116	0.9%	163	35%	2	50%	benign(0.416)	deleterious(0)	deleterious(0.579)	superfamily_PAZ domain
DENND3	22898	genome.wustl.edu	37	8	142151352	142151352	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	ENST00000395207	+1	known	p.A103V	1.000	145	0%	111	23.4%	0	-	-	-	-	NULL
DENND3	22898	genome.wustl.edu	37	8	142178473	142178473	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_014957.2	+1	validated	p.P628	0.017	62	0%	70	12.9%	0	-	-	-	-	NULL
DENND3	22898	genome.wustl.edu	37	8	142202655	142202655	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_014957.2	+1	validated	p.R1097C	0.000	59	0%	98	22.4%	15	0%	possibly_damaging(0.861)	tolerated(0.2)	neutral(0.382)	superfamily_WD40 repeat-like
PTP4A3	11156	genome.wustl.edu	37	8	142441123	142441123	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_032611.1	+1	reviewed	p.K167N	0.881	128	0%	186	24.2%	77	0%	benign(0.059)	tolerated(0.18)	neutral(0.060)	superfamily_(Phosphotyrosine protein) phosphatases II
FLJ43860	389690	genome.wustl.edu	37	8	142458028	142458028	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_207414.2	-1	validated	p.A933V	0.000	38	0%	52	25%	0	-	benign(0.003)	tolerated(0.29)	neutral(0.029)	superfamily_ARM repeat
TSNARE1	203062	genome.wustl.edu	37	8	143381919	143381919	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_145003.3	-1	validated	p.A406	0.668	46	0%	74	31.1%	5	20%	-	-	-	superfamily_t-snare
TSNARE1	203062	genome.wustl.edu	37	8	143412291	143412291	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_145003.3	-1	validated	p.P288	0.187	86	0%	111	27.9%	4	0%	-	-	-	superfamily_t-snare
BAI1	575	genome.wustl.edu	37	8	143558817	143558817	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001702.2	+1	reviewed	p.R432C	1.000	31	0%	72	25%	0	-	probably_damaging(1)	deleterious(0)	deleterious(0.945)	HMMPfam_TSP_1,HMMSmart_SM00209,superfamily_TSP-1 type 1 repeat
BAI1	575	genome.wustl.edu	37	8	143623370	143623370	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001702.2	+1	reviewed	p.P1259T	0.544	13	0%	28	28.6%	0	-	benign(0.124)	deleterious(0.03)	neutral(0.374)	NULL
LYPD2	137797	genome.wustl.edu	37	8	143831824	143831824	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_205545.1	-1	provisional	p.I85	0.999	20	0%	58	27.6%	0	-	-	-	-	HMMPfam_UPAR_LY6,HMMSmart_LU,superfamily_SSF57302
CYP11B2	1585	genome.wustl.edu	37	8	143994844	143994844	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_000498.3	-1	reviewed	p.T326	0.110	31	0%	25	16%	0	-	-	-	-	HMMPfam_p450,superfamily_Cytochrome P450
CYP11B2	1585	genome.wustl.edu	37	8	143996140	143996140	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_000498.3	-1	reviewed	p.W260C	1.000	87	0%	92	18.5%	0	-	probably_damaging(1)	deleterious(0)	deleterious(0.945)	HMMPfam_p450,superfamily_Cytochrome P450
ZFP41	286128	genome.wustl.edu	37	8	144332324	144332324	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_173832.3	+1	provisional	p.R104H	0.023	115	0%	209	10.5%	2	0%	possibly_damaging(0.488)	deleterious(0.03)	deleterious(0.527)	HMMPfam_zf-C2H2,PatternScan_ZINC_FINGER_C2H2_1,HMMSmart_ZnF_C2H2,superfamily_SSF57667
ZFP41	286128	genome.wustl.edu	37	8	144332457	144332457	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_173832.3	+1	provisional	p.C148	0.713	72	0%	115	24.3%	3	33.3%	-	-	-	HMMPfam_zf-C2H2,PatternScan_ZINC_FINGER_C2H2_1,HMMSmart_ZnF_C2H2,superfamily_SSF57667
TOP1MT	116447	genome.wustl.edu	37	8	144397939	144397939	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_052963.1	-1	reviewed	p.A504V	0.975	64	0%	121	29.8%	66	36.3%	possibly_damaging(0.835)	tolerated(0.21)	neutral(0.362)	superfamily_Topismrse_insert,superfamily_DNA_brk_join_enz,HMMSmart_TOPEUc,HMMPfam_Topoisom_I
TOP1MT	116447	genome.wustl.edu	37	8	144403385	144403385	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_052963.1	-1	reviewed	p.P378S	0.353	30	0%	56	17.9%	34	23.5%	benign(0.097)	tolerated(0.16)	neutral(0.067)	superfamily_DNA_brk_join_enz,HMMSmart_TOPEUc,HMMPfam_Topoisom_I
TOP1MT	116447	genome.wustl.edu	37	8	144411524	144411524	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_052963.1	-1	reviewed	p.R119Q	0.995	112	0%	187	34.2%	7	14.2%	possibly_damaging(0.751)	tolerated(0.06)	deleterious(0.598)	HMMPfam_Topoisom_I_N,superfamily_TopoI_DNA_bd_euk
TSTA3	7264	genome.wustl.edu	37	8	144696805	144696805	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_003313.3	-1	reviewed	p.D151	1.000	80	0%	145	17.2%	72	20.8%	-	-	-	HMMPfam_Epimerase,superfamily_NAD(P)-binding Rossmann-fold domains
TSTA3	7264	genome.wustl.edu	37	8	144698736	144698736	+	Splice_Site	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_003313.3	-1	reviewed	e1+1	1.000	145	0%	276	13.4%	1	100%	-	-	-	-
ZNF623	9831	genome.wustl.edu	37	8	144732944	144732944	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_014789.3	+1	validated	p.R301H	0.513	227	0%	155	27.1%	2	0%	probably_damaging(0.998)	tolerated(0.15)	deleterious(0.716)	HMMPfam_zf-C2H2,PatternScan_ZINC_FINGER_C2H2_1,HMMSmart_SM00355,superfamily_C2H2 and C2HC zinc fingers
ZNF707	286075	genome.wustl.edu	37	8	144773316	144773316	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001100598.1	+1	validated	p.R30M	0.780	160	0%	244	10.7%	7	0%	probably_damaging(0.998)	deleterious(0.01)	deleterious(0.880)	HMMPfam_KRAB,HMMSmart_SM00349,superfamily_KRAB domain (Kruppel-associated box Pfam 01352)
MAPK15	225689	genome.wustl.edu	37	8	144801256	144801256	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_139021.2	+1	validated	p.D171N	0.032	32	0%	33	24.2%	0	-	benign(0.001)	tolerated(0.71)	neutral(0.002)	HMMSmart_SM00219,HMMSmart_SM00220,superfamily_Protein kinase-like (PK-like),HMMPfam_Pkinase
FAM83H	286077	genome.wustl.edu	37	8	144810657	144810657	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_198488.3	-1	reviewed	p.R325Q	0.819	21	0%	21	28.6%	0	-	possibly_damaging(0.893)	deleterious(0.04)	deleterious(0.701)	NULL
FAM83H	286077	genome.wustl.edu	37	8	144810855	144810855	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_198488.3	-1	reviewed	p.A259V	0.997	9	0.000	29	0.276	1	0%	probably_damaging(1)	tolerated(0.16)	deleterious(0.559)	HMMPfam_DUF1669,superfamily_Phospholipase D/nuclease
SCRIB	23513	genome.wustl.edu	37	8	144873896	144873896	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_182706.3	-1	validated	p.K1570N	1.000	42	0%	59	30.5%	11	0%	benign(0.075)	deleterious(0.01)	neutral(0.411)	NULL
SCRIB	23513	genome.wustl.edu	37	8	144887348	144887348	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_182706.3	-1	validated	p.S868	0.963	7	0.000	15	0.333	3	33.3%	-	-	-	superfamily_PDZ domain-like
SCRIB	23513	genome.wustl.edu	37	8	144890908	144890908	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_182706.3	-1	validated	p.E662D	0.999	69	0%	179	12.3%	7	14.2%	benign(0.037)	tolerated(0.08)	neutral(0.302)	NULL
SCRIB	23513	genome.wustl.edu	37	8	144894513	144894513	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_182706.3	-1	validated	p.R277W	0.996	109	0%	179	28.5%	3	33.3%	probably_damaging(0.997)	deleterious(0)	deleterious(0.911)	HMMSmart_SM00364,superfamily_RNI-like
SCRIB	23513	genome.wustl.edu	37	8	144894996	144894996	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_182706.3	-1	validated	p.D260N	0.877	15	0%	37	37.8%	10	10%	benign(0.001)	tolerated(0.12)	neutral(0.261)	HMMSmart_SM00369,HMMSmart_SM00364,superfamily_RNI-like
EPPK1	83481	genome.wustl.edu	37	8	144941733	144941733	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_031308.1	-1	validated	p.G1897C	0.869	99	1%	218	22.5%	0	-	probably_damaging(1)	deleterious(0.04)	deleterious(0.849)	HMMPfam_Plectin,HMMSmart_SM00250,superfamily_Plakin repeat
EPPK1	83481	genome.wustl.edu	37	8	144942096	144942096	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_031308.1	-1	validated	p.V1776M	0.000	416	0.2%	727	12.5%	0	-	benign(0.009)	tolerated(0.09)	neutral(0.297)	NULL
EPPK1	83481	genome.wustl.edu	37	8	144942327	144942327	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_031308.1	-1	validated	p.V1699M	0.331	99	0%	167	24.6%	0	-	probably_damaging(0.989)	deleterious(0.01)	deleterious(0.845)	HMMPfam_Plectin,HMMSmart_SM00250,superfamily_Plakin repeat
EPPK1	83481	genome.wustl.edu	37	8	144942544	144942544	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_031308.1	-1	validated	p.E1626D	0.930	58	0%	114	14%	0	-	benign(0.003)	tolerated(1)	-	HMMPfam_Plectin,HMMSmart_SM00250,superfamily_Plakin repeat
EPPK1	83481	genome.wustl.edu	37	8	144942632	144942632	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_031308.1	-1	validated	p.R1597Q	1.000	39	0%	79	21.5%	0	-	probably_damaging(0.998)	tolerated(0.14)	deleterious(0.724)	HMMPfam_Plectin,HMMSmart_SM00250,superfamily_Plakin repeat
EPPK1	83481	genome.wustl.edu	37	8	144943341	144943341	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_031308.1	-1	validated	p.A1361T	1.000	8	0.000	17	0.529	1	100%	probably_damaging(0.965)	tolerated(0.09)	deleterious(0.704)	HMMPfam_Plectin,HMMSmart_SM00250,superfamily_Plakin repeat
PLEC	5339	genome.wustl.edu	37	8	145006618	145006618	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_201380.2	-1	reviewed	p.D780N	1.000	55	1.8%	105	27.6%	0	-	unknown(0)	-	-	HMMSmart_SM00150,superfamily_Spectrin repeat
PARP10	84875	genome.wustl.edu	37	8	145059192	145059192	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_032789.3	-1	validated	p.Q326H	0.004	93	0%	159	20.8%	2	0%	benign(0.006)	deleterious(0)	neutral(0.445)	NULL
PARP10	84875	genome.wustl.edu	37	8	145059788	145059788	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_032789.3	-1	validated	p.Q155H	0.000	18	0%	38	21.1%	9	33.3%	benign(0.002)	deleterious(0.04)	neutral(0.349)	NULL
SPATC1	375686	genome.wustl.edu	37	8	145094970	145094970	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_198572.2	+1	validated	p.L124	0.732	50	0%	130	10.8%	0	-	-	-	-	NULL
GPAA1	8733	genome.wustl.edu	37	8	145138692	145138692	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_003801.3	+1	reviewed	p.V148M	1.000	19	0%	61	27.9%	35	17.1%	probably_damaging(0.983)	deleterious(0.03)	deleterious(0.793)	HMMPfam_Gaa1
GPAA1	8733	genome.wustl.edu	37	8	145141014	145141014	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_003801.3	+1	reviewed	p.L618F	0.996	99	0%	179	21.8%	250	26%	possibly_damaging(0.95)	tolerated(0.1)	deleterious(0.680)	HMMPfam_Gaa1
CYC1	1537	genome.wustl.edu	37	8	145151387	145151387	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001916.3	+1	validated	p.V201M	1.000	200	0%	366	24.9%	123	25.2%	possibly_damaging(0.757)	deleterious(0.01)	deleterious(0.685)	HMMPfam_Cytochrom_C1,superfamily_Cytochrome c
DGAT1	8694	genome.wustl.edu	37	8	145540547	145540547	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_012079.4	-1	validated	p.R427H	1.000	41	0%	97	19.6%	66	30.3%	probably_damaging(1)	deleterious(0)	deleterious(0.945)	HMMPfam_MBOAT
FBXL6	26233	genome.wustl.edu	37	8	145580524	145580524	+	Missense_Mutation	SNP	G	G	A	rs147241187	by1000genomes	TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_012162.1	-1	reviewed	p.R275C	0.248	62	0%	115	20.9%	30	23.3%	probably_damaging(0.971)	deleterious(0.02)	deleterious(0.796)	superfamily_RNI-like
ADCK5	203054	genome.wustl.edu	37	8	145616586	145616586	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_174922.3	+1	validated	p.R237H	1.000	77	0%	132	11.4%	9	0%	probably_damaging(1)	deleterious(0)	deleterious(0.945)	HMMPfam_ABC1,superfamily_Kinase_like
CPSF1	29894	genome.wustl.edu	37	8	145624189	145624189	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_013291.2	-1	validated	p.A540T	0.858	63	0%	121	36.4%	9	22.2%	benign(0.007)	tolerated(0.34)	neutral(0.023)	NULL
VPS28	51160	genome.wustl.edu	37	8	145649624	145649624	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_183057.1	-1	reviewed	p.R144C	1.000	51	0%	92	23.9%	273	19.4%	probably_damaging(0.998)	deleterious(0)	deleterious(0.919)	HMMPfam_VPS28
TONSL	4796	genome.wustl.edu	37	8	145668668	145668668	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_013432.4	-1	reviewed	p.R101C	0.458	56	0%	122	13.1%	0	-	possibly_damaging(0.852)	tolerated(0.06)	deleterious(0.650)	superfamily_TPR-like
CYHR1	50626	genome.wustl.edu	37	8	145689875	145689875	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_138496.1	-1	validated	p.G72S	1.000	37	0%	78	29.5%	16	6.2%	probably_damaging(0.998)	deleterious(0)	deleterious(0.919)	NULL
FOXH1	8928	genome.wustl.edu	37	8	145699808	145699808	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_003923.2	-1	reviewed	p.P304L	0.928	38	0%	81	18.5%	0	-	probably_damaging(0.986)	deleterious(0)	deleterious(0.879)	NULL
PPP1R16A	84988	genome.wustl.edu	37	8	145727127	145727127	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_032902.5	+1	provisional	p.P476	0.000	36	0%	87	20.7%	51	47%	-	-	-	NULL
GPT	2875	genome.wustl.edu	37	8	145730452	145730452	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_005309.2	+1	reviewed	p.G145R	1.000	42	0%	103	16.5%	1	100%	possibly_damaging(0.627)	deleterious(0)	deleterious(0.663)	HMMPfam_Aminotran_1_2,superfamily_PyrdxlP-dep_Trfase_major
MFSD3	113655	genome.wustl.edu	37	8	145736013	145736013	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_138431.1	+1	provisional	p.R288H	0.000	75	1.3%	139	13.7%	15	0%	benign(0.274)	tolerated(0.25)	neutral(0.067)	HMMPfam_MFS_1,superfamily_MFS_gen_substrate_transporter
RECQL4	9401	genome.wustl.edu	37	8	145739582	145739582	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	ENST00000428558	-1	known	p.R623	0.021	30	0%	51	31.4%	5	20%	-	-	-	HMMPfam_DEAD,HMMSmart_SM00487,superfamily_P-loop containing nucleoside triphosphate hydrolases
ARHGAP39	80728	genome.wustl.edu	37	8	145756182	145756182	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_025251.1	-1	validated	p.I1018	0.856	12	0%	19	26.3%	6	0%	-	-	-	HMMPfam_RhoGAP,HMMSmart_SM00324,superfamily_GTPase activation domain GAP
ARHGAP39	80728	genome.wustl.edu	37	8	145771037	145771037	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_025251.1	-1	validated	p.T706M	1.000	48	0%	97	14.4%	0	-	probably_damaging(1)	deleterious(0.01)	deleterious(0.905)	NULL
ZNF251	90987	genome.wustl.edu	37	8	145948421	145948421	+	Silent	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_138367.1	-1	validated	p.V208	0.958	172	0%	209	12%	0	-	-	-	-	superfamily_C2H2 and C2HC zinc fingers
ZNF251	90987	genome.wustl.edu	37	8	145948676	145948676	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_138367.1	-1	validated	p.L123	0.001	113	0%	124	21.8%	2	0%	-	-	-	NULL
ZNF250	58500	genome.wustl.edu	37	8	146107483	146107483	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_021061.3	-1	validated	p.Y367C	0.964	165	0%	120	28.3%	18	33.3%	probably_damaging(1)	deleterious(0.01)	deleterious(0.905)	HMMPfam_zf-C2H2,HMMSmart_SM00355,superfamily_C2H2 and C2HC zinc fingers
ZNF16	7564	genome.wustl.edu	37	8	146156298	146156298	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001029976.2	-1	reviewed	p.G625	0.483	302	0%	139	20.1%	10	20%	-	-	-	superfamily_C2H2 and C2HC zinc fingers
ZNF16	7564	genome.wustl.edu	37	8	146157403	146157403	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001029976.2	-1	reviewed	p.R257Q	0.000	129	0.8%	58	13.8%	5	0%	probably_damaging(0.963)	deleterious(0.04)	deleterious(0.754)	HMMPfam_zf-C2H2,HMMSmart_SM00355,superfamily_C2H2 and C2HC zinc fingers
ZNF16	7564	genome.wustl.edu	37	8	146157404	146157404	+	Nonsense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001029976.2	-1	reviewed	p.R257*	0.000	129	0%	53	17%	5	0%	-	-	-	HMMPfam_zf-C2H2,HMMSmart_SM00355,superfamily_C2H2 and C2HC zinc fingers
C8orf33	65265	genome.wustl.edu	37	8	146278087	146278087	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_023080.2	+1	validated	p.V41A	0.001	70	0%	234	23.1%	2	0%	possibly_damaging(0.792)	deleterious(0)	deleterious(0.742)	NULL
C8orf33	65265	genome.wustl.edu	37	8	146279476	146279476	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_023080.2	+1	validated	p.R208H	0.085	212	0%	272	21%	14	35.7%	probably_damaging(0.998)	deleterious(0.01)	deleterious(0.880)	NULL
DOCK8	81704	genome.wustl.edu	37	9	421066	421066	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_203447.3	+1	reviewed	p.R1313C	0.984	88	0%	20	25%	1	0%	probably_damaging(1)	deleterious(0)	deleterious(0.945)	NULL
KANK1	23189	genome.wustl.edu	37	9	712002	712002	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_015158.2	+1	reviewed	p.I412	0.001	106	0%	129	14%	6	0%	-	-	-	superfamily_ANK
KANK1	23189	genome.wustl.edu	37	9	742407	742407	+	Splice_Site	SNP	T	T	C	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_015158.2	+1	reviewed	e9+2	1.000	49	0%	25	24%	0	-	-	-	-	-
DMRT3	58524	genome.wustl.edu	37	9	990590	990590	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_021240.2	+1	validated	p.R335Q	0.985	117	0%	94	24.5%	0	-	benign(0.323)	deleterious(0.01)	deleterious(0.507)	NULL
DMRT2	10655	genome.wustl.edu	37	9	1056728	1056728	+	Missense_Mutation	SNP	G	G	A	rs3824419	byCluster;byFrequency;by2Hit2Allele;byHapMap;by1000genomes	TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_181872.4	+1	reviewed	p.A381T	0.000	111	0%	175	24%	0	-	benign(0.001)	tolerated(1)	-	NULL
KCNV2	169522	genome.wustl.edu	37	9	2718338	2718338	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_133497.2	+1	reviewed	p.R200H	1.000	4	0.000	17	0.412	0	-	probably_damaging(0.98)	deleterious(0.02)	deleterious(0.807)	superfamily_BTB/POZ_fold
RFX3	5991	genome.wustl.edu	37	9	3270405	3270405	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_134428.1	-1	reviewed	p.E441D	1.000	188	0%	29	20.7%	1	0%	benign(0.036)	tolerated(0.54)	neutral(0.009)	NULL
GLIS3	169792	genome.wustl.edu	37	9	4286213	4286213	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001042413.1	-1	reviewed	p.Q71H	1.000	82	0%	68	27.9%	0	-	possibly_damaging(0.926)	deleterious(0)	deleterious(0.819)	NULL
GLIS3	169792	genome.wustl.edu	37	9	4286240	4286240	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001042413.1	-1	reviewed	p.M62I	1.000	99	0%	63	20.6%	0	-	benign(0.075)	deleterious(0)	neutral(0.450)	NULL
SLC1A1	6505	genome.wustl.edu	37	9	4572255	4572255	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_004170.5	+1	reviewed	p.V212I	1.000	386	0%	128	26.6%	0	-	benign(0.007)	tolerated(0.61)	neutral(0.004)	HMMPfam_SDF
PPAPDC2	403313	genome.wustl.edu	37	9	4662959	4662959	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_203453.2	+1	validated	p.N195S	1.000	99	0%	160	30%	0	-	benign(0.081)	tolerated(0.78)	neutral(0.007)	HMMPfam_PAP2,HMMSmart_acidPPc,superfamily_AcPase_VanPerase
AK3	50808	genome.wustl.edu	37	9	4719148	4719148	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_016282.2	-1	validated	p.P144H	1.000	176	0%	76	27.6%	20	10%	probably_damaging(1)	deleterious(0.01)	deleterious(0.905)	HMMPfam_ADK,HMMPfam_ADK_lid,superfamily_Adenylate_kinase_Znf_lid,superfamily_SSF52540
MIR101-2	406894	genome.wustl.edu	37	9	4850328	4850328	+	RNA	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	ENST00000362195	+1	known	NULL	1.000	525	0.2%	279	12.2%	0	-	-	-	-	-
JAK2	3717	genome.wustl.edu	37	9	5072555	5072555	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_004972.3	+1	reviewed	p.D569Y	1.000	269	0%	69	10.1%	1	0%	probably_damaging(1)	deleterious(0)	deleterious(0.945)	HMMPfam_Pkinase_Tyr,HMMSmart_TyrKc,superfamily_Kinase_like
ERMP1	79956	genome.wustl.edu	37	9	5798875	5798875	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_024896.2	-1	validated	p.R734Q	1.000	198	0%	80	45%	1	0%	benign(0.315)	tolerated(0.31)	neutral(0.126)	NULL
KIAA2026	158358	genome.wustl.edu	37	9	5919943	5919943	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001017969.2	-1	validated	p.S2018F	0.993	336	0%	127	22%	14	7.1%	probably_damaging(0.996)	deleterious(0.03)	deleterious(0.826)	NULL
KIAA2026	158358	genome.wustl.edu	37	9	5921722	5921722	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001017969.2	-1	validated	p.F1425S	1.000	674	0%	219	27.9%	1	0%	benign(0.02)	tolerated(0.72)	neutral(0.003)	NULL
KIAA2026	158358	genome.wustl.edu	37	9	5968331	5968331	+	Nonsense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001017969.2	-1	validated	p.E634*	1.000	395	0%	134	21.6%	2	0%	-	-	-	NULL
KIAA2026	158358	genome.wustl.edu	37	9	5968511	5968511	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001017969.2	-1	validated	p.R574C	0.409	280	0%	96	20.8%	1	0%	benign(0.006)	deleterious(0.03)	neutral(0.364)	NULL
UHRF2	115426	genome.wustl.edu	37	9	6413543	6413543	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_152896.1	+1	reviewed	p.D18G	1.000	16	0%	23	43.5%	1	0%	possibly_damaging(0.631)	tolerated(0.21)	neutral(0.265)	HMMPfam_ubiquitin,HMMSmart_SM00213,superfamily_Ubiquitin-like
GLDC	2731	genome.wustl.edu	37	9	6533125	6533125	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_000170.2	-1	reviewed	p.T985	0.998	279	0.4%	88	10.2%	3	0%	-	-	-	NULL
GLDC	2731	genome.wustl.edu	37	9	6536110	6536110	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_000170.2	-1	reviewed	p.A931V	1.000	53	0%	21	47.6%	3	33.3%	possibly_damaging(0.527)	tolerated(0.24)	neutral(0.215)	superfamily_PyrdxlP-dep_Trfase_major
GLDC	2731	genome.wustl.edu	37	9	6587168	6587168	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_000170.2	-1	reviewed	p.Y608C	1.000	291	0%	82	22%	0	-	probably_damaging(0.999)	deleterious(0)	deleterious(0.935)	superfamily_PyrdxlP-dep_Trfase_major
KDM4C	23081	genome.wustl.edu	37	9	6805627	6805627	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_015061.3	+1	reviewed	p.R58I	0.585	92	1.1%	170	27.6%	2	50%	probably_damaging(1)	deleterious(0)	deleterious(0.945)	NULL
KDM4C	23081	genome.wustl.edu	37	9	7011752	7011752	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_015061.3	+1	reviewed	p.A614V	1.000	216	0%	35	14.3%	4	25%	probably_damaging(0.996)	tolerated(0.1)	deleterious(0.748)	NULL
KDM4C	23081	genome.wustl.edu	37	9	7011779	7011779	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_015061.3	+1	reviewed	p.T623M	0.879	168	0%	32	31.2%	3	0%	probably_damaging(1)	deleterious(0.01)	deleterious(0.905)	NULL
KDM4C	23081	genome.wustl.edu	37	9	7165341	7165341	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_015061.3	+1	reviewed	p.I962T	0.823	162	0%	40	12.5%	10	20%	benign(0.033)	tolerated(1)	neutral(0.002)	HMMSmart_SM00333,superfamily_Tudor/PWWP/MBT
C9orf123	90871	genome.wustl.edu	37	9	7799576	7799576	+	Silent	SNP	A	A	G	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_033428.1	-1	provisional	p.L53	0.456	53	0%	88	20.5%	51	5.8%	-	-	-	NULL
PTPRD	5789	genome.wustl.edu	37	9	8341211	8341211	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_002839.3	-1	reviewed	p.N1669D	1.000	343	0%	108	20.4%	0	-	benign(0.2)	deleterious(0)	neutral(0.464)	HMMPfam_Y_phosphatase,HMMSmart_SM00194,superfamily_(Phosphotyrosine protein) phosphatases II
PTPRD	5789	genome.wustl.edu	37	9	8341865	8341865	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_002839.3	-1	reviewed	p.R1592M	1.000	456	0%	134	21.6%	1	0%	probably_damaging(1)	deleterious(0)	deleterious(0.945)	HMMPfam_Y_phosphatase,HMMSmart_SM00194,HMMSmart_SM00404,superfamily_(Phosphotyrosine protein) phosphatases II
TYRP1	7306	genome.wustl.edu	37	9	12698513	12698513	+	Silent	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_000550.2	+1	reviewed	p.V257	0.030	461	0%	76	15.8%	0	-	-	-	-	HMMPfam_Tyrosinase,superfamily_Di-copper_centre
TYRP1	7306	genome.wustl.edu	37	9	12698561	12698561	+	Silent	SNP	T	T	C	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_000550.2	+1	reviewed	p.D273	0.829	398	0%	73	19.2%	0	-	-	-	-	HMMPfam_Tyrosinase,superfamily_Di-copper_centre
MPDZ	8777	genome.wustl.edu	37	9	13123227	13123227	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_003829.3	-1	validated	p.C1626	0.998	117	0.9%	30	36.7%	4	0%	-	-	-	superfamily_PDZ domain-like
MPDZ	8777	genome.wustl.edu	37	9	13175817	13175817	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_003829.3	-1	validated	p.L997F	0.001	209	1%	40	17.5%	1	0%	possibly_damaging(0.716)	deleterious(0)	deleterious(0.704)	superfamily_PDZ domain-like
MPDZ	8777	genome.wustl.edu	37	9	13188881	13188881	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_003829.3	-1	validated	p.D756N	1.000	175	0%	33	21.2%	2	0%	probably_damaging(0.975)	tolerated(0.08)	deleterious(0.717)	HMMPfam_PDZ,HMMSmart_SM00228,superfamily_PDZ domain-like
NFIB	4781	genome.wustl.edu	37	9	14307195	14307195	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_005596.2	-1	validated	p.D119N	1.000	263	0.4%	236	11%	4	0%	probably_damaging(0.995)	deleterious(0)	deleterious(0.902)	HMMPfam_MH1,HMMSmart_SM00523
NFIB	4781	genome.wustl.edu	37	9	14307440	14307440	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_005596.2	-1	validated	p.R37Q	1.000	274	0%	230	24.8%	3	66.6%	probably_damaging(0.997)	deleterious(0.02)	deleterious(0.849)	HMMPfam_NfI_DNAbd_pre-N,PatternScan_CTF_NFI_1
FREM1	158326	genome.wustl.edu	37	9	14748541	14748541	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_144966.5	-1	reviewed	p.T1885I	0.112	229	0%	72	29.2%	4	0%	benign(0.142)	deleterious(0.01)	neutral(0.418)	NULL
FREM1	158326	genome.wustl.edu	37	9	14842427	14842427	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_144966.5	-1	reviewed	p.G542E	0.982	157	0%	53	24.5%	1	100%	benign(0.075)	tolerated(1)	neutral(0.005)	NULL
FREM1	158326	genome.wustl.edu	37	9	14846078	14846078	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_144966.5	-1	reviewed	p.L425I	0.888	150	0%	40	30%	0	-	possibly_damaging(0.839)	tolerated(0.05)	deleterious(0.666)	NULL
TTC39B	158219	genome.wustl.edu	37	9	15188120	15188120	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_152574.2	-1	validated	p.V349A	0.121	424	0%	119	17.6%	0	-	benign(0.004)	tolerated(0.51)	neutral(0.009)	HMMPfam_Deme6,HMMSmart_SM00028,superfamily_TPR-like
PSIP1	11168	genome.wustl.edu	37	9	15472732	15472732	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001128217.1	-1	validated	p.R292M	1.000	821	0%	190	30%	30	33.3%	probably_damaging(0.991)	deleterious(0.01)	deleterious(0.850)	NULL
C9orf93	203238	genome.wustl.edu	37	9	15729611	15729611	+	Silent	SNP	A	A	C	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_173550.2	+1	predicted	p.R622	0.997	131	0%	16	31.2%	0	-	-	-	-	NULL
C9orf93	203238	genome.wustl.edu	37	9	15874547	15874547	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	ENST00000449575	+1	known	p.R402H	0.998	228	0%	42	23.8%	5	40%	-	-	-	NULL
CNTLN	54875	genome.wustl.edu	37	9	17330640	17330640	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_017738.2	+1	validated	p.R451H	0.076	142	0%	54	11.1%	1	0%	benign(0)	deleterious(0.03)	neutral(0.364)	NULL
CNTLN	54875	genome.wustl.edu	37	9	17484376	17484376	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_017738.2	+1	validated	p.D1313	0.000	263	0%	84	27.4%	0	-	-	-	-	NULL
ADAMTSL1	92949	genome.wustl.edu	37	9	18657656	18657656	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001040272.4	+1	validated	p.A285V	0.002	179	0%	127	20.5%	3	0%	benign(0.034)	tolerated(0.2)	neutral(0.051)	NULL
ADAMTSL1	92949	genome.wustl.edu	37	9	18770654	18770654	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001040272.4	+1	validated	p.R758C	1.000	145	0%	113	26.5%	0	-	probably_damaging(1)	deleterious(0.03)	deleterious(0.865)	HMMPfam_TSP_1,HMMSmart_SM00209,superfamily_TSP-1 type 1 repeat
ADAMTSL1	92949	genome.wustl.edu	37	9	18775834	18775834	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001040272.4	+1	validated	p.L831M	0.962	171	0%	234	14.5%	0	-	benign(0.025)	tolerated(0.34)	neutral(0.024)	HMMPfam_TSP_1,HMMSmart_SM00209,superfamily_TSP-1 type 1 repeat
ADAMTSL1	92949	genome.wustl.edu	37	9	18829901	18829901	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001040272.4	+1	validated	p.P1392L	0.996	245	0%	53	28.3%	0	-	benign(0)	tolerated(0.2)	neutral(0.049)	superfamily_Immunoglobulin
FAM154A	158297	genome.wustl.edu	37	9	18941688	18941688	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_153707.1	-1	predicted	p.R123Q	0.999	213	0%	96	27.1%	0	-	possibly_damaging(0.826)	tolerated(0.55)	neutral(0.321)	NULL
PLIN2	123	genome.wustl.edu	37	9	19116429	19116429	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001122.2	-1	reviewed	p.Q377	1.000	154	0%	104	10.6%	90	0%	-	-	-	HMMPfam_Perilipin,superfamily_Mannose-6-phosphate receptor binding protein 1 (Tip47) C-terminal domain
DENND4C	55667	genome.wustl.edu	37	9	19345978	19345978	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_017925.4	+1	provisional	p.E786K	0.031	246	0%	99	13.1%	1	0%	benign(0.153)	deleterious(0.03)	neutral(0.378)	NULL
DENND4C	55667	genome.wustl.edu	37	9	19347022	19347022	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_017925.4	+1	provisional	p.A1134T	1.000	45	0%	12	41.7%	2	50%	probably_damaging(0.999)	deleterious(0)	deleterious(0.935)	NULL
ACER2	340485	genome.wustl.edu	37	9	19450631	19450631	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001010887.2	+1	validated	p.T275	0.674	174	0%	97	13.4%	0	-	-	-	-	NULL
LOC392288	392288	genome.wustl.edu	37	9	19461159	19461159	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	XM_373277.5	-1	model	p.T300M	1.000	237	0%	324	26.2%	0	-	-	-	-	HMMPfam_MAP1_LC3,superfamily_Ubiquitin-like
MLLT3	4300	genome.wustl.edu	37	9	20363561	20363561	+	Missense_Mutation	SNP	T	T	G	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_004529.2	-1	validated	p.N415T	1.000	375	0%	119	26.1%	2	50%	probably_damaging(0.996)	deleterious(0.03)	deleterious(0.826)	NULL
MLLT3	4300	genome.wustl.edu	37	9	20413944	20413944	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_004529.2	-1	validated	p.K300N	1.000	565	0%	178	15.2%	1	0%	benign(0.316)	deleterious(0.01)	deleterious(0.505)	NULL
KIAA1797	54914	genome.wustl.edu	37	9	20823040	20823040	+	Nonsense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_017794.3	+1	validated	p.E616*	1.000	228	0%	46	23.9%	2	0%	-	-	-	superfamily_ARM-type_fold
KIAA1797	54914	genome.wustl.edu	37	9	20944730	20944730	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_017794.3	+1	validated	p.A1171V	0.000	231	0%	63	22.2%	1	100%	benign(0.01)	tolerated(0.2)	neutral(0.050)	superfamily_ARM-type_fold
KIAA1797	54914	genome.wustl.edu	37	9	20978393	20978393	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_017794.3	+1	validated	p.S1439	0.964	124	0%	30	20%	6	50%	-	-	-	superfamily_ARM-type_fold
PTPLAD2	401494	genome.wustl.edu	37	9	21029392	21029392	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001010915.3	-1	validated	p.R15M	0.998	157	0%	236	23.7%	4	25%	benign(0.156)	tolerated(0.08)	neutral(0.314)	NULL
IFNA4	3441	genome.wustl.edu	37	9	21187381	21187381	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_021068.2	-1	validated	p.F50L	0.515	277	0%	57	22.8%	0	-	benign(0.002)	tolerated(0.65)	neutral(0.003)	HMMPfam_Interferon,superfamily_4_helix_cytokine
IFNA7	3444	genome.wustl.edu	37	9	21201993	21201993	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_021057.2	-1	validated	p.E58K	0.005	279	0%	80	20%	0	-	benign(0.005)	deleterious(0)	neutral(0.445)	HMMPfam_Interferon,HMMSmart_SM00076,superfamily_4-helical cytokines
IFNA5	3442	genome.wustl.edu	37	9	21305132	21305132	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_002169.2	-1	validated	p.A42S	0.005	216	0%	73	20.5%	0	-	benign(0.009)	tolerated(0.23)	neutral(0.042)	HMMPfam_Interferon,superfamily_4_helix_cytokine
IFNA1	3439	genome.wustl.edu	37	9	21440917	21440917	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_024013.1	+1	validated	p.A137	0.000	561	0%	140	6.4%	0	-	-	-	-	HMMPfam_Interferon,HMMSmart_IFabd,superfamily_4_helix_cytokine
PLAA	9373	genome.wustl.edu	37	9	26923312	26923312	+	Missense_Mutation	SNP	T	T	G	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001031689.2	-1	validated	p.E301D	0.997	382	0%	187	18.2%	14	0%	benign(0.001)	tolerated(0.56)	neutral(0.006)	NULL
PLAA	9373	genome.wustl.edu	37	9	26928189	26928189	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001031689.2	-1	validated	p.K158N	0.999	332	0%	159	21.4%	10	10%	unknown(0)	tolerated(0.49)	-	HMMSmart_WD40,superfamily_WD40_like,HMMPfam_WD40
IFT74	80173	genome.wustl.edu	37	9	27048145	27048145	+	Splice_Site	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001099222.1	+1	validated	e15-1	1.000	153	0%	42	23.8%	0	-	-	-	-	-
LOC100288436	100288436	genome.wustl.edu	37	9	30559228	30559228	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	XM_002342887.1	-1	model	p.E70D	0.003	277	0%	240	15.4%	0	-	-	-	-	NULL
ACO1	48	genome.wustl.edu	37	9	32407315	32407315	+	Nonsense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_002197.2	+1	reviewed	p.E52*	1.000	352	0%	72	20.8%	5	0%	-	-	-	superfamily_Aconitase iron-sulfur domain
ACO1	48	genome.wustl.edu	37	9	32423379	32423379	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_002197.2	+1	reviewed	p.D345Y	1.000	236	0%	70	14.3%	7	14.2%	probably_damaging(0.997)	deleterious(0.04)	deleterious(0.815)	HMMPfam_Aconitase,superfamily_Aconitase iron-sulfur domain
ACO1	48	genome.wustl.edu	37	9	32436330	32436330	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_002197.2	+1	reviewed	p.R728C	1.000	227	0%	68	17.6%	23	4.3%	probably_damaging(1)	deleterious(0)	deleterious(0.945)	HMMPfam_Aconitase_C,superfamily_Aconitase
TOPORS	10210	genome.wustl.edu	37	9	32543511	32543511	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_005802.3	-1	reviewed	p.S338P	0.992	115	0%	126	16.7%	3	33.3%	unknown(0)	tolerated(0.17)	-	NULL
TAF1L	138474	genome.wustl.edu	37	9	32630654	32630654	+	Nonsense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_153809.2	-1	provisional	p.E1642*	1.000	319	0%	113	21.2%	0	-	-	-	-	superfamily_Bromodomain
TAF1L	138474	genome.wustl.edu	37	9	32632082	32632082	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_153809.2	-1	provisional	p.D1166Y	1.000	279	0%	88	25%	0	-	probably_damaging(1)	deleterious(0.01)	deleterious(0.905)	NULL
TAF1L	138474	genome.wustl.edu	37	9	32633525	32633525	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_153809.2	-1	provisional	p.R685C	1.000	566	0%	201	10.4%	0	-	probably_damaging(1)	deleterious(0)	deleterious(0.945)	NULL
DNAJA1	3301	genome.wustl.edu	37	9	33030482	33030482	+	Nonsense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001539.2	+1	validated	p.R154*	1.000	187	0%	236	29.2%	55	0%	-	-	-	HMMPfam_DnaJ_CXXCXGXG,superfamily_DnaJ/Hsp40 cysteine-rich domain,superfamily_HSP40/DnaJ peptide-binding domain
SMU1	55234	genome.wustl.edu	37	9	33062078	33062078	+	Missense_Mutation	SNP	T	T	G	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_018225.2	-1	validated	p.K200T	0.998	353	0%	98	21.4%	15	0%	benign(0)	tolerated(0.61)	neutral(0.004)	superfamily_WD40 repeat-like
NFX1	4799	genome.wustl.edu	37	9	33318921	33318921	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_002504.3	+1	reviewed	p.G568S	1.000	174	0%	92	19.6%	4	0%	possibly_damaging(0.773)	deleterious(0)	deleterious(0.732)	HMMPfam_zf-NF-X1,HMMSmart_SM00438
NFX1	4799	genome.wustl.edu	37	9	33364781	33364781	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_147133.1	+1	reviewed	p.V1016	0.854	220	0.5%	68	23.5%	0	-	-	-	-	NULL
ANKRD18B	441459	genome.wustl.edu	37	9	33536943	33536943	+	Nonsense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	XM_001718334.2	+1	model	p.E398*	0.285	348	0%	127	12.6%	0	-	-	-	-	NULL
UBE2R2	54926	genome.wustl.edu	37	9	33912025	33912025	+	Silent	SNP	C	C	T	rs192077739	by1000genomes	TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_017811.3	+1	reviewed	p.V142	1.000	467	0.2%	169	27.2%	63	4.7%	-	-	-	HMMPfam_UQ_con,HMMSmart_SM00212,superfamily_UBC-like
UBAP2	55833	genome.wustl.edu	37	9	33927931	33927931	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	ENST00000379239	-1	known	p.R111Q	0.002	72	0%	49	12.2%	5	20%	unknown(0)	-	-	NULL
UBAP1	51271	genome.wustl.edu	37	9	34234255	34234255	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_016525.4	+1	reviewed	p.D26Y	1.000	367	0%	131	25.2%	10	0%	probably_damaging(0.999)	deleterious(0)	deleterious(0.935)	NULL
KIF24	347240	genome.wustl.edu	37	9	34257040	34257040	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_194313.2	-1	validated	p.F855L	1.000	203	0%	69	20.3%	2	50%	benign(0.235)	deleterious(0)	neutral(0.468)	NULL
KIF24	347240	genome.wustl.edu	37	9	34306368	34306368	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_194313.2	-1	validated	p.P232L	0.999	408	0%	220	13.2%	0	-	benign(0.244)	deleterious(0.01)	neutral(0.430)	HMMPfam_Kinesin,HMMSmart_SM00129,superfamily_P-loop containing nucleoside triphosphate hydrolases
KIAA1161	57462	genome.wustl.edu	37	9	34371746	34371746	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	ENST00000297625	-1	known	p.S365L	1.000	41	2.4%	78	23.1%	0	-	probably_damaging(0.999)	deleterious(0.03)	deleterious(0.855)	HMMPfam_Glyco_hydro_31,superfamily_(Trans)glycosidases
KIAA1161	57462	genome.wustl.edu	37	9	34372673	34372673	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	ENST00000297625	-1	known	p.A56V	0.414	73	1.4%	127	15.7%	0	-	benign(0.008)	-	-	NULL
DNAI1	27019	genome.wustl.edu	37	9	34493263	34493263	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_012144.2	+1	reviewed	p.K251N	0.176	243	0%	136	11.8%	0	-	probably_damaging(0.956)	tolerated(0.4)	neutral(0.416)	superfamily_WD40_like
DNAI1	27019	genome.wustl.edu	37	9	34514714	34514714	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_012144.2	+1	reviewed	p.A599T	1.000	99	1%	121	20.7%	2	0%	probably_damaging(0.999)	deleterious(0)	deleterious(0.935)	HMMSmart_WD40,superfamily_WD40_like,HMMPfam_WD40
DNAI1	27019	genome.wustl.edu	37	9	34517413	34517413	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_012144.2	+1	reviewed	p.R650H	1.000	160	0.6%	197	14.2%	0	-	probably_damaging(1)	deleterious(0.01)	deleterious(0.905)	superfamily_WD40_like
RPP25L	138716	genome.wustl.edu	37	9	34611185	34611185	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_148178.1	-1	validated	p.R37C	1.000	75	0%	144	29.9%	18	16.6%	probably_damaging(1)	deleterious(0)	deleterious(0.945)	HMMPfam_Alba,superfamily_SSF82704
DCTN3	11258	genome.wustl.edu	37	9	34613785	34613785	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_007234.3	-1	reviewed	p.E185	0.612	97	0%	179	21.2%	89	17.9%	-	-	-	NULL
ARID3C	138715	genome.wustl.edu	37	9	34622032	34622032	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001017363.1	-1	reviewed	p.G375R	1.000	143	0.7%	261	24.1%	0	-	probably_damaging(1)	deleterious(0)	deleterious(0.945)	NULL
ARID3C	138715	genome.wustl.edu	37	9	34625800	34625800	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001017363.1	-1	reviewed	p.L110	0.997	324	0.3%	511	24.7%	0	-	-	-	-	HMMPfam_ARID,superfamily_ARID
IL11RA	3590	genome.wustl.edu	37	9	34657072	34657072	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001142784.1	+1	reviewed	p.D124	1.000	129	0%	217	21.7%	3	0%	-	-	-	HMMSmart_SM00060,superfamily_Fibronectin type III,superfamily_Immunoglobulin
ENSG00000232067	0	genome.wustl.edu	37	9	34835440	34835440	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	ENST00000455647	-1	known	p.L17I	0.985	109	0%	38	28.9%	0	-	probably_damaging(0.991)	deleterious(0)	deleterious(0.889)	NULL
FAM205B	389715	genome.wustl.edu	37	9	34835945	34835945	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	ENST00000399773	-1	known	p.R118W	0.000	12	0%	22	36.4%	0	-	unknown(0)	-	-	NULL
FAM205B	389715	genome.wustl.edu	37	9	34838469	34838469	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	ENST00000399773	-1	known	p.L8M	0.000	131	0%	71	14.1%	0	-	probably_damaging(0.999)	deleterious(0)	deleterious(0.935)	NULL
DNAJB5	25822	genome.wustl.edu	37	9	34996541	34996541	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001135005.1	+1	validated	p.R236H	0.996	72	1.4%	70	15.7%	47	0%	benign(0.085)	tolerated(0.06)	neutral(0.329)	NULL
C9orf131	138724	genome.wustl.edu	37	9	35043571	35043571	+	Missense_Mutation	SNP	A	A	C	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_203299.2	+1	validated	p.E315D	0.000	183	0%	171	11.7%	0	-	possibly_damaging(0.649)	tolerated(0.67)	neutral(0.231)	NULL
STOML2	30968	genome.wustl.edu	37	9	35101168	35101168	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_013442.1	-1	provisional	p.E230K	1.000	184	0%	294	13.6%	77	11.6%	probably_damaging(0.987)	deleterious(0)	deleterious(0.881)	NULL
LOC730110	730110	genome.wustl.edu	37	9	35148557	35148557	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	XM_002342891.1	-1	model	p.A209T	0.676	181	0%	97	17.5%	0	-	-	-	-	HMMPfam_zf-C2H2,PatternScan_ZINC_FINGER_C2H2_1,HMMSmart_SM00355,superfamily_C2H2 and C2HC zinc fingers
UNC13B	10497	genome.wustl.edu	37	9	35237772	35237772	+	Missense_Mutation	SNP	A	A	C	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_006377.3	+1	reviewed	p.N115H	1.000	358	0%	72	19.4%	0	-	probably_damaging(0.957)	tolerated(0.12)	deleterious(0.661)	superfamily_C2_CaLB
RUSC2	9853	genome.wustl.edu	37	9	35547907	35547907	+	Silent	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001135999.1	+1	validated	p.S463	0.001	70	0%	55	23.6%	3	0%	-	-	-	NULL
FAM166B	730112	genome.wustl.edu	37	9	35562458	35562458	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001099951.1	-1	predicted	p.G197E	0.161	141	0%	161	27.3%	3	0%	benign(0.085)	-	-	NULL
FAM166B	730112	genome.wustl.edu	37	9	35562548	35562548	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	ENST00000399742	-1	known	p.A190T	0.990	159	0%	139	23.7%	3	0%	benign(0.395)	tolerated(0.3)	neutral(0.155)	NULL
C9orf100	84904	genome.wustl.edu	37	9	35663376	35663376	+	Missense_Mutation	SNP	C	C	T	rs148193246	by1000genomes	TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_032818.2	-1	provisional	p.V163I	0.001	197	0%	322	13.4%	4	0%	benign(0.001)	tolerated(0.09)	neutral(0.296)	HMMPfam_RhoGEF,HMMSmart_SM00325,superfamily_DBL homology domain (DH-domain)
TPM2	7169	genome.wustl.edu	37	9	35689162	35689162	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_003289.3	-1	reviewed	p.A74V	1.000	333	0%	550	31.8%	1214	0.4%	probably_damaging(0.994)	deleterious(0.03)	deleterious(0.817)	HMMPfam_Tropomyosin
GBA2	57704	genome.wustl.edu	37	9	35737586	35737586	+	Missense_Mutation	SNP	A	A	C	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	ENST00000378094	-1	known	p.F841V	0.003	27	0%	44	27.3%	8	87.5%	benign(0)	deleterious(0)	neutral(0.445)	HMMPfam_DUF608
NPR2	4882	genome.wustl.edu	37	9	35807348	35807348	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_003995.3	+1	reviewed	p.L889M	1.000	480	0%	381	20.5%	11	0%	probably_damaging(1)	deleterious(0)	deleterious(0.945)	HMMPfam_Guanylate_cyc,HMMSmart_SM00044,superfamily_Adenylyl and guanylyl cyclase catalytic domain
NPR2	4882	genome.wustl.edu	37	9	35809225	35809225	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_003995.3	+1	reviewed	p.R1020Q	1.000	228	0%	227	26.4%	18	5.5%	probably_damaging(1)	deleterious(0)	deleterious(0.945)	HMMPfam_Guanylate_cyc,superfamily_Adenylyl and guanylyl cyclase catalytic domain
SPAG8	26206	genome.wustl.edu	37	9	35811606	35811606	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_172312.1	-1	reviewed	p.V146A	0.004	69	0%	94	28.7%	1	0%	unknown(0)	tolerated(0.93)	-	NULL
HINT2	84681	genome.wustl.edu	37	9	35813656	35813656	+	Silent	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_032593.2	-1	validated	p.L69	0.018	104	0%	172	13.4%	66	1.5%	-	-	-	HMMPfam_HIT,superfamily_HIT-like
C9orf128	392307	genome.wustl.edu	37	9	35826090	35826090	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001012446.2	-1	validated	p.K23N	0.128	180	0%	214	23.4%	0	-	probably_damaging(0.999)	deleterious(0)	deleterious(0.935)	NULL
TMEM8B	51754	genome.wustl.edu	37	9	35852877	35852877	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001042589.1	+1	provisional	p.Y291	0.992	497	0%	674	24.8%	7	0%	-	-	-	NULL
HRCT1	646962	genome.wustl.edu	37	9	35906330	35906330	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001039792.1	+1	validated	p.G16S	0.010	21	0%	46	19.6%	1	0%	probably_damaging(0.998)	-	-	NULL
OR2S2	56656	genome.wustl.edu	37	9	35957933	35957933	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_019897.2	-1	provisional	p.R55C	0.657	165	0%	88	22.7%	0	-	benign(0.03)	deleterious(0.03)	neutral(0.366)	HMMPfam_7tm_1,superfamily_SSF81321
RNF38	152006	genome.wustl.edu	37	9	36344890	36344890	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_022781.4	-1	reviewed	p.D442Y	1.000	322	0%	78	11.5%	3	0%	probably_damaging(0.991)	deleterious(0)	deleterious(0.889)	superfamily_RING/U-box
ZCCHC7	84186	genome.wustl.edu	37	9	37126366	37126366	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_032226.2	+1	validated	p.E13K	1.000	590	0.2%	557	14.9%	2	0%	probably_damaging(0.99)	deleterious(0)	deleterious(0.886)	NULL
ZCCHC7	84186	genome.wustl.edu	37	9	37126382	37126382	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_032226.2	+1	validated	p.R18Q	1.000	580	0.2%	544	11.4%	2	0%	probably_damaging(0.999)	deleterious(0.04)	deleterious(0.839)	NULL
ZCCHC7	84186	genome.wustl.edu	37	9	37305547	37305547	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_032226.2	+1	validated	p.R263C	0.983	399	0%	142	13.4%	6	0%	probably_damaging(0.995)	tolerated(0.05)	deleterious(0.803)	superfamily_Retrovirus zinc finger-like domains
GRHPR	9380	genome.wustl.edu	37	9	37430575	37430575	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_012203.1	+1	reviewed	p.T222	0.867	124	0%	154	20.8%	106	16%	-	-	-	HMMPfam_2-Hacid_dh,HMMPfam_2-Hacid_dh_C,superfamily_NAD(P)-binding Rossmann-fold domains
ZBTB5	9925	genome.wustl.edu	37	9	37440940	37440940	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_014872.2	-1	validated	p.R537C	1.000	154	0%	93	20.4%	0	-	probably_damaging(1)	deleterious(0)	deleterious(0.945)	NULL
FBXO10	26267	genome.wustl.edu	37	9	37515999	37515999	+	Silent	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_012166.2	-1	validated	p.I866	0.998	531	0%	256	23.8%	4	0%	-	-	-	superfamily_Pectin_lyas_like
FBXO10	26267	genome.wustl.edu	37	9	37537191	37537191	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_012166.2	-1	validated	p.F445	0.825	52	0%	22	36.4%	5	0%	-	-	-	HMMSmart_PbH1,HMMSmart_CASH,superfamily_Pectin_lyas_like
FRMPD1	22844	genome.wustl.edu	37	9	37735601	37735601	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_014907.2	+1	validated	p.I424T	1.000	209	0%	97	14.4%	0	-	possibly_damaging(0.87)	deleterious(0)	deleterious(0.782)	NULL
FRMPD1	22844	genome.wustl.edu	37	9	37744516	37744516	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_014907.2	+1	validated	p.K829N	0.990	80	0%	85	28.2%	0	-	probably_damaging(0.98)	deleterious(0.01)	deleterious(0.830)	NULL
FRMPD1	22844	genome.wustl.edu	37	9	37745915	37745915	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_014907.2	+1	validated	p.L1296	1.000	163	0%	174	12.6%	0	-	-	-	-	NULL
SHB	6461	genome.wustl.edu	37	9	37974685	37974685	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_003028.2	-1	validated	p.D330N	1.000	55	1.8%	26	26.9%	21	33.3%	probably_damaging(0.979)	deleterious(0.01)	deleterious(0.828)	NULL
SHB	6461	genome.wustl.edu	37	9	38016113	38016113	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_003028.2	-1	validated	p.D245Y	1.000	274	0%	136	19.9%	8	25%	probably_damaging(0.988)	deleterious(0)	deleterious(0.882)	NULL
ALDH1B1	219	genome.wustl.edu	37	9	38395753	38395753	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_000692.3	+1	reviewed	p.R3H	0.933	88	0%	102	29.4%	17	0%	benign(0.004)	deleterious(0)	neutral(0.445)	NULL
ALDH1B1	219	genome.wustl.edu	37	9	38397265	38397265	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_000692.3	+1	reviewed	p.T507M	0.995	47	0%	61	26.2%	55	1.8%	probably_damaging(1)	deleterious(0)	deleterious(0.945)	HMMPfam_Aldedh,superfamily_ALDH-like
IGFBPL1	347252	genome.wustl.edu	37	9	38414136	38414136	+	Silent	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001007563.1	-1	provisional	p.S175	1.000	78	0%	33	15.2%	1	0%	-	-	-	HMMSmart_IGc2,HMMPfam_I-set,superfamily_SSF48726
ANKRD18A	253650	genome.wustl.edu	37	9	38588573	38588573	+	Missense_Mutation	SNP	G	G	A	rs139070805	by1000genomes	TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	ENST00000399703	-1	known	p.R698C	0.280	397	0%	68	19.1%	0	-	probably_damaging(0.994)	tolerated(0.21)	deleterious(0.496)	NULL
ANKRD18A	253650	genome.wustl.edu	37	9	38593842	38593842	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	ENST00000399703	-1	known	p.S640Y	0.995	547	0%	100	11%	0	-	probably_damaging(0.995)	deleterious(0)	deleterious(0.902)	NULL
ANKRD18A	253650	genome.wustl.edu	37	9	38596309	38596309	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	ENST00000399703	-1	known	p.A343V	0.002	211	0.5%	66	13.6%	0	-	benign(0.147)	deleterious(0.02)	neutral(0.396)	NULL
ANKRD18A	253650	genome.wustl.edu	37	9	38620254	38620254	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	ENST00000399703	-1	known	p.R10H	0.000	40	0%	64	35.9%	0	-	possibly_damaging(0.499)	deleterious(0.01)	deleterious(0.572)	superfamily_ANK
CNTNAP3	79937	genome.wustl.edu	37	9	39109210	39109210	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_033655.3	-1	reviewed	p.R771Q	0.052	166	0%	60	13.3%	0	-	benign(0.183)	deleterious(0.03)	neutral(0.382)	superfamily_Concanavalin A-like lectins/glucanases
ZNF658	26149	genome.wustl.edu	37	9	40772234	40772234	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_033160.5	-1	validated	p.R1014I	1.000	126	0%	35	20%	0	-	probably_damaging(1)	tolerated(0.2)	deleterious(0.549)	HMMPfam_zf-C2H2,PatternScan_ZINC_FINGER_C2H2_1,HMMSmart_SM00355,superfamily_C2H2 and C2HC zinc fingers
ZNF658	26149	genome.wustl.edu	37	9	40773158	40773158	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_033160.5	-1	validated	p.R706I	0.999	639	0%	183	22.4%	1	0%	probably_damaging(0.979)	tolerated(0.71)	neutral(0.423)	HMMPfam_zf-C2H2,PatternScan_ZINC_FINGER_C2H2_1,HMMSmart_SM00355,superfamily_C2H2 and C2HC zinc fingers
ZNF658	26149	genome.wustl.edu	37	9	40774336	40774336	+	Silent	SNP	A	A	G	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_033160.5	-1	validated	p.T313	0.001	562	0%	121	10.7%	0	-	-	-	-	superfamily_C2H2 and C2HC zinc fingers
FAM75A6	389730	genome.wustl.edu	37	9	43628674	43628674	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001145196.1	-1	predicted	p.G90C	0.000	695	0%	501	11%	0	-	probably_damaging(0.995)	deleterious(0.03)	deleterious(0.822)	NULL
LOC389722	389722	genome.wustl.edu	37	9	43816726	43816726	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	XM_002342910.1	+1	model	p.E278K	0.966	337	0%	53	17%	0	-	possibly_damaging(0.749)	tolerated(0.06)	deleterious(0.598)	HMMSmart_SM00282,superfamily_Concanavalin A-like lectins/glucanases,HMMPfam_Laminin_G_2
LOC728683	728683	genome.wustl.edu	37	9	68371849	68371849	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	XM_001128151.2	-1	model	p.A194D	1.000	34	0%	51	15.7%	0	-	-	-	-	HMMPfam_7tm_1
PGM5	5239	genome.wustl.edu	37	9	71006577	71006577	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_021965.3	+1	validated	p.T275	0.059	400	0%	115	11.3%	30	0%	-	-	-	HMMPfam_PGM_PMM_II,superfamily_Phosphoglucomutase first 3 domains
PRKACG	5568	genome.wustl.edu	37	9	71628097	71628097	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_002732.3	-1	reviewed	p.I304	1.000	178	0.6%	235	11.5%	0	-	-	-	-	HMMSmart_S_TK_X,superfamily_Kinase_like
PRKACG	5568	genome.wustl.edu	37	9	71628499	71628499	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_002732.3	-1	reviewed	p.P170	0.849	39	0%	103	30.1%	0	-	-	-	-	HMMSmart_S_TKc,PatternScan_PROTEIN_KINASE_ST,superfamily_Kinase_like,HMMPfam_Pkinase
PRKACG	5568	genome.wustl.edu	37	9	71628735	71628735	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_002732.3	-1	reviewed	p.E92K	0.990	92	0%	214	25.2%	0	-	probably_damaging(0.975)	deleterious(0)	deleterious(0.861)	HMMSmart_S_TKc,superfamily_Kinase_like,HMMPfam_Pkinase
TJP2	9414	genome.wustl.edu	37	9	71861612	71861612	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_004817.3	+1	reviewed	p.I858T	1.000	308	0%	215	28.4%	10	30%	probably_damaging(0.996)	deleterious(0)	deleterious(0.906)	HMMSmart_SM00072,superfamily_P-loop containing nucleoside triphosphate hydrolases
TJP2	9414	genome.wustl.edu	37	9	71863035	71863035	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_004817.3	+1	reviewed	p.T925	0.097	56	0%	57	36.8%	8	12.5%	-	-	-	NULL
TJP2	9414	genome.wustl.edu	37	9	71867733	71867733	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_004817.3	+1	reviewed	p.I1108	0.998	144	0%	84	25%	26	46.1%	-	-	-	NULL
FAM189A2	9413	genome.wustl.edu	37	9	71998586	71998586	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001127608.1	+1	validated	p.G179R	1.000	232	0%	135	23.7%	4	0%	probably_damaging(1)	deleterious(0.04)	deleterious(0.849)	NULL
APBA1	320	genome.wustl.edu	37	9	72082781	72082781	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001163.3	-1	reviewed	p.N480	0.958	143	0%	53	22.6%	4	0%	-	-	-	HMMPfam_PID,HMMSmart_PTB,superfamily_SSF50729
APBA1	320	genome.wustl.edu	37	9	72131031	72131031	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001163.3	-1	reviewed	p.R366C	1.000	34	0%	82	11%	0	-	probably_damaging(1)	deleterious(0)	deleterious(0.945)	NULL
MAMDC2	256691	genome.wustl.edu	37	9	72758472	72758472	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_153267.4	+1	validated	p.Y381H	0.998	95	0%	28	14.3%	16	0%	benign(0.001)	tolerated(0.54)	neutral(0.007)	HMMPfam_MAM,HMMSmart_SM00137,PatternScan_MAM_1
SMC5	23137	genome.wustl.edu	37	9	72913085	72913085	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_015110.3	+1	validated	p.G419	0.842	253	0%	101	31.7%	1	0%	-	-	-	HMMPfam_SMC_N,superfamily_SSF52540
SMC5	23137	genome.wustl.edu	37	9	72967218	72967218	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_015110.3	+1	validated	p.R1093C	0.998	231	0%	51	11.8%	13	30.7%	probably_damaging(0.999)	deleterious(0)	deleterious(0.935)	NULL
TRPM3	80036	genome.wustl.edu	37	9	73152116	73152116	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001007471.2	-1	reviewed	p.A1293T	0.996	68	0%	57	24.6%	0	-	benign(0.025)	tolerated(1)	neutral(0.001)	NULL
TRPM3	80036	genome.wustl.edu	37	9	73167949	73167949	+	Missense_Mutation	SNP	A	A	C	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001007471.2	-1	reviewed	p.F1117V	1.000	129	0%	39	20.5%	0	-	benign(0.004)	tolerated(0.97)	-	NULL
TRPM3	80036	genome.wustl.edu	37	9	73240119	73240119	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	ENST00000396280	-1	known	p.R446W	0.835	62	0%	48	14.6%	0	-	-	-	-	NULL
TRPM3	80036	genome.wustl.edu	37	9	73255510	73255510	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001007471.2	-1	reviewed	p.R471H	1.000	226	0%	64	26.6%	0	-	probably_damaging(0.987)	deleterious(0)	deleterious(0.881)	NULL
TMEM2	23670	genome.wustl.edu	37	9	74355086	74355086	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_013390.2	-1	validated	p.R366I	1.000	326	0%	105	11.4%	3	0%	benign(0.4)	tolerated(0.33)	neutral(0.152)	NULL
TMC1	117531	genome.wustl.edu	37	9	75404158	75404158	+	Silent	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_138691.2	+1	reviewed	p.I383	1.000	194	0%	68	11.8%	0	-	-	-	-	NULL
ALDH1A1	216	genome.wustl.edu	37	9	75520915	75520915	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_000689.3	-1	reviewed	p.C464	0.974	328	0%	66	22.7%	100	12%	-	-	-	HMMPfam_Aldedh,superfamily_ALDH-like
ALDH1A1	216	genome.wustl.edu	37	9	75526890	75526890	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_000689.3	-1	reviewed	p.R395H	1.000	350	0%	74	29.7%	91	6.5%	possibly_damaging(0.915)	deleterious(0.02)	deleterious(0.750)	HMMPfam_Aldedh,superfamily_ALDH-like
RORB	6096	genome.wustl.edu	37	9	77282717	77282717	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_006914.3	+1	reviewed	p.D337	1.000	365	0%	135	18.5%	2	0%	-	-	-	HMMPfam_Hormone_recep,HMMSmart_SM00430,superfamily_Nuclear receptor ligand-binding domain
TRPM6	140803	genome.wustl.edu	37	9	77423068	77423068	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_017662.4	-1	reviewed	p.R507Q	0.174	643	0%	108	15.7%	0	-	possibly_damaging(0.86)	tolerated(0.15)	deleterious(0.574)	NULL
OSTF1	26578	genome.wustl.edu	37	9	77732462	77732462	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_012383.4	+1	validated	p.R26I	1.000	226	0%	101	31.7%	35	14.2%	benign(0.196)	deleterious(0.03)	neutral(0.383)	HMMPfam_SH3_1,HMMSmart_SH3,superfamily_SH3,superfamily_ANK
PCSK5	5125	genome.wustl.edu	37	9	78749091	78749091	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_006200.3	+1	reviewed	p.N425	1.000	411	0%	174	11.5%	1	0%	-	-	-	HMMPfam_Peptidase_S8,superfamily_Subtilisin-like
GCNT1	2650	genome.wustl.edu	37	9	79117959	79117959	+	Missense_Mutation	SNP	T	T	G	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001097633.1	+1	reviewed	p.F221C	1.000	72	0%	39	41%	3	0%	probably_damaging(1)	deleterious(0)	deleterious(0.945)	HMMPfam_Branch
PRUNE2	158471	genome.wustl.edu	37	9	79320277	79320277	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_015225.2	-1	validated	p.D2305N	0.152	157	0%	53	24.5%	1	0%	benign(0.366)	tolerated(0.41)	neutral(0.132)	NULL
PRUNE2	158471	genome.wustl.edu	37	9	79323343	79323343	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_015225.2	-1	validated	p.L1283I	0.005	203	0.5%	68	22.1%	0	-	possibly_damaging(0.626)	tolerated(0.2)	neutral(0.267)	NULL
PRUNE2	158471	genome.wustl.edu	37	9	79324126	79324126	+	Nonsense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_015225.2	-1	validated	p.R1022*	0.002	400	0.5%	146	12.3%	0	-	-	-	-	NULL
PRUNE2	158471	genome.wustl.edu	37	9	79324317	79324317	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_015225.2	-1	validated	p.S958L	0.317	405	0.2%	133	21.1%	0	-	benign(0.125)	tolerated(1)	neutral(0.011)	NULL
PRUNE2	158471	genome.wustl.edu	37	9	79325088	79325088	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_015225.2	-1	validated	p.S701Y	0.997	173	0%	56	12.5%	0	-	probably_damaging(0.99)	deleterious(0)	deleterious(0.886)	NULL
FOXB2	442425	genome.wustl.edu	37	9	79634702	79634702	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001013735.1	+1	provisional	p.M44I	1.000	93	0%	103	33%	0	-	unknown(0)	deleterious(0.01)	-	HMMPfam_Fork_head,HMMSmart_FH,superfamily_SSF46785
VPS13A	23230	genome.wustl.edu	37	9	79891128	79891128	+	Nonsense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_033305.2	+1	reviewed	p.E939*	1.000	306	0%	85	18.8%	0	-	-	-	-	NULL
VPS13A	23230	genome.wustl.edu	37	9	79895124	79895124	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_033305.2	+1	reviewed	p.M958I	0.992	334	0%	66	27.3%	1	0%	benign(0.003)	tolerated(0.13)	neutral(0.253)	NULL
VPS13A	23230	genome.wustl.edu	37	9	79930292	79930292	+	Missense_Mutation	SNP	A	A	C	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_033305.2	+1	reviewed	p.E1512D	1.000	389	0%	143	25.9%	0	-	probably_damaging(0.991)	tolerated(0.36)	neutral(0.464)	NULL
VPS13A	23230	genome.wustl.edu	37	9	79938130	79938130	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_033305.2	+1	reviewed	p.R1993H	1.000	194	0%	32	12.5%	1	0%	probably_damaging(1)	tolerated(0.12)	deleterious(0.760)	NULL
VPS13A	23230	genome.wustl.edu	37	9	79955364	79955364	+	Silent	SNP	T	T	C	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_033305.2	+1	reviewed	p.I2308	1.000	343	0%	91	22%	0	-	-	-	-	HMMPfam_DUF1162
GNA14	9630	genome.wustl.edu	37	9	80043929	80043929	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_004297.3	-1	reviewed	p.R206Q	1.000	214	0%	71	21.1%	6	0%	probably_damaging(0.999)	deleterious(0)	deleterious(0.935)	HMMPfam_G-alpha,HMMSmart_SM00275,superfamily_P-loop containing nucleoside triphosphate hydrolases
PSAT1	29968	genome.wustl.edu	37	9	80921331	80921331	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_058179.2	+1	reviewed	p.D167N	1.000	343	0%	223	26%	1	0%	benign(0.204)	tolerated(0.17)	neutral(0.079)	HMMPfam_Aminotran_5,superfamily_PLP-dependent transferases
TLE4	7091	genome.wustl.edu	37	9	82189838	82189838	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_007005.3	+1	validated	p.R65Q	1.000	277	0%	444	12.8%	1	0%	probably_damaging(0.998)	deleterious(0)	deleterious(0.919)	HMMPfam_TLE_N
TLE4	7091	genome.wustl.edu	37	9	82319765	82319765	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_007005.3	+1	validated	p.S226F	1.000	316	0%	140	12.9%	2	0%	benign(0.012)	deleterious(0.02)	neutral(0.384)	NULL
TLE4	7091	genome.wustl.edu	37	9	82319812	82319812	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_007005.3	+1	validated	p.R242C	1.000	248	0%	109	28.4%	4	0%	benign(0.006)	deleterious(0.05)	neutral(0.345)	NULL
TLE4	7091	genome.wustl.edu	37	9	82324561	82324561	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	ENST00000496114	+1	known	p.H220Y	1.000	214	0%	120	28.3%	5	0%	-	-	-	NULL
TLE1	7088	genome.wustl.edu	37	9	84200568	84200568	+	Silent	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_005077.3	-1	provisional	p.I660	1.000	78	0%	44	25%	33	18.1%	-	-	-	HMMSmart_SM00320,superfamily_WD40 repeat-like
FAM75D1	389763	genome.wustl.edu	37	9	84607751	84607751	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001001670.2	+1	validated	p.P789L	0.000	317	0%	155	25.8%	0	-	probably_damaging(0.976)	tolerated(0.69)	neutral(0.420)	NULL
FAM75D1	389763	genome.wustl.edu	37	9	84608468	84608468	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001001670.2	+1	validated	p.G1028V	0.001	103	0%	57	14%	0	-	benign(0.29)	deleterious(0.01)	deleterious(0.495)	NULL
FAM75D1	389763	genome.wustl.edu	37	9	84609834	84609834	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001001670.2	+1	validated	p.Q1483H	0.000	97	0%	42	31%	0	-	possibly_damaging(0.945)	deleterious(0)	deleterious(0.834)	NULL
RASEF	158158	genome.wustl.edu	37	9	85627406	85627406	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_152573.2	-1	provisional	p.R262	0.644	403	0.2%	186	26.9%	0	-	-	-	-	NULL
FRMD3	257019	genome.wustl.edu	37	9	85964642	85964642	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_174938.4	-1	validated	p.V109A	1.000	335	0%	122	16.4%	1	0%	possibly_damaging(0.94)	deleterious(0)	deleterious(0.830)	HMMPfam_FERM_N,PatternScan_FERM_1,superfamily_Second domain of FERM,HMMSmart_SM00295,superfamily_Ubiquitin-like
KIF27	55582	genome.wustl.edu	37	9	86518020	86518020	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_017576.1	-1	provisional	p.Q471	0.751	198	0%	82	26.8%	0	-	-	-	-	NULL
C9orf64	84267	genome.wustl.edu	37	9	86570524	86570524	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_032307.3	-1	validated	p.A123	0.989	183	0.5%	192	14.6%	7	28.5%	-	-	-	HMMPfam_DUF2419
C9orf64	84267	genome.wustl.edu	37	9	86571340	86571340	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_032307.3	-1	validated	p.G26R	0.253	71	0%	89	11.2%	3	0%	benign(0.255)	tolerated(0.19)	neutral(0.076)	NULL
HNRNPK	3190	genome.wustl.edu	37	9	86587010	86587010	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_002140.3	-1	reviewed	p.R247H	1.000	92	0%	70	11.4%	239	2.5%	probably_damaging(0.977)	tolerated(0.61)	neutral(0.423)	superfamily_Eukaryotic type KH-domain (KH-domain type I)
RMI1	80010	genome.wustl.edu	37	9	86616459	86616459	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_024945.2	+1	validated	p.N186	1.000	195	0%	56	14.3%	0	-	-	-	-	HMMPfam_tRNA_anti
AGTPBP1	23287	genome.wustl.edu	37	9	88190228	88190228	+	Splice_Site	SNP	A	A	G	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_015239.2	-1	validated	e24+2	1.000	199	0%	246	24.4%	1	100%	-	-	-	-
AGTPBP1	23287	genome.wustl.edu	37	9	88257840	88257840	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_015239.2	-1	validated	p.D362N	0.999	524	0%	127	16.5%	1	0%	probably_damaging(1)	deleterious(0.01)	deleterious(0.905)	NULL
NAA35	60560	genome.wustl.edu	37	9	88633282	88633282	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_024635.3	+1	validated	p.P629L	1.000	139	0%	44	11.4%	13	23%	probably_damaging(1)	deleterious(0)	deleterious(0.945)	NULL
GOLM1	51280	genome.wustl.edu	37	9	88642749	88642749	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_016548.3	-1	reviewed	p.R397W	0.732	608	0%	211	11.8%	33	0%	probably_damaging(0.999)	deleterious(0.01)	deleterious(0.896)	NULL
ZCCHC6	79670	genome.wustl.edu	37	9	88938690	88938690	+	Missense_Mutation	SNP	T	T	G	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_024617.3	-1	validated	p.N659H	0.245	262	0%	114	12.3%	3	0%	possibly_damaging(0.491)	deleterious(0.02)	deleterious(0.546)	NULL
DAPK1	1612	genome.wustl.edu	37	9	90252870	90252870	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_004938.2	+1	reviewed	p.G99	0.000	321	0%	114	28.9%	1	0%	-	-	-	HMMSmart_S_TKc,superfamily_Kinase_like,HMMPfam_Pkinase
DAPK1	1612	genome.wustl.edu	37	9	90258322	90258322	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_004938.2	+1	reviewed	p.R317I	1.000	133	0.8%	67	14.9%	2	0%	probably_damaging(0.991)	deleterious(0)	deleterious(0.889)	superfamily_ANK
C9orf79	286234	genome.wustl.edu	37	9	90501824	90501824	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_178828.4	+1	validated	p.L808M	0.001	70	0%	61	34.4%	0	-	probably_damaging(0.979)	tolerated(0.05)	deleterious(0.767)	NULL
C9orf79	286234	genome.wustl.edu	37	9	90502267	90502267	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_178828.4	+1	validated	p.G955	0.000	26	0%	23	21.7%	0	-	-	-	-	NULL
FAM75C1	441452	genome.wustl.edu	37	9	90535527	90535527	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001145124.1	+1	validated	p.G235	0.003	469	0.2%	411	22.6%	0	-	-	-	-	NULL
FAM75C1	441452	genome.wustl.edu	37	9	90537275	90537275	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001145124.1	+1	validated	p.M818T	0.000	170	0%	125	7.2%	0	-	-	-	-	NULL
FAM75C1	441452	genome.wustl.edu	37	9	90537819	90537819	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001145124.1	+1	validated	p.G999	0.001	599	0%	390	14.6%	1	0%	-	-	-	NULL
FAM75C1	441452	genome.wustl.edu	37	9	90538302	90538302	+	Silent	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001145124.1	+1	validated	p.L1160	0.006	228	0%	179	24%	0	-	-	-	-	NULL
SHC3	53358	genome.wustl.edu	37	9	91666953	91666953	+	Nonsense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_016848.4	-1	validated	p.R321*	1.000	166	0%	63	22.2%	1	0%	-	-	-	NULL
SECISBP2	79048	genome.wustl.edu	37	9	91940937	91940937	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_024077.3	+1	reviewed	p.E186	0.020	242	0%	206	12.6%	2	0%	-	-	-	NULL
SEMA4D	10507	genome.wustl.edu	37	9	91996254	91996254	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_006378.3	-1	validated	p.R485M	0.072	45	0%	91	13.2%	2	0%	possibly_damaging(0.495)	deleterious(0.03)	deleterious(0.529)	superfamily_Sema
SEMA4D	10507	genome.wustl.edu	37	9	92001344	92001344	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_006378.3	-1	validated	p.E462K	1.000	179	0%	201	30.3%	5	0%	probably_damaging(1)	deleterious(0)	deleterious(0.945)	HMMPfam_Sema,HMMSmart_Sema,superfamily_Sema
AUH	549	genome.wustl.edu	37	9	93978386	93978386	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001698.2	-1	reviewed	p.V299	0.334	379	0%	101	15.8%	11	36.3%	-	-	-	superfamily_ClpP/crotonase
NFIL3	4783	genome.wustl.edu	37	9	94171881	94171881	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_005384.2	-1	validated	p.T379N	0.143	226	0%	314	12.4%	52	0%	benign(0.259)	deleterious(0.01)	neutral(0.433)	HMMPfam_Vert_IL3-reg_TF
NFIL3	4783	genome.wustl.edu	37	9	94172487	94172487	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_005384.2	-1	validated	p.S177Y	0.991	171	0%	215	16.3%	29	0%	probably_damaging(0.981)	deleterious(0)	deleterious(0.870)	HMMPfam_Vert_IL3-reg_TF
ROR2	4920	genome.wustl.edu	37	9	94486260	94486260	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_004560.2	-1	reviewed	p.P839L	1.000	104	0%	149	12.1%	14	0%	probably_damaging(0.955)	deleterious(0.01)	deleterious(0.804)	NULL
ROR2	4920	genome.wustl.edu	37	9	94493393	94493393	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_004560.2	-1	reviewed	p.A328T	0.991	81	0%	136	23.5%	10	20%	benign(0.002)	tolerated(0.26)	neutral(0.034)	HMMPfam_Kringle,HMMSmart_KR,superfamily_Kringle-like
ASPN	54829	genome.wustl.edu	37	9	95233024	95233024	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_017680.3	-1	validated	p.R105Q	0.999	427	0%	87	23%	17	0%	benign(0.005)	tolerated(0.48)	neutral(0.011)	HMMSmart_LRRNT,HMMPfam_LRR_1,superfamily_SSF52058
ECM2	1842	genome.wustl.edu	37	9	95263014	95263014	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001393.2	-1	reviewed	p.K642N	1.000	140	0%	45	13.3%	12	0%	possibly_damaging(0.598)	deleterious(0.03)	deleterious(0.572)	superfamily_SSF52058
ECM2	1842	genome.wustl.edu	37	9	95264855	95264855	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001393.2	-1	reviewed	p.V515A	0.989	552	0%	160	12.5%	11	0%	benign(0.103)	tolerated(0.51)	neutral(0.017)	superfamily_SSF52058
ECM2	1842	genome.wustl.edu	37	9	95277084	95277084	+	Nonsense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001393.2	-1	reviewed	p.G295*	1.000	412	0%	197	23.9%	2	0%	-	-	-	superfamily_SSF52058
BICD2	23299	genome.wustl.edu	37	9	95481557	95481557	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001003800.1	-1	reviewed	p.R457H	0.582	55	0%	100	26%	6	0%	benign(0.019)	tolerated(0.12)	neutral(0.262)	HMMPfam_BicD
WNK2	65268	genome.wustl.edu	37	9	95997108	95997108	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_006648.3	+1	reviewed	p.A365V	1.000	68	0%	57	15.8%	1	0%	unknown(0)	deleterious(0)	-	superfamily_Kinase_like,HMMPfam_Pkinase
WNK2	65268	genome.wustl.edu	37	9	96030073	96030073	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_006648.3	+1	reviewed	p.E1248K	1.000	50	0%	79	13.9%	3	0%	possibly_damaging(0.927)	deleterious(0.02)	deleterious(0.758)	NULL
FAM120AOS	158293	genome.wustl.edu	37	9	96209928	96209928	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_198841.2	-1	validated	p.P246S	0.001	965	0%	1019	21.2%	25	32%	possibly_damaging(0.771)	deleterious(0)	deleterious(0.731)	NULL
FAM120A	23196	genome.wustl.edu	37	9	96278417	96278417	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	ENST00000446420	+1	known	p.R271H	0.897	208	0%	230	22.6%	5	60%	-	-	-	NULL
PTPDC1	138639	genome.wustl.edu	37	9	96857615	96857615	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_152422.3	+1	reviewed	p.F209	0.793	373	0%	247	21.9%	0	-	-	-	-	superfamily_SSF52799
PTPDC1	138639	genome.wustl.edu	37	9	96863862	96863862	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_152422.3	+1	reviewed	p.S674	1.000	298	0%	118	21.2%	1	0%	-	-	-	NULL
FAM22F	54754	genome.wustl.edu	37	9	97081116	97081116	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	ENST00000434357	-1	known	p.G534R	0.008	205	0%	245	7.3%	0	-	-	-	-	NULL
LOC728026	728026	genome.wustl.edu	37	9	97109749	97109749	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	XM_001126659.3	-1	model	p.A33T	1.000	112	0%	83	9.6%	30	0%	-	-	-	HMMPfam_Prothymosin
C9orf3	84909	genome.wustl.edu	37	9	97718206	97718206	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_032823.3	+1	provisional	p.R495Q	0.999	248	0%	160	25.6%	1	0%	probably_damaging(1)	tolerated(0.09)	deleterious(0.796)	superfamily_SSF55486
PTCH1	5727	genome.wustl.edu	37	9	98215885	98215885	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_000264.3	-1	reviewed	p.I1108	0.081	49	0%	53	13.2%	6	0%	-	-	-	HMMPfam_Patched,superfamily_SSF82866
PTCH1	5727	genome.wustl.edu	37	9	98268758	98268758	+	Missense_Mutation	SNP	A	A	C	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_000264.3	-1	reviewed	p.F109V	1.000	136	0.7%	202	11.9%	0	-	possibly_damaging(0.681)	tolerated(0.12)	deleterious(0.504)	NULL
C9orf102	375748	genome.wustl.edu	37	9	98691053	98691053	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001010895.2	+1	validated	p.R564Q	1.000	258	0.8%	42	23.8%	0	-	probably_damaging(1)	deleterious(0)	deleterious(0.945)	HMMPfam_Helicase_C,HMMSmart_SM00490,superfamily_P-loop containing nucleoside triphosphate hydrolases
C9orf102	375748	genome.wustl.edu	37	9	98774662	98774662	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	ENST00000407474	+1	known	p.S258Y	0.000	170	0%	170	25.9%	1	0%	probably_damaging(0.99)	deleterious(0)	deleterious(0.886)	NULL
SLC35D2	11046	genome.wustl.edu	37	9	99122475	99122475	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_007001.2	-1	validated	p.G103E	1.000	295	0%	78	14.1%	10	0%	probably_damaging(0.998)	tolerated(0.06)	deleterious(0.797)	NULL
ZNF367	195828	genome.wustl.edu	37	9	99157135	99157135	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_153695.3	-1	validated	p.G221R	1.000	273	0%	204	12.7%	2	0%	probably_damaging(1)	deleterious(0)	deleterious(0.945)	superfamily_C2H2 and C2HC zinc fingers
ZNF367	195828	genome.wustl.edu	37	9	99160475	99160475	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_153695.3	-1	validated	p.S181L	1.000	382	0%	223	21.1%	1	0%	possibly_damaging(0.64)	deleterious(0.01)	deleterious(0.630)	HMMPfam_zf-C2H2,PatternScan_ZINC_FINGER_C2H2_1,HMMSmart_SM00355,superfamily_C2H2 and C2HC zinc fingers
HABP4	22927	genome.wustl.edu	37	9	99227778	99227778	+	Missense_Mutation	SNP	A	A	C	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_014282.2	+1	validated	p.K224N	1.000	220	0%	122	27.9%	16	6.2%	probably_damaging(0.991)	deleterious(0)	deleterious(0.889)	HMMPfam_HABP4_PAI-RBP1
CDC14B	8555	genome.wustl.edu	37	9	99285549	99285549	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_033331.2	-1	reviewed	p.P413	0.514	158	0%	40	17.5%	3	0%	-	-	-	NULL
CDC14B	8555	genome.wustl.edu	37	9	99296371	99296371	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_033331.2	-1	reviewed	p.R262C	0.994	268	0.4%	95	25.3%	2	50%	probably_damaging(1)	deleterious(0)	deleterious(0.945)	HMMSmart_SM00195,superfamily_(Phosphotyrosine protein) phosphatases II
ZNF510	22869	genome.wustl.edu	37	9	99521337	99521337	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_014930.1	-1	provisional	p.R592I	1.000	341	0.3%	88	19.3%	2	0%	probably_damaging(0.977)	deleterious(0)	deleterious(0.863)	HMMPfam_zf-C2H2,PatternScan_ZINC_FINGER_C2H2_1,HMMSmart_SM00355,superfamily_C2H2 and C2HC zinc fingers
ENSG00000230984	0	genome.wustl.edu	37	9	99672411	99672411	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	ENST00000418092	+1	known	p.K18N	0.999	63	0%	41	22%	0	-	-	-	-	HMMPfam_Prothymosin
C9orf174	100499483	genome.wustl.edu	37	9	100080769	100080769	+	Silent	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_020893.1	+1	predicted	p.I511	0.967	49	0%	31	12.9%	0	-	-	-	-	NULL
C9orf174	100499483	genome.wustl.edu	37	9	100124541	100124541	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	ENST00000375202	+1	known	p.G1284	0.000	132	0%	75	21.3%	1	0%	-	-	-	NULL
C9orf174	100499483	genome.wustl.edu	37	9	100124678	100124678	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_020893.1	+1	predicted	p.S1264Y	0.000	101	0%	44	18.2%	3	0%	possibly_damaging(0.666)	deleterious(0.02)	deleterious(0.619)	NULL
C9orf174	100499483	genome.wustl.edu	37	9	100124715	100124715	+	Silent	SNP	T	T	C	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_020893.1	+1	predicted	p.S1276	0.000	100	0%	38	28.9%	1	0%	-	-	-	NULL
TDRD7	23424	genome.wustl.edu	37	9	100190782	100190782	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_014290.2	+1	validated	p.R12Q	1.000	301	0%	100	24%	0	-	probably_damaging(1)	deleterious(0)	deleterious(0.945)	NULL
TDRD7	23424	genome.wustl.edu	37	9	100227167	100227167	+	Missense_Mutation	SNP	G	G	C	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_014290.2	+1	validated	p.D496H	1.000	340	0%	60	30%	2	0%	probably_damaging(0.999)	deleterious(0.01)	deleterious(0.896)	HMMPfam_TUDOR
TDRD7	23424	genome.wustl.edu	37	9	100234693	100234693	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_014290.2	+1	validated	p.Y620	0.044	207	0%	33	24.2%	2	50%	-	-	-	NULL
TSTD2	158427	genome.wustl.edu	37	9	100387986	100387986	+	Nonsense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_139246.4	-1	validated	p.C153*	0.864	252	0%	198	24.7%	2	0%	-	-	-	NULL
NCBP1	4686	genome.wustl.edu	37	9	100403101	100403101	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_002486.4	+1	reviewed	p.K20	1.000	226	0%	182	18.7%	0	-	-	-	-	NULL
HEMGN	55363	genome.wustl.edu	37	9	100693394	100693394	+	Nonsense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_018437.3	-1	validated	p.E95*	0.059	707	0%	448	21.9%	0	-	-	-	-	NULL
NANS	54187	genome.wustl.edu	37	9	100823235	100823235	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_018946.3	+1	reviewed	p.A102T	1.000	169	0.6%	192	21.4%	51	23.5%	possibly_damaging(0.729)	deleterious(0.01)	deleterious(0.671)	HMMPfam_NeuB,superfamily_Aldolase
NANS	54187	genome.wustl.edu	37	9	100840539	100840539	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_018946.3	+1	reviewed	p.I171	0.403	190	0%	144	32.6%	87	28.7%	-	-	-	HMMPfam_NeuB,superfamily_Aldolase
CORO2A	7464	genome.wustl.edu	37	9	100889012	100889012	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_003389.3	-1	reviewed	p.A422V	0.001	269	0%	301	27.9%	5	40%	benign(0)	tolerated(0.5)	neutral(0.010)	NULL
COL15A1	1306	genome.wustl.edu	37	9	101748019	101748019	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001855.3	+1	reviewed	p.F91	0.502	36	0%	57	22.8%	12	0%	-	-	-	HMMSmart_LamG,HMMSmart_TSPN,superfamily_ConA_like_lec_gl
COL15A1	1306	genome.wustl.edu	37	9	101782703	101782703	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001855.3	+1	reviewed	p.Q560H	0.969	278	0%	110	23.6%	16	0%	probably_damaging(0.98)	deleterious(0.04)	deleterious(0.773)	NULL
COL15A1	1306	genome.wustl.edu	37	9	101806852	101806852	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001855.3	+1	reviewed	p.G859	0.801	236	0%	125	20%	33	0%	-	-	-	HMMPfam_Collagen
ALG2	85365	genome.wustl.edu	37	9	101980452	101980452	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_033087.3	-1	reviewed	p.C339R	1.000	127	0%	163	26.4%	20	15%	benign(0.001)	tolerated(0.71)	neutral(0.002)	HMMPfam_Glycos_transf_1,superfamily_UDP-Glycosyltransferase/glycogen phosphorylase
ALG2	85365	genome.wustl.edu	37	9	101981071	101981071	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_033087.3	-1	reviewed	p.K132N	1.000	106	0%	143	27.3%	6	0%	benign(0.155)	deleterious(0.04)	neutral(0.362)	superfamily_UDP-Glycosyltransferase/glycogen phosphorylase
ERP44	23071	genome.wustl.edu	37	9	102769956	102769956	+	Nonsense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_015051.1	-1	validated	p.G260*	1.000	328	0%	226	21.2%	65	0%	-	-	-	NULL
ERP44	23071	genome.wustl.edu	37	9	102784455	102784455	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_015051.1	-1	validated	p.R114C	1.000	416	0%	83	13.3%	36	0%	probably_damaging(0.999)	deleterious(0)	deleterious(0.935)	superfamily_Thiordxn-like_fd,HMMPfam_Thioredoxin
INVS	27130	genome.wustl.edu	37	9	103035245	103035245	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_014425.2	+1	reviewed	p.I557	0.988	181	0%	68	33.8%	7	14.2%	-	-	-	HMMPfam_IQ,HMMSmart_SM00015
TEX10	54881	genome.wustl.edu	37	9	103109046	103109046	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_017746.3	-1	validated	p.D275N	1.000	513	0%	466	24.9%	2	50%	benign(0.001)	tolerated(0.91)	-	NULL
MURC	347273	genome.wustl.edu	37	9	103340455	103340455	+	Silent	SNP	T	T	G	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001018116.1	+1	validated	p.A10	1.000	208	0%	64	21.9%	0	-	-	-	-	NULL
MURC	347273	genome.wustl.edu	37	9	103348274	103348274	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001018116.1	+1	validated	p.Q212H	1.000	195	0%	77	19.5%	1	0%	probably_damaging(0.996)	tolerated(0.21)	deleterious(0.506)	NULL
ALDOB	229	genome.wustl.edu	37	9	104187845	104187845	+	Missense_Mutation	SNP	T	T	G	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_000035.3	-1	reviewed	p.K230T	1.000	255	0%	66	15.2%	0	-	probably_damaging(0.998)	deleterious(0)	deleterious(0.919)	HMMPfam_Glycolytic,PatternScan_ALDOLASE_CLASS_I,superfamily_Aldolase
ALDOB	229	genome.wustl.edu	37	9	104192195	104192195	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_000035.3	-1	reviewed	p.R56C	1.000	191	0%	51	17.6%	0	-	probably_damaging(1)	deleterious(0)	deleterious(0.945)	HMMPfam_Glycolytic,superfamily_Aldolase
RNF20	56254	genome.wustl.edu	37	9	104324285	104324285	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_019592.5	+1	reviewed	p.D915Y	1.000	365	0%	86	10.5%	9	0%	probably_damaging(0.976)	deleterious(0)	deleterious(0.863)	superfamily_RING/U-box
PPP3R2	5535	genome.wustl.edu	37	9	104356727	104356727	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_147180.2	-1	provisional	p.D162E	0.178	89	0%	154	30.5%	0	-	benign(0.01)	tolerated(0.07)	neutral(0.320)	HMMSmart_EFh,HMMPfam_efhand
SMC2	10592	genome.wustl.edu	37	9	106889688	106889688	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001042550.1	+1	validated	p.S906Y	0.713	458	0%	116	13.8%	1	0%	benign(0.002)	tolerated(1)	-	HMMPfam_SMC_N,superfamily_P-loop containing nucleoside triphosphate hydrolases
OR13C8	138802	genome.wustl.edu	37	9	107331680	107331680	+	Missense_Mutation	SNP	G	G	C	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001004483.1	+1	provisional	p.V78L	0.415	698	0%	314	21.7%	0	-	benign(0.023)	tolerated(0.06)	neutral(0.324)	HMMPfam_7tm_1,superfamily_SSF81321
OR13C8	138802	genome.wustl.edu	37	9	107332328	107332328	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001004483.1	+1	provisional	p.L294I	0.763	126	0%	50	22%	0	-	benign(0.002)	tolerated(0.63)	neutral(0.004)	HMMPfam_7tm_1,superfamily_SSF81321
ABCA1	19	genome.wustl.edu	37	9	107581134	107581134	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_005502.2	-1	reviewed	p.M1091T	1.000	130	0%	108	26.9%	0	-	probably_damaging(0.999)	deleterious(0)	deleterious(0.935)	HMMPfam_ABC_tran,HMMSmart_SM00382,superfamily_P-loop containing nucleoside triphosphate hydrolases
ABCA1	19	genome.wustl.edu	37	9	107584857	107584857	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_005502.2	-1	reviewed	p.V916	0.000	156	0%	104	24%	1	0%	-	-	-	superfamily_P-loop containing nucleoside triphosphate hydrolases
ABCA1	19	genome.wustl.edu	37	9	107594866	107594866	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_005502.2	-1	reviewed	p.R500C	1.000	311	0%	112	24.1%	1	0%	probably_damaging(0.998)	deleterious(0)	deleterious(0.919)	NULL
FSD1L	83856	genome.wustl.edu	37	9	108223840	108223840	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001145313.1	+1	validated	p.A19T	0.122	329	0%	184	23.4%	0	-	benign(0.016)	-	-	NULL
FSD1L	83856	genome.wustl.edu	37	9	108270937	108270937	+	Missense_Mutation	SNP	G	G	A	rs184353818	by1000genomes	TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001145313.1	+1	validated	p.R279Q	1.000	469	0%	224	25.4%	0	-	benign(0.171)	deleterious(0.01)	neutral(0.421)	HMMPfam_fn3,superfamily_Fibronectin type III
FKTN	2218	genome.wustl.edu	37	9	108382226	108382226	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001079802.1	+1	reviewed	p.S352R	1.000	192	0%	90	35.6%	1	0%	probably_damaging(1)	deleterious(0)	deleterious(0.945)	HMMPfam_LicD
FKTN	2218	genome.wustl.edu	37	9	108382277	108382277	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001079802.1	+1	reviewed	p.F369L	1.000	223	0%	101	14.9%	1	0%	probably_damaging(1)	tolerated(0.16)	deleterious(0.559)	HMMPfam_LicD
ZNF462	58499	genome.wustl.edu	37	9	109686911	109686911	+	Nonsense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_021224.4	+1	validated	p.R240*	0.999	53	0%	115	12.2%	0	-	-	-	-	NULL
ZNF462	58499	genome.wustl.edu	37	9	109687722	109687722	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_021224.4	+1	validated	p.S510Y	0.978	135	0%	248	24.6%	0	-	unknown(0)	deleterious(0)	-	NULL
ZNF462	58499	genome.wustl.edu	37	9	109689058	109689058	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_021224.4	+1	validated	p.N955	0.960	163	0%	207	13%	0	-	-	-	-	superfamily_beta-sandwich domain of Sec23/24
ZNF462	58499	genome.wustl.edu	37	9	109690168	109690168	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_021224.4	+1	validated	p.N1325	0.004	92	0%	123	12.2%	2	50%	-	-	-	HMMSmart_SM00355,superfamily_C2H2 and C2HC zinc fingers,superfamily_beta-sandwich domain of Sec23/24
ZNF462	58499	genome.wustl.edu	37	9	109690847	109690847	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_021224.4	+1	validated	p.V1552I	1.000	52	0%	84	17.9%	0	-	probably_damaging(0.968)	deleterious(0)	deleterious(0.855)	superfamily_beta-sandwich domain of Sec23/24
ZNF462	58499	genome.wustl.edu	37	9	109691564	109691564	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_021224.4	+1	validated	p.P1791S	1.000	58	0%	90	20%	0	-	probably_damaging(0.999)	deleterious(0.04)	deleterious(0.839)	superfamily_beta-sandwich domain of Sec23/24
ZNF462	58499	genome.wustl.edu	37	9	109697831	109697831	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_021224.4	+1	validated	p.R2055Q	1.000	363	0.3%	230	11.7%	0	-	probably_damaging(0.997)	tolerated(0.28)	deleterious(0.498)	HMMSmart_SM00355,superfamily_C2H2 and C2HC zinc fingers,superfamily_beta-sandwich domain of Sec23/24
RAD23B	5887	genome.wustl.edu	37	9	110068824	110068824	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	ENST00000457811	+1	known	p.R1Q	0.110	204	0%	120	19.2%	34	5.8%	-	-	-	NULL
RAD23B	5887	genome.wustl.edu	37	9	110074008	110074008	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	ENST00000457811	+1	known	p.R51Q	1.000	486	0%	120	21.7%	34	8.8%	-	-	-	NULL
IKBKAP	8518	genome.wustl.edu	37	9	111640998	111640998	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_003640.3	-1	reviewed	p.R1202Q	1.000	155	0%	67	13.4%	5	20%	probably_damaging(1)	deleterious(0)	deleterious(0.945)	NULL
CTNNAL1	8727	genome.wustl.edu	37	9	111741679	111741679	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_003798.2	-1	provisional	p.R328H	0.657	345	0%	65	13.8%	18	0%	unknown(0)	tolerated(0.16)	-	superfamily_alpha-catenin/vinculin
EPB41L4B	54566	genome.wustl.edu	37	9	111954599	111954599	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_019114.3	-1	validated	p.P754S	1.000	115	0%	39	28.2%	0	-	probably_damaging(0.998)	deleterious(0)	deleterious(0.919)	NULL
PTPN3	5774	genome.wustl.edu	37	9	112143964	112143964	+	Nonsense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_002829.3	-1	reviewed	p.R878*	1.000	237	0%	83	14.5%	2	0%	-	-	-	HMMPfam_Y_phosphatase,HMMSmart_PTPc,superfamily_SSF52799
PTPN3	5774	genome.wustl.edu	37	9	112153417	112153417	+	Splice_Site	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_002829.3	-1	reviewed	e20+1	1.000	258	0%	105	13.3%	1	100%	-	-	-	-
PTPN3	5774	genome.wustl.edu	37	9	112182761	112182761	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_002829.3	-1	reviewed	p.S419Y	1.000	344	0%	108	26.9%	2	50%	benign(0.229)	tolerated(0.45)	neutral(0.035)	NULL
PTPN3	5774	genome.wustl.edu	37	9	112185070	112185070	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_002829.3	-1	reviewed	p.R355Q	1.000	306	0%	111	24.3%	2	50%	probably_damaging(0.963)	tolerated(0.17)	neutral(0.465)	superfamily_SSF50729
PALM2	114299	genome.wustl.edu	37	9	112705539	112705539	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_053016.5	+1	validated	p.T359M	1.000	186	0%	73	28.8%	0	-	probably_damaging(1)	deleterious(0.05)	deleterious(0.845)	HMMPfam_Paralemmin
PALM2-AKAP2	445815	genome.wustl.edu	37	9	112899197	112899197	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_007203.4	+1	validated	p.R458H	1.000	110	0%	66	9.1%	0	-	probably_damaging(0.998)	deleterious(0.01)	deleterious(0.880)	NULL
TXN	7295	genome.wustl.edu	37	9	113013686	113013686	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_003329.2	-1	validated	p.F27	1.000	223	0%	230	24.8%	966	31.5%	-	-	-	superfamily_Thiordxn-like_fd,HMMPfam_Thioredoxin,PatternScan_THIOREDOXIN_1
SVEP1	79987	genome.wustl.edu	37	9	113168736	113168736	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_153366.3	-1	validated	p.A3048	1.000	103	0%	46	13%	0	-	-	-	-	HMMPfam_Sushi,HMMSmart_SM00032,superfamily_Complement control module/SCR domain
SVEP1	79987	genome.wustl.edu	37	9	113168973	113168973	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_153366.3	-1	validated	p.G2969	0.003	151	0%	79	22.8%	5	0%	-	-	-	HMMPfam_Sushi,HMMSmart_SM00032,superfamily_Complement control module/SCR domain
SVEP1	79987	genome.wustl.edu	37	9	113170153	113170153	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_153366.3	-1	validated	p.A2576V	1.000	65	0%	54	35.2%	0	-	probably_damaging(0.991)	tolerated(0.27)	deleterious(0.478)	HMMPfam_Sushi,HMMSmart_SM00032,superfamily_Complement control module/SCR domain
SVEP1	79987	genome.wustl.edu	37	9	113208282	113208282	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_153366.3	-1	validated	p.S1433Y	1.000	248	0%	226	10.2%	0	-	probably_damaging(0.99)	deleterious(0)	deleterious(0.886)	HMMPfam_Pentaxin,HMMSmart_SM00159,superfamily_Concanavalin A-like lectins/glucanases
SVEP1	79987	genome.wustl.edu	37	9	113219609	113219609	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_153366.3	-1	validated	p.N1200	0.989	282	0%	117	10.3%	0	-	-	-	-	HMMSmart_SM00179,HMMPfam_EGF,HMMSmart_SM00181,superfamily_EGF/Laminin
SVEP1	79987	genome.wustl.edu	37	9	113243565	113243565	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_153366.3	-1	validated	p.G774	0.000	280	0%	57	26.3%	0	-	-	-	-	HMMSmart_SM00032,superfamily_Complement control module/SCR domain
SVEP1	79987	genome.wustl.edu	37	9	113244706	113244706	+	Missense_Mutation	SNP	A	A	C	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_153366.3	-1	validated	p.V702G	0.976	342	0%	53	22.6%	0	-	benign(0.235)	deleterious(0)	neutral(0.468)	HMMPfam_HYR
SVEP1	79987	genome.wustl.edu	37	9	113259206	113259206	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_153366.3	-1	validated	p.E563D	0.998	249	0%	67	16.4%	0	-	possibly_damaging(0.78)	tolerated(0.6)	neutral(0.296)	HMMPfam_HYR
MUSK	4593	genome.wustl.edu	37	9	113444960	113444960	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_005592.3	+1	reviewed	p.V29A	1.000	409	0.2%	137	17.5%	0	-	possibly_damaging(0.721)	tolerated(0.38)	neutral(0.279)	HMMPfam_I-set,superfamily_Immunoglobulin
KIAA0368	23392	genome.wustl.edu	37	9	114131406	114131406	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001080398.1	-1	provisional	p.E1852	0.967	566	0%	83	31.3%	97	26.8%	-	-	-	superfamily_ARM repeat
KIAA0368	23392	genome.wustl.edu	37	9	114173265	114173265	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001080398.1	-1	provisional	p.T969I	1.000	328	0%	108	20.4%	7	0%	possibly_damaging(0.677)	tolerated(0.25)	neutral(0.278)	superfamily_ARM repeat
C9orf84	158401	genome.wustl.edu	37	9	114486076	114486076	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_173521.3	-1	validated	p.A586	0.975	542	0%	86	15.1%	0	-	-	-	-	NULL
SUSD1	64420	genome.wustl.edu	37	9	114905776	114905776	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	ENST00000355396	-1	known	p.D151N	0.000	233	0%	52	19.2%	0	-	-	-	-	HMMSmart_SM00179,HMMSmart_SM00181,HMMPfam_EGF_CA,superfamily_EGF/Laminin
PTBP3	9991	genome.wustl.edu	37	9	114997172	114997172	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_005156.5	-1	validated	p.P298S	1.000	212	0%	95	12.6%	3	0%	benign(0.011)	tolerated(0.08)	neutral(0.300)	NULL
PTBP3	9991	genome.wustl.edu	37	9	115092729	115092729	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_005156.5	-1	validated	p.G12S	1.000	330	0%	432	16%	0	-	possibly_damaging(0.678)	deleterious(0)	deleterious(0.686)	NULL
HSDL2	84263	genome.wustl.edu	37	9	115181193	115181193	+	Nonsense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_032303.3	+1	provisional	p.E185*	1.000	548	0%	123	23.6%	2	0%	-	-	-	superfamily_NAD(P)-binding Rossmann-fold domains
C9orf80	58493	genome.wustl.edu	37	9	115451846	115451846	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_021218.1	-1	provisional	p.E60	1.000	221	0.5%	83	16.9%	1	0%	-	-	-	NULL
SNX30	401548	genome.wustl.edu	37	9	115579984	115579984	+	Splice_Site	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001012994.1	+1	validated	e3-1	1.000	464	0%	135	10.4%	0	-	-	-	-	-
SLC46A2	57864	genome.wustl.edu	37	9	115648778	115648778	+	Silent	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_033051.3	-1	validated	p.L444	0.999	202	0%	244	25.8%	1	0%	-	-	-	superfamily_MFS general substrate transporter
ZNF883	169834	genome.wustl.edu	37	9	115759444	115759444	+	Nonsense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001101338.1	-1	validated	p.R366*	0.000	242	0%	99	26.3%	0	-	-	-	-	HMMPfam_zf-C2H2,PatternScan_ZINC_FINGER_C2H2_1,HMMSmart_SM00355,superfamily_C2H2 and C2HC zinc fingers
ZNF883	169834	genome.wustl.edu	37	9	115760212	115760212	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001101338.1	-1	validated	p.S110P	0.000	333	0%	161	21.7%	1	0%	-	-	-	HMMPfam_zf-C2H2,PatternScan_ZINC_FINGER_C2H2_1,HMMSmart_SM00355,superfamily_C2H2 and C2HC zinc fingers
ZFP37	7539	genome.wustl.edu	37	9	115805234	115805234	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_003408.1	-1	provisional	p.S555N	0.830	363	0%	95	15.8%	0	-	benign(0.291)	tolerated(0.14)	neutral(0.339)	HMMPfam_zf-C2H2,PatternScan_ZINC_FINGER_C2H2_1,HMMSmart_ZnF_C2H2,superfamily_SSF57667
ZFP37	7539	genome.wustl.edu	37	9	115806112	115806112	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_003408.1	-1	provisional	p.Q262H	0.000	716	0%	368	11.7%	0	-	possibly_damaging(0.819)	tolerated(0.28)	neutral(0.341)	NULL
ZFP37	7539	genome.wustl.edu	37	9	115806146	115806146	+	Missense_Mutation	SNP	T	T	G	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_003408.1	-1	provisional	p.K251T	0.997	745	0%	388	21.1%	0	-	probably_damaging(0.978)	tolerated(0.35)	neutral(0.441)	NULL
SLC31A1	1317	genome.wustl.edu	37	9	116021039	116021039	+	Nonsense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001859.3	+1	validated	p.R90*	1.000	219	0%	54	24.1%	2	0%	-	-	-	HMMPfam_Ctr
WDR31	114987	genome.wustl.edu	37	9	116091184	116091184	+	Nonsense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001012361.1	-1	reviewed	p.G101*	0.999	475	0%	357	11.5%	0	-	-	-	-	HMMSmart_SM00320,superfamily_WD40 repeat-like,HMMPfam_WD40
ALAD	210	genome.wustl.edu	37	9	116153102	116153102	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_000031.5	-1	reviewed	p.P125S	1.000	111	0%	130	23.8%	9	44.4%	benign(0.167)	tolerated(0.07)	neutral(0.334)	HMMPfam_ALAD,superfamily_SSF51569
C9orf43	257169	genome.wustl.edu	37	9	116187673	116187673	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_152786.1	+1	predicted	p.K305N	0.043	196	0%	92	22.8%	1	0%	benign(0.009)	tolerated(0.18)	neutral(0.057)	NULL
RGS3	5998	genome.wustl.edu	37	9	116246417	116246417	+	Splice_Site	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_144488.4	+1	reviewed	e6-1	0.999	107	0%	54	11.1%	0	-	-	-	-	-
RGS3	5998	genome.wustl.edu	37	9	116346253	116346253	+	Missense_Mutation	SNP	T	T	G	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_144488.4	+1	reviewed	p.F854C	0.881	136	0%	222	25.2%	5	0%	probably_damaging(1)	deleterious(0)	deleterious(0.945)	NULL
RGS3	5998	genome.wustl.edu	37	9	116357909	116357909	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_144488.4	+1	reviewed	p.R1092H	1.000	206	0%	164	22.6%	28	14.2%	possibly_damaging(0.644)	deleterious(0)	deleterious(0.670)	HMMPfam_RGS,HMMSmart_SM00315,superfamily_Regulator of G-protein signaling RGS
KIF12	113220	genome.wustl.edu	37	9	116855725	116855725	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_138424.1	-1	provisional	p.P347S	0.025	73	0%	94	30.9%	57	43.8%	benign(0)	deleterious(0.04)	neutral(0.349)	NULL
COL27A1	85301	genome.wustl.edu	37	9	117064383	117064383	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_032888.2	+1	validated	p.Q1623K	0.002	206	0%	145	26.9%	1	0%	possibly_damaging(0.605)	tolerated(0.91)	neutral(0.209)	NULL
AKNA	80709	genome.wustl.edu	37	9	117123999	117123999	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_030767.4	-1	validated	p.K703N	0.012	170	0%	135	20.7%	7	28.5%	benign(0.062)	deleterious(0.04)	neutral(0.353)	NULL
DFNB31	25861	genome.wustl.edu	37	9	117266745	117266745	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_015404.3	-1	reviewed	p.G113C	1.000	22	0%	35	20%	2	0%	probably_damaging(1)	deleterious(0)	deleterious(0.945)	NULL
C9orf91	203197	genome.wustl.edu	37	9	117405518	117405518	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_153045.3	+1	validated	p.P318	0.000	105	0%	33	12.1%	3	0%	-	-	-	NULL
TNC	3371	genome.wustl.edu	37	9	117804572	117804572	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_002160.2	-1	validated	p.S1725L	0.758	148	0%	57	15.8%	67	0%	probably_damaging(0.975)	deleterious(0.01)	deleterious(0.823)	HMMPfam_fn3,HMMSmart_FN3,superfamily_FN_III-like
TNC	3371	genome.wustl.edu	37	9	117822182	117822182	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_002160.2	-1	validated	p.V1378A	1.000	122	0%	38	15.8%	19	0%	benign(0.147)	tolerated(0.11)	neutral(0.285)	HMMPfam_fn3,HMMSmart_FN3,superfamily_FN_III-like
TNC	3371	genome.wustl.edu	37	9	117848778	117848778	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_002160.2	-1	validated	p.G411D	0.962	85	0%	66	19.7%	15	0%	benign(0)	tolerated(1)	-	HMMSmart_EGF,HMMPfam_EGF_2
PAPPA	5069	genome.wustl.edu	37	9	118950083	118950083	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_002581.3	+1	reviewed	p.R356C	1.000	57	0%	74	24.3%	0	-	probably_damaging(1)	deleterious(0)	deleterious(0.945)	superfamily_SSF55486
PAPPA	5069	genome.wustl.edu	37	9	119094639	119094639	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_002581.3	+1	reviewed	p.A1097T	0.983	203	0%	61	27.9%	0	-	possibly_damaging(0.535)	deleterious(0)	deleterious(0.625)	superfamily_SSF55486
PAPPA	5069	genome.wustl.edu	37	9	119106872	119106872	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_002581.3	+1	reviewed	p.E1221G	1.000	121	0%	41	17.1%	1	0%	benign(0.001)	tolerated(0.31)	neutral(0.027)	HMMPfam_Sushi,HMMSmart_CCP,superfamily_Complement_control_module,superfamily_SSF55486
PAPPA	5069	genome.wustl.edu	37	9	119106905	119106905	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_002581.3	+1	reviewed	p.R1232H	0.998	99	0%	33	21.2%	0	-	benign(0.003)	tolerated(0.54)	neutral(0.007)	HMMPfam_Sushi,HMMSmart_CCP,superfamily_Complement_control_module,superfamily_SSF55486
ASTN2	23245	genome.wustl.edu	37	9	119380661	119380661	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_198187.3	-1	reviewed	p.S1099	0.640	212	0%	51	21.6%	1	0%	-	-	-	HMMPfam_fn3,superfamily_Fibronectin type III
ASTN2	23245	genome.wustl.edu	37	9	119488173	119488173	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_198187.3	-1	reviewed	p.S895P	1.000	164	0%	51	9.8%	0	-	possibly_damaging(0.708)	tolerated(0.11)	deleterious(0.527)	HMMSmart_SM00457
ASTN2	23245	genome.wustl.edu	37	9	119495712	119495712	+	Silent	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_198187.3	-1	reviewed	p.L829	1.000	80	0%	36	13.9%	1	0%	-	-	-	NULL
ASTN2	23245	genome.wustl.edu	37	9	119495745	119495745	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_198187.3	-1	reviewed	p.P818	0.760	84	0%	39	23.1%	0	-	-	-	-	NULL
ASTN2	23245	genome.wustl.edu	37	9	119802231	119802231	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_198187.3	-1	reviewed	p.S430	1.000	112	0%	13	46.2%	0	-	-	-	-	NULL
TLR4	7099	genome.wustl.edu	37	9	120475723	120475723	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_138554.3	+1	reviewed	p.E439	0.000	134	0%	35	31.4%	3	33.3%	-	-	-	HMMSmart_SM00369,HMMSmart_SM00365,superfamily_L domain-like
DBC1	1620	genome.wustl.edu	37	9	121930117	121930117	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_014618.2	-1	validated	p.R511C	1.000	179	0%	225	23.1%	2	0%	probably_damaging(0.991)	deleterious(0.01)	deleterious(0.850)	NULL
DBC1	1620	genome.wustl.edu	37	9	121971060	121971060	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_014618.2	-1	validated	p.R361H	1.000	304	0%	120	26.7%	0	-	possibly_damaging(0.852)	tolerated(0.53)	neutral(0.335)	NULL
CDK5RAP2	55755	genome.wustl.edu	37	9	123177405	123177405	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_018249.4	-1	reviewed	p.T1404A	1.000	341	0%	198	24.2%	15	6.6%	benign(0.043)	tolerated(0.23)	neutral(0.044)	NULL
CDK5RAP2	55755	genome.wustl.edu	37	9	123215943	123215943	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_018249.4	-1	reviewed	p.E862K	0.008	102	0%	38	10.5%	4	0%	benign(0.014)	deleterious(0.04)	neutral(0.349)	NULL
CDK5RAP2	55755	genome.wustl.edu	37	9	123230136	123230136	+	Splice_Site	SNP	A	A	G	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_018249.4	-1	reviewed	e18+2	1.000	203	0%	55	21.8%	0	-	-	-	-	-
FBXW2	26190	genome.wustl.edu	37	9	123550229	123550229	+	Missense_Mutation	SNP	T	T	G	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_012164.3	-1	reviewed	p.K103T	1.000	239	0%	232	23.7%	7	14.2%	benign(0.106)	deleterious(0.03)	neutral(0.372)	superfamily_F-box domain
PSMD5	5711	genome.wustl.edu	37	9	123583727	123583727	+	Missense_Mutation	SNP	C	C	T	rs140172529	by1000genomes	TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_005047.2	-1	reviewed	p.R341H	0.548	364	0%	130	16.2%	4	0%	benign(0.001)	tolerated(0.25)	neutral(0.037)	superfamily_ARM-type_fold,HMMPfam_Proteasom_PSMB
C5	727	genome.wustl.edu	37	9	123723779	123723779	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001735.2	-1	reviewed	p.A1523	0.001	303	0%	74	20.3%	0	-	-	-	-	superfamily_AM_receptor_bind
C5	727	genome.wustl.edu	37	9	123768295	123768295	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001735.2	-1	reviewed	p.D822Y	0.993	317	0%	197	24.9%	0	-	possibly_damaging(0.806)	deleterious(0)	deleterious(0.748)	HMMPfam_A2M
C5	727	genome.wustl.edu	37	9	123800201	123800201	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001735.2	-1	reviewed	p.D150	0.980	154	0%	44	22.7%	0	-	-	-	-	HMMPfam_A2M_N
CNTRL	11064	genome.wustl.edu	37	9	123858806	123858806	+	Nonsense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_007018.4	+1	reviewed	p.R196*	0.000	446	0.2%	157	21.7%	0	-	-	-	-	HMMPfam_LRR_1,HMMSmart_SM00369,HMMSmart_SM00365,superfamily_L domain-like
CNTRL	11064	genome.wustl.edu	37	9	123914958	123914958	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_007018.4	+1	reviewed	p.R1387C	1.000	238	0%	56	21.4%	3	0%	probably_damaging(0.986)	deleterious(0.02)	deleterious(0.818)	NULL
RAB14	51552	genome.wustl.edu	37	9	123952986	123952986	+	Missense_Mutation	SNP	T	T	G	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_016322.3	-1	validated	p.I44L	1.000	184	0%	96	19.8%	7	28.5%	benign(0)	deleterious(0.02)	neutral(0.383)	HMMSmart_SM00176,HMMSmart_SM00173,HMMSmart_SM00174,HMMSmart_SM00175,HMMPfam_Ras,superfamily_P-loop containing nucleoside triphosphate hydrolases
GSN	2934	genome.wustl.edu	37	9	124064268	124064268	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_000177.4	+1	reviewed	p.E58K	0.999	102	0%	142	24.6%	97	11.3%	probably_damaging(1)	tolerated(0.05)	deleterious(0.845)	superfamily_Actin depolymerizing proteins
TTLL11	158135	genome.wustl.edu	37	9	124752009	124752009	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001139442.1	-1	validated	p.T335N	1.000	74	1.4%	42	28.6%	1	0%	probably_damaging(0.993)	deleterious(0.04)	deleterious(0.799)	HMMPfam_TTL,superfamily_Glutathione synthetase ATP-binding domain-like
LHX6	26468	genome.wustl.edu	37	9	124971914	124971914	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_014368.3	-1	reviewed	p.P379	0.993	57	0%	80	13.8%	0	-	-	-	-	NULL
RBM18	92400	genome.wustl.edu	37	9	125014161	125014161	+	Nonsense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_033117.3	-1	validated	p.R69*	0.999	219	0%	138	13.8%	4	0%	-	-	-	HMMPfam_RRM_1,HMMSmart_SM00360,superfamily_RNA-binding domain RBD
OR1J4	26219	genome.wustl.edu	37	9	125281632	125281632	+	Silent	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001004452.1	+1	provisional	p.I71	0.000	534	0%	298	28.9%	0	-	-	-	-	HMMPfam_7tm_1,superfamily_Family A G protein-coupled receptor-like
OR1Q1	158131	genome.wustl.edu	37	9	125377328	125377328	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_012364.1	+1	provisional	p.F104L	0.052	208	0%	96	14.6%	0	-	benign(0.334)	tolerated(0.29)	neutral(0.134)	HMMPfam_7tm_1,superfamily_SSF81321
OR1L1	26737	genome.wustl.edu	37	9	125423892	125423892	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001005236.3	+1	validated	p.F16L	0.000	172	0%	50	18%	0	-	benign(0)	-	-	NULL
OR1L4	254973	genome.wustl.edu	37	9	125486632	125486632	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001005235.1	+1	provisional	p.D122N	1.000	232	0%	100	12%	0	-	probably_damaging(0.998)	deleterious(0.01)	deleterious(0.880)	HMMPfam_7tm_1,superfamily_SSF81321
OR1L6	392390	genome.wustl.edu	37	9	125512857	125512857	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001004453.2	+1	validated	p.S280F	1.000	347	0%	72	23.6%	0	-	probably_damaging(0.991)	deleterious(0.01)	deleterious(0.850)	HMMPfam_7tm_1,superfamily_SSF81321
OR1K1	392392	genome.wustl.edu	37	9	125562706	125562706	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_080859.1	+1	provisional	p.M102T	0.999	121	0%	70	22.9%	0	-	benign(0.036)	tolerated(0.12)	neutral(0.263)	HMMPfam_7tm_1,superfamily_Family A G protein-coupled receptor-like
RC3H2	54542	genome.wustl.edu	37	9	125620210	125620210	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001100588.1	-1	validated	p.R816C	0.973	285	0%	342	25.7%	9	44.4%	benign(0.337)	tolerated(0.18)	neutral(0.162)	NULL
RC3H2	54542	genome.wustl.edu	37	9	125621000	125621000	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001100588.1	-1	validated	p.S744L	1.000	151	0.7%	214	19.6%	1	0%	benign(0.006)	tolerated(0.15)	neutral(0.241)	NULL
RC3H2	54542	genome.wustl.edu	37	9	125621180	125621180	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001100588.1	-1	validated	p.P684H	1.000	223	0%	241	19.1%	2	0%	probably_damaging(0.999)	deleterious(0)	deleterious(0.935)	NULL
RC3H2	54542	genome.wustl.edu	37	9	125621331	125621331	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001100588.1	-1	validated	p.P634T	1.000	78	0%	87	11.5%	0	-	probably_damaging(0.98)	deleterious(0.02)	deleterious(0.807)	NULL
RABGAP1	23637	genome.wustl.edu	37	9	125861759	125861759	+	Missense_Mutation	SNP	T	T	G	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_012197.3	+1	validated	p.I940M	1.000	551	0%	227	14.1%	14	0%	probably_damaging(1)	deleterious(0.01)	deleterious(0.905)	NULL
CRB2	286204	genome.wustl.edu	37	9	126125377	126125377	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_173689.5	+1	validated	p.D110N	1.000	18	0%	25	36%	0	-	probably_damaging(0.999)	tolerated(0.62)	deleterious(0.494)	HMMSmart_SM00179,PatternScan_EGF_CA,superfamily_EGF/Laminin
DENND1A	57706	genome.wustl.edu	37	9	126144807	126144807	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_020946.1	-1	validated	p.D645G	0.998	55	0%	78	11.5%	1	0%	probably_damaging(0.991)	deleterious(0.01)	deleterious(0.850)	NULL
LHX2	9355	genome.wustl.edu	37	9	126794916	126794916	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_004789.3	+1	reviewed	p.S384Y	1.000	107	0%	144	22.9%	0	-	possibly_damaging(0.934)	deleterious(0)	deleterious(0.825)	NULL
GPR144	347088	genome.wustl.edu	37	9	127217239	127217239	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	ENST00000334810	+1	known	p.A428T	0.008	72	0%	126	25.4%	0	-	benign(0.104)	tolerated(0.12)	neutral(0.269)	NULL
GPR144	347088	genome.wustl.edu	37	9	127230019	127230019	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	ENST00000334810	+1	known	p.S656L	0.725	115	0%	175	25.7%	0	-	benign(0.02)	tolerated(0.36)	neutral(0.021)	HMMPfam_7tm_2
GPR144	347088	genome.wustl.edu	37	9	127237853	127237853	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	ENST00000334810	+1	known	p.R909W	0.911	119	0%	214	14%	0	-	probably_damaging(0.996)	deleterious(0)	deleterious(0.906)	NULL
GOLGA1	2800	genome.wustl.edu	37	9	127644071	127644071	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_002077.3	-1	reviewed	p.E710K	1.000	194	0%	147	21.8%	3	0%	probably_damaging(0.998)	deleterious(0)	deleterious(0.919)	HMMPfam_GRIP,HMMSmart_SM00755
SCAI	286205	genome.wustl.edu	37	9	127781181	127781181	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_173690.4	-1	reviewed	p.S276L	1.000	242	0%	121	14%	0	-	probably_damaging(0.998)	tolerated(0.38)	deleterious(0.492)	NULL
RABEPK	10244	genome.wustl.edu	37	9	127975774	127975774	+	Nonsense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_005833.3	+1	validated	p.R113*	1.000	195	0%	103	23.3%	6	0%	-	-	-	superfamily_Galactose oxidase central domain,HMMPfam_Kelch_2
RABEPK	10244	genome.wustl.edu	37	9	127982957	127982957	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_005833.3	+1	validated	p.T168	0.560	133	0%	87	17.2%	20	0%	-	-	-	superfamily_Galactose oxidase central domain,HMMPfam_Kelch_2
RABEPK	10244	genome.wustl.edu	37	9	127996157	127996157	+	Silent	SNP	A	A	G	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_005833.3	+1	validated	p.S339	0.000	296	0%	214	12.1%	47	8.5%	-	-	-	NULL
GAPVD1	26130	genome.wustl.edu	37	9	128099688	128099688	+	Nonsense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_015635.2	+1	validated	p.R926*	1.000	161	0%	109	26.6%	1	0%	-	-	-	NULL
GAPVD1	26130	genome.wustl.edu	37	9	128122859	128122859	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_015635.2	+1	validated	p.I1393T	1.000	350	0%	96	20.8%	4	0%	probably_damaging(0.969)	deleterious(0)	deleterious(0.856)	HMMPfam_VPS9,HMMSmart_VPS9,superfamily_SSF109993
MAPKAP1	79109	genome.wustl.edu	37	9	128206856	128206856	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001006617.1	-1	reviewed	p.T456M	1.000	327	0.3%	483	11.6%	94	2.1%	probably_damaging(1)	deleterious(0.02)	deleterious(0.883)	HMMPfam_SIN1
MAPKAP1	79109	genome.wustl.edu	37	9	128432165	128432165	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001006617.1	-1	reviewed	p.R94Q	1.000	641	0%	168	14.3%	12	16.6%	probably_damaging(0.997)	tolerated(0.23)	deleterious(0.508)	HMMPfam_SIN1
LMX1B	4010	genome.wustl.edu	37	9	129453256	129453256	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_002316.3	+1	reviewed	p.F133	1.000	50	0%	77	37.7%	0	-	-	-	-	HMMPfam_LIM,HMMSmart_SM00132,superfamily_Glucocorticoid receptor-like (DNA-binding domain)
ZBTB34	403341	genome.wustl.edu	37	9	129642261	129642261	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001099270.1	+1	validated	p.R191C	0.997	76	0%	84	26.2%	0	-	probably_damaging(0.999)	deleterious(0.03)	deleterious(0.855)	NULL
RALGPS1	9649	genome.wustl.edu	37	9	129728197	129728197	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_014636.1	+1	provisional	p.F44	1.000	153	0%	49	14.3%	0	-	-	-	-	superfamily_Ras GEF
RALGPS1	9649	genome.wustl.edu	37	9	129728198	129728198	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_014636.1	+1	provisional	p.D45N	1.000	152	0%	49	22.4%	0	-	probably_damaging(1)	tolerated(0.13)	deleterious(0.752)	superfamily_Ras GEF
ANGPTL2	23452	genome.wustl.edu	37	9	129870629	129870629	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_012098.2	-1	reviewed	p.R128C	1.000	37	0%	65	27.7%	49	0%	probably_damaging(1)	deleterious(0)	deleterious(0.945)	NULL
RALGPS1	9649	genome.wustl.edu	37	9	129958791	129958791	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_014636.1	+1	provisional	p.A359V	1.000	396	0%	281	27.4%	1	0%	benign(0.148)	tolerated(0.31)	neutral(0.040)	NULL
GARNL3	84253	genome.wustl.edu	37	9	130155398	130155398	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_032293.4	+1	validated	p.S969	0.000	93	0%	103	11.7%	16	0%	-	-	-	NULL
STXBP1	6812	genome.wustl.edu	37	9	130416074	130416074	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_003165.3	+1	reviewed	p.T56	0.987	157	0%	42	16.7%	2	0%	-	-	-	HMMPfam_Sec1,superfamily_Sec1/munc18-like (SM) proteins
STXBP1	6812	genome.wustl.edu	37	9	130438143	130438143	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_003165.3	+1	reviewed	p.V391I	1.000	274	0%	129	24%	7	0%	possibly_damaging(0.71)	tolerated(0.06)	deleterious(0.579)	HMMPfam_Sec1,superfamily_Sec1/munc18-like (SM) proteins
TTC16	158248	genome.wustl.edu	37	9	130479285	130479285	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_144965.1	+1	provisional	p.V61F	1.000	126	0%	186	20.4%	0	-	possibly_damaging(0.91)	deleterious(0.03)	deleterious(0.727)	HMMPfam_TPR_1,HMMSmart_TPR,superfamily_SSF48452
TTC16	158248	genome.wustl.edu	37	9	130482443	130482443	+	Nonsense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_144965.1	+1	provisional	p.C171*	0.361	114	0%	185	24.9%	0	-	-	-	-	superfamily_SSF48452
TTC16	158248	genome.wustl.edu	37	9	130493397	130493397	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_144965.1	+1	provisional	p.R779C	0.000	26	0%	65	29.2%	0	-	benign(0.003)	deleterious(0)	neutral(0.445)	NULL
TTC16	158248	genome.wustl.edu	37	9	130493461	130493461	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_144965.1	+1	provisional	p.R800Q	0.000	36	0%	66	15.2%	0	-	benign(0.131)	tolerated(0.38)	neutral(0.029)	NULL
TOR2A	27433	genome.wustl.edu	37	9	130495567	130495567	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_130459.2	-1	validated	p.P230	0.001	31	0%	58	20.7%	0	-	-	-	-	NULL
FPGS	2356	genome.wustl.edu	37	9	130569731	130569731	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_004957.4	+1	reviewed	p.G204D	1.000	105	0%	222	28.4%	10	0%	probably_damaging(1)	deleterious(0)	deleterious(0.945)	superfamily_MurD-like peptide ligases catalytic domain,PatternScan_FOLYLPOLYGLU_SYNT_2
SLC25A25	114789	genome.wustl.edu	37	9	130869721	130869721	+	Nonstop_Mutation	SNP	T	T	C	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001006641.1	+1	validated	p.*504R	1.000	23	0%	33	21.2%	6	0%	-	-	-	NULL
TRUB2	26995	genome.wustl.edu	37	9	131073848	131073848	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_015679.1	-1	provisional	p.L165	1.000	181	0%	139	41%	31	19.3%	-	-	-	HMMPfam_TruB_N,superfamily_PsdUridine_synth_cat_dom
SLC27A4	10999	genome.wustl.edu	37	9	131117725	131117725	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_005094.3	+1	reviewed	p.R504H	1.000	20	0%	24	25%	16	43.7%	probably_damaging(1)	deleterious(0)	deleterious(0.945)	HMMPfam_AMP-binding,superfamily_Acetyl-CoA synthetase-like
URM1	81605	genome.wustl.edu	37	9	131140355	131140355	+	Nonsense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001135947.1	+1	validated	p.R26*	1.000	257	0%	205	11.2%	19	0%	-	-	-	HMMPfam_Urm1
ODF2	4957	genome.wustl.edu	37	9	131250179	131250179	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_002540.3	+1	reviewed	p.D447Y	1.000	263	0%	168	19.6%	18	50%	probably_damaging(0.999)	deleterious(0.01)	deleterious(0.896)	NULL
ODF2	4957	genome.wustl.edu	37	9	131258351	131258351	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_002540.3	+1	reviewed	p.A624V	1.000	193	0%	165	12.7%	22	0%	benign(0.039)	tolerated(0.3)	neutral(0.030)	NULL
SPTAN1	6709	genome.wustl.edu	37	9	131340414	131340414	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001130438.1	+1	validated	p.R371C	1.000	161	0%	43	25.6%	5	0%	probably_damaging(0.999)	deleterious(0)	deleterious(0.935)	HMMPfam_Spectrin,HMMSmart_SPEC,superfamily_Spectrin
SPTAN1	6709	genome.wustl.edu	37	9	131369961	131369961	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001130438.1	+1	validated	p.E1375D	0.993	269	0%	102	18.6%	26	7.6%	possibly_damaging(0.916)	deleterious(0.02)	deleterious(0.750)	HMMPfam_Spectrin,HMMSmart_SPEC,superfamily_Spectrin
SPTAN1	6709	genome.wustl.edu	37	9	131374440	131374440	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001130438.1	+1	validated	p.A1653V	1.000	215	0%	87	13.8%	32	3.1%	possibly_damaging(0.948)	tolerated(0.14)	deleterious(0.641)	HMMPfam_Spectrin,HMMSmart_SPEC,superfamily_Spectrin
SPTAN1	6709	genome.wustl.edu	37	9	131383491	131383491	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001130438.1	+1	validated	p.R1930C	0.992	137	0%	68	32.4%	52	1.9%	probably_damaging(1)	deleterious(0.01)	deleterious(0.905)	HMMPfam_Spectrin,HMMSmart_SPEC,superfamily_Spectrin
WDR34	89891	genome.wustl.edu	37	9	131403014	131403014	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_052844.3	-1	validated	p.A131T	0.998	52	0%	59	22%	41	17%	probably_damaging(0.998)	deleterious(0)	deleterious(0.919)	superfamily_WD40_like
PKN3	29941	genome.wustl.edu	37	9	131476333	131476333	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_013355.3	+1	validated	p.F415L	1.000	107	0%	200	26.5%	3	33.3%	probably_damaging(1)	deleterious(0)	deleterious(0.945)	superfamily_C2_CaLB
ZDHHC12	84885	genome.wustl.edu	37	9	131484002	131484002	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_032799.4	-1	validated	p.R137H	1.000	82	0%	160	30.6%	67	22.3%	probably_damaging(0.999)	deleterious(0.02)	deleterious(0.873)	HMMPfam_zf-DHHC
ZER1	10444	genome.wustl.edu	37	9	131493626	131493626	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_006336.2	-1	provisional	p.T764M	1.000	207	0%	233	24%	45	26.6%	probably_damaging(1)	deleterious(0.02)	deleterious(0.883)	NULL
DOLK	22845	genome.wustl.edu	37	9	131708578	131708578	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_014908.3	-1	reviewed	p.I335	0.000	83	0%	178	33.1%	11	27.2%	unknown(0)	-	-	NULL
FAM73B	84895	genome.wustl.edu	37	9	131810750	131810750	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_032809.2	+1	predicted	p.D118N	0.999	75	0%	66	31.8%	9	22.2%	possibly_damaging(0.753)	tolerated(0.55)	neutral(0.284)	HMMPfam_DUF2217
USP20	10868	genome.wustl.edu	37	9	132641901	132641901	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001008563.3	+1	validated	p.S854	0.004	39	0%	68	20.6%	21	14.2%	-	-	-	HMMSmart_DUSP
USP20	10868	genome.wustl.edu	37	9	132642504	132642504	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001008563.3	+1	validated	p.E899D	0.287	54	0%	85	30.6%	15	33.3%	benign(0.003)	tolerated(0.76)	neutral(0.001)	NULL
ENSG00000249728	0	genome.wustl.edu	37	9	133346673	133346673	+	RNA	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	ENST00000503205	-1	novel	NULL	0.004	21	0%	54	27.8%	0	-	-	-	-	-
QRFP	347148	genome.wustl.edu	37	9	133768961	133768961	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_198180.1	-1	validated	p.G89R	0.679	24	0%	48	33.3%	2	0%	benign(0.095)	deleterious(0)	neutral(0.452)	NULL
QRFP	347148	genome.wustl.edu	37	9	133769141	133769141	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_198180.1	-1	validated	p.D29Y	0.009	35	0%	52	15.4%	0	-	probably_damaging(0.995)	tolerated(0.08)	deleterious(0.758)	NULL
NUP214	8021	genome.wustl.edu	37	9	134049453	134049453	+	Nonsense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_005085.2	+1	reviewed	p.R969*	1.000	204	0%	86	26.7%	6	0%	-	-	-	NULL
NUP214	8021	genome.wustl.edu	37	9	134073874	134073874	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_005085.2	+1	reviewed	p.A1665T	0.949	52	0%	32	25%	10	10%	probably_damaging(0.999)	tolerated(0.33)	deleterious(0.514)	NULL
NUP214	8021	genome.wustl.edu	37	9	134106125	134106125	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_005085.2	+1	reviewed	p.S2061	0.833	115	0%	61	31.1%	78	7.6%	unknown(0)	-	-	NULL
FAM78A	286336	genome.wustl.edu	37	9	134136437	134136437	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_033387.3	-1	validated	p.T208	0.956	103	0%	191	29.8%	5	0%	-	-	-	NULL
POMT1	10585	genome.wustl.edu	37	9	134398399	134398399	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_007171.3	+1	reviewed	p.R717H	1.000	40	0%	65	29.2%	39	41%	possibly_damaging(0.861)	tolerated(0.17)	neutral(0.392)	NULL
RAPGEF1	2889	genome.wustl.edu	37	9	134455676	134455676	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_198679.1	-1	reviewed	p.L1037	0.992	117	0%	102	25.5%	15	0%	-	-	-	HMMSmart_RasGEF,superfamily_Ras_GEF
RAPGEF1	2889	genome.wustl.edu	37	9	134465302	134465302	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	ENST00000414781	-1	known	p.R188C	0.958	150	0%	151	33.1%	4	0%	-	-	-	HMMPfam_RasGEF_N,HMMSmart_SM00229,superfamily_Ras GEF
MED27	9442	genome.wustl.edu	37	9	134738461	134738461	+	Nonsense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_004269.2	-1	reviewed	p.R264*	1.000	123	0%	169	25.4%	37	24.3%	-	-	-	NULL
SETX	23064	genome.wustl.edu	37	9	135202086	135202086	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_015046.5	-1	reviewed	p.S1633	0.000	335	0%	101	18.8%	2	50%	-	-	-	NULL
SETX	23064	genome.wustl.edu	37	9	135202839	135202839	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_015046.5	-1	reviewed	p.Q1382H	0.000	326	0%	130	11.5%	1	0%	probably_damaging(0.991)	deleterious(0)	deleterious(0.889)	NULL
SETX	23064	genome.wustl.edu	37	9	135203552	135203552	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_015046.5	-1	reviewed	p.R1145W	0.019	273	0.4%	108	25.9%	0	-	benign(0.345)	deleterious(0)	deleterious(0.553)	NULL
SETX	23064	genome.wustl.edu	37	9	135204750	135204750	+	Silent	SNP	A	A	G	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_015046.5	-1	reviewed	p.R745	0.001	173	0%	52	19.2%	0	-	-	-	-	NULL
SETX	23064	genome.wustl.edu	37	9	135205477	135205477	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_015046.5	-1	reviewed	p.S503I	0.879	107	0%	42	14.3%	1	0%	possibly_damaging(0.462)	deleterious(0)	deleterious(0.596)	NULL
TTF1	7270	genome.wustl.edu	37	9	135276885	135276885	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_007344.2	-1	validated	p.T442A	0.000	262	0%	219	12.8%	1	0%	benign(0.047)	tolerated(0.92)	neutral(0.003)	NULL
BARHL1	56751	genome.wustl.edu	37	9	135458487	135458487	+	Silent	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_020064.3	+1	validated	p.I101	1.000	39	0%	48	12.5%	0	-	-	-	-	NULL
GTF3C4	9329	genome.wustl.edu	37	9	135554226	135554226	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_012204.2	+1	validated	p.S407F	1.000	131	0%	116	34.5%	2	0%	probably_damaging(1)	deleterious(0.01)	deleterious(0.905)	NULL
GTF3C5	9328	genome.wustl.edu	37	9	135926228	135926228	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001122823.1	+1	validated	p.R211W	1.000	64	0%	88	27.3%	17	23.5%	probably_damaging(1)	deleterious(0)	deleterious(0.945)	HMMPfam_Tau95
CEL	1056	genome.wustl.edu	37	9	135942011	135942011	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001807.3	+1	reviewed	p.F214	1.000	61	0%	87	26.4%	0	-	-	-	-	HMMPfam_COesterase,PatternScan_CARBOXYLESTERASE_B_1,superfamily_alpha/beta-Hydrolases
CEL	1056	genome.wustl.edu	37	9	135942275	135942275	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001807.3	+1	reviewed	p.S243	0.895	74	0%	117	13.7%	2	0%	-	-	-	HMMPfam_COesterase,superfamily_alpha/beta-Hydrolases
RALGDS	5900	genome.wustl.edu	37	9	135978272	135978272	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_006266.2	-1	validated	p.A603T	0.996	46	0%	71	14.1%	21	0%	probably_damaging(1)	tolerated(0.09)	deleterious(0.796)	HMMSmart_SM00147,superfamily_Ras GEF
RALGDS	5900	genome.wustl.edu	37	9	135982483	135982483	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_006266.2	-1	validated	p.E468K	1.000	55	0%	96	24%	20	15%	probably_damaging(0.984)	tolerated(0.09)	deleterious(0.727)	HMMPfam_RasGEF,HMMSmart_SM00147,superfamily_Ras GEF
SURF6	6838	genome.wustl.edu	37	9	136202919	136202919	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_006753.4	-1	reviewed	p.K17N	0.957	29	0%	52	11.5%	7	14.2%	probably_damaging(0.999)	deleterious(0)	deleterious(0.935)	NULL
C9orf96	169436	genome.wustl.edu	37	9	136259516	136259516	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_153710.3	+1	validated	p.T228A	0.981	203	0%	295	25.8%	0	-	benign(0.001)	tolerated(0.9)	-	HMMSmart_SM00219,HMMSmart_SM00220,superfamily_Protein kinase-like (PK-like),HMMPfam_Pkinase
REXO4	57109	genome.wustl.edu	37	9	136277528	136277528	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_020385.2	-1	validated	p.I267	0.901	93	0%	120	26.7%	11	9%	-	-	-	HMMSmart_SM00479,superfamily_Ribonuclease H-like,HMMPfam_Exonuc_X-T
ADAMTS13	11093	genome.wustl.edu	37	9	136289598	136289598	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_139025.3	+1	reviewed	p.I110	0.999	44	0%	76	13.2%	0	-	-	-	-	"superfamily_Metalloproteases (""zincins"") catalytic domain"
ADAMTS13	11093	genome.wustl.edu	37	9	136321689	136321689	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_139025.3	+1	reviewed	p.R1247Q	0.981	109	0%	171	31.6%	1	100%	probably_damaging(1)	deleterious(0.02)	deleterious(0.883)	superfamily_Spermadhesin CUB domain
ADAMTS13	11093	genome.wustl.edu	37	9	136324281	136324281	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_139025.3	+1	reviewed	p.W1421C	0.001	54	0%	89	24.7%	4	25%	benign(0.185)	deleterious(0)	neutral(0.462)	NULL
CACFD1	11094	genome.wustl.edu	37	9	136328610	136328610	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_017586.2	+1	validated	p.A43T	1.000	132	0%	212	30.2%	0	-	probably_damaging(0.995)	deleterious(0.05)	deleterious(0.803)	HMMPfam_Cg6151-P
TMEM8C	389827	genome.wustl.edu	37	9	136389833	136389833	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001080483.2	-1	validated	p.A45V	1.000	36	0%	41	26.8%	1	0%	probably_damaging(0.999)	deleterious(0.05)	deleterious(0.836)	NULL
DBH	1621	genome.wustl.edu	37	9	136505041	136505041	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_000787.3	+1	reviewed	p.R138K	0.004	50	0%	65	16.9%	0	-	benign(0.001)	tolerated(0.27)	neutral(0.034)	HMMSmart_DoH,HMMPfam_DOMON
DBH	1621	genome.wustl.edu	37	9	136513052	136513052	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_000787.3	+1	reviewed	p.V370A	1.000	76	0%	102	22.5%	0	-	benign(0.003)	tolerated(0.52)	neutral(0.009)	superfamily_PHM_PNGase_F,HMMPfam_Cu2_monoox_C
DBH	1621	genome.wustl.edu	37	9	136516806	136516806	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_000787.3	+1	reviewed	p.H414	1.000	91	0%	106	21.7%	0	-	-	-	-	superfamily_PHM_PNGase_F,HMMPfam_Cu2_monoox_C,PatternScan_CU2_MONOOXYGENASE_2
VAV2	7410	genome.wustl.edu	37	9	136634596	136634596	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001134398.1	-1	reviewed	p.L793F	1.000	143	0%	143	26.6%	0	-	probably_damaging(0.981)	deleterious(0.05)	deleterious(0.771)	superfamily_SH3-domain,superfamily_SH2 domain
VAV2	7410	genome.wustl.edu	37	9	136671262	136671262	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001134398.1	-1	reviewed	p.D259	0.993	48	0%	58	17.2%	0	-	-	-	-	HMMPfam_RhoGEF,HMMSmart_SM00325,superfamily_DBL homology domain (DH-domain)
WDR5	11091	genome.wustl.edu	37	9	137019587	137019587	+	Splice_Site	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_017588.2	+1	reviewed	e9-1	1.000	168	0%	257	10.9%	1	100%	-	-	-	-
WDR5	11091	genome.wustl.edu	37	9	137020841	137020841	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_017588.2	+1	reviewed	p.K256	1.000	146	0%	247	33.2%	9	0%	-	-	-	HMMSmart_SM00320,superfamily_WD40 repeat-like,HMMPfam_WD40
COL5A1	1289	genome.wustl.edu	37	9	137582891	137582891	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_000093.3	+1	reviewed	p.A81	0.810	47	0%	80	16.3%	8	0%	-	-	-	HMMSmart_TSPN,superfamily_ConA_like_lec_gl
COL5A1	1289	genome.wustl.edu	37	9	137681031	137681031	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_000093.3	+1	reviewed	p.A893T	0.973	74	0%	104	12.5%	19	0%	benign(0.183)	tolerated(0.25)	neutral(0.054)	HMMPfam_Collagen
COL5A1	1289	genome.wustl.edu	37	9	137701060	137701060	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_000093.3	+1	reviewed	p.R1133Q	1.000	33	0%	55	12.7%	13	0%	unknown(0)	tolerated(0.07)	-	HMMPfam_Collagen
COL5A1	1289	genome.wustl.edu	37	9	137701128	137701128	+	Nonsense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_000093.3	+1	reviewed	p.G1156*	1.000	47	0%	84	11.9%	26	0%	-	-	-	HMMPfam_Collagen
COL5A1	1289	genome.wustl.edu	37	9	137734038	137734038	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_000093.3	+1	reviewed	p.I1802	0.999	166	0%	295	27.1%	84	0%	-	-	-	HMMPfam_COLFI,HMMSmart_COLFI
FCN2	2220	genome.wustl.edu	37	9	137777091	137777091	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_004108.2	+1	reviewed	p.R103H	0.005	58	0%	78	30.8%	1	0%	probably_damaging(0.996)	deleterious(0.02)	deleterious(0.845)	HMMPfam_Fibrinogen_C,HMMSmart_SM00186,superfamily_Fibrinogen C-terminal domain-like
FCN2	2220	genome.wustl.edu	37	9	137779207	137779207	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_004108.2	+1	reviewed	p.G296	0.313	106	0%	119	31.9%	0	-	-	-	-	HMMPfam_Fibrinogen_C,HMMSmart_SM00186,superfamily_Fibrinogen C-terminal domain-like
FCN1	2219	genome.wustl.edu	37	9	137802981	137802981	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_002003.3	-1	reviewed	p.A244V	0.998	275	0%	285	27%	0	-	probably_damaging(1)	tolerated(0.08)	deleterious(0.800)	HMMPfam_Fibrinogen_C,HMMSmart_SM00186,superfamily_Fibrinogen C-terminal domain-like
FCN1	2219	genome.wustl.edu	37	9	137803059	137803059	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_002003.3	-1	reviewed	p.A218D	1.000	282	0%	279	12.9%	1	0%	probably_damaging(1)	deleterious(0)	deleterious(0.945)	HMMPfam_Fibrinogen_C,HMMSmart_SM00186,superfamily_Fibrinogen C-terminal domain-like
OLFM1	10439	genome.wustl.edu	37	9	138011632	138011632	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_014279.4	+1	validated	p.D338N	1.000	56	0%	68	10.3%	8	0%	probably_damaging(1)	deleterious(0)	deleterious(0.945)	HMMPfam_OLF,HMMSmart_OLF
MRPS2	51116	genome.wustl.edu	37	9	138395577	138395577	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_016034.3	+1	reviewed	p.G163	0.718	33	0%	74	25.7%	33	15.1%	-	-	-	HMMPfam_Ribosomal_S2,superfamily_Ribosomal_S2
MRPS2	51116	genome.wustl.edu	37	9	138395896	138395896	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_016034.3	+1	reviewed	p.L270I	0.981	27	0%	50	30%	30	26.6%	possibly_damaging(0.905)	tolerated(0.11)	deleterious(0.631)	superfamily_Ribosomal_S2
LCN1	3933	genome.wustl.edu	37	9	138415760	138415760	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_002297.2	+1	reviewed	p.S109	0.000	68	0%	114	25.4%	0	-	-	-	-	HMMPfam_Lipocalin,superfamily_Calycin
PAEP	5047	genome.wustl.edu	37	9	138457312	138457312	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001018049.1	+1	reviewed	p.P160S	0.000	81	0%	79	24.1%	2	50%	benign(0.147)	tolerated(0.18)	neutral(0.069)	HMMPfam_Lipocalin,superfamily_Lipocalins
PAEP	5047	genome.wustl.edu	37	9	138457353	138457353	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	ENST00000433563	+1	known	p.D124N	0.001	66	0%	71	9.9%	2	0%	-	-	-	superfamily_Lipocalins
GLT6D1	360203	genome.wustl.edu	37	9	138516028	138516028	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_182974.2	-1	provisional	p.G249E	0.002	406	0%	321	20.6%	0	-	probably_damaging(1)	deleterious(0)	deleterious(0.945)	HMMPfam_Glyco_transf_6,superfamily_SSF53448
KCNT1	57582	genome.wustl.edu	37	9	138646969	138646969	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_020822.2	+1	validated	p.A165D	0.997	199	0%	271	10.7%	0	-	benign(0.001)	tolerated(0.65)	neutral(0.003)	NULL
KCNT1	57582	genome.wustl.edu	37	9	138656960	138656960	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_020822.2	+1	validated	p.H373	0.977	104	0%	200	26.5%	0	-	-	-	-	superfamily_SSF81324
KCNT1	57582	genome.wustl.edu	37	9	138662931	138662931	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_020822.2	+1	validated	p.I666	0.993	29	0%	55	21.8%	0	-	-	-	-	NULL
KCNT1	57582	genome.wustl.edu	37	9	138670612	138670612	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_020822.2	+1	validated	p.A891	0.580	48	0%	112	19.6%	0	-	-	-	-	NULL
CAMSAP1	157922	genome.wustl.edu	37	9	138710868	138710868	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_015447.3	-1	validated	p.R1316H	0.981	34	0%	50	30%	4	0%	probably_damaging(1)	deleterious(0.01)	deleterious(0.905)	NULL
CAMSAP1	157922	genome.wustl.edu	37	9	138713091	138713091	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_015447.3	-1	validated	p.S1139N	0.000	97	0%	128	32%	3	0%	benign(0)	tolerated(0.56)	neutral(0.006)	NULL
CAMSAP1	157922	genome.wustl.edu	37	9	138713662	138713662	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_015447.3	-1	validated	p.D949N	0.033	77	0%	104	30.8%	2	0%	benign(0.031)	tolerated(0.27)	neutral(0.035)	NULL
CAMSAP1	157922	genome.wustl.edu	37	9	138714576	138714576	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_015447.3	-1	validated	p.R644H	0.006	145	0%	196	21.9%	2	0%	benign(0.013)	tolerated(0.29)	neutral(0.030)	NULL
CAMSAP1	157922	genome.wustl.edu	37	9	138714941	138714941	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_015447.3	-1	validated	p.T522	0.000	369	0%	490	12.2%	2	0%	-	-	-	NULL
CAMSAP1	157922	genome.wustl.edu	37	9	138773514	138773514	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_015447.3	-1	validated	p.D184N	1.000	164	0%	168	17.3%	0	-	probably_damaging(1)	tolerated(0.1)	deleterious(0.786)	superfamily_Calponin-homology domain CH-domain
QSOX2	169714	genome.wustl.edu	37	9	139110996	139110996	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_181701.3	-1	validated	p.R279Q	0.886	161	0%	260	12.7%	1	0%	probably_damaging(1)	deleterious(0.03)	deleterious(0.865)	NULL
GPSM1	26086	genome.wustl.edu	37	9	139231923	139231923	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001145638.1	+1	validated	p.L202	1.000	28	0%	65	24.6%	7	0%	-	-	-	superfamily_TPR-like
PMPCA	23203	genome.wustl.edu	37	9	139311610	139311610	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_015160.1	+1	provisional	p.A281T	0.000	25	0%	48	18.8%	13	30.7%	benign(0.001)	tolerated(0.62)	neutral(0.004)	HMMPfam_Peptidase_M16_C
SEC16A	9919	genome.wustl.edu	37	9	139339558	139339558	+	Silent	SNP	C	C	T	rs188147629	by1000genomes	TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	ENST00000433860	-1	known	p.A440T	0.998	242	0.4%	318	13.2%	7	0%	-	-	-	NULL
SEC16A	9919	genome.wustl.edu	37	9	139350222	139350222	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_014866.1	-1	validated	p.Q1896H	0.188	22	0%	46	30.4%	9	11.1%	probably_damaging(0.956)	deleterious(0.01)	deleterious(0.805)	NULL
SEC16A	9919	genome.wustl.edu	37	9	139353663	139353663	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_014866.1	-1	validated	p.E1778K	1.000	154	0.6%	245	24.5%	2	0%	possibly_damaging(0.916)	deleterious(0.02)	deleterious(0.750)	NULL
SEC16A	9919	genome.wustl.edu	37	9	139369734	139369734	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_014866.1	-1	validated	p.P778	0.000	38	0%	81	34.6%	1	0%	-	-	-	NULL
NOTCH1	4851	genome.wustl.edu	37	9	139395132	139395132	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_017617.3	-1	reviewed	p.A1936T	1.000	23	0%	43	25.6%	6	33.3%	probably_damaging(1)	deleterious(0)	deleterious(0.945)	HMMPfam_Ank,HMMSmart_ANK,superfamily_ANK
FAM69B	138311	genome.wustl.edu	37	9	139617873	139617873	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_152421.3	+1	validated	p.D315N	0.907	17	0%	29	31%	18	61.1%	benign(0.018)	tolerated(0.21)	neutral(0.044)	NULL
LCN6	158062	genome.wustl.edu	37	9	139641990	139641990	+	Missense_Mutation	SNP	G	G	A	rs188989063	by1000genomes	TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_198946.2	-1	validated	p.A39V	0.274	51	0%	86	26.7%	1	0%	probably_damaging(0.998)	deleterious(0.04)	deleterious(0.823)	superfamily_Calycin
LCN15	389812	genome.wustl.edu	37	9	139658351	139658351	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_203347.1	-1	provisional	p.G69	0.010	35	0%	94	16%	2	100%	-	-	-	HMMPfam_Lipocalin,superfamily_Calycin
FBXW5	54461	genome.wustl.edu	37	9	139835751	139835751	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_018998.2	-1	reviewed	p.D470G	1.000	11	0%	31	22.6%	110	5.4%	possibly_damaging(0.614)	tolerated(0.18)	neutral(0.269)	HMMSmart_SM00320,superfamily_WD40 repeat-like
C9orf142	286257	genome.wustl.edu	37	9	139888246	139888246	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_183241.1	+1	predicted	p.D202N	0.819	194	0%	304	28%	245	27.3%	benign(0.254)	deleterious(0.01)	neutral(0.432)	NULL
ABCA2	20	genome.wustl.edu	37	9	139909380	139909380	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	ENST00000479446	-1	known	p.S639L	0.993	43	0%	83	33.7%	4	25%	-	-	-	NULL
ABCA2	20	genome.wustl.edu	37	9	139911977	139911977	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	ENST00000479446	-1	known	p.T143M	0.491	20	0%	46	21.7%	0	-	-	-	-	NULL
FUT7	2529	genome.wustl.edu	37	9	139925952	139925952	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_004479.3	-1	reviewed	p.A80V	0.057	22	0%	49	26.5%	1	0%	benign(0)	tolerated(0.16)	neutral(0.059)	HMMPfam_Glyco_transf_10
C9orf139	401563	genome.wustl.edu	37	9	139929175	139929175	+	Missense_Mutation	SNP	A	A	C	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_207511.1	+1	predicted	p.E81A	0.914	26	0%	46	26.1%	0	-	unknown(0)	-	-	NULL
MAN1B1	11253	genome.wustl.edu	37	9	139982566	139982566	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_016219.3	+1	validated	p.L87I	0.036	566	0%	878	26.2%	7	14.2%	probably_damaging(0.978)	tolerated(0.46)	neutral(0.432)	NULL
MAN1B1	11253	genome.wustl.edu	37	9	139990703	139990703	+	Missense_Mutation	SNP	C	C	G	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_016219.3	+1	validated	p.H160Q	0.000	78	0%	125	21.6%	9	11.1%	benign(0.071)	tolerated(0.3)	neutral(0.034)	NULL
MAN1B1	11253	genome.wustl.edu	37	9	140002908	140002908	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_016219.3	+1	validated	p.K655N	1.000	147	0%	258	12%	59	1.6%	probably_damaging(0.967)	tolerated(0.75)	neutral(0.410)	HMMPfam_Glyco_hydro_47,superfamily_Glyco_hydro_47
DPP7	29952	genome.wustl.edu	37	9	140006195	140006195	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_013379.2	-1	reviewed	p.A407T	0.886	57	0%	149	20.8%	113	14.1%	possibly_damaging(0.442)	tolerated(0.42)	neutral(0.159)	HMMPfam_Peptidase_S28
DPP7	29952	genome.wustl.edu	37	9	140007244	140007244	+	Missense_Mutation	SNP	C	C	T	rs140480385	by1000genomes	TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_013379.2	-1	reviewed	p.R295Q	0.176	16	0%	31	22.6%	128	0%	benign(0.011)	tolerated(0.3)	neutral(0.029)	HMMPfam_Peptidase_S28
GRIN1	2902	genome.wustl.edu	37	9	140043499	140043499	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_007327.3	+1	reviewed	p.N203	0.961	83	0%	147	22.4%	0	-	-	-	-	HMMPfam_ANF_receptor,superfamily_Periplasmic binding protein-like I
ANAPC2	29882	genome.wustl.edu	37	9	140075291	140075291	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_013366.3	-1	reviewed	p.R520H	1.000	32	0%	64	21.9%	20	30%	probably_damaging(1)	deleterious(0)	deleterious(0.945)	HMMPfam_Cullin,HMMSmart_SM00182,superfamily_Cullin homology domain
TPRN	286262	genome.wustl.edu	37	9	140093552	140093552	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_173691.3	-1	validated	p.L477M	0.015	55	0%	108	25.9%	21	4.7%	possibly_damaging(0.928)	tolerated(0.16)	neutral(0.435)	NULL
NDOR1	27158	genome.wustl.edu	37	9	140109576	140109576	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001144026.1	+1	reviewed	p.A365	0.000	121	0%	171	14%	12	8.3%	-	-	-	HMMPfam_FAD_binding_1,superfamily_Riboflavin_synthase_like_b-brl
SLC34A3	142680	genome.wustl.edu	37	9	140127503	140127503	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_080877.2	+1	reviewed	p.G166C	1.000	40	0%	59	32.2%	0	-	probably_damaging(1)	deleterious(0)	deleterious(0.945)	HMMPfam_Na_Pi_cotrans
COBRA1	25920	genome.wustl.edu	37	9	140151380	140151380	+	Silent	SNP	C	C	T	rs182592368	by1000genomes	TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_015456.3	+1	validated	p.F157	0.992	93	1.1%	162	16%	30	6.6%	-	-	-	HMMPfam_COBRA1
EXD3	54932	genome.wustl.edu	37	9	140249181	140249181	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_017820.3	-1	validated	p.R268W	0.040	28	0%	56	30.4%	1	0%	probably_damaging(0.997)	deleterious(0.03)	deleterious(0.831)	NULL
NOXA1	10811	genome.wustl.edu	37	9	140320737	140320737	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_006647.1	+1	provisional	p.A72V	0.962	147	0%	238	23.9%	8	37.5%	possibly_damaging(0.507)	deleterious(0)	deleterious(0.614)	HMMPfam_TPR_1,HMMSmart_TPR,superfamily_SSF48452
ENTPD8	377841	genome.wustl.edu	37	9	140329552	140329552	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001033113.1	-1	validated	p.G434	0.000	41	0%	70	18.6%	2	0%	-	-	-	HMMPfam_GDA1_CD39
ENTPD8	377841	genome.wustl.edu	37	9	140332717	140332717	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001033113.1	-1	validated	p.E7D	0.030	24	0%	73	13.7%	0	-	benign(0.001)	tolerated(0.43)	neutral(0.013)	NULL
PNPLA7	375775	genome.wustl.edu	37	9	140400171	140400171	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001098537.1	-1	validated	p.V456	0.980	124	0%	199	29.1%	3	100%	-	-	-	NULL
EHMT1	79813	genome.wustl.edu	37	9	140611616	140611616	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_024757.4	+1	reviewed	p.R202Q	0.684	8	0.000	19	0.211	6	0%	-	-	-	NULL
EHMT1	79813	genome.wustl.edu	37	9	140652403	140652403	+	Nonsense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_024757.4	+1	reviewed	p.W474*	1.000	212	0%	291	27.1%	4	0%	possibly_damaging(0.775)	deleterious(0)	deleterious(0.733)	NULL
EHMT1	79813	genome.wustl.edu	37	9	140708898	140708898	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	ENST00000460843	+1	known	p.D1066N	1.000	23	0%	55	30.9%	28	17.8%	possibly_damaging(0.78)	tolerated(0.06)	deleterious(0.614)	HMMSmart_SM00468,HMMPfam_Pre-SET,superfamily_SET domain
EHMT1	79813	genome.wustl.edu	37	9	140708944	140708944	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	ENST00000460843	+1	known	p.R1081H	1.000	37	0%	74	24.3%	29	10.3%	probably_damaging(0.959)	deleterious(0.04)	deleterious(0.752)	HMMSmart_SM00468,HMMPfam_Pre-SET,superfamily_SET domain
CACNA1B	774	genome.wustl.edu	37	9	140846786	140846786	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_000718.2	+1	validated	p.G343S	1.000	235	0.9%	242	20.7%	0	-	possibly_damaging(0.848)	deleterious(0)	deleterious(0.770)	HMMPfam_Ion_trans,superfamily_Voltage-gated potassium channels
CACNA1B	774	genome.wustl.edu	37	9	140880965	140880965	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_000718.2	+1	validated	p.A624T	1.000	148	0.7%	100	13%	0	-	probably_damaging(0.965)	deleterious(0)	deleterious(0.851)	HMMPfam_Ion_trans,superfamily_Voltage-gated potassium channels
CACNA1B	774	genome.wustl.edu	37	9	140953554	140953554	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_000718.2	+1	validated	p.Y1499	0.940	253	0%	223	22.4%	0	-	-	-	-	superfamily_Voltage-gated potassium channels
CACNA1B	774	genome.wustl.edu	37	9	141000161	141000161	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_000718.2	+1	validated	p.R1777H	0.998	32	0%	32	15.6%	0	-	possibly_damaging(0.875)	tolerated(0.05)	deleterious(0.685)	NULL
CACNA1B	774	genome.wustl.edu	37	9	141014645	141014645	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_000718.2	+1	validated	p.R2020H	1.000	68	0%	129	24.8%	0	-	probably_damaging(1)	deleterious(0)	deleterious(0.945)	NULL
ZMYND11	10771	genome.wustl.edu	37	10	267236	267236	+	Silent	SNP	T	T	C	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_006624.4	+1	reviewed	p.C86	1.000	695	0%	262	20.6%	3	33.3%	-	-	-	HMMSmart_RING,HMMSmart_PHD,superfamily_FYVE_PHD_ZnF,PatternScan_ZF_PHD_1
DIP2C	22982	genome.wustl.edu	37	10	327186	327186	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_014974.2	-1	reviewed	p.D1458N	1.000	136	0%	133	11.3%	0	-	probably_damaging(1)	deleterious(0)	deleterious(0.945)	HMMPfam_AMP-binding,superfamily_SSF56801
DIP2C	22982	genome.wustl.edu	37	10	409203	409203	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_014974.2	-1	reviewed	p.I842	0.577	65	0%	102	28.4%	1	100%	-	-	-	superfamily_SSF56801
DIP2C	22982	genome.wustl.edu	37	10	412267	412267	+	Nonsense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	ENST00000421992	-1	known	p.R207*	1.000	169	0%	256	21.5%	0	-	possibly_damaging(0.525)	deleterious(0.01)	deleterious(0.583)	superfamily_Acetyl-CoA synthetase-like
DIP2C	22982	genome.wustl.edu	37	10	430544	430544	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	ENST00000421992	-1	known	p.R34H	0.112	130	0%	164	28%	1	0%	-	-	-	superfamily_Acetyl-CoA synthetase-like
DIP2C	22982	genome.wustl.edu	37	10	468826	468826	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_014974.2	-1	reviewed	p.T181M	0.992	95	0%	130	10.8%	0	-	probably_damaging(0.999)	tolerated(0.15)	deleterious(0.732)	NULL
IDI2	91734	genome.wustl.edu	37	10	1070630	1070630	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_033261.2	-1	provisional	p.R12C	0.398	274	0%	185	27%	0	-	possibly_damaging(0.727)	deleterious(0)	deleterious(0.709)	NULL
IDI1	3422	genome.wustl.edu	37	10	1089294	1089294	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_004508.2	-1	validated	p.T118I	0.893	342	0%	420	19.3%	11	18.1%	possibly_damaging(0.811)	deleterious(0.01)	deleterious(0.711)	HMMPfam_NUDIX,superfamily_NUDIX_hydrolase
ADARB2	105	genome.wustl.edu	37	10	1279697	1279697	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_018702.2	-1	reviewed	p.Y484	1.000	156	0%	111	21.6%	1	0%	-	-	-	HMMPfam_A_deamin,HMMSmart_ADEAMc
PFKP	5214	genome.wustl.edu	37	10	3141502	3141502	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	ENST00000381075	+1	known	p.R40C	0.821	177	0%	203	25.6%	17	17.6%	probably_damaging(1)	deleterious(0)	deleterious(0.945)	HMMPfam_PFK
PFKP	5214	genome.wustl.edu	37	10	3161049	3161049	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	ENST00000413079	+1	known	p.R70W	0.985	159	0%	209	21.1%	55	9%	-	-	-	HMMPfam_PFK,superfamily_Phosphofructokinase
PITRM1	10531	genome.wustl.edu	37	10	3189806	3189806	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	ENST00000451454	-1	known	p.A65T	0.025	117	0%	101	22.8%	28	14.2%	-	-	-	HMMPfam_M16C_assoc
KLF6	1316	genome.wustl.edu	37	10	3823907	3823907	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001300.5	-1	reviewed	p.R201Q	1.000	59	0%	94	25.5%	5	20%	probably_damaging(1)	deleterious(0.04)	deleterious(0.849)	HMMPfam_zf-C2H2,HMMSmart_SM00355
KLF6	1316	genome.wustl.edu	37	10	3824178	3824178	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001300.5	-1	reviewed	p.E111K	1.000	198	0%	310	12.9%	7	0%	probably_damaging(0.954)	tolerated(0.2)	neutral(0.447)	NULL
AKR1C2	1646	genome.wustl.edu	37	10	5045953	5045953	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001354.4	-1	reviewed	p.A25	0.043	515	0%	121	18.2%	15	0%	-	-	-	HMMPfam_Aldo_ket_red,superfamily_Aldo/ket_red
FAM208B	54906	genome.wustl.edu	37	10	5789590	5789590	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_017782.4	+1	validated	p.A1402	0.996	108	0%	88	34.1%	1	0%	-	-	-	NULL
FBXO18	84893	genome.wustl.edu	37	10	5948509	5948509	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_032807.3	+1	reviewed	p.V274M	0.996	35	0%	27	25.9%	21	9.5%	possibly_damaging(0.492)	deleterious(0)	deleterious(0.609)	HMMPfam_F-box,HMMSmart_FBOX,superfamily_SSF81383
FBXO18	84893	genome.wustl.edu	37	10	5967362	5967362	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_032807.3	+1	reviewed	p.G928C	1.000	386	0%	205	31.7%	81	8.6%	probably_damaging(1)	deleterious(0)	deleterious(0.945)	superfamily_SSF52540
PFKFB3	5209	genome.wustl.edu	37	10	6263663	6263663	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_004566.3	+1	validated	p.A346	0.004	21	0%	51	35.3%	4	25%	-	-	-	HMMPfam_PGAM,superfamily_Phosphoglycerate mutase-like
PFKFB3	5209	genome.wustl.edu	37	10	6268218	6268218	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_004566.3	+1	validated	p.E469K	1.000	120	0%	158	12.7%	9	11.1%	benign(0.268)	tolerated(0.13)	neutral(0.281)	NULL
SFMBT2	57713	genome.wustl.edu	37	10	7205750	7205750	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001029880.1	-1	provisional	p.Y889	0.978	137	0%	115	27%	1	0%	-	-	-	NULL
SFMBT2	57713	genome.wustl.edu	37	10	7327845	7327845	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001029880.1	-1	provisional	p.A170T	1.000	432	0%	194	23.7%	0	-	probably_damaging(1)	tolerated(0.27)	deleterious(0.533)	HMMSmart_SM00561,superfamily_Tudor/PWWP/MBT
ITIH5	80760	genome.wustl.edu	37	10	7608022	7608022	+	Missense_Mutation	SNP	C	C	G	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_030569.5	-1	validated	p.G833A	1.000	113	0%	130	14.6%	8	0%	probably_damaging(0.995)	tolerated(0.13)	deleterious(0.710)	HMMPfam_ITI_HC_C
ITIH5	80760	genome.wustl.edu	37	10	7618968	7618968	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_030569.5	-1	validated	p.D476N	1.000	104	0%	162	21.6%	0	-	benign(0.395)	deleterious(0.01)	deleterious(0.532)	HMMPfam_VWA,HMMSmart_SM00327,superfamily_vWA-like
ITIH2	3698	genome.wustl.edu	37	10	7759731	7759731	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_002216.2	+1	validated	p.R204W	0.139	99	0%	81	17.3%	0	-	probably_damaging(0.964)	deleterious(0)	deleterious(0.851)	NULL
ITIH2	3698	genome.wustl.edu	37	10	7768966	7768966	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_002216.2	+1	validated	p.F346L	1.000	319	0%	190	11.6%	0	-	possibly_damaging(0.933)	tolerated(0.17)	neutral(0.438)	HMMPfam_VWA,HMMSmart_VWA,superfamily_SSF53300
ITIH2	3698	genome.wustl.edu	37	10	7774343	7774343	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_002216.2	+1	validated	p.D564N	0.995	139	0%	87	27.6%	0	-	benign(0.005)	deleterious(0.01)	neutral(0.406)	NULL
ITIH2	3698	genome.wustl.edu	37	10	7791226	7791226	+	Missense_Mutation	SNP	A	A	C	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_002216.2	+1	validated	p.K924Q	0.996	213	0%	77	24.7%	0	-	benign(0.235)	tolerated(0.31)	neutral(0.051)	NULL
TAF3	83860	genome.wustl.edu	37	10	8055697	8055697	+	Nonsense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_031923.2	+1	provisional	p.R858*	1.000	220	0%	265	30.2%	5	0%	-	-	-	NULL
GATA3	2625	genome.wustl.edu	37	10	8111449	8111449	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001002295.1	+1	reviewed	p.R313K	1.000	178	0%	124	24.2%	0	-	possibly_damaging(0.932)	deleterious(0.01)	deleterious(0.784)	HMMSmart_SM00401,superfamily_Glucocorticoid receptor-like (DNA-binding domain)
UPF2	26019	genome.wustl.edu	37	10	11978654	11978654	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_015542.2	-1	reviewed	p.L1146I	1.000	239	0%	73	11%	7	0%	benign(0.307)	tolerated(0.24)	neutral(0.133)	HMMPfam_Upf2
DHTKD1	55526	genome.wustl.edu	37	10	12126693	12126693	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_018706.5	+1	validated	p.K155N	1.000	246	0%	184	11.4%	0	-	possibly_damaging(0.772)	tolerated(0.1)	deleterious(0.573)	superfamily_Thiamin diphosphate-binding fold (THDP-binding)
CDC123	8872	genome.wustl.edu	37	10	12292493	12292493	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	ENST00000455773	+1	known	p.R299Q	0.108	37	0%	17	35.3%	75	24%	unknown(0)	-	-	NULL
CAMK1D	57118	genome.wustl.edu	37	10	12595345	12595345	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_153498.2	+1	reviewed	p.V72I	1.000	210	1.4%	91	22%	2	0%	benign(0.035)	tolerated(0.38)	neutral(0.020)	HMMSmart_SM00219,HMMSmart_SM00220,superfamily_Protein kinase-like (PK-like),HMMPfam_Pkinase
CCDC3	83643	genome.wustl.edu	37	10	12940506	12940506	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_031455.3	-1	validated	p.A241	0.336	33	0%	57	17.5%	4	0%	-	-	-	NULL
CCDC3	83643	genome.wustl.edu	37	10	13040427	13040427	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_031455.3	-1	validated	p.F154L	1.000	237	0.4%	260	22.7%	8	0%	probably_damaging(0.974)	deleterious(0)	deleterious(0.861)	NULL
MCM10	55388	genome.wustl.edu	37	10	13243519	13243519	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_182751.2	+1	validated	p.V780	0.072	142	0%	66	15.2%	3	33.3%	-	-	-	HMMPfam_Mcm10
PHYH	5264	genome.wustl.edu	37	10	13323083	13323083	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_006214.3	-1	reviewed	p.D286N	0.000	401	0%	203	28.1%	61	24.5%	benign(0.002)	tolerated(0.38)	neutral(0.018)	NULL
SEPHS1	22929	genome.wustl.edu	37	10	13375938	13375938	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_012247.3	-1	reviewed	p.G147C	1.000	206	0.5%	119	26.9%	13	0%	probably_damaging(1)	deleterious(0)	deleterious(0.945)	HMMPfam_AIRS,superfamily_PurM N-terminal domain-like
SEPHS1	22929	genome.wustl.edu	37	10	13386943	13386943	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_012247.3	-1	reviewed	p.T3M	1.000	164	0%	192	19.8%	8	0%	possibly_damaging(0.738)	tolerated(0.05)	deleterious(0.615)	NULL
BEND7	222389	genome.wustl.edu	37	10	13481451	13481451	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_152751.2	-1	validated	p.A376	0.002	127	0%	166	25.3%	0	-	-	-	-	NULL
BEND7	222389	genome.wustl.edu	37	10	13534809	13534809	+	Silent	SNP	T	T	C	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_152751.2	-1	validated	p.R161	1.000	219	0%	90	30%	7	14.2%	-	-	-	NULL
PRPF18	8559	genome.wustl.edu	37	10	13642285	13642285	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_003675.3	+1	reviewed	p.S62	0.038	315	0%	93	24.7%	9	11.1%	-	-	-	NULL
FRMD4A	55691	genome.wustl.edu	37	10	13693964	13693964	+	Nonsense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_018027.3	-1	validated	p.E1021*	1.000	323	0%	406	12.3%	0	-	-	-	-	NULL
FAM107B	83641	genome.wustl.edu	37	10	14816252	14816252	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_031453.2	-1	predicted	p.K137	1.000	76	0%	55	27.3%	0	-	-	-	-	NULL
HSPA14	51182	genome.wustl.edu	37	10	14891768	14891768	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_016299.2	+1	validated	p.T142N	1.000	474	0%	244	11.1%	1	0%	probably_damaging(0.996)	deleterious(0)	deleterious(0.906)	HMMPfam_HSP70,superfamily_Actin-like ATPase domain
LOC100289151	100289151	genome.wustl.edu	37	10	15060105	15060105	+	Silent	SNP	A	A	C	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	XM_002342972.1	-1	model	p.T9	1.000	105	0%	66	24.2%	0	-	-	-	-	NULL
OLAH	55301	genome.wustl.edu	37	10	15098864	15098864	+	Missense_Mutation	SNP	C	C	T	rs140879602	by1000genomes	TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_018324.2	+1	validated	p.R69W	0.064	342	1.5%	169	21.3%	0	-	possibly_damaging(0.793)	deleterious(0)	deleterious(0.742)	NULL
NMT2	9397	genome.wustl.edu	37	10	15154813	15154813	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_004808.2	-1	reviewed	p.A440	0.352	251	0%	121	26.4%	3	0%	-	-	-	HMMPfam_NMT_C,superfamily_Acyl-CoA N-acyltransferases (Nat)
NMT2	9397	genome.wustl.edu	37	10	15161391	15161391	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_004808.2	-1	reviewed	p.A374V	1.000	329	0%	97	12.4%	2	0%	benign(0)	tolerated(0.12)	neutral(0.261)	HMMPfam_NMT_C,superfamily_Acyl-CoA N-acyltransferases (Nat)
FAM171A1	221061	genome.wustl.edu	37	10	15255147	15255147	+	Nonsense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001010924.1	-1	validated	p.R814*	0.967	63	1.6%	69	20.3%	3	0%	-	-	-	HMMPfam_UPF0560
FAM171A1	221061	genome.wustl.edu	37	10	15258020	15258020	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001010924.1	-1	validated	p.L321M	1.000	233	0%	149	18.1%	0	-	probably_damaging(1)	deleterious(0.01)	deleterious(0.905)	HMMPfam_UPF0560
ITGA8	8516	genome.wustl.edu	37	10	15649741	15649741	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_003638.1	-1	provisional	p.V567I	0.000	294	0%	90	11.1%	0	-	benign(0)	tolerated(0.17)	neutral(0.059)	HMMPfam_Integrin_alpha2,superfamily_SSF69179
ITGA8	8516	genome.wustl.edu	37	10	15697375	15697375	+	Missense_Mutation	SNP	C	C	T	rs143077215	by1000genomes	TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_003638.1	-1	provisional	p.V327I	1.000	353	0%	136	14%	0	-	probably_damaging(0.974)	tolerated(0.09)	deleterious(0.712)	HMMPfam_FG-GAP,HMMSmart_Int_alpha,superfamily_SSF69318
CUBN	8029	genome.wustl.edu	37	10	17164810	17164810	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001081.3	-1	reviewed	p.T193A	0.999	107	0%	31	29%	0	-	possibly_damaging(0.882)	tolerated(0.13)	deleterious(0.597)	PatternScan_ASX_HYDROXYL,HMMSmart_SM00179,HMMSmart_SM00181,HMMPfam_EGF_CA,PatternScan_EGF_CA,superfamily_EGF/Laminin
STAM	8027	genome.wustl.edu	37	10	17735262	17735262	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_003473.2	+1	reviewed	p.K162N	1.000	200	0%	45	15.6%	3	0%	probably_damaging(0.991)	tolerated(0.07)	deleterious(0.763)	NULL
STAM	8027	genome.wustl.edu	37	10	17737215	17737215	+	Nonsense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_003473.2	+1	reviewed	p.E235*	1.000	244	0%	96	19.8%	7	0%	-	-	-	HMMPfam_SH3_1,HMMSmart_SM00326,superfamily_SH3-domain
STAM	8027	genome.wustl.edu	37	10	17756640	17756640	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_003473.2	+1	reviewed	p.V495A	0.971	185	0%	114	19.3%	7	0%	benign(0.178)	tolerated(0.28)	neutral(0.048)	NULL
SLC39A12	221074	genome.wustl.edu	37	10	18254479	18254479	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001145195.1	+1	validated	p.T204M	0.017	180	0%	62	22.6%	0	-	benign(0.125)	tolerated(0.18)	neutral(0.067)	NULL
NSUN6	221078	genome.wustl.edu	37	10	18840769	18840769	+	Nonsense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_182543.2	-1	validated	p.R352*	0.986	229	0%	53	9.4%	6	16.6%	-	-	-	HMMPfam_Nol1_Nop2_Fmu,superfamily_S-adenosyl-L-methionine-dependent methyltransferases
PLXDC2	84898	genome.wustl.edu	37	10	20335829	20335829	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_032812.7	+1	provisional	p.R119Q	1.000	276	0%	48	29.2%	5	0%	possibly_damaging(0.949)	tolerated(0.5)	neutral(0.403)	NULL
NEBL	10529	genome.wustl.edu	37	10	21104636	21104636	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_006393.2	-1	reviewed	p.R720I	1.000	428	0%	73	19.2%	1	0%	benign(0.212)	deleterious(0)	neutral(0.465)	HMMPfam_Nebulin,HMMSmart_SM00227
NEBL	10529	genome.wustl.edu	37	10	21108433	21108433	+	Nonsense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_006393.2	-1	reviewed	p.E659*	1.000	238	0%	56	25%	0	-	-	-	-	HMMPfam_Nebulin,HMMSmart_SM00227
NEBL	10529	genome.wustl.edu	37	10	21115411	21115411	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_006393.2	-1	reviewed	p.E612K	1.000	503	0%	90	26.7%	0	-	possibly_damaging(0.598)	tolerated(0.99)	neutral(0.207)	HMMPfam_Nebulin,HMMSmart_SM00227
NEBL	10529	genome.wustl.edu	37	10	21120451	21120451	+	Missense_Mutation	SNP	T	T	G	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_006393.2	-1	reviewed	p.D504A	0.922	615	0%	166	28.3%	0	-	benign(0.188)	deleterious(0.03)	neutral(0.382)	HMMPfam_Nebulin,HMMSmart_SM00227
NEBL	10529	genome.wustl.edu	37	10	21124549	21124549	+	Nonsense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_006393.2	-1	reviewed	p.E448*	1.000	344	0%	67	23.9%	0	-	-	-	-	HMMPfam_Nebulin,HMMSmart_SM00227
NEBL	10529	genome.wustl.edu	37	10	21250640	21250640	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_213569.2	-1	reviewed	p.E106D	0.657	420	0.5%	85	9.4%	0	-	probably_damaging(0.974)	tolerated(0.06)	deleterious(0.738)	HMMPfam_Nebulin,HMMSmart_NEBU
C10orf113	387638	genome.wustl.edu	37	10	21414822	21414822	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001010896.2	-1	validated	p.G123V	0.987	130	0%	37	27%	0	-	unknown(0)	-	-	NULL
C10orf140	387640	genome.wustl.edu	37	10	21804152	21804152	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_207371.3	-1	validated	p.A867V	1.000	242	0.4%	360	13.1%	0	-	probably_damaging(0.998)	deleterious(0)	deleterious(0.919)	NULL
MLLT10	8028	genome.wustl.edu	37	10	22016784	22016784	+	Splice_Site	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_004641.2	+1	validated	e16-1	1.000	124	0%	41	9.8%	0	-	-	-	-	-
MLLT10	8028	genome.wustl.edu	37	10	22022449	22022449	+	Silent	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_004641.2	+1	validated	p.S824	1.000	468	0%	120	22.5%	1	0%	-	-	-	NULL
DNAJC1	64215	genome.wustl.edu	37	10	22292204	22292204	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_022365.3	-1	provisional	p.E54K	1.000	41	0%	55	30.9%	1	0%	probably_damaging(0.968)	deleterious(0)	deleterious(0.855)	NULL
SPAG6	9576	genome.wustl.edu	37	10	22634701	22634701	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_012443.2	+1	reviewed	p.A25	0.879	29	0%	58	12.1%	0	-	-	-	-	superfamily_ARM repeat
SPAG6	9576	genome.wustl.edu	37	10	22634756	22634756	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	ENST00000376603	+1	known	p.G44R	0.002	19	0%	32	34.4%	0	-	unknown(0)	-	-	superfamily_ARM-type_fold
SPAG6	9576	genome.wustl.edu	37	10	22657502	22657502	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_012443.2	+1	reviewed	p.D123N	0.986	233	0%	84	32.1%	0	-	benign(0.005)	tolerated(0.13)	neutral(0.253)	HMMPfam_Arm,HMMSmart_SM00185,superfamily_ARM repeat
SPAG6	9576	genome.wustl.edu	37	10	22657601	22657601	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_012443.2	+1	reviewed	p.N156D	1.000	170	0%	51	31.4%	0	-	benign(0.019)	tolerated(0.4)	neutral(0.017)	HMMPfam_Arm,HMMSmart_SM00185,superfamily_ARM repeat
SPAG6	9576	genome.wustl.edu	37	10	22690153	22690153	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_012443.2	+1	reviewed	p.L421I	1.000	589	0%	164	32.3%	0	-	possibly_damaging(0.492)	tolerated(0.22)	neutral(0.206)	superfamily_ARM repeat
KIAA1217	56243	genome.wustl.edu	37	10	24722074	24722074	+	Missense_Mutation	SNP	A	A	C	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_019590.3	+1	validated	p.Y235S	1.000	211	0%	74	13.5%	0	-	probably_damaging(1)	deleterious(0.01)	deleterious(0.905)	NULL
KIAA1217	56243	genome.wustl.edu	37	10	24809066	24809066	+	Missense_Mutation	SNP	T	T	G	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_019590.3	+1	validated	p.F731C	1.000	170	0%	86	19.8%	1	0%	probably_damaging(1)	tolerated(0.06)	deleterious(0.823)	NULL
KIAA1217	56243	genome.wustl.edu	37	10	24820788	24820788	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_019590.3	+1	validated	p.E1038K	1.000	74	0%	36	25%	3	66.6%	benign(0.039)	tolerated(0.44)	neutral(0.015)	NULL
KIAA1217	56243	genome.wustl.edu	37	10	24832140	24832140	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_019590.3	+1	validated	p.T1314M	0.001	143	0%	49	22.4%	4	50%	possibly_damaging(0.736)	deleterious(0.05)	deleterious(0.615)	NULL
KIAA1217	56243	genome.wustl.edu	37	10	24832946	24832946	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_019590.3	+1	validated	p.A1583T	0.998	138	0%	66	28.8%	24	41.6%	probably_damaging(0.995)	deleterious(0.02)	deleterious(0.841)	NULL
KIAA1217	56243	genome.wustl.edu	37	10	24834922	24834922	+	Missense_Mutation	SNP	C	C	T	rs141030064		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_019590.3	+1	validated	p.S1834L	0.957	585	0%	349	23.2%	26	34.6%	benign(0.025)	deleterious(0)	neutral(0.446)	NULL
ARHGAP21	57584	genome.wustl.edu	37	10	24908890	24908890	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_020824.3	-1	validated	p.S645F	0.007	410	0%	81	21%	1	0%	possibly_damaging(0.819)	deleterious(0.04)	deleterious(0.658)	NULL
PRTFDC1	56952	genome.wustl.edu	37	10	25226241	25226241	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_020200.5	-1	provisional	p.V71I	1.000	264	0%	98	22.4%	1	100%	benign(0)	tolerated(0.94)	-	HMMPfam_Pribosyltran,superfamily_PRTase-like
ENKUR	219670	genome.wustl.edu	37	10	25273807	25273807	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_145010.2	-1	provisional	p.H208Y	1.000	315	0%	110	11.8%	1	0%	possibly_damaging(0.571)	tolerated(0.14)	neutral(0.445)	NULL
THNSL1	79896	genome.wustl.edu	37	10	25312518	25312518	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_024838.4	+1	validated	p.F122L	0.983	203	0%	171	15.2%	0	-	benign(0.002)	tolerated(0.58)	neutral(0.005)	HMMPfam_SKI,superfamily_P-loop containing nucleoside triphosphate hydrolases
THNSL1	79896	genome.wustl.edu	37	10	25313575	25313575	+	Nonsense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_024838.4	+1	validated	p.R475*	1.000	180	0%	161	27.3%	1	0%	-	-	-	HMMPfam_PALP,superfamily_Tryptophan synthase beta subunit-like PLP-dependent enzymes
THNSL1	79896	genome.wustl.edu	37	10	25314189	25314189	+	Silent	SNP	A	A	G	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_024838.4	+1	validated	p.L679	0.994	205	0%	177	13%	5	0%	-	-	-	superfamily_Tryptophan synthase beta subunit-like PLP-dependent enzymes
GPR158	57512	genome.wustl.edu	37	10	25877973	25877973	+	Nonsense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_020752.2	+1	validated	p.C597*	1.000	398	0%	129	12.4%	0	-	-	-	-	HMMPfam_7tm_3
GPR158	57512	genome.wustl.edu	37	10	25887114	25887114	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_020752.2	+1	validated	p.S853	0.000	83	0%	55	32.7%	0	-	-	-	-	NULL
GPR158	57512	genome.wustl.edu	37	10	25887864	25887864	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_020752.2	+1	validated	p.N1103	0.000	139	0.7%	28	32.1%	0	-	-	-	-	NULL
MYO3A	53904	genome.wustl.edu	37	10	26385326	26385326	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_017433.4	+1	reviewed	p.H527N	1.000	196	0%	42	21.4%	0	-	probably_damaging(1)	deleterious(0)	deleterious(0.945)	HMMPfam_Myosin_head,HMMSmart_MYSc,superfamily_SSF52540
MYO3A	53904	genome.wustl.edu	37	10	26462689	26462689	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_017433.4	+1	reviewed	p.T1166A	0.001	132	0%	54	13%	0	-	benign(0.001)	tolerated(0.32)	neutral(0.024)	superfamily_SSF52540
MYO3A	53904	genome.wustl.edu	37	10	26463356	26463356	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_017433.4	+1	reviewed	p.R1388I	0.000	232	0%	139	21.6%	0	-	benign(0.002)	tolerated(0.41)	neutral(0.015)	NULL
MYO3A	53904	genome.wustl.edu	37	10	26490219	26490219	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_017433.4	+1	reviewed	p.R1524I	1.000	111	0%	48	29.2%	0	-	probably_damaging(0.982)	deleterious(0.01)	deleterious(0.832)	NULL
GAD2	2572	genome.wustl.edu	37	10	26508194	26508194	+	Missense_Mutation	SNP	C	C	A	rs182248090	by1000genomes	TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_000818.2	+1	reviewed	p.A170E	1.000	128	0%	214	25.2%	0	-	possibly_damaging(0.927)	deleterious(0.02)	deleterious(0.758)	HMMPfam_Pyridoxal_deC,superfamily_PLP-dependent transferases
APBB1IP	54518	genome.wustl.edu	37	10	26785254	26785254	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_019043.3	+1	validated	p.P32S	1.000	314	0%	69	21.7%	3	0%	probably_damaging(0.961)	tolerated(0.09)	deleterious(0.701)	NULL
APBB1IP	54518	genome.wustl.edu	37	10	26789913	26789913	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_019043.3	+1	validated	p.S109Y	0.003	217	0%	62	25.8%	1	0%	possibly_damaging(0.679)	deleterious(0)	deleterious(0.686)	NULL
ANKRD26	22852	genome.wustl.edu	37	10	27301891	27301891	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_014915.2	-1	validated	p.L1625F	0.000	426	0%	108	13.9%	2	0%	probably_damaging(0.995)	tolerated(0.4)	deleterious(0.474)	NULL
YME1L1	10730	genome.wustl.edu	37	10	27409412	27409412	+	Nonsense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_139312.1	-1	reviewed	p.R512*	1.000	389	0.3%	94	11.7%	18	0%	-	-	-	HMMPfam_AAA,superfamily_P-loop containing nucleoside triphosphate hydrolases
YME1L1	10730	genome.wustl.edu	37	10	27411786	27411786	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_139312.1	-1	reviewed	p.L464I	1.000	433	0%	145	18.6%	10	0%	probably_damaging(0.982)	deleterious(0)	deleterious(0.871)	HMMSmart_SM00382,HMMPfam_AAA,superfamily_P-loop containing nucleoside triphosphate hydrolases
YME1L1	10730	genome.wustl.edu	37	10	27434388	27434388	+	Silent	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_139312.1	-1	reviewed	p.V157	0.795	271	0%	207	28.5%	5	40%	-	-	-	NULL
ACBD5	91452	genome.wustl.edu	37	10	27499898	27499898	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_145698.3	-1	validated	p.G350E	0.009	388	0%	154	21.4%	4	50%	benign(0.01)	deleterious(0.01)	neutral(0.406)	NULL
ACBD5	91452	genome.wustl.edu	37	10	27529612	27529612	+	Missense_Mutation	SNP	G	G	T	rs145435469	by1000genomes	TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	ENST00000375897	-1	known	p.L13I	0.998	27	0%	51	23.5%	0	-	benign(0.008)	-	-	NULL
LOC729549	729549	genome.wustl.edu	37	10	27629906	27629906	+	Splice_Site	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	XM_001130590.2	-1	model	e3-1	0.998	169	0%	87	21.8%	0	-	-	-	-	-
RAB18	22931	genome.wustl.edu	37	10	27822776	27822776	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	ENST00000423465	+1	known	p.R237*	0.997	463	0.2%	115	15.7%	24	4.1%	-	-	-	HMMSmart_SM00173,HMMSmart_SM00174,HMMSmart_SM00175,HMMPfam_Ras,superfamily_P-loop containing nucleoside triphosphate hydrolases
MKX	283078	genome.wustl.edu	37	10	28023511	28023511	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_173576.2	-1	validated	p.N238D	0.991	474	0%	332	11.7%	0	-	benign(0.002)	tolerated(0.19)	neutral(0.050)	NULL
ARMC4	55130	genome.wustl.edu	37	10	28273986	28273986	+	Silent	SNP	A	A	G	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_018076.2	-1	validated	p.D179	0.972	311	0%	121	14%	0	-	-	-	-	NULL
MPP7	143098	genome.wustl.edu	37	10	28378641	28378641	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_173496.3	-1	validated	p.R361Q	1.000	650	0%	130	30%	2	0%	benign(0.026)	tolerated(0.54)	neutral(0.009)	superfamily_SSF52540
MPP7	143098	genome.wustl.edu	37	10	28438951	28438951	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_173496.3	-1	validated	p.P65L	0.993	158	0%	38	15.8%	1	100%	probably_damaging(0.96)	tolerated(1)	neutral(0.403)	HMMSmart_L27,HMMPfam_L27
WAC	51322	genome.wustl.edu	37	10	28897349	28897349	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_016628.3	+1	reviewed	p.K385R	1.000	156	0%	99	26.3%	10	20%	probably_damaging(0.987)	tolerated(0.21)	deleterious(0.480)	NULL
WAC	51322	genome.wustl.edu	37	10	28905137	28905137	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_016628.3	+1	reviewed	p.T531I	1.000	192	0%	146	24.7%	23	4.3%	benign(0.104)	tolerated(0.19)	neutral(0.058)	NULL
SVIL	6840	genome.wustl.edu	37	10	29762798	29762798	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_021738.2	-1	reviewed	p.T1833M	1.000	59	0%	59	13.6%	29	0%	probably_damaging(1)	deleterious(0.01)	deleterious(0.905)	HMMSmart_SM00262,HMMPfam_Gelsolin,superfamily_Actin depolymerizing proteins
SVIL	6840	genome.wustl.edu	37	10	29782316	29782316	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_021738.2	-1	reviewed	p.G1282	0.022	292	0%	156	24.4%	14	0%	-	-	-	NULL
MIR938	100126327	genome.wustl.edu	37	10	29891266	29891266	+	RNA	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	ENST00000401216	-1	known	NULL	0.000	208	0%	64	28.1%	0	-	-	-	-	-
KIAA1462	57608	genome.wustl.edu	37	10	30315149	30315149	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_020848.2	-1	validated	p.R1310S	0.000	128	0%	87	11.5%	4	0%	benign(0.001)	tolerated(0.53)	neutral(0.007)	NULL
KIAA1462	57608	genome.wustl.edu	37	10	30317817	30317817	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_020848.2	-1	validated	p.F420	0.054	61	0%	61	16.4%	0	-	-	-	-	NULL
MAP3K8	1326	genome.wustl.edu	37	10	30727964	30727964	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_005204.2	+1	reviewed	p.L33I	1.000	159	0%	175	12.6%	12	0%	benign(0.141)	deleterious(0.01)	neutral(0.418)	NULL
MAP3K8	1326	genome.wustl.edu	37	10	30728172	30728172	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_005204.2	+1	reviewed	p.R102Q	0.541	153	0%	161	19.9%	24	37.5%	benign(0.003)	tolerated(0.06)	neutral(0.323)	NULL
LOC645954	645954	genome.wustl.edu	37	10	30978239	30978239	+	RNA	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	XR_017086.3	+1	model	NULL	0.556	607	0%	249	16.9%	6	0%	-	-	-	-
LOC645954	645954	genome.wustl.edu	37	10	30982472	30982472	+	RNA	SNP	G	G	A	rs190644065	by1000genomes	TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	XR_017086.3	+1	model	NULL	1.000	82	0%	32	37.5%	0	-	-	-	-	-
LOC645954	645954	genome.wustl.edu	37	10	30984952	30984952	+	RNA	SNP	A	A	G	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	XR_017086.3	+1	model	NULL	0.841	195	0%	64	14.1%	5	0%	-	-	-	-
ZNF438	220929	genome.wustl.edu	37	10	31134077	31134077	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001143766.1	-1	validated	p.T767M	0.000	177	0%	111	14.4%	16	6.2%	possibly_damaging(0.888)	deleterious(0.04)	deleterious(0.696)	NULL
ARHGAP12	94134	genome.wustl.edu	37	10	32197192	32197192	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_018287.5	-1	provisional	p.S198P	1.000	240	0%	66	16.7%	0	-	benign(0.27)	tolerated(0.27)	neutral(0.062)	NULL
KIF5B	3799	genome.wustl.edu	37	10	32306130	32306130	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_004521.2	-1	validated	p.R901H	1.000	478	0.2%	214	18.2%	23	17.3%	probably_damaging(1)	deleterious(0.01)	deleterious(0.905)	NULL
EPC1	80314	genome.wustl.edu	37	10	32573738	32573738	+	Silent	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_025209.2	-1	provisional	p.L544	1.000	353	0%	107	31.8%	3	0%	-	-	-	NULL
EPC1	80314	genome.wustl.edu	37	10	32581997	32581997	+	Silent	SNP	T	T	C	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_025209.2	-1	provisional	p.K195	1.000	328	0%	95	18.9%	5	0%	-	-	-	NULL
NRP1	8829	genome.wustl.edu	37	10	33515181	33515181	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_003873.5	-1	validated	p.G340R	1.000	135	0%	34	23.5%	9	11.1%	probably_damaging(0.998)	deleterious(0.02)	deleterious(0.857)	HMMPfam_F5_F8_type_C,HMMSmart_SM00231,PatternScan_FA58C_1,superfamily_Galactose-binding domain-like
NRP1	8829	genome.wustl.edu	37	10	33552596	33552596	+	Missense_Mutation	SNP	T	T	G	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_003873.5	-1	validated	p.E212D	1.000	139	0%	41	24.4%	3	0%	possibly_damaging(0.687)	tolerated(0.72)	neutral(0.247)	HMMPfam_CUB,HMMSmart_SM00042,superfamily_Spermadhesin CUB domain
PARD3	56288	genome.wustl.edu	37	10	34620099	34620099	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_019619.3	-1	validated	p.D930N	1.000	274	0%	73	21.9%	35	22.8%	probably_damaging(1)	deleterious(0.01)	deleterious(0.905)	NULL
FZD8	8325	genome.wustl.edu	37	10	35928927	35928927	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_031866.2	-1	reviewed	p.S477R	1.000	27	0%	33	42.4%	9	0%	probably_damaging(0.957)	deleterious(0.02)	deleterious(0.784)	HMMPfam_Frizzled
FZD8	8325	genome.wustl.edu	37	10	35930269	35930269	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_031866.2	-1	reviewed	p.A30V	1.000	56	0%	97	33%	1	0%	unknown(0)	tolerated(0.09)	-	HMMPfam_Fz
ANKRD30A	91074	genome.wustl.edu	37	10	37418857	37418857	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_052997.2	+1	validated	p.E30D	0.066	211	0%	232	22.8%	0	-	possibly_damaging(0.9)	tolerated(0.15)	deleterious(0.597)	HMMPfam_Ank,HMMSmart_SM00248,superfamily_Ankyrin repeat
ANKRD30A	91074	genome.wustl.edu	37	10	37505198	37505198	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_052997.2	+1	validated	p.G931R	0.005	270	0%	53	20.8%	0	-	probably_damaging(0.989)	tolerated(0.06)	deleterious(0.762)	NULL
LOC646360	646360	genome.wustl.edu	37	10	37626707	37626707	+	RNA	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	XR_078419.1	+1	model	NULL	1.000	282	0%	96	18.8%	0	-	-	-	-	-
ZNF248	57209	genome.wustl.edu	37	10	38120560	38120560	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_021045.1	-1	provisional	p.A575T	0.997	255	0%	75	22.7%	3	0%	possibly_damaging(0.731)	deleterious(0.02)	deleterious(0.650)	superfamily_C2H2 and C2HC zinc fingers
ZNF25	219749	genome.wustl.edu	37	10	38241845	38241845	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_145011.2	-1	provisional	p.R194I	1.000	402	0.2%	152	28.3%	1	0%	probably_damaging(0.988)	deleterious(0.01)	deleterious(0.843)	HMMPfam_zf-C2H2,PatternScan_ZINC_FINGER_C2H2_1,HMMSmart_SM00355,superfamily_C2H2 and C2HC zinc fingers
ZNF33A	7581	genome.wustl.edu	37	10	38345253	38345253	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_006954.1	+1	validated	p.S734L	0.004	374	0.3%	89	22.5%	5	20%	probably_damaging(0.998)	deleterious(0)	deleterious(0.919)	HMMPfam_zf-C2H2,PatternScan_ZINC_FINGER_C2H2_1,HMMSmart_SM00355,superfamily_C2H2 and C2HC zinc fingers
ZNF33B	7582	genome.wustl.edu	37	10	43088380	43088380	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_006955.1	-1	provisional	p.S673Y	1.000	437	0%	112	23.2%	2	0%	probably_damaging(1)	deleterious(0)	deleterious(0.945)	HMMPfam_zf-C2H2,PatternScan_ZINC_FINGER_C2H2_1,HMMSmart_ZnF_C2H2,superfamily_SSF57667
ZNF33B	7582	genome.wustl.edu	37	10	43089831	43089831	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_006955.1	-1	provisional	p.E189D	1.000	305	0%	70	30%	4	0%	possibly_damaging(0.946)	tolerated(0.3)	neutral(0.419)	NULL
ZNF33B	7582	genome.wustl.edu	37	10	43090131	43090131	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	ENST00000432900	-1	known	p.I115T	0.352	294	0%	58	20.7%	0	-	-	-	-	NULL
BMS1	9790	genome.wustl.edu	37	10	43315736	43315736	+	Missense_Mutation	SNP	A	A	C	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_014753.3	+1	reviewed	p.E878A	1.000	522	0%	300	11%	16	12.5%	probably_damaging(0.988)	deleterious(0)	deleterious(0.882)	HMMPfam_DUF663
RET	5979	genome.wustl.edu	37	10	43612094	43612094	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_020975.4	+1	reviewed	p.G733	0.231	283	0%	313	13.1%	0	-	-	-	-	HMMPfam_Pkinase_Tyr,HMMSmart_TyrKc,superfamily_Kinase_like,PatternScan_PROTEIN_KINASE_ATP
RET	5979	genome.wustl.edu	37	10	43615600	43615600	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_020975.4	+1	reviewed	p.F893	1.000	148	0%	191	16.2%	0	-	-	-	-	HMMPfam_Pkinase_Tyr,HMMSmart_TyrKc,superfamily_Kinase_like
RET	5979	genome.wustl.edu	37	10	43619192	43619192	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_020975.4	+1	reviewed	p.R959W	1.000	131	0%	158	13.9%	0	-	probably_damaging(1)	deleterious(0)	deleterious(0.945)	HMMPfam_Pkinase_Tyr,HMMSmart_TyrKc,superfamily_Kinase_like
CSGALNACT2	55454	genome.wustl.edu	37	10	43654172	43654172	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_018590.3	+1	provisional	p.R224H	1.000	189	0%	88	23.9%	4	0%	probably_damaging(1)	deleterious(0)	deleterious(0.945)	HMMPfam_CHGN
CSGALNACT2	55454	genome.wustl.edu	37	10	43659366	43659366	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_018590.3	+1	provisional	p.R345C	1.000	701	0.1%	340	27.4%	5	0%	probably_damaging(1)	deleterious(0)	deleterious(0.945)	HMMPfam_CHGN,superfamily_Nucleotide-diphospho-sugar transferases
CSGALNACT2	55454	genome.wustl.edu	37	10	43678752	43678752	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_018590.3	+1	provisional	p.R464Q	1.000	246	0%	66	25.8%	8	0%	probably_damaging(0.999)	deleterious(0.01)	deleterious(0.896)	HMMPfam_CHGN,superfamily_Nucleotide-diphospho-sugar transferases
RASGEF1A	221002	genome.wustl.edu	37	10	43691961	43691961	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_145313.2	-1	validated	p.E462K	1.000	185	0.5%	188	27.1%	9	77.7%	possibly_damaging(0.858)	deleterious(0.01)	deleterious(0.737)	HMMSmart_SM00147,superfamily_Ras GEF
HNRNPF	3185	genome.wustl.edu	37	10	43883229	43883229	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001098204.1	-1	reviewed	p.T35M	0.995	184	0%	132	19.7%	71	21.1%	benign(0.002)	tolerated(0.08)	neutral(0.300)	HMMSmart_SM00360,superfamily_RNA-binding domain RBD
ZNF239	8187	genome.wustl.edu	37	10	44052667	44052667	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001099282.1	-1	validated	p.G287	0.386	297	0%	116	12.1%	2	0%	-	-	-	superfamily_SSF57667
CXCL12	6387	genome.wustl.edu	37	10	44871476	44871476	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001033886.2	-1	reviewed	p.R91C	1.000	881	0%	716	25%	0	-	unknown(0)	deleterious(0)	-	NULL
RASSF4	83937	genome.wustl.edu	37	10	45479505	45479505	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_032023.3	+1	reviewed	p.A106V	0.010	68	0%	60	35%	6	50%	probably_damaging(0.954)	deleterious(0.02)	deleterious(0.780)	NULL
ZNF22	7570	genome.wustl.edu	37	10	45499148	45499148	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_006963.4	+1	validated	p.Y111C	0.539	216	0%	275	16%	9	0%	probably_damaging(1)	deleterious(0)	deleterious(0.945)	HMMPfam_zf-C2H2,HMMSmart_SM00355,superfamily_C2H2 and C2HC zinc fingers
ALOX5	240	genome.wustl.edu	37	10	45920518	45920518	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_000698.2	+1	reviewed	p.V258M	0.998	155	0%	229	13.5%	0	-	probably_damaging(1)	deleterious(0)	deleterious(0.945)	HMMPfam_Lipoxygenase,superfamily_Lipoxygenase
ALOX5	240	genome.wustl.edu	37	10	45924111	45924111	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_000698.2	+1	reviewed	p.D294N	0.996	165	0.6%	286	23.1%	1	0%	benign(0.008)	tolerated(0.15)	neutral(0.241)	HMMPfam_Lipoxygenase,superfamily_Lipoxygenase
ALOX5	240	genome.wustl.edu	37	10	45935878	45935878	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_000698.2	+1	reviewed	p.L328F	1.000	93	0%	180	20.6%	2	0%	possibly_damaging(0.63)	deleterious(0.01)	deleterious(0.626)	HMMPfam_Lipoxygenase,superfamily_Lipoxygenase
ZFAND4	93550	genome.wustl.edu	37	10	46121515	46121515	+	Missense_Mutation	SNP	G	G	A	rs35142284	byCluster;byFrequency	TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001128324.1	-1	validated	p.R586C	0.026	186	0%	50	10%	1	0%	benign(0.005)	tolerated(0.25)	neutral(0.037)	NULL
FAM21C	253725	genome.wustl.edu	37	10	46254822	46254822	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_015262.2	+1	validated	p.G536	1.000	508	0%	147	10.2%	3	0%	-	-	-	NULL
FAM21C	253725	genome.wustl.edu	37	10	46272748	46272748	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_015262.2	+1	validated	p.P722S	0.016	686	0%	207	17.4%	3	0%	benign(0.019)	tolerated(0.16)	neutral(0.060)	NULL
ZNF488	118738	genome.wustl.edu	37	10	48371149	48371149	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_153034.2	+1	provisional	p.R206Q	0.000	155	0%	239	27.2%	0	-	benign(0.126)	tolerated(0.6)	neutral(0.015)	NULL
GDF10	2662	genome.wustl.edu	37	10	48429100	48429100	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_004962.2	-1	reviewed	p.T262	0.012	14	0%	24	33.3%	1	0%	-	-	-	NULL
PTPN20C	653045	genome.wustl.edu	37	10	49275551	49275551	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	ENST00000316733	-1	known	p.S234I	0.000	650	0%	110	24.5%	0	-	probably_damaging(0.984)	tolerated(0.09)	deleterious(0.727)	HMMPfam_Y_phosphatase,HMMSmart_SM00194,superfamily_(Phosphotyrosine protein) phosphatases II
PTPN20C	653045	genome.wustl.edu	37	10	49327360	49327360	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	ENST00000316733	-1	known	p.D6N	0.000	290	0%	82	24.4%	0	-	possibly_damaging(0.507)	tolerated(0.76)	neutral(0.171)	NULL
FRMPD2	143162	genome.wustl.edu	37	10	49393673	49393673	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001018071.3	-1	reviewed	p.R761M	0.002	386	0%	108	11.1%	0	-	benign(0.424)	deleterious(0)	deleterious(0.582)	NULL
FRMPD2	143162	genome.wustl.edu	37	10	49395283	49395283	+	Missense_Mutation	SNP	T	T	G	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001018071.3	-1	reviewed	p.M740L	0.072	136	0%	53	20.8%	0	-	benign(0.001)	tolerated(0.16)	neutral(0.059)	NULL
WDFY4	57705	genome.wustl.edu	37	10	49931606	49931606	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_020945.1	+1	validated	p.F195	0.999	204	0%	90	11.1%	0	-	-	-	-	NULL
WDFY4	57705	genome.wustl.edu	37	10	49968405	49968405	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_020945.1	+1	validated	p.D825Y	0.033	107	0%	58	32.8%	0	-	probably_damaging(0.99)	deleterious(0)	deleterious(0.886)	superfamily_ARM repeat
WDFY4	57705	genome.wustl.edu	37	10	49983788	49983788	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_020945.1	+1	validated	p.L934M	0.000	518	0%	247	13.8%	0	-	benign(0.233)	tolerated(0.32)	neutral(0.048)	NULL
WDFY4	57705	genome.wustl.edu	37	10	50014054	50014054	+	Nonsense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	ENST00000312002	+1	known	p.W641*	0.957	262	0%	71	14.1%	1	0%	probably_damaging(0.977)	deleterious(0)	deleterious(0.863)	NULL
WDFY4	57705	genome.wustl.edu	37	10	50015976	50015976	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_020945.1	+1	validated	p.S1604F	0.999	263	0.4%	95	23.2%	0	-	unknown(0)	deleterious(0)	-	NULL
WDFY4	57705	genome.wustl.edu	37	10	50025362	50025362	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_020945.1	+1	validated	p.V1805I	0.138	46	0%	32	21.9%	0	-	benign(0.001)	tolerated(0.16)	neutral(0.059)	NULL
WDFY4	57705	genome.wustl.edu	37	10	50174608	50174608	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_020945.1	+1	validated	p.G2825E	0.964	144	0%	64	17.2%	2	0%	possibly_damaging(0.952)	tolerated(0.41)	neutral(0.411)	superfamily_WD40 repeat-like
WDFY4	57705	genome.wustl.edu	37	10	50184866	50184866	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_020945.1	+1	validated	p.A3045T	0.306	44	0%	17	29.4%	5	0%	benign(0.021)	tolerated(1)	neutral(0.001)	HMMSmart_SM00320,superfamily_WD40 repeat-like
C10orf128	170371	genome.wustl.edu	37	10	50375016	50375016	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001010863.1	-1	provisional	p.A46T	0.014	70	0%	38	23.7%	1	0%	probably_damaging(0.959)	deleterious(0)	deleterious(0.847)	NULL
C10orf71	118461	genome.wustl.edu	37	10	50530650	50530650	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001135196.1	+1	validated	p.S20	0.932	78	0%	94	27.7%	0	-	-	-	-	NULL
C10orf71	118461	genome.wustl.edu	37	10	50531417	50531417	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001135196.1	+1	validated	p.A276V	1.000	96	0%	130	21.5%	0	-	probably_damaging(1)	tolerated(0.1)	deleterious(0.786)	NULL
C10orf71	118461	genome.wustl.edu	37	10	50531929	50531929	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001135196.1	+1	validated	p.L447M	0.262	173	0%	288	11.1%	0	-	probably_damaging(0.996)	deleterious(0)	deleterious(0.906)	NULL
C10orf71	118461	genome.wustl.edu	37	10	50531962	50531962	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001135196.1	+1	validated	p.D458N	0.277	138	0%	243	29.6%	0	-	benign(0.136)	tolerated(0.12)	neutral(0.272)	NULL
C10orf71	118461	genome.wustl.edu	37	10	50532109	50532109	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001135196.1	+1	validated	p.R507W	0.999	65	0%	126	23%	0	-	probably_damaging(1)	deleterious(0)	deleterious(0.945)	NULL
C10orf71	118461	genome.wustl.edu	37	10	50533581	50533581	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001135196.1	+1	validated	p.A997	0.000	37	0%	75	25.3%	0	-	-	-	-	NULL
ERCC6	2074	genome.wustl.edu	37	10	50681042	50681042	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_000124.2	-1	reviewed	p.T914	0.844	121	0%	30	33.3%	0	-	-	-	-	HMMPfam_Helicase_C,HMMSmart_HELICc,superfamily_SSF52540
PGBD3	267004	genome.wustl.edu	37	10	50723956	50723956	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_170753.2	-1	validated	p.R402Q	0.009	126	0.8%	35	20%	1	0%	probably_damaging(0.982)	tolerated(0.35)	neutral(0.447)	NULL
SLC18A3	6572	genome.wustl.edu	37	10	50819175	50819175	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_003055.2	+1	reviewed	p.S130F	1.000	49	0%	104	20.2%	0	-	possibly_damaging(0.721)	tolerated(0.06)	deleterious(0.584)	HMMPfam_MFS_1,superfamily_MFS general substrate transporter
OGDHL	55753	genome.wustl.edu	37	10	50954813	50954813	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_018245.2	-1	validated	p.V427I	0.029	83	0%	86	18.6%	2	50%	benign(0.004)	tolerated(1)	-	HMMPfam_E1_dh,superfamily_SSF52518
PARG	8505	genome.wustl.edu	37	10	51087755	51087755	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_003631.2	-1	reviewed	p.S651L	0.999	495	0.4%	90	21.1%	6	16.6%	probably_damaging(0.991)	deleterious(0)	deleterious(0.889)	HMMPfam_PARG_cat
AGAP7	653268	genome.wustl.edu	37	10	51464739	51464739	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001077685.1	-1	provisional	p.A573T	0.986	139	1.4%	128	20.3%	5	0%	benign(0.001)	tolerated(0.44)	neutral(0.013)	superfamily_ANK
MSMB	4477	genome.wustl.edu	37	10	51556768	51556768	+	Nonsense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_002443.2	+1	reviewed	p.G43*	0.039	172	0.6%	147	24.5%	0	-	-	-	-	HMMPfam_PSP94
NCOA4	8031	genome.wustl.edu	37	10	51584845	51584845	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001145260.1	+1	reviewed	p.R331Q	0.502	139	0%	63	33.3%	9	44.4%	benign(0)	tolerated(0.14)	neutral(0.249)	NULL
AGAP6	414189	genome.wustl.edu	37	10	51748543	51748543	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001077665.2	+1	validated	p.S23L	0.419	116	0%	198	11.1%	0	-	benign(0.068)	tolerated(0.19)	neutral(0.054)	NULL
AGAP6	414189	genome.wustl.edu	37	10	51769587	51769587	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001077665.2	+1	validated	p.R568C	1.000	395	0%	268	19%	5	20%	probably_damaging(0.99)	deleterious(0)	deleterious(0.886)	HMMPfam_ArfGap,HMMSmart_SM00105,superfamily_Pyk2-associated protein beta ARF-GAP domain,superfamily_Ankyrin repeat
FAM21A	387680	genome.wustl.edu	37	10	51853112	51853112	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001005751.1	+1	validated	p.G363E	0.927	376	0%	154	26.6%	0	-	possibly_damaging(0.881)	deleterious(0.02)	deleterious(0.727)	NULL
MBL2	4153	genome.wustl.edu	37	10	54527958	54527958	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_000242.2	-1	reviewed	p.G229D	0.966	281	0%	133	32.3%	0	-	probably_damaging(0.999)	deleterious(0)	deleterious(0.935)	HMMPfam_Lectin_C,HMMSmart_SM00034,superfamily_C-type lectin-like,PatternScan_C_TYPE_LECTIN_1
MBL2	4153	genome.wustl.edu	37	10	54529019	54529019	+	Missense_Mutation	SNP	G	G	A	rs188107846	by1000genomes	TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_000242.2	-1	reviewed	p.R121C	0.000	501	0%	265	24.5%	0	-	possibly_damaging(0.458)	tolerated(0.06)	deleterious(0.473)	NULL
PCDH15	65217	genome.wustl.edu	37	10	55566733	55566733	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001142771.1	-1	reviewed	p.S1552F	1.000	123	0%	36	36.1%	0	-	possibly_damaging(0.745)	deleterious(0)	deleterious(0.718)	NULL
PCDH15	65217	genome.wustl.edu	37	10	55568630	55568630	+	Missense_Mutation	SNP	G	G	A	rs140554743	by1000genomes	TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001142769.1	-1	reviewed	p.S1732L	0.009	546	0%	300	24%	0	-	unknown(0)	deleterious(0)	-	NULL
PCDH15	65217	genome.wustl.edu	37	10	55569246	55569246	+	Nonsense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001142769.1	-1	reviewed	p.E1527*	0.990	491	0%	192	17.7%	0	-	-	-	-	NULL
PCDH15	65217	genome.wustl.edu	37	10	55581764	55581764	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001142763.1	-1	reviewed	p.L1915I	0.033	772	0%	698	21.5%	0	-	unknown(0)	tolerated(0.24)	-	NULL
PCDH15	65217	genome.wustl.edu	37	10	55582960	55582960	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001142763.1	-1	reviewed	p.S1516Y	1.000	175	0%	191	14.1%	0	-	benign(0.02)	deleterious(0)	neutral(0.446)	NULL
PCDH15	65217	genome.wustl.edu	37	10	55591294	55591294	+	Splice_Site	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001142763.1	-1	reviewed	e30-1	1.000	199	0%	225	28.9%	0	-	-	-	-	-
PCDH15	65217	genome.wustl.edu	37	10	55755507	55755507	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001142763.1	-1	reviewed	p.P929S	1.000	272	0.4%	281	21.4%	0	-	probably_damaging(1)	deleterious(0)	deleterious(0.945)	HMMSmart_SM00112,superfamily_Cadherin-like
PCDH15	65217	genome.wustl.edu	37	10	55892758	55892758	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	ENST00000373956	-1	known	p.S34Y	1.000	332	0%	126	31.7%	0	-	possibly_damaging(0.952)	tolerated(1)	neutral(0.396)	NULL
IPMK	253430	genome.wustl.edu	37	10	59956339	59956339	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_152230.3	-1	provisional	p.A250V	1.000	212	0%	72	11.1%	0	-	probably_damaging(0.999)	deleterious(0.02)	deleterious(0.873)	HMMPfam_IPK,superfamily_SSF56104
ANK3	288	genome.wustl.edu	37	10	61831049	61831049	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_020987.2	-1	reviewed	p.P3197L	1.000	399	0%	120	22.5%	0	-	probably_damaging(0.995)	-	-	NULL
ANK3	288	genome.wustl.edu	37	10	61946642	61946642	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_020987.2	-1	reviewed	p.A639V	1.000	277	0%	97	22.7%	0	-	probably_damaging(1)	deleterious(0.04)	deleterious(0.849)	HMMPfam_Ank,HMMSmart_ANK,superfamily_ANK
ANK3	288	genome.wustl.edu	37	10	61994461	61994461	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_020987.2	-1	reviewed	p.I294	0.900	387	0%	110	33.6%	0	-	-	-	-	HMMPfam_Ank,HMMSmart_ANK,superfamily_ANK
CDK1	983	genome.wustl.edu	37	10	62547899	62547899	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001786.4	+1	reviewed	p.L134F	1.000	362	0.3%	160	21.2%	9	44.4%	probably_damaging(0.999)	deleterious(0)	deleterious(0.935)	HMMSmart_SM00219,HMMSmart_SM00220,PatternScan_PROTEIN_KINASE_ST,superfamily_Protein kinase-like (PK-like),HMMPfam_Pkinase
ARID5B	84159	genome.wustl.edu	37	10	63816911	63816911	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_032199.2	+1	validated	p.P294	1.000	140	0%	37	29.7%	6	16.6%	-	-	-	NULL
ZNF365	22891	genome.wustl.edu	37	10	64136664	64136664	+	Nonsense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_199451.2	+1	reviewed	p.E238*	0.979	61	0%	86	20.9%	0	-	-	-	-	NULL
EGR2	1959	genome.wustl.edu	37	10	64573709	64573709	+	Missense_Mutation	SNP	A	A	C	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_000399.3	-1	reviewed	p.F230C	1.000	201	0%	349	13.8%	2	0%	probably_damaging(0.999)	deleterious(0)	deleterious(0.935)	NULL
NRBF2	29982	genome.wustl.edu	37	10	64913646	64913646	+	Missense_Mutation	SNP	T	T	G	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_030759.3	+1	validated	p.L178V	0.906	382	0%	149	18.8%	16	0%	probably_damaging(0.999)	deleterious(0)	deleterious(0.935)	HMMPfam_DUF1875
JMJD1C	221037	genome.wustl.edu	37	10	64966773	64966773	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_032776.1	-1	validated	p.K1552N	1.000	348	0%	147	18.4%	0	-	probably_damaging(1)	deleterious(0)	deleterious(0.945)	NULL
JMJD1C	221037	genome.wustl.edu	37	10	64967663	64967663	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_032776.1	-1	validated	p.E1256K	1.000	245	0%	73	12.3%	3	0%	probably_damaging(0.999)	deleterious(0)	deleterious(0.935)	NULL
JMJD1C	221037	genome.wustl.edu	37	10	64974483	64974483	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_032776.1	-1	validated	p.E482K	1.000	255	0%	78	21.8%	0	-	possibly_damaging(0.905)	tolerated(0.11)	deleterious(0.631)	NULL
JMJD1C	221037	genome.wustl.edu	37	10	64974825	64974825	+	Nonsense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_032776.1	-1	validated	p.R368*	0.997	271	0%	122	28.7%	2	0%	-	-	-	NULL
CTNNA3	29119	genome.wustl.edu	37	10	67680176	67680176	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001127384.1	-1	validated	p.T867K	0.122	380	0%	112	26.8%	2	0%	benign(0.02)	tolerated(0.28)	neutral(0.033)	NULL
LRRTM3	347731	genome.wustl.edu	37	10	68687274	68687274	+	Silent	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_178011.3	+1	validated	p.V200	1.000	186	0%	81	24.7%	0	-	-	-	-	HMMPfam_LRR_1,HMMSmart_SM00369,HMMSmart_SM00365,superfamily_L domain-like
LRRTM3	347731	genome.wustl.edu	37	10	68687850	68687850	+	Silent	SNP	A	A	G	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_178011.3	+1	validated	p.K392	0.396	37	0%	33	21.2%	0	-	-	-	-	NULL
SIRT1	23411	genome.wustl.edu	37	10	69651215	69651215	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_012238.4	+1	validated	p.R282H	1.000	403	0%	335	24.2%	2	50%	probably_damaging(1)	deleterious(0)	deleterious(0.945)	HMMPfam_SIR2,superfamily_SSF52467
SIRT1	23411	genome.wustl.edu	37	10	69669050	69669050	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001142498.1	+1	reviewed	p.P108L	1.000	226	0%	74	27%	2	0%	benign(0.202)	deleterious(0.02)	neutral(0.403)	HMMPfam_SIR2,superfamily_DHS-like NAD/FAD-binding domain
SIRT1	23411	genome.wustl.edu	37	10	69676294	69676294	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001142498.1	+1	reviewed	p.A435S	0.990	335	0%	76	23.7%	4	0%	benign(0.004)	tolerated(0.31)	neutral(0.027)	NULL
HERC4	26091	genome.wustl.edu	37	10	69692480	69692480	+	Silent	SNP	T	T	C	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_022079.2	-1	validated	p.L912	0.998	293	0%	89	14.6%	9	11.1%	-	-	-	HMMPfam_HECT,HMMSmart_SM00119,superfamily_Hect E3 ligase catalytic domain
HERC4	26091	genome.wustl.edu	37	10	69714452	69714452	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_022079.2	-1	validated	p.R754H	1.000	256	0%	120	21.7%	7	0%	probably_damaging(1)	deleterious(0.02)	deleterious(0.883)	HMMSmart_SM00119,superfamily_Hect E3 ligase catalytic domain
MYPN	84665	genome.wustl.edu	37	10	69881431	69881431	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_032578.2	+1	validated	p.A79V	1.000	83	0%	14	50%	0	-	probably_damaging(1)	deleterious(0)	deleterious(0.945)	NULL
MYPN	84665	genome.wustl.edu	37	10	69955256	69955256	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_032578.2	+1	validated	p.R1042H	1.000	171	0%	54	11.1%	0	-	probably_damaging(0.999)	deleterious(0.03)	deleterious(0.855)	NULL
PBLD	64081	genome.wustl.edu	37	10	70051967	70051967	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_022129.3	-1	validated	p.V104	0.998	196	0%	110	24.5%	1	0%	-	-	-	HMMPfam_PhzC-PhzF,superfamily_SSF54506
HNRNPH3	3189	genome.wustl.edu	37	10	70099261	70099261	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_012207.2	+1	reviewed	p.F196	1.000	636	0%	522	12.5%	120	17.5%	-	-	-	HMMSmart_SM00360,superfamily_RNA-binding domain RBD
RUFY2	55680	genome.wustl.edu	37	10	70164433	70164433	+	Missense_Mutation	SNP	A	A	C	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_017987.4	-1	validated	p.L93R	1.000	235	0%	360	22.5%	2	50%	probably_damaging(0.99)	deleterious(0)	deleterious(0.886)	HMMPfam_RUN
DNA2	1763	genome.wustl.edu	37	10	70190255	70190255	+	Nonsense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001080449.1	-1	provisional	p.E802*	1.000	440	0%	158	12.7%	1	0%	-	-	-	superfamily_P-loop containing nucleoside triphosphate hydrolases
TET1	80312	genome.wustl.edu	37	10	70333725	70333725	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_030625.2	+1	validated	p.G544W	0.000	87	0%	45	13.3%	0	-	probably_damaging(0.97)	deleterious(0.03)	deleterious(0.777)	NULL
TET1	80312	genome.wustl.edu	37	10	70446226	70446226	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_030625.2	+1	validated	p.K1722N	0.007	86	0%	31	35.5%	0	-	benign(0.119)	tolerated(0.46)	neutral(0.021)	NULL
CCAR1	55749	genome.wustl.edu	37	10	70507139	70507139	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_018237.2	+1	validated	p.S214	0.141	191	0%	86	23.3%	4	0%	-	-	-	NULL
CCAR1	55749	genome.wustl.edu	37	10	70545920	70545920	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_018237.2	+1	validated	p.R893Q	0.993	431	0%	141	28.4%	26	50%	unknown(0)	tolerated(0.11)	-	NULL
STOX1	219736	genome.wustl.edu	37	10	70641845	70641845	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001130161.2	+1	reviewed	p.R148C	0.996	334	0%	134	23.9%	1	0%	benign(0.278)	deleterious(0.03)	neutral(0.394)	HMMPfam_Stork_head
STOX1	219736	genome.wustl.edu	37	10	70652420	70652420	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001130161.2	+1	reviewed	p.V966	0.513	370	0%	332	12.3%	3	0%	-	-	-	NULL
DDX50	79009	genome.wustl.edu	37	10	70666724	70666724	+	Silent	SNP	T	T	C	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_024045.1	+1	reviewed	p.D115	0.856	227	0%	221	10.9%	4	0%	-	-	-	superfamily_P-loop containing nucleoside triphosphate hydrolases
DDX50	79009	genome.wustl.edu	37	10	70672974	70672974	+	Missense_Mutation	SNP	A	A	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_024045.1	+1	reviewed	p.K232N	1.000	288	0.3%	131	18.3%	4	0%	benign(0.018)	tolerated(0.13)	neutral(0.253)	HMMPfam_DEAD,HMMSmart_SM00487,superfamily_P-loop containing nucleoside triphosphate hydrolases
DDX50	79009	genome.wustl.edu	37	10	70673877	70673877	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_024045.1	+1	reviewed	p.V336F	1.000	255	0.4%	125	32%	7	0%	possibly_damaging(0.885)	deleterious(0)	deleterious(0.790)	HMMPfam_DEAD,HMMSmart_SM00487,superfamily_P-loop containing nucleoside triphosphate hydrolases
DDX21	9188	genome.wustl.edu	37	10	70719844	70719844	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_004728.2	+1	reviewed	p.E124K	1.000	108	0%	133	21.1%	2	0%	possibly_damaging(0.882)	tolerated(0.07)	deleterious(0.663)	superfamily_P-loop containing nucleoside triphosphate hydrolases
VPS26A	9559	genome.wustl.edu	37	10	70892677	70892677	+	Silent	SNP	T	T	C	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_004896.3	+1	reviewed	p.G9	0.999	319	0%	227	23.8%	5	40%	-	-	-	HMMPfam_Vps26
SUPV3L1	6832	genome.wustl.edu	37	10	70940147	70940147	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_003171.3	+1	provisional	p.P34S	0.000	85	0%	84	16.7%	2	0%	benign(0)	tolerated(0.81)	neutral(0.001)	NULL
SUPV3L1	6832	genome.wustl.edu	37	10	70940307	70940307	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_003171.3	+1	provisional	p.P87H	1.000	37	0%	36	22.2%	3	33.3%	possibly_damaging(0.746)	deleterious(0.02)	deleterious(0.657)	NULL
SUPV3L1	6832	genome.wustl.edu	37	10	70951417	70951417	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_003171.3	+1	provisional	p.P250S	0.997	554	0%	253	24.5%	3	0%	possibly_damaging(0.736)	tolerated(0.11)	deleterious(0.540)	superfamily_SSF52540
HKDC1	80201	genome.wustl.edu	37	10	71018551	71018551	+	Nonsense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_025130.3	+1	validated	p.C684*	1.000	241	0%	167	19.8%	3	66.6%	-	-	-	HMMPfam_Hexokinase_2,superfamily_Actin-like ATPase domain
HK1	3098	genome.wustl.edu	37	10	71152036	71152036	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_033497.2	+1	reviewed	p.E735K	1.000	145	0%	89	21.3%	22	0%	benign(0)	tolerated(0.43)	neutral(0.013)	HMMPfam_Hexokinase_2,superfamily_SSF53067
TACR2	6865	genome.wustl.edu	37	10	71164757	71164757	+	Missense_Mutation	SNP	G	G	C	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001057.2	-1	validated	p.T341R	0.001	252	48.8%	310	44.2%	0	-	probably_damaging(0.985)	tolerated(0.31)	neutral(0.459)	NULL
TACR2	6865	genome.wustl.edu	37	10	71164771	71164771	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001057.2	-1	validated	p.L336	0.034	249	0%	309	27.8%	0	-	-	-	-	NULL
TSPAN15	23555	genome.wustl.edu	37	10	71264232	71264232	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_012339.3	+1	reviewed	p.I203	0.081	331	0%	208	23.6%	17	17.6%	-	-	-	superfamily_Tetraspanin,HMMPfam_Tetraspannin
NEUROG3	50674	genome.wustl.edu	37	10	71332387	71332387	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_020999.3	-1	reviewed	p.T138M	1.000	56	0%	97	30.9%	0	-	possibly_damaging(0.616)	tolerated(0.1)	deleterious(0.501)	HMMSmart_HLH,superfamily_HLH_basic
NEUROG3	50674	genome.wustl.edu	37	10	71332649	71332649	+	Nonsense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_020999.3	-1	reviewed	p.E51*	0.852	16	0%	28	17.9%	0	-	-	-	-	NULL
COL13A1	1305	genome.wustl.edu	37	10	71662506	71662506	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001130103.1	+1	reviewed	p.G261	0.989	64	0%	63	33.3%	2	0%	-	-	-	NULL
COL13A1	1305	genome.wustl.edu	37	10	71682545	71682545	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001130103.1	+1	reviewed	p.P398S	1.000	69	0%	41	24.4%	3	0%	probably_damaging(1)	-	-	HMMPfam_Collagen
COL13A1	1305	genome.wustl.edu	37	10	71685584	71685584	+	Nonsense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001130103.1	+1	reviewed	p.G441*	0.998	164	0%	78	23.1%	2	0%	-	-	-	HMMPfam_Collagen
AIFM2	84883	genome.wustl.edu	37	10	71883680	71883680	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_032797.4	-1	reviewed	p.R54Q	1.000	23	0%	34	23.5%	1	0%	probably_damaging(1)	deleterious(0)	deleterious(0.945)	HMMPfam_Pyr_redox_2,superfamily_FAD/NAD(P)-binding domain
PRF1	5551	genome.wustl.edu	37	10	72360353	72360353	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001083116.1	-1	reviewed	p.C102	0.980	27	0%	41	19.5%	0	-	-	-	-	NULL
ADAMTS14	140766	genome.wustl.edu	37	10	72520228	72520228	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_139155.2	+1	reviewed	p.A1100	0.025	64	0%	53	13.2%	0	-	-	-	-	NULL
C10orf27	219793	genome.wustl.edu	37	10	72539473	72539473	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_152710.2	-1	validated	p.V101	0.007	87	0%	78	12.8%	0	-	-	-	-	NULL
SGPL1	8879	genome.wustl.edu	37	10	72617373	72617373	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_003901.3	+1	validated	p.A138T	0.097	221	0.5%	260	21.5%	5	40%	benign(0.001)	tolerated(0.4)	neutral(0.016)	superfamily_PLP-dependent transferases
SGPL1	8879	genome.wustl.edu	37	10	72635221	72635221	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_003901.3	+1	validated	p.G454E	1.000	416	0%	263	12.9%	3	0%	probably_damaging(0.999)	tolerated(0.28)	deleterious(0.522)	HMMPfam_Pyridoxal_deC,superfamily_PLP-dependent transferases
UNC5B	219699	genome.wustl.edu	37	10	73051468	73051468	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_170744.3	+1	validated	p.R525H	1.000	32	0%	44	18.2%	0	-	probably_damaging(0.987)	deleterious(0.03)	deleterious(0.801)	NULL
SLC29A3	55315	genome.wustl.edu	37	10	73082533	73082533	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	ENST00000373189	+1	known	p.D8N	0.000	83	0%	107	29.9%	4	0%	benign(0)	tolerated(0.64)	neutral(0.003)	NULL
CDH23	64072	genome.wustl.edu	37	10	73405729	73405729	+	Missense_Mutation	SNP	G	G	A	rs188376296	by1000genomes	TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_022124.5	+1	reviewed	p.D428N	1.000	87	0%	102	27.5%	1	100%	benign(0.059)	tolerated(0.19)	neutral(0.054)	HMMPfam_Cadherin,HMMSmart_SM00112,superfamily_Cadherin-like
CDH23	64072	genome.wustl.edu	37	10	73447448	73447448	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_022124.5	+1	reviewed	p.F677	0.994	85	0%	124	13.7%	0	-	-	-	-	HMMPfam_Cadherin,superfamily_Cadherin-like
C10orf105	414152	genome.wustl.edu	37	10	73475740	73475740	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	ENST00000441508	-1	known	p.E119K	0.000	96	0%	135	21.5%	0	-	benign(0.008)	-	-	NULL
C10orf105	414152	genome.wustl.edu	37	10	73475878	73475878	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	ENST00000441508	-1	known	p.E73K	0.961	29	0%	84	14.3%	0	-	possibly_damaging(0.936)	-	-	NULL
C10orf54	64115	genome.wustl.edu	37	10	73521465	73521465	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_022153.1	-1	validated	p.R134H	0.197	59	0%	68	23.5%	18	0%	benign(0.029)	tolerated(0.17)	neutral(0.060)	HMMSmart_SM00409,HMMPfam_V-set,superfamily_Immunoglobulin
C10orf54	64115	genome.wustl.edu	37	10	73521645	73521645	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_022153.1	-1	validated	p.R74H	1.000	70	0%	90	27.8%	14	0%	possibly_damaging(0.544)	tolerated(0.54)	neutral(0.192)	HMMSmart_SM00409,HMMPfam_V-set,superfamily_Immunoglobulin
CDH23	64072	genome.wustl.edu	37	10	73538008	73538008	+	Silent	SNP	C	C	T	rs111033487	byCluster;by1000genomes	TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_022124.5	+1	reviewed	p.I1710	0.000	128	0%	181	33.1%	0	-	-	-	-	HMMPfam_Cadherin,HMMSmart_SM00112,superfamily_Cadherin-like
CDH23	64072	genome.wustl.edu	37	10	73544100	73544100	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_022124.5	+1	reviewed	p.L1809	1.000	53	0%	50	28%	0	-	-	-	-	HMMPfam_Cadherin,HMMSmart_SM00112,superfamily_Cadherin-like
CDH23	64072	genome.wustl.edu	37	10	73545396	73545396	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_022124.5	+1	reviewed	p.I1907	0.649	94	0%	103	22.3%	0	-	-	-	-	HMMPfam_Cadherin,HMMSmart_SM00112,superfamily_Cadherin-like
CDH23	64072	genome.wustl.edu	37	10	73571087	73571087	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_022124.5	+1	reviewed	p.I3031	0.005	67	0%	92	12%	0	-	-	-	-	NULL
SPOCK2	9806	genome.wustl.edu	37	10	73831920	73831920	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_014767.2	-1	validated	p.R114H	1.000	259	0%	334	23.7%	12	0%	possibly_damaging(0.885)	tolerated(0.29)	neutral(0.375)	NULL
ANAPC16	119504	genome.wustl.edu	37	10	73983693	73983693	+	Silent	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_173473.2	+1	validated	p.S7	0.156	251	0.4%	141	19.9%	56	16%	-	-	-	NULL
MICU1	10367	genome.wustl.edu	37	10	74235004	74235004	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_006077.2	-1	validated	p.R265C	1.000	277	0%	87	23%	27	7.4%	probably_damaging(0.999)	deleterious(0)	deleterious(0.935)	superfamily_SSF47473
MCU	90550	genome.wustl.edu	37	10	74619046	74619046	+	Missense_Mutation	SNP	T	T	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_138357.1	+1	provisional	p.F111Y	1.000	329	0.3%	100	26%	4	25%	probably_damaging(0.992)	tolerated(0.05)	deleterious(0.793)	HMMPfam_DUF607
MCU	90550	genome.wustl.edu	37	10	74644046	74644046	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_138357.1	+1	provisional	p.R295I	1.000	334	0%	100	16%	4	0%	possibly_damaging(0.942)	tolerated(0.07)	deleterious(0.706)	HMMPfam_DUF607
P4HA1	5033	genome.wustl.edu	37	10	74810844	74810844	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_000917.3	-1	reviewed	p.Y289	0.997	328	0%	121	24.8%	8	0%	-	-	-	NULL
P4HA1	5033	genome.wustl.edu	37	10	74833540	74833540	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_000917.3	-1	reviewed	p.S41F	1.000	462	0%	114	29.8%	3	0%	probably_damaging(0.999)	tolerated(0.46)	deleterious(0.502)	HMMPfam_P4Ha_N
NUDT13	25961	genome.wustl.edu	37	10	74890559	74890559	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_015901.4	+1	validated	p.Q319H	0.856	87	0%	32	18.8%	0	-	possibly_damaging(0.807)	tolerated(0.11)	deleterious(0.576)	HMMPfam_NUDIX,superfamily_Nudix
ECD	11319	genome.wustl.edu	37	10	74894376	74894376	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001135752.1	-1	validated	p.D667N	0.998	259	0%	137	24.1%	41	36.5%	probably_damaging(0.955)	tolerated(0.17)	neutral(0.458)	NULL
FAM149B1	317662	genome.wustl.edu	37	10	74937685	74937685	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	ENST00000372955	+1	known	p.A19V	1.000	427	0%	276	23.6%	0	-	-	-	-	NULL
FAM149B1	317662	genome.wustl.edu	37	10	74987902	74987902	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_173348.1	+1	validated	p.R328Q	1.000	297	0.3%	69	33.3%	3	33.3%	probably_damaging(0.997)	tolerated(0.12)	deleterious(0.727)	NULL
TTC18	118491	genome.wustl.edu	37	10	75056812	75056812	+	Silent	SNP	T	T	C	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_145170.3	-1	validated	p.V614	0.992	460	0%	112	20.5%	0	-	-	-	-	NULL
TTC18	118491	genome.wustl.edu	37	10	75082832	75082832	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_145170.3	-1	validated	p.S337	0.981	350	0%	143	11.9%	0	-	-	-	-	NULL
TTC18	118491	genome.wustl.edu	37	10	75113353	75113353	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_145170.3	-1	validated	p.G71R	0.993	340	0%	185	20.5%	0	-	benign(0.084)	tolerated(0.07)	neutral(0.325)	NULL
USP54	159195	genome.wustl.edu	37	10	75302841	75302841	+	Nonsense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_152586.3	-1	provisional	p.E142*	1.000	527	0%	159	22%	0	-	-	-	-	superfamily_Cysteine proteinases
USP54	159195	genome.wustl.edu	37	10	75335366	75335366	+	Silent	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_152586.3	-1	provisional	p.G17	0.972	248	0%	61	16.4%	0	-	-	-	-	NULL
SYNPO2L	79933	genome.wustl.edu	37	10	75407210	75407210	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001114133.1	-1	validated	p.L734F	0.749	23	0%	49	24.5%	0	-	benign(0)	tolerated(0.3)	neutral(0.029)	NULL
SYNPO2L	79933	genome.wustl.edu	37	10	75408390	75408390	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001114133.1	-1	validated	p.F340L	1.000	43	0%	65	21.5%	0	-	probably_damaging(0.971)	tolerated(0.59)	neutral(0.417)	NULL
AGAP5	729092	genome.wustl.edu	37	10	75457421	75457421	+	Silent	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001144000.1	-1	validated	p.I31	0.655	213	0%	376	25.5%	0	-	-	-	-	NULL
CAMK2G	818	genome.wustl.edu	37	10	75583809	75583809	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_172171.1	-1	reviewed	p.D365Y	1.000	182	0%	168	26.2%	4	0%	possibly_damaging(0.44)	deleterious(0.01)	deleterious(0.549)	superfamily_Kinase_like
AP3M1	26985	genome.wustl.edu	37	10	75884226	75884226	+	Silent	SNP	T	T	C	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_012095.4	-1	reviewed	p.G356	0.999	385	0%	129	27.1%	5	0%	-	-	-	HMMPfam_Adap_comp_sub,superfamily_Second domain of Mu2 adaptin subunit (ap50) of ap2 adaptor
AP3M1	26985	genome.wustl.edu	37	10	75889682	75889682	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_012095.4	-1	reviewed	p.L218I	1.000	464	0%	305	12.1%	5	20%	benign(0.306)	tolerated(0.05)	neutral(0.441)	HMMPfam_Adap_comp_sub,superfamily_Second domain of Mu2 adaptin subunit (ap50) of ap2 adaptor
DUPD1	338599	genome.wustl.edu	37	10	76803669	76803669	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001003892.1	-1	provisional	p.D103N	0.990	44	0%	107	26.2%	0	-	benign(0.047)	tolerated(0.36)	neutral(0.023)	HMMPfam_DSPc,HMMSmart_DSPc,superfamily_SSF52799
DUPD1	338599	genome.wustl.edu	37	10	76803758	76803758	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001003892.1	-1	provisional	p.R73H	0.991	32	0%	69	20.3%	0	-	probably_damaging(0.992)	deleterious(0.02)	deleterious(0.831)	HMMPfam_DSPc,HMMSmart_DSPc,superfamily_SSF52799
DLG5	9231	genome.wustl.edu	37	10	79577540	79577540	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_004747.3	-1	reviewed	p.R1260H	1.000	88	1.1%	100	22%	16	0%	probably_damaging(1)	tolerated(0.57)	deleterious(0.506)	NULL
RPS24	6229	genome.wustl.edu	37	10	79797001	79797001	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001142285.1	+1	reviewed	p.R110H	1.000	325	0%	293	22.9%	4863	18.8%	benign(0.013)	tolerated(0.13)	neutral(0.253)	NULL
ZMIZ1	57178	genome.wustl.edu	37	10	81049540	81049540	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_020338.3	+1	validated	p.S145L	1.000	105	0%	168	21.4%	6	33.3%	possibly_damaging(0.948)	deleterious(0.01)	deleterious(0.796)	NULL
ZMIZ1	57178	genome.wustl.edu	37	10	81063777	81063777	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_020338.3	+1	validated	p.R711W	1.000	28	0%	30	16.7%	12	0%	probably_damaging(1)	deleterious(0)	deleterious(0.945)	NULL
SFTPA2	729238	genome.wustl.edu	37	10	81317075	81317075	+	Nonsense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001098668.2	-1	reviewed	p.R213*	0.998	280	0%	112	33%	0	-	-	-	-	HMMPfam_Lectin_C,HMMSmart_SM00034,superfamily_C-type lectin-like
SFTPA1	653509	genome.wustl.edu	37	10	81372986	81372986	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001093770.2	+1	reviewed	p.H112N	0.221	281	0%	156	13.5%	0	-	benign(0.063)	tolerated(0.53)	neutral(0.011)	NULL
SFTPA1	653509	genome.wustl.edu	37	10	81373614	81373614	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001093770.2	+1	reviewed	p.V164	0.745	207	0%	110	16.4%	0	-	-	-	-	HMMPfam_Lectin_C,HMMSmart_SM00034,superfamily_C-type lectin-like
SFTPA1	653509	genome.wustl.edu	37	10	81373847	81373847	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001093770.2	+1	reviewed	p.R242Q	0.970	178	0%	78	30.8%	0	-	probably_damaging(1)	deleterious(0.02)	deleterious(0.883)	HMMPfam_Lectin_C,HMMSmart_SM00034,superfamily_C-type lectin-like
LOC100288974	100288974	genome.wustl.edu	37	10	81666389	81666389	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	XM_002343003.1	+1	model	p.R10I	0.999	87	0%	109	26.6%	0	-	-	-	-	NULL
NRG3	10718	genome.wustl.edu	37	10	83635565	83635565	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001010848.3	+1	reviewed	p.R157C	1.000	78	0%	164	10.4%	0	-	probably_damaging(0.999)	deleterious(0)	deleterious(0.935)	NULL
NRG3	10718	genome.wustl.edu	37	10	84118494	84118494	+	Splice_Site	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001010848.3	+1	reviewed	e2-1	1.000	133	0%	64	28.1%	0	-	-	-	-	-
NRG3	10718	genome.wustl.edu	37	10	84118518	84118518	+	Nonsense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001010848.3	+1	reviewed	p.R283*	0.982	145	0%	65	13.8%	0	-	-	-	-	NULL
GHITM	27069	genome.wustl.edu	37	10	85909991	85909991	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_014394.2	+1	validated	p.S258F	0.975	197	0%	167	22.2%	112	16.9%	benign(0.249)	deleterious(0)	deleterious(0.470)	HMMPfam_UPF0005
CDHR1	92211	genome.wustl.edu	37	10	85957560	85957560	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_033100.2	+1	reviewed	p.A106S	1.000	111	0%	169	22.5%	0	-	possibly_damaging(0.72)	deleterious(0.01)	deleterious(0.667)	HMMPfam_Cadherin,HMMSmart_SM00112,superfamily_Cadherin-like
FAM190B	54462	genome.wustl.edu	37	10	86198317	86198317	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_018999.2	+1	validated	p.G640W	1.000	430	0%	269	20.4%	1	0%	probably_damaging(0.999)	deleterious(0)	deleterious(0.935)	NULL
GRID1	2894	genome.wustl.edu	37	10	87615932	87615932	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_017551.2	-1	reviewed	p.L323	1.000	130	0%	51	29.4%	3	0%	-	-	-	HMMPfam_ANF_receptor,superfamily_Periplasmic binding protein-like I
WAPAL	23063	genome.wustl.edu	37	10	88260252	88260252	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_015045.2	-1	validated	p.D250N	1.000	325	0%	83	21.7%	0	-	benign(0.059)	tolerated(0.07)	neutral(0.323)	NULL
OPN4	94233	genome.wustl.edu	37	10	88417803	88417803	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001030015.2	+1	validated	p.R113Q	1.000	184	0%	187	13.9%	0	-	probably_damaging(0.977)	tolerated(0.19)	neutral(0.468)	HMMPfam_7tm_1,superfamily_SSF81321
OPN4	94233	genome.wustl.edu	37	10	88421092	88421092	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001030015.2	+1	validated	p.K351N	1.000	284	0%	312	18.6%	0	-	probably_damaging(1)	deleterious(0)	deleterious(0.945)	HMMPfam_7tm_1,PatternScan_OPSIN,superfamily_SSF81321
BMPR1A	657	genome.wustl.edu	37	10	88679141	88679141	+	Nonsense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_004329.2	+1	reviewed	p.R361*	1.000	297	0%	141	14.9%	2	0%	-	-	-	PatternScan_PROTEIN_KINASE_ST,superfamily_Kinase_like,HMMPfam_Pkinase
AGAP11	119385	genome.wustl.edu	37	10	88768616	88768616	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_133447.1	+1	validated	p.S203P	0.984	253	0%	249	23.7%	0	-	-	-	-	HMMPfam_PH,HMMSmart_PH,superfamily_SSF50729
AGAP11	119385	genome.wustl.edu	37	10	88768997	88768997	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_133447.1	+1	validated	p.A330T	1.000	97	1%	98	23.5%	1	0%	-	-	-	HMMPfam_ArfGap,HMMSmart_ArfGap,superfamily_ArfGAP
AGAP11	119385	genome.wustl.edu	37	10	88769450	88769450	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_133447.1	+1	validated	p.E481K	1.000	81	0%	49	28.6%	1	0%	-	-	-	superfamily_ANK
MINPP1	9562	genome.wustl.edu	37	10	89311946	89311946	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_004897.4	+1	validated	p.A392V	0.998	375	0%	103	20.4%	4	25%	probably_damaging(0.984)	deleterious(0.01)	deleterious(0.836)	HMMPfam_Acid_phosphat_A,superfamily_Phosphoglycerate mutase-like
ATAD1	84896	genome.wustl.edu	37	10	89544320	89544320	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_032810.2	-1	provisional	p.D164N	1.000	264	0%	51	27.5%	14	14.2%	probably_damaging(0.965)	tolerated(0.15)	deleterious(0.648)	HMMSmart_SM00382,HMMPfam_AAA,superfamily_P-loop containing nucleoside triphosphate hydrolases
RNLS	55328	genome.wustl.edu	37	10	90074397	90074397	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001031709.2	-1	validated	p.E234D	0.349	201	0%	62	21%	0	-	benign(0.011)	tolerated(0.53)	neutral(0.008)	superfamily_FAD/NAD(P)-binding domain
LIPF	8513	genome.wustl.edu	37	10	90428321	90428321	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_004190.2	+1	reviewed	p.R77I	0.049	181	0%	42	14.3%	0	-	possibly_damaging(0.933)	deleterious(0)	deleterious(0.824)	HMMPfam_Abhydro_lipase,superfamily_alpha/beta-Hydrolases
STAMBPL1	57559	genome.wustl.edu	37	10	90665260	90665260	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_020799.2	+1	provisional	p.R31C	1.000	370	0%	74	27%	1	0%	probably_damaging(1)	deleterious(0)	deleterious(0.945)	NULL
ACTA2	59	genome.wustl.edu	37	10	90708572	90708572	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001141945.1	-1	reviewed	p.R39H	1.000	127	1.6%	23	21.7%	1787	0.1%	possibly_damaging(0.755)	-	-	HMMPfam_Actin,HMMSmart_SM00268,superfamily_Actin-like ATPase domain
FAS	355	genome.wustl.edu	37	10	90771795	90771795	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_000043.3	+1	reviewed	p.R203I	0.000	409	0%	292	21.9%	2	50%	probably_damaging(0.992)	deleterious(0.01)	deleterious(0.853)	NULL
IFIT2	3433	genome.wustl.edu	37	10	91066183	91066183	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001547.4	+1	validated	p.A157V	0.861	123	0%	36	11.1%	1	0%	benign(0.003)	tolerated(0.15)	neutral(0.241)	HMMPfam_TPR_1,superfamily_SSF48452
IFIT1	3434	genome.wustl.edu	37	10	91162736	91162736	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001548.3	+1	validated	p.E235G	1.000	129	0%	52	13.5%	5	0%	probably_damaging(0.993)	deleterious(0)	deleterious(0.895)	superfamily_TPR-like
IFIT1	3434	genome.wustl.edu	37	10	91163161	91163161	+	Missense_Mutation	SNP	A	A	C	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001548.3	+1	validated	p.M377L	0.000	156	0%	76	19.7%	11	18.1%	benign(0)	tolerated(0.13)	neutral(0.253)	superfamily_TPR-like
SLC16A12	387700	genome.wustl.edu	37	10	91198924	91198924	+	Silent	SNP	A	A	C	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_213606.3	-1	validated	p.L125	0.240	23	0%	11	36.4%	0	-	-	-	-	HMMPfam_MFS_1,superfamily_MFS_gen_substrate_transporter
KIF20B	9585	genome.wustl.edu	37	10	91465086	91465086	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_016195.2	+1	validated	p.R12Q	0.997	455	0%	324	24.4%	0	-	probably_damaging(1)	deleterious(0)	deleterious(0.945)	NULL
KIF20B	9585	genome.wustl.edu	37	10	91469787	91469787	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_016195.2	+1	validated	p.G152E	1.000	200	0%	91	15.4%	0	-	probably_damaging(1)	deleterious(0)	deleterious(0.945)	HMMPfam_Kinesin,HMMSmart_SM00129,superfamily_P-loop containing nucleoside triphosphate hydrolases
KIF20B	9585	genome.wustl.edu	37	10	91497224	91497224	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_016195.2	+1	validated	p.D836Y	0.019	137	0%	43	18.6%	1	0%	possibly_damaging(0.528)	deleterious(0.02)	deleterious(0.561)	NULL
KIF20B	9585	genome.wustl.edu	37	10	91522453	91522453	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_016195.2	+1	validated	p.R1577Q	1.000	277	0%	46	10.9%	2	0%	probably_damaging(0.999)	deleterious(0)	deleterious(0.935)	NULL
LOC119358	119358	genome.wustl.edu	37	10	91738623	91738623	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	XM_061427.3	+1	model	p.T50	1.000	303	0%	89	24.7%	0	-	-	-	-	HMMPfam_LSM,HMMSmart_SM00651,superfamily_Sm-like ribonucleoproteins
RPP30	10556	genome.wustl.edu	37	10	92631782	92631782	+	Silent	SNP	T	T	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001104546.1	+1	validated	p.S13	0.000	84	0%	108	28.7%	13	46.1%	-	-	-	superfamily_PHP domain-like
HECTD2	143279	genome.wustl.edu	37	10	93255980	93255980	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_182765.3	+1	validated	p.L511I	1.000	319	0%	244	18.9%	0	-	probably_damaging(0.987)	deleterious(0.04)	deleterious(0.785)	HMMPfam_HECT,HMMSmart_HECTc,superfamily_HECT
PPP1R3C	5507	genome.wustl.edu	37	10	93389754	93389754	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_005398.4	-1	provisional	p.R295M	0.316	136	0%	150	14.7%	3	0%	probably_damaging(1)	deleterious(0.01)	deleterious(0.905)	NULL
TNKS2	80351	genome.wustl.edu	37	10	93609300	93609300	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_025235.3	+1	validated	p.F881	1.000	536	0.4%	161	18.6%	2	0%	-	-	-	HMMSmart_SAM,superfamily_SAM_homology,HMMPfam_SAM_2
FGFBP3	143282	genome.wustl.edu	37	10	93668022	93668022	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_152429.4	-1	validated	p.E235D	0.998	93	0%	156	28.2%	2	50%	possibly_damaging(0.65)	tolerated(0.51)	neutral(0.237)	HMMPfam_FGF-BP1
BTAF1	9044	genome.wustl.edu	37	10	93778596	93778596	+	Silent	SNP	A	A	G	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_003972.2	+1	validated	p.Q1589	0.693	308	0%	189	27.5%	5	40%	-	-	-	NULL
BTAF1	9044	genome.wustl.edu	37	10	93778693	93778693	+	Splice_Site	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_003972.2	+1	validated	e34+1	1.000	310	0%	181	23.8%	0	-	-	-	-	-
IDE	3416	genome.wustl.edu	37	10	94214259	94214259	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_004969.3	-1	reviewed	p.G1001D	1.000	259	0%	63	30.2%	18	16.6%	benign(0.001)	tolerated(0.73)	neutral(0.002)	NULL
IDE	3416	genome.wustl.edu	37	10	94247010	94247010	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_004969.3	-1	reviewed	p.T533	0.006	326	0.3%	107	22.4%	0	-	-	-	-	superfamily_Metalloenz_metal-bd
MYOF	26509	genome.wustl.edu	37	10	95069867	95069867	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_013451.3	-1	reviewed	p.I2019	1.000	153	0%	69	26.1%	118	9.3%	-	-	-	NULL
MYOF	26509	genome.wustl.edu	37	10	95079687	95079687	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_013451.3	-1	reviewed	p.R1847Q	1.000	356	0%	157	10.8%	32	0%	probably_damaging(1)	deleterious(0.01)	deleterious(0.905)	HMMSmart_SM00239,superfamily_C2 domain (Calcium/lipid-binding domain CaLB)
MYOF	26509	genome.wustl.edu	37	10	95109579	95109579	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_013451.3	-1	reviewed	p.L1357I	1.000	227	0%	142	20.4%	18	0%	probably_damaging(1)	tolerated(0.15)	deleterious(0.741)	HMMPfam_C2,HMMSmart_SM00239,superfamily_C2 domain (Calcium/lipid-binding domain CaLB)
MYOF	26509	genome.wustl.edu	37	10	95115459	95115459	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_013451.3	-1	reviewed	p.S1110N	0.042	231	0.4%	117	27.4%	12	8.3%	benign(0.011)	tolerated(0.38)	neutral(0.018)	superfamily_C2 domain (Calcium/lipid-binding domain CaLB)
MYOF	26509	genome.wustl.edu	37	10	95119624	95119624	+	Missense_Mutation	SNP	T	T	G	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_013451.3	-1	reviewed	p.K1029T	1.000	449	0%	212	18.4%	12	8.3%	benign(0.07)	tolerated(0.14)	neutral(0.255)	HMMSmart_SM00694
MYOF	26509	genome.wustl.edu	37	10	95121312	95121312	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_013451.3	-1	reviewed	p.N957	1.000	350	0.3%	104	24%	9	0%	-	-	-	HMMSmart_SM00693
CEP55	55165	genome.wustl.edu	37	10	95276727	95276727	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001127182.1	+1	validated	p.D239N	0.574	224	0%	77	24.7%	2	0%	benign(0.012)	tolerated(0.12)	neutral(0.261)	NULL
CEP55	55165	genome.wustl.edu	37	10	95287835	95287835	+	Silent	SNP	T	T	C	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001127182.1	+1	validated	p.C440	0.998	169	0%	65	30.8%	6	50%	-	-	-	NULL
PDE6C	5146	genome.wustl.edu	37	10	95400746	95400746	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_006204.3	+1	reviewed	p.D603Y	1.000	324	0%	87	24.1%	0	-	probably_damaging(1)	deleterious(0)	deleterious(0.945)	HMMPfam_PDEase_I,PatternScan_PDEASE_I,HMMSmart_HDc,superfamily_SSF109604
FRA10AC1	118924	genome.wustl.edu	37	10	95447191	95447191	+	Nonsense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_145246.4	-1	reviewed	p.R161*	1.000	145	0%	48	27.1%	16	12.5%	-	-	-	HMMPfam_Fra10Ac1
LGI1	9211	genome.wustl.edu	37	10	95556903	95556903	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_005097.2	+1	reviewed	p.K339N	0.983	236	0%	66	10.6%	0	-	benign(0.005)	tolerated(0.32)	neutral(0.024)	HMMPfam_EPTP
LGI1	9211	genome.wustl.edu	37	10	95557174	95557174	+	Nonsense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_005097.2	+1	reviewed	p.E430*	1.000	216	0%	51	13.7%	0	-	-	-	-	HMMPfam_EPTP
PLCE1	51196	genome.wustl.edu	37	10	96025696	96025696	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_016341.3	+1	reviewed	p.S1421L	1.000	255	0%	60	28.3%	0	-	probably_damaging(1)	deleterious(0)	deleterious(0.945)	HMMPfam_PI-PLC-X,HMMSmart_SM00148,superfamily_PLC-like phosphodiesterases
PLCE1	51196	genome.wustl.edu	37	10	96076440	96076440	+	Missense_Mutation	SNP	T	T	G	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_016341.3	+1	reviewed	p.I2090S	0.613	320	0%	70	20%	1	0%	possibly_damaging(0.859)	deleterious(0)	deleterious(0.776)	NULL
PLCE1	51196	genome.wustl.edu	37	10	96084727	96084727	+	Nonsense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_016341.3	+1	reviewed	p.R2267*	0.989	226	0%	65	15.4%	12	0%	-	-	-	NULL
NOC3L	64318	genome.wustl.edu	37	10	96112077	96112077	+	Missense_Mutation	SNP	T	T	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_022451.9	-1	provisional	p.Q314H	1.000	447	0%	191	20.9%	0	-	possibly_damaging(0.831)	tolerated(0.07)	deleterious(0.635)	NULL
TBC1D12	23232	genome.wustl.edu	37	10	96267060	96267060	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_015188.1	+1	validated	p.R519Q	0.993	515	0%	176	11.4%	0	-	probably_damaging(0.986)	tolerated(0.08)	deleterious(0.734)	HMMPfam_TBC,HMMSmart_TBC,superfamily_RabGAP_TBC
HELLS	3070	genome.wustl.edu	37	10	96317911	96317911	+	Nonsense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_018063.3	+1	reviewed	p.E98*	1.000	275	0%	108	13.9%	2	0%	-	-	-	NULL
CYP2C19	1557	genome.wustl.edu	37	10	96540345	96540345	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_000769.1	+1	reviewed	p.D191Y	0.759	480	0%	185	20.5%	0	-	probably_damaging(1)	deleterious(0)	deleterious(0.945)	HMMPfam_p450,superfamily_Cytochrome_P450
CYP2C9	1559	genome.wustl.edu	37	10	96702083	96702083	+	Silent	SNP	T	T	C	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_000771.3	+1	reviewed	p.L156	0.704	559	0%	168	17.9%	0	-	-	-	-	HMMPfam_p450,superfamily_Cytochrome P450
CYP2C9	1559	genome.wustl.edu	37	10	96740982	96740982	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_000771.3	+1	reviewed	p.R335Q	0.190	318	0.3%	84	21.4%	0	-	probably_damaging(0.968)	deleterious(0.05)	deleterious(0.755)	HMMPfam_p450,superfamily_Cytochrome P450
PDLIM1	9124	genome.wustl.edu	37	10	96997731	96997731	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_020992.2	-1	provisional	p.R314Q	1.000	157	0%	85	21.2%	365	15.8%	probably_damaging(1)	deleterious(0)	deleterious(0.945)	HMMPfam_LIM
SORBS1	10580	genome.wustl.edu	37	10	97096881	97096881	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001034954.1	-1	validated	p.E1012D	0.771	108	0%	61	32.8%	0	-	possibly_damaging(0.892)	tolerated(0.43)	neutral(0.365)	NULL
SORBS1	10580	genome.wustl.edu	37	10	97170392	97170392	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001034954.1	-1	validated	p.R318Q	1.000	250	0%	137	32.8%	10	0%	probably_damaging(1)	tolerated(0.06)	deleterious(0.823)	NULL
C10orf131	100127889	genome.wustl.edu	37	10	97697964	97697964	+	Nonstop_Mutation	SNP	T	T	C	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001130446.2	+1	predicted	p.*177Q	0.018	127	0%	48	31.2%	0	-	-	-	-	NULL
BLNK	29760	genome.wustl.edu	37	10	97983645	97983645	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_013314.3	-1	reviewed	p.P154	0.000	298	0%	245	27.8%	9	11.1%	-	-	-	NULL
TLL2	7093	genome.wustl.edu	37	10	98170204	98170204	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_012465.3	-1	validated	p.T359M	0.011	125	0%	41	22%	0	-	benign(0.02)	deleterious(0.01)	neutral(0.407)	HMMPfam_CUB,HMMSmart_CUB,superfamily_CUB
PIK3AP1	118788	genome.wustl.edu	37	10	98369612	98369612	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_152309.2	-1	validated	p.T676M	0.993	166	0.6%	39	28.2%	0	-	probably_damaging(1)	deleterious(0.01)	deleterious(0.905)	NULL
PIK3AP1	118788	genome.wustl.edu	37	10	98380233	98380233	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_152309.2	-1	validated	p.R606Q	1.000	105	0%	35	17.1%	1	0%	probably_damaging(0.998)	tolerated(0.32)	deleterious(0.498)	NULL
PIK3AP1	118788	genome.wustl.edu	37	10	98405271	98405271	+	Missense_Mutation	SNP	T	T	G	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_152309.2	-1	validated	p.E445A	1.000	132	0%	62	33.9%	0	-	probably_damaging(0.998)	tolerated(0.18)	deleterious(0.530)	NULL
PIK3AP1	118788	genome.wustl.edu	37	10	98412546	98412546	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_152309.2	-1	validated	p.A207	0.000	156	0%	64	15.6%	0	-	-	-	-	NULL
PIK3AP1	118788	genome.wustl.edu	37	10	98412585	98412585	+	Silent	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_152309.2	-1	validated	p.V194	1.000	139	0%	59	18.6%	1	0%	-	-	-	NULL
C10orf12	26148	genome.wustl.edu	37	10	98743843	98743843	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_015652.2	+1	predicted	p.D899G	0.994	98	0%	42	19%	1	0%	probably_damaging(0.999)	deleterious(0.02)	deleterious(0.873)	NULL
SLIT1	6585	genome.wustl.edu	37	10	98764557	98764557	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_003061.2	-1	validated	p.G1201	0.997	194	0%	253	13%	0	-	-	-	-	HMMSmart_SM00282,superfamily_Concanavalin A-like lectins/glucanases,HMMPfam_Laminin_G_2
SLIT1	6585	genome.wustl.edu	37	10	98806781	98806781	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_003061.2	-1	validated	p.G559V	1.000	168	0%	133	23.3%	0	-	probably_damaging(1)	deleterious(0)	deleterious(0.945)	superfamily_L domain-like
SLIT1	6585	genome.wustl.edu	37	10	98808760	98808760	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_003061.2	-1	validated	p.A473T	0.998	39	0%	55	47.3%	0	-	probably_damaging(0.965)	tolerated(0.18)	neutral(0.463)	HMMPfam_LRRCT,HMMSmart_SM00082,superfamily_L domain-like
SLIT1	6585	genome.wustl.edu	37	10	98808813	98808813	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_003061.2	-1	validated	p.R455H	1.000	24	0%	27	44.4%	0	-	benign(0.016)	tolerated(0.68)	neutral(0.003)	HMMSmart_SM00082,superfamily_L domain-like
RRP12	23223	genome.wustl.edu	37	10	99132884	99132884	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_015179.3	-1	validated	p.P700	0.069	65	0%	49	20.4%	13	0%	-	-	-	superfamily_ARM repeat
ZDHHC16	84287	genome.wustl.edu	37	10	99212681	99212681	+	Splice_Site	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_032327.2	+1	validated	e4+1	1.000	346	0%	357	12.6%	0	-	-	-	-	-
UBTD1	80019	genome.wustl.edu	37	10	99330056	99330056	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_024954.3	+1	provisional	p.R154C	1.000	26	0%	28	14.3%	40	5%	probably_damaging(1)	deleterious(0)	deleterious(0.945)	HMMPfam_ubiquitin,HMMSmart_UBQ,superfamily_SSF54236
SFRP5	6425	genome.wustl.edu	37	10	99527606	99527606	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_003015.3	-1	reviewed	p.R207C	1.000	219	0%	308	27.3%	0	-	benign(0.262)	tolerated(0.08)	neutral(0.328)	superfamily_TIMP_like,HMMPfam_NTR,HMMSmart_C345C
CRTAC1	55118	genome.wustl.edu	37	10	99655696	99655696	+	Silent	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_018058.4	-1	validated	p.I421	1.000	102	0%	57	17.5%	0	-	-	-	-	superfamily_Integrin alpha N-terminal domain
PYROXD2	84795	genome.wustl.edu	37	10	100152744	100152744	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_032709.2	-1	validated	p.I294	0.740	146	0%	91	11%	0	-	-	-	-	superfamily_SSF51905
HPS1	3257	genome.wustl.edu	37	10	100185427	100185427	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_000195.2	-1	reviewed	p.F402	0.030	55	0%	43	34.9%	14	28.5%	-	-	-	NULL
HPSE2	60495	genome.wustl.edu	37	10	100995356	100995356	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_021828.4	-1	reviewed	p.K68	1.000	261	0%	376	26.1%	0	-	-	-	-	NULL
GOT1	2805	genome.wustl.edu	37	10	101157354	101157354	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_002079.2	-1	reviewed	p.L398I	0.999	383	0%	127	16.5%	80	27.5%	benign(0)	tolerated(0.33)	neutral(0.024)	HMMPfam_Aminotran_1_2,superfamily_PLP-dependent transferases
GOT1	2805	genome.wustl.edu	37	10	101163586	101163586	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_002079.2	-1	reviewed	p.A230T	1.000	143	0%	49	24.5%	14	28.5%	probably_damaging(1)	deleterious(0)	deleterious(0.945)	HMMPfam_Aminotran_1_2,superfamily_PLP-dependent transferases
GOT1	2805	genome.wustl.edu	37	10	101180532	101180532	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_002079.2	-1	reviewed	p.V50A	1.000	203	0%	88	21.6%	5	40%	probably_damaging(1)	deleterious(0)	deleterious(0.945)	HMMPfam_Aminotran_1_2,superfamily_PLP-dependent transferases
ABCC2	1244	genome.wustl.edu	37	10	101553386	101553386	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_000392.3	+1	reviewed	p.L138I	1.000	620	0%	158	25.3%	0	-	possibly_damaging(0.894)	tolerated(0.16)	neutral(0.411)	NULL
ABCC2	1244	genome.wustl.edu	37	10	101563908	101563908	+	Missense_Mutation	SNP	A	A	C	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_000392.3	+1	reviewed	p.I448L	1.000	391	0%	122	12.3%	0	-	probably_damaging(0.995)	deleterious(0.01)	deleterious(0.863)	HMMPfam_ABC_membrane,superfamily_Multidrug resistance ABC transporter MsbA N-terminal domain
ABCC2	1244	genome.wustl.edu	37	10	101591777	101591777	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_000392.3	+1	reviewed	p.F1049	0.000	339	0%	321	23.4%	0	-	-	-	-	HMMPfam_ABC_membrane,superfamily_Multidrug resistance ABC transporter MsbA N-terminal domain
DNMBP	23268	genome.wustl.edu	37	10	101639600	101639600	+	Nonsense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_015221.2	-1	validated	p.E1506*	0.313	127	0%	78	19.2%	3	66.6%	-	-	-	superfamily_SH3-domain
FAM178A	55719	genome.wustl.edu	37	10	102689648	102689648	+	Nonsense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001136123.1	+1	validated	p.E743*	1.000	163	0%	117	30.8%	0	-	-	-	-	NULL
FAM178A	55719	genome.wustl.edu	37	10	102690770	102690770	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001136123.1	+1	validated	p.G791C	1.000	662	0%	571	27.1%	0	-	probably_damaging(0.999)	deleterious(0)	deleterious(0.935)	NULL
C10orf2	56652	genome.wustl.edu	37	10	102748526	102748526	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_021830.4	+1	reviewed	p.D187Y	1.000	141	0%	182	13.7%	0	-	possibly_damaging(0.835)	deleterious(0.03)	deleterious(0.683)	NULL
LBX1	10660	genome.wustl.edu	37	10	102988471	102988471	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_006562.4	-1	reviewed	p.T34	0.996	34	0%	58	25.9%	0	-	-	-	-	NULL
BTRC	8945	genome.wustl.edu	37	10	103285901	103285901	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_033637.2	+1	reviewed	p.E230K	1.000	447	0%	392	11.5%	0	-	possibly_damaging(0.927)	deleterious(0.03)	deleterious(0.740)	HMMPfam_F-box,superfamily_F-box domain
BTRC	8945	genome.wustl.edu	37	10	103310493	103310493	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_033637.2	+1	reviewed	p.E565G	1.000	534	0%	272	11%	0	-	benign(0.031)	tolerated(0.22)	neutral(0.044)	HMMSmart_SM00320,superfamily_WD40 repeat-like,HMMPfam_WD40
FBXW4	6468	genome.wustl.edu	37	10	103371150	103371150	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_022039.3	-1	reviewed	p.S379	0.001	140	0%	102	22.5%	81	14.8%	-	-	-	superfamily_WD40_like
FGF8	2253	genome.wustl.edu	37	10	103530352	103530352	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_033163.2	-1	reviewed	p.V157I	1.000	63	0%	92	32.6%	0	-	benign(0.007)	tolerated(0.38)	neutral(0.018)	HMMPfam_FGF,HMMSmart_FGF,PatternScan_HBGF_FGF,superfamily_Cytok_IL1_like
MGEA5	10724	genome.wustl.edu	37	10	103547213	103547213	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_012215.3	-1	validated	p.S841Y	1.000	486	0%	371	21.6%	31	12.9%	probably_damaging(1)	deleterious(0)	deleterious(0.945)	superfamily_Acyl-CoA N-acyltransferases (Nat)
HPS6	79803	genome.wustl.edu	37	10	103826562	103826562	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_024747.4	+1	reviewed	p.G444D	0.999	31	0%	56	30.4%	9	0%	probably_damaging(0.996)	tolerated(0.73)	neutral(0.463)	NULL
PPRC1	23082	genome.wustl.edu	37	10	103898508	103898508	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_015062.3	+1	reviewed	p.R159W	1.000	251	0%	244	25%	4	50%	probably_damaging(0.999)	deleterious(0)	deleterious(0.935)	NULL
PPRC1	23082	genome.wustl.edu	37	10	103899564	103899564	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_015062.3	+1	reviewed	p.V433	0.000	44	0%	46	26.1%	4	0%	-	-	-	NULL
PPRC1	23082	genome.wustl.edu	37	10	103904014	103904014	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_015062.3	+1	reviewed	p.K1186N	1.000	207	0%	157	14.6%	13	0%	possibly_damaging(0.819)	deleterious(0)	deleterious(0.754)	NULL
GBF1	8729	genome.wustl.edu	37	10	104129628	104129628	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_004193.1	+1	provisional	p.T1075A	1.000	211	0%	129	21.7%	6	50%	benign(0.001)	tolerated(0.23)	neutral(0.042)	NULL
GBF1	8729	genome.wustl.edu	37	10	104136793	104136793	+	Nonsense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_004193.1	+1	provisional	p.R1463*	0.987	108	0%	118	28%	12	0%	-	-	-	NULL
NFKB2	4791	genome.wustl.edu	37	10	104159894	104159894	+	Silent	SNP	T	T	C	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001077494.1	+1	validated	p.Y509	0.269	67	0%	148	25.7%	41	14.6%	-	-	-	HMMPfam_Ank,HMMSmart_SM00248,superfamily_Ankyrin repeat
TMEM180	79847	genome.wustl.edu	37	10	104228942	104228942	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_024789.3	+1	validated	p.F52L	1.000	173	0%	283	13.8%	1	0%	benign(0.094)	deleterious(0.02)	neutral(0.390)	superfamily_MFS_gen_substrate_transporter
SFXN2	118980	genome.wustl.edu	37	10	104488195	104488195	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_178858.4	+1	validated	p.P114S	1.000	162	0%	104	23.1%	0	-	benign(0.081)	tolerated(0.08)	neutral(0.306)	HMMPfam_Mtc
PCGF6	84108	genome.wustl.edu	37	10	105108756	105108756	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001011663.1	-1	reviewed	p.R121C	1.000	219	0%	364	12.9%	3	0%	probably_damaging(0.991)	deleterious(0.01)	deleterious(0.850)	superfamily_RING/U-box
MIR1307	100302174	genome.wustl.edu	37	10	105154151	105154151	+	RNA	SNP	T	T	C	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	ENST00000408840	-1	known	NULL	0.001	181	0%	121	19%	1	100%	-	-	-	-
PDCD11	22984	genome.wustl.edu	37	10	105203013	105203013	+	Nonsense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_014976.1	+1	validated	p.R1683*	1.000	43	0%	50	24%	10	20%	-	-	-	HMMSmart_HAT,superfamily_SSF48452
PDCD11	22984	genome.wustl.edu	37	10	105203719	105203719	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_014976.1	+1	validated	p.E1724D	0.996	77	0%	55	10.9%	18	11.1%	benign(0.252)	tolerated(0.6)	neutral(0.030)	HMMSmart_HAT,superfamily_SSF48452
CALHM2	51063	genome.wustl.edu	37	10	105206948	105206948	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_015916.4	-1	validated	p.A311	0.000	43	0%	58	24.1%	62	4.8%	-	-	-	NULL
SH3PXD2A	9644	genome.wustl.edu	37	10	105362710	105362710	+	Silent	SNP	C	C	T	rs183939045	by1000genomes	TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	ENST00000420222	-1	known	p.G682S	0.000	116	0%	234	19.2%	2	0%	-	-	-	NULL
SH3PXD2A	9644	genome.wustl.edu	37	10	105363332	105363332	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_014631.2	-1	validated	p.P520L	0.975	84	0%	237	30%	0	-	possibly_damaging(0.582)	deleterious(0.01)	deleterious(0.606)	NULL
SLK	9748	genome.wustl.edu	37	10	105727597	105727597	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_014720.2	+1	provisional	p.D32Y	1.000	304	0%	489	19.8%	3	33.3%	possibly_damaging(0.929)	deleterious(0)	deleterious(0.821)	superfamily_Protein kinase-like (PK-like)
SLK	9748	genome.wustl.edu	37	10	105765748	105765748	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_014720.2	+1	provisional	p.Q853H	0.997	265	0%	67	9%	11	0%	possibly_damaging(0.867)	deleterious(0.02)	deleterious(0.720)	superfamily_Protein kinase-like (PK-like)
COL17A1	1308	genome.wustl.edu	37	10	105803329	105803329	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_000494.3	-1	reviewed	p.S815	0.009	76	0%	34	44.1%	0	-	-	-	-	NULL
WDR96	80217	genome.wustl.edu	37	10	105920913	105920913	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_025145.5	-1	provisional	p.P1141H	1.000	390	0%	111	26.1%	0	-	probably_damaging(1)	deleterious(0.01)	deleterious(0.905)	superfamily_WD40 repeat-like
WDR96	80217	genome.wustl.edu	37	10	105921780	105921780	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_025145.5	-1	provisional	p.R1118Q	0.998	270	0%	52	13.5%	0	-	probably_damaging(0.968)	tolerated(0.21)	neutral(0.454)	superfamily_WD40 repeat-like
WDR96	80217	genome.wustl.edu	37	10	105922136	105922136	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_025145.5	-1	provisional	p.P1091L	0.004	354	0%	99	23.2%	1	0%	possibly_damaging(0.932)	tolerated(1)	neutral(0.379)	superfamily_WD40 repeat-like
CCDC147	159686	genome.wustl.edu	37	10	106124614	106124614	+	Silent	SNP	A	A	G	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001008723.1	+1	validated	p.R188	0.000	160	0%	66	27.3%	1	0%	-	-	-	NULL
CCDC147	159686	genome.wustl.edu	37	10	106125621	106125621	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001008723.1	+1	validated	p.R216Q	1.000	186	0%	60	21.7%	2	0%	probably_damaging(1)	tolerated(0.17)	deleterious(0.559)	NULL
CCDC147	159686	genome.wustl.edu	37	10	106128194	106128194	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001008723.1	+1	validated	p.R269K	1.000	195	0%	71	9.9%	0	-	benign(0.045)	tolerated(1)	neutral(0.003)	NULL
CCDC147	159686	genome.wustl.edu	37	10	106214233	106214233	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001008723.1	+1	validated	p.G855D	0.000	312	0%	68	20.6%	0	-	possibly_damaging(0.727)	tolerated(0.63)	neutral(0.268)	NULL
SORCS3	22986	genome.wustl.edu	37	10	106917016	106917016	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_014978.1	+1	reviewed	p.R535G	0.889	129	0%	23	26.1%	0	-	possibly_damaging(0.801)	tolerated(0.27)	neutral(0.335)	HMMSmart_VPS10,superfamily_SSF110296
SORCS1	114815	genome.wustl.edu	37	10	108336989	108336989	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001013031.1	-1	reviewed	p.V1196A	1.000	471	0%	140	25%	0	-	benign(0.241)	tolerated(0.42)	neutral(0.038)	NULL
SORCS1	114815	genome.wustl.edu	37	10	108339147	108339147	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	ENST00000452214	-1	known	p.S132L	0.997	196	0%	54	18.5%	0	-	-	-	-	NULL
SORCS1	114815	genome.wustl.edu	37	10	108437081	108437081	+	Nonsense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001013031.1	-1	reviewed	p.R608*	1.000	308	0%	69	34.8%	0	-	-	-	-	HMMSmart_VPS10,superfamily_SSF110296
SORCS1	114815	genome.wustl.edu	37	10	108458997	108458997	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001013031.1	-1	reviewed	p.G463D	1.000	262	0.4%	55	10.9%	0	-	probably_damaging(0.999)	tolerated(0.43)	deleterious(0.504)	HMMSmart_VPS10,superfamily_SSF110296
SORCS1	114815	genome.wustl.edu	37	10	108466322	108466322	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001013031.1	-1	reviewed	p.P405L	1.000	232	0%	86	22.1%	0	-	probably_damaging(1)	deleterious(0.01)	deleterious(0.905)	HMMSmart_VPS10,superfamily_SSF110296
SORCS1	114815	genome.wustl.edu	37	10	108469050	108469050	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001013031.1	-1	reviewed	p.R358S	0.997	303	0%	94	10.6%	0	-	possibly_damaging(0.677)	tolerated(0.43)	neutral(0.255)	HMMSmart_VPS10,superfamily_SSF110296
XPNPEP1	7511	genome.wustl.edu	37	10	111628398	111628398	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_020383.3	-1	reviewed	p.D573Y	1.000	561	0%	135	19.3%	39	12.8%	possibly_damaging(0.878)	deleterious(0.01)	deleterious(0.748)	superfamily_Creatinase/aminopeptidase
XPNPEP1	7511	genome.wustl.edu	37	10	111643889	111643889	+	Nonsense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_020383.3	-1	reviewed	p.G213*	1.000	414	0%	184	13.6%	8	0%	-	-	-	NULL
ADD3	120	genome.wustl.edu	37	10	111890220	111890220	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_016824.3	+1	reviewed	p.E570K	1.000	269	0%	72	19.4%	1	0%	possibly_damaging(0.749)	deleterious(0)	deleterious(0.720)	NULL
ADD3	120	genome.wustl.edu	37	10	111892093	111892093	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_016824.3	+1	reviewed	p.A588V	1.000	308	0%	78	9%	0	-	possibly_damaging(0.594)	tolerated(0.1)	deleterious(0.491)	NULL
SMC3	9126	genome.wustl.edu	37	10	112361580	112361580	+	Nonsense_Mutation	SNP	C	C	T	rs139627416		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_005445.3	+1	reviewed	p.R944*	1.000	170	0%	58	15.5%	21	0%	-	-	-	HMMPfam_SMC_N,superfamily_P-loop containing nucleoside triphosphate hydrolases
RBM20	282996	genome.wustl.edu	37	10	112541599	112541599	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001134363.1	+1	reviewed	p.P411L	1.000	137	0%	68	29.4%	0	-	probably_damaging(1)	deleterious(0)	deleterious(0.945)	HMMSmart_ZnF_U1
PDCD4	27250	genome.wustl.edu	37	10	112641058	112641058	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_014456.3	+1	reviewed	p.K37N	0.863	180	0%	139	26.6%	13	0%	benign(0.005)	tolerated(0.4)	neutral(0.016)	NULL
PDCD4	27250	genome.wustl.edu	37	10	112657808	112657808	+	Missense_Mutation	SNP	G	G	A	rs148548339	by1000genomes	TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_014456.3	+1	reviewed	p.E458K	1.000	408	0%	146	22.6%	109	9.1%	probably_damaging(1)	deleterious(0)	deleterious(0.945)	NULL
SHOC2	8036	genome.wustl.edu	37	10	112724416	112724416	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_007373.3	+1	reviewed	p.E100	1.000	144	0%	52	25%	2	0%	-	-	-	superfamily_L domain-like
GPAM	57678	genome.wustl.edu	37	10	113920419	113920419	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_020918.4	-1	validated	p.E568K	1.000	253	0%	50	28%	1	0%	probably_damaging(0.955)	deleterious(0.01)	deleterious(0.804)	NULL
VTI1A	143187	genome.wustl.edu	37	10	114575073	114575073	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_145206.2	+1	validated	p.L195	0.784	304	0%	139	23%	3	33.3%	-	-	-	NULL
TCF7L2	6934	genome.wustl.edu	37	10	114710667	114710667	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_030756.4	+1	reviewed	p.E51G	1.000	124	0%	203	25.6%	2	0%	probably_damaging(0.999)	deleterious(0)	deleterious(0.935)	HMMPfam_CTNNB1_binding
TCF7L2	6934	genome.wustl.edu	37	10	114724315	114724315	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	ENST00000349937	+1	known	p.L128F	1.000	307	0%	183	20.2%	2	50%	benign(0.379)	tolerated(0.1)	neutral(0.407)	HMMPfam_CTNNB1_binding
HABP2	3026	genome.wustl.edu	37	10	115337843	115337843	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_004132.3	+1	reviewed	p.K169N	0.677	120	0%	54	16.7%	1	0%	benign(0.003)	tolerated(0.51)	neutral(0.009)	HMMSmart_SM00179,HMMPfam_EGF,HMMSmart_SM00181
NRAP	4892	genome.wustl.edu	37	10	115357782	115357782	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_198060.2	-1	validated	p.A1426	0.504	226	0%	113	32.7%	0	-	-	-	-	HMMSmart_SM00227
NRAP	4892	genome.wustl.edu	37	10	115381914	115381914	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_198060.2	-1	validated	p.R828I	0.997	156	0%	64	29.7%	0	-	possibly_damaging(0.458)	deleterious(0)	deleterious(0.595)	HMMPfam_Nebulin,HMMSmart_SM00227
NRAP	4892	genome.wustl.edu	37	10	115417284	115417284	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_198060.2	-1	validated	p.D102G	1.000	379	0%	85	10.6%	0	-	probably_damaging(1)	deleterious(0)	deleterious(0.945)	NULL
CASP7	840	genome.wustl.edu	37	10	115451827	115451827	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_033338.4	+1	reviewed	p.Q33K	0.682	113	0%	77	31.2%	0	-	benign(0.301)	deleterious(0)	deleterious(0.537)	NULL
NHLRC2	374354	genome.wustl.edu	37	10	115636628	115636628	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_198514.2	+1	provisional	p.G227D	1.000	102	0%	29	24.1%	3	0%	probably_damaging(0.999)	deleterious(0)	deleterious(0.935)	HMMPfam_NHL,superfamily_NHL repeat
C10orf118	55088	genome.wustl.edu	37	10	115885697	115885697	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_018017.2	-1	validated	p.R854Q	1.000	356	0%	62	24.2%	0	-	probably_damaging(1)	tolerated(0.16)	deleterious(0.559)	NULL
TDRD1	56165	genome.wustl.edu	37	10	115963185	115963185	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_198795.1	+1	reviewed	p.Y280	0.991	388	0%	71	21.1%	0	-	-	-	-	HMMPfam_TUDOR
TDRD1	56165	genome.wustl.edu	37	10	115973241	115973241	+	Silent	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_198795.1	+1	reviewed	p.S656	0.000	273	0%	55	16.4%	0	-	-	-	-	NULL
TDRD1	56165	genome.wustl.edu	37	10	115973312	115973312	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_198795.1	+1	reviewed	p.V680A	0.004	268	0%	72	23.6%	0	-	benign(0.138)	tolerated(0.37)	neutral(0.030)	NULL
AFAP1L2	84632	genome.wustl.edu	37	10	116061185	116061185	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001001936.1	-1	validated	p.I490	0.661	137	0%	169	18.9%	9	0%	-	-	-	NULL
AFAP1L2	84632	genome.wustl.edu	37	10	116067573	116067573	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001001936.1	-1	validated	p.E355K	1.000	171	0%	255	17.6%	13	0%	possibly_damaging(0.904)	tolerated(0.12)	deleterious(0.619)	HMMPfam_PH,HMMSmart_SM00233,superfamily_PH domain-like
ATRNL1	26033	genome.wustl.edu	37	10	116887486	116887486	+	Splice_Site	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_207303.2	+1	validated	e4+1	1.000	506	0.2%	91	15.4%	0	-	-	-	-	-
PNLIP	5406	genome.wustl.edu	37	10	118306831	118306831	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_000936.2	+1	reviewed	p.L24	0.334	156	0%	59	13.6%	0	-	-	-	-	HMMPfam_Lipase,superfamily_alpha/beta-Hydrolases
PNLIP	5406	genome.wustl.edu	37	10	118327290	118327290	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_000936.2	+1	reviewed	p.L460F	1.000	380	0%	78	26.9%	0	-	possibly_damaging(0.884)	tolerated(0.14)	deleterious(0.595)	HMMPfam_PLAT,HMMSmart_SM00308,superfamily_Lipase/lipooxygenase domain (PLAT/LH2 domain)
PNLIPRP1	5407	genome.wustl.edu	37	10	118360677	118360677	+	Missense_Mutation	SNP	T	T	G	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_006229.2	+1	provisional	p.F343V	1.000	242	0%	146	23.3%	0	-	benign(0.058)	tolerated(0.08)	neutral(0.303)	HMMPfam_Lipase,superfamily_alpha/beta-Hydrolases
PNLIPRP2	5408	genome.wustl.edu	37	10	118390843	118390843	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_005396.4	+1	validated	p.L265S	0.012	368	0%	400	22.8%	0	-	unknown(0)	-	-	NULL
PNLIPRP2	5408	genome.wustl.edu	37	10	118404581	118404581	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_005396.4	+1	validated	p.T462M	0.000	322	0%	111	21.6%	0	-	-	-	-	NULL
HSPA12A	259217	genome.wustl.edu	37	10	118439146	118439146	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_025015.2	-1	validated	p.A385V	1.000	285	0%	258	27.9%	3	0%	probably_damaging(0.997)	tolerated(0.11)	deleterious(0.738)	superfamily_SSF53067
HSPA12A	259217	genome.wustl.edu	37	10	118441370	118441370	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_025015.2	-1	validated	p.R285H	1.000	254	0%	195	25.6%	1	0%	benign(0.386)	deleterious(0.02)	deleterious(0.506)	NULL
HSPA12A	259217	genome.wustl.edu	37	10	118466760	118466760	+	Missense_Mutation	SNP	C	C	T	rs187384662	by1000genomes	TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_025015.2	-1	validated	p.R26Q	1.000	103	0%	53	37.7%	0	-	benign(0.37)	tolerated(0.12)	neutral(0.378)	NULL
KIAA1598	57698	genome.wustl.edu	37	10	118680974	118680974	+	Missense_Mutation	SNP	T	T	G	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001127211.1	-1	validated	p.K389T	1.000	428	0%	105	11.4%	1	0%	probably_damaging(0.996)	tolerated(0.12)	deleterious(0.722)	NULL
VAX1	11023	genome.wustl.edu	37	10	118896103	118896103	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001112704.1	-1	reviewed	p.T103	0.981	18	0%	34	17.6%	0	-	-	-	-	HMMPfam_Homeobox,HMMSmart_SM00389,superfamily_Homeodomain-like
PDZD8	118987	genome.wustl.edu	37	10	119042998	119042998	+	Silent	SNP	T	T	C	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_173791.3	-1	provisional	p.E1082	1.000	398	0%	97	19.6%	13	23%	-	-	-	NULL
RAB11FIP2	22841	genome.wustl.edu	37	10	119768536	119768536	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_014904.2	-1	validated	p.R504S	1.000	487	0%	120	29.2%	0	-	probably_damaging(0.985)	deleterious(0)	deleterious(0.877)	NULL
RAB11FIP2	22841	genome.wustl.edu	37	10	119768655	119768655	+	Nonsense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_014904.2	-1	validated	p.E465*	1.000	330	0%	56	10.7%	1	0%	-	-	-	HMMPfam_RBD-FIP
PRLHR	2834	genome.wustl.edu	37	10	120354605	120354605	+	Missense_Mutation	SNP	T	T	G	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_004248.2	-1	validated	p.Q51P	1.000	5	0.000	21	0.238	0	-	possibly_damaging(0.451)	tolerated(0.29)	neutral(0.176)	superfamily_Family A G protein-coupled receptor-like
EIF3A	8661	genome.wustl.edu	37	10	120795684	120795684	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_003750.2	-1	validated	p.R1339Q	0.996	297	0%	276	22.8%	90	13.3%	unknown(0)	deleterious(0.04)	-	NULL
EIF3A	8661	genome.wustl.edu	37	10	120802000	120802000	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_003750.2	-1	validated	p.H1011R	0.005	206	0%	133	22.6%	66	12.1%	possibly_damaging(0.916)	tolerated(0.51)	neutral(0.376)	NULL
EIF3A	8661	genome.wustl.edu	37	10	120802173	120802173	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_003750.2	-1	validated	p.D953	0.876	78	1.3%	65	24.6%	52	17.3%	-	-	-	NULL
EIF3A	8661	genome.wustl.edu	37	10	120840142	120840142	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_003750.2	-1	validated	p.N16S	1.000	31	0%	47	21.3%	5	0%	unknown(0)	tolerated(0.08)	-	NULL
PRDX3	10935	genome.wustl.edu	37	10	120933306	120933306	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_006793.2	-1	reviewed	p.V130	0.423	226	0%	297	20.9%	33	6%	-	-	-	HMMPfam_AhpC-TSA,superfamily_Thiordxn-like_fd
GRK5	2869	genome.wustl.edu	37	10	121201551	121201551	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_005308.2	+1	reviewed	p.I336	0.991	63	0%	65	21.5%	11	0%	-	-	-	HMMSmart_S_TKc,superfamily_Kinase_like,HMMPfam_Pkinase
BAG3	9531	genome.wustl.edu	37	10	121432140	121432140	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_004281.3	+1	reviewed	p.R294H	0.875	47	0%	59	16.9%	38	15.7%	probably_damaging(1)	deleterious(0.03)	deleterious(0.865)	NULL
INPP5F	22876	genome.wustl.edu	37	10	121556979	121556979	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_014937.2	+1	reviewed	p.R292H	1.000	289	0%	394	30.5%	0	-	probably_damaging(0.999)	deleterious(0)	deleterious(0.935)	HMMPfam_Syja_N
MCMBP	79892	genome.wustl.edu	37	10	121596447	121596447	+	Missense_Mutation	SNP	A	A	C	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_024834.2	-1	validated	p.I503M	0.997	176	0%	50	20%	31	22.5%	probably_damaging(0.978)	deleterious(0)	deleterious(0.865)	HMMPfam_DUF2044
MCMBP	79892	genome.wustl.edu	37	10	121602849	121602849	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_024834.2	-1	validated	p.R306I	1.000	291	0%	69	8.7%	19	0%	probably_damaging(1)	deleterious(0)	deleterious(0.945)	HMMPfam_DUF2044
WDR11	55717	genome.wustl.edu	37	10	122630798	122630798	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_018117.11	+1	reviewed	p.R471C	0.990	167	0%	113	14.2%	2	0%	probably_damaging(1)	deleterious(0.01)	deleterious(0.905)	superfamily_WD40_like
WDR11	55717	genome.wustl.edu	37	10	122643396	122643396	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_018117.11	+1	reviewed	p.A615D	1.000	320	0%	89	21.3%	1	0%	possibly_damaging(0.79)	deleterious(0.02)	deleterious(0.679)	superfamily_WD40_like
WDR11	55717	genome.wustl.edu	37	10	122650298	122650298	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_018117.11	+1	reviewed	p.T805M	1.000	601	0%	144	11.8%	2	0%	possibly_damaging(0.87)	deleterious(0.02)	deleterious(0.721)	HMMSmart_WD40,superfamily_WD40_like
FGFR2	2263	genome.wustl.edu	37	10	123239494	123239494	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	ENST00000429361	-1	known	p.L338P	0.956	339	0%	133	26.3%	13	38.4%	unknown(0)	deleterious(0.03)	-	HMMSmart_SM00220,superfamily_Protein kinase-like (PK-like)
FGFR2	2263	genome.wustl.edu	37	10	123276929	123276929	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_000141.4	-1	reviewed	p.R330W	1.000	267	0%	119	19.3%	0	-	probably_damaging(0.968)	deleterious(0.01)	deleterious(0.816)	HMMSmart_SM00408,HMMSmart_SM00409,HMMPfam_I-set,superfamily_Immunoglobulin
TACC2	10579	genome.wustl.edu	37	10	123843308	123843308	+	Silent	SNP	T	T	C	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_206862.2	+1	reviewed	p.P431	0.000	93	0%	67	25.4%	0	-	-	-	-	NULL
HTRA1	5654	genome.wustl.edu	37	10	124273779	124273779	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_002775.4	+1	reviewed	p.S449	0.952	227	0%	144	24.3%	253	0.7%	-	-	-	HMMPfam_PDZ,HMMSmart_PDZ,superfamily_PDZ
DMBT1	1755	genome.wustl.edu	37	10	124380648	124380648	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_007329.2	+1	reviewed	p.R1658Q	0.000	307	0%	136	25%	0	-	probably_damaging(0.971)	tolerated(0.89)	neutral(0.413)	HMMPfam_SRCR,PatternScan_SRCR_1,HMMSmart_SM00202,superfamily_SRCR-like
DMBT1	1755	genome.wustl.edu	37	10	124389463	124389463	+	Nonsense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_007329.2	+1	reviewed	p.E1797*	0.037	312	0%	143	17.5%	0	-	-	-	-	HMMPfam_CUB,HMMSmart_SM00042,superfamily_Spermadhesin CUB domain
DMBT1	1755	genome.wustl.edu	37	10	124389947	124389947	+	Missense_Mutation	SNP	G	G	A	rs7099177	byCluster;byFrequency;by1000genomes	TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_007329.2	+1	reviewed	p.R1860Q	0.038	218	0.5%	83	22.9%	0	-	probably_damaging(0.99)	tolerated(0.14)	deleterious(0.691)	HMMPfam_CUB,HMMSmart_SM00042,superfamily_Spermadhesin CUB domain
DMBT1	1755	genome.wustl.edu	37	10	124390719	124390719	+	Missense_Mutation	SNP	A	A	C	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_007329.2	+1	reviewed	p.T1961P	0.000	136	0.7%	83	27.7%	0	-	possibly_damaging(0.878)	tolerated(0.21)	neutral(0.386)	HMMPfam_SRCR,HMMSmart_SM00202,superfamily_SRCR-like
DMBT1	1755	genome.wustl.edu	37	10	124395638	124395638	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_007329.2	+1	reviewed	p.R2098H	0.985	233	0%	140	25%	0	-	probably_damaging(1)	tolerated(0.14)	deleterious(0.750)	HMMPfam_CUB,HMMSmart_SM00042,superfamily_Spermadhesin CUB domain
ACADSB	36	genome.wustl.edu	37	10	124793996	124793996	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001609.3	+1	reviewed	p.T56I	1.000	382	0%	84	21.4%	0	-	benign(0.013)	tolerated(0.39)	neutral(0.017)	superfamily_Acyl-CoA dehydrogenase NM domain-like
CPXM2	119587	genome.wustl.edu	37	10	125521467	125521467	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_198148.2	-1	validated	p.R566	0.993	55	0%	47	31.9%	3	0%	-	-	-	HMMPfam_Peptidase_M14,HMMSmart_SM00631,superfamily_Zn-dependent exopeptidases
CPXM2	119587	genome.wustl.edu	37	10	125526634	125526634	+	Nonsense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_198148.2	-1	validated	p.W445*	1.000	195	0%	152	27%	0	-	-	-	-	HMMPfam_Peptidase_M14,HMMSmart_SM00631,superfamily_Zn-dependent exopeptidases
CHST15	51363	genome.wustl.edu	37	10	125805449	125805449	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_015892.2	-1	validated	p.A94T	1.000	233	0%	316	14.6%	0	-	probably_damaging(0.992)	deleterious(0)	deleterious(0.892)	NULL
OAT	4942	genome.wustl.edu	37	10	126086638	126086638	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_000274.3	-1	reviewed	p.R398Q	1.000	105	0%	89	19.1%	54	0%	possibly_damaging(0.765)	deleterious(0.04)	deleterious(0.633)	superfamily_PyrdxlP-dep_Trfase_major
NKX1-2	390010	genome.wustl.edu	37	10	126138462	126138462	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	XM_002343017.1	-1	model	p.K17N	1.000	66	0%	106	25.5%	0	-	possibly_damaging(0.45)	deleterious(0.01)	deleterious(0.553)	NULL
LHPP	64077	genome.wustl.edu	37	10	126301873	126301873	+	Splice_Site	SNP	T	T	C	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	ENST00000482963	+1	known	NULL	1.000	37	0%	83	21.7%	19	21%	-	-	-	-
METTL10	399818	genome.wustl.edu	37	10	126463244	126463244	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	ENST00000368836	-1	known	p.K133	1.000	82	0%	22	40.9%	4	0%	-	-	-	HMMPfam_Methyltransf_11,superfamily_SSF53335
FAM175B	23172	genome.wustl.edu	37	10	126523290	126523290	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_032182.3	+1	validated	p.R333Q	1.000	222	0%	63	9.5%	3	0%	probably_damaging(0.999)	deleterious(0)	deleterious(0.935)	NULL
ZRANB1	54764	genome.wustl.edu	37	10	126671865	126671865	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_017580.2	+1	validated	p.R557Q	1.000	281	0%	128	23.4%	7	0%	probably_damaging(0.999)	deleterious(0.01)	deleterious(0.896)	HMMPfam_OTU
MMP21	118856	genome.wustl.edu	37	10	127464238	127464238	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_147191.1	-1	reviewed	p.H51	0.000	55	0%	128	24.2%	0	-	-	-	-	HMMPfam_PG_binding_1,superfamily_PGBD-like
DHX32	55760	genome.wustl.edu	37	10	127542554	127542554	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_018180.2	-1	reviewed	p.I356	0.619	413	0%	149	19.5%	7	28.5%	-	-	-	superfamily_P-loop containing nucleoside triphosphate hydrolases
C10orf90	118611	genome.wustl.edu	37	10	128147629	128147629	+	Nonsense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	ENST00000424927	-1	known	p.R169*	0.984	212	0%	100	11%	0	-	probably_damaging(1)	deleterious(0.04)	deleterious(0.849)	NULL
C10orf90	118611	genome.wustl.edu	37	10	128153395	128153395	+	Silent	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001004298.2	-1	validated	p.P468	0.019	227	0%	101	16.8%	0	-	-	-	-	NULL
FAM196A	642938	genome.wustl.edu	37	10	128973940	128973940	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001039762.2	-1	validated	p.P240	0.000	30	0%	37	21.6%	0	-	-	-	-	NULL
DOCK1	1793	genome.wustl.edu	37	10	129213492	129213492	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	ENST00000398025	+1	known	p.S1547Y	0.997	361	0%	240	25.4%	11	9%	possibly_damaging(0.824)	deleterious(0.01)	deleterious(0.718)	NULL
CLRN3	119467	genome.wustl.edu	37	10	129690889	129690889	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_152311.3	-1	validated	p.G54R	0.720	293	0%	139	20.9%	0	-	probably_damaging(0.998)	tolerated(0.16)	deleterious(0.534)	NULL
PTPRE	5791	genome.wustl.edu	37	10	129866399	129866399	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_006504.4	+1	reviewed	p.G286S	0.976	27	0%	23	26.1%	5	0%	benign(0.001)	deleterious(0.03)	neutral(0.364)	HMMPfam_Y_phosphatase,HMMSmart_SM00194,superfamily_(Phosphotyrosine protein) phosphatases II
PTPRE	5791	genome.wustl.edu	37	10	129871718	129871718	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_006504.4	+1	reviewed	p.V528M	1.000	155	0%	122	11.5%	2	0%	possibly_damaging(0.908)	tolerated(0.14)	deleterious(0.611)	HMMPfam_Y_phosphatase,HMMSmart_SM00194,superfamily_(Phosphotyrosine protein) phosphatases II
MKI67	4288	genome.wustl.edu	37	10	129903143	129903143	+	Nonsense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_002417.4	-1	reviewed	p.E2321*	0.974	547	0%	277	11.9%	2	0%	-	-	-	HMMPfam_K167R
MKI67	4288	genome.wustl.edu	37	10	129906021	129906021	+	Missense_Mutation	SNP	T	T	G	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_002417.4	-1	reviewed	p.E1361D	0.000	412	0%	234	24.8%	2	50%	possibly_damaging(0.484)	tolerated(0.67)	neutral(0.163)	NULL
MKI67	4288	genome.wustl.edu	37	10	129907583	129907583	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_002417.4	-1	reviewed	p.V841I	0.000	624	0.2%	208	25%	0	-	benign(0)	tolerated(0.54)	neutral(0.007)	NULL
MKI67	4288	genome.wustl.edu	37	10	129913862	129913862	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_002417.4	-1	reviewed	p.Y270	0.000	290	0%	181	19.9%	2	100%	-	-	-	NULL
EBF3	253738	genome.wustl.edu	37	10	131761784	131761784	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001005463.1	-1	validated	p.G46	1.000	31	0%	56	25%	0	-	-	-	-	NULL
GLRX3	10539	genome.wustl.edu	37	10	131965201	131965201	+	Nonsense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_006541.3	+1	provisional	p.E224*	1.000	391	0%	126	23%	29	0%	-	-	-	superfamily_Thiordxn-like_fd
TCERG1L	256536	genome.wustl.edu	37	10	132965097	132965097	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_174937.3	-1	validated	p.R303Q	0.007	145	0%	120	30.8%	0	-	possibly_damaging(0.639)	deleterious(0.04)	deleterious(0.573)	NULL
PPP2R2D	55844	genome.wustl.edu	37	10	133758931	133758931	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	ENST00000455566	+1	known	p.R232H	1.000	74	0%	71	12.7%	19	5.2%	probably_damaging(1)	deleterious(0)	deleterious(0.945)	superfamily_WD40 repeat-like
PPP2R2D	55844	genome.wustl.edu	37	10	133761257	133761257	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_018461.3	+1	validated	p.L316I	1.000	78	0%	70	22.9%	31	25.8%	unknown(0)	-	-	NULL
DPYSL4	10570	genome.wustl.edu	37	10	134010536	134010536	+	Silent	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_006426.2	+1	validated	p.I184	0.992	66	0%	134	16.4%	6	0%	-	-	-	HMMPfam_Amidohydro_1,superfamily_Composite domain of metallo-dependent hydrolases,superfamily_Metallo-dependent hydrolases
DPYSL4	10570	genome.wustl.edu	37	10	134013942	134013942	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_006426.2	+1	validated	p.A298	0.068	88	0%	189	23.3%	11	9%	-	-	-	HMMPfam_Amidohydro_1,superfamily_Composite domain of metallo-dependent hydrolases,superfamily_Metallo-dependent hydrolases
DPYSL4	10570	genome.wustl.edu	37	10	134014370	134014370	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_006426.2	+1	validated	p.S331	0.968	44	0%	87	21.8%	10	0%	-	-	-	HMMPfam_Amidohydro_1,superfamily_Composite domain of metallo-dependent hydrolases,superfamily_Metallo-dependent hydrolases
DPYSL4	10570	genome.wustl.edu	37	10	134016321	134016321	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_006426.2	+1	validated	p.R485C	0.454	39	0%	96	13.5%	8	0%	probably_damaging(1)	deleterious(0)	deleterious(0.945)	NULL
LRRC27	80313	genome.wustl.edu	37	10	134166388	134166388	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001143758.1	+1	validated	p.P359H	0.000	375	0%	641	25.3%	1	0%	benign(0.012)	deleterious(0.01)	neutral(0.406)	NULL
C10orf91	170393	genome.wustl.edu	37	10	134261270	134261270	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_173541.2	+1	validated	p.T48I	0.000	108	0%	220	28.2%	0	-	benign(0.091)	-	-	NULL
C10orf91	170393	genome.wustl.edu	37	10	134261319	134261319	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_173541.2	+1	validated	p.T64	0.000	118	0%	293	27.3%	0	-	-	-	-	NULL
NKX6-2	84504	genome.wustl.edu	37	10	134598867	134598867	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_177400.2	-1	validated	p.T166A	1.000	31	0%	36	25%	0	-	probably_damaging(1)	deleterious(0.01)	deleterious(0.905)	HMMPfam_Homeobox,HMMSmart_HOX,superfamily_Homeodomain_like
TTC40	54777	genome.wustl.edu	37	10	134663843	134663843	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	ENST00000368586	-1	known	p.A1953T	0.034	20	0%	30	26.7%	0	-	probably_damaging(0.999)	deleterious(0)	deleterious(0.935)	NULL
TTC40	54777	genome.wustl.edu	37	10	134671111	134671111	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	ENST00000368586	-1	known	p.L1853I	0.000	124	0%	235	28.9%	0	-	possibly_damaging(0.598)	tolerated(0.15)	neutral(0.448)	NULL
TTC40	54777	genome.wustl.edu	37	10	134751152	134751152	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_173572.3	-1	validated	p.A188	0.762	143	0%	183	21.3%	0	-	-	-	-	NULL
GPR123	84435	genome.wustl.edu	37	10	134898524	134898524	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	ENST00000392609	+1	known	p.S350F	0.000	78	0%	139	12.9%	0	-	unknown(0)	-	-	NULL
GPR123	84435	genome.wustl.edu	37	10	134912266	134912266	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001083909.1	+1	validated	p.A85V	1.000	32	0%	61	13.1%	0	-	possibly_damaging(0.642)	tolerated(0.2)	neutral(0.274)	HMMPfam_7tm_2
KNDC1	85442	genome.wustl.edu	37	10	134981810	134981810	+	Silent	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_152643.6	+1	validated	p.T118	1.000	105	0%	175	27.4%	0	-	-	-	-	HMMSmart_SM00750
KNDC1	85442	genome.wustl.edu	37	10	135012985	135012985	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_152643.6	+1	validated	p.D928Y	0.997	181	0%	274	26.3%	0	-	probably_damaging(0.995)	deleterious(0.01)	deleterious(0.863)	NULL
KNDC1	85442	genome.wustl.edu	37	10	135020751	135020751	+	Silent	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_152643.6	+1	validated	p.S1230	0.994	25	0%	45	33.3%	2	0%	-	-	-	superfamily_Ras GEF
KNDC1	85442	genome.wustl.edu	37	10	135038169	135038169	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_152643.6	+1	validated	p.I1675	0.891	74	0%	116	28.4%	2	0%	-	-	-	HMMSmart_SM00147,superfamily_Ras GEF
SYCE1	93426	genome.wustl.edu	37	10	135368627	135368627	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001143764.1	-1	validated	p.P309S	0.434	184	0%	137	28.5%	0	-	probably_damaging(0.999)	tolerated(0.24)	deleterious(0.528)	NULL
FRG2B	441581	genome.wustl.edu	37	10	135438791	135438791	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001080998.1	-1	provisional	p.L217M	0.689	279	0%	397	15.9%	0	-	benign(0.244)	deleterious(0)	deleterious(0.469)	NULL
FRG2B	441581	genome.wustl.edu	37	10	135440117	135440117	+	Missense_Mutation	SNP	C	C	A	rs35318550		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001080998.1	-1	provisional	p.G44C	0.014	549	0%	608	17.8%	0	-	probably_damaging(1)	deleterious(0.04)	deleterious(0.849)	NULL
ODF3	113746	genome.wustl.edu	37	11	197576	197576	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_053280.3	+1	provisional	p.T42M	0.976	16	0%	43	25.6%	0	-	probably_damaging(0.999)	deleterious(0.01)	deleterious(0.896)	NULL
BET1L	51272	genome.wustl.edu	37	11	205652	205652	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001098787.1	-1	validated	p.D43N	1.000	39	0%	91	33%	7	28.5%	probably_damaging(0.956)	tolerated(0.21)	neutral(0.444)	HMMPfam_SNARE
SIRT3	23410	genome.wustl.edu	37	11	224191	224191	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_012239.5	-1	validated	p.V286I	0.000	65	0%	53	20.8%	5	40%	benign(0.001)	tolerated(0.18)	neutral(0.056)	HMMPfam_SIR2,superfamily_SSF52467
NLRP6	171389	genome.wustl.edu	37	11	281668	281668	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_138329.1	+1	provisional	p.A645V	0.000	26	0%	47	12.8%	1	0%	benign(0)	tolerated(1)	-	superfamily_RNI-like
NLRP6	171389	genome.wustl.edu	37	11	284298	284298	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_138329.1	+1	provisional	p.A757V	0.508	25	0%	42	23.8%	0	-	benign(0.036)	tolerated(0.07)	neutral(0.321)	HMMSmart_SM00368,superfamily_RNI-like
NLRP6	171389	genome.wustl.edu	37	11	285211	285211	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_138329.1	+1	provisional	p.Q862H	0.016	51	0%	98	17.3%	0	-	possibly_damaging(0.688)	deleterious(0.02)	deleterious(0.629)	NULL
ATHL1	80162	genome.wustl.edu	37	11	293230	293230	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_025092.4	+1	validated	p.Q446	0.997	75	0%	158	12.7%	8	25%	-	-	-	HMMPfam_Glyco_hydro_65m,superfamily_Six-hairpin glycosidases
PKP3	11187	genome.wustl.edu	37	11	403696	403696	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_007183.2	+1	reviewed	p.D668N	1.000	57	0%	132	28.8%	46	45.6%	benign(0.104)	tolerated(0.09)	neutral(0.304)	superfamily_ARM-type_fold
ANO9	338440	genome.wustl.edu	37	11	418788	418788	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001012302.2	-1	validated	p.D688N	0.172	95	0%	179	24.6%	17	17.6%	probably_damaging(0.998)	tolerated(0.18)	deleterious(0.530)	HMMPfam_DUF590
PTDSS2	81490	genome.wustl.edu	37	11	460266	460266	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_030783.1	+1	provisional	p.D88N	1.000	212	0.9%	307	21.8%	6	16.6%	possibly_damaging(0.88)	tolerated(0.14)	deleterious(0.593)	NULL
PTDSS2	81490	genome.wustl.edu	37	11	473910	473910	+	Silent	SNP	T	T	C	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_030783.1	+1	provisional	p.S100	1.000	622	0%	954	26.9%	5	0%	-	-	-	NULL
PTDSS2	81490	genome.wustl.edu	37	11	488240	488240	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_030783.1	+1	provisional	p.S221	0.995	68	0%	131	22.1%	12	0%	-	-	-	HMMPfam_PSS
PHRF1	57661	genome.wustl.edu	37	11	610557	610557	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_020901.2	+1	validated	p.C1490	0.001	22	0%	45	33.3%	43	23.2%	-	-	-	NULL
PHRF1	57661	genome.wustl.edu	37	11	610651	610651	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_020901.2	+1	validated	p.A1522T	0.071	16	0%	30	20%	46	19.5%	benign(0)	tolerated(1)	-	NULL
CDHR5	53841	genome.wustl.edu	37	11	618823	618823	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_021924.4	-1	reviewed	p.S579Y	0.000	435	0%	698	21.8%	0	-	possibly_damaging(0.604)	deleterious(0.01)	deleterious(0.615)	NULL
DEAF1	10522	genome.wustl.edu	37	11	679758	679758	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_021008.2	-1	validated	p.A352	0.500	37	0%	73	20.5%	20	10%	-	-	-	NULL
EPS8L2	64787	genome.wustl.edu	37	11	722774	722774	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_022772.3	+1	reviewed	p.V437A	0.999	14	0%	29	27.6%	25	56%	benign(0.063)	tolerated(0.46)	neutral(0.016)	NULL
PIDD	55367	genome.wustl.edu	37	11	802059	802059	+	Missense_Mutation	SNP	G	G	A	rs181409051	by1000genomes	TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_145886.2	-1	reviewed	p.P403L	0.898	8	0.000	20	0.300	2	50%	probably_damaging(0.998)	deleterious(0.01)	deleterious(0.880)	NULL
PNPLA2	57104	genome.wustl.edu	37	11	821973	821973	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_020376.2	+1	provisional	p.G146S	1.000	119	0%	232	28.4%	72	18%	benign(0)	tolerated(0.34)	neutral(0.023)	HMMPfam_Patatin,superfamily_FabD/lysophospholipase-like
AP2A2	161	genome.wustl.edu	37	11	988679	988679	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_012305.2	+1	validated	p.R420Q	1.000	60	0%	95	12.6%	16	6.2%	probably_damaging(1)	deleterious(0)	deleterious(0.945)	HMMPfam_Adaptin_N,superfamily_ARM repeat
MUC2	4583	genome.wustl.edu	37	11	1092139	1092139	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_002457.2	+1	reviewed	p.D1320N	0.005	112	0%	186	24.7%	0	-	possibly_damaging(0.685)	-	-	NULL
MUC2	4583	genome.wustl.edu	37	11	1096480	1096480	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_002457.2	+1	reviewed	p.D2165N	0.060	72	0%	105	22.9%	0	-	benign(0.033)	tolerated(0.28)	neutral(0.033)	HMMPfam_VWD,HMMSmart_SM00216
MUC2	4583	genome.wustl.edu	37	11	1097830	1097830	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_002457.2	+1	reviewed	p.R2304H	0.000	67	0%	130	27.7%	1	100%	unknown(0)	-	-	NULL
MUC2	4583	genome.wustl.edu	37	11	1104112	1104112	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_002457.2	+1	reviewed	p.R2764H	0.048	26	0%	66	24.2%	0	-	unknown(0)	-	-	HMMSmart_SM00041,PatternScan_CTCK_1,HMMPfam_Cys_knot
MUC5B	727897	genome.wustl.edu	37	11	1248004	1248004	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_002458.1	+1	validated	p.R120Q	0.468	34	0%	74	14.9%	1	0%	probably_damaging(1)	-	-	HMMPfam_VWD,HMMSmart_SM00216
MUC5B	727897	genome.wustl.edu	37	11	1250476	1250476	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_002458.1	+1	validated	p.R351	0.000	53	0%	87	31%	3	66.6%	-	-	-	superfamily_Serine proterase inhibitors,HMMPfam_TIL
MUC5B	727897	genome.wustl.edu	37	11	1255808	1255808	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_002458.1	+1	validated	p.S846L	0.210	22	0%	70	17.1%	6	0%	benign(0.195)	-	-	superfamily_Serine proterase inhibitors
MUC5B	727897	genome.wustl.edu	37	11	1257721	1257721	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_002458.1	+1	validated	p.E999K	0.195	50	0%	87	26.4%	6	83.3%	benign(0.018)	-	-	HMMPfam_VWD,HMMSmart_SM00216
MUC5B	727897	genome.wustl.edu	37	11	1258377	1258377	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_002458.1	+1	validated	p.A1097T	0.985	27	0%	48	12.5%	4	25%	probably_damaging(0.992)	-	-	HMMPfam_C8
MUC5B	727897	genome.wustl.edu	37	11	1261503	1261503	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_002458.1	+1	validated	p.G1293R	0.007	63	0%	116	34.5%	1	100%	possibly_damaging(0.539)	-	-	NULL
MUC5B	727897	genome.wustl.edu	37	11	1263138	1263138	+	Silent	SNP	G	G	A	rs190014960	by1000genomes	TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_002458.1	+1	validated	p.T1679	0.000	67	0%	133	27.1%	2	50%	-	-	-	NULL
MUC5B	727897	genome.wustl.edu	37	11	1263798	1263798	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_002458.1	+1	validated	p.T1899	0.000	164	0%	287	24.7%	5	20%	-	-	-	NULL
MUC5B	727897	genome.wustl.edu	37	11	1264940	1264940	+	Missense_Mutation	SNP	C	C	T	rs71469858		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_002458.1	+1	validated	p.T2280M	0.015	241	0%	441	20%	9	33.3%	probably_damaging(0.999)	-	-	NULL
MUC5B	727897	genome.wustl.edu	37	11	1265837	1265837	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_002458.1	+1	validated	p.T2579I	0.030	445	0%	779	21.6%	6	16.6%	possibly_damaging(0.662)	-	-	NULL
MUC5B	727897	genome.wustl.edu	37	11	1267723	1267723	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_002458.1	+1	validated	p.V3208F	0.000	397	0%	693	10.7%	8	0%	unknown(0)	-	-	NULL
MUC5B	727897	genome.wustl.edu	37	11	1269305	1269305	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_002458.1	+1	validated	p.T3735M	0.000	251	0%	496	7.3%	6	0%	unknown(0)	-	-	NULL
MUC5B	727897	genome.wustl.edu	37	11	1270339	1270339	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_002458.1	+1	validated	p.E4080K	0.000	425	0.2%	742	12.4%	5	0%	unknown(0)	-	-	NULL
MUC5B	727897	genome.wustl.edu	37	11	1270848	1270848	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_002458.1	+1	validated	p.T4249	0.000	182	0%	353	11%	4	0%	unknown(0)	tolerated(0.6)	-	NULL
MUC5B	727897	genome.wustl.edu	37	11	1270908	1270908	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_002458.1	+1	validated	p.T4269	0.076	284	0%	512	27%	4	100%	-	-	-	NULL
TOLLIP	54472	genome.wustl.edu	37	11	1311482	1311482	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_019009.3	-1	validated	p.S114Y	1.000	119	0%	231	13.9%	22	4.5%	probably_damaging(0.996)	deleterious(0.03)	deleterious(0.826)	HMMPfam_C2,HMMSmart_SM00239,superfamily_C2 domain (Calcium/lipid-binding domain CaLB)
BRSK2	9024	genome.wustl.edu	37	11	1466579	1466579	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_003957.2	+1	validated	p.R290C	1.000	24	0%	50	22%	0	-	possibly_damaging(0.732)	deleterious(0.01)	deleterious(0.673)	superfamily_Kinase_like
BRSK2	9024	genome.wustl.edu	37	11	1466600	1466600	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_003957.2	+1	validated	p.D297Y	1.000	21	0%	49	28.6%	0	-	possibly_damaging(0.816)	deleterious(0.02)	deleterious(0.692)	superfamily_Kinase_like
KRTAP5-1	387264	genome.wustl.edu	37	11	1605936	1605936	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001005922.1	-1	validated	p.G182S	0.020	93	0%	106	18.9%	0	-	unknown(0)	tolerated(0.6)	-	PatternScan_4FE4S_FER_1
ENSG00000233930	0	genome.wustl.edu	37	11	1619382	1619382	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	ENST00000424148	+1	known	p.R161Q	0.997	39	0%	48	25%	0	-	-	-	-	NULL
LOC338651	338651	genome.wustl.edu	37	11	1619684	1619684	+	RNA	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NR_021489.1	+1	validated	NULL	0.001	7	0.000	21	0.286	0	-	-	-	-	-
SYT8	90019	genome.wustl.edu	37	11	1856397	1856397	+	Nonsense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	ENST00000381978	+1	known	p.W33*	0.019	75	0%	121	24.8%	0	-	unknown(0)	tolerated(0.28)	-	NULL
TNNI2	7136	genome.wustl.edu	37	11	1862068	1862068	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_003282.3	+1	reviewed	p.H69R	1.000	62	0%	110	24.5%	1	0%	probably_damaging(1)	deleterious(0)	deleterious(0.945)	HMMPfam_Troponin
IGF2-AS1	51214	genome.wustl.edu	37	11	2167494	2167494	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	ENST00000381361	+1	known	p.P108	0.000	95	2.1%	157	12.1%	0	-	-	-	-	NULL
TH	7054	genome.wustl.edu	37	11	2185608	2185608	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_199292.2	-1	reviewed	p.R481H	0.486	32	0%	81	16%	1	0%	benign(0)	tolerated(0.1)	neutral(0.286)	HMMPfam_Biopterin_H,superfamily_Aromatic aminoacid monoxygenases catalytic and oligomerization domains
TSSC4	10078	genome.wustl.edu	37	11	2424340	2424340	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_005706.2	+1	reviewed	p.P159	0.456	28	0%	45	26.7%	73	15%	-	-	-	NULL
TRPM5	29850	genome.wustl.edu	37	11	2429000	2429000	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_014555.3	-1	validated	p.I975	0.997	131	0%	245	11.8%	0	-	-	-	-	HMMPfam_Ion_trans
TRPM5	29850	genome.wustl.edu	37	11	2439526	2439526	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_014555.3	-1	validated	p.I259	0.916	16	0%	43	34.9%	0	-	-	-	-	NULL
KCNQ1	3784	genome.wustl.edu	37	11	2797196	2797196	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_000218.2	+1	reviewed	p.R533W	0.391	55	0%	95	25.3%	2	0%	probably_damaging(1)	deleterious(0.01)	deleterious(0.905)	HMMPfam_KCNQ_channel
SLC22A18	5002	genome.wustl.edu	37	11	2946422	2946422	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_183233.2	+1	reviewed	p.R424W	0.000	25	0%	43	18.6%	80	35%	probably_damaging(0.999)	deleterious(0)	deleterious(0.935)	superfamily_MFS_gen_substrate_transporter
NAP1L4	4676	genome.wustl.edu	37	11	2979679	2979679	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_005969.3	-1	reviewed	p.T281M	0.991	624	0%	254	24%	39	17.9%	probably_damaging(0.999)	deleterious(0)	deleterious(0.935)	HMMPfam_NAP
CARS	833	genome.wustl.edu	37	11	3061140	3061140	+	Silent	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001014437.1	-1	reviewed	p.I159	1.000	394	0%	347	23.1%	10	0%	-	-	-	HMMPfam_tRNA-synt_1e,superfamily_SSF52374
CARS	833	genome.wustl.edu	37	11	3069197	3069197	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001014437.1	-1	reviewed	p.D20	0.999	33	0%	32	28.1%	1	0%	-	-	-	NULL
OSBPL5	114879	genome.wustl.edu	37	11	3125532	3125532	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_020896.3	-1	reviewed	p.R379W	1.000	29	0%	44	13.6%	10	0%	probably_damaging(1)	deleterious(0)	deleterious(0.945)	HMMPfam_Oxysterol_BP
MRGPRG	386746	genome.wustl.edu	37	11	3239869	3239869	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	ENST00000332314	-1	known	p.L59M	1.000	58	0%	119	16%	0	-	probably_damaging(1)	deleterious(0.01)	deleterious(0.905)	HMMPfam_7tm_1,superfamily_SSF81321
NUP98	4928	genome.wustl.edu	37	11	3704667	3704667	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_016320.4	-1	reviewed	p.R1561C	0.998	125	0%	47	10.6%	13	0%	probably_damaging(1)	deleterious(0)	deleterious(0.945)	NULL
NUP98	4928	genome.wustl.edu	37	11	3726520	3726520	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_016320.4	-1	reviewed	p.R998C	0.825	448	0%	148	11.5%	2	0%	possibly_damaging(0.574)	tolerated(0.08)	deleterious(0.497)	NULL
STIM1	6786	genome.wustl.edu	37	11	3877593	3877593	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_003156.3	+1	reviewed	p.A31	0.002	88	0%	149	16.8%	2	0%	-	-	-	NULL
OR52B4	143496	genome.wustl.edu	37	11	4389331	4389331	+	Silent	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001005161.3	-1	validated	p.L65	1.000	165	0%	79	25.3%	0	-	-	-	-	HMMPfam_7tm_1,superfamily_SSF81321
OR52B4	143496	genome.wustl.edu	37	11	4389363	4389363	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001005161.3	-1	validated	p.R55C	0.000	128	0%	59	18.6%	0	-	benign(0.015)	tolerated(0.07)	neutral(0.320)	HMMPfam_7tm_1,superfamily_SSF81321
OR52K1	390036	genome.wustl.edu	37	11	4510226	4510226	+	Silent	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001005171.2	+1	validated	p.P32	0.587	353	0%	132	30.3%	0	-	-	-	-	superfamily_Family A G protein-coupled receptor-like
C11orf40	143501	genome.wustl.edu	37	11	4594684	4594684	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_144663.1	-1	provisional	p.L54I	0.004	274	0%	73	11%	0	-	unknown(0)	-	-	NULL
OR52I2	143502	genome.wustl.edu	37	11	4608819	4608819	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001005170.2	+1	validated	p.S259	0.744	448	0%	125	19.2%	0	-	-	-	-	HMMPfam_7tm_1,superfamily_SSF81321
OR51D1	390038	genome.wustl.edu	37	11	4661118	4661118	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001004751.2	+1	validated	p.G33E	0.501	293	0%	103	10.7%	0	-	probably_damaging(0.989)	tolerated(1)	neutral(0.440)	superfamily_SSF81321
OR51E1	143503	genome.wustl.edu	37	11	4674168	4674168	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_152430.3	+1	validated	p.V138I	0.038	134	0%	62	24.2%	2	0%	possibly_damaging(0.663)	tolerated(1)	neutral(0.234)	HMMPfam_7tm_1,superfamily_Family A G protein-coupled receptor-like
OR51E1	143503	genome.wustl.edu	37	11	4674455	4674455	+	Silent	SNP	T	T	C	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_152430.3	+1	validated	p.R233	0.963	453	0%	130	28.5%	0	-	-	-	-	HMMPfam_7tm_1,superfamily_Family A G protein-coupled receptor-like
OR51E1	143503	genome.wustl.edu	37	11	4674531	4674531	+	Nonsense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_152430.3	+1	validated	p.G259*	0.987	424	0%	103	15.5%	0	-	-	-	-	HMMPfam_7tm_1,superfamily_Family A G protein-coupled receptor-like
OR52R1	119695	genome.wustl.edu	37	11	4825504	4825504	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001005177.3	-1	validated	p.A115V	0.722	220	0%	62	14.5%	0	-	benign(0.002)	tolerated(0.56)	neutral(0.006)	superfamily_Family A G protein-coupled receptor-like
OR52R1	119695	genome.wustl.edu	37	11	4825693	4825693	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001005177.3	-1	validated	p.V52A	0.000	125	0%	31	22.6%	0	-	benign(0.235)	-	-	NULL
OR51F2	119694	genome.wustl.edu	37	11	4843360	4843360	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001004753.1	+1	provisional	p.R249W	0.001	290	0%	143	10.5%	0	-	probably_damaging(0.967)	tolerated(0.14)	deleterious(0.658)	HMMPfam_7tm_1,superfamily_SSF81321
OR51G1	79324	genome.wustl.edu	37	11	4945118	4945118	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001005237.1	-1	provisional	p.V151A	0.002	59	0%	25	16%	0	-	benign(0.012)	tolerated(0.19)	neutral(0.050)	HMMPfam_7tm_1,superfamily_SSF81321
OR51A4	401666	genome.wustl.edu	37	11	4967960	4967960	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001005329.1	-1	provisional	p.R124I	0.158	842	0%	288	17.7%	0	-	possibly_damaging(0.772)	deleterious(0)	deleterious(0.732)	HMMPfam_7tm_1,PatternScan_G_PROTEIN_RECEP_F1_1,superfamily_SSF81321
OR52E2	119678	genome.wustl.edu	37	11	5080387	5080387	+	Silent	SNP	G	G	A	rs139722116		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001005164.2	-1	validated	p.F157	0.000	266	0%	94	24.5%	0	-	-	-	-	HMMPfam_7tm_1,superfamily_Family A G protein-coupled receptor-like
OR52A5	390054	genome.wustl.edu	37	11	5153635	5153635	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001005160.2	-1	validated	p.L80F	0.892	169	0%	63	20.6%	0	-	possibly_damaging(0.839)	deleterious(0)	deleterious(0.765)	HMMPfam_7tm_1,superfamily_SSF81321
OR52A5	390054	genome.wustl.edu	37	11	5153704	5153704	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001005160.2	-1	validated	p.L57F	1.000	180	0%	82	12.2%	0	-	probably_damaging(0.999)	deleterious(0)	deleterious(0.935)	HMMPfam_7tm_1,superfamily_SSF81321
OR52A1	23538	genome.wustl.edu	37	11	5172882	5172882	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_012375.2	-1	validated	p.A240S	0.997	436	0%	444	13.1%	0	-	probably_damaging(0.988)	tolerated(0.05)	deleterious(0.783)	HMMPfam_7tm_1,superfamily_Family A G protein-coupled receptor-like
HBB	3043	genome.wustl.edu	37	11	5248228	5248228	+	Missense_Mutation	SNP	C	C	A	rs63750928		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_000518.4	-1	reviewed	p.E8D	1.000	308	0%	71	23.9%	21	0%	benign(0.348)	tolerated(0.08)	neutral(0.410)	HMMPfam_Globin,superfamily_Globin-like
OR51B4	79339	genome.wustl.edu	37	11	5322497	5322497	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_033179.2	-1	validated	p.S227Y	0.995	233	0%	164	26.2%	0	-	probably_damaging(0.998)	deleterious(0)	deleterious(0.919)	HMMPfam_7tm_1,superfamily_Family A G protein-coupled receptor-like
OR51B4	79339	genome.wustl.edu	37	11	5322575	5322575	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_033179.2	-1	validated	p.S201Y	0.026	181	0.6%	156	24.4%	0	-	benign(0.119)	deleterious(0)	neutral(0.454)	HMMPfam_7tm_1,superfamily_Family A G protein-coupled receptor-like
OR51B5	282763	genome.wustl.edu	37	11	5364574	5364574	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001005567.1	-1	provisional	p.L61M	0.981	114	0%	30	20%	0	-	probably_damaging(1)	deleterious(0)	deleterious(0.945)	HMMPfam_7tm_1,superfamily_Family A G protein-coupled receptor-like
OR51Q1	390061	genome.wustl.edu	37	11	5443752	5443752	+	Nonsense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001004757.2	+1	validated	p.G108*	0.000	298	0%	189	23.8%	0	-	-	-	-	HMMPfam_7tm_1,superfamily_SSF81321
OR51I1	390063	genome.wustl.edu	37	11	5461965	5461965	+	Silent	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001005288.2	-1	validated	p.V260	0.133	146	0%	32	18.8%	0	-	-	-	-	HMMPfam_7tm_1,superfamily_Family A G protein-coupled receptor-like
OR51I1	390063	genome.wustl.edu	37	11	5462540	5462540	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001005288.2	-1	validated	p.A69T	0.994	192	0%	90	20%	0	-	benign(0.052)	deleterious(0.01)	neutral(0.409)	HMMPfam_7tm_1,superfamily_Family A G protein-coupled receptor-like
UBQLN3	50613	genome.wustl.edu	37	11	5529394	5529394	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_017481.2	-1	reviewed	p.T465	0.000	120	0%	38	34.2%	0	-	-	-	-	NULL
UBQLNL	143630	genome.wustl.edu	37	11	5536485	5536485	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_145053.4	-1	validated	p.Y396C	0.002	372	0%	183	20.2%	0	-	possibly_damaging(0.928)	tolerated(0.05)	deleterious(0.721)	NULL
OR52H1	390067	genome.wustl.edu	37	11	5566134	5566134	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001005289.1	-1	provisional	p.G207D	0.997	145	0%	71	15.5%	0	-	probably_damaging(0.995)	deleterious(0)	deleterious(0.902)	HMMPfam_7tm_1,superfamily_Family A G protein-coupled receptor-like
TRIM6	117854	genome.wustl.edu	37	11	5632397	5632397	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001003818.1	+1	reviewed	p.R459H	0.642	294	0%	201	23.9%	0	-	benign(0.06)	tolerated(0.19)	neutral(0.054)	HMMPfam_SPRY,HMMSmart_SPRY
TRIM6-TRIM34	445372	genome.wustl.edu	37	11	5663678	5663678	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001003819.2	+1	reviewed	p.K626N	0.003	214	0%	70	27.1%	1	0%	possibly_damaging(0.892)	tolerated(0.19)	neutral(0.401)	NULL
TRIM22	10346	genome.wustl.edu	37	11	5717857	5717857	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_006074.3	+1	reviewed	p.R132H	0.004	125	1.6%	112	23.2%	8	0%	possibly_damaging(0.579)	deleterious(0.03)	deleterious(0.564)	HMMPfam_zf-B_box,HMMSmart_SM00336
TRIM22	10346	genome.wustl.edu	37	11	5730767	5730767	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_006074.3	+1	reviewed	p.H462	0.002	138	0%	54	27.8%	5	40%	-	-	-	HMMPfam_SPRY,HMMSmart_SM00449
OR52N1	79473	genome.wustl.edu	37	11	5809797	5809797	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001001913.1	-1	provisional	p.L84F	0.980	261	0%	103	15.5%	0	-	probably_damaging(1)	deleterious(0.01)	deleterious(0.905)	HMMPfam_7tm_1,superfamily_SSF81321
OR52N2	390077	genome.wustl.edu	37	11	5842124	5842124	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001005174.1	+1	provisional	p.A187T	1.000	706	0%	188	27.7%	0	-	possibly_damaging(0.587)	deleterious(0.01)	deleterious(0.608)	HMMPfam_7tm_1,superfamily_SSF81321
OR52E6	390078	genome.wustl.edu	37	11	5862400	5862400	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001005167.1	-1	provisional	p.G243D	0.417	214	0%	91	16.5%	0	-	benign(0.017)	deleterious(0.01)	neutral(0.406)	HMMPfam_7tm_1,superfamily_SSF81321
OR52E6	390078	genome.wustl.edu	37	11	5862475	5862475	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001005167.1	-1	provisional	p.S218F	0.884	149	0%	72	15.3%	0	-	probably_damaging(1)	deleterious(0)	deleterious(0.945)	HMMPfam_7tm_1,superfamily_SSF81321
OR56A4	120793	genome.wustl.edu	37	11	6024101	6024101	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001005179.2	-1	provisional	p.A93D	1.000	313	0%	232	15.9%	0	-	probably_damaging(1)	deleterious(0)	deleterious(0.945)	superfamily_SSF81321
OR52L2P	79274	genome.wustl.edu	37	11	6078664	6078664	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	ENST00000316540	-1	known	p.R281H	0.994	206	0%	51	17.6%	0	-	-	-	-	HMMPfam_7tm_1,superfamily_Family A G protein-coupled receptor-like
ENSG00000180913	0	genome.wustl.edu	37	11	6149994	6149994	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	ENST00000316517	+1	known	p.E52G	0.476	160	0%	72	16.7%	0	-	possibly_damaging(0.947)	deleterious(0)	deleterious(0.835)	HMMPfam_7tm_1,superfamily_SSF81321
CCKBR	887	genome.wustl.edu	37	11	6281275	6281275	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_176875.2	+1	reviewed	p.C39	0.997	11	0%	27	18.5%	1	0%	-	-	-	superfamily_Family A G protein-coupled receptor-like
APBB1	322	genome.wustl.edu	37	11	6416811	6416811	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001164.2	-1	reviewed	p.L696	1.000	36	0%	48	27.1%	47	2.1%	-	-	-	NULL
APBB1	322	genome.wustl.edu	37	11	6423942	6423942	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001164.2	-1	reviewed	p.R373H	1.000	103	0%	137	24.8%	15	6.6%	possibly_damaging(0.802)	tolerated(0.08)	deleterious(0.602)	HMMPfam_PID,HMMSmart_SM00462,superfamily_PH domain-like
TRIM3	10612	genome.wustl.edu	37	11	6479075	6479075	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_006458.2	-1	reviewed	p.T122	1.000	34	0%	63	31.7%	3	0%	-	-	-	HMMPfam_zf-B_box,HMMSmart_SM00336,superfamily_RING/U-box
TRIM3	10612	genome.wustl.edu	37	11	6479471	6479471	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_006458.2	-1	reviewed	p.R63W	1.000	24	0%	59	20.3%	0	-	probably_damaging(1)	deleterious(0)	deleterious(0.945)	superfamily_RING/U-box
TRIM3	10612	genome.wustl.edu	37	11	6486844	6486844	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_006458.2	-1	reviewed	p.R28W	1.000	134	0%	161	19.3%	0	-	probably_damaging(0.997)	deleterious(0)	deleterious(0.911)	HMMSmart_SM00184,HMMPfam_zf-C3HC4,superfamily_RING/U-box
DNHD1	144132	genome.wustl.edu	37	11	6520010	6520010	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_173589.3	+1	validated	p.T189A	0.966	93	0%	49	28.6%	1	0%	possibly_damaging(0.77)	tolerated(0.12)	deleterious(0.546)	NULL
DNHD1	144132	genome.wustl.edu	37	11	6524033	6524033	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_173589.3	+1	validated	p.S266I	0.002	289	0%	87	26.4%	2	0%	possibly_damaging(0.847)	tolerated(0.59)	neutral(0.330)	NULL
DNHD1	144132	genome.wustl.edu	37	11	6559691	6559691	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_144666.2	+1	provisional	p.R1026Q	0.326	96	0%	47	27.7%	0	-	probably_damaging(0.982)	tolerated(0.13)	deleterious(0.679)	HMMPfam_DHC_N2
DNHD1	144132	genome.wustl.edu	37	11	6566230	6566230	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_144666.2	+1	provisional	p.A1354V	0.014	154	0%	84	40.5%	0	-	possibly_damaging(0.584)	tolerated(1)	neutral(0.201)	HMMPfam_DHC_N2
DNHD1	144132	genome.wustl.edu	37	11	6566670	6566670	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_144666.2	+1	provisional	p.D1501N	0.003	56	0%	34	26.5%	0	-	possibly_damaging(0.847)	tolerated(0.52)	neutral(0.334)	NULL
DNHD1	144132	genome.wustl.edu	37	11	6567483	6567483	+	Nonsense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_144666.2	+1	provisional	p.R1772*	0.834	51	0%	35	17.1%	0	-	-	-	-	NULL
DNHD1	144132	genome.wustl.edu	37	11	6568157	6568157	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_144666.2	+1	provisional	p.S1996	0.994	35	0%	30	16.7%	0	-	-	-	-	superfamily_P-loop containing nucleoside triphosphate hydrolases
DNHD1	144132	genome.wustl.edu	37	11	6580462	6580462	+	Silent	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_144666.2	+1	provisional	p.T3156	0.001	199	0%	282	25.5%	2	50%	-	-	-	NULL
DNHD1	144132	genome.wustl.edu	37	11	6586002	6586002	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_144666.2	+1	provisional	p.R3575Q	0.000	51	0%	77	24.7%	0	-	benign(0.008)	tolerated(0.39)	neutral(0.016)	NULL
DNHD1	144132	genome.wustl.edu	37	11	6592409	6592409	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_144666.2	+1	provisional	p.S4556L	0.983	23	0%	41	17.1%	0	-	possibly_damaging(0.662)	tolerated(1)	neutral(0.234)	HMMPfam_Dynein_heavy
DNHD1	144132	genome.wustl.edu	37	11	6592489	6592489	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_144666.2	+1	provisional	p.L4583	1.000	46	0%	82	20.7%	0	-	-	-	-	HMMPfam_Dynein_heavy
ILK	3611	genome.wustl.edu	37	11	6630751	6630751	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001014794.1	+1	reviewed	p.S246L	1.000	203	0%	307	27.7%	249	4.4%	probably_damaging(0.959)	deleterious(0.01)	deleterious(0.808)	HMMPfam_Pkinase_Tyr,superfamily_Kinase_like
TPP1	1200	genome.wustl.edu	37	11	6637732	6637732	+	Silent	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_000391.3	-1	reviewed	p.R297	1.000	43	0%	65	24.6%	21	0%	-	-	-	superfamily_Subtilisin-like
DCHS1	8642	genome.wustl.edu	37	11	6645386	6645386	+	Silent	SNP	T	T	G	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_003737.2	-1	reviewed	p.T2507	0.776	23	0%	30	16.7%	9	0%	-	-	-	HMMPfam_Cadherin,HMMSmart_CA,superfamily_Cadherin
DCHS1	8642	genome.wustl.edu	37	11	6648417	6648417	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_003737.2	-1	reviewed	p.R1951	0.352	16	0%	30	30%	2	0%	-	-	-	HMMPfam_Cadherin,HMMSmart_CA,PatternScan_CADHERIN_1,superfamily_Cadherin
DCHS1	8642	genome.wustl.edu	37	11	6650771	6650771	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_003737.2	-1	reviewed	p.S1691	0.093	171	0%	300	16.7%	5	0%	-	-	-	HMMPfam_Cadherin,HMMSmart_CA,superfamily_Cadherin
DCHS1	8642	genome.wustl.edu	37	11	6652892	6652892	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_003737.2	-1	reviewed	p.T1210	0.992	47	0%	125	28%	1	0%	-	-	-	superfamily_Cadherin
DCHS1	8642	genome.wustl.edu	37	11	6653348	6653348	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_003737.2	-1	reviewed	p.R1132Q	1.000	158	0%	253	29.2%	2	0%	possibly_damaging(0.748)	tolerated(0.5)	neutral(0.285)	HMMPfam_Cadherin,HMMSmart_CA,superfamily_Cadherin
DCHS1	8642	genome.wustl.edu	37	11	6654108	6654108	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_003737.2	-1	reviewed	p.R879W	1.000	170	0%	254	27.2%	3	0%	probably_damaging(1)	deleterious(0)	deleterious(0.945)	HMMPfam_Cadherin,HMMSmart_CA,superfamily_Cadherin
DCHS1	8642	genome.wustl.edu	37	11	6662011	6662011	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_003737.2	-1	reviewed	p.F278	1.000	72	0%	80	11.3%	1	0%	-	-	-	HMMPfam_Cadherin,HMMSmart_CA,superfamily_Cadherin
MRPL17	63875	genome.wustl.edu	37	11	6703508	6703508	+	Silent	SNP	G	G	A	rs190216103	by1000genomes	TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_022061.3	-1	reviewed	p.I123	0.966	214	0%	133	10.5%	147	21%	-	-	-	HMMPfam_Ribosomal_L17,superfamily_Ribosomal_L17
OR2D2	120776	genome.wustl.edu	37	11	6913074	6913074	+	Missense_Mutation	SNP	G	G	A	rs60116285	byCluster;byFrequency;by1000genomes	TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_003700.1	-1	provisional	p.R220C	0.000	241	0%	81	30.9%	0	-	benign(0.001)	tolerated(0.19)	neutral(0.050)	HMMPfam_7tm_1,superfamily_SSF81321
OLFML1	283298	genome.wustl.edu	37	11	7507219	7507219	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_198474.3	+1	validated	p.R38H	1.000	274	0%	84	15.5%	2	0%	unknown(0)	deleterious(0)	-	NULL
OLFML1	283298	genome.wustl.edu	37	11	7507224	7507224	+	Nonsense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_198474.3	+1	validated	p.R40*	1.000	269	0%	85	11.8%	2	0%	-	-	-	NULL
PPFIBP2	8495	genome.wustl.edu	37	11	7670839	7670839	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_003621.2	+1	validated	p.V692A	1.000	159	0%	131	18.3%	7	42.8%	benign(0.016)	tolerated(0.75)	neutral(0.002)	HMMSmart_SM00454,superfamily_SAM/Pointed domain
PPFIBP2	8495	genome.wustl.edu	37	11	7674313	7674313	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_003621.2	+1	validated	p.S832L	0.995	87	0%	75	24%	22	22.7%	possibly_damaging(0.81)	tolerated(0.31)	neutral(0.332)	NULL
OR5P2	120065	genome.wustl.edu	37	11	7817678	7817678	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_153444.1	-1	provisional	p.S271F	0.998	280	0%	108	16.7%	0	-	probably_damaging(1)	deleterious(0)	deleterious(0.945)	HMMPfam_7tm_1,superfamily_SSF81321
OR5P2	120065	genome.wustl.edu	37	11	7817984	7817984	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_153444.1	-1	provisional	p.Q169R	0.000	130	0%	61	14.8%	0	-	benign(0)	tolerated(0.54)	neutral(0.007)	HMMPfam_7tm_1,superfamily_SSF81321
OR10A6	390093	genome.wustl.edu	37	11	7949483	7949483	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001004461.1	-1	provisional	p.A243T	0.994	301	0%	77	18.2%	0	-	benign(0)	deleterious(0)	neutral(0.445)	HMMPfam_7tm_1,superfamily_SSF81321
NLRP10	338322	genome.wustl.edu	37	11	7981994	7981994	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_176821.3	-1	reviewed	p.V389I	0.540	69	0%	51	9.8%	0	-	benign(0.096)	tolerated(0.47)	neutral(0.018)	NULL
STK33	65975	genome.wustl.edu	37	11	8462238	8462238	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_030906.2	-1	validated	p.V312I	1.000	168	0%	35	14.3%	0	-	benign(0)	tolerated(1)	-	HMMSmart_SM00219,HMMSmart_SM00220,superfamily_Protein kinase-like (PK-like),HMMPfam_Pkinase
TRIM66	9866	genome.wustl.edu	37	11	8668024	8668024	+	Silent	SNP	T	T	C	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_014818.1	-1	validated	p.K164	1.000	670	0%	232	26.7%	0	-	-	-	-	HMMSmart_SM00502
ST5	6764	genome.wustl.edu	37	11	8717082	8717082	+	Nonsense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_005418.3	-1	reviewed	p.R1103*	1.000	339	0%	233	25.3%	87	2.2%	-	-	-	NULL
ST5	6764	genome.wustl.edu	37	11	8719085	8719085	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_005418.3	-1	reviewed	p.S1013	0.953	174	0%	86	34.9%	54	3.7%	-	-	-	NULL
ST5	6764	genome.wustl.edu	37	11	8751751	8751751	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_005418.3	-1	reviewed	p.P362	0.941	116	2.6%	201	26.9%	8	0%	-	-	-	NULL
ST5	6764	genome.wustl.edu	37	11	8751986	8751986	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_005418.3	-1	reviewed	p.R284Q	1.000	13	0%	23	30.4%	6	0%	possibly_damaging(0.787)	tolerated(0.42)	neutral(0.308)	NULL
C11orf16	56673	genome.wustl.edu	37	11	8947297	8947297	+	Missense_Mutation	SNP	A	A	C	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_020643.2	-1	validated	p.L306R	0.000	98	0%	65	24.6%	0	-	benign(0.001)	tolerated(0.09)	neutral(0.296)	NULL
SCUBE2	57758	genome.wustl.edu	37	11	9069086	9069086	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_020974.2	-1	validated	p.V578I	0.229	107	0%	53	17%	3	0%	benign(0)	deleterious(0.03)	neutral(0.364)	NULL
DENND5A	23258	genome.wustl.edu	37	11	9167339	9167339	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_015213.2	-1	validated	p.V961I	0.997	240	0%	63	28.6%	19	5.2%	benign(0)	tolerated(1)	-	HMMPfam_PLAT,superfamily_Lipase/lipooxygenase domain (PLAT/LH2 domain)
WEE1	7465	genome.wustl.edu	37	11	9608358	9608358	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_003390.3	+1	reviewed	p.R581Q	1.000	158	0%	89	20.2%	18	16.6%	probably_damaging(0.994)	tolerated(0.34)	deleterious(0.475)	superfamily_Kinase_like
SWAP70	23075	genome.wustl.edu	37	11	9735131	9735131	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_015055.2	+1	validated	p.V120A	1.000	307	0%	74	31.1%	0	-	benign(0.004)	tolerated(0.15)	neutral(0.241)	superfamily_SSF47473
SWAP70	23075	genome.wustl.edu	37	11	9754164	9754164	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_015055.2	+1	validated	p.K329	1.000	102	0%	76	15.8%	4	25%	-	-	-	NULL
SBF2	81846	genome.wustl.edu	37	11	9817409	9817409	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_030962.3	-1	reviewed	p.L1513	0.889	179	0%	78	10.3%	2	0%	-	-	-	superfamily_(Phosphotyrosine protein) phosphatases II
SBF2	81846	genome.wustl.edu	37	11	9853906	9853906	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_030962.3	-1	reviewed	p.R1173C	1.000	232	0%	100	24%	1	0%	probably_damaging(1)	deleterious(0)	deleterious(0.945)	HMMPfam_Myotub-related,superfamily_(Phosphotyrosine protein) phosphatases II
SBF2	81846	genome.wustl.edu	37	11	9867181	9867181	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_030962.3	-1	reviewed	p.A1014D	1.000	407	0%	102	29.4%	2	0%	probably_damaging(1)	deleterious(0)	deleterious(0.945)	superfamily_PH domain-like
SBF2	81846	genome.wustl.edu	37	11	9875197	9875197	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_030962.3	-1	reviewed	p.T809I	0.997	278	0%	74	20.3%	0	-	benign(0.005)	tolerated(0.18)	neutral(0.056)	NULL
SBF2	81846	genome.wustl.edu	37	11	10215501	10215501	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_030962.3	-1	reviewed	p.R30I	1.000	434	0%	130	13.8%	0	-	probably_damaging(0.998)	deleterious(0)	deleterious(0.919)	HMMPfam_uDENN,HMMSmart_SM00800
MRVI1	10335	genome.wustl.edu	37	11	10624732	10624732	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001098579.1	-1	reviewed	p.A595T	0.995	52	0%	26	23.1%	0	-	benign(0.101)	tolerated(0.06)	neutral(0.330)	HMMPfam_MRVI1
CTR9	9646	genome.wustl.edu	37	11	10800647	10800647	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_014633.3	+1	provisional	p.D1173N	1.000	144	0%	37	16.2%	21	14.2%	unknown(0)	deleterious(0)	-	NULL
ZBED5	58486	genome.wustl.edu	37	11	10875853	10875853	+	Nonsense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001143667.1	-1	reviewed	p.G214*	1.000	254	0%	283	25.4%	8	12.5%	-	-	-	NULL
ZBED5	58486	genome.wustl.edu	37	11	10876045	10876045	+	Nonsense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001143667.1	-1	reviewed	p.R150*	1.000	462	0.2%	465	20%	2	0%	-	-	-	NULL
ZBED5	58486	genome.wustl.edu	37	11	10876147	10876147	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001143667.1	-1	reviewed	p.S116P	1.000	204	0%	259	25.5%	4	25%	possibly_damaging(0.435)	tolerated(0.06)	neutral(0.465)	NULL
USP47	55031	genome.wustl.edu	37	11	11944349	11944349	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_017944.3	+1	validated	p.D365N	1.000	343	0%	60	31.7%	3	0%	possibly_damaging(0.947)	tolerated(0.07)	deleterious(0.710)	HMMPfam_UCH,superfamily_Cysteine proteinases
USP47	55031	genome.wustl.edu	37	11	11964050	11964050	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_017944.3	+1	validated	p.D760N	1.000	202	0%	36	33.3%	9	0%	benign(0.227)	deleterious(0)	neutral(0.467)	NULL
USP47	55031	genome.wustl.edu	37	11	11964360	11964360	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_017944.3	+1	validated	p.D863G	1.000	213	0%	77	26%	10	0%	benign(0.227)	deleterious(0)	neutral(0.467)	NULL
MICAL2	9645	genome.wustl.edu	37	11	12241936	12241936	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_014632.2	+1	provisional	p.N379	0.806	119	0%	138	11.6%	6	0%	-	-	-	superfamily_FAD/NAD(P)-binding domain
RASSF10	644943	genome.wustl.edu	37	11	13031806	13031806	+	Missense_Mutation	SNP	T	T	G	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001080521.1	+1	provisional	p.L336R	1.000	9	0.000	22	0.227	3	33.3%	-	-	-	NULL
SPON1	10418	genome.wustl.edu	37	11	14096907	14096907	+	Silent	SNP	A	A	G	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	ENST00000310358	+1	known	p.Q165	1.000	300	0%	85	20%	7	0%	-	-	-	HMMPfam_Reeler
PSMA1	5682	genome.wustl.edu	37	11	14539218	14539218	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_148976.2	-1	reviewed	p.A81V	1.000	400	0%	149	12.1%	76	1.3%	probably_damaging(0.999)	deleterious(0)	deleterious(0.935)	HMMPfam_Proteasome,superfamily_SSF56235
PDE3B	5140	genome.wustl.edu	37	11	14808095	14808095	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_000922.3	+1	validated	p.R381L	1.000	305	0%	54	20.4%	0	-	probably_damaging(1)	deleterious(0)	deleterious(0.945)	NULL
INSC	387755	genome.wustl.edu	37	11	15247203	15247203	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001031853.3	+1	provisional	p.C380	1.000	93	0%	63	23.8%	0	-	-	-	-	superfamily_ARM repeat
PIK3C2A	5286	genome.wustl.edu	37	11	17115866	17115866	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_002645.2	-1	validated	p.E1465K	1.000	284	0%	125	20%	1	0%	probably_damaging(0.987)	deleterious(0.01)	deleterious(0.842)	HMMPfam_PX,HMMSmart_SM00312,superfamily_PX domain
PIK3C2A	5286	genome.wustl.edu	37	11	17132061	17132061	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_002645.2	-1	validated	p.K1154N	1.000	420	0%	143	11.2%	1	0%	possibly_damaging(0.898)	deleterious(0.01)	deleterious(0.760)	HMMPfam_PI3_PI4_kinase,HMMSmart_SM00146,superfamily_Protein kinase-like (PK-like)
PIK3C2A	5286	genome.wustl.edu	37	11	17139104	17139104	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_002645.2	-1	validated	p.T1050	0.989	350	0%	130	11.5%	1	0%	-	-	-	superfamily_Protein kinase-like (PK-like)
PIK3C2A	5286	genome.wustl.edu	37	11	17144304	17144304	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_002645.2	-1	validated	p.S819Y	0.009	322	0%	125	24%	0	-	benign(0.018)	tolerated(1)	neutral(0.001)	HMMPfam_PI3K_C2,superfamily_C2 domain (Calcium/lipid-binding domain CaLB)
PIK3C2A	5286	genome.wustl.edu	37	11	17172117	17172117	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_002645.2	-1	validated	p.G419R	1.000	509	0%	95	12.6%	2	0%	possibly_damaging(0.489)	tolerated(0.42)	neutral(0.177)	HMMPfam_PI3K_rbd,HMMSmart_SM00144,superfamily_Ubiquitin-like
PIK3C2A	5286	genome.wustl.edu	37	11	17190350	17190350	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_002645.2	-1	validated	p.S313	0.057	335	0.3%	144	11.8%	1	0%	-	-	-	NULL
ABCC8	6833	genome.wustl.edu	37	11	17414607	17414607	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_000352.3	-1	reviewed	p.F1559	0.232	75	0%	94	21.3%	1	0%	-	-	-	HMMSmart_SM00382,superfamily_P-loop containing nucleoside triphosphate hydrolases
ABCC8	6833	genome.wustl.edu	37	11	17416731	17416731	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_000352.3	-1	reviewed	p.P1467S	1.000	55	0%	85	20%	1	0%	benign(0.353)	deleterious(0.03)	deleterious(0.476)	HMMPfam_ABC_tran,HMMSmart_SM00382,superfamily_P-loop containing nucleoside triphosphate hydrolases
ABCC8	6833	genome.wustl.edu	37	11	17418493	17418493	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_000352.3	-1	reviewed	p.H1363	0.956	108	0%	124	23.4%	0	-	-	-	-	superfamily_P-loop containing nucleoside triphosphate hydrolases
ABCC8	6833	genome.wustl.edu	37	11	17452501	17452501	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_000352.3	-1	reviewed	p.F559	0.935	89	0%	43	20.9%	0	-	-	-	-	HMMPfam_ABC_membrane,superfamily_Multidrug resistance ABC transporter MsbA N-terminal domain
ABCC8	6833	genome.wustl.edu	37	11	17464390	17464390	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_000352.3	-1	reviewed	p.L503F	1.000	68	0%	24	29.2%	0	-	probably_damaging(1)	deleterious(0.01)	deleterious(0.905)	HMMPfam_ABC_membrane,superfamily_Multidrug resistance ABC transporter MsbA N-terminal domain
USH1C	10083	genome.wustl.edu	37	11	17544791	17544791	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_153676.3	-1	reviewed	p.S281	1.000	140	0%	107	13.1%	0	-	-	-	-	HMMPfam_PDZ,HMMSmart_PDZ,superfamily_PDZ
USH1C	10083	genome.wustl.edu	37	11	17548864	17548864	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_153676.3	-1	reviewed	p.I134	0.929	45	0%	31	22.6%	0	-	-	-	-	HMMPfam_PDZ,HMMSmart_PDZ,superfamily_PDZ
KCNC1	3746	genome.wustl.edu	37	11	17793313	17793313	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001112741.1	+1	reviewed	p.I224	0.945	249	0%	376	25.3%	1	100%	-	-	-	superfamily_Voltage-gated potassium channels
KCNC1	3746	genome.wustl.edu	37	11	17793443	17793443	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001112741.1	+1	reviewed	p.P268S	1.000	298	0%	373	24.1%	0	-	probably_damaging(0.995)	deleterious(0)	deleterious(0.902)	HMMPfam_Ion_trans,superfamily_Voltage-gated potassium channels
SAA4	6291	genome.wustl.edu	37	11	18253083	18253083	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_006512.2	-1	validated	p.R120H	0.280	243	0%	84	25%	0	-	benign(0.002)	tolerated(1)	-	HMMPfam_SAA,HMMSmart_SM00197
HPS5	11234	genome.wustl.edu	37	11	18303518	18303518	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_181507.1	-1	reviewed	p.R1103M	1.000	124	0%	142	12.7%	5	0%	probably_damaging(0.998)	deleterious(0)	deleterious(0.919)	NULL
HPS5	11234	genome.wustl.edu	37	11	18327787	18327787	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_181507.1	-1	reviewed	p.R240H	1.000	266	0%	105	24.8%	1	100%	probably_damaging(1)	deleterious(0)	deleterious(0.945)	NULL
GTF2H1	2965	genome.wustl.edu	37	11	18357411	18357411	+	Nonsense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001142307.1	+1	validated	p.R89*	1.000	263	0%	158	20.9%	7	14.2%	-	-	-	superfamily_PH domain-like
LDHAL6A	160287	genome.wustl.edu	37	11	18478263	18478263	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001144071.1	+1	validated	p.F12	0.007	307	0%	534	11.6%	0	-	-	-	-	superfamily_NAD(P)-bd
TSG101	7251	genome.wustl.edu	37	11	18503234	18503234	+	Silent	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_006292.2	-1	reviewed	p.I342	1.000	403	0%	143	28%	104	17.3%	-	-	-	HMMPfam_Vps23_core
IGSF22	283284	genome.wustl.edu	37	11	18727557	18727557	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	ENST00000513874	-1	known	p.N1239	1.000	78	0%	133	24.8%	0	-	-	-	-	HMMSmart_SM00408,HMMSmart_SM00409,HMMPfam_I-set,superfamily_Immunoglobulin
IGSF22	283284	genome.wustl.edu	37	11	18739554	18739554	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_173588.3	-1	validated	p.N299	0.985	217	0%	211	25.6%	0	-	-	-	-	HMMSmart_IG,HMMPfam_I-set,superfamily_SSF48726
IGSF22	283284	genome.wustl.edu	37	11	18741281	18741281	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_173588.3	-1	validated	p.K226N	1.000	163	0%	152	12.5%	0	-	probably_damaging(0.98)	deleterious(0.03)	deleterious(0.788)	NULL
PTPN5	84867	genome.wustl.edu	37	11	18765695	18765695	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_006906.1	-1	validated	p.Q50R	0.002	85	0%	38	10.5%	0	-	benign(0.004)	tolerated(0.05)	neutral(0.345)	NULL
MRGPRX1	259249	genome.wustl.edu	37	11	18955789	18955789	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_147199.3	-1	provisional	p.V181	0.000	607	0%	497	14.5%	0	-	-	-	-	HMMPfam_7tm_1,superfamily_SSF81321
ZDHHC13	54503	genome.wustl.edu	37	11	19172282	19172282	+	Silent	SNP	T	T	C	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_019028.2	+1	validated	p.N176	1.000	470	0%	89	23.6%	1	0%	-	-	-	HMMPfam_Ank,HMMSmart_SM00248,superfamily_Ankyrin repeat
E2F8	79733	genome.wustl.edu	37	11	19259604	19259604	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_024680.2	-1	validated	p.V31M	0.002	408	0%	469	11.7%	0	-	possibly_damaging(0.441)	tolerated(0.12)	neutral(0.404)	NULL
NAV2	89797	genome.wustl.edu	37	11	19955170	19955170	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_182964.5	+1	validated	p.K460N	1.000	160	0%	104	15.4%	1	0%	probably_damaging(1)	deleterious(0)	deleterious(0.945)	NULL
NAV2	89797	genome.wustl.edu	37	11	20099592	20099592	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_182964.5	+1	validated	p.N1707	0.925	114	0%	25	16%	3	0%	-	-	-	NULL
PRMT3	10196	genome.wustl.edu	37	11	20419171	20419171	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_005788.3	+1	validated	p.S203	0.990	419	0.2%	200	31.5%	2	50%	-	-	-	NULL
PRMT3	10196	genome.wustl.edu	37	11	20483589	20483589	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_005788.3	+1	validated	p.R379I	1.000	466	0.4%	100	19%	2	0%	possibly_damaging(0.942)	tolerated(0.11)	deleterious(0.659)	superfamily_S-adenosyl-L-methionine-dependent methyltransferases
SLC6A5	9152	genome.wustl.edu	37	11	20628617	20628617	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_004211.3	+1	reviewed	p.E248D	1.000	207	0%	241	27%	0	-	probably_damaging(1)	deleterious(0)	deleterious(0.945)	HMMPfam_SNF
SLC6A5	9152	genome.wustl.edu	37	11	20649610	20649610	+	Missense_Mutation	SNP	T	T	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_004211.3	+1	reviewed	p.F494I	1.000	414	0%	125	24.8%	0	-	probably_damaging(0.995)	deleterious(0.01)	deleterious(0.863)	HMMPfam_SNF
ANO5	203859	genome.wustl.edu	37	11	22248958	22248958	+	Missense_Mutation	SNP	T	T	G	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_213599.2	+1	reviewed	p.I158M	1.000	254	0%	39	23.1%	0	-	possibly_damaging(0.935)	tolerated(0.24)	neutral(0.418)	NULL
ANO5	203859	genome.wustl.edu	37	11	22283681	22283681	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_213599.2	+1	reviewed	p.P546H	1.000	365	0%	68	16.2%	0	-	probably_damaging(1)	tolerated(0.05)	deleterious(0.845)	NULL
GAS2	2620	genome.wustl.edu	37	11	22777420	22777420	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001143830.1	+1	reviewed	p.C215Y	1.000	224	0%	62	25.8%	0	-	probably_damaging(0.998)	deleterious(0)	deleterious(0.919)	HMMPfam_GAS2,HMMSmart_SM00243
LUZP2	338645	genome.wustl.edu	37	11	24753684	24753684	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001009909.2	+1	validated	p.Q67	0.009	301	0%	74	18.9%	0	-	-	-	-	NULL
ANO3	63982	genome.wustl.edu	37	11	26619976	26619976	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_031418.2	+1	validated	p.I504	1.000	350	0%	143	21%	0	-	-	-	-	NULL
SLC5A12	159963	genome.wustl.edu	37	11	26692773	26692773	+	Missense_Mutation	SNP	C	C	T	rs151303131	by1000genomes	TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_178498.3	-1	validated	p.R578Q	1.000	210	0%	47	10.6%	0	-	benign(0)	tolerated(0.35)	neutral(0.021)	NULL
SLC5A12	159963	genome.wustl.edu	37	11	26694965	26694965	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_178498.3	-1	validated	p.D564G	0.973	208	0%	37	32.4%	0	-	benign(0.418)	tolerated(0.12)	neutral(0.396)	NULL
SLC5A12	159963	genome.wustl.edu	37	11	26725100	26725100	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_178498.3	-1	validated	p.K267E	1.000	292	0%	74	29.7%	0	-	probably_damaging(0.997)	tolerated(0.14)	deleterious(0.716)	NULL
LGR4	55366	genome.wustl.edu	37	11	27401879	27401879	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_018490.2	-1	validated	p.R304C	1.000	174	0%	56	30.4%	0	-	probably_damaging(1)	deleterious(0.02)	deleterious(0.883)	superfamily_SSF52047,superfamily_SSF52058
LIN7C	55327	genome.wustl.edu	37	11	27521064	27521064	+	Missense_Mutation	SNP	C	C	G	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_018362.3	-1	validated	p.V94L	1.000	374	0%	181	26%	4	50%	benign(0.126)	deleterious(0.01)	neutral(0.416)	HMMPfam_PDZ,superfamily_PDZ domain-like
BDNF	627	genome.wustl.edu	37	11	27679733	27679733	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001143810.1	-1	reviewed	p.R209W	1.000	201	0%	132	11.4%	1	0%	probably_damaging(0.99)	deleterious(0)	deleterious(0.886)	superfamily_SSF57501
KIF18A	81930	genome.wustl.edu	37	11	28090821	28090821	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_031217.3	-1	validated	p.N525	1.000	283	0%	46	30.4%	1	0%	-	-	-	NULL
KIF18A	81930	genome.wustl.edu	37	11	28113042	28113042	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_031217.3	-1	validated	p.R168C	0.997	206	0.5%	82	12.2%	0	-	probably_damaging(1)	deleterious(0)	deleterious(0.945)	HMMPfam_Kinesin,HMMSmart_KISc,superfamily_SSF52540
METTL15	196074	genome.wustl.edu	37	11	28352148	28352148	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001113528.1	+1	validated	p.I328	0.408	317	0%	55	21.8%	0	-	-	-	-	HMMPfam_Methyltransf_5,superfamily_S-adenosyl-L-methionine-dependent methyltransferases
KCNA4	3739	genome.wustl.edu	37	11	30032421	30032421	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_002233.2	-1	reviewed	p.S602F	1.000	320	0%	341	20.5%	0	-	probably_damaging(0.989)	deleterious(0)	deleterious(0.884)	NULL
KCNA4	3739	genome.wustl.edu	37	11	30032568	30032568	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_002233.2	-1	reviewed	p.A553V	1.000	105	0%	168	14.3%	0	-	probably_damaging(1)	deleterious(0)	deleterious(0.945)	HMMPfam_Ion_trans,superfamily_Voltage-gated potassium channels
KCNA4	3739	genome.wustl.edu	37	11	30032592	30032592	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_002233.2	-1	reviewed	p.A545V	1.000	87	0%	121	27.3%	0	-	possibly_damaging(0.9)	tolerated(0.1)	deleterious(0.643)	HMMPfam_Ion_trans,superfamily_Voltage-gated potassium channels
DCDC5	100506627	genome.wustl.edu	37	11	30902756	30902756	+	Nonsense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	XM_002343054.1	-1	model	p.R962*	0.081	233	0%	72	9.7%	0	-	-	-	-	HMMPfam_DCX,HMMSmart_SM00537,superfamily_Doublecortin (DC)
DCDC1	341019	genome.wustl.edu	37	11	31287099	31287099	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_181807.2	-1	validated	p.Y337H	0.999	182	0%	23	17.4%	0	-	unknown(0)	deleterious(0)	-	superfamily_SSF89837
DCDC1	341019	genome.wustl.edu	37	11	31312256	31312256	+	Missense_Mutation	SNP	A	A	C	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_181807.2	-1	validated	p.F300V	1.000	437	0%	156	40.4%	0	-	benign(0.316)	deleterious(0.04)	neutral(0.448)	superfamily_SSF89837
PAX6	5080	genome.wustl.edu	37	11	31822365	31822365	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001604.4	-1	reviewed	p.E147K	1.000	256	0%	442	24.9%	0	-	benign(0.001)	tolerated(0.22)	neutral(0.042)	NULL
PAX6	5080	genome.wustl.edu	37	11	31823272	31823272	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001604.4	-1	reviewed	p.S79Y	1.000	240	0.4%	407	25.3%	0	-	probably_damaging(1)	deleterious(0)	deleterious(0.945)	HMMPfam_PAX,HMMSmart_PAX,superfamily_Homeodomain_like
RCN1	5954	genome.wustl.edu	37	11	32124946	32124946	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_002901.2	+1	reviewed	p.R270C	1.000	236	0%	121	17.4%	31	9.6%	probably_damaging(0.992)	deleterious(0.01)	deleterious(0.853)	superfamily_SSF47473
EIF3M	10480	genome.wustl.edu	37	11	32608616	32608616	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_006360.3	+1	provisional	p.S34L	0.995	398	0%	522	14.4%	36	8.3%	possibly_damaging(0.736)	deleterious(0.01)	deleterious(0.675)	NULL
EIF3M	10480	genome.wustl.edu	37	11	32617542	32617542	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_006360.3	+1	provisional	p.A250T	1.000	692	0%	326	21.8%	277	20.9%	benign(0)	tolerated(0.57)	neutral(0.006)	HMMPfam_PCI
CCDC73	493860	genome.wustl.edu	37	11	32632716	32632716	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001008391.2	-1	validated	p.A998T	0.994	368	0%	158	23.4%	0	-	probably_damaging(0.998)	deleterious(0)	deleterious(0.919)	NULL
CCDC73	493860	genome.wustl.edu	37	11	32636195	32636195	+	Nonsense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001008391.2	-1	validated	p.G557*	0.001	584	0.2%	299	18.1%	0	-	-	-	-	NULL
CCDC73	493860	genome.wustl.edu	37	11	32657319	32657319	+	Nonsense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001008391.2	-1	validated	p.E370*	1.000	356	0%	63	20.6%	0	-	-	-	-	NULL
DEPDC7	91614	genome.wustl.edu	37	11	33049319	33049319	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001077242.1	+1	validated	p.N184K	0.456	439	0%	303	19.8%	0	-	benign(0.03)	tolerated(0.57)	neutral(0.007)	NULL
DEPDC7	91614	genome.wustl.edu	37	11	33054246	33054246	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001077242.1	+1	validated	p.F390L	1.000	185	0%	137	18.2%	2	0%	probably_damaging(1)	tolerated(0.1)	deleterious(0.786)	NULL
HIPK3	10114	genome.wustl.edu	37	11	33369523	33369523	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_005734.3	+1	validated	p.P757H	1.000	175	0%	48	22.9%	3	0%	probably_damaging(1)	deleterious(0.02)	deleterious(0.883)	NULL
C11orf41	25758	genome.wustl.edu	37	11	33564440	33564440	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_012194.1	+1	validated	p.S147F	0.382	48	0%	32	28.1%	0	-	benign(0.156)	tolerated(0.24)	neutral(0.051)	NULL
C11orf41	25758	genome.wustl.edu	37	11	33565510	33565510	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_012194.1	+1	validated	p.L504I	0.000	250	0.4%	96	26%	0	-	benign(0.022)	tolerated(0.25)	neutral(0.038)	NULL
LMO2	4005	genome.wustl.edu	37	11	33881064	33881064	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_005574.3	-1	reviewed	p.E174D	1.000	233	0%	157	14.6%	27	0%	possibly_damaging(0.663)	tolerated(0.25)	neutral(0.271)	HMMPfam_LIM,HMMSmart_SM00132,PatternScan_LIM_DOMAIN_1,superfamily_Glucocorticoid receptor-like (DNA-binding domain)
CAPRIN1	4076	genome.wustl.edu	37	11	34118841	34118841	+	Missense_Mutation	SNP	C	C	G	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_005898.4	+1	validated	p.R667G	1.000	191	0%	62	14.5%	53	5.6%	probably_damaging(1)	deleterious(0)	deleterious(0.945)	NULL
NAT10	55226	genome.wustl.edu	37	11	34144133	34144133	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_024662.2	+1	validated	p.A303V	1.000	143	0%	57	15.8%	1	0%	benign(0.052)	deleterious(0)	neutral(0.448)	HMMPfam_DUF699
NAT10	55226	genome.wustl.edu	37	11	34158214	34158214	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_024662.2	+1	validated	p.I685T	0.998	133	0%	89	14.6%	6	0%	benign(0.261)	deleterious(0)	deleterious(0.472)	NULL
NAT10	55226	genome.wustl.edu	37	11	34160750	34160750	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_024662.2	+1	validated	p.G742R	1.000	111	0%	58	19%	4	0%	probably_damaging(1)	deleterious(0)	deleterious(0.945)	superfamily_Acyl-CoA N-acyltransferases (Nat)
ABTB2	25841	genome.wustl.edu	37	11	34182571	34182571	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_145804.1	-1	provisional	p.S573L	0.998	46	0%	93	32.3%	6	0%	benign(0.004)	tolerated(0.14)	neutral(0.249)	NULL
ABTB2	25841	genome.wustl.edu	37	11	34184303	34184303	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_145804.1	-1	provisional	p.V494M	1.000	13	0%	29	20.7%	5	0%	possibly_damaging(0.568)	tolerated(0.1)	deleterious(0.481)	superfamily_ANK
PDHX	8050	genome.wustl.edu	37	11	34978943	34978943	+	Missense_Mutation	SNP	A	A	C	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_003477.2	+1	reviewed	p.S119R	0.992	180	0%	70	21.4%	4	0%	possibly_damaging(0.901)	deleterious(0)	deleterious(0.801)	HMMPfam_Biotin_lipoyl,superfamily_Hybrid_motif
CD44	960	genome.wustl.edu	37	11	35201856	35201856	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_000610.3	+1	reviewed	p.R90Q	0.893	395	0%	90	24.4%	112	17.8%	probably_damaging(1)	deleterious(0)	deleterious(0.945)	HMMPfam_Xlink,HMMSmart_SM00445,PatternScan_LINK_1,superfamily_C-type lectin-like
SLC1A2	6506	genome.wustl.edu	37	11	35282464	35282464	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_004171.3	-1	reviewed	p.E568K	1.000	367	0%	122	12.3%	1	0%	probably_damaging(0.99)	deleterious(0)	deleterious(0.886)	NULL
SLC1A2	6506	genome.wustl.edu	37	11	35308447	35308447	+	Silent	SNP	A	A	G	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_004171.3	-1	reviewed	p.I381	1.000	231	0%	114	14%	0	-	-	-	-	HMMPfam_SDF
PAMR1	25891	genome.wustl.edu	37	11	35456197	35456197	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_015430.2	-1	validated	p.R514C	1.000	141	0%	55	10.9%	111	0%	probably_damaging(1)	deleterious(0)	deleterious(0.945)	HMMPfam_Trypsin,HMMSmart_Tryp_SPc,superfamily_Pept_Ser_Cys
PAMR1	25891	genome.wustl.edu	37	11	35489549	35489549	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_015430.2	-1	validated	p.L274F	0.792	75	0%	29	31%	56	0%	benign(0)	tolerated(0.13)	neutral(0.253)	superfamily_SSF57196
TRIM44	54765	genome.wustl.edu	37	11	35684876	35684876	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_017583.4	+1	reviewed	p.G73R	0.007	248	0%	380	26.3%	8	12.5%	unknown(0)	deleterious(0.03)	-	NULL
LDLRAD3	143458	genome.wustl.edu	37	11	36248882	36248882	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_174902.2	+1	provisional	p.N234	0.996	65	0%	43	25.6%	1	0%	-	-	-	NULL
TRAF6	7189	genome.wustl.edu	37	11	36511954	36511954	+	Nonsense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_004620.2	-1	reviewed	p.R335*	0.973	385	0%	100	18%	3	33.3%	-	-	-	NULL
RAG1	5896	genome.wustl.edu	37	11	36595938	36595938	+	Nonsense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_000448.2	+1	reviewed	p.E362*	0.969	81	0%	37	27%	0	-	-	-	-	HMMPfam_zf-RAG1,superfamily_RING/U-box
RAG1	5896	genome.wustl.edu	37	11	36597502	36597502	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_000448.2	+1	reviewed	p.R883M	1.000	207	0%	63	19%	0	-	possibly_damaging(0.659)	deleterious(0)	deleterious(0.677)	NULL
RAG2	5897	genome.wustl.edu	37	11	36615244	36615244	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_000536.3	-1	reviewed	p.R159C	0.994	153	0%	109	33%	0	-	probably_damaging(1)	deleterious(0)	deleterious(0.945)	HMMPfam_RAG2
LRRC4C	57689	genome.wustl.edu	37	11	40136858	40136858	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_020929.1	-1	validated	p.R329W	1.000	140	0%	32	21.9%	0	-	probably_damaging(1)	deleterious(0)	deleterious(0.945)	superfamily_L domain-like
LRRC4C	57689	genome.wustl.edu	37	11	40137808	40137808	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_020929.1	-1	validated	p.I12T	1.000	371	0%	79	39.2%	0	-	benign(0)	tolerated(0.35)	neutral(0.021)	superfamily_L domain-like
API5	8539	genome.wustl.edu	37	11	43343641	43343641	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001142930.1	+1	validated	p.V166	0.799	318	0%	172	26.2%	5	0%	-	-	-	HMMPfam_API5,superfamily_ARM-type_fold
API5	8539	genome.wustl.edu	37	11	43357502	43357502	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001142930.1	+1	validated	p.P484S	1.000	408	0%	102	9.8%	7	14.2%	probably_damaging(1)	deleterious(0)	deleterious(0.945)	HMMPfam_API5
TTC17	55761	genome.wustl.edu	37	11	43427457	43427457	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_018259.5	+1	validated	p.R573C	1.000	191	0.5%	59	16.9%	3	0%	probably_damaging(0.983)	deleterious(0)	deleterious(0.873)	superfamily_SSF48452
TTC17	55761	genome.wustl.edu	37	11	43465046	43465046	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_018259.5	+1	validated	p.R808Q	1.000	145	0%	74	17.6%	9	22.2%	probably_damaging(0.999)	deleterious(0.03)	deleterious(0.855)	superfamily_SSF48452
TTC17	55761	genome.wustl.edu	37	11	43513554	43513554	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	ENST00000418561	+1	known	p.F19L	0.000	304	0%	84	14.3%	0	-	-	-	-	NULL
TTC17	55761	genome.wustl.edu	37	11	43515444	43515444	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_018259.5	+1	validated	p.R1139H	0.998	197	0%	44	20.5%	22	22.7%	possibly_damaging(0.942)	deleterious(0.03)	deleterious(0.752)	NULL
HSD17B12	51144	genome.wustl.edu	37	11	43876298	43876298	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_016142.2	+1	validated	p.A240T	0.998	135	0%	64	32.8%	7	0%	benign(0)	tolerated(0.1)	neutral(0.286)	superfamily_NAD(P)-binding Rossmann-fold domains
ALKBH3	221120	genome.wustl.edu	37	11	43941523	43941523	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_139178.3	+1	validated	p.R275Q	1.000	223	0.4%	195	24.6%	30	16.6%	probably_damaging(1)	deleterious(0)	deleterious(0.945)	NULL
ACCSL	390110	genome.wustl.edu	37	11	44070061	44070061	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001031854.2	+1	validated	p.D159Y	0.386	71	0%	24	25%	0	-	probably_damaging(0.998)	deleterious(0)	deleterious(0.919)	superfamily_PLP-dependent transferases
ACCS	84680	genome.wustl.edu	37	11	44089411	44089411	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001127219.1	+1	validated	p.E78D	1.000	72	0%	121	37.2%	0	-	probably_damaging(0.973)	tolerated(0.46)	neutral(0.427)	superfamily_PyrdxlP-dep_Trfase_major
EXT2	2132	genome.wustl.edu	37	11	44129598	44129598	+	Silent	SNP	A	A	G	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_000401.3	+1	reviewed	p.K125	0.987	211	0%	91	22%	8	0%	-	-	-	HMMPfam_Exostosin
ALX4	60529	genome.wustl.edu	37	11	44289157	44289157	+	Nonsense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_021926.3	-1	reviewed	p.R265*	1.000	153	0%	209	13.9%	0	-	-	-	-	HMMPfam_Homeobox,HMMSmart_HOX,superfamily_Homeodomain_like,PatternScan_HOMEOBOX_1
CD82	3732	genome.wustl.edu	37	11	44616269	44616269	+	Silent	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_002231.3	+1	reviewed	p.I19	1.000	620	0.2%	455	10.1%	4	0%	-	-	-	HMMPfam_Tetraspannin
CD82	3732	genome.wustl.edu	37	11	44626696	44626696	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_002231.3	+1	reviewed	p.I75	0.004	115	0%	97	32%	3	33.3%	-	-	-	HMMPfam_Tetraspannin,PatternScan_TM4_1
PRDM11	56981	genome.wustl.edu	37	11	45246289	45246289	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_020229.2	+1	validated	p.R456W	0.955	108	0%	62	25.8%	1	100%	probably_damaging(1)	deleterious(0)	deleterious(0.945)	NULL
PRDM11	56981	genome.wustl.edu	37	11	45246398	45246398	+	Missense_Mutation	SNP	A	A	C	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_020229.2	+1	validated	p.K492T	1.000	84	0%	69	20.3%	0	-	probably_damaging(0.957)	deleterious(0)	deleterious(0.845)	NULL
SYT13	57586	genome.wustl.edu	37	11	45265737	45265737	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_020826.2	-1	validated	p.D383N	0.760	97	0%	55	27.3%	0	-	benign(0.002)	tolerated(0.24)	neutral(0.037)	HMMPfam_C2,HMMSmart_SM00239,superfamily_C2 domain (Calcium/lipid-binding domain CaLB)
CHST1	8534	genome.wustl.edu	37	11	45671975	45671975	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_003654.4	-1	validated	p.D167N	1.000	29	0%	57	17.5%	0	-	benign(0.086)	tolerated(0.32)	neutral(0.030)	HMMPfam_Sulfotransfer_1,superfamily_SSF52540
CHST1	8534	genome.wustl.edu	37	11	45672051	45672051	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_003654.4	-1	validated	p.P141	0.997	61	0%	114	22.8%	1	0%	-	-	-	HMMPfam_Sulfotransfer_1,superfamily_SSF52540
SLC35C1	55343	genome.wustl.edu	37	11	45827602	45827602	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_018389.4	+1	reviewed	p.T84A	1.000	43	0%	98	10.2%	5	0%	benign(0.145)	tolerated(0.15)	neutral(0.254)	NULL
CRY2	1408	genome.wustl.edu	37	11	45880395	45880395	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_021117.3	+1	validated	p.E167D	1.000	196	0%	156	17.3%	4	0%	benign(0.01)	tolerated(0.21)	neutral(0.044)	HMMPfam_DNA_photolyase,superfamily_DNA_photolyase_N
CRY2	1408	genome.wustl.edu	37	11	45882558	45882558	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_021117.3	+1	validated	p.Y230	0.346	38	0%	43	32.6%	3	0%	-	-	-	superfamily_DNA_photolyase_N
LOC100289415	100289415	genome.wustl.edu	37	11	45924326	45924326	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	XM_002343079.1	-1	model	p.E161K	0.878	10	0%	25	32%	3	0%	-	-	-	NULL
C11orf94	143678	genome.wustl.edu	37	11	45928445	45928445	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001080446.2	-1	validated	p.S50	0.000	74	0%	127	30.7%	1	0%	-	-	-	NULL
PEX16	9409	genome.wustl.edu	37	11	45939296	45939296	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_057174.2	-1	reviewed	p.A23T	1.000	19	0%	49	30.6%	17	23.5%	benign(0.049)	tolerated(0.28)	neutral(0.035)	HMMPfam_Pex16
GYLTL1B	120071	genome.wustl.edu	37	11	45948083	45948083	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_152312.3	+1	validated	p.D367N	1.000	170	0%	269	29.4%	8	37.5%	probably_damaging(0.965)	tolerated(0.05)	deleterious(0.752)	superfamily_Nucleotide-diphospho-sugar transferases
DGKZ	8525	genome.wustl.edu	37	11	46367100	46367100	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_201533.2	+1	reviewed	p.D8	1.000	23	0%	55	23.6%	1	0%	-	-	-	NULL
AMBRA1	55626	genome.wustl.edu	37	11	46529855	46529855	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_017749.2	-1	validated	p.R652H	1.000	158	0%	41	19.5%	5	0%	probably_damaging(1)	deleterious(0)	deleterious(0.945)	NULL
ARHGAP1	392	genome.wustl.edu	37	11	46700969	46700969	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_004308.2	-1	provisional	p.T359	0.406	107	0%	121	24%	35	5.7%	-	-	-	HMMPfam_RhoGAP,HMMSmart_RhoGAP,superfamily_Rho_GAP
ZNF408	79797	genome.wustl.edu	37	11	46727361	46727361	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_024741.2	+1	validated	p.D704G	0.014	63	0%	121	19%	33	12.1%	benign(0.02)	deleterious(0)	neutral(0.446)	NULL
ZNF408	79797	genome.wustl.edu	37	11	46727371	46727371	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_024741.2	+1	validated	p.L707	0.003	54	0%	105	11.4%	37	10.8%	-	-	-	NULL
CKAP5	9793	genome.wustl.edu	37	11	46786708	46786708	+	Missense_Mutation	SNP	T	T	G	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001008938.1	-1	validated	p.Q1170H	1.000	603	0%	169	23.7%	6	0%	probably_damaging(0.989)	deleterious(0)	deleterious(0.884)	superfamily_ARM repeat
CKAP5	9793	genome.wustl.edu	37	11	46786765	46786765	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001008938.1	-1	validated	p.K1151N	1.000	624	0%	158	22.2%	2	0%	possibly_damaging(0.898)	tolerated(0.2)	neutral(0.403)	superfamily_ARM repeat
ENSG00000247675	0	genome.wustl.edu	37	11	46894790	46894790	+	RNA	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	ENST00000502049	+1	known	NULL	0.006	96	0%	46	13%	0	-	-	-	-	-
LRP4	4038	genome.wustl.edu	37	11	46905519	46905519	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_002334.3	-1	reviewed	p.R839W	1.000	283	0%	112	13.4%	0	-	probably_damaging(1)	deleterious(0)	deleterious(0.945)	HMMPfam_Ldl_recept_b,HMMSmart_SM00135,superfamily_YWTD domain
ARFGAP2	84364	genome.wustl.edu	37	11	47188394	47188394	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_032389.3	-1	provisional	p.E417K	0.997	51	0%	57	29.8%	15	6.6%	probably_damaging(1)	tolerated(0.17)	deleterious(0.559)	NULL
DDB2	1643	genome.wustl.edu	37	11	47259480	47259480	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_000107.2	+1	reviewed	p.I372	0.073	175	0%	110	14.5%	16	0%	-	-	-	superfamily_WD40 repeat-like
ACP2	53	genome.wustl.edu	37	11	47266892	47266892	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001610.2	-1	reviewed	p.E201	1.000	167	0%	152	21.7%	12	25%	-	-	-	HMMPfam_Acid_phosphat_A,superfamily_SSF53254
MADD	8567	genome.wustl.edu	37	11	47312299	47312299	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_003682.3	+1	reviewed	p.A1098V	0.979	209	0%	118	11.9%	6	0%	benign(0.058)	tolerated(0.22)	neutral(0.046)	NULL
MADD	8567	genome.wustl.edu	37	11	47331110	47331110	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_003682.3	+1	reviewed	p.R1369C	1.000	277	0%	115	10.4%	9	0%	probably_damaging(1)	deleterious(0)	deleterious(0.945)	NULL
MADD	8567	genome.wustl.edu	37	11	47350603	47350603	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_003682.3	+1	reviewed	p.E1616K	1.000	220	0%	173	25.4%	27	37%	possibly_damaging(0.47)	tolerated(0.12)	neutral(0.415)	NULL
MYBPC3	4607	genome.wustl.edu	37	11	47367827	47367827	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_000256.3	-1	reviewed	p.G341S	1.000	91	0%	147	23.8%	0	-	probably_damaging(1)	deleterious(0)	deleterious(0.945)	NULL
SPI1	6688	genome.wustl.edu	37	11	47397226	47397226	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001080547.1	-1	reviewed	p.E35K	0.736	192	0%	226	27.4%	29	0%	benign(0.141)	tolerated(0.07)	neutral(0.331)	NULL
KBTBD4	55709	genome.wustl.edu	37	11	47594795	47594795	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_018095.4	-1	validated	p.Y431C	1.000	118	0%	176	14.8%	24	4.1%	probably_damaging(0.981)	tolerated(0.11)	deleterious(0.697)	HMMPfam_Kelch_1,superfamily_Galactose oxidase central domain
FAM180B	399888	genome.wustl.edu	37	11	47609757	47609757	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	ENST00000356737	+1	known	p.R149Q	0.587	66	0%	99	22.2%	0	-	possibly_damaging(0.666)	-	-	NULL
AGBL2	79841	genome.wustl.edu	37	11	47711736	47711736	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_024783.2	-1	validated	p.V508A	1.000	205	0.5%	78	34.6%	0	-	probably_damaging(0.98)	tolerated(0.22)	neutral(0.466)	HMMPfam_Peptidase_M14,superfamily_Zn-dependent exopeptidases
NUP160	23279	genome.wustl.edu	37	11	47804633	47804633	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_015231.1	-1	validated	p.G1370R	1.000	471	0%	204	25.5%	7	0%	probably_damaging(1)	deleterious(0.01)	deleterious(0.905)	NULL
NUP160	23279	genome.wustl.edu	37	11	47834555	47834555	+	Missense_Mutation	SNP	G	G	A	rs188598280	by1000genomes	TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_015231.1	-1	validated	p.R611W	1.000	195	0.5%	57	26.3%	0	-	probably_damaging(0.999)	deleterious(0.03)	deleterious(0.855)	NULL
PTPRJ	5795	genome.wustl.edu	37	11	48152137	48152137	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_002843.3	+1	reviewed	p.R495Q	0.000	261	0%	69	31.9%	4	25%	benign(0.051)	tolerated(0.47)	neutral(0.014)	HMMPfam_fn3,HMMSmart_FN3,superfamily_FN_III-like
PTPRJ	5795	genome.wustl.edu	37	11	48185079	48185079	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_002843.3	+1	reviewed	p.D1210N	0.991	116	0%	48	27.1%	3	0%	possibly_damaging(0.841)	deleterious(0.01)	deleterious(0.727)	HMMPfam_Y_phosphatase,HMMSmart_PTPc,superfamily_SSF52799
OR4B1	119765	genome.wustl.edu	37	11	48238605	48238605	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001005470.1	+1	provisional	p.D82Y	0.991	416	0%	235	26.8%	0	-	probably_damaging(0.996)	deleterious(0.01)	deleterious(0.867)	HMMPfam_7tm_1,superfamily_SSF81321
OR4X2	119764	genome.wustl.edu	37	11	48267194	48267194	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001004727.1	+1	provisional	p.A180V	0.995	333	0%	178	12.9%	0	-	benign(0.005)	tolerated(0.1)	neutral(0.286)	HMMPfam_7tm_1,superfamily_Family A G protein-coupled receptor-like
OR4X1	390113	genome.wustl.edu	37	11	48285672	48285672	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001004726.1	+1	provisional	p.R87M	0.000	240	0%	74	27%	0	-	benign(0.154)	deleterious(0.03)	neutral(0.378)	HMMPfam_7tm_1,superfamily_SSF81321
OR4S1	256148	genome.wustl.edu	37	11	48327822	48327822	+	Silent	SNP	T	T	C	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001004725.1	+1	provisional	p.F16	0.000	428	0%	156	21.8%	0	-	-	-	-	superfamily_SSF81321
OR4A47	403253	genome.wustl.edu	37	11	48510395	48510395	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001005512.2	+1	validated	p.Q17H	0.007	332	0%	61	9.8%	0	-	possibly_damaging(0.558)	deleterious(0)	deleterious(0.635)	superfamily_SSF81321
LOC646754	646754	genome.wustl.edu	37	11	49078884	49078884	+	Missense_Mutation	SNP	T	T	G	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	XM_929704.3	-1	model	p.K185T	0.001	334	0%	267	21.7%	0	-	benign(0.159)	deleterious(0.01)	neutral(0.420)	NULL
FOLH1	2346	genome.wustl.edu	37	11	49196477	49196477	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_004476.1	-1	reviewed	p.V358M	1.000	573	0%	153	26.8%	2	0%	probably_damaging(1)	deleterious(0)	deleterious(0.945)	superfamily_Transferrin receptor ectodomain apical domain,superfamily_Zn-dependent exopeptidases
FOLH1	2346	genome.wustl.edu	37	11	49229946	49229948	+	In_Frame_Del	DEL	GAA	GAA	-	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	GAA	GAA					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_004476.1	-1	reviewed	p.L5in_frame_del	0.002:0.000:0.002	-	-	-	-	-	-	-	-	-	NULL
ENSG00000219061	0	genome.wustl.edu	37	11	49860813	49860813	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	ENST00000405176	-1	known	p.N20	0.578	58	0%	31	25.8%	0	-	-	-	-	HMMSmart_RING,HMMPfam_zf-C3HC4,superfamily_SSF57850
OR4C13	283092	genome.wustl.edu	37	11	49974509	49974509	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001001955.2	+1	validated	p.L179I	0.061	511	0%	136	10.3%	0	-	benign(0.325)	tolerated(0.22)	neutral(0.144)	HMMPfam_7tm_1,superfamily_SSF81321
OR4C12	283093	genome.wustl.edu	37	11	50003563	50003563	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001005270.2	-1	validated	p.L159I	0.834	127	0%	50	18%	1	0%	possibly_damaging(0.724)	tolerated(0.51)	neutral(0.272)	HMMPfam_7tm_1,superfamily_SSF81321
ENSG00000236919	0	genome.wustl.edu	37	11	50205842	50205842	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	ENST00000435540	-1	known	p.D161N	1.000	39	0%	21	23.8%	0	-	-	-	-	NULL
TRIM48	79097	genome.wustl.edu	37	11	55032550	55032550	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_024114.3	+1	validated	p.K73N	0.011	869	0%	139	12.2%	0	-	possibly_damaging(0.895)	tolerated(0.13)	deleterious(0.605)	superfamily_RING/U-box
ENSG00000166007	0	genome.wustl.edu	37	11	55061224	55061224	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	ENST00000309470	-1	known	p.S261Y	0.046	403	0%	119	11.8%	0	-	-	-	-	NULL
OR4A15	81328	genome.wustl.edu	37	11	55135783	55135783	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001005275.1	+1	provisional	p.L142I	0.005	415	0%	100	22%	0	-	probably_damaging(0.99)	tolerated(0.28)	deleterious(0.473)	HMMPfam_7tm_1,PatternScan_G_PROTEIN_RECEP_F1_1,superfamily_SSF81321
OR4A15	81328	genome.wustl.edu	37	11	55136182	55136182	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001005275.1	+1	provisional	p.V275I	0.000	538	0%	113	15.9%	0	-	benign(0.185)	deleterious(0.01)	neutral(0.423)	HMMPfam_7tm_1,superfamily_SSF81321
ENSG00000181950	0	genome.wustl.edu	37	11	55234653	55234653	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	ENST00000314689	+1	known	p.R41Q	0.000	97	0%	55	9.1%	0	-	-	-	-	HMMPfam_7tm_1,superfamily_Family A G protein-coupled receptor-like
OR4C16	219428	genome.wustl.edu	37	11	55339694	55339694	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001004701.2	+1	validated	p.R31C	0.000	405	0.2%	123	19.5%	0	-	benign(0.01)	deleterious(0)	neutral(0.445)	superfamily_SSF81321
OR5D13	390142	genome.wustl.edu	37	11	55541605	55541605	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001001967.1	+1	provisional	p.R231Q	0.000	306	0%	97	14.4%	0	-	benign(0.011)	tolerated(0.24)	neutral(0.038)	HMMPfam_7tm_1,superfamily_SSF81321
OR5L1	219437	genome.wustl.edu	37	11	55579204	55579204	+	Missense_Mutation	SNP	A	A	C	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001004738.1	+1	provisional	p.K88Q	0.000	781	0%	299	18.4%	0	-	benign(0.018)	tolerated(0.06)	neutral(0.323)	HMMPfam_7tm_1,superfamily_SSF81321
OR5D18	219438	genome.wustl.edu	37	11	55587764	55587764	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001001952.1	+1	provisional	p.A220V	0.000	275	0%	90	25.6%	0	-	benign(0)	tolerated(0.96)	-	HMMPfam_7tm_1,superfamily_SSF81321
OR5D18	219438	genome.wustl.edu	37	11	55587823	55587823	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001001952.1	+1	provisional	p.S240P	1.000	247	0%	85	16.5%	0	-	probably_damaging(0.994)	deleterious(0)	deleterious(0.897)	HMMPfam_7tm_1,superfamily_SSF81321
OR5L2	26338	genome.wustl.edu	37	11	55594949	55594949	+	Silent	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001004739.1	+1	provisional	p.I85	0.000	427	0%	90	22.2%	0	-	-	-	-	HMMPfam_7tm_1,superfamily_SSF81321
OR5D16	390144	genome.wustl.edu	37	11	55606711	55606711	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001005496.1	+1	provisional	p.A162T	0.000	341	0%	143	27.3%	0	-	benign(0)	tolerated(1)	-	HMMPfam_7tm_1,superfamily_SSF81321
SPRYD5	84767	genome.wustl.edu	37	11	55653080	55653080	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_032681.3	+1	validated	p.T59M	0.000	85	0%	59	13.6%	0	-	possibly_damaging(0.868)	deleterious(0)	deleterious(0.782)	superfamily_RING/U-box
SPRYD5	84767	genome.wustl.edu	37	11	55653246	55653246	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_032681.3	+1	validated	p.P114	0.045	63	0%	44	22.7%	0	-	-	-	-	HMMPfam_zf-B_box,HMMSmart_SM00336
OR5I1	10798	genome.wustl.edu	37	11	55702989	55702989	+	Missense_Mutation	SNP	A	A	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_006637.1	-1	reviewed	p.N296K	0.861	235	0%	75	20%	0	-	probably_damaging(0.996)	deleterious(0)	deleterious(0.906)	superfamily_SSF81321
OR5I1	10798	genome.wustl.edu	37	11	55703124	55703124	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_006637.1	-1	reviewed	p.T251	0.004	293	0.3%	81	11.1%	0	-	-	-	-	HMMPfam_7tm_1,superfamily_SSF81321
OR8I2	120586	genome.wustl.edu	37	11	55861460	55861460	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001003750.1	+1	provisional	p.R226M	0.830	224	0%	56	23.2%	0	-	possibly_damaging(0.509)	deleterious(0)	deleterious(0.615)	HMMPfam_7tm_1,superfamily_Family A G protein-coupled receptor-like
OR8H2	390151	genome.wustl.edu	37	11	55872532	55872532	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001005200.1	+1	provisional	p.R5M	0.044	378	0.5%	104	13.5%	0	-	benign(0.145)	tolerated(0.1)	neutral(0.299)	superfamily_SSF81321
OR8H2	390151	genome.wustl.edu	37	11	55872836	55872836	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001005200.1	+1	provisional	p.F106L	0.000	493	0%	202	24.8%	0	-	benign(0.001)	tolerated(0.79)	neutral(0.001)	HMMPfam_7tm_1,superfamily_SSF81321
OR8J3	81168	genome.wustl.edu	37	11	55904498	55904498	+	Nonsense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001004064.1	-1	provisional	p.G233*	0.026	337	0%	292	25.3%	0	-	-	-	-	HMMPfam_7tm_1,superfamily_SSF81321
OR8J3	81168	genome.wustl.edu	37	11	55904647	55904647	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001004064.1	-1	provisional	p.P183H	0.012	375	0%	407	23.8%	0	-	probably_damaging(1)	deleterious(0)	deleterious(0.945)	HMMPfam_7tm_1,superfamily_SSF81321
OR8J3	81168	genome.wustl.edu	37	11	55904829	55904829	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001004064.1	-1	provisional	p.R122	0.990	368	0%	378	27%	0	-	-	-	-	HMMPfam_7tm_1,PatternScan_G_PROTEIN_RECEP_F1_1,superfamily_SSF81321
OR8K5	219453	genome.wustl.edu	37	11	55927142	55927142	+	Missense_Mutation	SNP	A	A	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001004058.2	-1	validated	p.Y218N	1.000	140	0%	98	14.3%	0	-	probably_damaging(1)	deleterious(0)	deleterious(0.945)	HMMPfam_7tm_1,superfamily_SSF81321
OR5J2	282775	genome.wustl.edu	37	11	55944429	55944429	+	Silent	SNP	C	C	G	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001005492.1	+1	provisional	p.G112	0.000	240	0%	51	21.6%	0	-	-	-	-	HMMPfam_7tm_1,PatternScan_G_PROTEIN_RECEP_F1_1,superfamily_SSF81321
OR5J2	282775	genome.wustl.edu	37	11	55944478	55944478	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001005492.1	+1	provisional	p.P129S	0.994	279	0%	57	22.8%	0	-	benign(0.019)	deleterious(0.01)	neutral(0.407)	HMMPfam_7tm_1,superfamily_SSF81321
OR5T3	390154	genome.wustl.edu	37	11	56020506	56020506	+	Silent	SNP	A	A	G	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001004747.1	+1	provisional	p.G277	0.000	313	0%	93	15.1%	0	-	-	-	-	HMMPfam_7tm_1,superfamily_SSF81321
OR8K1	390157	genome.wustl.edu	37	11	56113653	56113653	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001002907.1	+1	provisional	p.G47C	0.940	216	0%	77	19.5%	0	-	probably_damaging(0.999)	deleterious(0)	deleterious(0.935)	HMMPfam_7tm_1,superfamily_SSF81321
OR8J1	219477	genome.wustl.edu	37	11	56127899	56127899	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001005205.1	+1	provisional	p.M59I	1.000	485	0%	165	9.1%	0	-	probably_damaging(0.972)	deleterious(0)	deleterious(0.859)	HMMPfam_7tm_1,superfamily_Family A G protein-coupled receptor-like
OR8J1	219477	genome.wustl.edu	37	11	56128657	56128657	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001005205.1	+1	provisional	p.S312Y	0.000	114	0%	49	36.7%	0	-	benign(0.079)	deleterious(0.01)	neutral(0.411)	superfamily_Family A G protein-coupled receptor-like
OR8U1	219417	genome.wustl.edu	37	11	56143605	56143605	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001005204.1	+1	provisional	p.C169Y	0.982	248	0%	97	16.5%	0	-	possibly_damaging(0.728)	deleterious(0.01)	deleterious(0.671)	HMMPfam_7tm_1,superfamily_SSF81321
OR5M3	219482	genome.wustl.edu	37	11	56237151	56237151	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001004742.1	-1	provisional	p.F275L	0.696	99	0%	26	38.5%	1	0%	probably_damaging(1)	deleterious(0.01)	deleterious(0.905)	HMMPfam_7tm_1,superfamily_Family A G protein-coupled receptor-like
OR5M8	219484	genome.wustl.edu	37	11	56258031	56258031	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001005282.1	-1	provisional	p.M272I	0.443	89	0%	76	13.2%	0	-	benign(0.004)	tolerated(0.54)	neutral(0.007)	HMMPfam_7tm_1,superfamily_Family A G protein-coupled receptor-like
OR5AR1	219493	genome.wustl.edu	37	11	56431698	56431698	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001004730.1	+1	provisional	p.C179	0.999	392	0%	147	10.2%	0	-	-	-	-	HMMPfam_7tm_1,superfamily_SSF81321
APLNR	187	genome.wustl.edu	37	11	57003356	57003356	+	Nonsense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_005161.4	-1	reviewed	p.E375*	1.000	91	0%	120	24.2%	6	0%	-	-	-	NULL
TNKS1BP1	85456	genome.wustl.edu	37	11	57069692	57069692	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_033396.2	-1	validated	p.E1564K	0.998	27	0%	38	26.3%	123	16.2%	possibly_damaging(0.945)	deleterious(0.02)	deleterious(0.772)	NULL
TNKS1BP1	85456	genome.wustl.edu	37	11	57077681	57077681	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_033396.2	-1	validated	p.R835Q	0.180	102	0%	197	14.2%	21	4.7%	benign(0.001)	tolerated(1)	-	NULL
SSRP1	6749	genome.wustl.edu	37	11	57093889	57093889	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_003146.2	-1	reviewed	p.D708N	0.981	218	0%	326	11%	103	1.9%	benign(0.001)	deleterious(0)	neutral(0.445)	NULL
P2RX3	5024	genome.wustl.edu	37	11	57114149	57114149	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_002559.2	+1	reviewed	p.P84H	0.999	98	0%	87	31%	0	-	probably_damaging(0.98)	deleterious(0)	deleterious(0.869)	HMMPfam_P2X_receptor
P2RX3	5024	genome.wustl.edu	37	11	57135503	57135503	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_002559.2	+1	reviewed	p.M288T	0.887	119	0%	80	13.8%	0	-	benign(0)	tolerated(1)	-	HMMPfam_P2X_receptor
P2RX3	5024	genome.wustl.edu	37	11	57135876	57135876	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_002559.2	+1	reviewed	p.I323T	1.000	142	0%	127	11.8%	0	-	probably_damaging(1)	tolerated(0.1)	deleterious(0.786)	HMMPfam_P2X_receptor
SLC43A3	29015	genome.wustl.edu	37	11	57188508	57188508	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_014096.2	-1	validated	p.S156	0.084	258	0%	264	25.8%	2	0%	-	-	-	superfamily_MFS_gen_substrate_transporter
SLC43A3	29015	genome.wustl.edu	37	11	57193530	57193530	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_014096.2	-1	validated	p.N39S	0.000	96	0%	154	14.3%	8	0%	benign(0)	tolerated(0.87)	neutral(0.001)	NULL
SLC43A1	8501	genome.wustl.edu	37	11	57252574	57252574	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_003627.4	-1	provisional	p.A559T	0.001	94	1.1%	140	26.4%	38	36.8%	probably_damaging(0.959)	deleterious(0)	deleterious(0.847)	NULL
SLC43A1	8501	genome.wustl.edu	37	11	57281450	57281450	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_003627.4	-1	provisional	p.F45L	1.000	71	0%	119	13.4%	8	0%	possibly_damaging(0.521)	tolerated(0.1)	neutral(0.462)	superfamily_MFS general substrate transporter
SMTNL1	219537	genome.wustl.edu	37	11	57310797	57310797	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001105565.1	+1	provisional	p.A246T	0.000	61	0%	73	11%	0	-	possibly_damaging(0.864)	tolerated(0.06)	deleterious(0.657)	NULL
CLP1	10978	genome.wustl.edu	37	11	57428408	57428408	+	Nonsense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_006831.2	+1	validated	p.E260*	1.000	233	0%	265	11.7%	3	0%	-	-	-	HMMPfam_Clp1
ZDHHC5	25921	genome.wustl.edu	37	11	57457871	57457871	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_015457.2	+1	validated	p.V208M	0.993	313	0%	158	29.1%	3	0%	benign(0.194)	tolerated(0.34)	neutral(0.041)	NULL
ZDHHC5	25921	genome.wustl.edu	37	11	57466718	57466718	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_015457.2	+1	validated	p.A604T	0.767	32	0%	21	19%	43	20.9%	benign(0.006)	deleterious(0.04)	neutral(0.349)	NULL
TMX2	51075	genome.wustl.edu	37	11	57505132	57505132	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_015959.2	+1	validated	p.R81H	1.000	511	0%	336	11%	15	0%	probably_damaging(0.999)	deleterious(0)	deleterious(0.935)	NULL
TMX2	51075	genome.wustl.edu	37	11	57505838	57505838	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_015959.2	+1	validated	p.T126M	1.000	730	0.1%	634	21.9%	7	0%	probably_damaging(0.999)	tolerated(0.25)	deleterious(0.527)	superfamily_Thioredoxin-like
CTNND1	1500	genome.wustl.edu	37	11	57575644	57575644	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001085458.1	+1	validated	p.E657D	0.999	368	0%	107	19.6%	6	16.6%	possibly_damaging(0.472)	tolerated(0.12)	neutral(0.416)	HMMPfam_Arm,HMMSmart_SM00185,superfamily_ARM repeat
CTNND1	1500	genome.wustl.edu	37	11	57576862	57576862	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001085458.1	+1	validated	p.A787T	0.857	265	0%	48	16.7%	20	15%	benign(0.005)	tolerated(0.69)	neutral(0.002)	superfamily_ARM repeat
CTNND1	1500	genome.wustl.edu	37	11	57577586	57577586	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001085458.1	+1	validated	p.R814H	1.000	215	0%	72	33.3%	12	0%	possibly_damaging(0.662)	tolerated(0.27)	neutral(0.268)	HMMSmart_SM00185,superfamily_ARM repeat
OR9I1	219954	genome.wustl.edu	37	11	57886048	57886048	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001005211.1	-1	validated	p.Y290C	1.000	179	0%	50	32%	0	-	probably_damaging(1)	deleterious(0)	deleterious(0.945)	HMMPfam_7tm_1,superfamily_SSF81321
OR9Q2	219957	genome.wustl.edu	37	11	57958051	57958051	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001005283.2	+1	validated	p.I30T	0.038	166	0%	104	29.8%	0	-	benign(0.001)	tolerated(0.34)	neutral(0.023)	superfamily_SSF81321
OR1S1	219959	genome.wustl.edu	37	11	57982545	57982545	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001004458.1	+1	validated	p.C110Y	0.965	471	0%	240	26.7%	0	-	probably_damaging(0.999)	deleterious(0)	deleterious(0.935)	HMMPfam_7tm_1,superfamily_SSF81321
OR1S1	219959	genome.wustl.edu	37	11	57982625	57982625	+	Missense_Mutation	SNP	G	G	C	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001004458.1	+1	validated	p.V137L	0.926	408	0%	175	28.6%	0	-	possibly_damaging(0.897)	deleterious(0.02)	deleterious(0.737)	HMMPfam_7tm_1,superfamily_SSF81321
OR1S1	219959	genome.wustl.edu	37	11	57982630	57982630	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001004458.1	+1	validated	p.A138	0.942	394	0%	175	21.1%	0	-	-	-	-	HMMPfam_7tm_1,superfamily_SSF81321
OR10Q1	219960	genome.wustl.edu	37	11	57995627	57995627	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001004471.2	-1	validated	p.R241W	0.752	78	0%	79	17.7%	0	-	probably_damaging(1)	deleterious(0)	deleterious(0.945)	HMMPfam_7tm_1,superfamily_SSF81321
OR10Q1	219960	genome.wustl.edu	37	11	57996293	57996293	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001004471.2	-1	validated	p.R19C	0.964	225	0%	202	20.8%	0	-	probably_damaging(1)	tolerated(0.08)	deleterious(0.800)	superfamily_SSF81321
OR5B12	390191	genome.wustl.edu	37	11	58206772	58206772	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001004733.2	-1	validated	p.P285S	0.907	295	0%	95	26.3%	0	-	probably_damaging(1)	deleterious(0.01)	deleterious(0.905)	HMMPfam_7tm_1,superfamily_SSF81321
OR5B21	219968	genome.wustl.edu	37	11	58275091	58275091	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001005218.1	-1	provisional	p.R163I	0.006	108	0%	43	20.9%	0	-	benign(0.134)	tolerated(0.07)	neutral(0.331)	HMMPfam_7tm_1,superfamily_SSF81321
CNTF	1270	genome.wustl.edu	37	11	58391865	58391865	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_000614.3	+1	reviewed	p.G158D	1.000	132	0%	32	18.8%	0	-	probably_damaging(0.999)	deleterious(0)	deleterious(0.935)	HMMPfam_CNTF,superfamily_4-helical cytokines
FAM111A	63901	genome.wustl.edu	37	11	58920195	58920195	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001142519.1	+1	validated	p.R352C	0.000	129	0.8%	126	11.9%	1	0%	possibly_damaging(0.606)	tolerated(0.1)	deleterious(0.496)	superfamily_Pept_Ser_Cys
OR4D6	219983	genome.wustl.edu	37	11	59224780	59224780	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001004708.1	+1	provisional	p.S116Y	0.992	506	0%	202	30.2%	0	-	probably_damaging(0.988)	deleterious(0)	deleterious(0.882)	HMMPfam_7tm_1,PatternScan_G_PROTEIN_RECEP_F1_1,superfamily_SSF81321
OR10V1	390201	genome.wustl.edu	37	11	59480736	59480736	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001005324.1	-1	provisional	p.V195I	0.001	77	0%	32	21.9%	0	-	benign(0.001)	tolerated(0.86)	neutral(0.001)	HMMPfam_7tm_1,superfamily_SSF81321
OR10V1	390201	genome.wustl.edu	37	11	59480925	59480925	+	Nonsense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001005324.1	-1	provisional	p.R132*	0.999	92	0%	59	10.2%	0	-	-	-	-	HMMPfam_7tm_1,superfamily_SSF81321
MS4A7	58475	genome.wustl.edu	37	11	60157009	60157009	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_021201.4	+1	reviewed	p.S162	0.001	169	0%	55	10.9%	3	0%	-	-	-	HMMPfam_CD20
MS4A7	58475	genome.wustl.edu	37	11	60157012	60157012	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_021201.4	+1	reviewed	p.E163D	0.000	163	0%	57	22.8%	3	0%	possibly_damaging(0.496)	tolerated(0.62)	neutral(0.170)	HMMPfam_CD20
MS4A1	931	genome.wustl.edu	37	11	60235844	60235844	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_021950.3	+1	reviewed	p.P266Q	0.997	268	0.4%	110	21.8%	13	0%	probably_damaging(0.996)	deleterious(0.01)	deleterious(0.867)	NULL
MS4A12	54860	genome.wustl.edu	37	11	60264799	60264799	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_017716.2	+1	reviewed	p.S3L	0.009	178	0%	197	28.4%	0	-	benign(0.147)	deleterious(0)	neutral(0.458)	NULL
MS4A12	54860	genome.wustl.edu	37	11	60274590	60274590	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_017716.2	+1	reviewed	p.P266H	0.000	347	0.3%	430	20.2%	0	-	possibly_damaging(0.903)	deleterious(0)	deleterious(0.802)	NULL
MS4A13	503497	genome.wustl.edu	37	11	60285599	60285599	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001012417.2	+1	validated	p.V15I	0.001	516	0%	522	10.3%	0	-	benign(0.018)	tolerated(0.84)	neutral(0.001)	HMMPfam_CD20
MS4A8B	83661	genome.wustl.edu	37	11	60482554	60482554	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_031457.1	+1	reviewed	p.A199T	0.000	225	0%	76	14.5%	0	-	benign(0.258)	tolerated(0.1)	neutral(0.314)	HMMPfam_CD20
PTGDR2	11251	genome.wustl.edu	37	11	60620675	60620675	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_004778.2	-1	reviewed	p.S174L	0.001	29	0%	48	14.6%	0	-	benign(0)	tolerated(0.68)	neutral(0.002)	HMMPfam_7tm_1,superfamily_Family A G protein-coupled receptor-like
TMEM132A	54972	genome.wustl.edu	37	11	60694877	60694877	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_017870.3	+1	reviewed	p.F101S	0.965	49	0%	88	15.9%	13	0%	probably_damaging(0.963)	tolerated(0.08)	deleterious(0.706)	NULL
PGA5	5222	genome.wustl.edu	37	11	61018606	61018606	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_014224.2	+1	validated	p.S340	0.000	304	0.3%	156	24.4%	1	0%	-	-	-	HMMPfam_Asp,superfamily_Pept_Aspartic
VWCE	220001	genome.wustl.edu	37	11	61048312	61048312	+	Missense_Mutation	SNP	A	A	C	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_152718.2	-1	validated	p.S395A	0.000	57	0%	132	28.8%	3	0%	possibly_damaging(0.94)	deleterious(0.01)	deleterious(0.790)	HMMPfam_VWC,HMMSmart_SM00214
DDB1	1642	genome.wustl.edu	37	11	61089135	61089135	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001923.3	-1	validated	p.S386Y	1.000	232	0%	131	11.5%	8	0%	probably_damaging(1)	deleterious(0)	deleterious(0.945)	NULL
DAK	26007	genome.wustl.edu	37	11	61110818	61110818	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_015533.3	+1	reviewed	p.G290	0.857	153	0%	195	25.6%	9	11.1%	-	-	-	HMMPfam_Dak1,superfamily_DAK1/DegV-like
CPSF7	79869	genome.wustl.edu	37	11	61178567	61178567	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_024811.3	-1	validated	p.R465C	1.000	77	0%	29	24.1%	18	11.1%	probably_damaging(0.994)	deleterious(0)	deleterious(0.897)	NULL
SYT7	9066	genome.wustl.edu	37	11	61295579	61295579	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_004200.2	-1	validated	p.G144S	1.000	90	0%	137	12.4%	0	-	benign(0.033)	tolerated(0.55)	neutral(0.009)	superfamily_C2_CaLB
DAGLA	747	genome.wustl.edu	37	11	61504725	61504725	+	Silent	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_006133.1	+1	validated	p.L481	1.000	139	0%	185	21.6%	0	-	-	-	-	HMMPfam_Lipase_3,superfamily_SSF53474
DAGLA	747	genome.wustl.edu	37	11	61505167	61505167	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_006133.1	+1	validated	p.A508V	1.000	102	0%	171	33.3%	0	-	possibly_damaging(0.582)	tolerated(0.15)	neutral(0.441)	superfamily_SSF53474
DAGLA	747	genome.wustl.edu	37	11	61511571	61511571	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_006133.1	+1	validated	p.F913	0.995	30	0%	54	13%	0	-	-	-	-	NULL
FADS2	9415	genome.wustl.edu	37	11	61615676	61615676	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_004265.2	+1	reviewed	p.A222T	1.000	203	0%	134	9.7%	23	0%	probably_damaging(1)	deleterious(0)	deleterious(0.945)	HMMPfam_FA_desaturase
RAB3IL1	5866	genome.wustl.edu	37	11	61674154	61674154	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_013401.2	-1	provisional	p.I147	0.879	61	0%	88	28.4%	51	0%	-	-	-	HMMPfam_Sec2p
RAB3IL1	5866	genome.wustl.edu	37	11	61675533	61675533	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_013401.2	-1	provisional	p.A86V	1.000	51	0%	79	16.5%	34	0%	possibly_damaging(0.671)	deleterious(0.05)	deleterious(0.583)	HMMPfam_Sec2p
RAB3IL1	5866	genome.wustl.edu	37	11	61675627	61675627	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_013401.2	-1	provisional	p.A55T	0.000	22	0%	39	35.9%	20	0%	benign(0.002)	tolerated(0.79)	neutral(0.001)	NULL
BEST1	7439	genome.wustl.edu	37	11	61725824	61725824	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	ENST00000435278	+1	known	p.G307	0.000	106	0%	159	28.9%	1	0%	-	-	-	HMMPfam_Bestrophin
ASRGL1	80150	genome.wustl.edu	37	11	62156695	62156695	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001083926.1	+1	validated	p.V194	0.009	155	0%	88	12.5%	15	13.3%	-	-	-	HMMPfam_Asparaginase_2,superfamily_N-terminal nucleophile aminohydrolases (Ntn hydrolases)
ASRGL1	80150	genome.wustl.edu	37	11	62159031	62159031	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001083926.1	+1	validated	p.V216	0.872	160	0%	77	24.7%	31	38.7%	-	-	-	HMMPfam_Asparaginase_2,superfamily_N-terminal nucleophile aminohydrolases (Ntn hydrolases)
AHNAK	79026	genome.wustl.edu	37	11	62289905	62289905	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001620.1	-1	validated	p.N3995S	1.000	414	0%	145	19.3%	7	0%	benign(0.317)	tolerated(0.3)	neutral(0.128)	NULL
AHNAK	79026	genome.wustl.edu	37	11	62296163	62296163	+	Missense_Mutation	SNP	T	T	G	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001620.1	-1	validated	p.K1909T	0.958	481	0.2%	310	13.2%	4	0%	benign(0)	tolerated(0.58)	neutral(0.005)	NULL
AHNAK	79026	genome.wustl.edu	37	11	62296546	62296546	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001620.1	-1	validated	p.V1781	0.132	212	0%	166	22.9%	4	25%	-	-	-	NULL
AHNAK	79026	genome.wustl.edu	37	11	62297243	62297243	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001620.1	-1	validated	p.D1549G	0.912	322	0%	189	14.8%	5	0%	benign(0.408)	tolerated(0.31)	neutral(0.159)	HMMPfam_CheC
AHNAK	79026	genome.wustl.edu	37	11	62298397	62298397	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001620.1	-1	validated	p.I1164	0.049	317	0%	189	26.5%	4	0%	-	-	-	HMMPfam_CheC
AHNAK	79026	genome.wustl.edu	37	11	62300889	62300889	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001620.1	-1	validated	p.P334S	0.896	64	0%	60	31.7%	1	0%	probably_damaging(0.999)	deleterious(0)	deleterious(0.935)	NULL
TUT1	64852	genome.wustl.edu	37	11	62327833	62327833	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	ENST00000424909	-1	known	p.T189M	0.996	157	0%	89	21.3%	1436	19.9%	-	-	-	NULL
EEF1G	1937	genome.wustl.edu	37	11	62339348	62339348	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001404.4	-1	reviewed	p.G66E	1.000	178	0%	191	28.8%	596	12%	probably_damaging(0.995)	deleterious(0)	deleterious(0.902)	HMMPfam_GST_N,superfamily_Thioredoxin-like
EEF1G	1937	genome.wustl.edu	37	11	62340137	62340137	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001404.4	-1	reviewed	p.R30	0.999	131	0.8%	128	32%	374	12.2%	-	-	-	HMMPfam_GST_N,superfamily_Thioredoxin-like
TUT1	64852	genome.wustl.edu	37	11	62348952	62348952	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	ENST00000463241	-1	known	p.A206T	0.898	60	0%	42	19%	6	33.3%	-	-	-	NULL
ROM1	6094	genome.wustl.edu	37	11	62381260	62381260	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_000327.3	+1	reviewed	p.C169	0.977	60	0%	86	29.1%	2	0%	-	-	-	superfamily_Tetraspanin,HMMPfam_Tetraspannin
GANAB	23193	genome.wustl.edu	37	11	62398656	62398656	+	Splice_Site	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_198335.2	-1	validated	e11-1	1.000	118	0%	121	20.7%	0	-	-	-	-	-
INTS5	80789	genome.wustl.edu	37	11	62415241	62415241	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_030628.1	-1	provisional	p.E771K	1.000	57	0%	109	14.7%	14	0%	possibly_damaging(0.586)	tolerated(0.71)	neutral(0.204)	NULL
INTS5	80789	genome.wustl.edu	37	11	62416575	62416575	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_030628.1	-1	provisional	p.G326E	0.956	19	0%	38	18.4%	9	22.2%	benign(0.02)	tolerated(0.94)	neutral(0.001)	NULL
BSCL2	26580	genome.wustl.edu	37	11	62472822	62472822	+	Missense_Mutation	SNP	A	A	C	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001122955.2	-1	reviewed	p.S119A	1.000	115	0%	169	13%	24	8.3%	benign(0.384)	tolerated(0.23)	neutral(0.164)	HMMPfam_Seipin
HNRNPUL2	221092	genome.wustl.edu	37	11	62484636	62484636	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001079559.1	-1	provisional	p.C602	0.980	132	0%	109	22.9%	134	22.3%	-	-	-	superfamily_SSF52540
HNRNPUL2	221092	genome.wustl.edu	37	11	62489408	62489408	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001079559.1	-1	provisional	p.L456	1.000	266	0%	276	26.8%	64	18.7%	-	-	-	superfamily_SSF52540
HNRNPUL2	221092	genome.wustl.edu	37	11	62491191	62491191	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001079559.1	-1	provisional	p.S253	0.997	246	0%	296	25%	28	3.5%	-	-	-	NULL
TMEM223	79064	genome.wustl.edu	37	11	62558184	62558184	+	Nonsense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001080501.2	-1	validated	p.R174*	1.000	95	0%	176	30.1%	89	38.2%	-	-	-	NULL
NXF1	10482	genome.wustl.edu	37	11	62563655	62563655	+	Splice_Site	SNP	T	T	C	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_006362.4	-1	reviewed	e16-2	1.000	317	0%	377	29.7%	8	100%	-	-	-	-
STX5	6811	genome.wustl.edu	37	11	62598573	62598573	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_003164.3	-1	validated	p.V48A	0.774	12	0%	28	21.4%	10	10%	benign(0)	tolerated(0.35)	neutral(0.021)	NULL
SLC22A6	9356	genome.wustl.edu	37	11	62744337	62744337	+	Nonsense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_004790.3	-1	reviewed	p.R541*	0.001	379	0.8%	147	30.6%	0	-	-	-	-	NULL
SLC22A6	9356	genome.wustl.edu	37	11	62747256	62747256	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_004790.3	-1	reviewed	p.A401V	0.998	41	0%	39	25.6%	0	-	benign(0)	tolerated(1)	-	HMMPfam_MFS_1,superfamily_MFS general substrate transporter
SLC22A8	9376	genome.wustl.edu	37	11	62760730	62760730	+	Silent	SNP	T	T	C	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_004254.3	-1	reviewed	p.G536	0.000	120	0%	69	24.6%	0	-	-	-	-	NULL
SLC22A24	283238	genome.wustl.edu	37	11	62849117	62849117	+	Missense_Mutation	SNP	A	A	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001136506.1	-1	validated	p.V436D	0.000	260	0%	51	27.5%	0	-	probably_damaging(0.961)	tolerated(0.09)	deleterious(0.701)	HMMPfam_MFS_1,superfamily_MFS general substrate transporter
SLC22A25	387601	genome.wustl.edu	37	11	62996833	62996833	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_199352.3	-1	validated	p.L98F	0.724	247	0%	55	12.7%	0	-	benign(0.333)	tolerated(0.06)	neutral(0.427)	NULL
SLC22A10	387775	genome.wustl.edu	37	11	63066471	63066471	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001039752.3	+1	validated	p.R304C	0.466	307	0%	76	22.4%	0	-	benign(0.279)	tolerated(0.2)	neutral(0.079)	HMMPfam_MFS_1,superfamily_MFS general substrate transporter
SLC22A9	114571	genome.wustl.edu	37	11	63174177	63174177	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_080866.2	+1	validated	p.P428S	0.369	263	0%	39	23.1%	0	-	possibly_damaging(0.728)	deleterious(0.01)	deleterious(0.671)	HMMPfam_MFS_1,superfamily_MFS general substrate transporter
RTN3	10313	genome.wustl.edu	37	11	63520079	63520079	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_201428.1	+1	validated	p.R928C	1.000	452	0%	304	25%	34	14.7%	probably_damaging(1)	deleterious(0)	deleterious(0.945)	HMMPfam_Reticulon
C11orf95	65998	genome.wustl.edu	37	11	63533608	63533608	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001144936.1	-1	predicted	p.R103H	1.000	84	0%	143	28.7%	3	0%	-	-	-	NULL
FLRT1	23769	genome.wustl.edu	37	11	63883866	63883866	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_013280.4	+1	reviewed	p.A43T	0.997	31	0%	69	33.3%	0	-	benign(0.01)	tolerated(0.62)	neutral(0.005)	NULL
FLRT1	23769	genome.wustl.edu	37	11	63884951	63884951	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_013280.4	+1	reviewed	p.T404	0.012	59	1.7%	72	16.7%	2	0%	-	-	-	NULL
FERMT3	83706	genome.wustl.edu	37	11	63979168	63979168	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_178443.2	+1	reviewed	p.D245	0.942	108	0%	161	11.8%	3	0%	-	-	-	HMMSmart_SM00295
FERMT3	83706	genome.wustl.edu	37	11	63988513	63988513	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_178443.2	+1	reviewed	p.H528R	1.000	50	0%	85	18.8%	32	0%	benign(0.332)	tolerated(0.06)	neutral(0.426)	PatternScan_FERM_2,HMMPfam_FERM_M,superfamily_Second domain of FERM,HMMSmart_SM00295
DNAJC4	3338	genome.wustl.edu	37	11	64000307	64000307	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_005528.3	+1	validated	p.A166V	0.320	82	0%	126	29.4%	165	26.6%	benign(0.008)	tolerated(0.13)	neutral(0.253)	NULL
PLCB3	5331	genome.wustl.edu	37	11	64029919	64029919	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_000932.2	+1	reviewed	p.N693	0.268	42	0%	109	23.9%	7	28.5%	-	-	-	HMMPfam_PI-PLC-Y,HMMSmart_SM00149,superfamily_PLC-like phosphodiesterases
RPS6KA4	8986	genome.wustl.edu	37	11	64126759	64126759	+	Nonsense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_003942.2	+1	reviewed	p.E18*	0.958	54	0%	80	16.3%	1	0%	-	-	-	superfamily_Protein kinase-like (PK-like)
RPS6KA4	8986	genome.wustl.edu	37	11	64137303	64137303	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_003942.2	+1	reviewed	p.E579K	0.998	19	0%	27	22.2%	16	37.5%	probably_damaging(0.995)	deleterious(0)	deleterious(0.902)	HMMSmart_SM00220,superfamily_Protein kinase-like (PK-like),HMMPfam_Pkinase
SLC22A11	55867	genome.wustl.edu	37	11	64323591	64323591	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_018484.2	+1	reviewed	p.F40L	0.487	124	0%	188	21.3%	3	33.3%	probably_damaging(1)	deleterious(0)	deleterious(0.945)	NULL
SLC22A12	116085	genome.wustl.edu	37	11	64359373	64359373	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	ENST00000336464	+1	known	p.R114H	0.227	24	0%	33	15.2%	0	-	-	-	-	NULL
NRXN2	9379	genome.wustl.edu	37	11	64398003	64398003	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_015080.2	-1	reviewed	p.D1210N	1.000	74	0%	107	16.8%	8	0%	probably_damaging(0.995)	deleterious(0)	deleterious(0.902)	HMMSmart_SM00282,superfamily_Concanavalin A-like lectins/glucanases,HMMPfam_Laminin_G_2
NRXN2	9379	genome.wustl.edu	37	11	64453302	64453302	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_015080.2	-1	reviewed	p.R323H	1.000	351	0%	211	12.3%	0	-	probably_damaging(1)	tolerated(0.06)	deleterious(0.823)	HMMSmart_SM00282,superfamily_Concanavalin A-like lectins/glucanases,HMMPfam_Laminin_G_2
RASGRP2	10235	genome.wustl.edu	37	11	64507150	64507150	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001098670.1	-1	reviewed	p.P218	0.040	103	0%	172	25%	5	0%	-	-	-	HMMPfam_RasGEF,HMMSmart_SM00147,superfamily_Ras GEF
PYGM	5837	genome.wustl.edu	37	11	64514783	64514783	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_005609.2	-1	reviewed	p.V742A	0.959	113	0%	179	28.5%	2	0%	benign(0)	tolerated(0.42)	neutral(0.014)	HMMPfam_Phosphorylase,superfamily_SSF53756
PYGM	5837	genome.wustl.edu	37	11	64520607	64520607	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_005609.2	-1	reviewed	p.G486S	1.000	95	0%	194	22.2%	1	0%	probably_damaging(1)	deleterious(0)	deleterious(0.945)	HMMPfam_Phosphorylase,superfamily_SSF53756
MAP4K2	5871	genome.wustl.edu	37	11	64569746	64569746	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	ENST00000429540	-1	known	p.I152T	0.000	6	0.000	33	0.333	0	-	-	-	-	NULL
MEN1	4221	genome.wustl.edu	37	11	64577225	64577225	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_000244.3	-1	reviewed	p.K119	1.000	101	0%	199	23.6%	7	14.2%	-	-	-	HMMPfam_Menin
ATG2A	23130	genome.wustl.edu	37	11	64665374	64665374	+	Missense_Mutation	SNP	G	G	A	rs190479823	by1000genomes	TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_015104.2	-1	validated	p.S1644L	0.001	39	0%	62	22.6%	27	14.8%	benign(0.039)	tolerated(0.06)	neutral(0.325)	NULL
ATG2A	23130	genome.wustl.edu	37	11	64681916	64681916	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	ENST00000377262	-1	known	p.R74C	0.987	28	0%	61	24.6%	2	0%	unknown(0)	-	-	NULL
PPP2R5B	5526	genome.wustl.edu	37	11	64698012	64698012	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_006244.3	+1	reviewed	p.V281A	1.000	202	0%	240	28.3%	18	0%	probably_damaging(0.999)	tolerated(0.45)	deleterious(0.502)	HMMPfam_B56
GPHA2	170589	genome.wustl.edu	37	11	64702302	64702302	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_130769.3	-1	validated	p.L111	0.740	39	0%	50	16%	0	-	-	-	-	NULL
TM7SF2	7108	genome.wustl.edu	37	11	64882440	64882440	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_003273.2	+1	validated	p.A260V	0.996	142	0%	321	28.7%	31	25.8%	benign(0.001)	tolerated(0.34)	neutral(0.023)	HMMPfam_ERG4_ERG24
TM7SF2	7108	genome.wustl.edu	37	11	64883423	64883423	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_003273.2	+1	validated	p.H385	1.000	47	0%	88	25%	120	49.1%	-	-	-	HMMPfam_ERG4_ERG24,PatternScan_STEROL_REDUCT_2
CAPN1	823	genome.wustl.edu	37	11	64974101	64974101	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_005186.2	+1	reviewed	p.G507	0.994	29	0%	48	16.7%	57	22.8%	-	-	-	HMMPfam_Calpain_III,HMMSmart_calpain_III,superfamily_Peptidase_C2
SLC22A20	440044	genome.wustl.edu	37	11	64981393	64981393	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001004326.4	+1	validated	p.R17H	1.000	25	0%	38	42.1%	0	-	-	-	-	NULL
TIGD3	220359	genome.wustl.edu	37	11	65123309	65123309	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_145719.2	+1	reviewed	p.H10	0.924	35	0%	57	24.6%	0	-	-	-	-	HMMPfam_CENP-B_N,superfamily_Homeodomain_like
TIGD3	220359	genome.wustl.edu	37	11	65124630	65124630	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_145719.2	+1	reviewed	p.S451P	0.805	102	0%	142	14.8%	1	0%	benign(0.148)	tolerated(0.22)	neutral(0.055)	NULL
SCYL1	57410	genome.wustl.edu	37	11	65294551	65294551	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_020680.3	+1	reviewed	p.R271H	1.000	94	0%	159	22.6%	27	22.2%	probably_damaging(0.968)	tolerated(0.1)	deleterious(0.696)	superfamily_ARM repeat
SCYL1	57410	genome.wustl.edu	37	11	65304188	65304188	+	Nonsense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_020680.3	+1	reviewed	p.E595*	0.007	271	0.4%	430	10.2%	106	0.9%	-	-	-	NULL
LTBP3	4054	genome.wustl.edu	37	11	65309114	65309114	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001130144.2	-1	reviewed	p.C894	0.929	82	0%	144	10.4%	56	0%	-	-	-	PatternScan_ASX_HYDROXYL,HMMSmart_SM00179,HMMSmart_SM00181,PatternScan_EGF_2,HMMPfam_EGF_CA,superfamily_EGF/Laminin
SSSCA1	10534	genome.wustl.edu	37	11	65338157	65338157	+	Silent	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_006396.1	+1	provisional	p.I34	1.000	63	0%	89	23.6%	47	34%	-	-	-	HMMPfam_Auto_anti-p27
EHBP1L1	254102	genome.wustl.edu	37	11	65350150	65350150	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001099409.1	+1	validated	p.T669	0.000	156	0%	256	13.7%	11	0%	-	-	-	NULL
EHBP1L1	254102	genome.wustl.edu	37	11	65350477	65350477	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001099409.1	+1	validated	p.E778D	0.000	129	0%	215	26.5%	13	15.3%	possibly_damaging(0.948)	tolerated(0.21)	neutral(0.435)	NULL
EHBP1L1	254102	genome.wustl.edu	37	11	65350573	65350573	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001099409.1	+1	validated	p.A810	0.000	127	0%	150	18%	4	0%	-	-	-	NULL
EHBP1L1	254102	genome.wustl.edu	37	11	65350794	65350794	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001099409.1	+1	validated	p.S884L	0.000	153	0%	243	11.9%	12	8.3%	benign(0.001)	deleterious(0)	neutral(0.445)	NULL
EHBP1L1	254102	genome.wustl.edu	37	11	65350853	65350853	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001099409.1	+1	validated	p.A904T	0.000	176	0%	319	26.3%	13	7.6%	benign(0.073)	deleterious(0.01)	neutral(0.411)	NULL
PCNXL3	399909	genome.wustl.edu	37	11	65403019	65403019	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_032223.2	+1	validated	p.R1735H	0.999	17	0%	24	45.8%	17	23.5%	probably_damaging(1)	deleterious(0)	deleterious(0.945)	HMMPfam_Pecanex_C
RELA	5970	genome.wustl.edu	37	11	65423207	65423207	+	Nonsense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_021975.3	-1	validated	p.R329*	0.964	236	0%	394	11.9%	61	3.2%	-	-	-	NULL
RELA	5970	genome.wustl.edu	37	11	65423394	65423394	+	Missense_Mutation	SNP	C	C	T	rs142033286	by1000genomes	TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_021975.3	-1	validated	p.R297Q	1.000	321	0%	420	26.2%	57	5.2%	benign(0.338)	tolerated(0.53)	neutral(0.114)	superfamily_E set domains
AP5B1	91056	genome.wustl.edu	37	11	65545685	65545685	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_138368.3	-1	validated	p.F703S	0.004	66	0%	160	24.4%	15	6.6%	-	-	-	NULL
SNX32	254122	genome.wustl.edu	37	11	65617660	65617660	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_152760.2	+1	validated	p.R98G	0.012	63	0%	119	10.9%	1	0%	-	-	-	HMMPfam_PX,superfamily_PX domain
EFEMP2	30008	genome.wustl.edu	37	11	65635408	65635408	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_016938.3	-1	reviewed	p.A365V	1.000	106	0%	179	12.3%	154	0%	probably_damaging(0.99)	deleterious(0.01)	deleterious(0.847)	NULL
EFEMP2	30008	genome.wustl.edu	37	11	65638023	65638023	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_016938.3	-1	reviewed	p.I158	0.056	74	0%	142	12%	113	0%	-	-	-	HMMSmart_EGF_CA,PatternScan_EGF_2,HMMPfam_EGF_CA,superfamily_SSF57196
EFEMP2	30008	genome.wustl.edu	37	11	65639778	65639778	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_016938.3	-1	reviewed	p.A16	1.000	44	0%	82	24.4%	21	0%	-	-	-	NULL
DRAP1	10589	genome.wustl.edu	37	11	65687870	65687870	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_006442.3	+1	reviewed	p.S89Y	0.212	62	0%	102	10.8%	263	3%	possibly_damaging(0.836)	deleterious(0.01)	deleterious(0.725)	superfamily_Histone-fold
DRAP1	10589	genome.wustl.edu	37	11	65688826	65688826	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_006442.3	+1	reviewed	p.A180T	0.350	98	0%	157	28%	357	25.2%	benign(0)	tolerated(1)	-	NULL
SART1	9092	genome.wustl.edu	37	11	65733829	65733829	+	Silent	SNP	T	T	C	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_005146.4	+1	reviewed	p.P330	0.996	60	0%	98	11.2%	71	23.9%	-	-	-	HMMPfam_SART-1
SART1	9092	genome.wustl.edu	37	11	65734962	65734962	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_005146.4	+1	reviewed	p.R445H	0.005	45	2.2%	71	28.2%	42	11.9%	possibly_damaging(0.897)	tolerated(0.55)	neutral(0.361)	HMMPfam_SART-1
CATSPER1	117144	genome.wustl.edu	37	11	65793011	65793011	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_053054.3	-1	reviewed	p.G280	0.000	603	0%	731	25.7%	0	-	-	-	-	superfamily_Voltage-gated potassium channels
SF3B2	10992	genome.wustl.edu	37	11	65835453	65835453	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_006842.2	+1	reviewed	p.E789D	1.000	172	0%	236	12.7%	156	1.2%	probably_damaging(0.999)	deleterious(0.02)	deleterious(0.873)	NULL
PACS1	55690	genome.wustl.edu	37	11	66010643	66010643	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_018026.2	+1	reviewed	p.I928	0.994	105	0%	146	13.7%	34	0%	-	-	-	HMMPfam_Pacs-1
RAB1B	81876	genome.wustl.edu	37	11	66043552	66043552	+	Nonsense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	ENST00000314965	+1	known	p.R150*	1.000	197	0%	277	11.6%	59	11.8%	-	-	-	HMMSmart_SM00173
CD248	57124	genome.wustl.edu	37	11	66082365	66082365	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_020404.2	-1	validated	p.R712C	1.000	49	0%	71	11.3%	123	0%	probably_damaging(1)	deleterious(0)	deleterious(0.945)	NULL
LOC100128074	100128074	genome.wustl.edu	37	11	66113896	66113896	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	XM_001716221.1	+1	model	p.P44H	0.000	22	0%	62	27.4%	0	-	-	-	-	NULL
B3GNT1	11041	genome.wustl.edu	37	11	66114221	66114221	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_006876.2	-1	reviewed	p.R266C	1.000	26	0%	62	16.1%	14	0%	possibly_damaging(0.948)	tolerated(0.21)	neutral(0.435)	NULL
NPAS4	266743	genome.wustl.edu	37	11	66190620	66190620	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_178864.3	+1	validated	p.R242H	1.000	180	0%	251	12.7%	0	-	benign(0.001)	tolerated(0.09)	neutral(0.296)	HMMSmart_PAS,HMMPfam_PAS_3,superfamily_SSF55785
NPAS4	266743	genome.wustl.edu	37	11	66192008	66192008	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_178864.3	+1	validated	p.F549	0.997	129	0%	255	29.8%	0	-	-	-	-	NULL
NPAS4	266743	genome.wustl.edu	37	11	66192150	66192150	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_178864.3	+1	validated	p.P597S	0.997	63	0%	79	15.2%	0	-	probably_damaging(0.999)	deleterious(0)	deleterious(0.935)	NULL
NPAS4	266743	genome.wustl.edu	37	11	66192482	66192482	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_178864.3	+1	validated	p.E707D	1.000	83	0%	132	17.4%	0	-	benign(0.039)	deleterious(0)	neutral(0.447)	NULL
ACTN3	89	genome.wustl.edu	37	11	66319035	66319035	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001104.1	+1	reviewed	p.R100H	1.000	180	0%	214	30.8%	0	-	probably_damaging(1)	deleterious(0)	deleterious(0.945)	HMMPfam_CH,HMMSmart_SM00033,superfamily_Calponin-homology domain CH-domain
ACTN3	89	genome.wustl.edu	37	11	66321573	66321573	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001104.1	+1	reviewed	p.R147H	1.000	218	0%	273	23.8%	0	-	probably_damaging(0.998)	deleterious(0)	deleterious(0.919)	HMMPfam_CH,HMMSmart_SM00033,superfamily_Calponin-homology domain CH-domain
ACTN3	89	genome.wustl.edu	37	11	66325574	66325574	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001104.1	+1	reviewed	p.R402H	1.000	33	0%	64	18.8%	0	-	probably_damaging(1)	deleterious(0)	deleterious(0.945)	superfamily_Spectrin repeat
ACTN3	89	genome.wustl.edu	37	11	66328786	66328786	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001104.1	+1	reviewed	p.A650V	1.000	61	0%	82	14.6%	0	-	probably_damaging(0.998)	deleterious(0.02)	deleterious(0.857)	HMMPfam_Spectrin,superfamily_Spectrin repeat
CCDC87	55231	genome.wustl.edu	37	11	66358550	66358550	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_018219.2	-1	validated	p.P646Q	0.948	119	0%	229	12.2%	0	-	benign(0.122)	tolerated(0.62)	neutral(0.014)	NULL
CCDC87	55231	genome.wustl.edu	37	11	66360114	66360114	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_018219.2	-1	validated	p.E125K	0.976	24	0%	38	31.6%	0	-	probably_damaging(0.992)	deleterious(0)	deleterious(0.892)	NULL
RBM4B	83759	genome.wustl.edu	37	11	66444500	66444500	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_031492.2	-1	provisional	p.E17D	1.000	224	0.4%	342	11.7%	12	0%	possibly_damaging(0.523)	tolerated(0.3)	neutral(0.205)	HMMPfam_RRM_1,HMMSmart_SM00360,superfamily_RNA-binding domain RBD
PC	5091	genome.wustl.edu	37	11	66617449	66617449	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_000920.3	-1	reviewed	p.G953C	1.000	37	0%	56	28.6%	5	20%	probably_damaging(1)	deleterious(0)	deleterious(0.945)	HMMPfam_PYC_OADA,superfamily_SSF89000
PC	5091	genome.wustl.edu	37	11	66619271	66619271	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_000920.3	-1	reviewed	p.V658M	1.000	82	0%	128	12.5%	2	0%	possibly_damaging(0.74)	deleterious(0)	deleterious(0.716)	HMMPfam_HMGL-like,superfamily_SSF51569
PC	5091	genome.wustl.edu	37	11	66619405	66619405	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_000920.3	-1	reviewed	p.D613G	1.000	38	0%	81	25.9%	3	0%	probably_damaging(1)	deleterious(0)	deleterious(0.945)	HMMPfam_HMGL-like,superfamily_SSF51569
LRFN4	78999	genome.wustl.edu	37	11	66625782	66625782	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_024036.4	+1	validated	p.F189	0.982	18	0%	96	24%	11	18.1%	-	-	-	HMMPfam_LRR_1,HMMSmart_LRR_TYP,superfamily_SSF52058
ADRBK1	156	genome.wustl.edu	37	11	67052657	67052657	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001619.3	+1	reviewed	p.D635N	0.997	56	1.8%	137	25.5%	80	18.7%	benign(0)	tolerated(0.25)	neutral(0.037)	HMMPfam_PH,HMMSmart_PH,superfamily_SSF50729
ANKRD13D	338692	genome.wustl.edu	37	11	67057574	67057574	+	Missense_Mutation	SNP	G	G	A	rs183188841	by1000genomes	TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	ENST00000447274	+1	known	p.R39H	1.000	68	0%	130	16.2%	3	33.3%	probably_damaging(1)	tolerated(0.16)	deleterious(0.559)	HMMPfam_Ank,HMMSmart_SM00248,superfamily_Ankyrin repeat
ANKRD13D	338692	genome.wustl.edu	37	11	67057825	67057825	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	ENST00000447274	+1	known	p.E87K	1.000	43	0%	94	24.5%	6	16.6%	possibly_damaging(0.919)	deleterious(0.02)	deleterious(0.752)	HMMPfam_Ank,HMMSmart_SM00248,superfamily_Ankyrin repeat
ANKRD13D	338692	genome.wustl.edu	37	11	67059649	67059649	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_207354.2	+1	validated	p.E156	1.000	48	0%	75	13.3%	18	11.1%	-	-	-	NULL
GPR152	390212	genome.wustl.edu	37	11	67219175	67219175	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_206997.1	-1	validated	p.L341	0.017	64	0%	97	23.7%	0	-	-	-	-	NULL
GSTP1	2950	genome.wustl.edu	37	11	67354012	67354012	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	ENST00000398606	+1	known	p.Y199	0.047	82	0%	95	21.1%	2661	31.6%	-	-	-	superfamily_GST_C_like
TBX10	347853	genome.wustl.edu	37	11	67402549	67402549	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_005995.3	-1	provisional	p.V65M	0.877	77	0%	136	15.4%	0	-	probably_damaging(0.998)	deleterious(0.01)	deleterious(0.880)	HMMSmart_TBOX,superfamily_P53_like_DNA_bnd
UNC93B1	81622	genome.wustl.edu	37	11	67764106	67764106	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_030930.2	-1	reviewed	p.S352L	0.997	84	0%	180	30%	14	35.7%	-	-	-	NULL
UNC93B1	81622	genome.wustl.edu	37	11	67765222	67765222	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	ENST00000227471	-1	known	p.R277W	0.837	42	0%	62	22.6%	18	38.8%	possibly_damaging(0.775)	tolerated(0.14)	deleterious(0.538)	NULL
TCIRG1	10312	genome.wustl.edu	37	11	67815373	67815373	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_006019.2	+1	reviewed	p.T496	0.000	73	0%	128	11.7%	68	10.2%	-	-	-	HMMPfam_V_ATPase_I
SUV420H1	51111	genome.wustl.edu	37	11	67942626	67942626	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_017635.3	-1	reviewed	p.Q134H	0.814	386	0.3%	101	9.9%	5	0%	probably_damaging(0.992)	tolerated(0.1)	deleterious(0.734)	NULL
SUV420H1	51111	genome.wustl.edu	37	11	67953363	67953363	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_017635.3	-1	reviewed	p.R65C	1.000	335	0%	101	16.8%	4	50%	probably_damaging(1)	deleterious(0)	deleterious(0.945)	NULL
C11orf24	53838	genome.wustl.edu	37	11	68030363	68030363	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_022338.3	-1	validated	p.W34R	0.000	94	0%	78	12.8%	27	0%	probably_damaging(0.978)	deleterious(0)	deleterious(0.865)	NULL
LRP5	4041	genome.wustl.edu	37	11	68157518	68157518	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_002335.2	+1	reviewed	p.E528K	1.000	165	0.6%	333	27%	2	0%	probably_damaging(1)	deleterious(0)	deleterious(0.945)	HMMPfam_Ldl_recept_b,HMMSmart_SM00135,superfamily_YWTD domain
LRP5	4041	genome.wustl.edu	37	11	68201119	68201119	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_002335.2	+1	reviewed	p.I1271	0.710	24	0%	58	15.5%	11	0%	-	-	-	HMMPfam_Ldl_recept_a,HMMSmart_SM00192,superfamily_LDL receptor-like module,superfamily_EGF/Laminin
LRP5	4041	genome.wustl.edu	37	11	68216357	68216357	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_002335.2	+1	reviewed	p.R1556H	1.000	40	0%	54	11.1%	124	4%	benign(0.123)	deleterious(0.05)	neutral(0.355)	NULL
PPP6R3	55291	genome.wustl.edu	37	11	68370929	68370929	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_018312.4	+1	validated	p.D727N	1.000	146	0%	86	27.9%	8	12.5%	probably_damaging(1)	deleterious(0.04)	deleterious(0.849)	NULL
MRGPRD	116512	genome.wustl.edu	37	11	68748292	68748292	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_198923.2	-1	validated	p.R55Q	0.003	60	0%	76	19.7%	0	-	benign(0.295)	tolerated(0.3)	neutral(0.120)	HMMPfam_7tm_1,superfamily_SSF81321
TPCN2	219931	genome.wustl.edu	37	11	68821551	68821551	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_139075.3	+1	reviewed	p.E54K	1.000	77	0%	103	24.3%	0	-	probably_damaging(1)	deleterious(0.04)	deleterious(0.849)	NULL
TPCN2	219931	genome.wustl.edu	37	11	68851462	68851462	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_139075.3	+1	reviewed	p.R580H	1.000	328	0%	488	23.8%	1	0%	probably_damaging(0.999)	tolerated(0.11)	deleterious(0.762)	HMMPfam_Ion_trans,superfamily_SSF81324
CCND1	595	genome.wustl.edu	37	11	69458005	69458005	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_053056.2	+1	reviewed	p.E135D	0.113	16	0%	44	36.4%	22	22.7%	benign(0)	tolerated(0.56)	neutral(0.006)	HMMSmart_SM00385,HMMPfam_Cyclin_N,superfamily_Cyclin-like
ANO1	55107	genome.wustl.edu	37	11	69949261	69949261	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_018043.5	+1	validated	p.P177	0.730	240	0.8%	198	12.1%	0	-	-	-	-	NULL
ANO1	55107	genome.wustl.edu	37	11	70007369	70007369	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_018043.5	+1	validated	p.R561W	1.000	74	0%	135	20.7%	7	0%	probably_damaging(1)	deleterious(0.03)	deleterious(0.865)	NULL
PPFIA1	8500	genome.wustl.edu	37	11	70189890	70189890	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_003626.2	+1	reviewed	p.D608G	1.000	101	0%	64	23.4%	7	0%	benign(0)	tolerated(0.75)	neutral(0.002)	NULL
PPFIA1	8500	genome.wustl.edu	37	11	70200469	70200469	+	Silent	SNP	G	G	A	rs150538251	by1000genomes	TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_003626.2	+1	reviewed	p.P742	0.323	96	0%	155	27.7%	3	0%	-	-	-	NULL
PPFIA1	8500	genome.wustl.edu	37	11	70221026	70221026	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_003626.2	+1	reviewed	p.V1048M	1.000	318	0%	97	11.3%	20	15%	probably_damaging(0.976)	deleterious(0)	deleterious(0.863)	HMMSmart_SM00454,superfamily_SAM/Pointed domain,HMMPfam_SAM_2
SHANK2	22941	genome.wustl.edu	37	11	70319006	70319006	+	Nonsense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_012309.3	-1	reviewed	p.E1245*	1.000	329	0%	336	22%	0	-	-	-	-	HMMPfam_SAM_1,HMMSmart_SAM,superfamily_SAM_homology
SHANK2	22941	genome.wustl.edu	37	11	70333584	70333584	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_012309.3	-1	reviewed	p.S343	0.012	220	0%	346	13%	0	-	-	-	-	NULL
SHANK2-AS3	220070	genome.wustl.edu	37	11	70709526	70709526	+	RNA	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	XR_041799.1	+1	model	NULL	0.000	127	0%	74	12.2%	0	-	-	-	-	-
NADSYN1	55191	genome.wustl.edu	37	11	71191890	71191890	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_018161.4	+1	validated	p.I321	0.250	73	0%	121	13.2%	17	5.8%	-	-	-	superfamily_Adenine nucleotide alpha hydrolases-like
KRTAP5-9	3846	genome.wustl.edu	37	11	71259954	71259954	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_005553.3	+1	validated	p.K84R	0.019	178	0%	110	10%	1	0%	unknown(0)	tolerated(0.37)	-	PatternScan_VWFC_1,PatternScan_ZN2_CY6_FUNGAL_1
KRTAP5-10	387273	genome.wustl.edu	37	11	71276852	71276852	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001012710.1	+1	validated	p.D73	0.974	63	0%	126	19%	0	-	-	-	-	NULL
OR7E87P	8586	genome.wustl.edu	37	11	71331706	71331706	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	ENST00000454336	+1	known	p.I164M	0.746	422	0.2%	325	19.7%	0	-	-	-	-	HMMPfam_7tm_1,superfamily_Family A G protein-coupled receptor-like
RNF121	55298	genome.wustl.edu	37	11	71701700	71701700	+	Nonsense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_018320.4	+1	reviewed	p.Y188*	1.000	302	0.3%	131	22.9%	8	0%	-	-	-	NULL
NUMA1	4926	genome.wustl.edu	37	11	71724806	71724806	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_006185.2	-1	validated	p.S1248I	1.000	35	0%	41	22%	41	9.7%	probably_damaging(0.96)	deleterious(0.02)	deleterious(0.786)	NULL
LRTOMT	220074	genome.wustl.edu	37	11	71819717	71819717	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001145308.1	+1	validated	p.R208W	0.000	25	0%	32	21.9%	0	-	probably_damaging(0.997)	deleterious(0.02)	deleterious(0.849)	superfamily_S-adenosyl-L-methionine-dependent methyltransferases
INPPL1	3636	genome.wustl.edu	37	11	71939397	71939397	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001567.3	+1	reviewed	p.S84	0.990	62	0%	121	26.4%	5	40%	-	-	-	HMMPfam_SH2,HMMSmart_SH2,superfamily_SSF55550
INPPL1	3636	genome.wustl.edu	37	11	71942080	71942080	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001567.3	+1	reviewed	p.S448	0.449	254	0.4%	357	13.4%	11	0%	-	-	-	HMMSmart_IPPc,HMMPfam_Exo_endo_phos,superfamily_Exo_endo_phos
PDE2A	5138	genome.wustl.edu	37	11	72300818	72300818	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_002599.3	-1	validated	p.L284F	1.000	68	0%	114	21.1%	1	0%	possibly_damaging(0.911)	tolerated(0.3)	neutral(0.392)	HMMPfam_GAF,HMMSmart_SM00065,superfamily_GAF domain-like
PDE2A	5138	genome.wustl.edu	37	11	72308662	72308662	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_002599.3	-1	validated	p.E109K	1.000	55	1.8%	61	26.2%	0	-	benign(0.032)	deleterious(0.01)	neutral(0.407)	NULL
ARAP1	116985	genome.wustl.edu	37	11	72410565	72410565	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001040118.2	-1	reviewed	p.G779R	1.000	50	0%	95	21.1%	2	0%	probably_damaging(1)	tolerated(0.09)	deleterious(0.796)	HMMPfam_PH,HMMSmart_SM00233,superfamily_PH domain-like
FCHSD2	9873	genome.wustl.edu	37	11	72552537	72552537	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_014824.2	-1	validated	p.R673M	1.000	239	0%	115	33.9%	2	0%	possibly_damaging(0.92)	tolerated(0.08)	deleterious(0.671)	superfamily_SH3-domain
FCHSD2	9873	genome.wustl.edu	37	11	72696122	72696122	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_014824.2	-1	validated	p.Q187H	1.000	231	0%	94	27.7%	2	0%	probably_damaging(0.996)	deleterious(0)	deleterious(0.906)	NULL
P2RY6	5031	genome.wustl.edu	37	11	73008128	73008128	+	Missense_Mutation	SNP	T	T	G	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_004154.3	+1	reviewed	p.Y189D	0.997	14	0%	27	25.9%	13	30.7%	probably_damaging(1)	deleterious(0)	deleterious(0.945)	HMMPfam_7tm_1,superfamily_SSF81321
ARHGEF17	9828	genome.wustl.edu	37	11	73022128	73022128	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_014786.3	+1	validated	p.D815	0.869	166	0.6%	303	13.2%	4	0%	-	-	-	NULL
ARHGEF17	9828	genome.wustl.edu	37	11	73022462	73022462	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_014786.3	+1	validated	p.A927S	1.000	22	0%	49	24.5%	3	33.3%	benign(0.273)	tolerated(0.14)	neutral(0.279)	NULL
PLEKHB1	58473	genome.wustl.edu	37	11	73366885	73366885	+	Missense_Mutation	SNP	G	G	A	rs191182155	by1000genomes	TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_021200.2	+1	validated	p.R143Q	1.000	62	0%	80	15%	0	-	possibly_damaging(0.709)	tolerated(0.06)	deleterious(0.579)	NULL
MRPL48	51642	genome.wustl.edu	37	11	73536820	73536820	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_016055.5	+1	reviewed	p.K60N	1.000	303	0.3%	162	16.7%	15	13.3%	unknown(0)	-	-	NULL
C2CD3	26005	genome.wustl.edu	37	11	73881799	73881799	+	Silent	SNP	A	A	G	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_015531.4	-1	validated	p.R13	0.994	232	0%	240	23.7%	3	0%	-	-	-	NULL
PGM2L1	283209	genome.wustl.edu	37	11	74081995	74081995	+	Silent	SNP	T	T	C	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_173582.3	-1	validated	p.K141	1.000	218	0.5%	64	23.4%	1	0%	-	-	-	HMMPfam_PGM_PMM_I,superfamily_Phosphoglucomutase first 3 domains
CHRDL2	25884	genome.wustl.edu	37	11	74415556	74415556	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_015424.3	-1	validated	p.I242	0.675	166	0.6%	109	19.3%	92	1%	-	-	-	NULL
CHRDL2	25884	genome.wustl.edu	37	11	74421960	74421960	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_015424.3	-1	validated	p.E122D	1.000	302	0%	184	23.4%	66	0%	unknown(0)	deleterious(0)	-	HMMPfam_VWC,HMMSmart_VWC
SPCS2	9789	genome.wustl.edu	37	11	74676868	74676868	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_014752.2	+1	validated	p.I87V	1.000	417	0%	116	20.7%	45	15.5%	possibly_damaging(0.582)	tolerated(0.07)	deleterious(0.519)	HMMPfam_SPC25
OR2AT4	341152	genome.wustl.edu	37	11	74799933	74799933	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001005285.1	-1	provisional	p.H276N	0.998	202	0%	133	30.1%	0	-	probably_damaging(0.983)	tolerated(1)	neutral(0.429)	HMMPfam_7tm_1,superfamily_Family A G protein-coupled receptor-like
SLCO2B1	11309	genome.wustl.edu	37	11	74915539	74915539	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_007256.3	+1	validated	p.T682A	0.000	136	0%	50	16%	5	0%	benign(0.01)	tolerated(0.39)	neutral(0.017)	superfamily_MFS general substrate transporter
ARRB1	408	genome.wustl.edu	37	11	74988431	74988431	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_004041.3	-1	validated	p.T227M	0.999	600	0%	404	21.8%	8	37.5%	probably_damaging(1)	deleterious(0.03)	deleterious(0.865)	HMMPfam_Arrestin_C,superfamily_E set domains
ARRB1	408	genome.wustl.edu	37	11	74994458	74994458	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_004041.3	-1	validated	p.R76H	1.000	72	0%	69	36.2%	0	-	possibly_damaging(0.442)	deleterious(0.04)	deleterious(0.493)	HMMPfam_Arrestin_N,superfamily_E set domains,PatternScan_ARRESTINS
RPS3	6188	genome.wustl.edu	37	11	75115193	75115193	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001005.3	+1	reviewed	p.S160	0.909	179	0.6%	277	26.4%	2933	17%	benign(0.03)	deleterious(0)	neutral(0.446)	HMMPfam_Ribosomal_S3_C,superfamily_Ribosomal protein S3 C-terminal domain,PatternScan_RIBOSOMAL_S3
GDPD5	81544	genome.wustl.edu	37	11	75148037	75148037	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_030792.6	-1	validated	p.A538V	0.250	51	0%	57	26.3%	8	0%	benign(0.03)	tolerated(0.15)	neutral(0.242)	NULL
MAP6	4135	genome.wustl.edu	37	11	75299086	75299086	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_033063.1	-1	reviewed	p.S487Y	0.002	151	0%	160	13.1%	1	0%	possibly_damaging(0.852)	deleterious(0.01)	deleterious(0.733)	NULL
MOGAT2	80168	genome.wustl.edu	37	11	75428962	75428962	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_025098.2	+1	provisional	p.P10L	0.998	145	0%	51	21.6%	0	-	possibly_damaging(0.765)	deleterious(0)	deleterious(0.728)	NULL
MOGAT2	80168	genome.wustl.edu	37	11	75440014	75440014	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_025098.2	+1	provisional	p.R277H	1.000	240	0.4%	87	26.4%	0	-	probably_damaging(1)	tolerated(0.09)	deleterious(0.796)	HMMPfam_DAGAT
MOGAT2	80168	genome.wustl.edu	37	11	75442245	75442245	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_025098.2	+1	provisional	p.R307C	0.315	109	0%	41	24.4%	0	-	possibly_damaging(0.95)	tolerated(0.06)	deleterious(0.716)	HMMPfam_DAGAT
DGAT2	84649	genome.wustl.edu	37	11	75507431	75507431	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_032564.3	+1	validated	p.H163R	1.000	87	0%	40	15%	1	0%	probably_damaging(1)	deleterious(0)	deleterious(0.945)	HMMPfam_DAGAT
UVRAG	7405	genome.wustl.edu	37	11	75623064	75623064	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_003369.3	+1	reviewed	p.D192N	0.996	576	0.5%	728	23.4%	0	-	benign(0.024)	tolerated(0.31)	neutral(0.028)	NULL
PRKRIR	5612	genome.wustl.edu	37	11	76063169	76063169	+	Missense_Mutation	SNP	A	A	C	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_004705.2	-1	provisional	p.V342G	1.000	216	0%	79	15.2%	2	50%	benign(0)	tolerated(0.49)	neutral(0.011)	NULL
PRKRIR	5612	genome.wustl.edu	37	11	76076917	76076917	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_004705.2	-1	provisional	p.E63D	1.000	567	0%	281	25.3%	0	-	benign(0.003)	tolerated(0.09)	neutral(0.296)	HMMPfam_THAP,HMMSmart_SM00692
ACER3	55331	genome.wustl.edu	37	11	76709843	76709843	+	Nonsense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_018367.5	+1	validated	p.R159*	0.986	737	0%	142	19.7%	2	0%	-	-	-	HMMPfam_aPHC
CAPN5	726	genome.wustl.edu	37	11	76825400	76825400	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_004055.4	+1	reviewed	p.D207N	0.938	117	0%	115	24.3%	2	0%	possibly_damaging(0.95)	tolerated(0.31)	neutral(0.421)	HMMPfam_Peptidase_C2,HMMSmart_CysPc,superfamily_SSF54001
MYO7A	4647	genome.wustl.edu	37	11	76877203	76877203	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_000260.3	+1	reviewed	p.A598T	1.000	115	0%	113	27.4%	0	-	benign(0.311)	tolerated(0.48)	neutral(0.107)	HMMPfam_Myosin_head,HMMSmart_SM00242,superfamily_P-loop containing nucleoside triphosphate hydrolases
GDPD4	220032	genome.wustl.edu	37	11	76969492	76969492	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_182833.1	-1	provisional	p.A268V	0.000	275	0%	65	27.7%	0	-	benign(0.001)	deleterious(0.01)	neutral(0.406)	HMMPfam_GDPD,superfamily_PLC-like_Pdiesterase_TIM-brl
AQP11	282679	genome.wustl.edu	37	11	77301509	77301509	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_173039.1	+1	provisional	p.P158S	1.000	101	0%	208	29.3%	0	-	probably_damaging(1)	tolerated(0.2)	deleterious(0.549)	superfamily_MIP
RSF1	51773	genome.wustl.edu	37	11	77378453	77378453	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_016578.3	-1	validated	p.D1279Y	1.000	104	0%	31	19.4%	11	0%	possibly_damaging(0.944)	deleterious(0.01)	deleterious(0.794)	NULL
RSF1	51773	genome.wustl.edu	37	11	77412823	77412823	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_016578.3	-1	validated	p.G484E	0.780	432	0%	131	29.8%	0	-	benign(0.001)	tolerated(0.15)	neutral(0.241)	NULL
INTS4	92105	genome.wustl.edu	37	11	77590056	77590056	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_033547.3	-1	validated	p.G944D	1.000	264	0%	88	25%	58	31%	probably_damaging(0.998)	tolerated(0.35)	deleterious(0.495)	NULL
ALG8	79053	genome.wustl.edu	37	11	77823697	77823697	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_024079.4	-1	reviewed	p.I299	0.234	213	0%	73	20.5%	11	9%	-	-	-	HMMPfam_Alg6_Alg8
USP35	57558	genome.wustl.edu	37	11	77917010	77917010	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_020798.2	+1	provisional	p.K440N	1.000	117	0%	104	11.5%	1	0%	probably_damaging(0.998)	deleterious(0.03)	deleterious(0.839)	HMMPfam_UCH,superfamily_Cysteine proteinases
NARS2	79731	genome.wustl.edu	37	11	78176923	78176923	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_024678.4	-1	validated	p.T388M	1.000	176	0%	305	13.1%	9	44.4%	probably_damaging(1)	deleterious(0)	deleterious(0.945)	HMMPfam_tRNA-synt_2,superfamily_Class II aaRS and biotin synthetases
NARS2	79731	genome.wustl.edu	37	11	78282480	78282480	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_024678.4	-1	validated	p.R51C	1.000	225	0%	229	24.5%	2	0%	probably_damaging(1)	deleterious(0)	deleterious(0.945)	HMMPfam_tRNA_anti,superfamily_Nucleic acid-binding proteins
ODZ4	26011	genome.wustl.edu	37	11	78387253	78387253	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001098816.2	-1	validated	p.R1814C	1.000	26	0%	48	16.7%	0	-	probably_damaging(1)	deleterious(0)	deleterious(0.945)	NULL
ODZ4	26011	genome.wustl.edu	37	11	78440671	78440671	+	Silent	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001098816.2	-1	validated	p.I1052	0.003	77	0%	48	37.5%	0	-	-	-	-	NULL
ODZ4	26011	genome.wustl.edu	37	11	78443430	78443430	+	Silent	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001098816.2	-1	validated	p.V1023	0.996	165	0%	103	11.7%	0	-	-	-	-	NULL
ODZ4	26011	genome.wustl.edu	37	11	78614414	78614414	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001098816.2	-1	validated	p.T216	0.481	50	0%	68	23.5%	0	-	-	-	-	HMMPfam_Ten_N
ODZ4	26011	genome.wustl.edu	37	11	78780916	78780916	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001098816.2	-1	validated	p.S25L	1.000	46	0%	61	18%	0	-	probably_damaging(0.978)	deleterious(0)	deleterious(0.865)	HMMPfam_Ten_N
PRCP	5547	genome.wustl.edu	37	11	82549610	82549610	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_199418.2	-1	reviewed	p.T386A	1.000	222	0%	70	14.3%	40	0%	probably_damaging(0.988)	deleterious(0)	deleterious(0.882)	HMMPfam_Peptidase_S28
PCF11	51585	genome.wustl.edu	37	11	82877685	82877685	+	Missense_Mutation	SNP	G	G	T	rs77539506	byFrequency;by1000genomes	TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_015885.3	+1	validated	p.K582N	1.000	44	0%	23	17.4%	0	-	probably_damaging(0.998)	deleterious(0)	deleterious(0.919)	NULL
PCF11	51585	genome.wustl.edu	37	11	82879664	82879664	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_015885.3	+1	validated	p.D763Y	1.000	217	0%	102	25.5%	1	100%	probably_damaging(0.98)	deleterious(0.01)	deleterious(0.830)	NULL
ANKRD42	338699	genome.wustl.edu	37	11	82921451	82921451	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_182603.2	+1	validated	p.R119Q	0.999	298	0%	143	21%	3	33.3%	possibly_damaging(0.47)	tolerated(0.16)	neutral(0.214)	HMMPfam_Ank,HMMSmart_SM00248,superfamily_Ankyrin repeat
DLG2	1740	genome.wustl.edu	37	11	83177827	83177827	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001142699.1	-1	reviewed	p.A885T	1.000	298	0%	119	42%	0	-	probably_damaging(1)	deleterious(0)	deleterious(0.945)	HMMPfam_Guanylate_kin,HMMSmart_SM00072,superfamily_P-loop containing nucleoside triphosphate hydrolases
DLG2	1740	genome.wustl.edu	37	11	83252820	83252820	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	ENST00000420775	-1	known	p.R67C	0.992	123	0%	41	31.7%	0	-	-	-	-	HMMPfam_SH3_1,HMMSmart_SM00326,superfamily_SH3-domain
DLG2	1740	genome.wustl.edu	37	11	83674033	83674033	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001142699.1	-1	reviewed	p.S412F	1.000	400	0%	190	23.7%	0	-	possibly_damaging(0.893)	tolerated(0.06)	deleterious(0.674)	HMMPfam_PDZ_assoc
DLG2	1740	genome.wustl.edu	37	11	83810023	83810023	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001142699.1	-1	reviewed	p.G231D	1.000	236	0%	55	20%	0	-	probably_damaging(1)	tolerated(0.27)	deleterious(0.533)	HMMPfam_PDZ,HMMSmart_SM00228,superfamily_PDZ domain-like
CREBZF	58487	genome.wustl.edu	37	11	85374944	85374944	+	Nonsense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001039618.2	-1	validated	p.G326*	1.000	28	0%	48	16.7%	4	25%	-	-	-	NULL
CREBZF	58487	genome.wustl.edu	37	11	85375629	85375629	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001039618.2	-1	validated	p.E97D	1.000	26	0%	59	15.3%	2	50%	benign(0.181)	deleterious(0)	neutral(0.461)	NULL
SYTL2	54843	genome.wustl.edu	37	11	85416044	85416044	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_206927.2	-1	reviewed	p.T1049A	0.998	544	0%	177	25.4%	0	-	benign(0.15)	deleterious(0.01)	neutral(0.419)	HMMPfam_C2,HMMSmart_SM00239,superfamily_C2 domain (Calcium/lipid-binding domain CaLB)
SYTL2	54843	genome.wustl.edu	37	11	85420463	85420463	+	Silent	SNP	T	T	C	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_206927.2	-1	reviewed	p.E975	1.000	270	0%	109	22%	0	-	-	-	-	superfamily_C2 domain (Calcium/lipid-binding domain CaLB)
SYTL2	54843	genome.wustl.edu	37	11	85436351	85436351	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_206927.2	-1	reviewed	p.T383	0.938	61	0%	34	14.7%	0	-	-	-	-	NULL
PICALM	8301	genome.wustl.edu	37	11	85714438	85714438	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_007166.2	-1	validated	p.K288N	1.000	303	0%	70	21.4%	22	9%	probably_damaging(0.981)	deleterious(0.04)	deleterious(0.774)	NULL
EED	8726	genome.wustl.edu	37	11	85967537	85967537	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_003797.2	+1	reviewed	p.T179A	1.000	373	0.3%	216	10.6%	9	0%	benign(0.001)	tolerated(0.16)	neutral(0.059)	HMMSmart_SM00320,superfamily_WD40 repeat-like
C11orf73	51501	genome.wustl.edu	37	11	86017351	86017351	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_016401.3	+1	validated	p.S32N	0.998	299	0%	70	28.6%	29	20.6%	benign(0)	tolerated(0.73)	neutral(0.002)	HMMPfam_DUF775
PRSS23	11098	genome.wustl.edu	37	11	86518866	86518866	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_007173.4	+1	validated	p.V61L	1.000	217	0%	171	21.6%	50	0%	probably_damaging(0.995)	tolerated(0.66)	neutral(0.460)	NULL
PRSS23	11098	genome.wustl.edu	37	11	86519188	86519188	+	Missense_Mutation	SNP	A	A	C	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_007173.4	+1	validated	p.K168T	1.000	75	0%	50	28%	103	0%	possibly_damaging(0.849)	deleterious(0.02)	deleterious(0.709)	HMMPfam_Trypsin,superfamily_Trypsin-like serine proteases
PRSS23	11098	genome.wustl.edu	37	11	86519456	86519456	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_007173.4	+1	validated	p.K257N	1.000	69	0%	46	23.9%	71	0%	probably_damaging(0.975)	deleterious(0.03)	deleterious(0.781)	superfamily_Trypsin-like serine proteases
FZD4	8322	genome.wustl.edu	37	11	86662933	86662933	+	Nonsense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_012193.2	-1	reviewed	p.E289*	1.000	98	0%	136	20.6%	8	0%	-	-	-	HMMPfam_Frizzled
FZD4	8322	genome.wustl.edu	37	11	86663408	86663408	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_012193.2	-1	reviewed	p.P130	0.039	61	0%	88	12.5%	5	0%	-	-	-	superfamily_Frizzled_Cys-rich,HMMPfam_Fz,HMMSmart_FRI
GRM5	2915	genome.wustl.edu	37	11	88300512	88300512	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001143831.2	-1	reviewed	p.T780M	1.000	161	0%	36	27.8%	0	-	probably_damaging(1)	deleterious(0)	deleterious(0.945)	HMMPfam_7tm_3
GRM5	2915	genome.wustl.edu	37	11	88386432	88386432	+	Nonsense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001143831.2	-1	reviewed	p.R351*	0.983	223	0%	53	18.9%	0	-	-	-	-	HMMPfam_ANF_receptor,superfamily_Periplasmic binding protein-like I
NOX4	50507	genome.wustl.edu	37	11	89059955	89059955	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_016931.3	-1	reviewed	p.R569I	1.000	459	0%	221	24%	4	0%	benign(0.007)	tolerated(0.08)	neutral(0.300)	NULL
TRIM77P	390231	genome.wustl.edu	37	11	89451029	89451029	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	XM_002343107.1	+1	model	p.G448R	0.006	187	0.5%	89	28.1%	0	-	-	-	-	HMMPfam_SPRY
ENSG00000234376	0	genome.wustl.edu	37	11	89486292	89486292	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	ENST00000411859	-1	known	p.K281N	0.364	242	0%	101	19.8%	0	-	-	-	-	HMMSmart_SM00398,superfamily_HMG-box
NAALAD2	10003	genome.wustl.edu	37	11	89911121	89911121	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_005467.3	+1	reviewed	p.S565F	0.996	227	0%	115	19.1%	0	-	probably_damaging(0.998)	deleterious(0.01)	deleterious(0.880)	superfamily_Zn-dependent exopeptidases
FAT3	120114	genome.wustl.edu	37	11	92086555	92086555	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001008781.2	+1	validated	p.S426L	0.964	212	0.5%	53	17%	0	-	benign(0.045)	deleterious(0)	neutral(0.447)	HMMPfam_Cadherin,HMMSmart_SM00112,superfamily_Cadherin-like
FAT3	120114	genome.wustl.edu	37	11	92533080	92533080	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001008781.2	+1	validated	p.L2301I	1.000	351	0%	82	9.8%	0	-	benign(0.039)	tolerated(0.63)	neutral(0.005)	HMMPfam_Cadherin,superfamily_Concanavalin A-like lectins/glucanases,superfamily_Cadherin-like
FAT3	120114	genome.wustl.edu	37	11	92533806	92533806	+	Nonsense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001008781.2	+1	validated	p.R2543*	0.996	149	0%	50	36%	0	-	-	-	-	HMMPfam_Cadherin,HMMSmart_SM00112,superfamily_Concanavalin A-like lectins/glucanases,superfamily_Cadherin-like
FAT3	120114	genome.wustl.edu	37	11	92543083	92543083	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001008781.2	+1	validated	p.G3108R	1.000	140	0%	25	16%	0	-	probably_damaging(0.999)	tolerated(0.14)	deleterious(0.740)	HMMPfam_Cadherin,HMMSmart_SM00112,superfamily_Concanavalin A-like lectins/glucanases,superfamily_Cadherin-like
FAT3	120114	genome.wustl.edu	37	11	92577372	92577372	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001008781.2	+1	validated	p.S3613	0.156	98	0%	39	20.5%	0	-	-	-	-	HMMPfam_Cadherin,superfamily_Concanavalin A-like lectins/glucanases,superfamily_Cadherin-like
FAT3	120114	genome.wustl.edu	37	11	92616097	92616097	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001008781.2	+1	validated	p.A4159T	1.000	134	0%	214	13.1%	0	-	probably_damaging(0.998)	tolerated(0.05)	deleterious(0.820)	NULL
FAT3	120114	genome.wustl.edu	37	11	92624058	92624058	+	Missense_Mutation	SNP	T	T	G	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001008781.2	+1	validated	p.F4485V	1.000	80	0%	72	18.1%	0	-	possibly_damaging(0.596)	tolerated(0.28)	neutral(0.237)	NULL
MTNR1B	4544	genome.wustl.edu	37	11	92715310	92715310	+	Silent	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_005959.3	+1	reviewed	p.V307	0.957	122	0%	73	20.5%	0	-	-	-	-	HMMPfam_7tm_1,superfamily_SSF81321
KIAA1731	85459	genome.wustl.edu	37	11	93431607	93431607	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_033395.1	+1	validated	p.L1177I	0.069	108	0%	45	17.8%	1	0%	unknown(0)	deleterious(0)	-	NULL
C11orf54	28970	genome.wustl.edu	37	11	93494693	93494693	+	Nonsense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_014039.2	+1	provisional	p.R213*	1.000	298	0.7%	311	19.6%	11	9%	-	-	-	HMMPfam_DUF1907
MED17	9440	genome.wustl.edu	37	11	93523799	93523799	+	Silent	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_004268.4	+1	reviewed	p.I159	1.000	171	0%	147	10.9%	4	0%	-	-	-	HMMPfam_DUF2364
MED17	9440	genome.wustl.edu	37	11	93545021	93545021	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_004268.4	+1	reviewed	p.R583C	1.000	346	0%	104	21.2%	25	20%	probably_damaging(1)	deleterious(0)	deleterious(0.945)	HMMPfam_DUF2364
HEPHL1	341208	genome.wustl.edu	37	11	93806269	93806269	+	Silent	SNP	T	T	C	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001098672.1	+1	validated	p.V437	0.997	297	0%	82	15.9%	0	-	-	-	-	superfamily_Cupredoxin
HEPHL1	341208	genome.wustl.edu	37	11	93837734	93837734	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001098672.1	+1	validated	p.R908Q	1.000	432	0%	154	19.5%	0	-	probably_damaging(0.99)	tolerated(0.12)	deleterious(0.702)	superfamily_Cupredoxin
HEPHL1	341208	genome.wustl.edu	37	11	93837880	93837880	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001098672.1	+1	validated	p.R957C	0.076	243	0%	68	14.7%	0	-	possibly_damaging(0.845)	tolerated(0.09)	deleterious(0.621)	superfamily_Cupredoxin,HMMPfam_Cu-oxidase_2
PIWIL4	143689	genome.wustl.edu	37	11	94351164	94351164	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_152431.2	+1	validated	p.R687W	1.000	128	0.8%	31	41.9%	0	-	probably_damaging(1)	deleterious(0)	deleterious(0.945)	HMMPfam_Piwi,superfamily_Ribonuclease H-like
ENDOD1	23052	genome.wustl.edu	37	11	94862578	94862578	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_015036.2	+1	validated	p.G446	0.050	346	0%	134	20.1%	3	0%	-	-	-	NULL
SESN3	143686	genome.wustl.edu	37	11	94906473	94906473	+	Silent	SNP	T	T	C	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_144665.2	-1	provisional	p.R475	0.963	202	0%	30	13.3%	12	25%	-	-	-	HMMPfam_PA26
CCDC82	79780	genome.wustl.edu	37	11	96116443	96116443	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_024725.3	-1	validated	p.Q327H	0.925	482	0%	324	23.5%	4	25%	benign(0.026)	tolerated(0.23)	neutral(0.043)	NULL
CCDC82	79780	genome.wustl.edu	37	11	96117407	96117407	+	Nonsense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_024725.3	-1	validated	p.E169*	0.984	819	0.1%	756	22.1%	3	0%	-	-	-	NULL
CNTN5	53942	genome.wustl.edu	37	11	99945020	99945020	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_014361.2	+1	reviewed	p.N525S	0.980	346	0%	69	23.2%	0	-	benign(0)	tolerated(1)	-	HMMSmart_SM00408,HMMSmart_SM00409,HMMPfam_I-set,superfamily_Immunoglobulin
ANGPTL5	253935	genome.wustl.edu	37	11	101762055	101762055	+	Silent	SNP	A	A	C	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_178127.4	-1	validated	p.S374	0.970	168	0%	59	28.8%	0	-	-	-	-	HMMPfam_Fibrinogen_C,HMMSmart_SM00186,superfamily_Fibrinogen C-terminal domain-like
BIRC3	330	genome.wustl.edu	37	11	102206866	102206866	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001165.3	+1	reviewed	p.T498	0.007	169	0%	66	22.7%	11	18.1%	-	-	-	HMMPfam_CARD,HMMSmart_CARD,superfamily_DEATH_like,superfamily_SSF57924
TMEM123	114908	genome.wustl.edu	37	11	102272684	102272684	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_052932.2	-1	reviewed	p.H137	0.126	887	0%	308	22.1%	54	9.2%	-	-	-	NULL
MMP20	9313	genome.wustl.edu	37	11	102449840	102449840	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_004771.3	-1	reviewed	p.D427	1.000	757	0%	156	22.4%	0	-	-	-	-	superfamily_Hemopexin-like domain,HMMPfam_Hemopexin,HMMSmart_SM00120
MMP20	9313	genome.wustl.edu	37	11	102480743	102480743	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_004771.3	-1	reviewed	p.P181Q	1.000	150	0%	69	31.9%	0	-	probably_damaging(1)	deleterious(0)	deleterious(0.945)	"HMMPfam_Peptidase_M10,HMMSmart_SM00235,superfamily_Metalloproteases (""zincins"") catalytic domain"
MMP27	64066	genome.wustl.edu	37	11	102567514	102567514	+	Silent	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_022122.2	-1	reviewed	p.L224	0.985	203	0%	57	17.5%	1	0%	-	-	-	"HMMPfam_Peptidase_M10,HMMSmart_SM00235,superfamily_Metalloproteases (""zincins"") catalytic domain"
MMP8	4317	genome.wustl.edu	37	11	102589167	102589167	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_002424.2	-1	reviewed	p.I254	0.999	257	0%	87	31%	0	-	-	-	-	HMMPfam_Peptidase_M10,HMMSmart_ZnMc,superfamily_SSF55486
MMP1	4312	genome.wustl.edu	37	11	102662129	102662129	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_002421.3	-1	reviewed	p.I377	0.070	309	0%	72	16.7%	7	14.2%	-	-	-	superfamily_Hemopexin,HMMPfam_Hemopexin,HMMSmart_HX
MMP1	4312	genome.wustl.edu	37	11	102662186	102662186	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_002421.3	-1	reviewed	p.H358	0.000	245	0%	81	28.4%	2	0%	-	-	-	superfamily_Hemopexin,HMMPfam_Hemopexin,HMMSmart_HX
MMP1	4312	genome.wustl.edu	37	11	102666324	102666324	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_002421.3	-1	reviewed	p.R214C	0.011	176	0%	32	15.6%	1	0%	possibly_damaging(0.746)	deleterious(0.03)	deleterious(0.639)	HMMPfam_Peptidase_M10,HMMSmart_ZnMc,superfamily_SSF55486
MMP13	4322	genome.wustl.edu	37	11	102820917	102820917	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_002427.3	-1	reviewed	p.T280M	1.000	626	0%	156	17.9%	0	-	probably_damaging(1)	deleterious(0.02)	deleterious(0.883)	superfamily_Hemopexin
DYNC2H1	79659	genome.wustl.edu	37	11	103019261	103019261	+	Missense_Mutation	SNP	A	A	C	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001080463.1	+1	reviewed	p.E954A	0.999	390	0%	94	21.3%	0	-	benign(0.02)	tolerated(0.15)	neutral(0.242)	NULL
DYNC2H1	79659	genome.wustl.edu	37	11	103033833	103033833	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001080463.1	+1	reviewed	p.R1523Q	0.998	489	0%	129	20.9%	1	0%	benign(0.008)	tolerated(0.15)	neutral(0.241)	HMMPfam_DHC_N2
PDGFD	80310	genome.wustl.edu	37	11	103866871	103866871	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_025208.4	-1	reviewed	p.T144	1.000	627	0%	103	14.6%	1	0%	-	-	-	HMMPfam_CUB,HMMSmart_SM00042,superfamily_Spermadhesin CUB domain
DDI1	414301	genome.wustl.edu	37	11	103908146	103908146	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001001711.2	+1	validated	p.R199H	0.092	69	0%	132	24.2%	0	-	probably_damaging(0.995)	tolerated(0.07)	deleterious(0.776)	NULL
CASP1	834	genome.wustl.edu	37	11	104900579	104900579	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_033292.2	-1	reviewed	p.K225N	0.000	157	0%	55	30.9%	8	0%	possibly_damaging(0.894)	tolerated(0.05)	deleterious(0.698)	HMMPfam_Peptidase_C14,HMMSmart_SM00115,PatternScan_CASPASE_HIS,superfamily_Caspase-like
KBTBD3	143879	genome.wustl.edu	37	11	105924071	105924071	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_152433.3	-1	validated	p.A449T	1.000	124	0%	38	15.8%	1	0%	probably_damaging(0.998)	deleterious(0.02)	deleterious(0.857)	HMMSmart_SM00612,superfamily_Galactose oxidase central domain
KBTBD3	143879	genome.wustl.edu	37	11	105924871	105924871	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_152433.3	-1	validated	p.S182F	0.980	151	0%	46	39.1%	0	-	benign(0.213)	deleterious(0.05)	neutral(0.366)	HMMPfam_BACK
GUCY1A2	2977	genome.wustl.edu	37	11	106558447	106558447	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_000855.1	-1	validated	p.P676L	1.000	193	0%	51	19.6%	7	0%	probably_damaging(1)	tolerated(0.15)	deleterious(0.741)	HMMPfam_Guanylate_cyc,HMMSmart_SM00044,superfamily_Adenylyl and guanylyl cyclase catalytic domain
ELMOD1	55531	genome.wustl.edu	37	11	107502336	107502336	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_018712.3	+1	validated	p.D75N	1.000	275	0%	74	20.3%	0	-	benign(0.044)	tolerated(0.29)	neutral(0.032)	NULL
SLC35F2	54733	genome.wustl.edu	37	11	107673748	107673748	+	Silent	SNP	T	T	C	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_017515.4	-1	validated	p.G306	0.910	195	0%	68	20.6%	7	28.5%	-	-	-	HMMPfam_DUF914,superfamily_Multidrug resistance efflux transporter EmrE
CUL5	8065	genome.wustl.edu	37	11	107925660	107925660	+	Missense_Mutation	SNP	G	G	A	rs183961591	by1000genomes	TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_003478.3	+1	validated	p.R253Q	1.000	264	0%	51	21.6%	2	0%	benign(0.056)	tolerated(0.33)	neutral(0.028)	HMMPfam_Cullin,superfamily_Cullin repeat
NPAT	4863	genome.wustl.edu	37	11	108032337	108032337	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_002519.2	-1	validated	p.S1159Y	1.000	408	0%	114	15.8%	1	0%	probably_damaging(0.996)	deleterious(0.01)	deleterious(0.867)	NULL
ATM	472	genome.wustl.edu	37	11	108115627	108115627	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_000051.3	+1	reviewed	p.L259I	1.000	389	0%	78	21.8%	0	-	benign(0.271)	tolerated(0.17)	neutral(0.088)	superfamily_ARM repeat
ATM	472	genome.wustl.edu	37	11	108117840	108117840	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_000051.3	+1	reviewed	p.D351Y	1.000	201	0%	56	21.4%	0	-	probably_damaging(0.998)	deleterious(0.01)	deleterious(0.880)	superfamily_ARM repeat
EXPH5	23086	genome.wustl.edu	37	11	108385078	108385078	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_015065.2	-1	validated	p.E386K	0.028	256	0%	126	9.5%	0	-	benign(0.277)	tolerated(0.12)	neutral(0.290)	NULL
EXPH5	23086	genome.wustl.edu	37	11	108388977	108388977	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_015065.2	-1	validated	p.N206D	0.915	205	0%	77	24.7%	0	-	benign(0.005)	deleterious(0.02)	neutral(0.383)	NULL
DDX10	1662	genome.wustl.edu	37	11	108586683	108586683	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_004398.2	+1	reviewed	p.R467I	1.000	206	0%	44	25%	3	33.3%	benign(0.02)	tolerated(0.4)	neutral(0.017)	superfamily_P-loop containing nucleoside triphosphate hydrolases
DDX10	1662	genome.wustl.edu	37	11	108788711	108788711	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_004398.2	+1	reviewed	p.D806Y	1.000	309	0%	92	27.2%	9	33.3%	benign(0.121)	deleterious(0.02)	neutral(0.393)	NULL
ZC3H12C	85463	genome.wustl.edu	37	11	110007499	110007499	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_033390.1	+1	validated	p.L45I	1.000	168	0%	70	22.9%	0	-	unknown(0)	deleterious(0)	-	NULL
ZC3H12C	85463	genome.wustl.edu	37	11	110035730	110035730	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_033390.1	+1	validated	p.Y640	0.021	79	0%	54	33.3%	0	-	-	-	-	NULL
ZC3H12C	85463	genome.wustl.edu	37	11	110035954	110035954	+	Missense_Mutation	SNP	T	T	G	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_033390.1	+1	validated	p.V715G	0.995	162	0%	86	17.4%	1	0%	benign(0.079)	deleterious(0)	neutral(0.450)	NULL
RDX	5962	genome.wustl.edu	37	11	110126098	110126098	+	Missense_Mutation	SNP	T	T	G	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_002906.3	-1	reviewed	p.K237N	1.000	166	0%	43	20.9%	6	0%	benign(0.196)	deleterious(0.05)	neutral(0.364)	HMMPfam_FERM_C,superfamily_PH domain-like
RDX	5962	genome.wustl.edu	37	11	110134830	110134830	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_002906.3	-1	reviewed	p.E108K	1.000	258	0%	79	12.7%	4	0%	possibly_damaging(0.658)	tolerated(0.35)	neutral(0.253)	HMMPfam_FERM_M,superfamily_Second domain of FERM,HMMSmart_SM00295
ARHGAP20	57569	genome.wustl.edu	37	11	110451491	110451491	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_020809.2	-1	validated	p.R727C	0.690	49	0%	29	27.6%	0	-	probably_damaging(1)	deleterious(0)	deleterious(0.945)	NULL
ARHGAP20	57569	genome.wustl.edu	37	11	110477324	110477324	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_020809.2	-1	validated	p.L309M	0.998	162	0%	64	34.4%	0	-	probably_damaging(1)	deleterious(0)	deleterious(0.945)	NULL
ARHGAP20	57569	genome.wustl.edu	37	11	110501434	110501434	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_020809.2	-1	validated	p.G90	0.006	140	0%	92	22.8%	0	-	-	-	-	HMMSmart_SM00233,superfamily_PH domain-like
C11orf93	120376	genome.wustl.edu	37	11	111178894	111178894	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001136105.1	+1	predicted	p.S66Y	0.001	298	0%	192	27.1%	4	25%	possibly_damaging(0.861)	tolerated(1)	neutral(0.333)	NULL
C11orf93	120376	genome.wustl.edu	37	11	111179033	111179033	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001136105.1	+1	predicted	p.E112D	0.876	220	0%	163	14.7%	7	0%	possibly_damaging(0.805)	deleterious(0)	deleterious(0.748)	NULL
LAYN	143903	genome.wustl.edu	37	11	111414714	111414714	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_178834.3	+1	provisional	p.S51Y	0.974	113	0%	182	13.2%	2	0%	possibly_damaging(0.609)	tolerated(0.2)	neutral(0.260)	HMMSmart_CLECT,superfamily_C-type_lectin_fold
SIK2	23235	genome.wustl.edu	37	11	111591415	111591415	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_015191.1	+1	validated	p.R570Q	1.000	191	0%	158	31.6%	0	-	probably_damaging(0.999)	deleterious(0.01)	deleterious(0.896)	superfamily_Protein kinase-like (PK-like)
FDXACB1	91893	genome.wustl.edu	37	11	111745902	111745902	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_138378.1	-1	validated	p.V540A	1.000	205	0%	359	25.6%	0	-	possibly_damaging(0.787)	deleterious(0)	deleterious(0.739)	HMMPfam_FDX-ACB,superfamily_Anticodon-binding domain of PheRS
HSPB2	3316	genome.wustl.edu	37	11	111784387	111784387	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001541.3	+1	validated	p.R106H	1.000	53	0%	127	22%	20	0%	probably_damaging(0.999)	deleterious(0)	deleterious(0.935)	HMMPfam_HSP20,superfamily_HSP20-like chaperones
NCAM1	4684	genome.wustl.edu	37	11	113075148	113075148	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_181351.3	+1	validated	p.D90N	0.493	214	0.5%	185	27%	0	-	benign(0.118)	tolerated(0.49)	neutral(0.020)	HMMSmart_SM00408,HMMSmart_SM00409,HMMPfam_I-set,superfamily_Immunoglobulin
NCAM1	4684	genome.wustl.edu	37	11	113078000	113078000	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	ENST00000401611	+1	known	p.A98T	1.000	127	0%	125	17.6%	2	0%	benign(0.009)	tolerated(0.38)	neutral(0.018)	HMMPfam_I-set,superfamily_SSF48726
NCAM1	4684	genome.wustl.edu	37	11	113078649	113078649	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	ENST00000401611	+1	known	p.D163N	1.000	119	0%	92	22.8%	1	0%	probably_damaging(1)	deleterious(0.01)	deleterious(0.905)	HMMSmart_IGc2,HMMPfam_I-set,superfamily_SSF48726
NCAM1	4684	genome.wustl.edu	37	11	113102480	113102480	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	ENST00000401611	+1	known	p.I273	0.997	75	0%	44	25%	1	0%	-	-	-	HMMSmart_IGc2,HMMPfam_I-set,superfamily_SSF48726
ANKK1	255239	genome.wustl.edu	37	11	113264327	113264327	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_178510.1	+1	reviewed	p.G104S	1.000	191	1%	185	23.8%	0	-	probably_damaging(0.999)	deleterious(0)	deleterious(0.935)	superfamily_Kinase_like,HMMPfam_Pkinase
ANKK1	255239	genome.wustl.edu	37	11	113265797	113265797	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_178510.1	+1	reviewed	p.V209	1.000	102	0%	105	18.1%	0	-	-	-	-	superfamily_Kinase_like,HMMPfam_Pkinase
DRD2	1813	genome.wustl.edu	37	11	113285104	113285104	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_000795.3	-1	reviewed	p.R268Q	1.000	126	0%	104	22.1%	0	-	benign(0.034)	tolerated(0.12)	neutral(0.263)	HMMPfam_7tm_1,superfamily_Family A G protein-coupled receptor-like
ZBTB16	7704	genome.wustl.edu	37	11	113934215	113934215	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001018011.1	+1	reviewed	p.R65C	1.000	72	0%	130	22.3%	0	-	probably_damaging(0.994)	deleterious(0.04)	deleterious(0.801)	HMMSmart_SM00225,superfamily_POZ domain,HMMPfam_BTB
ZBTB16	7704	genome.wustl.edu	37	11	114112937	114112937	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001018011.1	+1	reviewed	p.A501V	1.000	65	0%	48	39.6%	1	0%	benign(0.002)	tolerated(0.12)	neutral(0.261)	HMMPfam_zf-C2H2,PatternScan_ZINC_FINGER_C2H2_1,HMMSmart_SM00355,superfamily_C2H2 and C2HC zinc fingers
NNMT	4837	genome.wustl.edu	37	11	114183101	114183101	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_006169.2	+1	reviewed	p.E233K	0.000	76	0%	39	10.3%	465	0.2%	benign(0.001)	tolerated(0.11)	neutral(0.272)	HMMPfam_NNMT_PNMT_TEMT,superfamily_S-adenosyl-L-methionine-dependent methyltransferases
RBM7	10179	genome.wustl.edu	37	11	114278522	114278522	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_016090.2	+1	provisional	p.R265Q	0.996	136	0%	110	29.1%	6	0%	probably_damaging(0.999)	deleterious(0)	deleterious(0.935)	NULL
FAM55D	54827	genome.wustl.edu	37	11	114453551	114453551	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001077639.1	-1	validated	p.A97T	0.695	1079	0.1%	273	27.8%	0	-	probably_damaging(1)	deleterious(0.02)	deleterious(0.883)	NULL
BUD13	84811	genome.wustl.edu	37	11	116633445	116633445	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_032725.3	-1	validated	p.S287N	1.000	314	0%	157	12.7%	3	0%	possibly_damaging(0.907)	deleterious(0)	deleterious(0.805)	NULL
BUD13	84811	genome.wustl.edu	37	11	116633616	116633616	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_032725.3	-1	validated	p.R230Q	0.666	178	0%	102	27.5%	6	0%	probably_damaging(0.986)	deleterious(0.02)	deleterious(0.818)	NULL
APOA5	116519	genome.wustl.edu	37	11	116662558	116662558	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_052968.4	-1	reviewed	p.V7M	0.000	85	0%	105	27.6%	0	-	benign(0)	deleterious(0.04)	neutral(0.349)	NULL
SIDT2	51092	genome.wustl.edu	37	11	117052592	117052592	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001040455.1	+1	validated	p.S125	0.141	186	0%	274	12.4%	4	0%	-	-	-	NULL
SIDT2	51092	genome.wustl.edu	37	11	117057335	117057335	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001040455.1	+1	validated	p.R333Q	1.000	41	0%	51	25.5%	4	25%	benign(0.061)	tolerated(0.64)	neutral(0.007)	NULL
RNF214	257160	genome.wustl.edu	37	11	117109649	117109649	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001077239.1	+1	validated	p.R147M	1.000	107	0%	105	24.8%	1	0%	benign(0.139)	tolerated(0.08)	neutral(0.312)	NULL
CEP164	22897	genome.wustl.edu	37	11	117265887	117265887	+	Missense_Mutation	SNP	C	C	G	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_014956.4	+1	validated	p.Q965E	0.968	40	0%	28	25%	3	33.3%	benign(0.141)	tolerated(0.1)	neutral(0.298)	NULL
CEP164	22897	genome.wustl.edu	37	11	117267313	117267313	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_014956.4	+1	validated	p.D1088E	0.001	261	0%	131	24.4%	2	50%	benign(0.009)	tolerated(0.73)	neutral(0.002)	NULL
DSCAML1	57453	genome.wustl.edu	37	11	117376187	117376187	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_020693.2	-1	provisional	p.R742C	1.000	136	0%	138	13%	0	-	probably_damaging(0.994)	tolerated(0.05)	deleterious(0.797)	HMMSmart_SM00409,superfamily_Immunoglobulin
FXYD2	486	genome.wustl.edu	37	11	117693268	117693268	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001127489.1	-1	reviewed	p.G64R	0.000	92	0%	75	16%	0	-	probably_damaging(0.964)	deleterious(0)	deleterious(0.851)	NULL
SCN4B	6330	genome.wustl.edu	37	11	118011993	118011993	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_174934.3	-1	reviewed	p.I174	0.960	117	0%	160	30.6%	0	-	-	-	-	NULL
SCN2B	6327	genome.wustl.edu	37	11	118047093	118047093	+	Silent	SNP	A	A	G	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_004588.4	-1	validated	p.S18	1.000	252	0.4%	188	20.2%	0	-	-	-	-	NULL
AMICA1	120425	genome.wustl.edu	37	11	118068774	118068774	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001098526.1	-1	validated	p.T315M	0.053	457	0.2%	105	19%	7	0%	possibly_damaging(0.895)	tolerated(0.13)	deleterious(0.605)	NULL
MPZL2	10205	genome.wustl.edu	37	11	118130769	118130769	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_005797.3	-1	reviewed	p.S195L	0.981	340	0%	101	19.8%	21	57.1%	benign(0.006)	tolerated(0.17)	neutral(0.059)	NULL
CD3G	917	genome.wustl.edu	37	11	118220601	118220601	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_000073.2	+1	reviewed	p.G75R	1.000	280	0%	109	22%	2	0%	probably_damaging(1)	deleterious(0)	deleterious(0.945)	HMMSmart_SM00408,superfamily_Immunoglobulin
UBE4A	9354	genome.wustl.edu	37	11	118243867	118243867	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_004788.2	+1	reviewed	p.R270I	1.000	536	0.2%	161	23%	2	50%	possibly_damaging(0.893)	tolerated(0.12)	deleterious(0.613)	NULL
UBE4A	9354	genome.wustl.edu	37	11	118243923	118243923	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_004788.2	+1	reviewed	p.D289Y	1.000	485	0%	145	24.8%	1	0%	possibly_damaging(0.708)	deleterious(0.02)	deleterious(0.639)	NULL
UBE4A	9354	genome.wustl.edu	37	11	118250219	118250219	+	Missense_Mutation	SNP	C	C	T	rs34303236		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_004788.2	+1	reviewed	p.R551W	1.000	113	0%	26	15.4%	0	-	probably_damaging(0.997)	tolerated(0.07)	deleterious(0.785)	HMMPfam_Ufd2P_core
UBE4A	9354	genome.wustl.edu	37	11	118255374	118255374	+	Missense_Mutation	SNP	A	A	C	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_004788.2	+1	reviewed	p.K748T	1.000	315	0%	74	9.5%	0	-	probably_damaging(1)	deleterious(0)	deleterious(0.945)	HMMPfam_Ufd2P_core
MLL	4297	genome.wustl.edu	37	11	118373751	118373751	+	Nonsense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_005933.2	+1	validated	p.R2379*	0.017	239	0%	84	17.9%	1	100%	-	-	-	NULL
MLL	4297	genome.wustl.edu	37	11	118374995	118374995	+	Silent	SNP	A	A	G	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_005933.2	+1	validated	p.G2793	0.010	119	0%	54	20.4%	0	-	-	-	-	NULL
TMEM25	84866	genome.wustl.edu	37	11	118403748	118403748	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_032780.3	+1	validated	p.D167N	1.000	92	0%	120	17.5%	6	0%	probably_damaging(1)	deleterious(0)	deleterious(0.945)	superfamily_Immunoglobulin
IFT46	56912	genome.wustl.edu	37	11	118422967	118422967	+	Silent	SNP	T	T	C	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_020153.3	-1	validated	p.L240	0.754	368	0%	181	13.8%	9	0%	-	-	-	NULL
ARCN1	372	genome.wustl.edu	37	11	118468455	118468455	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001655.4	+1	reviewed	p.I425	0.860	214	0.5%	140	23.6%	15	6.6%	-	-	-	HMMPfam_Adap_comp_sub,superfamily_Second domain of Mu2 adaptin subunit (ap50) of ap2 adaptor
PHLDB1	23187	genome.wustl.edu	37	11	118516456	118516456	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001144758.1	+1	validated	p.A1140	0.002	301	0%	200	20%	15	0%	-	-	-	NULL
PHLDB1	23187	genome.wustl.edu	37	11	118527490	118527490	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001144758.1	+1	validated	p.V1364A	1.000	181	0%	120	11.7%	29	0%	possibly_damaging(0.717)	deleterious(0.05)	deleterious(0.605)	HMMPfam_PH,HMMSmart_SM00233,superfamily_PH domain-like
CXCR5	643	genome.wustl.edu	37	11	118765107	118765107	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_032966.1	+1	reviewed	p.A240V	0.009	59	0%	92	16.3%	6	0%	benign(0)	tolerated(0.84)	neutral(0.001)	HMMPfam_7tm_1,superfamily_SSF81321
BCL9L	283149	genome.wustl.edu	37	11	118772647	118772647	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_182557.2	-1	validated	p.R602H	1.000	49	0%	109	30.3%	1	0%	probably_damaging(1)	deleterious(0.02)	deleterious(0.883)	NULL
FOXR1	283150	genome.wustl.edu	37	11	118849868	118849868	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_181721.2	+1	reviewed	p.R113Q	0.002	54	0%	61	14.8%	0	-	benign(0.001)	tolerated(0.33)	neutral(0.024)	NULL
CCDC84	338657	genome.wustl.edu	37	11	118869787	118869787	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_198489.1	+1	provisional	p.E117D	1.000	298	0%	431	12.3%	2	0%	possibly_damaging(0.942)	tolerated(0.43)	neutral(0.401)	NULL
TRAPPC4	51399	genome.wustl.edu	37	11	118889628	118889628	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_016146.4	+1	validated	p.K41N	1.000	97	0%	114	28.1%	39	20.5%	possibly_damaging(0.804)	tolerated(0.21)	neutral(0.346)	HMMPfam_Sybindin,superfamily_SNARE-like
SLC37A4	2542	genome.wustl.edu	37	11	118895781	118895781	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	ENST00000330775	-1	known	p.G398S	1.000	45	0%	70	24.3%	9	33.3%	-	-	-	HMMPfam_MFS_1,superfamily_MFS general substrate transporter
HYOU1	10525	genome.wustl.edu	37	11	118919494	118919494	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001130991.1	-1	reviewed	p.I699	0.012	143	0%	150	14%	11	9%	-	-	-	NULL
HYOU1	10525	genome.wustl.edu	37	11	118926229	118926229	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001130991.1	-1	reviewed	p.F80L	1.000	181	0%	277	26.4%	5	80%	benign(0.001)	tolerated(1)	-	HMMPfam_HSP70,superfamily_Actin-like ATPase domain
HMBS	3145	genome.wustl.edu	37	11	118958995	118958995	+	Missense_Mutation	SNP	C	C	T	rs189159450	by1000genomes	TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_000190.3	+1	reviewed	p.R22C	1.000	190	0.5%	200	24.5%	5	80%	probably_damaging(1)	deleterious(0)	deleterious(0.945)	HMMPfam_Porphobil_deam,superfamily_Periplasmic binding protein-like II
HMBS	3145	genome.wustl.edu	37	11	118959391	118959391	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_000190.3	+1	reviewed	p.S45L	0.485	290	0%	351	11.1%	5	20%	benign(0)	tolerated(1)	-	HMMPfam_Porphobil_deam,superfamily_Periplasmic binding protein-like II
HMBS	3145	genome.wustl.edu	37	11	118959821	118959821	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_000190.3	+1	reviewed	p.L64F	1.000	448	0%	489	21.7%	7	57.1%	possibly_damaging(0.927)	deleterious(0)	deleterious(0.820)	HMMPfam_Porphobil_deam,superfamily_Periplasmic binding protein-like II
HMBS	3145	genome.wustl.edu	37	11	118962859	118962859	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_000190.3	+1	reviewed	p.Y213H	1.000	122	0%	194	13.4%	13	7.6%	probably_damaging(1)	tolerated(0.26)	deleterious(0.534)	HMMPfam_Porphobil_deam,superfamily_Periplasmic binding protein-like II
HINFP	25988	genome.wustl.edu	37	11	119003605	119003605	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_015517.3	+1	validated	p.L303	0.996	167	0.6%	126	9.5%	12	25%	-	-	-	HMMPfam_zf-C2H2,PatternScan_ZINC_FINGER_C2H2_1,HMMSmart_ZnF_C2H2,superfamily_SSF57667
ABCG4	64137	genome.wustl.edu	37	11	119027656	119027656	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001142505.1	+1	reviewed	p.A334T	0.004	133	0%	129	27.9%	0	-	benign(0.004)	tolerated(0.71)	neutral(0.002)	NULL
ABCG4	64137	genome.wustl.edu	37	11	119031661	119031661	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001142505.1	+1	reviewed	p.R596C	0.000	144	0.7%	174	23.6%	0	-	benign(0.139)	deleterious(0.01)	neutral(0.418)	NULL
PDZD3	79849	genome.wustl.edu	37	11	119059533	119059533	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_024791.3	+1	validated	p.R401Q	1.000	57	0%	51	25.5%	0	-	probably_damaging(1)	tolerated(0.06)	deleterious(0.823)	HMMPfam_PDZ,HMMSmart_PDZ,superfamily_PDZ
MFRP	83552	genome.wustl.edu	37	11	119215629	119215629	+	Nonsense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_031433.2	-1	reviewed	p.G243*	0.955	49	0%	62	22.6%	0	-	-	-	-	HMMPfam_CUB,HMMSmart_SM00042,superfamily_Spermadhesin CUB domain
USP2	9099	genome.wustl.edu	37	11	119228505	119228505	+	Missense_Mutation	SNP	T	T	G	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_004205.4	-1	validated	p.K488T	1.000	199	0%	274	14.2%	1	0%	benign(0.073)	deleterious(0.01)	neutral(0.411)	HMMPfam_UCH,superfamily_Cysteine proteinases
USP2	9099	genome.wustl.edu	37	11	119228935	119228935	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_004205.4	-1	validated	p.S422L	1.000	134	0%	270	27.4%	2	0%	probably_damaging(0.987)	deleterious(0)	deleterious(0.881)	HMMPfam_UCH,superfamily_Cysteine proteinases
USP2	9099	genome.wustl.edu	37	11	119229487	119229487	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_004205.4	-1	validated	p.I411	0.985	391	0%	631	10.5%	0	-	-	-	-	HMMPfam_UCH,superfamily_Cysteine proteinases
USP2	9099	genome.wustl.edu	37	11	119243603	119243603	+	Silent	SNP	G	G	A	rs35832174		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_004205.4	-1	validated	p.V196	0.022	30	0%	66	27.3%	0	-	-	-	-	NULL
POU2F3	25833	genome.wustl.edu	37	11	120175859	120175859	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_014352.2	+1	validated	p.E189K	1.000	146	0%	63	27%	0	-	probably_damaging(0.998)	tolerated(0.11)	deleterious(0.746)	HMMPfam_Pou,HMMSmart_SM00352,superfamily_lambda repressor-like DNA-binding domains
ARHGEF12	23365	genome.wustl.edu	37	11	120292551	120292551	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_015313.1	+1	reviewed	p.R113Q	1.000	183	0%	60	11.7%	3	0%	probably_damaging(1)	deleterious(0)	deleterious(0.945)	HMMPfam_PDZ,HMMSmart_SM00228,superfamily_PDZ domain-like
ARHGEF12	23365	genome.wustl.edu	37	11	120312520	120312520	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_015313.1	+1	reviewed	p.A399	0.973	340	0%	87	19.5%	1	0%	-	-	-	HMMPfam_RGS-like,superfamily_Regulator of G-protein signaling RGS
ARHGEF12	23365	genome.wustl.edu	37	11	120328856	120328856	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_015313.1	+1	reviewed	p.D765Y	1.000	291	0%	69	14.5%	9	0%	probably_damaging(0.994)	deleterious(0)	deleterious(0.897)	NULL
ARHGEF12	23365	genome.wustl.edu	37	11	120343780	120343780	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_015313.1	+1	reviewed	p.R993C	0.988	346	0%	116	12.9%	5	0%	probably_damaging(1)	deleterious(0)	deleterious(0.945)	superfamily_DBL homology domain (DH-domain)
TBCEL	219899	genome.wustl.edu	37	11	120918239	120918239	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001130047.1	+1	validated	p.R46C	1.000	219	0%	52	23.1%	1	100%	probably_damaging(1)	deleterious(0.01)	deleterious(0.905)	NULL
TBCEL	219899	genome.wustl.edu	37	11	120957608	120957608	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001130047.1	+1	validated	p.R360C	1.000	296	0%	70	20%	2	50%	probably_damaging(0.999)	deleterious(0.02)	deleterious(0.873)	superfamily_SSF54236
TECTA	7007	genome.wustl.edu	37	11	121008209	121008209	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_005422.2	+1	reviewed	p.P1007	1.000	139	0%	107	18.7%	0	-	-	-	-	superfamily_Serine proterase inhibitors,HMMPfam_TIL
TECTA	7007	genome.wustl.edu	37	11	121008698	121008698	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_005422.2	+1	reviewed	p.I1170	0.107	29	0%	20	40%	0	-	-	-	-	HMMPfam_VWD,HMMSmart_SM00216
TECTA	7007	genome.wustl.edu	37	11	121032949	121032949	+	Silent	SNP	C	C	T	rs151087951	by1000genomes	TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_005422.2	+1	reviewed	p.Y1714	0.989	79	0%	82	12.2%	0	-	-	-	-	HMMPfam_C8
SORL1	6653	genome.wustl.edu	37	11	121460824	121460824	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_003105.4	+1	reviewed	p.R1385I	1.000	176	0.6%	128	18%	0	-	possibly_damaging(0.861)	tolerated(0.07)	deleterious(0.652)	HMMPfam_Ldl_recept_a,HMMSmart_SM00192,PatternScan_LDLRA_1,superfamily_LDL receptor-like module
SORL1	6653	genome.wustl.edu	37	11	121485685	121485685	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_003105.4	+1	reviewed	p.R1842H	0.319	86	0%	39	30.8%	1	100%	possibly_damaging(0.782)	tolerated(0.12)	deleterious(0.553)	superfamily_Fibronectin type III
SORL1	6653	genome.wustl.edu	37	11	121495971	121495971	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_003105.4	+1	reviewed	p.D2117N	1.000	182	0%	51	25.5%	9	33.3%	benign(0.36)	deleterious(0.05)	neutral(0.460)	superfamily_Fibronectin type III
UBASH3B	84959	genome.wustl.edu	37	11	122650321	122650321	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_032873.4	+1	validated	p.I173	1.000	108	0%	41	26.8%	0	-	-	-	-	NULL
CRTAM	56253	genome.wustl.edu	37	11	122720904	122720904	+	Missense_Mutation	SNP	T	T	G	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_019604.2	+1	validated	p.F59V	0.999	105	0%	34	14.7%	0	-	possibly_damaging(0.767)	deleterious(0)	deleterious(0.729)	HMMSmart_SM00409,HMMPfam_V-set,superfamily_Immunoglobulin
CRTAM	56253	genome.wustl.edu	37	11	122724670	122724670	+	Silent	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_019604.2	+1	validated	p.I122	0.001	195	0%	58	20.7%	0	-	-	-	-	HMMPfam_C2-set_2,superfamily_Immunoglobulin
SCN3B	55800	genome.wustl.edu	37	11	123513184	123513184	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001040151.1	-1	reviewed	p.R139W	0.979	62	0%	44	27.3%	0	-	probably_damaging(0.995)	deleterious(0)	deleterious(0.902)	HMMSmart_SM00409,HMMPfam_V-set
OR6X1	390260	genome.wustl.edu	37	11	123624468	123624468	+	Silent	SNP	A	A	G	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001005188.1	-1	provisional	p.V253	0.000	151	0%	136	29.4%	0	-	-	-	-	HMMPfam_7tm_1,superfamily_Family A G protein-coupled receptor-like
OR6X1	390260	genome.wustl.edu	37	11	123625033	123625033	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001005188.1	-1	provisional	p.S65F	1.000	308	0%	198	11.1%	0	-	probably_damaging(0.999)	deleterious(0)	deleterious(0.935)	HMMPfam_7tm_1,superfamily_Family A G protein-coupled receptor-like
TMEM225	338661	genome.wustl.edu	37	11	123753891	123753891	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001013743.1	-1	provisional	p.S211Y	0.000	329	0%	50	12%	0	-	probably_damaging(0.976)	tolerated(0.17)	deleterious(0.477)	NULL
OR4D5	219875	genome.wustl.edu	37	11	123810352	123810352	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001001965.1	+1	provisional	p.A10V	0.556	272	0%	86	9.3%	0	-	benign(0.01)	deleterious(0)	neutral(0.445)	superfamily_Family A G protein-coupled receptor-like
OR6T1	219874	genome.wustl.edu	37	11	123814239	123814239	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001005187.1	-1	provisional	p.L103I	0.004	110	0%	71	15.5%	0	-	benign(0.419)	deleterious(0.01)	deleterious(0.542)	HMMPfam_7tm_1,superfamily_SSF81321
OR6T1	219874	genome.wustl.edu	37	11	123814389	123814389	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001005187.1	-1	provisional	p.Q53K	0.000	118	0%	48	14.6%	0	-	benign(0.016)	tolerated(0.41)	neutral(0.015)	HMMPfam_7tm_1,superfamily_SSF81321
OR6T1	219874	genome.wustl.edu	37	11	123814543	123814543	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001005187.1	-1	provisional	p.M1I	0.848	108	0%	21	23.8%	0	-	probably_damaging(0.998)	deleterious(0)	deleterious(0.919)	superfamily_SSF81321
OR10S1	219873	genome.wustl.edu	37	11	123847741	123847741	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001004474.1	-1	provisional	p.V220M	0.072	62	0%	60	11.7%	0	-	probably_damaging(0.999)	tolerated(0.08)	deleterious(0.790)	HMMPfam_7tm_1,superfamily_Family A G protein-coupled receptor-like
OR10S1	219873	genome.wustl.edu	37	11	123848229	123848229	+	Missense_Mutation	SNP	A	A	C	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001004474.1	-1	provisional	p.L57R	0.046	116	0%	72	34.7%	0	-	probably_damaging(0.998)	deleterious(0)	deleterious(0.919)	HMMPfam_7tm_1,superfamily_Family A G protein-coupled receptor-like
OR10G8	219869	genome.wustl.edu	37	11	123901265	123901265	+	Nonstop_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001004464.1	+1	provisional	p.*312Y	0.033	164	0%	56	33.9%	0	-	-	-	-	NULL
OR8G5	219865	genome.wustl.edu	37	11	124120772	124120772	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	ENST00000341493	+1	known	p.A117V	0.005	574	0%	121	13.2%	0	-	-	-	-	HMMPfam_7tm_1,PatternScan_G_PROTEIN_RECEP_F1_1,superfamily_Family A G protein-coupled receptor-like
OR8G5	219865	genome.wustl.edu	37	11	124134926	124134926	+	Silent	SNP	A	A	C	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001005198.1	+1	provisional	p.G68	0.737	295	0%	104	27.9%	0	-	-	-	-	superfamily_SSF81321
OR8G5	219865	genome.wustl.edu	37	11	124135494	124135494	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001005198.1	+1	provisional	p.A258S	0.000	402	0%	144	16.7%	0	-	-	-	-	HMMPfam_7tm_1,superfamily_SSF81321
OR8D2	283160	genome.wustl.edu	37	11	124189200	124189200	+	Missense_Mutation	SNP	T	T	G	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001002918.1	-1	provisional	p.K298N	0.681	328	0%	74	13.5%	0	-	probably_damaging(1)	deleterious(0.02)	deleterious(0.883)	superfamily_Family A G protein-coupled receptor-like
OR8B4	283162	genome.wustl.edu	37	11	124293907	124293907	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001005196.1	-1	provisional	p.S287	0.962	234	0.4%	93	18.3%	0	-	-	-	-	HMMPfam_7tm_1,superfamily_SSF81321
OR8B4	283162	genome.wustl.edu	37	11	124294354	124294354	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001005196.1	-1	provisional	p.R138	0.000	135	0%	59	13.6%	0	-	-	-	-	HMMPfam_7tm_1,superfamily_SSF81321
PANX3	116337	genome.wustl.edu	37	11	124487306	124487306	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_052959.2	+1	reviewed	p.S154F	1.000	102	0%	67	23.9%	0	-	possibly_damaging(0.737)	deleterious(0)	deleterious(0.714)	NULL
SIAE	54414	genome.wustl.edu	37	11	124518058	124518058	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_170601.3	-1	validated	p.D246N	0.000	255	0%	74	29.7%	1	0%	benign(0.002)	tolerated(0.49)	neutral(0.011)	HMMPfam_DUF303
ESAM	90952	genome.wustl.edu	37	11	124624604	124624604	+	Silent	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_138961.2	-1	validated	p.V221	1.000	188	0%	276	23.2%	50	0%	-	-	-	HMMSmart_IGc2,HMMPfam_I-set,superfamily_SSF48726
MSANTD2	79684	genome.wustl.edu	37	11	124637488	124637488	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_024631.2	-1	validated	p.L370I	1.000	132	0%	119	20.2%	7	14.2%	possibly_damaging(0.892)	deleterious(0)	deleterious(0.796)	NULL
ROBO3	64221	genome.wustl.edu	37	11	124744131	124744131	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_022370.3	+1	reviewed	p.Q650H	1.000	73	0%	114	18.4%	0	-	possibly_damaging(0.863)	deleterious(0.02)	deleterious(0.717)	superfamily_Fibronectin type III
ROBO4	54538	genome.wustl.edu	37	11	124754955	124754955	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_019055.5	-1	validated	p.R995C	0.000	86	0%	72	19.4%	52	0%	possibly_damaging(0.601)	deleterious(0.01)	deleterious(0.614)	NULL
ROBO4	54538	genome.wustl.edu	37	11	124756460	124756460	+	Silent	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_019055.5	-1	validated	p.G898	1.000	41	0%	54	33.3%	56	0%	-	-	-	NULL
ROBO4	54538	genome.wustl.edu	37	11	124756466	124756466	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_019055.5	-1	validated	p.S896	0.814	42	0%	53	34%	53	0%	-	-	-	NULL
CCDC15	80071	genome.wustl.edu	37	11	124824660	124824660	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_025004.2	+1	validated	p.R11Q	0.025	222	0%	115	10.4%	0	-	probably_damaging(1)	deleterious(0)	deleterious(0.945)	NULL
SLC37A2	219855	genome.wustl.edu	37	11	124955318	124955318	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_198277.2	+1	validated	p.A426T	0.826	68	0%	102	27.5%	0	-	benign(0.004)	tolerated(0.14)	neutral(0.249)	HMMPfam_MFS_1,superfamily_MFS_gen_substrate_transporter
SLC37A2	219855	genome.wustl.edu	37	11	124955872	124955872	+	Missense_Mutation	SNP	A	A	C	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_198277.2	+1	validated	p.K483T	1.000	144	0%	165	26.7%	0	-	probably_damaging(0.974)	tolerated(0.2)	neutral(0.465)	superfamily_MFS_gen_substrate_transporter
FEZ1	9638	genome.wustl.edu	37	11	125330506	125330506	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_005103.3	-1	reviewed	p.E185D	0.998	341	0%	98	20.4%	7	0%	benign(0.003)	tolerated(0.54)	neutral(0.007)	HMMPfam_FEZ
EI24	9538	genome.wustl.edu	37	11	125445188	125445188	+	Silent	SNP	T	T	C	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	ENST00000343678	+1	known	p.C24	1.000	200	0%	197	11.2%	9	0%	-	-	-	NULL
PATE2	399967	genome.wustl.edu	37	11	125647340	125647340	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_212555.2	-1	validated	p.T93	0.000	196	0%	76	13.2%	0	-	-	-	-	NULL
HYLS1	219844	genome.wustl.edu	37	11	125769318	125769318	+	Nonsense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001134793.1	+1	reviewed	p.R19*	0.253	162	0%	198	13.1%	6	0%	-	-	-	NULL
DDX25	29118	genome.wustl.edu	37	11	125778338	125778338	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_013264.3	+1	reviewed	p.K149N	0.997	277	0%	339	24.2%	0	-	probably_damaging(1)	deleterious(0)	deleterious(0.945)	HMMPfam_DEAD,HMMSmart_SM00487,superfamily_P-loop containing nucleoside triphosphate hydrolases
DDX25	29118	genome.wustl.edu	37	11	125788591	125788591	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_013264.3	+1	reviewed	p.S369	0.346	400	0.3%	171	21.6%	0	-	-	-	-	HMMPfam_Helicase_C,HMMSmart_SM00490,superfamily_P-loop containing nucleoside triphosphate hydrolases
CDON	50937	genome.wustl.edu	37	11	125859548	125859548	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_016952.4	-1	validated	p.M919I	1.000	448	0%	146	30.1%	0	-	probably_damaging(0.994)	tolerated(0.07)	deleterious(0.771)	superfamily_Fibronectin type III
CDON	50937	genome.wustl.edu	37	11	125867102	125867102	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_016952.4	-1	validated	p.G788C	1.000	137	0%	37	18.9%	0	-	probably_damaging(1)	deleterious(0)	deleterious(0.945)	HMMPfam_fn3,HMMSmart_SM00060,superfamily_Fibronectin type III
CDON	50937	genome.wustl.edu	37	11	125885264	125885264	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_016952.4	-1	validated	p.R357Q	0.964	407	0.2%	88	13.6%	0	-	probably_damaging(1)	deleterious(0.02)	deleterious(0.883)	HMMSmart_SM00408,HMMSmart_SM00409,HMMPfam_I-set,superfamily_Immunoglobulin
SRPR	6734	genome.wustl.edu	37	11	126136800	126136800	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_003139.3	-1	reviewed	p.A182T	0.396	178	0%	235	15.7%	15	6.6%	benign(0)	tolerated(0.46)	neutral(0.012)	HMMPfam_SRP-alpha_N
DCPS	28960	genome.wustl.edu	37	11	126201357	126201357	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_014026.3	+1	validated	p.R145H	0.998	125	0%	116	30.2%	16	6.2%	benign(0)	tolerated(0.17)	neutral(0.059)	HMMPfam_DcpS,superfamily_Scavenger_mRNA_decap_enz_N
KCNJ5	3762	genome.wustl.edu	37	11	128781758	128781758	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_000890.3	+1	reviewed	p.A197V	1.000	215	0.5%	232	12.1%	1	0%	probably_damaging(0.991)	deleterious(0)	deleterious(0.889)	HMMPfam_IRK,superfamily_Ig_E-set
ARHGAP32	9743	genome.wustl.edu	37	11	128839283	128839283	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001142685.1	-1	validated	p.A1928D	0.000	113	0%	133	21.1%	5	20%	benign(0.031)	deleterious(0.02)	neutral(0.385)	NULL
ARHGAP32	9743	genome.wustl.edu	37	11	128868312	128868312	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001142685.1	-1	validated	p.S352Y	1.000	245	0%	73	20.5%	0	-	probably_damaging(0.995)	deleterious(0)	deleterious(0.902)	NULL
PRDM10	56980	genome.wustl.edu	37	11	129784657	129784657	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_020228.2	-1	reviewed	p.S932L	1.000	198	0%	113	21.2%	0	-	benign(0.156)	deleterious(0.01)	neutral(0.420)	NULL
ST14	6768	genome.wustl.edu	37	11	130068267	130068267	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_021978.3	+1	reviewed	p.C508	0.467	81	0%	131	21.4%	18	33.3%	-	-	-	HMMPfam_Ldl_recept_a,HMMSmart_LDLa,superfamily_LDL_rcpt_classA_cys-rich
ZBTB44	29068	genome.wustl.edu	37	11	130131405	130131405	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_014155.4	-1	validated	p.E122K	1.000	180	0%	47	17%	6	0%	possibly_damaging(0.938)	deleterious(0.02)	deleterious(0.766)	HMMSmart_BTB,superfamily_BTB/POZ_fold,HMMPfam_BTB
ADAMTS8	11095	genome.wustl.edu	37	11	130278493	130278493	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_007037.4	-1	reviewed	p.I655	1.000	49	0%	53	13.2%	7	57.1%	-	-	-	NULL
ADAMTS15	170689	genome.wustl.edu	37	11	130318996	130318996	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_139055.2	+1	reviewed	p.R43Q	0.009	67	0%	122	29.5%	3	0%	benign(0.001)	tolerated(0.51)	neutral(0.009)	HMMPfam_Pep_M12B_propep
SNX19	399979	genome.wustl.edu	37	11	130773178	130773178	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_014758.2	-1	validated	p.R849C	0.143	295	0%	123	21.1%	8	12.5%	probably_damaging(0.994)	deleterious(0)	deleterious(0.897)	HMMPfam_Nexin_C
SNX19	399979	genome.wustl.edu	37	11	130785118	130785118	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_014758.2	-1	validated	p.V239	0.421	65	0%	101	24.8%	1	0%	-	-	-	HMMPfam_PXA,HMMSmart_SM00313
OPCML	4978	genome.wustl.edu	37	11	132307199	132307199	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_002545.3	-1	reviewed	p.R194Q	0.995	143	0%	63	27%	0	-	probably_damaging(1)	deleterious(0)	deleterious(0.945)	HMMSmart_SM00408,HMMSmart_SM00409,HMMPfam_I-set,superfamily_Immunoglobulin
JAM3	83700	genome.wustl.edu	37	11	134014868	134014868	+	Silent	SNP	A	A	G	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_032801.3	+1	reviewed	p.L242	0.967	279	0%	162	16.7%	9	0%	-	-	-	HMMSmart_SM00408,HMMSmart_SM00409,HMMPfam_ig,superfamily_Immunoglobulin
JAM3	83700	genome.wustl.edu	37	11	134015900	134015900	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_032801.3	+1	reviewed	p.D269	0.002	177	0%	106	23.6%	12	0%	-	-	-	HMMSmart_SM00408,HMMSmart_SM00409,superfamily_Immunoglobulin
JAM3	83700	genome.wustl.edu	37	11	134018508	134018508	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_032801.3	+1	reviewed	p.T305M	0.847	129	0%	119	31.1%	16	0%	probably_damaging(0.999)	tolerated(0.07)	deleterious(0.809)	NULL
VPS26B	112936	genome.wustl.edu	37	11	134095170	134095170	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_052875.3	+1	validated	p.L52I	1.000	69	0%	100	28%	8	0%	benign(0)	tolerated(0.78)	neutral(0.001)	HMMPfam_Vps26
THYN1	29087	genome.wustl.edu	37	11	134118767	134118767	+	Silent	SNP	A	A	G	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001037305.1	-1	reviewed	p.G189	0.843	164	0%	219	23.3%	120	36.6%	-	-	-	HMMPfam_DUF55
GLB1L3	112937	genome.wustl.edu	37	11	134182770	134182770	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001080407.2	+1	validated	p.P497S	0.825	343	0%	201	20.4%	0	-	possibly_damaging(0.929)	tolerated(0.13)	deleterious(0.629)	NULL
B3GAT1	27087	genome.wustl.edu	37	11	134253791	134253791	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_018644.3	-1	reviewed	p.R135H	0.995	8	0.000	26	0.308	0	-	benign(0.003)	tolerated(0.12)	neutral(0.261)	HMMPfam_Glyco_transf_43,superfamily_SSF53448
SLC6A12	6539	genome.wustl.edu	37	12	310934	310934	+	Missense_Mutation	SNP	A	A	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001122847.1	-1	validated	p.F191Y	1.000	250	0%	398	25.9%	1	0%	probably_damaging(0.997)	tolerated(0.15)	deleterious(0.707)	HMMPfam_SNF
SLC6A13	6540	genome.wustl.edu	37	12	335670	335670	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_016615.2	-1	provisional	p.A316T	0.352	103	0%	100	18%	0	-	possibly_damaging(0.525)	tolerated(0.19)	neutral(0.226)	HMMPfam_SNF
KDM5A	5927	genome.wustl.edu	37	12	419112	419112	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001042603.1	-1	reviewed	p.D1079N	1.000	299	0%	60	23.3%	8	12.5%	possibly_damaging(0.703)	tolerated(0.1)	deleterious(0.539)	NULL
KDM5A	5927	genome.wustl.edu	37	12	422242	422242	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001042603.1	-1	reviewed	p.A1006T	0.973	361	0%	65	18.5%	1	0%	benign(0)	tolerated(0.58)	neutral(0.005)	HMMPfam_PLU-1
KDM5A	5927	genome.wustl.edu	37	12	464343	464343	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001042603.1	-1	reviewed	p.G284D	1.000	316	0%	73	19.2%	1	0%	benign(0.046)	tolerated(0.61)	neutral(0.007)	NULL
B4GALNT3	283358	genome.wustl.edu	37	12	667191	667191	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_173593.3	+1	validated	p.Y848	0.887	124	0%	135	21.5%	7	14.2%	-	-	-	superfamily_Nucleotide-diphospho-sugar transferases
WNK1	65125	genome.wustl.edu	37	12	970393	970393	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_018979.3	+1	reviewed	p.G612D	0.231	148	0%	56	23.2%	3	0%	benign(0.028)	deleterious(0.01)	neutral(0.407)	superfamily_Kinase_like
WNK1	65125	genome.wustl.edu	37	12	995025	995025	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_018979.3	+1	reviewed	p.E1685	0.998	164	0%	71	14.1%	11	0%	-	-	-	NULL
ERC1	23085	genome.wustl.edu	37	12	1192541	1192541	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_178040.2	+1	reviewed	p.R294H	1.000	178	0%	56	25%	1	0%	probably_damaging(1)	deleterious(0)	deleterious(0.945)	HMMPfam_Cast
ERC1	23085	genome.wustl.edu	37	12	1599259	1599259	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_178040.2	+1	reviewed	p.L1072I	1.000	133	0%	72	9.7%	2	0%	probably_damaging(0.958)	deleterious(0)	deleterious(0.846)	HMMPfam_RBD-FIP
ADIPOR2	79602	genome.wustl.edu	37	12	1863555	1863555	+	Nonsense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_024551.2	+1	validated	p.E16*	1.000	172	0%	73	17.8%	1	0%	-	-	-	NULL
ADIPOR2	79602	genome.wustl.edu	37	12	1889790	1889790	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_024551.2	+1	validated	p.R213W	1.000	370	0%	123	29.3%	2	0%	probably_damaging(0.999)	deleterious(0)	deleterious(0.935)	HMMPfam_HlyIII
CACNA2D4	93589	genome.wustl.edu	37	12	1988201	1988201	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_172364.4	-1	reviewed	p.R522Q	0.834	73	0%	53	13.2%	0	-	possibly_damaging(0.687)	tolerated(0.21)	neutral(0.289)	HMMPfam_Cache_1
DCP1B	196513	genome.wustl.edu	37	12	2062076	2062076	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_152640.3	-1	validated	p.R344C	0.000	145	0%	74	20.3%	11	27.2%	benign(0.001)	deleterious(0.02)	neutral(0.383)	NULL
CACNA1C	775	genome.wustl.edu	37	12	2614018	2614018	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_199460.2	+1	reviewed	p.A375V	1.000	368	0%	209	12.9%	0	-	probably_damaging(0.99)	deleterious(0.02)	deleterious(0.825)	HMMPfam_Ion_trans,superfamily_Voltage-gated potassium channels
CACNA1C	775	genome.wustl.edu	37	12	2614095	2614095	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_199460.2	+1	reviewed	p.L401I	1.000	465	0%	248	11.7%	2	0%	probably_damaging(0.971)	deleterious(0)	deleterious(0.857)	HMMPfam_Ion_trans,superfamily_Voltage-gated potassium channels
CACNA1C	775	genome.wustl.edu	37	12	2692013	2692013	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_199460.2	+1	reviewed	p.S710L	1.000	295	0%	498	12%	3	0%	possibly_damaging(0.621)	tolerated(0.2)	neutral(0.266)	HMMPfam_Ion_trans,superfamily_Voltage-gated potassium channels
CACNA1C	775	genome.wustl.edu	37	12	2786908	2786908	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_199460.2	+1	reviewed	p.R1704C	1.000	35	0%	47	23.4%	14	0%	probably_damaging(0.996)	deleterious(0)	deleterious(0.906)	NULL
TEAD4	7004	genome.wustl.edu	37	12	3128293	3128293	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_003213.2	+1	reviewed	p.F180	1.000	36	0%	79	12.7%	13	7.6%	-	-	-	HMMPfam_TEA
TEAD4	7004	genome.wustl.edu	37	12	3147238	3147238	+	Silent	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_003213.2	+1	reviewed	p.V334	1.000	72	0%	91	24.2%	53	0%	-	-	-	HMMPfam_TEA
EFCAB4B	84766	genome.wustl.edu	37	12	3788201	3788201	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001144958.1	-1	validated	p.R135H	0.000	238	0%	146	18.5%	0	-	benign(0.003)	tolerated(0.12)	neutral(0.261)	NULL
ENSG00000118976	0	genome.wustl.edu	37	12	3948817	3948817	+	Missense_Mutation	SNP	T	T	G	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	ENST00000237841	+1	known	p.F117C	1.000	134	0%	303	26.1%	0	-	-	-	-	HMMPfam_OTU,superfamily_SSF54001
ENSG00000118976	0	genome.wustl.edu	37	12	3948994	3948994	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	ENST00000237841	+1	known	p.V176A	0.972	520	0%	834	12.6%	2	0%	-	-	-	NULL
CCND2	894	genome.wustl.edu	37	12	4385256	4385256	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001759.3	+1	validated	p.P94L	0.943	68	0%	123	19.5%	8	0%	benign(0.006)	tolerated(0.24)	neutral(0.037)	HMMSmart_SM00385,HMMPfam_Cyclin_N,superfamily_Cyclin-like
CCND2	894	genome.wustl.edu	37	12	4385387	4385387	+	Splice_Site	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001759.3	+1	validated	e2+1	1.000	99	0%	137	20.4%	0	-	-	-	-	-
CCND2	894	genome.wustl.edu	37	12	4398043	4398043	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001759.3	+1	validated	p.A203T	1.000	137	0%	80	13.8%	9	0%	probably_damaging(1)	deleterious(0)	deleterious(0.945)	HMMPfam_Cyclin_C,superfamily_Cyclin-like
CCND2	894	genome.wustl.edu	37	12	4409158	4409158	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001759.3	+1	validated	p.R285W	1.000	67	1.5%	32	50%	15	0%	probably_damaging(0.98)	deleterious(0.01)	deleterious(0.830)	NULL
FGF6	2251	genome.wustl.edu	37	12	4553299	4553299	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_020996.1	-1	reviewed	p.T150	1.000	87	0%	80	20%	0	-	-	-	-	HMMPfam_FGF,HMMSmart_FGF,PatternScan_HBGF_FGF,superfamily_Cytok_IL1_like
C12orf4	57102	genome.wustl.edu	37	12	4626356	4626356	+	Splice_Site	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_020374.2	-1	predicted	e8-1	1.000	258	0%	86	32.6%	0	-	-	-	-	-
C12orf4	57102	genome.wustl.edu	37	12	4627253	4627253	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_020374.2	-1	predicted	p.R335Q	1.000	255	0%	100	13%	0	-	probably_damaging(0.999)	tolerated(0.06)	deleterious(0.813)	HMMPfam_DUF2362
C12orf4	57102	genome.wustl.edu	37	12	4634484	4634484	+	Nonsense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_020374.2	-1	predicted	p.E222*	1.000	755	0%	202	27.2%	2	0%	-	-	-	HMMPfam_DUF2362
RAD51AP1	10635	genome.wustl.edu	37	12	4657956	4657956	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001130862.1	+1	validated	p.G187	0.895	421	0%	198	24.2%	0	-	-	-	-	NULL
RAD51AP1	10635	genome.wustl.edu	37	12	4665525	4665525	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001130862.1	+1	validated	p.S260L	0.276	124	0.8%	123	25.2%	2	0%	probably_damaging(0.996)	deleterious(0)	deleterious(0.906)	NULL
DYRK4	8798	genome.wustl.edu	37	12	4702198	4702198	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_003845.1	+1	provisional	p.S50Y	1.000	179	0%	46	15.2%	0	-	probably_damaging(0.976)	deleterious(0)	deleterious(0.863)	NULL
DYRK4	8798	genome.wustl.edu	37	12	4721739	4721739	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_003845.1	+1	provisional	p.D392	0.812	163	0%	33	36.4%	65	26.1%	-	-	-	HMMSmart_SM00219,HMMSmart_SM00220,superfamily_Protein kinase-like (PK-like),HMMPfam_Pkinase
AKAP3	10566	genome.wustl.edu	37	12	4736363	4736363	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_006422.2	-1	reviewed	p.D569N	0.003	80	0%	21	33.3%	0	-	benign(0.244)	tolerated(0.74)	neutral(0.026)	HMMPfam_AKAP_110,HMMSmart_SM00807
AKAP3	10566	genome.wustl.edu	37	12	4736611	4736611	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_006422.2	-1	reviewed	p.R486H	0.000	223	0%	82	25.6%	0	-	benign(0.002)	tolerated(0.34)	neutral(0.023)	HMMPfam_AKAP_110,HMMSmart_SM00807
AKAP3	10566	genome.wustl.edu	37	12	4736993	4736993	+	Missense_Mutation	SNP	T	T	G	rs75478260		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_006422.2	-1	reviewed	p.K359Q	1.000	232	0%	67	28.4%	0	-	probably_damaging(0.999)	deleterious(0)	deleterious(0.935)	HMMPfam_AKAP_110,HMMSmart_SM00807
AKAP3	10566	genome.wustl.edu	37	12	4737875	4737875	+	Nonsense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_006422.2	-1	reviewed	p.E65*	0.999	222	0%	63	17.5%	0	-	-	-	-	HMMSmart_SM00807
NDUFA9	4704	genome.wustl.edu	37	12	4766923	4766923	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_005002.4	+1	reviewed	p.A110T	0.011	259	0%	66	24.2%	28	7.1%	benign(0.043)	tolerated(0.15)	neutral(0.243)	HMMPfam_Epimerase,superfamily_NAD(P)-bd
NDUFA9	4704	genome.wustl.edu	37	12	4766990	4766990	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_005002.4	+1	reviewed	p.R132Q	1.000	334	0%	93	18.3%	18	27.7%	possibly_damaging(0.745)	tolerated(0.09)	deleterious(0.570)	HMMPfam_Epimerase,superfamily_NAD(P)-bd
GALNT8	26290	genome.wustl.edu	37	12	4830002	4830002	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_017417.1	+1	reviewed	p.Y53	0.000	254	0%	81	18.5%	0	-	-	-	-	NULL
GALNT8	26290	genome.wustl.edu	37	12	4874627	4874627	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_017417.1	+1	reviewed	p.D559G	1.000	295	0%	237	27.4%	0	-	probably_damaging(0.992)	deleterious(0)	deleterious(0.892)	HMMPfam_Ricin_B_lectin,HMMSmart_RICIN,superfamily_RicinB_like
KCNA6	3742	genome.wustl.edu	37	12	4919603	4919603	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_002235.3	+1	reviewed	p.A132	0.960	38	0%	54	24.1%	0	-	-	-	-	HMMSmart_BTB,HMMPfam_K_tetra,superfamily_BTB/POZ_fold
KCNA1	3736	genome.wustl.edu	37	12	5021658	5021658	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_000217.2	+1	reviewed	p.T372A	1.000	84	0%	128	15.6%	0	-	possibly_damaging(0.932)	deleterious(0)	deleterious(0.823)	HMMPfam_Ion_trans,superfamily_SSF81324
KCNA5	3741	genome.wustl.edu	37	12	5154511	5154511	+	Nonsense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_002234.2	+1	reviewed	p.R400*	0.575	77	1.3%	142	19.7%	0	-	-	-	-	HMMPfam_Ion_trans,superfamily_Voltage-gated potassium channels
KCNA5	3741	genome.wustl.edu	37	12	5154886	5154886	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_002234.2	+1	reviewed	p.R525W	1.000	146	0%	276	15.9%	0	-	probably_damaging(1)	deleterious(0)	deleterious(0.945)	NULL
ANO2	57101	genome.wustl.edu	37	12	5687592	5687592	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_020373.2	-1	validated	p.D776N	1.000	192	0%	75	26.7%	1	0%	probably_damaging(1)	deleterious(0)	deleterious(0.945)	HMMPfam_DUF590
VWF	7450	genome.wustl.edu	37	12	6058290	6058290	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_000552.3	-1	reviewed	p.R2778Q	0.000	75	0%	113	28.3%	234	0%	benign(0.006)	tolerated(0.24)	neutral(0.037)	HMMSmart_SM00041,PatternScan_CTCK_1
VWF	7450	genome.wustl.edu	37	12	6128243	6128243	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_000552.3	-1	reviewed	p.E1447	1.000	89	0%	91	25.3%	5	0%	-	-	-	HMMPfam_VWA,HMMSmart_SM00327,superfamily_vWA-like
VWF	7450	genome.wustl.edu	37	12	6172185	6172185	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_000552.3	-1	reviewed	p.V490M	0.997	39	0%	53	32.1%	1	0%	possibly_damaging(0.84)	deleterious(0)	deleterious(0.766)	HMMPfam_VWD,HMMSmart_SM00216
CD9	928	genome.wustl.edu	37	12	6309728	6309728	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001769.2	+1	reviewed	p.F21L	1.000	55	0%	113	26.5%	138	15.9%	benign(0.078)	deleterious(0.01)	neutral(0.411)	HMMPfam_Tetraspannin
TNFRSF1A	7132	genome.wustl.edu	37	12	6442548	6442548	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001065.2	-1	reviewed	p.T153A	0.993	69	0%	80	30%	101	6.9%	probably_damaging(0.982)	tolerated(0.15)	deleterious(0.667)	HMMPfam_TNFR_c6,HMMSmart_SM00208,PatternScan_TNFR_NGFR_1,superfamily_TNF receptor-like
LTBR	4055	genome.wustl.edu	37	12	6494275	6494275	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_002342.1	+1	reviewed	p.Y94C	0.987	107	0%	164	24.4%	24	4.1%	probably_damaging(0.954)	tolerated(0.11)	deleterious(0.669)	HMMPfam_TNFR_c6,HMMSmart_TNFR,PatternScan_TNFR_NGFR_1,superfamily_SSF57586
CD27	939	genome.wustl.edu	37	12	6560094	6560094	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001242.4	+1	reviewed	p.R191H	0.001	366	0%	264	20.5%	70	0%	probably_damaging(0.997)	deleterious(0.01)	deleterious(0.872)	NULL
TAPBPL	55080	genome.wustl.edu	37	12	6566594	6566594	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_018009.4	+1	validated	p.Q196	0.332	115	0%	93	24.7%	5	20%	-	-	-	HMMPfam_V-set,superfamily_Immunoglobulin
TAPBPL	55080	genome.wustl.edu	37	12	6567870	6567870	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_018009.4	+1	validated	p.D322N	0.007	110	0%	130	23.8%	17	5.8%	benign(0.001)	tolerated(0.77)	neutral(0.001)	HMMSmart_SM00407,superfamily_Immunoglobulin
NOP2	4839	genome.wustl.edu	37	12	6666196	6666196	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001033714.1	-1	validated	p.S797Y	0.888	104	0%	142	12%	113	13.2%	probably_damaging(0.995)	tolerated(0.08)	deleterious(0.758)	NULL
NOP2	4839	genome.wustl.edu	37	12	6670111	6670111	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001033714.1	-1	validated	p.R441C	1.000	66	0%	130	23.8%	16	25%	probably_damaging(0.965)	deleterious(0.01)	deleterious(0.812)	HMMPfam_Nol1_Nop2_Fmu,superfamily_SSF53335
LPAR5	57121	genome.wustl.edu	37	12	6730178	6730178	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001142961.1	-1	reviewed	p.L79	0.382	64	0%	120	15.8%	0	-	-	-	-	HMMPfam_7tm_1,superfamily_Family A G protein-coupled receptor-like
ACRBP	84519	genome.wustl.edu	37	12	6749283	6749283	+	Silent	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_032489.2	-1	reviewed	p.V456	0.000	133	0%	135	25.9%	0	-	-	-	-	NULL
ZNF384	171017	genome.wustl.edu	37	12	6782466	6782466	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001135734.1	-1	reviewed	p.R276H	1.000	521	0%	576	28.5%	17	0%	possibly_damaging(0.948)	deleterious(0)	deleterious(0.836)	HMMPfam_zf-C2H2,PatternScan_ZINC_FINGER_C2H2_1,HMMSmart_SM00355,superfamily_C2H2 and C2HC zinc fingers
COPS7A	50813	genome.wustl.edu	37	12	6837440	6837440	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_016319.2	+1	validated	p.R97Q	0.847	164	0%	145	19.3%	22	13.6%	probably_damaging(0.976)	tolerated(0.44)	neutral(0.430)	HMMPfam_PCI,HMMSmart_SM00088
MLF2	8079	genome.wustl.edu	37	12	6859062	6859062	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_005439.2	-1	validated	p.R171C	1.000	105	0%	190	24.2%	116	17.2%	probably_damaging(0.998)	deleterious(0)	deleterious(0.919)	HMMPfam_Mlf1IP
LAG3	3902	genome.wustl.edu	37	12	6883843	6883843	+	Silent	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_002286.5	+1	reviewed	p.A198	0.042	57	0%	123	13.8%	28	0%	-	-	-	HMMSmart_IG,HMMPfam_ig,superfamily_SSF48726
GPR162	27239	genome.wustl.edu	37	12	6933886	6933886	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_019858.1	+1	reviewed	p.S274	1.000	44	0%	80	31.2%	0	-	-	-	-	HMMPfam_7tm_1,superfamily_Family A G protein-coupled receptor-like
GPR162	27239	genome.wustl.edu	37	12	6936040	6936040	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_019858.1	+1	reviewed	p.R480C	0.690	82	0%	141	27%	5	0%	probably_damaging(0.994)	deleterious(0)	deleterious(0.897)	NULL
ENO2	2026	genome.wustl.edu	37	12	7025009	7025009	+	Missense_Mutation	SNP	A	A	C	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001975.2	+1	reviewed	p.K5Q	1.000	64	0%	130	26.2%	2	0%	benign(0.003)	tolerated(0.08)	neutral(0.300)	HMMPfam_Enolase_N,superfamily_Enolase N-terminal domain-like
ATN1	1822	genome.wustl.edu	37	12	7044823	7044823	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001007026.1	+1	reviewed	p.T131	0.563	165	0%	304	11.2%	42	14.2%	-	-	-	HMMPfam_Atrophin-1
ATN1	1822	genome.wustl.edu	37	12	7047777	7047777	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001007026.1	+1	reviewed	p.R884H	1.000	54	0%	103	26.2%	92	8.6%	probably_damaging(0.989)	deleterious(0)	deleterious(0.884)	HMMPfam_Atrophin-1
PTPN6	5777	genome.wustl.edu	37	12	7061324	7061324	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_080549.3	+1	reviewed	p.D104N	0.999	79	1.3%	129	11.6%	10	0%	probably_damaging(1)	deleterious(0.01)	deleterious(0.905)	NULL
PTPN6	5777	genome.wustl.edu	37	12	7064350	7064350	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_080549.3	+1	reviewed	p.D185N	1.000	168	0%	205	11.7%	16	12.5%	possibly_damaging(0.617)	tolerated(0.15)	neutral(0.456)	HMMPfam_SH2,HMMSmart_SM00252,superfamily_SH2 domain
EMG1	10436	genome.wustl.edu	37	12	7083580	7083580	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	ENST00000261406	+1	known	p.A82V	1.000	143	0%	171	27.5%	70	18.5%	-	-	-	HMMPfam_EMG1
C1R	715	genome.wustl.edu	37	12	7241269	7241269	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	ENST00000290575	-1	known	p.Q339	0.558	385	0.3%	225	20.9%	236	0%	-	-	-	HMMPfam_Sushi,superfamily_Complement control module/SCR domain
CLSTN3	9746	genome.wustl.edu	37	12	7288865	7288865	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_014718.3	+1	validated	p.R269H	1.000	124	0.8%	97	55.7%	4	0%	benign(0.003)	tolerated(0.93)	-	NULL
CLSTN3	9746	genome.wustl.edu	37	12	7293904	7293904	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_014718.3	+1	validated	p.D464N	0.998	175	0%	112	28.6%	7	0%	probably_damaging(1)	deleterious(0)	deleterious(0.945)	superfamily_ConA_like_lec_gl
PEX5	5830	genome.wustl.edu	37	12	7361625	7361625	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001131023.1	+1	reviewed	p.E488	0.995	242	0%	186	26.9%	7	14.2%	-	-	-	superfamily_SSF48452
CD163L1	283316	genome.wustl.edu	37	12	7526064	7526064	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_174941.4	-1	reviewed	p.L1194	0.000	146	0%	40	32.5%	4	0%	-	-	-	HMMPfam_SRCR,HMMSmart_SM00202,superfamily_SRCR-like
CD163	9332	genome.wustl.edu	37	12	7635248	7635248	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_004244.4	-1	validated	p.R1080W	0.036	329	0.6%	69	23.2%	16	0%	probably_damaging(0.994)	deleterious(0.01)	deleterious(0.858)	NULL
CD163	9332	genome.wustl.edu	37	12	7639250	7639250	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_004244.4	-1	validated	p.A768V	0.996	163	0%	63	15.9%	0	-	benign(0.263)	deleterious(0)	deleterious(0.472)	HMMPfam_SRCR,HMMSmart_SM00202,superfamily_SRCR-like
GDF3	9573	genome.wustl.edu	37	12	7843191	7843191	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_020634.1	-1	reviewed	p.Q126	1.000	63	0%	41	9.8%	1	0%	-	-	-	NULL
DPPA3	359787	genome.wustl.edu	37	12	7867922	7867922	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_199286.2	+1	reviewed	p.D76Y	0.000	333	0%	267	12.4%	0	-	probably_damaging(0.998)	tolerated(0.06)	deleterious(0.797)	NULL
DPPA3	359787	genome.wustl.edu	37	12	7868018	7868018	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_199286.2	+1	reviewed	p.R108C	0.000	321	0%	253	11.9%	0	-	probably_damaging(0.984)	deleterious(0)	deleterious(0.875)	NULL
CLEC4C	170482	genome.wustl.edu	37	12	7882299	7882299	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_130441.2	-1	reviewed	p.R179C	0.005	230	0%	100	21%	0	-	probably_damaging(0.999)	deleterious(0.04)	deleterious(0.839)	HMMPfam_Lectin_C,HMMSmart_SM00034,superfamily_C-type lectin-like
CLEC4C	170482	genome.wustl.edu	37	12	7883501	7883501	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_130441.2	-1	reviewed	p.I130T	0.012	154	0%	65	18.5%	0	-	probably_damaging(1)	deleterious(0)	deleterious(0.945)	HMMPfam_Lectin_C,HMMSmart_SM00034,superfamily_C-type lectin-like
SLC2A14	144195	genome.wustl.edu	37	12	7967026	7967026	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_153449.2	-1	provisional	p.E483	0.981	241	0%	113	26.5%	1	0%	-	-	-	HMMPfam_Sugar_tr,superfamily_MFS general substrate transporter
ZNF705A	440077	genome.wustl.edu	37	12	8327895	8327895	+	Nonsense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001004328.2	+1	validated	p.E71*	0.000	718	0%	650	22.2%	0	-	-	-	-	NULL
FAM90A1	55138	genome.wustl.edu	37	12	8375100	8375100	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_018088.3	-1	validated	p.R238Q	0.000	109	0%	72	22.2%	0	-	benign(0.006)	tolerated(0.41)	neutral(0.015)	NULL
FAM90A1	55138	genome.wustl.edu	37	12	8375152	8375152	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_018088.3	-1	validated	p.E221K	0.000	91	0%	62	22.6%	0	-	benign(0)	tolerated(0.17)	neutral(0.059)	NULL
ENSG00000246407	0	genome.wustl.edu	37	12	8388222	8388222	+	RNA	SNP	C	C	T	rs187343993	by1000genomes	TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	ENST00000499592	-1	known	NULL	0.989	284	0%	299	18.4%	4	50%	-	-	-	-
MFAP5	8076	genome.wustl.edu	37	12	8803126	8803126	+	Nonsense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_003480.2	-1	reviewed	p.Q103*	0.168	310	0.3%	154	12.3%	108	0%	-	-	-	HMMPfam_MAGP
MFAP5	8076	genome.wustl.edu	37	12	8808020	8808020	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_003480.2	-1	reviewed	p.D55Y	1.000	296	0%	184	13.6%	81	27.1%	probably_damaging(1)	deleterious(0)	deleterious(0.945)	HMMPfam_MAGP
RIMKLB	57494	genome.wustl.edu	37	12	8866508	8866508	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_020734.2	+1	validated	p.R16C	1.000	396	0%	182	20.9%	3	0%	possibly_damaging(0.806)	deleterious(0.01)	deleterious(0.709)	NULL
RIMKLB	57494	genome.wustl.edu	37	12	8925972	8925972	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_020734.2	+1	validated	p.Q251H	1.000	478	0%	231	22.1%	14	7.1%	probably_damaging(0.989)	deleterious(0)	deleterious(0.884)	HMMPfam_RimK,superfamily_Glutathione synthetase ATP-binding domain-like
A2ML1	144568	genome.wustl.edu	37	12	8990109	8990109	+	Nonsense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_144670.3	+1	validated	p.R268*	0.000	229	0%	121	25.6%	0	-	-	-	-	NULL
A2ML1	144568	genome.wustl.edu	37	12	9013508	9013508	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_144670.3	+1	validated	p.A1099V	0.998	439	0%	169	23.7%	0	-	probably_damaging(0.998)	deleterious(0.01)	deleterious(0.880)	superfamily_Terpenoid cyclases/Protein prenyltransferases,HMMPfam_A2M_comp
A2M	2	genome.wustl.edu	37	12	9247576	9247576	+	Silent	SNP	A	A	G	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_000014.4	-1	reviewed	p.G706	0.000	295	0%	242	23.1%	83	0%	-	-	-	NULL
A2M	2	genome.wustl.edu	37	12	9252035	9252035	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_000014.4	-1	reviewed	p.T548I	0.652	293	0%	296	24%	61	0%	benign(0.418)	deleterious(0.02)	deleterious(0.518)	HMMPfam_A2M_N_2
A2M	2	genome.wustl.edu	37	12	9262615	9262615	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_000014.4	-1	reviewed	p.R174H	1.000	294	0%	100	14%	21	0%	probably_damaging(1)	deleterious(0)	deleterious(0.945)	HMMPfam_A2M_N
PZP	5858	genome.wustl.edu	37	12	9307428	9307428	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_002864.2	-1	validated	p.L1186	0.000	238	0%	123	23.6%	0	-	-	-	-	superfamily_Terpenoid cyclases/Protein prenyltransferases,HMMPfam_A2M_comp
PZP	5858	genome.wustl.edu	37	12	9318693	9318693	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_002864.2	-1	validated	p.R738Q	0.058	245	0%	124	19.4%	0	-	probably_damaging(0.999)	tolerated(0.39)	deleterious(0.506)	NULL
PZP	5858	genome.wustl.edu	37	12	9334626	9334626	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_002864.2	-1	validated	p.G545E	0.982	196	0%	52	15.4%	2	50%	possibly_damaging(0.941)	tolerated(0.13)	deleterious(0.639)	HMMPfam_A2M_N_2
DDX11L8	100302090	genome.wustl.edu	37	12	9458868	9458868	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	ENST00000341155	+1	known	p.V558I	0.000	65	0%	77	46.8%	0	-	-	-	-	NULL
CLEC12A	160364	genome.wustl.edu	37	12	10131654	10131654	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_138337.5	+1	reviewed	p.A61T	0.603	565	0.2%	126	25.4%	0	-	possibly_damaging(0.545)	deleterious(0.01)	deleterious(0.591)	NULL
KLRD1	3824	genome.wustl.edu	37	12	10466111	10466111	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001114396.1	+1	reviewed	p.L140I	0.132	339	0%	82	17.1%	8	0%	probably_damaging(0.995)	tolerated(0.07)	deleterious(0.776)	HMMPfam_Lectin_C,HMMSmart_SM00034,superfamily_C-type lectin-like
KLRC4	8302	genome.wustl.edu	37	12	10560277	10560277	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_013431.2	-1	reviewed	p.R151Q	0.004	445	0%	130	22.3%	0	-	benign(0.097)	tolerated(0.16)	neutral(0.067)	NULL
ENSG00000180574	0	genome.wustl.edu	37	12	10658594	10658594	+	Silent	SNP	T	T	C	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	ENST00000322446	+1	known	p.L31	1.000	148	0%	167	26.3%	0	-	-	-	-	NULL
STYK1	55359	genome.wustl.edu	37	12	10786713	10786713	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_018423.2	-1	validated	p.E21D	0.000	182	0.5%	57	24.6%	1	0%	benign(0.105)	tolerated(0.19)	neutral(0.058)	NULL
TAS2R9	50835	genome.wustl.edu	37	12	10962188	10962188	+	Nonsense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_023917.2	-1	reviewed	p.E163*	0.002	103	0%	37	18.9%	0	-	-	-	-	HMMPfam_TAS2R,superfamily_SSF81321
PRH1	5554	genome.wustl.edu	37	12	11035219	11035219	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_006250.2	-1	provisional	p.A60D	0.000	299	0%	101	11.9%	4	0%	unknown(0)	tolerated(0.37)	-	NULL
TAS2R14	50840	genome.wustl.edu	37	12	11091076	11091076	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_023922.1	-1	reviewed	p.S244Y	0.001	270	0%	102	21.6%	2	0%	benign(0.017)	deleterious(0.03)	neutral(0.365)	HMMPfam_TAS2R,superfamily_SSF81321
PRB2	653247	genome.wustl.edu	37	12	11545933	11545933	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_006248.3	-1	validated	p.R360Q	0.000	598	0.2%	187	27.3%	1	0%	unknown(0)	tolerated(0.41)	-	NULL
PRB2	653247	genome.wustl.edu	37	12	11545954	11545954	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_006248.3	-1	validated	p.G353D	0.000	546	0.2%	186	14%	2	0%	unknown(0)	tolerated(0.1)	-	NULL
LRP6	4040	genome.wustl.edu	37	12	12318093	12318093	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_002336.2	-1	reviewed	p.R561Q	0.998	270	0%	73	17.8%	1	0%	benign(0.032)	tolerated(0.28)	neutral(0.033)	HMMPfam_Ldl_recept_b,HMMSmart_SM00135,superfamily_YWTD domain
LRP6	4040	genome.wustl.edu	37	12	12397551	12397551	+	Nonsense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_002336.2	-1	reviewed	p.R32*	0.995	264	0%	113	19.5%	1	100%	-	-	-	superfamily_YWTD domain
MANSC1	54682	genome.wustl.edu	37	12	12483126	12483126	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_018050.2	-1	validated	p.Y377	0.000	165	0%	173	13.9%	18	16.6%	-	-	-	NULL
DDX47	51202	genome.wustl.edu	37	12	12975644	12975644	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_016355.3	+1	reviewed	p.F204S	1.000	372	0%	153	13.1%	13	7.6%	probably_damaging(1)	deleterious(0)	deleterious(0.945)	HMMPfam_DEAD,HMMSmart_SM00487,superfamily_P-loop containing nucleoside triphosphate hydrolases
GPRC5A	9052	genome.wustl.edu	37	12	13061998	13061998	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_003979.3	+1	reviewed	p.R272Q	0.000	140	0%	56	12.5%	15	33.3%	benign(0.006)	tolerated(0.59)	neutral(0.004)	HMMPfam_7tm_3
GPRC5A	9052	genome.wustl.edu	37	12	13065040	13065040	+	Silent	SNP	G	G	A	rs35854766		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_003979.3	+1	reviewed	p.T315	0.000	388	0%	163	26.4%	19	31.5%	-	-	-	NULL
GPRC5D	55507	genome.wustl.edu	37	12	13103174	13103174	+	Nonsense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_018654.1	-1	reviewed	p.R49*	0.779	115	0%	44	34.1%	1	100%	-	-	-	HMMPfam_7tm_3
ENSG00000183935	0	genome.wustl.edu	37	12	13155030	13155030	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	ENST00000331998	+1	known	p.T494	1.000	18	0%	47	19.1%	0	-	-	-	-	HMMPfam_7tm_1,superfamily_SSF81321
GSG1	83445	genome.wustl.edu	37	12	13256415	13256415	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001080555.1	-1	validated	p.V11A	1.000	360	0%	512	26.6%	0	-	possibly_damaging(0.882)	-	-	NULL
C12orf36	283422	genome.wustl.edu	37	12	13526201	13526201	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_182558.1	-1	provisional	p.K118N	0.000	481	0%	172	19.8%	0	-	unknown(0)	-	-	NULL
GRIN2B	2904	genome.wustl.edu	37	12	13716680	13716680	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_000834.3	-1	reviewed	p.R1164	0.159	73	0%	65	13.8%	0	-	-	-	-	HMMPfam_NMDAR2_C
GRIN2B	2904	genome.wustl.edu	37	12	14018957	14018957	+	Silent	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_000834.3	-1	reviewed	p.L62	1.000	137	0%	29	27.6%	0	-	-	-	-	superfamily_SSF53822
GUCY2C	2984	genome.wustl.edu	37	12	14798190	14798190	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_004963.3	-1	validated	p.K590N	1.000	314	0%	83	20.5%	0	-	possibly_damaging(0.653)	deleterious(0)	deleterious(0.674)	HMMSmart_SM00219,HMMSmart_SM00220,superfamily_Protein kinase-like (PK-like),HMMPfam_Pkinase
GUCY2C	2984	genome.wustl.edu	37	12	14804387	14804387	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_004963.3	-1	validated	p.T555I	0.238	312	0%	72	16.7%	0	-	benign(0.052)	tolerated(0.4)	neutral(0.019)	HMMSmart_SM00219,HMMSmart_SM00220,superfamily_Protein kinase-like (PK-like),HMMPfam_Pkinase
GUCY2C	2984	genome.wustl.edu	37	12	14827632	14827632	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_004963.3	-1	validated	p.K337N	0.152	421	0%	85	27.1%	0	-	benign(0.377)	tolerated(0.63)	neutral(0.124)	HMMPfam_ANF_receptor,superfamily_Periplasmic binding protein-like I
WBP11	51729	genome.wustl.edu	37	12	14946691	14946691	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_016312.2	-1	reviewed	p.R296I	1.000	556	0%	342	25.1%	17	0%	-	-	-	NULL
WBP11	51729	genome.wustl.edu	37	12	14947916	14947916	+	Silent	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_016312.2	-1	reviewed	p.T170	0.997	274	0%	175	25.1%	7	0%	-	-	-	NULL
ART4	420	genome.wustl.edu	37	12	14993624	14993624	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_021071.2	-1	reviewed	p.R203Q	1.000	309	0%	81	14.8%	0	-	probably_damaging(1)	deleterious(0)	deleterious(0.945)	HMMPfam_ART,superfamily_ADP-ribosylation
ERP27	121506	genome.wustl.edu	37	12	15070198	15070198	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_152321.2	-1	validated	p.L164I	1.000	379	0%	363	14.6%	1	0%	probably_damaging(0.996)	tolerated(1)	neutral(0.462)	superfamily_Thiordxn-like_fd
PTPRO	5800	genome.wustl.edu	37	12	15650276	15650276	+	Silent	SNP	T	T	G	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_030667.1	+1	reviewed	p.V149	1.000	215	0%	51	27.5%	0	-	-	-	-	NULL
PTPRO	5800	genome.wustl.edu	37	12	15739837	15739837	+	Missense_Mutation	SNP	G	G	A	rs141467284	by1000genomes	TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_030667.1	+1	reviewed	p.E1088K	0.998	231	0%	65	20%	0	-	benign(0.135)	deleterious(0.04)	neutral(0.360)	HMMPfam_Y_phosphatase,HMMSmart_SM00194,superfamily_(Phosphotyrosine protein) phosphatases II
EPS8	2059	genome.wustl.edu	37	12	15813629	15813629	+	Nonsense_Mutation	SNP	T	T	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_004447.5	-1	reviewed	p.K286*	0.998	516	0%	127	22.8%	8	0%	-	-	-	NULL
DERA	51071	genome.wustl.edu	37	12	16135269	16135269	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_015954.2	+1	validated	p.R179H	1.000	469	0%	270	27.8%	12	50%	probably_damaging(1)	deleterious(0)	deleterious(0.945)	HMMPfam_DeoC,superfamily_SSF51569
LMO3	55885	genome.wustl.edu	37	12	16753660	16753660	+	Silent	SNP	A	A	G	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001001395.1	-1	validated	p.C45	1.000	225	0%	108	17.6%	0	-	-	-	-	HMMPfam_LIM,HMMSmart_SM00132,PatternScan_LIM_DOMAIN_1,superfamily_Glucocorticoid receptor-like (DNA-binding domain)
PIK3C2G	5288	genome.wustl.edu	37	12	18443882	18443882	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_004570.4	+1	reviewed	p.K285	0.003	316	0%	62	22.6%	0	-	-	-	-	HMMPfam_PI3K_rbd,superfamily_Ubiquitin-like
CAPZA3	93661	genome.wustl.edu	37	12	18891439	18891439	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_033328.2	+1	reviewed	p.G79	0.378	189	0%	52	21.2%	0	-	-	-	-	HMMPfam_F-actin_cap_A,superfamily_SSF90096
PLEKHA5	54477	genome.wustl.edu	37	12	19427907	19427907	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_019012.3	+1	validated	p.E429K	0.997	159	0%	44	9.1%	7	42.8%	probably_damaging(0.984)	deleterious(0.03)	deleterious(0.795)	NULL
PLEKHA5	54477	genome.wustl.edu	37	12	19436359	19436359	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_019012.3	+1	validated	p.D481N	1.000	132	0%	76	18.4%	1	0%	possibly_damaging(0.681)	deleterious(0.01)	deleterious(0.649)	NULL
ENSG00000248116	0	genome.wustl.edu	37	12	19460462	19460462	+	RNA	SNP	C	C	T	rs188679281	by1000genomes	TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	ENST00000510738	+1	novel	NULL	1.000	80	0%	115	33%	3	33.3%	-	-	-	-
ENSG00000248116	0	genome.wustl.edu	37	12	19460999	19460999	+	RNA	SNP	A	A	G	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	ENST00000510738	+1	novel	NULL	1.000	138	0%	276	26.8%	2	50%	-	-	-	-
PDE3A	5139	genome.wustl.edu	37	12	20806972	20806972	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_000921.3	+1	validated	p.S1006F	1.000	308	0%	87	16.1%	0	-	probably_damaging(0.954)	deleterious(0)	deleterious(0.842)	HMMPfam_PDEase_I,superfamily_SSF109604
SLCO1C1	53919	genome.wustl.edu	37	12	20854367	20854367	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_017435.4	+1	reviewed	p.G82V	1.000	292	0%	130	15.4%	0	-	probably_damaging(1)	deleterious(0)	deleterious(0.945)	HMMPfam_OATP,superfamily_MFS_gen_substrate_transporter
LST-3TM12	338821	genome.wustl.edu	37	12	21174421	21174421	+	Missense_Mutation	SNP	T	T	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001009562.4	+1	validated	p.I82N	0.000	257	0%	76	18.4%	0	-	possibly_damaging(0.729)	deleterious(0.04)	deleterious(0.615)	HMMPfam_OATP,superfamily_MFS general substrate transporter
LST-3TM12	338821	genome.wustl.edu	37	12	21201767	21201767	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001009562.4	+1	validated	p.L372	0.000	424	0%	108	33.3%	0	-	-	-	-	HMMPfam_OATP,superfamily_MFS general substrate transporter
LST-3TM12	338821	genome.wustl.edu	37	12	21220308	21220308	+	Nonsense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001009562.4	+1	validated	p.R533*	0.060	407	0%	52	21.2%	0	-	-	-	-	HMMPfam_OATP,superfamily_MFS general substrate transporter
SLCO1B1	10599	genome.wustl.edu	37	12	21350119	21350119	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_006446.4	+1	reviewed	p.T323A	0.213	217	0%	66	24.2%	0	-	possibly_damaging(0.866)	tolerated(0.15)	deleterious(0.577)	HMMPfam_OATP,superfamily_MFS general substrate transporter
SLCO1B1	10599	genome.wustl.edu	37	12	21353490	21353490	+	Missense_Mutation	SNP	T	T	G	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_006446.4	+1	reviewed	p.M340R	0.002	569	0%	158	12.7%	0	-	benign(0.051)	deleterious(0)	neutral(0.448)	HMMPfam_OATP,superfamily_MFS general substrate transporter
SLCO1B1	10599	genome.wustl.edu	37	12	21375278	21375278	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_006446.4	+1	reviewed	p.S576L	0.187	197	0%	113	28.3%	0	-	possibly_damaging(0.712)	deleterious(0.01)	deleterious(0.663)	HMMPfam_OATP,superfamily_MFS general substrate transporter
SLCO1A2	6579	genome.wustl.edu	37	12	21450395	21450395	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_021094.3	-1	reviewed	p.P340S	1.000	299	0%	69	20.3%	0	-	benign(0.416)	tolerated(0.22)	neutral(0.177)	HMMPfam_OATP,superfamily_MFS general substrate transporter
SLCO1A2	6579	genome.wustl.edu	37	12	21450479	21450479	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_021094.3	-1	reviewed	p.L312I	1.000	166	0%	29	17.2%	0	-	possibly_damaging(0.869)	tolerated(0.2)	neutral(0.386)	HMMPfam_OATP,superfamily_MFS general substrate transporter
IAPP	3375	genome.wustl.edu	37	12	21531281	21531281	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_000415.2	+1	reviewed	p.N64S	1.000	283	0%	106	29.2%	0	-	benign(0.001)	tolerated(0.14)	neutral(0.249)	HMMPfam_Calc_CGRP_IAPP,HMMSmart_CALCITONIN
KCNJ8	3764	genome.wustl.edu	37	12	21926448	21926448	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_004982.2	-1	reviewed	p.R35C	1.000	118	0%	221	23.5%	9	0%	probably_damaging(1)	deleterious(0)	deleterious(0.945)	NULL
KCNJ8	3764	genome.wustl.edu	37	12	21926484	21926484	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_004982.2	-1	reviewed	p.R23C	1.000	71	0%	156	12.8%	6	0%	possibly_damaging(0.771)	deleterious(0.01)	deleterious(0.692)	NULL
ABCC9	10060	genome.wustl.edu	37	12	22028600	22028600	+	Nonsense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_005691.2	-1	reviewed	p.R694*	1.000	316	0%	130	31.5%	0	-	-	-	-	superfamily_P-loop containing nucleoside triphosphate hydrolases
CMAS	55907	genome.wustl.edu	37	12	22213769	22213769	+	Frame_Shift_Del	DEL	G	G	-	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_018686.3	+1	reviewed	p.G233fs	1.000	-	-	-	-	-	-	-	-	-	HMMPfam_CTP_transf_3,superfamily_Nucleotide-diphospho-sugar transferases
ETNK1	55500	genome.wustl.edu	37	12	22796809	22796809	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_018638.4	+1	reviewed	p.R179Q	1.000	260	0%	72	16.7%	1	0%	probably_damaging(1)	deleterious(0)	deleterious(0.945)	HMMPfam_Choline_kinase,superfamily_Kinase_like
SOX5	6660	genome.wustl.edu	37	12	23689490	23689490	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_006940.4	-1	reviewed	p.P629S	1.000	200	0%	128	26.6%	5	20%	probably_damaging(1)	deleterious(0)	deleterious(0.945)	NULL
SOX5	6660	genome.wustl.edu	37	12	23818465	23818465	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_006940.4	-1	reviewed	p.V282I	1.000	105	0%	21	38.1%	1	0%	benign(0.198)	tolerated(0.89)	neutral(0.019)	NULL
C12orf77	196415	genome.wustl.edu	37	12	25148959	25148959	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001101339.1	-1	validated	p.G63	0.122	295	0%	81	33.3%	0	-	-	-	-	NULL
LRMP	4033	genome.wustl.edu	37	12	25222291	25222291	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	ENST00000354454	+1	known	p.G40S	0.313	396	0%	124	26.6%	2	0%	-	-	-	HMMPfam_MRVI1
CASC1	55259	genome.wustl.edu	37	12	25263146	25263146	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_018272.3	-1	validated	p.R603Q	0.974	244	0%	68	29.4%	2	0%	possibly_damaging(0.9)	tolerated(0.15)	deleterious(0.597)	NULL
CASC1	55259	genome.wustl.edu	37	12	25297394	25297394	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_018272.3	-1	validated	p.E303K	0.000	557	0.2%	204	13.2%	0	-	benign(0.001)	deleterious(0.03)	neutral(0.364)	NULL
KRAS	3845	genome.wustl.edu	37	12	25378670	25378670	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_033360.2	-1	reviewed	p.P110S	1.000	411	0%	87	26.4%	2	50%	probably_damaging(1)	deleterious(0.01)	deleterious(0.905)	HMMSmart_SM00176,HMMSmart_SM00173,HMMSmart_SM00174,HMMSmart_SM00175,HMMPfam_Ras,superfamily_P-loop containing nucleoside triphosphate hydrolases
IFLTD1	160492	genome.wustl.edu	37	12	25672904	25672904	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001145728.1	-1	validated	p.R302C	0.000	525	0.4%	316	23.4%	0	-	possibly_damaging(0.864)	deleterious(0.01)	deleterious(0.740)	NULL
IFLTD1	160492	genome.wustl.edu	37	12	25699313	25699313	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001145728.1	-1	validated	p.T162	0.529	234	0%	118	16.9%	0	-	-	-	-	HMMPfam_IF_tail,superfamily_Lamin A/C globular tail domain
BHLHE41	79365	genome.wustl.edu	37	12	26277069	26277069	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_030762.2	-1	reviewed	p.R57K	1.000	444	0%	725	26.2%	0	-	probably_damaging(0.999)	deleterious(0)	deleterious(0.935)	HMMPfam_HLH,HMMSmart_SM00353,superfamily_HLH helix-loop-helix DNA-binding domain
FGFR1OP2	26127	genome.wustl.edu	37	12	27109584	27109584	+	Nonsense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_015633.2	+1	validated	p.E82*	1.000	95	1.1%	34	17.6%	21	4.7%	-	-	-	HMMPfam_DUF837
STK38L	23012	genome.wustl.edu	37	12	27461384	27461384	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_015000.3	+1	validated	p.A100V	1.000	327	0%	72	20.8%	7	14.2%	probably_damaging(1)	deleterious(0)	deleterious(0.945)	HMMSmart_S_TKc,superfamily_Kinase_like,PatternScan_PROTEIN_KINASE_ATP,HMMPfam_Pkinase
ENSG00000205693	0	genome.wustl.edu	37	12	27924206	27924206	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	ENST00000381273	-1	known	p.H2Y	0.753	213	0%	166	18.1%	0	-	benign(0.418)	tolerated(0.31)	neutral(0.163)	NULL
CCDC91	55297	genome.wustl.edu	37	12	28515411	28515411	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_018318.3	+1	validated	p.G206D	1.000	454	0.2%	92	26.1%	7	14.2%	probably_damaging(0.999)	tolerated(0.12)	deleterious(0.751)	NULL
FAR2	55711	genome.wustl.edu	37	12	29460601	29460601	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_018099.3	+1	provisional	p.D186N	0.998	215	0%	61	13.1%	3	0%	possibly_damaging(0.887)	tolerated(0.07)	deleterious(0.666)	HMMPfam_NAD_binding_4,superfamily_NAD(P)-bd
FAR2	55711	genome.wustl.edu	37	12	29486610	29486610	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_018099.3	+1	provisional	p.I477	1.000	489	0%	207	23.2%	8	0%	-	-	-	NULL
OVCH1	341350	genome.wustl.edu	37	12	29604316	29604316	+	Missense_Mutation	SNP	A	A	C	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_183378.2	-1	validated	p.I906S	0.000	141	0%	33	33.3%	0	-	benign(0.009)	tolerated(0.69)	neutral(0.003)	HMMPfam_CUB,HMMSmart_SM00042,superfamily_Spermadhesin CUB domain
OVCH1	341350	genome.wustl.edu	37	12	29629167	29629167	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_183378.2	-1	validated	p.Y481	0.027	310	0.3%	120	17.5%	0	-	-	-	-	HMMPfam_CUB,HMMSmart_SM00042,superfamily_Spermadhesin CUB domain
IPO8	10526	genome.wustl.edu	37	12	30790110	30790110	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_006390.2	-1	reviewed	p.R834Q	1.000	182	0%	39	25.6%	4	25%	probably_damaging(1)	deleterious(0.01)	deleterious(0.905)	superfamily_ARM-type_fold
IPO8	10526	genome.wustl.edu	37	12	30833513	30833513	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_006390.2	-1	reviewed	p.R181H	0.967	393	0%	130	10%	2	0%	possibly_damaging(0.92)	deleterious(0.04)	deleterious(0.720)	superfamily_ARM-type_fold
OVOS2	144203	genome.wustl.edu	37	12	31291068	31291068	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	XM_002343151.1	-1	model	p.P698	0.000	330	0.3%	99	24.2%	0	-	-	-	-	NULL
DENND5B	160518	genome.wustl.edu	37	12	31540644	31540644	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_144973.3	-1	validated	p.L1240F	0.964	200	0%	69	23.2%	1	0%	benign(0.38)	tolerated(1)	neutral(0.121)	HMMSmart_SM00593
DENND5B	160518	genome.wustl.edu	37	12	31577571	31577571	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_144973.3	-1	validated	p.G763	1.000	442	0%	150	25.3%	1	0%	-	-	-	NULL
AMN1	196394	genome.wustl.edu	37	12	31850307	31850307	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001113402.1	-1	validated	p.A193	0.993	246	0%	74	23%	6	16.6%	-	-	-	superfamily_SSF52047
C12orf35	55196	genome.wustl.edu	37	12	32135309	32135309	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_018169.3	+1	validated	p.E474K	0.000	198	0%	88	19.3%	3	33.3%	benign(0.001)	deleterious(0)	neutral(0.445)	NULL
BICD1	636	genome.wustl.edu	37	12	32458757	32458757	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001714.2	+1	reviewed	p.E236K	1.000	134	0%	42	35.7%	1	0%	probably_damaging(0.986)	deleterious(0.03)	deleterious(0.799)	HMMPfam_BicD
ALG10B	144245	genome.wustl.edu	37	12	38714203	38714203	+	Missense_Mutation	SNP	A	A	C	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001013620.3	+1	validated	p.K204Q	0.304	463	0%	314	11.5%	2	0%	possibly_damaging(0.644)	tolerated(0.38)	neutral(0.243)	HMMPfam_DIE2_ALG10
ALG10B	144245	genome.wustl.edu	37	12	38714429	38714429	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001013620.3	+1	validated	p.R279Q	0.997	706	0%	393	13%	1	0%	probably_damaging(0.997)	deleterious(0.02)	deleterious(0.849)	HMMPfam_DIE2_ALG10
CPNE8	144402	genome.wustl.edu	37	12	39047736	39047736	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_153634.2	-1	reviewed	p.P548L	0.995	314	0%	107	28%	0	-	benign(0.395)	deleterious(0.04)	deleterious(0.476)	NULL
ABCD2	225	genome.wustl.edu	37	12	39967592	39967592	+	Silent	SNP	G	G	A	rs56388075		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_005164.3	-1	reviewed	p.V643	0.920	249	0%	64	10.9%	0	-	-	-	-	HMMPfam_ABC_tran,HMMSmart_SM00382,superfamily_P-loop containing nucleoside triphosphate hydrolases
C12orf40	283461	genome.wustl.edu	37	12	40114783	40114783	+	Silent	SNP	A	A	G	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001031748.2	+1	validated	p.T563	0.000	237	0%	54	33.3%	0	-	-	-	-	NULL
SLC2A13	114134	genome.wustl.edu	37	12	40422185	40422185	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_052885.3	-1	validated	p.Q281H	1.000	236	0%	81	23.5%	1	0%	possibly_damaging(0.886)	deleterious(0.01)	deleterious(0.752)	HMMPfam_Sugar_tr,superfamily_MFS general substrate transporter
LRRK2	120892	genome.wustl.edu	37	12	40671815	40671815	+	Silent	SNP	A	A	G	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_198578.3	+1	reviewed	p.Q689	0.286	347	0%	169	26.6%	0	-	-	-	-	NULL
LRRK2	120892	genome.wustl.edu	37	12	40702409	40702409	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_198578.3	+1	reviewed	p.A1367V	0.995	219	0%	49	36.7%	0	-	possibly_damaging(0.631)	tolerated(0.08)	deleterious(0.520)	HMMPfam_Miro,superfamily_SSF52540
LRRK2	120892	genome.wustl.edu	37	12	40748239	40748239	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_198578.3	+1	reviewed	p.E2239K	0.973	235	0%	350	22.6%	1	0%	benign(0)	tolerated(0.41)	neutral(0.015)	HMMSmart_WD40,superfamily_WD40_like
CNTN1	1272	genome.wustl.edu	37	12	41323612	41323612	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001843.2	+1	reviewed	p.R171C	1.000	196	0%	31	22.6%	0	-	probably_damaging(1)	tolerated(0.1)	deleterious(0.786)	HMMSmart_SM00409,HMMPfam_V-set,superfamily_Immunoglobulin
CNTN1	1272	genome.wustl.edu	37	12	41337806	41337806	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001843.2	+1	reviewed	p.R506Q	0.998	242	0%	31	25.8%	3	0%	possibly_damaging(0.883)	tolerated(0.15)	deleterious(0.586)	superfamily_Immunoglobulin
PDZRN4	29951	genome.wustl.edu	37	12	41900448	41900448	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_013377.3	+1	validated	p.A87V	1.000	216	0.5%	54	31.5%	0	-	probably_damaging(1)	deleterious(0.01)	deleterious(0.905)	NULL
PDZRN4	29951	genome.wustl.edu	37	12	41961614	41961614	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_013377.3	+1	validated	p.R241	1.000	157	0%	63	30.2%	0	-	-	-	-	NULL
PDZRN4	29951	genome.wustl.edu	37	12	41966263	41966263	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_013377.3	+1	validated	p.S303I	1.000	148	0%	54	14.8%	0	-	probably_damaging(0.974)	deleterious(0)	deleterious(0.861)	NULL
PDZRN4	29951	genome.wustl.edu	37	12	41967170	41967170	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_013377.3	+1	validated	p.V605	0.992	113	0%	41	19.5%	0	-	-	-	-	NULL
PDZRN4	29951	genome.wustl.edu	37	12	41967217	41967217	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_013377.3	+1	validated	p.S621F	0.789	91	0%	41	24.4%	0	-	possibly_damaging(0.843)	deleterious(0.02)	deleterious(0.706)	NULL
PDZRN4	29951	genome.wustl.edu	37	12	41967266	41967266	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_013377.3	+1	validated	p.S637	0.994	74	0%	34	14.7%	1	0%	-	-	-	NULL
PDZRN4	29951	genome.wustl.edu	37	12	41967301	41967301	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_013377.3	+1	validated	p.R649Q	1.000	84	0%	26	26.9%	2	0%	probably_damaging(1)	deleterious(0)	deleterious(0.945)	NULL
PDZRN4	29951	genome.wustl.edu	37	12	41967459	41967459	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_013377.3	+1	validated	p.R702C	0.984	89	0%	43	20.9%	0	-	probably_damaging(1)	deleterious(0)	deleterious(0.945)	NULL
GXYLT1	283464	genome.wustl.edu	37	12	42523646	42523646	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_173601.1	-1	validated	p.D77Y	1.000	312	0%	111	27%	0	-	benign(0.242)	deleterious(0.02)	neutral(0.408)	NULL
ZCRB1	85437	genome.wustl.edu	37	12	42711180	42711180	+	Nonsense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_033114.3	-1	reviewed	p.R99*	1.000	199	0%	58	15.5%	34	0%	-	-	-	NULL
PPHLN1	51535	genome.wustl.edu	37	12	42729702	42729702	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	ENST00000395580	+1	known	p.E7K	1.000	211	0%	117	19.7%	14	7.1%	benign(0.135)	tolerated(0.43)	neutral(0.025)	NULL
ADAMTS20	80070	genome.wustl.edu	37	12	43769305	43769305	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_025003.3	-1	validated	p.P1775S	1.000	384	0%	176	17.6%	0	-	probably_damaging(0.956)	deleterious(0)	deleterious(0.844)	HMMPfam_GON
ADAMTS20	80070	genome.wustl.edu	37	12	43819439	43819439	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_025003.3	-1	validated	p.P1388T	1.000	486	0%	102	31.4%	0	-	benign(0.097)	tolerated(0.18)	neutral(0.064)	HMMPfam_TSP_1,HMMSmart_SM00209,superfamily_TSP-1 type 1 repeat
ADAMTS20	80070	genome.wustl.edu	37	12	43895968	43895968	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_025003.3	-1	validated	p.T285I	1.000	348	0%	494	10.9%	0	-	probably_damaging(1)	deleterious(0)	deleterious(0.945)	"HMMPfam_Reprolysin,superfamily_Metalloproteases (""zincins"") catalytic domain"
PUS7L	83448	genome.wustl.edu	37	12	44136326	44136326	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001098614.1	-1	validated	p.Q432	1.000	513	0%	145	11%	1	0%	-	-	-	HMMPfam_TruD,superfamily_PsdUridine_synth_cat_dom
PUS7L	83448	genome.wustl.edu	37	12	44142400	44142400	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001098614.1	-1	validated	p.R308Q	1.000	212	0%	89	20.2%	1	0%	benign(0.28)	tolerated(0.52)	neutral(0.095)	HMMPfam_TruD,superfamily_PsdUridine_synth_cat_dom
TWF1	5756	genome.wustl.edu	37	12	44191184	44191184	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_002822.3	-1	reviewed	p.K261N	1.000	531	0%	369	24.1%	4	0%	benign(0)	tolerated(0.37)	neutral(0.019)	HMMPfam_Cofilin_ADF,HMMSmart_SM00102,superfamily_Actin depolymerizing proteins
TWF1	5756	genome.wustl.edu	37	12	44193220	44193220	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_002822.3	-1	reviewed	p.R189Q	1.000	419	0%	374	12.6%	8	0%	benign(0.131)	tolerated(1)	neutral(0.011)	NULL
TWF1	5756	genome.wustl.edu	37	12	44194286	44194286	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_002822.3	-1	reviewed	p.K144N	0.998	608	0%	572	24.7%	13	7.6%	unknown(0)	-	-	HMMPfam_Cofilin_ADF,HMMSmart_SM00102,superfamily_Actin depolymerizing proteins
TWF1	5756	genome.wustl.edu	37	12	44196087	44196087	+	Splice_Site	SNP	A	A	G	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_002822.3	-1	reviewed	e3+2	1.000	215	0%	243	20.6%	0	-	-	-	-	-
ANO6	196527	genome.wustl.edu	37	12	45695866	45695866	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001142679.1	+1	validated	p.T47I	0.013	576	0%	88	31.8%	0	-	benign(0.003)	tolerated(0.33)	neutral(0.024)	NULL
SLC38A1	81539	genome.wustl.edu	37	12	46600946	46600946	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001077484.1	-1	validated	p.E185D	0.028	337	0%	76	28.9%	0	-	benign(0)	tolerated(0.38)	neutral(0.018)	HMMPfam_Aa_trans
SLC38A1	81539	genome.wustl.edu	37	12	46622973	46622973	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001077484.1	-1	validated	p.A93T	0.917	149	0%	70	32.9%	0	-	probably_damaging(0.996)	deleterious(0.01)	deleterious(0.867)	HMMPfam_Aa_trans
SLC38A1	81539	genome.wustl.edu	37	12	46633559	46633559	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001077484.1	-1	validated	p.E9K	1.000	396	0%	109	22.9%	0	-	possibly_damaging(0.888)	deleterious(0.02)	deleterious(0.730)	NULL
SLC38A4	55089	genome.wustl.edu	37	12	47170714	47170714	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001143824.1	-1	validated	p.A383T	1.000	151	0.7%	42	21.4%	0	-	probably_damaging(0.974)	deleterious(0)	deleterious(0.861)	HMMPfam_Aa_trans
ENDOU	8909	genome.wustl.edu	37	12	48110705	48110705	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_006025.3	-1	reviewed	p.E132	0.994	521	0%	340	22.9%	0	-	-	-	-	HMMPfam_XendoU
ENDOU	8909	genome.wustl.edu	37	12	48110796	48110796	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_006025.3	-1	reviewed	p.S102I	0.000	485	0%	329	23.7%	0	-	possibly_damaging(0.791)	deleterious(0.04)	deleterious(0.645)	HMMPfam_XendoU
COL2A1	1280	genome.wustl.edu	37	12	48368002	48368002	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001844.4	-1	reviewed	p.S1396N	1.000	196	0%	170	26.5%	0	-	unknown(0)	deleterious(0)	-	HMMPfam_COLFI,HMMSmart_SM00038
COL2A1	1280	genome.wustl.edu	37	12	48368594	48368594	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001844.4	-1	reviewed	p.V1313A	0.999	220	0%	127	26.8%	0	-	unknown(0)	tolerated(0.09)	-	HMMPfam_COLFI,HMMSmart_SM00038
ENSG00000226138	0	genome.wustl.edu	37	12	48478988	48478988	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	ENST00000419998	+1	known	p.I48	0.997	102	0%	36	13.9%	1	0%	-	-	-	HMMPfam_ATP-synt_F
PFKM	5213	genome.wustl.edu	37	12	48537586	48537586	+	Silent	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_000289.5	+1	reviewed	p.G623	0.071	522	0%	191	16.2%	19	10.5%	-	-	-	HMMPfam_PFK,superfamily_Phosphofructokinase
PFKM	5213	genome.wustl.edu	37	12	48539356	48539356	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_000289.5	+1	reviewed	p.I736	1.000	170	0%	82	19.5%	37	5.4%	-	-	-	superfamily_Phosphofructokinase
ASB8	140461	genome.wustl.edu	37	12	48543406	48543406	+	Nonsense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_024095.3	-1	validated	p.E204*	1.000	107	0%	73	23.3%	8	25%	-	-	-	NULL
OR10AD1	121275	genome.wustl.edu	37	12	48596596	48596596	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001004134.1	-1	provisional	p.L160	0.000	134	0%	95	31.6%	0	-	-	-	-	HMMPfam_7tm_1,superfamily_Family A G protein-coupled receptor-like
H1FNT	341567	genome.wustl.edu	37	12	48723755	48723755	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_181788.1	+1	provisional	p.P227	0.001	67	0%	113	12.4%	0	-	-	-	-	NULL
ZNF641	121274	genome.wustl.edu	37	12	48737262	48737262	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_152320.2	-1	validated	p.K271E	1.000	244	0%	208	24%	2	50%	probably_damaging(0.991)	deleterious(0)	deleterious(0.889)	HMMPfam_zf-C2H2,PatternScan_ZINC_FINGER_C2H2_1,HMMSmart_SM00355,superfamily_C2H2 and C2HC zinc fingers
ADCY6	112	genome.wustl.edu	37	12	49167434	49167434	+	Silent	SNP	C	C	T	rs190356796	by1000genomes	TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	ENST00000395210	-1	known	p.P44	0.000	68	0%	72	22.2%	0	-	-	-	-	NULL
DDX23	9416	genome.wustl.edu	37	12	49227102	49227102	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_004818.2	-1	reviewed	p.K587N	1.000	224	0%	211	10.9%	35	5.7%	benign(0.218)	tolerated(0.24)	neutral(0.059)	HMMPfam_DEAD,HMMSmart_SM00487,superfamily_P-loop containing nucleoside triphosphate hydrolases
DDX23	9416	genome.wustl.edu	37	12	49239393	49239393	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_004818.2	-1	reviewed	p.R58H	1.000	173	0%	258	27.1%	14	21.4%	unknown(0)	-	-	NULL
RND1	27289	genome.wustl.edu	37	12	49251837	49251837	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_014470.3	-1	validated	p.S214F	0.995	450	0%	399	30.1%	3	66.6%	possibly_damaging(0.625)	deleterious(0)	deleterious(0.662)	NULL
FKBP11	51303	genome.wustl.edu	37	12	49318019	49318019	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_016594.2	-1	validated	p.D102N	1.000	173	0%	241	23.7%	70	14.2%	probably_damaging(0.963)	tolerated(0.13)	deleterious(0.658)	HMMPfam_FKBP_C,superfamily_SSF54534
FKBP11	51303	genome.wustl.edu	37	12	49318852	49318852	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_016594.2	-1	validated	p.D58Y	1.000	21	0%	39	17.9%	48	4.1%	probably_damaging(1)	deleterious(0)	deleterious(0.945)	HMMPfam_FKBP_C,superfamily_SSF54534
MLL2	8085	genome.wustl.edu	37	12	49425803	49425803	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_003482.3	-1	validated	p.R4229W	1.000	61	0%	64	31.2%	3	0%	unknown(0)	-	-	NULL
MLL2	8085	genome.wustl.edu	37	12	49434945	49434945	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_003482.3	-1	validated	p.T2203K	0.987	51	0%	95	40%	2	0%	unknown(0)	-	-	NULL
MLL2	8085	genome.wustl.edu	37	12	49437704	49437704	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_003482.3	-1	validated	p.R1756W	1.000	186	0%	307	22.5%	1	0%	unknown(0)	-	-	NULL
DHH	50846	genome.wustl.edu	37	12	49485015	49485015	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_021044.2	-1	reviewed	p.R154H	1.000	115	0%	173	27.2%	1	0%	probably_damaging(1)	deleterious(0.01)	deleterious(0.905)	HMMPfam_HH_signal,superfamily_Hedgehog_sig_N
TUBA1A	7846	genome.wustl.edu	37	12	49580129	49580129	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_006009.2	-1	reviewed	p.E113D	1.000	336	0%	429	19.1%	272	3.3%	benign(0)	deleterious(0)	neutral(0.445)	HMMPfam_Tubulin,superfamily_Tubulin nucleotide-binding domain-like
TUBA1C	84790	genome.wustl.edu	37	12	49666312	49666312	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_032704.3	+1	provisional	p.D218N	0.997	513	0%	521	14%	466	9%	benign(0.314)	deleterious(0)	deleterious(0.542)	HMMPfam_Tubulin,superfamily_Tubulin_FtsZ
SPATS2	65244	genome.wustl.edu	37	12	49912932	49912932	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_023071.3	+1	validated	p.E325D	1.000	291	0%	99	22.2%	4	0%	probably_damaging(0.997)	tolerated(0.21)	deleterious(0.510)	HMMPfam_DUF1387
KCNH3	23416	genome.wustl.edu	37	12	49951034	49951034	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_012284.1	+1	validated	p.R882W	0.944	63	1.6%	100	13%	7	0%	possibly_damaging(0.846)	deleterious(0.01)	deleterious(0.731)	NULL
FAM186B	84070	genome.wustl.edu	37	12	49994725	49994725	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_032130.2	-1	validated	p.I233T	1.000	241	0%	120	28.3%	0	-	probably_damaging(0.99)	deleterious(0)	deleterious(0.886)	NULL
PRPF40B	25766	genome.wustl.edu	37	12	50027311	50027311	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001031698.1	+1	provisional	p.K165N	1.000	119	0%	147	27.2%	1	0%	probably_damaging(0.979)	tolerated(0.07)	deleterious(0.741)	HMMSmart_SM00456,superfamily_WW domain
PRPF40B	25766	genome.wustl.edu	37	12	50036078	50036078	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001031698.1	+1	provisional	p.R627W	1.000	68	0%	52	30.8%	12	8.3%	probably_damaging(0.998)	deleterious(0)	deleterious(0.919)	HMMSmart_SM00441,superfamily_FF domain
FMNL3	91010	genome.wustl.edu	37	12	50044531	50044531	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_175736.4	-1	validated	p.R643H	1.000	313	0%	169	29%	2	0%	possibly_damaging(0.544)	deleterious(0)	deleterious(0.629)	HMMSmart_FH2,HMMPfam_FH2,superfamily_FH2_actin_bd
FMNL3	91010	genome.wustl.edu	37	12	50047601	50047601	+	Missense_Mutation	SNP	G	G	C	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_175736.4	-1	validated	p.D376E	1.000	372	0%	232	11.6%	3	0%	possibly_damaging(0.837)	tolerated(0.07)	deleterious(0.639)	HMMPfam_Drf_FH3
NCKAP5L	57701	genome.wustl.edu	37	12	50185727	50185727	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001037806.3	-1	validated	p.A1300	0.353	20	5%	36	25%	18	33.3%	-	-	-	NULL
NCKAP5L	57701	genome.wustl.edu	37	12	50189689	50189689	+	Nonsense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001037806.3	-1	validated	p.R652*	0.362	47	0%	80	35%	4	0%	-	-	-	NULL
FAIM2	23017	genome.wustl.edu	37	12	50295007	50295007	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_012306.2	-1	validated	p.E39D	1.000	37	0%	79	30.4%	2	0%	possibly_damaging(0.719)	tolerated(0.28)	neutral(0.292)	NULL
AQP2	359	genome.wustl.edu	37	12	50344822	50344822	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_000486.5	+1	reviewed	p.A70V	0.999	34	0%	39	25.6%	0	-	possibly_damaging(0.934)	deleterious(0)	deleterious(0.825)	HMMPfam_MIP,PatternScan_MIP,superfamily_MIP
AQP2	359	genome.wustl.edu	37	12	50348032	50348032	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_000486.5	+1	reviewed	p.R152H	0.999	68	0%	112	21.4%	1	0%	possibly_damaging(0.661)	tolerated(0.08)	deleterious(0.533)	HMMPfam_MIP,superfamily_MIP
AQP6	363	genome.wustl.edu	37	12	50367155	50367155	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001652.3	+1	reviewed	p.A67T	0.997	37	0%	63	28.6%	0	-	probably_damaging(0.997)	deleterious(0)	deleterious(0.911)	HMMPfam_MIP,superfamily_MIP
ASIC1	41	genome.wustl.edu	37	12	50470994	50470994	+	Splice_Site	SNP	A	A	C	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_020039.2	+1	reviewed	e3-2	1.000	55	1.8%	75	29.3%	0	-	-	-	-	-
GPD1	2819	genome.wustl.edu	37	12	50500595	50500595	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_005276.2	+1	provisional	p.K169N	1.000	133	0%	115	10.4%	0	-	possibly_damaging(0.793)	tolerated(0.41)	neutral(0.313)	HMMPfam_NAD_Gly3P_dh_N,superfamily_NAD(P)-bd
CERS5	91012	genome.wustl.edu	37	12	50529805	50529805	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_147190.2	-1	provisional	p.I228	1.000	178	0%	86	12.8%	18	0%	-	-	-	HMMPfam_TRAM_LAG1_CLN8,HMMSmart_TLC
FAM186A	121006	genome.wustl.edu	37	12	50745266	50745266	+	Silent	SNP	A	A	C	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001145475.1	-1	provisional	p.L1783	0.000	60	0%	40	12.5%	0	-	-	-	-	NULL
FAM186A	121006	genome.wustl.edu	37	12	50745607	50745607	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001145475.1	-1	provisional	p.A1670T	0.000	196	0%	116	23.3%	0	-	possibly_damaging(0.541)	tolerated(0.14)	neutral(0.433)	NULL
FAM186A	121006	genome.wustl.edu	37	12	50747504	50747504	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001145475.1	-1	provisional	p.E1037D	0.000	258	0%	143	26.6%	0	-	benign(0)	deleterious(0.03)	neutral(0.364)	NULL
FAM186A	121006	genome.wustl.edu	37	12	50747756	50747756	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001145475.1	-1	provisional	p.A953	0.000	775	0%	347	25.9%	0	-	-	-	-	NULL
TFCP2	7024	genome.wustl.edu	37	12	51500381	51500381	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_005653.4	-1	reviewed	p.E282K	1.000	290	0%	96	27.1%	13	38.4%	benign(0.247)	tolerated(0.38)	neutral(0.043)	NULL
TFCP2	7024	genome.wustl.edu	37	12	51501101	51501101	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_005653.4	-1	reviewed	p.T249M	1.000	758	0%	242	11.6%	6	0%	probably_damaging(0.999)	tolerated(0.09)	deleterious(0.787)	HMMPfam_CP2
TFCP2	7024	genome.wustl.edu	37	12	51504760	51504760	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_005653.4	-1	reviewed	p.P155L	1.000	250	0%	114	22.8%	9	22.2%	probably_damaging(0.999)	deleterious(0)	deleterious(0.935)	HMMPfam_CP2
TFCP2	7024	genome.wustl.edu	37	12	51512417	51512417	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_005653.4	-1	reviewed	p.T87	0.032	391	0.3%	267	20.2%	6	0%	-	-	-	HMMPfam_CP2
BIN2	51411	genome.wustl.edu	37	12	51693449	51693449	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_016293.2	-1	validated	p.R153Q	1.000	212	0%	90	26.7%	2	0%	probably_damaging(0.996)	deleterious(0)	deleterious(0.906)	HMMPfam_BAR,HMMSmart_SM00721
SLC4A8	9498	genome.wustl.edu	37	12	51845946	51845946	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001039960.1	+1	validated	p.E106K	1.000	463	0%	330	10.9%	0	-	probably_damaging(0.995)	tolerated(0.07)	deleterious(0.776)	NULL
SLC4A8	9498	genome.wustl.edu	37	12	51882606	51882606	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001039960.1	+1	validated	p.T804A	1.000	204	0%	55	25.5%	1	0%	probably_damaging(0.998)	deleterious(0.02)	deleterious(0.857)	HMMPfam_HCO3_cotransp
SCN8A	6334	genome.wustl.edu	37	12	52093360	52093360	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_014191.2	+1	reviewed	p.K238R	1.000	226	0%	110	24.5%	0	-	possibly_damaging(0.655)	tolerated(0.08)	deleterious(0.530)	HMMPfam_Ion_trans,superfamily_Voltage-gated potassium channels
SCN8A	6334	genome.wustl.edu	37	12	52093452	52093452	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_014191.2	+1	reviewed	p.G269R	1.000	360	0%	139	23.7%	0	-	probably_damaging(1)	deleterious(0)	deleterious(0.945)	HMMPfam_Ion_trans,superfamily_Voltage-gated potassium channels
SCN8A	6334	genome.wustl.edu	37	12	52200889	52200889	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_014191.2	+1	reviewed	p.F1873	0.998	42	0%	41	9.8%	0	-	-	-	-	NULL
ACVRL1	94	genome.wustl.edu	37	12	52308356	52308356	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_000020.2	+1	reviewed	p.H253	0.953	113	0%	181	28.2%	28	0%	-	-	-	superfamily_Kinase_like,HMMPfam_Pkinase
ACVRL1	94	genome.wustl.edu	37	12	52312773	52312773	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_000020.2	+1	reviewed	p.I417	0.840	227	0%	349	24.1%	33	0%	-	-	-	superfamily_Kinase_like,HMMPfam_Pkinase
ACVR1B	91	genome.wustl.edu	37	12	52380679	52380679	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_004302.3	+1	reviewed	p.A405V	1.000	399	0%	181	27.1%	2	0%	probably_damaging(0.996)	deleterious(0)	deleterious(0.906)	HMMSmart_SM00219,HMMSmart_SM00220,superfamily_Protein kinase-like (PK-like),HMMPfam_Pkinase
NR4A1	3164	genome.wustl.edu	37	12	52448587	52448587	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_002135.3	+1	reviewed	p.G159S	0.631	30	0%	61	24.6%	25	0%	benign(0.385)	tolerated(0.75)	neutral(0.124)	NULL
KRT80	144501	genome.wustl.edu	37	12	52565230	52565230	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_182507.2	-1	reviewed	p.T437	0.488	60	0%	44	34.1%	1	0%	-	-	-	NULL
ENSG00000135477	0	genome.wustl.edu	37	12	52650025	52650025	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	ENST00000257935	-1	known	p.V129A	1.000	46	0%	72	20.8%	0	-	-	-	-	HMMPfam_Filament
KRT81	3887	genome.wustl.edu	37	12	52680911	52680911	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_002281.3	-1	reviewed	p.R408C	1.000	87	0%	148	30.4%	1	0%	probably_damaging(0.999)	deleterious(0)	deleterious(0.935)	HMMPfam_Filament,PatternScan_IF
KRT81	3887	genome.wustl.edu	37	12	52681459	52681459	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_002281.3	-1	reviewed	p.R316H	1.000	200	0.5%	414	11.4%	1	0%	possibly_damaging(0.896)	deleterious(0.01)	deleterious(0.759)	HMMPfam_Filament
KRT81	3887	genome.wustl.edu	37	12	52682172	52682172	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_002281.3	-1	reviewed	p.I236	0.997	149	0%	302	19.9%	0	-	-	-	-	HMMPfam_Filament
KRT83	3889	genome.wustl.edu	37	12	52709097	52709097	+	Silent	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_002282.3	-1	reviewed	p.V431	1.000	435	0%	645	22.6%	0	-	-	-	-	NULL
KRT85	3891	genome.wustl.edu	37	12	52760788	52760788	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_002283.3	-1	reviewed	p.F134	0.996	232	0%	364	22.5%	0	-	-	-	-	HMMPfam_Filament
KRT84	3890	genome.wustl.edu	37	12	52774944	52774944	+	Missense_Mutation	SNP	G	G	A	rs147729749	by1000genomes	TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_033045.3	-1	reviewed	p.R375C	0.805	239	0%	280	22.1%	0	-	probably_damaging(1)	deleterious(0.01)	deleterious(0.905)	HMMPfam_Filament
KRT82	3888	genome.wustl.edu	37	12	52789910	52789910	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_033033.3	-1	reviewed	p.A392V	1.000	84	0%	46	21.7%	0	-	probably_damaging(1)	deleterious(0)	deleterious(0.945)	HMMPfam_Filament
KRT75	9119	genome.wustl.edu	37	12	52822462	52822462	+	Silent	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_004693.2	-1	reviewed	p.I367	0.446	399	0%	210	25.7%	0	-	-	-	-	superfamily_Prefoldin,HMMPfam_Filament
KRT75	9119	genome.wustl.edu	37	12	52824400	52824400	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_004693.2	-1	reviewed	p.I320	0.907	249	0.4%	135	23%	0	-	-	-	-	superfamily_Prefoldin,HMMPfam_Filament
KRT75	9119	genome.wustl.edu	37	12	52825847	52825847	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_004693.2	-1	reviewed	p.Y239	0.950	255	0.4%	179	20.1%	0	-	-	-	-	HMMPfam_Filament
KRT75	9119	genome.wustl.edu	37	12	52827609	52827609	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_004693.2	-1	reviewed	p.F160	0.908	269	0%	231	10%	0	-	-	-	-	HMMPfam_Filament
KRT6B	3854	genome.wustl.edu	37	12	52842706	52842706	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_005555.3	-1	reviewed	p.R375C	0.988	440	0%	411	17.8%	0	-	probably_damaging(1)	deleterious(0.02)	deleterious(0.883)	HMMPfam_Filament
KRT6B	3854	genome.wustl.edu	37	12	52844235	52844235	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_005555.3	-1	reviewed	p.S237L	0.455	276	0%	301	26.9%	0	-	possibly_damaging(0.748)	deleterious(0.01)	deleterious(0.680)	HMMPfam_Filament
KRT6C	286887	genome.wustl.edu	37	12	52866034	52866034	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_173086.4	-1	reviewed	p.L191M	1.000	216	0%	189	25.9%	0	-	possibly_damaging(0.662)	deleterious(0)	deleterious(0.678)	HMMPfam_Filament
KRT6C	286887	genome.wustl.edu	37	12	52867512	52867512	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_173086.4	-1	reviewed	p.T4A	0.152	45	0%	63	25.4%	0	-	unknown(0)	tolerated(0.19)	-	NULL
KRT6A	3853	genome.wustl.edu	37	12	52881544	52881544	+	Missense_Mutation	SNP	G	G	A	rs11540301	byCluster;byFrequency;by1000genomes	TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_005554.3	-1	reviewed	p.T552I	0.647	116	0%	129	35.7%	0	-	unknown(0)	deleterious(0.01)	-	NULL
KRT6A	3853	genome.wustl.edu	37	12	52884491	52884491	+	Silent	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_005554.3	-1	reviewed	p.I313	1.000	383	0%	338	13.9%	0	-	-	-	-	HMMPfam_Filament
KRT6A	3853	genome.wustl.edu	37	12	52885362	52885362	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_005554.3	-1	reviewed	p.G233	0.027	262	0%	253	17.8%	0	-	-	-	-	HMMPfam_Filament
KRT5	3852	genome.wustl.edu	37	12	52912941	52912941	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_000424.3	-1	reviewed	p.R187W	1.000	156	0%	114	11.4%	0	-	probably_damaging(1)	deleterious(0.01)	deleterious(0.905)	HMMPfam_Filament
LOC100129218	100129218	genome.wustl.edu	37	12	52913610	52913610	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	XM_001718439.2	+1	model	p.D313N	0.971	402	0%	328	26.5%	0	-	-	-	-	NULL
LOC100129218	100129218	genome.wustl.edu	37	12	52913757	52913757	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	XM_001718439.2	+1	model	p.A362T	0.160	302	0.7%	297	12.5%	0	-	-	-	-	NULL
KRT74	121391	genome.wustl.edu	37	12	52964459	52964459	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_175053.3	-1	reviewed	p.Q334H	0.998	117	0%	55	16.4%	0	-	benign(0.018)	deleterious(0.03)	neutral(0.365)	HMMPfam_Filament
KRT74	121391	genome.wustl.edu	37	12	52964594	52964594	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_175053.3	-1	reviewed	p.H289	0.000	164	0%	79	29.1%	0	-	-	-	-	HMMPfam_Filament
KRT72	140807	genome.wustl.edu	37	12	52994888	52994888	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_080747.2	-1	reviewed	p.E117K	0.341	104	0%	193	20.7%	0	-	benign(0.013)	tolerated(0.25)	neutral(0.037)	NULL
KRT73	319101	genome.wustl.edu	37	12	53007572	53007572	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_175068.2	-1	reviewed	p.R295Q	0.997	319	0%	236	25.8%	0	-	probably_damaging(1)	deleterious(0)	deleterious(0.945)	HMMPfam_Filament
KRT73	319101	genome.wustl.edu	37	12	53008384	53008384	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_175068.2	-1	reviewed	p.F266L	1.000	122	0.8%	92	23.9%	0	-	benign(0.003)	deleterious(0.04)	neutral(0.349)	HMMPfam_Filament
KRT2	3849	genome.wustl.edu	37	12	53042057	53042057	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_000423.2	-1	reviewed	p.R341H	1.000	345	0%	213	24.4%	1	0%	probably_damaging(1)	deleterious(0.04)	deleterious(0.849)	HMMPfam_Filament
KRT1	3848	genome.wustl.edu	37	12	53071200	53071200	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_006121.3	-1	reviewed	p.R343H	1.000	278	0%	443	23%	0	-	probably_damaging(1)	deleterious(0.04)	deleterious(0.849)	HMMPfam_Filament
KRT3	3850	genome.wustl.edu	37	12	53189187	53189187	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_057088.2	-1	reviewed	p.D214N	1.000	255	0%	282	23%	0	-	probably_damaging(0.999)	deleterious(0.03)	deleterious(0.855)	HMMPfam_Filament
LOC100288809	100288809	genome.wustl.edu	37	12	53200581	53200581	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	XM_002343167.1	+1	model	p.S25Y	0.736	9	0.000	11	0.364	0	-	-	-	-	NULL
KRT4	3851	genome.wustl.edu	37	12	53203197	53203197	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_002272.2	-1	reviewed	p.E342D	1.000	210	0%	91	13.2%	0	-	possibly_damaging(0.533)	tolerated(0.08)	deleterious(0.480)	HMMPfam_Filament
KRT4	3851	genome.wustl.edu	37	12	53207674	53207674	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_002272.2	-1	reviewed	p.G131W	0.931	78	0%	38	23.7%	0	-	probably_damaging(1)	deleterious(0)	deleterious(0.945)	NULL
KRT4	3851	genome.wustl.edu	37	12	53207693	53207693	+	Silent	SNP	T	T	C	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_002272.2	-1	reviewed	p.R124	0.956	58	0%	29	41.4%	0	-	-	-	-	NULL
KRT79	338785	genome.wustl.edu	37	12	53217787	53217787	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_175834.2	-1	reviewed	p.L344	1.000	71	0%	38	26.3%	0	-	-	-	-	superfamily_Prefoldin,HMMPfam_Filament
KRT8	3856	genome.wustl.edu	37	12	53298585	53298585	+	Nonsense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_002273.3	-1	reviewed	p.G61*	0.994	19	0%	22	27.3%	161	3.1%	-	-	-	NULL
EIF4B	1975	genome.wustl.edu	37	12	53410335	53410335	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001417.4	+1	validated	p.S31I	0.994	348	0%	161	23.6%	6	0%	unknown(0)	tolerated(0.13)	-	NULL
EIF4B	1975	genome.wustl.edu	37	12	53421946	53421946	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001417.4	+1	validated	p.R318Q	1.000	200	0%	88	28.4%	47	25.5%	unknown(0)	tolerated(0.08)	-	NULL
ENSG00000247550	0	genome.wustl.edu	37	12	53433250	53433250	+	RNA	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	ENST00000499537	-1	novel	NULL	0.000	111	0%	134	9.7%	6	0%	-	-	-	-
ENSG00000247550	0	genome.wustl.edu	37	12	53447241	53447241	+	RNA	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	ENST00000499880	-1	known	NULL	0.886	68	0%	141	17%	0	-	-	-	-	-
TENC1	23371	genome.wustl.edu	37	12	53453519	53453519	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_015319.2	+1	reviewed	p.A708	0.832	13	0%	26	38.5%	16	0%	-	-	-	NULL
SOAT2	8435	genome.wustl.edu	37	12	53513037	53513037	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_003578.3	+1	reviewed	p.G347C	1.000	148	0%	212	11.8%	0	-	probably_damaging(0.999)	deleterious(0)	deleterious(0.935)	HMMPfam_MBOAT
RARG	5916	genome.wustl.edu	37	12	53609485	53609485	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_000966.4	-1	validated	p.C93Y	1.000	147	0.7%	228	11.8%	5	0%	probably_damaging(0.998)	deleterious(0)	deleterious(0.919)	HMMPfam_zf-C4,HMMSmart_SM00399,PatternScan_NUCLEAR_REC_DBD_1,superfamily_Glucocorticoid receptor-like (DNA-binding domain)
MFSD5	84975	genome.wustl.edu	37	12	53646865	53646865	+	Silent	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_032889.4	+1	validated	p.V82	1.000	375	0.3%	620	12.3%	8	0%	-	-	-	HMMPfam_DUF791,superfamily_MFS general substrate transporter
ESPL1	9700	genome.wustl.edu	37	12	53663077	53663077	+	Silent	SNP	A	A	G	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_012291.4	+1	validated	p.T117	0.000	81	0%	103	31.1%	0	-	-	-	-	NULL
ESPL1	9700	genome.wustl.edu	37	12	53663545	53663545	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_012291.4	+1	validated	p.S273	0.000	90	0%	131	25.2%	0	-	-	-	-	NULL
ESPL1	9700	genome.wustl.edu	37	12	53677242	53677242	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_012291.4	+1	validated	p.G999	0.975	178	0%	132	28.8%	0	-	-	-	-	NULL
ESPL1	9700	genome.wustl.edu	37	12	53680608	53680608	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_012291.4	+1	validated	p.T1363M	0.976	50	0%	35	31.4%	0	-	probably_damaging(1)	deleterious(0.01)	deleterious(0.905)	NULL
ESPL1	9700	genome.wustl.edu	37	12	53684721	53684721	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_012291.4	+1	validated	p.R1821C	0.052	65	0%	53	24.5%	6	33.3%	possibly_damaging(0.85)	deleterious(0.04)	deleterious(0.676)	HMMPfam_Peptidase_C50
PFDN5	5204	genome.wustl.edu	37	12	53689658	53689658	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_002624.3	+1	reviewed	p.L36	1.000	195	0%	148	26.4%	879	17.6%	-	-	-	HMMPfam_Prefoldin,superfamily_Prefoldin
AAAS	8086	genome.wustl.edu	37	12	53702751	53702751	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_015665.5	-1	reviewed	p.R330H	1.000	191	0%	161	23%	32	12.5%	probably_damaging(0.978)	tolerated(0.26)	neutral(0.455)	superfamily_WD40_like
AAAS	8086	genome.wustl.edu	37	12	53714361	53714361	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_015665.5	-1	reviewed	p.C80F	1.000	269	0%	297	23.9%	13	15.3%	probably_damaging(0.999)	deleterious(0.02)	deleterious(0.873)	NULL
SP1	6667	genome.wustl.edu	37	12	53800431	53800431	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_138473.2	+1	validated	p.A580S	1.000	120	0%	72	20.8%	3	0%	benign(0)	tolerated(0.49)	neutral(0.011)	NULL
PCBP2	5094	genome.wustl.edu	37	12	53856268	53856268	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_005016.5	+1	reviewed	p.L170I	1.000	132	0%	90	23.3%	109	7.3%	benign(0.071)	tolerated(0.21)	neutral(0.049)	superfamily_SSF54791
MAP3K12	7786	genome.wustl.edu	37	12	53877408	53877408	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_006301.2	-1	reviewed	p.K453N	1.000	211	0%	243	22.6%	14	0%	probably_damaging(0.992)	deleterious(0.05)	deleterious(0.793)	NULL
TARBP2	6895	genome.wustl.edu	37	12	53895877	53895877	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_134323.1	+1	reviewed	p.K44	1.000	120	0%	199	13.6%	9	11.1%	-	-	-	HMMPfam_dsrm,HMMSmart_SM00358,superfamily_dsRNA-binding domain-like
ATF7	11016	genome.wustl.edu	37	12	53918346	53918346	+	Splice_Site	SNP	A	A	G	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001130059.1	-1	validated	e9+2	1.000	117	0%	96	15.6%	0	-	-	-	-	-
ATP5G2	517	genome.wustl.edu	37	12	54063101	54063101	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_005176.5	-1	reviewed	p.C105R	0.000	179	0%	125	11.2%	719	2.2%	benign(0)	tolerated(0.44)	neutral(0.013)	NULL
HOXC12	3228	genome.wustl.edu	37	12	54350295	54350295	+	Missense_Mutation	SNP	G	G	A	rs146523432	by1000genomes	TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_173860.1	+1	reviewed	p.R265Q	1.000	108	0%	160	23.7%	0	-	probably_damaging(1)	deleterious(0)	deleterious(0.945)	HMMPfam_Homeobox,HMMSmart_HOX,superfamily_Homeodomain_like,PatternScan_HOMEOBOX_1
HOXC11	3227	genome.wustl.edu	37	12	54367376	54367376	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_014212.3	+1	reviewed	p.N117	1.000	38	0%	82	32.9%	0	-	-	-	-	NULL
HOXC6	3223	genome.wustl.edu	37	12	54422596	54422596	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_004503.3	+1	reviewed	p.Q97H	1.000	129	0%	212	14.2%	0	-	probably_damaging(0.966)	deleterious(0)	deleterious(0.853)	NULL
SMUG1	23583	genome.wustl.edu	37	12	54576131	54576131	+	Nonsense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_014311.1	-1	provisional	p.E188*	0.919	51	0%	102	31.4%	11	18.1%	-	-	-	HMMPfam_UDG,superfamily_DNA glycosylase
CBX5	23468	genome.wustl.edu	37	12	54635560	54635560	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001127321.1	-1	reviewed	p.E185D	1.000	612	0%	268	25.7%	14	14.2%	probably_damaging(0.979)	tolerated(0.69)	neutral(0.424)	NULL
GPR84	53831	genome.wustl.edu	37	12	54757336	54757336	+	Silent	SNP	A	A	C	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_020370.2	-1	validated	p.L100	1.000	217	0%	239	21.3%	0	-	-	-	-	HMMPfam_7tm_1,superfamily_Family A G protein-coupled receptor-like
ZNF385A	25946	genome.wustl.edu	37	12	54769642	54769642	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001130967.1	-1	validated	p.R82C	1.000	97	0%	142	23.9%	4	0%	probably_damaging(1)	deleterious(0)	deleterious(0.945)	HMMSmart_SM00451,PatternScan_ZINC_FINGER_C2H2_1,HMMSmart_SM00355
NCKAP1L	3071	genome.wustl.edu	37	12	54925334	54925334	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_005337.4	+1	reviewed	p.P888	0.002	168	0%	51	29.4%	15	0%	-	-	-	HMMPfam_Nckap1
MUCL1	118430	genome.wustl.edu	37	12	55248907	55248907	+	Silent	SNP	G	G	A	rs186684604	by1000genomes	TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_058173.2	+1	validated	p.P22	0.000	293	0%	65	16.9%	0	-	-	-	-	NULL
NEUROD4	58158	genome.wustl.edu	37	12	55420520	55420520	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_021191.2	+1	validated	p.R99	1.000	84	0%	32	15.6%	0	-	-	-	-	HMMPfam_HLH,HMMSmart_HLH,superfamily_HLH_basic
OR9K2	441639	genome.wustl.edu	37	12	55523674	55523674	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001005243.1	+1	provisional	p.G41D	1.000	362	0%	109	25.7%	0	-	probably_damaging(0.987)	deleterious(0)	deleterious(0.881)	superfamily_Family A G protein-coupled receptor-like
OR9K2	441639	genome.wustl.edu	37	12	55523882	55523882	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001005243.1	+1	provisional	p.F110L	1.000	199	0%	89	25.8%	0	-	benign(0.006)	tolerated(0.35)	neutral(0.021)	HMMPfam_7tm_1,superfamily_Family A G protein-coupled receptor-like
OR9K2	441639	genome.wustl.edu	37	12	55523908	55523908	+	Missense_Mutation	SNP	T	T	G	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001005243.1	+1	provisional	p.F119C	0.281	192	0%	99	22.2%	0	-	possibly_damaging(0.926)	deleterious(0)	deleterious(0.819)	HMMPfam_7tm_1,superfamily_Family A G protein-coupled receptor-like
OR10A7	121364	genome.wustl.edu	37	12	55615148	55615148	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001005280.1	+1	provisional	p.L114I	0.030	371	0%	151	18.5%	0	-	possibly_damaging(0.839)	deleterious(0.01)	deleterious(0.726)	HMMPfam_7tm_1,PatternScan_G_PROTEIN_RECEP_F1_1,superfamily_SSF81321
OR6C74	254783	genome.wustl.edu	37	12	55641538	55641538	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001005490.1	+1	provisional	p.P156L	0.001	141	0.7%	95	25.3%	0	-	probably_damaging(0.999)	tolerated(0.35)	deleterious(0.511)	HMMPfam_7tm_1,superfamily_SSF81321
OR6C75	390323	genome.wustl.edu	37	12	55759447	55759447	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001005497.1	+1	provisional	p.L185I	0.996	350	0%	137	25.5%	0	-	benign(0.026)	tolerated(0.43)	neutral(0.014)	HMMPfam_7tm_1,superfamily_SSF81321
PHC1P1	653441	genome.wustl.edu	37	12	55807888	55807888	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	ENST00000326184	-1	known	p.R211	0.854	171	0%	288	24.3%	3	0%	-	-	-	NULL
OR6C76	390326	genome.wustl.edu	37	12	55820674	55820674	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001005183.1	+1	provisional	p.L213F	0.001	331	0%	181	21%	0	-	benign(0.182)	tolerated(0.22)	neutral(0.059)	HMMPfam_7tm_1,superfamily_SSF81321
OR6C70	390327	genome.wustl.edu	37	12	55863659	55863659	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001005499.1	-1	provisional	p.K88	0.000	104	0%	68	25%	0	-	-	-	-	HMMPfam_7tm_1,superfamily_SSF81321
RDH5	5959	genome.wustl.edu	37	12	56115654	56115654	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_002905.3	+1	reviewed	p.V164	1.000	41	0%	42	26.2%	1	0%	-	-	-	HMMPfam_adh_short,superfamily_NAD(P)-bd
DNAJC14	85406	genome.wustl.edu	37	12	56221695	56221695	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_032364.5	-1	validated	p.A250T	0.997	117	0%	119	28.6%	11	0%	benign(0.139)	deleterious(0)	neutral(0.457)	NULL
MMP19	4327	genome.wustl.edu	37	12	56231134	56231134	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_002429.4	-1	reviewed	p.E405K	0.999	151	0%	106	24.5%	24	0%	probably_damaging(0.999)	tolerated(0.1)	deleterious(0.777)	superfamily_Hemopexin-like domain,HMMPfam_Hemopexin,HMMSmart_SM00120
MMP19	4327	genome.wustl.edu	37	12	56233469	56233469	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_002429.4	-1	reviewed	p.D193N	1.000	73	0%	37	18.9%	20	0%	unknown(0)	-	-	"HMMPfam_Peptidase_M10,HMMSmart_SM00235,superfamily_Metalloproteases (""zincins"") catalytic domain"
DGKA	1606	genome.wustl.edu	37	12	56332991	56332991	+	Nonsense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001345.4	+1	reviewed	p.E166*	1.000	248	0%	288	24%	1	0%	-	-	-	HMMSmart_SM00054,HMMPfam_efhand,superfamily_EF-hand
DGKA	1606	genome.wustl.edu	37	12	56346150	56346150	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001345.4	+1	reviewed	p.E560K	1.000	195	0.5%	119	14.3%	30	0%	probably_damaging(0.975)	tolerated(0.22)	neutral(0.459)	HMMPfam_DAGK_acc,HMMSmart_SM00045
DGKA	1606	genome.wustl.edu	37	12	56346580	56346580	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001345.4	+1	reviewed	p.I602	1.000	155	0%	71	12.7%	44	9%	-	-	-	HMMPfam_DAGK_acc,HMMSmart_SM00045
PMEL	6490	genome.wustl.edu	37	12	56355206	56355206	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_006928.3	-1	validated	p.L77	0.859	328	0%	198	11.6%	0	-	-	-	-	NULL
IKZF4	64375	genome.wustl.edu	37	12	56426396	56426396	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_022465.3	+1	validated	p.S256I	1.000	125	0%	83	26.5%	0	-	probably_damaging(1)	deleterious(0)	deleterious(0.945)	HMMPfam_zf-C2H2,PatternScan_ZINC_FINGER_C2H2_1,HMMSmart_SM00355,superfamily_C2H2 and C2HC zinc fingers
ESYT1	23344	genome.wustl.edu	37	12	56531857	56531857	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_015292.2	+1	validated	p.E749G	1.000	266	0%	244	21.7%	22	13.6%	possibly_damaging(0.911)	deleterious(0.03)	deleterious(0.728)	HMMSmart_SM00239,superfamily_C2 domain (Calcium/lipid-binding domain CaLB)
MYL6B	140465	genome.wustl.edu	37	12	56551302	56551302	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_002475.3	+1	reviewed	p.D191N	1.000	274	0%	348	25.3%	176	35.2%	possibly_damaging(0.929)	deleterious(0.01)	deleterious(0.782)	superfamily_SSF47473
MYL6	4637	genome.wustl.edu	37	12	56554431	56554431	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_021019.3	+1	reviewed	p.S150L	1.000	169	0.6%	226	26.1%	1830	5.7%	benign(0.001)	tolerated(0.06)	neutral(0.323)	superfamily_EF-hand
SLC39A5	283375	genome.wustl.edu	37	12	56626472	56626472	+	Splice_Site	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001135195.1	+1	validated	e2-1	0.504	95	0%	84	23.8%	0	-	-	-	-	-
SLC39A5	283375	genome.wustl.edu	37	12	56630525	56630525	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001135195.1	+1	validated	p.A401V	1.000	100	0%	138	24.6%	0	-	possibly_damaging(0.485)	deleterious(0)	deleterious(0.606)	HMMPfam_Zip
IL23A	51561	genome.wustl.edu	37	12	56733288	56733288	+	Nonsense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_016584.2	+1	reviewed	p.G81*	0.996	152	0%	104	13.5%	0	-	-	-	-	HMMPfam_IL6,superfamily_4_helix_cytokine
IL23A	51561	genome.wustl.edu	37	12	56733810	56733810	+	Missense_Mutation	SNP	A	A	C	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_016584.2	+1	reviewed	p.K164N	1.000	123	0%	69	27.5%	1	0%	probably_damaging(0.997)	deleterious(0)	deleterious(0.911)	HMMPfam_IL6,superfamily_4_helix_cytokine
TIMELESS	8914	genome.wustl.edu	37	12	56811536	56811536	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_003920.3	-1	validated	p.K1197	0.985	409	0%	207	25.1%	17	41.1%	-	-	-	NULL
TIMELESS	8914	genome.wustl.edu	37	12	56815747	56815747	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_003920.3	-1	validated	p.R860C	0.998	140	0%	66	15.2%	5	0%	probably_damaging(1)	deleterious(0)	deleterious(0.945)	HMMPfam_TIMELESS_C
TIMELESS	8914	genome.wustl.edu	37	12	56817649	56817649	+	Missense_Mutation	SNP	C	C	G	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_003920.3	-1	validated	p.G633A	1.000	294	0%	175	14.3%	0	-	probably_damaging(0.986)	deleterious(0)	deleterious(0.879)	NULL
MIP	4284	genome.wustl.edu	37	12	56847477	56847477	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_012064.3	-1	reviewed	p.F141	0.810	35	0%	56	12.5%	0	-	-	-	-	HMMPfam_MIP,superfamily_MIP
RBMS2	5939	genome.wustl.edu	37	12	56965484	56965484	+	Missense_Mutation	SNP	A	A	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_002898.3	+1	reviewed	p.Q129H	1.000	217	0%	105	23.8%	6	0%	probably_damaging(0.999)	deleterious(0)	deleterious(0.935)	superfamily_SSF54928
BAZ2A	11176	genome.wustl.edu	37	12	56994211	56994211	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_013449.3	-1	validated	p.D1558N	0.862	49	0%	58	25.9%	4	50%	benign(0.156)	tolerated(0.52)	neutral(0.022)	NULL
BAZ2A	11176	genome.wustl.edu	37	12	56994810	56994810	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_013449.3	-1	validated	p.R1458Q	1.000	137	0%	80	21.2%	8	0%	probably_damaging(1)	deleterious(0)	deleterious(0.945)	NULL
BAZ2A	11176	genome.wustl.edu	37	12	56995697	56995697	+	Missense_Mutation	SNP	A	A	C	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_013449.3	-1	validated	p.L1237R	0.000	68	0%	53	34%	6	33.3%	benign(0.23)	tolerated(0.12)	neutral(0.284)	NULL
BAZ2A	11176	genome.wustl.edu	37	12	57004285	57004285	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_013449.3	-1	validated	p.R565C	1.000	63	1.6%	54	20.4%	5	0%	probably_damaging(1)	tolerated(0.15)	deleterious(0.741)	HMMPfam_MBD,HMMSmart_SM00391,superfamily_DNA-binding domain
ATP5B	506	genome.wustl.edu	37	12	57036484	57036484	+	Silent	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001686.3	-1	reviewed	p.I308	1.000	167	0%	212	25%	144	9%	-	-	-	HMMPfam_ATP-synt_ab,HMMSmart_SM00382,superfamily_P-loop containing nucleoside triphosphate hydrolases
NACA	4666	genome.wustl.edu	37	12	57114205	57114205	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001113203.1	-1	validated	p.T370N	0.033	247	0%	138	8.7%	1	0%	unknown(0)	tolerated(0.09)	-	NULL
RDH16	8608	genome.wustl.edu	37	12	57351243	57351243	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_003708.3	-1	validated	p.W2R	1.000	60	0%	62	30.6%	0	-	probably_damaging(0.987)	deleterious(0)	deleterious(0.881)	NULL
ZBTB39	9880	genome.wustl.edu	37	12	57396717	57396717	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_014830.1	-1	provisional	p.R662H	1.000	115	0%	169	28.4%	0	-	probably_damaging(1)	tolerated(0.12)	deleterious(0.760)	HMMSmart_SM00355,superfamily_C2H2 and C2HC zinc fingers
ZBTB39	9880	genome.wustl.edu	37	12	57397160	57397160	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_014830.1	-1	provisional	p.A514	0.991	56	0%	92	29.3%	0	-	-	-	-	HMMPfam_zf-C2H2,PatternScan_ZINC_FINGER_C2H2_1,HMMSmart_SM00355,superfamily_C2H2 and C2HC zinc fingers
MYO1A	4640	genome.wustl.edu	37	12	57436924	57436924	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_005379.2	-1	reviewed	p.A344T	1.000	154	0.6%	58	34.5%	1	0%	probably_damaging(0.999)	deleterious(0)	deleterious(0.935)	HMMPfam_Myosin_head,HMMSmart_MYSc,superfamily_SSF52540
NAB2	4665	genome.wustl.edu	37	12	57485214	57485214	+	Silent	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_005967.3	+1	reviewed	p.I130	1.000	50	0%	102	13.7%	15	0%	-	-	-	NULL
LRP1	4035	genome.wustl.edu	37	12	57532340	57532340	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_002332.2	+1	reviewed	p.G56R	1.000	274	0%	255	13.3%	1	0%	probably_damaging(1)	deleterious(0.01)	deleterious(0.905)	HMMPfam_Ldl_recept_a,HMMSmart_SM00192,PatternScan_LDLRA_1,superfamily_LDL receptor-like module
LRP1	4035	genome.wustl.edu	37	12	57539155	57539155	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_002332.2	+1	reviewed	p.T241	0.002	61	0%	39	25.6%	2	0%	-	-	-	superfamily_YWTD domain
LRP1	4035	genome.wustl.edu	37	12	57539211	57539211	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_002332.2	+1	reviewed	p.R260H	0.998	74	1.4%	32	28.1%	1	0%	possibly_damaging(0.895)	deleterious(0.02)	deleterious(0.736)	superfamily_YWTD domain
LRP1	4035	genome.wustl.edu	37	12	57563003	57563003	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_002332.2	+1	reviewed	p.R1026C	0.998	38	0%	38	26.3%	0	-	probably_damaging(1)	deleterious(0.01)	deleterious(0.905)	HMMPfam_Ldl_recept_a,HMMSmart_SM00192,superfamily_LDL receptor-like module
LRP1	4035	genome.wustl.edu	37	12	57572216	57572216	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_002332.2	+1	reviewed	p.S1479L	1.000	76	0%	105	19%	1	0%	probably_damaging(0.99)	tolerated(0.1)	deleterious(0.728)	HMMPfam_Ldl_recept_b,HMMSmart_SM00135,superfamily_YWTD domain
LRP1	4035	genome.wustl.edu	37	12	57574160	57574160	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_002332.2	+1	reviewed	p.G1762R	0.965	80	0%	116	20.7%	2	0%	benign(0.024)	deleterious(0.04)	neutral(0.350)	HMMPfam_Ldl_recept_b,HMMSmart_SM00135,superfamily_YWTD domain
LRP1	4035	genome.wustl.edu	37	12	57587358	57587358	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_002332.2	+1	reviewed	p.R2565H	1.000	44	0%	82	12.2%	6	0%	benign(0.001)	tolerated(0.2)	neutral(0.049)	HMMPfam_Ldl_recept_a,HMMSmart_SM00192,superfamily_LDL receptor-like module,superfamily_YWTD domain
LRP1	4035	genome.wustl.edu	37	12	57588855	57588855	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_002332.2	+1	reviewed	p.G2760E	1.000	87	1.1%	141	26.2%	5	0%	possibly_damaging(0.586)	deleterious(0.01)	deleterious(0.608)	HMMPfam_Ldl_recept_a,HMMSmart_SM00192,PatternScan_LDLRA_1,superfamily_LDL receptor-like module,HMMSmart_SM00181,superfamily_YWTD domain
LRP1	4035	genome.wustl.edu	37	12	57605923	57605923	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_002332.2	+1	reviewed	p.R4458Q	1.000	160	0%	257	15.2%	184	0%	possibly_damaging(0.847)	tolerated(0.36)	neutral(0.345)	NULL
LRP1	4035	genome.wustl.edu	37	12	57606285	57606285	+	Nonsense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_002332.2	+1	reviewed	p.R4528*	1.000	107	0%	165	29.7%	178	1.1%	-	-	-	NULL
STAC3	246329	genome.wustl.edu	37	12	57637901	57637901	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_145064.1	-1	provisional	p.E322	1.000	209	0%	273	13.6%	9	0%	-	-	-	HMMSmart_SM00326,superfamily_SH3-domain,HMMPfam_SH3_2
GLI1	2735	genome.wustl.edu	37	12	57859625	57859625	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_005269.2	+1	reviewed	p.R227C	0.983	83	0%	128	21.1%	0	-	possibly_damaging(0.732)	deleterious(0.01)	deleterious(0.673)	NULL
GLI1	2735	genome.wustl.edu	37	12	57861833	57861833	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_005269.2	+1	reviewed	p.S378	0.014	32	0%	80	23.7%	0	-	-	-	-	HMMPfam_zf-C2H2,PatternScan_ZINC_FINGER_C2H2_1,HMMSmart_ZnF_C2H2,superfamily_SSF57667
ARHGAP9	64333	genome.wustl.edu	37	12	57870952	57870952	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_032496.2	-1	reviewed	p.P286L	0.001	273	0%	411	13.4%	5	0%	benign(0)	tolerated(0.77)	neutral(0.001)	NULL
MARS	4141	genome.wustl.edu	37	12	57905604	57905604	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_004990.2	+1	reviewed	p.D498Y	1.000	214	0%	303	27.1%	23	4.3%	probably_damaging(1)	deleterious(0)	deleterious(0.945)	HMMPfam_tRNA-synt_1g,superfamily_SSF52374
MBD6	114785	genome.wustl.edu	37	12	57918863	57918863	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_052897.3	+1	validated	p.R115H	1.000	52	0%	80	11.3%	4	0%	unknown(0)	-	-	NULL
MBD6	114785	genome.wustl.edu	37	12	57919694	57919694	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_052897.3	+1	validated	p.A315T	1.000	63	0%	104	23.1%	7	0%	unknown(0)	-	-	NULL
DCTN2	10540	genome.wustl.edu	37	12	57927878	57927878	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_006400.3	-1	reviewed	p.R181H	1.000	256	0%	245	28.2%	84	9.5%	benign(0.036)	deleterious(0.01)	neutral(0.408)	HMMPfam_Dynamitin
KIF5A	3798	genome.wustl.edu	37	12	57944175	57944175	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_004984.2	+1	reviewed	p.V41I	1.000	46	0%	113	31%	0	-	benign(0)	tolerated(0.21)	neutral(0.044)	HMMPfam_Kinesin,HMMSmart_SM00129,superfamily_P-loop containing nucleoside triphosphate hydrolases
KIF5A	3798	genome.wustl.edu	37	12	57960978	57960978	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_004984.2	+1	reviewed	p.R191C	1.000	241	0%	132	27.3%	0	-	probably_damaging(1)	deleterious(0)	deleterious(0.945)	HMMPfam_Kinesin,HMMSmart_SM00129,superfamily_P-loop containing nucleoside triphosphate hydrolases
PIP4K2C	79837	genome.wustl.edu	37	12	57993187	57993187	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_024779.4	+1	validated	p.S222F	1.000	640	0%	770	24.4%	2	0%	probably_damaging(1)	deleterious(0)	deleterious(0.945)	HMMPfam_PIP5K,HMMSmart_PIPKc,superfamily_SSF56104
PIP4K2C	79837	genome.wustl.edu	37	12	57993195	57993195	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_024779.4	+1	validated	p.S225P	1.000	622	0%	763	12.6%	2	0%	possibly_damaging(0.916)	deleterious(0.03)	deleterious(0.732)	HMMPfam_PIP5K,HMMSmart_PIPKc,superfamily_SSF56104
ARHGEF25	115557	genome.wustl.edu	37	12	58006763	58006763	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001111270.1	+1	validated	p.S89P	0.996	57	0%	104	14.4%	2	0%	possibly_damaging(0.903)	deleterious(0.01)	deleterious(0.764)	NULL
SLC26A10	65012	genome.wustl.edu	37	12	58017819	58017819	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_133489.2	+1	validated	p.R389C	1.000	174	0%	264	14.8%	0	-	probably_damaging(1)	deleterious(0)	deleterious(0.945)	HMMPfam_Sulfate_transp
ENSG00000240771	0	genome.wustl.edu	37	12	58017938	58017938	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	ENST00000300189	+1	known	p.A300	0.017	58	0%	93	22.6%	0	-	-	-	-	NULL
OS9	10956	genome.wustl.edu	37	12	58111706	58111706	+	Nonsense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_006812.3	+1	reviewed	p.R367*	1.000	296	0%	250	24%	67	4.4%	-	-	-	NULL
AGAP2	116986	genome.wustl.edu	37	12	58128102	58128102	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001122772.1	-1	validated	p.K467N	1.000	254	0%	395	10.6%	2	0%	probably_damaging(0.969)	deleterious(0)	deleterious(0.856)	HMMSmart_SM00173,HMMSmart_SM00175,HMMPfam_Miro,superfamily_P-loop containing nucleoside triphosphate hydrolases
TSPAN31	6302	genome.wustl.edu	37	12	58140892	58140892	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_005981.3	+1	reviewed	p.G179E	1.000	366	0%	403	23.3%	14	7.1%	probably_damaging(1)	deleterious(0)	deleterious(0.945)	HMMPfam_Tetraspannin
MARCH9	92979	genome.wustl.edu	37	12	58152555	58152555	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_138396.4	+1	validated	p.R306W	1.000	56	0%	73	20.5%	27	18.5%	probably_damaging(0.999)	deleterious(0.01)	deleterious(0.896)	NULL
TSFM	10102	genome.wustl.edu	37	12	58190079	58190079	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_005726.5	+1	reviewed	p.L231	0.992	110	0%	50	24%	25	12%	-	-	-	HMMPfam_EF_TS,superfamily_Elongation factor Ts (EF-Ts) dimerisation domain
LRIG3	121227	genome.wustl.edu	37	12	59268008	59268008	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_153377.3	-1	provisional	p.E982K	0.754	291	0.3%	109	30.3%	6	33.3%	benign(0.001)	deleterious(0.03)	neutral(0.364)	NULL
SLC16A7	9194	genome.wustl.edu	37	12	60168461	60168461	+	Nonsense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_004731.3	+1	provisional	p.Q129*	1.000	96	0%	44	25%	0	-	-	-	-	HMMPfam_MFS_1,superfamily_MFS_gen_substrate_transporter
SLC16A7	9194	genome.wustl.edu	37	12	60168524	60168524	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_004731.3	+1	provisional	p.A150T	1.000	200	0%	49	24.5%	0	-	probably_damaging(1)	deleterious(0)	deleterious(0.945)	HMMPfam_MFS_1,superfamily_MFS_gen_substrate_transporter
MON2	23041	genome.wustl.edu	37	12	62887814	62887814	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_015026.2	+1	validated	p.V99M	1.000	238	0%	203	36%	0	-	possibly_damaging(0.609)	deleterious(0.01)	deleterious(0.617)	NULL
MON2	23041	genome.wustl.edu	37	12	62919830	62919830	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_015026.2	+1	validated	p.T450A	1.000	520	0.2%	109	25.7%	0	-	benign(0.009)	tolerated(0.45)	neutral(0.013)	NULL
PPM1H	57460	genome.wustl.edu	37	12	63131352	63131352	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_020700.1	-1	validated	p.R295I	1.000	234	0%	137	21.2%	0	-	probably_damaging(0.994)	deleterious(0)	deleterious(0.897)	HMMSmart_SM00332,superfamily_Protein serine/threonine phosphatase 2C catalytic domain,HMMPfam_PP2C
AVPR1A	552	genome.wustl.edu	37	12	63541222	63541222	+	Nonsense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_000706.3	-1	reviewed	p.R392*	1.000	644	0.3%	742	12.4%	3	0%	-	-	-	HMMPfam_DUF1856,superfamily_SSF81321
AVPR1A	552	genome.wustl.edu	37	12	63544102	63544102	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_000706.3	-1	reviewed	p.A172V	0.963	26	0%	41	31.7%	0	-	benign(0)	tolerated(0.68)	neutral(0.002)	HMMPfam_7tm_1,superfamily_SSF81321
DPY19L2	283417	genome.wustl.edu	37	12	63976191	63976191	+	Nonsense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_173812.4	-1	validated	p.R574*	0.180	185	0.5%	77	22.1%	1	0%	-	-	-	HMMPfam_DUF2211
TMEM5	10329	genome.wustl.edu	37	12	64174840	64174840	+	Nonsense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_014254.1	+1	provisional	p.G71*	0.989	287	0%	459	11.5%	3	0%	-	-	-	NULL
SRGAP1	57522	genome.wustl.edu	37	12	64410786	64410786	+	Silent	SNP	T	T	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_020762.2	+1	validated	p.L161	0.522	563	0%	100	22%	2	0%	-	-	-	NULL
SRGAP1	57522	genome.wustl.edu	37	12	64456834	64456834	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_020762.2	+1	validated	p.S313	0.990	270	0%	59	10.2%	0	-	-	-	-	NULL
SRGAP1	57522	genome.wustl.edu	37	12	64456870	64456870	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_020762.2	+1	validated	p.A325	0.046	297	0%	65	16.9%	0	-	-	-	-	NULL
SRGAP1	57522	genome.wustl.edu	37	12	64491028	64491028	+	Missense_Mutation	SNP	T	T	G	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_020762.2	+1	validated	p.N562K	0.997	98	0%	34	26.5%	0	-	benign(0.038)	deleterious(0)	neutral(0.447)	HMMPfam_RhoGAP,HMMSmart_SM00324,superfamily_GTPase activation domain GAP
SRGAP1	57522	genome.wustl.edu	37	12	64505558	64505558	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_020762.2	+1	validated	p.D646N	1.000	253	0.4%	111	24.3%	0	-	probably_damaging(0.988)	deleterious(0)	deleterious(0.882)	HMMPfam_RhoGAP,HMMSmart_SM00324,superfamily_GTPase activation domain GAP
C12orf56	115749	genome.wustl.edu	37	12	64661049	64661049	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001099676.2	-1	validated	p.A435T	1.000	248	0%	62	22.6%	5	60%	probably_damaging(0.999)	tolerated(0.58)	deleterious(0.495)	NULL
XPOT	11260	genome.wustl.edu	37	12	64827314	64827314	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_007235.3	+1	reviewed	p.R795W	1.000	256	0%	62	24.2%	16	18.7%	probably_damaging(1)	deleterious(0.01)	deleterious(0.905)	superfamily_ARM-type_fold
WIF1	11197	genome.wustl.edu	37	12	65462600	65462600	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_007191.4	-1	reviewed	p.G161D	1.000	449	0%	143	19.6%	0	-	probably_damaging(0.984)	deleterious(0.01)	deleterious(0.836)	HMMPfam_WIF,HMMSmart_WIF
LEMD3	23592	genome.wustl.edu	37	12	65639990	65639990	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_014319.4	+1	reviewed	p.R874H	1.000	300	0%	172	12.2%	1	0%	probably_damaging(1)	deleterious(0.02)	deleterious(0.883)	NULL
HELB	92797	genome.wustl.edu	37	12	66698751	66698751	+	Missense_Mutation	SNP	A	A	C	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_033647.2	+1	reviewed	p.K143T	0.000	343	0%	157	24.2%	0	-	benign(0.139)	tolerated(0.54)	neutral(0.019)	NULL
CAND1	55832	genome.wustl.edu	37	12	67675717	67675717	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_018448.3	+1	validated	p.T32	1.000	301	0%	112	31.2%	1	100%	-	-	-	superfamily_ARM repeat
DYRK2	8445	genome.wustl.edu	37	12	68051568	68051568	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_006482.2	+1	reviewed	p.R294H	1.000	66	0%	59	25.4%	13	7.6%	probably_damaging(1)	deleterious(0)	deleterious(0.945)	HMMSmart_SM00219,HMMSmart_SM00220,superfamily_Protein kinase-like (PK-like),HMMPfam_Pkinase
IL26	55801	genome.wustl.edu	37	12	68619372	68619372	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_018402.1	-1	reviewed	p.T55	0.214	252	0%	73	26%	0	-	-	-	-	superfamily_4_helix_cytokine,HMMSmart_IL10
MDM1	56890	genome.wustl.edu	37	12	68715393	68715393	+	Missense_Mutation	SNP	C	C	T	rs187119579	by1000genomes	TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_017440.4	-1	reviewed	p.D273N	0.851	665	0%	318	13.5%	2	0%	benign(0.273)	deleterious(0.02)	neutral(0.412)	NULL
NUP107	57122	genome.wustl.edu	37	12	69135743	69135743	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_020401.2	+1	reviewed	p.R885C	1.000	324	0%	356	27%	49	26.5%	probably_damaging(0.989)	deleterious(0.01)	deleterious(0.845)	HMMPfam_Nup84_Nup100
CPM	1368	genome.wustl.edu	37	12	69263129	69263129	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001005502.2	-1	reviewed	p.G255R	1.000	249	0%	66	13.6%	0	-	probably_damaging(1)	deleterious(0)	deleterious(0.945)	HMMPfam_Peptidase_M14,HMMSmart_Zn_pept,superfamily_SSF53187
FRS2	10818	genome.wustl.edu	37	12	69966005	69966005	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001042555.1	+1	validated	p.R174C	0.998	137	0%	61	24.6%	3	0%	benign(0.148)	tolerated(0.2)	neutral(0.062)	NULL
FRS2	10818	genome.wustl.edu	37	12	69967875	69967875	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001042555.1	+1	validated	p.A223T	1.000	167	0%	84	28.6%	1	0%	benign(0)	tolerated(0.39)	neutral(0.016)	NULL
FRS2	10818	genome.wustl.edu	37	12	69968655	69968655	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001042555.1	+1	validated	p.S483P	1.000	197	0%	89	13.5%	2	0%	probably_damaging(0.998)	deleterious(0)	deleterious(0.919)	NULL
BEST3	144453	genome.wustl.edu	37	12	70070976	70070976	+	Missense_Mutation	SNP	G	G	A	rs140310153	by1000genomes	TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_032735.2	-1	validated	p.P233L	1.000	126	0%	33	42.4%	0	-	probably_damaging(1)	deleterious(0)	deleterious(0.945)	HMMPfam_Bestrophin
CNOT2	4848	genome.wustl.edu	37	12	70726597	70726597	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_014515.4	+1	provisional	p.S207F	1.000	440	0%	62	25.8%	5	60%	possibly_damaging(0.489)	deleterious(0.01)	deleterious(0.568)	NULL
PTPRB	5787	genome.wustl.edu	37	12	70953233	70953233	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001109754.1	-1	reviewed	p.R1535H	1.000	254	0%	66	15.2%	3	0%	probably_damaging(1)	tolerated(0.1)	deleterious(0.786)	HMMPfam_fn3,HMMSmart_SM00060,superfamily_Fibronectin type III
PTPRB	5787	genome.wustl.edu	37	12	70960292	70960292	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001109754.1	-1	reviewed	p.G1276D	1.000	682	0%	171	23.4%	1	0%	probably_damaging(1)	deleterious(0)	deleterious(0.945)	HMMPfam_fn3,HMMSmart_SM00060,superfamily_Fibronectin type III
PTPRB	5787	genome.wustl.edu	37	12	70960336	70960336	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001109754.1	-1	reviewed	p.E1261D	0.987	546	0%	104	21.2%	0	-	possibly_damaging(0.912)	tolerated(0.58)	neutral(0.368)	HMMPfam_fn3,HMMSmart_SM00060,superfamily_Fibronectin type III
PTPRB	5787	genome.wustl.edu	37	12	70964901	70964901	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001109754.1	-1	reviewed	p.R1092Q	0.003	176	0%	63	9.5%	1	0%	benign(0.06)	tolerated(0.38)	neutral(0.022)	HMMPfam_fn3,HMMSmart_SM00060,superfamily_Fibronectin type III
PTPRB	5787	genome.wustl.edu	37	12	71002977	71002977	+	Missense_Mutation	SNP	G	G	A	rs141521355	by1000genomes	TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001109754.1	-1	reviewed	p.A284V	0.000	245	0%	373	11.8%	2	0%	benign(0.311)	tolerated(0.35)	neutral(0.118)	HMMPfam_fn3,HMMSmart_SM00060,superfamily_Fibronectin type III
PTPRB	5787	genome.wustl.edu	37	12	71016383	71016383	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001109754.1	-1	reviewed	p.T165	0.000	148	0%	78	20.5%	0	-	-	-	-	NULL
PTPRR	5801	genome.wustl.edu	37	12	71148020	71148020	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_002849.2	-1	reviewed	p.A230V	1.000	469	0%	98	16.3%	0	-	benign(0.001)	deleterious(0.04)	neutral(0.349)	NULL
PTPRR	5801	genome.wustl.edu	37	12	71286708	71286708	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_002849.2	-1	reviewed	p.K36N	1.000	459	0%	89	15.7%	0	-	benign(0.317)	deleterious(0)	deleterious(0.543)	NULL
ZFC3H1	196441	genome.wustl.edu	37	12	72026693	72026693	+	Silent	SNP	T	T	C	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_144982.4	-1	validated	p.K930	1.000	397	0%	110	11.8%	1	0%	-	-	-	NULL
ZFC3H1	196441	genome.wustl.edu	37	12	72028492	72028492	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_144982.4	-1	validated	p.E784D	1.000	380	0%	143	23.8%	0	-	probably_damaging(0.979)	deleterious(0.02)	deleterious(0.805)	NULL
TMEM19	55266	genome.wustl.edu	37	12	72091195	72091195	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_018279.3	+1	validated	p.C173Y	1.000	339	0%	137	19%	3	33.3%	probably_damaging(0.954)	tolerated(0.3)	neutral(0.426)	HMMPfam_DUF92
RAB21	23011	genome.wustl.edu	37	12	72176397	72176397	+	Missense_Mutation	SNP	A	A	C	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_014999.2	+1	provisional	p.Q165P	1.000	559	0%	134	22.4%	25	16%	benign(0.014)	tolerated(0.25)	neutral(0.037)	HMMSmart_RAB,HMMPfam_Ras,superfamily_SSF52540
TRHDE	29953	genome.wustl.edu	37	12	73046127	73046127	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_013381.2	+1	reviewed	p.V856I	1.000	221	0%	52	15.4%	0	-	probably_damaging(0.996)	tolerated(0.17)	deleterious(0.520)	NULL
TRHDE	29953	genome.wustl.edu	37	12	73046869	73046869	+	Nonsense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_013381.2	+1	reviewed	p.R928*	1.000	314	0%	63	15.9%	0	-	-	-	-	NULL
CAPS2	84698	genome.wustl.edu	37	12	75678802	75678802	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_032606.3	-1	validated	p.G504E	0.999	468	0%	114	10.5%	0	-	benign(0.378)	tolerated(0.16)	neutral(0.180)	HMMSmart_SM00054,superfamily_EF-hand
GLIPR1L1	256710	genome.wustl.edu	37	12	75728661	75728661	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_152779.2	+1	provisional	p.P51	0.000	188	0%	217	23%	0	-	-	-	-	HMMSmart_SCP,HMMPfam_SCP,superfamily_SCP-like_extracellular
GLIPR1L2	144321	genome.wustl.edu	37	12	75816763	75816763	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_152436.1	+1	provisional	p.L222I	0.944	415	0%	93	25.8%	0	-	probably_damaging(1)	deleterious(0.01)	deleterious(0.905)	NULL
GLIPR1	11010	genome.wustl.edu	37	12	75875802	75875802	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_006851.2	+1	reviewed	p.I121	0.002	169	0%	49	12.2%	30	0%	unknown(0)	-	-	HMMSmart_SCP,HMMPfam_SCP,superfamily_SCP-like_extracellular
PHLDA1	22822	genome.wustl.edu	37	12	76424494	76424494	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_007350.3	-1	reviewed	p.P343H	0.863	331	0%	557	26%	55	23.6%	unknown(0)	deleterious(0.04)	-	NULL
OSBPL8	114882	genome.wustl.edu	37	12	76778101	76778101	+	Missense_Mutation	SNP	A	A	C	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_020841.4	-1	reviewed	p.F521L	1.000	228	0%	57	21.1%	0	-	possibly_damaging(0.481)	tolerated(0.19)	neutral(0.209)	HMMPfam_Oxysterol_BP
OSBPL8	114882	genome.wustl.edu	37	12	76791674	76791674	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_020841.4	-1	reviewed	p.R158C	1.000	252	0%	53	18.9%	0	-	probably_damaging(1)	deleterious(0)	deleterious(0.945)	HMMPfam_PH,HMMSmart_SM00233,superfamily_PH domain-like
NAV3	89795	genome.wustl.edu	37	12	78569092	78569092	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_014903.4	+1	validated	p.R1663H	1.000	225	0.4%	42	31%	0	-	probably_damaging(1)	tolerated(0.05)	deleterious(0.845)	NULL
NAV3	89795	genome.wustl.edu	37	12	78579470	78579470	+	Nonsense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_014903.4	+1	validated	p.R1906*	1.000	443	0%	84	9.5%	0	-	-	-	-	NULL
PPP1R12A	4659	genome.wustl.edu	37	12	80211187	80211187	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001143885.1	-1	reviewed	p.S409L	1.000	406	0%	80	15%	3	0%	probably_damaging(0.985)	tolerated(0.1)	deleterious(0.718)	NULL
OTOGL	283310	genome.wustl.edu	37	12	80717605	80717605	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	XM_002343203.1	+1	model	p.C1300Y	1.000	194	0%	74	27%	0	-	benign(0.156)	deleterious(0)	neutral(0.459)	superfamily_Serine proterase inhibitors
OTOGL	283310	genome.wustl.edu	37	12	80746083	80746083	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	ENST00000298820	+1	known	p.R192Q	0.987	332	0%	65	24.6%	0	-	-	-	-	HMMPfam_C8
OTOGL	283310	genome.wustl.edu	37	12	80761445	80761445	+	Nonsense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	ENST00000298820	+1	known	p.W544*	1.000	352	0%	108	13%	0	-	benign(0.141)	tolerated(0.51)	neutral(0.021)	NULL
PTPRQ	374462	genome.wustl.edu	37	12	80888744	80888744	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	ENST00000266688	+1	known	p.A525T	0.458	217	0%	42	35.7%	0	-	benign(0)	tolerated(0.96)	-	HMMSmart_SM00060,superfamily_Fibronectin type III
PTPRQ	374462	genome.wustl.edu	37	12	80890054	80890054	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001145026.1	+1	validated	p.S522L	0.010	152	0%	41	12.2%	0	-	-	-	-	NULL
PTPRQ	374462	genome.wustl.edu	37	12	81043448	81043448	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001145026.1	+1	validated	p.R1858Q	1.000	220	0%	91	25.3%	0	-	-	-	-	NULL
MYF6	4618	genome.wustl.edu	37	12	81101837	81101837	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_002469.2	+1	reviewed	p.F113	1.000	49	0%	97	27.8%	0	-	-	-	-	HMMPfam_HLH,HMMSmart_SM00353,superfamily_HLH helix-loop-helix DNA-binding domain
PPFIA2	8499	genome.wustl.edu	37	12	81719594	81719594	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_003625.2	-1	reviewed	p.L868	0.994	433	0%	67	23.9%	0	-	-	-	-	NULL
PPFIA2	8499	genome.wustl.edu	37	12	81741408	81741408	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_003625.2	-1	reviewed	p.S712	0.035	204	0%	53	26.4%	0	-	-	-	-	NULL
PPFIA2	8499	genome.wustl.edu	37	12	81769670	81769670	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_003625.2	-1	reviewed	p.R346C	1.000	681	0.1%	155	18.7%	0	-	probably_damaging(1)	deleterious(0)	deleterious(0.945)	NULL
LRRIQ1	84125	genome.wustl.edu	37	12	85449946	85449946	+	Nonsense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001079910.1	+1	validated	p.E459*	0.007	106	0%	53	30.2%	0	-	-	-	-	superfamily_RNI-like
LRRIQ1	84125	genome.wustl.edu	37	12	85450313	85450313	+	Missense_Mutation	SNP	A	A	C	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001079910.1	+1	validated	p.K581T	0.000	91	0%	64	31.2%	0	-	benign(0.118)	tolerated(0.45)	neutral(0.021)	superfamily_RNI-like
LRRIQ1	84125	genome.wustl.edu	37	12	85492209	85492209	+	Silent	SNP	T	T	C	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001079910.1	+1	validated	p.C988	1.000	284	0%	46	13%	0	-	-	-	-	HMMSmart_SM00369,superfamily_RNI-like
LRRIQ1	84125	genome.wustl.edu	37	12	85531664	85531664	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001079910.1	+1	validated	p.T1416A	0.949	467	0%	94	11.7%	0	-	possibly_damaging(0.945)	tolerated(1)	neutral(0.390)	HMMPfam_IQ,HMMSmart_SM00015,superfamily_P-loop containing nucleoside triphosphate hydrolases
RASSF9	9182	genome.wustl.edu	37	12	86198963	86198963	+	Nonsense_Mutation	SNP	A	A	C	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_005447.3	-1	reviewed	p.Y275*	0.881	271	0%	129	25.6%	0	-	-	-	-	NULL
RASSF9	9182	genome.wustl.edu	37	12	86199530	86199530	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_005447.3	-1	reviewed	p.S86	0.460	220	0%	82	20.7%	1	0%	-	-	-	HMMSmart_SM00314
MGAT4C	25834	genome.wustl.edu	37	12	86373742	86373742	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_013244.3	-1	validated	p.F254L	1.000	176	0%	63	25.4%	0	-	probably_damaging(0.982)	deleterious(0)	deleterious(0.871)	HMMPfam_Glyco_transf_54
MGAT4C	25834	genome.wustl.edu	37	12	86383241	86383241	+	Silent	SNP	G	G	A	rs138787902	by1000genomes	TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_013244.3	-1	validated	p.F28	1.000	319	0%	186	12.4%	0	-	-	-	-	NULL
C12orf50	160419	genome.wustl.edu	37	12	88380171	88380171	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_152589.1	-1	predicted	p.K280N	1.000	477	0%	98	21.4%	0	-	benign(0.075)	tolerated(0.06)	neutral(0.328)	NULL
C12orf50	160419	genome.wustl.edu	37	12	88391853	88391853	+	Missense_Mutation	SNP	T	T	G	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_152589.1	-1	predicted	p.K83T	1.000	588	0%	156	25%	0	-	benign(0.001)	deleterious(0.01)	neutral(0.406)	NULL
CEP290	80184	genome.wustl.edu	37	12	88505471	88505471	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_025114.3	-1	reviewed	p.K739N	1.000	202	0%	68	17.6%	0	-	probably_damaging(0.999)	deleterious(0.01)	deleterious(0.896)	NULL
CEP290	80184	genome.wustl.edu	37	12	88530435	88530435	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_025114.3	-1	reviewed	p.K142N	1.000	550	0%	254	12.6%	2	0%	probably_damaging(1)	deleterious(0.02)	deleterious(0.883)	NULL
DUSP6	1848	genome.wustl.edu	37	12	89744569	89744569	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001946.2	-1	reviewed	p.P212S	1.000	120	0%	227	24.7%	35	28.5%	probably_damaging(0.975)	deleterious(0.01)	deleterious(0.823)	HMMPfam_DSPc,HMMSmart_SM00195,superfamily_(Phosphotyrosine protein) phosphatases II
POC1B	282809	genome.wustl.edu	37	12	89864185	89864185	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_172240.1	-1	provisional	p.L255M	0.992	264	0%	73	8.2%	4	25%	benign(0.325)	deleterious(0.05)	neutral(0.447)	HMMSmart_SM00320,superfamily_WD40 repeat-like,HMMPfam_WD40
POC1B	282809	genome.wustl.edu	37	12	89865951	89865951	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_172240.1	-1	provisional	p.S185F	0.628	280	0.4%	85	12.9%	0	-	benign(0)	tolerated(0.65)	neutral(0.003)	HMMSmart_SM00320,superfamily_WD40 repeat-like,HMMPfam_WD40
ATP2B1	490	genome.wustl.edu	37	12	89985005	89985005	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001682.2	-1	reviewed	p.S1140L	1.000	355	0%	92	20.7%	11	9%	benign(0.001)	deleterious(0.03)	neutral(0.364)	NULL
ATP2B1	490	genome.wustl.edu	37	12	90036096	90036096	+	Missense_Mutation	SNP	T	T	G	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001682.2	-1	reviewed	p.E82A	1.000	337	0%	105	16.2%	0	-	benign(0)	tolerated(0.08)	neutral(0.300)	HMMPfam_Cation_ATPase_N,superfamily_SSF81665
C12orf12	196477	genome.wustl.edu	37	12	91348056	91348056	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_152638.2	-1	predicted	p.R155H	0.979	29	0%	49	20.4%	0	-	unknown(0)	deleterious(0)	-	NULL
EPYC	1833	genome.wustl.edu	37	12	91366663	91366663	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_004950.4	-1	reviewed	p.T145	0.988	489	0.2%	139	10.1%	4	0%	-	-	-	HMMSmart_SM00013,superfamily_L domain-like
KERA	11081	genome.wustl.edu	37	12	91449250	91449250	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_007035.3	-1	reviewed	p.S270L	1.000	255	0.4%	65	13.8%	0	-	probably_damaging(0.995)	deleterious(0)	deleterious(0.902)	superfamily_SSF52058
KERA	11081	genome.wustl.edu	37	12	91449364	91449364	+	Missense_Mutation	SNP	T	T	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_007035.3	-1	reviewed	p.Y232F	1.000	280	0%	53	22.6%	0	-	probably_damaging(1)	tolerated(0.17)	deleterious(0.559)	superfamily_SSF52058
LUM	4060	genome.wustl.edu	37	12	91502199	91502199	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_002345.3	-1	reviewed	p.L186	0.049	206	0.5%	63	20.6%	571	0%	-	-	-	HMMPfam_LRR_1,HMMSmart_SM00369,HMMSmart_SM00364,HMMSmart_SM00365,superfamily_L domain-like
PLEKHG7	440107	genome.wustl.edu	37	12	93149606	93149606	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001004330.2	+1	validated	p.L166I	0.999	168	0%	38	23.7%	0	-	probably_damaging(0.975)	tolerated(0.45)	neutral(0.429)	superfamily_DH-domain
LOC100127919	100127919	genome.wustl.edu	37	12	93429193	93429193	+	Silent	SNP	C	C	T	rs142842883	by1000genomes	TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	XM_001719900.1	+1	model	p.N51	0.006	83	0%	17	35.3%	0	-	-	-	-	NULL
CCDC41	51134	genome.wustl.edu	37	12	94794644	94794644	+	Missense_Mutation	SNP	T	T	G	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001042399.1	-1	validated	p.K177N	1.000	264	0%	65	13.8%	3	0%	probably_damaging(0.991)	deleterious(0.01)	deleterious(0.850)	NULL
TMCC3	57458	genome.wustl.edu	37	12	94972190	94972190	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_020698.2	-1	validated	p.E371K	1.000	112	0%	50	22%	2	0%	probably_damaging(0.998)	deleterious(0)	deleterious(0.919)	HMMPfam_Tmemb_cc2
NR2C1	7181	genome.wustl.edu	37	12	95451386	95451386	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_003297.2	-1	reviewed	p.M242I	1.000	249	0%	107	24.3%	6	16.6%	benign(0)	tolerated(0.08)	neutral(0.300)	PatternScan_SUBTILASE_ASP,superfamily_Nuclear receptor ligand-binding domain
VEZT	55591	genome.wustl.edu	37	12	95693942	95693942	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_017599.3	+1	validated	p.A611	1.000	103	0%	28	28.6%	18	5.5%	-	-	-	NULL
USP44	84101	genome.wustl.edu	37	12	95927367	95927367	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001042403.1	-1	validated	p.S222	0.002	494	0.2%	231	11.3%	0	-	-	-	-	NULL
USP44	84101	genome.wustl.edu	37	12	95927584	95927584	+	Missense_Mutation	SNP	A	A	C	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001042403.1	-1	validated	p.L150R	1.000	388	0%	137	18.2%	0	-	probably_damaging(0.975)	deleterious(0)	deleterious(0.861)	NULL
CCDC38	120935	genome.wustl.edu	37	12	96292173	96292173	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_182496.2	-1	validated	p.A202T	0.000	642	0%	358	14.8%	0	-	benign(0.306)	tolerated(0.19)	neutral(0.145)	NULL
CCDC38	120935	genome.wustl.edu	37	12	96312655	96312655	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_182496.2	-1	validated	p.T46M	0.160	652	0%	246	10.6%	0	-	probably_damaging(0.969)	tolerated(0.08)	deleterious(0.712)	NULL
AMDHD1	144193	genome.wustl.edu	37	12	96350645	96350645	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_152435.2	+1	validated	p.E164D	0.993	47	0%	39	25.6%	0	-	benign(0.002)	tolerated(0.46)	neutral(0.012)	superfamily_Composite domain of metallo-dependent hydrolases,superfamily_Metallo-dependent hydrolases
LTA4H	4048	genome.wustl.edu	37	12	96421323	96421323	+	Nonsense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_000895.1	-1	provisional	p.E104*	1.000	287	0%	110	23.6%	6	16.6%	-	-	-	HMMPfam_Peptidase_M1,superfamily_Leukotriene A4 hydrolase N-terminal domain
CDK17	5128	genome.wustl.edu	37	12	96679898	96679898	+	Silent	SNP	A	A	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_002595.3	-1	reviewed	p.G415	0.997	375	0%	100	22%	4	0%	-	-	-	HMMSmart_SM00219,HMMSmart_SM00220,superfamily_Protein kinase-like (PK-like),HMMPfam_Pkinase
C12orf63	374467	genome.wustl.edu	37	12	97057672	97057672	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_198520.2	+1	validated	p.S267I	0.000	356	0%	101	15.8%	0	-	unknown(0)	tolerated(0.05)	-	NULL
C12orf63	374467	genome.wustl.edu	37	12	97082721	97082721	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_198520.2	+1	validated	p.K439N	0.805	453	0%	80	17.5%	0	-	unknown(0)	tolerated(0.19)	-	NULL
C12orf63	374467	genome.wustl.edu	37	12	97112242	97112242	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_198520.2	+1	validated	p.G674E	0.000	301	0%	79	16.5%	1	0%	unknown(0)	tolerated(0.61)	-	NULL
LOC121456	121456	genome.wustl.edu	37	12	98848886	98848886	+	RNA	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	XR_016411.2	-1	model	NULL	0.993	75	0%	121	24.8%	1	0%	-	-	-	-
ENSG00000227825	0	genome.wustl.edu	37	12	98849369	98849369	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	ENST00000370696	-1	known	p.V177M	1.000	133	0.8%	212	24.5%	0	-	-	-	-	HMMPfam_Na_H_Exchanger
TMPO	7112	genome.wustl.edu	37	12	98925470	98925470	+	Missense_Mutation	SNP	A	A	C	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_003276.2	+1	reviewed	p.K140T	1.000	286	0%	111	17.1%	6	0%	probably_damaging(1)	deleterious(0.04)	deleterious(0.849)	HMMPfam_LEM,HMMSmart_SM00540,superfamily_LEM domain
TMPO	7112	genome.wustl.edu	37	12	98927088	98927088	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_003276.2	+1	reviewed	p.S351	0.001	149	0%	69	17.4%	2	0%	-	-	-	NULL
TMPO	7112	genome.wustl.edu	37	12	98927500	98927500	+	Nonsense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_003276.2	+1	reviewed	p.E489*	0.017	307	0%	100	20%	2	0%	-	-	-	NULL
ENSG00000225185	0	genome.wustl.edu	37	12	98984575	98984575	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	ENST00000420972	-1	known	p.T137A	0.004	30	0%	46	39.1%	0	-	-	-	-	HMMPfam_Pro_isomerase,superfamily_Cyclophilin-like
SLC25A3	5250	genome.wustl.edu	37	12	98991726	98991726	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_005888.3	+1	reviewed	p.P125	0.990	558	0%	514	11.5%	137	2.1%	-	-	-	superfamily_Mitochondrial carrier,HMMPfam_Mito_carr
IKBIP	121457	genome.wustl.edu	37	12	99020241	99020241	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_153687.2	-1	provisional	p.R201W	0.997	636	0.2%	267	19.9%	1	0%	probably_damaging(1)	deleterious(0)	deleterious(0.945)	NULL
ANKS1B	56899	genome.wustl.edu	37	12	100200460	100200460	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_152788.3	-1	validated	p.A131T	1.000	275	0%	62	27.4%	0	-	probably_damaging(0.995)	tolerated(0.07)	deleterious(0.776)	HMMPfam_Ank,HMMSmart_SM00248,superfamily_Ankyrin repeat
UHRF1BP1L	23074	genome.wustl.edu	37	12	100452994	100452994	+	Silent	SNP	A	A	C	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_015054.1	-1	validated	p.T687	0.910	258	0%	100	15%	3	0%	-	-	-	NULL
UHRF1BP1L	23074	genome.wustl.edu	37	12	100466589	100466589	+	Silent	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_015054.1	-1	validated	p.V470	0.969	187	0%	49	12.2%	3	33.3%	-	-	-	NULL
UHRF1BP1L	23074	genome.wustl.edu	37	12	100492310	100492310	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_015054.1	-1	validated	p.G116	0.999	272	0%	91	14.3%	2	0%	-	-	-	NULL
SCYL2	55681	genome.wustl.edu	37	12	100732461	100732461	+	Silent	SNP	A	A	G	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_017988.4	+1	provisional	p.R767	1.000	287	0%	143	22.4%	15	20%	-	-	-	NULL
SCYL2	55681	genome.wustl.edu	37	12	100732689	100732689	+	Silent	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_017988.4	+1	provisional	p.L843	0.990	250	0%	96	12.5%	13	7.6%	-	-	-	NULL
SLC17A8	246213	genome.wustl.edu	37	12	100795602	100795602	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_139319.2	+1	reviewed	p.V242M	1.000	617	0%	210	16.2%	0	-	unknown(0)	deleterious(0.02)	-	HMMPfam_MFS_1,superfamily_MFS general substrate transporter
ANO4	121601	genome.wustl.edu	37	12	101336315	101336315	+	Splice_Site	SNP	T	T	C	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_178826.3	+1	validated	e3+2	1.000	133	0%	23	30.4%	0	-	-	-	-	-
ANO4	121601	genome.wustl.edu	37	12	101381363	101381363	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_178826.3	+1	validated	p.P182T	1.000	176	0%	58	27.6%	0	-	probably_damaging(1)	tolerated(0.27)	deleterious(0.533)	NULL
ANO4	121601	genome.wustl.edu	37	12	101473036	101473036	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_178826.3	+1	validated	p.D425Y	1.000	496	0%	101	11.9%	2	0%	probably_damaging(0.985)	deleterious(0.01)	deleterious(0.838)	NULL
UTP20	27340	genome.wustl.edu	37	12	101680225	101680225	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_014503.2	+1	validated	p.S151	0.494	496	0%	206	13.1%	0	-	-	-	-	superfamily_ARM repeat
UTP20	27340	genome.wustl.edu	37	12	101705827	101705827	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_014503.2	+1	validated	p.Q775H	0.003	277	0%	114	23.7%	0	-	benign(0.013)	tolerated(0.2)	neutral(0.050)	superfamily_ARM repeat
UTP20	27340	genome.wustl.edu	37	12	101732630	101732630	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_014503.2	+1	validated	p.V1303A	0.996	349	0%	119	24.4%	1	0%	probably_damaging(0.981)	deleterious(0.01)	deleterious(0.831)	superfamily_ARM repeat
UTP20	27340	genome.wustl.edu	37	12	101777001	101777001	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_014503.2	+1	validated	p.L2613	0.000	205	0%	82	18.3%	17	5.8%	-	-	-	NULL
MYBPC1	4604	genome.wustl.edu	37	12	102025829	102025829	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_002465.2	+1	validated	p.A157T	1.000	288	0%	208	31.7%	0	-	probably_damaging(0.995)	deleterious(0.05)	deleterious(0.803)	HMMSmart_SM00409,HMMPfam_I-set,superfamily_Immunoglobulin
CHPT1	56994	genome.wustl.edu	37	12	102091900	102091900	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_020244.2	+1	validated	p.T87	0.995	7	0.000	15	0.267	5	0%	-	-	-	NULL
SYCP3	50511	genome.wustl.edu	37	12	102122733	102122733	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_153694.4	-1	reviewed	p.R228Q	1.000	354	0.3%	177	20.3%	24	4.1%	probably_damaging(0.999)	deleterious(0)	deleterious(0.935)	NULL
GNPTAB	79158	genome.wustl.edu	37	12	102140955	102140955	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_024312.4	-1	reviewed	p.R1253Q	0.994	480	0%	361	25.2%	4	0%	benign(0.052)	tolerated(0.19)	neutral(0.053)	NULL
GNPTAB	79158	genome.wustl.edu	37	12	102151044	102151044	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_024312.4	-1	reviewed	p.R1127H	1.000	344	0%	65	18.5%	8	0%	probably_damaging(0.992)	tolerated(0.2)	deleterious(0.496)	NULL
GNPTAB	79158	genome.wustl.edu	37	12	102164297	102164297	+	Nonsense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_024312.4	-1	reviewed	p.R334*	0.998	137	0%	43	11.6%	3	0%	-	-	-	NULL
DRAM1	55332	genome.wustl.edu	37	12	102302086	102302086	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_018370.2	+1	reviewed	p.S155	0.001	429	0%	121	10.7%	4	0%	-	-	-	HMMPfam_Frag1
PAH	5053	genome.wustl.edu	37	12	103288533	103288533	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	ENST00000307000	-1	known	p.R111Q	1.000	282	0.4%	161	24.8%	0	-	probably_damaging(0.982)	deleterious(0.02)	deleterious(0.809)	superfamily_SSF55021
C12orf42	374470	genome.wustl.edu	37	12	103695984	103695984	+	Missense_Mutation	SNP	T	T	G	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001099336.1	-1	validated	p.K329Q	0.928	28	0%	42	14.3%	0	-	probably_damaging(0.998)	deleterious(0)	deleterious(0.919)	NULL
C12orf42	374470	genome.wustl.edu	37	12	103700015	103700015	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001099336.1	-1	validated	p.S123N	0.000	425	0%	269	26.8%	0	-	benign(0.004)	tolerated(0.36)	neutral(0.020)	NULL
STAB2	55576	genome.wustl.edu	37	12	104049329	104049329	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_017564.9	+1	reviewed	p.D568	0.001	247	0%	188	28.2%	0	-	-	-	-	HMMPfam_Fasciclin,HMMSmart_FAS1,superfamily_BIgH3_FAS1
STAB2	55576	genome.wustl.edu	37	12	104100612	104100612	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_017564.9	+1	reviewed	p.P1347S	0.791	285	0%	167	17.4%	0	-	benign(0.141)	tolerated(0.24)	neutral(0.050)	HMMPfam_Laminin_EGF,HMMSmart_EGF
HSP90B1	7184	genome.wustl.edu	37	12	104325333	104325333	+	Missense_Mutation	SNP	T	T	G	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_003299.1	+1	provisional	p.D28E	0.988	694	0%	827	22.6%	73	21.9%	benign(0.004)	tolerated(0.61)	neutral(0.004)	NULL
HSP90B1	7184	genome.wustl.edu	37	12	104340464	104340464	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_003299.1	+1	provisional	p.R699Q	0.594	282	0%	149	30.2%	652	18.7%	benign(0.076)	tolerated(0.12)	neutral(0.266)	HMMPfam_HSP90,superfamily_SSF110942
HSP90B1	7184	genome.wustl.edu	37	12	104340572	104340572	+	Missense_Mutation	SNP	A	A	C	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_003299.1	+1	provisional	p.E705D	1.000	194	0%	119	15.1%	711	18.1%	benign(0.105)	tolerated(0.15)	neutral(0.249)	HMMPfam_HSP90,superfamily_SSF110942
GLT8D2	83468	genome.wustl.edu	37	12	104390578	104390578	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_031302.3	-1	provisional	p.A179T	1.000	133	0%	55	27.3%	8	0%	probably_damaging(0.997)	deleterious(0.01)	deleterious(0.872)	HMMPfam_Glyco_transf_8,superfamily_SSF53448
HCFC2	29915	genome.wustl.edu	37	12	104460037	104460037	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_013320.2	+1	reviewed	p.V86L	1.000	489	0%	678	22.1%	0	-	possibly_damaging(0.888)	tolerated(0.11)	deleterious(0.619)	superfamily_Galactose oxidase central domain,HMMPfam_Kelch_2
HCFC2	29915	genome.wustl.edu	37	12	104496802	104496802	+	Silent	SNP	T	T	C	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_013320.2	+1	reviewed	p.Y710	0.997	177	0%	62	25.8%	8	12.5%	-	-	-	HMMSmart_SM00060,superfamily_Fibronectin type III
ENSG00000179821	0	genome.wustl.edu	37	12	105371414	105371414	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	ENST00000312876	-1	known	p.K125N	0.904	22	0%	30	26.7%	0	-	-	-	-	HMMPfam_Filament
ALDH1L2	160428	genome.wustl.edu	37	12	105455518	105455518	+	Missense_Mutation	SNP	T	T	G	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001034173.3	-1	reviewed	p.N312H	1.000	296	0%	80	11.3%	0	-	possibly_damaging(0.868)	deleterious(0.03)	deleterious(0.702)	HMMPfam_Formyl_trans_C,superfamily_FMT C-terminal domain-like
ALDH1L2	160428	genome.wustl.edu	37	12	105456678	105456678	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001034173.3	-1	reviewed	p.N303	1.000	136	0%	51	19.6%	0	-	-	-	-	HMMPfam_Formyl_trans_C,superfamily_FMT C-terminal domain-like
KIAA1033	23325	genome.wustl.edu	37	12	105540855	105540855	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_015275.1	+1	validated	p.L815	1.000	342	0%	72	23.6%	4	25%	-	-	-	NULL
APPL2	55198	genome.wustl.edu	37	12	105570727	105570727	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_018171.3	-1	validated	p.I580T	0.257	359	0%	93	19.4%	4	25%	benign(0)	tolerated(0.21)	neutral(0.044)	HMMPfam_PID,superfamily_SSF50729
NUAK1	9891	genome.wustl.edu	37	12	106460944	106460944	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_014840.2	-1	validated	p.V541A	0.001	157	0%	85	11.8%	1	0%	benign(0)	tolerated(1)	-	NULL
NUAK1	9891	genome.wustl.edu	37	12	106461393	106461393	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_014840.2	-1	validated	p.K391N	0.741	105	0%	45	11.1%	0	-	benign(0.022)	tolerated(0.21)	neutral(0.045)	NULL
LOC341378	341378	genome.wustl.edu	37	12	106565890	106565890	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	XM_001715424.1	+1	model	p.S245F	0.884	160	0%	40	20%	0	-	-	-	-	NULL
CKAP4	10970	genome.wustl.edu	37	12	106632813	106632813	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_006825.3	-1	validated	p.E600K	0.993	150	0.7%	184	12%	51	1.9%	probably_damaging(0.998)	deleterious(0)	deleterious(0.919)	NULL
CKAP4	10970	genome.wustl.edu	37	12	106633016	106633016	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_006825.3	-1	validated	p.R532I	0.999	93	0%	159	23.9%	31	9.6%	probably_damaging(0.982)	tolerated(0.44)	neutral(0.439)	NULL
CKAP4	10970	genome.wustl.edu	37	12	106633499	106633499	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_006825.3	-1	validated	p.R371Q	0.455	35	0%	53	30.2%	30	6.6%	benign(0.282)	tolerated(0.26)	neutral(0.120)	NULL
POLR3B	55703	genome.wustl.edu	37	12	106751667	106751667	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_018082.5	+1	validated	p.L4	0.768	65	0%	101	16.8%	1	0%	-	-	-	NULL
RFX4	5992	genome.wustl.edu	37	12	107080840	107080840	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_213594.1	+1	reviewed	p.D186Y	1.000	208	0%	79	21.5%	0	-	probably_damaging(0.999)	deleterious(0.03)	deleterious(0.855)	NULL
RFX4	5992	genome.wustl.edu	37	12	107103190	107103190	+	Nonsense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_213594.1	+1	reviewed	p.R306*	1.000	224	0%	48	33.3%	0	-	-	-	-	NULL
CRY1	1407	genome.wustl.edu	37	12	107391162	107391162	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_004075.3	-1	validated	p.L499I	1.000	276	0%	123	10.6%	22	0%	possibly_damaging(0.76)	tolerated(0.12)	deleterious(0.542)	NULL
BTBD11	121551	genome.wustl.edu	37	12	107914391	107914391	+	Silent	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001018072.1	+1	validated	p.R421	0.387	109	0%	25	32%	1	0%	-	-	-	NULL
PWP1	11137	genome.wustl.edu	37	12	108096761	108096761	+	Missense_Mutation	SNP	A	A	C	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_007062.1	+1	provisional	p.M286L	0.992	244	0%	66	24.2%	16	0%	benign(0)	tolerated(1)	-	superfamily_WD40 repeat-like,PatternScan_WD_REPEATS_1
PWP1	11137	genome.wustl.edu	37	12	108102971	108102971	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_007062.1	+1	provisional	p.D418Y	1.000	233	0%	103	13.6%	39	2.5%	benign(0.218)	deleterious(0.01)	neutral(0.427)	superfamily_WD40 repeat-like
PRDM4	11108	genome.wustl.edu	37	12	108135009	108135009	+	Silent	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_012406.3	-1	reviewed	p.L546	1.000	173	0%	56	33.9%	6	16.6%	-	-	-	HMMSmart_ZnF_C2H2
WSCD2	9671	genome.wustl.edu	37	12	108589637	108589637	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_014653.2	+1	validated	p.R10W	1.000	21	0%	19	52.6%	1	0%	probably_damaging(1)	deleterious(0)	deleterious(0.945)	NULL
CMKLR1	1240	genome.wustl.edu	37	12	108686288	108686288	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001142343.1	-1	validated	p.R151H	1.000	132	0%	80	25%	0	-	probably_damaging(1)	deleterious(0)	deleterious(0.945)	HMMPfam_7tm_1,superfamily_Family A G protein-coupled receptor-like
CMKLR1	1240	genome.wustl.edu	37	12	108686443	108686443	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001142343.1	-1	validated	p.A99	0.007	199	0%	77	29.9%	0	-	-	-	-	HMMPfam_7tm_1,superfamily_Family A G protein-coupled receptor-like
CMKLR1	1240	genome.wustl.edu	37	12	108686697	108686697	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001142343.1	-1	validated	p.G15S	0.000	84	0%	34	20.6%	1	0%	benign(0.014)	tolerated(0.57)	neutral(0.007)	superfamily_Family A G protein-coupled receptor-like
SELPLG	6404	genome.wustl.edu	37	12	109016906	109016906	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_003006.3	-1	reviewed	p.T383M	0.000	69	0%	55	16.4%	22	0%	probably_damaging(0.994)	deleterious(0)	deleterious(0.897)	NULL
CORO1C	23603	genome.wustl.edu	37	12	109055854	109055854	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_014325.2	-1	reviewed	p.V133	0.900	94	0%	82	18.3%	21	4.7%	-	-	-	HMMSmart_SM00320,superfamily_WD40 repeat-like,HMMPfam_WD40
SSH1	54434	genome.wustl.edu	37	12	109194652	109194652	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_018984.3	-1	validated	p.G351D	1.000	282	0%	191	25.7%	0	-	probably_damaging(1)	tolerated(0.19)	deleterious(0.549)	HMMPfam_DSPc,HMMSmart_SM00195,superfamily_(Phosphotyrosine protein) phosphatases II
SSH1	54434	genome.wustl.edu	37	12	109210927	109210927	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_018984.3	-1	validated	p.R96	0.651	97	0%	84	27.4%	1	0%	-	-	-	NULL
SVOP	55530	genome.wustl.edu	37	12	109334569	109334569	+	Silent	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_018711.2	-1	validated	p.A193S	0.814	133	0%	76	18.4%	0	-	-	-	-	NULL
USP30	84749	genome.wustl.edu	37	12	109520774	109520774	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_032663.3	+1	validated	p.L359I	0.723	135	0%	79	17.7%	2	0%	benign(0.018)	tolerated(0.39)	neutral(0.017)	HMMPfam_UCH,superfamily_SSF54001
ACACB	32	genome.wustl.edu	37	12	109631511	109631511	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001093.3	+1	reviewed	p.G820R	1.000	241	0%	96	24%	0	-	possibly_damaging(0.639)	deleterious(0.02)	deleterious(0.607)	NULL
ACACB	32	genome.wustl.edu	37	12	109639482	109639482	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001093.3	+1	reviewed	p.L963	0.768	88	0%	46	17.4%	0	-	-	-	-	HMMPfam_ACC_central
ACACB	32	genome.wustl.edu	37	12	109680382	109680382	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001093.3	+1	reviewed	p.P1721	0.493	73	0%	31	12.9%	1	0%	-	-	-	superfamily_ClpP/crotonase
MYO1H	283446	genome.wustl.edu	37	12	109831214	109831214	+	Missense_Mutation	SNP	T	T	G	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001101421.3	+1	provisional	p.Y69D	1.000	353	0%	122	18.9%	0	-	probably_damaging(1)	deleterious(0)	deleterious(0.945)	HMMPfam_Myosin_head,HMMSmart_SM00242,superfamily_P-loop containing nucleoside triphosphate hydrolases
MYO1H	283446	genome.wustl.edu	37	12	109839041	109839041	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001101421.3	+1	provisional	p.L222	0.415	116	0%	28	17.9%	0	-	-	-	-	HMMPfam_Myosin_head,HMMSmart_SM00242,superfamily_P-loop containing nucleoside triphosphate hydrolases
KCTD10	83892	genome.wustl.edu	37	12	109889450	109889450	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_031954.3	-1	provisional	p.R298W	1.000	49	0%	134	27.6%	6	0%	unknown(0)	deleterious(0)	-	NULL
UBE3B	89910	genome.wustl.edu	37	12	109945514	109945514	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_130466.2	+1	reviewed	p.F532	1.000	210	0%	114	12.3%	2	0%	-	-	-	NULL
UBE3B	89910	genome.wustl.edu	37	12	109961890	109961890	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_130466.2	+1	reviewed	p.S824	0.001	121	0%	70	17.1%	4	0%	-	-	-	HMMPfam_HECT,HMMSmart_SM00119,superfamily_Hect E3 ligase catalytic domain
TCHP	84260	genome.wustl.edu	37	12	110350854	110350854	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001143852.1	+1	validated	p.A371T	0.990	102	0%	106	20.8%	6	16.6%	probably_damaging(0.998)	deleterious(0)	deleterious(0.919)	NULL
TCHP	84260	genome.wustl.edu	37	12	110353217	110353217	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001143852.1	+1	validated	p.R444C	1.000	36	0%	59	15.3%	3	0%	probably_damaging(1)	deleterious(0)	deleterious(0.945)	NULL
ANKRD13A	88455	genome.wustl.edu	37	12	110463603	110463603	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_033121.1	+1	validated	p.T286	0.034	414	0%	152	18.4%	0	-	-	-	-	NULL
ANKRD13A	88455	genome.wustl.edu	37	12	110474086	110474086	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_033121.1	+1	validated	p.S510	0.084	303	0%	154	12.3%	12	0%	-	-	-	NULL
IFT81	28981	genome.wustl.edu	37	12	110566829	110566829	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001143779.1	+1	validated	p.R108M	1.000	259	0%	253	25.7%	3	66.6%	probably_damaging(1)	deleterious(0.01)	deleterious(0.905)	NULL
ATP2A2	488	genome.wustl.edu	37	12	110778705	110778705	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_170665.3	+1	reviewed	p.A668V	1.000	95	0%	50	18%	18	16.6%	possibly_damaging(0.928)	tolerated(0.14)	deleterious(0.625)	HMMPfam_Hydrolase,superfamily_HAD-like,superfamily_Calcium ATPase transmembrane domain M
ANAPC7	51434	genome.wustl.edu	37	12	110812081	110812081	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_016238.2	-1	reviewed	p.E556	1.000	136	0%	91	29.7%	16	18.7%	-	-	-	superfamily_TPR-like
GPN3	51184	genome.wustl.edu	37	12	110893464	110893464	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_016301.3	-1	validated	p.S197Y	1.000	272	0%	199	22.1%	26	15.3%	benign(0.005)	tolerated(0.08)	neutral(0.300)	HMMPfam_ATP_bind_1,superfamily_P-loop containing nucleoside triphosphate hydrolases
GPN3	51184	genome.wustl.edu	37	12	110893666	110893666	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_016301.3	-1	validated	p.T174A	1.000	520	0.2%	380	12.1%	13	0%	possibly_damaging(0.944)	deleterious(0)	deleterious(0.833)	HMMPfam_ATP_bind_1,superfamily_P-loop containing nucleoside triphosphate hydrolases
PPTC7	160760	genome.wustl.edu	37	12	110977730	110977730	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_139283.1	-1	provisional	p.T208M	1.000	295	0%	92	29.3%	3	0%	benign(0.011)	tolerated(0.37)	neutral(0.019)	HMMSmart_PP2C_SIG,HMMSmart_PP2Cc,superfamily_PP2C-related,HMMPfam_SpoIIE
PPTC7	160760	genome.wustl.edu	37	12	110983690	110983690	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_139283.1	-1	provisional	p.S199	1.000	106	0%	41	17.1%	2	0%	-	-	-	HMMSmart_PP2C_SIG,HMMSmart_PP2Cc,superfamily_PP2C-related,HMMPfam_SpoIIE
TCTN1	79600	genome.wustl.edu	37	12	111085595	111085595	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001082538.2	+1	reviewed	p.A559	0.953	170	0%	73	20.5%	51	19.6%	unknown(0)	-	-	NULL
CCDC63	160762	genome.wustl.edu	37	12	111296459	111296459	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_152591.1	+1	provisional	p.S83	0.001	240	0%	201	10.4%	0	-	-	-	-	NULL
CCDC63	160762	genome.wustl.edu	37	12	111322016	111322016	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_152591.1	+1	provisional	p.D346N	0.988	237	0%	97	52.6%	0	-	probably_damaging(0.996)	deleterious(0.03)	deleterious(0.826)	NULL
CCDC63	160762	genome.wustl.edu	37	12	111342442	111342442	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_152591.1	+1	provisional	p.R465C	0.332	77	0%	18	27.8%	0	-	probably_damaging(1)	deleterious(0.03)	deleterious(0.865)	NULL
MYL2	4633	genome.wustl.edu	37	12	111352000	111352000	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_000432.3	-1	reviewed	p.E88D	1.000	238	0%	171	24%	0	-	possibly_damaging(0.675)	tolerated(0.16)	neutral(0.299)	superfamily_EF-hand
CUX2	23316	genome.wustl.edu	37	12	111742066	111742066	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_015267.3	+1	validated	p.S269Y	0.877	64	0%	70	37.1%	0	-	possibly_damaging(0.805)	deleterious(0)	deleterious(0.748)	NULL
BRAP	8315	genome.wustl.edu	37	12	112117114	112117114	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_006768.3	-1	reviewed	p.R158	1.000	219	0%	194	26.3%	5	0%	-	-	-	HMMPfam_BRAP2
ACAD10	80724	genome.wustl.edu	37	12	112167692	112167692	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001136538.1	+1	reviewed	p.R473	1.000	101	0%	101	12.9%	0	-	-	-	-	HMMPfam_APH,superfamily_Protein kinase-like (PK-like)
ACAD10	80724	genome.wustl.edu	37	12	112182825	112182825	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001136538.1	+1	reviewed	p.S729F	0.989	34	0%	28	21.4%	5	0%	possibly_damaging(0.608)	tolerated(0.65)	neutral(0.213)	HMMPfam_Acyl-CoA_dh_N,superfamily_Acyl-CoA dehydrogenase NM domain-like
NAA25	80018	genome.wustl.edu	37	12	112471045	112471045	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_024953.3	-1	reviewed	p.L930I	0.023	284	0%	85	17.6%	5	40%	benign(0)	tolerated(0.51)	neutral(0.009)	NULL
NAA25	80018	genome.wustl.edu	37	12	112491414	112491414	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_024953.3	-1	reviewed	p.A559V	1.000	229	0.4%	85	12.9%	0	-	probably_damaging(0.999)	tolerated(0.12)	deleterious(0.751)	HMMPfam_NatB_MDM20,superfamily_TPR-like
TRAFD1	10906	genome.wustl.edu	37	12	112578755	112578755	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001143906.1	+1	validated	p.L124F	0.999	231	0%	93	24.7%	10	10%	possibly_damaging(0.707)	deleterious(0.03)	deleterious(0.619)	NULL
C12orf51	283450	genome.wustl.edu	37	12	112669329	112669329	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001109662.2	-1	validated	p.S1641L	1.000	225	0%	53	39.6%	0	-	benign(0.139)	-	-	NULL
RPH3A	22895	genome.wustl.edu	37	12	113321179	113321179	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001143854.1	+1	validated	p.D470N	0.987	129	0.8%	32	18.8%	0	-	benign(0.02)	tolerated(0.16)	neutral(0.060)	HMMPfam_C2,HMMSmart_SM00239,superfamily_C2 domain (Calcium/lipid-binding domain CaLB)
OAS3	4940	genome.wustl.edu	37	12	113403731	113403731	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_006187.2	+1	reviewed	p.V862	0.985	54	0%	21	23.8%	0	-	-	-	-	HMMPfam_NTP_transf_2,superfamily_Nucleotidyltransferase
OAS2	4939	genome.wustl.edu	37	12	113442860	113442860	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_016817.2	+1	reviewed	p.E434G	0.000	224	0%	77	20.8%	0	-	probably_damaging(1)	deleterious(0)	deleterious(0.945)	HMMPfam_NTP_transf_2,superfamily_Nucleotidyltransferase
OAS2	4939	genome.wustl.edu	37	12	113448255	113448255	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_016817.2	+1	reviewed	p.R709I	0.000	260	0%	86	14%	2	0%	possibly_damaging(0.861)	deleterious(0)	deleterious(0.778)	NULL
DTX1	1840	genome.wustl.edu	37	12	113532896	113532896	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_004416.2	+1	reviewed	p.T479M	1.000	52	0%	106	34%	1	0%	possibly_damaging(0.844)	deleterious(0)	deleterious(0.768)	superfamily_SSF57850
RASAL1	8437	genome.wustl.edu	37	12	113557227	113557227	+	Silent	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_004658.1	-1	reviewed	p.I150	1.000	67	0%	87	16.1%	1	0%	-	-	-	HMMPfam_C2,HMMSmart_SM00239,superfamily_C2 domain (Calcium/lipid-binding domain CaLB)
C12orf52	84934	genome.wustl.edu	37	12	113629546	113629546	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_032848.1	+1	predicted	p.R245H	0.000	28	0%	36	22.2%	20	30%	benign(0.004)	tolerated(0.18)	neutral(0.056)	NULL
IQCD	115811	genome.wustl.edu	37	12	113645795	113645795	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_138451.1	-1	provisional	p.A59	1.000	503	0%	296	11.8%	1	0%	-	-	-	NULL
SLC24A6	80024	genome.wustl.edu	37	12	113753278	113753278	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_024959.2	-1	validated	p.P333S	1.000	104	0%	75	22.7%	6	0%	probably_damaging(1)	tolerated(0.09)	deleterious(0.796)	NULL
RBM19	9904	genome.wustl.edu	37	12	114364924	114364924	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_016196.3	-1	reviewed	p.L727I	0.259	276	0%	135	14.8%	3	0%	benign(0.002)	tolerated(0.53)	neutral(0.007)	superfamily_RNA-binding domain RBD
TBX5	6910	genome.wustl.edu	37	12	114793906	114793906	+	Nonsense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_000192.3	-1	reviewed	p.E330*	1.000	263	0%	119	12.6%	0	-	-	-	-	NULL
TBX5	6910	genome.wustl.edu	37	12	114804192	114804193	+	Frame_Shift_Ins	INS	-	-	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	-	-					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_000192.3	-1	reviewed	p.E253fs	1.000:1.000	-	-	-	-	-	-	-	-	-	NULL
TBX3	6926	genome.wustl.edu	37	12	115114169	115114169	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_016569.3	-1	reviewed	p.A350T	0.998	202	0%	270	25.9%	3	0%	benign(0.112)	tolerated(0.35)	neutral(0.029)	NULL
MED13L	23389	genome.wustl.edu	37	12	116413398	116413398	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_015335.3	-1	validated	p.R1837H	1.000	178	0.6%	66	27.3%	4	0%	probably_damaging(1)	deleterious(0.01)	deleterious(0.905)	HMMPfam_TRAP_240kDa
MED13L	23389	genome.wustl.edu	37	12	116443769	116443769	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_015335.3	-1	validated	p.A792T	1.000	134	0%	26	26.9%	0	-	possibly_damaging(0.49)	tolerated(0.25)	neutral(0.200)	NULL
RNFT2	84900	genome.wustl.edu	37	12	117217027	117217027	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001109903.1	+1	validated	p.E252D	0.996	292	0%	86	26.7%	0	-	benign(0)	tolerated(0.83)	neutral(0.001)	NULL
FBXW8	26259	genome.wustl.edu	37	12	117461994	117461994	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_153348.2	+1	reviewed	p.S470	0.204	191	0%	180	13.3%	1	0%	-	-	-	HMMSmart_SM00320,superfamily_YVTN repeat-like/Quinoprotein amine dehydrogenase,HMMPfam_WD40
FBXO21	23014	genome.wustl.edu	37	12	117612081	117612081	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_033624.2	-1	reviewed	p.L269F	1.000	311	0%	125	24%	3	0%	probably_damaging(1)	deleterious(0.05)	deleterious(0.845)	superfamily_F-box domain
NOS1	4842	genome.wustl.edu	37	12	117657945	117657945	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_000620.2	-1	reviewed	p.R1369C	1.000	51	0%	40	17.5%	0	-	probably_damaging(0.993)	deleterious(0.01)	deleterious(0.856)	superfamily_Ferredoxin reductase-like C-terminal NADP-linked domain
NOS1	4842	genome.wustl.edu	37	12	117698283	117698283	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_000620.2	-1	reviewed	p.A785V	1.000	163	0%	79	22.8%	0	-	possibly_damaging(0.94)	tolerated(0.06)	deleterious(0.708)	HMMPfam_Flavodoxin_1,superfamily_Flavoproteins
KSR2	283455	genome.wustl.edu	37	12	117909028	117909028	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_173598.4	-1	validated	p.L865I	1.000	596	0.2%	207	10.6%	0	-	benign(0.308)	deleterious(0)	deleterious(0.540)	HMMSmart_SM00219,HMMSmart_SM00220,superfamily_Protein kinase-like (PK-like),HMMPfam_Pkinase
KSR2	283455	genome.wustl.edu	37	12	118105346	118105346	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_173598.4	-1	validated	p.F339L	1.000	123	0%	66	18.2%	0	-	benign(0.204)	tolerated(0.3)	neutral(0.048)	NULL
RFC5	5985	genome.wustl.edu	37	12	118462663	118462663	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_007370.4	+1	reviewed	p.E143D	1.000	149	0%	116	35.3%	7	28.5%	probably_damaging(1)	deleterious(0)	deleterious(0.945)	HMMSmart_AAA,HMMPfam_AAA,superfamily_SSF52540
WSB2	55884	genome.wustl.edu	37	12	118476093	118476093	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_018639.3	-1	reviewed	p.S220	1.000	48	0%	22	22.7%	17	0%	-	-	-	HMMSmart_WD40,superfamily_WD40_like,HMMPfam_WD40
VSIG10	54621	genome.wustl.edu	37	12	118520206	118520206	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_019086.5	-1	validated	p.I130	1.000	100	0%	72	25%	0	-	-	-	-	superfamily_Immunoglobulin
VSIG10	54621	genome.wustl.edu	37	12	118533439	118533439	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_019086.5	-1	validated	p.S87F	0.994	105	0%	98	15.3%	0	-	benign(0.043)	tolerated(0.51)	neutral(0.011)	HMMSmart_SM00406,HMMSmart_SM00408,HMMSmart_SM00409,HMMPfam_V-set,superfamily_Immunoglobulin
TAOK3	51347	genome.wustl.edu	37	12	118599721	118599721	+	Splice_Site	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	ENST00000359811	-1	known	e8+1	1.000	411	0%	150	17.3%	3	0%	probably_damaging(0.999)	deleterious(0)	deleterious(0.935)	-
SUDS3	64426	genome.wustl.edu	37	12	118823978	118823978	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_022491.2	+1	validated	p.I110V	1.000	275	0%	194	25.8%	7	28.5%	benign(0)	tolerated(0.36)	neutral(0.020)	HMMPfam_Sds3
SUDS3	64426	genome.wustl.edu	37	12	118828953	118828953	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_022491.2	+1	validated	p.Y128C	1.000	286	0%	133	25.6%	6	33.3%	possibly_damaging(0.737)	tolerated(0.06)	deleterious(0.592)	HMMPfam_Sds3
SUDS3	64426	genome.wustl.edu	37	12	118838502	118838502	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_022491.2	+1	validated	p.R186W	1.000	163	0%	50	24%	3	0%	probably_damaging(1)	deleterious(0)	deleterious(0.945)	HMMPfam_Sds3
SRRM4	84530	genome.wustl.edu	37	12	119554806	119554806	+	Nonsense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_194286.2	+1	validated	p.R144*	0.998	214	0%	90	17.8%	0	-	-	-	-	NULL
CCDC60	160777	genome.wustl.edu	37	12	119954454	119954454	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_178499.3	+1	validated	p.R304W	0.979	218	0.5%	50	22%	0	-	probably_damaging(1)	deleterious(0.01)	deleterious(0.905)	NULL
CCDC60	160777	genome.wustl.edu	37	12	119968701	119968701	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_178499.3	+1	validated	p.L462M	1.000	277	0%	61	16.4%	0	-	probably_damaging(0.999)	deleterious(0)	deleterious(0.935)	NULL
PRKAB1	5564	genome.wustl.edu	37	12	120110131	120110131	+	Missense_Mutation	SNP	C	C	G	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_006253.4	+1	reviewed	p.A62G	1.000	68	0%	112	15.2%	9	0%	benign(0)	tolerated(0.19)	neutral(0.050)	NULL
CIT	11113	genome.wustl.edu	37	12	120189905	120189905	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_007174.1	-1	validated	p.E910K	1.000	91	0%	29	17.2%	0	-	probably_damaging(0.998)	deleterious(0.01)	deleterious(0.880)	NULL
CCDC64	92558	genome.wustl.edu	37	12	120499609	120499609	+	Silent	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_207311.2	+1	validated	p.R247	0.951	92	0%	49	16.3%	4	25%	-	-	-	NULL
RAB35	11021	genome.wustl.edu	37	12	120535082	120535082	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_006861.6	-1	validated	p.T191	0.998	423	0.5%	473	28.1%	14	0%	unknown(0)	-	-	HMMSmart_SM00176,superfamily_P-loop containing nucleoside triphosphate hydrolases
GCN1L1	10985	genome.wustl.edu	37	12	120569065	120569065	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_006836.1	-1	validated	p.A2496V	1.000	58	0%	54	35.2%	27	7.4%	possibly_damaging(0.773)	tolerated(0.27)	neutral(0.321)	superfamily_ARM repeat
GCN1L1	10985	genome.wustl.edu	37	12	120591044	120591044	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_006836.1	-1	validated	p.I1345	0.024	137	0%	74	24.3%	7	14.2%	-	-	-	superfamily_ARM repeat
NME2P1	283458	genome.wustl.edu	37	12	120720279	120720279	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	ENST00000242630	+1	known	p.V58	0.003	229	0%	247	25.5%	1	0%	-	-	-	HMMPfam_NDK,HMMSmart_NDK,superfamily_NDK
RNF10	9921	genome.wustl.edu	37	12	121003288	121003288	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_014868.4	+1	reviewed	p.R614Q	1.000	247	0%	92	27.2%	180	18.3%	possibly_damaging(0.943)	deleterious(0.01)	deleterious(0.793)	NULL
RNF10	9921	genome.wustl.edu	37	12	121014454	121014454	+	Silent	SNP	C	C	T	rs188863621	by1000genomes	TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_014868.4	+1	reviewed	p.V807	0.668	228	0%	205	26.3%	446	26%	-	-	-	NULL
HNF1A	6927	genome.wustl.edu	37	12	121426712	121426712	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_000545.5	+1	reviewed	p.D135N	1.000	114	0%	123	18.7%	0	-	probably_damaging(0.979)	deleterious(0.01)	deleterious(0.828)	HMMPfam_HNF-1_N,superfamily_lambda repressor-like DNA-binding domains
C12orf43	64897	genome.wustl.edu	37	12	121442131	121442131	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_022895.1	-1	predicted	p.S205L	0.000	326	0.6%	423	12.5%	7	28.5%	benign(0.202)	deleterious(0.03)	neutral(0.384)	NULL
OASL	8638	genome.wustl.edu	37	12	121458668	121458668	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_003733.2	-1	validated	p.A414V	0.774	108	0%	53	17%	7	0%	probably_damaging(0.998)	deleterious(0)	deleterious(0.919)	HMMSmart_SM00213,superfamily_Ubiquitin-like
OASL	8638	genome.wustl.edu	37	12	121465490	121465490	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_003733.2	-1	validated	p.V263A	0.996	281	0%	129	33.3%	2	0%	probably_damaging(1)	deleterious(0)	deleterious(0.945)	HMMPfam_OAS1_C,superfamily_PAP/OAS1 substrate-binding domain
OASL	8638	genome.wustl.edu	37	12	121471382	121471382	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_003733.2	-1	validated	p.L121	0.000	88	0%	39	35.9%	1	0%	-	-	-	superfamily_Nucleotidyltransferase
CAMKK2	10645	genome.wustl.edu	37	12	121693437	121693437	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_006549.3	-1	reviewed	p.V275M	1.000	141	0%	66	21.2%	4	0%	probably_damaging(0.995)	deleterious(0)	deleterious(0.902)	HMMSmart_SM00219,HMMSmart_SM00220,superfamily_Protein kinase-like (PK-like),HMMPfam_Pkinase
ANAPC5	51433	genome.wustl.edu	37	12	121756173	121756173	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_016237.4	-1	reviewed	p.A600	0.553	171	0%	53	18.9%	72	5.5%	benign(0.001)	deleterious(0.03)	neutral(0.364)	HMMSmart_SM00028,superfamily_TPR-like
ANAPC5	51433	genome.wustl.edu	37	12	121779826	121779826	+	Nonsense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_016237.4	-1	reviewed	p.E213*	1.000	289	0%	157	26.1%	15	0%	-	-	-	NULL
RNF34	80196	genome.wustl.edu	37	12	121861193	121861193	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_194271.1	+1	reviewed	p.G312	0.000	53	0%	28	32.1%	13	7.6%	unknown(0)	-	-	superfamily_RING/U-box
ORAI1	84876	genome.wustl.edu	37	12	122064857	122064857	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_032790.3	+1	reviewed	p.E70	1.000	16	0%	25	36%	8	25%	-	-	-	HMMPfam_DUF1650
ORAI1	84876	genome.wustl.edu	37	12	122079119	122079119	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_032790.3	+1	reviewed	p.S159L	0.998	38	0%	74	18.9%	26	0%	benign(0.003)	tolerated(0.13)	neutral(0.253)	HMMPfam_DUF1650
MORN3	283385	genome.wustl.edu	37	12	122091114	122091114	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_173855.4	-1	validated	p.A172V	0.000	73	0%	75	18.7%	0	-	benign(0)	tolerated(0.29)	neutral(0.029)	HMMPfam_MORN,HMMSmart_SM00698,superfamily_Histone H3 K4-specific methyltransferase SET7/9 N-terminal domain
SETD1B	23067	genome.wustl.edu	37	12	122265644	122265644	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_015048.1	+1	validated	p.R1782W	1.000	96	0%	163	25.2%	2	50%	unknown(0)	-	-	HMMPfam_SET,superfamily_SSF82199
WDR66	144406	genome.wustl.edu	37	12	122398591	122398591	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_144668.4	+1	validated	p.R745Q	0.002	253	0%	115	17.4%	3	33.3%	benign(0.058)	tolerated(0.65)	neutral(0.007)	HMMSmart_SM00320,superfamily_WD40 repeat-like
WDR66	144406	genome.wustl.edu	37	12	122399948	122399948	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_144668.4	+1	validated	p.D791G	1.000	147	0%	83	21.7%	4	50%	benign(0.023)	tolerated(0.19)	neutral(0.051)	superfamily_WD40 repeat-like
WDR66	144406	genome.wustl.edu	37	12	122413505	122413505	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_144668.4	+1	validated	p.E974K	1.000	275	0%	163	13.5%	2	100%	benign(0.188)	tolerated(0.57)	neutral(0.024)	NULL
MLXIP	22877	genome.wustl.edu	37	12	122614661	122614661	+	Splice_Site	SNP	T	T	C	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	ENST00000319080	+1	known	e6+2	1.000	96	0%	152	13.2%	0	-	-	-	-	-
MLXIP	22877	genome.wustl.edu	37	12	122622803	122622803	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	ENST00000319080	+1	known	p.F739	0.950	64	0%	68	29.4%	8	12.5%	-	-	-	HMMPfam_HLH,HMMSmart_SM00353,superfamily_HLH helix-loop-helix DNA-binding domain
LRRC43	254050	genome.wustl.edu	37	12	122677294	122677294	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001098519.1	+1	validated	p.I364	0.438	200	0.5%	228	30.7%	1	0%	-	-	-	NULL
B3GNT4	79369	genome.wustl.edu	37	12	122691151	122691151	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_030765.2	+1	reviewed	p.T118I	0.630	85	0%	100	28%	0	-	benign(0.001)	tolerated(0.38)	neutral(0.018)	NULL
VPS33A	65082	genome.wustl.edu	37	12	122716928	122716928	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_022916.4	-1	validated	p.G552	0.010	282	0.4%	353	23.5%	19	10.5%	-	-	-	HMMPfam_Sec1,superfamily_Sec1-like
KNTC1	9735	genome.wustl.edu	37	12	123062247	123062247	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_014708.4	+1	reviewed	p.S917Y	1.000	177	0%	87	27.6%	0	-	probably_damaging(0.998)	deleterious(0.01)	deleterious(0.880)	NULL
KNTC1	9735	genome.wustl.edu	37	12	123064471	123064471	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_014708.4	+1	reviewed	p.S954Y	0.998	347	0%	195	12.8%	1	0%	possibly_damaging(0.513)	tolerated(0.11)	neutral(0.444)	NULL
KNTC1	9735	genome.wustl.edu	37	12	123106489	123106489	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_014708.4	+1	reviewed	p.T2114M	0.180	316	0%	104	23.1%	13	15.3%	probably_damaging(0.998)	deleterious(0)	deleterious(0.919)	HMMPfam_Rod_C
CCDC62	84660	genome.wustl.edu	37	12	123262119	123262119	+	Nonsense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_201435.3	+1	validated	p.R40*	0.997	211	0%	220	11.8%	0	-	-	-	-	NULL
CCDC62	84660	genome.wustl.edu	37	12	123285879	123285879	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_201435.3	+1	validated	p.S396P	0.001	198	0%	139	15.1%	0	-	probably_damaging(0.995)	deleterious(0)	deleterious(0.902)	NULL
HIP1R	9026	genome.wustl.edu	37	12	123332640	123332640	+	Silent	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_003959.1	+1	validated	p.R52	1.000	104	0%	183	27.3%	6	33.3%	-	-	-	superfamily_ENTH_VHS,HMMPfam_ANTH,HMMSmart_ENTH
ARL6IP4	51329	genome.wustl.edu	37	12	123465777	123465777	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_018694.2	+1	validated	p.D154Y	0.732	60	0%	88	30.7%	61	16.3%	possibly_damaging(0.8)	tolerated(0.21)	neutral(0.345)	HMMPfam_SR-25
PITPNM2	57605	genome.wustl.edu	37	12	123485629	123485629	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_020845.2	-1	validated	p.I375	0.587	231	0%	266	22.6%	5	40%	-	-	-	NULL
PITPNM2	57605	genome.wustl.edu	37	12	123498448	123498448	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_020845.2	-1	validated	p.R74C	1.000	80	0%	53	30.2%	0	-	benign(0.057)	tolerated(0.06)	neutral(0.326)	HMMPfam_IP_trans,superfamily_Bet v1-like
MPHOSPH9	10198	genome.wustl.edu	37	12	123682861	123682861	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_022782.2	-1	validated	p.A501V	1.000	168	0%	71	14.1%	0	-	probably_damaging(0.977)	deleterious(0.03)	deleterious(0.783)	NULL
C12orf65	91574	genome.wustl.edu	37	12	123738231	123738231	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001143905.1	+1	validated	p.V4M	0.000	146	0%	212	25.9%	10	20%	benign(0.011)	tolerated(0.09)	neutral(0.297)	NULL
RILPL1	353116	genome.wustl.edu	37	12	123957133	123957133	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_178314.3	-1	validated	p.R388	0.002	239	0%	121	26.4%	42	11.9%	-	-	-	NULL
TMED2	10959	genome.wustl.edu	37	12	124071422	124071422	+	Silent	SNP	A	A	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_006815.3	+1	validated	p.P103	0.998	211	0%	283	12.4%	50	20%	-	-	-	HMMPfam_EMP24_GP25L,superfamily_Supernatant protein factor (SPF) C-terminal domain
ATP6V0A2	23545	genome.wustl.edu	37	12	124209328	124209328	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_012463.3	+1	reviewed	p.R141H	0.418	209	0%	95	29.5%	1	0%	possibly_damaging(0.909)	deleterious(0.03)	deleterious(0.726)	HMMPfam_V_ATPase_I
ATP6V0A2	23545	genome.wustl.edu	37	12	124235722	124235722	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_012463.3	+1	reviewed	p.K667N	0.996	356	0%	239	23.8%	4	0%	probably_damaging(0.973)	deleterious(0)	deleterious(0.859)	HMMPfam_V_ATPase_I
DNAH10	196385	genome.wustl.edu	37	12	124298343	124298343	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_207437.3	+1	validated	p.D1104Y	1.000	352	0.3%	136	27.2%	0	-	possibly_damaging(0.883)	deleterious(0.01)	deleterious(0.750)	NULL
DNAH10	196385	genome.wustl.edu	37	12	124332625	124332625	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_207437.3	+1	validated	p.E1860K	1.000	127	0%	124	25%	0	-	probably_damaging(0.993)	deleterious(0)	deleterious(0.895)	HMMSmart_SM00382,superfamily_P-loop containing nucleoside triphosphate hydrolases
DNAH10	196385	genome.wustl.edu	37	12	124364250	124364250	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_207437.3	+1	validated	p.P2728S	1.000	383	0%	177	26%	0	-	probably_damaging(1)	deleterious(0.01)	deleterious(0.905)	superfamily_P-loop containing nucleoside triphosphate hydrolases
DNAH10	196385	genome.wustl.edu	37	12	124408352	124408352	+	Missense_Mutation	SNP	C	C	G	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_207437.3	+1	validated	p.T3732S	1.000	191	0%	166	22.9%	0	-	possibly_damaging(0.694)	deleterious(0.03)	deleterious(0.613)	NULL
FAM101A	144347	genome.wustl.edu	37	12	124798860	124798860	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_181709.3	+1	validated	p.R66H	1.000	29	0%	67	20.9%	0	-	probably_damaging(1)	deleterious(0)	deleterious(0.945)	NULL
NCOR2	9612	genome.wustl.edu	37	12	124824695	124824695	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	ENST00000453428	-1	known	p.R178C	0.020	45	0%	91	14.3%	12	0%	-	-	-	NULL
NCOR2	9612	genome.wustl.edu	37	12	124829468	124829468	+	Silent	SNP	C	C	T	rs191598312	by1000genomes	TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_006312.3	-1	validated	p.A1470	0.000	147	0%	242	24.4%	6	0%	-	-	-	NULL
NCOR2	9612	genome.wustl.edu	37	12	124835207	124835207	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_006312.3	-1	validated	p.R1264H	0.987	75	0%	100	14%	23	0%	probably_damaging(0.999)	deleterious(0)	deleterious(0.935)	NULL
NCOR2	9612	genome.wustl.edu	37	12	124840068	124840068	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_006312.3	-1	validated	p.P1104	0.023	144	0%	195	31.3%	18	22.2%	-	-	-	NULL
NCOR2	9612	genome.wustl.edu	37	12	124856849	124856849	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_006312.3	-1	validated	p.E842	0.228	12	0%	30	26.7%	3	0%	-	-	-	NULL
NCOR2	9612	genome.wustl.edu	37	12	124870324	124870324	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_006312.3	-1	validated	p.L662	0.997	83	0%	158	21.5%	9	0%	-	-	-	NULL
NCOR2	9612	genome.wustl.edu	37	12	124968197	124968197	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_006312.3	-1	validated	p.R119Q	1.000	57	0%	91	24.2%	6	33.3%	unknown(0)	tolerated(0.28)	-	NULL
SCARB1	949	genome.wustl.edu	37	12	125284785	125284785	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_005505.4	-1	validated	p.A338V	1.000	101	0%	102	24.5%	10	0%	probably_damaging(0.998)	deleterious(0.01)	deleterious(0.880)	HMMPfam_CD36
TMEM132B	114795	genome.wustl.edu	37	12	126128716	126128716	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_052907.2	+1	provisional	p.S506Y	0.996	175	0%	56	16.1%	0	-	possibly_damaging(0.455)	deleterious(0)	deleterious(0.594)	NULL
TMEM132B	114795	genome.wustl.edu	37	12	126138776	126138776	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_052907.2	+1	provisional	p.C919	0.993	127	0%	32	12.5%	2	0%	-	-	-	NULL
TMEM132C	92293	genome.wustl.edu	37	12	128899899	128899899	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001136103.2	+1	provisional	p.N124	0.006	84	0%	47	14.9%	1	100%	-	-	-	NULL
TMEM132C	92293	genome.wustl.edu	37	12	129190683	129190683	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001136103.2	+1	provisional	p.T945I	1.000	82	0%	69	11.6%	4	0%	probably_damaging(0.993)	deleterious(0)	deleterious(0.895)	NULL
TMEM132C	92293	genome.wustl.edu	37	12	129190753	129190753	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001136103.2	+1	provisional	p.E968D	0.945	90	0%	69	30.4%	4	25%	benign(0)	tolerated(1)	-	NULL
SLC15A4	121260	genome.wustl.edu	37	12	129278857	129278857	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_145648.3	-1	validated	p.A540T	1.000	185	0.5%	139	21.6%	11	18.1%	possibly_damaging(0.822)	tolerated(0.11)	deleterious(0.583)	superfamily_MFS general substrate transporter
SLC15A4	121260	genome.wustl.edu	37	12	129299462	129299462	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_145648.3	-1	validated	p.G234S	0.998	175	0%	157	22.9%	2	0%	benign(0.245)	tolerated(0.28)	neutral(0.057)	HMMPfam_PTR2,superfamily_MFS general substrate transporter
TMEM132D	121256	genome.wustl.edu	37	12	129558635	129558635	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_133448.2	-1	validated	p.D1029Y	0.060	322	0.3%	253	24.9%	0	-	possibly_damaging(0.947)	deleterious(0.02)	deleterious(0.774)	NULL
PIWIL1	9271	genome.wustl.edu	37	12	130830411	130830411	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_004764.3	+1	reviewed	p.E102K	1.000	496	0%	445	27%	0	-	probably_damaging(1)	deleterious(0.03)	deleterious(0.865)	NULL
PIWIL1	9271	genome.wustl.edu	37	12	130855780	130855780	+	Missense_Mutation	SNP	A	A	C	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_004764.3	+1	reviewed	p.Y794S	1.000	352	0%	169	25.4%	1	100%	probably_damaging(1)	deleterious(0)	deleterious(0.945)	HMMPfam_Piwi,superfamily_Ribonuclease H-like
RIMBP2	23504	genome.wustl.edu	37	12	130897303	130897303	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_015347.4	-1	validated	p.F894	1.000	292	0%	218	21.6%	0	-	-	-	-	HMMSmart_SM00326,superfamily_SH3-domain,HMMPfam_SH3_2
RIMBP2	23504	genome.wustl.edu	37	12	130921500	130921500	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_015347.4	-1	validated	p.R648W	0.987	25	0%	42	21.4%	0	-	probably_damaging(1)	deleterious(0)	deleterious(0.945)	NULL
RIMBP2	23504	genome.wustl.edu	37	12	130926553	130926553	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_015347.4	-1	validated	p.I431	0.845	70	0%	94	14.9%	0	-	-	-	-	HMMPfam_fn3,HMMSmart_SM00060,superfamily_Fibronectin type III
RIMBP2	23504	genome.wustl.edu	37	12	130927022	130927022	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_015347.4	-1	validated	p.A275V	0.018	213	0%	326	12.3%	0	-	benign(0)	tolerated(0.38)	neutral(0.018)	NULL
STX2	2054	genome.wustl.edu	37	12	131291541	131291541	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_194356.1	-1	reviewed	p.R150H	1.000	116	0%	172	19.8%	1	0%	probably_damaging(1)	deleterious(0)	deleterious(0.945)	superfamily_t-snare proteins
STX2	2054	genome.wustl.edu	37	12	131291562	131291562	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_194356.1	-1	reviewed	p.R143Q	0.999	122	0%	163	34.4%	0	-	probably_damaging(0.996)	deleterious(0)	deleterious(0.906)	HMMSmart_SM00503,superfamily_t-snare proteins
GPR133	283383	genome.wustl.edu	37	12	131451008	131451008	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_198827.3	+1	validated	p.G35E	1.000	198	0%	216	21.3%	1	0%	probably_damaging(1)	deleterious(0)	deleterious(0.945)	superfamily_Concanavalin A-like lectins/glucanases
GPR133	283383	genome.wustl.edu	37	12	131466471	131466471	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_198827.3	+1	validated	p.S118Y	0.873	124	0%	81	11.1%	0	-	possibly_damaging(0.801)	deleterious(0)	deleterious(0.746)	superfamily_Concanavalin A-like lectins/glucanases
MMP17	4326	genome.wustl.edu	37	12	132326280	132326280	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_016155.4	+1	reviewed	p.P273L	0.998	49	0%	102	28.4%	3	33.3%	possibly_damaging(0.555)	tolerated(0.31)	neutral(0.216)	"HMMPfam_Peptidase_M10,HMMSmart_SM00235,superfamily_Metalloproteases (""zincins"") catalytic domain"
MMP17	4326	genome.wustl.edu	37	12	132329675	132329675	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_016155.4	+1	reviewed	p.D327	0.888	95	0%	192	20.3%	3	0%	-	-	-	NULL
MMP17	4326	genome.wustl.edu	37	12	132334436	132334436	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_016155.4	+1	reviewed	p.D432N	1.000	67	0%	110	16.4%	9	0%	probably_damaging(1)	deleterious(0)	deleterious(0.945)	superfamily_Hemopexin-like domain,HMMPfam_Hemopexin,HMMSmart_SM00120
MMP17	4326	genome.wustl.edu	37	12	132335497	132335497	+	Missense_Mutation	SNP	A	A	C	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_016155.4	+1	reviewed	p.E497A	1.000	28	0%	76	23.7%	13	23%	benign(0.035)	tolerated(0.21)	neutral(0.046)	superfamily_Hemopexin-like domain,HMMPfam_Hemopexin,HMMSmart_SM00120
PUS1	80324	genome.wustl.edu	37	12	132416843	132416843	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_025215.5	+1	reviewed	p.A143T	1.000	82	0%	144	13.9%	11	9%	probably_damaging(0.997)	deleterious(0)	deleterious(0.911)	HMMPfam_PseudoU_synth_1,superfamily_Pseudouridine synthase
EP400	57634	genome.wustl.edu	37	12	132474528	132474528	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_015409.3	+1	validated	p.R809H	1.000	89	0%	80	23.7%	3	33.3%	unknown(0)	-	-	HMMPfam_HSA,HMMSmart_HSA
EP400	57634	genome.wustl.edu	37	12	132498062	132498062	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_015409.3	+1	validated	p.S1212	0.005	102	0%	123	18.7%	1	0%	-	-	-	HMMPfam_SNF2_N,HMMSmart_DEXDc,superfamily_SSF52540
EP400	57634	genome.wustl.edu	37	12	132502117	132502117	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_015409.3	+1	validated	p.V1320I	1.000	66	0%	104	26.9%	1	0%	unknown(0)	-	-	HMMPfam_SNF2_N
EP400	57634	genome.wustl.edu	37	12	132502891	132502891	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_015409.3	+1	validated	p.R1415Q	0.997	75	0%	153	26.1%	0	-	unknown(0)	-	-	NULL
EP400	57634	genome.wustl.edu	37	12	132514360	132514360	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_015409.3	+1	validated	p.H1831	0.029	39	0%	82	34.1%	2	0%	-	-	-	NULL
EP400	57634	genome.wustl.edu	37	12	132528725	132528725	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_015409.3	+1	validated	p.A2151T	0.000	37	0%	56	16.1%	1	0%	unknown(0)	-	-	NULL
DDX51	317781	genome.wustl.edu	37	12	132624677	132624677	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_175066.3	-1	validated	p.D581N	0.997	22	0%	34	23.5%	9	0%	probably_damaging(0.997)	deleterious(0.01)	deleterious(0.872)	HMMPfam_Helicase_C,HMMSmart_HELICc,superfamily_SSF52540
DDX51	317781	genome.wustl.edu	37	12	132626121	132626121	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_175066.3	-1	validated	p.I342	0.139	51	0%	66	12.1%	3	33.3%	-	-	-	HMMPfam_DEAD,HMMSmart_DEXDc,superfamily_SSF52540
GALNT9	50614	genome.wustl.edu	37	12	132682371	132682371	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	ENST00000328957	-1	known	p.A544V	0.054	10	0%	15	33.3%	0	-	benign(0.002)	tolerated(0.27)	neutral(0.034)	HMMPfam_Ricin_B_lectin,HMMSmart_SM00458,superfamily_Ricin B-like lectins
GALNT9	50614	genome.wustl.edu	37	12	132685783	132685783	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	ENST00000328957	-1	known	p.D429	1.000	88	0%	154	29.9%	0	-	-	-	-	superfamily_Nucleotide-diphospho-sugar transferases
FBRSL1	57666	genome.wustl.edu	37	12	133151062	133151062	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001142641.1	+1	validated	p.A581V	0.000	18	0%	36	19.4%	1	0%	probably_damaging(0.965)	tolerated(0.19)	neutral(0.456)	NULL
P2RX2	22953	genome.wustl.edu	37	12	133196482	133196482	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_170683.2	+1	reviewed	p.G145E	0.994	10	0%	24	37.5%	0	-	benign(0.336)	deleterious(0.02)	deleterious(0.489)	HMMPfam_P2X_receptor
P2RX2	22953	genome.wustl.edu	37	12	133198505	133198505	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_170683.2	+1	reviewed	p.E481K	0.001	26	0%	74	25.7%	0	-	probably_damaging(0.994)	deleterious(0.03)	deleterious(0.817)	NULL
POLE	5426	genome.wustl.edu	37	12	133250289	133250289	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_006231.2	-1	validated	p.V411L	1.000	62	0%	75	22.7%	0	-	probably_damaging(1)	deleterious(0)	deleterious(0.945)	HMMPfam_DNA_pol_B_exo,HMMSmart_POLBc,superfamily_RNaseH_fold
POLE	5426	genome.wustl.edu	37	12	133254243	133254243	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_006231.2	-1	validated	p.Q214R	1.000	230	0%	219	10.5%	0	-	benign(0.008)	tolerated(0.33)	neutral(0.024)	HMMPfam_DNA_pol_B_exo,superfamily_RNaseH_fold
PGAM5	192111	genome.wustl.edu	37	12	133294343	133294343	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_138575.3	+1	validated	p.E182K	0.962	29	0%	70	12.9%	8	12.5%	benign(0.071)	tolerated(0.22)	neutral(0.047)	HMMPfam_PGAM,superfamily_Phosphoglycerate mutase-like
ANKLE2	23141	genome.wustl.edu	37	12	133312086	133312086	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_015114.1	-1	validated	p.R536C	1.000	223	0%	255	11.8%	20	0%	probably_damaging(0.998)	tolerated(0.13)	deleterious(0.727)	NULL
CHFR	55743	genome.wustl.edu	37	12	133419624	133419624	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_018223.2	-1	validated	p.R601H	1.000	105	0%	164	26.8%	13	7.6%	probably_damaging(1)	deleterious(0)	deleterious(0.945)	NULL
ZNF140	7699	genome.wustl.edu	37	12	133682524	133682524	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_003440.2	+1	validated	p.D221N	0.003	101	0%	44	22.7%	2	0%	probably_damaging(0.957)	deleterious(0)	deleterious(0.845)	HMMPfam_zf-C2H2,PatternScan_ZINC_FINGER_C2H2_1,HMMSmart_ZnF_C2H2,superfamily_SSF57667
ENSG00000214029	0	genome.wustl.edu	37	12	133696921	133696921	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	ENST00000397313	-1	known	p.S528R	0.000	13	0%	22	27.3%	3	33.3%	benign(0.195)	tolerated(0.79)	neutral(0.019)	HMMPfam_zf-C2H2,PatternScan_ZINC_FINGER_C2H2_1,HMMSmart_ZnF_C2H2,superfamily_SSF57667
ZNF10	7556	genome.wustl.edu	37	12	133727694	133727694	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_015394.4	+1	reviewed	p.V38	0.998	464	0%	120	20%	1	0%	-	-	-	HMMPfam_KRAB,HMMSmart_SM00349,superfamily_KRAB domain (Kruppel-associated box Pfam 01352)
ZNF10	7556	genome.wustl.edu	37	12	133733527	133733527	+	Silent	SNP	A	A	C	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_015394.4	+1	reviewed	p.T565	0.001	110	0%	24	25%	1	0%	-	-	-	superfamily_C2H2 and C2HC zinc fingers
ZNF268	10795	genome.wustl.edu	37	12	133779623	133779623	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_003415.2	+1	validated	p.K451E	0.019	205	0%	45	22.2%	0	-	probably_damaging(0.997)	deleterious(0.02)	deleterious(0.849)	HMMPfam_zf-C2H2,PatternScan_ZINC_FINGER_C2H2_1,HMMSmart_SM00355,superfamily_C2H2 and C2HC zinc fingers
TUBA3C	7278	genome.wustl.edu	37	13	19748011	19748011	+	Nonsense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_006001.1	-1	reviewed	p.E449*	1.000	327	0%	265	17%	0	-	-	-	-	NULL
TUBA3C	7278	genome.wustl.edu	37	13	19748209	19748209	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_006001.1	-1	reviewed	p.A383T	0.999	111	0%	124	25.8%	0	-	benign(0.009)	deleterious(0)	neutral(0.445)	superfamily_Tubulin C-terminal domain-like,HMMPfam_Tubulin_C
TUBA3C	7278	genome.wustl.edu	37	13	19751424	19751424	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_006001.1	-1	reviewed	p.Q233	1.000	318	0%	334	11.1%	0	-	-	-	-	HMMPfam_Tubulin,superfamily_Tubulin nucleotide-binding domain-like
TPTE2	93492	genome.wustl.edu	37	13	20024238	20024238	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_199254.2	-1	validated	p.A317	0.042	534	0%	126	30.2%	0	-	-	-	-	superfamily_(Phosphotyrosine protein) phosphatases II
MPHOSPH8	54737	genome.wustl.edu	37	13	20224201	20224201	+	Silent	SNP	T	T	C	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_017520.3	+1	validated	p.N459	1.000	191	0%	87	18.4%	7	28.5%	-	-	-	NULL
MPHOSPH8	54737	genome.wustl.edu	37	13	20242563	20242563	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_017520.3	+1	validated	p.R741C	1.000	259	0.4%	147	12.9%	16	6.2%	probably_damaging(1)	deleterious(0)	deleterious(0.945)	NULL
ZMYM2	7750	genome.wustl.edu	37	13	20567440	20567440	+	Silent	SNP	A	A	G	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_003453.2	+1	validated	p.V76	0.001	189	0%	78	24.4%	1	0%	-	-	-	NULL
ZMYM2	7750	genome.wustl.edu	37	13	20601372	20601372	+	Nonsense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_003453.2	+1	validated	p.R589*	1.000	449	0%	130	18.5%	4	25%	-	-	-	HMMPfam_zf-FCS,HMMSmart_TRASH
ZMYM2	7750	genome.wustl.edu	37	13	20660114	20660114	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_003453.2	+1	validated	p.Y1365C	1.000	201	0%	111	19.8%	32	21.8%	probably_damaging(0.998)	deleterious(0.01)	deleterious(0.880)	NULL
GJA3	2700	genome.wustl.edu	37	13	20717388	20717388	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_021954.3	-1	reviewed	p.A14T	1.000	81	0%	109	26.6%	1	0%	probably_damaging(0.996)	tolerated(0.05)	deleterious(0.807)	HMMPfam_Connexin
GJB6	10804	genome.wustl.edu	37	13	20796875	20796875	+	Missense_Mutation	SNP	A	A	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001110219.2	-1	reviewed	p.S249T	0.740	603	0.2%	404	24%	0	-	benign(0)	tolerated(0.4)	neutral(0.016)	NULL
N6AMT2	221143	genome.wustl.edu	37	13	21306151	21306151	+	Nonsense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_174928.1	-1	provisional	p.E113*	1.000	304	0%	328	26.2%	5	20%	-	-	-	HMMPfam_DPPF
N6AMT2	221143	genome.wustl.edu	37	13	21331636	21331636	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_174928.1	-1	provisional	p.G34	0.008	566	0%	329	24%	7	0%	-	-	-	NULL
XPO4	64328	genome.wustl.edu	37	13	21370921	21370921	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_022459.4	-1	validated	p.Q866H	1.000	161	0%	53	13.2%	1	0%	possibly_damaging(0.616)	tolerated(0.07)	deleterious(0.533)	superfamily_ARM-type_fold
LATS2	26524	genome.wustl.edu	37	13	21555630	21555630	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_014572.2	-1	reviewed	p.I880	0.990	68	0%	69	14.5%	9	22.2%	-	-	-	HMMSmart_S_TKc,superfamily_Kinase_like,HMMPfam_Pkinase
LATS2	26524	genome.wustl.edu	37	13	21563416	21563416	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_014572.2	-1	reviewed	p.T168M	0.010	39	0%	56	12.5%	1	0%	possibly_damaging(0.605)	deleterious(0.03)	deleterious(0.574)	NULL
SAP18	10284	genome.wustl.edu	37	13	21715037	21715037	+	Silent	SNP	T	T	C	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	ENST00000450573	+1	known	p.V42A	1.000	70	0%	72	11.1%	255	20.7%	-	-	-	HMMPfam_SAP18
SACS	26278	genome.wustl.edu	37	13	23906234	23906234	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_014363.4	-1	reviewed	p.A3927	0.007	158	0%	107	24.3%	1	0%	-	-	-	NULL
SACS	26278	genome.wustl.edu	37	13	23913641	23913641	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_014363.4	-1	reviewed	p.E1458D	0.989	348	0%	101	23.8%	0	-	probably_damaging(1)	deleterious(0)	deleterious(0.945)	superfamily_ATPase domain of HSP90 chaperone/DNA topoisomerase II/histidine kinase
SACS	26278	genome.wustl.edu	37	13	23915229	23915229	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_014363.4	-1	reviewed	p.R929H	0.998	315	0%	86	24.4%	0	-	possibly_damaging(0.598)	tolerated(0.13)	neutral(0.460)	NULL
SACS	26278	genome.wustl.edu	37	13	23915333	23915333	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_014363.4	-1	reviewed	p.S894	0.000	451	0%	143	14%	0	-	-	-	-	NULL
C1QTNF9B-AS1	542767	genome.wustl.edu	37	13	24465845	24465845	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001135816.1	+1	validated	p.V42	0.279	228	0.4%	346	22.8%	1	0%	-	-	-	NULL
C1QTNF9B	387911	genome.wustl.edu	37	13	24468300	24468300	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001007537.1	-1	provisional	p.T69	0.000	456	0%	567	34%	0	-	-	-	-	HMMPfam_Collagen
SPATA13	221178	genome.wustl.edu	37	13	24798555	24798555	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	ENST00000424834	+1	known	p.E534K	0.996	102	0%	173	14.5%	0	-	-	-	-	NULL
SPATA13	221178	genome.wustl.edu	37	13	24863156	24863156	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_153023.2	+1	validated	p.R271H	1.000	96	0%	65	33.8%	0	-	probably_damaging(1)	deleterious(0)	deleterious(0.945)	HMMPfam_RhoGEF,HMMSmart_SM00325,superfamily_DBL homology domain (DH-domain)
C1QTNF9	338872	genome.wustl.edu	37	13	24895285	24895285	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_178540.3	+1	validated	p.K127N	0.993	156	0%	192	28.6%	0	-	possibly_damaging(0.672)	deleterious(0.03)	deleterious(0.603)	HMMPfam_Collagen
PARP4	143	genome.wustl.edu	37	13	25009140	25009140	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_006437.3	-1	reviewed	p.S1380L	0.000	76	0%	41	12.2%	21	28.5%	probably_damaging(0.99)	tolerated(0.11)	deleterious(0.713)	NULL
PARP4	143	genome.wustl.edu	37	13	25026557	25026557	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_006437.3	-1	reviewed	p.A1001T	1.000	131	0%	50	10%	4	25%	benign(0.001)	tolerated(0.98)	-	HMMPfam_VWA,HMMSmart_VWA,superfamily_SSF53300
ATP12A	479	genome.wustl.edu	37	13	25283532	25283532	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001676.5	+1	reviewed	p.A842S	1.000	74	1.4%	64	23.4%	0	-	benign(0.262)	deleterious(0.04)	neutral(0.377)	HMMPfam_Cation_ATPase_C,superfamily_Calcium ATPase transmembrane domain M
RNF17	56163	genome.wustl.edu	37	13	25356008	25356008	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_031277.2	+1	reviewed	p.T179	0.844	460	0%	101	24.8%	0	-	-	-	-	NULL
RNF17	56163	genome.wustl.edu	37	13	25433294	25433294	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_031277.2	+1	reviewed	p.A1256T	0.007	444	0.2%	185	21.1%	0	-	benign(0)	tolerated(0.72)	neutral(0.002)	HMMSmart_SM00333,HMMPfam_TUDOR,superfamily_Tudor/PWWP/MBT
CENPJ	55835	genome.wustl.edu	37	13	25458546	25458546	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_018451.3	-1	reviewed	p.R1178Q	0.998	356	0%	214	25.7%	15	26.6%	benign(0.024)	tolerated(0.08)	neutral(0.301)	HMMPfam_Tcp10_C
PABPC3	5042	genome.wustl.edu	37	13	25671450	25671450	+	Nonsense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_030979.2	+1	validated	p.E372*	1.000	380	0%	529	27%	48	0%	-	-	-	superfamily_RNA-binding domain RBD
PABPC3	5042	genome.wustl.edu	37	13	25671760	25671760	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_030979.2	+1	validated	p.R475H	1.000	114	0%	172	32%	2	0%	benign(0.012)	tolerated(0.12)	neutral(0.261)	NULL
FAM123A	219287	genome.wustl.edu	37	13	25744068	25744068	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_152704.2	-1	validated	p.G564R	0.146	126	0%	190	25.3%	0	-	benign(0.004)	tolerated(0.38)	neutral(0.018)	HMMPfam_WTX
FAM123A	219287	genome.wustl.edu	37	13	25744198	25744198	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_152704.2	-1	validated	p.S520	0.120	76	0%	79	10.1%	0	-	-	-	-	HMMPfam_WTX
FAM123A	219287	genome.wustl.edu	37	13	25744405	25744405	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_152704.2	-1	validated	p.P451	0.000	29	0%	66	30.3%	0	-	-	-	-	HMMPfam_WTX
FAM123A	219287	genome.wustl.edu	37	13	25744741	25744741	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_152704.2	-1	validated	p.S339	0.998	36	0%	70	14.3%	0	-	-	-	-	HMMPfam_WTX
MTMR6	9107	genome.wustl.edu	37	13	25831382	25831382	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_004685.3	-1	validated	p.L349	0.560	224	0%	97	15.5%	3	0%	-	-	-	HMMSmart_SM00404,superfamily_(Phosphotyrosine protein) phosphatases II
MTMR6	9107	genome.wustl.edu	37	13	25848323	25848323	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_004685.3	-1	validated	p.V9	0.996	329	0%	251	23.1%	0	-	-	-	-	superfamily_PH domain-like
NUPL1	9818	genome.wustl.edu	37	13	25905641	25905641	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_014089.3	+1	reviewed	p.N460	0.070	107	0%	29	24.1%	1	0%	-	-	-	NULL
ATP8A2	51761	genome.wustl.edu	37	13	26125532	26125532	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_016529.4	+1	validated	p.Q316H	1.000	404	0%	127	14.2%	0	-	probably_damaging(0.998)	deleterious(0.04)	deleterious(0.823)	NULL
ATP8A2	51761	genome.wustl.edu	37	13	26133134	26133134	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_016529.4	+1	validated	p.K429N	1.000	539	0%	142	31.7%	0	-	possibly_damaging(0.887)	deleterious(0)	deleterious(0.791)	PatternScan_ATPASE_E1_E2,superfamily_HAD-like
ATP8A2	51761	genome.wustl.edu	37	13	26145828	26145828	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_016529.4	+1	validated	p.A554S	0.997	221	0%	39	20.5%	0	-	benign(0.103)	tolerated(0.48)	neutral(0.019)	superfamily_HAD-like,superfamily_Metal cation-transporting ATPase ATP-binding domain N
ATP8A2	51761	genome.wustl.edu	37	13	26155994	26155994	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_016529.4	+1	validated	p.R682H	1.000	157	0%	57	21.1%	0	-	probably_damaging(0.987)	deleterious(0)	deleterious(0.881)	superfamily_HAD-like
RNF6	6049	genome.wustl.edu	37	13	26788659	26788659	+	Nonsense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_005977.3	-1	reviewed	p.R454*	1.000	232	0%	169	25.4%	6	16.6%	-	-	-	NULL
RNF6	6049	genome.wustl.edu	37	13	26788844	26788844	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_005977.3	-1	reviewed	p.R392Q	0.051	304	0%	236	10.6%	4	0%	benign(0.172)	tolerated(1)	neutral(0.015)	NULL
RNF6	6049	genome.wustl.edu	37	13	26789432	26789432	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_005977.3	-1	reviewed	p.R196Q	1.000	318	0%	249	24.9%	2	0%	probably_damaging(0.999)	deleterious(0.01)	deleterious(0.896)	NULL
WASF3	10810	genome.wustl.edu	37	13	27259962	27259962	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_006646.5	+1	reviewed	p.E497K	1.000	89	0%	142	33.8%	0	-	unknown(0)	deleterious(0.01)	-	NULL
GPR12	2835	genome.wustl.edu	37	13	27333013	27333013	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_005288.3	-1	validated	p.G318S	1.000	231	0%	355	13.8%	0	-	possibly_damaging(0.867)	tolerated(0.2)	neutral(0.386)	superfamily_Family A G protein-coupled receptor-like
RASL11A	387496	genome.wustl.edu	37	13	27845835	27845835	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_206827.1	+1	provisional	p.D81N	1.000	49	0%	72	29.2%	17	5.8%	probably_damaging(1)	deleterious(0)	deleterious(0.945)	superfamily_SSF52540
CDX2	1045	genome.wustl.edu	37	13	28539068	28539068	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001265.3	-1	validated	p.R209H	0.998	79	0%	96	20.8%	0	-	probably_damaging(0.98)	deleterious(0)	deleterious(0.869)	HMMPfam_Homeobox,HMMSmart_SM00389,superfamily_Homeodomain-like
CDX2	1045	genome.wustl.edu	37	13	28539140	28539140	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001265.3	-1	validated	p.T185M	1.000	139	0%	171	11.7%	0	-	probably_damaging(1)	deleterious(0)	deleterious(0.945)	superfamily_Homeodomain-like
FLT3	2322	genome.wustl.edu	37	13	28611388	28611388	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_004119.2	-1	reviewed	p.E415K	1.000	331	0%	90	13.3%	0	-	benign(0.138)	tolerated(0.13)	neutral(0.264)	NULL
FLT3	2322	genome.wustl.edu	37	13	28622521	28622521	+	Nonsense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_004119.2	-1	reviewed	p.E366*	0.994	379	0%	118	12.7%	0	-	-	-	-	NULL
FLT3	2322	genome.wustl.edu	37	13	28644683	28644683	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_004119.2	-1	reviewed	p.L37S	1.000	199	0%	64	17.2%	0	-	probably_damaging(0.998)	deleterious(0)	deleterious(0.919)	NULL
FLT1	2321	genome.wustl.edu	37	13	29004278	29004278	+	Nonsense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_002019.4	-1	reviewed	p.R339*	1.000	186	0%	34	32.4%	4	0%	-	-	-	superfamily_Immunoglobulin
SLC46A3	283537	genome.wustl.edu	37	13	29286873	29286873	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001135919.1	-1	validated	p.T335M	0.997	153	0%	147	11.6%	1	0%	probably_damaging(0.989)	tolerated(0.15)	deleterious(0.680)	HMMPfam_MFS_1,superfamily_MFS_gen_substrate_transporter
SLC46A3	283537	genome.wustl.edu	37	13	29287375	29287375	+	Nonsense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001135919.1	-1	validated	p.R168*	1.000	137	0%	150	22%	2	0%	-	-	-	HMMPfam_MFS_1,superfamily_MFS_gen_substrate_transporter
MTUS2	23281	genome.wustl.edu	37	13	29599548	29599548	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001033602.2	+1	validated	p.G248E	0.921	56	0%	30	16.7%	0	-	benign(0.374)	tolerated(0.41)	neutral(0.134)	NULL
MTUS2	23281	genome.wustl.edu	37	13	29600676	29600676	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001033602.2	+1	validated	p.G624E	0.483	57	0%	35	25.7%	0	-	benign(0.005)	tolerated(0.11)	neutral(0.272)	NULL
MTUS2	23281	genome.wustl.edu	37	13	29933558	29933558	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001033602.2	+1	validated	p.A1032V	0.724	37	0%	52	19.2%	0	-	probably_damaging(0.953)	deleterious(0.02)	deleterious(0.780)	NULL
MTUS2	23281	genome.wustl.edu	37	13	30003002	30003002	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_015233.5	+1	validated	p.P8H	0.999	294	0%	377	24.7%	0	-	benign(0.005)	deleterious(0)	neutral(0.445)	NULL
UBL3	5412	genome.wustl.edu	37	13	30351373	30351373	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_007106.3	-1	validated	p.G19R	1.000	280	0%	72	22.2%	5	0%	probably_damaging(1)	deleterious(0)	deleterious(0.945)	superfamily_Ubiquitin-like
KATNAL1	84056	genome.wustl.edu	37	13	30805468	30805468	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001014380.1	-1	validated	p.R290C	1.000	124	0.8%	30	23.3%	3	0%	probably_damaging(1)	deleterious(0)	deleterious(0.945)	HMMSmart_SM00382,HMMPfam_AAA,superfamily_P-loop containing nucleoside triphosphate hydrolases
USPL1	10208	genome.wustl.edu	37	13	31232785	31232785	+	Silent	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_005800.4	+1	validated	p.T857	0.000	176	0%	77	18.2%	7	0%	-	-	-	NULL
USPL1	10208	genome.wustl.edu	37	13	31233426	31233426	+	Nonsense_Mutation	SNP	T	T	G	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_005800.4	+1	validated	p.L1071*	0.030	259	0%	96	21.9%	22	22.7%	-	-	-	NULL
TEX26	122046	genome.wustl.edu	37	13	31531083	31531083	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_152325.1	+1	predicted	p.P129L	0.006	329	0%	272	27.9%	0	-	possibly_damaging(0.905)	tolerated(0.19)	neutral(0.409)	NULL
TEX26	122046	genome.wustl.edu	37	13	31531145	31531145	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_152325.1	+1	predicted	p.D150N	0.982	254	0.4%	188	22.3%	0	-	probably_damaging(0.996)	deleterious(0)	deleterious(0.906)	NULL
FRY	10129	genome.wustl.edu	37	13	32722001	32722001	+	Missense_Mutation	SNP	C	C	G	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_023037.2	+1	validated	p.L437V	1.000	472	0%	324	22.5%	0	-	probably_damaging(0.999)	deleterious(0.02)	deleterious(0.873)	NULL
FRY	10129	genome.wustl.edu	37	13	32761703	32761703	+	Nonsense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_023037.2	+1	validated	p.C1167*	0.999	407	0%	158	10.8%	0	-	-	-	-	NULL
FRY	10129	genome.wustl.edu	37	13	32799137	32799137	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_023037.2	+1	validated	p.L1662F	0.996	446	0%	149	11.4%	0	-	possibly_damaging(0.637)	tolerated(0.06)	deleterious(0.545)	NULL
FRY	10129	genome.wustl.edu	37	13	32841481	32841481	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_023037.2	+1	validated	p.F2707L	1.000	236	0%	82	20.7%	3	0%	possibly_damaging(0.8)	tolerated(0.12)	deleterious(0.561)	NULL
ZAR1L	646799	genome.wustl.edu	37	13	32884822	32884822	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001136571.1	-1	reviewed	p.T234I	1.000	408	0%	563	22%	0	-	benign(0.418)	tolerated(1)	neutral(0.136)	NULL
BRCA2	675	genome.wustl.edu	37	13	32893221	32893221	+	Silent	SNP	A	A	G	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_000059.3	+1	reviewed	p.G25	1.000	92	0%	109	13.8%	0	-	-	-	-	NULL
BRCA2	675	genome.wustl.edu	37	13	32900239	32900239	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_000059.3	+1	reviewed	p.P143S	1.000	327	0%	122	22.1%	0	-	probably_damaging(1)	deleterious(0)	deleterious(0.945)	NULL
BRCA2	675	genome.wustl.edu	37	13	32913665	32913665	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_000059.3	+1	reviewed	p.A1725S	0.003	141	0%	68	19.1%	0	-	benign(0.028)	tolerated(0.26)	neutral(0.036)	NULL
BRCA2	675	genome.wustl.edu	37	13	32913774	32913774	+	Missense_Mutation	SNP	G	G	T	rs80358752		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_000059.3	+1	reviewed	p.G1761V	0.213	138	0%	49	14.3%	0	-	probably_damaging(0.978)	tolerated(0.22)	neutral(0.462)	NULL
BRCA2	675	genome.wustl.edu	37	13	32914433	32914433	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_000059.3	+1	reviewed	p.A1981S	1.000	139	0%	40	27.5%	0	-	probably_damaging(1)	deleterious(0)	deleterious(0.945)	HMMPfam_BRCA2
BRCA2	675	genome.wustl.edu	37	13	32915110	32915110	+	Missense_Mutation	SNP	A	A	C	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_000059.3	+1	reviewed	p.K2206N	0.100	187	0%	65	20%	0	-	probably_damaging(0.996)	deleterious(0.01)	deleterious(0.867)	NULL
BRCA2	675	genome.wustl.edu	37	13	32915139	32915139	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_000059.3	+1	reviewed	p.S2216F	0.849	180	0%	54	13%	0	-	probably_damaging(0.999)	deleterious(0)	deleterious(0.935)	NULL
N4BP2L1	90634	genome.wustl.edu	37	13	32977199	32977199	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_052818.2	-1	validated	p.L204	0.000	641	0.3%	287	22.6%	6	0%	-	-	-	NULL
N4BP2L2	10443	genome.wustl.edu	37	13	33017158	33017158	+	Missense_Mutation	SNP	G	G	A	rs17077569	byCluster;byFrequency;by1000genomes	TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_033111.3	-1	validated	p.R506C	0.000	662	0%	381	22.6%	7	0%	benign(0.016)	tolerated(0.13)	neutral(0.253)	NULL
KL	9365	genome.wustl.edu	37	13	33635275	33635275	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_004795.3	+1	reviewed	p.M687V	0.085	83	0%	58	12.1%	0	-	benign(0.022)	tolerated(0.11)	neutral(0.273)	superfamily_(Trans)glycosidases
KL	9365	genome.wustl.edu	37	13	33635382	33635382	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_004795.3	+1	reviewed	p.Q722H	1.000	161	0%	122	13.1%	0	-	probably_damaging(1)	tolerated(0.07)	deleterious(0.819)	HMMPfam_Glyco_hydro_1,superfamily_(Trans)glycosidases
STARD13	90627	genome.wustl.edu	37	13	33680939	33680939	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_178006.3	-1	validated	p.G1060	0.680	118	0%	34	41.2%	7	14.2%	-	-	-	HMMPfam_START,HMMSmart_SM00234,superfamily_Bet v1-like
STARD13	90627	genome.wustl.edu	37	13	33701545	33701545	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_178006.3	-1	validated	p.E629	1.000	59	0%	86	26.7%	1	0%	-	-	-	NULL
NBEA	26960	genome.wustl.edu	37	13	35517196	35517196	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_015678.4	+1	validated	p.L80P	1.000	41	0%	63	25.4%	0	-	probably_damaging(1)	deleterious(0.01)	deleterious(0.905)	superfamily_ARM repeat
NBEA	26960	genome.wustl.edu	37	13	35644113	35644113	+	Silent	SNP	T	T	C	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_015678.4	+1	validated	p.D436	0.997	269	0%	38	21.1%	0	-	-	-	-	superfamily_ARM repeat
NBEA	26960	genome.wustl.edu	37	13	35731303	35731303	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_015678.4	+1	validated	p.E914K	1.000	377	0.5%	63	23.8%	0	-	probably_damaging(0.999)	deleterious(0.02)	deleterious(0.873)	superfamily_ARM repeat
NBEA	26960	genome.wustl.edu	37	13	35745408	35745408	+	Splice_Site	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_015678.4	+1	validated	e26-1	1.000	114	0%	17	35.3%	0	-	-	-	-	-
NBEA	26960	genome.wustl.edu	37	13	35751218	35751218	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_015678.4	+1	validated	p.R1547H	1.000	667	0%	88	20.5%	0	-	probably_damaging(1)	deleterious(0)	deleterious(0.945)	superfamily_ARM repeat
NBEA	26960	genome.wustl.edu	37	13	35806712	35806712	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_015678.4	+1	validated	p.S1911Y	1.000	384	0%	77	14.3%	0	-	probably_damaging(0.999)	deleterious(0)	deleterious(0.935)	superfamily_ARM repeat
MAB21L1	4081	genome.wustl.edu	37	13	36050212	36050212	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_005584.4	-1	reviewed	p.A22T	1.000	97	0%	156	26.3%	0	-	benign(0)	tolerated(0.6)	neutral(0.004)	HMMPfam_Mab-21
NBEA	26960	genome.wustl.edu	37	13	36202287	36202287	+	Nonsense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_015678.4	+1	validated	p.R2507*	1.000	343	0%	86	26.7%	1	0%	-	-	-	HMMPfam_Beach,superfamily_BEACH domain,superfamily_WD40 repeat-like
DCLK1	9201	genome.wustl.edu	37	13	36396899	36396899	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_004734.3	-1	validated	p.I507	0.963	507	0%	122	27.9%	0	-	-	-	-	HMMSmart_S_TKc,PatternScan_PROTEIN_KINASE_ST,superfamily_Kinase_like,HMMPfam_Pkinase
DCLK1	9201	genome.wustl.edu	37	13	36410222	36410222	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_004734.3	-1	validated	p.G393R	1.000	605	0.2%	148	20.9%	0	-	probably_damaging(1)	deleterious(0)	deleterious(0.945)	HMMSmart_S_TKc,superfamily_Kinase_like,HMMPfam_Pkinase
CCDC169	728591	genome.wustl.edu	37	13	36869962	36869962	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001144981.1	-1	validated	p.R39K	0.786	715	0%	885	22.8%	0	-	benign(0.417)	tolerated(0.69)	neutral(0.137)	NULL
SPG20	23111	genome.wustl.edu	37	13	36905644	36905644	+	Silent	SNP	T	T	C	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001142294.1	-1	reviewed	p.L300	0.626	221	0%	60	25%	5	0%	-	-	-	NULL
SPG20	23111	genome.wustl.edu	37	13	36909222	36909222	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001142294.1	-1	reviewed	p.R249Q	1.000	110	0%	56	10.7%	10	0%	probably_damaging(1)	deleterious(0.01)	deleterious(0.905)	NULL
CCNA1	8900	genome.wustl.edu	37	13	37012901	37012901	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_003914.3	+1	reviewed	p.T264A	1.000	196	0%	189	25.4%	4	0%	probably_damaging(1)	deleterious(0)	deleterious(0.945)	HMMSmart_SM00385,HMMPfam_Cyclin_N,PatternScan_CYCLINS,superfamily_Cyclin-like
ALG5	29880	genome.wustl.edu	37	13	37569725	37569725	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_013338.4	-1	reviewed	p.I25	0.992	366	0%	467	24.4%	9	33.3%	-	-	-	NULL
FAM48A	55578	genome.wustl.edu	37	13	37598207	37598207	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001014286.2	-1	validated	p.S519F	1.000	541	0%	194	22.2%	25	12%	possibly_damaging(0.923)	deleterious(0.01)	deleterious(0.778)	NULL
CSNK1A1L	122011	genome.wustl.edu	37	13	37678618	37678618	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_145203.5	-1	validated	p.Y259C	1.000	488	0%	794	24.9%	0	-	probably_damaging(1)	deleterious(0)	deleterious(0.945)	superfamily_Kinase_like
TRPC4	7223	genome.wustl.edu	37	13	38211454	38211454	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_003306.1	-1	validated	p.T845	0.069	257	0%	40	12.5%	14	0%	-	-	-	NULL
TRPC4	7223	genome.wustl.edu	37	13	38211608	38211608	+	Missense_Mutation	SNP	T	T	G	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_003306.1	-1	validated	p.D794A	0.993	134	0%	22	27.3%	14	0%	benign(0.001)	tolerated(0.6)	neutral(0.004)	NULL
TRPC4	7223	genome.wustl.edu	37	13	38266163	38266163	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_003306.1	-1	validated	p.E403K	1.000	161	0%	54	22.2%	9	0%	probably_damaging(1)	deleterious(0)	deleterious(0.945)	NULL
FREM2	341640	genome.wustl.edu	37	13	39265586	39265586	+	Missense_Mutation	SNP	A	A	C	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_207361.4	+1	reviewed	p.N1369H	1.000	186	0%	208	26.9%	0	-	probably_damaging(1)	deleterious(0.02)	deleterious(0.883)	NULL
FREM2	341640	genome.wustl.edu	37	13	39454470	39454470	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_207361.4	+1	reviewed	p.S3019L	1.000	105	0%	69	43.5%	3	0%	probably_damaging(0.999)	deleterious(0.02)	deleterious(0.873)	NULL
PROSER1	80209	genome.wustl.edu	37	13	39596515	39596515	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_025138.3	-1	validated	p.A226	0.999	344	0%	139	19.4%	1	0%	-	-	-	NULL
NHLRC3	387921	genome.wustl.edu	37	13	39616409	39616409	+	Nonsense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001012754.2	+1	validated	p.G185*	1.000	466	0%	485	11.8%	5	20%	-	-	-	HMMPfam_NHL,superfamily_SSF101898
COG6	57511	genome.wustl.edu	37	13	40298676	40298676	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_020751.2	+1	reviewed	p.S575Y	1.000	216	0%	86	15.1%	5	0%	possibly_damaging(0.542)	deleterious(0.02)	deleterious(0.567)	HMMPfam_COG6
COG6	57511	genome.wustl.edu	37	13	40301618	40301618	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_020751.2	+1	reviewed	p.R587C	1.000	584	0%	147	20.4%	3	0%	probably_damaging(0.999)	deleterious(0.02)	deleterious(0.873)	HMMPfam_COG6
ELF1	1997	genome.wustl.edu	37	13	41517086	41517086	+	Splice_Site	SNP	A	A	G	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_172373.3	-1	reviewed	e6+2	1.000	241	0%	95	24.2%	0	-	-	-	-	-
ELF1	1997	genome.wustl.edu	37	13	41556139	41556139	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_172373.3	-1	reviewed	p.V18I	1.000	223	0%	51	25.5%	5	0%	benign(0.005)	-	-	NULL
WBP4	11193	genome.wustl.edu	37	13	41654879	41654879	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_007187.3	+1	reviewed	p.S285L	0.838	307	0%	104	26.9%	19	31.5%	benign(0.001)	tolerated(0.17)	neutral(0.059)	NULL
KBTBD7	84078	genome.wustl.edu	37	13	41766758	41766758	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_032138.4	-1	provisional	p.R546W	1.000	164	0%	218	27.1%	0	-	probably_damaging(0.996)	tolerated(0.17)	deleterious(0.520)	superfamily_Galactose oxidase central domain
KBTBD7	84078	genome.wustl.edu	37	13	41767334	41767334	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_032138.4	-1	provisional	p.D354Y	1.000	233	0%	287	12.9%	0	-	possibly_damaging(0.784)	deleterious(0.03)	deleterious(0.658)	superfamily_Galactose oxidase central domain
KIAA0564	23078	genome.wustl.edu	37	13	42259198	42259198	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_015058.1	-1	validated	p.D1438Y	1.000	323	0%	63	20.6%	2	0%	possibly_damaging(0.843)	tolerated(1)	neutral(0.323)	NULL
KIAA0564	23078	genome.wustl.edu	37	13	42361604	42361604	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_015058.1	-1	validated	p.D713	0.000	257	0%	82	12.2%	1	0%	-	-	-	superfamily_P-loop containing nucleoside triphosphate hydrolases
AKAP11	11215	genome.wustl.edu	37	13	42873612	42873612	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_016248.2	+1	reviewed	p.S244P	1.000	164	0%	41	12.2%	1	0%	probably_damaging(0.999)	deleterious(0.01)	deleterious(0.896)	NULL
AKAP11	11215	genome.wustl.edu	37	13	42875359	42875359	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_016248.2	+1	reviewed	p.R826I	0.004	95	0%	39	23.1%	0	-	possibly_damaging(0.667)	tolerated(0.09)	deleterious(0.532)	NULL
AKAP11	11215	genome.wustl.edu	37	13	42875528	42875528	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_016248.2	+1	reviewed	p.T882	0.942	44	0%	14	28.6%	0	-	-	-	-	NULL
AKAP11	11215	genome.wustl.edu	37	13	42876661	42876661	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_016248.2	+1	reviewed	p.A1260V	1.000	143	0%	55	29.1%	1	100%	probably_damaging(1)	deleterious(0)	deleterious(0.945)	NULL
AKAP11	11215	genome.wustl.edu	37	13	42888063	42888063	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_016248.2	+1	reviewed	p.E1797D	0.057	849	0%	254	20.1%	6	66.6%	benign(0.001)	tolerated(0.06)	neutral(0.323)	NULL
TNFSF11	8600	genome.wustl.edu	37	13	43180855	43180855	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_003701.3	+1	reviewed	p.S252Y	0.990	281	0%	84	23.8%	0	-	benign(0.035)	tolerated(0.31)	neutral(0.029)	HMMPfam_TNF,HMMSmart_SM00207,superfamily_TNF-like
TNFSF11	8600	genome.wustl.edu	37	13	43180923	43180923	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_003701.3	+1	reviewed	p.I275V	1.000	239	0%	61	24.6%	0	-	benign(0)	tolerated(0.68)	neutral(0.002)	HMMPfam_TNF,HMMSmart_SM00207,superfamily_TNF-like
ENOX1	55068	genome.wustl.edu	37	13	43872538	43872538	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001127615.1	-1	validated	p.L464I	0.999	325	0%	122	28.7%	1	0%	benign(0.114)	tolerated(0.21)	neutral(0.053)	NULL
ENOX1	55068	genome.wustl.edu	37	13	43918713	43918713	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001127615.1	-1	validated	p.E333K	1.000	514	0.2%	158	16.5%	1	0%	benign(0.208)	tolerated(0.07)	neutral(0.339)	NULL
ENOX1	55068	genome.wustl.edu	37	13	43918821	43918821	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001127615.1	-1	validated	p.R297W	1.000	233	0%	86	20.9%	1	0%	probably_damaging(0.995)	deleterious(0)	deleterious(0.902)	NULL
ENOX1	55068	genome.wustl.edu	37	13	43930174	43930174	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001127615.1	-1	validated	p.R235H	0.996	40	0%	36	16.7%	0	-	benign(0.404)	tolerated(0.08)	neutral(0.430)	NULL
LACC1	144811	genome.wustl.edu	37	13	44456393	44456393	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001128303.1	+1	validated	p.L212P	1.000	309	0%	438	24.7%	1	0%	probably_damaging(1)	deleterious(0)	deleterious(0.945)	HMMPfam_Cu-oxidase_4,superfamily_CNF1/YfiH-like putative cysteine hydrolases
TSC22D1	8848	genome.wustl.edu	37	13	45147634	45147634	+	Missense_Mutation	SNP	T	T	G	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_183422.2	-1	validated	p.Q859H	1.000	188	0%	268	26.1%	14	0%	probably_damaging(0.991)	tolerated(0.09)	deleterious(0.740)	NULL
TSC22D1	8848	genome.wustl.edu	37	13	45148996	45148996	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_183422.2	-1	validated	p.S405	0.436	225	0%	380	32.1%	2	0%	-	-	-	NULL
ENSG00000170919	0	genome.wustl.edu	37	13	45965384	45965384	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	ENST00000330825	+1	known	p.R82H	0.907	22	0%	32	37.5%	2	0%	-	-	-	NULL
COG3	83548	genome.wustl.edu	37	13	46083839	46083839	+	Missense_Mutation	SNP	C	C	T	rs188701760	by1000genomes	TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_031431.2	+1	reviewed	p.S536F	0.999	306	0%	114	28.9%	1	0%	possibly_damaging(0.508)	deleterious(0.02)	deleterious(0.553)	NULL
ZC3H13	23091	genome.wustl.edu	37	13	46543206	46543206	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_015070.3	-1	validated	p.R1158K	1.000	494	0%	249	20.5%	10	10%	benign(0.181)	tolerated(0.29)	neutral(0.045)	NULL
HTR2A	3356	genome.wustl.edu	37	13	47466585	47466585	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_000621.3	-1	reviewed	p.R185C	1.000	212	0%	288	24%	0	-	probably_damaging(1)	deleterious(0)	deleterious(0.945)	HMMPfam_7tm_1,superfamily_Family A G protein-coupled receptor-like
RB1	5925	genome.wustl.edu	37	13	48953749	48953749	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_000321.2	+1	reviewed	p.R451H	1.000	58	0%	16	25%	2	50%	probably_damaging(1)	tolerated(0.13)	deleterious(0.752)	HMMPfam_RB_A,superfamily_Cyclin-like
RB1	5925	genome.wustl.edu	37	13	49039195	49039195	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_000321.2	+1	reviewed	p.S758L	0.862	232	0%	300	26%	4	0%	benign(0)	tolerated(0.3)	neutral(0.029)	HMMPfam_RB_B,HMMSmart_SM00385,superfamily_Cyclin-like
RCBTB2	1102	genome.wustl.edu	37	13	49070425	49070425	+	Missense_Mutation	SNP	T	T	G	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001268.2	-1	reviewed	p.N473H	1.000	197	0%	119	15.1%	5	0%	benign(0.372)	tolerated(0.05)	neutral(0.464)	HMMSmart_SM00225,superfamily_POZ domain,HMMPfam_BTB
RCBTB2	1102	genome.wustl.edu	37	13	49089848	49089848	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001268.2	-1	reviewed	p.K24N	1.000	107	0%	40	20%	2	0%	benign(0.002)	tolerated(0.3)	neutral(0.029)	NULL
FNDC3A	22862	genome.wustl.edu	37	13	49649473	49649473	+	Nonsense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001079673.1	+1	validated	p.E50*	1.000	442	0%	149	19.5%	0	-	-	-	-	NULL
MLNR	2862	genome.wustl.edu	37	13	49796387	49796387	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001507.1	+1	provisional	p.L371	0.000	130	0%	212	13.2%	0	-	-	-	-	superfamily_Family A G protein-coupled receptor-like
SETDB2	83852	genome.wustl.edu	37	13	50050873	50050873	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_031915.2	+1	validated	p.N201	0.986	190	0%	43	27.9%	4	0%	-	-	-	HMMPfam_MBD,HMMSmart_SM00391,superfamily_DNA-binding domain
SETDB2	83852	genome.wustl.edu	37	13	50062447	50062447	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_031915.2	+1	validated	p.V545A	0.026	158	0%	93	14%	20	5%	benign(0.083)	tolerated(0.46)	neutral(0.018)	HMMPfam_SET,HMMSmart_SM00317,superfamily_SET domain
PHF11	51131	genome.wustl.edu	37	13	50080820	50080820	+	Nonsense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001040443.1	+1	validated	p.C48*	0.999	315	0%	415	25.1%	5	0%	-	-	-	NULL
ARL11	115761	genome.wustl.edu	37	13	50205037	50205037	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_138450.5	+1	reviewed	p.R152W	0.981	20	0%	17	23.5%	2	0%	probably_damaging(0.998)	deleterious(0)	deleterious(0.919)	HMMSmart_ARF,HMMPfam_Arf,superfamily_SSF52540
KPNA3	3839	genome.wustl.edu	37	13	50307175	50307175	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_002267.3	-1	reviewed	p.R41I	1.000	392	0%	134	23.1%	0	-	probably_damaging(0.98)	deleterious(0)	deleterious(0.869)	HMMPfam_IBB
SPRYD7	57213	genome.wustl.edu	37	13	50489055	50489055	+	RNA	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NR_023351.1	-1	validated	NULL	0.021	151	0%	57	28.1%	8	12.5%	-	-	-	-
KCNRG	283518	genome.wustl.edu	37	13	50589751	50589751	+	Missense_Mutation	SNP	A	A	C	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_173605.1	+1	validated	p.E41A	1.000	411	0%	120	23.3%	0	-	probably_damaging(0.99)	tolerated(0.68)	neutral(0.444)	HMMSmart_SM00225,HMMPfam_K_tetra,superfamily_POZ domain
RNASEH2B	79621	genome.wustl.edu	37	13	51519601	51519601	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_024570.2	+1	reviewed	p.V183	0.021	313	0%	87	13.8%	35	2.8%	-	-	-	HMMPfam_RNase_H2-Ydr279
LOC100129303	100129303	genome.wustl.edu	37	13	51826211	51826211	+	Nonsense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	XM_001716871.2	-1	model	p.G35*	0.638	37	0%	71	11.3%	2	0%	-	-	-	NULL
INTS6	26512	genome.wustl.edu	37	13	51943216	51943216	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_012141.2	-1	reviewed	p.D779Y	1.000	388	0.3%	154	17.5%	7	14.2%	benign(0.095)	tolerated(0.07)	neutral(0.326)	NULL
INTS6	26512	genome.wustl.edu	37	13	51953656	51953656	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_012141.2	-1	reviewed	p.S443I	1.000	520	0%	162	22.2%	0	-	possibly_damaging(0.846)	deleterious(0.02)	deleterious(0.708)	NULL
INTS6	26512	genome.wustl.edu	37	13	51961532	51961532	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_012141.2	-1	reviewed	p.S295L	1.000	213	0%	47	12.8%	1	0%	benign(0.003)	tolerated(0.57)	neutral(0.006)	NULL
INTS6	26512	genome.wustl.edu	37	13	52004383	52004383	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	ENST00000488009	-1	known	p.N86S	0.000	240	0%	59	32.2%	0	-	benign(0)	tolerated(1)	-	NULL
INTS6	26512	genome.wustl.edu	37	13	52025192	52025192	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_012141.2	-1	reviewed	p.R103I	1.000	442	0%	663	11%	0	-	probably_damaging(0.999)	deleterious(0)	deleterious(0.935)	superfamily_vWA-like
UTP14C	9724	genome.wustl.edu	37	13	52604988	52604988	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_021645.5	+1	validated	p.V683A	0.114	340	0%	133	16.5%	0	-	benign(0.001)	tolerated(0.64)	neutral(0.003)	HMMPfam_Utp14
THSD1	55901	genome.wustl.edu	37	13	52952007	52952007	+	Nonsense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_018676.3	-1	reviewed	p.R700*	0.999	80	0%	47	23.4%	3	0%	-	-	-	NULL
LECT1	11061	genome.wustl.edu	37	13	53277794	53277794	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_007015.2	-1	reviewed	p.R314H	0.998	108	0%	26	15.4%	0	-	probably_damaging(1)	deleterious(0)	deleterious(0.945)	NULL
LECT1	11061	genome.wustl.edu	37	13	53298153	53298153	+	Silent	SNP	T	T	C	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	ENST00000431550	-1	known	p.T186A	0.660	216	0%	91	12.1%	0	-	-	-	-	HMMPfam_BRICHOS
PCDH8	5100	genome.wustl.edu	37	13	53418897	53418897	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_002590.2	-1	reviewed	p.Y1004C	1.000	99	0%	130	25.4%	0	-	probably_damaging(0.994)	deleterious(0)	deleterious(0.897)	NULL
PCDH8	5100	genome.wustl.edu	37	13	53422119	53422119	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_002590.2	-1	reviewed	p.G151	1.000	9	0.000	12	0.333	0	-	-	-	-	HMMPfam_Cadherin,superfamily_Cadherin-like
OLFM4	10562	genome.wustl.edu	37	13	53608624	53608624	+	Nonsense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_006418.3	+1	reviewed	p.E116*	0.996	198	0%	39	20.5%	1	0%	-	-	-	NULL
PCDH17	27253	genome.wustl.edu	37	13	58206998	58206998	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001040429.2	+1	reviewed	p.L106	0.961	45	0%	134	29.1%	0	-	-	-	-	HMMSmart_SM00112,HMMPfam_Cadherin_2,superfamily_Cadherin-like
PCDH17	27253	genome.wustl.edu	37	13	58207309	58207309	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001040429.2	+1	reviewed	p.T210M	0.999	21	0%	57	24.6%	1	0%	probably_damaging(0.993)	deleterious(0.02)	deleterious(0.833)	HMMPfam_Cadherin,HMMSmart_SM00112,superfamily_Cadherin-like
PCDH17	27253	genome.wustl.edu	37	13	58207445	58207445	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001040429.2	+1	reviewed	p.N255	1.000	19	0%	34	29.4%	0	-	-	-	-	HMMPfam_Cadherin,superfamily_Cadherin-like
PCDH17	27253	genome.wustl.edu	37	13	58207491	58207491	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001040429.2	+1	reviewed	p.D271N	1.000	16	0%	36	22.2%	0	-	probably_damaging(0.999)	deleterious(0)	deleterious(0.935)	HMMPfam_Cadherin,HMMSmart_SM00112,superfamily_Cadherin-like
PCDH17	27253	genome.wustl.edu	37	13	58208087	58208087	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001040429.2	+1	reviewed	p.P469	0.036	20	0%	43	34.9%	1	0%	-	-	-	HMMSmart_SM00112,PatternScan_CADHERIN_1,superfamily_Cadherin-like
PCDH17	27253	genome.wustl.edu	37	13	58208859	58208859	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001040429.2	+1	reviewed	p.A727T	1.000	60	0%	86	12.8%	0	-	benign(0.108)	deleterious(0.05)	neutral(0.354)	NULL
PCDH17	27253	genome.wustl.edu	37	13	58209198	58209198	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001040429.2	+1	reviewed	p.G840W	1.000	41	0%	54	20.4%	1	0%	possibly_damaging(0.886)	deleterious(0.01)	deleterious(0.752)	NULL
PCDH17	27253	genome.wustl.edu	37	13	58299076	58299076	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001040429.2	+1	reviewed	p.C1043Y	1.000	128	0%	41	34.1%	3	0%	probably_damaging(0.996)	deleterious(0.01)	deleterious(0.867)	NULL
PCDH17	27253	genome.wustl.edu	37	13	58299343	58299343	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001040429.2	+1	reviewed	p.S1132Y	0.992	246	0%	70	20%	1	0%	benign(0.348)	deleterious(0.01)	deleterious(0.516)	NULL
LOC341689	341689	genome.wustl.edu	37	13	59103604	59103604	+	RNA	SNP	A	A	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	XR_017487.3	+1	model	NULL	0.103	209	0%	152	19.1%	0	-	-	-	-	-
DIAPH3	81624	genome.wustl.edu	37	13	60240789	60240789	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001042517.1	-1	validated	p.L1171F	0.384	280	0%	108	14.8%	2	0%	benign(0.017)	deleterious(0.01)	neutral(0.406)	NULL
DIAPH3	81624	genome.wustl.edu	37	13	60348377	60348377	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001042517.1	-1	validated	p.R1089W	1.000	177	0%	40	22.5%	1	0%	probably_damaging(0.997)	deleterious(0)	deleterious(0.911)	NULL
DIAPH3	81624	genome.wustl.edu	37	13	60384960	60384960	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001042517.1	-1	validated	p.R1042H	1.000	734	0.1%	312	23.4%	2	50%	probably_damaging(1)	deleterious(0)	deleterious(0.945)	HMMSmart_SM00498
DIAPH3	81624	genome.wustl.edu	37	13	60453389	60453389	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001042517.1	-1	validated	p.G861R	1.000	266	0%	55	21.8%	1	0%	probably_damaging(1)	deleterious(0)	deleterious(0.945)	HMMSmart_SM00498,HMMPfam_FH2,superfamily_Formin homology 2 domain (FH2 domain)
DIAPH3	81624	genome.wustl.edu	37	13	60557968	60557968	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001042517.1	-1	validated	p.R472I	1.000	326	0%	47	14.9%	0	-	probably_damaging(0.996)	deleterious(0.01)	deleterious(0.867)	HMMPfam_Drf_FH3
DIAPH3	81624	genome.wustl.edu	37	13	60686252	60686252	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001042517.1	-1	validated	p.K94N	0.098	440	0%	130	16.2%	0	-	benign(0.257)	deleterious(0.04)	neutral(0.376)	NULL
PCDH20	64881	genome.wustl.edu	37	13	61985584	61985584	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_022843.3	-1	validated	p.S883Y	0.059	258	0%	302	25.8%	2	0%	benign(0.06)	tolerated(0.41)	neutral(0.019)	NULL
PCDH20	64881	genome.wustl.edu	37	13	61986532	61986532	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_022843.3	-1	validated	p.R567K	1.000	196	0%	248	24.2%	1	0%	benign(0.011)	tolerated(0.07)	neutral(0.320)	HMMPfam_Cadherin,HMMSmart_CA,superfamily_Cadherin
PCDH20	64881	genome.wustl.edu	37	13	61987849	61987849	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_022843.3	-1	validated	p.G128D	0.962	31	0%	49	40.8%	0	-	possibly_damaging(0.822)	tolerated(0.63)	neutral(0.315)	HMMPfam_Cadherin_2
PCDH9	5101	genome.wustl.edu	37	13	67799827	67799827	+	Nonsense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_203487.2	-1	reviewed	p.G916*	1.000	143	0%	179	24.6%	0	-	-	-	-	HMMPfam_Protocadherin
PCDH9	5101	genome.wustl.edu	37	13	67800541	67800541	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_203487.2	-1	reviewed	p.P678S	1.000	153	0%	222	20.7%	1	0%	probably_damaging(1)	deleterious(0.02)	deleterious(0.883)	superfamily_Cadherin-like
PCDH9	5101	genome.wustl.edu	37	13	67801307	67801307	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_203487.2	-1	reviewed	p.E422D	1.000	238	0.4%	277	27.4%	0	-	probably_damaging(1)	deleterious(0.04)	deleterious(0.849)	HMMPfam_Cadherin,HMMSmart_SM00112,superfamily_Cadherin-like
PIBF1	10464	genome.wustl.edu	37	13	73573026	73573026	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_006346.2	+1	validated	p.L706F	0.051	281	0%	108	23.1%	22	27.2%	benign(0)	tolerated(0.11)	neutral(0.272)	NULL
TBC1D4	9882	genome.wustl.edu	37	13	75876452	75876452	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_014832.2	-1	validated	p.Q946H	0.971	419	0%	90	22.2%	0	-	benign(0.033)	tolerated(0.13)	neutral(0.254)	HMMPfam_TBC,HMMSmart_SM00164,superfamily_Ypt/Rab-GAP domain of gyp1p
TBC1D4	9882	genome.wustl.edu	37	13	75894166	75894166	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_014832.2	-1	validated	p.T736A	1.000	227	0%	91	27.5%	0	-	benign(0.069)	tolerated(0.33)	neutral(0.029)	NULL
TBC1D4	9882	genome.wustl.edu	37	13	75923322	75923322	+	Silent	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_014832.2	-1	validated	p.L464	1.000	58	0%	21	19%	2	0%	-	-	-	NULL
TBC1D4	9882	genome.wustl.edu	37	13	75930372	75930372	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_014832.2	-1	validated	p.D396N	1.000	134	0%	94	10.6%	1	0%	probably_damaging(1)	deleterious(0)	deleterious(0.945)	HMMPfam_PID,HMMSmart_SM00462,superfamily_PH domain-like
LMO7	4008	genome.wustl.edu	37	13	76378491	76378491	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_015842.2	+1	reviewed	p.S10L	1.000	282	0.4%	84	17.9%	0	-	probably_damaging(0.998)	deleterious(0.01)	deleterious(0.880)	NULL
LMO7	4008	genome.wustl.edu	37	13	76381828	76381828	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_015842.2	+1	reviewed	p.A237V	1.000	159	0%	38	21.1%	0	-	possibly_damaging(0.951)	deleterious(0)	deleterious(0.839)	NULL
LMO7	4008	genome.wustl.edu	37	13	76407283	76407283	+	Missense_Mutation	SNP	G	G	A	rs139666814	by1000genomes	TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_015842.2	+1	reviewed	p.V783I	1.000	445	0.2%	95	23.2%	0	-	possibly_damaging(0.866)	deleterious(0)	deleterious(0.780)	HMMPfam_PDZ,HMMSmart_SM00228,superfamily_PDZ domain-like
LMO7	4008	genome.wustl.edu	37	13	76423417	76423417	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_015842.2	+1	reviewed	p.G1218	0.179	171	0%	68	32.4%	3	33.3%	-	-	-	NULL
MYCBP2	23077	genome.wustl.edu	37	13	77661714	77661714	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_015057.4	-1	validated	p.L3556M	1.000	624	0%	142	47.9%	0	-	possibly_damaging(0.858)	tolerated(0.69)	neutral(0.333)	NULL
MYCBP2	23077	genome.wustl.edu	37	13	77673050	77673050	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_015057.4	-1	validated	p.R2709C	0.998	193	0.5%	42	28.6%	0	-	possibly_damaging(0.544)	deleterious(0.02)	deleterious(0.568)	NULL
MYCBP2	23077	genome.wustl.edu	37	13	77750698	77750698	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_015057.4	-1	validated	p.T1764	0.969	282	0%	157	14.6%	0	-	-	-	-	HMMPfam_PHR
MYCBP2	23077	genome.wustl.edu	37	13	77754340	77754340	+	Silent	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_015057.4	-1	validated	p.S1647	1.000	236	0%	80	23.7%	1	0%	-	-	-	NULL
MYCBP2	23077	genome.wustl.edu	37	13	77785375	77785375	+	Missense_Mutation	SNP	A	A	C	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_015057.4	-1	validated	p.F1077V	1.000	257	0%	63	33.3%	1	0%	probably_damaging(0.978)	tolerated(0.32)	neutral(0.445)	NULL
MYCBP2	23077	genome.wustl.edu	37	13	77834697	77834697	+	Missense_Mutation	SNP	T	T	G	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_015057.4	-1	validated	p.K590T	1.000	387	0%	96	12.5%	0	-	possibly_damaging(0.891)	deleterious(0.02)	deleterious(0.734)	superfamily_RCC1/BLIP-II
SCEL	8796	genome.wustl.edu	37	13	78130039	78130039	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_144777.2	+1	validated	p.S10Y	0.953	373	0%	112	19.6%	0	-	probably_damaging(0.996)	deleterious(0)	deleterious(0.906)	NULL
SCEL	8796	genome.wustl.edu	37	13	78176239	78176239	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_144777.2	+1	validated	p.R319S	0.004	275	0%	54	24.1%	0	-	benign(0.041)	deleterious(0)	neutral(0.447)	NULL
SCEL	8796	genome.wustl.edu	37	13	78187070	78187070	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_144777.2	+1	validated	p.N461S	0.997	179	0%	28	21.4%	1	100%	benign(0.026)	tolerated(0.19)	neutral(0.051)	NULL
SCEL	8796	genome.wustl.edu	37	13	78191996	78191996	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_144777.2	+1	validated	p.S524G	1.000	447	0%	109	19.3%	0	-	probably_damaging(0.995)	tolerated(0.32)	deleterious(0.482)	NULL
SLAIN1	122060	genome.wustl.edu	37	13	78337284	78337284	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001040153.2	+1	validated	p.L327I	1.000	657	0%	238	26.1%	5	60%	probably_damaging(0.999)	deleterious(0)	deleterious(0.935)	NULL
RNF219	79596	genome.wustl.edu	37	13	79190667	79190667	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_024546.3	-1	validated	p.V410A	0.028	202	0%	147	15%	1	0%	benign(0.073)	tolerated(0.5)	neutral(0.015)	NULL
RNF219	79596	genome.wustl.edu	37	13	79191196	79191196	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_024546.3	-1	validated	p.N234D	1.000	276	0.4%	174	14.4%	1	0%	benign(0.21)	tolerated(0.08)	neutral(0.321)	NULL
RBM26	64062	genome.wustl.edu	37	13	79945144	79945144	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_022118.3	-1	validated	p.E190D	1.000	499	0%	187	22.5%	1	100%	unknown(0)	tolerated(0.61)	-	HMMPfam_DUF1777
SPRY2	10253	genome.wustl.edu	37	13	80911693	80911693	+	Nonsense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_005842.2	-1	reviewed	p.R50*	1.000	116	0%	156	15.4%	12	8.3%	-	-	-	NULL
SLITRK1	114798	genome.wustl.edu	37	13	84453637	84453637	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_052910.1	-1	reviewed	p.D669G	1.000	93	0%	56	10.7%	0	-	benign(0.001)	tolerated(0.11)	neutral(0.272)	NULL
SLITRK1	114798	genome.wustl.edu	37	13	84454671	84454671	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_052910.1	-1	reviewed	p.A324	0.521	212	0%	120	13.3%	0	-	-	-	-	NULL
SLITRK6	84189	genome.wustl.edu	37	13	86368300	86368300	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_032229.2	-1	validated	p.L782F	1.000	437	0%	121	17.4%	0	-	benign(0.096)	tolerated(0.3)	neutral(0.036)	NULL
LOC100289603	100289603	genome.wustl.edu	37	13	88327767	88327767	+	Nonsense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	XM_002344078.1	-1	model	p.R11*	1.000	254	0%	407	11.1%	0	-	benign(0.148)	tolerated(0.27)	neutral(0.046)	NULL
SLITRK5	26050	genome.wustl.edu	37	13	88329562	88329562	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_015567.1	+1	validated	p.A640V	0.074	104	1%	185	31.4%	0	-	benign(0.001)	tolerated(0.1)	neutral(0.286)	NULL
GPC5	2262	genome.wustl.edu	37	13	92345835	92345835	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_004466.4	+1	reviewed	p.D240	1.000	80	0%	25	20%	0	-	-	-	-	HMMPfam_Glypican
GPC5	2262	genome.wustl.edu	37	13	92345909	92345909	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_004466.4	+1	reviewed	p.A265V	0.251	83	0%	24	33.3%	0	-	benign(0.003)	tolerated(1)	-	HMMPfam_Glypican,PatternScan_GLYPICAN
GPC5	2262	genome.wustl.edu	37	13	93518675	93518675	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_004466.4	+1	reviewed	p.L568F	0.049	442	0%	91	11%	0	-	possibly_damaging(0.45)	deleterious(0)	deleterious(0.592)	HMMPfam_Glypican
GPC6	10082	genome.wustl.edu	37	13	94938721	94938721	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_005708.3	+1	reviewed	p.Q332H	0.995	171	0%	37	16.2%	0	-	benign(0.005)	tolerated(0.11)	neutral(0.272)	HMMPfam_Glypican
GPC6	10082	genome.wustl.edu	37	13	95034787	95034787	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_005708.3	+1	reviewed	p.N424	0.431	162	0%	78	23.1%	0	-	-	-	-	HMMPfam_Glypican
TGDS	23483	genome.wustl.edu	37	13	95243134	95243134	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_014305.2	-1	validated	p.L96	0.841	317	0%	274	20.4%	2	0%	-	-	-	HMMPfam_Epimerase,superfamily_NAD(P)-binding Rossmann-fold domains
ABCC4	10257	genome.wustl.edu	37	13	95735487	95735487	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_005845.3	-1	reviewed	p.A865T	0.001	182	0%	67	13.4%	0	-	benign(0.001)	deleterious(0)	neutral(0.445)	HMMPfam_ABC_membrane,superfamily_Multidrug resistance ABC transporter MsbA N-terminal domain
CLDN10	9071	genome.wustl.edu	37	13	96212393	96212393	+	Missense_Mutation	SNP	A	A	G	rs34449921	byCluster;byFrequency;by1000genomes	TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_006984.4	+1	reviewed	p.I76M	1.000	264	0%	216	26.9%	9	22.2%	probably_damaging(0.999)	deleterious(0)	deleterious(0.935)	HMMPfam_PMP22_Claudin
CLDN10	9071	genome.wustl.edu	37	13	96230227	96230227	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_006984.4	+1	reviewed	p.T216A	0.998	318	0%	87	16.1%	32	18.7%	benign(0.002)	tolerated(0.13)	neutral(0.253)	NULL
DNAJC3	5611	genome.wustl.edu	37	13	96412462	96412462	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_006260.3	+1	reviewed	p.E239K	1.000	192	0%	38	10.5%	3	33.3%	possibly_damaging(0.805)	tolerated(0.14)	deleterious(0.552)	HMMPfam_TPR_1,HMMSmart_SM00028,superfamily_TPR-like
DNAJC3	5611	genome.wustl.edu	37	13	96416198	96416198	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_006260.3	+1	reviewed	p.Y356H	1.000	431	0%	89	28.1%	1	0%	probably_damaging(1)	deleterious(0)	deleterious(0.945)	HMMPfam_TPR_1,HMMSmart_SM00028,superfamily_TPR-like
UGGT2	55757	genome.wustl.edu	37	13	96511855	96511855	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_020121.3	-1	validated	p.P1272L	1.000	297	0%	83	12%	6	0%	probably_damaging(1)	deleterious(0)	deleterious(0.945)	superfamily_Nucleotide-diphospho-sugar transferases
HS6ST3	266722	genome.wustl.edu	37	13	97484830	97484830	+	Missense_Mutation	SNP	A	A	C	rs9516771	byCluster;byFrequency;by1000genomes	TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_153456.2	+1	validated	p.K265T	1.000	145	0%	53	26.4%	0	-	probably_damaging(0.994)	tolerated(0.05)	deleterious(0.797)	HMMPfam_HS6ST
OXGR1	27199	genome.wustl.edu	37	13	97639967	97639967	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_080818.3	-1	reviewed	p.D16G	0.002	289	0%	242	11.2%	0	-	benign(0.153)	deleterious(0)	neutral(0.458)	superfamily_Family A G protein-coupled receptor-like
MBNL2	10150	genome.wustl.edu	37	13	98043660	98043660	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_207304.1	+1	reviewed	p.Y348C	1.000	369	0.3%	112	13.4%	4	25%	possibly_damaging(0.523)	deleterious(0)	deleterious(0.621)	NULL
IPO5	3843	genome.wustl.edu	37	13	98645415	98645415	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	ENST00000469360	+1	known	p.S285L	0.001	279	0%	199	27.6%	9	22.2%	-	-	-	superfamily_ARM repeat
RNF113B	140432	genome.wustl.edu	37	13	98829332	98829332	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_178861.4	-1	validated	p.G53	0.005	17	5.9%	31	22.6%	0	-	-	-	-	NULL
FARP1	10160	genome.wustl.edu	37	13	99092976	99092976	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_005766.2	+1	reviewed	p.S894	0.163	23	0%	40	22.5%	48	20.8%	-	-	-	NULL
STK24	8428	genome.wustl.edu	37	13	99109422	99109422	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_003576.3	-1	validated	p.R432I	1.000	21	0%	43	25.6%	41	0%	probably_damaging(1)	deleterious(0)	deleterious(0.945)	NULL
SLC15A1	6564	genome.wustl.edu	37	13	99337078	99337078	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_005073.3	-1	reviewed	p.A676V	0.919	303	1.3%	101	27.7%	2	0%	benign(0.009)	tolerated(0.28)	neutral(0.032)	superfamily_MFS general substrate transporter
SLC15A1	6564	genome.wustl.edu	37	13	99362008	99362008	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_005073.3	-1	reviewed	p.P322	0.046	323	0%	147	12.2%	0	-	-	-	-	HMMPfam_PTR2,superfamily_MFS general substrate transporter
SLC15A1	6564	genome.wustl.edu	37	13	99364802	99364802	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_005073.3	-1	reviewed	p.A254T	0.000	264	0%	79	26.6%	0	-	benign(0)	tolerated(0.65)	neutral(0.003)	HMMPfam_PTR2,superfamily_MFS general substrate transporter
SLC15A1	6564	genome.wustl.edu	37	13	99373829	99373829	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_005073.3	-1	reviewed	p.R159I	1.000	245	0%	99	13.1%	0	-	benign(0.419)	tolerated(0.51)	neutral(0.145)	HMMPfam_PTR2,superfamily_MFS general substrate transporter
SLC15A1	6564	genome.wustl.edu	37	13	99378400	99378400	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_005073.3	-1	reviewed	p.A74	0.002	163	0%	83	15.7%	0	-	-	-	-	superfamily_MFS general substrate transporter,PatternScan_PTR2_1
GPR18	2841	genome.wustl.edu	37	13	99907531	99907531	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001098200.1	-1	validated	p.P199H	1.000	324	0%	192	24%	3	0%	probably_damaging(1)	deleterious(0)	deleterious(0.945)	HMMPfam_7tm_1,superfamily_SSF81321
GPR183	1880	genome.wustl.edu	37	13	99947410	99947410	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_004951.4	-1	reviewed	p.S330	0.716	333	0%	92	17.4%	16	0%	-	-	-	superfamily_SSF81321
UBAC2	337867	genome.wustl.edu	37	13	100020080	100020080	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001144072.1	+1	validated	p.R283C	1.000	264	0%	144	30.6%	13	0%	probably_damaging(1)	deleterious(0.02)	deleterious(0.883)	NULL
TM9SF2	9375	genome.wustl.edu	37	13	100181741	100181741	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_004800.1	+1	provisional	p.E118D	0.926	241	0%	96	28.1%	1	0%	possibly_damaging(0.528)	tolerated(0.3)	neutral(0.206)	HMMPfam_EMP70
CLYBL	171425	genome.wustl.edu	37	13	100425220	100425220	+	Missense_Mutation	SNP	T	T	G	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	ENST00000339105	+1	known	p.C69G	1.000	206	0%	97	26.8%	0	-	benign(0.302)	tolerated(0.1)	neutral(0.380)	HMMPfam_HpcH_HpaI,superfamily_Phosphoenolpyruvate/pyruvate domain
ZIC5	85416	genome.wustl.edu	37	13	100617913	100617913	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_033132.3	-1	validated	p.K570	1.000	347	0%	494	25.9%	0	-	-	-	-	HMMPfam_zf-C2H2,PatternScan_ZINC_FINGER_C2H2_1,HMMSmart_SM00355,superfamily_C2H2 and C2HC zinc fingers
PCCA	5095	genome.wustl.edu	37	13	100914988	100914988	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_000282.3	+1	reviewed	p.G241D	1.000	239	0%	108	25%	2	0%	probably_damaging(0.996)	deleterious(0)	deleterious(0.906)	HMMPfam_CPSase_L_D2,superfamily_SSF56059
PCCA	5095	genome.wustl.edu	37	13	100955188	100955188	+	Missense_Mutation	SNP	A	A	C	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_000282.3	+1	reviewed	p.K407T	1.000	493	0%	249	22.9%	5	20%	possibly_damaging(0.803)	deleterious(0)	deleterious(0.747)	HMMPfam_Biotin_carb_C,superfamily_Rudmnt_hyb_motif
TMTC4	84899	genome.wustl.edu	37	13	101266647	101266647	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_032813.2	-1	validated	p.A625V	0.998	294	0%	359	11.4%	11	0%	possibly_damaging(0.932)	tolerated(0.07)	deleterious(0.698)	HMMPfam_TPR_1,HMMSmart_SM00028,superfamily_TPR-like
TMTC4	84899	genome.wustl.edu	37	13	101287374	101287374	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_032813.2	-1	validated	p.F426	0.985	126	0%	74	21.6%	2	0%	-	-	-	NULL
NALCN	259232	genome.wustl.edu	37	13	101736072	101736072	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_052867.2	-1	validated	p.P1191	0.986	194	0%	45	8.9%	0	-	-	-	-	NULL
NALCN	259232	genome.wustl.edu	37	13	101881903	101881903	+	Silent	SNP	T	T	C	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_052867.2	-1	validated	p.S489	1.000	263	0%	78	14.1%	0	-	-	-	-	HMMPfam_Ion_trans,superfamily_Voltage-gated potassium channels
NALCN	259232	genome.wustl.edu	37	13	101944676	101944676	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_052867.2	-1	validated	p.G281C	1.000	95	0%	36	22.2%	0	-	probably_damaging(1)	deleterious(0)	deleterious(0.945)	HMMPfam_Ion_trans,superfamily_Voltage-gated potassium channels
NALCN	259232	genome.wustl.edu	37	13	102047615	102047615	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_052867.2	-1	validated	p.V70	1.000	152	0%	85	18.8%	0	-	-	-	-	superfamily_Voltage-gated potassium channels
ITGBL1	9358	genome.wustl.edu	37	13	102220183	102220183	+	Silent	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_004791.1	+1	provisional	p.I150	1.000	290	0%	101	27.7%	0	-	-	-	-	superfamily_SSF57196
ITGBL1	9358	genome.wustl.edu	37	13	102345016	102345016	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_004791.1	+1	provisional	p.R366H	1.000	250	0%	80	17.5%	0	-	probably_damaging(0.997)	deleterious(0.04)	deleterious(0.815)	superfamily_SSF57196
FGF14	2259	genome.wustl.edu	37	13	102527534	102527534	+	Splice_Site	SNP	A	A	G	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_175929.2	-1	reviewed	e2+2	1.000	288	0%	59	18.6%	0	-	-	-	-	-
LOC643677	643677	genome.wustl.edu	37	13	103381949	103381949	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	XM_002344085.1	-1	model	p.R6881H	1.000	285	0%	55	27.3%	0	-	unknown(0)	deleterious(0)	-	NULL
LOC643677	643677	genome.wustl.edu	37	13	103382439	103382439	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	XM_002344085.1	-1	model	p.S6718P	0.000	172	0%	30	13.3%	0	-	unknown(0)	deleterious(0)	-	NULL
LOC643677	643677	genome.wustl.edu	37	13	103382609	103382609	+	Missense_Mutation	SNP	A	A	C	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	XM_002344085.1	-1	model	p.F6661C	0.000	143	0%	25	20%	0	-	unknown(0)	deleterious(0)	-	NULL
LOC643677	643677	genome.wustl.edu	37	13	103383400	103383400	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	XM_002344085.1	-1	model	p.L6397	0.048	370	0%	85	25.9%	0	-	-	-	-	NULL
LOC643677	643677	genome.wustl.edu	37	13	103384123	103384123	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	XM_002344085.1	-1	model	p.Q6156H	0.005	332	0%	59	33.9%	0	-	unknown(0)	-	-	NULL
LOC643677	643677	genome.wustl.edu	37	13	103385861	103385861	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	XM_002344085.1	-1	model	p.A5577V	0.000	385	0%	59	25.4%	0	-	benign(0.099)	-	-	NULL
LOC643677	643677	genome.wustl.edu	37	13	103387002	103387002	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	XM_002344085.1	-1	model	p.V5197I	0.000	301	0%	75	17.3%	0	-	possibly_damaging(0.539)	tolerated(0.32)	neutral(0.206)	NULL
LOC643677	643677	genome.wustl.edu	37	13	103387547	103387547	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	XM_002344085.1	-1	model	p.S5015L	0.000	238	0%	76	51.3%	0	-	probably_damaging(0.987)	tolerated(0.14)	deleterious(0.686)	NULL
LOC643677	643677	genome.wustl.edu	37	13	103389488	103389488	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	XM_002344085.1	-1	model	p.T4368I	0.000	313	0%	110	27.3%	0	-	-	-	-	NULL
LOC643677	643677	genome.wustl.edu	37	13	103390576	103390576	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	XM_002344085.1	-1	model	p.D4086	0.000	660	0.3%	407	26.5%	0	-	-	-	-	NULL
LOC643677	643677	genome.wustl.edu	37	13	103394325	103394325	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	XM_002344085.1	-1	model	p.L2837F	0.000	314	0%	107	21.5%	0	-	-	-	-	NULL
LOC643677	643677	genome.wustl.edu	37	13	103395182	103395182	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	XM_002344085.1	-1	model	p.E2551G	0.001	236	0%	43	16.3%	0	-	-	-	-	NULL
LOC643677	643677	genome.wustl.edu	37	13	103396909	103396909	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	XM_002344085.1	-1	model	p.H1975	0.000	421	0%	72	20.8%	0	-	-	-	-	NULL
LOC643677	643677	genome.wustl.edu	37	13	103397004	103397004	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	XM_002344085.1	-1	model	p.P1944S	0.000	390	0%	84	15.5%	0	-	-	-	-	NULL
LOC643677	643677	genome.wustl.edu	37	13	103398845	103398845	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	XM_002344085.1	-1	model	p.N1330S	0.000	407	0%	95	20%	0	-	-	-	-	NULL
LOC643677	643677	genome.wustl.edu	37	13	103398942	103398942	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	XM_002344085.1	-1	model	p.T1298A	0.000	307	0%	89	21.3%	0	-	-	-	-	NULL
LOC643677	643677	genome.wustl.edu	37	13	103399274	103399274	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	XM_002344085.1	-1	model	p.S1187Y	0.000	335	0%	87	11.5%	0	-	-	-	-	NULL
LOC643677	643677	genome.wustl.edu	37	13	103401289	103401289	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	XM_002344085.1	-1	model	p.E515D	0.002	164	0%	68	25%	0	-	-	-	-	NULL
TEX30	93081	genome.wustl.edu	37	13	103421677	103421677	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_138779.3	-1	validated	p.A77V	1.000	134	0%	133	23.3%	7	14.2%	possibly_damaging(0.72)	deleterious(0.02)	deleterious(0.644)	superfamily_SSF53474
KDELC1	79070	genome.wustl.edu	37	13	103443658	103443658	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_024089.2	-1	reviewed	p.I265	0.018	275	0%	239	23.8%	5	0%	-	-	-	HMMSmart_CAP10,HMMPfam_DUF821
ERCC5	2073	genome.wustl.edu	37	13	103527945	103527945	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_000123.2	+1	reviewed	p.G1085S	0.996	126	0%	39	20.5%	65	30.7%	probably_damaging(0.999)	deleterious(0)	deleterious(0.935)	NULL
SLC10A2	6555	genome.wustl.edu	37	13	103704996	103704996	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_000452.2	-1	reviewed	p.P187S	1.000	680	0%	234	12.8%	0	-	probably_damaging(1)	tolerated(0.11)	deleterious(0.772)	HMMPfam_SBF
LIG4	3981	genome.wustl.edu	37	13	108863335	108863335	+	Missense_Mutation	SNP	A	A	C	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001098268.1	-1	reviewed	p.I94M	0.585	376	0%	462	27.3%	1	0%	probably_damaging(0.997)	deleterious(0.01)	deleterious(0.872)	HMMPfam_DNA_ligase_A_N
ABHD13	84945	genome.wustl.edu	37	13	108882199	108882199	+	Silent	SNP	A	A	G	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_032859.2	+1	validated	p.S211	0.991	275	0%	143	11.9%	11	9%	-	-	-	HMMPfam_Abhydrolase_1,superfamily_alpha/beta-Hydrolases
MYO16	23026	genome.wustl.edu	37	13	109617184	109617184	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_015011.1	+1	validated	p.S746I	1.000	575	0%	196	19.9%	0	-	probably_damaging(0.956)	deleterious(0)	deleterious(0.844)	HMMPfam_Myosin_head,HMMSmart_SM00242,superfamily_P-loop containing nucleoside triphosphate hydrolases
COL4A1	1282	genome.wustl.edu	37	13	110827575	110827575	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001845.4	-1	reviewed	p.R1063Q	0.993	161	0%	87	16.1%	91	5.4%	benign(0.125)	tolerated(0.73)	neutral(0.012)	HMMPfam_Collagen
COL4A2	1284	genome.wustl.edu	37	13	111164367	111164367	+	Silent	SNP	C	C	T	rs148666408	by1000genomes	TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001846.2	+1	reviewed	p.I1656	1.000	21	4.8%	30	23.3%	448	3.1%	-	-	-	HMMPfam_C4,HMMSmart_C4,superfamily_C-type_lectin_fold
CARKD	55739	genome.wustl.edu	37	13	111274594	111274594	+	Silent	SNP	A	A	G	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_018210.2	+1	validated	p.A44	0.001	347	0%	500	14%	8	0%	-	-	-	NULL
CARKD	55739	genome.wustl.edu	37	13	111287814	111287814	+	Splice_Site	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_018210.2	+1	validated	e8-1	1.000	43	0%	88	23.9%	1	100%	-	-	-	-
ING1	3621	genome.wustl.edu	37	13	111372025	111372025	+	Nonsense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_005537.3	+1	reviewed	p.R339*	0.949	51	0%	86	30.2%	61	24.5%	-	-	-	NULL
ARHGEF7	8874	genome.wustl.edu	37	13	111885599	111885599	+	Nonsense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001113511.1	+1	reviewed	p.G261*	1.000	293	0%	151	29.1%	2	0%	-	-	-	superfamily_DBL homology domain (DH-domain),superfamily_SH3-domain
ARHGEF7	8874	genome.wustl.edu	37	13	111940763	111940763	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001113511.1	+1	reviewed	p.A724T	1.000	279	0%	350	24.6%	13	7.6%	possibly_damaging(0.705)	tolerated(0.19)	neutral(0.303)	NULL
SPACA7	122258	genome.wustl.edu	37	13	113030712	113030712	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_145248.3	+1	provisional	p.Q5K	0.000	136	0%	40	17.5%	0	-	benign(0.164)	tolerated(0.31)	neutral(0.042)	NULL
TUBGCP3	10426	genome.wustl.edu	37	13	113143917	113143917	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_006322.4	-1	provisional	p.R848Q	1.000	458	0%	774	12.8%	8	0%	possibly_damaging(0.829)	tolerated(0.1)	deleterious(0.601)	NULL
MCF2L	23263	genome.wustl.edu	37	13	113699631	113699631	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001112732.1	+1	validated	p.R166W	0.999	54	0%	84	32.1%	0	-	probably_damaging(0.982)	deleterious(0.02)	deleterious(0.809)	HMMSmart_SM00516
MCF2L	23263	genome.wustl.edu	37	13	113740521	113740521	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	ENST00000397017	+1	known	p.R438C	0.081	38	0%	94	29.8%	6	66.6%	-	-	-	HMMPfam_RhoGEF,HMMSmart_SM00325,superfamily_DBL homology domain (DH-domain)
F10	2159	genome.wustl.edu	37	13	113793762	113793762	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_000504.3	+1	reviewed	p.F116	0.002	301	0%	386	21.8%	4	0%	-	-	-	HMMSmart_SM00179,HMMPfam_EGF,HMMSmart_SM00181,PatternScan_EGF_1,PatternScan_EGF_2
F10	2159	genome.wustl.edu	37	13	113801764	113801764	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_000504.3	+1	reviewed	p.T273	0.000	134	0%	203	29.6%	7	0%	-	-	-	HMMPfam_Trypsin,HMMSmart_SM00020,superfamily_Trypsin-like serine proteases,PatternScan_TRYPSIN_HIS
PROZ	8858	genome.wustl.edu	37	13	113818924	113818924	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_003891.1	+1	provisional	p.R157	0.122	45	0%	58	32.8%	0	-	-	-	-	HMMSmart_SM00179,HMMPfam_EGF,HMMSmart_SM00181,PatternScan_EGF_2,superfamily_EGF/Laminin
PROZ	8858	genome.wustl.edu	37	13	113819408	113819408	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_003891.1	+1	provisional	p.P183T	0.000	87	0%	103	14.6%	0	-	benign(0)	tolerated(0.56)	neutral(0.006)	HMMSmart_SM00020,superfamily_Trypsin-like serine proteases,superfamily_EGF/Laminin
PCID2	55795	genome.wustl.edu	37	13	113845204	113845204	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001127202.1	-1	validated	p.R150Q	1.000	404	0%	218	12.4%	19	0%	probably_damaging(0.995)	tolerated(0.06)	deleterious(0.780)	HMMSmart_SM00753
CUL4A	8451	genome.wustl.edu	37	13	113893854	113893854	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001008895.1	+1	validated	p.E342K	1.000	35	0%	33	18.2%	3	0%	benign(0)	tolerated(0.35)	neutral(0.021)	HMMPfam_Cullin,superfamily_Cullin repeat
LAMP1	3916	genome.wustl.edu	37	13	113965027	113965027	+	Missense_Mutation	SNP	T	T	G	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_005561.3	+1	reviewed	p.I136S	0.000	115	0%	130	23.1%	92	4.3%	benign(0.012)	deleterious(0.03)	neutral(0.365)	HMMPfam_Lamp
LAMP1	3916	genome.wustl.edu	37	13	113974779	113974779	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_005561.3	+1	reviewed	p.F290	0.917	54	0%	87	17.2%	117	7.6%	-	-	-	HMMPfam_Lamp
ADPRHL1	113622	genome.wustl.edu	37	13	114083321	114083321	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_138430.3	-1	validated	p.R198W	0.986	37	0%	65	26.2%	0	-	possibly_damaging(0.929)	deleterious(0)	deleterious(0.821)	HMMPfam_ADP_ribosyl_GH,superfamily_ADP-ribosylglycohydrolase
ADPRHL1	113622	genome.wustl.edu	37	13	114107711	114107711	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_138430.3	-1	validated	p.G14	0.012	74	0%	102	10.8%	0	-	-	-	-	HMMPfam_ADP_ribosyl_GH,superfamily_ADP-ribosylglycohydrolase
DCUN1D2	55208	genome.wustl.edu	37	13	114128539	114128539	+	Silent	SNP	A	A	G	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	ENST00000438545	-1	known	p.F198S	0.983	229	0%	175	11.4%	3	66.6%	-	-	-	HMMPfam_DUF298
TMCO3	55002	genome.wustl.edu	37	13	114164579	114164579	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_017905.4	+1	validated	p.P355	0.106	318	0%	349	22.1%	13	0%	-	-	-	HMMPfam_Na_H_Exchanger
TFDP1	7027	genome.wustl.edu	37	13	114240162	114240162	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_007111.4	+1	reviewed	p.D4Y	1.000	326	0%	485	24.3%	15	26.6%	benign(0)	tolerated(0.25)	neutral(0.037)	NULL
GRK1	6011	genome.wustl.edu	37	13	114322262	114322262	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	ENST00000335678	+1	known	p.E187D	0.992	54	0%	103	35%	0	-	benign(0)	tolerated(0.52)	neutral(0.009)	superfamily_Kinase_like
GRK1	6011	genome.wustl.edu	37	13	114434282	114434282	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	ENST00000335678	+1	known	p.A387V	1.000	60	0%	103	21.4%	0	-	probably_damaging(1)	deleterious(0.05)	deleterious(0.845)	HMMSmart_S_TKc,superfamily_Kinase_like,HMMPfam_Pkinase
GAS6	2621	genome.wustl.edu	37	13	114523884	114523884	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_000820.2	-1	reviewed	p.D664N	1.000	13	0%	31	25.8%	134	10.4%	probably_damaging(1)	deleterious(0)	deleterious(0.945)	superfamily_ConA_like_lec_gl
RASA3	22821	genome.wustl.edu	37	13	114782719	114782719	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_007368.2	-1	reviewed	p.I400	0.167	42	0%	80	13.8%	3	0%	-	-	-	HMMPfam_RasGAP,HMMSmart_RasGAP,superfamily_Rho_GAP
RASA3	22821	genome.wustl.edu	37	13	114793314	114793314	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	ENST00000389544	-1	known	p.A180V	0.000	97	1%	139	18%	0	-	-	-	-	HMMPfam_C2,HMMSmart_C2,superfamily_C2_CaLB
CHAMP1	283489	genome.wustl.edu	37	13	115091192	115091192	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_032436.2	+1	validated	p.E625D	1.000	118	0%	97	11.3%	3	0%	benign(0)	tolerated(0.33)	neutral(0.024)	NULL
LOC100132257	100132257	genome.wustl.edu	37	14	19114505	19114505	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	XM_002343306.1	+1	model	p.R38I	1.000	239	0%	227	12.8%	0	-	-	-	-	HMMPfam_Ank,HMMSmart_ANK,superfamily_ANK
OR11H12	440153	genome.wustl.edu	37	14	19377766	19377766	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001013354.1	+1	provisional	p.G58E	0.006	177	0%	56	21.4%	0	-	possibly_damaging(0.832)	tolerated(0.05)	deleterious(0.662)	HMMPfam_7tm_1,superfamily_SSF81321
POTEG	404785	genome.wustl.edu	37	14	19553592	19553592	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001005356.2	+1	validated	p.S59N	0.019	405	0%	615	10.4%	0	-	probably_damaging(0.991)	deleterious(0)	deleterious(0.889)	NULL
OR4Q3	441669	genome.wustl.edu	37	14	20215980	20215980	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_172194.1	+1	provisional	p.R132C	0.999	319	0%	79	11.4%	0	-	possibly_damaging(0.952)	deleterious(0)	deleterious(0.840)	HMMPfam_7tm_1,superfamily_SSF81321
OR4Q3	441669	genome.wustl.edu	37	14	20216132	20216132	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_172194.1	+1	provisional	p.V182	0.994	378	0%	81	32.1%	0	-	-	-	-	HMMPfam_7tm_1,superfamily_SSF81321
OR4Q3	441669	genome.wustl.edu	37	14	20216245	20216245	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_172194.1	+1	provisional	p.A220D	0.000	436	0%	81	22.2%	0	-	possibly_damaging(0.806)	deleterious(0.01)	deleterious(0.709)	HMMPfam_7tm_1,superfamily_SSF81321
OR4K14	122740	genome.wustl.edu	37	14	20483106	20483106	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001004712.1	-1	provisional	p.I83V	0.997	236	0%	201	15.9%	0	-	benign(0.003)	tolerated(0.06)	neutral(0.323)	HMMPfam_7tm_1,superfamily_SSF81321
OR4L1	122742	genome.wustl.edu	37	14	20528823	20528823	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001004717.1	+1	provisional	p.S207Y	0.004	593	0%	138	19.6%	0	-	probably_damaging(1)	deleterious(0)	deleterious(0.945)	HMMPfam_7tm_1,superfamily_SSF81321
OR4K17	390436	genome.wustl.edu	37	14	20586441	20586441	+	Silent	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001004715.1	+1	provisional	p.P292	0.001	308	0%	90	11.1%	0	-	-	-	-	HMMPfam_7tm_1,superfamily_Family A G protein-coupled receptor-like
OR11G2	390439	genome.wustl.edu	37	14	20666052	20666052	+	Nonsense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001005503.1	+1	provisional	p.C186*	1.000	272	0%	189	22.8%	0	-	-	-	-	HMMPfam_7tm_1,superfamily_SSF81321
TEP1	7011	genome.wustl.edu	37	14	20874523	20874523	+	Nonsense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_007110.4	-1	reviewed	p.E202*	0.128	240	0%	177	22.6%	0	-	-	-	-	NULL
KLHL33	123103	genome.wustl.edu	37	14	20897186	20897186	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001109997.2	-1	validated	p.H395R	1.000	120	0%	145	23.4%	0	-	benign(0.296)	tolerated(0.52)	neutral(0.100)	HMMPfam_Kelch_1,HMMSmart_Kelch,superfamily_Gal_oxid_central
KLHL33	123103	genome.wustl.edu	37	14	20897356	20897356	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001109997.2	-1	validated	p.G338	0.520	220	0%	274	19.3%	0	-	-	-	-	HMMPfam_Kelch_1,HMMSmart_Kelch,superfamily_Gal_oxid_central
KLHL33	123103	genome.wustl.edu	37	14	20897515	20897515	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001109997.2	-1	validated	p.A285	0.019	178	0%	232	12.5%	0	-	-	-	-	HMMPfam_Kelch_1,HMMSmart_Kelch,superfamily_Gal_oxid_central
OSGEP	55644	genome.wustl.edu	37	14	20915659	20915659	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_017807.2	-1	validated	p.A297V	1.000	211	0%	237	12.2%	67	26.8%	benign(0.014)	tolerated(0.25)	neutral(0.037)	HMMPfam_Peptidase_M22,superfamily_SSF53067
TMEM55B	90809	genome.wustl.edu	37	14	20927423	20927423	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001100814.1	-1	validated	p.R218K	1.000	248	0%	382	26.4%	19	10.5%	probably_damaging(0.968)	tolerated(0.06)	deleterious(0.732)	HMMPfam_Tmemb_55A
TMEM55B	90809	genome.wustl.edu	37	14	20927580	20927580	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001100814.1	-1	validated	p.R196H	1.000	496	0%	705	10.8%	27	3.7%	probably_damaging(1)	deleterious(0.04)	deleterious(0.849)	HMMPfam_Tmemb_55A
TMEM55B	90809	genome.wustl.edu	37	14	20928869	20928869	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001100814.1	-1	validated	p.V100A	1.000	140	0%	275	24.4%	18	11.1%	possibly_damaging(0.942)	deleterious(0)	deleterious(0.832)	HMMPfam_Tmemb_55A
RNASE10	338879	genome.wustl.edu	37	14	20979042	20979042	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001012975.1	+1	provisional	p.Y138H	0.174	128	0%	147	31.3%	3	0%	benign(0.019)	tolerated(0.15)	neutral(0.242)	HMMPfam_RnaseA,HMMSmart_SM00092,superfamily_RNase A-like
RNASE9	390443	genome.wustl.edu	37	14	21024739	21024739	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001001673.3	-1	provisional	p.V164I	0.000	286	0%	59	20.3%	0	-	probably_damaging(0.99)	tolerated(0.24)	deleterious(0.479)	superfamily_RNase A-like
OR6S1	341799	genome.wustl.edu	37	14	21109523	21109523	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001001968.1	-1	provisional	p.G110R	0.771	133	0%	63	41.3%	0	-	probably_damaging(1)	deleterious(0)	deleterious(0.945)	HMMPfam_7tm_1,superfamily_SSF81321
TPPP2	122664	genome.wustl.edu	37	14	21499185	21499185	+	Missense_Mutation	SNP	G	G	A	rs185684452	by1000genomes	TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_173846.4	+1	validated	p.R63Q	0.917	103	0%	126	24.6%	0	-	possibly_damaging(0.856)	tolerated(0.09)	deleterious(0.627)	HMMPfam_p25-alpha
RNASE13	440163	genome.wustl.edu	37	14	21502273	21502273	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001012264.3	-1	validated	p.M59V	0.875	247	0%	159	21.4%	0	-	benign(0)	tolerated(1)	-	superfamily_RNaseA
OR5AU1	390445	genome.wustl.edu	37	14	21623525	21623525	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001004731.1	-1	provisional	p.C220	1.000	117	0.9%	60	28.3%	0	-	-	-	-	HMMPfam_7tm_1,superfamily_SSF81321
RPGRIP1	57096	genome.wustl.edu	37	14	21780610	21780610	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_020366.3	+1	reviewed	p.D366Y	1.000	282	0%	181	21.5%	0	-	probably_damaging(1)	deleterious(0)	deleterious(0.945)	NULL
RPGRIP1	57096	genome.wustl.edu	37	14	21795810	21795810	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_020366.3	+1	reviewed	p.E913D	0.672	210	0%	64	32.8%	0	-	benign(0.117)	tolerated(0.31)	neutral(0.036)	superfamily_C2 domain (Calcium/lipid-binding domain CaLB)
RPGRIP1	57096	genome.wustl.edu	37	14	21816377	21816377	+	Nonsense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_020366.3	+1	reviewed	p.E1222*	0.917	470	0%	155	18.7%	1	100%	-	-	-	NULL
CHD8	57680	genome.wustl.edu	37	14	21853866	21853866	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_020920.3	-1	reviewed	p.S2272Y	1.000	199	0%	126	37.3%	50	30%	unknown(0)	deleterious(0)	-	NULL
SALL2	6297	genome.wustl.edu	37	14	21990864	21990864	+	Nonsense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_005407.1	-1	validated	p.R1000*	0.545	135	0%	155	26.5%	7	0%	-	-	-	NULL
SALL2	6297	genome.wustl.edu	37	14	21991415	21991415	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_005407.1	-1	validated	p.A816V	0.000	122	0.8%	166	34.3%	0	-	benign(0)	tolerated(0.39)	neutral(0.016)	NULL
SALL2	6297	genome.wustl.edu	37	14	21991975	21991975	+	Silent	SNP	T	T	C	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_005407.1	-1	validated	p.G629	0.999	41	0%	59	37.3%	3	0%	-	-	-	NULL
ENSG00000252492	0	genome.wustl.edu	37	14	22070012	22070012	+	RNA	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	ENST00000516683	-1	novel	NULL	0.000	41	0%	30	20%	0	-	-	-	-	-
DAD1	1603	genome.wustl.edu	37	14	23044071	23044071	+	Nonsense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001344.2	-1	reviewed	p.R92*	1.000	250	0%	138	27.5%	316	4.7%	-	-	-	HMMPfam_DAD
ABHD4	63874	genome.wustl.edu	37	14	23072385	23072385	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_022060.2	+1	validated	p.R68H	1.000	57	1.8%	60	25%	6	16.6%	probably_damaging(0.976)	deleterious(0.02)	deleterious(0.801)	superfamily_SSF53474
SLC7A7	9056	genome.wustl.edu	37	14	23248009	23248009	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001126105.1	-1	reviewed	p.P255S	1.000	182	0%	93	25.8%	4	0%	probably_damaging(1)	deleterious(0)	deleterious(0.945)	HMMPfam_AA_permease
LOC100288791	100288791	genome.wustl.edu	37	14	23315098	23315098	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	XM_002343265.1	-1	model	p.A33T	0.915	60	0%	125	12%	89	1.1%	-	-	-	NULL
LRP10	26020	genome.wustl.edu	37	14	23345472	23345472	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_014045.3	+1	validated	p.R439C	1.000	176	0%	331	25.4%	41	2.4%	probably_damaging(1)	deleterious(0)	deleterious(0.945)	superfamily_LDL receptor-like module
RBM23	55147	genome.wustl.edu	37	14	23371246	23371246	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001077351.1	-1	reviewed	p.A397T	1.000	103	0%	54	27.8%	15	6.6%	probably_damaging(0.973)	tolerated(0.07)	deleterious(0.734)	NULL
PRMT5	10419	genome.wustl.edu	37	14	23397341	23397341	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_006109.3	-1	validated	p.S103	0.027	152	0%	82	26.8%	9	11.1%	-	-	-	NULL
PRMT5	10419	genome.wustl.edu	37	14	23397352	23397352	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_006109.3	-1	validated	p.R100C	0.997	156	0.6%	88	25%	9	11.1%	possibly_damaging(0.722)	deleterious(0)	deleterious(0.707)	NULL
HAUS4	54930	genome.wustl.edu	37	14	23416388	23416388	+	Silent	SNP	A	A	G	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_017815.2	-1	reviewed	p.R300	0.973	192	0%	141	19.9%	58	20.6%	-	-	-	NULL
HAUS4	54930	genome.wustl.edu	37	14	23421762	23421762	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_017815.2	-1	reviewed	p.K62N	0.999	329	0%	312	22.4%	23	13%	benign(0.079)	tolerated(0.12)	neutral(0.266)	NULL
C14orf93	60686	genome.wustl.edu	37	14	23456830	23456830	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001130706.1	-1	validated	p.R404Q	1.000	212	0%	201	20.4%	17	29.4%	probably_damaging(0.994)	deleterious(0)	deleterious(0.897)	NULL
PSMB11	122706	genome.wustl.edu	37	14	23512056	23512056	+	Missense_Mutation	SNP	G	G	A	rs144901834	by1000genomes	TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001099780.1	+1	validated	p.A208T	0.998	40	0%	70	24.3%	0	-	probably_damaging(1)	deleterious(0)	deleterious(0.945)	HMMPfam_Proteasome,superfamily_SSF56235
PABPN1	8106	genome.wustl.edu	37	14	23791428	23791428	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_004643.2	+1	reviewed	p.E130D	1.000	237	0%	380	21.6%	146	20.5%	probably_damaging(0.999)	deleterious(0.04)	deleterious(0.839)	NULL
MYH6	4624	genome.wustl.edu	37	14	23852435	23852435	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_002471.3	-1	validated	p.A1887V	1.000	97	0%	81	29.6%	0	-	benign(0.362)	tolerated(0.06)	neutral(0.438)	HMMPfam_Myosin_tail_1
MYH6	4624	genome.wustl.edu	37	14	23862682	23862682	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_002471.3	-1	validated	p.A992T	0.999	394	0%	470	28.5%	0	-	benign(0)	tolerated(0.17)	neutral(0.059)	NULL
MYH6	4624	genome.wustl.edu	37	14	23871967	23871967	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_002471.3	-1	validated	p.V314A	1.000	69	0%	67	28.4%	0	-	benign(0.005)	tolerated(0.12)	neutral(0.261)	HMMPfam_Myosin_head,HMMSmart_SM00242,superfamily_P-loop containing nucleoside triphosphate hydrolases
MYH6	4624	genome.wustl.edu	37	14	23874884	23874884	+	Silent	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_002471.3	-1	validated	p.P99	0.236	217	0%	216	30.1%	0	-	-	-	-	HMMPfam_Myosin_head,HMMSmart_SM00242,superfamily_P-loop containing nucleoside triphosphate hydrolases
MYH6	4624	genome.wustl.edu	37	14	23876244	23876244	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_002471.3	-1	validated	p.T63	0.047	86	0%	110	21.8%	0	-	-	-	-	HMMPfam_Myosin_N,superfamily_P-loop containing nucleoside triphosphate hydrolases
MYH7	4625	genome.wustl.edu	37	14	23883022	23883022	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_000257.2	-1	reviewed	p.I1912	0.778	163	0%	220	14.5%	0	-	-	-	-	HMMPfam_Myosin_tail_1
MYH7	4625	genome.wustl.edu	37	14	23883284	23883284	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_000257.2	-1	reviewed	p.R1863W	0.999	102	0%	130	12.3%	1	0%	probably_damaging(1)	deleterious(0)	deleterious(0.945)	HMMPfam_Myosin_tail_1
MYH7	4625	genome.wustl.edu	37	14	23885392	23885392	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_000257.2	-1	reviewed	p.R1592W	1.000	308	0%	353	13.9%	0	-	probably_damaging(1)	deleterious(0)	deleterious(0.945)	HMMPfam_Myosin_tail_1
MYH7	4625	genome.wustl.edu	37	14	23889254	23889254	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_000257.2	-1	reviewed	p.R1176W	1.000	107	0%	183	18%	0	-	probably_damaging(1)	deleterious(0)	deleterious(0.945)	HMMPfam_Myosin_tail_1,superfamily_Prefoldin
MYH7	4625	genome.wustl.edu	37	14	23896948	23896948	+	Silent	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_000257.2	-1	reviewed	p.S578	1.000	258	0.4%	231	22.5%	0	-	-	-	-	HMMPfam_Myosin_head,HMMSmart_SM00242,superfamily_P-loop containing nucleoside triphosphate hydrolases
THTPA	79178	genome.wustl.edu	37	14	24026149	24026149	+	Silent	SNP	A	A	G	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001126339.1	+1	validated	p.G61	0.986	103	0%	196	33.7%	7	14.2%	-	-	-	HMMPfam_CYTH
JPH4	84502	genome.wustl.edu	37	14	24040212	24040212	+	Silent	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_032452.2	-1	reviewed	p.S576	0.001	28	0%	48	22.9%	4	0%	-	-	-	NULL
JPH4	84502	genome.wustl.edu	37	14	24040238	24040238	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_032452.2	-1	reviewed	p.A568T	0.000	39	0%	61	27.9%	3	0%	possibly_damaging(0.93)	tolerated(1)	neutral(0.377)	NULL
DHRS4L1	728635	genome.wustl.edu	37	14	24520093	24520093	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001082488.1	+1	provisional	p.I254	0.985	277	1.1%	394	23.4%	0	-	-	-	-	superfamily_NAD(P)-binding Rossmann-fold domains
LRRC16B	90668	genome.wustl.edu	37	14	24524281	24524281	+	Missense_Mutation	SNP	T	T	G	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_138360.3	+1	validated	p.F156C	1.000	265	0%	421	25.9%	0	-	unknown(0)	deleterious(0)	-	NULL
LRRC16B	90668	genome.wustl.edu	37	14	24525592	24525592	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_138360.3	+1	validated	p.I285	1.000	109	0%	154	12.3%	0	-	-	-	-	HMMSmart_SM00368,superfamily_RNI-like
CPNE6	9362	genome.wustl.edu	37	14	24545080	24545080	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_006032.2	+1	reviewed	p.C303	1.000	126	0%	199	11.1%	0	-	-	-	-	superfamily_vWA-like
CPNE6	9362	genome.wustl.edu	37	14	24546117	24546117	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_006032.2	+1	reviewed	p.R399C	0.927	93	0%	150	15.3%	0	-	probably_damaging(0.994)	deleterious(0.02)	deleterious(0.835)	HMMSmart_SM00327,HMMPfam_Copine,superfamily_vWA-like
PCK2	5106	genome.wustl.edu	37	14	24569275	24569275	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_004563.2	+1	reviewed	p.P363S	1.000	98	0%	116	35.3%	8	12.5%	probably_damaging(1)	deleterious(0.01)	deleterious(0.905)	HMMPfam_PEPCK,superfamily_PEP carboxykinase-like
DCAF11	80344	genome.wustl.edu	37	14	24588814	24588814	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_025230.4	+1	reviewed	p.R299C	1.000	289	0%	320	21.9%	17	5.8%	probably_damaging(1)	tolerated(0.11)	deleterious(0.772)	HMMSmart_SM00320,superfamily_WD40 repeat-like,HMMPfam_WD40
LOC100288988	100288988	genome.wustl.edu	37	14	24601741	24601741	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	XM_002343269.1	-1	model	p.E96K	0.982	37	0%	62	24.2%	2	50%	-	-	-	NULL
FAM158A	51016	genome.wustl.edu	37	14	24608347	24608347	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_016049.3	-1	predicted	p.R167W	1.000	91	0%	128	25%	43	18.6%	probably_damaging(1)	deleterious(0.01)	deleterious(0.905)	HMMPfam_UPF0172
RNF31	55072	genome.wustl.edu	37	14	24618719	24618719	+	Nonsense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_017999.4	+1	validated	p.G246*	0.242	94	0%	171	25.7%	6	66.6%	-	-	-	NULL
RNF31	55072	genome.wustl.edu	37	14	24626750	24626750	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_017999.4	+1	validated	p.S877L	0.972	69	0%	60	10%	58	6.8%	possibly_damaging(0.839)	tolerated(0.13)	deleterious(0.573)	HMMSmart_SM00647,superfamily_RING/U-box
REC8	9985	genome.wustl.edu	37	14	24642609	24642609	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001048205.1	+1	reviewed	p.D151N	0.001	104	0%	154	24%	11	27.2%	benign(0.009)	tolerated(0.78)	neutral(0.002)	NULL
REC8	9985	genome.wustl.edu	37	14	24649226	24649226	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001048205.1	+1	reviewed	p.A522	0.000	155	0%	212	25.5%	86	34.8%	-	-	-	HMMPfam_Rad21_Rec8
IPO4	79711	genome.wustl.edu	37	14	24655968	24655968	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_024658.3	-1	validated	p.A262	0.307	185	0%	269	31.2%	4	0%	-	-	-	superfamily_ARM repeat
IPO4	79711	genome.wustl.edu	37	14	24656957	24656957	+	Silent	SNP	A	A	G	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_024658.3	-1	validated	p.F108	0.920	53	0%	104	19.2%	4	50%	-	-	-	superfamily_ARM repeat
GMPR2	51292	genome.wustl.edu	37	14	24706542	24706542	+	Missense_Mutation	SNP	A	A	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_016576.3	+1	validated	p.K231N	0.998	218	0%	283	26.1%	29	17.2%	benign(0)	tolerated(0.2)	neutral(0.049)	HMMPfam_IMPDH,superfamily_Inosine monophosphate dehydrogenase (IMPDH)
TGM1	7051	genome.wustl.edu	37	14	24724234	24724234	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_000359.2	-1	reviewed	p.V624A	1.000	77	0%	64	20.3%	0	-	probably_damaging(0.992)	deleterious(0.01)	deleterious(0.853)	HMMPfam_Transglut_C,superfamily_Transglut_C
TGM1	7051	genome.wustl.edu	37	14	24729694	24729694	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_000359.2	-1	reviewed	p.R240H	0.003	188	0%	220	11.4%	1	0%	benign(0)	tolerated(0.14)	neutral(0.249)	superfamily_Ig_E-set
RIPK3	11035	genome.wustl.edu	37	14	24805599	24805599	+	Nonsense_Mutation	SNP	G	G	A	rs186368014	by1000genomes	TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_006871.3	-1	reviewed	p.R447*	0.018	76	1.3%	148	23%	9	0%	-	-	-	NULL
RIPK3	11035	genome.wustl.edu	37	14	24808525	24808525	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_006871.3	-1	reviewed	p.A56V	0.000	70	0%	129	38.8%	0	-	benign(0.002)	tolerated(0.28)	neutral(0.032)	HMMSmart_SM00219,HMMSmart_SM00220,superfamily_Protein kinase-like (PK-like),HMMPfam_Pkinase
CBLN3	643866	genome.wustl.edu	37	14	24897022	24897022	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001039771.2	-1	validated	p.F197L	1.000	95	0%	151	24.5%	1	0%	probably_damaging(0.999)	deleterious(0)	deleterious(0.935)	HMMPfam_C1q,HMMSmart_C1Q,superfamily_TNF_like
KHNYN	23351	genome.wustl.edu	37	14	24901559	24901559	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_015299.2	+1	validated	p.P364	0.000	46	0%	78	14.1%	4	0%	-	-	-	NULL
GZMB	3002	genome.wustl.edu	37	14	25103356	25103356	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_004131.4	-1	reviewed	p.I4T	0.909	300	0%	86	11.6%	10	0%	unknown(0)	-	-	NULL
NOVA1	4857	genome.wustl.edu	37	14	26917313	26917313	+	Missense_Mutation	SNP	T	T	G	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_002515.2	-1	reviewed	p.K459T	1.000	490	0%	137	17.5%	1	0%	probably_damaging(0.991)	deleterious(0)	deleterious(0.889)	HMMSmart_SM00322,HMMPfam_KH_1,superfamily_Eukaryotic type KH-domain (KH-domain type I)
NOVA1	4857	genome.wustl.edu	37	14	26917550	26917550	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_002515.2	-1	reviewed	p.A380V	1.000	72	1.4%	18	22.2%	2	0%	benign(0.187)	tolerated(0.55)	neutral(0.025)	NULL
NOVA1	4857	genome.wustl.edu	37	14	26917942	26917942	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_002515.2	-1	reviewed	p.S249	1.000	335	0%	92	22.8%	0	-	-	-	-	superfamily_Eukaryotic type KH-domain (KH-domain type I)
NOVA1	4857	genome.wustl.edu	37	14	27064733	27064733	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_002515.2	-1	reviewed	p.L55I	1.000	377	0%	539	26%	2	0%	unknown(0)	deleterious(0)	-	HMMSmart_SM00322,HMMPfam_KH_1,superfamily_Eukaryotic type KH-domain (KH-domain type I)
PRKD1	5587	genome.wustl.edu	37	14	30132955	30132955	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_002742.2	-1	validated	p.R216C	0.997	179	0%	68	20.6%	1	0%	probably_damaging(0.989)	deleterious(0.01)	deleterious(0.845)	NULL
SCFD1	23256	genome.wustl.edu	37	14	31112522	31112522	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_016106.2	+1	validated	p.A175V	1.000	445	0%	112	11.6%	8	0%	probably_damaging(0.969)	deleterious(0.01)	deleterious(0.817)	HMMPfam_Sec1,superfamily_Sec1-like
SCFD1	23256	genome.wustl.edu	37	14	31169431	31169431	+	Silent	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_016106.2	+1	validated	p.I459	1.000	406	0%	180	25%	19	10.5%	-	-	-	HMMPfam_Sec1,superfamily_Sec1-like
STRN3	29966	genome.wustl.edu	37	14	31425424	31425424	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001083893.1	-1	validated	p.E103K	1.000	478	0%	131	13%	2	0%	probably_damaging(0.999)	deleterious(0)	deleterious(0.935)	HMMPfam_Striatin
HEATR5A	25938	genome.wustl.edu	37	14	31814455	31814455	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_015473.2	-1	validated	p.I673V	0.928	323	0%	116	19%	1	0%	benign(0)	tolerated(0.14)	neutral(0.249)	superfamily_ARM repeat
HEATR5A	25938	genome.wustl.edu	37	14	31844039	31844039	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_015473.2	-1	validated	p.R322Q	1.000	117	0%	65	23.1%	0	-	probably_damaging(0.994)	tolerated(0.12)	deleterious(0.713)	superfamily_ARM repeat
ARHGAP5	394	genome.wustl.edu	37	14	32562262	32562262	+	Missense_Mutation	SNP	T	T	G	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001030055.1	+1	reviewed	p.L796R	1.000	190	0%	48	20.8%	0	-	probably_damaging(1)	deleterious(0)	deleterious(0.945)	NULL
ARHGAP5	394	genome.wustl.edu	37	14	32586450	32586450	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001030055.1	+1	reviewed	p.I1274M	1.000	271	0%	176	21%	5	20%	possibly_damaging(0.556)	deleterious(0)	deleterious(0.634)	HMMSmart_SM00324,superfamily_GTPase activation domain GAP
AKAP6	9472	genome.wustl.edu	37	14	33015417	33015417	+	Nonsense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_004274.4	+1	reviewed	p.Q520*	0.013	95	0%	35	40%	0	-	-	-	-	NULL
NPAS3	64067	genome.wustl.edu	37	14	34204495	34204495	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_173159.2	+1	reviewed	p.T257N	1.000	263	0%	67	13.4%	0	-	probably_damaging(0.996)	deleterious(0)	deleterious(0.906)	NULL
NPAS3	64067	genome.wustl.edu	37	14	34269058	34269058	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_173159.2	+1	reviewed	p.D502	0.998	42	0%	58	22.4%	0	-	-	-	-	NULL
CFL2	1073	genome.wustl.edu	37	14	35182657	35182657	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_021914.7	-1	reviewed	p.F38L	1.000	414	0%	644	25.8%	19	0%	benign(0.227)	deleterious(0.04)	neutral(0.371)	HMMPfam_Cofilin_ADF,HMMSmart_SM00102,superfamily_Actin depolymerizing proteins
BAZ1A	11177	genome.wustl.edu	37	14	35245552	35245552	+	Silent	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_013448.2	-1	validated	p.I802	0.994	383	0%	160	9.4%	4	0%	-	-	-	NULL
BAZ1A	11177	genome.wustl.edu	37	14	35252434	35252434	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_013448.2	-1	validated	p.R668C	1.000	589	0.2%	317	14.5%	19	21%	probably_damaging(0.999)	deleterious(0)	deleterious(0.935)	NULL
SRP54	6729	genome.wustl.edu	37	14	35476593	35476593	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_003136.3	+1	validated	p.K120N	1.000	199	0%	122	18%	5	0%	probably_damaging(1)	deleterious(0)	deleterious(0.945)	HMMPfam_SRP54,HMMSmart_SM00382,superfamily_P-loop containing nucleoside triphosphate hydrolases
PPP2R3C	55012	genome.wustl.edu	37	14	35585918	35585918	+	Missense_Mutation	SNP	T	T	G	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_017917.2	-1	provisional	p.K28N	1.000	395	0%	216	12.5%	3	0%	probably_damaging(0.998)	tolerated(0.15)	deleterious(0.716)	NULL
KIAA0391	9692	genome.wustl.edu	37	14	35592960	35592960	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_014672.2	+1	provisional	p.N170S	0.992	266	0%	148	28.4%	3	33.3%	benign(0.058)	tolerated(0.67)	neutral(0.006)	NULL
KIAA0391	9692	genome.wustl.edu	37	14	35593300	35593300	+	Missense_Mutation	SNP	A	A	C	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_014672.2	+1	provisional	p.K283N	0.949	132	0%	67	25.4%	3	66.6%	benign(0.103)	tolerated(0.23)	neutral(0.050)	NULL
KIAA0391	9692	genome.wustl.edu	37	14	35649977	35649977	+	Silent	SNP	T	T	C	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_014672.2	+1	provisional	p.S423	1.000	607	0%	126	18.3%	13	7.6%	-	-	-	NULL
NFKBIA	4792	genome.wustl.edu	37	14	35871789	35871789	+	Silent	SNP	A	A	G	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_020529.2	-1	reviewed	p.C239	1.000	123	0%	228	14.5%	151	5.9%	-	-	-	HMMPfam_Ank,HMMSmart_SM00248,superfamily_Ankyrin repeat
RALGAPA1	253959	genome.wustl.edu	37	14	36154267	36154267	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_194301.2	-1	provisional	p.R882C	1.000	242	0%	67	17.9%	1	0%	probably_damaging(0.999)	deleterious(0)	deleterious(0.935)	NULL
STELLAR	400206	genome.wustl.edu	37	14	36840472	36840472	+	RNA	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	XR_017914.3	+1	model	NULL	0.000	34	0%	26	23.1%	0	-	-	-	-	-
ENSG00000188831	0	genome.wustl.edu	37	14	36840630	36840630	+	Silent	SNP	A	A	C	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	ENST00000340350	+1	known	p.S4	0.496	216	0%	52	26.9%	0	-	-	-	-	NULL
ENSG00000188831	0	genome.wustl.edu	37	14	36840735	36840735	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	ENST00000340350	+1	known	p.K39N	0.196	280	0%	51	15.7%	0	-	-	-	-	NULL
MIPOL1	145282	genome.wustl.edu	37	14	37838794	37838794	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_138731.5	+1	validated	p.L301M	1.000	250	0%	57	19.3%	2	0%	benign(0.068)	tolerated(0.19)	neutral(0.054)	NULL
FOXA1	3169	genome.wustl.edu	37	14	38061485	38061485	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_004496.2	-1	reviewed	p.H168	1.000	77	0%	115	24.3%	0	-	-	-	-	HMMSmart_FH,HMMPfam_Fork_head_N
FOXA1	3169	genome.wustl.edu	37	14	38061558	38061558	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_004496.2	-1	reviewed	p.A144V	1.000	52	0%	82	28%	0	-	benign(0.008)	tolerated(0.18)	neutral(0.056)	HMMPfam_Fork_head_N
SSTR1	6751	genome.wustl.edu	37	14	38679008	38679008	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001049.2	+1	reviewed	p.A138	0.196	72	0%	134	20.9%	0	-	-	-	-	HMMPfam_7tm_1,superfamily_SSF81321
SEC23A	10484	genome.wustl.edu	37	14	39543671	39543671	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_006364.2	-1	reviewed	p.A351T	1.000	231	0%	37	21.6%	4	0%	benign(0.408)	deleterious(0.02)	deleterious(0.515)	HMMPfam_Sec23_trunk,superfamily_SSF53300,superfamily_SSF81995
SEC23A	10484	genome.wustl.edu	37	14	39565270	39565270	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_006364.2	-1	reviewed	p.R18Q	1.000	321	0%	228	14%	3	0%	unknown(0)	-	-	superfamily_SSF81995
PNN	5411	genome.wustl.edu	37	14	39649941	39649941	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_002687.3	+1	validated	p.A343V	0.526	627	0%	513	11.5%	31	19.3%	benign(0.014)	tolerated(0.35)	neutral(0.021)	NULL
MIA2	117153	genome.wustl.edu	37	14	39716747	39716747	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_054024.3	+1	validated	p.E323D	0.004	358	0%	157	24.2%	0	-	benign(0.143)	tolerated(0.11)	neutral(0.284)	NULL
MIA2	117153	genome.wustl.edu	37	14	39721982	39721982	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_054024.3	+1	validated	p.R533K	0.000	184	0%	57	19.3%	0	-	benign(0.178)	deleterious(0)	neutral(0.461)	NULL
LRFN5	145581	genome.wustl.edu	37	14	42355952	42355952	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_152447.3	+1	validated	p.L42F	1.000	226	0%	66	18.2%	0	-	probably_damaging(1)	tolerated(0.05)	deleterious(0.845)	HMMSmart_LRRNT,superfamily_SSF52058
LRFN5	145581	genome.wustl.edu	37	14	42356183	42356183	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_152447.3	+1	validated	p.F119L	1.000	182	0%	92	16.3%	0	-	benign(0.006)	tolerated(0.76)	neutral(0.001)	HMMPfam_LRR_1,HMMSmart_LRR_TYP,superfamily_SSF52058
LRFN5	145581	genome.wustl.edu	37	14	42356423	42356423	+	Missense_Mutation	SNP	C	C	T	rs140770648	by1000genomes	TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_152447.3	+1	validated	p.R199W	1.000	185	0%	60	21.7%	0	-	probably_damaging(1)	deleterious(0.01)	deleterious(0.905)	superfamily_SSF52058
LRFN5	145581	genome.wustl.edu	37	14	42356692	42356692	+	Silent	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_152447.3	+1	validated	p.L288	1.000	427	0%	133	27.1%	0	-	-	-	-	HMMPfam_I-set,superfamily_SSF48726,superfamily_SSF52058
LRFN5	145581	genome.wustl.edu	37	14	42360949	42360949	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_152447.3	+1	validated	p.A628S	1.000	246	0%	107	13.1%	1	0%	benign(0.006)	tolerated(0.23)	neutral(0.042)	NULL
C14orf28	122525	genome.wustl.edu	37	14	45369696	45369696	+	Nonsense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001017923.1	+1	validated	p.R20*	1.000	331	0%	445	13.7%	3	66.6%	-	-	-	NULL
KLHL28	54813	genome.wustl.edu	37	14	45415035	45415035	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_017658.3	-1	validated	p.E33K	1.000	172	0%	52	26.9%	1	0%	probably_damaging(0.999)	tolerated(0.25)	deleterious(0.527)	superfamily_POZ domain,HMMPfam_BTB
FAM179B	23116	genome.wustl.edu	37	14	45535797	45535797	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_015091.2	+1	validated	p.R1473C	1.000	427	0.2%	159	13.2%	3	0%	probably_damaging(1)	deleterious(0)	deleterious(0.945)	superfamily_ARM repeat
PRPF39	55015	genome.wustl.edu	37	14	45583840	45583840	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	ENST00000452548	+1	known	p.S263Y	0.000	435	0%	71	22.5%	2	50%	-	-	-	NULL
FANCM	57697	genome.wustl.edu	37	14	45605439	45605439	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_020937.2	+1	reviewed	p.C69R	0.012	63	0%	96	19.8%	0	-	benign(0)	tolerated(0.66)	neutral(0.003)	NULL
FANCM	57697	genome.wustl.edu	37	14	45642296	45642296	+	Silent	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_020937.2	+1	reviewed	p.L733	0.932	357	0%	85	15.3%	0	-	-	-	-	NULL
FANCM	57697	genome.wustl.edu	37	14	45644693	45644693	+	Silent	SNP	T	T	C	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_020937.2	+1	reviewed	p.I912	0.003	180	0%	44	18.2%	0	-	-	-	-	NULL
FANCM	57697	genome.wustl.edu	37	14	45665416	45665416	+	Silent	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_020937.2	+1	reviewed	p.S1794	0.000	279	0%	102	29.4%	1	100%	-	-	-	NULL
FANCM	57697	genome.wustl.edu	37	14	45665506	45665506	+	Silent	SNP	T	T	G	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_020937.2	+1	reviewed	p.G1824	1.000	256	0%	92	27.2%	1	0%	-	-	-	superfamily_Restriction endonuclease-like
MIS18BP1	55320	genome.wustl.edu	37	14	45687604	45687604	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_018353.4	-1	validated	p.A908V	0.001	278	0%	82	20.7%	9	11.1%	benign(0.001)	tolerated(0.12)	neutral(0.261)	HMMSmart_SM00717,superfamily_Homeodomain-like,HMMPfam_Myb_DNA-binding
MIS18BP1	55320	genome.wustl.edu	37	14	45693305	45693305	+	Missense_Mutation	SNP	A	A	C	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_018353.4	-1	validated	p.Y829D	0.000	561	0%	241	10.8%	2	50%	possibly_damaging(0.646)	deleterious(0.02)	deleterious(0.610)	NULL
MIS18BP1	55320	genome.wustl.edu	37	14	45693323	45693323	+	Nonsense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_018353.4	-1	validated	p.E823*	0.993	636	0%	263	19.4%	2	0%	-	-	-	NULL
RPL10L	140801	genome.wustl.edu	37	14	47120566	47120566	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_080746.2	-1	reviewed	p.T125I	0.848	118	0%	91	20.9%	0	-	probably_damaging(0.997)	tolerated(0.09)	deleterious(0.762)	HMMPfam_Ribosomal_L16,superfamily_Ribosomal_L10e/L16,PatternScan_RIBOSOMAL_L10E
RPL10L	140801	genome.wustl.edu	37	14	47120846	47120846	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_080746.2	-1	reviewed	p.R32C	1.000	147	0%	137	10.2%	0	-	benign(0.001)	tolerated(0.1)	neutral(0.286)	HMMPfam_Ribosomal_L16,superfamily_Ribosomal_L10e/L16
MDGA2	161357	genome.wustl.edu	37	14	47426729	47426729	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001113498.1	-1	validated	p.R577H	0.985	203	0%	33	30.3%	0	-	possibly_damaging(0.87)	deleterious(0.02)	deleterious(0.721)	superfamily_SSF48726
MGAT2	4247	genome.wustl.edu	37	14	50088478	50088478	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_002408.3	+1	reviewed	p.I164	1.000	143	0%	210	27.6%	11	0%	-	-	-	HMMPfam_MGAT2,superfamily_Nucleotide-diphospho-sugar transferases
MGAT2	4247	genome.wustl.edu	37	14	50088664	50088664	+	Missense_Mutation	SNP	A	A	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_002408.3	+1	reviewed	p.K226N	0.991	213	0%	372	24.5%	16	6.2%	benign(0.218)	tolerated(0.08)	neutral(0.322)	HMMPfam_MGAT2,superfamily_Nucleotide-diphospho-sugar transferases
ENSG00000248934	0	genome.wustl.edu	37	14	50089463	50089463	+	RNA	SNP	T	T	C	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	ENST00000504161	-1	novel	NULL	1.000	11	0%	25	28%	16	0%	-	-	-	-
KLHDC1	122773	genome.wustl.edu	37	14	50206877	50206877	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_172193.2	+1	validated	p.D320Y	1.000	431	0%	91	23.1%	2	0%	probably_damaging(0.989)	deleterious(0.05)	deleterious(0.785)	superfamily_Galactose oxidase central domain
CDKL1	8814	genome.wustl.edu	37	14	50862549	50862549	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_004196.3	-1	reviewed	p.G14E	1.000	333	0%	458	22.9%	6	0%	probably_damaging(1)	deleterious(0)	deleterious(0.945)	HMMSmart_SM00219,HMMSmart_SM00220,superfamily_Protein kinase-like (PK-like),PatternScan_PROTEIN_KINASE_ATP,HMMPfam_Pkinase
MAP4K5	11183	genome.wustl.edu	37	14	50911772	50911772	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_006575.3	-1	reviewed	p.E442D	0.889	332	0%	63	15.9%	6	0%	benign(0)	tolerated(0.49)	neutral(0.011)	superfamily_Protein kinase-like (PK-like)
ATL1	51062	genome.wustl.edu	37	14	51080016	51080016	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_015915.4	+1	reviewed	p.E224K	1.000	499	0%	110	10%	5	0%	probably_damaging(0.964)	deleterious(0)	deleterious(0.851)	HMMPfam_GBP,superfamily_P-loop containing nucleoside triphosphate hydrolases
ATL1	51062	genome.wustl.edu	37	14	51095135	51095135	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_015915.4	+1	reviewed	p.E502	0.988	157	0%	42	21.4%	11	0%	-	-	-	NULL
NIN	51199	genome.wustl.edu	37	14	51223240	51223240	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_020921.3	-1	reviewed	p.S1503N	1.000	344	0%	161	18%	3	0%	benign(0.282)	tolerated(0.45)	neutral(0.098)	NULL
NIN	51199	genome.wustl.edu	37	14	51224487	51224487	+	Silent	SNP	T	T	C	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_020921.3	-1	reviewed	p.E1087	0.995	247	0%	144	28.5%	0	-	-	-	-	NULL
NIN	51199	genome.wustl.edu	37	14	51288672	51288672	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_020921.3	-1	reviewed	p.D35N	0.997	87	0%	94	27.7%	2	0%	unknown(0)	deleterious(0.02)	-	HMMPfam_efhand,superfamily_EF-hand
NIN	51199	genome.wustl.edu	37	14	51288709	51288709	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	ENST00000453401	-1	known	p.R56Q	0.661	98	0%	115	22.6%	2	50%	-	-	-	superfamily_EF-hand
PYGL	5836	genome.wustl.edu	37	14	51376795	51376795	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_002863.4	-1	reviewed	p.E665	1.000	239	0%	80	20%	53	43.3%	-	-	-	HMMPfam_Phosphorylase,superfamily_SSF53756
TRIM9	114088	genome.wustl.edu	37	14	51444042	51444042	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_015163.5	-1	reviewed	p.P700	0.003	220	0%	95	24.2%	4	0%	-	-	-	NULL
TRIM9	114088	genome.wustl.edu	37	14	51448666	51448666	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_015163.5	-1	reviewed	p.R587C	1.000	284	0%	95	17.9%	2	0%	probably_damaging(1)	deleterious(0)	deleterious(0.945)	HMMPfam_SPRY,superfamily_Concanavalin A-like lectins/glucanases,HMMSmart_SM00449
TMX1	81542	genome.wustl.edu	37	14	51712159	51712159	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	ENST00000267434	+1	known	p.L17M	0.265	182	0%	187	13.4%	0	-	-	-	-	NULL
FRMD6	122786	genome.wustl.edu	37	14	52156598	52156598	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001042481.1	+1	validated	p.R15H	1.000	255	0%	53	11.3%	4	0%	benign(0.304)	tolerated(0.07)	neutral(0.413)	HMMSmart_B41,superfamily_SSF54236
FRMD6	122786	genome.wustl.edu	37	14	52182048	52182048	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001042481.1	+1	validated	p.K277N	1.000	146	0%	76	27.6%	1	0%	probably_damaging(0.966)	deleterious(0)	deleterious(0.853)	HMMPfam_FERM_C,superfamily_SSF50729
NID2	22795	genome.wustl.edu	37	14	52485839	52485839	+	Nonsense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_007361.3	-1	validated	p.E990*	0.998	50	0%	27	25.9%	4	0%	-	-	-	HMMPfam_Thyroglobulin_1,HMMSmart_SM00211,superfamily_Thyroglobulin type-1 domain
PTGDR	5729	genome.wustl.edu	37	14	52734772	52734772	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_000953.2	+1	reviewed	p.S80R	1.000	49	0%	125	18.4%	0	-	probably_damaging(0.995)	deleterious(0)	deleterious(0.902)	HMMPfam_7tm_1,superfamily_SSF81321
GPR137C	283554	genome.wustl.edu	37	14	53098924	53098924	+	Missense_Mutation	SNP	T	T	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001099652.1	+1	provisional	p.L255H	1.000	433	0%	114	22.8%	0	-	probably_damaging(1)	deleterious(0)	deleterious(0.945)	NULL
GPR137C	283554	genome.wustl.edu	37	14	53101671	53101671	+	Silent	SNP	A	A	G	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001099652.1	+1	provisional	p.Q376	0.985	467	0%	112	25%	0	-	-	-	-	NULL
STYX	6815	genome.wustl.edu	37	14	53226401	53226401	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001130701.1	+1	validated	p.D145Y	1.000	684	0%	158	23.4%	4	25%	benign(0.3)	deleterious(0.03)	neutral(0.458)	HMMPfam_DSPc,HMMSmart_SM00195,superfamily_(Phosphotyrosine protein) phosphatases II
GNPNAT1	64841	genome.wustl.edu	37	14	53245045	53245045	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_198066.3	-1	validated	p.R180Q	1.000	176	1.1%	54	18.5%	5	20%	benign(0.002)	tolerated(0.49)	neutral(0.011)	superfamily_Acyl-CoA N-acyltransferases (Nat)
DDHD1	80821	genome.wustl.edu	37	14	53522548	53522548	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_030637.2	-1	validated	p.P692L	1.000	526	0%	254	28.3%	6	16.6%	probably_damaging(0.998)	tolerated(0.06)	deleterious(0.797)	HMMPfam_DDHD
WDHD1	11169	genome.wustl.edu	37	14	55455789	55455789	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_007086.2	-1	reviewed	p.E495K	1.000	434	0%	135	26.7%	0	-	benign(0.176)	deleterious(0.02)	neutral(0.399)	superfamily_WD40_like
LGALS3	3958	genome.wustl.edu	37	14	55603930	55603930	+	RNA	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NR_003225.2	+1	reviewed	NULL	0.000	143	0%	139	17.3%	2	0%	-	-	-	-
FBXO34	55030	genome.wustl.edu	37	14	55817406	55817406	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_017943.3	+1	validated	p.E100K	1.000	153	0%	59	30.5%	5	20%	probably_damaging(0.98)	tolerated(0.14)	deleterious(0.673)	NULL
TBPL2	387332	genome.wustl.edu	37	14	55890972	55890972	+	Splice_Site	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_199047.2	-1	validated	e6-1	1.000	266	0%	154	11.7%	0	-	-	-	-	-
KTN1	3895	genome.wustl.edu	37	14	56078831	56078831	+	Missense_Mutation	SNP	T	T	G	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001079521.1	+1	validated	p.F22C	1.000	262	0%	73	16.4%	1	0%	probably_damaging(1)	deleterious(0)	deleterious(0.945)	NULL
KTN1	3895	genome.wustl.edu	37	14	56094694	56094694	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001079521.1	+1	validated	p.A343D	0.929	279	0%	62	30.6%	14	0%	probably_damaging(1)	deleterious(0)	deleterious(0.945)	NULL
KTN1	3895	genome.wustl.edu	37	14	56096730	56096730	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001079521.1	+1	validated	p.R379Q	0.999	406	0%	112	14.3%	20	10%	probably_damaging(1)	tolerated(0.29)	deleterious(0.529)	NULL
KTN1	3895	genome.wustl.edu	37	14	56138327	56138327	+	Missense_Mutation	SNP	T	T	G	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001079521.1	+1	validated	p.L1131W	0.998	515	0%	113	20.4%	65	9.2%	probably_damaging(0.999)	deleterious(0.03)	deleterious(0.855)	NULL
PELI2	57161	genome.wustl.edu	37	14	56763605	56763605	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_021255.2	+1	validated	p.T328	0.025	71	0%	25	36%	0	-	-	-	-	HMMPfam_Pellino
C14orf101	54916	genome.wustl.edu	37	14	57083953	57083953	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_017799.3	+1	validated	p.Y332H	1.000	685	0%	244	16.4%	1	0%	probably_damaging(1)	deleterious(0)	deleterious(0.945)	NULL
OTX2	5015	genome.wustl.edu	37	14	57269057	57269057	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_021728.2	-1	reviewed	p.R97Q	1.000	254	0%	381	28.6%	0	-	probably_damaging(1)	deleterious(0)	deleterious(0.945)	HMMPfam_Homeobox,HMMSmart_HOX,superfamily_Homeodomain_like,PatternScan_HOMEOBOX_1
EXOC5	10640	genome.wustl.edu	37	14	57676389	57676389	+	Nonsense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_006544.3	-1	reviewed	p.R612*	1.000	318	0%	70	14.3%	1	0%	-	-	-	HMMPfam_Sec10
EXOC5	10640	genome.wustl.edu	37	14	57696519	57696519	+	Missense_Mutation	SNP	A	A	C	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_006544.3	-1	reviewed	p.F410C	1.000	301	0%	65	16.9%	5	20%	possibly_damaging(0.781)	deleterious(0)	deleterious(0.737)	HMMPfam_Sec10
NAA30	122830	genome.wustl.edu	37	14	57857738	57857738	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001011713.2	+1	validated	p.A21	1.000	10	0%	11	36.4%	0	-	-	-	-	NULL
C14orf105	55195	genome.wustl.edu	37	14	57947362	57947362	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_018168.2	-1	validated	p.D202	0.000	748	0.1%	300	25.3%	0	-	-	-	-	NULL
SLC35F4	341880	genome.wustl.edu	37	14	58038678	58038678	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001080455.1	-1	provisional	p.F325L	1.000	217	0%	41	14.6%	0	-	possibly_damaging(0.56)	tolerated(0.4)	neutral(0.207)	superfamily_Multidrug resistance efflux transporter EmrE
C14orf37	145407	genome.wustl.edu	37	14	58599882	58599882	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001001872.2	-1	predicted	p.R516I	0.004	137	0%	66	22.7%	0	-	probably_damaging(0.99)	deleterious(0)	deleterious(0.886)	NULL
ARID4A	5926	genome.wustl.edu	37	14	58814415	58814415	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_002892.3	+1	reviewed	p.R408K	1.000	165	0%	39	33.3%	7	0%	possibly_damaging(0.485)	tolerated(0.16)	neutral(0.221)	HMMPfam_ARID,superfamily_ARID-like
ARID4A	5926	genome.wustl.edu	37	14	58827758	58827758	+	Nonsense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_002892.3	+1	reviewed	p.S693*	1.000	237	0%	123	26%	1	0%	-	-	-	NULL
KIAA0586	9786	genome.wustl.edu	37	14	58954628	58954628	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_014749.3	+1	validated	p.L1034F	0.006	302	0%	88	28.4%	0	-	probably_damaging(0.959)	tolerated(0.18)	neutral(0.459)	NULL
DACT1	51339	genome.wustl.edu	37	14	59112144	59112144	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_016651.5	+1	validated	p.R268H	1.000	289	0%	417	24.2%	1	0%	probably_damaging(0.999)	deleterious(0.04)	deleterious(0.839)	NULL
DAAM1	23002	genome.wustl.edu	37	14	59730281	59730281	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_014992.1	+1	reviewed	p.R29Q	1.000	242	0%	79	24.1%	0	-	unknown(0)	tolerated(0.4)	-	NULL
DAAM1	23002	genome.wustl.edu	37	14	59790846	59790846	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_014992.1	+1	reviewed	p.T259A	1.000	353	0%	134	14.9%	1	0%	unknown(0)	tolerated(0.08)	-	HMMPfam_Drf_FH3
DAAM1	23002	genome.wustl.edu	37	14	59797322	59797322	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_014992.1	+1	reviewed	p.E492D	1.000	207	0%	87	20.7%	2	50%	unknown(0)	tolerated(0.26)	-	NULL
DAAM1	23002	genome.wustl.edu	37	14	59798584	59798584	+	Missense_Mutation	SNP	A	A	C	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_014992.1	+1	reviewed	p.K638N	0.985	202	0%	85	23.5%	1	0%	possibly_damaging(0.729)	tolerated(0.89)	neutral(0.266)	HMMSmart_SM00498,HMMPfam_FH2,superfamily_Formin homology 2 domain (FH2 domain)
C14orf38	729665	genome.wustl.edu	37	14	59977465	59977465	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	ENST00000281581	-1	known	p.R735H	0.000	500	0.2%	91	14.3%	0	-	benign(0.125)	deleterious(0.04)	neutral(0.359)	NULL
C14orf38	729665	genome.wustl.edu	37	14	59998590	59998590	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	ENST00000281581	-1	known	p.K554	0.026	619	0%	154	20.1%	0	-	-	-	-	NULL
RTN1	6252	genome.wustl.edu	37	14	60193695	60193695	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_021136.2	-1	reviewed	p.G569	0.087	46	0%	80	32.5%	0	-	-	-	-	NULL
C14orf135	64430	genome.wustl.edu	37	14	60581524	60581524	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_022495.5	+1	validated	p.A32S	1.000	380	0%	159	11.9%	1	0%	probably_damaging(1)	deleterious(0)	deleterious(0.945)	NULL
DHRS7	51635	genome.wustl.edu	37	14	60619755	60619755	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_016029.2	-1	validated	p.E179K	0.696	137	0%	85	23.5%	36	13.8%	probably_damaging(0.954)	tolerated(0.41)	neutral(0.413)	HMMPfam_adh_short,superfamily_NAD(P)-binding Rossmann-fold domains
C14orf39	317761	genome.wustl.edu	37	14	60925431	60925431	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_174978.2	-1	validated	p.V382I	0.154	638	0%	134	22.4%	0	-	benign(0.001)	tolerated(1)	-	NULL
C14orf39	317761	genome.wustl.edu	37	14	60933684	60933684	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_174978.2	-1	validated	p.Q282	0.061	460	0.2%	84	21.4%	0	-	-	-	-	NULL
SIX6	4990	genome.wustl.edu	37	14	60976286	60976286	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_007374.2	+1	reviewed	p.R57Q	1.000	30	0%	85	15.3%	0	-	probably_damaging(0.976)	tolerated(0.18)	deleterious(0.474)	NULL
SIX1	6495	genome.wustl.edu	37	14	61115645	61115645	+	Missense_Mutation	SNP	A	A	C	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_005982.3	-1	reviewed	p.L88R	1.000	58	0%	108	10.2%	0	-	possibly_damaging(0.614)	deleterious(0.02)	deleterious(0.596)	NULL
PRKCH	5583	genome.wustl.edu	37	14	61909931	61909931	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_006255.3	+1	reviewed	p.T177M	1.000	201	0%	37	13.5%	3	0%	probably_damaging(0.959)	tolerated(0.06)	deleterious(0.725)	HMMPfam_C1_1,HMMSmart_SM00109,PatternScan_ZF_DAG_PE_1,superfamily_Cysteine-rich domain
SYT16	83851	genome.wustl.edu	37	14	62536530	62536530	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_031914.2	+1	validated	p.E245K	0.940	201	0%	86	15.1%	0	-	benign(0.011)	deleterious(0)	neutral(0.445)	NULL
RHOJ	57381	genome.wustl.edu	37	14	63671710	63671710	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_020663.3	+1	provisional	p.Y41	1.000	120	0%	47	14.9%	4	0%	-	-	-	HMMSmart_SM00173,HMMSmart_SM00174,HMMSmart_SM00175,HMMPfam_Ras,superfamily_P-loop containing nucleoside triphosphate hydrolases
SGPP1	81537	genome.wustl.edu	37	14	64152913	64152913	+	Missense_Mutation	SNP	T	T	G	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_030791.2	-1	provisional	p.E412D	1.000	263	0%	72	20.8%	2	0%	probably_damaging(0.984)	tolerated(0.2)	deleterious(0.479)	NULL
SYNE2	23224	genome.wustl.edu	37	14	64457658	64457658	+	Splice_Site	SNP	A	A	G	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_182914.2	+1	reviewed	e20-2	0.982	302	0%	74	27%	0	-	-	-	-	-
SYNE2	23224	genome.wustl.edu	37	14	64464040	64464040	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_182914.2	+1	reviewed	p.E1058D	1.000	322	0%	77	23.4%	1	0%	probably_damaging(0.979)	-	-	NULL
SYNE2	23224	genome.wustl.edu	37	14	64483262	64483262	+	Silent	SNP	T	T	C	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_182914.2	+1	reviewed	p.N1600	0.998	153	0%	29	17.2%	0	-	-	-	-	superfamily_Spectrin
SYNE2	23224	genome.wustl.edu	37	14	64496720	64496720	+	Silent	SNP	T	T	C	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_182914.2	+1	reviewed	p.S2274	0.033	297	0%	206	28.6%	0	-	-	-	-	HMMPfam_Spectrin,HMMSmart_SPEC,superfamily_Spectrin
SYNE2	23224	genome.wustl.edu	37	14	64519462	64519462	+	Missense_Mutation	SNP	T	T	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_182914.2	+1	reviewed	p.F2944Y	0.010	92	0%	44	25%	2	0%	possibly_damaging(0.84)	-	-	NULL
SYNE2	23224	genome.wustl.edu	37	14	64520063	64520063	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_182914.2	+1	reviewed	p.L3144	0.003	115	0%	37	29.7%	0	-	-	-	-	NULL
SYNE2	23224	genome.wustl.edu	37	14	64604612	64604612	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_182914.2	+1	reviewed	p.I4918	0.263	140	0%	44	29.5%	0	-	-	-	-	HMMSmart_SPEC,superfamily_Spectrin
SYNE2	23224	genome.wustl.edu	37	14	64683009	64683009	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_182914.2	+1	reviewed	p.S6482	0.972	184	0%	88	11.4%	25	0%	-	-	-	NULL
SYNE2	23224	genome.wustl.edu	37	14	64687169	64687169	+	Silent	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_182914.2	+1	reviewed	p.A6625	0.998	150	0%	81	28.4%	20	10%	-	-	-	HMMPfam_Spectrin,HMMSmart_SPEC
SYNE2	23224	genome.wustl.edu	37	14	64691226	64691226	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_182914.2	+1	reviewed	p.D6810	0.081	69	0%	29	13.8%	56	10.7%	-	-	-	NULL
MTHFD1	4522	genome.wustl.edu	37	14	64921592	64921592	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_005956.3	+1	reviewed	p.T906M	1.000	161	0%	104	19.2%	137	35%	possibly_damaging(0.752)	tolerated(0.07)	deleterious(0.595)	HMMPfam_FTHFS,superfamily_P-loop containing nucleoside triphosphate hydrolases
AKAP5	9495	genome.wustl.edu	37	14	64935518	64935518	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_004857.3	+1	reviewed	p.P136S	0.000	89	0%	157	12.1%	0	-	possibly_damaging(0.509)	tolerated(0.41)	neutral(0.185)	NULL
ZBTB1	22890	genome.wustl.edu	37	14	64989825	64989825	+	Nonsense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001123329.1	+1	validated	p.R535*	1.000	386	0%	168	13.7%	6	0%	-	-	-	HMMPfam_zf-C2H2,HMMSmart_ZnF_C2H2
ENSG00000238163	0	genome.wustl.edu	37	14	65068256	65068256	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	ENST00000428403	-1	known	p.K36N	1.000	310	0%	479	29%	0	-	-	-	-	HMMPfam_NUP50
SPTB	6710	genome.wustl.edu	37	14	65216399	65216399	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001024858.2	-1	reviewed	p.S2264	0.935	62	0%	114	13.2%	5	0%	-	-	-	HMMPfam_PH,HMMSmart_PH,superfamily_SSF50729
SPTB	6710	genome.wustl.edu	37	14	65233448	65233448	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001024858.2	-1	reviewed	p.S2114F	1.000	70	0%	121	15.7%	0	-	possibly_damaging(0.796)	tolerated(0.41)	neutral(0.314)	HMMSmart_SPEC
FUT8	2530	genome.wustl.edu	37	14	66083894	66083894	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_004480.3	+1	reviewed	p.R27I	0.995	471	0%	348	22.1%	0	-	unknown(0)	tolerated(0.08)	-	NULL
FUT8	2530	genome.wustl.edu	37	14	66096316	66096316	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_178154.1	+1	reviewed	p.Y197H	1.000	270	0%	321	12.5%	0	-	possibly_damaging(0.774)	tolerated(0.46)	neutral(0.300)	NULL
GPHN	10243	genome.wustl.edu	37	14	67391007	67391007	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_020806.4	+1	reviewed	p.R276W	1.000	329	0%	132	18.9%	4	25%	benign(0.043)	deleterious(0.01)	neutral(0.408)	NULL
GPHN	10243	genome.wustl.edu	37	14	67525449	67525449	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_020806.4	+1	reviewed	p.I364V	1.000	335	0%	426	12.7%	1	0%	possibly_damaging(0.768)	deleterious(0)	deleterious(0.730)	HMMPfam_MoeA_N,superfamily_MoeA_N
PLEK2	26499	genome.wustl.edu	37	14	67862207	67862207	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_016445.1	-1	provisional	p.G101R	0.909	62	0%	45	17.8%	4	0%	probably_damaging(0.99)	tolerated(0.79)	neutral(0.443)	HMMPfam_PH,HMMSmart_PH,superfamily_SSF50729
PLEKHH1	57475	genome.wustl.edu	37	14	68024129	68024129	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_020715.2	+1	validated	p.E111D	1.000	60	0%	40	35%	2	0%	possibly_damaging(0.775)	deleterious(0.02)	deleterious(0.671)	NULL
PLEKHH1	57475	genome.wustl.edu	37	14	68047752	68047752	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_020715.2	+1	validated	p.N1094S	1.000	140	0%	94	9.6%	0	-	benign(0.35)	tolerated(0.14)	neutral(0.360)	superfamily_Second domain of FERM,HMMSmart_SM00295
ZFYVE26	23503	genome.wustl.edu	37	14	68220925	68220925	+	Missense_Mutation	SNP	T	T	G	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_015346.3	-1	reviewed	p.M2331L	1.000	182	0%	69	21.7%	4	25%	benign(0.031)	tolerated(0.43)	neutral(0.015)	NULL
ZFYVE26	23503	genome.wustl.edu	37	14	68221937	68221937	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_015346.3	-1	reviewed	p.R2273W	0.998	431	0.2%	117	26.5%	3	33.3%	probably_damaging(1)	deleterious(0)	deleterious(0.945)	NULL
ZFYVE26	23503	genome.wustl.edu	37	14	68229487	68229487	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_015346.3	-1	reviewed	p.R2021C	1.000	161	0%	58	13.8%	4	0%	probably_damaging(1)	deleterious(0.01)	deleterious(0.905)	NULL
ZFYVE26	23503	genome.wustl.edu	37	14	68236423	68236423	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_015346.3	-1	reviewed	p.R1837C	1.000	143	0%	50	18%	0	-	probably_damaging(1)	deleterious(0)	deleterious(0.945)	HMMPfam_FYVE,HMMSmart_SM00064,superfamily_FYVE/PHD zinc finger
ZFYVE26	23503	genome.wustl.edu	37	14	68270938	68270938	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_015346.3	-1	reviewed	p.G439R	1.000	316	0%	325	11.4%	0	-	probably_damaging(0.991)	deleterious(0.01)	deleterious(0.850)	NULL
RAD51B	5890	genome.wustl.edu	37	14	68292207	68292207	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_133509.2	+1	reviewed	p.E37D	0.994	642	0%	211	23.7%	0	-	benign(0.157)	tolerated(0.47)	neutral(0.025)	NULL
ACTN1	87	genome.wustl.edu	37	14	69343943	69343943	+	Silent	SNP	A	A	G	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001130004.1	-1	reviewed	p.F814	1.000	124	0%	151	18.5%	342	5.5%	-	-	-	HMMSmart_EFh,superfamily_SSF47473
ACTN1	87	genome.wustl.edu	37	14	69350964	69350964	+	Missense_Mutation	SNP	G	G	A	rs150426921	by1000genomes	TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001130004.1	-1	reviewed	p.A519V	1.000	99	0%	180	23.3%	109	2.7%	probably_damaging(0.991)	deleterious(0)	deleterious(0.889)	HMMPfam_Spectrin,HMMSmart_SPEC,superfamily_Spectrin
DCAF5	8816	genome.wustl.edu	37	14	69521431	69521431	+	Nonsense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_003861.2	-1	validated	p.R658*	1.000	309	0%	134	26.1%	18	16.6%	-	-	-	NULL
EXD2	55218	genome.wustl.edu	37	14	69701573	69701573	+	Missense_Mutation	SNP	T	T	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_018199.2	+1	provisional	p.F167I	1.000	310	0%	137	23.4%	1	0%	probably_damaging(1)	deleterious(0.01)	deleterious(0.905)	NULL
GALNTL1	57452	genome.wustl.edu	37	14	69805438	69805438	+	Silent	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_020692.2	+1	validated	p.V346	1.000	138	0%	96	12.5%	1	0%	-	-	-	superfamily_Nucleotide-diphospho-sugar transferases
KIAA0247	9766	genome.wustl.edu	37	14	70170253	70170253	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_014734.3	+1	validated	p.T88M	1.000	96	0%	40	15%	5	0%	probably_damaging(1)	deleterious(0)	deleterious(0.945)	HMMPfam_Sushi,HMMSmart_CCP,superfamily_Complement_control_module
SLC8A3	6547	genome.wustl.edu	37	14	70515631	70515631	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_183002.1	-1	reviewed	p.G754S	1.000	107	0%	35	31.4%	0	-	probably_damaging(0.997)	deleterious(0)	deleterious(0.911)	NULL
SLC8A3	6547	genome.wustl.edu	37	14	70633503	70633503	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_183002.1	-1	reviewed	p.G546D	1.000	186	0.5%	53	26.4%	0	-	probably_damaging(1)	deleterious(0)	deleterious(0.945)	HMMPfam_Calx-beta,HMMSmart_SM00237
SLC8A3	6547	genome.wustl.edu	37	14	70633726	70633726	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_183002.1	-1	reviewed	p.D472N	1.000	91	0%	39	15.4%	0	-	probably_damaging(0.994)	deleterious(0)	deleterious(0.897)	HMMPfam_Calx-beta,HMMSmart_SM00237
SLC8A3	6547	genome.wustl.edu	37	14	70634820	70634820	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_183002.1	-1	reviewed	p.S107Y	1.000	204	0%	62	27.4%	0	-	probably_damaging(0.999)	deleterious(0)	deleterious(0.935)	HMMPfam_Na_Ca_ex
ENSG00000235812	0	genome.wustl.edu	37	14	70712693	70712693	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	ENST00000433248	-1	known	p.R392I	0.975	289	0%	225	23.1%	0	-	-	-	-	HMMPfam_ADAM_CR,HMMSmart_SM00608
ENSG00000235812	0	genome.wustl.edu	37	14	70713533	70713533	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	ENST00000433248	-1	known	p.R112Q	0.289	122	0%	106	29.2%	0	-	-	-	-	"HMMPfam_Reprolysin,superfamily_Metalloproteases (""zincins"") catalytic domain"
SYNJ2BP	55333	genome.wustl.edu	37	14	70839817	70839817	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_018373.2	-1	validated	p.R110Q	0.994	242	0%	79	25.3%	7	71.4%	benign(0.257)	tolerated(0.09)	neutral(0.323)	superfamily_PDZ
ADAM21	8747	genome.wustl.edu	37	14	70924812	70924812	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_003813.2	+1	reviewed	p.S199Y	0.876	189	0%	51	17.6%	0	-	possibly_damaging(0.822)	tolerated(1)	neutral(0.311)	NULL
ADAM21	8747	genome.wustl.edu	37	14	70925009	70925009	+	Missense_Mutation	SNP	A	A	C	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_003813.2	+1	reviewed	p.N265H	0.107	158	0%	32	18.8%	0	-	probably_damaging(1)	deleterious(0)	deleterious(0.945)	"HMMPfam_Reprolysin,superfamily_Metalloproteases (""zincins"") catalytic domain"
MED6	10001	genome.wustl.edu	37	14	71063357	71063357	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_005466.2	-1	validated	p.R82Q	1.000	179	0%	194	25.8%	10	0%	probably_damaging(0.974)	tolerated(0.15)	deleterious(0.657)	HMMPfam_MED6
MAP3K9	4293	genome.wustl.edu	37	14	71197167	71197167	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_033141.2	-1	validated	p.P1096L	1.000	89	0%	130	21.5%	2	0%	probably_damaging(1)	deleterious(0)	deleterious(0.945)	NULL
MAP3K9	4293	genome.wustl.edu	37	14	71197424	71197424	+	Silent	SNP	A	A	G	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_033141.2	-1	validated	p.R1010	0.906	61	0%	81	14.8%	0	-	-	-	-	NULL
SIPA1L1	26037	genome.wustl.edu	37	14	72128059	72128059	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_015556.1	+1	provisional	p.I710	0.710	369	0.3%	103	28.2%	4	0%	-	-	-	HMMPfam_Rap_GAP,superfamily_Rap/Ran-GAP (Pfam 02145)
SIPA1L1	26037	genome.wustl.edu	37	14	72169178	72169178	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_015556.1	+1	provisional	p.T1201M	0.997	229	0%	71	26.8%	4	25%	probably_damaging(0.99)	tolerated(0.08)	deleterious(0.742)	NULL
SIPA1L1	26037	genome.wustl.edu	37	14	72205854	72205854	+	Silent	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_015556.1	+1	provisional	p.V1797	1.000	90	1.1%	47	12.8%	93	15%	-	-	-	NULL
DPF3	8110	genome.wustl.edu	37	14	73137924	73137924	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_012074.3	-1	provisional	p.D332N	1.000	146	0%	122	14.8%	1	0%	possibly_damaging(0.509)	deleterious(0.01)	deleterious(0.576)	NULL
ZFYVE1	53349	genome.wustl.edu	37	14	73490795	73490795	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_021260.1	-1	reviewed	p.R141M	1.000	360	0%	410	21.7%	1	0%	benign(0.009)	deleterious(0.01)	neutral(0.406)	NULL
RBM25	58517	genome.wustl.edu	37	14	73572736	73572736	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_021239.2	+1	validated	p.E442K	1.000	478	0.2%	285	26%	34	26.4%	unknown(0)	deleterious(0)	-	NULL
NUMB	8650	genome.wustl.edu	37	14	73822362	73822362	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001005743.1	-1	reviewed	p.R33H	1.000	325	0.3%	101	15.8%	7	14.2%	probably_damaging(0.995)	deleterious(0)	deleterious(0.902)	superfamily_PH domain-like
HEATR4	399671	genome.wustl.edu	37	14	73965012	73965012	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_203309.1	-1	provisional	p.T751M	0.835	140	0%	116	27.6%	0	-	probably_damaging(1)	tolerated(0.18)	deleterious(0.556)	superfamily_ARM-type_fold
ACOT2	10965	genome.wustl.edu	37	14	74040217	74040217	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_006821.4	+1	validated	p.D257Y	1.000	565	0%	693	25.5%	26	15.3%	probably_damaging(1)	deleterious(0)	deleterious(0.945)	superfamily_alpha/beta-Hydrolases
ZNF410	57862	genome.wustl.edu	37	14	74390222	74390222	+	Missense_Mutation	SNP	A	A	C	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_021188.1	+1	provisional	p.Q465H	1.000	319	0%	82	22%	30	10%	benign(0.263)	deleterious(0)	deleterious(0.472)	NULL
C14orf45	80127	genome.wustl.edu	37	14	74523941	74523941	+	Nonsense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_025057.2	+1	validated	p.E520*	0.475	107	0%	41	22%	4	25%	-	-	-	NULL
VSX2	338917	genome.wustl.edu	37	14	74711986	74711986	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_182894.2	+1	reviewed	p.I192V	1.000	86	0%	65	10.8%	0	-	possibly_damaging(0.437)	tolerated(0.43)	neutral(0.156)	HMMPfam_Homeobox,HMMSmart_SM00389,superfamily_Homeodomain-like,PatternScan_HOMEOBOX_1
LTBP2	4053	genome.wustl.edu	37	14	74972833	74972833	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_000428.2	-1	reviewed	p.E1365D	0.856	63	0%	83	10.8%	3	0%	possibly_damaging(0.515)	tolerated(0.2)	neutral(0.222)	PatternScan_ASX_HYDROXYL,HMMSmart_SM00179,HMMSmart_SM00181,HMMPfam_EGF_CA,PatternScan_EGF_CA,superfamily_EGF/Laminin
KIAA0317	9870	genome.wustl.edu	37	14	75142625	75142625	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001039479.1	-1	validated	p.R286H	1.000	150	0%	70	12.9%	1	0%	possibly_damaging(0.895)	deleterious(0.01)	deleterious(0.758)	NULL
FCF1	51077	genome.wustl.edu	37	14	75189981	75189981	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_015962.4	+1	validated	p.P100Q	1.000	586	0%	238	11.8%	3	0%	probably_damaging(0.997)	deleterious(0)	deleterious(0.911)	HMMSmart_SM00670,HMMPfam_Fcf1,superfamily_PIN domain-like
YLPM1	56252	genome.wustl.edu	37	14	75248725	75248725	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_019589.2	+1	validated	p.S660L	0.804	277	0%	130	20%	3	0%	unknown(0)	deleterious(0)	-	NULL
YLPM1	56252	genome.wustl.edu	37	14	75265442	75265442	+	Nonsense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_019589.2	+1	validated	p.R1148*	0.997	138	0%	100	23%	2	0%	-	-	-	NULL
YLPM1	56252	genome.wustl.edu	37	14	75283769	75283769	+	Missense_Mutation	SNP	T	T	G	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_019589.2	+1	validated	p.F1941V	1.000	282	0%	88	28.4%	10	10%	possibly_damaging(0.916)	deleterious(0)	deleterious(0.811)	superfamily_P-loop containing nucleoside triphosphate hydrolases
PROX2	283571	genome.wustl.edu	37	14	75329878	75329878	+	Silent	SNP	T	T	G	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001080408.1	-1	provisional	p.P220	0.000	67	0%	44	18.2%	0	-	-	-	-	NULL
PROX2	283571	genome.wustl.edu	37	14	75330239	75330239	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001080408.1	-1	provisional	p.R100Q	0.708	137	0%	56	16.1%	0	-	benign(0.036)	deleterious(0)	neutral(0.447)	NULL
DLST	1743	genome.wustl.edu	37	14	75357831	75357831	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001933.4	+1	validated	p.E135K	1.000	186	0%	89	12.4%	10	0%	probably_damaging(0.987)	tolerated(0.25)	deleterious(0.473)	HMMPfam_Biotin_lipoyl,superfamily_Single hybrid motif
EIF2B2	8892	genome.wustl.edu	37	14	75471468	75471468	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_014239.3	+1	reviewed	p.Q154H	1.000	38	0%	46	19.6%	10	10%	possibly_damaging(0.936)	deleterious(0.03)	deleterious(0.746)	HMMPfam_IF-2B,superfamily_NagB/RpiA/CoA transferase-like
MLH3	27030	genome.wustl.edu	37	14	75514603	75514603	+	Nonsense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001040108.1	-1	reviewed	p.E586*	0.142	470	0%	561	23.7%	2	0%	-	-	-	NULL
NEK9	91754	genome.wustl.edu	37	14	75557977	75557977	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_033116.4	-1	validated	p.R813Q	1.000	133	0%	63	15.9%	8	12.5%	probably_damaging(0.968)	deleterious(0)	deleterious(0.855)	NULL
TGFB3	7043	genome.wustl.edu	37	14	76447231	76447231	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_003239.2	-1	reviewed	p.K2N	1.000	147	0%	221	27.1%	2	0%	probably_damaging(0.99)	deleterious(0)	deleterious(0.886)	NULL
C14orf118	55668	genome.wustl.edu	37	14	76620849	76620849	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_017926.2	+1	validated	p.R48H	0.954	43	0%	52	23.1%	1	0%	probably_damaging(0.997)	tolerated(0.07)	deleterious(0.785)	NULL
ESRRB	2103	genome.wustl.edu	37	14	76928960	76928960	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_004452.3	+1	reviewed	p.A157V	1.000	79	0%	48	31.2%	0	-	possibly_damaging(0.937)	deleterious(0.04)	deleterious(0.732)	HMMPfam_zf-C4,HMMSmart_ZnF_C4,superfamily_Str_ncl_receptor,superfamily_SSF57716
ESRRB	2103	genome.wustl.edu	37	14	76949044	76949044	+	Silent	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_004452.3	+1	reviewed	p.L243	1.000	87	0%	34	32.4%	0	-	-	-	-	superfamily_Str_ncl_receptor
ESRRB	2103	genome.wustl.edu	37	14	76957944	76957944	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_004452.3	+1	reviewed	p.L314	0.410	77	0%	50	30%	0	-	-	-	-	HMMPfam_Hormone_recep,HMMSmart_HOLI,superfamily_Str_ncl_receptor
ESRRB	2103	genome.wustl.edu	37	14	76958030	76958030	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_004452.3	+1	reviewed	p.T343M	1.000	80	0%	56	21.4%	0	-	possibly_damaging(0.87)	tolerated(0.23)	neutral(0.380)	HMMPfam_Hormone_recep,HMMSmart_HOLI,superfamily_Str_ncl_receptor
VASH1	22846	genome.wustl.edu	37	14	77229329	77229329	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_014909.4	+1	validated	p.D55	1.000	70	0%	116	25%	4	0%	-	-	-	NULL
VASH1	22846	genome.wustl.edu	37	14	77239560	77239560	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	ENST00000417529	+1	known	p.P179H	1.000	128	0%	190	27.4%	1	0%	possibly_damaging(0.911)	deleterious(0.02)	deleterious(0.746)	NULL
KIAA1737	85457	genome.wustl.edu	37	14	77572113	77572113	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_033426.2	+1	validated	p.G21D	0.947	224	0%	179	12.3%	0	-	probably_damaging(0.981)	deleterious(0)	deleterious(0.870)	NULL
TMEM63C	57156	genome.wustl.edu	37	14	77714768	77714768	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_020431.2	+1	validated	p.E560	1.000	105	0%	57	33.3%	0	-	-	-	-	HMMPfam_DUF221
TMEM63C	57156	genome.wustl.edu	37	14	77722965	77722965	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_020431.2	+1	validated	p.E773K	1.000	202	0%	215	12.6%	0	-	probably_damaging(0.991)	deleterious(0.03)	deleterious(0.808)	NULL
POMT2	29954	genome.wustl.edu	37	14	77769183	77769183	+	Silent	SNP	G	G	A	rs147845081	by1000genomes	TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_013382.5	-1	reviewed	p.A217	0.007	123	0%	55	29.1%	0	-	-	-	-	HMMPfam_PMT
TMED8	283578	genome.wustl.edu	37	14	77810128	77810128	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_213601.1	-1	provisional	p.I122	0.642	245	0.4%	100	22%	1	0%	-	-	-	NULL
NOXRED1	122945	genome.wustl.edu	37	14	77872309	77872309	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001113475.1	-1	validated	p.L284	0.001	187	0%	128	10.2%	0	-	-	-	-	NULL
C14orf133	63894	genome.wustl.edu	37	14	77900260	77900260	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_022067.2	-1	provisional	p.Q368	1.000	150	0%	63	23.8%	7	14.2%	-	-	-	HMMPfam_Golgin_A5
C14orf133	63894	genome.wustl.edu	37	14	77917605	77917605	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_022067.2	-1	provisional	p.S90G	0.772	319	0%	159	15.1%	1	0%	benign(0)	tolerated(0.72)	neutral(0.002)	HMMPfam_Golgin_A5
ISM2	145501	genome.wustl.edu	37	14	77945059	77945059	+	Splice_Site	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_199296.2	-1	reviewed	e5-1	1.000	127	0%	138	13%	0	-	-	-	-	-
ISM2	145501	genome.wustl.edu	37	14	77950876	77950876	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_199296.2	-1	reviewed	p.R139	0.003	154	0%	162	24.1%	0	-	-	-	-	NULL
C14orf178	283579	genome.wustl.edu	37	14	78235878	78235878	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_174943.3	+1	validated	p.T76A	0.013	167	0%	75	25.3%	1	100%	unknown(0)	tolerated(0.08)	-	NULL
NRXN3	9369	genome.wustl.edu	37	14	79181273	79181273	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_004796.4	+1	reviewed	p.R239H	1.000	53	1.9%	12	41.7%	0	-	probably_damaging(0.999)	deleterious(0)	deleterious(0.935)	HMMSmart_LamG,superfamily_ConA_like_lec_gl,HMMPfam_Laminin_G_2
CEP128	145508	genome.wustl.edu	37	14	80971289	80971289	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_152446.3	-1	validated	p.R1049	0.979	117	0%	22	27.3%	1	0%	-	-	-	NULL
CEP128	145508	genome.wustl.edu	37	14	81227938	81227938	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_152446.3	-1	validated	p.E799G	1.000	171	0%	86	18.6%	0	-	unknown(0)	tolerated(0.15)	-	NULL
CEP128	145508	genome.wustl.edu	37	14	81251355	81251355	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_152446.3	-1	validated	p.D699N	1.000	378	0%	163	17.2%	0	-	unknown(0)	tolerated(0.11)	-	NULL
STON2	85439	genome.wustl.edu	37	14	81736977	81736977	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_033104.2	-1	provisional	p.P884S	0.000	234	0%	134	18.7%	1	0%	unknown(0)	tolerated(1)	-	NULL
STON2	85439	genome.wustl.edu	37	14	81744050	81744050	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_033104.2	-1	provisional	p.Y535	0.021	158	0%	87	18.4%	0	-	-	-	-	NULL
SEL1L	6400	genome.wustl.edu	37	14	81943522	81943522	+	Nonsense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_005065.4	-1	validated	p.R727*	1.000	198	0%	107	25.2%	4	0%	-	-	-	NULL
SEL1L	6400	genome.wustl.edu	37	14	81945989	81945989	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	ENST00000261258	-1	known	p.R75C	0.079	213	0%	66	22.7%	4	0%	benign(0.007)	deleterious(0.05)	neutral(0.345)	NULL
FLRT2	23768	genome.wustl.edu	37	14	86088091	86088091	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_013231.4	+1	reviewed	p.A78D	1.000	168	0%	93	11.8%	1	0%	probably_damaging(1)	deleterious(0)	deleterious(0.945)	superfamily_SSF52058
FLRT2	23768	genome.wustl.edu	37	14	86088580	86088580	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_013231.4	+1	reviewed	p.S241L	1.000	77	0%	40	27.5%	1	0%	probably_damaging(0.976)	tolerated(0.08)	deleterious(0.718)	superfamily_SSF52058
GALC	2581	genome.wustl.edu	37	14	88411975	88411975	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_000153.2	-1	reviewed	p.R531H	1.000	193	0%	35	17.1%	1	0%	probably_damaging(1)	deleterious(0)	deleterious(0.945)	HMMPfam_Glyco_hydro_59
GPR65	8477	genome.wustl.edu	37	14	88477671	88477671	+	Silent	SNP	C	C	T	rs139775422	by1000genomes	TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_003608.3	+1	validated	p.C160	0.000	216	0.5%	59	15.3%	4	0%	-	-	-	HMMPfam_7tm_1,superfamily_Family A G protein-coupled receptor-like
SPATA7	55812	genome.wustl.edu	37	14	88883170	88883170	+	Silent	SNP	T	T	G	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_018418.4	+1	reviewed	p.L118	0.000	180	0%	47	38.3%	1	100%	-	-	-	NULL
SPATA7	55812	genome.wustl.edu	37	14	88904345	88904345	+	Missense_Mutation	SNP	T	T	G	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_018418.4	+1	reviewed	p.I460S	0.011	215	0%	64	14.1%	11	9%	benign(0.002)	tolerated(0.89)	-	NULL
PTPN21	11099	genome.wustl.edu	37	14	88936337	88936337	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_007039.3	-1	reviewed	p.T977A	1.000	409	0%	227	24.2%	4	0%	probably_damaging(1)	deleterious(0)	deleterious(0.945)	HMMPfam_Y_phosphatase,HMMSmart_SM00194,superfamily_(Phosphotyrosine protein) phosphatases II
PTPN21	11099	genome.wustl.edu	37	14	88945421	88945421	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_007039.3	-1	reviewed	p.R785Q	0.033	15	6.7%	30	33.3%	1	0%	benign(0.002)	tolerated(0.53)	neutral(0.007)	NULL
PTPN21	11099	genome.wustl.edu	37	14	88951469	88951469	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_007039.3	-1	reviewed	p.P343	0.983	424	0%	420	24.8%	4	0%	-	-	-	superfamily_PH domain-like
PTPN21	11099	genome.wustl.edu	37	14	88967640	88967640	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_007039.3	-1	reviewed	p.E220D	1.000	317	0%	101	33.7%	2	0%	probably_damaging(1)	deleterious(0)	deleterious(0.945)	PatternScan_FERM_2,HMMPfam_FERM_M,HMMSmart_SM00295,superfamily_PH domain-like
EML5	161436	genome.wustl.edu	37	14	89093354	89093354	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_183387.2	-1	validated	p.R1523H	1.000	169	0%	37	18.9%	0	-	probably_damaging(0.999)	deleterious(0.01)	deleterious(0.896)	HMMSmart_SM00320,superfamily_YVTN repeat-like/Quinoprotein amine dehydrogenase
EML5	161436	genome.wustl.edu	37	14	89123784	89123784	+	Missense_Mutation	SNP	T	T	G	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_183387.2	-1	validated	p.N1314H	1.000	809	0%	119	17.6%	0	-	possibly_damaging(0.455)	deleterious(0.03)	deleterious(0.513)	NULL
EML5	161436	genome.wustl.edu	37	14	89154729	89154729	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_183387.2	-1	validated	p.E876D	1.000	316	0%	137	13.9%	0	-	benign(0.001)	tolerated(1)	-	superfamily_YVTN repeat-like/Quinoprotein amine dehydrogenase
EML5	161436	genome.wustl.edu	37	14	89206739	89206739	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_183387.2	-1	validated	p.A235T	1.000	326	0%	204	18.1%	0	-	probably_damaging(0.999)	deleterious(0.02)	deleterious(0.873)	HMMSmart_SM00320,superfamily_YVTN repeat-like/Quinoprotein amine dehydrogenase,HMMPfam_WD40
TTC8	123016	genome.wustl.edu	37	14	89307531	89307531	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	ENST00000343648	+1	known	p.A202T	0.997	129	0%	34	17.6%	1	0%	unknown(0)	-	-	NULL
KCNK13	56659	genome.wustl.edu	37	14	90650744	90650744	+	Silent	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_022054.2	+1	reviewed	p.I208	0.999	174	0%	89	12.4%	0	-	-	-	-	HMMPfam_Ion_trans_2,superfamily_Voltage-gated potassium channels
C14orf102	55051	genome.wustl.edu	37	14	90769176	90769176	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_017970.2	-1	validated	p.S433	0.002	184	0%	180	27.8%	1	0%	-	-	-	HMMPfam_DUF1740,superfamily_Prenyl_trans
RPS6KA5	9252	genome.wustl.edu	37	14	91338637	91338637	+	Missense_Mutation	SNP	A	A	C	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_004755.2	-1	validated	p.F730L	0.996	376	0.3%	95	26.3%	6	33.3%	probably_damaging(0.972)	tolerated(0.32)	neutral(0.438)	NULL
CCDC88C	440193	genome.wustl.edu	37	14	91766312	91766312	+	Silent	SNP	G	G	A	rs181938142	by1000genomes	TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001080414.2	-1	validated	p.L1246	0.000	28	0%	42	16.7%	0	-	-	-	-	NULL
CCDC88C	440193	genome.wustl.edu	37	14	91883151	91883151	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001080414.2	-1	validated	p.S31N	0.003	169	0%	250	27.2%	1	0%	benign(0)	tolerated(0.69)	neutral(0.002)	NULL
SMEK1	55671	genome.wustl.edu	37	14	91948225	91948225	+	Nonsense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_032560.4	-1	validated	p.R204*	1.000	309	0%	121	32.2%	3	0%	-	-	-	HMMPfam_DUF625,superfamily_ARM-type_fold
SMEK1	55671	genome.wustl.edu	37	14	91948419	91948419	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_032560.4	-1	validated	p.R139H	1.000	288	0%	60	10%	4	0%	possibly_damaging(0.515)	deleterious(0.02)	deleterious(0.556)	NULL
CATSPERB	79820	genome.wustl.edu	37	14	92047246	92047246	+	Missense_Mutation	SNP	T	T	G	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_024764.2	-1	validated	p.K1113T	0.025	414	0%	479	20.7%	3	0%	probably_damaging(0.975)	-	-	NULL
CATSPERB	79820	genome.wustl.edu	37	14	92102804	92102804	+	Silent	SNP	G	G	A	rs145122456	by1000genomes	TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_024764.2	-1	validated	p.F569	0.056	546	0%	278	12.2%	1	0%	-	-	-	NULL
TC2N	123036	genome.wustl.edu	37	14	92253906	92253906	+	Silent	SNP	T	T	C	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001128595.1	-1	validated	p.Q371	0.939	415	0%	166	11.4%	10	0%	-	-	-	HMMPfam_C2,HMMSmart_SM00239,superfamily_C2 domain (Calcium/lipid-binding domain CaLB)
TRIP11	9321	genome.wustl.edu	37	14	92436195	92436195	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_004239.3	-1	reviewed	p.P1921L	0.989	218	0%	59	22%	12	33.3%	probably_damaging(1)	deleterious(0)	deleterious(0.945)	NULL
TRIP11	9321	genome.wustl.edu	37	14	92470835	92470835	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_004239.3	-1	reviewed	p.L1162S	1.000	209	0%	54	14.8%	2	0%	probably_damaging(0.99)	deleterious(0.01)	deleterious(0.847)	NULL
TRIP11	9321	genome.wustl.edu	37	14	92471757	92471757	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_004239.3	-1	reviewed	p.L855F	0.994	431	0%	188	28.2%	4	0%	probably_damaging(1)	deleterious(0.01)	deleterious(0.905)	NULL
SLC24A4	123041	genome.wustl.edu	37	14	92792239	92792239	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_153646.2	+1	validated	p.R36H	0.001	143	0%	248	27.4%	0	-	benign(0)	tolerated(0.65)	neutral(0.003)	NULL
CHGA	1113	genome.wustl.edu	37	14	93392951	93392951	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001275.3	+1	reviewed	p.V32A	1.000	105	0%	199	25.1%	1	100%	probably_damaging(0.968)	deleterious(0)	deleterious(0.855)	HMMPfam_Granin
UBR7	55148	genome.wustl.edu	37	14	93686658	93686658	+	Nonsense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_175748.3	+1	validated	p.E342*	1.000	132	0%	109	22%	16	0%	-	-	-	NULL
BTBD7	55727	genome.wustl.edu	37	14	93760413	93760413	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001002860.2	-1	validated	p.S318F	1.000	221	0%	40	30%	1	0%	probably_damaging(1)	deleterious(0.03)	deleterious(0.865)	HMMSmart_SM00225,superfamily_POZ domain
BTBD7	55727	genome.wustl.edu	37	14	93760897	93760897	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001002860.2	-1	validated	p.R157C	1.000	124	0%	32	28.1%	0	-	probably_damaging(1)	deleterious(0)	deleterious(0.945)	HMMSmart_SM00225,superfamily_POZ domain,HMMPfam_BTB
UNC79	57578	genome.wustl.edu	37	14	94004475	94004475	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_020818.3	+1	validated	p.E244D	1.000	67	0%	32	28.1%	0	-	probably_damaging(0.971)	tolerated(0.12)	deleterious(0.673)	NULL
UNC79	57578	genome.wustl.edu	37	14	94007022	94007022	+	Missense_Mutation	SNP	G	G	A	rs139796738	by1000genomes	TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_020818.3	+1	validated	p.E280K	1.000	115	0%	42	38.1%	0	-	probably_damaging(0.971)	tolerated(0.58)	neutral(0.418)	NULL
UNC79	57578	genome.wustl.edu	37	14	94046548	94046548	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_020818.3	+1	validated	p.K652N	1.000	147	0%	47	19.1%	0	-	probably_damaging(0.995)	tolerated(0.31)	deleterious(0.485)	NULL
UNC79	57578	genome.wustl.edu	37	14	94046630	94046630	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_020818.3	+1	validated	p.E680K	1.000	225	0%	61	23%	0	-	probably_damaging(0.971)	deleterious(0.01)	deleterious(0.819)	NULL
UNC79	57578	genome.wustl.edu	37	14	94063762	94063762	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_020818.3	+1	validated	p.H906R	1.000	119	0%	40	40%	1	0%	possibly_damaging(0.918)	tolerated(0.35)	neutral(0.389)	NULL
UNC79	57578	genome.wustl.edu	37	14	94079266	94079266	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_020818.3	+1	validated	p.S1116I	1.000	166	0%	41	19.5%	0	-	probably_damaging(0.99)	deleterious(0.02)	deleterious(0.825)	NULL
UNC79	57578	genome.wustl.edu	37	14	94088532	94088532	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_020818.3	+1	validated	p.T1474	0.000	149	0%	38	23.7%	0	-	-	-	-	NULL
UNC79	57578	genome.wustl.edu	37	14	94088586	94088586	+	Silent	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_020818.3	+1	validated	p.S1492	0.004	149	0%	45	24.4%	0	-	-	-	-	NULL
UNC79	57578	genome.wustl.edu	37	14	94107511	94107511	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_020818.3	+1	validated	p.L1803	1.000	173	0%	49	12.2%	0	-	-	-	-	NULL
UNC79	57578	genome.wustl.edu	37	14	94173049	94173049	+	Splice_Site	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_020818.3	+1	validated	e47-1	1.000	179	0%	92	23.9%	0	-	-	-	-	-
ASB2	51676	genome.wustl.edu	37	14	94417524	94417524	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_016150.3	-1	reviewed	p.R186H	1.000	49	2%	45	26.7%	5	0%	probably_damaging(1)	tolerated(0.14)	deleterious(0.750)	HMMPfam_Ank,superfamily_Ankyrin repeat
LINC00521	256369	genome.wustl.edu	37	14	94469612	94469612	+	RNA	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NR_024182.1	+1	validated	NULL	0.002	69	1.4%	48	12.5%	0	-	-	-	-	-
DDX24	57062	genome.wustl.edu	37	14	94527269	94527269	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_020414.3	-1	reviewed	p.R463W	0.996	144	0%	51	19.6%	49	10.2%	probably_damaging(0.998)	deleterious(0.01)	deleterious(0.880)	HMMPfam_DEAD,HMMSmart_DEXDc,superfamily_SSF52540
PPP4R4	57718	genome.wustl.edu	37	14	94708294	94708294	+	Silent	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_058237.1	+1	reviewed	p.P382	1.000	125	0%	31	12.9%	0	-	-	-	-	superfamily_ARM repeat
PPP4R4	57718	genome.wustl.edu	37	14	94711011	94711011	+	Frame_Shift_Del	DEL	A	A	-	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_058237.1	+1	reviewed	p.E437fs	1.000	-	-	-	-	-	-	-	-	-	superfamily_ARM repeat
SERPINA10	51156	genome.wustl.edu	37	14	94756284	94756284	+	Missense_Mutation	SNP	T	T	G	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001100607.1	-1	reviewed	p.K216T	0.899	332	0%	148	25.7%	0	-	probably_damaging(0.993)	deleterious(0)	deleterious(0.895)	HMMPfam_Serpin,HMMSmart_SERPIN,superfamily_Prot_inh_serpin
SERPINA12	145264	genome.wustl.edu	37	14	94955977	94955977	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_173850.2	-1	provisional	p.R345C	0.001	131	0%	91	22%	0	-	probably_damaging(0.997)	tolerated(0.05)	deleterious(0.811)	HMMPfam_Serpin,HMMSmart_SERPIN,superfamily_Prot_inh_serpin
SERPINA12	145264	genome.wustl.edu	37	14	94962713	94962713	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_173850.2	-1	provisional	p.R301H	0.000	267	0.4%	148	27.7%	0	-	possibly_damaging(0.948)	tolerated(0.2)	neutral(0.440)	HMMPfam_Serpin,HMMSmart_SERPIN,superfamily_Prot_inh_serpin
SERPINA4	5267	genome.wustl.edu	37	14	95030338	95030338	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_006215.2	+1	provisional	p.Y173	0.000	236	0%	92	10.9%	0	-	-	-	-	HMMPfam_Serpin,HMMSmart_SERPIN,superfamily_Prot_inh_serpin
SERPINA3	12	genome.wustl.edu	37	14	95081309	95081309	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001085.4	+1	reviewed	p.K177N	0.001	122	0%	56	17.9%	11	18.1%	possibly_damaging(0.809)	deleterious(0.02)	deleterious(0.688)	HMMPfam_Serpin,HMMSmart_SM00093,superfamily_Serpins
DICER1	23405	genome.wustl.edu	37	14	95560475	95560475	+	Missense_Mutation	SNP	T	T	G	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_030621.3	-1	reviewed	p.E1705A	1.000	112	0%	29	24.1%	7	0%	probably_damaging(0.996)	deleterious(0)	deleterious(0.906)	HMMPfam_Ribonuclease_3,HMMSmart_RIBOc,PatternScan_RNASE_3_1,superfamily_RNase_III
DICER1	23405	genome.wustl.edu	37	14	95562308	95562308	+	Missense_Mutation	SNP	A	A	C	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_030621.3	-1	reviewed	p.F1650C	1.000	244	0%	65	16.9%	5	20%	possibly_damaging(0.741)	deleterious(0.01)	deleterious(0.677)	NULL
DICER1	23405	genome.wustl.edu	37	14	95583999	95583999	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_030621.3	-1	reviewed	p.R490H	1.000	747	0%	680	24%	0	-	probably_damaging(1)	tolerated(0.26)	deleterious(0.534)	HMMSmart_HELICc,superfamily_SSF52540
CLMN	79789	genome.wustl.edu	37	14	95670444	95670444	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_024734.3	-1	validated	p.N414	0.031	171	0%	91	22%	1	0%	-	-	-	NULL
CLMN	79789	genome.wustl.edu	37	14	95690157	95690157	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_024734.3	-1	validated	p.V60	0.265	369	0%	173	12.7%	0	-	-	-	-	HMMPfam_CH,HMMSmart_SM00033,superfamily_Calponin-homology domain CH-domain
TCL1B	9623	genome.wustl.edu	37	14	96152932	96152932	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_004918.2	+1	validated	p.R43H	0.000	81	0%	116	11.2%	0	-	benign(0)	tolerated(0.58)	neutral(0.005)	HMMPfam_TCL1_MTCP1,superfamily_TCL1_MTCP1
VRK1	7443	genome.wustl.edu	37	14	97321640	97321640	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_003384.2	+1	reviewed	p.R219I	1.000	377	0%	127	23.6%	10	60%	possibly_damaging(0.837)	deleterious(0)	deleterious(0.764)	superfamily_Kinase_like
VRK1	7443	genome.wustl.edu	37	14	97327072	97327072	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_003384.2	+1	reviewed	p.K356N	1.000	390	0%	113	10.6%	33	3%	probably_damaging(0.993)	tolerated(0.14)	deleterious(0.700)	NULL
SETD3	84193	genome.wustl.edu	37	14	99865344	99865344	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_032233.2	-1	validated	p.R486Q	0.992	285	0%	113	29.2%	47	27.6%	benign(0.144)	deleterious(0.02)	neutral(0.396)	superfamily_RuBisCo LSMT C-terminal substrate-binding domain
HHIPL1	84439	genome.wustl.edu	37	14	100118597	100118597	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001127258.1	+1	validated	p.E98K	1.000	79	0%	136	11%	0	-	possibly_damaging(0.69)	tolerated(0.14)	deleterious(0.496)	NULL
HHIPL1	84439	genome.wustl.edu	37	14	100118619	100118619	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001127258.1	+1	validated	p.R105H	0.999	83	0%	126	35.7%	0	-	probably_damaging(1)	deleterious(0)	deleterious(0.945)	NULL
HHIPL1	84439	genome.wustl.edu	37	14	100118904	100118904	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001127258.1	+1	validated	p.V200A	1.000	26	0%	45	20%	3	0%	possibly_damaging(0.941)	tolerated(0.2)	neutral(0.435)	superfamily_Soluble quinoprotein glucose dehydrogenase
HHIPL1	84439	genome.wustl.edu	37	14	100119031	100119031	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001127258.1	+1	validated	p.S242	0.963	11	0%	36	22.2%	0	-	-	-	-	superfamily_Soluble quinoprotein glucose dehydrogenase
HHIPL1	84439	genome.wustl.edu	37	14	100119155	100119155	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001127258.1	+1	validated	p.E284K	1.000	25	0%	54	27.8%	0	-	possibly_damaging(0.934)	deleterious(0.01)	deleterious(0.786)	superfamily_Soluble quinoprotein glucose dehydrogenase
CYP46A1	10858	genome.wustl.edu	37	14	100173109	100173109	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_006668.1	+1	reviewed	p.D190G	1.000	73	0%	66	15.2%	1	0%	probably_damaging(1)	deleterious(0)	deleterious(0.945)	HMMPfam_p450,superfamily_Cytochrome_P450
CYP46A1	10858	genome.wustl.edu	37	14	100191795	100191795	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_006668.1	+1	reviewed	p.R415H	1.000	104	0%	181	22.1%	1	0%	probably_damaging(1)	deleterious(0)	deleterious(0.945)	HMMPfam_p450,superfamily_Cytochrome_P450
EML1	2009	genome.wustl.edu	37	14	100405552	100405552	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001008707.1	+1	reviewed	p.S756L	1.000	107	0%	170	29.4%	9	0%	benign(0.408)	tolerated(0.16)	neutral(0.192)	NULL
MIR342	442909	genome.wustl.edu	37	14	100576066	100576066	+	RNA	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	ENST00000362212	+1	known	NULL	1.000	205	0.5%	64	29.7%	0	-	-	-	-	-
DEGS2	123099	genome.wustl.edu	37	14	100615340	100615340	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_206918.2	-1	reviewed	p.D264N	1.000	11	0%	26	19.2%	8	25%	probably_damaging(1)	deleterious(0)	deleterious(0.945)	HMMPfam_FA_desaturase
SLC25A29	123096	genome.wustl.edu	37	14	100765189	100765189	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001039355.1	-1	validated	p.D23G	1.000	66	0%	122	12.3%	13	7.6%	unknown(0)	deleterious(0)	-	superfamily_Mitochondrial carrier,HMMPfam_Mito_carr
WDR25	79446	genome.wustl.edu	37	14	100995528	100995528	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_024515.4	+1	validated	p.R466C	1.000	61	0%	73	26%	22	4.5%	probably_damaging(1)	deleterious(0.02)	deleterious(0.883)	HMMSmart_SM00320,superfamily_WD40 repeat-like
WDR25	79446	genome.wustl.edu	37	14	100996220	100996220	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_024515.4	+1	validated	p.A493T	0.993	33	0%	45	17.8%	15	20%	possibly_damaging(0.919)	tolerated(0.09)	deleterious(0.666)	HMMSmart_SM00320,superfamily_WD40 repeat-like
DLK1	8788	genome.wustl.edu	37	14	101198385	101198385	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_003836.5	+1	reviewed	p.R90Q	0.963	69	0%	107	14%	0	-	possibly_damaging(0.519)	tolerated(0.11)	neutral(0.446)	HMMSmart_SM00179,superfamily_EGF/Laminin
MIR493	574450	genome.wustl.edu	37	14	101335439	101335439	+	RNA	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	ENST00000385254	+1	known	NULL	0.998	240	0%	289	14.5%	0	-	-	-	-	-
RTL1	388015	genome.wustl.edu	37	14	101348666	101348666	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001134888.2	-1	reviewed	p.R820	0.607	118	0%	179	26.8%	0	-	-	-	-	superfamily_DNA/RNA polymerases
RTL1	388015	genome.wustl.edu	37	14	101348786	101348786	+	Silent	SNP	G	G	A	rs184376567	by1000genomes	TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001134888.2	-1	reviewed	p.F780	0.001	224	0%	342	18.1%	0	-	-	-	-	superfamily_DNA/RNA polymerases
RTL1	388015	genome.wustl.edu	37	14	101349908	101349908	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001134888.2	-1	reviewed	p.R406	0.000	40	0%	55	18.2%	0	-	-	-	-	superfamily_Acid proteases
MIR382	494331	genome.wustl.edu	37	14	101520688	101520688	+	RNA	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	ENST00000385009	+1	known	NULL	1.000	191	0%	133	27.1%	0	-	-	-	-	-
DIO3	1735	genome.wustl.edu	37	14	102028588	102028588	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001362.3	+1	reviewed	p.S226L	1.000	34	0%	88	23.9%	0	-	possibly_damaging(0.496)	tolerated(0.2)	neutral(0.215)	HMMPfam_T4_deiodinase
DIO3	1735	genome.wustl.edu	37	14	102028689	102028689	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001362.3	+1	reviewed	p.R260C	0.992	41	0%	80	22.5%	2	0%	probably_damaging(1)	deleterious(0.01)	deleterious(0.905)	HMMPfam_T4_deiodinase
PPP2R5C	5527	genome.wustl.edu	37	14	102276296	102276296	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_002719.3	+1	reviewed	p.K6R	1.000	227	0%	107	27.1%	7	0%	benign(0)	tolerated(0.23)	neutral(0.042)	NULL
DYNC1H1	1778	genome.wustl.edu	37	14	102463378	102463378	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001376.4	+1	reviewed	p.R1191C	1.000	105	0%	55	14.5%	2	0%	benign(0.157)	tolerated(0.07)	neutral(0.333)	NULL
DYNC1H1	1778	genome.wustl.edu	37	14	102476655	102476655	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001376.4	+1	reviewed	p.F2088	1.000	421	0.2%	189	53.4%	4	0%	-	-	-	superfamily_SSF52540
DYNC1H1	1778	genome.wustl.edu	37	14	102482370	102482370	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001376.4	+1	reviewed	p.A2474T	1.000	41	0%	31	29%	8	12.5%	benign(0.001)	tolerated(0.56)	neutral(0.006)	NULL
DYNC1H1	1778	genome.wustl.edu	37	14	102483493	102483493	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001376.4	+1	reviewed	p.C2639	0.999	337	0.3%	214	12.1%	9	0%	-	-	-	HMMSmart_AAA,HMMPfam_AAA_5,superfamily_SSF52540
DYNC1H1	1778	genome.wustl.edu	37	14	102505426	102505426	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001376.4	+1	reviewed	p.T3765	0.106	184	1.1%	156	15.4%	40	7.5%	-	-	-	NULL
HSP90AA1	3320	genome.wustl.edu	37	14	102549569	102549569	+	Silent	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001017963.2	-1	validated	p.I641	1.000	333	0%	387	11.4%	152	11.1%	-	-	-	superfamily_Ribosomal protein S5 domain 2-like,HMMPfam_HSP90
ZNF839	55778	genome.wustl.edu	37	14	102808333	102808333	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_018335.3	+1	validated	p.G867	0.001	84	0%	70	34.3%	15	26.6%	-	-	-	PatternScan_ABC_TRANSPORTER_1
TECPR2	9895	genome.wustl.edu	37	14	102898168	102898168	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_014844.3	+1	validated	p.R374C	0.001	42	0%	40	17.5%	0	-	probably_damaging(0.994)	deleterious(0.01)	deleterious(0.858)	NULL
TECPR2	9895	genome.wustl.edu	37	14	102901086	102901086	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_014844.3	+1	validated	p.L644	0.000	34	0%	32	15.6%	1	0%	-	-	-	NULL
RCOR1	23186	genome.wustl.edu	37	14	103180847	103180847	+	Nonsense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_015156.2	+1	validated	p.G313*	1.000	204	0%	72	23.6%	1	100%	-	-	-	NULL
TRAF3	7187	genome.wustl.edu	37	14	103371801	103371801	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_003300.2	+1	reviewed	p.D463N	1.000	320	0%	440	28.4%	14	28.5%	probably_damaging(1)	deleterious(0)	deleterious(0.945)	HMMPfam_MATH,HMMSmart_MATH,superfamily_Traf_like
CDC42BPB	9578	genome.wustl.edu	37	14	103412810	103412810	+	Missense_Mutation	SNP	A	A	C	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_006035.3	-1	reviewed	p.I1248S	0.998	77	0%	153	22.9%	9	0%	possibly_damaging(0.557)	deleterious(0)	deleterious(0.635)	HMMPfam_CNH,HMMSmart_CNH
CDC42BPB	9578	genome.wustl.edu	37	14	103420964	103420964	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_006035.3	-1	reviewed	p.S988F	0.006	44	0%	55	25.5%	14	7.1%	possibly_damaging(0.669)	tolerated(0.05)	deleterious(0.583)	NULL
TRMT61A	115708	genome.wustl.edu	37	14	103996558	103996558	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_152307.2	+1	validated	p.P81	0.097	48	0%	89	11.2%	17	0%	-	-	-	HMMPfam_GCD14,superfamily_S-adenosyl-L-methionine-dependent methyltransferases
TRMT61A	115708	genome.wustl.edu	37	14	103998944	103998944	+	Silent	SNP	C	C	T	rs182181764	by1000genomes	TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_152307.2	+1	validated	p.H119	0.998	18	0%	49	18.4%	12	25%	-	-	-	HMMPfam_GCD14,superfamily_S-adenosyl-L-methionine-dependent methyltransferases
PPP1R13B	23368	genome.wustl.edu	37	14	104212755	104212755	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_015316.2	-1	reviewed	p.S369P	1.000	96	0%	81	17.3%	5	40%	probably_damaging(0.976)	tolerated(0.07)	deleterious(0.737)	NULL
PPP1R13B	23368	genome.wustl.edu	37	14	104220493	104220493	+	Missense_Mutation	SNP	C	C	T	rs189373328	by1000genomes	TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_015316.2	-1	reviewed	p.R182Q	0.994	530	0%	406	14.8%	4	0%	probably_damaging(0.999)	tolerated(0.34)	deleterious(0.513)	NULL
TDRD9	122402	genome.wustl.edu	37	14	104452588	104452588	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_153046.2	+1	validated	p.T349N	0.725	528	0%	161	13%	0	-	benign(0.025)	tolerated(0.07)	neutral(0.320)	superfamily_P-loop containing nucleoside triphosphate hydrolases
TDRD9	122402	genome.wustl.edu	37	14	104473174	104473174	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_153046.2	+1	validated	p.A667T	1.000	241	0%	82	25.6%	0	-	probably_damaging(1)	deleterious(0.03)	deleterious(0.865)	NULL
TDRD9	122402	genome.wustl.edu	37	14	104492418	104492418	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_153046.2	+1	validated	p.V989A	0.671	575	0%	158	10.8%	0	-	probably_damaging(1)	tolerated(0.14)	deleterious(0.750)	HMMSmart_SM00333,HMMPfam_TUDOR,superfamily_Tudor/PWWP/MBT
TDRD9	122402	genome.wustl.edu	37	14	104508480	104508480	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_153046.2	+1	validated	p.E1310	0.423	377	0%	175	25.7%	0	-	-	-	-	NULL
ASPG	374569	genome.wustl.edu	37	14	104561890	104561890	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001080464.1	+1	provisional	p.G109D	1.000	51	0%	96	25%	0	-	probably_damaging(1)	deleterious(0)	deleterious(0.945)	HMMPfam_Asparaginase,PatternScan_ASN_GLN_ASE_2,superfamily_Glutaminase/Asparaginase
KIF26A	26153	genome.wustl.edu	37	14	104639769	104639769	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_015656.1	+1	validated	p.E596K	1.000	10	0%	20	20%	0	-	possibly_damaging(0.945)	deleterious(0.05)	deleterious(0.735)	HMMPfam_Kinesin,HMMSmart_KISc,superfamily_SSF52540
KIF26A	26153	genome.wustl.edu	37	14	104639831	104639831	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_015656.1	+1	validated	p.E616D	1.000	19	0%	29	31%	0	-	possibly_damaging(0.945)	tolerated(0.05)	deleterious(0.735)	HMMPfam_Kinesin,HMMSmart_KISc,superfamily_SSF52540
KIF26A	26153	genome.wustl.edu	37	14	104641739	104641739	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_015656.1	+1	validated	p.A872T	0.204	8	0.000	10	0.400	0	-	benign(0.058)	tolerated(0.07)	neutral(0.323)	NULL
KIF26A	26153	genome.wustl.edu	37	14	104646046	104646046	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_015656.1	+1	validated	p.A1856	0.989	20	0%	39	30.8%	2	50%	-	-	-	NULL
INF2	64423	genome.wustl.edu	37	14	105177501	105177501	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_022489.3	+1	validated	p.T799M	0.998	14	0%	57	15.8%	20	10%	probably_damaging(1)	deleterious(0)	deleterious(0.945)	HMMSmart_SM00498,HMMPfam_FH2,superfamily_Formin homology 2 domain (FH2 domain)
INF2	64423	genome.wustl.edu	37	14	105179615	105179615	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_022489.3	+1	validated	p.A949	0.749	45	2.2%	91	24.2%	13	7.6%	-	-	-	HMMSmart_SM00498
INF2	64423	genome.wustl.edu	37	14	105179822	105179822	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_022489.3	+1	validated	p.I973	1.000	50	0%	104	10.6%	30	0%	-	-	-	HMMSmart_SM00498
KIAA0284	283638	genome.wustl.edu	37	14	105360141	105360141	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001112726.1	+1	validated	p.S1409L	0.989	42	0%	73	19.2%	18	0%	probably_damaging(0.999)	deleterious(0.03)	deleterious(0.855)	NULL
PLD4	122618	genome.wustl.edu	37	14	105395231	105395231	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_138790.2	+1	validated	p.G144W	0.892	33	0%	58	25.9%	0	-	probably_damaging(0.999)	deleterious(0)	deleterious(0.935)	superfamily_SSF56024
AHNAK2	113146	genome.wustl.edu	37	14	105405994	105405994	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_138420.2	-1	validated	p.S5265Y	0.000	181	0%	196	23.5%	9	0%	probably_damaging(0.957)	tolerated(0.14)	deleterious(0.650)	NULL
AHNAK2	113146	genome.wustl.edu	37	14	105409300	105409300	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_138420.2	-1	validated	p.A4163V	0.000	229	0%	214	14.5%	6	66.6%	benign(0.03)	tolerated(0.2)	neutral(0.051)	NULL
AHNAK2	113146	genome.wustl.edu	37	14	105410342	105410342	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_138420.2	-1	validated	p.S3816P	0.286	290	0%	279	18.6%	0	-	unknown(0)	tolerated(0.06)	-	NULL
AHNAK2	113146	genome.wustl.edu	37	14	105410997	105410997	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_138420.2	-1	validated	p.V3597	0.018	187	0.5%	248	28.2%	1	0%	-	-	-	NULL
AHNAK2	113146	genome.wustl.edu	37	14	105415097	105415097	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_138420.2	-1	validated	p.G2231S	0.000	273	0%	272	11.4%	1	0%	benign(0.316)	tolerated(0.66)	neutral(0.102)	NULL
AHNAK2	113146	genome.wustl.edu	37	14	105416638	105416638	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_138420.2	-1	validated	p.V1717A	0.048	160	0%	173	30.6%	0	-	benign(0.005)	tolerated(0.3)	neutral(0.029)	HMMPfam_Involucrin
AHNAK2	113146	genome.wustl.edu	37	14	105419519	105419519	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_138420.2	-1	validated	p.H757Y	0.361	173	0%	194	28.4%	3	0%	benign(0.008)	tolerated(0.07)	neutral(0.319)	NULL
C14orf79	122616	genome.wustl.edu	37	14	105457832	105457832	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_174891.3	+1	validated	p.E192K	0.076	162	0%	270	24.8%	8	25%	probably_damaging(0.996)	tolerated(0.08)	deleterious(0.762)	NULL
CDCA4	55038	genome.wustl.edu	37	14	105478231	105478231	+	Missense_Mutation	SNP	G	G	C	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	ENST00000413736	-1	known	p.P4A	0.034	40	0%	60	30%	3	0%	-	-	-	NULL
GPR132	29933	genome.wustl.edu	37	14	105517472	105517472	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_013345.2	-1	reviewed	p.D334	0.000	224	0.4%	396	24.7%	1	0%	-	-	-	superfamily_Family A G protein-coupled receptor-like
GPR132	29933	genome.wustl.edu	37	14	105518273	105518273	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_013345.2	-1	reviewed	p.A67	0.000	30	0%	51	35.3%	0	-	-	-	-	HMMPfam_7tm_1,superfamily_Family A G protein-coupled receptor-like
GPR132	29933	genome.wustl.edu	37	14	105518283	105518283	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_013345.2	-1	reviewed	p.A64V	0.001	37	0%	61	31.1%	0	-	benign(0.044)	tolerated(0.43)	neutral(0.016)	HMMPfam_7tm_1,superfamily_Family A G protein-coupled receptor-like
JAG2	3714	genome.wustl.edu	37	14	105617240	105617240	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_002226.3	-1	reviewed	p.D464N	0.999	41	0%	72	29.2%	3	0%	probably_damaging(0.994)	deleterious(0.02)	deleterious(0.835)	HMMSmart_SM00179,HMMSmart_SM00181,PatternScan_EGF_CA,superfamily_EGF/Laminin
NUDT14	256281	genome.wustl.edu	37	14	105639420	105639420	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_177533.3	-1	validated	p.G203S	0.975	82	0%	151	26.5%	106	41.5%	probably_damaging(1)	tolerated(0.71)	deleterious(0.501)	HMMPfam_NUDIX,superfamily_NUDIX_hydrolase
BTBD6	90135	genome.wustl.edu	37	14	105716570	105716570	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_033271.2	+1	validated	p.R265Q	1.000	21	0%	53	28.3%	40	32.5%	probably_damaging(1)	deleterious(0)	deleterious(0.945)	HMMPfam_PHR
PACS2	23241	genome.wustl.edu	37	14	105843213	105843213	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001100913.1	+1	validated	p.D304N	1.000	33	0%	47	31.9%	9	22.2%	possibly_damaging(0.46)	deleterious(0.01)	deleterious(0.556)	NULL
MTA1	9112	genome.wustl.edu	37	14	105930812	105930812	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_004689.3	+1	reviewed	p.A418T	1.000	131	0%	219	11.9%	45	4.4%	benign(0.001)	tolerated(0.35)	neutral(0.021)	HMMPfam_GATA,HMMSmart_SM00401,superfamily_Glucocorticoid receptor-like (DNA-binding domain)
C14orf80	283643	genome.wustl.edu	37	14	105964953	105964953	+	Splice_Site	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001134875.1	+1	validated	e8-1	0.908	18	0%	36	36.1%	0	-	-	-	-	-
TMEM121	80757	genome.wustl.edu	37	14	105995238	105995238	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_025268.2	+1	provisional	p.A23T	1.000	45	0%	72	13.9%	4	0%	possibly_damaging(0.465)	tolerated(0.08)	neutral(0.453)	NULL
IGHA2	3494	genome.wustl.edu	37	14	106054592	106054592	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	ENST00000390539	-1	known	p.N47	0.000	131	0%	221	26.7%	79	0%	-	-	-	HMMPfam_C1-set,HMMSmart_SM00407,superfamily_Immunoglobulin
IGHA2	3494	genome.wustl.edu	37	14	106054718	106054718	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	ENST00000390539	-1	known	p.S5	0.000	97	0%	185	22.2%	28	0%	-	-	-	superfamily_Immunoglobulin
IGHE	3497	genome.wustl.edu	37	14	106067775	106067775	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	ENST00000390541	-1	known	p.V97	0.000	84	0%	214	22.4%	0	-	-	-	-	superfamily_SSF48726
IGHG4	3503	genome.wustl.edu	37	14	106092260	106092260	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	ENST00000390543	-1	known	p.S48	0.000	161	0%	287	32.4%	1296	0%	-	-	-	HMMPfam_C1-set,HMMSmart_IGc1,superfamily_SSF48726
IGHG2	3501	genome.wustl.edu	37	14	106110268	106110268	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	ENST00000390545	-1	known	p.P117L	0.114	154	0%	273	12.5%	269	0%	probably_damaging(0.999)	tolerated(0.4)	deleterious(0.506)	superfamily_SSF48726
IGHG3	3502	genome.wustl.edu	37	14	106236175	106236175	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	ENST00000390550	-1	known	p.T195M	0.000	290	0%	402	23.9%	802	0.1%	-	-	-	HMMPfam_C1-set,HMMSmart_SM00407,superfamily_Immunoglobulin
IGHM	3507	genome.wustl.edu	37	14	106321673	106321673	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	ENST00000390558	-1	known	p.A187V	0.000	63	0%	101	13.9%	444	0%	-	-	-	HMMPfam_C1-set,HMMSmart_SM00407,superfamily_Immunoglobulin
IGHJ4	28477	genome.wustl.edu	37	14	106330461	106330461	+	Missense_Mutation	SNP	A	A	C	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	ENST00000461719	-1	known	p.Y4D	0.000	126	0%	189	27.5%	144	1.3%	unknown(0)	-	-	NULL
IGHJ3	28479	genome.wustl.edu	37	14	106330831	106330831	+	Silent	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	ENST00000463911	-1	known	p.I5	0.240	181	0%	284	23.2%	77	0%	-	-	-	NULL
IGHV1-2	28474	genome.wustl.edu	37	14	106452954	106452954	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	ENST00000390594	-1	known	p.L23P	0.952	194	0%	81	17.3%	15	0%	probably_damaging(1)	deleterious(0)	deleterious(0.945)	HMMPfam_V-set,superfamily_Immunoglobulin
IGHV3-13	28449	genome.wustl.edu	37	14	106586190	106586190	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	ENST00000390602	-1	known	p.L99I	0.971	141	0%	69	27.5%	5	0%	probably_damaging(1)	deleterious(0)	deleterious(0.945)	HMMSmart_IGv,HMMPfam_V-set,superfamily_SSF48726
IGHV2-26	28455	genome.wustl.edu	37	14	106757785	106757785	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	ENST00000390611	-1	known	p.S74	0.000	147	0%	63	11.1%	1	0%	-	-	-	HMMSmart_SM00406,HMMPfam_V-set,superfamily_Immunoglobulin
IGHV3-35	28432	genome.wustl.edu	37	14	106845368	106845368	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	ENST00000390617	-1	known	p.T102	0.998	203	0%	138	21.7%	0	-	-	-	-	HMMSmart_IGv,HMMPfam_V-set,superfamily_SSF48726
IGHV4-39	28394	genome.wustl.edu	37	14	106878064	106878064	+	Missense_Mutation	SNP	A	A	G	rs182693461	by1000genomes	TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	ENST00000390619	-1	known	p.C5R	0.000	243	0%	186	24.7%	7	0%	possibly_damaging(0.567)	deleterious(0)	deleterious(0.639)	NULL
IGHV1-45	28466	genome.wustl.edu	37	14	106963114	106963114	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	ENST00000390621	-1	known	p.V56	0.564	339	0%	116	23.3%	0	-	-	-	-	HMMSmart_IGv,HMMPfam_V-set,superfamily_SSF48726
IGHV4-59	28392	genome.wustl.edu	37	14	107083680	107083680	+	Silent	SNP	T	T	C	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	ENST00000455737	-1	known	p.K2	0.000	858	0%	1026	12%	56	0%	-	-	-	NULL
IGHV1OR15-9	390531	genome.wustl.edu	37	15	20169920	20169920	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	ENST00000338912	-1	known	p.D118Y	1.000	223	0%	120	20.8%	0	-	-	-	-	HMMPfam_V-set
ENSG00000231400	0	genome.wustl.edu	37	15	20362841	20362841	+	Missense_Mutation	SNP	A	A	C	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	ENST00000442923	+1	known	p.N35H	1.000	404	0%	327	9.8%	3	0%	-	-	-	HMMPfam_DUF663
GOLGA6L6	727832	genome.wustl.edu	37	15	20739864	20739864	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001145004.1	-1	inferred	p.R629Q	0.189	238	0.8%	135	20%	0	-	unknown(0)	tolerated(0.2)	-	NULL
LOC727924	727924	genome.wustl.edu	37	15	22332707	22332707	+	RNA	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NR_015416.1	+1	predicted	NULL	0.978	657	0.2%	128	11.7%	0	-	-	-	-	-
OR4M2	390538	genome.wustl.edu	37	15	22369086	22369086	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001004719.2	+1	validated	p.P171S	0.980	1607	0%	406	13.8%	0	-	probably_damaging(0.975)	deleterious(0)	deleterious(0.861)	HMMPfam_7tm_1,superfamily_Family A G protein-coupled receptor-like
OR4N4	283694	genome.wustl.edu	37	15	22383016	22383016	+	Nonsense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001005241.1	+1	provisional	p.R182*	0.150	675	0.1%	382	13.6%	0	-	-	-	-	HMMPfam_7tm_1,superfamily_SSF81321
TUBGCP5	114791	genome.wustl.edu	37	15	22848884	22848884	+	Nonsense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001102610.1	+1	validated	p.R311*	0.270	296	0%	133	29.3%	1	0%	-	-	-	HMMPfam_Spc97_Spc98
CYFIP1	23191	genome.wustl.edu	37	15	22962518	22962518	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_014608.2	+1	validated	p.Y746	0.879	98	0%	127	26.8%	22	18.1%	-	-	-	HMMPfam_FragX_IP
CYFIP1	23191	genome.wustl.edu	37	15	22963834	22963834	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_014608.2	+1	validated	p.A783V	1.000	224	0%	234	19.2%	16	12.5%	probably_damaging(1)	deleterious(0.04)	deleterious(0.849)	HMMPfam_FragX_IP
NIPA2	81614	genome.wustl.edu	37	15	23006803	23006803	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001008860.2	-1	reviewed	p.F167	0.934	148	0%	101	29.7%	10	0%	-	-	-	HMMPfam_DUF803
NIPA1	123606	genome.wustl.edu	37	15	23049093	23049093	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_144599.4	-1	reviewed	p.I242	0.272	63	0%	104	30.8%	0	-	-	-	-	HMMPfam_DUF803
MKRN3	7681	genome.wustl.edu	37	15	23811082	23811082	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_005664.3	+1	reviewed	p.A51	0.001	21	0%	47	17%	0	-	-	-	-	NULL
MKRN3	7681	genome.wustl.edu	37	15	23811810	23811810	+	Missense_Mutation	SNP	A	A	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_005664.3	+1	reviewed	p.E294V	1.000	196	0.5%	265	15.1%	0	-	probably_damaging(0.999)	deleterious(0)	deleterious(0.935)	NULL
MKRN3	7681	genome.wustl.edu	37	15	23812278	23812278	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_005664.3	+1	reviewed	p.R450Q	0.072	249	0%	343	29.2%	2	100%	benign(0.004)	tolerated(1)	-	NULL
MAGEL2	54551	genome.wustl.edu	37	15	23890244	23890244	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_019066.4	-1	reviewed	p.S279	0.001	58	0%	134	11.9%	1	0%	-	-	-	NULL
MAGEL2	54551	genome.wustl.edu	37	15	23890781	23890781	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_019066.4	-1	reviewed	p.A100	0.000	34	0%	68	33.8%	0	-	-	-	-	NULL
C15orf2	23742	genome.wustl.edu	37	15	24922980	24922980	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_018958.2	+1	reviewed	p.P656S	0.001	252	0%	406	12.6%	0	-	benign(0)	-	-	NULL
C15orf2	23742	genome.wustl.edu	37	15	24923919	24923919	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_018958.2	+1	reviewed	p.A969T	0.000	143	0%	198	25.3%	0	-	probably_damaging(0.976)	deleterious(0)	deleterious(0.863)	NULL
C15orf2	23742	genome.wustl.edu	37	15	24924262	24924262	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_018958.2	+1	reviewed	p.S1083Y	0.000	126	0%	152	11.2%	0	-	probably_damaging(0.997)	-	-	NULL
UBE3A	7337	genome.wustl.edu	37	15	25616059	25616059	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_000462.2	-1	reviewed	p.R424Q	1.000	203	0%	71	23.9%	1	100%	probably_damaging(0.955)	tolerated(0.44)	neutral(0.411)	NULL
ATP10A	57194	genome.wustl.edu	37	15	25958884	25958884	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_024490.3	-1	reviewed	p.I761V	1.000	56	0%	83	20.5%	0	-	possibly_damaging(0.916)	tolerated(0.46)	neutral(0.379)	superfamily_SSF56784,superfamily_SSF81660
ATP10A	57194	genome.wustl.edu	37	15	25972389	25972389	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_024490.3	-1	reviewed	p.A255	0.187	349	0%	355	22.8%	0	-	-	-	-	HMMPfam_E1-E2_ATPase,superfamily_SSF81653
GABRB3	2562	genome.wustl.edu	37	15	26793205	26793205	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_000814.4	-1	reviewed	p.G386D	0.040	136	0%	34	23.5%	0	-	benign(0.008)	tolerated(0.07)	neutral(0.319)	HMMPfam_Neur_chan_memb,superfamily_Neurotransmitter-gated ion-channel transmembrane pore
GABRA5	2558	genome.wustl.edu	37	15	27182354	27182354	+	Silent	SNP	C	C	T	rs181785772	by1000genomes	TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_000810.3	+1	reviewed	p.V201	0.140	234	0.4%	177	24.9%	0	-	-	-	-	HMMPfam_Neur_chan_LBD,superfamily_Neur_chan_LBD
GABRG3	2567	genome.wustl.edu	37	15	27572001	27572001	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_033223.4	+1	validated	p.R106C	1.000	268	0%	148	16.9%	0	-	probably_damaging(1)	deleterious(0)	deleterious(0.945)	HMMPfam_Neur_chan_LBD,superfamily_Neur_chan_LBD
GABRG3	2567	genome.wustl.edu	37	15	27772697	27772697	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	ENST00000426363	+1	known	p.S137L	0.993	316	0%	203	22.7%	0	-	-	-	-	HMMPfam_Neur_chan_memb,superfamily_Neurotransmitter-gated ion-channel transmembrane pore
GABRG3	2567	genome.wustl.edu	37	15	27777915	27777915	+	Missense_Mutation	SNP	A	A	C	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_033223.4	+1	validated	p.K431T	0.612	286	0%	195	20.5%	0	-	benign(0.257)	tolerated(0.06)	neutral(0.349)	HMMPfam_Neur_chan_memb,superfamily_Neu_channel_TM
OCA2	4948	genome.wustl.edu	37	15	28090115	28090115	+	Nonsense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_000275.2	-1	reviewed	p.E808*	1.000	126	0%	64	37.5%	0	-	-	-	-	NULL
OCA2	4948	genome.wustl.edu	37	15	28196947	28196947	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_000275.2	-1	reviewed	p.G645D	1.000	358	0%	331	11.8%	0	-	possibly_damaging(0.741)	tolerated(0.49)	neutral(0.282)	HMMPfam_CitMHS
OCA2	4948	genome.wustl.edu	37	15	28228603	28228603	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_000275.2	-1	reviewed	p.P464L	0.998	143	0%	66	31.8%	0	-	probably_damaging(1)	deleterious(0.01)	deleterious(0.905)	HMMPfam_CitMHS
HERC2	8924	genome.wustl.edu	37	15	28357109	28357109	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_004667.4	-1	reviewed	p.P4769S	1.000	117	0%	168	26.8%	49	22.4%	probably_damaging(1)	deleterious(0)	deleterious(0.945)	HMMPfam_HECT,HMMSmart_SM00119,superfamily_Hect E3 ligase catalytic domain
HERC2	8924	genome.wustl.edu	37	15	28361972	28361972	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_004667.4	-1	reviewed	p.S4483I	1.000	42	0%	65	27.7%	8	25%	probably_damaging(1)	deleterious(0)	deleterious(0.945)	HMMSmart_SM00119,superfamily_Hect E3 ligase catalytic domain
HERC2	8924	genome.wustl.edu	37	15	28362261	28362261	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_004667.4	-1	reviewed	p.D4438N	1.000	52	0%	62	24.2%	11	18.1%	probably_damaging(0.97)	tolerated(0.21)	neutral(0.456)	superfamily_Hect E3 ligase catalytic domain
HERC2	8924	genome.wustl.edu	37	15	28478402	28478402	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_004667.4	-1	reviewed	p.P1522H	1.000	339	0%	143	11.9%	1	0%	probably_damaging(0.976)	deleterious(0)	deleterious(0.863)	NULL
HERC2	8924	genome.wustl.edu	37	15	28493707	28493707	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_004667.4	-1	reviewed	p.D1076N	0.991	338	0%	294	19.7%	1	0%	benign(0)	tolerated(0.3)	neutral(0.029)	NULL
HERC2	8924	genome.wustl.edu	37	15	28499565	28499565	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_004667.4	-1	reviewed	p.D991Y	1.000	508	0%	587	12.6%	0	-	probably_damaging(0.996)	deleterious(0)	deleterious(0.906)	NULL
HERC2	8924	genome.wustl.edu	37	15	28502305	28502305	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_004667.4	-1	reviewed	p.R807W	0.991	81	0%	131	22.1%	0	-	probably_damaging(1)	deleterious(0.02)	deleterious(0.883)	NULL
ENSG00000206149	0	genome.wustl.edu	37	15	28886151	28886151	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	ENST00000382946	+1	known	p.P358	0.852	1485	0.1%	553	5.8%	2	0%	-	-	-	NULL
ENSG00000206149	0	genome.wustl.edu	37	15	28886450	28886450	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	ENST00000382946	+1	known	p.I432	1.000	180	0%	74	23%	2	0%	-	-	-	NULL
ENSG00000206149	0	genome.wustl.edu	37	15	28900556	28900556	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	ENST00000382946	+1	known	p.P829	0.953	77	0%	47	40.4%	0	-	-	-	-	NULL
APBA2	321	genome.wustl.edu	37	15	29346257	29346257	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_005503.3	+1	reviewed	p.A57V	0.822	39	0%	47	25.5%	2	0%	benign(0)	tolerated(0.21)	neutral(0.044)	NULL
APBA2	321	genome.wustl.edu	37	15	29346518	29346518	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_005503.3	+1	reviewed	p.S144L	0.017	27	0%	30	20%	1	0%	benign(0.056)	tolerated(0.07)	neutral(0.323)	NULL
APBA2	321	genome.wustl.edu	37	15	29367149	29367149	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_005503.3	+1	reviewed	p.R326M	1.000	325	0%	150	26%	1	0%	possibly_damaging(0.664)	deleterious(0)	deleterious(0.679)	NULL
TJP1	7082	genome.wustl.edu	37	15	30011999	30011999	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_003257.3	-1	validated	p.S995	1.000	282	0%	153	12.4%	2	0%	-	-	-	NULL
TJP1	7082	genome.wustl.edu	37	15	30034972	30034972	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_003257.3	-1	validated	p.D342N	1.000	545	0%	243	19.8%	3	0%	benign(0.013)	tolerated(0.2)	neutral(0.050)	NULL
FAN1	22909	genome.wustl.edu	37	15	31197344	31197344	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_014967.4	+1	reviewed	p.S160P	1.000	123	0%	201	25.4%	2	0%	probably_damaging(0.995)	deleterious(0)	deleterious(0.902)	NULL
FAN1	22909	genome.wustl.edu	37	15	31197803	31197803	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_014967.4	+1	reviewed	p.K313E	0.000	184	0%	279	21.1%	1	0%	benign(0.156)	deleterious(0.04)	neutral(0.363)	NULL
MTMR10	54893	genome.wustl.edu	37	15	31269036	31269036	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_017762.2	-1	validated	p.P82T	1.000	359	0.3%	127	22%	0	-	benign(0.138)	tolerated(0.09)	neutral(0.308)	superfamily_PH domain-like
TRPM1	4308	genome.wustl.edu	37	15	31321574	31321574	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_002420.4	-1	reviewed	p.P1028S	1.000	392	0%	217	22.6%	0	-	benign(0.01)	tolerated(0.12)	neutral(0.261)	HMMPfam_Ion_trans
TRPM1	4308	genome.wustl.edu	37	15	31330359	31330359	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_002420.4	-1	reviewed	p.G754E	1.000	290	0%	156	11.5%	0	-	probably_damaging(0.991)	deleterious(0)	deleterious(0.889)	NULL
CHRNA7	1139	genome.wustl.edu	37	15	32451810	32451810	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_000746.3	+1	reviewed	p.L278	0.300	816	0.1%	559	21.6%	0	-	-	-	-	HMMPfam_Neur_chan_memb,superfamily_Neu_channel_TM
ARHGAP11A	9824	genome.wustl.edu	37	15	32929484	32929484	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_014783.3	+1	validated	p.P837H	1.000	182	0%	84	11.9%	2	0%	probably_damaging(1)	deleterious(0)	deleterious(0.945)	NULL
RYR3	6263	genome.wustl.edu	37	15	33938587	33938587	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001036.3	+1	validated	p.P1267	0.018	114	0%	33	21.2%	0	-	-	-	-	NULL
RYR3	6263	genome.wustl.edu	37	15	33945009	33945009	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001036.3	+1	validated	p.I1411	0.166	191	0.5%	78	28.2%	0	-	-	-	-	HMMPfam_SPRY,HMMSmart_SM00449
RYR3	6263	genome.wustl.edu	37	15	33955008	33955008	+	Silent	SNP	T	T	C	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001036.3	+1	validated	p.S1759	0.020	555	0.2%	525	23.4%	0	-	-	-	-	NULL
RYR3	6263	genome.wustl.edu	37	15	33955759	33955759	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001036.3	+1	validated	p.L1814I	1.000	99	0%	94	27.7%	0	-	benign(0.099)	-	-	NULL
RYR3	6263	genome.wustl.edu	37	15	34015060	34015060	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001036.3	+1	validated	p.A2255V	0.207	86	0%	25	40%	0	-	benign(0.005)	-	-	NULL
RYR3	6263	genome.wustl.edu	37	15	34078153	34078153	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001036.3	+1	validated	p.D3187N	1.000	124	0%	35	20%	0	-	possibly_damaging(0.84)	-	-	NULL
RYR3	6263	genome.wustl.edu	37	15	34119444	34119444	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001036.3	+1	validated	p.V3764M	0.999	158	0%	49	28.6%	0	-	probably_damaging(1)	-	-	HMMPfam_RIH_assoc
RYR3	6263	genome.wustl.edu	37	15	34130377	34130377	+	Nonsense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001036.3	+1	validated	p.R4066*	0.999	251	0%	107	13.1%	0	-	-	-	-	NULL
RYR3	6263	genome.wustl.edu	37	15	34151898	34151898	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001036.3	+1	validated	p.F4755L	1.000	736	0%	512	17.6%	1	0%	possibly_damaging(0.94)	-	-	HMMPfam_Ion_trans
PGBD4	161779	genome.wustl.edu	37	15	34395740	34395740	+	Silent	SNP	T	T	G	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_152595.4	+1	validated	p.S336	0.987	200	0%	162	24.1%	2	0%	-	-	-	NULL
PGBD4	161779	genome.wustl.edu	37	15	34396279	34396279	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_152595.4	+1	validated	p.P516H	0.245	186	0%	164	21.3%	12	41.6%	probably_damaging(1)	deleterious(0.01)	deleterious(0.905)	NULL
TMEM85	51234	genome.wustl.edu	37	15	34517394	34517394	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_016454.2	+1	provisional	p.G27C	1.000	53	0%	23	21.7%	43	4.6%	probably_damaging(0.997)	tolerated(0.06)	deleterious(0.788)	NULL
SLC12A6	9990	genome.wustl.edu	37	15	34538065	34538065	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_133647.1	-1	reviewed	p.F551	1.000	112	0%	46	21.7%	0	-	-	-	-	HMMPfam_AA_permease
C15orf55	256646	genome.wustl.edu	37	15	34640712	34640712	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_175741.1	+1	validated	p.G187R	0.003	47	0%	31	32.3%	0	-	benign(0.052)	tolerated(0.32)	neutral(0.027)	NULL
ACTC1	70	genome.wustl.edu	37	15	35084435	35084435	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_005159.4	-1	reviewed	p.A222T	1.000	164	0%	218	22.9%	0	-	benign(0.264)	-	-	HMMPfam_Actin,HMMSmart_SM00268,superfamily_Actin-like ATPase domain
ACTC1	70	genome.wustl.edu	37	15	35084633	35084633	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_005159.4	-1	reviewed	p.R198C	1.000	132	0%	207	22.7%	0	-	possibly_damaging(0.905)	-	-	HMMPfam_Actin,HMMSmart_SM00268,superfamily_Actin-like ATPase domain
ACTC1	70	genome.wustl.edu	37	15	35084689	35084689	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_005159.4	-1	reviewed	p.R179H	1.000	184	0%	293	10.2%	3	0%	possibly_damaging(0.807)	-	-	HMMPfam_Actin,HMMSmart_SM00268,superfamily_Actin-like ATPase domain
AQR	9716	genome.wustl.edu	37	15	35192845	35192845	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_014691.2	-1	validated	p.A741T	1.000	307	0%	211	19.9%	1	0%	benign(0.001)	tolerated(0.55)	neutral(0.007)	NULL
AQR	9716	genome.wustl.edu	37	15	35196597	35196597	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_014691.2	-1	validated	p.E647D	1.000	484	0%	273	22.7%	1	100%	benign(0.026)	tolerated(0.43)	neutral(0.014)	NULL
AQR	9716	genome.wustl.edu	37	15	35253006	35253006	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_014691.2	-1	validated	p.D48Y	1.000	269	0%	125	17.6%	0	-	possibly_damaging(0.774)	deleterious(0.02)	deleterious(0.671)	NULL
ZNF770	54989	genome.wustl.edu	37	15	35274866	35274866	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_014106.2	-1	validated	p.R257H	0.000	114	0%	118	25.4%	0	-	benign(0.113)	tolerated(0.55)	neutral(0.016)	NULL
C15orf41	84529	genome.wustl.edu	37	15	36872100	36872100	+	Missense_Mutation	SNP	G	G	C	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001130010.1	+1	validated	p.Q13H	1.000	84	0%	104	29.8%	2	0%	benign(0.132)	tolerated(0.12)	neutral(0.272)	NULL
MEIS2	4212	genome.wustl.edu	37	15	37388589	37388589	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_170675.2	-1	reviewed	p.C96	1.000	61	0%	105	13.3%	1	0%	-	-	-	NULL
TMCO5A	145942	genome.wustl.edu	37	15	38229071	38229071	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_152453.2	+1	provisional	p.T55M	0.000	223	0%	107	29%	0	-	benign(0.079)	deleterious(0)	neutral(0.450)	NULL
FAM98B	283742	genome.wustl.edu	37	15	38757592	38757592	+	Missense_Mutation	SNP	T	T	G	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_173611.2	+1	validated	p.L114V	1.000	157	0%	46	26.1%	2	0%	probably_damaging(1)	tolerated(0.09)	deleterious(0.796)	HMMPfam_DUF2465
FAM98B	283742	genome.wustl.edu	37	15	38762477	38762477	+	Silent	SNP	A	A	G	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_173611.2	+1	validated	p.K134	0.802	168	0%	41	17.1%	5	0%	-	-	-	HMMPfam_DUF2465
FAM98B	283742	genome.wustl.edu	37	15	38773532	38773532	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_173611.2	+1	validated	p.R257C	1.000	155	0.6%	235	14.9%	24	8.3%	probably_damaging(1)	deleterious(0)	deleterious(0.945)	HMMPfam_DUF2465
RASGRP1	10125	genome.wustl.edu	37	15	38803841	38803841	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_005739.3	-1	reviewed	p.K310N	1.000	160	0.6%	25	16%	0	-	possibly_damaging(0.752)	tolerated(0.07)	deleterious(0.595)	HMMPfam_RasGEF,HMMSmart_SM00147,superfamily_Ras GEF
RASGRP1	10125	genome.wustl.edu	37	15	38808489	38808489	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_005739.3	-1	reviewed	p.R195Q	1.000	475	0%	125	16%	0	-	probably_damaging(0.997)	deleterious(0.03)	deleterious(0.831)	superfamily_Ras GEF
C15orf53	400359	genome.wustl.edu	37	15	38988909	38988909	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_207444.2	+1	validated	p.S34N	0.000	170	0%	46	13%	0	-	benign(0.429)	-	-	NULL
C15orf54	400360	genome.wustl.edu	37	15	39544541	39544541	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_207445.2	+1	validated	p.A69T	0.000	157	0%	44	22.7%	0	-	unknown(0)	-	-	NULL
THBS1	7057	genome.wustl.edu	37	15	39885689	39885689	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_003246.2	+1	reviewed	p.Y1029	1.000	93	0%	46	28.3%	218	0%	-	-	-	HMMPfam_TSP_C,superfamily_Concanavalin A-like lectins/glucanases
FSIP1	161835	genome.wustl.edu	37	15	39893117	39893117	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_152597.4	-1	validated	p.E570D	0.180	199	0%	67	14.9%	0	-	benign(0.035)	deleterious(0)	neutral(0.447)	NULL
FSIP1	161835	genome.wustl.edu	37	15	40057852	40057852	+	Nonsense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_152597.4	-1	validated	p.E136*	1.000	738	0%	373	20.4%	0	-	-	-	-	NULL
FSIP1	161835	genome.wustl.edu	37	15	40057865	40057865	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_152597.4	-1	validated	p.K131N	0.779	742	0%	368	13.6%	0	-	probably_damaging(0.99)	deleterious(0.04)	deleterious(0.790)	NULL
EIF2AK4	440275	genome.wustl.edu	37	15	40309311	40309311	+	Silent	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001013703.2	+1	validated	p.V1311	0.928	417	0.2%	137	10.9%	7	28.5%	-	-	-	superfamily_Class II aaRS and biotin synthetases
SRP14	6727	genome.wustl.edu	37	15	40330484	40330484	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_003134.4	-1	validated	p.V70A	1.000	282	0.4%	367	20.4%	596	20.1%	probably_damaging(0.998)	tolerated(0.12)	deleterious(0.735)	HMMPfam_SRP14,superfamily_SRP9/14
PAK6	56924	genome.wustl.edu	37	15	40565139	40565139	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001128628.1	+1	reviewed	p.L477	1.000	124	0%	162	20.4%	0	-	-	-	-	HMMSmart_SM00219,HMMSmart_SM00220,superfamily_Protein kinase-like (PK-like),HMMPfam_Pkinase
PLCB2	5330	genome.wustl.edu	37	15	40585888	40585888	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_004573.2	-1	validated	p.R700H	0.998	105	0%	175	14.3%	0	-	possibly_damaging(0.771)	deleterious(0.03)	deleterious(0.651)	HMMPfam_C2,HMMSmart_SM00239,superfamily_C2 domain (Calcium/lipid-binding domain CaLB)
BAHD1	22893	genome.wustl.edu	37	15	40751333	40751333	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_014952.3	+1	validated	p.R224W	0.712	12	0%	38	34.2%	2	0%	probably_damaging(0.999)	deleterious(0)	deleterious(0.935)	NULL
BAHD1	22893	genome.wustl.edu	37	15	40751606	40751606	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_014952.3	+1	validated	p.P315S	1.000	33	0%	59	11.9%	0	-	probably_damaging(0.999)	deleterious(0)	deleterious(0.935)	NULL
BAHD1	22893	genome.wustl.edu	37	15	40751721	40751721	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_014952.3	+1	validated	p.S353L	0.973	39	0%	76	18.4%	5	0%	benign(0.009)	deleterious(0)	neutral(0.445)	NULL
ENSG00000246741	0	genome.wustl.edu	37	15	40849194	40849195	+	RNA	INS	-	-	AA	rs10647114	byCluster;by1000genomes	TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	-	-					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	ENST00000501408	+1	known	NULL	0.009:0.008	-	-	-	-	-	-	-	-	-	-
ENSG00000246741	0	genome.wustl.edu	37	15	40849643	40849643	+	RNA	SNP	A	A	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	ENST00000501408	+1	known	NULL	0.016	142	0%	57	24.6%	0	-	-	-	-	-
CASC5	57082	genome.wustl.edu	37	15	40914335	40914335	+	Nonsense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_170589.3	+1	validated	p.R651*	0.004	217	0%	68	27.9%	0	-	-	-	-	NULL
CASC5	57082	genome.wustl.edu	37	15	40920291	40920291	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_170589.3	+1	validated	p.E1826D	0.000	212	0.5%	48	22.9%	0	-	possibly_damaging(0.857)	tolerated(0.68)	neutral(0.333)	NULL
CASC5	57082	genome.wustl.edu	37	15	40944294	40944294	+	Nonsense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_170589.3	+1	validated	p.E2162*	0.998	290	0%	105	21.9%	2	0%	-	-	-	NULL
RAD51	5888	genome.wustl.edu	37	15	41020959	41020959	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_002875.4	+1	reviewed	p.A194V	1.000	383	0%	209	28.2%	6	100%	benign(0.043)	deleterious(0.04)	neutral(0.351)	HMMSmart_SM00382,HMMPfam_Rad51,superfamily_P-loop containing nucleoside triphosphate hydrolases
VPS18	57617	genome.wustl.edu	37	15	41192215	41192215	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_020857.2	+1	reviewed	p.R400H	1.000	28	0%	59	27.1%	7	14.2%	probably_damaging(0.977)	deleterious(0.03)	deleterious(0.783)	HMMPfam_Pep3_Vps18
CHAC1	79094	genome.wustl.edu	37	15	41247666	41247666	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_024111.3	+1	validated	p.Y163	0.753	44	0%	105	26.7%	1	100%	-	-	-	HMMPfam_ChaC,superfamily_BtrG-like (Pfam 03674)
INO80	54617	genome.wustl.edu	37	15	41275084	41275084	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_017553.1	-1	reviewed	p.A1477T	1.000	66	0%	34	11.8%	3	0%	benign(0.228)	deleterious(0.02)	neutral(0.406)	NULL
INO80	54617	genome.wustl.edu	37	15	41289767	41289767	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_017553.1	-1	reviewed	p.R1177Q	1.000	328	0%	137	29.2%	0	-	probably_damaging(1)	deleterious(0)	deleterious(0.945)	HMMPfam_Helicase_C,HMMSmart_SM00490,superfamily_P-loop containing nucleoside triphosphate hydrolases
INO80	54617	genome.wustl.edu	37	15	41319844	41319844	+	Missense_Mutation	SNP	G	G	A	rs149600837		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_017553.1	-1	reviewed	p.R1000C	1.000	54	0%	28	21.4%	1	0%	benign(0)	tolerated(0.18)	neutral(0.056)	NULL
EXD1	161829	genome.wustl.edu	37	15	41476578	41476578	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_152596.2	-1	provisional	p.P366S	0.006	287	0%	166	21.7%	0	-	probably_damaging(0.999)	deleterious(0.01)	deleterious(0.896)	NULL
EXD1	161829	genome.wustl.edu	37	15	41483643	41483643	+	Silent	SNP	A	A	G	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_152596.2	-1	provisional	p.I229	0.023	257	0.4%	110	22.7%	0	-	-	-	-	HMMSmart_SM00474,superfamily_Ribonuclease H-like
EXD1	161829	genome.wustl.edu	37	15	41508971	41508971	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_152596.2	-1	provisional	p.M37V	0.012	345	0%	174	24.7%	0	-	benign(0)	tolerated(0.06)	neutral(0.323)	NULL
EXD1	161829	genome.wustl.edu	37	15	41509313	41509313	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_152596.2	-1	provisional	p.A23E	0.997	244	0%	128	22.7%	0	-	benign(0)	tolerated(1)	-	NULL
NUSAP1	51203	genome.wustl.edu	37	15	41641345	41641345	+	Missense_Mutation	SNP	T	T	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_016359.3	+1	validated	p.I71N	0.006	150	0%	72	27.8%	1	0%	benign(0.071)	tolerated(0.43)	neutral(0.018)	NULL
NDUFAF1	51103	genome.wustl.edu	37	15	41687139	41687139	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_016013.2	-1	validated	p.D226G	1.000	202	0%	180	15%	36	19.4%	probably_damaging(0.996)	deleterious(0.02)	deleterious(0.845)	HMMPfam_CIA30
NDUFAF1	51103	genome.wustl.edu	37	15	41689012	41689012	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_016013.2	-1	validated	p.F82	1.000	212	0.5%	186	25.8%	16	6.2%	-	-	-	NULL
RPAP1	26015	genome.wustl.edu	37	15	41816111	41816111	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_015540.2	-1	reviewed	p.S765Y	1.000	63	0%	63	23.8%	1	0%	probably_damaging(0.996)	deleterious(0.01)	deleterious(0.867)	NULL
RPAP1	26015	genome.wustl.edu	37	15	41828413	41828413	+	Nonsense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_015540.2	-1	reviewed	p.R112*	1.000	128	0%	108	12%	1	0%	-	-	-	NULL
RPAP1	26015	genome.wustl.edu	37	15	41829257	41829257	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_015540.2	-1	reviewed	p.A23T	0.051	111	0%	63	9.5%	2	0%	benign(0.092)	deleterious(0.02)	neutral(0.390)	NULL
TYRO3	7301	genome.wustl.edu	37	15	41853814	41853814	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_006293.3	+1	reviewed	p.Q129R	1.000	60	0%	96	30.2%	0	-	possibly_damaging(0.897)	deleterious(0.03)	deleterious(0.718)	superfamily_SSF48726
TYRO3	7301	genome.wustl.edu	37	15	41866008	41866008	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_006293.3	+1	reviewed	p.E759D	0.989	75	0%	48	20.8%	2	50%	benign(0.038)	tolerated(1)	neutral(0.002)	HMMPfam_Pkinase_Tyr,HMMSmart_TyrKc,superfamily_Kinase_like
MGA	23269	genome.wustl.edu	37	15	42034889	42034889	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001080541.2	+1	validated	p.V1626	1.000	163	0.6%	44	25%	0	-	-	-	-	NULL
MGA	23269	genome.wustl.edu	37	15	42041980	42041980	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001080541.2	+1	validated	p.D2108Y	0.000	241	0%	92	30.4%	1	0%	benign(0.229)	deleterious(0)	neutral(0.468)	NULL
MGA	23269	genome.wustl.edu	37	15	42042399	42042399	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001080541.2	+1	validated	p.D2247	0.461	315	0%	108	26.9%	0	-	-	-	-	NULL
JMJD7-PLA2G4B	8681	genome.wustl.edu	37	15	42128423	42128423	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_005090.3	+1	validated	p.R203W	1.000	67	0%	116	10.3%	10	10%	probably_damaging(1)	deleterious(0.04)	deleterious(0.849)	HMMSmart_SM00558,superfamily_C2 domain (Calcium/lipid-binding domain CaLB),superfamily_Clavaminate synthase-like
JMJD7-PLA2G4B	8681	genome.wustl.edu	37	15	42136721	42136721	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_005090.3	+1	validated	p.S542Y	0.679	186	0%	254	23.6%	10	40%	probably_damaging(1)	deleterious(0)	deleterious(0.945)	HMMPfam_PLA2_B,HMMSmart_SM00022,superfamily_FabD/lysophospholipase-like
SPTBN5	51332	genome.wustl.edu	37	15	42159244	42159244	+	Silent	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_016642.2	-1	validated	p.R2096	0.000	10	0%	16	25%	0	-	-	-	-	HMMPfam_Spectrin,HMMSmart_SM00150,superfamily_Spectrin repeat
SPTBN5	51332	genome.wustl.edu	37	15	42162518	42162518	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_016642.2	-1	validated	p.R1831W	0.998	38	0%	105	24.8%	0	-	probably_damaging(0.994)	deleterious(0.01)	deleterious(0.858)	HMMPfam_Spectrin,HMMSmart_SM00150
PLA2G4E	123745	genome.wustl.edu	37	15	42292154	42292154	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001080490.1	-1	provisional	p.L270	0.086	86	0%	76	18.4%	0	-	-	-	-	NULL
PLA2G4D	283748	genome.wustl.edu	37	15	42373291	42373291	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_178034.3	-1	validated	p.R333L	1.000	83	0%	126	24.6%	0	-	probably_damaging(1)	deleterious(0)	deleterious(0.945)	HMMPfam_PLA2_B,HMMSmart_SM00022,superfamily_FabD/lysophospholipase-like
PLA2G4F	255189	genome.wustl.edu	37	15	42434743	42434743	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_213600.3	-1	validated	p.R771H	0.998	55	0%	37	18.9%	0	-	probably_damaging(0.998)	deleterious(0.01)	deleterious(0.880)	HMMSmart_SM00022,superfamily_FabD/lysophospholipase-like
CAPN3	825	genome.wustl.edu	37	15	42686494	42686494	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_000070.2	+1	reviewed	p.R357Q	1.000	344	0%	172	23.3%	0	-	probably_damaging(1)	deleterious(0)	deleterious(0.945)	HMMPfam_Peptidase_C2,HMMSmart_SM00230,superfamily_Cysteine proteinases
SNAP23	8773	genome.wustl.edu	37	15	42807447	42807447	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_003825.2	+1	reviewed	p.R54H	1.000	242	0%	75	25.3%	25	12%	probably_damaging(1)	deleterious(0)	deleterious(0.945)	HMMSmart_SM00397
STARD9	57519	genome.wustl.edu	37	15	42930920	42930920	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	XM_001129482.3	+1	model	p.R157W	1.000	376	0%	105	18.1%	0	-	probably_damaging(1)	-	-	HMMPfam_Kinesin,HMMSmart_SM00129,superfamily_P-loop containing nucleoside triphosphate hydrolases
STARD9	57519	genome.wustl.edu	37	15	42978916	42978916	+	Missense_Mutation	SNP	A	A	C	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	XM_001129482.3	+1	model	p.N1628H	0.000	180	0%	54	25.9%	0	-	possibly_damaging(0.815)	-	-	NULL
STARD9	57519	genome.wustl.edu	37	15	42979790	42979790	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	XM_001129482.3	+1	model	p.R1919M	0.000	184	0%	61	26.2%	0	-	probably_damaging(0.995)	-	-	NULL
STARD9	57519	genome.wustl.edu	37	15	42980294	42980294	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	XM_001129482.3	+1	model	p.S2087L	0.000	116	0%	65	21.5%	0	-	benign(0)	-	-	NULL
STARD9	57519	genome.wustl.edu	37	15	42981113	42981113	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	XM_001129482.3	+1	model	p.G2360E	0.000	191	0%	56	17.9%	0	-	benign(0.008)	-	-	NULL
STARD9	57519	genome.wustl.edu	37	15	42981334	42981334	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	XM_001129482.3	+1	model	p.G2434S	0.000	117	0%	53	20.8%	0	-	benign(0)	-	-	NULL
STARD9	57519	genome.wustl.edu	37	15	42983823	42983823	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	XM_001129482.3	+1	model	p.D3263	0.002	186	0%	86	20.9%	1	0%	-	-	-	NULL
STARD9	57519	genome.wustl.edu	37	15	42983933	42983933	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	XM_001129482.3	+1	model	p.A3300V	0.001	122	0%	50	28%	0	-	benign(0.076)	-	-	NULL
CDAN1	146059	genome.wustl.edu	37	15	43022806	43022806	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_138477.2	-1	reviewed	p.R722C	0.998	53	0%	54	35.2%	3	33.3%	possibly_damaging(0.946)	tolerated(0.19)	neutral(0.440)	NULL
CDAN1	146059	genome.wustl.edu	37	15	43023149	43023149	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_138477.2	-1	reviewed	p.D661Y	1.000	95	0%	128	11.7%	3	33.3%	probably_damaging(0.996)	deleterious(0.04)	deleterious(0.810)	NULL
CDAN1	146059	genome.wustl.edu	37	15	43028094	43028094	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_138477.2	-1	reviewed	p.R251Q	1.000	157	0%	268	26.1%	0	-	probably_damaging(1)	deleterious(0.03)	deleterious(0.865)	NULL
LOC100289126	100289126	genome.wustl.edu	37	15	43028273	43028273	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	XM_002343340.1	+1	model	p.L102F	1.000	184	0%	303	10.9%	0	-	-	-	-	NULL
TMEM62	80021	genome.wustl.edu	37	15	43473499	43473499	+	Splice_Site	SNP	T	T	C	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_024956.3	+1	provisional	e13+2	1.000	440	0%	492	25.8%	8	100%	-	-	-	-
TGM7	116179	genome.wustl.edu	37	15	43574189	43574189	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_052955.2	-1	validated	p.A402T	1.000	89	0%	68	20.6%	0	-	probably_damaging(0.999)	deleterious(0)	deleterious(0.935)	superfamily_SSF54001
TGM7	116179	genome.wustl.edu	37	15	43585079	43585079	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_052955.2	-1	validated	p.W89C	1.000	165	0.6%	283	23.3%	0	-	probably_damaging(1)	deleterious(0)	deleterious(0.945)	HMMPfam_Transglut_N,superfamily_Ig_E-set
ADAL	161823	genome.wustl.edu	37	15	43635203	43635203	+	Missense_Mutation	SNP	A	A	C	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001012969.2	+1	validated	p.K119Q	1.000	326	0%	139	21.6%	1	0%	benign(0.008)	tolerated(0.3)	neutral(0.029)	HMMPfam_A_deaminase,superfamily_SSF51556
ZSCAN29	146050	genome.wustl.edu	37	15	43656386	43656386	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_152455.3	-1	validated	p.R473W	1.000	117	0%	90	32.2%	3	33.3%	probably_damaging(1)	deleterious(0)	deleterious(0.945)	HMMPfam_MADF_DNA_bdg
ZSCAN29	146050	genome.wustl.edu	37	15	43658744	43658744	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_152455.3	-1	validated	p.Q262H	1.000	227	0%	249	15.3%	2	0%	probably_damaging(0.995)	deleterious(0)	deleterious(0.902)	NULL
ZSCAN29	146050	genome.wustl.edu	37	15	43658872	43658872	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_152455.3	-1	validated	p.L220M	0.996	216	0%	249	24.5%	3	66.6%	probably_damaging(0.97)	tolerated(0.21)	neutral(0.456)	NULL
ZSCAN29	146050	genome.wustl.edu	37	15	43659001	43659001	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_152455.3	-1	validated	p.P177S	1.000	99	0%	136	24.3%	0	-	probably_damaging(0.978)	deleterious(0.01)	deleterious(0.826)	NULL
TP53BP1	7158	genome.wustl.edu	37	15	43707816	43707816	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001141980.1	-1	validated	p.R1689C	1.000	133	0%	51	37.3%	27	22.2%	probably_damaging(1)	deleterious(0)	deleterious(0.945)	HMMSmart_BRCT
TP53BP1	7158	genome.wustl.edu	37	15	43712600	43712600	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001141980.1	-1	validated	p.Y1528	0.996	216	0%	125	34.4%	22	9%	-	-	-	HMMPfam_53-BP1_Tudor,superfamily_SSF63748
TP53BP1	7158	genome.wustl.edu	37	15	43771617	43771617	+	Nonsense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001141980.1	-1	validated	p.E256*	0.013	460	0%	438	23.7%	0	-	-	-	-	NULL
MAP1A	4130	genome.wustl.edu	37	15	43813874	43813874	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_002373.5	+1	reviewed	p.R68H	1.000	312	0.3%	330	27%	3	33.3%	probably_damaging(0.956)	deleterious(0.03)	deleterious(0.764)	superfamily_Metallo-hydrolase/oxidoreductase
MAP1A	4130	genome.wustl.edu	37	15	43814325	43814325	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_002373.5	+1	reviewed	p.K218	1.000	104	0%	144	25.7%	1	0%	-	-	-	NULL
MAP1A	4130	genome.wustl.edu	37	15	43815086	43815086	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_002373.5	+1	reviewed	p.R472H	1.000	127	0%	125	12%	3	0%	probably_damaging(1)	deleterious(0)	deleterious(0.945)	NULL
MAP1A	4130	genome.wustl.edu	37	15	43815991	43815991	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_002373.5	+1	reviewed	p.D774Y	1.000	25	0%	32	21.9%	1	0%	probably_damaging(1)	deleterious(0)	deleterious(0.945)	NULL
CATSPER2	117155	genome.wustl.edu	37	15	43932619	43932619	+	Missense_Mutation	SNP	A	A	C	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_172095.1	-1	reviewed	p.L155R	0.248	287	0%	204	11.3%	2	0%	possibly_damaging(0.906)	tolerated(0.06)	deleterious(0.682)	HMMPfam_Ion_trans,superfamily_Voltage-gated potassium channels
CKMT1A	548596	genome.wustl.edu	37	15	43990274	43990274	+	Silent	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001015001.1	+1	reviewed	p.I313	1.000	726	0%	723	15.2%	7	0%	-	-	-	HMMPfam_ATP-gua_Ptrans,superfamily_SSF55931
STRC	161497	genome.wustl.edu	37	15	43992303	43992303	+	Silent	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	ENST00000381686	-1	known	p.G1663	0.958	118	0%	139	19.4%	0	-	-	-	-	NULL
ELL3	80237	genome.wustl.edu	37	15	44068078	44068078	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_025165.2	-1	validated	p.R109C	0.998	125	0%	211	32.2%	4	0%	probably_damaging(1)	deleterious(0)	deleterious(0.945)	HMMPfam_ELL
SERINC4	619189	genome.wustl.edu	37	15	44088824	44088824	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001033517.1	-1	provisional	p.L109I	1.000	304	0.3%	325	12.3%	0	-	probably_damaging(0.998)	tolerated(0.16)	deleterious(0.534)	NULL
SERINC4	619189	genome.wustl.edu	37	15	44089074	44089074	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001033517.1	-1	provisional	p.F59L	1.000	313	0%	316	13%	0	-	probably_damaging(1)	deleterious(0.01)	deleterious(0.905)	HMMPfam_Serinc
MFAP1	4236	genome.wustl.edu	37	15	44106724	44106724	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_005926.2	-1	validated	p.R198C	1.000	382	0%	197	24.4%	17	11.7%	probably_damaging(1)	deleterious(0)	deleterious(0.945)	HMMPfam_MFAP1_C
FRMD5	84978	genome.wustl.edu	37	15	44180410	44180410	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_032892.3	-1	validated	p.L283I	1.000	402	0%	148	27%	0	-	probably_damaging(0.998)	deleterious(0)	deleterious(0.919)	HMMPfam_FERM_C,superfamily_PH domain-like
CASC4	113201	genome.wustl.edu	37	15	44624277	44624277	+	Splice_Site	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_138423.2	+1	reviewed	e4+1	1.000	180	0%	72	11.1%	0	-	-	-	-	-
EIF3J	8669	genome.wustl.edu	37	15	44849797	44849797	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_003758.2	+1	validated	p.L174	0.999	215	0%	106	22.6%	19	10.5%	-	-	-	HMMPfam_eIF3_subunit
SPG11	80208	genome.wustl.edu	37	15	44856872	44856872	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_025137.3	-1	reviewed	p.D2342N	1.000	135	0%	44	20.5%	18	11.1%	possibly_damaging(0.888)	tolerated(1)	neutral(0.347)	NULL
SPG11	80208	genome.wustl.edu	37	15	44878049	44878049	+	Splice_Site	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_025137.3	-1	reviewed	e29-1	1.000	283	0%	75	28%	0	-	-	-	-	-
SPG11	80208	genome.wustl.edu	37	15	44900762	44900762	+	Silent	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_025137.3	-1	reviewed	p.V1111	1.000	442	0%	122	24.6%	4	0%	-	-	-	NULL
B2M	567	genome.wustl.edu	37	15	45003761	45003761	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_004048.2	+1	reviewed	p.A6V	0.000	103	0%	119	12.6%	1642	0.1%	benign(0.001)	tolerated(0.35)	neutral(0.021)	NULL
SORD	6652	genome.wustl.edu	37	15	45353270	45353270	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_003104.4	+1	validated	p.R91C	1.000	184	0%	80	25%	2	50%	probably_damaging(1)	deleterious(0)	deleterious(0.945)	superfamily_GroES-like,HMMPfam_ADH_N
SORD	6652	genome.wustl.edu	37	15	45364616	45364616	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_003104.4	+1	validated	p.G296	0.984	97	0%	42	16.7%	4	0%	-	-	-	HMMPfam_ADH_zinc_N,superfamily_NAD(P)-binding Rossmann-fold domains
DUOX2	50506	genome.wustl.edu	37	15	45389870	45389870	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_014080.4	-1	reviewed	p.R1212H	1.000	229	0%	147	22.4%	0	-	probably_damaging(1)	deleterious(0)	deleterious(0.945)	HMMPfam_Ferric_reduct
DUOX2	50506	genome.wustl.edu	37	15	45391944	45391944	+	Nonsense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_014080.4	-1	reviewed	p.E1111*	1.000	166	0%	129	14%	0	-	-	-	-	HMMPfam_Ferric_reduct
DUOX1	53905	genome.wustl.edu	37	15	45442866	45442866	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_017434.3	+1	reviewed	p.R952Q	0.994	67	0%	41	31.7%	1	100%	benign(0.022)	tolerated(0.2)	neutral(0.050)	superfamily_EF-hand
LOC100289438	100289438	genome.wustl.edu	37	15	45444204	45444204	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	XM_002343344.1	-1	model	p.G82S	0.124	51	0%	49	24.5%	4	0%	-	-	-	NULL
DUOX1	53905	genome.wustl.edu	37	15	45457048	45457048	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_017434.3	+1	reviewed	p.L1535	1.000	170	0%	262	21%	10	50%	-	-	-	superfamily_Ferredoxin reductase-like C-terminal NADP-linked domain
SLC28A2	9153	genome.wustl.edu	37	15	45561643	45561643	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_004212.3	+1	validated	p.E492D	1.000	452	0%	187	10.7%	1	0%	probably_damaging(0.975)	deleterious(0)	deleterious(0.861)	HMMPfam_Nucleos_tra2_C
GATM	2628	genome.wustl.edu	37	15	45661613	45661613	+	Missense_Mutation	SNP	T	T	G	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001482.2	-1	reviewed	p.N132T	1.000	498	0%	353	17.8%	3	0%	benign(0.026)	tolerated(0.43)	neutral(0.014)	HMMPfam_Amidinotransf,superfamily_Pentein
SLC30A4	7782	genome.wustl.edu	37	15	45782954	45782954	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_013309.4	-1	validated	p.A222T	1.000	333	0%	105	15.2%	0	-	probably_damaging(1)	deleterious(0.01)	deleterious(0.905)	HMMPfam_Cation_efflux
SQRDL	58472	genome.wustl.edu	37	15	45983189	45983189	+	Silent	SNP	A	A	C	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_021199.2	+1	provisional	p.P438	0.998	581	0%	334	15.6%	139	22.3%	-	-	-	NULL
SEMA6D	80031	genome.wustl.edu	37	15	48060851	48060851	+	Silent	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_153618.1	+1	reviewed	p.T613	1.000	197	0%	44	13.6%	0	-	-	-	-	NULL
SEMA6D	80031	genome.wustl.edu	37	15	48063189	48063189	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_153618.1	+1	reviewed	p.P810L	1.000	167	0%	68	27.9%	0	-	probably_damaging(1)	tolerated(0.06)	deleterious(0.823)	NULL
SEMA6D	80031	genome.wustl.edu	37	15	48063630	48063630	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_153618.1	+1	reviewed	p.S957Y	1.000	175	0%	44	22.7%	1	0%	possibly_damaging(0.508)	deleterious(0.01)	deleterious(0.576)	NULL
SLC24A5	283652	genome.wustl.edu	37	15	48427080	48427080	+	Splice_Site	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_205850.2	+1	reviewed	e5-1	1.000	217	0%	34	17.6%	3	0%	-	-	-	-
MYEF2	50804	genome.wustl.edu	37	15	48441450	48441450	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_016132.3	-1	validated	p.I499	1.000	367	0%	77	11.7%	9	0%	-	-	-	superfamily_RNA-binding domain RBD
SLC12A1	6557	genome.wustl.edu	37	15	48577336	48577336	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_000338.2	+1	reviewed	p.A840V	0.996	359	0%	107	25.2%	0	-	benign(0.001)	tolerated(0.17)	neutral(0.059)	NULL
FBN1	2200	genome.wustl.edu	37	15	48719896	48719896	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_000138.4	-1	reviewed	p.V2358I	1.000	208	0%	33	39.4%	15	0%	probably_damaging(0.994)	tolerated(0.06)	deleterious(0.774)	HMMPfam_TB,superfamily_TB module/8-cys domain,superfamily_Concanavalin A-like lectins/glucanases
FBN1	2200	genome.wustl.edu	37	15	48730115	48730115	+	Splice_Site	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_000138.4	-1	reviewed	e50-1	1.000	251	0.4%	36	22.2%	0	-	-	-	-	-
FBN1	2200	genome.wustl.edu	37	15	48756145	48756145	+	Silent	SNP	A	A	G	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_000138.4	-1	reviewed	p.C1672	1.000	311	0%	75	21.3%	0	-	-	-	-	PatternScan_ASX_HYDROXYL,HMMSmart_SM00179,HMMSmart_SM00181,superfamily_Concanavalin A-like lectins/glucanases,HMMPfam_EGF_CA,PatternScan_EGF_CA,superfamily_EGF/Laminin
FBN1	2200	genome.wustl.edu	37	15	48757846	48757846	+	Missense_Mutation	SNP	T	T	G	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_000138.4	-1	reviewed	p.K1621Q	1.000	357	0%	109	19.3%	2	0%	benign(0.011)	tolerated(0.31)	neutral(0.028)	HMMSmart_SM00179,HMMSmart_SM00181,superfamily_Concanavalin A-like lectins/glucanases,HMMPfam_EGF_CA,PatternScan_EGF_CA,superfamily_EGF/Laminin
CEP152	22995	genome.wustl.edu	37	15	49031141	49031141	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_014985.2	-1	provisional	p.D1424Y	0.011	337	0%	90	14.4%	0	-	benign(0.113)	deleterious(0)	neutral(0.454)	NULL
CEP152	22995	genome.wustl.edu	37	15	49061206	49061206	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_014985.2	-1	provisional	p.D619Y	0.993	462	0.2%	137	20.4%	1	0%	probably_damaging(0.99)	deleterious(0.01)	deleterious(0.847)	NULL
SHC4	399694	genome.wustl.edu	37	15	49127130	49127130	+	Nonsense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_203349.3	-1	validated	p.E525*	0.988	213	0%	34	29.4%	0	-	-	-	-	HMMSmart_SM00252,superfamily_SH2 domain
SHC4	399694	genome.wustl.edu	37	15	49176459	49176459	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_203349.3	-1	validated	p.L276I	0.718	428	0%	353	12.5%	0	-	benign(0)	tolerated(0.48)	neutral(0.011)	HMMPfam_PID,HMMSmart_SM00462,superfamily_PH domain-like
COPS2	9318	genome.wustl.edu	37	15	49420181	49420181	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001143887.1	-1	validated	p.S440Y	1.000	496	0%	102	12.7%	76	17.1%	possibly_damaging(0.455)	deleterious(0.01)	deleterious(0.554)	NULL
GALK2	2585	genome.wustl.edu	37	15	49611853	49611853	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_002044.2	+1	reviewed	p.A340	0.080	248	0%	86	17.4%	17	35.2%	-	-	-	superfamily_SSF55060
C15orf33	196951	genome.wustl.edu	37	15	49663592	49663592	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_152647.2	-1	validated	p.I339	0.018	224	0%	192	23.4%	0	-	-	-	-	NULL
DTWD1	56986	genome.wustl.edu	37	15	49924367	49924367	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001144955.1	+1	validated	p.K92N	1.000	184	0.5%	71	15.5%	9	0%	probably_damaging(1)	tolerated(0.06)	deleterious(0.823)	HMMPfam_DTW
ATP8B4	79895	genome.wustl.edu	37	15	50158552	50158552	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_024837.2	-1	validated	p.P1053S	0.998	143	0%	40	27.5%	0	-	benign(0.011)	tolerated(0.53)	neutral(0.008)	superfamily_SSF81665
HDC	3067	genome.wustl.edu	37	15	50544942	50544942	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_002112.2	-1	validated	p.D273N	1.000	90	1.1%	54	22.2%	1	0%	probably_damaging(1)	deleterious(0)	deleterious(0.945)	HMMPfam_Pyridoxal_deC,superfamily_PyrdxlP-dep_Trfase_major
TRPM7	54822	genome.wustl.edu	37	15	50935643	50935643	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_017672.4	-1	reviewed	p.M143I	1.000	239	0%	121	11.6%	0	-	benign(0.01)	tolerated(0.52)	neutral(0.009)	NULL
AP4E1	23431	genome.wustl.edu	37	15	51289937	51289937	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_007347.3	+1	validated	p.V921I	0.050	225	0%	34	14.7%	0	-	benign(0)	tolerated(0.74)	neutral(0.002)	HMMPfam_Coatamer_beta_C
CYP19A1	1588	genome.wustl.edu	37	15	51503044	51503044	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_000103.3	-1	reviewed	p.I491	0.926	403	0%	56	28.6%	0	-	-	-	-	superfamily_Cytochrome_P450
CYP19A1	1588	genome.wustl.edu	37	15	51503191	51503191	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_000103.3	-1	reviewed	p.I442	0.463	177	0%	39	33.3%	0	-	-	-	-	HMMPfam_p450,superfamily_Cytochrome_P450
CYP19A1	1588	genome.wustl.edu	37	15	51507406	51507406	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_000103.3	-1	reviewed	p.E294D	1.000	232	0%	45	17.8%	0	-	benign(0.001)	tolerated(0.56)	neutral(0.006)	HMMPfam_p450,superfamily_Cytochrome_P450
CYP19A1	1588	genome.wustl.edu	37	15	51519994	51519994	+	Nonsense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_000103.3	-1	reviewed	p.R145*	0.997	267	0%	74	24.3%	0	-	-	-	-	HMMPfam_p450,superfamily_Cytochrome_P450
CYP19A1	1588	genome.wustl.edu	37	15	51535019	51535019	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_000103.3	-1	reviewed	p.L31F	1.000	304	0%	109	24.8%	0	-	benign(0.005)	tolerated(0.16)	neutral(0.059)	NULL
GLDN	342035	genome.wustl.edu	37	15	51693845	51693845	+	Silent	SNP	G	G	A	rs149551075	by1000genomes	TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_181789.2	+1	validated	p.T361	0.000	341	0%	97	29.9%	0	-	-	-	-	HMMPfam_OLF,HMMSmart_SM00284
DMXL2	23312	genome.wustl.edu	37	15	51772191	51772191	+	Missense_Mutation	SNP	A	A	C	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_015263.3	-1	validated	p.I2237S	1.000	515	0%	262	23.7%	2	0%	unknown(0)	deleterious(0)	-	superfamily_WD40 repeat-like
DMXL2	23312	genome.wustl.edu	37	15	51772262	51772262	+	Silent	SNP	C	C	T	rs185024518	by1000genomes	TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_015263.3	-1	validated	p.A2213	0.130	507	0.2%	246	22%	0	-	-	-	-	superfamily_WD40 repeat-like
DMXL2	23312	genome.wustl.edu	37	15	51778323	51778323	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_015263.3	-1	validated	p.R1810Q	0.549	319	0%	158	13.9%	0	-	unknown(0)	tolerated(0.52)	-	NULL
DMXL2	23312	genome.wustl.edu	37	15	51787269	51787269	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_015263.3	-1	validated	p.L1579I	1.000	228	0%	67	28.4%	0	-	unknown(0)	deleterious(0)	-	NULL
DMXL2	23312	genome.wustl.edu	37	15	51787326	51787326	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_015263.3	-1	validated	p.D1560Y	1.000	215	0.5%	68	13.2%	0	-	benign(0.25)	deleterious(0)	deleterious(0.470)	NULL
DMXL2	23312	genome.wustl.edu	37	15	51791393	51791393	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_015263.3	-1	validated	p.T1343N	1.000	112	0%	49	18.4%	0	-	probably_damaging(0.999)	deleterious(0.01)	deleterious(0.896)	NULL
DMXL2	23312	genome.wustl.edu	37	15	51856382	51856382	+	Missense_Mutation	SNP	T	T	G	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_015263.3	-1	validated	p.E147A	1.000	244	0%	59	25.4%	0	-	probably_damaging(0.999)	tolerated(0.51)	deleterious(0.499)	superfamily_WD40 repeat-like
DMXL2	23312	genome.wustl.edu	37	15	51856455	51856455	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_015263.3	-1	validated	p.N123D	1.000	154	0%	38	18.4%	0	-	probably_damaging(0.998)	tolerated(0.16)	deleterious(0.534)	HMMSmart_SM00320,superfamily_WD40 repeat-like
TMOD3	29766	genome.wustl.edu	37	15	52155154	52155154	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_014547.4	+1	validated	p.S25P	0.976	264	0%	81	13.6%	4	0%	probably_damaging(0.999)	tolerated(0.08)	deleterious(0.790)	NULL
MAPK6	5597	genome.wustl.edu	37	15	52338954	52338954	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_002748.3	+1	reviewed	p.T99	0.168	242	0%	67	31.3%	7	0%	-	-	-	HMMSmart_S_TKc,superfamily_Kinase_like,HMMPfam_Pkinase
BCL2L10	10017	genome.wustl.edu	37	15	52402141	52402141	+	Silent	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_020396.2	-1	reviewed	p.P173	0.000	214	0%	288	29.2%	4	25%	-	-	-	superfamily_Bcl-2 inhibitors of programmed cell death
MYO5C	55930	genome.wustl.edu	37	15	52517724	52517724	+	Silent	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_018728.2	-1	validated	p.I1071	0.999	507	0%	159	31.4%	0	-	-	-	-	NULL
MYO5C	55930	genome.wustl.edu	37	15	52539171	52539171	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_018728.2	-1	validated	p.A641V	1.000	218	0%	120	28.3%	0	-	benign(0.115)	deleterious(0.01)	neutral(0.415)	HMMPfam_Myosin_head,HMMSmart_SM00242,superfamily_P-loop containing nucleoside triphosphate hydrolases
MYO5A	4644	genome.wustl.edu	37	15	52668563	52668563	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_000259.3	-1	reviewed	p.R801W	1.000	151	0%	51	23.5%	0	-	probably_damaging(1)	deleterious(0)	deleterious(0.945)	HMMPfam_IQ,HMMSmart_SM00015
MYO5A	4644	genome.wustl.edu	37	15	52702594	52702594	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_000259.3	-1	reviewed	p.R231I	0.997	269	0%	64	28.1%	0	-	probably_damaging(0.971)	tolerated(0.07)	deleterious(0.732)	HMMPfam_Myosin_head,HMMSmart_SM00242,superfamily_P-loop containing nucleoside triphosphate hydrolases
MYO5A	4644	genome.wustl.edu	37	15	52708427	52708427	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_000259.3	-1	reviewed	p.A176V	1.000	173	0%	26	34.6%	0	-	possibly_damaging(0.694)	deleterious(0.03)	deleterious(0.613)	HMMPfam_Myosin_head,HMMSmart_SM00242,superfamily_P-loop containing nucleoside triphosphate hydrolases
MYO5A	4644	genome.wustl.edu	37	15	52720631	52720631	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_000259.3	-1	reviewed	p.R92C	1.000	237	0%	56	30.4%	0	-	probably_damaging(1)	deleterious(0)	deleterious(0.945)	HMMPfam_Myosin_head,HMMSmart_SM00242,superfamily_P-loop containing nucleoside triphosphate hydrolases
FAM214A	56204	genome.wustl.edu	37	15	52874458	52874458	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_019600.2	-1	validated	p.R1042W	0.938	245	0%	125	14.4%	33	0%	probably_damaging(1)	deleterious(0)	deleterious(0.945)	NULL
FAM214A	56204	genome.wustl.edu	37	15	52876985	52876985	+	Nonsense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_019600.2	-1	validated	p.R1012*	0.673	595	0%	227	13.2%	24	0%	-	-	-	NULL
UNC13C	440279	genome.wustl.edu	37	15	54305830	54305830	+	Nonsense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001080534.1	+1	provisional	p.E244*	1.000	77	0%	24	20.8%	1	0%	-	-	-	NULL
UNC13C	440279	genome.wustl.edu	37	15	54307403	54307403	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001080534.1	+1	provisional	p.S768N	1.000	198	0%	53	22.6%	0	-	possibly_damaging(0.69)	deleterious(0)	deleterious(0.692)	NULL
UNC13C	440279	genome.wustl.edu	37	15	54435237	54435237	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001080534.1	+1	provisional	p.K1002N	1.000	517	0.2%	165	13.9%	0	-	possibly_damaging(0.666)	deleterious(0)	deleterious(0.680)	NULL
UNC13C	440279	genome.wustl.edu	37	15	54860138	54860138	+	Silent	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001080534.1	+1	provisional	p.T2033	0.952	319	0%	77	15.6%	0	-	-	-	-	NULL
CCPG1	9236	genome.wustl.edu	37	15	55652396	55652396	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_004748.3	-1	validated	p.F525L	1.000	310	0%	99	22.2%	12	8.3%	probably_damaging(0.999)	tolerated(0.26)	deleterious(0.524)	NULL
CCPG1	9236	genome.wustl.edu	37	15	55652803	55652803	+	Nonsense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_004748.3	-1	validated	p.R390*	0.966	412	0.2%	171	28.1%	5	20%	-	-	-	NULL
NEDD4	4734	genome.wustl.edu	37	15	56208323	56208323	+	Missense_Mutation	SNP	A	A	C	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_198400.2	-1	validated	p.F236C	0.927	148	0%	55	16.4%	0	-	unknown(0)	deleterious(0)	-	NULL
RFX7	64864	genome.wustl.edu	37	15	56385786	56385786	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_022841.5	-1	validated	p.F1380	1.000	265	0%	98	19.4%	0	-	-	-	-	NULL
RFX7	64864	genome.wustl.edu	37	15	56387725	56387725	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_022841.5	-1	validated	p.S734Y	0.065	296	0%	140	25%	1	0%	benign(0.012)	deleterious(0.04)	neutral(0.349)	NULL
ZNF280D	54816	genome.wustl.edu	37	15	56923983	56923983	+	Nonsense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_017661.2	-1	validated	p.R885*	0.179	451	0.2%	100	15%	8	12.5%	-	-	-	NULL
ZNF280D	54816	genome.wustl.edu	37	15	56924136	56924136	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_017661.2	-1	validated	p.D834Y	0.006	602	0%	147	20.4%	3	0%	probably_damaging(0.979)	deleterious(0)	deleterious(0.867)	NULL
TCF12	6938	genome.wustl.edu	37	15	57535688	57535688	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_207036.1	+1	reviewed	p.T352A	1.000	521	0%	102	24.5%	9	22.2%	probably_damaging(0.971)	deleterious(0.01)	deleterious(0.819)	NULL
TCF12	6938	genome.wustl.edu	37	15	57544625	57544625	+	Nonsense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_207036.1	+1	reviewed	p.R399*	1.000	277	0%	66	12.1%	1	0%	-	-	-	NULL
CGNL1	84952	genome.wustl.edu	37	15	57731571	57731571	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_032866.3	+1	validated	p.H458Q	0.008	29	0%	33	12.1%	0	-	benign(0.003)	tolerated(0.13)	neutral(0.253)	NULL
CGNL1	84952	genome.wustl.edu	37	15	57809020	57809020	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_032866.3	+1	validated	p.D816Y	0.000	120	0%	41	26.8%	7	28.5%	benign(0.001)	deleterious(0.03)	neutral(0.364)	NULL
CGNL1	84952	genome.wustl.edu	37	15	57809041	57809041	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_032866.3	+1	validated	p.R823C	0.006	126	0%	43	23.3%	2	0%	possibly_damaging(0.906)	deleterious(0.01)	deleterious(0.765)	NULL
GCOM1	145781	genome.wustl.edu	37	15	57896532	57896532	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001018090.1	+1	reviewed	p.K47N	0.998	200	0%	90	24.4%	2	0%	probably_damaging(0.998)	deleterious(0)	deleterious(0.919)	NULL
GCOM1	145781	genome.wustl.edu	37	15	57967220	57967220	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001018090.1	+1	reviewed	p.E420K	0.989	479	0%	124	12.1%	6	0%	benign(0.036)	deleterious(0.04)	neutral(0.351)	NULL
ALDH1A2	8854	genome.wustl.edu	37	15	58357797	58357797	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_003888.2	-1	reviewed	p.A18T	1.000	36	0%	59	11.9%	6	0%	benign(0.275)	tolerated(0.14)	neutral(0.279)	NULL
LIPC	3990	genome.wustl.edu	37	15	58830586	58830586	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_000236.2	+1	reviewed	p.M48T	0.001	258	0%	192	12.5%	0	-	benign(0)	tolerated(1)	-	HMMPfam_Lipase,superfamily_alpha/beta-Hydrolases
LIPC	3990	genome.wustl.edu	37	15	58855922	58855922	+	Frame_Shift_Del	DEL	G	G	-	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_000236.2	+1	reviewed	p.R463fs	1.000	-	-	-	-	-	-	-	-	-	HMMPfam_PLAT,HMMSmart_SM00308,superfamily_Lipase/lipooxygenase domain (PLAT/LH2 domain)
FAM63B	54629	genome.wustl.edu	37	15	59102504	59102504	+	Nonsense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001040450.1	+1	validated	p.R347*	0.997	497	0.2%	138	10.9%	0	-	-	-	-	HMMPfam_DUF544
SLTM	79811	genome.wustl.edu	37	15	59180747	59180747	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_024755.2	-1	validated	p.D738Y	1.000	308	0.3%	97	37.1%	10	50%	probably_damaging(1)	deleterious(0.05)	deleterious(0.845)	NULL
SLTM	79811	genome.wustl.edu	37	15	59186750	59186750	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_024755.2	-1	validated	p.R420Q	1.000	277	0%	41	39%	7	0%	probably_damaging(1)	deleterious(0)	deleterious(0.945)	HMMPfam_RRM_1,HMMSmart_RRM,superfamily_SSF54928
CCNB2	9133	genome.wustl.edu	37	15	59407065	59407065	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_004701.2	+1	reviewed	p.R196Q	0.998	331	0.3%	159	11.9%	10	0%	probably_damaging(1)	deleterious(0)	deleterious(0.945)	HMMSmart_SM00385,HMMPfam_Cyclin_N,PatternScan_CYCLINS,superfamily_Cyclin-like
MYO1E	4643	genome.wustl.edu	37	15	59480414	59480414	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_004998.2	-1	validated	p.V603L	1.000	235	0%	67	14.9%	32	3.1%	possibly_damaging(0.892)	deleterious(0.01)	deleterious(0.757)	HMMPfam_Myosin_head,HMMSmart_SM00242,superfamily_P-loop containing nucleoside triphosphate hydrolases
MYO1E	4643	genome.wustl.edu	37	15	59494553	59494553	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_004998.2	-1	validated	p.R557H	1.000	241	0%	179	10.6%	29	13.7%	probably_damaging(1)	deleterious(0.01)	deleterious(0.905)	HMMPfam_Myosin_head,HMMSmart_SM00242,superfamily_P-loop containing nucleoside triphosphate hydrolases
MYO1E	4643	genome.wustl.edu	37	15	59564546	59564546	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_004998.2	-1	validated	p.V36M	1.000	277	0%	131	26%	5	0%	benign(0.041)	tolerated(0.09)	neutral(0.299)	HMMPfam_Myosin_head,HMMSmart_SM00242,superfamily_P-loop containing nucleoside triphosphate hydrolases
GCNT3	9245	genome.wustl.edu	37	15	59910672	59910672	+	Nonsense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_004751.2	+1	reviewed	p.E79*	0.012	155	0%	126	26.2%	0	-	-	-	-	NULL
GCNT3	9245	genome.wustl.edu	37	15	59911283	59911283	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_004751.2	+1	reviewed	p.K282N	0.889	134	0%	77	24.7%	1	0%	benign(0.001)	tolerated(0.5)	neutral(0.010)	HMMPfam_Branch
NARG2	79664	genome.wustl.edu	37	15	60745904	60745904	+	Silent	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_024611.4	-1	validated	p.I341	0.934	441	0%	84	16.7%	2	0%	-	-	-	NULL
RORA	6095	genome.wustl.edu	37	15	60907114	60907114	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_002943.3	-1	reviewed	p.L84M	0.000	94	0%	25	24%	0	-	benign(0.002)	tolerated(0.24)	neutral(0.037)	NULL
VPS13C	54832	genome.wustl.edu	37	15	62221803	62221803	+	Silent	SNP	T	T	G	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_020821.1	-1	validated	p.A2061	0.986	500	0%	252	14.7%	0	-	-	-	-	NULL
VPS13C	54832	genome.wustl.edu	37	15	62261515	62261515	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_020821.1	-1	validated	p.D965G	1.000	356	0%	54	11.1%	0	-	probably_damaging(0.999)	tolerated(0.21)	deleterious(0.534)	NULL
VPS13C	54832	genome.wustl.edu	37	15	62315708	62315708	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_020821.1	-1	validated	p.E176K	1.000	335	0%	131	26%	0	-	probably_damaging(0.998)	deleterious(0.03)	deleterious(0.839)	NULL
VPS13C	54832	genome.wustl.edu	37	15	62325667	62325667	+	Nonsense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_020821.1	-1	validated	p.E120*	1.000	560	0%	179	14.5%	1	0%	-	-	-	NULL
LOC100289289	100289289	genome.wustl.edu	37	15	62547898	62547898	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	XM_002343368.1	-1	model	p.T544M	0.027	27	0%	21	33.3%	1	0%	-	-	-	NULL
TLN2	83660	genome.wustl.edu	37	15	62948248	62948248	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_015059.2	+1	reviewed	p.S208L	1.000	177	0%	66	13.6%	0	-	probably_damaging(0.964)	deleterious(0.01)	deleterious(0.812)	HMMPfam_FERM_M,superfamily_FERM_3-hlx,HMMSmart_B41
TLN2	83660	genome.wustl.edu	37	15	62978873	62978873	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_015059.2	+1	reviewed	p.R331C	0.993	70	0%	114	21.1%	1	0%	probably_damaging(1)	deleterious(0)	deleterious(0.945)	superfamily_SSF50729
TLN2	83660	genome.wustl.edu	37	15	63000842	63000842	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_015059.2	+1	reviewed	p.A772T	1.000	43	0%	49	18.4%	0	-	benign(0)	tolerated(0.51)	neutral(0.009)	superfamily_SSF109885
TLN2	83660	genome.wustl.edu	37	15	63063229	63063229	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_015059.2	+1	reviewed	p.L1755I	0.724	126	0%	63	23.8%	0	-	benign(0.001)	tolerated(0.33)	neutral(0.024)	NULL
TLN2	83660	genome.wustl.edu	37	15	63063277	63063277	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_015059.2	+1	reviewed	p.A1771T	0.999	112	0%	57	15.8%	0	-	benign(0.001)	tolerated(0.31)	neutral(0.027)	NULL
TLN2	83660	genome.wustl.edu	37	15	63125777	63125777	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_015059.2	+1	reviewed	p.A2359	1.000	182	0%	83	19.3%	2	0%	-	-	-	HMMPfam_I_LWEQ,HMMSmart_ILWEQ,superfamily_SSF109885
RPS27L	51065	genome.wustl.edu	37	15	63447807	63447807	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	ENST00000439025	-1	known	p.G80D	0.032	175	0%	260	21.2%	0	-	benign(0.01)	deleterious(0.02)	neutral(0.384)	HMMPfam_Ribosomal_S27e,superfamily_Zn-binding ribosomal proteins
RAB8B	51762	genome.wustl.edu	37	15	63541880	63541880	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_016530.2	+1	validated	p.T74	0.028	332	0%	161	12.4%	3	0%	-	-	-	HMMSmart_SM00176,HMMSmart_SM00173,HMMSmart_SM00174,HMMSmart_SM00175,HMMSmart_SM00177,HMMPfam_Ras,superfamily_P-loop containing nucleoside triphosphate hydrolases
APH1B	83464	genome.wustl.edu	37	15	63579730	63579730	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_031301.3	+1	validated	p.F155L	1.000	556	0%	345	26.1%	6	33.3%	possibly_damaging(0.808)	deleterious(0.01)	deleterious(0.710)	HMMPfam_Aph-1
HERC1	8925	genome.wustl.edu	37	15	63908112	63908112	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_003922.3	-1	reviewed	p.P4650H	1.000	186	0%	76	15.8%	26	11.5%	probably_damaging(1)	-	-	HMMPfam_HECT,HMMSmart_SM00119,superfamily_Hect E3 ligase catalytic domain
DAPK2	23604	genome.wustl.edu	37	15	64221751	64221751	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_014326.3	-1	reviewed	p.L220I	1.000	107	0%	42	9.5%	1	100%	probably_damaging(1)	deleterious(0)	deleterious(0.945)	HMMSmart_S_TKc,superfamily_Kinase_like,HMMPfam_Pkinase
FAM96A	84191	genome.wustl.edu	37	15	64385904	64385904	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_032231.4	-1	validated	p.S22P	0.997	86	0%	115	25.2%	12	0%	benign(0.035)	tolerated(0.09)	neutral(0.298)	NULL
CSNK1G1	53944	genome.wustl.edu	37	15	64592661	64592661	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_022048.3	-1	validated	p.R13Q	1.000	533	0%	211	25.6%	0	-	probably_damaging(0.981)	deleterious(0.02)	deleterious(0.808)	NULL
TRIP4	9325	genome.wustl.edu	37	15	64686180	64686180	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_016213.3	+1	validated	p.R46Q	0.676	315	0%	228	30.7%	4	0%	possibly_damaging(0.91)	tolerated(0.33)	neutral(0.387)	NULL
TRIP4	9325	genome.wustl.edu	37	15	64689843	64689843	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_016213.3	+1	validated	p.K148N	1.000	193	0%	83	20.5%	6	33.3%	probably_damaging(0.981)	deleterious(0)	deleterious(0.870)	NULL
ZNF609	23060	genome.wustl.edu	37	15	64967098	64967098	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_015042.1	+1	provisional	p.G682D	0.998	110	0%	97	24.7%	2	0%	probably_damaging(0.955)	tolerated(0.07)	deleterious(0.718)	NULL
ZNF609	23060	genome.wustl.edu	37	15	64972875	64972875	+	Nonsense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_015042.1	+1	provisional	p.R1326*	1.000	227	0%	172	37.2%	1	0%	-	-	-	NULL
PLEKHO2	80301	genome.wustl.edu	37	15	65157300	65157300	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_025201.4	+1	validated	p.R229K	0.268	51	0%	41	12.2%	7	0%	benign(0.014)	tolerated(0.99)	neutral(0.001)	NULL
PLEKHO2	80301	genome.wustl.edu	37	15	65157959	65157959	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_025201.4	+1	validated	p.E449K	1.000	56	0%	56	17.9%	7	0%	probably_damaging(0.99)	tolerated(0.46)	neutral(0.454)	NULL
ANKDD1A	348094	genome.wustl.edu	37	15	65226377	65226377	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_182703.3	+1	validated	p.S270	0.044	118	0.8%	65	46.2%	0	-	-	-	-	HMMPfam_Ank,HMMSmart_ANK,superfamily_ANK
SPG21	51324	genome.wustl.edu	37	15	65257711	65257711	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001127889.1	-1	reviewed	p.G254S	1.000	384	0%	124	21.8%	107	15.8%	probably_damaging(1)	deleterious(0)	deleterious(0.945)	superfamily_SSF53474
RASL12	51285	genome.wustl.edu	37	15	65357571	65357571	+	Silent	SNP	T	T	C	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_016563.2	-1	validated	p.E48	1.000	194	0%	262	27.1%	9	0%	-	-	-	HMMPfam_Ras,superfamily_SSF52540
CLPX	10845	genome.wustl.edu	37	15	65456367	65456367	+	Nonsense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_006660.3	-1	provisional	p.E225*	1.000	386	0%	101	10.9%	1	0%	-	-	-	superfamily_P-loop containing nucleoside triphosphate hydrolases
CLPX	10845	genome.wustl.edu	37	15	65477456	65477456	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_006660.3	-1	provisional	p.A12	0.000	41	0%	50	16%	0	-	-	-	-	NULL
CILP	8483	genome.wustl.edu	37	15	65489261	65489261	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_003613.3	-1	reviewed	p.E1121D	1.000	69	0%	29	17.2%	6	0%	benign(0.038)	tolerated(0.13)	neutral(0.255)	NULL
CILP	8483	genome.wustl.edu	37	15	65491229	65491229	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_003613.3	-1	reviewed	p.I465	0.998	42	0%	29	41.4%	0	-	-	-	-	NULL
IGDCC3	9543	genome.wustl.edu	37	15	65627715	65627715	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_004884.3	-1	validated	p.R200Q	0.973	79	0%	92	22.8%	0	-	possibly_damaging(0.626)	tolerated(0.85)	neutral(0.218)	HMMSmart_SM00408,HMMSmart_SM00409,HMMPfam_I-set,superfamily_Immunoglobulin
IGDCC4	57722	genome.wustl.edu	37	15	65681638	65681638	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_020962.1	-1	provisional	p.R840	0.998	34	0%	48	41.7%	0	-	-	-	-	superfamily_Fibronectin type III
DPP8	54878	genome.wustl.edu	37	15	65744368	65744368	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_197960.2	-1	reviewed	p.H798Y	1.000	202	0%	74	31.1%	2	0%	benign(0.033)	tolerated(0.1)	neutral(0.288)	HMMPfam_Peptidase_S9,superfamily_alpha/beta-Hydrolases
DPP8	54878	genome.wustl.edu	37	15	65746701	65746701	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_197960.2	-1	reviewed	p.R740Q	0.898	177	0%	40	22.5%	0	-	benign(0)	tolerated(0.94)	-	HMMPfam_Peptidase_S9,superfamily_alpha/beta-Hydrolases
SLC24A1	9187	genome.wustl.edu	37	15	65916612	65916612	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_004727.2	+1	validated	p.R65Q	0.998	181	0%	65	29.2%	0	-	unknown(0)	deleterious(0)	-	NULL
SLC24A1	9187	genome.wustl.edu	37	15	65937998	65937998	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_004727.2	+1	validated	p.V730A	1.000	119	0.8%	36	25%	3	33.3%	unknown(0)	tolerated(1)	-	NULL
SLC24A1	9187	genome.wustl.edu	37	15	65942771	65942771	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_004727.2	+1	validated	p.E762K	0.000	308	0%	166	25.9%	1	0%	unknown(0)	tolerated(0.13)	-	NULL
DENND4A	10260	genome.wustl.edu	37	15	65983652	65983652	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001144823.1	-1	validated	p.E1093K	1.000	299	0.3%	104	23.1%	0	-	benign(0.428)	deleterious(0.03)	deleterious(0.504)	NULL
DENND4A	10260	genome.wustl.edu	37	15	65983795	65983795	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001144823.1	-1	validated	p.R1045Q	0.239	439	0%	155	18.7%	0	-	benign(0)	tolerated(0.46)	neutral(0.012)	NULL
DENND4A	10260	genome.wustl.edu	37	15	66021939	66021939	+	Missense_Mutation	SNP	T	T	G	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001144823.1	-1	validated	p.E415A	1.000	199	0%	65	20%	0	-	probably_damaging(0.996)	deleterious(0)	deleterious(0.906)	HMMPfam_DENN,HMMSmart_SM00799
RAB11A	8766	genome.wustl.edu	37	15	66170249	66170249	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_004663.3	+1	reviewed	p.R129H	1.000	291	0.3%	215	18.6%	189	22.7%	possibly_damaging(0.87)	deleterious(0)	deleterious(0.782)	HMMSmart_SM00176,HMMSmart_SM00173,HMMSmart_SM00174,HMMSmart_SM00175,HMMPfam_Ras,superfamily_P-loop containing nucleoside triphosphate hydrolases
MEGF11	84465	genome.wustl.edu	37	15	66206090	66206090	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_032445.2	-1	validated	p.D899N	0.997	93	0%	98	13.3%	2	0%	probably_damaging(0.979)	deleterious(0)	deleterious(0.867)	NULL
MEGF11	84465	genome.wustl.edu	37	15	66411506	66411506	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_032445.2	-1	validated	p.A73	0.010	94	0%	61	27.9%	0	-	-	-	-	HMMPfam_EMI
DIS3L	115752	genome.wustl.edu	37	15	66615117	66615117	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_133375.3	+1	validated	p.L390	0.082	185	0%	83	18.1%	1	0%	-	-	-	HMMPfam_RNB
MAP2K1	5604	genome.wustl.edu	37	15	66729164	66729164	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	ENST00000425818	+1	known	p.V64I	0.000	264	0%	89	15.7%	19	0%	-	-	-	HMMSmart_SM00219,HMMSmart_SM00220,superfamily_Protein kinase-like (PK-like)
MAP2K1	5604	genome.wustl.edu	37	15	66777517	66777517	+	Silent	SNP	A	A	C	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_002755.3	+1	reviewed	p.R295	0.999	66	0%	46	26.1%	15	13.3%	-	-	-	HMMSmart_SM00219,HMMSmart_SM00220,superfamily_Protein kinase-like (PK-like),HMMPfam_Pkinase
RPL4	6124	genome.wustl.edu	37	15	66795005	66795005	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_000968.2	-1	reviewed	p.Y122	0.972	386	0%	415	18.6%	840	0.9%	-	-	-	HMMPfam_Ribosomal_L4,superfamily_Ribosomal protein L4,PatternScan_RIBOSOMAL_L1E
RPL4	6124	genome.wustl.edu	37	15	66795844	66795844	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_000968.2	-1	reviewed	p.S9	0.001	145	0%	226	11.1%	571	1.5%	-	-	-	superfamily_Ribosomal protein L4
SMAD3	4088	genome.wustl.edu	37	15	67430385	67430385	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001145103.1	+1	reviewed	p.R7	0.003	312	0%	109	24.8%	0	-	-	-	-	HMMPfam_MH1,HMMSmart_DWA
IQCH	64799	genome.wustl.edu	37	15	67596788	67596788	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	ENST00000512104	+1	known	p.A167S	0.603	352	0%	86	9.3%	0	-	possibly_damaging(0.791)	tolerated(0.45)	neutral(0.308)	NULL
IQCH	64799	genome.wustl.edu	37	15	67687825	67687825	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001031715.2	+1	validated	p.S610Y	1.000	104	0%	35	25.7%	0	-	probably_damaging(1)	deleterious(0)	deleterious(0.945)	NULL
MAP2K5	5607	genome.wustl.edu	37	15	67995739	67995739	+	Missense_Mutation	SNP	T	T	G	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_145160.1	+1	reviewed	p.F346C	1.000	420	0%	69	33.3%	11	18.1%	possibly_damaging(0.835)	deleterious(0)	deleterious(0.763)	HMMSmart_SM00219,HMMSmart_SM00220,superfamily_Protein kinase-like (PK-like),HMMPfam_Pkinase
SKOR1	390598	genome.wustl.edu	37	15	68118774	68118774	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001031807.1	+1	provisional	p.S194F	1.000	78	0%	167	14.4%	1	0%	benign(0.189)	deleterious(0)	neutral(0.462)	superfamily_SAND_like,HMMPfam_c-SKI_SMAD_bind
SKOR1	390598	genome.wustl.edu	37	15	68118985	68118985	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001031807.1	+1	provisional	p.G264	0.954	62	0%	124	28.2%	0	-	-	-	-	NULL
FEM1B	10116	genome.wustl.edu	37	15	68583026	68583026	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_015322.3	+1	provisional	p.L444I	0.995	180	0%	93	19.4%	6	16.6%	benign(0)	tolerated(0.63)	neutral(0.004)	superfamily_ANK
ITGA11	22801	genome.wustl.edu	37	15	68695301	68695301	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001004439.1	-1	reviewed	p.F40L	1.000	108	0%	59	25.4%	4	0%	benign(0)	tolerated(0.66)	neutral(0.003)	HMMSmart_SM00191,superfamily_Integrin alpha N-terminal domain
ITGA11	22801	genome.wustl.edu	37	15	68695355	68695355	+	Silent	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001004439.1	-1	reviewed	p.T22	1.000	113	0%	56	17.9%	3	0%	-	-	-	NULL
ANP32A	8125	genome.wustl.edu	37	15	69076826	69076826	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_006305.3	-1	validated	p.D146N	1.000	396	0.3%	276	14.1%	134	2.2%	probably_damaging(1)	deleterious(0)	deleterious(0.945)	HMMSmart_LRRcap,superfamily_SSF52058
SPESP1	246777	genome.wustl.edu	37	15	69238115	69238115	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_145658.3	+1	reviewed	p.G81E	0.000	292	0%	117	14.5%	1	0%	benign(0.082)	tolerated(0.67)	neutral(0.009)	NULL
ENSG00000245371	0	genome.wustl.edu	37	15	69689765	69689765	+	RNA	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	ENST00000500759	-1	known	NULL	0.000	229	0%	221	12.2%	3	0%	-	-	-	-
KIF23	9493	genome.wustl.edu	37	15	69709761	69709761	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_138555.1	+1	reviewed	p.E41K	1.000	367	0%	408	11%	0	-	possibly_damaging(0.808)	tolerated(0.18)	neutral(0.360)	HMMPfam_Kinesin,HMMSmart_SM00129,superfamily_P-loop containing nucleoside triphosphate hydrolases
KIF23	9493	genome.wustl.edu	37	15	69732392	69732392	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_138555.1	+1	reviewed	p.T621	0.000	249	0%	142	19%	2	100%	-	-	-	NULL
TLE3	7090	genome.wustl.edu	37	15	70366929	70366929	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_005078.2	-1	validated	p.A105	0.003	74	0%	82	15.9%	4	0%	-	-	-	HMMPfam_TLE_N
UACA	55075	genome.wustl.edu	37	15	70960127	70960127	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_018003.2	-1	validated	p.E966K	1.000	627	0%	247	14.2%	15	13.3%	probably_damaging(0.999)	tolerated(0.18)	deleterious(0.546)	NULL
UACA	55075	genome.wustl.edu	37	15	70979976	70979976	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_018003.2	-1	validated	p.T169A	1.000	142	0%	29	44.8%	1	0%	possibly_damaging(0.544)	tolerated(0.14)	neutral(0.434)	HMMPfam_Ank,HMMSmart_ANK,superfamily_ANK
LARP6	55323	genome.wustl.edu	37	15	71124945	71124945	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_018357.2	-1	validated	p.E308K	0.961	399	0.8%	234	29.1%	14	28.5%	possibly_damaging(0.911)	tolerated(0.18)	neutral(0.419)	NULL
THSD4	79875	genome.wustl.edu	37	15	71535377	71535377	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_024817.2	+1	provisional	p.R285Q	0.000	97	0%	39	25.6%	2	0%	benign(0.034)	tolerated(0.11)	neutral(0.274)	NULL
THSD4	79875	genome.wustl.edu	37	15	72020943	72020943	+	Silent	SNP	A	A	G	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_024817.2	+1	provisional	p.R471	0.861	247	0%	103	17.5%	1	0%	-	-	-	HMMPfam_ADAM_spacer1
NR2E3	10002	genome.wustl.edu	37	15	72105936	72105936	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_014249.2	+1	reviewed	p.G319R	0.004	88	0%	151	23.2%	0	-	-	-	-	HMMPfam_Hormone_recep,HMMSmart_SM00430,superfamily_Nuclear receptor ligand-binding domain
MYO9A	4649	genome.wustl.edu	37	15	72141260	72141260	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_006901.2	-1	validated	p.L2255F	1.000	363	0%	128	18%	1	0%	probably_damaging(0.999)	deleterious(0)	deleterious(0.935)	NULL
MYO9A	4649	genome.wustl.edu	37	15	72190692	72190692	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_006901.2	-1	validated	p.E1384D	0.524	197	0%	35	31.4%	0	-	benign(0.052)	tolerated(0.45)	neutral(0.015)	NULL
MYO9A	4649	genome.wustl.edu	37	15	72190934	72190934	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_006901.2	-1	validated	p.R1304C	1.000	219	0%	73	24.7%	0	-	probably_damaging(0.999)	deleterious(0)	deleterious(0.935)	NULL
MYO9A	4649	genome.wustl.edu	37	15	72193586	72193586	+	Silent	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_006901.2	-1	validated	p.V1032	0.001	211	0%	40	17.5%	1	0%	-	-	-	HMMSmart_SM00015,superfamily_P-loop containing nucleoside triphosphate hydrolases
SENP8	123228	genome.wustl.edu	37	15	72432004	72432004	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_145204.3	+1	reviewed	p.R14W	1.000	86	1.2%	32	34.4%	0	-	probably_damaging(1)	deleterious(0)	deleterious(0.945)	superfamily_SSF54001
PKM2	5315	genome.wustl.edu	37	15	72501000	72501000	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_002654.3	-1	reviewed	p.K266N	1.000	356	0.3%	232	21.1%	213	25.3%	probably_damaging(0.999)	deleterious(0.01)	deleterious(0.896)	HMMPfam_PK,superfamily_Phosphoenolpyruvate/pyruvate domain,PatternScan_PYRUVATE_KINASE
HEXA	3073	genome.wustl.edu	37	15	72640066	72640066	+	Silent	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_000520.4	-1	reviewed	p.G369	1.000	283	0%	132	13.6%	48	0%	-	-	-	HMMPfam_Glyco_hydro_20,superfamily_(Trans)glycosidases
HEXA	3073	genome.wustl.edu	37	15	72648892	72648892	+	Missense_Mutation	SNP	A	A	C	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_000520.4	-1	reviewed	p.L107R	0.718	243	0%	105	15.2%	15	6.6%	benign(0.105)	tolerated(0.15)	neutral(0.249)	HMMPfam_Glyco_hydro_20b,superfamily_beta-N-acetylhexosaminidase-like domain
BBS4	585	genome.wustl.edu	37	15	73016869	73016869	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_033028.3	+1	reviewed	p.A154T	1.000	344	0%	95	27.4%	2	0%	probably_damaging(0.988)	deleterious(0)	deleterious(0.882)	HMMPfam_TPR_2,HMMSmart_SM00028,superfamily_TPR-like
NEO1	4756	genome.wustl.edu	37	15	73409049	73409049	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_002499.3	+1	validated	p.R100Q	1.000	388	0%	83	14.5%	0	-	probably_damaging(1)	deleterious(0.03)	deleterious(0.865)	HMMSmart_SM00408,HMMSmart_SM00409,HMMPfam_I-set,superfamily_Immunoglobulin
HCN4	10021	genome.wustl.edu	37	15	73615907	73615907	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_005477.2	-1	reviewed	p.A843T	0.411	40	0%	73	28.8%	0	-	benign(0.036)	tolerated(0.75)	neutral(0.004)	NULL
HCN4	10021	genome.wustl.edu	37	15	73617478	73617478	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_005477.2	-1	reviewed	p.A599V	1.000	114	0%	184	26.1%	0	-	possibly_damaging(0.802)	deleterious(0.03)	deleterious(0.666)	HMMSmart_cNMP,superfamily_cNMP_binding
HCN4	10021	genome.wustl.edu	37	15	73635812	73635812	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_005477.2	-1	reviewed	p.R375C	1.000	133	0%	92	27.2%	0	-	probably_damaging(1)	deleterious(0.01)	deleterious(0.905)	HMMPfam_Ion_trans,superfamily_SSF81324
HCN4	10021	genome.wustl.edu	37	15	73635845	73635845	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_005477.2	-1	reviewed	p.D364N	1.000	167	0%	97	18.6%	0	-	benign(0.235)	tolerated(0.09)	neutral(0.320)	HMMPfam_Ion_trans,superfamily_SSF81324
NPTN	27020	genome.wustl.edu	37	15	73889522	73889522	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_012428.3	-1	reviewed	p.G94R	1.000	98	0%	37	13.5%	1	0%	probably_damaging(0.996)	tolerated(0.84)	neutral(0.462)	HMMSmart_IGc2,HMMPfam_ig,superfamily_SSF48726
TBC1D21	161514	genome.wustl.edu	37	15	74178504	74178504	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_153356.1	+1	provisional	p.A222D	1.000	92	0%	67	31.3%	0	-	benign(0.195)	tolerated(0.2)	neutral(0.068)	HMMSmart_TBC,superfamily_RabGAP_TBC
TBC1D21	161514	genome.wustl.edu	37	15	74178871	74178871	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_153356.1	+1	provisional	p.A232V	0.012	182	0%	111	22.5%	0	-	benign(0)	deleterious(0.04)	neutral(0.349)	HMMSmart_TBC,superfamily_RabGAP_TBC
ISLR2	57611	genome.wustl.edu	37	15	74425185	74425185	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001130136.1	+1	validated	p.Y30	0.936	36	0%	67	10.4%	0	-	-	-	-	HMMSmart_LRRNT,superfamily_SSF52058
STRA6	64220	genome.wustl.edu	37	15	74494572	74494572	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001142617.1	-1	reviewed	p.G13R	0.001	106	0%	93	24.7%	2	0%	possibly_damaging(0.945)	tolerated(0.05)	deleterious(0.735)	NULL
CCDC33	80125	genome.wustl.edu	37	15	74572330	74572330	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_025055.3	+1	validated	p.E262D	1.000	53	0%	27	25.9%	0	-	possibly_damaging(0.888)	tolerated(0.11)	deleterious(0.619)	NULL
CCDC33	80125	genome.wustl.edu	37	15	74622635	74622635	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_025055.3	+1	validated	p.R466C	0.000	55	0%	59	18.6%	1	0%	probably_damaging(0.985)	deleterious(0.01)	deleterious(0.838)	NULL
CCDC33	80125	genome.wustl.edu	37	15	74626238	74626238	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_025055.3	+1	validated	p.T652I	0.777	90	0%	62	30.6%	0	-	probably_damaging(0.99)	deleterious(0.03)	deleterious(0.806)	NULL
CYP11A1	1583	genome.wustl.edu	37	15	74640359	74640359	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_000781.2	-1	reviewed	p.D103N	0.297	84	0%	41	19.5%	0	-	benign(0.05)	tolerated(0.51)	neutral(0.012)	HMMPfam_p450,superfamily_Cytochrome P450
SEMA7A	8482	genome.wustl.edu	37	15	74708937	74708937	+	Silent	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_003612.3	-1	reviewed	p.S260	1.000	326	0.3%	344	15.1%	0	-	-	-	-	HMMPfam_Sema,HMMSmart_Sema,superfamily_Sema
SEMA7A	8482	genome.wustl.edu	37	15	74709727	74709727	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_003612.3	-1	reviewed	p.R204C	1.000	77	0%	90	18.9%	0	-	probably_damaging(1)	deleterious(0.02)	deleterious(0.883)	HMMPfam_Sema,HMMSmart_Sema,superfamily_Sema
ARID3B	10620	genome.wustl.edu	37	15	74836662	74836662	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_006465.2	+1	reviewed	p.R129C	0.568	435	0%	551	13.8%	0	-	probably_damaging(0.999)	deleterious(0)	deleterious(0.935)	NULL
ARID3B	10620	genome.wustl.edu	37	15	74836735	74836735	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_006465.2	+1	reviewed	p.A153V	0.632	279	0%	417	13.4%	0	-	benign(0.024)	deleterious(0.01)	neutral(0.407)	NULL
EDC3	80153	genome.wustl.edu	37	15	74927793	74927793	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001142443.1	-1	validated	p.S383	0.234	154	0%	82	12.2%	15	0%	-	-	-	HMMPfam_YjeF_N,superfamily_YjeF N-terminal domain-like
CYP1A1	1543	genome.wustl.edu	37	15	75012994	75012994	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_000499.3	-1	reviewed	p.G459S	1.000	134	0%	116	12.1%	0	-	probably_damaging(1)	deleterious(0)	deleterious(0.945)	HMMPfam_p450,superfamily_Cytochrome P450,PatternScan_CYTOCHROME_P450
CYP1A1	1543	genome.wustl.edu	37	15	75013576	75013576	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_000499.3	-1	reviewed	p.R377Q	1.000	203	0%	218	27.5%	0	-	probably_damaging(1)	deleterious(0.02)	deleterious(0.883)	HMMPfam_p450,superfamily_Cytochrome P450
CYP1A1	1543	genome.wustl.edu	37	15	75015032	75015032	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_000499.3	-1	reviewed	p.R136H	1.000	24	0%	43	27.9%	0	-	benign(0.098)	deleterious(0.01)	neutral(0.413)	HMMPfam_p450,superfamily_Cytochrome P450
CYP1A2	1544	genome.wustl.edu	37	15	75042139	75042139	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_000761.3	+1	reviewed	p.I20	0.796	227	0%	281	28.1%	0	-	-	-	-	NULL
LMAN1L	79748	genome.wustl.edu	37	15	75108769	75108769	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_021819.2	+1	validated	p.A111V	0.976	48	0%	65	24.6%	0	-	probably_damaging(1)	deleterious(0)	deleterious(0.945)	HMMPfam_Lectin_leg-like,superfamily_Concanavalin A-like lectins/glucanases
LMAN1L	79748	genome.wustl.edu	37	15	75113013	75113013	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_021819.2	+1	validated	p.R271H	0.157	131	0%	137	24.8%	0	-	benign(0.182)	tolerated(0.17)	neutral(0.075)	NULL
MPI	4351	genome.wustl.edu	37	15	75185531	75185531	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_002435.1	+1	reviewed	p.K180N	0.999	223	0%	294	22.4%	4	0%	benign(0.282)	tolerated(0.3)	neutral(0.115)	HMMPfam_PMI_typeI,superfamily_RmlC-like cupins
MPI	4351	genome.wustl.edu	37	15	75188528	75188528	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_002435.1	+1	reviewed	p.E236K	0.983	157	0%	172	22.1%	11	9%	benign(0.002)	tolerated(0.21)	neutral(0.044)	HMMPfam_PMI_typeI,superfamily_RmlC-like cupins
PPCDC	60490	genome.wustl.edu	37	15	75340907	75340907	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_021823.3	+1	validated	p.R125Q	1.000	72	0%	52	13.5%	8	12.5%	probably_damaging(1)	deleterious(0)	deleterious(0.945)	HMMPfam_Flavoprotein,superfamily_Homo-oligomeric flavin-containing Cys decarboxylases HFCD
C15orf39	56905	genome.wustl.edu	37	15	75498447	75498447	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_015492.4	+1	validated	p.R20C	1.000	35	0%	81	25.9%	2	0%	unknown(0)	deleterious(0)	-	NULL
C15orf39	56905	genome.wustl.edu	37	15	75499733	75499733	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_015492.4	+1	validated	p.E448D	0.634	22	0%	55	27.3%	7	0%	unknown(0)	deleterious(0)	-	NULL
C15orf39	56905	genome.wustl.edu	37	15	75500287	75500287	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_015492.4	+1	validated	p.V633A	0.000	62	0%	90	10%	16	6.2%	unknown(0)	tolerated(0.2)	-	NULL
COMMD4	54939	genome.wustl.edu	37	15	75631617	75631617	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_017828.3	+1	validated	p.S105N	0.815	67	0%	64	25%	98	29.5%	benign(0.074)	deleterious(0.02)	neutral(0.388)	HMMPfam_HCaRG
MAN2C1	4123	genome.wustl.edu	37	15	75648766	75648766	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_006715.2	-1	validated	p.I921T	1.000	25	0%	47	27.7%	71	9.8%	probably_damaging(0.995)	deleterious(0.01)	deleterious(0.863)	HMMPfam_Glyco_hydro_38C
MAN2C1	4123	genome.wustl.edu	37	15	75653466	75653466	+	Missense_Mutation	SNP	A	A	C	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_006715.2	-1	validated	p.F461V	1.000	66	0%	111	18.9%	8	0%	probably_damaging(0.992)	tolerated(0.2)	deleterious(0.496)	HMMPfam_Glyco_hydro_38,superfamily_Glyco_hydro/deAcase_b/a-brl
SIN3A	25942	genome.wustl.edu	37	15	75684842	75684842	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001145357.1	-1	reviewed	p.S864	1.000	362	0%	128	25.8%	10	0%	-	-	-	NULL
SIN3A	25942	genome.wustl.edu	37	15	75688774	75688774	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001145357.1	-1	reviewed	p.L640F	1.000	149	0%	56	19.6%	3	0%	probably_damaging(0.973)	deleterious(0.01)	deleterious(0.821)	HMMPfam_HDAC_interact,HMMSmart_HDAC_interact
PTPN9	5780	genome.wustl.edu	37	15	75798050	75798050	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_002833.2	-1	reviewed	p.R312C	0.390	260	0%	403	24.1%	1	0%	probably_damaging(0.999)	deleterious(0.01)	deleterious(0.896)	HMMSmart_PTPc,superfamily_SSF52799
SNX33	257364	genome.wustl.edu	37	15	75949387	75949387	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_153271.1	+1	provisional	p.R519H	1.000	31	0%	41	26.8%	11	18.1%	probably_damaging(1)	deleterious(0)	deleterious(0.945)	HMMPfam_BAR_3_WASP_bdg
CSPG4	1464	genome.wustl.edu	37	15	75968548	75968548	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001897.4	-1	reviewed	p.P2104	0.250	6	0.000	47	0.340	12	0%	-	-	-	NULL
CSPG4	1464	genome.wustl.edu	37	15	75968740	75968740	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001897.4	-1	reviewed	p.N2040	0.431	21	0%	57	24.6%	27	0%	-	-	-	NULL
CSPG4	1464	genome.wustl.edu	37	15	75970139	75970139	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001897.4	-1	reviewed	p.S1680L	0.995	55	0%	107	11.2%	34	0%	probably_damaging(0.998)	deleterious(0.01)	deleterious(0.880)	NULL
CSPG4	1464	genome.wustl.edu	37	15	75977844	75977844	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001897.4	-1	reviewed	p.D1330N	0.975	20	0%	45	28.9%	12	0%	probably_damaging(0.994)	deleterious(0)	deleterious(0.897)	NULL
LOC441728	441728	genome.wustl.edu	37	15	76075585	76075585	+	RNA	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	XR_017329.2	+1	model	NULL	0.049	144	0%	113	13.3%	0	-	-	-	-	-
ENSG00000167141	0	genome.wustl.edu	37	15	76079256	76079256	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	ENST00000338857	+1	known	p.G263S	0.166	59	0%	65	30.8%	0	-	benign(0)	tolerated(1)	-	NULL
C15orf27	123591	genome.wustl.edu	37	15	76496125	76496125	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_152335.2	+1	validated	p.A355	0.012	186	0%	302	27.8%	0	-	-	-	-	NULL
ETFA	2108	genome.wustl.edu	37	15	76587981	76587981	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_000126.3	-1	reviewed	p.R46H	0.000	273	0%	137	24.1%	16	6.2%	benign(0.001)	deleterious(0.01)	neutral(0.406)	HMMPfam_ETF,superfamily_Adenine nucleotide alpha hydrolases-like
SCAPER	49855	genome.wustl.edu	37	15	77046230	77046230	+	Missense_Mutation	SNP	T	T	G	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_020843.2	-1	validated	p.E594D	1.000	523	0%	198	21.7%	1	100%	benign(0.002)	tolerated(0.2)	neutral(0.049)	NULL
SCAPER	49855	genome.wustl.edu	37	15	77087629	77087629	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_020843.2	-1	validated	p.R254H	0.939	193	0%	91	29.7%	1	0%	possibly_damaging(0.909)	tolerated(0.12)	deleterious(0.623)	NULL
SCAPER	49855	genome.wustl.edu	37	15	77134166	77134166	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_020843.2	-1	validated	p.R100Q	1.000	540	0%	198	23.7%	1	0%	probably_damaging(1)	deleterious(0)	deleterious(0.945)	NULL
SGK269	79834	genome.wustl.edu	37	15	77406860	77406860	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_024776.2	-1	validated	p.R1627C	0.788	310	0%	117	23.9%	3	0%	possibly_damaging(0.931)	deleterious(0.02)	deleterious(0.760)	superfamily_Kinase_like
SGK269	79834	genome.wustl.edu	37	15	77472546	77472546	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_024776.2	-1	validated	p.A575T	1.000	231	0%	107	14%	2	0%	benign(0.002)	tolerated(0.23)	neutral(0.042)	NULL
SGK269	79834	genome.wustl.edu	37	15	77473289	77473289	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_024776.2	-1	validated	p.S327Y	0.992	76	0%	32	28.1%	5	0%	possibly_damaging(0.819)	deleterious(0)	deleterious(0.754)	NULL
SGK269	79834	genome.wustl.edu	37	15	77473379	77473379	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_024776.2	-1	validated	p.R297Q	0.998	95	0%	54	22.2%	1	0%	probably_damaging(1)	tolerated(0.06)	deleterious(0.823)	NULL
HMG20A	10363	genome.wustl.edu	37	15	77771652	77771652	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_018200.2	+1	provisional	p.R347C	1.000	231	0%	50	42%	8	37.5%	probably_damaging(1)	deleterious(0)	deleterious(0.945)	NULL
LINGO1	84894	genome.wustl.edu	37	15	77907318	77907318	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_032808.5	-1	validated	p.L311F	1.000	140	0%	270	28.5%	2	0%	possibly_damaging(0.62)	tolerated(0.32)	neutral(0.240)	HMMSmart_SM00369,superfamily_L domain-like
TBC1D2B	23102	genome.wustl.edu	37	15	78301371	78301371	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_144572.1	-1	validated	p.D786Y	1.000	181	0%	111	18%	3	0%	probably_damaging(1)	deleterious(0.01)	deleterious(0.905)	HMMPfam_TBC,HMMSmart_SM00164,superfamily_Ypt/Rab-GAP domain of gyp1p
SH2D7	646892	genome.wustl.edu	37	15	78386504	78386504	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001101404.1	+1	provisional	p.R76H	1.000	86	0%	54	11.1%	0	-	probably_damaging(1)	deleterious(0)	deleterious(0.945)	HMMPfam_SH2,HMMSmart_SH2,superfamily_SSF55550
SH2D7	646892	genome.wustl.edu	37	15	78390931	78390931	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001101404.1	+1	provisional	p.S213N	0.000	71	0%	43	30.2%	0	-	benign(0.171)	tolerated(0.43)	neutral(0.029)	NULL
CIB2	10518	genome.wustl.edu	37	15	78401695	78401695	+	Silent	SNP	C	C	T	rs148872246	by1000genomes	TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_006383.2	-1	validated	p.A76	0.956	135	0.7%	80	28.7%	3	33.3%	-	-	-	superfamily_SSF47473
IDH3A	3419	genome.wustl.edu	37	15	78458533	78458533	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_005530.2	+1	reviewed	p.A302	1.000	246	0.4%	95	28.4%	28	25%	-	-	-	HMMPfam_Iso_dh,superfamily_Isocitrate/Isopropylmalate dehydrogenase-like
ACSBG1	23205	genome.wustl.edu	37	15	78466010	78466010	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_015162.3	-1	reviewed	p.A672T	0.989	130	0%	79	17.7%	0	-	probably_damaging(0.997)	deleterious(0.01)	deleterious(0.872)	superfamily_Acetyl-CoA synthetase-like
DNAJA4	55466	genome.wustl.edu	37	15	78568044	78568044	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_018602.3	+1	validated	p.R313Q	1.000	393	0.3%	305	27.2%	19	15.7%	probably_damaging(0.999)	deleterious(0)	deleterious(0.935)	HMMPfam_DnaJ_C,superfamily_HSP40_DnaJ_pep
DNAJA4	55466	genome.wustl.edu	37	15	78572425	78572425	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_018602.3	+1	validated	p.D335N	0.426	136	0%	119	12.6%	17	0%	benign(0)	tolerated(0.52)	neutral(0.009)	HMMPfam_DnaJ_C,superfamily_HSP40_DnaJ_pep
CRABP1	1381	genome.wustl.edu	37	15	78633493	78633493	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_004378.2	+1	reviewed	p.R60H	1.000	63	0%	115	13.9%	3	0%	probably_damaging(0.97)	deleterious(0)	deleterious(0.857)	HMMPfam_Lipocalin,superfamily_Lipocalins
IREB2	3658	genome.wustl.edu	37	15	78732186	78732186	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_004136.2	+1	validated	p.K23N	0.985	359	0%	518	12.7%	2	0%	benign(0.006)	tolerated(0.36)	neutral(0.020)	NULL
CHRNA3	1136	genome.wustl.edu	37	15	78893982	78893982	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_000743.4	-1	reviewed	p.T334	1.000	326	0%	114	22.8%	2	0%	-	-	-	HMMPfam_Neur_chan_memb,superfamily_Neurotransmitter-gated ion-channel transmembrane pore
CHRNA3	1136	genome.wustl.edu	37	15	78894200	78894200	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_000743.4	-1	reviewed	p.V262I	1.000	524	0%	310	24.2%	0	-	probably_damaging(0.978)	deleterious(0)	deleterious(0.865)	HMMPfam_Neur_chan_memb,superfamily_Neurotransmitter-gated ion-channel transmembrane pore
CHRNA3	1136	genome.wustl.edu	37	15	78894481	78894481	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_000743.4	-1	reviewed	p.F168S	1.000	271	0%	113	24.8%	2	0%	probably_damaging(1)	deleterious(0)	deleterious(0.945)	HMMPfam_Neur_chan_LBD,superfamily_Nicotinic receptor ligand binding domain-like,PatternScan_NEUROTR_ION_CHANNEL
LOC646938	646938	genome.wustl.edu	37	15	79045638	79045638	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	XM_929902.3	+1	model	p.E82D	0.997	35	0%	71	16.9%	0	-	possibly_damaging(0.815)	deleterious(0)	deleterious(0.752)	NULL
RASGRF1	5923	genome.wustl.edu	37	15	79264251	79264251	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_002891.4	-1	reviewed	p.R1229H	1.000	521	0%	254	23.2%	0	-	probably_damaging(1)	deleterious(0.01)	deleterious(0.905)	HMMSmart_SM00147,superfamily_Ras GEF
ANKRD34C	390616	genome.wustl.edu	37	15	79585808	79585808	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	XM_002343327.1	+1	model	p.S61N	1.000	172	0%	118	22%	0	-	probably_damaging(0.998)	tolerated(0.25)	deleterious(0.511)	HMMPfam_Ank,HMMSmart_SM00248,superfamily_Ankyrin repeat
ZFAND6	54469	genome.wustl.edu	37	15	80423599	80423599	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_019006.2	+1	provisional	p.R148C	1.000	316	0.3%	109	19.3%	60	13.3%	probably_damaging(1)	deleterious(0)	deleterious(0.945)	NULL
FAH	2184	genome.wustl.edu	37	15	80465358	80465358	+	Nonsense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_000137.1	+1	reviewed	p.R237*	0.959	155	0%	102	24.5%	8	0%	-	-	-	HMMPfam_FAA_hydrolase,superfamily_FAH
FAH	2184	genome.wustl.edu	37	15	80478495	80478495	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_000137.1	+1	reviewed	p.R402C	1.000	260	0%	116	27.6%	22	36.3%	probably_damaging(0.999)	deleterious(0.01)	deleterious(0.896)	HMMPfam_FAA_hydrolase,superfamily_FAH
ARNT2	9915	genome.wustl.edu	37	15	80767508	80767508	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_014862.3	+1	reviewed	p.P189H	0.998	132	0%	47	17%	0	-	probably_damaging(0.997)	deleterious(0)	deleterious(0.911)	HMMSmart_SM00091,HMMPfam_PAS,superfamily_PYP-like sensor domain (PAS domain)
KIAA1199	57214	genome.wustl.edu	37	15	81181048	81181048	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_018689.1	+1	validated	p.R292Q	0.002	325	0%	75	14.7%	1	0%	benign(0.027)	tolerated(1)	neutral(0.002)	NULL
KIAA1199	57214	genome.wustl.edu	37	15	81181832	81181832	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_018689.1	+1	validated	p.F329L	1.000	220	0%	60	21.7%	0	-	probably_damaging(0.991)	deleterious(0.03)	deleterious(0.808)	NULL
KIAA1199	57214	genome.wustl.edu	37	15	81181917	81181917	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_018689.1	+1	validated	p.R357H	0.448	272	0%	105	26.7%	1	0%	benign(0.002)	tolerated(0.1)	neutral(0.286)	NULL
KIAA1199	57214	genome.wustl.edu	37	15	81188283	81188283	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_018689.1	+1	validated	p.Q431H	0.364	175	0%	51	17.6%	1	0%	benign(0.001)	tolerated(0.06)	neutral(0.323)	NULL
LOC647020	647020	genome.wustl.edu	37	15	81410579	81410579	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	XM_001719614.2	-1	model	p.G73C	0.997	91	0%	183	18.6%	0	-	-	-	-	superfamily_L domain-like
STARD5	80765	genome.wustl.edu	37	15	81605711	81605711	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_181900.2	-1	validated	p.F176	1.000	216	0%	143	25.9%	21	0%	-	-	-	HMMPfam_START,HMMSmart_SM00234,superfamily_Bet v1-like
STARD5	80765	genome.wustl.edu	37	15	81610812	81610812	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_181900.2	-1	validated	p.P144	0.864	141	0%	115	11.3%	14	7.1%	-	-	-	HMMPfam_START,HMMSmart_SM00234,superfamily_Bet v1-like
TMC3	342125	genome.wustl.edu	37	15	81637333	81637333	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001080532.1	-1	provisional	p.N431S	0.003	436	0%	142	11.3%	0	-	benign(0)	tolerated(0.77)	neutral(0.001)	NULL
TMC3	342125	genome.wustl.edu	37	15	81650798	81650798	+	Missense_Mutation	SNP	A	A	C	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001080532.1	-1	provisional	p.I182S	1.000	241	0%	79	20.3%	1	0%	probably_damaging(0.996)	tolerated(0.06)	deleterious(0.784)	NULL
MEX3B	84206	genome.wustl.edu	37	15	82336657	82336657	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_032246.3	-1	provisional	p.R185H	1.000	39	0%	74	25.7%	4	0%	probably_damaging(1)	tolerated(0.07)	deleterious(0.819)	HMMSmart_SM00322,HMMPfam_KH_1,superfamily_Eukaryotic type KH-domain (KH-domain type I)
FAM154B	283726	genome.wustl.edu	37	15	82575125	82575125	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001008226.1	+1	predicted	p.P307S	0.024	152	0%	62	22.6%	0	-	benign(0.032)	tolerated(0.81)	neutral(0.002)	NULL
CPEB1	64506	genome.wustl.edu	37	15	83215199	83215199	+	Nonsense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_030594.3	-1	reviewed	p.R523*	1.000	83	0%	91	14.3%	1	0%	-	-	-	NULL
AP3B2	8120	genome.wustl.edu	37	15	83333169	83333169	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_004644.3	-1	validated	p.S718	0.016	251	0%	180	19.4%	1	0%	-	-	-	NULL
AP3B2	8120	genome.wustl.edu	37	15	83335571	83335571	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_004644.3	-1	validated	p.A594T	0.973	59	0%	48	25%	2	0%	benign(0.002)	tolerated(0.33)	neutral(0.024)	superfamily_ARM-type_fold
FSD2	123722	genome.wustl.edu	37	15	83451775	83451775	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001007122.2	-1	provisional	p.E246D	1.000	259	0%	134	26.1%	0	-	probably_damaging(1)	tolerated(0.1)	deleterious(0.786)	NULL
FSD2	123722	genome.wustl.edu	37	15	83455669	83455669	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001007122.2	-1	provisional	p.S158	0.406	201	0%	97	22.7%	1	0%	-	-	-	NULL
FAM103A1	83640	genome.wustl.edu	37	15	83657909	83657909	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_031452.2	+1	predicted	p.A47S	1.000	142	0%	161	24.8%	27	14.8%	benign(0.001)	tolerated(0.38)	neutral(0.018)	NULL
TM6SF1	53346	genome.wustl.edu	37	15	83784623	83784623	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_023003.3	+1	validated	p.V75M	1.000	611	0%	510	21%	0	-	probably_damaging(0.996)	tolerated(0.11)	deleterious(0.733)	NULL
TM6SF1	53346	genome.wustl.edu	37	15	83791524	83791524	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_023003.3	+1	validated	p.R166Q	0.986	452	0%	193	26.9%	3	0%	possibly_damaging(0.582)	tolerated(0.29)	neutral(0.229)	NULL
SH3GL3	6457	genome.wustl.edu	37	15	84228059	84228059	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_003027.3	+1	validated	p.L34F	0.722	355	0%	81	12.3%	0	-	benign(0.238)	tolerated(0.12)	neutral(0.285)	HMMPfam_BAR,HMMSmart_SM00721
SH3GL3	6457	genome.wustl.edu	37	15	84241451	84241451	+	Splice_Site	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_003027.3	+1	validated	e5+1	1.000	196	0%	62	30.6%	0	-	-	-	-	-
SH3GL3	6457	genome.wustl.edu	37	15	84245410	84245410	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_003027.3	+1	validated	p.E181K	0.997	177	0.6%	71	15.5%	0	-	possibly_damaging(0.574)	deleterious(0.03)	deleterious(0.561)	HMMPfam_BAR,HMMSmart_SM00721
SH3GL3	6457	genome.wustl.edu	37	15	84287010	84287010	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_003027.3	+1	validated	p.V339M	1.000	120	0%	41	29.3%	0	-	probably_damaging(1)	deleterious(0)	deleterious(0.945)	HMMPfam_SH3_1,HMMSmart_SM00326,superfamily_SH3-domain
ADAMTSL3	57188	genome.wustl.edu	37	15	84651314	84651314	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_207517.2	+1	validated	p.G978	0.435	101	0%	32	25%	0	-	-	-	-	HMMSmart_SM00408,HMMSmart_SM00409,HMMPfam_I-set,superfamily_Immunoglobulin
LOC648809	648809	genome.wustl.edu	37	15	84789916	84789916	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	XM_001713991.2	+1	model	p.A79V	0.179	221	0%	38	26.3%	0	-	-	-	-	superfamily_Translation proteins
ZSCAN2	54993	genome.wustl.edu	37	15	85164093	85164093	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_181877.3	+1	reviewed	p.E223K	0.013	89	0%	72	19.4%	3	0%	probably_damaging(0.995)	tolerated(0.77)	neutral(0.459)	HMMPfam_zf-C2H2,HMMSmart_SM00355,superfamily_C2H2 and C2HC zinc fingers
ZSCAN2	54993	genome.wustl.edu	37	15	85164292	85164292	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_181877.3	+1	reviewed	p.R289Q	0.981	63	0%	55	14.5%	0	-	benign(0.136)	tolerated(0.95)	neutral(0.011)	HMMPfam_zf-C2H2,PatternScan_ZINC_FINGER_C2H2_1,HMMSmart_SM00355,superfamily_C2H2 and C2HC zinc fingers
WDR73	84942	genome.wustl.edu	37	15	85186705	85186705	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_032856.2	-1	validated	p.R378H	0.002	150	0%	103	36.9%	27	40.7%	probably_damaging(0.994)	deleterious(0)	deleterious(0.897)	NULL
ZNF592	9640	genome.wustl.edu	37	15	85326134	85326134	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_014630.2	+1	validated	p.Q76H	1.000	139	0%	39	23.1%	1	0%	probably_damaging(0.996)	tolerated(0.12)	deleterious(0.722)	NULL
ZNF592	9640	genome.wustl.edu	37	15	85327731	85327731	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_014630.2	+1	validated	p.R609W	1.000	49	0%	20	30%	1	0%	probably_damaging(1)	deleterious(0)	deleterious(0.945)	HMMSmart_ZnF_C2H2
ZNF592	9640	genome.wustl.edu	37	15	85341576	85341576	+	Silent	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_014630.2	+1	validated	p.V869	1.000	166	0%	95	27.4%	2	0%	-	-	-	NULL
ALPK3	57538	genome.wustl.edu	37	15	85383854	85383854	+	Silent	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_020778.4	+1	validated	p.G650	0.002	29	0%	26	34.6%	0	-	-	-	-	NULL
ALPK3	57538	genome.wustl.edu	37	15	85403074	85403074	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_020778.4	+1	validated	p.R1547W	0.003	30	0%	38	28.9%	0	-	probably_damaging(0.996)	deleterious(0)	deleterious(0.906)	HMMSmart_SM00408,HMMSmart_SM00409,superfamily_Protein kinase-like (PK-like),superfamily_Immunoglobulin
ALPK3	57538	genome.wustl.edu	37	15	85405914	85405914	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_020778.4	+1	validated	p.A1595V	0.997	141	0%	125	23.2%	1	0%	possibly_damaging(0.916)	deleterious(0.01)	deleterious(0.772)	HMMPfam_Alpha_kinase,superfamily_Protein kinase-like (PK-like)
ALPK3	57538	genome.wustl.edu	37	15	85406848	85406848	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_020778.4	+1	validated	p.A1694	0.000	86	0%	90	17.8%	0	-	-	-	-	HMMPfam_Alpha_kinase,HMMSmart_SM00811,superfamily_Protein kinase-like (PK-like)
SLC28A1	9154	genome.wustl.edu	37	15	85478258	85478258	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_004213.3	+1	validated	p.D406Y	1.000	69	0%	42	23.8%	0	-	benign(0.259)	deleterious(0.01)	neutral(0.433)	HMMPfam_Nucleos_tra2_C
SLC28A1	9154	genome.wustl.edu	37	15	85488400	85488400	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_004213.3	+1	validated	p.R640Q	0.004	208	0%	105	23.8%	0	-	benign(0.046)	tolerated(0.5)	neutral(0.013)	NULL
PDE8A	5151	genome.wustl.edu	37	15	85660971	85660971	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_002605.2	+1	validated	p.I545	0.769	566	0%	148	10.8%	3	0%	-	-	-	superfamily_HD-domain/PDEase-like
PDE8A	5151	genome.wustl.edu	37	15	85666344	85666344	+	Nonsense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_002605.2	+1	validated	p.E669*	1.000	177	0.6%	55	25.5%	7	0%	-	-	-	HMMPfam_PDEase_I,HMMSmart_SM00471,superfamily_HD-domain/PDEase-like
AKAP13	11214	genome.wustl.edu	37	15	86118442	86118442	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_006738.4	+1	reviewed	p.R248Q	0.999	238	0%	80	21.2%	0	-	probably_damaging(0.989)	deleterious(0)	deleterious(0.884)	NULL
AKAP13	11214	genome.wustl.edu	37	15	86124844	86124844	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_006738.4	+1	reviewed	p.E1182G	0.000	77	0%	35	28.6%	2	50%	benign(0.139)	deleterious(0.02)	neutral(0.395)	NULL
AKAP13	11214	genome.wustl.edu	37	15	86236664	86236664	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_006738.4	+1	reviewed	p.D1820Y	1.000	272	0%	67	29.9%	2	0%	probably_damaging(1)	deleterious(0)	deleterious(0.945)	HMMPfam_C1_1,HMMSmart_C1,PatternScan_ZF_DAG_PE_1,superfamily_SSF57889
AKAP13	11214	genome.wustl.edu	37	15	86283468	86283468	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_006738.4	+1	reviewed	p.V2529I	0.901	501	0%	345	27.8%	11	0%	benign(0)	tolerated(0.72)	neutral(0.002)	NULL
AGBL1	123624	genome.wustl.edu	37	15	86807702	86807702	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_152336.2	+1	validated	p.P388S	0.000	115	0%	58	20.7%	0	-	benign(0.002)	tolerated(0.34)	neutral(0.023)	NULL
AGBL1	123624	genome.wustl.edu	37	15	87066159	87066159	+	Nonsense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_152336.2	+1	validated	p.R846*	0.788	187	0%	137	21.2%	0	-	-	-	-	HMMPfam_Peptidase_M14,superfamily_Zn-dependent exopeptidases
AGBL1	123624	genome.wustl.edu	37	15	87531217	87531217	+	Splice_Site	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_152336.2	+1	validated	e22-1	0.001	506	0.2%	184	20.7%	0	-	-	-	-	-
NTRK3	4916	genome.wustl.edu	37	15	88420192	88420192	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001012338.1	-1	reviewed	p.P832S	1.000	194	0%	65	13.8%	0	-	probably_damaging(0.998)	tolerated(0.08)	deleterious(0.774)	superfamily_Protein kinase-like (PK-like)
NTRK3	4916	genome.wustl.edu	37	15	88472514	88472514	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001012338.1	-1	reviewed	p.A681T	1.000	94	0%	36	27.8%	0	-	possibly_damaging(0.842)	deleterious(0)	deleterious(0.766)	HMMPfam_Pkinase_Tyr,HMMSmart_SM00219,HMMSmart_SM00220,PatternScan_PROTEIN_KINASE_TYR,superfamily_Protein kinase-like (PK-like)
NTRK3	4916	genome.wustl.edu	37	15	88483961	88483961	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001012338.1	-1	reviewed	p.D537Y	1.000	115	0%	32	28.1%	0	-	probably_damaging(0.99)	deleterious(0.01)	deleterious(0.847)	superfamily_Protein kinase-like (PK-like)
NTRK3	4916	genome.wustl.edu	37	15	88669532	88669532	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001012338.1	-1	reviewed	p.Y456H	1.000	361	0%	143	20.3%	0	-	probably_damaging(1)	tolerated(0.4)	deleterious(0.516)	NULL
MRPL46	26589	genome.wustl.edu	37	15	89008855	89008855	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_022163.3	-1	reviewed	p.Q126H	0.998	286	0%	213	21.6%	11	18.1%	probably_damaging(0.994)	deleterious(0.01)	deleterious(0.858)	NULL
MRPS11	64963	genome.wustl.edu	37	15	89021168	89021168	+	Silent	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_022839.2	+1	reviewed	p.I181	1.000	99	0%	35	22.9%	67	23.8%	-	-	-	HMMPfam_Ribosomal_S11,PatternScan_RIBOSOMAL_S11,superfamily_Translational machinery components
DET1	55070	genome.wustl.edu	37	15	89074875	89074875	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_017996.3	-1	validated	p.R32H	1.000	225	0%	177	29.9%	2	50%	probably_damaging(0.999)	deleterious(0)	deleterious(0.935)	NULL
ACAN	176	genome.wustl.edu	37	15	89382102	89382102	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_013227.3	+1	reviewed	p.R93	0.030	137	0%	213	10.8%	0	-	-	-	-	HMMSmart_SM00406,HMMSmart_SM00409,HMMPfam_V-set,superfamily_Immunoglobulin
ACAN	176	genome.wustl.edu	37	15	89383336	89383336	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_013227.3	+1	reviewed	p.A183V	1.000	35	0%	56	25%	0	-	unknown(0)	deleterious(0)	-	HMMPfam_Xlink,HMMSmart_SM00445,PatternScan_LINK_1,superfamily_C-type lectin-like
ACAN	176	genome.wustl.edu	37	15	89401185	89401185	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_013227.3	+1	reviewed	p.S1675Y	0.985	99	0%	78	29.5%	0	-	probably_damaging(0.997)	deleterious(0)	deleterious(0.911)	NULL
ACAN	176	genome.wustl.edu	37	15	89402492	89402492	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_013227.3	+1	reviewed	p.T2111A	0.017	100	0%	59	18.6%	0	-	possibly_damaging(0.663)	tolerated(0.34)	neutral(0.258)	NULL
HAPLN3	145864	genome.wustl.edu	37	15	89421236	89421236	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_178232.2	-1	reviewed	p.R350C	0.000	25	0%	40	30%	49	34.6%	probably_damaging(1)	deleterious(0)	deleterious(0.945)	HMMPfam_Xlink,HMMSmart_SM00445,superfamily_C-type lectin-like
HAPLN3	145864	genome.wustl.edu	37	15	89421350	89421350	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_178232.2	-1	reviewed	p.D312N	1.000	42	0%	61	36.1%	33	21.2%	probably_damaging(0.994)	tolerated(0.09)	deleterious(0.748)	HMMPfam_Xlink,HMMSmart_SM00445,PatternScan_LINK_1,superfamily_C-type lectin-like
ABHD2	11057	genome.wustl.edu	37	15	89738471	89738471	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_007011.7	+1	reviewed	p.N365	0.994	161	0%	74	33.8%	3	66.6%	-	-	-	HMMPfam_Abhydrolase_1,superfamily_SSF53474
C15orf42	90381	genome.wustl.edu	37	15	90164656	90164656	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_152259.3	+1	validated	p.R1063W	0.997	286	0%	219	26.5%	0	-	probably_damaging(0.986)	deleterious(0.01)	deleterious(0.840)	NULL
KIF7	374654	genome.wustl.edu	37	15	90188375	90188375	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_198525.2	-1	validated	p.R687Q	0.000	28	0%	69	26.1%	1	0%	benign(0)	tolerated(0.34)	neutral(0.023)	NULL
PLIN1	5346	genome.wustl.edu	37	15	90213403	90213403	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001145311.1	-1	reviewed	p.A136T	0.067	52	0%	79	32.9%	0	-	benign(0.001)	tolerated(1)	-	HMMPfam_Perilipin
ANPEP	290	genome.wustl.edu	37	15	90346989	90346989	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001150.2	-1	reviewed	p.R442	0.063	112	0%	113	18.6%	0	-	-	-	-	HMMPfam_Peptidase_M1,superfamily_SSF55486
ZNF710	374655	genome.wustl.edu	37	15	90611605	90611605	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_198526.2	+1	validated	p.C412	0.977	43	0%	67	28.4%	1	100%	-	-	-	HMMPfam_zf-C2H2,PatternScan_ZINC_FINGER_C2H2_1,HMMSmart_ZnF_C2H2
C15orf58	390637	genome.wustl.edu	37	15	90784524	90784524	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001013657.2	+1	validated	p.K128N	1.000	92	0%	119	24.4%	0	-	probably_damaging(0.99)	deleterious(0.01)	deleterious(0.847)	NULL
C15orf58	390637	genome.wustl.edu	37	15	90784986	90784986	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001013657.2	+1	validated	p.D282	0.520	189	0%	231	22.5%	5	20%	-	-	-	NULL
NGRN	51335	genome.wustl.edu	37	15	90809556	90809556	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001033088.1	+1	validated	p.Q67H	1.000	107	0%	198	23.2%	56	12.5%	probably_damaging(0.991)	tolerated(0.49)	neutral(0.455)	NULL
ZNF774	342132	genome.wustl.edu	37	15	90904228	90904228	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001004309.2	+1	validated	p.A389T	0.026	109	0%	109	23.9%	1	0%	benign(0.007)	tolerated(0.48)	neutral(0.011)	HMMPfam_zf-C2H2,PatternScan_ZINC_FINGER_C2H2_1,HMMSmart_SM00355,superfamily_C2H2 and C2HC zinc fingers
IQGAP1	8826	genome.wustl.edu	37	15	91034718	91034718	+	Nonsense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_003870.3	+1	reviewed	p.E1468*	0.999	151	0%	63	11.1%	30	0%	-	-	-	HMMPfam_RasGAP_C
CRTC3	64784	genome.wustl.edu	37	15	91172592	91172592	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_022769.3	+1	validated	p.R365H	0.997	385	0.3%	302	11.6%	1	0%	probably_damaging(0.999)	tolerated(0.11)	deleterious(0.762)	NULL
CRTC3	64784	genome.wustl.edu	37	15	91184353	91184353	+	Nonsense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_022769.3	+1	validated	p.R525*	0.000	191	0%	242	13.2%	7	0%	-	-	-	NULL
BLM	641	genome.wustl.edu	37	15	91295090	91295090	+	Silent	SNP	T	T	C	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_000057.2	+1	reviewed	p.F291	0.000	468	0%	116	17.2%	0	-	-	-	-	NULL
BLM	641	genome.wustl.edu	37	15	91298099	91298099	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_000057.2	+1	reviewed	p.D340Y	0.002	305	0%	92	26.1%	0	-	probably_damaging(0.984)	deleterious(0.01)	deleterious(0.836)	NULL
FURIN	5045	genome.wustl.edu	37	15	91419526	91419526	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_002569.2	+1	reviewed	p.T73	0.881	23	0%	62	29%	8	12.5%	-	-	-	superfamily_Prot_inh_propept
MAN2A2	4122	genome.wustl.edu	37	15	91450556	91450556	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_006122.2	+1	validated	p.D343Y	1.000	61	0%	90	13.3%	2	0%	probably_damaging(1)	deleterious(0)	deleterious(0.945)	HMMPfam_Glyco_hydro_38,superfamily_Glyco_hydro/deAcase_b/a-brl
MAN2A2	4122	genome.wustl.edu	37	15	91452692	91452692	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_006122.2	+1	validated	p.R444	0.997	152	0%	218	23.9%	3	0%	unknown(0)	-	-	HMMPfam_Glyco_hydro_38,superfamily_Glyco_hydro/deAcase_b/a-brl
MAN2A2	4122	genome.wustl.edu	37	15	91455453	91455453	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_006122.2	+1	validated	p.A764T	1.000	86	0%	103	26.2%	6	33.3%	benign(0)	tolerated(0.62)	neutral(0.004)	superfamily_Gal_mut_like,HMMPfam_Glyco_hydro_38C
LOC100288997	100288997	genome.wustl.edu	37	15	91479709	91479709	+	Silent	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	XM_002343396.1	-1	model	p.L877	0.001	64	0%	160	15.6%	0	-	-	-	-	NULL
ENSG00000214432	0	genome.wustl.edu	37	15	91578329	91578329	+	RNA	SNP	A	A	C	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	ENST00000389283	+1	known	NULL	0.053	32	0%	24	20.8%	0	-	-	-	-	-
SV2B	9899	genome.wustl.edu	37	15	91801773	91801773	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_014848.4	+1	validated	p.F303L	1.000	175	0%	62	24.2%	0	-	probably_damaging(0.999)	deleterious(0.01)	deleterious(0.896)	HMMPfam_MFS_1,superfamily_MFS_gen_substrate_transporter
ST8SIA2	8128	genome.wustl.edu	37	15	92981712	92981712	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_006011.3	+1	reviewed	p.Y140	0.971	156	0%	111	22.5%	0	-	-	-	-	HMMPfam_Glyco_transf_29
CHD2	1106	genome.wustl.edu	37	15	93489303	93489303	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001271.3	+1	reviewed	p.E412K	1.000	140	0%	32	21.9%	6	0%	probably_damaging(0.989)	deleterious(0.01)	deleterious(0.845)	HMMPfam_Chromo,HMMSmart_SM00298,superfamily_Chromo domain-like,superfamily_P-loop containing nucleoside triphosphate hydrolases
CHD2	1106	genome.wustl.edu	37	15	93522378	93522378	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001271.3	+1	reviewed	p.R914H	1.000	274	0.4%	90	12.2%	1	0%	probably_damaging(1)	deleterious(0)	deleterious(0.945)	superfamily_P-loop containing nucleoside triphosphate hydrolases
MCTP2	55784	genome.wustl.edu	37	15	94943206	94943206	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_018349.3	+1	validated	p.S649	0.997	161	0%	55	21.8%	1	0%	-	-	-	NULL
IGF1R	3480	genome.wustl.edu	37	15	99442819	99442819	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_000875.3	+1	reviewed	p.R406C	1.000	265	0.4%	135	14.1%	4	0%	probably_damaging(1)	deleterious(0)	deleterious(0.945)	HMMPfam_Recep_L_domain,superfamily_SSF52058
IGF1R	3480	genome.wustl.edu	37	15	99454653	99454653	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_000875.3	+1	reviewed	p.T524	0.047	262	0%	96	22.9%	3	0%	-	-	-	HMMSmart_FN3,superfamily_FN_III-like
IGF1R	3480	genome.wustl.edu	37	15	99456414	99456414	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_000875.3	+1	reviewed	p.Y577	0.198	92	0%	40	25%	2	0%	-	-	-	HMMSmart_FN3,superfamily_FN_III-like
PGPEP1L	145814	genome.wustl.edu	37	15	99511840	99511840	+	Missense_Mutation	SNP	C	C	T	rs112530852		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001102612.2	-1	validated	p.G153E	0.146	109	0%	90	35.6%	0	-	benign(0.003)	tolerated(0.51)	neutral(0.009)	superfamily_Pyrrolidone carboxyl peptidase (pyroglutamate aminopeptidase)
PGPEP1L	145814	genome.wustl.edu	37	15	99511874	99511874	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001102612.2	-1	validated	p.A142T	0.006	78	0%	71	35.2%	0	-	benign(0.12)	tolerated(0.68)	neutral(0.011)	superfamily_Pyrrolidone carboxyl peptidase (pyroglutamate aminopeptidase)
PGPEP1L	145814	genome.wustl.edu	37	15	99512702	99512702	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001102612.2	-1	validated	p.R108H	0.000	60	0%	67	17.9%	0	-	possibly_damaging(0.789)	tolerated(0.27)	neutral(0.330)	superfamily_Pyrrolidone carboxyl peptidase (pyroglutamate aminopeptidase)
TTC23	64927	genome.wustl.edu	37	15	99715284	99715284	+	Nonsense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	ENST00000434594	-1	known	p.C14*	0.933	100	0%	41	22%	3	0%	unknown(0)	tolerated(0.31)	-	NULL
HSP90B2P	7190	genome.wustl.edu	37	15	99799834	99799834	+	Missense_Mutation	SNP	G	G	A	rs113040519	byCluster	TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	ENST00000378906	+1	known	p.G311D	1.000	187	0%	137	12.4%	1	0%	-	-	-	HMMPfam_HSP90,superfamily_SSF110942
HSP90B2P	7190	genome.wustl.edu	37	15	99799942	99799942	+	Missense_Mutation	SNP	A	A	C	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	ENST00000378906	+1	known	p.K347T	1.000	239	0%	185	22.7%	21	0%	-	-	-	HMMPfam_HSP90,superfamily_SSF110942
LRRC28	123355	genome.wustl.edu	37	15	99892609	99892609	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_144598.2	+1	provisional	p.V210M	1.000	378	0.5%	228	21.5%	5	0%	possibly_damaging(0.46)	deleterious(0.03)	deleterious(0.515)	HMMSmart_SM00364,superfamily_L domain-like
ADAMTS17	170691	genome.wustl.edu	37	15	100692893	100692893	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_139057.2	-1	reviewed	p.P466L	1.000	92	0%	50	18%	3	0%	probably_damaging(1)	deleterious(0)	deleterious(0.945)	HMMSmart_SM00608
ADAMTS17	170691	genome.wustl.edu	37	15	100801734	100801734	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_139057.2	-1	reviewed	p.P327	0.806	117	0%	74	28.4%	0	-	-	-	-	"superfamily_Metalloproteases (""zincins"") catalytic domain"
ADAMTS17	170691	genome.wustl.edu	37	15	100802581	100802581	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_139057.2	-1	reviewed	p.K283	1.000	256	0%	142	21.8%	1	0%	-	-	-	"superfamily_Metalloproteases (""zincins"") catalytic domain"
ADAMTS17	170691	genome.wustl.edu	37	15	100871233	100871233	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_139057.2	-1	reviewed	p.E159D	0.997	152	0.7%	184	25.5%	0	-	benign(0.006)	tolerated(0.19)	neutral(0.050)	HMMPfam_Pep_M12B_propep
CERS3	204219	genome.wustl.edu	37	15	101031086	101031086	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_178842.3	-1	validated	p.R75Q	0.004	398	0%	105	24.8%	0	-	benign(0.423)	tolerated(0.11)	neutral(0.409)	HMMPfam_Homeobox,HMMSmart_SM00389,superfamily_Homeodomain-like
LINS	55180	genome.wustl.edu	37	15	101110208	101110208	+	Silent	SNP	T	T	C	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001040614.1	-1	reviewed	p.G503	0.982	87	0%	41	41.5%	6	0%	-	-	-	NULL
ASB7	140460	genome.wustl.edu	37	15	101188569	101188569	+	Nonsense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_198243.2	+1	reviewed	p.R287*	1.000	330	0%	121	23.1%	1	0%	-	-	-	HMMPfam_SOCS_box,HMMSmart_SM00253,superfamily_Ankyrin repeat
ALDH1A3	220	genome.wustl.edu	37	15	101454917	101454917	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_000693.2	+1	reviewed	p.A493V	0.967	182	0%	233	11.6%	3	0%	benign(0.043)	tolerated(0.12)	neutral(0.263)	HMMPfam_Aldedh,superfamily_Aldehyde_DH/Histidinol_DH
LRRK1	79705	genome.wustl.edu	37	15	101595158	101595158	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_024652.3	+1	validated	p.S1354	1.000	159	0%	276	26.1%	0	-	-	-	-	HMMSmart_SM00219,HMMSmart_SM00220,superfamily_Protein kinase-like (PK-like),HMMPfam_Pkinase
LRRK1	79705	genome.wustl.edu	37	15	101606940	101606940	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_024652.3	+1	validated	p.P1955L	0.019	121	0%	172	23.3%	1	0%	benign(0.174)	deleterious(0.01)	neutral(0.422)	NULL
PCSK6	5046	genome.wustl.edu	37	15	101933417	101933417	+	Silent	SNP	G	G	A	rs183340651	by1000genomes	TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_138320.1	-1	reviewed	p.R403C	0.612	97	0%	85	24.7%	1	0%	-	-	-	NULL
TM2D3	80213	genome.wustl.edu	37	15	102182749	102182749	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_078474.2	-1	reviewed	p.T226M	1.000	60	0%	74	25.7%	40	27.5%	probably_damaging(1)	deleterious(0.03)	deleterious(0.865)	HMMPfam_TM2
TM2D3	80213	genome.wustl.edu	37	15	102186954	102186954	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_078474.2	-1	reviewed	p.T159M	0.994	181	0%	160	23.1%	41	14.6%	probably_damaging(1)	deleterious(0)	deleterious(0.945)	NULL
TARSL2	123283	genome.wustl.edu	37	15	102197201	102197201	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_152334.2	-1	validated	p.D728	0.339	378	0%	408	10%	8	0%	-	-	-	HMMPfam_HGTP_anticodon,superfamily_Anticodon-binding domain of Class II aaRS
OR4F15	390649	genome.wustl.edu	37	15	102359274	102359274	+	Missense_Mutation	SNP	A	A	C	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001001674.1	+1	provisional	p.K295N	0.026	222	0%	53	30.2%	0	-	benign(0.005)	deleterious(0.02)	neutral(0.383)	superfamily_Family A G protein-coupled receptor-like
SNRNP25	79622	genome.wustl.edu	37	16	105817	105817	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_024571.3	+1	reviewed	p.K67N	1.000	143	0%	233	30.9%	94	34%	probably_damaging(1)	deleterious(0)	deleterious(0.945)	superfamily_SSF54236
RHBDF1	64285	genome.wustl.edu	37	16	108690	108690	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_022450.3	-1	validated	p.Q739H	1.000	26	0%	65	29.2%	26	34.6%	probably_damaging(0.99)	deleterious(0.04)	deleterious(0.790)	HMMPfam_Rhomboid
RHBDF1	64285	genome.wustl.edu	37	16	109299	109299	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_022450.3	-1	validated	p.E648K	0.999	115	0%	212	27.4%	18	33.3%	benign(0.002)	tolerated(0.1)	neutral(0.286)	HMMPfam_Rhomboid
RHBDF1	64285	genome.wustl.edu	37	16	114987	114987	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_022450.3	-1	validated	p.T9	0.016	57	0%	133	12%	2	0%	-	-	-	NULL
HBM	3042	genome.wustl.edu	37	16	216582	216582	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001003938.3	+1	reviewed	p.L101I	0.991	42	0%	102	14.7%	0	-	benign(0.002)	deleterious(0)	neutral(0.445)	HMMPfam_Globin,superfamily_Globin_like
HBA2	3040	genome.wustl.edu	37	16	223131	223131	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_000517.4	+1	reviewed	p.L35M	0.005	315	0%	579	14.3%	62	3.2%	benign(0)	tolerated(0.13)	neutral(0.253)	HMMPfam_Globin,superfamily_Globin-like
PDIA2	64714	genome.wustl.edu	37	16	336359	336359	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_006849.2	+1	validated	p.L376I	0.252	132	0%	191	13.6%	4	0%	possibly_damaging(0.919)	deleterious(0.01)	deleterious(0.775)	NULL
AXIN1	8312	genome.wustl.edu	37	16	396609	396609	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_003502.2	-1	reviewed	p.K139N	1.000	115	0%	192	16.1%	2	0%	probably_damaging(1)	tolerated(0.15)	deleterious(0.741)	HMMPfam_RGS,HMMSmart_SM00315,superfamily_Regulator of G-protein signaling RGS
NME4	4833	genome.wustl.edu	37	16	450339	450339	+	Silent	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_005009.2	+1	validated	p.A187	0.364	26	0%	70	17.1%	133	8.2%	-	-	-	NULL
RAB11FIP3	9727	genome.wustl.edu	37	16	555552	555552	+	Missense_Mutation	SNP	A	A	C	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_014700.3	+1	validated	p.E475A	1.000	98	0%	111	18.9%	2	0%	probably_damaging(1)	tolerated(0.13)	deleterious(0.752)	NULL
SOLH	6650	genome.wustl.edu	37	16	602430	602430	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_005632.2	+1	reviewed	p.F879	0.418	14	0%	23	34.8%	3	33.3%	-	-	-	NULL
PIGQ	9091	genome.wustl.edu	37	16	628869	628869	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_148920.1	+1	reviewed	p.L385P	1.000	107	0.9%	169	20.7%	16	25%	probably_damaging(0.98)	deleterious(0)	deleterious(0.869)	HMMPfam_Gpi1
PIGQ	9091	genome.wustl.edu	37	16	633239	633239	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_148920.1	+1	reviewed	p.A630T	0.000	34	0%	74	27%	28	21.4%	unknown(0)	-	-	NULL
RAB40C	57799	genome.wustl.edu	37	16	676076	676076	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_021168.4	+1	validated	p.V174M	1.000	47	0%	93	24.7%	8	25%	probably_damaging(0.998)	deleterious(0.05)	deleterious(0.820)	HMMSmart_SM00176,HMMSmart_SM00173,HMMSmart_SM00174,HMMSmart_SM00175,HMMPfam_Ras,superfamily_P-loop containing nucleoside triphosphate hydrolases
RAB40C	57799	genome.wustl.edu	37	16	677453	677453	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_021168.4	+1	validated	p.S226L	1.000	145	0%	204	16.2%	6	0%	possibly_damaging(0.804)	deleterious(0)	deleterious(0.747)	HMMPfam_SOCS_box,HMMSmart_SM00253
WDR90	197335	genome.wustl.edu	37	16	700706	700706	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_145294.4	+1	provisional	p.P186S	1.000	27	0%	59	16.9%	0	-	probably_damaging(1)	deleterious(0.02)	deleterious(0.883)	NULL
WDR90	197335	genome.wustl.edu	37	16	706824	706824	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_145294.4	+1	provisional	p.A765	0.010	77	0%	133	26.3%	4	25%	-	-	-	HMMSmart_SM00320,superfamily_WD40 repeat-like
CCDC78	124093	genome.wustl.edu	37	16	775024	775024	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	ENST00000439619	-1	known	p.I235	0.007	16	0%	46	28.3%	0	-	-	-	-	NULL
NARFL	64428	genome.wustl.edu	37	16	782342	782342	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_022493.1	-1	provisional	p.G285	0.733	73	0%	88	27.3%	18	5.5%	-	-	-	HMMPfam_Fe_hyd_lg_C,superfamily_Fe-only hydrogenase
MSLN	10232	genome.wustl.edu	37	16	815169	815169	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_013404.4	+1	reviewed	p.C190	0.996	21	0%	32	28.1%	1	0%	-	-	-	HMMPfam_Mesothelin
MSLN	10232	genome.wustl.edu	37	16	816439	816439	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_013404.4	+1	reviewed	p.E393D	0.006	83	0%	163	24.5%	12	0%	benign(0.002)	tolerated(1)	-	HMMPfam_Mesothelin
RPUSD1	113000	genome.wustl.edu	37	16	836202	836202	+	Silent	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_058192.2	-1	validated	p.P229	0.994	40	0%	64	26.6%	15	13.3%	-	-	-	superfamily_PsdUridine_synth_cat_dom
CHTF18	63922	genome.wustl.edu	37	16	839658	839658	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	ENST00000426047	+1	known	p.G54R	0.000	42	0%	83	13.3%	3	33.3%	-	-	-	NULL
CACNA1H	8912	genome.wustl.edu	37	16	1250370	1250370	+	Silent	SNP	C	C	T	rs57468015		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_021098.2	+1	reviewed	p.P306	0.222	20	0%	51	31.4%	0	-	-	-	-	HMMPfam_Ion_trans,superfamily_Voltage-gated potassium channels
CACNA1H	8912	genome.wustl.edu	37	16	1264973	1264973	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_021098.2	+1	reviewed	p.S1644L	0.995	200	0%	425	27.3%	16	0%	benign(0.007)	tolerated(0.65)	neutral(0.003)	superfamily_Voltage-gated potassium channels
UBE2I	7329	genome.wustl.edu	37	16	1370182	1370182	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_003345.3	+1	reviewed	p.F77	1.000	136	0%	256	11.3%	166	10.8%	-	-	-	HMMPfam_UQ_con,HMMSmart_SM00212,superfamily_UBC-like
BAIAP3	8938	genome.wustl.edu	37	16	1394644	1394644	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_003933.3	+1	reviewed	p.A603T	0.996	59	0%	140	27.9%	0	-	benign(0.001)	tolerated(0.67)	neutral(0.003)	HMMPfam_DUF1041
UNKL	64718	genome.wustl.edu	37	16	1463996	1463996	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	ENST00000382757	-1	known	p.S31N	1.000	27	0%	39	23.1%	0	-	unknown(0)	-	-	NULL
CCDC154	645811	genome.wustl.edu	37	16	1487922	1487922	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001143980.1	-1	provisional	p.V396M	0.000	12	0%	51	41.2%	2	50%	possibly_damaging(0.817)	tolerated(0.2)	neutral(0.358)	NULL
CCDC154	645811	genome.wustl.edu	37	16	1488710	1488710	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001143980.1	-1	provisional	p.G312D	0.949	23	0%	37	43.2%	0	-	probably_damaging(0.999)	tolerated(0.21)	deleterious(0.534)	NULL
CCDC154	645811	genome.wustl.edu	37	16	1493300	1493300	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001143980.1	-1	provisional	p.F139L	0.000	91	0%	135	22.2%	0	-	benign(0)	tolerated(1)	-	NULL
CLCN7	1186	genome.wustl.edu	37	16	1498404	1498404	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001287.4	-1	reviewed	p.A655	0.262	28	0%	36	33.3%	40	15%	-	-	-	HMMPfam_CBS,HMMSmart_CBS
CLCN7	1186	genome.wustl.edu	37	16	1505788	1505788	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001287.4	-1	reviewed	p.L309M	1.000	57	0%	102	24.5%	11	27.2%	probably_damaging(1)	deleterious(0)	deleterious(0.945)	HMMPfam_Voltage_CLC,superfamily_Cl-channel_core
TMEM204	79652	genome.wustl.edu	37	16	1591966	1591966	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_024600.4	+1	provisional	p.A109T	1.000	14	0%	18	27.8%	14	0%	possibly_damaging(0.643)	deleterious(0)	deleterious(0.670)	NULL
TMEM204	79652	genome.wustl.edu	37	16	1604819	1604819	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_024600.4	+1	provisional	p.R158I	1.000	174	0%	179	13.4%	60	0%	possibly_damaging(0.8)	deleterious(0.01)	deleterious(0.707)	NULL
CRAMP1L	57585	genome.wustl.edu	37	16	1709951	1709951	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_020825.3	+1	validated	p.T767M	0.203	61	0%	102	31.4%	1	0%	probably_damaging(0.99)	deleterious(0)	deleterious(0.886)	NULL
CRAMP1L	57585	genome.wustl.edu	37	16	1716077	1716077	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_020825.3	+1	validated	p.R919K	1.000	48	0%	97	26.8%	2	0%	probably_damaging(0.971)	tolerated(0.18)	deleterious(0.469)	NULL
CRAMP1L	57585	genome.wustl.edu	37	16	1723939	1723939	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_020825.3	+1	validated	p.R1235W	1.000	121	0%	238	25.2%	3	33.3%	probably_damaging(1)	deleterious(0)	deleterious(0.945)	NULL
HN1L	90861	genome.wustl.edu	37	16	1748959	1748959	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_144570.2	+1	validated	p.L178P	1.000	29	0%	40	17.5%	15	46.6%	probably_damaging(1)	deleterious(0)	deleterious(0.945)	NULL
MAPK8IP3	23162	genome.wustl.edu	37	16	1797221	1797221	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_015133.3	+1	reviewed	p.R312	0.915	36	0%	79	29.1%	7	28.5%	-	-	-	NULL
MAPK8IP3	23162	genome.wustl.edu	37	16	1818560	1818560	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_015133.3	+1	reviewed	p.V1274	0.002	36	0%	74	18.9%	19	26.3%	-	-	-	NULL
C16orf73	254528	genome.wustl.edu	37	16	1907747	1907747	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_152764.2	-1	validated	p.A173T	1.000	275	0%	107	27.1%	0	-	probably_damaging(0.998)	tolerated(0.22)	deleterious(0.516)	superfamily_Nucleic_acid_OB
RPL3L	6123	genome.wustl.edu	37	16	2002931	2002931	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_005061.2	-1	reviewed	p.K103N	1.000	51	0%	116	15.5%	0	-	benign(0.189)	tolerated(0.26)	neutral(0.052)	HMMPfam_Ribosomal_L3,superfamily_Translat_factor
RPS2	6187	genome.wustl.edu	37	16	2012499	2012499	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_002952.3	-1	reviewed	p.F236	0.094	48	0%	87	25.3%	2856	25.4%	-	-	-	HMMPfam_Ribosomal_S5_C,superfamily_Ribosomal protein S5 domain 2-like
TBL3	10607	genome.wustl.edu	37	16	2025572	2025572	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_006453.2	+1	reviewed	p.Y283C	0.627	15	0%	33	36.4%	3	66.6%	possibly_damaging(0.942)	deleterious(0.01)	deleterious(0.792)	HMMSmart_WD40,superfamily_WD40_like
TBL3	10607	genome.wustl.edu	37	16	2028594	2028594	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_006453.2	+1	reviewed	p.A779T	1.000	28	0%	59	22%	76	25%	benign(0)	tolerated(0.44)	neutral(0.013)	HMMPfam_Utp13
ZNF598	90850	genome.wustl.edu	37	16	2050466	2050466	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	ENST00000431526	-1	known	p.S406	0.000	83	0%	160	25.6%	12	33.3%	-	-	-	NULL
TSC2	7249	genome.wustl.edu	37	16	2104304	2104304	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_000548.3	+1	reviewed	p.R115H	0.910	177	0%	241	22%	3	33.3%	benign(0.24)	deleterious(0.03)	neutral(0.389)	superfamily_ARM repeat
TSC2	7249	genome.wustl.edu	37	16	2115636	2115636	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_000548.3	+1	reviewed	p.Q572H	1.000	67	0%	102	13.7%	6	0%	probably_damaging(0.989)	tolerated(0.13)	deleterious(0.692)	superfamily_ARM repeat,HMMPfam_Tuberin
TSC2	7249	genome.wustl.edu	37	16	2131647	2131647	+	Missense_Mutation	SNP	C	C	T	rs45517305		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_000548.3	+1	reviewed	p.S1221L	0.998	34	2.9%	71	15.5%	14	0%	probably_damaging(0.997)	deleterious(0)	deleterious(0.911)	NULL
TSC2	7249	genome.wustl.edu	37	16	2134955	2134955	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_000548.3	+1	reviewed	p.F1499	0.778	120	0%	222	24.8%	40	22.5%	-	-	-	superfamily_Rap/Ran-GAP (Pfam 02145)
PKD1	5310	genome.wustl.edu	37	16	2140192	2140192	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001009944.2	-1	reviewed	p.R4150C	1.000	32	3.1%	57	29.8%	27	11.1%	probably_damaging(1)	deleterious(0)	deleterious(0.945)	NULL
PKD1	5310	genome.wustl.edu	37	16	2142550	2142550	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001009944.2	-1	reviewed	p.Y3734H	0.973	25	0%	34	26.5%	8	0%	probably_damaging(0.998)	tolerated(0.48)	deleterious(0.485)	HMMPfam_PKD_channel
PKD1	5310	genome.wustl.edu	37	16	2160559	2160559	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001009944.2	-1	reviewed	p.E1537K	0.168	28	0%	42	19%	1	0%	benign(0.029)	tolerated(0.56)	neutral(0.008)	HMMPfam_PKD,HMMSmart_SM00089,superfamily_PKD domain
TRAF7	84231	genome.wustl.edu	37	16	2225848	2225848	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_032271.2	+1	validated	p.R547Q	1.000	88	0%	149	19.5%	82	17%	possibly_damaging(0.892)	tolerated(0.54)	neutral(0.359)	superfamily_WD40 repeat-like
CASKIN1	57524	genome.wustl.edu	37	16	2233701	2233701	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_020764.3	-1	validated	p.I525	0.586	20	0%	50	16%	0	-	-	-	-	HMMPfam_SAM_1,HMMSmart_SAM,superfamily_SAM_homology
C16orf79	283870	genome.wustl.edu	37	16	2260264	2260264	+	Nonsense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_182563.2	-1	provisional	p.R67*	0.402	41	0%	48	27.1%	3	0%	-	-	-	NULL
E4F1	1877	genome.wustl.edu	37	16	2282320	2282320	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_004424.3	+1	reviewed	p.K188N	1.000	53	0%	80	21.2%	7	28.5%	possibly_damaging(0.455)	deleterious(0.04)	deleterious(0.498)	superfamily_C2H2 and C2HC zinc fingers
E4F1	1877	genome.wustl.edu	37	16	2284690	2284690	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_004424.3	+1	reviewed	p.R567Q	1.000	5	0.000	17	0.412	47	31.9%	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
DNASE1L2	1775	genome.wustl.edu	37	16	2287041	2287041	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001374.2	+1	validated	p.I49	1.000	9	0.000	26	0.231	1	100%	-	-	-	HMMPfam_Exo_endo_phos,superfamily_DNase I-like,HMMSmart_SM00476
ABCA3	21	genome.wustl.edu	37	16	2327618	2327618	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001089.2	-1	reviewed	p.R1655C	0.000	27	0%	39	23.1%	2	0%	benign(0)	tolerated(0.11)	neutral(0.272)	NULL
ABCA3	21	genome.wustl.edu	37	16	2333276	2333276	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001089.2	-1	reviewed	p.A1316T	0.002	49	0%	61	26.2%	0	-	benign(0.062)	deleterious(0.03)	neutral(0.368)	NULL
CCNF	899	genome.wustl.edu	37	16	2493718	2493718	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001761.2	+1	reviewed	p.I282	0.000	128	0%	138	28.3%	0	-	-	-	-	HMMPfam_Cyclin_N,superfamily_Cyclin_like
CCNF	899	genome.wustl.edu	37	16	2506755	2506755	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001761.2	+1	reviewed	p.T699A	0.980	62	0%	121	23.1%	3	66.6%	benign(0.428)	deleterious(0)	deleterious(0.584)	NULL
NTN3	4917	genome.wustl.edu	37	16	2523090	2523090	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_006181.1	+1	provisional	p.A408T	1.000	25	0%	59	13.6%	0	-	probably_damaging(0.976)	deleterious(0)	deleterious(0.863)	HMMPfam_Laminin_EGF,HMMSmart_EGF_Lam,PatternScan_EGF_LAM_1,superfamily_SSF57196
AMDHD2	51005	genome.wustl.edu	37	16	2578660	2578660	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_015944.3	+1	validated	p.T357M	1.000	16	0%	43	16.3%	15	6.6%	probably_damaging(1)	deleterious(0.01)	deleterious(0.905)	superfamily_Metalo_hydrolase,superfamily_SSF51556
CEMP1	752014	genome.wustl.edu	37	16	2580694	2580694	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001048212.2	-1	validated	p.Q127H	0.000	81	0%	152	12.5%	10	0%	unknown(0)	-	-	NULL
SRRM2	23524	genome.wustl.edu	37	16	2813137	2813137	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_016333.3	+1	validated	p.R870W	0.024	143	0.7%	209	21.5%	14	7.1%	unknown(0)	-	-	NULL
SRRM2	23524	genome.wustl.edu	37	16	2814155	2814155	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_016333.3	+1	validated	p.P1209L	0.010	134	0.7%	148	12.2%	8	0%	unknown(0)	-	-	NULL
SRRM2	23524	genome.wustl.edu	37	16	2814560	2814560	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_016333.3	+1	validated	p.N1344S	0.069	161	0%	148	30.4%	8	12.5%	unknown(0)	-	-	NULL
TCEB2	6923	genome.wustl.edu	37	16	2822019	2822019	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_207013.1	-1	reviewed	p.S110I	1.000	185	0%	259	14.7%	1122	22.5%	possibly_damaging(0.95)	deleterious(0)	deleterious(0.838)	NULL
PRSS21	10942	genome.wustl.edu	37	16	2868752	2868752	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_006799.2	+1	reviewed	p.S111N	0.001	129	0%	263	16.7%	0	-	benign(0.012)	tolerated(0.94)	neutral(0.001)	HMMPfam_Trypsin,HMMSmart_SM00020,superfamily_Trypsin-like serine proteases
ZG16B	124220	genome.wustl.edu	37	16	2881905	2881905	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_145252.2	+1	validated	p.V124	0.320	82	0%	106	17%	2	100%	-	-	-	superfamily_Mannose-bd_lectin
ZG16B	124220	genome.wustl.edu	37	16	2882155	2882155	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_145252.2	+1	validated	p.R208C	0.001	64	0%	62	25.8%	1	100%	possibly_damaging(0.693)	-	-	NULL
PAQR4	124222	genome.wustl.edu	37	16	3021908	3021908	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_152341.3	+1	validated	p.D261N	1.000	8	0.000	25	0.200	7	0%	probably_damaging(0.98)	deleterious(0.01)	deleterious(0.830)	NULL
THOC6	79228	genome.wustl.edu	37	16	3077636	3077636	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_024339.3	+1	validated	p.R335Q	0.997	129	0%	177	21.5%	137	30.6%	probably_damaging(0.994)	deleterious(0.03)	deleterious(0.817)	NULL
OR1F1	4992	genome.wustl.edu	37	16	3254400	3254400	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_012360.1	+1	provisional	p.D52Y	0.704	385	0%	248	25%	0	-	probably_damaging(0.999)	deleterious(0)	deleterious(0.935)	HMMPfam_7tm_1,superfamily_SSF81321
OR1F1	4992	genome.wustl.edu	37	16	3254577	3254577	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_012360.1	+1	provisional	p.D111Y	0.012	244	0%	155	27.7%	0	-	probably_damaging(0.996)	deleterious(0)	deleterious(0.906)	HMMPfam_7tm_1,superfamily_SSF81321
ZNF263	10127	genome.wustl.edu	37	16	3340035	3340035	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_005741.4	+1	validated	p.R510I	1.000	161	0%	250	12.4%	9	11.1%	probably_damaging(0.996)	tolerated(0.05)	deleterious(0.807)	HMMPfam_zf-C2H2,PatternScan_ZINC_FINGER_C2H2_1,HMMSmart_SM00355,superfamily_C2H2 and C2HC zinc fingers
ZNF263	10127	genome.wustl.edu	37	16	3340119	3340119	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_005741.4	+1	validated	p.R538I	1.000	116	0%	152	27%	4	0%	probably_damaging(0.987)	deleterious(0.03)	deleterious(0.801)	HMMPfam_zf-C2H2,PatternScan_ZINC_FINGER_C2H2_1,HMMSmart_SM00355,superfamily_C2H2 and C2HC zinc fingers
ZNF263	10127	genome.wustl.edu	37	16	3340476	3340476	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_005741.4	+1	validated	p.R657I	1.000	103	0%	143	21.7%	3	0%	possibly_damaging(0.583)	deleterious(0)	deleterious(0.645)	superfamily_C2H2 and C2HC zinc fingers
ZNF263	10127	genome.wustl.edu	37	16	3340542	3340542	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_005741.4	+1	validated	p.R679I	1.000	63	0%	98	15.3%	18	0%	probably_damaging(0.997)	tolerated(0.06)	deleterious(0.788)	HMMPfam_zf-C2H2,PatternScan_ZINC_FINGER_C2H2_1,HMMSmart_SM00355,superfamily_C2H2 and C2HC zinc fingers
ZNF434	54925	genome.wustl.edu	37	16	3433627	3433627	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_017810.2	-1	provisional	p.R228I	0.498	306	0%	86	25.6%	1	0%	possibly_damaging(0.952)	deleterious(0)	deleterious(0.840)	NULL
ZNF174	7727	genome.wustl.edu	37	16	3452317	3452317	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_003450.2	+1	validated	p.R105W	0.971	48	0%	87	13.8%	8	50%	benign(0.007)	tolerated(1)	-	HMMPfam_SCAN,HMMSmart_SM00431
ZNF597	146434	genome.wustl.edu	37	16	3486570	3486570	+	Missense_Mutation	SNP	T	T	G	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_152457.1	-1	provisional	p.S377R	0.005	243	0%	152	11.8%	5	40%	possibly_damaging(0.916)	deleterious(0.01)	deleterious(0.772)	HMMPfam_zf-C2H2,PatternScan_ZINC_FINGER_C2H2_1,HMMSmart_ZnF_C2H2,superfamily_SSF57667
NLRC3	197358	genome.wustl.edu	37	16	3613530	3613530	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_178844.2	-1	validated	p.A470T	0.711	35	2.9%	70	14.3%	0	-	probably_damaging(0.995)	tolerated(0.21)	deleterious(0.502)	NULL
NLRC3	197358	genome.wustl.edu	37	16	3615002	3615002	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_178844.2	-1	validated	p.A12	0.000	17	0%	38	23.7%	0	-	-	-	-	NULL
SLX4	84464	genome.wustl.edu	37	16	3639062	3639062	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_032444.2	-1	provisional	p.P1526H	0.000	62	0%	113	17.7%	2	0%	probably_damaging(0.984)	deleterious(0)	deleterious(0.875)	NULL
SLX4	84464	genome.wustl.edu	37	16	3640455	3640455	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_032444.2	-1	provisional	p.R1062C	0.001	90	0%	132	19.7%	2	0%	probably_damaging(0.999)	deleterious(0.01)	deleterious(0.896)	NULL
SLX4	84464	genome.wustl.edu	37	16	3640577	3640577	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_032444.2	-1	provisional	p.R1021H	0.000	67	0%	102	31.4%	0	-	probably_damaging(0.997)	deleterious(0.03)	deleterious(0.831)	NULL
SLX4	84464	genome.wustl.edu	37	16	3647887	3647887	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_032444.2	-1	provisional	p.A426D	1.000	101	0%	137	34.3%	0	-	probably_damaging(1)	deleterious(0)	deleterious(0.945)	NULL
CREBBP	1387	genome.wustl.edu	37	16	3808903	3808903	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_004380.2	-1	reviewed	p.E1107	1.000	288	0%	169	12.4%	8	0%	-	-	-	HMMPfam_Bromodomain,HMMSmart_BROMO,superfamily_Bromodomain
ADCY9	115	genome.wustl.edu	37	16	4016650	4016650	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001116.2	-1	reviewed	p.S1063I	1.000	90	0%	149	16.1%	5	0%	probably_damaging(1)	deleterious(0)	deleterious(0.945)	HMMPfam_Guanylate_cyc,HMMSmart_SM00044,superfamily_Adenylyl and guanylyl cyclase catalytic domain
ADCY9	115	genome.wustl.edu	37	16	4027519	4027519	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001116.2	-1	reviewed	p.P931L	0.999	23	0%	53	26.4%	1	0%	benign(0)	tolerated(1)	-	NULL
ADCY9	115	genome.wustl.edu	37	16	4164334	4164334	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001116.2	-1	reviewed	p.K370N	1.000	307	0%	435	25.5%	1	0%	possibly_damaging(0.691)	tolerated(0.31)	neutral(0.275)	HMMSmart_SM00044
PAM16	51025	genome.wustl.edu	37	16	4390368	4390368	+	Missense_Mutation	SNP	T	T	G	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_016069.8	-1	provisional	p.K110N	0.442	160	0%	229	17.5%	96	46.8%	benign(0.021)	tolerated(0.07)	neutral(0.320)	HMMPfam_Pam16
CORO7	79585	genome.wustl.edu	37	16	4408455	4408455	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_024535.3	-1	validated	p.C790	0.998	8	0.000	20	0.250	19	15.7%	-	-	-	HMMPfam_DUF1900
DNAJA3	9093	genome.wustl.edu	37	16	4496935	4496935	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_005147.4	+1	validated	p.D349N	1.000	173	0%	96	18.8%	7	0%	possibly_damaging(0.754)	deleterious(0.02)	deleterious(0.661)	HMMPfam_DnaJ_C,superfamily_HSP40_DnaJ_pep
LOC342346	342346	genome.wustl.edu	37	16	4644771	4644771	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001145011.1	+1	predicted	p.A1032T	0.000	39	0%	57	29.8%	0	-	benign(0.019)	tolerated(0.86)	neutral(0.002)	NULL
MGRN1	23295	genome.wustl.edu	37	16	4702761	4702761	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_015246.2	+1	validated	p.D127N	1.000	30	0%	36	22.2%	10	10%	probably_damaging(1)	deleterious(0.01)	deleterious(0.905)	NULL
C16orf71	146562	genome.wustl.edu	37	16	4790621	4790621	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_139170.2	+1	validated	p.L248	0.000	12	0%	33	21.2%	1	100%	-	-	-	NULL
UBN1	29855	genome.wustl.edu	37	16	4923052	4923052	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001079514.1	+1	validated	p.A593V	0.792	509	0%	385	24.2%	2	100%	possibly_damaging(0.647)	deleterious(0.04)	deleterious(0.576)	NULL
PPL	5493	genome.wustl.edu	37	16	4934548	4934548	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_002705.4	-1	reviewed	p.A1370T	0.151	42	0%	73	28.8%	2	50%	benign(0.001)	tolerated(0.13)	neutral(0.253)	NULL
PPL	5493	genome.wustl.edu	37	16	4960947	4960947	+	Silent	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_002705.4	-1	reviewed	p.I22	1.000	77	0%	75	24%	3	33.3%	-	-	-	NULL
SEC14L5	9717	genome.wustl.edu	37	16	5046410	5046410	+	Missense_Mutation	SNP	G	G	T	rs58790974		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_014692.1	+1	validated	p.E243D	1.000	42	0%	45	15.6%	0	-	probably_damaging(0.999)	deleterious(0.02)	deleterious(0.873)	HMMPfam_CRAL_TRIO_N,superfamily_Sec14p_like_N
SEC14L5	9717	genome.wustl.edu	37	16	5053480	5053480	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_014692.1	+1	validated	p.R403Q	1.000	41	0%	41	22%	0	-	possibly_damaging(0.579)	tolerated(0.18)	neutral(0.255)	HMMPfam_CRAL_TRIO,HMMSmart_SEC14,superfamily_CRAL_TRIO_C
SEC14L5	9717	genome.wustl.edu	37	16	5055987	5055987	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_014692.1	+1	validated	p.G459R	0.997	134	0%	141	29.1%	0	-	probably_damaging(1)	deleterious(0.01)	deleterious(0.905)	HMMPfam_CRAL_TRIO,HMMSmart_SEC14,superfamily_CRAL_TRIO_C
ALG1	56052	genome.wustl.edu	37	16	5123163	5123163	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_019109.4	+1	reviewed	p.R99Q	0.064	655	0%	945	24.8%	6	33.3%	benign(0.088)	tolerated(0.25)	neutral(0.043)	superfamily_SSF53756
ALG1	56052	genome.wustl.edu	37	16	5127452	5127452	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_019109.4	+1	reviewed	p.E182D	0.998	94	0%	116	25.9%	14	28.5%	probably_damaging(1)	deleterious(0.01)	deleterious(0.905)	superfamily_SSF53756
FAM86A	196483	genome.wustl.edu	37	16	5135701	5135701	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_201400.2	-1	validated	p.R309C	0.002	284	0%	307	25.4%	16	43.7%	benign(0)	tolerated(0.19)	neutral(0.050)	superfamily_S-adenosyl-L-methionine-dependent methyltransferases
FAM86A	196483	genome.wustl.edu	37	16	5145470	5145470	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_201400.2	-1	validated	p.R48W	0.999	269	0%	339	25.7%	7	42.8%	benign(0.004)	deleterious(0.04)	neutral(0.349)	NULL
TMEM186	25880	genome.wustl.edu	37	16	8889942	8889942	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_015421.3	-1	validated	p.R170Q	0.000	230	0%	273	27.8%	8	25%	benign(0.002)	tolerated(0.64)	neutral(0.003)	NULL
PMM2	5373	genome.wustl.edu	37	16	8900240	8900240	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_000303.2	+1	reviewed	p.A108V	0.988	283	0%	206	23.8%	3	0%	benign(0.011)	deleterious(0.02)	neutral(0.384)	HMMPfam_PMM,superfamily_HAD-like
USP7	7874	genome.wustl.edu	37	16	8988927	8988927	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_003470.2	-1	validated	p.F1000	0.994	191	0%	102	30.4%	91	24.1%	-	-	-	NULL
C16orf72	29035	genome.wustl.edu	37	16	9196948	9196948	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_014117.2	+1	validated	p.R139C	1.000	220	0%	113	11.5%	11	18.1%	probably_damaging(0.998)	tolerated(0.06)	deleterious(0.797)	NULL
GRIN2A	2903	genome.wustl.edu	37	16	9858417	9858417	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_000833.3	-1	reviewed	p.T995M	1.000	189	0%	51	33.3%	0	-	possibly_damaging(0.711)	deleterious(0.02)	deleterious(0.640)	HMMPfam_NMDAR2_C
TEKT5	146279	genome.wustl.edu	37	16	10788486	10788486	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_144674.1	-1	provisional	p.R82H	1.000	147	0%	142	13.4%	1	0%	possibly_damaging(0.494)	deleterious(0)	deleterious(0.609)	NULL
CIITA	4261	genome.wustl.edu	37	16	11000894	11000894	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_000246.3	+1	reviewed	p.C515	0.007	20	0%	21	23.8%	0	-	-	-	-	HMMPfam_NACHT
CLEC16A	23274	genome.wustl.edu	37	16	11071086	11071086	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_015226.2	+1	validated	p.R245W	1.000	172	0%	49	24.5%	4	25%	probably_damaging(0.997)	deleterious(0.01)	deleterious(0.872)	NULL
CLEC16A	23274	genome.wustl.edu	37	16	11076761	11076761	+	Silent	SNP	G	G	A	rs192627479	by1000genomes	TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_015226.2	+1	validated	p.P328	0.627	544	0%	174	25.9%	1	0%	-	-	-	NULL
CLEC16A	23274	genome.wustl.edu	37	16	11260318	11260318	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	ENST00000261657	+1	known	p.R97W	1.000	50	0%	89	21.3%	2	0%	-	-	-	NULL
TXNDC11	51061	genome.wustl.edu	37	16	11773066	11773066	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_015914.5	-1	provisional	p.E954D	1.000	93	0%	86	18.6%	82	21.9%	possibly_damaging(0.737)	deleterious(0)	deleterious(0.714)	NULL
ZC3H7A	29066	genome.wustl.edu	37	16	11859519	11859519	+	Silent	SNP	A	A	G	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_014153.2	-1	provisional	p.C515	0.821	187	0%	42	21.4%	3	0%	-	-	-	superfamily_CCCH zinc finger
ZC3H7A	29066	genome.wustl.edu	37	16	11864748	11864748	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_014153.2	-1	provisional	p.A333	0.983	181	0%	72	30.6%	3	0%	-	-	-	NULL
GSPT1	2935	genome.wustl.edu	37	16	11980636	11980636	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_002094.3	-1	validated	p.E370D	1.000	472	0%	221	23.5%	15	13.3%	benign(0)	tolerated(0.21)	neutral(0.044)	HMMPfam_GTP_EFTU,superfamily_P-loop containing nucleoside triphosphate hydrolases
SHISA9	729993	genome.wustl.edu	37	16	13002388	13002388	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001145205.1	+1	validated	p.E247K	0.012	227	0%	193	11.4%	0	-	probably_damaging(0.984)	tolerated(0.19)	deleterious(0.480)	NULL
SHISA9	729993	genome.wustl.edu	37	16	13329183	13329183	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001145204.2	+1	validated	p.D439N	1.000	98	0%	81	21%	2	0%	possibly_damaging(0.918)	deleterious(0.04)	deleterious(0.718)	NULL
ERCC4	2072	genome.wustl.edu	37	16	14022037	14022037	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_005236.2	+1	reviewed	p.S246L	0.456	243	0%	162	22.2%	1	0%	benign(0.196)	tolerated(0.28)	neutral(0.050)	NULL
MKL2	57496	genome.wustl.edu	37	16	14328068	14328068	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_014048.3	+1	validated	p.P253	0.000	336	0%	135	32.6%	0	-	-	-	-	NULL
PARN	5073	genome.wustl.edu	37	16	14704540	14704540	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_002582.2	-1	reviewed	p.T172M	0.011	350	0%	167	20.4%	2	0%	benign(0.416)	tolerated(0.09)	neutral(0.431)	HMMPfam_CAF1,superfamily_Ribonuclease H-like,superfamily_R3H domain
NOMO1	23420	genome.wustl.edu	37	16	14932341	14932341	+	Silent	SNP	T	T	G	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_014287.3	+1	reviewed	p.P81	0.974	966	0%	969	9.7%	0	-	-	-	-	NULL
MPV17L	255027	genome.wustl.edu	37	16	15501960	15501960	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001128423.1	+1	validated	p.P194	0.023	231	0%	124	29.8%	0	-	-	-	-	NULL
C16orf45	89927	genome.wustl.edu	37	16	15609208	15609208	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_033201.2	+1	validated	p.E51D	1.000	328	0%	114	23.7%	17	0%	benign(0.003)	tolerated(0.64)	neutral(0.003)	NULL
KIAA0430	9665	genome.wustl.edu	37	16	15711320	15711320	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_014647.3	-1	validated	p.N931	0.157	96	0%	27	22.2%	1	0%	-	-	-	NULL
KIAA0430	9665	genome.wustl.edu	37	16	15715692	15715692	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_014647.3	-1	validated	p.A846V	1.000	413	0.2%	133	21.8%	3	0%	probably_damaging(1)	deleterious(0)	deleterious(0.945)	HMMSmart_SM00360,superfamily_RNA-binding domain RBD
KIAA0430	9665	genome.wustl.edu	37	16	15725253	15725253	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_014647.3	-1	validated	p.V446L	1.000	175	0%	84	27.4%	0	-	benign(0.176)	tolerated(0.06)	neutral(0.339)	HMMPfam_DUF537
KIAA0430	9665	genome.wustl.edu	37	16	15729639	15729639	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_014647.3	-1	validated	p.G235	1.000	103	0%	105	21.9%	2	0%	-	-	-	NULL
MYH11	4629	genome.wustl.edu	37	16	15831364	15831364	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001040114.1	-1	reviewed	p.A1086T	0.968	133	0%	77	29.9%	295	0%	benign(0.002)	tolerated(0.09)	neutral(0.296)	HMMPfam_Myosin_tail_1
MYH11	4629	genome.wustl.edu	37	16	15844047	15844047	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001040114.1	-1	reviewed	p.R676H	1.000	98	0%	83	25.3%	189	0%	benign(0.059)	tolerated(0.05)	neutral(0.349)	HMMPfam_Myosin_head,HMMSmart_MYSc,superfamily_SSF52540
MYH11	4629	genome.wustl.edu	37	16	15853562	15853562	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001040114.1	-1	reviewed	p.L431F	1.000	180	0%	112	25%	139	0%	probably_damaging(1)	deleterious(0.01)	deleterious(0.905)	HMMPfam_Myosin_head,HMMSmart_MYSc,superfamily_SSF52540
FOPNL	123811	genome.wustl.edu	37	16	15967359	15967359	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_144600.2	-1	provisional	p.R146I	0.134	111	0%	68	23.5%	11	0%	probably_damaging(0.996)	deleterious(0.02)	deleterious(0.845)	NULL
FOPNL	123811	genome.wustl.edu	37	16	15977878	15977878	+	Silent	SNP	A	A	G	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_144600.2	-1	provisional	p.S71	0.774	335	0%	365	23.6%	6	16.6%	-	-	-	HMMSmart_LisH
ABCC1	4363	genome.wustl.edu	37	16	16184426	16184426	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_004996.3	+1	reviewed	p.E875D	0.002	37	0%	23	26.1%	4	0%	benign(0)	tolerated(0.27)	neutral(0.034)	superfamily_P-loop containing nucleoside triphosphate hydrolases
ABCC1	4363	genome.wustl.edu	37	16	16215871	16215871	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_004996.3	+1	reviewed	p.E1144K	0.999	51	0%	31	22.6%	8	0%	probably_damaging(0.995)	deleterious(0.01)	deleterious(0.863)	HMMPfam_ABC_membrane,superfamily_Multidrug resistance ABC transporter MsbA N-terminal domain
ABCC6	368	genome.wustl.edu	37	16	16278845	16278845	+	Nonsense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001171.5	-1	reviewed	p.W638*	1.000	149	0%	90	22.2%	0	-	-	-	-	superfamily_P-loop containing nucleoside triphosphate hydrolases
NOMO3	408050	genome.wustl.edu	37	16	16346293	16346293	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001004067.2	+1	reviewed	p.P293S	1.000	695	0%	311	13.8%	1	0%	probably_damaging(1)	deleterious(0.05)	deleterious(0.845)	superfamily_Carboxypeptidase regulatory domain
XYLT1	64131	genome.wustl.edu	37	16	17228422	17228422	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_022166.3	-1	reviewed	p.S645	0.231	78	0%	30	16.7%	0	-	-	-	-	NULL
XYLT1	64131	genome.wustl.edu	37	16	17228565	17228565	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_022166.3	-1	reviewed	p.R598C	1.000	121	0%	46	15.2%	0	-	probably_damaging(1)	deleterious(0)	deleterious(0.945)	NULL
XYLT1	64131	genome.wustl.edu	37	16	17292214	17292214	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_022166.3	-1	reviewed	p.R382C	1.000	90	0%	26	23.1%	0	-	probably_damaging(1)	deleterious(0)	deleterious(0.945)	HMMPfam_Branch
ABCC6P1	653190	genome.wustl.edu	37	16	18593775	18593775	+	RNA	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NR_003569.1	+1	provisional	NULL	1.000	199	0%	108	6.5%	0	-	probably_damaging(1)	deleterious(0.01)	deleterious(0.905)	-
ABCC6P1	653190	genome.wustl.edu	37	16	18602496	18602496	+	RNA	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NR_003569.1	+1	provisional	NULL	0.987	119	0%	42	28.6%	0	-	probably_damaging(0.988)	tolerated(0.23)	deleterious(0.479)	-
ABCC6P1	653190	genome.wustl.edu	37	16	18602557	18602557	+	RNA	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NR_003569.1	+1	provisional	NULL	0.000	125	0%	42	19%	0	-	possibly_damaging(0.91)	deleterious(0)	deleterious(0.807)	-
SMG1	23049	genome.wustl.edu	37	16	18841672	18841672	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_015092.4	-1	reviewed	p.G2938S	1.000	233	0%	56	12.5%	0	-	benign(0.001)	tolerated(0.41)	neutral(0.015)	NULL
SMG1	23049	genome.wustl.edu	37	16	18847334	18847334	+	Nonsense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_015092.4	-1	reviewed	p.R2660*	1.000	172	0%	67	25.4%	0	-	-	-	-	NULL
SMG1	23049	genome.wustl.edu	37	16	18853724	18853724	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_015092.4	-1	reviewed	p.R2091H	1.000	220	0%	58	17.2%	0	-	possibly_damaging(0.7)	tolerated(0.11)	deleterious(0.523)	superfamily_Protein kinase-like (PK-like)
SMG1	23049	genome.wustl.edu	37	16	18879898	18879898	+	Missense_Mutation	SNP	A	A	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_015092.4	-1	reviewed	p.L993I	0.998	357	0%	94	17%	0	-	possibly_damaging(0.945)	tolerated(0.5)	neutral(0.400)	superfamily_ARM repeat
SMG1	23049	genome.wustl.edu	37	16	18881226	18881226	+	Missense_Mutation	SNP	A	A	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_015092.4	-1	reviewed	p.D861E	1.000	416	0%	93	9.7%	0	-	probably_damaging(0.974)	tolerated(0.31)	neutral(0.443)	superfamily_ARM repeat
SMG1	23049	genome.wustl.edu	37	16	18882016	18882016	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_015092.4	-1	reviewed	p.R803H	1.000	189	0%	40	15%	1	100%	probably_damaging(0.999)	tolerated(0.28)	deleterious(0.522)	superfamily_ARM repeat
SMG1	23049	genome.wustl.edu	37	16	18883508	18883508	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_015092.4	-1	reviewed	p.T727	1.000	236	0.4%	46	15.2%	0	-	-	-	-	superfamily_ARM repeat
TMC7	79905	genome.wustl.edu	37	16	19020637	19020637	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_024847.3	+1	validated	p.D71N	0.012	139	0%	144	12.5%	1	0%	benign(0)	tolerated(0.21)	neutral(0.044)	NULL
TMC7	79905	genome.wustl.edu	37	16	19047040	19047040	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_024847.3	+1	validated	p.E300	0.692	294	0%	120	25%	1	100%	-	-	-	NULL
TMC7	79905	genome.wustl.edu	37	16	19049350	19049350	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_024847.3	+1	validated	p.S387L	1.000	340	0%	146	22.6%	0	-	probably_damaging(0.999)	deleterious(0)	deleterious(0.935)	NULL
COQ7	10229	genome.wustl.edu	37	16	19089441	19089441	+	Silent	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_016138.3	+1	reviewed	p.A205	0.024	422	0%	381	20.5%	13	15.3%	-	-	-	HMMPfam_COQ7
ITPRIPL2	162073	genome.wustl.edu	37	16	19127236	19127236	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001034841.3	+1	validated	p.D485N	1.000	21	0%	60	23.3%	2	0%	probably_damaging(0.978)	tolerated(0.27)	neutral(0.454)	NULL
SYT17	51760	genome.wustl.edu	37	16	19184823	19184823	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_016524.2	+1	validated	p.Y35	0.366	127	0%	136	29.4%	1	100%	-	-	-	NULL
TMC5	79838	genome.wustl.edu	37	16	19451954	19451954	+	Silent	SNP	C	C	T	rs144612537	by1000genomes	TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001105248.1	+1	validated	p.Y198	0.000	108	0%	30	30%	0	-	-	-	-	NULL
TMC5	79838	genome.wustl.edu	37	16	19501790	19501790	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001105248.1	+1	validated	p.D883N	0.043	454	0.2%	142	14.1%	1	100%	benign(0.002)	tolerated(0.09)	neutral(0.296)	NULL
CCP110	9738	genome.wustl.edu	37	16	19548606	19548606	+	Missense_Mutation	SNP	A	A	C	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_014711.4	+1	validated	p.T539P	0.268	160	0%	81	22.2%	2	0%	benign(0.001)	deleterious(0.03)	neutral(0.364)	NULL
C16orf62	57020	genome.wustl.edu	37	16	19584528	19584528	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_020314.4	+1	predicted	p.L125I	1.000	160	0%	51	19.6%	5	0%	possibly_damaging(0.942)	deleterious(0)	deleterious(0.832)	NULL
C16orf62	57020	genome.wustl.edu	37	16	19640036	19640036	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_020314.4	+1	predicted	p.N487	0.994	213	0%	88	18.2%	12	25%	-	-	-	NULL
IQCK	124152	genome.wustl.edu	37	16	19775177	19775177	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_153208.1	+1	provisional	p.R161I	1.000	470	0.2%	160	30%	10	30%	possibly_damaging(0.585)	deleterious(0)	deleterious(0.646)	NULL
IQCK	124152	genome.wustl.edu	37	16	19838399	19838399	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_153208.1	+1	provisional	p.R248C	0.067	227	0%	59	25.4%	19	26.3%	probably_damaging(1)	deleterious(0)	deleterious(0.945)	NULL
GPRC5B	51704	genome.wustl.edu	37	16	19883243	19883243	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_016235.1	-1	reviewed	p.D309N	1.000	62	0%	144	11.1%	7	0%	probably_damaging(1)	tolerated(0.2)	deleterious(0.549)	NULL
GP2	2813	genome.wustl.edu	37	16	20327341	20327341	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001007240.1	-1	validated	p.R483C	0.037	262	0%	44	20.5%	0	-	probably_damaging(1)	deleterious(0)	deleterious(0.945)	NULL
GP2	2813	genome.wustl.edu	37	16	20334258	20334258	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001007240.1	-1	validated	p.P196	0.000	89	0%	26	23.1%	0	-	-	-	-	NULL
UMOD	7369	genome.wustl.edu	37	16	20355434	20355434	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001008389.1	-1	reviewed	p.R415C	0.996	406	0.2%	363	24%	0	-	probably_damaging(0.993)	deleterious(0)	deleterious(0.895)	HMMPfam_Zona_pellucida,HMMSmart_SM00241
UMOD	7369	genome.wustl.edu	37	16	20360433	20360433	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001008389.1	-1	reviewed	p.V64M	0.013	18	0%	47	27.7%	0	-	possibly_damaging(0.711)	tolerated(0.09)	deleterious(0.553)	HMMSmart_SM00181,superfamily_EGF/Laminin
UMOD	7369	genome.wustl.edu	37	16	20361992	20361992	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001008389.1	-1	reviewed	p.A23V	0.000	256	0%	374	11.8%	0	-	benign(0.418)	tolerated(0.18)	neutral(0.192)	NULL
PDILT	204474	genome.wustl.edu	37	16	20370726	20370726	+	Missense_Mutation	SNP	G	G	C	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_174924.1	-1	provisional	p.T557R	0.000	336	0%	211	23.7%	0	-	unknown(0)	tolerated(0.18)	-	NULL
ACSM5	54988	genome.wustl.edu	37	16	20432620	20432620	+	Nonsense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_017888.2	+1	validated	p.R222*	0.001	79	0%	41	12.2%	0	-	-	-	-	HMMPfam_AMP-binding,superfamily_Acetyl-CoA synthetase-like
ACSM5	54988	genome.wustl.edu	37	16	20448438	20448438	+	Missense_Mutation	SNP	G	G	A	rs141553052	by1000genomes	TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_017888.2	+1	validated	p.R458H	0.000	396	0%	106	22.6%	0	-	benign(0)	tolerated(0.42)	neutral(0.014)	HMMPfam_AMP-binding,superfamily_Acetyl-CoA synthetase-like
ACSM2A	123876	genome.wustl.edu	37	16	20471473	20471473	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001010845.2	+1	validated	p.L13M	0.000	310	0%	96	12.5%	0	-	possibly_damaging(0.631)	deleterious(0.05)	deleterious(0.566)	superfamily_Acetyl-CoA synthetase-like
ACSM2B	348158	genome.wustl.edu	37	16	20554253	20554253	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001105069.1	-1	validated	p.D498Y	1.000	310	0%	157	26.1%	0	-	probably_damaging(1)	deleterious(0)	deleterious(0.945)	superfamily_Acetyl-CoA synthetase-like
ACSM2B	348158	genome.wustl.edu	37	16	20554553	20554553	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001105069.1	-1	validated	p.R438Q	0.859	631	0.2%	265	17.4%	0	-	probably_damaging(0.957)	tolerated(0.36)	neutral(0.421)	HMMPfam_AMP-binding,superfamily_Acetyl-CoA synthetase-like
ACSM2B	348158	genome.wustl.edu	37	16	20559730	20559730	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001105069.1	-1	validated	p.Q320	0.942	383	0%	106	19.8%	0	-	-	-	-	HMMPfam_AMP-binding,superfamily_Acetyl-CoA synthetase-like
ACSM2B	348158	genome.wustl.edu	37	16	20563548	20563548	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001105069.1	-1	validated	p.G271D	0.000	503	0%	162	17.9%	1	0%	possibly_damaging(0.768)	deleterious(0.02)	deleterious(0.668)	HMMPfam_AMP-binding,superfamily_Acetyl-CoA synthetase-like
ACSM1	116285	genome.wustl.edu	37	16	20648756	20648756	+	Silent	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_052956.2	-1	validated	p.T378	0.000	245	0%	72	18.1%	2	0%	-	-	-	HMMPfam_AMP-binding,superfamily_Acetyl-CoA synthetase-like
ACSM1	116285	genome.wustl.edu	37	16	20696723	20696723	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_052956.2	-1	validated	p.E65	0.982	388	0%	112	13.4%	0	-	-	-	-	superfamily_Acetyl-CoA synthetase-like
ACSM3	6296	genome.wustl.edu	37	16	20807798	20807798	+	Missense_Mutation	SNP	A	A	C	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_005622.3	+1	validated	p.K554T	1.000	269	0%	128	12.5%	49	55.1%	probably_damaging(1)	deleterious(0)	deleterious(0.945)	superfamily_Acetyl-CoA synthetase-like
ERI2	112479	genome.wustl.edu	37	16	20814960	20814960	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001142725.1	-1	validated	p.A19V	0.003	281	0%	304	22.7%	0	-	benign(0.059)	deleterious(0.03)	neutral(0.368)	NULL
DNAH3	55567	genome.wustl.edu	37	16	20990727	20990727	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_017539.1	-1	provisional	p.S2667	0.684	370	0%	236	27.1%	0	-	-	-	-	superfamily_P-loop containing nucleoside triphosphate hydrolases
DNAH3	55567	genome.wustl.edu	37	16	20990817	20990817	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_017539.1	-1	provisional	p.L2637	0.000	392	0%	246	22.4%	0	-	-	-	-	superfamily_P-loop containing nucleoside triphosphate hydrolases
DNAH3	55567	genome.wustl.edu	37	16	21011603	21011603	+	Nonsense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_017539.1	-1	provisional	p.R2122*	1.000	328	0%	196	29.1%	0	-	-	-	-	HMMSmart_SM00382,HMMPfam_AAA_5,superfamily_P-loop containing nucleoside triphosphate hydrolases
DNAH3	55567	genome.wustl.edu	37	16	21030983	21030983	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_017539.1	-1	provisional	p.S1995	0.993	568	0%	157	24.2%	0	-	-	-	-	superfamily_P-loop containing nucleoside triphosphate hydrolases
DNAH3	55567	genome.wustl.edu	37	16	21031063	21031063	+	Missense_Mutation	SNP	C	C	T	rs142809716	by1000genomes	TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_017539.1	-1	provisional	p.A1969T	0.000	425	0%	107	15%	0	-	benign(0)	tolerated(0.66)	neutral(0.003)	NULL
DNAH3	55567	genome.wustl.edu	37	16	21108749	21108749	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_017539.1	-1	provisional	p.K864N	0.465	206	0%	36	19.4%	0	-	benign(0)	tolerated(0.53)	neutral(0.007)	HMMPfam_DHC_N2
DNAH3	55567	genome.wustl.edu	37	16	21151975	21151975	+	Missense_Mutation	SNP	G	G	C	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_017539.1	-1	provisional	p.T193R	0.000	364	0%	160	25%	0	-	benign(0.419)	tolerated(0.66)	neutral(0.139)	NULL
TMEM159	57146	genome.wustl.edu	37	16	21190856	21190856	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_020422.4	+1	validated	p.F155	0.000	211	0%	69	18.8%	20	5%	-	-	-	NULL
ANKS4B	257629	genome.wustl.edu	37	16	21261881	21261881	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_145865.2	+1	validated	p.D332Y	0.999	571	0%	224	23.2%	0	-	probably_damaging(0.984)	deleterious(0)	deleterious(0.875)	NULL
OTOA	146183	genome.wustl.edu	37	16	21690263	21690263	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_144672.3	+1	reviewed	p.A40V	1.000	544	0.2%	262	24.4%	0	-	benign(0.01)	tolerated(0.7)	neutral(0.003)	NULL
OTOA	146183	genome.wustl.edu	37	16	21712236	21712236	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_144672.3	+1	reviewed	p.A290T	0.999	92	0%	27	18.5%	0	-	probably_damaging(0.999)	tolerated(0.09)	deleterious(0.787)	NULL
UQCRC2	7385	genome.wustl.edu	37	16	21968882	21968882	+	Missense_Mutation	SNP	A	A	C	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_003366.2	+1	validated	p.S88R	1.000	304	0%	54	20.4%	31	6.4%	possibly_damaging(0.852)	tolerated(0.33)	neutral(0.352)	PatternScan_INSULINASE,superfamily_LuxS/MPP-like metallohydrolase,HMMPfam_Peptidase_M16
VWA3A	146177	genome.wustl.edu	37	16	22120831	22120831	+	Missense_Mutation	SNP	T	T	G	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_173615.3	+1	validated	p.V171G	0.986	125	0%	50	12%	0	-	probably_damaging(0.999)	deleterious(0)	deleterious(0.935)	superfamily_vWA-like
USP31	57478	genome.wustl.edu	37	16	23080231	23080231	+	Missense_Mutation	SNP	T	T	G	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_020718.3	-1	validated	p.K1065N	0.474	157	0%	146	11%	5	0%	benign(0.411)	tolerated(0.09)	neutral(0.429)	NULL
USP31	57478	genome.wustl.edu	37	16	23080765	23080765	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_020718.3	-1	validated	p.S887	0.902	89	1.1%	84	21.4%	0	-	-	-	-	NULL
USP31	57478	genome.wustl.edu	37	16	23083394	23083394	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_020718.3	-1	validated	p.E820D	1.000	464	0%	390	11%	1	0%	probably_damaging(0.977)	deleterious(0.04)	deleterious(0.768)	NULL
SCNN1G	6340	genome.wustl.edu	37	16	23197724	23197724	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001039.3	+1	reviewed	p.I44	1.000	25	0%	58	31%	0	-	-	-	-	HMMPfam_ASC
SCNN1G	6340	genome.wustl.edu	37	16	23226720	23226720	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001039.3	+1	reviewed	p.Y627C	1.000	95	0%	30	30%	0	-	probably_damaging(1)	deleterious(0)	deleterious(0.945)	NULL
COG7	91949	genome.wustl.edu	37	16	23400295	23400295	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_153603.3	-1	reviewed	p.G753	0.993	83	0%	86	36%	33	33.3%	-	-	-	HMMPfam_COG7
GGA2	23062	genome.wustl.edu	37	16	23499931	23499931	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_015044.4	-1	reviewed	p.S192Y	1.000	539	0%	227	29.1%	9	11.1%	probably_damaging(0.998)	deleterious(0)	deleterious(0.919)	superfamily_SSF89009
PLK1	5347	genome.wustl.edu	37	16	23692347	23692347	+	Silent	SNP	C	C	T	rs11645497	byHapMap	TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_005030.3	+1	provisional	p.F230	1.000	378	0%	421	17.1%	2	0%	-	-	-	HMMSmart_S_TKc,superfamily_Kinase_like,HMMPfam_Pkinase
PLK1	5347	genome.wustl.edu	37	16	23700904	23700904	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_005030.3	+1	provisional	p.L505	0.695	35	0%	36	30.6%	18	38.8%	-	-	-	superfamily_SSF82615
CACNG3	10368	genome.wustl.edu	37	16	24268133	24268133	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_006539.2	+1	reviewed	p.A20T	1.000	433	0%	431	12.1%	0	-	probably_damaging(0.999)	deleterious(0)	deleterious(0.935)	HMMPfam_PMP22_Claudin
RBBP6	5930	genome.wustl.edu	37	16	24566995	24566995	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_006910.4	+1	reviewed	p.S136	0.971	255	0%	112	18.8%	5	0%	-	-	-	NULL
RBBP6	5930	genome.wustl.edu	37	16	24567735	24567735	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_006910.4	+1	reviewed	p.N214S	1.000	308	0%	109	23.9%	4	25%	benign(0.35)	tolerated(0.12)	neutral(0.371)	superfamily_Retrovirus zinc finger-like domains
RBBP6	5930	genome.wustl.edu	37	16	24580275	24580275	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_006910.4	+1	reviewed	p.R755Q	1.000	226	0.4%	219	26%	4	50%	unknown(0)	-	-	NULL
RBBP6	5930	genome.wustl.edu	37	16	24582375	24582375	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_006910.4	+1	reviewed	p.E1330K	1.000	103	0%	138	32.6%	9	22.2%	probably_damaging(0.971)	deleterious(0)	deleterious(0.857)	NULL
TNRC6A	27327	genome.wustl.edu	37	16	24802415	24802415	+	Nonsense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_014494.2	+1	reviewed	p.Q818*	1.000	102	0%	50	24%	0	-	-	-	-	NULL
TNRC6A	27327	genome.wustl.edu	37	16	24802458	24802458	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_014494.2	+1	reviewed	p.S832L	0.997	172	0%	82	29.3%	2	0%	benign(0.018)	tolerated(0.07)	neutral(0.320)	NULL
TNRC6A	27327	genome.wustl.edu	37	16	24815560	24815560	+	Nonsense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_014494.2	+1	reviewed	p.R1253*	1.000	229	0%	74	31.1%	2	0%	-	-	-	NULL
TNRC6A	27327	genome.wustl.edu	37	16	24817937	24817937	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_014494.2	+1	reviewed	p.R1458C	1.000	340	0%	99	23.2%	1	0%	benign(0.021)	deleterious(0)	neutral(0.446)	NULL
TNRC6A	27327	genome.wustl.edu	37	16	24818078	24818078	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_014494.2	+1	reviewed	p.I1505V	0.999	270	0%	101	17.8%	3	0%	benign(0.021)	tolerated(0.84)	neutral(0.002)	NULL
SLC5A11	115584	genome.wustl.edu	37	16	24909329	24909329	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_052944.2	+1	provisional	p.L302P	1.000	145	1.4%	80	36.2%	0	-	possibly_damaging(0.817)	deleterious(0)	deleterious(0.754)	HMMPfam_SSF
ARHGAP17	55114	genome.wustl.edu	37	16	24931556	24931556	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	ENST00000457275	-1	known	p.R836H	0.886	240	0%	158	25.9%	49	14.2%	-	-	-	NULL
HS3ST4	9951	genome.wustl.edu	37	16	26147095	26147095	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	ENST00000331351	+1	known	p.T299	0.767	102	0%	33	30.3%	0	-	-	-	-	HMMPfam_Sulfotransfer_1,superfamily_P-loop containing nucleoside triphosphate hydrolases
NSMCE1	197370	genome.wustl.edu	37	16	27236512	27236512	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_145080.3	-1	validated	p.S256L	0.005	70	0%	62	14.5%	274	2.5%	benign(0.004)	deleterious(0.03)	neutral(0.364)	NULL
NSMCE1	197370	genome.wustl.edu	37	16	27236549	27236549	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_145080.3	-1	validated	p.D244N	0.996	55	0%	60	21.7%	288	1.7%	benign(0)	tolerated(0.67)	neutral(0.003)	superfamily_SSF57850
KIAA0556	23247	genome.wustl.edu	37	16	27752129	27752129	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_015202.2	+1	validated	p.D837E	0.867	113	0%	75	10.7%	2	0%	possibly_damaging(0.707)	tolerated(0.41)	neutral(0.270)	NULL
GSG1L	146395	genome.wustl.edu	37	16	27818830	27818830	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001109763.1	-1	validated	p.C292	0.991	146	0%	251	21.1%	1	0%	-	-	-	NULL
GSG1L	146395	genome.wustl.edu	37	16	27895901	27895901	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001109763.1	-1	validated	p.G152	1.000	126	0%	114	12.3%	0	-	-	-	-	NULL
ENSG00000196585	0	genome.wustl.edu	37	16	28426321	28426321	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	ENST00000357646	+1	known	p.A189V	0.008	59	0%	71	26.8%	0	-	-	-	-	NULL
APOBR	55911	genome.wustl.edu	37	16	28507472	28507472	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_018690.2	+1	reviewed	p.D361	0.000	55	0%	63	30.2%	0	-	-	-	-	NULL
SULT1A2	6799	genome.wustl.edu	37	16	28604596	28604596	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001054.3	-1	reviewed	p.L191I	1.000	311	0%	306	12.7%	27	0%	probably_damaging(0.988)	tolerated(0.12)	deleterious(0.698)	HMMPfam_Sulfotransfer_1,superfamily_P-loop containing nucleoside triphosphate hydrolases
ATP2A1	487	genome.wustl.edu	37	16	28898838	28898838	+	Silent	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_173201.2	+1	reviewed	p.A241	0.999	123	0%	125	16%	0	-	-	-	-	HMMPfam_E1-E2_ATPase,superfamily_Calcium ATPase transmembrane domain M
LOC100289169	100289169	genome.wustl.edu	37	16	29063834	29063834	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	XM_002343436.1	+1	model	p.K146E	0.327	55	0%	49	12.2%	1	0%	benign(0.35)	deleterious(0.02)	deleterious(0.494)	NULL
RRN3P2	653390	genome.wustl.edu	37	16	29110458	29110458	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	ENST00000427965	+1	known	p.W375R	0.991	147	2%	131	20.6%	1	0%	benign(0)	tolerated(1)	-	HMMPfam_RRN3
SNX29P1	100652781	genome.wustl.edu	37	16	29376315	29376315	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	ENST00000507381	+1	known	p.N219	0.983	167	0%	90	22.2%	3	0%	-	-	-	NULL
C16orf54	283897	genome.wustl.edu	37	16	29756126	29756126	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_175900.3	-1	validated	p.T49	0.001	23	0%	62	32.3%	1	0%	-	-	-	NULL
ZG16	653808	genome.wustl.edu	37	16	29790884	29790884	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_152338.2	+1	validated	p.F38L	1.000	108	0%	111	31.5%	0	-	probably_damaging(1)	deleterious(0.01)	deleterious(0.905)	HMMPfam_Jacalin,superfamily_Mannose-bd_lectin
MVP	9961	genome.wustl.edu	37	16	29856166	29856166	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_005115.3	+1	reviewed	p.E663K	1.000	37	0%	33	21.2%	253	18.1%	probably_damaging(1)	deleterious(0)	deleterious(0.945)	NULL
MVP	9961	genome.wustl.edu	37	16	29859162	29859162	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_005115.3	+1	reviewed	p.A845V	0.999	66	0%	85	21.2%	347	20.4%	probably_damaging(1)	deleterious(0)	deleterious(0.945)	NULL
SEZ6L2	26470	genome.wustl.edu	37	16	29883045	29883045	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_201575.2	-1	validated	p.T903M	1.000	289	0%	401	11.2%	172	1.1%	probably_damaging(1)	deleterious(0)	deleterious(0.945)	NULL
SEZ6L2	26470	genome.wustl.edu	37	16	29897010	29897010	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_201575.2	-1	validated	p.D423	0.995	39	0%	55	30.9%	11	0%	-	-	-	HMMSmart_SM00042,superfamily_Spermadhesin CUB domain
SEZ6L2	26470	genome.wustl.edu	37	16	29908232	29908232	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_201575.2	-1	validated	p.G141V	1.000	36	0%	50	28%	2	0%	unknown(0)	tolerated(0.18)	-	NULL
ASPHD1	253982	genome.wustl.edu	37	16	29912544	29912544	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_181718.3	+1	validated	p.F84	0.141	39	0%	68	10.3%	2	0%	-	-	-	NULL
TAOK2	9344	genome.wustl.edu	37	16	29998323	29998323	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_016151.2	+1	validated	p.P910	0.018	116	0%	229	14.8%	9	0%	-	-	-	NULL
HIRIP3	8479	genome.wustl.edu	37	16	30005574	30005574	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_003609.2	-1	reviewed	p.A298T	0.000	351	0%	631	13.9%	10	40%	benign(0.355)	tolerated(0.58)	neutral(0.118)	NULL
DOC2A	8448	genome.wustl.edu	37	16	30017807	30017807	+	Silent	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_003586.2	-1	reviewed	p.L328	0.087	207	0%	305	22.6%	0	-	-	-	-	HMMPfam_C2,HMMSmart_C2,superfamily_C2_CaLB
DOC2A	8448	genome.wustl.edu	37	16	30018190	30018190	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_003586.2	-1	reviewed	p.R265H	1.000	43	0%	84	26.2%	0	-	probably_damaging(0.987)	deleterious(0.02)	deleterious(0.820)	superfamily_C2_CaLB
TBX6	6911	genome.wustl.edu	37	16	30100063	30100063	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_004608.3	-1	reviewed	p.R240H	1.000	145	0%	206	27.7%	2	0%	probably_damaging(0.998)	deleterious(0.01)	deleterious(0.880)	HMMPfam_T-box,HMMSmart_TBOX,superfamily_P53_like_DNA_bnd
MAPK3	5595	genome.wustl.edu	37	16	30128576	30128576	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_002746.2	-1	reviewed	p.L269P	1.000	394	0%	458	25.5%	102	14.7%	probably_damaging(0.999)	deleterious(0)	deleterious(0.935)	HMMSmart_SM00219,HMMSmart_SM00220,superfamily_Protein kinase-like (PK-like),HMMPfam_Pkinase
MAPK3	5595	genome.wustl.edu	37	16	30133269	30133269	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_002746.2	-1	reviewed	p.E77K	1.000	73	0%	148	12.2%	30	10%	probably_damaging(0.955)	deleterious(0)	deleterious(0.843)	HMMSmart_SM00219,HMMSmart_SM00220,PatternScan_MAPK,superfamily_Protein kinase-like (PK-like),HMMPfam_Pkinase
CORO1A	11151	genome.wustl.edu	37	16	30199747	30199747	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_007074.2	+1	validated	p.E377D	1.000	28	0%	62	22.6%	348	0%	benign(0.001)	tolerated(0.35)	neutral(0.021)	HMMPfam_DUF1900
TBC1D10B	26000	genome.wustl.edu	37	16	30369865	30369865	+	Silent	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_015527.3	-1	validated	p.L609	0.998	53	0%	73	11%	18	5.5%	-	-	-	NULL
ZNF48	197407	genome.wustl.edu	37	16	30409596	30409596	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_152652.1	+1	provisional	p.D342G	0.202	48	0%	94	26.6%	15	20%	probably_damaging(0.992)	tolerated(0.17)	deleterious(0.506)	HMMPfam_zf-C2H2,PatternScan_ZINC_FINGER_C2H2_1,HMMSmart_SM00355,superfamily_C2H2 and C2HC zinc fingers
SEPHS2	22928	genome.wustl.edu	37	16	30456613	30456613	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	ENST00000418751	-1	known	p.D28Y	1.000	74	0%	148	13.5%	10	20%	probably_damaging(1)	deleterious(0)	deleterious(0.945)	HMMPfam_AIRS,superfamily_PurM_N-like
ITGAL	3683	genome.wustl.edu	37	16	30490747	30490747	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_002209.2	+1	reviewed	p.D181N	1.000	219	0%	210	15.2%	0	-	probably_damaging(0.98)	tolerated(0.3)	neutral(0.453)	HMMPfam_VWA,HMMSmart_SM00327,superfamily_vWA-like,superfamily_Integrin alpha N-terminal domain
ITGAL	3683	genome.wustl.edu	37	16	30500695	30500695	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_002209.2	+1	reviewed	p.A401S	0.000	368	0%	183	21.9%	1	0%	benign(0.003)	tolerated(0.12)	neutral(0.261)	HMMSmart_SM00191,superfamily_Integrin alpha N-terminal domain
PRR14	78994	genome.wustl.edu	37	16	30666229	30666229	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_024031.2	+1	provisional	p.R313Q	0.998	44	0%	75	22.7%	30	13.3%	probably_damaging(0.997)	deleterious(0)	deleterious(0.911)	NULL
SRCAP	10847	genome.wustl.edu	37	16	30749937	30749937	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_006662.2	+1	validated	p.R2859Q	0.987	64	0%	88	11.4%	32	0%	possibly_damaging(0.939)	-	-	HMMPfam_AT_hook,HMMSmart_SM00384
PHKG2	5261	genome.wustl.edu	37	16	30762555	30762555	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_000294.2	+1	reviewed	p.R75Q	0.997	91	0%	126	27.8%	14	28.5%	benign(0.025)	tolerated(0.63)	neutral(0.005)	HMMSmart_S_TKc,superfamily_Kinase_like,HMMPfam_Pkinase
RNF40	9810	genome.wustl.edu	37	16	30780244	30780244	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_014771.2	+1	reviewed	p.R728Q	1.000	52	0%	103	27.2%	24	16.6%	probably_damaging(0.997)	tolerated(0.23)	deleterious(0.508)	NULL
RNF40	9810	genome.wustl.edu	37	16	30783270	30783270	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_014771.2	+1	reviewed	p.E901D	1.000	39	0%	66	16.7%	33	21.2%	benign(0.092)	tolerated(0.21)	neutral(0.051)	NULL
ZNF629	23361	genome.wustl.edu	37	16	30793872	30793872	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001080417.1	-1	provisional	p.G593R	0.992	288	0%	509	25.1%	3	33.3%	benign(0.011)	tolerated(0.08)	neutral(0.300)	superfamily_SSF57667
BCL7C	9274	genome.wustl.edu	37	16	30904040	30904040	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_004765.2	-1	reviewed	p.S103	0.179	96	1%	181	12.7%	181	18.7%	-	-	-	NULL
SETD1A	9739	genome.wustl.edu	37	16	30975982	30975982	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_014712.1	+1	provisional	p.D307Y	1.000	132	0%	232	16.8%	5	0%	probably_damaging(1)	-	-	NULL
STX1B	112755	genome.wustl.edu	37	16	31008348	31008348	+	Silent	SNP	T	T	C	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_052874.3	-1	validated	p.V129	1.000	39	0%	53	20.8%	0	-	-	-	-	HMMPfam_Syntaxin,HMMSmart_SM00503,superfamily_t-snare proteins
STX4	6810	genome.wustl.edu	37	16	31049918	31049918	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_004604.3	+1	provisional	p.R218C	1.000	95	0%	156	26.9%	121	17.3%	possibly_damaging(0.924)	deleterious(0)	deleterious(0.818)	HMMPfam_SNARE,HMMSmart_t_SNARE,PatternScan_SYNTAXIN,superfamily_t-snare
ZNF646	9726	genome.wustl.edu	37	16	31089028	31089028	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_014699.3	+1	validated	p.D461	0.997	88	0%	185	28.1%	1	0%	-	-	-	superfamily_C2H2 and C2HC zinc fingers
ZNF646	9726	genome.wustl.edu	37	16	31092203	31092203	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_014699.3	+1	validated	p.D1520Y	0.012	93	0%	151	28.5%	4	0%	probably_damaging(0.999)	deleterious(0.02)	deleterious(0.873)	NULL
ZNF646	9726	genome.wustl.edu	37	16	31092312	31092312	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_014699.3	+1	validated	p.R1556Q	0.000	55	1.8%	98	11.2%	6	16.6%	possibly_damaging(0.563)	tolerated(0.69)	neutral(0.195)	superfamily_C2H2 and C2HC zinc fingers
PRSS53	339105	genome.wustl.edu	37	16	31095544	31095544	+	Missense_Mutation	SNP	G	G	A	rs145846447	by1000genomes	TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001039503.2	-1	validated	p.A513V	0.005	19	0%	33	18.2%	4	0%	possibly_damaging(0.889)	tolerated(0.21)	neutral(0.393)	HMMPfam_Trypsin,HMMSmart_Tryp_SPc,superfamily_Pept_Ser_Cys
BCKDK	10295	genome.wustl.edu	37	16	31122697	31122697	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_005881.2	+1	validated	p.D308N	1.000	142	0.7%	243	25.1%	58	10.3%	probably_damaging(0.999)	tolerated(0.24)	deleterious(0.528)	HMMPfam_HATPase_c,HMMSmart_SM00387,superfamily_ATPase domain of HSP90 chaperone/DNA topoisomerase II/histidine kinase
KAT8	84148	genome.wustl.edu	37	16	31138591	31138591	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_182958.2	+1	validated	p.D200N	1.000	128	0%	136	22.1%	33	15.1%	benign(0.095)	deleterious(0)	neutral(0.452)	superfamily_Acyl-CoA N-acyltransferases (Nat)
PRSS8	5652	genome.wustl.edu	37	16	31143834	31143834	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_002773.3	-1	reviewed	p.I207	0.000	126	0%	199	19.6%	40	47.5%	-	-	-	HMMPfam_Trypsin,HMMSmart_Tryp_SPc,superfamily_Pept_Ser_Cys
PRSS36	146547	genome.wustl.edu	37	16	31152041	31152041	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_173502.3	-1	validated	p.L647M	1.000	33	0%	51	31.4%	1	0%	possibly_damaging(0.531)	tolerated(0.05)	deleterious(0.524)	HMMPfam_Trypsin,HMMSmart_Tryp_SPc,superfamily_Pept_Ser_Cys
PRSS36	146547	genome.wustl.edu	37	16	31154788	31154788	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_173502.3	-1	validated	p.C325	0.990	38	0%	82	35.4%	0	-	-	-	-	HMMPfam_Trypsin,superfamily_Pept_Ser_Cys
ITGAX	3687	genome.wustl.edu	37	16	31393226	31393226	+	Nonstop_Mutation	SNP	T	T	G	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_000887.3	+1	reviewed	p.*1164G	0.000	255	0%	195	24.6%	13	0%	-	-	-	NULL
ITGAD	3681	genome.wustl.edu	37	16	31425831	31425831	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_005353.2	+1	validated	p.R686C	0.979	229	0%	191	24.6%	0	-	probably_damaging(1)	deleterious(0)	deleterious(0.945)	HMMPfam_Integrin_alpha2,superfamily_Integrin domains
ZNF843	283933	genome.wustl.edu	37	16	31447450	31447450	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001136509.1	-1	provisional	p.P241T	0.857	95	0%	157	25.5%	0	-	unknown(0)	-	-	NULL
ARMC5	79798	genome.wustl.edu	37	16	31477416	31477416	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001105247.1	+1	validated	p.R672C	1.000	70	0%	108	22.2%	16	6.2%	probably_damaging(1)	deleterious(0)	deleterious(0.945)	superfamily_ARM repeat
TGFB1I1	7041	genome.wustl.edu	37	16	31484782	31484782	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001042454.2	+1	reviewed	p.E12K	1.000	69	0%	154	23.4%	79	0%	benign(0.062)	tolerated(0.08)	neutral(0.304)	NULL
SLC5A2	6524	genome.wustl.edu	37	16	31500560	31500560	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	ENST00000419665	+1	known	p.R416W	0.018	55	0%	102	32.4%	0	-	unknown(0)	-	-	NULL
ZNF267	10308	genome.wustl.edu	37	16	31927102	31927102	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_003414.4	+1	validated	p.R511Q	0.991	93	1.1%	42	16.7%	9	0%	benign(0.087)	tolerated(0.57)	neutral(0.013)	HMMPfam_zf-C2H2,PatternScan_ZINC_FINGER_C2H2_1,HMMSmart_SM00355,superfamily_C2H2 and C2HC zinc fingers
ENSG00000214627	0	genome.wustl.edu	37	16	31995481	31995481	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	ENST00000398685	+1	known	p.R246K	0.993	44	0%	50	16%	0	-	-	-	-	NULL
ENSG00000214627	0	genome.wustl.edu	37	16	32005826	32005826	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	ENST00000398685	+1	known	p.T395	0.994	84	0%	63	17.5%	0	-	-	-	-	HMMPfam_RhoGAP,HMMSmart_RhoGAP,superfamily_Rho_GAP
LOC729264	729264	genome.wustl.edu	37	16	32264947	32264947	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	XM_001133674.2	+1	model	p.G91	0.006	469	0%	435	6.9%	0	-	-	-	-	NULL
LOC401847	401847	genome.wustl.edu	37	16	33605616	33605616	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	XM_001718104.2	+1	model	p.K95	0.960	286	0%	122	13.1%	0	-	-	-	-	HMMSmart_SM00406,HMMPfam_V-set,superfamily_Immunoglobulin
VPS35	55737	genome.wustl.edu	37	16	46705710	46705710	+	Missense_Mutation	SNP	T	T	G	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_018206.4	-1	reviewed	p.E477D	0.999	248	0%	95	25.3%	13	30.7%	benign(0)	tolerated(0.82)	neutral(0.001)	HMMPfam_Vps35
GPT2	84706	genome.wustl.edu	37	16	46960872	46960872	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_133443.2	+1	validated	p.M468I	1.000	107	0%	114	18.4%	54	48.1%	possibly_damaging(0.683)	tolerated(0.15)	deleterious(0.484)	superfamily_PLP-dependent transferases
ITFG1	81533	genome.wustl.edu	37	16	47409827	47409827	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_030790.3	-1	provisional	p.A227D	0.041	225	0%	48	16.7%	13	0%	benign(0.001)	deleterious(0.02)	neutral(0.383)	NULL
PHKB	5257	genome.wustl.edu	37	16	47581417	47581417	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_000293.2	+1	reviewed	p.R223I	1.000	553	0%	164	11.6%	0	-	benign(0.058)	tolerated(0.06)	neutral(0.326)	HMMPfam_PHK_AB,superfamily_Six-hairpin glycosidases
PHKB	5257	genome.wustl.edu	37	16	47621625	47621625	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_000293.2	+1	reviewed	p.R274H	1.000	495	0%	175	22.9%	1	0%	probably_damaging(0.992)	deleterious(0)	deleterious(0.892)	HMMPfam_PHK_AB,superfamily_Six-hairpin glycosidases
PHKB	5257	genome.wustl.edu	37	16	47630293	47630293	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_000293.2	+1	reviewed	p.V405A	0.998	275	0%	77	13%	4	25%	possibly_damaging(0.529)	deleterious(0.02)	deleterious(0.561)	HMMPfam_PHK_AB,superfamily_Six-hairpin glycosidases
PHKB	5257	genome.wustl.edu	37	16	47699841	47699841	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	ENST00000427582	+1	known	p.F16L	1.000	244	0%	66	33.3%	0	-	-	-	-	NULL
PHKB	5257	genome.wustl.edu	37	16	47703238	47703238	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_000293.2	+1	reviewed	p.A847V	1.000	136	0%	29	20.7%	4	50%	probably_damaging(0.989)	tolerated(0.69)	neutral(0.442)	HMMPfam_PHK_AB
ABCC12	94160	genome.wustl.edu	37	16	48117912	48117912	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_033226.2	-1	reviewed	p.D1301Y	0.980	323	0%	193	21.2%	0	-	benign(0.005)	deleterious(0.01)	neutral(0.406)	HMMPfam_ABC_tran,HMMSmart_SM00382,superfamily_P-loop containing nucleoside triphosphate hydrolases
ABCC12	94160	genome.wustl.edu	37	16	48151208	48151208	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_033226.2	-1	reviewed	p.K583N	0.156	118	0%	86	27.9%	0	-	benign(0.017)	tolerated(0.14)	neutral(0.250)	HMMPfam_ABC_tran,HMMSmart_SM00382,superfamily_P-loop containing nucleoside triphosphate hydrolases
ABCC11	85320	genome.wustl.edu	37	16	48230194	48230194	+	Nonsense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_032583.3	-1	reviewed	p.E785*	0.963	114	0%	61	29.5%	0	-	-	-	-	superfamily_Multidrug resistance ABC transporter MsbA N-terminal domain
ABCC11	85320	genome.wustl.edu	37	16	48258271	48258271	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_032583.3	-1	reviewed	p.M155I	0.093	179	0%	58	20.7%	0	-	benign(0.002)	tolerated(0.54)	neutral(0.007)	superfamily_Multidrug resistance ABC transporter MsbA N-terminal domain
LONP2	83752	genome.wustl.edu	37	16	48337109	48337109	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_031490.2	+1	provisional	p.S563Y	1.000	191	0%	62	29%	9	33.3%	benign(0.365)	deleterious(0)	deleterious(0.560)	HMMPfam_AAA,superfamily_SSF52540
N4BP1	9683	genome.wustl.edu	37	16	48595186	48595186	+	Silent	SNP	T	T	C	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_153029.3	-1	validated	p.S456	0.988	469	0%	145	25.5%	0	-	-	-	-	NULL
N4BP1	9683	genome.wustl.edu	37	16	48595697	48595697	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_153029.3	-1	validated	p.R286I	0.998	242	0%	58	19%	3	0%	probably_damaging(0.998)	deleterious(0)	deleterious(0.919)	NULL
C16orf78	123970	genome.wustl.edu	37	16	49433176	49433176	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_144602.2	+1	predicted	p.S262N	0.000	162	0%	44	18.2%	0	-	benign(0.023)	deleterious(0)	neutral(0.446)	NULL
ZNF423	23090	genome.wustl.edu	37	16	49557582	49557582	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_015069.2	-1	reviewed	p.D1260N	1.000	95	0%	126	20.6%	8	12.5%	probably_damaging(1)	tolerated(0.08)	deleterious(0.800)	HMMPfam_zf-C2H2,HMMSmart_ZnF_C2H2
ADCY7	113	genome.wustl.edu	37	16	50340966	50340966	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001114.3	+1	reviewed	p.R586	1.000	19	0%	51	17.6%	1	0%	-	-	-	HMMPfam_DUF1053
SNX20	124460	genome.wustl.edu	37	16	50707908	50707908	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_182854.2	-1	validated	p.F120	0.960	37	0%	62	11.3%	0	-	-	-	-	HMMPfam_PX,HMMSmart_SM00312,superfamily_PX domain
NOD2	64127	genome.wustl.edu	37	16	50744744	50744744	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_022162.1	+1	reviewed	p.L308F	0.928	41	0%	61	31.1%	0	-	probably_damaging(1)	deleterious(0)	deleterious(0.945)	HMMPfam_NACHT,superfamily_P-loop containing nucleoside triphosphate hydrolases
CYLD	1540	genome.wustl.edu	37	16	50815309	50815309	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_015247.2	+1	reviewed	p.R557	1.000	293	0%	67	19.4%	4	0%	-	-	-	NULL
SALL1	6299	genome.wustl.edu	37	16	51171083	51171083	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_002968.2	-1	reviewed	p.N1305	0.945	64	0%	123	27.6%	12	33.3%	-	-	-	NULL
SALL1	6299	genome.wustl.edu	37	16	51171415	51171415	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_002968.2	-1	reviewed	p.R1195W	0.999	50	2%	80	37.5%	12	0%	probably_damaging(0.999)	deleterious(0)	deleterious(0.935)	NULL
TOX3	27324	genome.wustl.edu	37	16	52473641	52473641	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001080430.2	-1	reviewed	p.S409	1.000	438	0%	182	17.6%	0	-	-	-	-	NULL
CHD9	80205	genome.wustl.edu	37	16	53262969	53262969	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_025134.4	+1	validated	p.R748Q	1.000	282	0%	44	31.8%	1	100%	probably_damaging(0.985)	deleterious(0)	deleterious(0.877)	HMMPfam_Chromo,HMMSmart_CHROMO,superfamily_Chromodomain-like
CHD9	80205	genome.wustl.edu	37	16	53331022	53331022	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_025134.4	+1	validated	p.A1889T	1.000	373	0%	130	33.1%	2	0%	possibly_damaging(0.64)	deleterious(0.03)	deleterious(0.589)	NULL
RBL2	5934	genome.wustl.edu	37	16	53496485	53496485	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_005611.3	+1	validated	p.R493H	1.000	210	0%	53	17%	6	16.6%	unknown(0)	tolerated(0.09)	-	HMMPfam_RB_A,superfamily_Cyclin_like
RBL2	5934	genome.wustl.edu	37	16	53515637	53515637	+	Nonsense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_005611.3	+1	validated	p.R1047*	1.000	316	0%	99	9.1%	20	0%	-	-	-	NULL
RPGRIP1L	23322	genome.wustl.edu	37	16	53653024	53653024	+	Nonsense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_015272.2	-1	reviewed	p.R1177*	0.989	234	0.4%	206	29.6%	0	-	-	-	-	NULL
RPGRIP1L	23322	genome.wustl.edu	37	16	53653089	53653089	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_015272.2	-1	reviewed	p.A1155V	1.000	236	0%	188	10.6%	0	-	possibly_damaging(0.521)	deleterious(0.03)	deleterious(0.540)	NULL
RPGRIP1L	23322	genome.wustl.edu	37	16	53686478	53686478	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_015272.2	-1	reviewed	p.S707	0.423	106	0%	83	16.9%	2	0%	-	-	-	HMMSmart_SM00239,superfamily_C2 domain (Calcium/lipid-binding domain CaLB)
RPGRIP1L	23322	genome.wustl.edu	37	16	53686795	53686795	+	Nonsense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_015272.2	-1	reviewed	p.R602*	1.000	158	0%	116	27.6%	1	0%	-	-	-	NULL
RPGRIP1L	23322	genome.wustl.edu	37	16	53706833	53706833	+	Silent	SNP	A	A	G	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_015272.2	-1	reviewed	p.S326	0.641	338	0%	50	18%	0	-	-	-	-	NULL
RPGRIP1L	23322	genome.wustl.edu	37	16	53730154	53730154	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_015272.2	-1	reviewed	p.R47C	1.000	253	0%	291	25.4%	3	33.3%	probably_damaging(1)	deleterious(0)	deleterious(0.945)	NULL
IRX3	79191	genome.wustl.edu	37	16	54317617	54317617	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_024336.2	-1	validated	p.S496L	0.993	234	0%	414	28.3%	9	0%	unknown(0)	deleterious(0)	-	NULL
IRX5	10265	genome.wustl.edu	37	16	54965171	54965171	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_005853.5	+1	validated	p.P21S	1.000	10	0%	13	30.8%	0	-	probably_damaging(1)	deleterious(0.01)	deleterious(0.905)	NULL
MMP2	4313	genome.wustl.edu	37	16	55518023	55518023	+	Missense_Mutation	SNP	T	T	G	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_004530.4	+1	reviewed	p.F159C	1.000	186	0%	250	22.8%	380	0.2%	probably_damaging(1)	deleterious(0.01)	deleterious(0.905)	HMMPfam_Peptidase_M10,HMMSmart_ZnMc,superfamily_SSF55486
CAPNS2	84290	genome.wustl.edu	37	16	55601171	55601171	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_032330.1	+1	validated	p.S168Y	0.000	108	0%	27	29.6%	0	-	benign(0)	tolerated(0.14)	neutral(0.249)	superfamily_SSF47473
GNAO1	2775	genome.wustl.edu	37	16	56374758	56374758	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_138736.2	+1	validated	p.E246K	1.000	229	0%	313	11.8%	0	-	probably_damaging(1)	deleterious(0)	deleterious(0.945)	HMMPfam_G-alpha,superfamily_SSF52540
AMFR	267	genome.wustl.edu	37	16	56423217	56423217	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001144.4	-1	reviewed	p.D386N	1.000	263	0%	158	25.3%	36	2.7%	benign(0.001)	tolerated(0.19)	neutral(0.050)	superfamily_RING/U-box
BBS2	583	genome.wustl.edu	37	16	56518695	56518695	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_031885.3	-1	reviewed	p.R715Q	1.000	396	0%	72	18.1%	44	18.1%	possibly_damaging(0.732)	tolerated(0.26)	neutral(0.301)	NULL
BBS2	583	genome.wustl.edu	37	16	56519638	56519638	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_031885.3	-1	reviewed	p.K641N	1.000	269	0%	74	12.2%	29	13.7%	probably_damaging(0.996)	tolerated(0.12)	deleterious(0.722)	NULL
BBS2	583	genome.wustl.edu	37	16	56548579	56548579	+	Missense_Mutation	SNP	T	T	G	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_031885.3	-1	reviewed	p.N44T	1.000	86	0%	99	20.2%	1	0%	possibly_damaging(0.864)	deleterious(0.02)	deleterious(0.718)	superfamily_WD40 repeat-like
MT4	84560	genome.wustl.edu	37	16	56601683	56601683	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_032935.2	+1	provisional	p.D18Y	1.000	206	0%	90	18.9%	0	-	possibly_damaging(0.83)	-	-	HMMPfam_Metallothio,superfamily_Metallothionein
MT3	4504	genome.wustl.edu	37	16	56624813	56624813	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_005954.2	+1	validated	p.G53	0.131	82	0%	141	22%	2	0%	-	-	-	HMMPfam_Metallothio,superfamily_Metallothionein_sfam
NUP93	9688	genome.wustl.edu	37	16	56868072	56868072	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_014669.3	+1	validated	p.R524W	1.000	120	0%	37	24.3%	15	13.3%	probably_damaging(1)	deleterious(0)	deleterious(0.945)	HMMPfam_Nic96
NUP93	9688	genome.wustl.edu	37	16	56868648	56868648	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_014669.3	+1	validated	p.F580	0.880	362	0%	112	26.8%	28	7.1%	-	-	-	HMMPfam_Nic96
SLC12A3	6559	genome.wustl.edu	37	16	56914074	56914074	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_000339.2	+1	reviewed	p.I492	0.977	60	0%	54	25.9%	0	-	-	-	-	HMMPfam_AA_permease
HERPUD1	9709	genome.wustl.edu	37	16	56973994	56973994	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_014685.2	+1	reviewed	p.A248T	1.000	493	0%	352	22.4%	30	23.3%	probably_damaging(1)	deleterious(0)	deleterious(0.945)	NULL
NLRC5	84166	genome.wustl.edu	37	16	57099178	57099178	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_032206.3	+1	validated	p.C1403	0.669	79	0%	49	26.5%	3	0%	-	-	-	superfamily_RNI-like
NLRC5	84166	genome.wustl.edu	37	16	57111689	57111689	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_032206.3	+1	validated	p.L1660I	0.836	188	0%	126	28.6%	11	0%	possibly_damaging(0.707)	tolerated(0.46)	neutral(0.267)	HMMSmart_SM00368,superfamily_RNI-like
ARL2BP	23568	genome.wustl.edu	37	16	57284396	57284396	+	Nonsense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_012106.3	+1	reviewed	p.E123*	1.000	239	0%	198	13.6%	25	16%	-	-	-	NULL
PLLP	51090	genome.wustl.edu	37	16	57292475	57292475	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_015993.2	-1	validated	p.A111T	0.996	183	0%	165	20%	16	56.2%	probably_damaging(1)	tolerated(0.05)	deleterious(0.845)	HMMPfam_MARVEL
CX3CL1	6376	genome.wustl.edu	37	16	57413565	57413565	+	Silent	SNP	G	G	A	rs186406126	by1000genomes	TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_002996.3	+1	provisional	p.T30	0.034	112	0%	71	15.5%	10	10%	-	-	-	HMMPfam_IL8,HMMSmart_SM00199,superfamily_Interleukin 8-like chemokines
CCDC102A	92922	genome.wustl.edu	37	16	57552161	57552161	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_033212.3	-1	validated	p.A356V	0.596	14	0%	24	25%	5	0%	probably_damaging(0.98)	tolerated(0.09)	deleterious(0.720)	NULL
GPR114	221188	genome.wustl.edu	37	16	57596307	57596307	+	Nonsense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_153837.1	+1	provisional	p.E26*	0.001	211	0%	163	9.8%	2	0%	-	-	-	NULL
GPR97	222487	genome.wustl.edu	37	16	57712216	57712216	+	Silent	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_170776.4	+1	validated	p.G160	0.010	125	0%	99	19.2%	0	-	-	-	-	NULL
GPR97	222487	genome.wustl.edu	37	16	57714493	57714493	+	Missense_Mutation	SNP	T	T	G	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_170776.4	+1	validated	p.F282C	1.000	379	0%	273	22.7%	0	-	probably_damaging(1)	deleterious(0.03)	deleterious(0.865)	HMMPfam_7tm_2
CCDC135	84229	genome.wustl.edu	37	16	57764951	57764951	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_032269.5	+1	validated	p.R834C	1.000	140	0%	162	13%	0	-	probably_damaging(1)	deleterious(0)	deleterious(0.945)	NULL
KATNB1	10300	genome.wustl.edu	37	16	57775612	57775612	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_005886.2	+1	reviewed	p.A18	0.980	59	0%	81	17.3%	3	66.6%	-	-	-	HMMSmart_WD40,superfamily_WD40_like,HMMPfam_WD40
CNGB1	1258	genome.wustl.edu	37	16	57945695	57945695	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001297.4	-1	reviewed	p.L818	0.292	84	0%	70	20%	0	-	-	-	-	HMMPfam_Ion_trans,superfamily_Voltage-gated potassium channels
CNGB1	1258	genome.wustl.edu	37	16	57949193	57949193	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001297.4	-1	reviewed	p.V755A	0.678	155	0.6%	98	39.8%	0	-	benign(0.188)	tolerated(0.08)	neutral(0.318)	HMMPfam_Ion_trans,superfamily_Voltage-gated potassium channels
CNGB1	1258	genome.wustl.edu	37	16	57965725	57965725	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001297.4	-1	reviewed	p.C477Y	0.000	180	0%	94	16%	0	-	benign(0.256)	tolerated(0.1)	neutral(0.313)	NULL
CNGB1	1258	genome.wustl.edu	37	16	57996931	57996931	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001297.4	-1	reviewed	p.V110I	0.002	119	0.8%	104	25%	0	-	benign(0.235)	tolerated(0.22)	neutral(0.066)	NULL
ZNF319	57567	genome.wustl.edu	37	16	58031336	58031336	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_020807.1	-1	provisional	p.Y278	0.998	34	0%	54	20.4%	0	-	-	-	-	HMMPfam_zf-C2H2,PatternScan_ZINC_FINGER_C2H2_1,HMMSmart_ZnF_C2H2,superfamily_SSF57667
ZNF319	57567	genome.wustl.edu	37	16	58031933	58031933	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_020807.1	-1	provisional	p.G79	0.098	36	2.8%	78	21.8%	1	0%	-	-	-	PatternScan_ZINC_FINGER_C2H2_1,superfamily_SSF57667
MMP15	4324	genome.wustl.edu	37	16	58072217	58072217	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_002428.2	+1	reviewed	p.R120Q	0.056	35	0%	44	29.5%	5	40%	benign(0.004)	tolerated(0.29)	neutral(0.029)	NULL
MMP15	4324	genome.wustl.edu	37	16	58076195	58076195	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_002428.2	+1	reviewed	p.G409R	1.000	134	0%	257	21.8%	6	33.3%	probably_damaging(0.997)	tolerated(0.28)	deleterious(0.498)	superfamily_Hemopexin,PatternScan_HEMOPEXIN,HMMPfam_Hemopexin,HMMSmart_HX
CCDC113	29070	genome.wustl.edu	37	16	58288000	58288000	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_014157.3	+1	validated	p.A109	1.000	198	0%	176	30.1%	1	0%	-	-	-	NULL
CCDC113	29070	genome.wustl.edu	37	16	58296316	58296316	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_014157.3	+1	validated	p.D219N	0.869	238	0%	146	32.9%	1	100%	benign(0.167)	tolerated(0.37)	neutral(0.034)	NULL
PRSS54	221191	genome.wustl.edu	37	16	58324967	58324967	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001080492.1	-1	provisional	p.F53	1.000	65	0%	39	25.6%	0	-	-	-	-	HMMPfam_Trypsin,HMMSmart_Tryp_SPc,superfamily_Pept_Ser_Cys
GINS3	64785	genome.wustl.edu	37	16	58426576	58426576	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001126129.1	+1	reviewed	p.D24G	1.000	63	0%	141	27%	3	33.3%	unknown(0)	deleterious(0)	-	HMMPfam_Psf3
GINS3	64785	genome.wustl.edu	37	16	58438416	58438416	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001126129.1	+1	reviewed	p.R184H	1.000	322	0%	222	12.6%	1	0%	probably_damaging(1)	deleterious(0)	deleterious(0.945)	HMMPfam_Psf3
NDRG4	65009	genome.wustl.edu	37	16	58540489	58540489	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001130487.1	+1	reviewed	p.D215N	0.998	50	0%	75	22.7%	9	0%	benign(0.394)	deleterious(0)	deleterious(0.571)	HMMPfam_Ndr,superfamily_SSF53474
CNOT1	23019	genome.wustl.edu	37	16	58557404	58557404	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_016284.3	-1	validated	p.R2263C	1.000	339	0%	252	25.8%	49	10.2%	probably_damaging(1)	deleterious(0)	deleterious(0.945)	HMMPfam_Not1
CNOT1	23019	genome.wustl.edu	37	16	58570992	58570992	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_016284.3	-1	validated	p.R1849	1.000	152	0%	40	12.5%	9	0%	-	-	-	NULL
CNOT1	23019	genome.wustl.edu	37	16	58573746	58573746	+	Nonsense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_016284.3	-1	validated	p.R1640*	1.000	310	0%	47	23.4%	8	0%	-	-	-	NULL
CNOT1	23019	genome.wustl.edu	37	16	58581098	58581098	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_016284.3	-1	validated	p.R1248C	1.000	145	0%	63	12.7%	4	0%	probably_damaging(0.995)	deleterious(0)	deleterious(0.902)	NULL
CDH8	1006	genome.wustl.edu	37	16	61687729	61687729	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001796.2	-1	reviewed	p.R728M	1.000	220	0.5%	59	32.2%	0	-	probably_damaging(0.981)	deleterious(0)	deleterious(0.870)	HMMPfam_Cadherin_C
CDH8	1006	genome.wustl.edu	37	16	61689449	61689449	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001796.2	-1	reviewed	p.E611K	1.000	242	0%	73	21.9%	0	-	possibly_damaging(0.915)	tolerated(0.13)	deleterious(0.619)	NULL
CDH8	1006	genome.wustl.edu	37	16	62055290	62055290	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001796.2	-1	reviewed	p.A6	1.000	39	0%	21	42.9%	1	0%	-	-	-	NULL
CDH11	1009	genome.wustl.edu	37	16	64984838	64984838	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001797.2	-1	reviewed	p.D576N	1.000	94	0%	65	27.7%	11	0%	probably_damaging(1)	deleterious(0)	deleterious(0.945)	HMMPfam_Cadherin,HMMSmart_SM00112,superfamily_Cadherin-like
ENSG00000250685	0	genome.wustl.edu	37	16	65345360	65345360	+	RNA	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	ENST00000505989	-1	known	NULL	0.000	160	0%	58	20.7%	0	-	-	-	-	-
CDH5	1003	genome.wustl.edu	37	16	66424424	66424424	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001795.3	+1	reviewed	p.G300	1.000	171	0%	93	21.5%	4	25%	-	-	-	HMMPfam_Cadherin,HMMSmart_SM00112,superfamily_Cadherin-like
TK2	7084	genome.wustl.edu	37	16	66545881	66545881	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_004614.4	-1	reviewed	p.H305R	0.000	292	0%	162	21%	7	0%	benign(0.086)	tolerated(0.13)	neutral(0.259)	NULL
CMTM1	113540	genome.wustl.edu	37	16	66612894	66612894	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_052999.3	+1	reviewed	p.R284M	0.000	36	0%	85	22.4%	2	0%	probably_damaging(0.989)	deleterious(0)	deleterious(0.884)	NULL
CA7	766	genome.wustl.edu	37	16	66885594	66885594	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_005182.2	+1	reviewed	p.R161C	1.000	153	0%	206	27.7%	0	-	probably_damaging(0.992)	deleterious(0)	deleterious(0.892)	HMMPfam_Carb_anhydrase,superfamily_Euk_COanhd
RRAD	6236	genome.wustl.edu	37	16	66956115	66956115	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001128850.1	-1	validated	p.R264Q	0.996	70	0%	119	10.1%	15	0%	possibly_damaging(0.904)	deleterious(0.04)	deleterious(0.708)	NULL
CES3	23491	genome.wustl.edu	37	16	66995267	66995267	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_024922.4	+1	validated	p.L19	0.998	181	0%	196	12.8%	0	-	-	-	-	HMMPfam_COesterase
CES3	23491	genome.wustl.edu	37	16	67006371	67006371	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_024922.4	+1	validated	p.F468	0.126	320	0%	491	11.4%	0	-	-	-	-	HMMPfam_COesterase,superfamily_alpha/beta-Hydrolases
CES4A	283848	genome.wustl.edu	37	16	67040671	67040671	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_173815.4	+1	validated	p.A420T	0.000	151	0%	202	25.7%	3	66.6%	benign(0.001)	tolerated(0.57)	neutral(0.006)	HMMPfam_COesterase,superfamily_SSF53474
B3GNT9	84752	genome.wustl.edu	37	16	67183314	67183314	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_033309.2	-1	validated	p.R359C	1.000	53	0%	102	13.7%	4	0%	probably_damaging(1)	deleterious(0)	deleterious(0.945)	NULL
B3GNT9	84752	genome.wustl.edu	37	16	67183441	67183441	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_033309.2	-1	validated	p.D316	0.985	39	0%	50	42%	3	0%	-	-	-	HMMPfam_Galactosyl_T
FBXL8	55336	genome.wustl.edu	37	16	67196953	67196953	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_018378.2	+1	reviewed	p.A119T	0.069	15	0%	17	23.5%	0	-	benign(0.061)	deleterious(0.02)	neutral(0.387)	superfamily_SSF52047
KIAA0895L	653319	genome.wustl.edu	37	16	67214243	67214243	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001040715.1	-1	validated	p.R91W	0.446	25	0%	71	14.1%	1	0%	probably_damaging(0.999)	deleterious(0)	deleterious(0.935)	NULL
EXOC3L1	283849	genome.wustl.edu	37	16	67221235	67221235	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_178516.3	-1	validated	p.T311	0.885	20	0%	35	20%	1	0%	-	-	-	HMMPfam_Sec6
EXOC3L1	283849	genome.wustl.edu	37	16	67222932	67222932	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_178516.3	-1	validated	p.S66	0.910	13	0%	37	21.6%	0	-	-	-	-	NULL
ELMO3	79767	genome.wustl.edu	37	16	67236847	67236847	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_024712.3	+1	reviewed	p.R592C	1.000	22	0%	55	40%	7	0%	probably_damaging(1)	deleterious(0)	deleterious(0.945)	superfamily_SSF50729
LRRC29	26231	genome.wustl.edu	37	16	67241597	67241597	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001004055.1	-1	reviewed	p.A195T	0.008	14	0%	22	40.9%	4	0%	benign(0.021)	tolerated(0.07)	neutral(0.320)	HMMSmart_SM00367
FHOD1	29109	genome.wustl.edu	37	16	67268355	67268355	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_013241.2	-1	reviewed	p.V447A	1.000	61	0%	105	18.1%	3	0%	benign(0.385)	deleterious(0.02)	deleterious(0.506)	NULL
SLC9A5	6553	genome.wustl.edu	37	16	67286710	67286710	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_004594.2	+1	validated	p.G151	0.150	117	0%	136	22.8%	1	0%	-	-	-	HMMPfam_Na_H_Exchanger
SLC9A5	6553	genome.wustl.edu	37	16	67289048	67289048	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_004594.2	+1	validated	p.I205	0.980	141	0%	167	25.7%	0	-	-	-	-	HMMPfam_Na_H_Exchanger
SLC9A5	6553	genome.wustl.edu	37	16	67289299	67289299	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_004594.2	+1	validated	p.L220M	1.000	73	0%	75	13.3%	0	-	probably_damaging(0.995)	tolerated(0.13)	deleterious(0.710)	HMMPfam_Na_H_Exchanger
SLC9A5	6553	genome.wustl.edu	37	16	67290869	67290869	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_004594.2	+1	validated	p.K396N	1.000	93	0%	91	27.5%	0	-	possibly_damaging(0.511)	tolerated(0.31)	neutral(0.199)	HMMPfam_Na_H_Exchanger
SLC9A5	6553	genome.wustl.edu	37	16	67293775	67293775	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_004594.2	+1	validated	p.R590C	1.000	63	0%	56	32.1%	0	-	probably_damaging(0.997)	deleterious(0.04)	deleterious(0.815)	NULL
KCTD19	146212	genome.wustl.edu	37	16	67337064	67337064	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001100915.1	-1	provisional	p.E210K	1.000	64	0%	27	22.2%	1	0%	probably_damaging(0.99)	deleterious(0.02)	deleterious(0.825)	superfamily_BTB/POZ_fold
LRRC36	55282	genome.wustl.edu	37	16	67400992	67400992	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_018296.5	+1	validated	p.V276A	0.996	199	0%	61	9.8%	0	-	benign(0.004)	deleterious(0)	neutral(0.445)	NULL
TPPP3	51673	genome.wustl.edu	37	16	67424230	67424230	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_015964.2	-1	validated	p.T126	0.090	81	0%	114	43%	81	4.9%	-	-	-	HMMPfam_p25-alpha
AGRP	181	genome.wustl.edu	37	16	67517235	67517235	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001138.1	-1	reviewed	p.M23V	0.004	10	0%	34	23.5%	0	-	benign(0)	deleterious(0.03)	neutral(0.364)	HMMPfam_Agouti,HMMSmart_Agouti
FAM65A	79567	genome.wustl.edu	37	16	67575839	67575839	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_024519.2	+1	validated	p.D384N	0.999	41	0%	88	26.1%	9	0%	probably_damaging(0.982)	deleterious(0.04)	deleterious(0.775)	NULL
FAM65A	79567	genome.wustl.edu	37	16	67578668	67578668	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_024519.2	+1	validated	p.R935Q	0.438	28	0%	42	28.6%	50	4%	probably_damaging(0.963)	tolerated(0.61)	neutral(0.410)	NULL
CTCF	10664	genome.wustl.edu	37	16	67670668	67670668	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_006565.2	+1	reviewed	p.P638L	0.720	78	0%	68	25%	5	0%	probably_damaging(0.991)	tolerated(0.21)	deleterious(0.488)	NULL
RLTPR	146206	genome.wustl.edu	37	16	67681836	67681836	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001013838.1	+1	provisional	p.A349V	0.360	46	0%	97	29.9%	0	-	benign(0.001)	tolerated(1)	-	superfamily_RNI-like
RLTPR	146206	genome.wustl.edu	37	16	67691181	67691181	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001013838.1	+1	provisional	p.R1386H	0.988	120	0%	208	13%	16	0%	probably_damaging(0.989)	deleterious(0.01)	deleterious(0.845)	NULL
GFOD2	81577	genome.wustl.edu	37	16	67719373	67719373	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_030819.3	-1	validated	p.S82	0.976	111	0%	71	19.7%	14	7.1%	-	-	-	HMMPfam_GFO_IDH_MocA,superfamily_NAD(P)-binding Rossmann-fold domains
THAP11	57215	genome.wustl.edu	37	16	67877278	67877278	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_020457.2	+1	reviewed	p.K274R	1.000	61	0%	90	21.1%	21	23.8%	probably_damaging(0.991)	deleterious(0)	deleterious(0.889)	NULL
SLC12A4	6560	genome.wustl.edu	37	16	67986273	67986273	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_005072.4	-1	validated	p.S244L	0.132	422	0%	525	27.8%	6	0%	benign(0.005)	tolerated(0.1)	neutral(0.286)	HMMPfam_AA_permease
NFATC3	4775	genome.wustl.edu	37	16	68156114	68156114	+	Missense_Mutation	SNP	A	A	C	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_173165.1	+1	reviewed	p.S110R	1.000	320	0%	177	31.6%	2	0%	probably_damaging(1)	tolerated(0.26)	deleterious(0.534)	NULL
ESRP2	80004	genome.wustl.edu	37	16	68265180	68265180	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_024939.2	-1	validated	p.V538M	1.000	72	0%	119	16.8%	8	37.5%	probably_damaging(0.999)	deleterious(0)	deleterious(0.935)	HMMPfam_RRM_1,HMMSmart_RRM,superfamily_SSF54928
SLC7A6	9057	genome.wustl.edu	37	16	68308965	68308965	+	Silent	SNP	C	C	T	rs144605306	by1000genomes	TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001076785.1	+1	validated	p.Y112	1.000	220	0%	300	27%	0	-	-	-	-	HMMPfam_AA_permease
SMPD3	55512	genome.wustl.edu	37	16	68405587	68405587	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_018667.3	-1	validated	p.Q166H	1.000	110	0%	153	15.7%	0	-	possibly_damaging(0.605)	tolerated(0.11)	deleterious(0.481)	NULL
SMPD3	55512	genome.wustl.edu	37	16	68405737	68405737	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_018667.3	-1	validated	p.K116N	1.000	20	0%	42	31%	0	-	possibly_damaging(0.861)	tolerated(0.06)	deleterious(0.655)	NULL
CDH3	1001	genome.wustl.edu	37	16	68718706	68718706	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001793.4	+1	reviewed	p.D468G	1.000	109	0%	103	25.2%	14	21.4%	probably_damaging(1)	deleterious(0)	deleterious(0.945)	HMMPfam_Cadherin,HMMSmart_SM00112,superfamily_Cadherin-like
CDH1	999	genome.wustl.edu	37	16	68835703	68835703	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_004360.3	+1	reviewed	p.F98L	0.008	305	0%	129	15.5%	5	20%	probably_damaging(0.999)	tolerated(0.09)	deleterious(0.787)	HMMPfam_Cadherin_pro,superfamily_Cadherin-like
HAS3	3038	genome.wustl.edu	37	16	69147396	69147396	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_005329.2	+1	reviewed	p.R230Q	1.000	83	0%	125	23.2%	0	-	benign(0.048)	tolerated(0.1)	neutral(0.289)	superfamily_SSF53448
CIRH1A	84916	genome.wustl.edu	37	16	69170681	69170681	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_032830.2	+1	reviewed	p.G81D	1.000	458	0%	483	21.9%	1	0%	probably_damaging(1)	deleterious(0)	deleterious(0.945)	HMMSmart_SM00320,superfamily_WD40 repeat-like
SNTB2	6645	genome.wustl.edu	37	16	69333668	69333668	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_006750.3	+1	reviewed	p.E507D	1.000	147	0%	79	30.4%	2	0%	possibly_damaging(0.833)	tolerated(0.44)	neutral(0.330)	NULL
NQO1	1728	genome.wustl.edu	37	16	69752137	69752137	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_000903.2	-1	reviewed	p.A64	0.995	125	0%	60	21.7%	133	39.8%	-	-	-	HMMPfam_Flavodoxin_2,superfamily_Flavoproteins
NOB1	28987	genome.wustl.edu	37	16	69782869	69782869	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_014062.1	-1	provisional	p.V226	0.932	121	0%	124	20.2%	41	21.9%	-	-	-	NULL
NOB1	28987	genome.wustl.edu	37	16	69786208	69786208	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_014062.1	-1	provisional	p.A88V	1.000	482	0%	603	24%	16	6.2%	probably_damaging(1)	deleterious(0)	deleterious(0.945)	HMMSmart_PINc
PDPR	55066	genome.wustl.edu	37	16	70190674	70190674	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_017990.3	+1	validated	p.I844	0.997	162	0.6%	103	15.5%	0	-	-	-	-	HMMPfam_GCV_T_C,superfamily_SSF101790
AARS	16	genome.wustl.edu	37	16	70287676	70287676	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001605.2	-1	reviewed	p.D850N	1.000	147	0%	259	12%	143	27.9%	benign(0.001)	tolerated(0.2)	neutral(0.049)	NULL
ST3GAL2	6483	genome.wustl.edu	37	16	70416716	70416716	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_006927.3	-1	reviewed	p.C291R	1.000	199	0%	334	10.2%	7	0%	probably_damaging(1)	deleterious(0)	deleterious(0.945)	HMMPfam_Glyco_transf_29
ST3GAL2	6483	genome.wustl.edu	37	16	70416809	70416809	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_006927.3	-1	reviewed	p.A260T	1.000	225	0%	373	23.9%	9	33.3%	benign(0.252)	tolerated(0.2)	neutral(0.075)	HMMPfam_Glyco_transf_29
HYDIN	54768	genome.wustl.edu	37	16	71209609	71209609	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_032821.2	-1	validated	p.S139	0.926	264	0%	71	21.1%	0	-	-	-	-	NULL
CALB2	794	genome.wustl.edu	37	16	71406123	71406123	+	Silent	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001740.3	+1	reviewed	p.G54	1.000	224	0%	115	13.9%	0	-	-	-	-	superfamily_SSF47473
CALB2	794	genome.wustl.edu	37	16	71408672	71408672	+	Nonsense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001740.3	+1	reviewed	p.E66*	1.000	189	0%	113	19.5%	0	-	-	-	-	superfamily_SSF47473
ZNF23	7571	genome.wustl.edu	37	16	71482216	71482216	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_145911.1	-1	provisional	p.V571A	0.787	209	0%	209	15.3%	11	18.1%	possibly_damaging(0.896)	tolerated(0.41)	neutral(0.368)	HMMPfam_zf-C2H2,PatternScan_ZINC_FINGER_C2H2_1,HMMSmart_ZnF_C2H2,superfamily_SSF57667
ZNF19	7567	genome.wustl.edu	37	16	71509824	71509824	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_006961.3	-1	reviewed	p.R209M	0.998	250	0%	145	24.8%	2	100%	probably_damaging(0.999)	deleterious(0)	deleterious(0.935)	HMMPfam_zf-C2H2,PatternScan_ZINC_FINGER_C2H2_1,HMMSmart_SM00355,superfamily_C2H2 and C2HC zinc fingers
TAT	6898	genome.wustl.edu	37	16	71604215	71604215	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_000353.2	-1	reviewed	p.R333H	0.999	86	0%	53	15.1%	0	-	possibly_damaging(0.839)	deleterious(0.03)	deleterious(0.685)	HMMPfam_Aminotran_1_2,superfamily_PLP-dependent transferases
MARVELD3	91862	genome.wustl.edu	37	16	71660304	71660304	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001017967.2	+1	validated	p.D58N	0.927	43	0%	68	19.1%	1	0%	unknown(0)	tolerated(0.51)	-	NULL
MARVELD3	91862	genome.wustl.edu	37	16	71674397	71674397	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001017967.2	+1	validated	p.G234S	0.866	211	0%	122	23.8%	3	0%	benign(0.051)	tolerated(0.8)	neutral(0.004)	HMMPfam_MARVEL
PHLPP2	23035	genome.wustl.edu	37	16	71682987	71682987	+	Nonsense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_015020.2	-1	validated	p.E1260*	1.000	215	0.5%	85	21.2%	0	-	-	-	-	NULL
PHLPP2	23035	genome.wustl.edu	37	16	71686695	71686695	+	Nonsense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_015020.2	-1	validated	p.E939*	1.000	133	0%	66	18.2%	3	0%	-	-	-	HMMSmart_SM00332,superfamily_Protein serine/threonine phosphatase 2C catalytic domain,HMMPfam_PP2C
PHLPP2	23035	genome.wustl.edu	37	16	71701131	71701131	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_015020.2	-1	validated	p.Q578H	1.000	274	0%	112	25%	1	100%	probably_damaging(0.994)	tolerated(0.34)	deleterious(0.475)	HMMPfam_LRR_1,HMMSmart_SM00369,HMMSmart_SM00364,superfamily_L domain-like
AP1G1	164	genome.wustl.edu	37	16	71803557	71803557	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001030007.1	-1	reviewed	p.R204Q	1.000	140	0%	63	20.6%	5	20%	benign(0.051)	tolerated(0.63)	neutral(0.007)	HMMPfam_Adaptin_N,superfamily_ARM repeat
ATXN1L	342371	genome.wustl.edu	37	16	71885492	71885492	+	Nonsense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001137675.2	+1	validated	p.E617*	1.000	38	0%	62	21%	1	0%	-	-	-	NULL
ZNF821	55565	genome.wustl.edu	37	16	71894328	71894328	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_017530.1	-1	provisional	p.R236C	1.000	52	0%	79	30.4%	23	30.4%	probably_damaging(1)	tolerated(0.06)	deleterious(0.823)	NULL
IST1	9798	genome.wustl.edu	37	16	71950428	71950428	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_014761.2	+1	provisional	p.R51Q	1.000	220	0%	116	15.5%	24	4.1%	probably_damaging(1)	deleterious(0)	deleterious(0.945)	HMMPfam_DUF292
PKD1L3	342372	genome.wustl.edu	37	16	71976805	71976805	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	ENST00000335106	-1	known	p.L1326F	0.000	204	0%	174	27.6%	0	-	-	-	-	NULL
PKD1L3	342372	genome.wustl.edu	37	16	71983863	71983863	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	ENST00000335106	-1	known	p.S1146L	0.000	287	0%	218	11%	0	-	-	-	-	NULL
PKD1L3	342372	genome.wustl.edu	37	16	72003879	72003879	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	ENST00000335106	-1	known	p.R693	0.000	140	0%	78	12.8%	1	0%	-	-	-	NULL
PKD1L3	342372	genome.wustl.edu	37	16	72003897	72003897	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	ENST00000335106	-1	known	p.T687	0.000	129	0%	71	22.5%	0	-	-	-	-	NULL
DHX38	9785	genome.wustl.edu	37	16	72133673	72133673	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_014003.3	+1	reviewed	p.E335K	1.000	103	0%	91	31.9%	4	50%	possibly_damaging(0.731)	tolerated(0.2)	neutral(0.316)	NULL
DHX38	9785	genome.wustl.edu	37	16	72142455	72142455	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_014003.3	+1	reviewed	p.I1068	0.111	71	0%	73	24.7%	32	34.3%	-	-	-	HMMPfam_DUF1605
PMFBP1	83449	genome.wustl.edu	37	16	72153863	72153863	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_031293.2	-1	validated	p.T965M	0.000	404	0%	245	16.7%	0	-	probably_damaging(0.972)	tolerated(0.23)	neutral(0.455)	NULL
PMFBP1	83449	genome.wustl.edu	37	16	72174371	72174371	+	Silent	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_031293.2	-1	validated	p.V249	0.995	392	0%	98	27.6%	0	-	-	-	-	NULL
ZFHX3	463	genome.wustl.edu	37	16	72822284	72822284	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_006885.3	-1	reviewed	p.S3297	0.025	61	0%	124	36.3%	6	50%	-	-	-	NULL
ZFHX3	463	genome.wustl.edu	37	16	72827388	72827388	+	Nonsense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_006885.3	-1	reviewed	p.E3065*	1.000	176	0%	258	24.8%	4	25%	-	-	-	NULL
ZFHX3	463	genome.wustl.edu	37	16	72828429	72828429	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_006885.3	-1	reviewed	p.A2718T	1.000	76	0%	107	28%	0	-	probably_damaging(0.999)	-	-	PatternScan_ZINC_FINGER_C2H2_1,HMMSmart_SM00355,superfamily_C2H2 and C2HC zinc fingers
ZFHX3	463	genome.wustl.edu	37	16	72828552	72828552	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_006885.3	-1	reviewed	p.E2677K	1.000	216	0%	285	26.7%	1	0%	possibly_damaging(0.871)	-	-	HMMPfam_Homeobox,HMMSmart_SM00389,superfamily_Homeodomain-like,PatternScan_HOMEOBOX_1
ZFHX3	463	genome.wustl.edu	37	16	72830751	72830751	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_006885.3	-1	reviewed	p.A1944T	1.000	163	0%	270	26.3%	3	0%	unknown(0)	-	-	NULL
ZFHX3	463	genome.wustl.edu	37	16	72832322	72832322	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_006885.3	-1	reviewed	p.S1420F	1.000	289	0.3%	342	12%	0	-	unknown(0)	-	-	HMMPfam_zf-C2H2,PatternScan_ZINC_FINGER_C2H2_1,HMMSmart_SM00355,superfamily_C2H2 and C2HC zinc fingers
ZFHX3	463	genome.wustl.edu	37	16	72832395	72832395	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_006885.3	-1	reviewed	p.R1396C	1.000	315	0.3%	399	12.3%	0	-	unknown(0)	-	-	superfamily_C2H2 and C2HC zinc fingers
ZFHX3	463	genome.wustl.edu	37	16	72992208	72992208	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_006885.3	-1	reviewed	p.D613N	1.000	176	0.6%	292	27.4%	0	-	unknown(0)	-	-	NULL
ZFHX3	463	genome.wustl.edu	37	16	72993849	72993849	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_006885.3	-1	reviewed	p.A66T	0.000	63	0%	107	21.5%	1	0%	unknown(0)	-	-	NULL
LOC100289496	100289496	genome.wustl.edu	37	16	73164881	73164881	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	XM_002344114.1	-1	model	p.R83Q	0.000	329	0%	175	24.6%	0	-	benign(0.015)	-	-	NULL
PSMD7	5713	genome.wustl.edu	37	16	74339317	74339317	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_002811.3	+1	reviewed	p.P221S	1.000	96	1%	84	29.8%	157	30.5%	probably_damaging(1)	deleterious(0)	deleterious(0.945)	NULL
GLG1	2734	genome.wustl.edu	37	16	74487014	74487014	+	RNA	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NR_027264.1	-1	validated	NULL	1.000	240	0%	159	11.9%	82	14.6%	-	-	-	-
GLG1	2734	genome.wustl.edu	37	16	74493590	74493590	+	Missense_Mutation	SNP	A	A	C	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_012201.5	-1	validated	p.L1045W	0.000	366	0%	196	13.8%	27	0%	possibly_damaging(0.921)	deleterious(0.02)	deleterious(0.754)	HMMPfam_Cys_rich_FGFR
RFWD3	55159	genome.wustl.edu	37	16	74664717	74664717	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_018124.3	-1	validated	p.T572	0.049	137	0%	60	33.3%	1	0%	-	-	-	superfamily_WD40_like
MLKL	197259	genome.wustl.edu	37	16	74706435	74706435	+	Missense_Mutation	SNP	T	T	G	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_152649.2	-1	validated	p.E461D	1.000	388	0%	339	13.6%	1	0%	possibly_damaging(0.806)	tolerated(0.49)	neutral(0.314)	HMMPfam_Pkinase_Tyr,HMMSmart_SM00219,HMMSmart_SM00220,superfamily_Protein kinase-like (PK-like)
MLKL	197259	genome.wustl.edu	37	16	74712847	74712847	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_152649.2	-1	validated	p.G330R	0.112	363	0%	173	24.3%	4	0%	benign(0.044)	tolerated(0.89)	neutral(0.003)	HMMPfam_Pkinase_Tyr,HMMSmart_SM00219,HMMSmart_SM00220,superfamily_Protein kinase-like (PK-like)
MLKL	197259	genome.wustl.edu	37	16	74719439	74719439	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_152649.2	-1	validated	p.K255	1.000	524	0%	213	11.7%	4	0%	-	-	-	HMMPfam_Pkinase_Tyr,HMMSmart_SM00219,HMMSmart_SM00220,superfamily_Protein kinase-like (PK-like)
FA2H	79152	genome.wustl.edu	37	16	74750365	74750365	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_024306.4	-1	reviewed	p.G307C	1.000	97	0%	95	26.3%	4	25%	probably_damaging(1)	deleterious(0)	deleterious(0.945)	HMMPfam_FA_hydroxylase
WDR59	79726	genome.wustl.edu	37	16	74927661	74927661	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_030581.3	-1	validated	p.R639Q	1.000	421	0.5%	174	32.8%	8	25%	benign(0.315)	tolerated(0.27)	neutral(0.132)	NULL
WDR59	79726	genome.wustl.edu	37	16	74937956	74937956	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_030581.3	-1	validated	p.A585	0.186	117	0.9%	30	23.3%	8	25%	-	-	-	NULL
ZFP1	162239	genome.wustl.edu	37	16	75203703	75203703	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_153688.2	+1	validated	p.R232K	1.000	120	0.8%	65	27.7%	2	0%	benign(0.055)	tolerated(0.12)	neutral(0.264)	HMMPfam_zf-C2H2,PatternScan_ZINC_FINGER_C2H2_1,HMMSmart_SM00355,superfamily_C2H2 and C2HC zinc fingers
CHST6	4166	genome.wustl.edu	37	16	75512907	75512907	+	Missense_Mutation	SNP	C	C	T	rs72547538		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_021615.4	-1	reviewed	p.E274K	1.000	13	0%	16	56.2%	0	-	probably_damaging(1)	deleterious(0.01)	deleterious(0.905)	HMMPfam_Sulfotransfer_1,superfamily_SSF52540
CHST6	4166	genome.wustl.edu	37	16	75513177	75513177	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_021615.4	-1	reviewed	p.L184I	1.000	38	0%	58	12.1%	0	-	probably_damaging(1)	deleterious(0)	deleterious(0.945)	HMMPfam_Sulfotransfer_1,superfamily_SSF52540
TMEM231	79583	genome.wustl.edu	37	16	75575303	75575303	+	Missense_Mutation	SNP	C	C	T	rs139236786	by1000genomes	TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001077416.1	-1	validated	p.A268T	0.839	141	0%	164	17.1%	1	0%	possibly_damaging(0.68)	tolerated(0.57)	neutral(0.248)	HMMPfam_NAcGluc_Transf
GABARAPL2	11345	genome.wustl.edu	37	16	75601985	75601985	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_007285.6	+1	validated	p.R47	1.000	321	0%	459	24%	90	6.6%	-	-	-	HMMPfam_MAP1_LC3,superfamily_Ubiquitin-like
KARS	3735	genome.wustl.edu	37	16	75665625	75665625	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001130089.1	-1	reviewed	p.H376	0.861	286	0.3%	141	24.1%	107	20.5%	-	-	-	HMMPfam_tRNA-synt_2,superfamily_SSF55681
CNTNAP4	85445	genome.wustl.edu	37	16	76569475	76569475	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_138994.3	+1	validated	p.G857D	1.000	165	0%	46	30.4%	0	-	probably_damaging(1)	deleterious(0)	deleterious(0.945)	HMMSmart_SM00282,superfamily_Concanavalin A-like lectins/glucanases,HMMPfam_Laminin_G_2
MON1B	22879	genome.wustl.edu	37	16	77227516	77227516	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_014940.2	+1	validated	p.R106H	1.000	68	0%	137	13.1%	2	0%	probably_damaging(0.986)	deleterious(0)	deleterious(0.879)	HMMPfam_Mon1
NUDT7	283927	genome.wustl.edu	37	16	77759386	77759386	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001105663.1	+1	reviewed	p.Y32H	0.998	341	0%	382	26.2%	6	0%	benign(0.014)	deleterious(0)	neutral(0.445)	NULL
NUDT7	283927	genome.wustl.edu	37	16	77775630	77775630	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001105663.1	+1	reviewed	p.G167D	0.001	172	0%	56	21.4%	0	-	benign(0.061)	tolerated(0.05)	neutral(0.349)	HMMPfam_NUDIX,superfamily_NUDIX_hydrolase
CLEC3A	10143	genome.wustl.edu	37	16	78064586	78064586	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_005752.3	+1	validated	p.A148T	0.558	125	0%	39	12.8%	0	-	benign(0)	tolerated(0.6)	neutral(0.004)	HMMPfam_Lectin_C,HMMSmart_CLECT,superfamily_C-type_lectin_fold
WWOX	51741	genome.wustl.edu	37	16	78312520	78312520	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_130791.1	+1	reviewed	p.P179	0.000	206	0%	52	9.6%	6	0%	-	-	-	NULL
WWOX	51741	genome.wustl.edu	37	16	79245550	79245550	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_016373.1	+1	reviewed	p.L368M	1.000	61	0%	34	20.6%	0	-	possibly_damaging(0.804)	deleterious(0)	deleterious(0.747)	NULL
DYNLRB2	83657	genome.wustl.edu	37	16	80583449	80583449	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_130897.1	+1	provisional	p.T50A	0.997	335	0%	202	24.8%	1	0%	benign(0)	tolerated(1)	-	HMMPfam_Robl_LC7
ATMIN	23300	genome.wustl.edu	37	16	81078148	81078148	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_015251.2	+1	validated	p.S682F	0.148	219	0.5%	183	11.5%	32	12.5%	benign(0.135)	tolerated(0.2)	neutral(0.060)	NULL
PKD1L2	114780	genome.wustl.edu	37	16	81161456	81161456	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_052892.3	-1	reviewed	p.V2087I	0.627	72	0%	66	10.6%	0	-	benign(0.164)	tolerated(0.13)	neutral(0.268)	NULL
PKD1L2	114780	genome.wustl.edu	37	16	81183467	81183467	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_052892.3	-1	reviewed	p.A1527	0.002	99	0%	59	16.9%	0	-	-	-	-	NULL
PKD1L2	114780	genome.wustl.edu	37	16	81248632	81248632	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001076780.1	-1	reviewed	p.V211I	0.653	36	0%	30	26.7%	0	-	benign(0.202)	tolerated(0.17)	neutral(0.079)	NULL
CMIP	80790	genome.wustl.edu	37	16	81654485	81654485	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_198390.2	+1	validated	p.A144V	1.000	155	0%	107	12.1%	1	100%	benign(0.126)	tolerated(0.12)	neutral(0.271)	superfamily_PH domain-like
CMIP	80790	genome.wustl.edu	37	16	81736238	81736238	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_198390.2	+1	validated	p.G636	0.962	502	0%	488	27.9%	10	0%	-	-	-	NULL
PLCG2	5336	genome.wustl.edu	37	16	81927337	81927337	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_002661.2	+1	validated	p.R337Q	0.965	50	0%	41	31.7%	2	0%	possibly_damaging(0.923)	deleterious(0.04)	deleterious(0.722)	HMMPfam_PI-PLC-X,HMMSmart_PLCXc,superfamily_PLC-like_Pdiesterase_TIM-brl
PLCG2	5336	genome.wustl.edu	37	16	81941356	81941356	+	Missense_Mutation	SNP	A	A	C	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_002661.2	+1	validated	p.T512P	0.665	70	1.4%	87	27.6%	0	-	benign(0.014)	tolerated(0.26)	neutral(0.035)	superfamily_PLC-like_Pdiesterase_TIM-brl,superfamily_SSF50729
PLCG2	5336	genome.wustl.edu	37	16	81973629	81973629	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_002661.2	+1	validated	p.A1149V	1.000	340	0%	91	34.1%	40	10%	probably_damaging(1)	deleterious(0.01)	deleterious(0.905)	HMMPfam_C2,HMMSmart_C2,superfamily_C2_CaLB
PLCG2	5336	genome.wustl.edu	37	16	81990470	81990470	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_002661.2	+1	validated	p.E1247D	0.990	138	0%	44	20.5%	70	18.5%	benign(0)	tolerated(0.22)	neutral(0.042)	NULL
SDR42E1	93517	genome.wustl.edu	37	16	82033099	82033099	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_145168.2	-1	validated	p.R267W	0.998	61	0%	31	32.3%	0	-	probably_damaging(1)	deleterious(0)	deleterious(0.945)	HMMPfam_3Beta_HSD,superfamily_NAD(P)-bd
HSD17B2	3294	genome.wustl.edu	37	16	82131894	82131894	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_002153.2	+1	validated	p.T339	0.000	261	0%	70	11.4%	5	60%	-	-	-	superfamily_NAD(P)-binding Rossmann-fold domains
HSBP1	3281	genome.wustl.edu	37	16	83842953	83842953	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001537.2	+1	reviewed	p.I52	0.947	264	0%	436	24.3%	242	20.2%	-	-	-	HMMPfam_HSBP1
MBTPS1	8720	genome.wustl.edu	37	16	84097034	84097034	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_003791.2	-1	reviewed	p.K816	1.000	210	0%	137	22.6%	43	11.6%	-	-	-	NULL
MBTPS1	8720	genome.wustl.edu	37	16	84125372	84125372	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_003791.2	-1	reviewed	p.G310S	1.000	227	0%	108	12%	14	0%	probably_damaging(0.998)	tolerated(0.06)	deleterious(0.797)	HMMPfam_Peptidase_S8,superfamily_Pept_S8_S53
MBTPS1	8720	genome.wustl.edu	37	16	84129289	84129289	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_003791.2	-1	reviewed	p.S181	0.001	109	0%	42	23.8%	4	0%	-	-	-	superfamily_Pept_S8_S53
ATP2C2	9914	genome.wustl.edu	37	16	84495730	84495730	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_014861.2	+1	validated	p.A906V	0.018	57	0%	90	12.2%	4	0%	benign(0)	tolerated(0.28)	neutral(0.032)	HMMPfam_Cation_ATPase_C,superfamily_Calcium ATPase transmembrane domain M
COTL1	23406	genome.wustl.edu	37	16	84623855	84623855	+	Missense_Mutation	SNP	C	C	G	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_021149.2	-1	reviewed	p.L58F	1.000	51	0%	55	27.3%	46	2.1%	possibly_damaging(0.891)	tolerated(0.21)	neutral(0.394)	HMMPfam_Cofilin_ADF,HMMSmart_SM00102,superfamily_Actin depolymerizing proteins
KLHL36	79786	genome.wustl.edu	37	16	84691038	84691038	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_024731.2	+1	provisional	p.D209N	0.999	5	0.000	15	0.400	4	0%	possibly_damaging(0.757)	deleterious(0.02)	deleterious(0.663)	HMMPfam_BACK
USP10	9100	genome.wustl.edu	37	16	84767096	84767096	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_005153.2	+1	reviewed	p.R26Q	1.000	352	0%	189	23.8%	6	0%	unknown(0)	deleterious(0)	-	NULL
USP10	9100	genome.wustl.edu	37	16	84812581	84812581	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_005153.2	+1	reviewed	p.R764C	1.000	58	0%	52	15.4%	27	7.4%	probably_damaging(1)	deleterious(0)	deleterious(0.945)	HMMPfam_UCH,superfamily_SSF54001
CRISPLD2	83716	genome.wustl.edu	37	16	84900624	84900624	+	Missense_Mutation	SNP	A	A	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_031476.3	+1	validated	p.K277N	0.004	153	0%	110	24.5%	12	0%	benign(0.083)	tolerated(0.29)	neutral(0.035)	NULL
KIAA0513	9764	genome.wustl.edu	37	16	85114925	85114925	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_014732.2	+1	validated	p.T303A	1.000	108	0%	134	15.7%	2	0%	benign(0.002)	deleterious(0.02)	neutral(0.383)	NULL
GINS2	51659	genome.wustl.edu	37	16	85721139	85721139	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_016095.2	-1	validated	p.V44	0.997	171	0%	269	19.7%	3	66.6%	-	-	-	HMMPfam_Psf2
C16orf74	404550	genome.wustl.edu	37	16	85743886	85743886	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_206967.2	-1	validated	p.S19N	1.000	5	0.000	18	0.556	2	0%	benign(0.042)	tolerated(1)	neutral(0.003)	NULL
COX4NB	10328	genome.wustl.edu	37	16	85832869	85832869	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_006067.4	-1	validated	p.Y11	1.000	19	0%	35	28.6%	9	22.2%	-	-	-	HMMPfam_UPF0172
IRF8	3394	genome.wustl.edu	37	16	85948086	85948086	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_002163.2	+1	reviewed	p.P187	0.162	110	0%	143	25.9%	1	0%	-	-	-	NULL
FOXF1	2294	genome.wustl.edu	37	16	86544597	86544597	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001451.2	+1	reviewed	p.P141L	1.000	20	0%	44	27.3%	3	0%	probably_damaging(1)	deleterious(0)	deleterious(0.945)	HMMPfam_Fork_head,superfamily_SSF46785
MTHFSD	64779	genome.wustl.edu	37	16	86582142	86582142	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_022764.2	-1	validated	p.T92	0.688	462	0%	469	22%	2	0%	-	-	-	HMMPfam_5-FTHF_cyc-lig,superfamily_SSF100950
FBXO31	79791	genome.wustl.edu	37	16	87367634	87367634	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_024735.3	-1	validated	p.T419A	0.003	10	0%	20	25%	3	0%	benign(0)	tolerated(1)	-	NULL
FBXO31	79791	genome.wustl.edu	37	16	87369014	87369014	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_024735.3	-1	validated	p.D298N	1.000	134	0.7%	176	26.7%	6	0%	probably_damaging(1)	tolerated(0.42)	deleterious(0.514)	NULL
FBXO31	79791	genome.wustl.edu	37	16	87377351	87377351	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_024735.3	-1	validated	p.I170	0.993	85	0%	115	12.2%	3	0%	-	-	-	NULL
FBXO31	79791	genome.wustl.edu	37	16	87393905	87393905	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_024735.3	-1	validated	p.A136	0.024	179	0%	148	21.6%	4	25%	-	-	-	NULL
ZCCHC14	23174	genome.wustl.edu	37	16	87466765	87466765	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_015144.2	-1	validated	p.K109R	1.000	973	0%	1071	25.5%	2	0%	unknown(0)	tolerated(1)	-	superfamily_PX domain
JPH3	57338	genome.wustl.edu	37	16	87678403	87678403	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_020655.2	+1	reviewed	p.G308R	1.000	54	0%	108	31.5%	1	0%	probably_damaging(1)	deleterious(0)	deleterious(0.945)	HMMPfam_MORN,superfamily_Histone H3 K4-specific methyltransferase SET7/9 N-terminal domain
KLHDC4	54758	genome.wustl.edu	37	16	87795607	87795607	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_017566.3	-1	validated	p.D47N	0.984	204	0%	283	21.2%	8	12.5%	probably_damaging(1)	deleterious(0.01)	deleterious(0.905)	superfamily_Galactose oxidase central domain
CA5A	763	genome.wustl.edu	37	16	87925415	87925415	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001739.1	-1	reviewed	p.A255V	0.834	41	0%	50	28%	0	-	possibly_damaging(0.741)	deleterious(0)	deleterious(0.716)	HMMPfam_Carb_anhydrase,superfamily_Carbonic anhydrase
BANP	54971	genome.wustl.edu	37	16	88014693	88014693	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_079837.2	+1	reviewed	p.R41H	1.000	441	0.2%	519	25.2%	3	0%	unknown(0)	deleterious(0)	-	NULL
BANP	54971	genome.wustl.edu	37	16	88068927	88068927	+	Splice_Site	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_079837.2	+1	reviewed	e8-2	1.000	198	0%	265	21.1%	0	-	-	-	-	-
ZNF469	84627	genome.wustl.edu	37	16	88499893	88499893	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001127464.1	+1	reviewed	p.N1977	0.000	28	0%	86	20.9%	1	0%	-	-	-	NULL
ZNF469	84627	genome.wustl.edu	37	16	88502520	88502520	+	Missense_Mutation	SNP	G	G	A	rs142753357	by1000genomes	TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001127464.1	+1	reviewed	p.R2853H	0.022	11	0%	22	22.7%	0	-	possibly_damaging(0.865)	deleterious(0)	deleterious(0.780)	NULL
ZNF469	84627	genome.wustl.edu	37	16	88505629	88505629	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001127464.1	+1	reviewed	p.A3889	0.001	35	0%	41	19.5%	2	0%	-	-	-	NULL
C16orf85	400555	genome.wustl.edu	37	16	88620337	88620337	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	ENST00000378416	-1	known	p.R98H	0.001	85	0%	143	23.8%	0	-	unknown(0)	-	-	NULL
ZC3H18	124245	genome.wustl.edu	37	16	88675345	88675345	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_144604.3	+1	validated	p.L364	0.598	340	0.6%	452	11.3%	11	0%	-	-	-	NULL
MVD	4597	genome.wustl.edu	37	16	88719760	88719760	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_002461.1	-1	reviewed	p.A357V	0.003	24	0%	57	24.6%	39	20.5%	benign(0.001)	tolerated(0.35)	neutral(0.021)	superfamily_SSF55060
SNAI3	333929	genome.wustl.edu	37	16	88747602	88747602	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_178310.3	-1	validated	p.K199N	1.000	54	0%	91	17.6%	0	-	probably_damaging(1)	deleterious(0)	deleterious(0.945)	HMMPfam_zf-C2H2,PatternScan_ZINC_FINGER_C2H2_1,HMMSmart_ZnF_C2H2
PIEZO1	9780	genome.wustl.edu	37	16	88786867	88786867	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	ENST00000451779	-1	known	p.D1496N	1.000	56	0%	105	13.3%	13	0%	probably_damaging(1)	deleterious(0)	deleterious(0.945)	NULL
LOC100289580	100289580	genome.wustl.edu	37	16	88804920	88804920	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	XM_002344125.1	+1	model	p.G39	0.006	20	0%	47	25.5%	0	-	-	-	-	NULL
TRAPPC2L	51693	genome.wustl.edu	37	16	88926368	88926368	+	Missense_Mutation	SNP	G	G	A	rs71658021		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_016209.3	+1	validated	p.R121H	1.000	253	0.4%	407	10.3%	254	25.5%	benign(0.123)	tolerated(0.08)	neutral(0.310)	HMMPfam_Sedlin_N,superfamily_SNARE-like
ACSF3	197322	genome.wustl.edu	37	16	89167309	89167309	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001127214.1	+1	validated	p.R74C	0.048	30	0%	56	25%	4	25%	probably_damaging(0.982)	tolerated(0.06)	deleterious(0.749)	HMMPfam_AMP-binding,superfamily_SSF56801
CDH15	1013	genome.wustl.edu	37	16	89260307	89260307	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_004933.2	+1	reviewed	p.D713N	0.967	4	0.000	24	0.458	1	0%	benign(0.039)	tolerated(0.91)	neutral(0.002)	HMMPfam_Cadherin_C
ZNF778	197320	genome.wustl.edu	37	16	89293993	89293993	+	Missense_Mutation	SNP	C	C	T	rs139019928	by1000genomes	TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_182531.2	+1	validated	p.R405C	0.000	180	0%	219	31.1%	5	0%	probably_damaging(0.997)	tolerated(0.18)	deleterious(0.522)	HMMPfam_zf-C2H2,PatternScan_ZINC_FINGER_C2H2_1,HMMSmart_SM00355,superfamily_C2H2 and C2HC zinc fingers
ZNF778	197320	genome.wustl.edu	37	16	89294512	89294512	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_182531.2	+1	validated	p.E578K	0.000	146	0%	199	18.1%	2	0%	benign(0.001)	tolerated(0.92)	-	HMMPfam_zf-C2H2,PatternScan_ZINC_FINGER_C2H2_1,HMMSmart_SM00355,superfamily_C2H2 and C2HC zinc fingers
ANKRD11	29123	genome.wustl.edu	37	16	89345708	89345708	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_013275.4	-1	validated	p.T2414	0.006	34	0%	72	11.1%	13	0%	-	-	-	NULL
ANKRD11	29123	genome.wustl.edu	37	16	89351224	89351224	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_013275.4	-1	validated	p.E576K	1.000	69	0%	98	32.7%	3	33.3%	probably_damaging(0.998)	deleterious(0)	deleterious(0.919)	superfamily_Ankyrin repeat
ANKRD11	29123	genome.wustl.edu	37	16	89351702	89351702	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	ENST00000378332	-1	known	p.R429Q	0.000	92	0%	157	28.7%	2	0%	unknown(0)	deleterious(0)	-	NULL
CPNE7	27132	genome.wustl.edu	37	16	89652131	89652131	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_014427.4	+1	reviewed	p.D315N	1.000	71	0%	124	24.2%	0	-	probably_damaging(1)	deleterious(0)	deleterious(0.945)	HMMPfam_C2,HMMSmart_SM00239,superfamily_C2 domain (Calcium/lipid-binding domain CaLB)
DPEP1	1800	genome.wustl.edu	37	16	89704325	89704325	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001128141.1	+1	validated	p.E337	0.999	140	0%	279	25.4%	1	0%	-	-	-	HMMPfam_Peptidase_M19,superfamily_SSF51556
FANCA	2175	genome.wustl.edu	37	16	89831327	89831327	+	Nonsense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_000135.2	-1	reviewed	p.R917*	0.518	93	0%	95	12.6%	4	0%	-	-	-	NULL
FANCA	2175	genome.wustl.edu	37	16	89882323	89882323	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_000135.2	-1	reviewed	p.L51M	1.000	152	0%	253	15.4%	1	0%	probably_damaging(0.999)	deleterious(0)	deleterious(0.935)	NULL
SPIRE2	84501	genome.wustl.edu	37	16	89911746	89911746	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_032451.1	+1	validated	p.V87	0.395	252	0%	311	25.4%	0	-	-	-	-	HMMSmart_SM00750
SPIRE2	84501	genome.wustl.edu	37	16	89936080	89936080	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_032451.1	+1	validated	p.D638Y	1.000	211	0%	307	25.1%	1	0%	probably_damaging(0.976)	deleterious(0.04)	deleterious(0.767)	superfamily_FYVE/PHD zinc finger
TCF25	22980	genome.wustl.edu	37	16	89952327	89952327	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_014972.2	+1	validated	p.G167	0.730	187	0%	214	24.3%	45	8.8%	-	-	-	NULL
TCF25	22980	genome.wustl.edu	37	16	89960263	89960263	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_014972.2	+1	validated	p.I275	0.590	108	0%	180	28.9%	46	4.3%	-	-	-	HMMPfam_DUF654
MC1R	4157	genome.wustl.edu	37	16	89986519	89986519	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_002386.3	+1	reviewed	p.A285T	0.003	251	0%	380	11.3%	7	14.2%	benign(0)	tolerated(0.67)	neutral(0.003)	HMMPfam_7tm_1,superfamily_Family A G protein-coupled receptor-like
FAM157C	100132055	genome.wustl.edu	37	16	90171202	90171202	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	XM_001714162.2	+1	model	p.T170	0.004	177	0%	252	27.8%	0	-	-	-	-	NULL
FAM101B	359845	genome.wustl.edu	37	17	293243	293243	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_182705.2	-1	validated	p.S50L	0.990	51	0%	91	31.9%	4	0%	-	-	-	NULL
VPS53	55275	genome.wustl.edu	37	17	489533	489533	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001128159.1	-1	reviewed	p.Y430	0.994	307	0%	156	19.9%	3	66.6%	-	-	-	HMMPfam_Vps53_N
VPS53	55275	genome.wustl.edu	37	17	534790	534790	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001128159.1	-1	reviewed	p.K229N	1.000	161	0%	113	34.5%	1	0%	possibly_damaging(0.869)	tolerated(0.15)	deleterious(0.578)	HMMPfam_Vps53_N
FAM57A	79850	genome.wustl.edu	37	17	641254	641254	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_024792.1	+1	provisional	p.A125	0.000	168	0%	205	22.4%	5	40%	-	-	-	HMMPfam_TRAM_LAG1_CLN8,HMMSmart_SM00724
GEMIN4	50628	genome.wustl.edu	37	17	648415	648415	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_015721.2	-1	reviewed	p.A956	0.002	14	0%	38	21.1%	21	14.2%	-	-	-	NULL
ABR	29	genome.wustl.edu	37	17	915093	915093	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_021962.2	-1	reviewed	p.F698	0.964	167	0%	255	27.1%	14	7.1%	-	-	-	HMMPfam_RhoGAP,HMMSmart_SM00324,superfamily_GTPase activation domain GAP
INPP5K	51763	genome.wustl.edu	37	17	1413055	1413055	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_016532.3	-1	reviewed	p.V100	1.000	144	0%	210	24.8%	7	14.2%	-	-	-	HMMSmart_SM00128,HMMPfam_Exo_endo_phos,superfamily_DNase I-like
SCARF1	8578	genome.wustl.edu	37	17	1540060	1540060	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_003693.2	-1	reviewed	p.D526N	0.998	63	0%	71	16.9%	4	0%	probably_damaging(0.996)	deleterious(0.02)	deleterious(0.845)	NULL
PRPF8	10594	genome.wustl.edu	37	17	1557144	1557144	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_006445.3	-1	reviewed	p.D2052N	0.999	215	0%	256	30.5%	92	20.6%	possibly_damaging(0.858)	tolerated(0.08)	deleterious(0.631)	NULL
PRPF8	10594	genome.wustl.edu	37	17	1581888	1581888	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_006445.3	-1	reviewed	p.R593Q	1.000	158	0%	164	20.1%	5	0%	probably_damaging(0.996)	deleterious(0)	deleterious(0.906)	HMMPfam_PROCN
PRPF8	10594	genome.wustl.edu	37	17	1585166	1585166	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_006445.3	-1	reviewed	p.A201T	1.000	65	0%	123	21.1%	3	0%	benign(0.001)	tolerated(0.14)	neutral(0.249)	HMMPfam_PRO8NT
PRPF8	10594	genome.wustl.edu	37	17	1585507	1585507	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_006445.3	-1	reviewed	p.P117H	1.000	314	0%	451	24.4%	2	0%	benign(0.051)	deleterious(0.01)	neutral(0.409)	HMMPfam_PRO8NT
TLCD2	727910	genome.wustl.edu	37	17	1611085	1611085	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	ENST00000330676	-1	known	p.S258	0.002	118	0%	181	24.3%	3	0%	-	-	-	NULL
WDR81	124997	genome.wustl.edu	37	17	1629043	1629043	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	ENST00000409644	+1	known	p.L264I	1.000	57	0%	127	11%	1	0%	benign(0.144)	tolerated(0.43)	neutral(0.026)	NULL
WDR81	124997	genome.wustl.edu	37	17	1629622	1629622	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	ENST00000409644	+1	known	p.R457C	1.000	17	0%	32	25%	0	-	possibly_damaging(0.921)	deleterious(0)	deleterious(0.816)	HMMPfam_Beach,superfamily_BEACH domain
WDR81	124997	genome.wustl.edu	37	17	1631842	1631842	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	ENST00000409644	+1	known	p.G1197S	0.007	123	0%	180	11.1%	2	0%	benign(0)	tolerated(0.66)	neutral(0.003)	superfamily_WD40 repeat-like
WDR81	124997	genome.wustl.edu	37	17	1634429	1634429	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	ENST00000409644	+1	known	p.A1345V	1.000	28	0%	45	35.6%	5	20%	benign(0.146)	deleterious(0.04)	neutral(0.361)	superfamily_WD40 repeat-like
WDR81	124997	genome.wustl.edu	37	17	1634545	1634545	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	ENST00000409644	+1	known	p.V1384I	0.003	38	0%	65	21.5%	10	10%	benign(0.049)	tolerated(0.15)	neutral(0.244)	superfamily_WD40 repeat-like
LOC100288244	100288244	genome.wustl.edu	37	17	1637437	1637437	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	XM_002343496.1	-1	model	p.E57K	0.856	25	0%	36	22.2%	13	0%	-	-	-	NULL
WDR81	124997	genome.wustl.edu	37	17	1640812	1640812	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	ENST00000409644	+1	known	p.V1887M	0.998	90	0%	139	26.6%	28	3.5%	probably_damaging(0.999)	tolerated(0.06)	deleterious(0.813)	superfamily_WD40 repeat-like
OVCA2	124641	genome.wustl.edu	37	17	1946358	1946358	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_080822.2	+1	validated	p.R215H	1.000	94	0%	189	34.9%	123	23.5%	probably_damaging(0.998)	deleterious(0.01)	deleterious(0.880)	HMMPfam_FSH1,superfamily_SSF53474
SMG6	23293	genome.wustl.edu	37	17	1964905	1964905	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_017575.4	-1	validated	p.R1381W	1.000	60	0%	109	22%	21	19%	possibly_damaging(0.872)	deleterious(0)	deleterious(0.784)	HMMSmart_SM00670,superfamily_PIN domain-like
SMG6	23293	genome.wustl.edu	37	17	2203008	2203008	+	Nonsense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_017575.4	-1	validated	p.R347*	0.995	123	0%	145	11%	0	-	-	-	-	NULL
PAFAH1B1	5048	genome.wustl.edu	37	17	2541605	2541605	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_000430.3	+1	reviewed	p.R8Q	1.000	338	0%	79	20.3%	7	28.5%	possibly_damaging(0.638)	tolerated(0.32)	neutral(0.247)	HMMSmart_SM00667,superfamily_Lissencephaly-1 protein (Lis-1 PAF-AH alpha) N-terminal domain
KIAA0664	23277	genome.wustl.edu	37	17	2601704	2601704	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_015229.3	-1	validated	p.A445T	1.000	33	0%	68	33.8%	8	0%	probably_damaging(1)	tolerated(0.16)	deleterious(0.559)	NULL
KIAA0664	23277	genome.wustl.edu	37	17	2606623	2606623	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_015229.3	-1	validated	p.R117H	0.948	26	0%	38	21.1%	2	0%	possibly_damaging(0.841)	deleterious(0.02)	deleterious(0.705)	NULL
OR1D2	4991	genome.wustl.edu	37	17	2996012	2996012	+	Silent	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_002548.2	-1	validated	p.S93	0.853	427	0%	186	20.4%	0	-	-	-	-	HMMPfam_7tm_1,superfamily_SSF81321
OR1G1	8390	genome.wustl.edu	37	17	3030570	3030570	+	Silent	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_003555.1	-1	provisional	p.I92	0.725	108	0%	75	18.7%	0	-	-	-	-	HMMPfam_7tm_1,superfamily_SSF81321
OR1A2	26189	genome.wustl.edu	37	17	3100813	3100813	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_012352.1	+1	provisional	p.M1V	0.990	226	0%	79	26.6%	0	-	possibly_damaging(0.613)	deleterious(0.01)	deleterious(0.618)	superfamily_SSF81321
OR1E1	8387	genome.wustl.edu	37	17	3301023	3301023	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_003553.2	-1	validated	p.V228I	0.794	207	0.5%	116	12.1%	0	-	benign(0.003)	tolerated(0.95)	-	HMMPfam_7tm_1,superfamily_SSF81321
OR1E2	8388	genome.wustl.edu	37	17	3336225	3336225	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_003554.1	-1	provisional	p.R304K	1.000	211	0%	79	13.9%	0	-	benign(0)	tolerated(1)	-	superfamily_SSF81321
OR1E2	8388	genome.wustl.edu	37	17	3336496	3336496	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_003554.1	-1	provisional	p.L214I	0.000	168	0%	89	18%	0	-	benign(0.004)	tolerated(0.2)	neutral(0.049)	HMMPfam_7tm_1,superfamily_SSF81321
SPATA22	84690	genome.wustl.edu	37	17	3352179	3352179	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_032598.4	-1	validated	p.Q198H	0.113	381	0%	160	31.9%	0	-	probably_damaging(0.996)	deleterious(0)	deleterious(0.906)	NULL
SPATA22	84690	genome.wustl.edu	37	17	3352218	3352218	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_032598.4	-1	validated	p.G185	0.015	500	0%	218	24.3%	0	-	-	-	-	NULL
SPATA22	84690	genome.wustl.edu	37	17	3365840	3365840	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_032598.4	-1	validated	p.R89K	0.941	293	0%	378	23.8%	0	-	possibly_damaging(0.946)	deleterious(0)	deleterious(0.835)	NULL
ASPA	443	genome.wustl.edu	37	17	3386854	3386854	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_000049.2	+1	reviewed	p.A165V	1.000	402	0%	190	11.1%	0	-	benign(0.004)	tolerated(0.51)	neutral(0.009)	HMMPfam_AstE_AspA
ASPA	443	genome.wustl.edu	37	17	3397696	3397696	+	Silent	SNP	T	T	C	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_000049.2	+1	reviewed	p.V229	0.990	391	0%	174	24.7%	0	-	-	-	-	HMMPfam_AstE_AspA
TRPV3	162514	genome.wustl.edu	37	17	3417237	3417237	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_145068.2	-1	reviewed	p.E783K	1.000	399	0%	207	10.6%	0	-	benign(0.013)	deleterious(0.01)	neutral(0.406)	NULL
SHPK	23729	genome.wustl.edu	37	17	3526760	3526760	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_013276.2	-1	reviewed	p.A174T	0.279	134	0%	91	26.4%	2	0%	benign(0)	tolerated(0.63)	neutral(0.004)	HMMPfam_FGGY_N,superfamily_Actin-like ATPase domain
P2RX5	5026	genome.wustl.edu	37	17	3592809	3592809	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_002561.2	-1	reviewed	p.D244N	0.000	84	0%	149	11.4%	3	0%	benign(0.005)	tolerated(0.5)	neutral(0.010)	HMMPfam_P2X_receptor
P2RX5	5026	genome.wustl.edu	37	17	3595069	3595069	+	Nonsense_Mutation	SNP	T	T	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_002561.2	-1	reviewed	p.K53*	1.000	117	0%	183	21.9%	1	0%	-	-	-	HMMPfam_P2X_receptor
GSG2	83903	genome.wustl.edu	37	17	3627876	3627876	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_031965.2	+1	validated	p.S216Y	0.000	63	0%	104	11.5%	1	0%	benign(0.157)	deleterious(0.01)	neutral(0.420)	NULL
C17orf85	55421	genome.wustl.edu	37	17	3721769	3721769	+	Silent	SNP	A	A	G	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001114118.1	-1	provisional	p.D366	0.999	91	0%	36	19.4%	7	14.2%	-	-	-	NULL
C17orf85	55421	genome.wustl.edu	37	17	3732558	3732558	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001114118.1	-1	provisional	p.E154K	1.000	340	0%	183	10.4%	3	0%	probably_damaging(0.999)	deleterious(0.01)	deleterious(0.896)	HMMPfam_DUF2414
C17orf85	55421	genome.wustl.edu	37	17	3746386	3746386	+	Silent	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001114118.1	-1	provisional	p.T81	1.000	210	0%	254	22.8%	2	0%	-	-	-	NULL
CAMKK1	84254	genome.wustl.edu	37	17	3775909	3775909	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_172207.2	-1	reviewed	p.D393N	1.000	169	0%	222	12.2%	0	-	possibly_damaging(0.858)	tolerated(0.18)	neutral(0.387)	HMMSmart_S_TKc,superfamily_Kinase_like,HMMPfam_Pkinase
CAMKK1	84254	genome.wustl.edu	37	17	3775917	3775917	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_172207.2	-1	reviewed	p.P390L	1.000	172	0%	220	22.7%	0	-	probably_damaging(1)	deleterious(0)	deleterious(0.945)	HMMSmart_S_TKc,superfamily_Kinase_like,HMMPfam_Pkinase
CAMKK1	84254	genome.wustl.edu	37	17	3779639	3779639	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_172207.2	-1	reviewed	p.A330T	1.000	87	0%	123	27.6%	5	60%	probably_damaging(0.994)	deleterious(0.01)	deleterious(0.858)	HMMSmart_S_TKc,superfamily_Kinase_like,HMMPfam_Pkinase
CAMKK1	84254	genome.wustl.edu	37	17	3786773	3786773	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_172207.2	-1	reviewed	p.A155V	1.000	126	0%	141	23.4%	5	0%	probably_damaging(0.975)	deleterious(0)	deleterious(0.861)	HMMSmart_S_TKc,superfamily_Kinase_like,PatternScan_PROTEIN_KINASE_ATP,HMMPfam_Pkinase
ATP2A3	489	genome.wustl.edu	37	17	3832043	3832043	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_174953.1	-1	reviewed	p.R965H	1.000	18	0%	43	37.2%	21	0%	possibly_damaging(0.861)	tolerated(0.17)	neutral(0.392)	HMMPfam_Cation_ATPase_C,superfamily_Calcium ATPase transmembrane domain M
ATP2A3	489	genome.wustl.edu	37	17	3840715	3840715	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_174953.1	-1	reviewed	p.V772	0.013	68	0%	95	28.4%	9	0%	-	-	-	superfamily_Calcium ATPase transmembrane domain M
ATP2A3	489	genome.wustl.edu	37	17	3840877	3840877	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_174953.1	-1	reviewed	p.I718	0.983	93	0%	120	13.3%	9	11.1%	-	-	-	HMMPfam_Hydrolase,superfamily_HAD-like,superfamily_Calcium ATPase transmembrane domain M
ATP2A3	489	genome.wustl.edu	37	17	3850886	3850886	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_174953.1	-1	reviewed	p.I298	0.490	8	0.000	16	0.312	2	0%	-	-	-	HMMPfam_E1-E2_ATPase,superfamily_Calcium ATPase transmembrane domain M
ZZEF1	23140	genome.wustl.edu	37	17	3978575	3978575	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_015113.3	-1	validated	p.R1128M	0.709	185	0.5%	65	24.6%	1	0%	probably_damaging(0.976)	deleterious(0)	deleterious(0.863)	superfamily_Spermadhesin CUB domain
CYB5D2	124936	genome.wustl.edu	37	17	4057996	4057996	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_144611.3	+1	validated	p.E140D	0.997	40	0%	39	30.8%	6	33.3%	possibly_damaging(0.617)	tolerated(0.18)	neutral(0.271)	NULL
MYBBP1A	10514	genome.wustl.edu	37	17	4455279	4455279	+	Missense_Mutation	SNP	G	G	A	rs145701504	by1000genomes	TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001105538.1	-1	validated	p.R307C	1.000	33	0%	70	22.9%	3	0%	probably_damaging(1)	deleterious(0)	deleterious(0.945)	HMMPfam_DNA_pol_phi,superfamily_ARM-type_fold
MYBBP1A	10514	genome.wustl.edu	37	17	4457344	4457344	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001105538.1	-1	validated	p.L141	0.304	281	0%	462	27.9%	3	33.3%	-	-	-	HMMPfam_DNA_pol_phi,superfamily_ARM-type_fold
GGT6	124975	genome.wustl.edu	37	17	4461364	4461364	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001122890.1	-1	validated	p.E476D	0.876	107	0%	174	13.2%	2	0%	probably_damaging(0.973)	deleterious(0)	deleterious(0.859)	HMMPfam_G_glu_transpept
GGT6	124975	genome.wustl.edu	37	17	4461807	4461807	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001122890.1	-1	validated	p.R329C	0.000	26	0%	69	27.5%	0	-	possibly_damaging(0.864)	deleterious(0.01)	deleterious(0.740)	HMMPfam_G_glu_transpept
ALOX15	246	genome.wustl.edu	37	17	4535065	4535065	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001140.3	-1	validated	p.G607C	1.000	100	0%	105	12.4%	0	-	probably_damaging(1)	deleterious(0)	deleterious(0.945)	HMMPfam_Lipoxygenase,superfamily_Lipoxygenase
TM4SF5	9032	genome.wustl.edu	37	17	4675263	4675263	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_003963.2	+1	reviewed	p.T16A	0.966	162	0%	95	18.9%	0	-	benign(0.068)	tolerated(1)	neutral(0.004)	HMMPfam_L6_membrane
PLD2	5338	genome.wustl.edu	37	17	4721891	4721891	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_002663.3	+1	validated	p.H704	1.000	156	0%	174	25.9%	6	0%	-	-	-	superfamily_Phospholipase D/nuclease
CHRNE	1145	genome.wustl.edu	37	17	4804098	4804098	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_000080.3	-1	reviewed	p.L303F	0.979	80	0%	153	22.2%	0	-	possibly_damaging(0.845)	deleterious(0.04)	deleterious(0.673)	HMMPfam_Neur_chan_memb,superfamily_Neu_channel_TM
SLC25A11	8402	genome.wustl.edu	37	17	4841850	4841850	+	Missense_Mutation	SNP	A	A	C	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_003562.4	-1	validated	p.L168R	1.000	108	0%	161	11.8%	42	0%	probably_damaging(0.995)	deleterious(0)	deleterious(0.902)	superfamily_Mitochondrial carrier,HMMPfam_Mito_carr
CAMTA2	23125	genome.wustl.edu	37	17	4872578	4872578	+	Nonsense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_015099.3	-1	validated	p.R1113*	1.000	81	1.2%	143	23.1%	18	16.6%	-	-	-	HMMPfam_IQ,superfamily_P-loop containing nucleoside triphosphate hydrolases
CAMTA2	23125	genome.wustl.edu	37	17	4876208	4876208	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_015099.3	-1	validated	p.D787N	0.998	83	0%	119	27.7%	5	40%	probably_damaging(0.959)	tolerated(0.17)	neutral(0.462)	superfamily_Ankyrin repeat
SLC52A1	55065	genome.wustl.edu	37	17	4936461	4936461	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001104577.1	-1	validated	p.L380M	0.982	93	0%	194	23.2%	2	100%	-	-	-	NULL
SLC52A1	55065	genome.wustl.edu	37	17	4937327	4937327	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001104577.1	-1	validated	p.L153F	1.000	143	0%	263	25.5%	2	0%	probably_damaging(0.966)	deleterious(0.05)	deleterious(0.753)	NULL
ZFP3	124961	genome.wustl.edu	37	17	4995197	4995197	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_153018.2	+1	validated	p.R133I	0.955	137	0%	158	19.6%	0	-	possibly_damaging(0.93)	deleterious(0)	deleterious(0.821)	superfamily_C2H2 and C2HC zinc fingers
ZFP3	124961	genome.wustl.edu	37	17	4995279	4995279	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_153018.2	+1	validated	p.M160I	1.000	165	0%	194	12.9%	2	0%	benign(0.004)	deleterious(0)	neutral(0.445)	HMMPfam_zf-C2H2,PatternScan_ZINC_FINGER_C2H2_1,HMMSmart_SM00355,superfamily_C2H2 and C2HC zinc fingers
ZNF232	7775	genome.wustl.edu	37	17	5009428	5009428	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_014519.2	-1	validated	p.Q342H	0.022	298	0%	359	26.5%	25	40%	unknown(0)	tolerated(0.57)	-	HMMPfam_zf-C2H2,PatternScan_ZINC_FINGER_C2H2_1,HMMSmart_SM00355,superfamily_C2H2 and C2HC zinc fingers
USP6	9098	genome.wustl.edu	37	17	5047993	5047993	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_004505.2	+1	validated	p.I609M	1.000	385	0%	568	19.7%	0	-	probably_damaging(0.997)	deleterious(0)	deleterious(0.911)	HMMPfam_UCH,superfamily_Cysteine proteinases
USP6	9098	genome.wustl.edu	37	17	5072182	5072182	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_004505.2	+1	validated	p.L1117I	0.989	229	0%	111	28.8%	0	-	possibly_damaging(0.642)	tolerated(0.19)	neutral(0.275)	HMMPfam_UCH,superfamily_Cysteine proteinases
USP6	9098	genome.wustl.edu	37	17	5073925	5073925	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_004505.2	+1	validated	p.K1223	1.000	131	0%	83	12%	0	-	-	-	-	HMMPfam_UCH,superfamily_Cysteine proteinases
ZNF594	84622	genome.wustl.edu	37	17	5087114	5087114	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_032530.1	-1	validated	p.Q146H	1.000	380	0%	459	26.1%	0	-	possibly_damaging(0.892)	tolerated(0.12)	deleterious(0.612)	HMMPfam_zf-C2H2,PatternScan_ZINC_FINGER_C2H2_1,HMMSmart_ZnF_C2H2,superfamily_SSF57667
RABEP1	9135	genome.wustl.edu	37	17	5253808	5253808	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_004703.4	+1	validated	p.A283T	1.000	163	0%	70	30%	0	-	probably_damaging(1)	deleterious(0.01)	deleterious(0.905)	NULL
NLRP1	22861	genome.wustl.edu	37	17	5486061	5486061	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_033004.3	-1	reviewed	p.A126V	0.000	118	0%	73	15.1%	1	0%	benign(0.355)	tolerated(0.2)	neutral(0.162)	NULL
WSCD1	23302	genome.wustl.edu	37	17	6023671	6023671	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_015253.1	+1	validated	p.S473L	1.000	53	0%	66	28.8%	0	-	probably_damaging(1)	tolerated(0.17)	deleterious(0.559)	superfamily_SSF52540
AIPL1	23746	genome.wustl.edu	37	17	6337238	6337238	+	Splice_Site	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_014336.3	-1	reviewed	e2+1	1.000	71	0%	72	23.6%	0	-	-	-	-	-
FAM64A	54478	genome.wustl.edu	37	17	6348472	6348472	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_019013.1	+1	provisional	p.R14	0.001	54	0%	78	20.5%	3	66.6%	-	-	-	HMMPfam_DUF1466
PITPNM3	83394	genome.wustl.edu	37	17	6358726	6358726	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_031220.3	-1	reviewed	p.D953Y	1.000	13	0%	34	23.5%	0	-	probably_damaging(1)	tolerated(0.08)	deleterious(0.800)	NULL
PITPNM3	83394	genome.wustl.edu	37	17	6367495	6367495	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_031220.3	-1	reviewed	p.V717	0.909	55	0%	58	10.3%	1	100%	-	-	-	NULL
SLC13A5	284111	genome.wustl.edu	37	17	6610001	6610001	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_177550.3	-1	validated	p.A110T	1.000	44	0%	49	10.2%	0	-	probably_damaging(1)	deleterious(0)	deleterious(0.945)	HMMPfam_Na_sulph_symp
ALOX12	239	genome.wustl.edu	37	17	6900205	6900205	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_000697.2	+1	validated	p.R66C	1.000	88	0%	136	13.2%	2	50%	benign(0.033)	deleterious(0.05)	neutral(0.347)	HMMPfam_PLAT,HMMSmart_LH2,superfamily_Lipase_LipOase
BCL6B	255877	genome.wustl.edu	37	17	6927434	6927434	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_181844.3	+1	validated	p.A71V	0.925	24	0%	55	16.4%	2	0%	benign(0.273)	tolerated(0.29)	neutral(0.058)	HMMSmart_SM00225,superfamily_POZ domain,HMMPfam_BTB
BCL6B	255877	genome.wustl.edu	37	17	6930052	6930052	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_181844.3	+1	validated	p.C361	1.000	72	0%	102	20.6%	1	0%	-	-	-	HMMPfam_zf-C2H2,PatternScan_ZINC_FINGER_C2H2_1,HMMSmart_SM00355,superfamily_C2H2 and C2HC zinc fingers
BCL6B	255877	genome.wustl.edu	37	17	6930334	6930334	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_181844.3	+1	validated	p.C417	1.000	48	0%	71	32.4%	5	0%	-	-	-	HMMPfam_zf-C2H2,PatternScan_ZINC_FINGER_C2H2_1,HMMSmart_SM00355,superfamily_C2H2 and C2HC zinc fingers
SLC16A13	201232	genome.wustl.edu	37	17	6943165	6943165	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_201566.2	+1	validated	p.L389I	0.391	328	0%	501	25.5%	1	0%	benign(0.002)	tolerated(0.52)	neutral(0.009)	superfamily_MFS general substrate transporter
SLC16A11	162515	genome.wustl.edu	37	17	6945204	6945204	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_153357.1	-1	validated	p.D404Y	0.992	79	0%	152	16.4%	2	0%	probably_damaging(0.999)	deleterious(0.01)	deleterious(0.896)	superfamily_MFS_gen_substrate_transporter
CLEC10A	10462	genome.wustl.edu	37	17	6978758	6978758	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_182906.2	-1	reviewed	p.A235T	0.000	143	0%	76	17.1%	0	-	benign(0)	tolerated(0.36)	neutral(0.020)	HMMPfam_Lectin_C,HMMSmart_SM00034,superfamily_C-type lectin-like
ASGR2	433	genome.wustl.edu	37	17	7011180	7011180	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001181.3	-1	reviewed	p.E133D	0.646	129	0%	215	22.3%	0	-	possibly_damaging(0.786)	tolerated(0.14)	deleterious(0.544)	HMMPfam_Lectin_N
DLG4	1742	genome.wustl.edu	37	17	7097005	7097005	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001365.3	-1	reviewed	p.E567D	1.000	173	0%	258	22.9%	6	0%	benign(0.071)	tolerated(0.08)	neutral(0.305)	superfamily_SH3
DLG4	1742	genome.wustl.edu	37	17	7107075	7107075	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001365.3	-1	reviewed	p.D134N	1.000	61	0%	108	12%	7	0%	probably_damaging(0.954)	deleterious(0.02)	deleterious(0.780)	HMMPfam_PDZ,HMMSmart_PDZ,superfamily_PDZ
DLG4	1742	genome.wustl.edu	37	17	7121950	7121950	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001365.3	-1	reviewed	p.S10P	1.000	78	0%	143	18.2%	0	-	unknown(0)	deleterious(0)	-	NULL
ACADVL	37	genome.wustl.edu	37	17	7127048	7127048	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_000018.2	+1	reviewed	p.S423L	1.000	128	0.8%	226	30.5%	258	22%	probably_damaging(1)	deleterious(0)	deleterious(0.945)	HMMPfam_Acyl-CoA_dh_1,superfamily_Acyl-CoA dehydrogenase C-terminal domain-like
ACADVL	37	genome.wustl.edu	37	17	7127302	7127302	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_000018.2	+1	reviewed	p.R450C	0.969	312	0.3%	461	24.1%	262	21.7%	probably_damaging(1)	deleterious(0)	deleterious(0.945)	PatternScan_ACYL_COA_DH_2,HMMPfam_Acyl-CoA_dh_1,superfamily_Acyl-CoA dehydrogenase C-terminal domain-like
DVL2	1856	genome.wustl.edu	37	17	7130478	7130478	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_004422.2	-1	reviewed	p.V492I	0.996	105	0%	166	21.7%	22	13.6%	probably_damaging(0.999)	deleterious(0)	deleterious(0.935)	"HMMPfam_DEP,HMMSmart_SM00049,superfamily_""Winged helix"" DNA-binding domain"
DVL2	1856	genome.wustl.edu	37	17	7134085	7134085	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_004422.2	-1	reviewed	p.A76T	1.000	150	0%	221	20.4%	3	0%	possibly_damaging(0.705)	tolerated(0.25)	neutral(0.291)	HMMPfam_DIX,HMMSmart_SM00021
CTDNEP1	23399	genome.wustl.edu	37	17	7149674	7149674	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001143775.1	-1	validated	p.E126K	1.000	104	0%	189	32.8%	51	9.8%	possibly_damaging(0.515)	tolerated(0.34)	neutral(0.196)	HMMPfam_NIF,HMMSmart_SM00577,superfamily_HAD-like
CTDNEP1	23399	genome.wustl.edu	37	17	7154541	7154541	+	Silent	SNP	A	A	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001143775.1	-1	validated	p.I25	0.999	28	0%	51	23.5%	22	4.5%	-	-	-	NULL
C17orf81	23587	genome.wustl.edu	37	17	7162906	7162906	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_015362.3	+1	validated	p.R285W	0.115	94	1.1%	155	32.3%	47	19.1%	probably_damaging(0.983)	deleterious(0.02)	deleterious(0.812)	HMMPfam_Hap2_elong
SLC2A4	6517	genome.wustl.edu	37	17	7189082	7189082	+	Missense_Mutation	SNP	T	T	G	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001042.2	+1	reviewed	p.F394C	1.000	143	0%	257	26.8%	2	0%	benign(0.364)	tolerated(0.06)	neutral(0.439)	HMMPfam_Sugar_tr,superfamily_MFS_gen_substrate_transporter
YBX2	51087	genome.wustl.edu	37	17	7193324	7193324	+	Nonsense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_015982.3	-1	validated	p.R271*	1.000	83	0%	133	29.3%	2	0%	-	-	-	NULL
YBX2	51087	genome.wustl.edu	37	17	7193652	7193652	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_015982.3	-1	validated	p.R221Q	1.000	13	0%	22	31.8%	0	-	probably_damaging(0.994)	tolerated(0.39)	neutral(0.468)	NULL
EIF5A	1984	genome.wustl.edu	37	17	7212975	7212975	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001143760.1	+1	validated	p.F37	1.000	274	0.4%	397	11.3%	183	2.1%	unknown(0)	-	-	NULL
C17orf61	254863	genome.wustl.edu	37	17	7306651	7306651	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_152766.2	-1	predicted	p.P59L	0.885	383	0%	606	24.9%	216	29.1%	probably_damaging(0.998)	deleterious(0)	deleterious(0.919)	HMMPfam_DUF423
SPEM1	374768	genome.wustl.edu	37	17	7323790	7323790	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_199339.2	+1	provisional	p.V29	0.982	71	0%	159	14.5%	0	-	-	-	-	NULL
C17orf74	201243	genome.wustl.edu	37	17	7329939	7329939	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_175734.4	+1	validated	p.A210V	0.000	59	0%	141	15.6%	0	-	benign(0)	tolerated(1)	-	NULL
CHRNB1	1140	genome.wustl.edu	37	17	7349427	7349427	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_000747.2	+1	reviewed	p.D80N	1.000	274	0%	361	28.8%	0	-	benign(0.001)	tolerated(0.47)	neutral(0.011)	HMMPfam_Neur_chan_LBD,superfamily_Neur_chan_LBD
CHRNB1	1140	genome.wustl.edu	37	17	7357647	7357647	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_000747.2	+1	reviewed	p.L284	1.000	245	0%	296	11.5%	0	-	-	-	-	HMMPfam_Neur_chan_memb,superfamily_Neu_channel_TM
ZBTB4	57659	genome.wustl.edu	37	17	7366113	7366113	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001128833.1	-1	validated	p.D730Y	0.132	9	0.000	23	0.217	3	0%	probably_damaging(0.995)	deleterious(0)	deleterious(0.902)	HMMPfam_zf-C2H2,PatternScan_ZINC_FINGER_C2H2_1,HMMSmart_SM00355,superfamily_C2H2 and C2HC zinc fingers
ZBTB4	57659	genome.wustl.edu	37	17	7366368	7366368	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001128833.1	-1	validated	p.E645K	0.694	49	0%	112	33.9%	0	-	benign(0.135)	deleterious(0.01)	neutral(0.417)	NULL
POLR2A	5430	genome.wustl.edu	37	17	7405940	7405940	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_000937.3	+1	validated	p.G892	0.989	83	0%	60	15%	7	0%	-	-	-	HMMPfam_RNA_pol_Rpb1_5,superfamily_SSF64484
POLR2A	5430	genome.wustl.edu	37	17	7415605	7415605	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_000937.3	+1	validated	p.E1478	1.000	30	0%	72	20.8%	21	4.7%	-	-	-	superfamily_SSF64484
TNFSF12-TNFSF13	407977	genome.wustl.edu	37	17	7454269	7454269	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_172089.2	+1	reviewed	p.R116Q	0.014	157	0.6%	259	13.5%	24	0%	benign(0.027)	tolerated(0.6)	neutral(0.006)	superfamily_TNF_like
TNFSF12	8742	genome.wustl.edu	37	17	7460591	7460591	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_003809.2	+1	reviewed	p.R225Q	0.068	35	0%	72	19.4%	55	7.2%	possibly_damaging(0.781)	deleterious(0.03)	deleterious(0.657)	HMMPfam_TNF,HMMSmart_SM00207,superfamily_TNF-like
CD68	968	genome.wustl.edu	37	17	7483613	7483613	+	Nonsense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001251.2	+1	reviewed	p.R179*	0.171	170	0%	273	26%	26	0%	-	-	-	HMMPfam_Lamp
ATP1B2	482	genome.wustl.edu	37	17	7559119	7559119	+	Missense_Mutation	SNP	A	A	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001678.3	+1	reviewed	p.E260V	1.000	51	0%	75	14.7%	4	0%	probably_damaging(1)	deleterious(0)	deleterious(0.945)	HMMPfam_Na_K-ATPase
WRAP53	55135	genome.wustl.edu	37	17	7592187	7592187	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_018081.2	+1	validated	p.S74Y	0.052	104	0%	87	23%	3	0%	probably_damaging(0.982)	deleterious(0)	deleterious(0.871)	NULL
WRAP53	55135	genome.wustl.edu	37	17	7605180	7605180	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	ENST00000451908	+1	known	p.P128L	0.044	29	0%	41	17.1%	0	-	possibly_damaging(0.812)	deleterious(0.04)	deleterious(0.654)	NULL
WRAP53	55135	genome.wustl.edu	37	17	7605707	7605707	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_018081.2	+1	validated	p.S334I	1.000	50	0%	78	11.5%	9	0%	probably_damaging(0.996)	deleterious(0.01)	deleterious(0.867)	HMMSmart_WD40,superfamily_WD40_like
DNAH2	146754	genome.wustl.edu	37	17	7630598	7630598	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_020877.2	+1	validated	p.G129	0.996	261	0%	158	14.6%	0	-	-	-	-	NULL
DNAH2	146754	genome.wustl.edu	37	17	7673923	7673923	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_020877.2	+1	validated	p.V1383I	0.423	164	0%	81	22.2%	0	-	benign(0.008)	tolerated(0.27)	neutral(0.034)	HMMPfam_DHC_N2
DNAH2	146754	genome.wustl.edu	37	17	7678183	7678183	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_020877.2	+1	validated	p.F1536	0.979	302	0%	182	14.3%	0	-	-	-	-	HMMPfam_DHC_N2
DNAH2	146754	genome.wustl.edu	37	17	7689445	7689445	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_020877.2	+1	validated	p.R2045W	0.082	39	0%	44	20.5%	0	-	probably_damaging(0.978)	deleterious(0)	deleterious(0.865)	superfamily_P-loop containing nucleoside triphosphate hydrolases
DNAH2	146754	genome.wustl.edu	37	17	7689958	7689958	+	Missense_Mutation	SNP	A	A	C	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_020877.2	+1	validated	p.E2140A	0.983	203	0%	180	10.6%	0	-	probably_damaging(1)	deleterious(0)	deleterious(0.945)	HMMPfam_AAA_5
DNAH2	146754	genome.wustl.edu	37	17	7708669	7708669	+	Nonsense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_020877.2	+1	validated	p.R3134*	0.931	146	0%	152	30.3%	0	-	-	-	-	NULL
DNAH2	146754	genome.wustl.edu	37	17	7733748	7733748	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_020877.2	+1	validated	p.R3995H	1.000	198	0%	248	23%	0	-	probably_damaging(1)	deleterious(0)	deleterious(0.945)	HMMPfam_Dynein_heavy
DNAH2	146754	genome.wustl.edu	37	17	7734824	7734824	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_020877.2	+1	validated	p.E4192D	1.000	148	0%	217	12.4%	1	0%	probably_damaging(1)	deleterious(0)	deleterious(0.945)	HMMPfam_Dynein_heavy
KDM6B	23135	genome.wustl.edu	37	17	7750758	7750758	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001080424.1	+1	provisional	p.P415	0.962	33	0%	78	16.7%	4	0%	-	-	-	NULL
KDM6B	23135	genome.wustl.edu	37	17	7756436	7756436	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001080424.1	+1	provisional	p.E1577K	1.000	100	0%	192	26%	32	18.7%	benign(0.047)	tolerated(0.49)	neutral(0.014)	NULL
KCNAB3	9196	genome.wustl.edu	37	17	7829019	7829019	+	Nonsense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_004732.2	-1	reviewed	p.R174*	1.000	339	0%	555	12.1%	3	0%	-	-	-	HMMPfam_Aldo_ket_red,superfamily_Aldo/ket_red
ALOX15B	247	genome.wustl.edu	37	17	7942848	7942848	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001141.2	+1	reviewed	p.R98W	0.000	10	0%	20	25%	0	-	probably_damaging(0.99)	deleterious(0.02)	deleterious(0.825)	HMMPfam_PLAT,HMMSmart_SM00308,superfamily_Lipase/lipooxygenase domain (PLAT/LH2 domain)
ALOX12B	242	genome.wustl.edu	37	17	7979002	7979002	+	Missense_Mutation	SNP	G	G	A	rs150371678	by1000genomes	TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001139.2	-1	reviewed	p.P522L	0.116	130	0%	267	15.4%	0	-	benign(0.041)	tolerated(0.07)	neutral(0.322)	HMMPfam_Lipoxygenase,superfamily_Lipoxygenase
PER1	5187	genome.wustl.edu	37	17	8045134	8045134	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_002616.2	-1	reviewed	p.L1197I	1.000	144	0%	225	12%	27	0%	possibly_damaging(0.691)	tolerated(1)	neutral(0.247)	NULL
PER1	5187	genome.wustl.edu	37	17	8047161	8047161	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_002616.2	-1	reviewed	p.R832Q	0.978	77	0%	158	21.5%	14	7.1%	probably_damaging(0.994)	tolerated(0.59)	neutral(0.457)	NULL
CTC1	80169	genome.wustl.edu	37	17	8140815	8140815	+	Nonsense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_025099.5	-1	validated	p.R224*	0.000	187	0%	156	24.4%	1	0%	-	-	-	NULL
PFAS	5198	genome.wustl.edu	37	17	8160200	8160200	+	Nonsense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_012393.2	+1	reviewed	p.R332*	1.000	97	0%	122	27%	2	0%	-	-	-	HMMPfam_AIRS,superfamily_PurM N-terminal domain-like
PFAS	5198	genome.wustl.edu	37	17	8170432	8170432	+	Silent	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_012393.2	+1	reviewed	p.L1018	1.000	79	0%	153	31.4%	2	50%	-	-	-	superfamily_PurM C-terminal domain-like
ARHGEF15	22899	genome.wustl.edu	37	17	8215911	8215911	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_173728.2	+1	reviewed	p.R185I	0.249	34	0%	58	13.8%	4	0%	benign(0)	deleterious(0.04)	neutral(0.349)	NULL
NDEL1	81565	genome.wustl.edu	37	17	8349066	8349066	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_030808.3	+1	reviewed	p.E42K	1.000	375	0%	249	26.9%	7	0%	possibly_damaging(0.936)	deleterious(0.01)	deleterious(0.787)	NULL
MYH10	4628	genome.wustl.edu	37	17	8508233	8508233	+	Missense_Mutation	SNP	A	A	C	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_005964.1	-1	validated	p.I138S	1.000	211	0%	87	13.8%	6	0%	probably_damaging(1)	deleterious(0)	deleterious(0.945)	HMMPfam_Myosin_head,HMMSmart_SM00242,superfamily_P-loop containing nucleoside triphosphate hydrolases
CCDC42	146849	genome.wustl.edu	37	17	8647039	8647039	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_144681.2	-1	validated	p.R67C	0.394	101	2%	164	9.8%	0	-	possibly_damaging(0.943)	deleterious(0.04)	deleterious(0.736)	NULL
PIK3R5	23533	genome.wustl.edu	37	17	8790506	8790506	+	Silent	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001142633.1	-1	validated	p.T604	0.999	137	0%	195	25.6%	0	-	-	-	-	HMMPfam_PI3K_1B_p101
PIK3R5	23533	genome.wustl.edu	37	17	8791782	8791782	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001142633.1	-1	validated	p.R441Q	0.003	18	0%	34	23.5%	0	-	benign(0.328)	tolerated(0.29)	neutral(0.132)	HMMPfam_PI3K_1B_p101
WDR16	146845	genome.wustl.edu	37	17	9511493	9511493	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_145054.4	+1	validated	p.G271R	0.996	254	0%	170	27.1%	0	-	probably_damaging(1)	deleterious(0)	deleterious(0.945)	superfamily_WD40 repeat-like
GLP2R	9340	genome.wustl.edu	37	17	9763289	9763289	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_004246.1	+1	reviewed	p.L266I	0.640	219	0%	92	21.7%	0	-	possibly_damaging(0.818)	tolerated(0.16)	neutral(0.368)	HMMPfam_7tm_2
MYH13	8735	genome.wustl.edu	37	17	10213112	10213112	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_003802.2	-1	validated	p.R1564	0.871	135	0%	102	25.5%	1	0%	-	-	-	HMMPfam_Myosin_tail_1
MYH13	8735	genome.wustl.edu	37	17	10247425	10247425	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_003802.2	-1	validated	p.P529L	1.000	328	0%	100	28%	0	-	probably_damaging(1)	deleterious(0)	deleterious(0.945)	HMMPfam_Myosin_head,HMMSmart_SM00242,superfamily_P-loop containing nucleoside triphosphate hydrolases
MYH8	4626	genome.wustl.edu	37	17	10297697	10297697	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_002472.2	-1	reviewed	p.R1679C	1.000	263	0%	109	12.8%	0	-	probably_damaging(0.999)	deleterious(0)	deleterious(0.935)	HMMPfam_Myosin_tail_1
MYH4	4622	genome.wustl.edu	37	17	10351339	10351339	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_017533.2	-1	validated	p.L1587	0.431	647	0.2%	202	20.3%	0	-	-	-	-	HMMPfam_Myosin_tail_1
MYH4	4622	genome.wustl.edu	37	17	10363559	10363559	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_017533.2	-1	validated	p.V409	0.421	246	0%	92	18.5%	0	-	-	-	-	HMMPfam_Myosin_head,HMMSmart_MYSc,superfamily_SSF52540
MYH1	4619	genome.wustl.edu	37	17	10398547	10398547	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_005963.3	-1	reviewed	p.R1753C	1.000	775	0%	549	12.2%	0	-	probably_damaging(1)	deleterious(0)	deleterious(0.945)	HMMPfam_Myosin_tail_1
MYH1	4619	genome.wustl.edu	37	17	10408534	10408534	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_005963.3	-1	reviewed	p.A794V	1.000	220	0%	83	21.7%	0	-	probably_damaging(0.999)	deleterious(0)	deleterious(0.935)	HMMPfam_IQ,HMMSmart_IQ,superfamily_SSF52540
MYH1	4619	genome.wustl.edu	37	17	10419308	10419308	+	Missense_Mutation	SNP	T	T	G	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_005963.3	-1	reviewed	p.K147T	1.000	398	0%	112	17.9%	0	-	probably_damaging(0.999)	deleterious(0)	deleterious(0.935)	HMMPfam_Myosin_head,HMMSmart_MYSc,superfamily_SSF52540
MYH1	4619	genome.wustl.edu	37	17	10419539	10419539	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_005963.3	-1	reviewed	p.R109C	1.000	637	0%	151	23.8%	0	-	probably_damaging(1)	deleterious(0)	deleterious(0.945)	HMMPfam_Myosin_head,HMMSmart_MYSc,superfamily_SSF52540
MYH2	4620	genome.wustl.edu	37	17	10424716	10424716	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001100112.1	-1	reviewed	p.R1903C	1.000	307	0%	86	27.9%	0	-	probably_damaging(1)	deleterious(0)	deleterious(0.945)	HMMPfam_Myosin_tail_1
MYH2	4620	genome.wustl.edu	37	17	10426423	10426423	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001100112.1	-1	reviewed	p.R1886I	1.000	407	0.2%	76	23.7%	0	-	probably_damaging(0.974)	deleterious(0)	deleterious(0.861)	HMMPfam_Myosin_tail_1
MYH2	4620	genome.wustl.edu	37	17	10427913	10427913	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001100112.1	-1	reviewed	p.R1682H	1.000	224	0%	65	27.7%	0	-	probably_damaging(1)	deleterious(0)	deleterious(0.945)	HMMPfam_Myosin_tail_1
MYH2	4620	genome.wustl.edu	37	17	10436695	10436695	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001100112.1	-1	reviewed	p.R783Q	1.000	281	0%	61	16.4%	0	-	possibly_damaging(0.847)	deleterious(0)	deleterious(0.770)	HMMSmart_MYSc,superfamily_SSF52540
MYH2	4620	genome.wustl.edu	37	17	10443282	10443282	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001100112.1	-1	reviewed	p.K370	1.000	469	0%	73	31.5%	0	-	-	-	-	HMMPfam_Myosin_head,HMMSmart_MYSc,superfamily_SSF52540
MYH2	4620	genome.wustl.edu	37	17	10447329	10447329	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001100112.1	-1	reviewed	p.E180K	1.000	327	0%	87	21.8%	0	-	possibly_damaging(0.759)	deleterious(0)	deleterious(0.726)	HMMPfam_Myosin_head,HMMSmart_MYSc,superfamily_SSF52540
MYH3	4621	genome.wustl.edu	37	17	10543319	10543319	+	Silent	SNP	T	T	C	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_002470.2	-1	reviewed	p.V892	0.704	319	0.3%	135	10.4%	1	0%	-	-	-	NULL
MYH3	4621	genome.wustl.edu	37	17	10543537	10543537	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_002470.2	-1	reviewed	p.R820C	0.999	557	0%	232	25.9%	0	-	probably_damaging(0.998)	deleterious(0)	deleterious(0.919)	superfamily_SSF52540
MYH3	4621	genome.wustl.edu	37	17	10550499	10550499	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_002470.2	-1	reviewed	p.E300K	1.000	208	0%	89	21.3%	0	-	benign(0.148)	tolerated(0.16)	neutral(0.072)	HMMPfam_Myosin_head,HMMSmart_MYSc,superfamily_SSF52540
MYH3	4621	genome.wustl.edu	37	17	10554850	10554850	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_002470.2	-1	reviewed	p.A162T	1.000	382	0.3%	164	29.9%	0	-	possibly_damaging(0.849)	deleterious(0)	deleterious(0.770)	HMMPfam_Myosin_head,HMMSmart_MYSc,superfamily_SSF52540
SCO1	6341	genome.wustl.edu	37	17	10595251	10595251	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_004589.2	-1	reviewed	p.P198L	1.000	448	0%	396	19.9%	9	11.1%	probably_damaging(1)	deleterious(0)	deleterious(0.945)	HMMPfam_SCO1-SenC,superfamily_Thiordxn-like_fd
DNAH9	1770	genome.wustl.edu	37	17	11522877	11522877	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001372.3	+1	reviewed	p.L377I	0.996	223	0%	60	18.3%	0	-	benign(0.191)	tolerated(0.29)	neutral(0.047)	HMMPfam_DHC_N1
DNAH9	1770	genome.wustl.edu	37	17	11572762	11572762	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001372.3	+1	reviewed	p.L1002I	0.021	100	0%	59	22%	0	-	possibly_damaging(0.936)	tolerated(0.1)	deleterious(0.668)	NULL
DNAH9	1770	genome.wustl.edu	37	17	11597645	11597645	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001372.3	+1	reviewed	p.L1585M	1.000	305	0%	87	23%	0	-	possibly_damaging(0.95)	tolerated(0.11)	deleterious(0.665)	HMMPfam_DHC_N2
DNAH9	1770	genome.wustl.edu	37	17	11607670	11607670	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001372.3	+1	reviewed	p.L1768F	1.000	157	0%	50	24%	0	-	probably_damaging(0.999)	deleterious(0.02)	deleterious(0.873)	NULL
DNAH9	1770	genome.wustl.edu	37	17	11645529	11645529	+	Missense_Mutation	SNP	T	T	G	rs188581234	by1000genomes	TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001372.3	+1	reviewed	p.C2004G	1.000	310	0%	88	9.1%	0	-	possibly_damaging(0.936)	deleterious(0.01)	deleterious(0.787)	superfamily_P-loop containing nucleoside triphosphate hydrolases
DNAH9	1770	genome.wustl.edu	37	17	11650930	11650930	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001372.3	+1	reviewed	p.A2153T	0.915	158	0%	35	17.1%	0	-	probably_damaging(0.999)	deleterious(0.01)	deleterious(0.896)	HMMSmart_SM00382,HMMPfam_AAA_5,superfamily_P-loop containing nucleoside triphosphate hydrolases
DNAH9	1770	genome.wustl.edu	37	17	11684368	11684368	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001372.3	+1	reviewed	p.Y2532C	1.000	68	0%	25	16%	0	-	probably_damaging(0.997)	deleterious(0)	deleterious(0.911)	HMMSmart_SM00382,superfamily_P-loop containing nucleoside triphosphate hydrolases
DNAH9	1770	genome.wustl.edu	37	17	11696895	11696895	+	Nonsense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001372.3	+1	reviewed	p.R2713*	0.997	522	0.2%	170	24.7%	0	-	-	-	-	superfamily_P-loop containing nucleoside triphosphate hydrolases
DNAH9	1770	genome.wustl.edu	37	17	11775012	11775012	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001372.3	+1	reviewed	p.T3384M	0.764	213	0%	80	21.2%	0	-	probably_damaging(0.99)	deleterious(0)	deleterious(0.886)	NULL
DNAH9	1770	genome.wustl.edu	37	17	11795191	11795191	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001372.3	+1	reviewed	p.S3737Y	0.992	171	0%	54	20.4%	0	-	possibly_damaging(0.92)	deleterious(0.01)	deleterious(0.776)	NULL
ZNF18	7566	genome.wustl.edu	37	17	11894425	11894425	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_144680.2	-1	provisional	p.S148I	0.005	276	0.7%	233	24.5%	4	0%	possibly_damaging(0.66)	tolerated(0.07)	deleterious(0.552)	HMMSmart_SM00431
MAP2K4	6416	genome.wustl.edu	37	17	11984764	11984764	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_003010.2	+1	reviewed	p.D104Y	1.000	230	0%	128	15.6%	1	0%	probably_damaging(1)	deleterious(0.02)	deleterious(0.883)	HMMSmart_S_TKc,superfamily_Kinase_like,HMMPfam_Pkinase
MYOCD	93649	genome.wustl.edu	37	17	12620700	12620700	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_153604.2	+1	reviewed	p.C72F	0.055	249	0%	74	29.7%	0	-	benign(0)	deleterious(0)	neutral(0.445)	HMMSmart_SM00707
MYOCD	93649	genome.wustl.edu	37	17	12661450	12661450	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_153604.2	+1	reviewed	p.P703S	0.997	271	0%	77	19.5%	0	-	possibly_damaging(0.736)	tolerated(0.06)	deleterious(0.592)	NULL
MYOCD	93649	genome.wustl.edu	37	17	12666548	12666548	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_153604.2	+1	reviewed	p.D802N	0.026	274	0%	116	18.1%	0	-	benign(0.15)	tolerated(0.37)	neutral(0.032)	NULL
ARHGAP44	9912	genome.wustl.edu	37	17	12844398	12844398	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_014859.4	+1	validated	p.S203I	1.000	412	0%	141	25.5%	3	0%	probably_damaging(0.981)	tolerated(0.17)	deleterious(0.484)	HMMPfam_BAR,HMMSmart_BAR
ARHGAP44	9912	genome.wustl.edu	37	17	12847488	12847488	+	Missense_Mutation	SNP	T	T	G	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_014859.4	+1	validated	p.L279R	1.000	65	0%	24	16.7%	0	-	probably_damaging(1)	deleterious(0)	deleterious(0.945)	HMMPfam_RhoGAP,HMMSmart_RhoGAP,superfamily_Rho_GAP
ELAC2	60528	genome.wustl.edu	37	17	12905834	12905834	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_018127.6	-1	reviewed	p.R381H	1.000	358	0%	300	24%	20	25%	probably_damaging(1)	deleterious(0.03)	deleterious(0.865)	NULL
ELAC2	60528	genome.wustl.edu	37	17	12905860	12905860	+	Nonsense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	ENST00000446899	-1	known	p.E152*	0.916	359	0%	295	12.2%	18	0%	probably_damaging(0.999)	tolerated(0.08)	deleterious(0.790)	NULL
HS3ST3B1	9953	genome.wustl.edu	37	17	14248416	14248416	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_006041.1	+1	reviewed	p.E209G	1.000	95	0%	140	25%	0	-	possibly_damaging(0.946)	deleterious(0.01)	deleterious(0.796)	HMMPfam_Sulfotransfer_1,superfamily_P-loop containing nucleoside triphosphate hydrolases
HS3ST3B1	9953	genome.wustl.edu	37	17	14248875	14248875	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_006041.1	+1	reviewed	p.R362H	0.654	138	0.7%	199	21.6%	0	-	benign(0.145)	deleterious(0.02)	neutral(0.396)	HMMPfam_Sulfotransfer_1,superfamily_P-loop containing nucleoside triphosphate hydrolases
TEKT3	64518	genome.wustl.edu	37	17	15215597	15215597	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_031898.2	-1	reviewed	p.K360	1.000	137	0%	55	12.7%	0	-	-	-	-	HMMPfam_Tektin
FAM18B2	201158	genome.wustl.edu	37	17	15449200	15449200	+	Nonsense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_145301.2	-1	validated	p.E121*	0.993	721	0%	251	12%	3	0%	-	-	-	HMMPfam_DUF846
FAM18B2	201158	genome.wustl.edu	37	17	15458625	15458625	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_145301.2	-1	validated	p.T22	0.021	1002	0%	831	34.5%	4	0%	-	-	-	NULL
LOC732391	732391	genome.wustl.edu	37	17	15469034	15469034	+	Missense_Mutation	SNP	T	T	G	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	XM_001722159.1	-1	model	p.K182T	0.174	263	0%	364	15.1%	2	0%	probably_damaging(0.996)	deleterious(0)	deleterious(0.906)	NULL
ENSG00000251537	0	genome.wustl.edu	37	17	15518987	15518987	+	Silent	SNP	T	T	C	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	ENST00000455584	-1	known	p.N539S	0.000	682	0%	321	10.3%	0	-	-	-	-	NULL
TRIM16	10626	genome.wustl.edu	37	17	15531954	15531954	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_006470.3	-1	reviewed	p.P557L	0.000	127	0%	95	18.9%	9	22.2%	benign(0.395)	tolerated(0.1)	neutral(0.413)	NULL
TRIM16	10626	genome.wustl.edu	37	17	15535906	15535906	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_006470.3	-1	reviewed	p.R311H	1.000	419	0%	506	15.8%	9	0%	probably_damaging(1)	deleterious(0.01)	deleterious(0.905)	NULL
TRIM16	10626	genome.wustl.edu	37	17	15539418	15539418	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_006470.3	-1	reviewed	p.E261K	0.985	270	0.4%	362	11%	8	12.5%	probably_damaging(0.998)	tolerated(0.13)	deleterious(0.727)	NULL
ZNF286A	57335	genome.wustl.edu	37	17	15619892	15619892	+	Missense_Mutation	SNP	A	A	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001130842.1	+1	validated	p.N285I	0.072	229	0%	118	21.2%	0	-	probably_damaging(0.999)	tolerated(0.09)	deleterious(0.787)	HMMPfam_zf-C2H2,PatternScan_ZINC_FINGER_C2H2_1,HMMSmart_ZnF_C2H2,superfamily_SSF57667
ZNF286A	57335	genome.wustl.edu	37	17	15620186	15620186	+	Missense_Mutation	SNP	A	A	C	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001130842.1	+1	validated	p.K383T	0.925	439	0%	251	15.9%	0	-	probably_damaging(0.957)	deleterious(0.02)	deleterious(0.784)	HMMPfam_zf-C2H2,HMMSmart_ZnF_C2H2,superfamily_SSF57667
ZNF286A	57335	genome.wustl.edu	37	17	15620446	15620446	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001130842.1	+1	validated	p.E470K	0.144	581	0%	297	20.9%	1	100%	possibly_damaging(0.952)	tolerated(0.14)	deleterious(0.645)	HMMPfam_zf-C2H2,PatternScan_ZINC_FINGER_C2H2_1,HMMSmart_ZnF_C2H2,superfamily_SSF57667
CDRT15P2	644694	genome.wustl.edu	37	17	15668147	15668147	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	XM_932309.3	+1	model	p.A19	0.002	74	0%	40	22.5%	0	-	-	-	-	NULL
CDRT15P2	644694	genome.wustl.edu	37	17	15668254	15668254	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	XM_932309.3	+1	model	p.S55L	0.004	42	0%	22	27.3%	0	-	-	-	-	NULL
NCOR1	9611	genome.wustl.edu	37	17	15952228	15952228	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_006311.2	-1	reviewed	p.P2156L	1.000	129	0%	60	21.7%	14	21.4%	probably_damaging(1)	tolerated(0.69)	deleterious(0.502)	NULL
CENPV	201161	genome.wustl.edu	37	17	16253245	16253245	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_181716.2	-1	validated	p.N170S	1.000	150	0%	205	27.3%	1	0%	benign(0.154)	deleterious(0.04)	neutral(0.362)	HMMPfam_GFA
TRPV2	51393	genome.wustl.edu	37	17	16330085	16330085	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_016113.3	+1	reviewed	p.A382V	0.167	162	0%	121	19.8%	0	-	benign(0)	tolerated(0.38)	neutral(0.018)	NULL
TRPV2	51393	genome.wustl.edu	37	17	16335393	16335393	+	Missense_Mutation	SNP	T	T	G	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_016113.3	+1	reviewed	p.Y590D	0.558	60	0%	66	27.3%	8	12.5%	probably_damaging(0.988)	deleterious(0.01)	deleterious(0.843)	HMMPfam_Ion_trans
TRPV2	51393	genome.wustl.edu	37	17	16335570	16335570	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_016113.3	+1	reviewed	p.V649I	1.000	55	0%	67	23.9%	8	0%	probably_damaging(0.987)	tolerated(0.16)	deleterious(0.496)	NULL
FAM211A	388341	genome.wustl.edu	37	17	16347080	16347080	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001113567.1	-1	validated	p.R286H	1.000	132	0%	139	29.5%	3	0%	probably_damaging(0.988)	deleterious(0.04)	deleterious(0.786)	superfamily_RNI-like
ZNF287	57336	genome.wustl.edu	37	17	16467135	16467135	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_020653.2	-1	validated	p.S169L	1.000	194	1%	172	29.1%	3	0%	benign(0.001)	tolerated(0.38)	neutral(0.018)	superfamily_KRAB domain (Kruppel-associated box Pfam 01352)
CCDC144A	9720	genome.wustl.edu	37	17	16610814	16610814	+	Missense_Mutation	SNP	A	A	C	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_014695.1	+1	provisional	p.E232D	0.969	630	0%	278	20.9%	0	-	possibly_damaging(0.741)	deleterious(0.04)	deleterious(0.621)	NULL
CCDC144A	9720	genome.wustl.edu	37	17	16638509	16638509	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_014695.1	+1	provisional	p.A975V	1.000	159	0%	92	9.8%	0	-	benign(0.176)	tolerated(0.37)	neutral(0.035)	NULL
CCDC144A	9720	genome.wustl.edu	37	17	16665751	16665751	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_014695.1	+1	provisional	p.S1264L	0.096	72	0%	37	29.7%	0	-	benign(0.202)	tolerated(0.19)	neutral(0.069)	NULL
MPRIP	23164	genome.wustl.edu	37	17	17057706	17057706	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_015134.2	+1	validated	p.P484	0.875	133	0%	182	9.9%	32	3.1%	-	-	-	HMMSmart_PH
MPRIP	23164	genome.wustl.edu	37	17	17069087	17069087	+	Nonsense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	ENST00000313485	+1	known	p.G372*	1.000	26	0%	180	30%	1	0%	probably_damaging(0.992)	deleterious(0)	deleterious(0.892)	NULL
FLCN	201163	genome.wustl.edu	37	17	17131408	17131408	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_144997.5	-1	reviewed	p.G15D	1.000	28	0%	49	16.3%	4	0%	probably_damaging(1)	deleterious(0)	deleterious(0.945)	NULL
COPS3	8533	genome.wustl.edu	37	17	17168257	17168257	+	Silent	SNP	T	T	C	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_003653.2	-1	reviewed	p.P160	0.123	320	0%	158	12%	11	9%	-	-	-	NULL
NT5M	56953	genome.wustl.edu	37	17	17250213	17250213	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	ENST00000446264	+1	known	p.R212H	0.047	38	0%	28	14.3%	1	0%	probably_damaging(0.973)	deleterious(0)	deleterious(0.859)	HMMPfam_NT5C
RAI1	10743	genome.wustl.edu	37	17	17699014	17699014	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_030665.3	+1	reviewed	p.C918R	0.738	15	0%	45	24.4%	2	0%	possibly_damaging(0.836)	deleterious(0.01)	deleterious(0.725)	NULL
RAI1	10743	genome.wustl.edu	37	17	17700294	17700294	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_030665.3	+1	reviewed	p.F1344	0.011	27	0%	76	27.6%	3	0%	-	-	-	NULL
TOM1L2	146691	genome.wustl.edu	37	17	17797056	17797056	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001082968.1	-1	validated	p.I95	0.136	224	0%	93	31.2%	3	0%	-	-	-	HMMPfam_VHS,superfamily_ENTH/VHS domain,HMMSmart_SM00288
TOM1L2	146691	genome.wustl.edu	37	17	17810807	17810807	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001082968.1	-1	validated	p.T31A	1.000	224	0%	238	28.6%	1	0%	benign(0.01)	tolerated(1)	neutral(0.001)	HMMPfam_VHS,superfamily_ENTH/VHS domain,HMMSmart_SM00288
C17orf39	79018	genome.wustl.edu	37	17	17948464	17948464	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_024052.4	+1	validated	p.V148M	1.000	370	0%	314	13.1%	3	0%	probably_damaging(1)	deleterious(0)	deleterious(0.945)	HMMPfam_Vac_ImportDeg
MYO15A	51168	genome.wustl.edu	37	17	18051429	18051429	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_016239.3	+1	reviewed	p.G2199D	0.995	31	0%	38	15.8%	0	-	probably_damaging(0.964)	-	-	HMMPfam_MyTH4,HMMSmart_SM00139
MYO15A	51168	genome.wustl.edu	37	17	18052625	18052625	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_016239.3	+1	reviewed	p.S2351I	0.947	73	0%	94	12.8%	0	-	benign(0)	-	-	NULL
MYO15A	51168	genome.wustl.edu	37	17	18054529	18054529	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_016239.3	+1	reviewed	p.A2527T	0.029	66	0%	82	29.3%	0	-	probably_damaging(0.978)	-	-	NULL
FLII	2314	genome.wustl.edu	37	17	18148671	18148671	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_002018.2	-1	reviewed	p.C1224	1.000	76	0%	152	26.3%	150	16.6%	-	-	-	HMMSmart_GEL,HMMPfam_Gelsolin,superfamily_SSF55753
FLII	2314	genome.wustl.edu	37	17	18151094	18151094	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_002018.2	-1	reviewed	p.L788	0.012	18	0%	38	34.2%	20	15%	-	-	-	HMMSmart_GEL,HMMPfam_Gelsolin,superfamily_SSF55753
TOP3A	7156	genome.wustl.edu	37	17	18205934	18205934	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	ENST00000412083	-1	known	p.R181*	0.704	138	0%	206	27.7%	2	0%	-	-	-	superfamily_Prokaryotic type I DNA topoisomerase,HMMSmart_SM00436,HMMPfam_Topoisom_bac
SMCR8	140775	genome.wustl.edu	37	17	18219469	18219469	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_144775.2	+1	validated	p.K122N	1.000	151	0%	186	27.4%	0	-	probably_damaging(0.995)	deleterious(0.01)	deleterious(0.863)	NULL
SHMT1	6470	genome.wustl.edu	37	17	18238935	18238935	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_004169.3	-1	reviewed	p.S290F	0.990	279	0%	401	22.7%	12	66.6%	probably_damaging(0.998)	deleterious(0)	deleterious(0.919)	HMMPfam_SHMT,superfamily_PLP-dependent transferases
LGALS9C	654346	genome.wustl.edu	37	17	18390984	18390984	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001040078.2	+1	validated	p.F119	0.011	421	0%	261	10.7%	0	-	-	-	-	HMMPfam_Gal-bind_lectin,HMMSmart_SM00276,superfamily_Concanavalin A-like lectins/glucanases
LOC645139	645139	genome.wustl.edu	37	17	18553797	18553797	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	XM_928169.3	+1	model	p.L137M	0.901	219	0%	366	23.5%	0	-	-	-	-	HMMPfam_PAM2
LOC645139	645139	genome.wustl.edu	37	17	18553851	18553851	+	Nonsense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	XM_928169.3	+1	model	p.E155*	0.992	266	0%	486	14.8%	0	-	-	-	-	NULL
LOC645139	645139	genome.wustl.edu	37	17	18554598	18554598	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	XM_928169.3	+1	model	p.P404S	1.000	529	0%	834	10.7%	33	0%	-	-	-	NULL
ZNF286B	729288	genome.wustl.edu	37	17	18565496	18565496	+	Silent	SNP	A	A	G	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001145045.1	-1	validated	p.C441	0.591	451	0%	337	23.7%	0	-	-	-	-	HMMPfam_zf-C2H2,PatternScan_ZINC_FINGER_C2H2_1,HMMSmart_SM00355,superfamily_C2H2 and C2HC zinc fingers
ZNF286B	729288	genome.wustl.edu	37	17	18565668	18565668	+	Missense_Mutation	SNP	T	T	G	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001145045.1	-1	validated	p.K384T	0.970	325	0%	244	13.5%	0	-	-	-	-	HMMPfam_zf-C2H2,HMMSmart_SM00355,superfamily_C2H2 and C2HC zinc fingers
TRIM16L	147166	genome.wustl.edu	37	17	18638425	18638425	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001037330.1	+1	provisional	p.I233	0.983	181	0%	82	13.4%	2	0%	-	-	-	HMMPfam_SPRY,HMMSmart_SPRY
FBXW10	10517	genome.wustl.edu	37	17	18651304	18651304	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_031456.3	+1	validated	p.S186G	0.016	605	0%	251	17.9%	0	-	benign(0.025)	deleterious(0.01)	neutral(0.407)	superfamily_WD40 repeat-like
FBXW10	10517	genome.wustl.edu	37	17	18654272	18654272	+	Missense_Mutation	SNP	A	A	C	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_031456.3	+1	validated	p.N343T	1.000	402	0%	202	11.9%	0	-	benign(0.409)	tolerated(0.21)	neutral(0.176)	superfamily_WD40 repeat-like,superfamily_F-box domain
FBXW10	10517	genome.wustl.edu	37	17	18671957	18671957	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_031456.3	+1	validated	p.Y605	0.823	246	0%	126	27.8%	0	-	-	-	-	HMMSmart_SM00320,superfamily_WD40 repeat-like
PRPSAP2	5636	genome.wustl.edu	37	17	18769160	18769160	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_002767.2	+1	reviewed	p.T5M	0.996	319	0%	231	24.7%	4	25%	probably_damaging(0.983)	deleterious(0.05)	deleterious(0.774)	NULL
FAM83G	644815	genome.wustl.edu	37	17	18874872	18874872	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001039999.2	-1	validated	p.P758S	0.001	68	1.5%	64	34.4%	2	0%	benign(0)	deleterious(0)	neutral(0.445)	NULL
FAM83G	644815	genome.wustl.edu	37	17	18891680	18891680	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001039999.2	-1	validated	p.K190N	1.000	103	0%	146	28.1%	2	0%	probably_damaging(0.96)	tolerated(0.09)	deleterious(0.700)	HMMPfam_DUF1669,superfamily_Phospholipase D/nuclease
EPN2	22905	genome.wustl.edu	37	17	19213209	19213209	+	Nonsense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_014964.4	+1	reviewed	p.R260*	0.705	70	0%	47	25.5%	5	20%	-	-	-	NULL
MAPK7	5598	genome.wustl.edu	37	17	19284009	19284009	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_002749.3	+1	reviewed	p.L163M	1.000	102	0%	175	24%	9	11.1%	unknown(0)	tolerated(0.3)	-	HMMSmart_SM00219,HMMSmart_SM00220,PatternScan_MAPK,superfamily_Protein kinase-like (PK-like),HMMPfam_Pkinase
SLC47A1	55244	genome.wustl.edu	37	17	19458545	19458545	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_018242.2	+1	validated	p.I188	0.000	374	0.3%	161	9.3%	7	0%	-	-	-	HMMPfam_MatE
SLC47A1	55244	genome.wustl.edu	37	17	19463561	19463561	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_018242.2	+1	validated	p.D328Y	0.408	264	0.4%	122	13.9%	2	0%	possibly_damaging(0.946)	deleterious(0.01)	deleterious(0.796)	HMMPfam_MatE
SLC47A1	55244	genome.wustl.edu	37	17	19463802	19463802	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_018242.2	+1	validated	p.D368N	0.981	595	1.2%	215	21.9%	2	50%	probably_damaging(1)	tolerated(0.07)	deleterious(0.819)	HMMPfam_MatE
SLC47A2	146802	genome.wustl.edu	37	17	19618495	19618495	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_152908.3	-1	validated	p.I53	0.192	59	0%	85	30.6%	0	-	-	-	-	HMMPfam_MatE
ULK2	9706	genome.wustl.edu	37	17	19689267	19689267	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001142610.1	-1	reviewed	p.R745Q	0.999	150	0%	94	11.7%	3	0%	probably_damaging(0.973)	deleterious(0.05)	deleterious(0.760)	NULL
ULK2	9706	genome.wustl.edu	37	17	19769130	19769130	+	Nonsense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001142610.1	-1	reviewed	p.W34*	1.000	285	0%	430	10.7%	0	-	-	-	-	HMMSmart_SM00219,HMMSmart_SM00220,superfamily_Protein kinase-like (PK-like),PatternScan_PROTEIN_KINASE_ATP,HMMPfam_Pkinase
AKAP10	11216	genome.wustl.edu	37	17	19812523	19812523	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_007202.2	-1	reviewed	p.Y652H	0.621	404	0%	120	18.3%	3	0%	benign(0)	tolerated(0.65)	neutral(0.003)	NULL
CCDC144C	348254	genome.wustl.edu	37	17	20224677	20224677	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	ENST00000425519	+1	known	p.P16	0.003	71	0%	119	32.8%	0	-	-	-	-	NULL
CCDC144C	348254	genome.wustl.edu	37	17	20304523	20304523	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	ENST00000425519	+1	known	p.L1215I	0.018	800	0%	239	8.4%	0	-	unknown(0)	deleterious(0)	-	NULL
LGALS9B	284194	genome.wustl.edu	37	17	20354923	20354923	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001042685.1	-1	validated	p.I264	0.999	205	0%	192	22.4%	1	0%	-	-	-	HMMPfam_Gal-bind_lectin,HMMSmart_GLECT,superfamily_ConA_like_lec_gl
LGALS9B	284194	genome.wustl.edu	37	17	20355194	20355194	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001042685.1	-1	validated	p.P224	0.034	195	0%	148	12.8%	3	0%	-	-	-	superfamily_ConA_like_lec_gl
USP22	23326	genome.wustl.edu	37	17	20911203	20911203	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_015276.1	-1	validated	p.V404I	1.000	288	0.3%	236	29.7%	14	21.4%	probably_damaging(0.994)	deleterious(0.01)	deleterious(0.858)	HMMPfam_UCH,superfamily_Cysteine proteinases
DHRS7B	25979	genome.wustl.edu	37	17	21094390	21094390	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_015510.3	+1	validated	p.R301Q	1.000	368	0.8%	223	15.2%	117	4.2%	probably_damaging(1)	deleterious(0.01)	deleterious(0.905)	superfamily_NAD(P)-bd
MAP2K3	5606	genome.wustl.edu	37	17	21205570	21205570	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_145109.2	+1	reviewed	p.S172Y	1.000	131	0%	202	11.9%	24	0%	probably_damaging(0.97)	deleterious(0)	deleterious(0.857)	HMMSmart_SM00219,HMMSmart_SM00220,superfamily_Protein kinase-like (PK-like),HMMPfam_Pkinase
C17orf51	339263	genome.wustl.edu	37	17	21438777	21438777	+	Silent	SNP	T	T	C	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001113434.3	-1	validated	p.K150	0.001	437	0%	225	25.3%	1	0%	unknown(0)	-	-	NULL
FAM27L	284123	genome.wustl.edu	37	17	21826239	21826239	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	ENST00000315762	+1	known	p.S73N	0.002	90	0%	129	33.3%	0	-	possibly_damaging(0.602)	-	-	NULL
LOC440419	440419	genome.wustl.edu	37	17	25753542	25753542	+	RNA	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	XR_040504.2	+1	model	NULL	0.985	239	0%	171	22.2%	0	-	-	-	-	-
KSR1	8844	genome.wustl.edu	37	17	25904605	25904605	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_014238.1	+1	validated	p.G17R	0.000	61	0%	88	10.2%	0	-	benign(0.004)	tolerated(0.57)	neutral(0.006)	NULL
KSR1	8844	genome.wustl.edu	37	17	25928411	25928411	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_014238.1	+1	validated	p.Q361H	1.000	608	0%	676	11.7%	0	-	probably_damaging(0.983)	deleterious(0.02)	deleterious(0.812)	NULL
KSR1	8844	genome.wustl.edu	37	17	25937121	25937121	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_014238.1	+1	validated	p.D637N	1.000	85	0%	115	17.4%	5	0%	benign(0.327)	tolerated(0.26)	neutral(0.137)	HMMPfam_Pkinase_Tyr,superfamily_Kinase_like
NOS2	4843	genome.wustl.edu	37	17	26084370	26084370	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_000625.4	-1	reviewed	p.R1122C	1.000	145	0%	104	9.6%	0	-	probably_damaging(1)	deleterious(0)	deleterious(0.945)	superfamily_Ferredoxin reductase-like C-terminal NADP-linked domain
NOS2	4843	genome.wustl.edu	37	17	26085986	26085986	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_000625.4	-1	reviewed	p.A1092V	0.915	45	0%	35	17.1%	0	-	probably_damaging(0.981)	tolerated(0.49)	neutral(0.436)	HMMPfam_NAD_binding_1,superfamily_Ferredoxin reductase-like C-terminal NADP-linked domain
ENSG00000251558	0	genome.wustl.edu	37	17	26207538	26207538	+	RNA	SNP	A	A	G	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	ENST00000502259	+1	known	NULL	0.000	47	0%	45	31.1%	0	-	-	-	-	-
SARM1	23098	genome.wustl.edu	37	17	26715462	26715462	+	Nonsense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_015077.2	+1	validated	p.E609*	1.000	90	0%	133	10.5%	2	0%	benign(0.212)	tolerated(0.1)	neutral(0.307)	NULL
SLC46A1	113235	genome.wustl.edu	37	17	26729340	26729340	+	Splice_Site	SNP	C	C	A	rs80338775		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_080669.3	-1	reviewed	e3-1	1.000	211	0%	199	28.6%	0	-	-	-	-	-
SLC13A2	9058	genome.wustl.edu	37	17	26820645	26820645	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_003984.3	+1	validated	p.Y312C	0.010	73	0%	78	9%	0	-	probably_damaging(0.993)	tolerated(0.17)	deleterious(0.509)	HMMPfam_Na_sulph_symp
SPAG5	10615	genome.wustl.edu	37	17	26913441	26913441	+	Splice_Site	SNP	A	A	G	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_006461.3	-1	reviewed	e5+2	1.000	292	0%	181	25.4%	0	-	-	-	-	-
ENSG00000167524	0	genome.wustl.edu	37	17	26939361	26939361	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	ENST00000301037	-1	known	p.L191M	1.000	173	0%	129	14%	0	-	probably_damaging(1)	deleterious(0.01)	deleterious(0.905)	HMMSmart_SM00220,superfamily_Protein kinase-like (PK-like),HMMPfam_Pkinase
KIAA0100	9703	genome.wustl.edu	37	17	26945909	26945909	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_014680.2	-1	validated	p.R1908H	1.000	202	0%	119	26.1%	33	27.2%	probably_damaging(0.999)	deleterious(0.04)	deleterious(0.839)	HMMPfam_Apt1
PROCA1	147011	genome.wustl.edu	37	17	27031042	27031042	+	Missense_Mutation	SNP	T	T	G	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_152465.1	-1	provisional	p.D182A	0.851	146	0%	140	16.4%	0	-	probably_damaging(0.995)	tolerated(0.07)	deleterious(0.776)	NULL
PROCA1	147011	genome.wustl.edu	37	17	27031107	27031107	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_152465.1	-1	provisional	p.P160	0.001	72	0%	97	18.6%	1	0%	-	-	-	NULL
RAB34	83871	genome.wustl.edu	37	17	27041670	27041670	+	Silent	SNP	A	A	G	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001144943.1	-1	validated	p.C314	1.000	96	0%	152	24.3%	220	15.9%	-	-	-	superfamily_P-loop containing nucleoside triphosphate hydrolases
RPL23A	6147	genome.wustl.edu	37	17	27047361	27047361	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	ENST00000394938	+1	known	p.P18T	0.000	13	0%	26	30.8%	3	33.3%	unknown(0)	-	-	NULL
NEK8	284086	genome.wustl.edu	37	17	27068482	27068482	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_178170.2	+1	reviewed	p.R648K	0.994	160	0%	282	22.7%	4	0%	benign(0)	tolerated(0.98)	-	superfamily_RCC1/BLIP-II
TRAF4	9618	genome.wustl.edu	37	17	27076452	27076452	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_004295.3	+1	reviewed	p.R424W	0.998	98	0%	123	16.3%	123	6.5%	probably_damaging(0.999)	deleterious(0)	deleterious(0.935)	HMMPfam_MATH,HMMSmart_SM00061,superfamily_TRAF domain-like
FLOT2	2319	genome.wustl.edu	37	17	27208318	27208318	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_004475.2	-1	reviewed	p.I330	0.927	81	0%	66	25.8%	35	11.4%	-	-	-	NULL
DHRS13	147015	genome.wustl.edu	37	17	27228107	27228107	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_144683.3	-1	validated	p.R195W	0.996	26	0%	57	12.3%	4	0%	probably_damaging(0.996)	deleterious(0.02)	deleterious(0.845)	superfamily_NAD(P)-binding Rossmann-fold domains
PHF12	57649	genome.wustl.edu	37	17	27248715	27248715	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001033561.1	-1	validated	p.T276M	0.996	413	0%	209	27.8%	5	0%	probably_damaging(1)	tolerated(0.07)	deleterious(0.819)	HMMSmart_SM00249,superfamily_FYVE/PHD zinc finger,HMMPfam_PHD
SEZ6	124925	genome.wustl.edu	37	17	27283748	27283748	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_178860.4	-1	validated	p.R907H	1.000	94	0%	109	15.6%	0	-	possibly_damaging(0.715)	tolerated(0.54)	neutral(0.267)	NULL
MYO18A	399687	genome.wustl.edu	37	17	27493700	27493700	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_078471.3	-1	validated	p.R87W	1.000	95	0%	177	28.8%	1	0%	probably_damaging(0.999)	deleterious(0)	deleterious(0.935)	NULL
CRYBA1	1411	genome.wustl.edu	37	17	27576225	27576225	+	Splice_Site	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_005208.4	+1	reviewed	e2+1	1.000	95	0%	53	34%	0	-	-	-	-	-
TAOK1	57551	genome.wustl.edu	37	17	27825382	27825382	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_020791.1	+1	validated	p.G349E	1.000	241	0%	89	14.6%	1	0%	benign(0.033)	tolerated(1)	neutral(0.002)	superfamily_Protein kinase-like (PK-like)
TAOK1	57551	genome.wustl.edu	37	17	27844579	27844579	+	Nonsense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_020791.1	+1	validated	p.R605*	0.994	280	0.4%	130	26.9%	1	0%	-	-	-	superfamily_Protein kinase-like (PK-like)
TP53I13	90313	genome.wustl.edu	37	17	27896080	27896080	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_138349.2	+1	provisional	p.E39D	0.985	18	0%	18	22.2%	47	19.1%	probably_damaging(0.974)	deleterious(0)	deleterious(0.861)	NULL
ANKRD13B	124930	genome.wustl.edu	37	17	27935940	27935940	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_152345.4	+1	validated	p.D165Y	1.000	73	0%	125	28%	0	-	probably_damaging(1)	deleterious(0)	deleterious(0.945)	NULL
CORO6	84940	genome.wustl.edu	37	17	27945913	27945913	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_032854.3	-1	validated	p.D176	1.000	83	0%	124	21%	0	-	-	-	-	HMMSmart_SM00320,superfamily_WD40 repeat-like,HMMPfam_WD40
SSH2	85464	genome.wustl.edu	37	17	27963457	27963457	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_033389.2	-1	reviewed	p.C570	1.000	166	0%	65	18.5%	1	0%	-	-	-	NULL
EFCAB5	374786	genome.wustl.edu	37	17	28407969	28407969	+	Silent	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_198529.3	+1	validated	p.I1132	1.000	195	0.5%	75	22.7%	0	-	-	-	-	NULL
EFCAB5	374786	genome.wustl.edu	37	17	28417528	28417528	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_198529.3	+1	validated	p.R1258I	0.520	227	0%	97	15.5%	0	-	benign(0.091)	tolerated(0.16)	neutral(0.066)	NULL
EFCAB5	374786	genome.wustl.edu	37	17	28417655	28417655	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_198529.3	+1	validated	p.G1300	0.344	325	0.9%	116	20.7%	0	-	-	-	-	NULL
NSRP1	84081	genome.wustl.edu	37	17	28499576	28499576	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_032141.2	+1	validated	p.S44I	1.000	164	0%	38	18.4%	8	0%	probably_damaging(1)	deleterious(0.01)	deleterious(0.905)	NULL
BLMH	642	genome.wustl.edu	37	17	28593914	28593914	+	Missense_Mutation	SNP	T	T	G	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_000386.2	-1	reviewed	p.H402P	1.000	232	0%	55	30.9%	19	10.5%	benign(0.052)	tolerated(0.28)	neutral(0.035)	HMMPfam_Peptidase_C1_2,superfamily_Cysteine proteinases
TMIGD1	388364	genome.wustl.edu	37	17	28651987	28651987	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_206832.1	-1	provisional	p.D163N	0.012	280	0%	56	14.3%	0	-	benign(0.002)	tolerated(0.56)	neutral(0.006)	HMMSmart_SM00408,HMMSmart_SM00409,HMMPfam_ig,superfamily_Immunoglobulin
TMIGD1	388364	genome.wustl.edu	37	17	28656293	28656293	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_206832.1	-1	provisional	p.V113I	0.044	264	0.4%	60	26.7%	0	-	benign(0)	tolerated(0.42)	neutral(0.014)	HMMSmart_SM00409,superfamily_Immunoglobulin
GOSR1	9527	genome.wustl.edu	37	17	28846981	28846981	+	Silent	SNP	T	T	C	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_004871.2	+1	reviewed	p.N190	1.000	365	0.5%	410	29.8%	20	25%	-	-	-	HMMPfam_V-SNARE
TBC1D29	26083	genome.wustl.edu	37	17	28890281	28890281	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	ENST00000378698	+1	known	p.R81H	0.857	82	0%	66	18.2%	0	-	unknown(0)	-	-	NULL
ENSG00000247185	0	genome.wustl.edu	37	17	29062072	29062072	+	RNA	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	ENST00000499895	+1	known	NULL	1.000	613	0%	795	21.6%	9	0%	-	-	-	-
ATAD5	79915	genome.wustl.edu	37	17	29161991	29161991	+	Missense_Mutation	SNP	G	G	A	rs186417181	by1000genomes	TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_024857.3	+1	provisional	p.E298K	0.762	55	0%	50	32%	0	-	benign(0.004)	deleterious(0)	neutral(0.445)	NULL
ATAD5	79915	genome.wustl.edu	37	17	29221688	29221688	+	Nonsense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_024857.3	+1	provisional	p.R1802*	0.995	350	0.3%	172	23.8%	0	-	-	-	-	NULL
TEFM	79736	genome.wustl.edu	37	17	29227556	29227556	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_024683.3	-1	validated	p.V174I	1.000	194	0%	189	20.1%	4	25%	probably_damaging(0.99)	tolerated(0.44)	neutral(0.454)	superfamily_Ribonuclease H-like
ADAP2	55803	genome.wustl.edu	37	17	29258929	29258929	+	Nonsense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_018404.2	+1	validated	p.R114*	1.000	339	0.3%	275	16.4%	0	-	-	-	-	HMMPfam_ArfGap,HMMSmart_SM00105,superfamily_Pyk2-associated protein beta ARF-GAP domain
RNF135	84282	genome.wustl.edu	37	17	29311659	29311659	+	Nonsense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_032322.3	+1	reviewed	p.E133*	0.001	236	0%	236	14.4%	2	50%	-	-	-	NULL
NF1	4763	genome.wustl.edu	37	17	29490382	29490382	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001042492.2	+1	reviewed	p.R156H	1.000	139	0%	20	25%	1	0%	probably_damaging(1)	tolerated(0.1)	deleterious(0.786)	NULL
NF1	4763	genome.wustl.edu	37	17	29508500	29508500	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001042492.2	+1	reviewed	p.L216P	1.000	264	0%	123	22%	0	-	probably_damaging(0.999)	deleterious(0)	deleterious(0.935)	NULL
NF1	4763	genome.wustl.edu	37	17	29560099	29560099	+	Missense_Mutation	SNP	A	A	C	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001042492.2	+1	reviewed	p.E1192D	1.000	245	0%	71	15.5%	1	0%	possibly_damaging(0.756)	deleterious(0.03)	deleterious(0.643)	HMMSmart_SM00323
NF1	4763	genome.wustl.edu	37	17	29585394	29585394	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001042492.2	+1	reviewed	p.I1402	1.000	229	0%	49	32.7%	1	0%	-	-	-	HMMPfam_RasGAP,HMMSmart_SM00323,superfamily_GTPase activation domain GAP
NF1	4763	genome.wustl.edu	37	17	29676187	29676187	+	Silent	SNP	A	A	G	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001042492.2	+1	reviewed	p.L2413	0.998	375	0%	495	22.2%	2	0%	-	-	-	NULL
NF1	4763	genome.wustl.edu	37	17	29677227	29677227	+	Nonsense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001042492.2	+1	reviewed	p.R2450*	1.000	464	0%	402	24.9%	2	0%	-	-	-	NULL
RAB11FIP4	84440	genome.wustl.edu	37	17	29761112	29761112	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_032932.3	+1	validated	p.A103V	0.001	41	0%	46	19.6%	0	-	benign(0.014)	tolerated(0.08)	neutral(0.300)	NULL
RAB11FIP4	84440	genome.wustl.edu	37	17	29848964	29848964	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_032932.3	+1	validated	p.V264M	0.008	177	0%	175	33.7%	3	33.3%	benign(0.003)	tolerated(0.37)	neutral(0.019)	NULL
UTP6	55813	genome.wustl.edu	37	17	30219299	30219299	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_018428.2	-1	validated	p.A135V	1.000	209	0%	96	12.5%	5	0%	probably_damaging(0.981)	deleterious(0.02)	deleterious(0.808)	HMMSmart_HAT,superfamily_SSF48452
SUZ12	23512	genome.wustl.edu	37	17	30293214	30293214	+	Silent	SNP	T	T	C	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_015355.2	+1	reviewed	p.N168	1.000	255	0%	88	13.6%	5	0%	-	-	-	NULL
SUZ12	23512	genome.wustl.edu	37	17	30315353	30315353	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_015355.2	+1	reviewed	p.F346	1.000	197	0%	87	17.2%	3	0%	-	-	-	NULL
LRRC37B	114659	genome.wustl.edu	37	17	30349055	30349055	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_052888.2	+1	validated	p.P297H	0.001	90	0%	78	26.9%	0	-	probably_damaging(1)	deleterious(0)	deleterious(0.945)	NULL
RHOT1	55288	genome.wustl.edu	37	17	30534038	30534038	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001033568.1	+1	validated	p.R509M	1.000	490	0%	115	17.4%	13	0%	possibly_damaging(0.609)	deleterious(0.04)	deleterious(0.560)	HMMPfam_Miro,superfamily_SSF52540
C17orf75	64149	genome.wustl.edu	37	17	30666847	30666847	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_022344.2	-1	validated	p.A111V	1.000	237	0%	349	14%	10	10%	benign(0.183)	tolerated(0.29)	neutral(0.046)	NULL
PSMD11	5717	genome.wustl.edu	37	17	30807572	30807572	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_002815.2	+1	reviewed	p.E398K	1.000	242	0%	251	22.7%	72	26.3%	benign(0.012)	tolerated(0.35)	neutral(0.021)	"HMMSmart_SM00088,superfamily_""Winged helix"" DNA-binding domain"
CDK5R1	8851	genome.wustl.edu	37	17	30814875	30814875	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_003885.2	+1	reviewed	p.T79	1.000	44	0%	97	12.4%	0	-	-	-	-	HMMPfam_CDK5_activator
MYO1D	4642	genome.wustl.edu	37	17	30986265	30986265	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_015194.1	-1	provisional	p.S738L	1.000	119	0%	36	27.8%	4	25%	benign(0.016)	tolerated(0.11)	neutral(0.272)	superfamily_P-loop containing nucleoside triphosphate hydrolases
MYO1D	4642	genome.wustl.edu	37	17	31048192	31048192	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_015194.1	-1	provisional	p.R588C	1.000	222	0.5%	67	17.9%	3	0%	probably_damaging(1)	deleterious(0)	deleterious(0.945)	HMMPfam_Myosin_head,HMMSmart_SM00242,superfamily_P-loop containing nucleoside triphosphate hydrolases
TMEM98	26022	genome.wustl.edu	37	17	31260262	31260262	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001033504.1	+1	validated	p.V68I	1.000	282	0%	267	10.9%	57	0%	benign(0.301)	tolerated(0.21)	neutral(0.137)	NULL
ENSG00000226049	0	genome.wustl.edu	37	17	32365496	32365496	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	ENST00000430493	-1	known	p.V408A	1.000	445	0%	747	24%	2	0%	-	-	-	HMMSmart_SM00219,HMMSmart_SM00220,superfamily_Protein kinase-like (PK-like),PatternScan_PROTEIN_KINASE_ATP,HMMPfam_Pkinase
ASIC2	40	genome.wustl.edu	37	17	32483430	32483430	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001094.4	-1	reviewed	p.R41Q	1.000	63	0%	87	25.3%	0	-	possibly_damaging(0.81)	deleterious(0.04)	deleterious(0.654)	HMMPfam_ASC
CCL7	6354	genome.wustl.edu	37	17	32597377	32597377	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_006273.2	+1	reviewed	p.A23V	0.759	140	0%	36	22.2%	0	-	unknown(0)	-	-	NULL
TMEM132E	124842	genome.wustl.edu	37	17	32959925	32959925	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_207313.1	+1	provisional	p.R472Q	0.985	65	0%	75	28%	1	0%	probably_damaging(1)	tolerated(0.2)	deleterious(0.549)	NULL
CCT6B	10693	genome.wustl.edu	37	17	33258004	33258004	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_006584.2	-1	reviewed	p.E472K	0.971	410	0%	92	31.5%	5	60%	benign(0)	tolerated(0.24)	neutral(0.037)	HMMPfam_Cpn60_TCP1,superfamily_GroEL equatorial domain-like
LIG3	3980	genome.wustl.edu	37	17	33318730	33318730	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_013975.2	+1	reviewed	p.S361I	1.000	116	0%	87	31%	5	0%	probably_damaging(0.988)	deleterious(0)	deleterious(0.882)	HMMPfam_DNA_ligase_A_N
LIG3	3980	genome.wustl.edu	37	17	33324836	33324836	+	Nonsense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_013975.2	+1	reviewed	p.R635*	1.000	207	0%	80	16.3%	2	0%	-	-	-	HMMPfam_DNA_ligase_A_M,superfamily_DNA ligase/mRNA capping enzyme catalytic domain
NLE1	54475	genome.wustl.edu	37	17	33464601	33464601	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_018096.3	-1	validated	p.S199I	1.000	77	0%	131	22.9%	7	14.2%	benign(0.269)	tolerated(0.06)	neutral(0.351)	HMMSmart_SM00320,superfamily_WD40 repeat-like,HMMPfam_WD40
UNC45B	146862	genome.wustl.edu	37	17	33481741	33481741	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_173167.2	+1	validated	p.C207Y	1.000	65	0%	78	24.4%	0	-	probably_damaging(1)	deleterious(0)	deleterious(0.945)	HMMSmart_SM00185,superfamily_ARM repeat
UNC45B	146862	genome.wustl.edu	37	17	33495369	33495369	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_173167.2	+1	validated	p.R481C	1.000	84	0%	44	13.6%	0	-	probably_damaging(1)	deleterious(0)	deleterious(0.945)	superfamily_ARM repeat
UNC45B	146862	genome.wustl.edu	37	17	33496898	33496898	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_173167.2	+1	validated	p.L499I	1.000	106	0%	57	12.3%	0	-	possibly_damaging(0.645)	tolerated(0.91)	neutral(0.226)	superfamily_ARM repeat
UNC45B	146862	genome.wustl.edu	37	17	33510534	33510534	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_173167.2	+1	validated	p.A823V	0.832	151	0%	100	25%	0	-	probably_damaging(0.957)	deleterious(0)	deleterious(0.845)	HMMSmart_SM00185,superfamily_ARM repeat
SLC35G3	146861	genome.wustl.edu	37	17	33520594	33520594	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_152462.2	-1	validated	p.V245M	0.992	251	0.4%	342	11.7%	0	-	possibly_damaging(0.774)	deleterious(0.03)	deleterious(0.653)	superfamily_Multidrug resistance efflux transporter EmrE
SLC35G3	146861	genome.wustl.edu	37	17	33520948	33520948	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_152462.2	-1	validated	p.A127T	0.991	95	1.1%	164	26.8%	0	-	benign(0)	tolerated(0.45)	neutral(0.012)	HMMPfam_DUF6,superfamily_Multidrug resistance efflux transporter EmrE
SLFN5	162394	genome.wustl.edu	37	17	33585809	33585809	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_144975.3	+1	validated	p.R34C	0.000	148	0%	73	19.2%	1	100%	possibly_damaging(0.665)	tolerated(0.13)	deleterious(0.488)	NULL
SLFN11	91607	genome.wustl.edu	37	17	33680076	33680076	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001104587.1	-1	validated	p.E669K	0.992	474	0.4%	238	25.6%	5	0%	probably_damaging(0.999)	deleterious(0)	deleterious(0.935)	superfamily_P-loop containing nucleoside triphosphate hydrolases
SLFN11	91607	genome.wustl.edu	37	17	33680777	33680777	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001104587.1	-1	validated	p.N500	0.622	113	0%	53	15.1%	2	0%	-	-	-	NULL
SLFN11	91607	genome.wustl.edu	37	17	33690471	33690471	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001104587.1	-1	validated	p.R119H	0.000	140	0.7%	71	14.1%	1	0%	possibly_damaging(0.593)	tolerated(0.12)	neutral(0.466)	NULL
SLFN12	55106	genome.wustl.edu	37	17	33738751	33738751	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_018042.3	-1	validated	p.S448F	0.000	330	0%	332	26.8%	3	33.3%	possibly_damaging(0.926)	deleterious(0)	deleterious(0.819)	NULL
SLFN12	55106	genome.wustl.edu	37	17	33749043	33749043	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_018042.3	-1	validated	p.K335N	0.198	254	0.4%	127	19.7%	0	-	benign(0.075)	tolerated(0.13)	neutral(0.258)	NULL
SLFN12	55106	genome.wustl.edu	37	17	33749390	33749390	+	Nonsense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_018042.3	-1	validated	p.E220*	0.550	295	0%	115	10.4%	0	-	-	-	-	NULL
SLFN12L	100506736	genome.wustl.edu	37	17	33806931	33806931	+	Missense_Mutation	SNP	A	A	C	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001145027.1	-1	validated	p.S129A	0.001	367	0%	276	10.5%	0	-	possibly_damaging(0.764)	tolerated(0.17)	neutral(0.342)	NULL
SLFN12L	100506736	genome.wustl.edu	37	17	33849395	33849395	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001145027.1	-1	validated	p.A2T	0.346	295	0%	123	20.3%	1	0%	unknown(0)	deleterious(0)	-	NULL
RASL10B	91608	genome.wustl.edu	37	17	34068162	34068162	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_033315.3	+1	validated	p.T150	1.000	16	0%	38	21.1%	0	-	-	-	-	superfamily_SSF52540
GAS2L2	246176	genome.wustl.edu	37	17	34072356	34072356	+	Silent	SNP	T	T	C	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_139285.2	-1	validated	p.P720	0.002	75	0%	126	21.4%	1	0%	-	-	-	NULL
GAS2L2	246176	genome.wustl.edu	37	17	34072652	34072652	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_139285.2	-1	validated	p.P622S	0.000	57	0%	88	31.8%	1	0%	benign(0.052)	deleterious(0.03)	neutral(0.367)	NULL
MMP28	79148	genome.wustl.edu	37	17	34094838	34094838	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_024302.3	-1	reviewed	p.S367L	0.265	83	0%	130	23.8%	3	0%	-	-	-	NULL
TAF15	8148	genome.wustl.edu	37	17	34173939	34173939	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_139215.1	+1	reviewed	p.R590Q	1.000	514	0%	178	28.7%	174	21.8%	unknown(0)	deleterious(0.03)	-	NULL
C17orf66	256957	genome.wustl.edu	37	17	34192271	34192271	+	Nonsense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_152781.2	-1	validated	p.R90*	0.000	636	0%	282	11%	0	-	-	-	-	NULL
PIGW	284098	genome.wustl.edu	37	17	34893859	34893859	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_178517.3	+1	validated	p.R303	1.000	134	0.7%	254	27.6%	4	0%	-	-	-	HMMPfam_GWT1
GGNBP2	79893	genome.wustl.edu	37	17	34912979	34912979	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_024835.2	+1	validated	p.R77	1.000	465	0%	260	12.3%	14	0%	-	-	-	NULL
DHRS11	79154	genome.wustl.edu	37	17	34956119	34956119	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_024308.3	+1	validated	p.V201A	1.000	80	0%	136	14%	9	0%	probably_damaging(1)	deleterious(0)	deleterious(0.945)	superfamily_NAD(P)-binding Rossmann-fold domains
LHX1	3975	genome.wustl.edu	37	17	35300411	35300411	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_005568.2	+1	reviewed	p.E402K	1.000	9	0.000	17	0.294	0	-	probably_damaging(0.996)	deleterious(0)	deleterious(0.906)	NULL
AATF	26574	genome.wustl.edu	37	17	35310249	35310249	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_012138.3	+1	reviewed	p.E116G	0.094	334	0%	432	13.7%	26	0%	benign(0)	tolerated(0.51)	neutral(0.009)	NULL
ACACA	31	genome.wustl.edu	37	17	35656252	35656252	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_198837.1	-1	reviewed	p.E2	1.000	304	0%	69	20.3%	0	-	-	-	-	NULL
TADA2A	6871	genome.wustl.edu	37	17	35836997	35836997	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001488.3	+1	reviewed	p.A414	0.373	296	0%	158	13.9%	12	0%	-	-	-	HMMPfam_SWIRM
HNF1B	6928	genome.wustl.edu	37	17	36099531	36099531	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_000458.2	-1	reviewed	p.S148	0.006	286	0.3%	340	10.3%	1	100%	-	-	-	HMMPfam_HNF-1_N,superfamily_lambda repressor-like DNA-binding domains
GPR179	440435	genome.wustl.edu	37	17	36483199	36483199	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001004334.2	-1	validated	p.L2085	0.000	198	0%	182	13.7%	0	-	-	-	-	NULL
GPR179	440435	genome.wustl.edu	37	17	36484445	36484445	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001004334.2	-1	validated	p.E1669D	0.000	238	0%	248	16.1%	0	-	benign(0.001)	tolerated(0.41)	neutral(0.015)	NULL
GPR179	440435	genome.wustl.edu	37	17	36484565	36484565	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001004334.2	-1	validated	p.I1629	0.000	184	0%	225	24.9%	0	-	-	-	-	NULL
GPR179	440435	genome.wustl.edu	37	17	36490633	36490633	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001004334.2	-1	validated	p.A580T	1.000	67	0%	100	19%	0	-	probably_damaging(1)	deleterious(0.02)	deleterious(0.883)	HMMPfam_7tm_3
SOCS7	30837	genome.wustl.edu	37	17	36522287	36522287	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_014598.1	+1	validated	p.R393Q	1.000	90	0%	66	28.8%	0	-	possibly_damaging(0.666)	deleterious(0.04)	deleterious(0.585)	superfamily_SH2 domain
ARHGAP23	57636	genome.wustl.edu	37	17	36623470	36623470	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_020876.1	+1	provisional	p.E422K	0.978	32	0%	59	37.3%	2	0%	benign(0.341)	deleterious(0.01)	deleterious(0.513)	NULL
ARHGAP23	57636	genome.wustl.edu	37	17	36623545	36623545	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_020876.1	+1	provisional	p.D447Y	1.000	59	0%	84	28.6%	4	0%	probably_damaging(0.998)	deleterious(0)	deleterious(0.919)	NULL
SRCIN1	80725	genome.wustl.edu	37	17	36707616	36707616	+	Nonsense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_025248.2	-1	validated	p.R913*	1.000	30	0%	43	23.3%	0	-	-	-	-	NULL
SRCIN1	80725	genome.wustl.edu	37	17	36716320	36716320	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_025248.2	-1	validated	p.G603C	1.000	36	0%	67	23.9%	0	-	possibly_damaging(0.834)	tolerated(0.05)	deleterious(0.663)	NULL
MLLT6	4302	genome.wustl.edu	37	17	36873736	36873736	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_005937.3	+1	validated	p.R568Q	1.000	13	0%	31	22.6%	4	0%	probably_damaging(0.994)	tolerated(0.21)	deleterious(0.496)	NULL
PLXDC1	57125	genome.wustl.edu	37	17	37265501	37265501	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_020405.4	-1	validated	p.S133	1.000	87	0%	38	13.2%	1	0%	-	-	-	NULL
ARL5C	390790	genome.wustl.edu	37	17	37321998	37321998	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001143968.1	-1	provisional	p.A6T	0.852	96	0%	161	21.7%	0	-	benign(0.006)	tolerated(0.4)	neutral(0.016)	HMMPfam_Arf
CACNB1	782	genome.wustl.edu	37	17	37347838	37347838	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_000723.3	-1	reviewed	p.A60	0.270	117	0%	111	22.5%	1	0%	-	-	-	NULL
STAC2	342667	genome.wustl.edu	37	17	37373088	37373088	+	Silent	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_198993.3	-1	validated	p.A187	0.446	259	0%	373	20.4%	0	-	-	-	-	NULL
MED1	5469	genome.wustl.edu	37	17	37565090	37565090	+	Silent	SNP	A	A	G	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_004774.3	-1	reviewed	p.S1128	0.992	197	0%	219	27.9%	5	20%	-	-	-	NULL
MED1	5469	genome.wustl.edu	37	17	37566109	37566109	+	Nonsense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_004774.3	-1	reviewed	p.E789*	1.000	235	0%	193	15.5%	3	66.6%	-	-	-	NULL
MED1	5469	genome.wustl.edu	37	17	37587411	37587411	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_004774.3	-1	reviewed	p.K202N	1.000	328	0%	134	12.7%	2	0%	unknown(0)	tolerated(0.21)	-	HMMPfam_Med1-Trap220
STARD3	10948	genome.wustl.edu	37	17	37814673	37814673	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_006804.3	+1	reviewed	p.A149T	1.000	126	0%	150	18.7%	29	17.2%	probably_damaging(0.999)	tolerated(0.11)	deleterious(0.762)	HMMPfam_MENTAL
GRB7	2886	genome.wustl.edu	37	17	37900339	37900339	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001030002.1	+1	reviewed	p.G227D	1.000	117	0.9%	171	28.7%	18	55.5%	probably_damaging(1)	tolerated(0.11)	deleterious(0.772)	superfamily_PH domain-like
GSDMB	55876	genome.wustl.edu	37	17	38062218	38062218	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	ENST00000420491	-1	known	p.P235L	0.000	133	0%	63	20.6%	27	22.2%	-	-	-	HMMPfam_Gasdermin
ORMDL3	94103	genome.wustl.edu	37	17	38080352	38080352	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_139280.1	-1	provisional	p.I35	0.976	99	0%	141	12.1%	20	5%	-	-	-	HMMPfam_ORMDL
PSMD3	5709	genome.wustl.edu	37	17	38140575	38140575	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_002809.2	+1	reviewed	p.E83D	1.000	97	0%	120	23.3%	19	10.5%	benign(0.294)	tolerated(0.21)	neutral(0.135)	superfamily_TPR-like
PSMD3	5709	genome.wustl.edu	37	17	38152550	38152550	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_002809.2	+1	reviewed	p.R479C	1.000	160	0.6%	125	24.8%	163	21.4%	probably_damaging(1)	deleterious(0)	deleterious(0.945)	HMMSmart_SM00088,HMMPfam_Rpn3_C
MED24	9862	genome.wustl.edu	37	17	38176172	38176172	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_014815.3	-1	reviewed	p.L907F	1.000	120	0%	148	17.6%	70	32.8%	probably_damaging(0.997)	deleterious(0.04)	deleterious(0.815)	NULL
ENSG00000246237	0	genome.wustl.edu	37	17	38209477	38209477	+	RNA	SNP	C	C	T	rs189824593	by1000genomes	TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	ENST00000501516	+1	novel	NULL	0.001	133	0.8%	87	23%	1	0%	-	-	-	-
THRA	7067	genome.wustl.edu	37	17	38230786	38230786	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_003250.4	+1	reviewed	p.E15D	1.000	226	0.4%	314	27.4%	8	12.5%	benign(0.001)	tolerated(0.09)	neutral(0.296)	NULL
CASC3	22794	genome.wustl.edu	37	17	38324583	38324583	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_007359.4	+1	reviewed	p.G626	0.586	368	0.3%	278	24.1%	19	0%	-	-	-	NULL
ENSG00000245085	0	genome.wustl.edu	37	17	38497209	38497209	+	RNA	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	ENST00000501561	-1	known	NULL	0.039	264	0%	487	11.9%	22	31.8%	-	-	-	-
TNS4	84951	genome.wustl.edu	37	17	38644926	38644926	+	Silent	SNP	A	A	G	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_032865.5	-1	validated	p.G245	0.005	18	0%	15	33.3%	1	0%	-	-	-	NULL
CCR7	1236	genome.wustl.edu	37	17	38711780	38711780	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001838.2	-1	reviewed	p.S117	0.712	61	0%	36	30.6%	3	0%	-	-	-	HMMPfam_7tm_1,superfamily_Family A G protein-coupled receptor-like
CCR7	1236	genome.wustl.edu	37	17	38715178	38715178	+	Silent	SNP	G	G	A	rs193282140	by1000genomes	TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001838.2	-1	reviewed	p.S9	0.002	140	0%	90	10%	3	0%	-	-	-	NULL
SMARCE1	6605	genome.wustl.edu	37	17	38792236	38792236	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_003079.4	-1	reviewed	p.R163H	1.000	558	0%	214	17.8%	86	20.9%	benign(0.192)	tolerated(0.08)	neutral(0.318)	NULL
KRT26	353288	genome.wustl.edu	37	17	38928071	38928071	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_181539.4	-1	reviewed	p.D99Y	1.000	217	0%	155	11%	0	-	probably_damaging(0.957)	deleterious(0)	deleterious(0.845)	HMMPfam_Filament
KRT26	353288	genome.wustl.edu	37	17	38928285	38928285	+	Silent	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_181539.4	-1	reviewed	p.G27	0.430	66	0%	55	12.7%	0	-	-	-	-	NULL
KRT28	162605	genome.wustl.edu	37	17	38953498	38953498	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_181535.3	-1	reviewed	p.N242	1.000	99	0%	92	13%	0	-	-	-	-	HMMPfam_Filament
TMEM99	147184	genome.wustl.edu	37	17	38991257	38991257	+	Nonsense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_145274.2	+1	validated	p.W163*	0.000	118	0%	61	21.3%	11	54.5%	-	-	-	NULL
KRT23	25984	genome.wustl.edu	37	17	39084494	39084494	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_015515.3	-1	reviewed	p.S306I	0.642	316	0%	236	24.2%	24	54.1%	possibly_damaging(0.952)	deleterious(0)	deleterious(0.840)	HMMPfam_Filament
KRT23	25984	genome.wustl.edu	37	17	39084770	39084770	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_015515.3	-1	reviewed	p.E242D	0.908	318	0%	204	18.1%	16	62.5%	benign(0.009)	tolerated(0.32)	neutral(0.025)	HMMPfam_Filament
KRT39	390792	genome.wustl.edu	37	17	39118658	39118658	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_213656.3	-1	reviewed	p.T289M	0.000	510	0%	145	24.1%	0	-	probably_damaging(0.996)	tolerated(0.15)	deleterious(0.703)	HMMPfam_Filament
KRT40	125115	genome.wustl.edu	37	17	39138558	39138558	+	Splice_Site	SNP	C	C	G	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_182497.3	-1	reviewed	e3+1	1.000	206	0%	63	12.7%	0	-	-	-	-	-
KRTAP4-12	83755	genome.wustl.edu	37	17	39279858	39279858	+	Silent	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_031854.2	-1	reviewed	p.R173	0.270	117	0%	199	29.6%	0	-	-	-	-	NULL
KRTAP4-6	81871	genome.wustl.edu	37	17	39296594	39296594	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	ENST00000345847	-1	known	p.Q49R	0.000	51	0%	70	17.1%	0	-	unknown(0)	tolerated(0.06)	-	HMMPfam_Keratin_B2
KRTAP4-5	85289	genome.wustl.edu	37	17	39305852	39305852	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_033188.3	-1	reviewed	p.C56	0.197	43	0%	54	20.4%	0	-	-	-	-	PatternScan_TNFR_NGFR_1,HMMPfam_Keratin_B2
KRTAP4-1	85285	genome.wustl.edu	37	17	39340926	39340926	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_033060.2	-1	reviewed	p.R61C	0.000	56	0%	76	27.6%	0	-	probably_damaging(0.988)	deleterious(0.05)	deleterious(0.783)	HMMPfam_Keratin_B2
KRTAP9-8	83901	genome.wustl.edu	37	17	39394441	39394441	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_031963.2	+1	reviewed	p.C46	0.662	112	0%	62	45.2%	0	-	-	-	-	HMMPfam_Keratin_B2
KRTAP9-4	85280	genome.wustl.edu	37	17	39406256	39406256	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_033191.2	+1	reviewed	p.S95F	0.012	260	0%	142	23.9%	0	-	unknown(0)	deleterious(0)	-	HMMPfam_Keratin_B2
KRT31	3881	genome.wustl.edu	37	17	39550388	39550388	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_002277.2	-1	reviewed	p.A377	0.000	198	0%	242	24.8%	0	-	-	-	-	NULL
KRT31	3881	genome.wustl.edu	37	17	39551859	39551859	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_002277.2	-1	reviewed	p.R202H	0.990	148	0%	198	21.7%	0	-	benign(0.074)	deleterious(0)	neutral(0.450)	HMMPfam_Filament
KRT31	3881	genome.wustl.edu	37	17	39553714	39553714	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_002277.2	-1	reviewed	p.C26	0.999	54	0%	66	10.6%	0	-	-	-	-	NULL
KRT37	8688	genome.wustl.edu	37	17	39579061	39579061	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_003770.4	-1	reviewed	p.E234G	1.000	54	0%	31	38.7%	0	-	probably_damaging(0.996)	deleterious(0)	deleterious(0.906)	HMMPfam_Filament
KRT32	3882	genome.wustl.edu	37	17	39623421	39623421	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_002278.3	-1	reviewed	p.P53S	0.354	35	0%	21	38.1%	0	-	possibly_damaging(0.728)	tolerated(0.25)	neutral(0.302)	NULL
KRT35	3886	genome.wustl.edu	37	17	39637118	39637118	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_002280.4	-1	reviewed	p.A78T	0.105	46	2.2%	46	19.6%	0	-	benign(0)	tolerated(0.59)	neutral(0.004)	NULL
KRT35	3886	genome.wustl.edu	37	17	39637262	39637262	+	Missense_Mutation	SNP	C	C	T	rs139838007	by1000genomes	TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_002280.4	-1	reviewed	p.A30T	0.000	62	0%	49	24.5%	0	-	benign(0)	tolerated(0.69)	neutral(0.002)	NULL
KRT13	3860	genome.wustl.edu	37	17	39659586	39659586	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_153490.2	-1	reviewed	p.E230K	1.000	262	0%	154	17.5%	0	-	probably_damaging(0.998)	deleterious(0)	deleterious(0.919)	superfamily_Prefoldin,HMMPfam_Filament
KRT13	3860	genome.wustl.edu	37	17	39661662	39661662	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_153490.2	-1	reviewed	p.G47	0.000	490	0.2%	335	26.9%	0	-	-	-	-	NULL
KRT15	3866	genome.wustl.edu	37	17	39672409	39672409	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_002275.3	-1	reviewed	p.E283K	1.000	103	0%	93	12.9%	1	100%	probably_damaging(1)	deleterious(0)	deleterious(0.945)	superfamily_Prefoldin,HMMPfam_Filament
KRT14	3861	genome.wustl.edu	37	17	39742623	39742623	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_000526.4	-1	reviewed	p.R155Q	0.900	289	0%	436	25.9%	0	-	possibly_damaging(0.864)	tolerated(0.49)	neutral(0.345)	HMMPfam_Filament
KRT16	3868	genome.wustl.edu	37	17	39767654	39767654	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_005557.3	-1	reviewed	p.E238D	1.000	122	0%	150	10.7%	0	-	probably_damaging(0.999)	deleterious(0)	deleterious(0.935)	HMMPfam_Filament
KRT17	3872	genome.wustl.edu	37	17	39778707	39778707	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_000422.2	-1	reviewed	p.R191H	1.000	95	0%	157	13.4%	29	6.8%	probably_damaging(0.999)	deleterious(0.03)	deleterious(0.855)	HMMPfam_Filament
GAST	2520	genome.wustl.edu	37	17	39871857	39871857	+	Nonsense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_000805.3	+1	reviewed	p.R57*	0.874	69	0%	41	9.8%	1	0%	-	-	-	HMMPfam_Gastrin
FKBP10	60681	genome.wustl.edu	37	17	39975644	39975644	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_021939.3	+1	reviewed	p.D304N	1.000	62	0%	71	9.9%	25	0%	probably_damaging(1)	deleterious(0)	deleterious(0.945)	HMMPfam_FKBP_C,superfamily_SSF54534
ACLY	47	genome.wustl.edu	37	17	40025305	40025305	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001096.2	-1	reviewed	p.S1042F	1.000	291	0%	371	22.1%	33	18.1%	benign(0.158)	tolerated(0.22)	neutral(0.056)	superfamily_Citrate_synthase_core
ACLY	47	genome.wustl.edu	37	17	40027967	40027967	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001096.2	-1	reviewed	p.M971T	1.000	222	0%	310	12.9%	38	0%	benign(0.141)	tolerated(0.19)	neutral(0.061)	superfamily_Citrate_synthase_core
TTC25	83538	genome.wustl.edu	37	17	40117080	40117080	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	ENST00000377543	+1	known	p.E533G	0.474	160	0%	261	30.7%	5	20%	-	-	-	NULL
TTC25	83538	genome.wustl.edu	37	17	40117121	40117121	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	ENST00000377543	+1	known	p.E547K	0.002	148	0%	272	12.1%	5	0%	-	-	-	NULL
TTC25	83538	genome.wustl.edu	37	17	40117196	40117196	+	Nonsense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	ENST00000377543	+1	known	p.G572*	0.001	187	0%	322	15.5%	2	50%	-	-	-	NULL
LOC100287830	100287830	genome.wustl.edu	37	17	40120643	40120643	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	XM_002343557.1	-1	model	p.R132W	0.856	29	0%	61	26.2%	22	9%	-	-	-	NULL
NKIRAS2	28511	genome.wustl.edu	37	17	40174518	40174518	+	Nonsense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001001349.2	+1	validated	p.R66*	1.000	136	0%	227	23.3%	9	0%	-	-	-	HMMSmart_SM00173,HMMSmart_SM00175,HMMPfam_Miro,superfamily_P-loop containing nucleoside triphosphate hydrolases
DHX58	79132	genome.wustl.edu	37	17	40263479	40263479	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_024119.2	-1	validated	p.R69C	0.013	66	1.5%	95	22.1%	2	0%	probably_damaging(0.997)	deleterious(0.01)	deleterious(0.872)	HMMPfam_DEAD,HMMSmart_DEXDc,superfamily_SSF52540
KAT2A	2648	genome.wustl.edu	37	17	40269601	40269601	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_021078.2	-1	validated	p.S481L	0.998	18	0%	26	23.1%	8	0%	possibly_damaging(0.527)	deleterious(0.02)	deleterious(0.561)	NULL
KCNH4	23415	genome.wustl.edu	37	17	40315757	40315757	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_012285.2	-1	reviewed	p.L782M	0.922	27	0%	65	20%	0	-	benign(0)	tolerated(0.16)	neutral(0.059)	NULL
KCNH4	23415	genome.wustl.edu	37	17	40318550	40318550	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_012285.2	-1	reviewed	p.F535	1.000	42	0%	48	29.2%	0	-	-	-	-	superfamily_cNMP_binding
KCNH4	23415	genome.wustl.edu	37	17	40323954	40323954	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_012285.2	-1	reviewed	p.Q349H	1.000	17	0%	28	25%	0	-	probably_damaging(0.989)	deleterious(0.03)	deleterious(0.804)	HMMPfam_Ion_trans,superfamily_SSF81324
KCNH4	23415	genome.wustl.edu	37	17	40328141	40328141	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_012285.2	-1	reviewed	p.D254N	0.895	56	0%	93	31.2%	0	-	possibly_damaging(0.659)	tolerated(0.16)	neutral(0.292)	superfamily_SSF81324
GHDC	84514	genome.wustl.edu	37	17	40345025	40345025	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_032484.4	-1	validated	p.H96N	0.927	150	0%	174	25.3%	4	0%	benign(0.29)	deleterious(0.04)	neutral(0.439)	HMMPfam_GH3
STAT3	6774	genome.wustl.edu	37	17	40469241	40469241	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_139276.2	-1	reviewed	p.S701	1.000	304	0%	333	21.6%	93	20.4%	-	-	-	superfamily_SH2 domain
ATP6V0A1	535	genome.wustl.edu	37	17	40622192	40622192	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001130020.1	+1	reviewed	p.E127K	1.000	139	0%	57	14%	4	0%	probably_damaging(0.976)	deleterious(0)	deleterious(0.863)	HMMPfam_V_ATPase_I
HSD17B1P1	643646	genome.wustl.edu	37	17	40698794	40698794	+	Missense_Mutation	SNP	G	G	A	rs191938177	by1000genomes	TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	ENST00000225928	+1	known	p.V5M	0.950	15	0%	52	17.3%	1	0%	possibly_damaging(0.947)	deleterious(0.01)	deleterious(0.796)	HMMPfam_adh_short,superfamily_NAD(P)-binding Rossmann-fold domains
HSD17B1	3292	genome.wustl.edu	37	17	40706489	40706489	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_000413.2	+1	validated	p.E202D	0.000	33	0%	71	23.9%	2	50%	benign(0)	tolerated(0.65)	neutral(0.003)	superfamily_NAD(P)-binding Rossmann-fold domains
COASY	80347	genome.wustl.edu	37	17	40714919	40714919	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001042532.2	+1	validated	p.K122N	0.989	62	0%	72	31.9%	8	37.5%	benign(0.051)	tolerated(0.21)	neutral(0.047)	NULL
PSMC3IP	29893	genome.wustl.edu	37	17	40725006	40725006	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_016556.2	-1	validated	p.V212I	0.962	197	0%	263	24%	17	41.1%	benign(0.016)	deleterious(0)	neutral(0.445)	NULL
FAM134C	162427	genome.wustl.edu	37	17	40734723	40734723	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_178126.3	-1	validated	p.R304	0.997	279	0%	176	19.3%	5	20%	-	-	-	NULL
TUBG2	27175	genome.wustl.edu	37	17	40818189	40818189	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_016437.2	+1	validated	p.D310N	1.000	112	0%	153	14.4%	61	0%	benign(0.045)	tolerated(0.36)	neutral(0.022)	superfamily_Tub_FtsZ_C,HMMPfam_Tubulin_C
CNTNAP1	8506	genome.wustl.edu	37	17	40841052	40841052	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_003632.2	+1	reviewed	p.G539S	1.000	313	0%	380	27.1%	2	0%	benign(0.147)	tolerated(0.35)	neutral(0.034)	superfamily_ConA_like_lec_gl
CNTNAP1	8506	genome.wustl.edu	37	17	40847830	40847830	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_003632.2	+1	reviewed	p.A1095D	0.995	141	0%	148	16.2%	3	0%	probably_damaging(0.999)	deleterious(0.01)	deleterious(0.896)	HMMSmart_LamG,superfamily_ConA_like_lec_gl,HMMPfam_Laminin_G_2
EZH1	2145	genome.wustl.edu	37	17	40854583	40854583	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001991.3	-1	validated	p.Y737	1.000	147	0.7%	101	33.7%	5	0%	-	-	-	NULL
EZH1	2145	genome.wustl.edu	37	17	40858129	40858129	+	Nonsense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001991.3	-1	validated	p.R579*	1.000	188	0%	103	17.5%	3	33.3%	-	-	-	superfamily_SET domain
EZH1	2145	genome.wustl.edu	37	17	40870002	40870002	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001991.3	-1	validated	p.L339I	1.000	365	0%	92	13%	3	0%	possibly_damaging(0.94)	tolerated(0.06)	deleterious(0.708)	NULL
BECN1	8678	genome.wustl.edu	37	17	40967952	40967952	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_003766.3	-1	validated	p.N268	0.232	390	0%	193	11.4%	17	0%	-	-	-	HMMPfam_APG6
AOC3	8639	genome.wustl.edu	37	17	41004065	41004065	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_003734.2	+1	reviewed	p.G235	0.194	37	0%	38	21.1%	6	0%	-	-	-	HMMPfam_Cu_amine_oxidN3,superfamily_Cu_amine_oxidase_N-reg
AOC3	8639	genome.wustl.edu	37	17	41004629	41004629	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_003734.2	+1	reviewed	p.K423N	0.003	180	0%	144	23.6%	13	0%	benign(0.09)	tolerated(0.13)	neutral(0.259)	HMMPfam_Cu_amine_oxid,superfamily_CuNH_oxidase
G6PC	2538	genome.wustl.edu	37	17	41063033	41063033	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_000151.2	+1	reviewed	p.G222R	1.000	145	0%	76	14.5%	0	-	probably_damaging(1)	deleterious(0.03)	deleterious(0.865)	NULL
G6PC	2538	genome.wustl.edu	37	17	41063217	41063217	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_000151.2	+1	reviewed	p.S283N	1.000	106	0%	57	14%	0	-	benign(0.007)	tolerated(0.25)	neutral(0.037)	NULL
AARSD1	80755	genome.wustl.edu	37	17	41108275	41108275	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	ENST00000441280	-1	known	p.A209V	0.970	228	0%	163	29.4%	43	16.2%	-	-	-	HMMPfam_tRNA_SAD,superfamily_ThrRS/AlaRS common domain
RPL27	6155	genome.wustl.edu	37	17	41151975	41151975	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_000988.3	+1	reviewed	p.R36H	1.000	92	1.1%	58	27.6%	1932	18%	benign(0.195)	tolerated(0.34)	neutral(0.041)	HMMPfam_KOW
IFI35	3430	genome.wustl.edu	37	17	41165618	41165618	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_005533.3	+1	validated	p.G169	0.097	378	0%	364	19.8%	44	9%	-	-	-	HMMPfam_NID
RND2	8153	genome.wustl.edu	37	17	41180661	41180661	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_005440.4	+1	reviewed	p.I216M	0.977	123	0%	141	27%	0	-	benign(0.001)	tolerated(0.26)	neutral(0.034)	NULL
BRCA1	672	genome.wustl.edu	37	17	41245683	41245683	+	Missense_Mutation	SNP	G	G	A	rs56039126	byCluster	TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_007294.3	-1	reviewed	p.A622V	0.001	197	0%	100	24%	0	-	benign(0.001)	deleterious(0.04)	neutral(0.349)	NULL
TMEM106A	113277	genome.wustl.edu	37	17	41365910	41365910	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_145041.1	+1	provisional	p.T92M	1.000	90	0%	81	25.9%	2	0%	probably_damaging(1)	deleterious(0)	deleterious(0.945)	HMMPfam_DUF1356
TMEM106A	113277	genome.wustl.edu	37	17	41367938	41367938	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_145041.1	+1	provisional	p.A136V	0.000	246	0%	172	23.3%	1	0%	benign(0.005)	tolerated(0.28)	neutral(0.032)	HMMPfam_DUF1356
MEOX1	4222	genome.wustl.edu	37	17	41720948	41720948	+	Nonsense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_004527.3	-1	reviewed	p.R184*	0.999	121	0%	153	13.1%	1	0%	-	-	-	HMMPfam_Homeobox,HMMSmart_HOX,superfamily_Homeodomain_like
MEOX1	4222	genome.wustl.edu	37	17	41738596	41738596	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_004527.3	-1	reviewed	p.R103C	0.973	89	0%	131	19.8%	1	0%	possibly_damaging(0.871)	tolerated(0.17)	neutral(0.398)	NULL
SOST	50964	genome.wustl.edu	37	17	41835939	41835939	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_025237.2	-1	reviewed	p.N57	1.000	115	0%	134	29.1%	0	-	-	-	-	HMMPfam_Sclerostin
CD300LG	146894	genome.wustl.edu	37	17	41930343	41930343	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_145273.3	+1	validated	p.P148L	0.998	218	0%	234	17.1%	0	-	probably_damaging(0.998)	deleterious(0.01)	deleterious(0.880)	HMMPfam_V-set
PPY	5539	genome.wustl.edu	37	17	42018556	42018556	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_002722.3	-1	reviewed	p.T73M	0.000	90	0%	154	25.3%	0	-	probably_damaging(0.995)	tolerated(0.14)	deleterious(0.707)	NULL
C17orf53	78995	genome.wustl.edu	37	17	42225884	42225884	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_024032.3	+1	validated	p.T238I	0.016	89	0%	101	23.8%	1	0%	probably_damaging(0.979)	tolerated(0.09)	deleterious(0.718)	NULL
C17orf53	78995	genome.wustl.edu	37	17	42230037	42230037	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_024032.3	+1	validated	p.E447D	1.000	76	0%	68	23.5%	2	0%	probably_damaging(0.99)	tolerated(0.1)	deleterious(0.728)	NULL
C17orf53	78995	genome.wustl.edu	37	17	42235258	42235258	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_024032.3	+1	validated	p.A611T	0.559	50	0%	42	11.9%	3	0%	probably_damaging(0.989)	tolerated(0.09)	deleterious(0.736)	NULL
TMUB2	79089	genome.wustl.edu	37	17	42266404	42266404	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001076674.1	+1	validated	p.S17I	0.997	195	0%	231	26.4%	8	12.5%	benign(0.345)	deleterious(0.01)	deleterious(0.515)	NULL
ATXN7L3	56970	genome.wustl.edu	37	17	42272199	42272199	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_020218.1	-1	validated	p.R232H	1.000	66	0%	103	13.6%	4	0%	probably_damaging(0.999)	deleterious(0)	deleterious(0.935)	HMMPfam_SCA7
UBTF	7343	genome.wustl.edu	37	17	42286839	42286839	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_014233.2	-1	validated	p.R596C	1.000	142	0%	232	25.9%	41	14.6%	probably_damaging(1)	deleterious(0)	deleterious(0.945)	HMMSmart_SM00398,superfamily_HMG-box
UBTF	7343	genome.wustl.edu	37	17	42293322	42293322	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_014233.2	-1	validated	p.L90	0.311	480	0.2%	690	11.2%	16	0%	-	-	-	NULL
SLC4A1	6521	genome.wustl.edu	37	17	42327860	42327860	+	Missense_Mutation	SNP	C	C	T	rs189300762	by1000genomes	TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_000342.3	-1	reviewed	p.R901Q	0.001	77	0%	74	31.1%	0	-	benign(0.006)	tolerated(0.5)	neutral(0.010)	NULL
C17orf104	284071	genome.wustl.edu	37	17	42744703	42744703	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001145080.2	+1	validated	p.R475I	1.000	198	0%	111	26.1%	0	-	probably_damaging(0.979)	deleterious(0.01)	deleterious(0.828)	NULL
CCDC43	124808	genome.wustl.edu	37	17	42766960	42766960	+	Missense_Mutation	SNP	T	T	G	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_144609.2	-1	validated	p.E54D	0.508	66	0%	112	22.3%	4	0%	benign(0.034)	tolerated(0.46)	neutral(0.014)	NULL
DBF4B	80174	genome.wustl.edu	37	17	42824479	42824479	+	Nonsense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_145663.1	+1	validated	p.R287*	0.000	143	0%	119	11.8%	6	0%	-	-	-	NULL
GFAP	2670	genome.wustl.edu	37	17	42988010	42988010	+	Nonsense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_002055.3	-1	reviewed	p.Q382*	1.000	137	0%	234	10.7%	0	-	-	-	-	NULL
ACBD4	79777	genome.wustl.edu	37	17	43220922	43220922	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001135704.1	+1	reviewed	p.G314R	0.998	129	0%	167	12.6%	11	9%	probably_damaging(0.999)	tolerated(0.34)	deleterious(0.513)	NULL
ENSG00000214425	0	genome.wustl.edu	37	17	43585656	43585656	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	ENST00000398305	-1	known	p.D57	0.107	323	0.3%	182	26.4%	0	-	-	-	-	NULL
SPPL2C	162540	genome.wustl.edu	37	17	43923569	43923569	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_175882.2	+1	validated	p.A433T	0.626	157	1.3%	206	25.2%	0	-	benign(0.406)	tolerated(0.15)	neutral(0.371)	HMMSmart_SM00730,HMMPfam_Peptidase_A22B
KANSL1	284058	genome.wustl.edu	37	17	44115940	44115940	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_015443.2	-1	validated	p.P835	0.970	203	0%	135	14.1%	9	0%	-	-	-	NULL
KANSL1	284058	genome.wustl.edu	37	17	44115974	44115974	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_015443.2	-1	validated	p.R824Q	1.000	233	0%	159	19.5%	7	0%	probably_damaging(1)	tolerated(0.5)	deleterious(0.510)	NULL
WNT3	7473	genome.wustl.edu	37	17	44851261	44851261	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_030753.3	-1	reviewed	p.G32D	1.000	21	0%	27	37%	0	-	probably_damaging(1)	tolerated(0.39)	deleterious(0.516)	NULL
LRRC37A4P	55073	genome.wustl.edu	37	17	45127614	45127614	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	ENST00000309965	+1	known	p.N94S	0.000	69	0%	63	12.7%	1	0%	-	-	-	NULL
CDC27	996	genome.wustl.edu	37	17	45249350	45249350	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001114091.1	-1	reviewed	p.K62E	1.000	210	0%	81	12.3%	0	-	benign(0.006)	deleterious(0.01)	neutral(0.406)	superfamily_TPR-like
ITGB3	3690	genome.wustl.edu	37	17	45364459	45364459	+	Silent	SNP	T	T	C	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_000212.2	+1	reviewed	p.D267	0.996	145	0%	59	20.3%	3	0%	-	-	-	HMMPfam_Integrin_beta,HMMSmart_SM00187,superfamily_vWA-like
ITGB3	3690	genome.wustl.edu	37	17	45377920	45377920	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_000212.2	+1	reviewed	p.E664K	1.000	270	0%	166	25.3%	11	9%	benign(0.183)	tolerated(0.52)	neutral(0.026)	HMMPfam_Integrin_B_tail,superfamily_Integrin beta tail domain
TBKBP1	9755	genome.wustl.edu	37	17	45785772	45785772	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_014726.2	+1	validated	p.A295	0.768	171	0.6%	317	11%	2	0%	-	-	-	NULL
TBX21	30009	genome.wustl.edu	37	17	45821608	45821608	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_013351.1	+1	reviewed	p.I272	0.068	150	0%	199	10.1%	1	0%	-	-	-	HMMPfam_T-box,HMMSmart_TBOX,superfamily_P53_like_DNA_bnd
SCRN2	90507	genome.wustl.edu	37	17	45915715	45915715	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_138355.3	-1	validated	p.R347Q	1.000	53	0%	90	17.8%	108	12.9%	probably_damaging(1)	tolerated(0.06)	deleterious(0.823)	NULL
SP2	6668	genome.wustl.edu	37	17	45993997	45993997	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_003110.5	+1	reviewed	p.S187L	0.299	224	0%	186	12.4%	7	0%	benign(0.15)	tolerated(0.43)	neutral(0.026)	NULL
SP2	6668	genome.wustl.edu	37	17	46000338	46000338	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_003110.5	+1	reviewed	p.R357H	1.000	51	0%	34	11.8%	3	0%	possibly_damaging(0.859)	tolerated(0.09)	deleterious(0.629)	NULL
CDK5RAP3	80279	genome.wustl.edu	37	17	46051798	46051798	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_176096.1	+1	reviewed	p.K106	1.000	298	0%	394	11.4%	24	37.5%	-	-	-	HMMPfam_DUF773
NFE2L1	4779	genome.wustl.edu	37	17	46128976	46128976	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_003204.2	+1	validated	p.D166Y	1.000	60	0%	98	18.4%	43	9.3%	probably_damaging(0.99)	deleterious(0.01)	deleterious(0.847)	NULL
NFE2L1	4779	genome.wustl.edu	37	17	46135877	46135877	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_003204.2	+1	validated	p.P398H	1.000	181	0%	191	17.3%	75	4%	possibly_damaging(0.929)	deleterious(0.03)	deleterious(0.740)	NULL
CBX1	10951	genome.wustl.edu	37	17	46154252	46154252	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001127228.1	-1	reviewed	p.L39F	1.000	762	0%	405	23.7%	27	7.4%	probably_damaging(1)	tolerated(1)	deleterious(0.500)	HMMPfam_Chromo,HMMSmart_SM00298,PatternScan_CHROMO_1,superfamily_Chromo domain-like
SNX11	29916	genome.wustl.edu	37	17	46196118	46196118	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_013323.2	+1	reviewed	p.F95L	1.000	141	0%	96	25%	1	0%	probably_damaging(0.979)	deleterious(0.01)	deleterious(0.828)	HMMPfam_PX,HMMSmart_PX,superfamily_PX
SKAP1	8631	genome.wustl.edu	37	17	46423332	46423332	+	Missense_Mutation	SNP	T	T	G	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_003726.3	-1	reviewed	p.H72P	0.985	125	0%	21	33.3%	0	-	benign(0)	tolerated(0.38)	neutral(0.018)	NULL
HOXB1	3211	genome.wustl.edu	37	17	46608099	46608099	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_002144.3	-1	reviewed	p.A56	0.138	39	0%	50	12%	0	-	-	-	-	NULL
HOXB5	3215	genome.wustl.edu	37	17	46669716	46669716	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_002147.3	-1	reviewed	p.R222Q	1.000	159	0%	302	32.1%	1	0%	probably_damaging(1)	deleterious(0)	deleterious(0.945)	HMMPfam_Homeobox,HMMSmart_HOX,superfamily_Homeodomain_like
HOXB8	3218	genome.wustl.edu	37	17	46691746	46691746	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_024016.3	-1	reviewed	p.Y107	0.966	28	0%	56	25%	0	-	-	-	-	NULL
TTLL6	284076	genome.wustl.edu	37	17	46846441	46846441	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001130918.1	-1	validated	p.H862	0.000	149	0%	80	27.5%	0	-	-	-	-	NULL
CALCOCO2	10241	genome.wustl.edu	37	17	46926668	46926668	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_005831.3	+1	reviewed	p.E158K	1.000	232	0%	114	22.8%	16	6.2%	benign(0)	tolerated(0.36)	neutral(0.020)	HMMPfam_CALCOCO1
GIP	2695	genome.wustl.edu	37	17	47041724	47041724	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_004123.2	-1	reviewed	p.H69Y	1.000	310	0%	143	24.5%	0	-	benign(0.327)	tolerated(0.13)	neutral(0.355)	HMMPfam_Hormone_2,HMMSmart_GLUCA,PatternScan_GLUCAGON
IGF2BP1	10642	genome.wustl.edu	37	17	47122386	47122386	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_006546.3	+1	reviewed	p.R452C	1.000	447	0%	335	22.7%	0	-	probably_damaging(0.99)	deleterious(0)	deleterious(0.886)	HMMSmart_SM00322,HMMPfam_KH_1,superfamily_Eukaryotic type KH-domain (KH-domain type I)
ZNF652	22834	genome.wustl.edu	37	17	47394529	47394529	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001145365.1	-1	validated	p.V187I	0.835	298	0%	128	21.1%	2	0%	benign(0.176)	tolerated(0.45)	neutral(0.028)	NULL
PHB	5245	genome.wustl.edu	37	17	47486325	47486325	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	ENST00000393345	-1	known	p.A197T	0.000	55	0%	55	20%	0	-	-	-	-	NULL
LOC100131693	100131693	genome.wustl.edu	37	17	47502160	47502160	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	XM_001726582.1	-1	model	p.R42I	1.000	477	0%	486	23.7%	0	-	-	-	-	HMMPfam_IF4E,superfamily_Translation initiation factor eIF4e
NXPH3	11248	genome.wustl.edu	37	17	47656076	47656076	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_007225.2	+1	validated	p.R58H	0.990	24	0%	45	20%	1	0%	probably_damaging(0.995)	deleterious(0)	deleterious(0.902)	HMMPfam_Neurexophilin
SLC35B1	10237	genome.wustl.edu	37	17	47780309	47780309	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_005827.1	-1	provisional	p.R276Q	1.000	352	0%	356	24.2%	107	27.1%	probably_damaging(1)	deleterious(0)	deleterious(0.945)	HMMPfam_UAA,superfamily_SSF103481
FAM117A	81558	genome.wustl.edu	37	17	47793544	47793544	+	Silent	SNP	A	A	G	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_030802.3	-1	validated	p.R348	0.912	185	0%	165	18.2%	12	8.3%	-	-	-	NULL
KAT7	11143	genome.wustl.edu	37	17	47898742	47898742	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_007067.3	+1	provisional	p.R400H	1.000	327	0%	81	23.5%	10	10%	probably_damaging(0.996)	deleterious(0)	deleterious(0.906)	HMMPfam_MOZ_SAS,superfamily_Acyl-CoA N-acyltransferases (Nat)
KAT7	11143	genome.wustl.edu	37	17	47900569	47900569	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_007067.3	+1	provisional	p.K464N	1.000	464	0%	96	26%	4	0%	probably_damaging(0.997)	deleterious(0)	deleterious(0.911)	HMMPfam_MOZ_SAS,superfamily_Acyl-CoA N-acyltransferases (Nat)
DLX3	1747	genome.wustl.edu	37	17	48072334	48072334	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_005220.2	-1	reviewed	p.S10I	1.000	45	0%	90	30%	0	-	possibly_damaging(0.625)	deleterious(0.02)	deleterious(0.601)	NULL
ITGA3	3675	genome.wustl.edu	37	17	48155424	48155424	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_005501.2	+1	reviewed	p.I718	0.887	70	0%	110	10.9%	13	0%	-	-	-	HMMPfam_Integrin_alpha2,superfamily_Integrin domains
PDK2	5164	genome.wustl.edu	37	17	48184204	48184204	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_002611.3	+1	provisional	p.I188	0.990	123	0%	208	12%	14	0%	-	-	-	superfamily_ATPase domain of HSP90 chaperone/DNA topoisomerase II/histidine kinase,HMMPfam_BCDHK_Adom3
COL1A1	1277	genome.wustl.edu	37	17	48264226	48264226	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_000088.3	-1	reviewed	p.D1197N	1.000	64	0%	103	14.6%	1040	0.1%	unknown(0)	tolerated(0.06)	-	NULL
COL1A1	1277	genome.wustl.edu	37	17	48265267	48265267	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_000088.3	-1	reviewed	p.F1113	1.000	41	0%	57	24.6%	509	0.5%	-	-	-	HMMPfam_Collagen
TMEM92	162461	genome.wustl.edu	37	17	48356168	48356168	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_153229.2	+1	validated	p.F59	0.027	172	0%	231	29.4%	2	100%	-	-	-	NULL
XYLT2	64132	genome.wustl.edu	37	17	48434475	48434475	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_022167.2	+1	reviewed	p.F601	1.000	73	1.4%	87	14.9%	7	0%	-	-	-	NULL
MRPL27	51264	genome.wustl.edu	37	17	48447945	48447945	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_016504.2	-1	reviewed	p.T15A	0.000	214	0.5%	100	25%	64	26.5%	benign(0)	tolerated(0.39)	neutral(0.016)	NULL
MYCBPAP	84073	genome.wustl.edu	37	17	48598515	48598515	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_032133.4	+1	validated	p.R364W	1.000	159	0%	134	11.2%	0	-	probably_damaging(1)	deleterious(0)	deleterious(0.945)	NULL
MYCBPAP	84073	genome.wustl.edu	37	17	48605532	48605532	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_032133.4	+1	validated	p.D813Y	0.965	259	0%	326	25.8%	0	-	possibly_damaging(0.908)	deleterious(0.02)	deleterious(0.744)	NULL
EPN3	55040	genome.wustl.edu	37	17	48616562	48616562	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_017957.2	+1	validated	p.W259C	0.969	252	0%	404	25%	1	0%	probably_damaging(0.995)	deleterious(0.05)	deleterious(0.803)	NULL
EPN3	55040	genome.wustl.edu	37	17	48618413	48618413	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_017957.2	+1	validated	p.S413	0.000	87	1.1%	180	22.8%	9	55.5%	-	-	-	NULL
CACNA1G	8913	genome.wustl.edu	37	17	48655911	48655911	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_018896.3	+1	validated	p.E763K	1.000	82	0%	106	33%	0	-	probably_damaging(0.992)	deleterious(0)	deleterious(0.892)	superfamily_Voltage-gated potassium channels
CACNA1G	8913	genome.wustl.edu	37	17	48684338	48684338	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_018896.3	+1	validated	p.G1500	0.016	259	0%	371	10.8%	0	-	-	-	-	HMMPfam_Ion_trans,superfamily_Voltage-gated potassium channels
CACNA1G	8913	genome.wustl.edu	37	17	48695256	48695256	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_018896.3	+1	validated	p.A1731V	1.000	68	0%	100	20%	0	-	probably_damaging(0.989)	deleterious(0.01)	deleterious(0.845)	HMMPfam_Ion_trans,superfamily_Voltage-gated potassium channels
ABCC3	8714	genome.wustl.edu	37	17	48762098	48762098	+	Missense_Mutation	SNP	G	G	A	rs182137402	by1000genomes	TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_003786.3	+1	reviewed	p.R1381H	0.999	55	0%	38	15.8%	49	44.8%	probably_damaging(1)	deleterious(0)	deleterious(0.945)	HMMPfam_ABC_tran,HMMSmart_SM00382,superfamily_P-loop containing nucleoside triphosphate hydrolases
SPAG9	9043	genome.wustl.edu	37	17	49048181	49048181	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001130528.2	-1	reviewed	p.T1246M	0.994	234	0%	77	16.9%	12	0%	possibly_damaging(0.54)	tolerated(0.08)	deleterious(0.483)	NULL
SPAG9	9043	genome.wustl.edu	37	17	49052215	49052215	+	Missense_Mutation	SNP	A	A	C	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001130528.2	-1	reviewed	p.F1206C	1.000	277	0%	74	32.4%	19	15.7%	benign(0.406)	deleterious(0.01)	deleterious(0.536)	NULL
SPAG9	9043	genome.wustl.edu	37	17	49091651	49091651	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	ENST00000514613	-1	known	p.N243S	1.000	311	0%	56	30.4%	4	0%	-	-	-	NULL
SPAG9	9043	genome.wustl.edu	37	17	49097576	49097576	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	ENST00000505173	-1	known	p.R185*	0.965	446	0%	119	16%	5	0%	-	-	-	NULL
KIF2B	84643	genome.wustl.edu	37	17	51900968	51900968	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_032559.4	+1	validated	p.E192K	0.832	43	0%	49	28.6%	0	-	benign(0)	tolerated(0.34)	neutral(0.023)	superfamily_P-loop containing nucleoside triphosphate hydrolases
KIF2B	84643	genome.wustl.edu	37	17	51901205	51901205	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_032559.4	+1	validated	p.D271N	1.000	126	0%	128	29.7%	0	-	probably_damaging(0.973)	tolerated(0.21)	neutral(0.459)	HMMPfam_Kinesin,HMMSmart_SM00129,superfamily_P-loop containing nucleoside triphosphate hydrolases
TOM1L1	10040	genome.wustl.edu	37	17	53014499	53014500	+	Frame_Shift_Ins	INS	-	-	G	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	-	-					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_005486.2	+1	validated	p.D315fs	0.963:1.000	-	-	-	-	-	-	-	-	-	NULL
TOM1L1	10040	genome.wustl.edu	37	17	53016303	53016303	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_005486.2	+1	validated	p.S351Y	0.000	245	0%	53	18.9%	6	16.6%	benign(0.069)	tolerated(0.12)	neutral(0.265)	NULL
STXBP4	252983	genome.wustl.edu	37	17	53068271	53068271	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_178509.5	+1	validated	p.P45S	1.000	260	0%	65	21.5%	2	0%	probably_damaging(1)	tolerated(0.05)	deleterious(0.845)	HMMPfam_PDZ,HMMSmart_SM00228,superfamily_PDZ domain-like
MMD	23531	genome.wustl.edu	37	17	53481219	53481219	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_012329.2	-1	reviewed	p.R119C	1.000	140	0%	55	14.5%	3	0%	probably_damaging(1)	deleterious(0)	deleterious(0.945)	HMMPfam_HlyIII
ENSG00000200107	0	genome.wustl.edu	37	17	53629207	53629207	+	RNA	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	ENST00000363237	+1	novel	NULL	0.044	6	0.000	18	0.278	0	-	-	-	-	-
TMEM100	55273	genome.wustl.edu	37	17	53798404	53798404	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001099640.1	-1	validated	p.L10M	1.000	112	0%	45	13.3%	2	0%	possibly_damaging(0.896)	tolerated(0.35)	neutral(0.374)	NULL
ANKFN1	162282	genome.wustl.edu	37	17	54559820	54559820	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_153228.2	+1	validated	p.G735E	1.000	350	0%	92	23.9%	2	50%	probably_damaging(1)	deleterious(0.01)	deleterious(0.905)	NULL
DGKE	8526	genome.wustl.edu	37	17	54939542	54939542	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_003647.2	+1	reviewed	p.S485F	1.000	405	0%	205	13.7%	1	0%	probably_damaging(1)	deleterious(0)	deleterious(0.945)	HMMPfam_DAGK_acc,HMMSmart_SM00045
TRIM25	7706	genome.wustl.edu	37	17	54991311	54991311	+	Nonsense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_005082.4	-1	reviewed	p.C13*	1.000	5	0.000	14	0.286	1	0%	-	-	-	HMMSmart_SM00184,HMMPfam_zf-C3HC4,superfamily_RING/U-box
SCPEP1	59342	genome.wustl.edu	37	17	55075760	55075760	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_021626.2	+1	validated	p.R299C	1.000	315	0%	114	12.3%	28	0%	probably_damaging(1)	deleterious(0.01)	deleterious(0.905)	HMMPfam_Peptidase_S10,superfamily_alpha/beta-Hydrolases
AKAP1	8165	genome.wustl.edu	37	17	55183812	55183812	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_003488.3	+1	reviewed	p.E329D	0.001	347	0%	219	29.7%	2	0%	possibly_damaging(0.741)	tolerated(0.39)	neutral(0.288)	NULL
AKAP1	8165	genome.wustl.edu	37	17	55191847	55191847	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_003488.3	+1	reviewed	p.E711K	1.000	125	0%	99	25.3%	6	50%	probably_damaging(0.992)	deleterious(0.01)	deleterious(0.853)	HMMPfam_TUDOR
MSI2	124540	genome.wustl.edu	37	17	55704603	55704603	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_138962.2	+1	reviewed	p.F222	0.998	363	0%	184	31%	4	25%	-	-	-	superfamily_RNA-binding domain RBD
MSI2	124540	genome.wustl.edu	37	17	55752313	55752313	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	ENST00000416426	+1	known	p.G253	1.000	10	0%	38	42.1%	0	-	-	-	-	NULL
OR4D1	26689	genome.wustl.edu	37	17	56232573	56232573	+	Missense_Mutation	SNP	C	C	G	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_012374.1	+1	provisional	p.T20S	0.000	176	0%	249	14.5%	0	-	benign(0.001)	tolerated(1)	-	superfamily_SSF81321
EPX	8288	genome.wustl.edu	37	17	56277633	56277633	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_000502.4	+1	reviewed	p.L529M	1.000	62	0%	51	13.7%	0	-	probably_damaging(1)	deleterious(0.04)	deleterious(0.849)	HMMPfam_An_peroxidase,superfamily_Peroxidase_super
MKS1	54903	genome.wustl.edu	37	17	56291173	56291173	+	Silent	SNP	A	A	G	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	ENST00000313863	-1	known	p.V235A	0.868	310	0%	351	13.7%	0	-	-	-	-	NULL
MKS1	54903	genome.wustl.edu	37	17	56293495	56293495	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_017777.3	-1	reviewed	p.R124Q	1.000	379	0%	485	12.4%	3	0%	probably_damaging(1)	deleterious(0.01)	deleterious(0.905)	NULL
MKS1	54903	genome.wustl.edu	37	17	56296010	56296010	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_017777.3	-1	reviewed	p.L54S	1.000	168	0%	306	23.2%	4	0%	probably_damaging(0.99)	deleterious(0.01)	deleterious(0.847)	NULL
MPO	4353	genome.wustl.edu	37	17	56349125	56349125	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_000250.1	-1	reviewed	p.D641N	1.000	36	0%	33	21.2%	0	-	probably_damaging(1)	deleterious(0)	deleterious(0.945)	HMMPfam_An_peroxidase,superfamily_Heme-dependent peroxidases
RNF43	54894	genome.wustl.edu	37	17	56435790	56435790	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_017763.4	-1	validated	p.S449	1.000	50	0%	62	19.4%	0	-	-	-	-	NULL
RNF43	54894	genome.wustl.edu	37	17	56439936	56439936	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_017763.4	-1	validated	p.R219H	1.000	36	0%	34	14.7%	0	-	probably_damaging(1)	deleterious(0)	deleterious(0.945)	NULL
RNF43	54894	genome.wustl.edu	37	17	56440943	56440943	+	Nonsense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_017763.4	-1	validated	p.R132*	1.000	33	0%	40	20%	0	-	-	-	-	NULL
HSF5	124535	genome.wustl.edu	37	17	56540418	56540418	+	Missense_Mutation	SNP	C	C	G	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001080439.1	-1	provisional	p.A423P	1.000	231	0%	116	25%	0	-	benign(0.043)	tolerated(0.05)	neutral(0.348)	NULL
MTMR4	9110	genome.wustl.edu	37	17	56584573	56584573	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_004687.4	-1	validated	p.A258V	1.000	37	2.7%	41	24.4%	0	-	probably_damaging(0.998)	deleterious(0)	deleterious(0.919)	HMMPfam_Myotub-related,superfamily_(Phosphotyrosine protein) phosphatases II
MTMR4	9110	genome.wustl.edu	37	17	56584673	56584673	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_004687.4	-1	validated	p.R225C	1.000	34	0%	36	19.4%	0	-	probably_damaging(0.997)	deleterious(0.01)	deleterious(0.872)	HMMPfam_Myotub-related,superfamily_(Phosphotyrosine protein) phosphatases II
SEPT4	5414	genome.wustl.edu	37	17	56598621	56598621	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_004574.2	-1	reviewed	p.V370M	1.000	69	0%	99	23.2%	7	0%	probably_damaging(1)	deleterious(0)	deleterious(0.945)	HMMPfam_Septin
C17orf47	284083	genome.wustl.edu	37	17	56620384	56620384	+	Silent	SNP	T	T	C	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001038704.1	-1	predicted	p.G388	0.046	763	0%	479	19.8%	0	-	-	-	-	NULL
TEX14	56155	genome.wustl.edu	37	17	56659000	56659000	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_198393.2	-1	reviewed	p.S1088L	0.004	333	0%	63	19%	0	-	benign(0.378)	deleterious(0)	deleterious(0.565)	NULL
TEX14	56155	genome.wustl.edu	37	17	56729261	56729261	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_198393.2	-1	reviewed	p.G34	1.000	289	0%	134	17.2%	0	-	-	-	-	HMMPfam_Ank,HMMSmart_ANK,superfamily_ANK
RAD51C	5889	genome.wustl.edu	37	17	56770150	56770150	+	Splice_Site	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_058216.1	+1	reviewed	e1+1	1.000	47	0%	67	29.9%	0	-	-	-	-	-
TRIM37	4591	genome.wustl.edu	37	17	57105821	57105821	+	Nonsense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001005207.2	-1	reviewed	p.E738*	1.000	96	0%	50	28%	4	0%	-	-	-	NULL
TRIM37	4591	genome.wustl.edu	37	17	57109305	57109305	+	Missense_Mutation	SNP	A	A	C	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001005207.2	-1	reviewed	p.L634V	0.996	170	0%	138	34.8%	1	0%	benign(0.178)	deleterious(0.01)	neutral(0.422)	NULL
TRIM37	4591	genome.wustl.edu	37	17	57126579	57126579	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001005207.2	-1	reviewed	p.D497G	1.000	477	0%	221	24%	3	0%	benign(0.139)	deleterious(0.01)	neutral(0.418)	NULL
SKA2	348235	genome.wustl.edu	37	17	57196855	57196855	+	Missense_Mutation	SNP	T	T	G	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_182620.3	-1	validated	p.K41T	1.000	347	0%	194	16%	16	12.5%	probably_damaging(0.995)	tolerated(0.21)	deleterious(0.502)	NULL
SMG8	55181	genome.wustl.edu	37	17	57290673	57290673	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_018149.6	+1	validated	p.A830V	1.000	352	0.3%	358	13.7%	3	0%	benign(0.037)	tolerated(0.32)	neutral(0.026)	HMMPfam_DUF2146
GDPD1	284161	genome.wustl.edu	37	17	57334510	57334510	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_182569.3	+1	validated	p.R132Q	1.000	305	0%	119	24.4%	0	-	probably_damaging(0.963)	tolerated(0.08)	deleterious(0.706)	HMMPfam_GDPD,superfamily_PLC-like phosphodiesterases
DHX40	79665	genome.wustl.edu	37	17	57679888	57679888	+	Silent	SNP	T	T	C	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_024612.4	+1	reviewed	p.S604	0.996	291	0%	91	11%	10	10%	-	-	-	NULL
DHX40	79665	genome.wustl.edu	37	17	57682971	57682971	+	Silent	SNP	A	A	G	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_024612.4	+1	reviewed	p.R712	0.978	462	0%	236	11%	26	0%	-	-	-	NULL
CLTC	1213	genome.wustl.edu	37	17	57738966	57738966	+	Nonsense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_004859.3	+1	reviewed	p.R444*	1.000	161	0%	41	24.4%	6	0%	-	-	-	superfamily_ARM repeat
ENSG00000238283	0	genome.wustl.edu	37	17	58089827	58089827	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	ENST00000407042	-1	known	p.A194T	1.000	123	0%	148	17.6%	0	-	benign(0.006)	tolerated(0.18)	neutral(0.056)	HMMPfam_TBC,superfamily_RabGAP_TBC
HEATR6	63897	genome.wustl.edu	37	17	58124733	58124733	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_022070.4	-1	validated	p.F902L	0.997	521	0%	511	27%	4	0%	benign(0.068)	tolerated(0.37)	neutral(0.024)	superfamily_ARM-type_fold
HEATR6	63897	genome.wustl.edu	37	17	58125668	58125668	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_022070.4	-1	validated	p.A877S	1.000	195	0%	184	25%	3	33.3%	benign(0.203)	tolerated(0.55)	neutral(0.026)	HMMPfam_HEAT,superfamily_ARM-type_fold
HEATR6	63897	genome.wustl.edu	37	17	58125691	58125691	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_022070.4	-1	validated	p.S869F	1.000	162	0%	144	25%	1	0%	possibly_damaging(0.898)	deleterious(0.02)	deleterious(0.738)	HMMPfam_HEAT,superfamily_ARM-type_fold
USP32	84669	genome.wustl.edu	37	17	58284445	58284445	+	Silent	SNP	A	A	G	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_032582.3	-1	validated	p.L992	1.000	675	0%	163	17.8%	2	0%	-	-	-	HMMPfam_UCH,superfamily_SSF54001
USP32	84669	genome.wustl.edu	37	17	58348729	58348729	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_032582.3	-1	validated	p.R229C	1.000	254	0%	62	24.2%	0	-	possibly_damaging(0.888)	deleterious(0)	deleterious(0.792)	superfamily_SSF47473
BCAS3	54828	genome.wustl.edu	37	17	59093129	59093129	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001099432.1	+1	validated	p.D502N	1.000	306	0%	89	27%	5	0%	benign(0.086)	tolerated(0.15)	neutral(0.247)	NULL
BRIP1	83990	genome.wustl.edu	37	17	59761149	59761149	+	Missense_Mutation	SNP	T	T	G	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_032043.1	-1	reviewed	p.K1086N	0.000	492	0%	154	27.3%	0	-	benign(0)	tolerated(0.18)	neutral(0.056)	NULL
BRIP1	83990	genome.wustl.edu	37	17	59871021	59871021	+	Silent	SNP	T	T	C	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_032043.1	-1	reviewed	p.G470	1.000	320	0%	114	23.7%	1	0%	-	-	-	NULL
INTS2	57508	genome.wustl.edu	37	17	59945287	59945287	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_020748.2	-1	validated	p.Y1118H	0.998	232	0%	104	20.2%	2	50%	benign(0.002)	tolerated(0.54)	neutral(0.007)	NULL
MED13	9969	genome.wustl.edu	37	17	60038242	60038242	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_005121.2	-1	reviewed	p.I1822	0.997	264	0%	109	37.6%	4	75%	-	-	-	HMMPfam_TRAP_240kDa
MED13	9969	genome.wustl.edu	37	17	60064423	60064423	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_005121.2	-1	reviewed	p.A777V	1.000	205	0%	89	18%	0	-	benign(0.001)	tolerated(0.65)	neutral(0.003)	NULL
ENSG00000188755	0	genome.wustl.edu	37	17	60351411	60351411	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	ENST00000339120	-1	known	p.Y22	0.115	945	0.2%	726	18.5%	0	-	-	-	-	NULL
EFCAB3	146779	genome.wustl.edu	37	17	60483919	60483919	+	Silent	SNP	A	A	G	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001144933.1	+1	validated	p.T241	0.222	99	1%	21	33.3%	0	-	-	-	-	NULL
EFCAB3	146779	genome.wustl.edu	37	17	60493371	60493371	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001144933.1	+1	validated	p.R385I	1.000	205	0%	79	21.5%	0	-	probably_damaging(0.979)	deleterious(0)	deleterious(0.867)	NULL
MRC2	9902	genome.wustl.edu	37	17	60757798	60757798	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_006039.3	+1	validated	p.P819	0.031	69	0%	133	26.3%	8	0%	-	-	-	NULL
MRC2	9902	genome.wustl.edu	37	17	60757802	60757802	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_006039.3	+1	validated	p.D821N	0.000	67	0%	123	21.1%	8	0%	benign(0.004)	tolerated(0.24)	neutral(0.037)	NULL
MRC2	9902	genome.wustl.edu	37	17	60766262	60766262	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_006039.3	+1	validated	p.R1092H	1.000	38	0%	53	17%	16	0%	unknown(0)	tolerated(0.11)	-	HMMPfam_Lectin_C,HMMSmart_SM00034,superfamily_C-type lectin-like
MRC2	9902	genome.wustl.edu	37	17	60766911	60766911	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_006039.3	+1	validated	p.A1121	0.000	10	0%	19	31.6%	18	5.5%	-	-	-	NULL
MRC2	9902	genome.wustl.edu	37	17	60769593	60769593	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_006039.3	+1	validated	p.A1407	0.115	58	0%	119	26.1%	50	0%	-	-	-	NULL
MARCH10	162333	genome.wustl.edu	37	17	60799912	60799912	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001100875.1	-1	validated	p.G717	0.993	198	0%	81	22.2%	0	-	-	-	-	superfamily_RING/U-box
MARCH10	162333	genome.wustl.edu	37	17	60814612	60814612	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001100875.1	-1	validated	p.S206L	0.006	362	0%	117	18.8%	0	-	probably_damaging(0.99)	deleterious(0)	deleterious(0.886)	NULL
TANC2	26115	genome.wustl.edu	37	17	61345189	61345189	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_025185.3	+1	validated	p.P298S	1.000	135	0%	48	14.6%	0	-	possibly_damaging(0.932)	tolerated(0.22)	neutral(0.420)	NULL
TANC2	26115	genome.wustl.edu	37	17	61428704	61428704	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_025185.3	+1	validated	p.S560L	1.000	358	0%	60	26.7%	1	0%	probably_damaging(0.987)	deleterious(0)	deleterious(0.881)	superfamily_P-loop containing nucleoside triphosphate hydrolases
TANC2	26115	genome.wustl.edu	37	17	61489416	61489416	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_025185.3	+1	validated	p.R1201C	1.000	187	0%	69	15.9%	0	-	probably_damaging(1)	deleterious(0)	deleterious(0.945)	HMMPfam_Ank,HMMSmart_SM00248,superfamily_Ankyrin repeat
ACE	1636	genome.wustl.edu	37	17	61556390	61556390	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_000789.2	+1	reviewed	p.M147T	1.000	69	0%	144	26.4%	1	0%	probably_damaging(0.995)	deleterious(0)	deleterious(0.902)	"HMMPfam_Peptidase_M2,superfamily_Metalloproteases (""zincins"") catalytic domain"
ACE	1636	genome.wustl.edu	37	17	61560861	61560861	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_000789.2	+1	reviewed	p.E510K	1.000	221	0%	266	12%	1	0%	possibly_damaging(0.952)	deleterious(0.01)	deleterious(0.801)	"HMMPfam_Peptidase_M2,superfamily_Metalloproteases (""zincins"") catalytic domain"
KCNH6	81033	genome.wustl.edu	37	17	61601658	61601658	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_030779.2	+1	reviewed	p.V79M	0.980	70	1.4%	122	27.9%	0	-	benign(0.006)	tolerated(0.43)	neutral(0.013)	HMMPfam_PAS,superfamily_PYP-like sensor domain (PAS domain)
KCNH6	81033	genome.wustl.edu	37	17	61613153	61613153	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_030779.2	+1	reviewed	p.A409T	1.000	72	0%	134	26.1%	0	-	benign(0.338)	tolerated(0.17)	neutral(0.165)	HMMPfam_Ion_trans,superfamily_Voltage-gated potassium channels
DCAF7	10238	genome.wustl.edu	37	17	61656799	61656799	+	Silent	SNP	T	T	C	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	ENST00000310827	+1	known	p.P133	0.999	283	0%	103	14.6%	16	0%	-	-	-	HMMSmart_SM00320,superfamily_WD40 repeat-like
PSMC5	5705	genome.wustl.edu	37	17	61907804	61907804	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_002805.4	+1	reviewed	p.I165	0.964	147	0%	161	15.5%	160	19.3%	-	-	-	superfamily_P-loop containing nucleoside triphosphate hydrolases
SMARCD2	6603	genome.wustl.edu	37	17	61914830	61914830	+	Splice_Site	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	ENST00000225742	-1	known	e5-1	1.000	27	0%	30	30%	14	57.1%	-	-	-	-
CSH2	1443	genome.wustl.edu	37	17	61949925	61949925	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_022644.3	-1	reviewed	p.A156	0.000	162	0%	123	23.6%	0	-	-	-	-	superfamily_4_helix_cytokine
GH2	2689	genome.wustl.edu	37	17	61958015	61958015	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_022557.2	-1	reviewed	p.P191	0.000	160	0%	250	25.2%	0	-	-	-	-	NULL
SCN4A	6329	genome.wustl.edu	37	17	62024446	62024446	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_000334.4	-1	reviewed	p.L1134M	1.000	37	0%	59	27.1%	0	-	benign(0.331)	deleterious(0)	deleterious(0.548)	HMMPfam_Ion_trans,superfamily_Voltage-gated potassium channels
SCN4A	6329	genome.wustl.edu	37	17	62049157	62049157	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_000334.4	-1	reviewed	p.R179Q	1.000	37	0%	65	33.8%	0	-	benign(0.233)	deleterious(0)	neutral(0.468)	HMMPfam_Ion_trans,superfamily_Voltage-gated potassium channels
SCN4A	6329	genome.wustl.edu	37	17	62049821	62049821	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_000334.4	-1	reviewed	p.V95I	1.000	123	0%	225	11.6%	0	-	benign(0.016)	deleterious(0.02)	neutral(0.384)	superfamily_Voltage-gated potassium channels
SCN4A	6329	genome.wustl.edu	37	17	62050038	62050038	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_000334.4	-1	reviewed	p.R55Q	0.995	89	0%	122	24.6%	0	-	benign(0.233)	tolerated(0.89)	neutral(0.024)	NULL
ICAM2	3384	genome.wustl.edu	37	17	62082713	62082713	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_000873.3	-1	reviewed	p.E28K	0.003	47	0%	72	30.6%	27	0%	benign(0.005)	tolerated(0.12)	neutral(0.261)	HMMPfam_ICAM_N,superfamily_Immunoglobulin
ERN1	2081	genome.wustl.edu	37	17	62141506	62141506	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001433.3	-1	reviewed	p.R309	0.072	88	1.1%	46	30.4%	2	50%	-	-	-	NULL
TEX2	55852	genome.wustl.edu	37	17	62230470	62230470	+	Missense_Mutation	SNP	T	T	G	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_018469.3	-1	validated	p.D999A	1.000	420	0%	266	27.8%	5	20%	probably_damaging(1)	deleterious(0.01)	deleterious(0.905)	NULL
TEX2	55852	genome.wustl.edu	37	17	62290405	62290405	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_018469.3	-1	validated	p.K391N	1.000	139	0%	65	15.4%	0	-	possibly_damaging(0.911)	tolerated(0.16)	neutral(0.422)	NULL
TEX2	55852	genome.wustl.edu	37	17	62291322	62291322	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_018469.3	-1	validated	p.A86T	0.000	96	0%	39	28.2%	3	0%	benign(0)	tolerated(0.39)	neutral(0.016)	NULL
CEP95	90799	genome.wustl.edu	37	17	62528963	62528963	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_138363.1	+1	provisional	p.V560A	0.995	192	0%	54	29.6%	15	26.6%	probably_damaging(0.991)	deleterious(0.01)	deleterious(0.850)	NULL
SMURF2	64750	genome.wustl.edu	37	17	62551111	62551111	+	Silent	SNP	A	A	G	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_022739.3	-1	validated	p.L537	0.999	350	0%	124	25%	8	0%	-	-	-	HMMPfam_HECT,HMMSmart_HECTc,superfamily_HECT
SMURF2	64750	genome.wustl.edu	37	17	62582248	62582248	+	Silent	SNP	T	T	C	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_022739.3	-1	validated	p.Q147	1.000	270	0%	56	30.4%	1	0%	-	-	-	NULL
LRRC37A3	374819	genome.wustl.edu	37	17	62855617	62855617	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_199340.2	-1	provisional	p.E1549D	0.189	63	0%	53	26.4%	5	0%	benign(0)	deleterious(0.02)	neutral(0.383)	NULL
LRRC37A3	374819	genome.wustl.edu	37	17	62856998	62856998	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_199340.2	-1	provisional	p.P1089L	0.045	562	0%	230	22.2%	0	-	probably_damaging(0.995)	deleterious(0.01)	deleterious(0.863)	NULL
ENSG00000232457	0	genome.wustl.edu	37	17	62950391	62950391	+	Silent	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	ENST00000413214	+1	known	p.I50	0.973	160	0%	155	27.1%	0	-	-	-	-	HMMPfam_MFS_1,superfamily_MFS general substrate transporter
RGS9	8787	genome.wustl.edu	37	17	63185423	63185423	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_003835.3	+1	reviewed	p.V225A	1.000	326	0%	99	21.2%	0	-	benign(0.091)	tolerated(0.11)	neutral(0.278)	HMMPfam_G-gamma,HMMSmart_SM00224,superfamily_Transducin (heterotrimeric G protein) gamma chain
AXIN2	8313	genome.wustl.edu	37	17	63533046	63533046	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_004655.3	-1	reviewed	p.S616	0.669	48	0%	95	18.9%	4	50%	-	-	-	NULL
AXIN2	8313	genome.wustl.edu	37	17	63533561	63533561	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_004655.3	-1	reviewed	p.I531	0.049	267	0%	431	12.8%	3	33.3%	-	-	-	NULL
CEP112	201134	genome.wustl.edu	37	17	64025369	64025369	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_145036.3	-1	validated	p.R459C	0.801	670	0.1%	115	17.4%	3	0%	probably_damaging(0.994)	deleterious(0.02)	deleterious(0.835)	NULL
CEP112	201134	genome.wustl.edu	37	17	64026093	64026093	+	Nonsense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_145036.3	-1	validated	p.E423*	1.000	317	0%	64	23.4%	1	0%	-	-	-	NULL
CACNG4	27092	genome.wustl.edu	37	17	65021038	65021038	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_014405.2	+1	reviewed	p.L123	0.997	62	0%	44	27.3%	0	-	-	-	-	HMMPfam_PMP22_Claudin
CACNG4	27092	genome.wustl.edu	37	17	65026864	65026864	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_014405.2	+1	reviewed	p.S243L	1.000	77	0%	82	25.6%	1	0%	probably_damaging(0.999)	tolerated(0.07)	deleterious(0.809)	NULL
HELZ	9931	genome.wustl.edu	37	17	65074692	65074692	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_014877.3	-1	validated	p.K1835N	0.959	79	0%	55	34.5%	10	10%	unknown(0)	deleterious(0.01)	-	NULL
HELZ	9931	genome.wustl.edu	37	17	65103572	65103572	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_014877.3	-1	validated	p.R1652C	1.000	687	0%	387	27.4%	5	0%	unknown(0)	deleterious(0)	-	NULL
HELZ	9931	genome.wustl.edu	37	17	65144706	65144706	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_014877.3	-1	validated	p.R867H	1.000	162	1.2%	40	25%	0	-	probably_damaging(1)	deleterious(0)	deleterious(0.945)	superfamily_SSF52540
HELZ	9931	genome.wustl.edu	37	17	65174829	65174829	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_014877.3	-1	validated	p.R459Q	1.000	384	0%	197	25.4%	0	-	probably_damaging(0.988)	deleterious(0.01)	deleterious(0.843)	NULL
PSMD12	5718	genome.wustl.edu	37	17	65346383	65346383	+	Nonsense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_002816.3	-1	reviewed	p.R123*	1.000	303	0%	132	12.9%	10	0%	-	-	-	NULL
BPTF	2186	genome.wustl.edu	37	17	65850180	65850180	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_182641.3	+1	reviewed	p.V246	0.023	388	0.3%	118	31.4%	0	-	-	-	-	HMMPfam_DDT,HMMSmart_DDT
BPTF	2186	genome.wustl.edu	37	17	65907884	65907884	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_182641.3	+1	reviewed	p.T1295I	0.050	276	0%	82	24.4%	0	-	benign(0.024)	tolerated(0.08)	neutral(0.301)	NULL
SLC16A6	9120	genome.wustl.edu	37	17	66274373	66274373	+	Nonsense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_004694.4	-1	validated	p.S30*	0.995	227	0%	114	25.4%	0	-	-	-	-	superfamily_MFS_gen_substrate_transporter
ARSG	22901	genome.wustl.edu	37	17	66303841	66303841	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_014960.3	+1	validated	p.S69	0.008	175	0%	262	23.7%	1	0%	-	-	-	HMMPfam_Sulfatase,superfamily_Alkaline_phosphatase_core
ARSG	22901	genome.wustl.edu	37	17	66364696	66364696	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_014960.3	+1	validated	p.G238R	0.967	70	0%	30	23.3%	1	0%	possibly_damaging(0.918)	tolerated(0.23)	neutral(0.410)	HMMPfam_Sulfatase,superfamily_Alkaline_phosphatase_core
WIPI1	55062	genome.wustl.edu	37	17	66423283	66423283	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_017983.5	-1	validated	p.T395	0.061	516	0.6%	201	24.4%	56	3.5%	-	-	-	NULL
FAM20A	54757	genome.wustl.edu	37	17	66538926	66538926	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_017565.3	-1	validated	p.P279	0.015	416	0%	132	22.7%	14	0%	-	-	-	NULL
FAM20A	54757	genome.wustl.edu	37	17	66539790	66539790	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_017565.3	-1	validated	p.I264	0.251	234	0%	90	17.8%	10	0%	-	-	-	NULL
ABCA8	10351	genome.wustl.edu	37	17	66918428	66918428	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_007168.2	-1	reviewed	p.T486A	0.986	194	0%	84	28.6%	0	-	benign(0.008)	tolerated(0.27)	neutral(0.034)	superfamily_P-loop containing nucleoside triphosphate hydrolases
ABCA8	10351	genome.wustl.edu	37	17	66920907	66920907	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_007168.2	-1	reviewed	p.A459	0.000	361	0%	107	15%	0	-	-	-	-	NULL
ABCA9	10350	genome.wustl.edu	37	17	67008196	67008196	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_080283.3	-1	reviewed	p.R1023Q	0.001	171	0%	57	15.8%	0	-	benign(0.003)	tolerated(0.21)	neutral(0.044)	NULL
ABCA6	23460	genome.wustl.edu	37	17	67075143	67075143	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_080284.2	-1	reviewed	p.K1609E	1.000	750	0.1%	166	25.3%	12	0%	benign(0.077)	tolerated(0.32)	neutral(0.029)	NULL
ABCA6	23460	genome.wustl.edu	37	17	67080434	67080434	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_080284.2	-1	reviewed	p.T1441	0.196	198	0%	76	34.2%	4	0%	-	-	-	HMMPfam_ABC_tran,HMMSmart_SM00382,superfamily_P-loop containing nucleoside triphosphate hydrolases
ABCA6	23460	genome.wustl.edu	37	17	67084375	67084375	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_080284.2	-1	reviewed	p.V1211I	0.000	478	0.2%	132	13.6%	1	0%	benign(0)	tolerated(1)	-	NULL
ABCA6	23460	genome.wustl.edu	37	17	67101675	67101675	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_080284.2	-1	reviewed	p.E890K	0.011	390	0.3%	66	40.9%	1	0%	benign(0.002)	tolerated(0.18)	neutral(0.056)	NULL
ABCA6	23460	genome.wustl.edu	37	17	67101694	67101694	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_080284.2	-1	reviewed	p.I883	0.000	391	0%	69	18.8%	1	0%	-	-	-	NULL
ABCA6	23460	genome.wustl.edu	37	17	67109362	67109362	+	Splice_Site	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_080284.2	-1	reviewed	e14+1	1.000	162	0%	44	29.5%	0	-	-	-	-	-
ABCA10	10349	genome.wustl.edu	37	17	67183946	67183946	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_080282.3	-1	reviewed	p.L736I	0.000	459	0%	292	23.3%	0	-	possibly_damaging(0.659)	deleterious(0.04)	deleterious(0.582)	NULL
ABCA10	10349	genome.wustl.edu	37	17	67187448	67187448	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_080282.3	-1	reviewed	p.R627K	0.000	618	0%	535	24.5%	0	-	benign(0.008)	deleterious(0.01)	neutral(0.406)	superfamily_P-loop containing nucleoside triphosphate hydrolases
ABCA5	23461	genome.wustl.edu	37	17	67260910	67260910	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_018672.3	-1	reviewed	p.G1094V	1.000	165	0%	48	8.3%	1	0%	possibly_damaging(0.659)	tolerated(0.23)	neutral(0.274)	NULL
ABCA5	23461	genome.wustl.edu	37	17	67298953	67298953	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_018672.3	-1	reviewed	p.G342D	1.000	223	0%	58	24.1%	0	-	probably_damaging(1)	deleterious(0)	deleterious(0.945)	NULL
ABCA5	23461	genome.wustl.edu	37	17	67305453	67305453	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_018672.3	-1	reviewed	p.R140H	0.969	388	0.3%	88	29.5%	0	-	probably_damaging(1)	deleterious(0.01)	deleterious(0.905)	NULL
MAP2K6	5608	genome.wustl.edu	37	17	67519708	67519708	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_002758.3	+1	reviewed	p.D197N	1.000	612	0.3%	137	25.5%	5	20%	probably_damaging(1)	deleterious(0)	deleterious(0.945)	HMMSmart_SM00219,HMMSmart_SM00220,superfamily_Protein kinase-like (PK-like),HMMPfam_Pkinase
KCNJ2	3759	genome.wustl.edu	37	17	68172258	68172258	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_000891.2	+1	reviewed	p.D360N	1.000	149	0%	104	23.1%	0	-	benign(0.007)	deleterious(0)	neutral(0.445)	HMMPfam_IRK,superfamily_E set domains
SDK2	54549	genome.wustl.edu	37	17	71375666	71375666	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001144952.1	-1	provisional	p.Y1595	0.693	36	0%	36	19.4%	0	-	-	-	-	HMMPfam_fn3,HMMSmart_SM00060,superfamily_Fibronectin type III
SDK2	54549	genome.wustl.edu	37	17	71397185	71397185	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001144952.1	-1	provisional	p.S982F	1.000	64	0%	93	25.8%	0	-	probably_damaging(0.995)	deleterious(0)	deleterious(0.902)	superfamily_Fibronectin type III
SDK2	54549	genome.wustl.edu	37	17	71415387	71415387	+	Nonsense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001144952.1	-1	provisional	p.R702*	1.000	168	0%	105	22.9%	0	-	-	-	-	HMMPfam_fn3,HMMSmart_SM00060,superfamily_Fibronectin type III
RPL38	6169	genome.wustl.edu	37	17	72205370	72205370	+	Nonsense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_000999.3	+1	reviewed	p.R37*	1.000	183	0%	360	12.2%	2751	2%	-	-	-	HMMPfam_Ribosomal_L38e
DNAI2	64446	genome.wustl.edu	37	17	72285853	72285853	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_023036.4	+1	reviewed	p.S196	0.000	162	0%	122	21.3%	0	-	-	-	-	superfamily_WD40 repeat-like
DNAI2	64446	genome.wustl.edu	37	17	72306263	72306263	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_023036.4	+1	reviewed	p.L485	0.235	31	0%	24	16.7%	1	0%	-	-	-	superfamily_WD40 repeat-like
DNAI2	64446	genome.wustl.edu	37	17	72308246	72308246	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_023036.4	+1	reviewed	p.T533	0.004	88	0%	66	34.8%	0	-	-	-	-	superfamily_WD40 repeat-like
KIF19	124602	genome.wustl.edu	37	17	72350528	72350528	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_153209.3	+1	validated	p.L846	1.000	15	0%	24	20.8%	1	0%	-	-	-	NULL
GPR142	350383	genome.wustl.edu	37	17	72367895	72367895	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_181790.1	+1	provisional	p.A182V	1.000	32	0%	46	13%	0	-	benign(0.344)	tolerated(0.5)	neutral(0.118)	HMMPfam_7tm_1,superfamily_SSF81321
GPR142	350383	genome.wustl.edu	37	17	72367986	72367986	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_181790.1	+1	provisional	p.F212	1.000	57	0%	85	24.7%	0	-	-	-	-	HMMPfam_7tm_1,superfamily_SSF81321
LOC100289576	100289576	genome.wustl.edu	37	17	72436329	72436329	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	XM_002343581.1	-1	model	p.D352Y	0.032	118	0%	159	17.6%	5	20%	-	-	-	NULL
CD300C	10871	genome.wustl.edu	37	17	72537774	72537774	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_006678.3	-1	provisional	p.R210I	0.003	131	0%	103	29.1%	1	0%	probably_damaging(0.992)	deleterious(0.01)	deleterious(0.853)	NULL
CD300LD	100131439	genome.wustl.edu	37	17	72584691	72584691	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001115152.1	-1	provisional	p.G113E	0.002	398	0%	126	21.4%	0	-	probably_damaging(0.995)	deleterious(0.03)	deleterious(0.822)	HMMSmart_IG,HMMPfam_V-set,superfamily_SSF48726
RAB37	326624	genome.wustl.edu	37	17	72739298	72739298	+	Nonsense_Mutation	SNP	C	C	T	rs150761775	by1000genomes	TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001006638.2	+1	validated	p.R93*	1.000	154	0%	275	12.7%	1	0%	-	-	-	HMMSmart_RAB,HMMPfam_Ras,superfamily_SSF52540
TMEM104	54868	genome.wustl.edu	37	17	72832787	72832787	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_017728.3	+1	validated	p.F484	0.380	13	0%	26	19.2%	1	0%	-	-	-	NULL
GRIN2C	2905	genome.wustl.edu	37	17	72843477	72843477	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_000835.3	-1	reviewed	p.I657	0.956	58	0%	136	16.9%	0	-	-	-	-	HMMPfam_Lig_chan,HMMSmart_SM00079,superfamily_Periplasmic binding protein-like II
GRIN2C	2905	genome.wustl.edu	37	17	72844085	72844085	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_000835.3	-1	reviewed	p.M559I	1.000	96	0%	169	26%	0	-	probably_damaging(0.986)	tolerated(0.47)	neutral(0.446)	HMMPfam_Lig_chan,HMMSmart_SM00079,superfamily_Periplasmic binding protein-like II
FADS6	283985	genome.wustl.edu	37	17	72875536	72875536	+	Missense_Mutation	SNP	T	T	G	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_178128.3	-1	validated	p.K302Q	1.000	77	0%	126	23%	0	-	benign(0.195)	deleterious(0)	neutral(0.463)	HMMPfam_FA_desaturase
USH1G	124590	genome.wustl.edu	37	17	72916177	72916177	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_173477.2	-1	reviewed	p.D252N	1.000	18	0%	33	18.2%	0	-	benign(0.32)	deleterious(0.01)	deleterious(0.506)	NULL
OTOP2	92736	genome.wustl.edu	37	17	72921673	72921673	+	Silent	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_178160.2	+1	validated	p.I112	0.901	214	0%	336	11.6%	0	-	-	-	-	NULL
OTOP2	92736	genome.wustl.edu	37	17	72923335	72923335	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_178160.2	+1	validated	p.V156	1.000	178	0%	218	22.5%	0	-	-	-	-	NULL
OTOP2	92736	genome.wustl.edu	37	17	72929490	72929490	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_178160.2	+1	validated	p.F513	0.935	112	0%	195	27.7%	0	-	-	-	-	HMMPfam_DUF270
C17orf28	283987	genome.wustl.edu	37	17	72948149	72948149	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_030630.2	-1	validated	p.T718	0.919	32	0%	42	26.2%	43	39.5%	-	-	-	HMMPfam_Hid1
C17orf28	283987	genome.wustl.edu	37	17	72960712	72960712	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_030630.2	-1	validated	p.D28N	1.000	87	0%	115	24.3%	1	0%	probably_damaging(0.988)	tolerated(0.09)	deleterious(0.734)	NULL
ICT1	3396	genome.wustl.edu	37	17	73017088	73017088	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001545.1	+1	reviewed	p.V203	0.000	179	0%	148	19.6%	83	22.8%	-	-	-	NULL
SLC25A19	60386	genome.wustl.edu	37	17	73274272	73274272	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001126121.1	-1	reviewed	p.L202M	0.000	41	0%	53	30.2%	18	11.1%	benign(0.005)	tolerated(0.19)	neutral(0.050)	superfamily_Mitochondrial carrier,HMMPfam_Mito_carr
KIAA0195	9772	genome.wustl.edu	37	17	73487853	73487853	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_014738.4	+1	validated	p.P490S	0.989	51	0%	77	19.5%	8	12.5%	benign(0)	tolerated(0.61)	neutral(0.004)	NULL
KIAA0195	9772	genome.wustl.edu	37	17	73494344	73494344	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_014738.4	+1	validated	p.S1193N	0.656	119	0%	177	15.3%	30	16.6%	benign(0.011)	tolerated(0.48)	neutral(0.011)	superfamily_Calcium ATPase transmembrane domain M
ITGB4	3691	genome.wustl.edu	37	17	73738748	73738748	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_000213.3	+1	reviewed	p.D956	0.027	52	0%	84	29.8%	7	57.1%	-	-	-	NULL
ITGB4	3691	genome.wustl.edu	37	17	73748288	73748288	+	Missense_Mutation	SNP	A	A	G	rs11657833	byHapMap	TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_000213.3	+1	reviewed	p.D1276G	1.000	72	0%	111	27%	53	39.6%	possibly_damaging(0.435)	deleterious(0)	deleterious(0.587)	HMMPfam_fn3,HMMSmart_SM00060,superfamily_Fibronectin type III
ITGB4	3691	genome.wustl.edu	37	17	73753534	73753534	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_000213.3	+1	reviewed	p.G1789	0.016	25	0%	57	57.9%	250	53.2%	-	-	-	NULL
UNC13D	201294	genome.wustl.edu	37	17	73826156	73826156	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_199242.2	-1	reviewed	p.Q969H	0.998	138	0%	252	10.3%	7	0%	probably_damaging(0.996)	deleterious(0.02)	deleterious(0.845)	HMMPfam_C2,HMMSmart_SM00239,superfamily_C2 domain (Calcium/lipid-binding domain CaLB)
ACOX1	51	genome.wustl.edu	37	17	73945836	73945836	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_004035.6	-1	reviewed	p.E481K	0.005	177	0%	126	23%	3	33.3%	benign(0)	tolerated(0.76)	neutral(0.001)	HMMPfam_ACOX,superfamily_AcylCoADH_C_like
EVPL	2125	genome.wustl.edu	37	17	74011671	74011671	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001988.2	-1	validated	p.K583N	1.000	73	0%	113	13.3%	0	-	probably_damaging(0.999)	deleterious(0.01)	deleterious(0.896)	superfamily_Spectrin repeat
SRP68	6730	genome.wustl.edu	37	17	74046560	74046560	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_014230.2	-1	reviewed	p.S342	0.248	121	0%	57	31.6%	15	6.6%	-	-	-	NULL
SRP68	6730	genome.wustl.edu	37	17	74060163	74060163	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_014230.2	-1	reviewed	p.R152Q	1.000	289	0%	258	22.5%	8	0%	probably_damaging(0.99)	deleterious(0.03)	deleterious(0.806)	NULL
ZACN	353174	genome.wustl.edu	37	17	74077644	74077644	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_180990.3	+1	validated	p.A230T	0.603	73	0%	106	29.2%	61	32.7%	probably_damaging(0.996)	tolerated(0.18)	deleterious(0.518)	superfamily_Neurotransmitter-gated ion-channel transmembrane pore,superfamily_Nicotinic receptor ligand binding domain-like
ZACN	353174	genome.wustl.edu	37	17	74078611	74078611	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_180990.3	+1	validated	p.L372	0.000	103	0%	147	26.5%	52	23%	-	-	-	superfamily_Neurotransmitter-gated ion-channel transmembrane pore
RNF157	114804	genome.wustl.edu	37	17	74151332	74151332	+	Splice_Site	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_052916.2	-1	validated	e16+1	1.000	66	0%	57	21.1%	0	-	-	-	-	-
RNF157	114804	genome.wustl.edu	37	17	74154583	74154583	+	Splice_Site	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_052916.2	-1	validated	e13-1	1.000	154	0%	91	29.7%	0	-	-	-	-	-
RNF157	114804	genome.wustl.edu	37	17	74208555	74208555	+	Missense_Mutation	SNP	A	A	C	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_052916.2	-1	validated	p.F33V	1.000	155	0%	95	23.2%	0	-	probably_damaging(0.991)	deleterious(0)	deleterious(0.889)	NULL
QRICH2	84074	genome.wustl.edu	37	17	74276741	74276741	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_032134.1	-1	provisional	p.I1319	0.149	300	0%	337	10.7%	1	0%	-	-	-	NULL
UBE2O	63893	genome.wustl.edu	37	17	74387399	74387399	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_022066.3	-1	validated	p.S1168	0.000	35	0%	52	23.1%	12	16.6%	-	-	-	NULL
UBE2O	63893	genome.wustl.edu	37	17	74392227	74392227	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_022066.3	-1	validated	p.V931I	1.000	51	2%	47	31.9%	5	0%	possibly_damaging(0.94)	tolerated(0.38)	neutral(0.403)	NULL
RHBDF2	79651	genome.wustl.edu	37	17	74468649	74468649	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	ENST00000389762	-1	known	p.S703N	0.002	5	0.000	21	0.286	0	-	unknown(0)	tolerated(0.19)	-	NULL
ST6GALNAC1	55808	genome.wustl.edu	37	17	74622843	74622843	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_018414.3	-1	validated	p.E401K	0.997	196	0%	266	13.2%	3	0%	probably_damaging(0.956)	deleterious(0.02)	deleterious(0.782)	HMMPfam_Glyco_transf_29
JMJD6	23210	genome.wustl.edu	37	17	74721843	74721843	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001081461.1	-1	reviewed	p.A75V	1.000	216	0%	320	26.6%	3	0%	benign(0.009)	tolerated(0.5)	neutral(0.011)	superfamily_Clavaminate synthase-like
SEC14L1	6397	genome.wustl.edu	37	17	75202395	75202395	+	Silent	SNP	C	C	T	rs186479619	by1000genomes	TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001039573.2	+1	reviewed	p.I418	0.414	131	0%	85	21.2%	24	16.6%	-	-	-	HMMPfam_CRAL_TRIO,HMMSmart_SM00516,superfamily_CRAL/TRIO domain
TNRC6C	57690	genome.wustl.edu	37	17	76047222	76047222	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001142640.1	+1	validated	p.I693	0.098	108	0%	97	13.4%	0	-	-	-	-	NULL
TNRC6C	57690	genome.wustl.edu	37	17	76082993	76082993	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001142640.1	+1	validated	p.A1204	1.000	42	0%	39	12.8%	2	50%	-	-	-	NULL
TNRC6C	57690	genome.wustl.edu	37	17	76089762	76089762	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001142640.1	+1	validated	p.D1405	0.849	156	0%	124	16.1%	5	40%	-	-	-	NULL
TMC6	11322	genome.wustl.edu	37	17	76117675	76117675	+	Missense_Mutation	SNP	C	C	T	rs142013205	by1000genomes	TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001127198.1	-1	reviewed	p.A449T	0.050	15	0%	42	28.6%	6	16.6%	benign(0)	tolerated(0.28)	neutral(0.032)	NULL
TMC8	147138	genome.wustl.edu	37	17	76134538	76134538	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_152468.4	+1	reviewed	p.P548S	0.987	100	0%	199	25.6%	6	0%	probably_damaging(0.999)	deleterious(0.03)	deleterious(0.855)	NULL
C17orf99	100141515	genome.wustl.edu	37	17	76160303	76160303	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	ENST00000451352	+1	known	p.G153	0.002	31	0%	49	20.4%	0	-	-	-	-	NULL
C17orf99	100141515	genome.wustl.edu	37	17	76160352	76160352	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	ENST00000451352	+1	known	p.S170P	0.994	30	0%	29	31%	0	-	probably_damaging(0.998)	deleterious(0)	deleterious(0.919)	NULL
AFMID	125061	genome.wustl.edu	37	17	76198676	76198676	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001145526.1	+1	validated	p.S84L	0.000	39	0%	31	22.6%	11	18.1%	benign(0)	tolerated(0.47)	neutral(0.011)	superfamily_alpha/beta-Hydrolases
AFMID	125061	genome.wustl.edu	37	17	76200752	76200752	+	Silent	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001145526.1	+1	validated	p.A108	1.000	52	0%	62	14.5%	0	-	-	-	-	superfamily_alpha/beta-Hydrolases
SOCS3	9021	genome.wustl.edu	37	17	76354763	76354763	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_003955.3	-1	reviewed	p.S138	0.000	10	0%	31	22.6%	37	0%	-	-	-	NULL
PGS1	9489	genome.wustl.edu	37	17	76395557	76395557	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_024419.3	+1	provisional	p.E214K	1.000	95	0%	84	15.5%	10	20%	probably_damaging(1)	deleterious(0)	deleterious(0.945)	superfamily_Phospholipase D/nuclease
PGS1	9489	genome.wustl.edu	37	17	76399660	76399660	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_024419.3	+1	provisional	p.E298K	0.293	29	0%	33	18.2%	5	0%	benign(0)	tolerated(0.68)	neutral(0.002)	NULL
DNAH17	8632	genome.wustl.edu	37	17	76424676	76424676	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	ENST00000389840	-1	known	p.R4167H	1.000	149	0%	177	23.7%	0	-	benign(0.182)	deleterious(0.04)	neutral(0.365)	HMMPfam_Dynein_heavy
DNAH17	8632	genome.wustl.edu	37	17	76435169	76435169	+	Silent	SNP	T	T	C	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	ENST00000389840	-1	known	p.V3922	0.064	98	0%	111	27%	0	-	-	-	-	HMMPfam_Dynein_heavy
DNAH17	8632	genome.wustl.edu	37	17	76450649	76450649	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	ENST00000389840	-1	known	p.R3423W	1.000	236	0%	287	26.5%	0	-	probably_damaging(1)	deleterious(0)	deleterious(0.945)	NULL
DNAH17	8632	genome.wustl.edu	37	17	76471850	76471850	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	ENST00000389840	-1	known	p.G2726	0.001	233	0%	240	12.9%	0	-	-	-	-	superfamily_P-loop containing nucleoside triphosphate hydrolases
DNAH17	8632	genome.wustl.edu	37	17	76503561	76503561	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	ENST00000389840	-1	known	p.D1517	0.004	104	0%	81	23.5%	0	-	-	-	-	HMMPfam_DHC_N2
DNAH17	8632	genome.wustl.edu	37	17	76503827	76503827	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	ENST00000389840	-1	known	p.R1429W	0.176	61	4.9%	37	21.6%	0	-	probably_damaging(0.998)	deleterious(0)	deleterious(0.919)	HMMPfam_DHC_N2
DNAH17	8632	genome.wustl.edu	37	17	76567720	76567720	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	ENST00000389840	-1	known	p.F228	0.235	65	0%	84	13.1%	0	-	-	-	-	HMMPfam_DHC_N1
USP36	57602	genome.wustl.edu	37	17	76802270	76802270	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_025090.3	-1	validated	p.V728	0.177	218	0%	329	30.1%	4	25%	-	-	-	NULL
USP36	57602	genome.wustl.edu	37	17	76823364	76823364	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_025090.3	-1	validated	p.D218N	1.000	48	0%	47	23.4%	7	14.2%	possibly_damaging(0.818)	tolerated(0.08)	deleterious(0.609)	HMMPfam_UCH,superfamily_SSF54001
CANT1	124583	genome.wustl.edu	37	17	76993561	76993561	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_138793.3	-1	reviewed	p.T48	0.000	18	0%	29	24.1%	1	0%	-	-	-	NULL
C1QTNF1	114897	genome.wustl.edu	37	17	77044084	77044084	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_030968.2	+1	validated	p.E254K	1.000	47	0%	79	22.8%	19	0%	probably_damaging(0.968)	deleterious(0.03)	deleterious(0.774)	HMMPfam_C1q,HMMSmart_C1Q,superfamily_TNF_like
ENGASE	64772	genome.wustl.edu	37	17	77075629	77075629	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001042573.1	+1	validated	p.D159N	1.000	104	0%	176	26.7%	3	33.3%	probably_damaging(1)	deleterious(0)	deleterious(0.945)	HMMPfam_Glyco_hydro_85
ENGASE	64772	genome.wustl.edu	37	17	77077136	77077136	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001042573.1	+1	validated	p.E285K	0.997	64	0%	136	22.8%	4	0%	possibly_damaging(0.61)	tolerated(0.14)	neutral(0.461)	HMMPfam_Glyco_hydro_85
RBFOX3	146713	genome.wustl.edu	37	17	77099247	77099247	+	Silent	SNP	A	A	G	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001082575.1	-1	validated	p.I168	1.000	208	0%	304	21.4%	1	0%	-	-	-	HMMPfam_RRM_1,HMMSmart_RRM,superfamily_SSF54928
CBX8	57332	genome.wustl.edu	37	17	77770109	77770109	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_020649.2	-1	validated	p.S40I	1.000	209	0%	322	25.2%	1	100%	probably_damaging(0.998)	deleterious(0)	deleterious(0.919)	HMMPfam_Chromo,HMMSmart_CHROMO,PatternScan_CHROMO_1,superfamily_Chromodomain-like
CBX4	8535	genome.wustl.edu	37	17	77808551	77808551	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_003655.2	-1	validated	p.R297Q	0.998	56	0%	81	22.2%	10	30%	probably_damaging(0.975)	deleterious(0.01)	deleterious(0.823)	NULL
CBX4	8535	genome.wustl.edu	37	17	77808649	77808649	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_003655.2	-1	validated	p.I264	0.944	171	0.6%	288	28.8%	17	5.8%	-	-	-	NULL
CCDC40	55036	genome.wustl.edu	37	17	78073488	78073488	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_017950.2	+1	validated	p.R1115W	0.029	45	0%	61	26.2%	6	16.6%	possibly_damaging(0.946)	deleterious(0.03)	deleterious(0.754)	NULL
EIF4A3	9775	genome.wustl.edu	37	17	78110133	78110133	+	Nonsense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_014740.3	-1	reviewed	p.R329*	1.000	254	0%	157	25.5%	58	1.7%	-	-	-	HMMPfam_Helicase_C,HMMSmart_HELICc,superfamily_SSF52540
CARD14	79092	genome.wustl.edu	37	17	78172276	78172276	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_024110.2	+1	reviewed	p.L579	1.000	41	0%	55	18.2%	0	-	-	-	-	NULL
CARD14	79092	genome.wustl.edu	37	17	78175563	78175563	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_024110.2	+1	reviewed	p.E624D	0.000	81	0%	117	23.9%	10	20%	benign(0.008)	tolerated(0.28)	neutral(0.032)	superfamily_PDZ domain-like
RNF213	57674	genome.wustl.edu	37	17	78265581	78265581	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_020954.2	+1	validated	p.V476I	0.553	164	0%	239	25.1%	4	25%	unknown(0)	tolerated(0.12)	-	NULL
RNF213	57674	genome.wustl.edu	37	17	78282935	78282935	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_020954.2	+1	validated	p.E873	0.167	227	0%	108	11.1%	0	-	-	-	-	NULL
RNF213	57674	genome.wustl.edu	37	17	78307942	78307942	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	ENST00000508628	+1	known	p.D1394G	0.000	157	0%	112	17.9%	0	-	possibly_damaging(0.692)	tolerated(0.19)	neutral(0.297)	NULL
RNF213	57674	genome.wustl.edu	37	17	78317013	78317013	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	ENST00000508628	+1	known	p.R2024Q	0.982	171	0%	146	28.1%	1	0%	probably_damaging(1)	tolerated(0.08)	deleterious(0.800)	NULL
RNF213	57674	genome.wustl.edu	37	17	78346926	78346926	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	ENST00000508628	+1	known	p.P4301	0.000	34	0%	62	37.1%	1	0%	-	-	-	NULL
RNF213	57674	genome.wustl.edu	37	17	78363638	78363638	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	ENST00000508628	+1	known	p.R5069K	0.009	176	0%	83	19.3%	10	20%	probably_damaging(0.961)	tolerated(0.72)	neutral(0.406)	NULL
ENDOV	284131	genome.wustl.edu	37	17	78399365	78399365	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_173627.3	+1	validated	p.A220V	0.971	28	0%	47	29.8%	8	0%	possibly_damaging(0.792)	deleterious(0)	deleterious(0.742)	HMMPfam_Endonuclease_5
BAIAP2	10458	genome.wustl.edu	37	17	79073794	79073794	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_017451.2	+1	reviewed	p.A186T	0.998	44	0%	78	28.2%	18	5.5%	probably_damaging(1)	deleterious(0)	deleterious(0.945)	HMMPfam_IMD
HGS	9146	genome.wustl.edu	37	17	79657241	79657241	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_004712.3	+1	provisional	p.D149N	1.000	192	0%	316	28.5%	20	10%	probably_damaging(0.995)	deleterious(0)	deleterious(0.902)	NULL
GCGR	2642	genome.wustl.edu	37	17	79767663	79767663	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	ENST00000400723	+1	known	p.Q22H	1.000	100	0%	170	21.2%	0	-	possibly_damaging(0.648)	deleterious(0)	deleterious(0.672)	superfamily_SSF111418
P4HB	5034	genome.wustl.edu	37	17	79801899	79801899	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_000918.3	-1	reviewed	p.D506Y	0.993	232	0%	323	27.6%	493	25.7%	probably_damaging(0.995)	deleterious(0)	deleterious(0.902)	NULL
ARHGDIA	396	genome.wustl.edu	37	17	79827674	79827674	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_004309.4	-1	validated	p.D45N	1.000	67	0%	150	20%	164	11.5%	probably_damaging(1)	deleterious(0)	deleterious(0.945)	HMMPfam_Rho_GDI,superfamily_E set domains
SIRT7	51547	genome.wustl.edu	37	17	79871713	79871713	+	Missense_Mutation	SNP	T	T	G	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_016538.1	-1	reviewed	p.K314T	0.946	45	0%	81	28.4%	19	42.1%	benign(0.044)	deleterious(0.01)	neutral(0.408)	superfamily_DHS-like NAD/FAD-binding domain
NOTUM	147111	genome.wustl.edu	37	17	79916840	79916840	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_178493.5	-1	validated	p.E168D	1.000	117	0%	160	21.9%	0	-	probably_damaging(1)	tolerated(0.07)	deleterious(0.819)	HMMPfam_PAE
FASN	2194	genome.wustl.edu	37	17	80038644	80038644	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_004104.4	-1	reviewed	p.I2250	0.798	38	0%	90	13.3%	21	9.5%	-	-	-	HMMPfam_Thioesterase,superfamily_alpha/beta-Hydrolases
FASN	2194	genome.wustl.edu	37	17	80046267	80046267	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_004104.4	-1	reviewed	p.I864	0.601	55	0%	104	22.1%	3	0%	-	-	-	NULL
C17orf101	79701	genome.wustl.edu	37	17	80356186	80356186	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_175902.4	-1	validated	p.G237S	0.999	61	0%	100	18%	26	42.3%	probably_damaging(1)	tolerated(0.41)	deleterious(0.515)	HMMSmart_SM00702
C17orf101	79701	genome.wustl.edu	37	17	80361875	80361875	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_175902.4	-1	validated	p.R213C	0.992	60	0%	108	23.1%	28	10.7%	probably_damaging(1)	deleterious(0)	deleterious(0.945)	HMMSmart_SM00702
HEXDC	284004	genome.wustl.edu	37	17	80398878	80398878	+	Missense_Mutation	SNP	T	T	G	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_173620.2	+1	validated	p.F330V	0.359	62	0%	126	31.7%	15	6.6%	benign(0.096)	deleterious(0.01)	neutral(0.413)	NULL
WDR45L	56270	genome.wustl.edu	37	17	80585152	80585152	+	Missense_Mutation	SNP	T	T	G	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_019613.3	-1	reviewed	p.D87A	1.000	310	0%	333	22.2%	14	7.1%	possibly_damaging(0.912)	deleterious(0)	deleterious(0.808)	superfamily_WD40 repeat-like
FN3KRP	79672	genome.wustl.edu	37	17	80680737	80680737	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_024619.3	+1	validated	p.V148A	1.000	494	0%	699	27.2%	6	16.6%	benign(0.008)	tolerated(0.77)	neutral(0.001)	superfamily_Kinase_like
FN3K	64122	genome.wustl.edu	37	17	80699193	80699193	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_022158.3	+1	validated	p.R131I	0.576	141	0%	218	28.9%	10	10%	possibly_damaging(0.76)	tolerated(0.2)	neutral(0.330)	superfamily_Kinase_like
FN3K	64122	genome.wustl.edu	37	17	80699248	80699248	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_022158.3	+1	validated	p.T149	0.027	126	0.8%	212	30.7%	16	6.2%	-	-	-	superfamily_Kinase_like
ZNF750	79755	genome.wustl.edu	37	17	80788675	80788675	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_024702.2	-1	reviewed	p.P505	0.001	28	3.6%	50	20%	0	-	-	-	-	NULL
TBCD	6904	genome.wustl.edu	37	17	80863886	80863886	+	Nonsense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_005993.4	+1	reviewed	p.E627*	0.949	102	0%	210	15.7%	10	0%	-	-	-	superfamily_ARM repeat
TBCD	6904	genome.wustl.edu	37	17	80881549	80881549	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_005993.4	+1	reviewed	p.A734T	0.665	106	0%	147	25.2%	26	30.7%	benign(0.004)	tolerated(0.33)	neutral(0.024)	superfamily_ARM repeat
B3GNTL1	146712	genome.wustl.edu	37	17	81006369	81006369	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001009905.1	-1	validated	p.H85	0.105	159	0%	283	10.6%	5	0%	-	-	-	HMMPfam_Glycos_transf_2,superfamily_Nucleotide-diphospho-sugar transferases
THOC1	9984	genome.wustl.edu	37	18	214668	214668	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_005131.2	-1	validated	p.D644	1.000	255	0%	88	11.4%	39	10.2%	-	-	-	HMMPfam_Death,HMMSmart_DEATH,superfamily_DEATH_like
CLUL1	27098	genome.wustl.edu	37	18	627227	627227	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_014410.4	+1	validated	p.S185N	0.998	327	0%	106	23.6%	2	100%	benign(0.001)	tolerated(0.63)	neutral(0.004)	HMMPfam_Clusterin,HMMSmart_CLb
CLUL1	27098	genome.wustl.edu	37	18	627246	627246	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_014410.4	+1	validated	p.V191	0.055	339	0%	110	21.8%	2	0%	-	-	-	HMMPfam_Clusterin,HMMSmart_CLb
ENOSF1	55556	genome.wustl.edu	37	18	697332	697332	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_202758.2	-1	validated	p.A94T	0.292	300	0%	168	19%	1	0%	benign(0.002)	tolerated(0.19)	neutral(0.050)	HMMPfam_MR_MLE_N,superfamily_SSF54826
METTL4	64863	genome.wustl.edu	37	18	2544247	2544247	+	Missense_Mutation	SNP	T	T	G	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_022840.3	-1	validated	p.K407T	0.966	267	0%	80	32.5%	0	-	probably_damaging(0.959)	tolerated(0.07)	deleterious(0.722)	HMMPfam_MT-A70
NDC80	10403	genome.wustl.edu	37	18	2575029	2575029	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_006101.2	+1	validated	p.P48L	0.007	196	0%	131	21.4%	0	-	possibly_damaging(0.911)	deleterious(0.01)	deleterious(0.768)	HMMPfam_Ndc80_HEC
MYOM1	8736	genome.wustl.edu	37	18	3090665	3090665	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_003803.3	-1	reviewed	p.V1334I	1.000	301	0.3%	77	16.9%	2	0%	benign(0)	tolerated(1)	-	HMMSmart_SM00409
MYOM1	8736	genome.wustl.edu	37	18	3112367	3112367	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_003803.3	-1	reviewed	p.R1116Q	1.000	88	0%	21	47.6%	1	0%	possibly_damaging(0.926)	tolerated(0.17)	neutral(0.433)	HMMPfam_fn3,HMMSmart_SM00060,superfamily_Fibronectin type III
MYOM1	8736	genome.wustl.edu	37	18	3151757	3151757	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_003803.3	-1	reviewed	p.G593D	1.000	140	0%	64	25%	1	0%	possibly_damaging(0.807)	tolerated(0.14)	deleterious(0.553)	HMMPfam_fn3,HMMSmart_SM00060,superfamily_Fibronectin type III
MYL12B	103910	genome.wustl.edu	37	18	3272901	3272901	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001144944.1	+1	validated	p.S2L	1.000	316	0%	135	12.6%	312	1.2%	probably_damaging(0.998)	deleterious(0)	deleterious(0.919)	NULL
DLGAP1	9229	genome.wustl.edu	37	18	3499342	3499342	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_004746.2	-1	provisional	p.A925	1.000	9	0.000	20	0.350	0	-	-	-	-	HMMPfam_GKAP
DLGAP1	9229	genome.wustl.edu	37	18	3534215	3534215	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_004746.2	-1	provisional	p.R819Q	0.958	155	0%	66	18.2%	1	100%	possibly_damaging(0.756)	tolerated(0.15)	deleterious(0.520)	HMMPfam_GKAP
DLGAP1	9229	genome.wustl.edu	37	18	3729346	3729346	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_004746.2	-1	provisional	p.F460	0.987	26	0%	37	18.9%	0	-	-	-	-	NULL
DLGAP1	9229	genome.wustl.edu	37	18	3880003	3880003	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_004746.2	-1	provisional	p.S22	0.799	6	0.000	32	0.312	0	-	-	-	-	NULL
EPB41L3	23136	genome.wustl.edu	37	18	5406875	5406875	+	Silent	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_012307.2	-1	provisional	p.A750	0.047	526	0%	171	16.4%	4	0%	-	-	-	HMMPfam_SAB
EPB41L3	23136	genome.wustl.edu	37	18	5415872	5415872	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_012307.2	-1	provisional	p.A671V	1.000	212	0%	66	13.6%	0	-	benign(0.101)	deleterious(0.01)	neutral(0.413)	NULL
EPB41L3	23136	genome.wustl.edu	37	18	5428407	5428407	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_012307.2	-1	provisional	p.R324C	1.000	250	0%	105	16.2%	3	0%	possibly_damaging(0.905)	deleterious(0)	deleterious(0.804)	HMMPfam_FERM_C,superfamily_PH domain-like
EPB41L3	23136	genome.wustl.edu	37	18	5433964	5433964	+	Silent	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_012307.2	-1	provisional	p.R254	1.000	449	0%	200	13%	3	0%	-	-	-	HMMPfam_FERM_M,superfamily_Second domain of FERM,HMMSmart_SM00295
ARHGAP28	79822	genome.wustl.edu	37	18	6887219	6887219	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001010000.1	+1	validated	p.A347V	1.000	216	0%	50	20%	1	0%	benign(0.18)	tolerated(0.15)	neutral(0.258)	HMMPfam_RhoGAP,HMMSmart_RhoGAP,superfamily_Rho_GAP
LAMA1	284217	genome.wustl.edu	37	18	6943278	6943278	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_005559.2	-1	validated	p.T2990A	0.000	353	0%	155	20.6%	23	39.1%	benign(0.001)	tolerated(0.51)	neutral(0.009)	HMMSmart_SM00282,superfamily_Concanavalin A-like lectins/glucanases,HMMPfam_Laminin_G_1
LAMA1	284217	genome.wustl.edu	37	18	7012110	7012110	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_005559.2	-1	validated	p.E1131K	0.010	66	0%	40	12.5%	0	-	benign(0.055)	tolerated(0.94)	neutral(0.004)	HMMPfam_Laminin_EGF,HMMSmart_SM00180,PatternScan_EGF_LAM_1,superfamily_Concanavalin A-like lectins/glucanases,superfamily_EGF/Laminin
PTPRM	5797	genome.wustl.edu	37	18	8069839	8069839	+	Nonsense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001105244.1	+1	reviewed	p.R430*	0.691	314	0%	151	27.8%	8	12.5%	-	-	-	HMMPfam_fn3,HMMSmart_SM00060,superfamily_Fibronectin type III
PTPRM	5797	genome.wustl.edu	37	18	8387169	8387169	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001105244.1	+1	reviewed	p.R1382C	1.000	199	0.5%	116	9.5%	33	3%	probably_damaging(0.999)	tolerated(0.09)	deleterious(0.787)	HMMPfam_Y_phosphatase,HMMSmart_SM00194,HMMSmart_SM00404,superfamily_(Phosphotyrosine protein) phosphatases II
RAB12	201475	genome.wustl.edu	37	18	8636337	8636337	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001025300.2	+1	validated	p.V201	0.059	378	0.3%	139	16.5%	20	0%	-	-	-	HMMSmart_RAB,HMMPfam_Ras,superfamily_SSF52540
SOGA2	23255	genome.wustl.edu	37	18	8718616	8718616	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_015210.3	+1	predicted	p.E56D	1.000	236	0%	136	23.5%	1	0%	possibly_damaging(0.559)	tolerated(0.07)	deleterious(0.510)	NULL
SOGA2	23255	genome.wustl.edu	37	18	8783862	8783862	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_015210.3	+1	predicted	p.P251L	0.000	10	0%	20	35%	0	-	benign(0)	tolerated(0.77)	neutral(0.001)	NULL
ANKRD12	23253	genome.wustl.edu	37	18	9254213	9254213	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_015208.3	+1	validated	p.S316	0.998	173	0%	71	19.7%	0	-	-	-	-	superfamily_Ankyrin repeat
TWSG1	57045	genome.wustl.edu	37	18	9396292	9396292	+	Nonsense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_020648.5	+1	validated	p.R80*	0.999	240	0%	77	26%	12	0%	-	-	-	NULL
RALBP1	10928	genome.wustl.edu	37	18	9513181	9513181	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_006788.3	+1	validated	p.E46	1.000	122	0%	55	20%	12	25%	-	-	-	NULL
PPP4R1	9989	genome.wustl.edu	37	18	9593848	9593848	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001042388.1	-1	validated	p.L71	1.000	363	0%	106	22.6%	2	50%	-	-	-	superfamily_ARM repeat
TXNDC2	84203	genome.wustl.edu	37	18	9887109	9887109	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001098529.1	+1	validated	p.K211N	0.028	492	0%	363	12.7%	0	-	benign(0.04)	tolerated(0.59)	neutral(0.007)	NULL
APCDD1	147495	genome.wustl.edu	37	18	10485770	10485770	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_153000.4	+1	validated	p.F362	0.602	46	0%	38	28.9%	23	0%	-	-	-	NULL
PIEZO2	63895	genome.wustl.edu	37	18	10681685	10681685	+	Missense_Mutation	SNP	T	T	G	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	ENST00000503781	-1	known	p.K365N	0.009	547	0%	149	15.4%	0	-	benign(0.001)	tolerated(0.5)	neutral(0.010)	NULL
PIEZO2	63895	genome.wustl.edu	37	18	10696433	10696433	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	ENST00000503781	-1	known	p.T155N	1.000	138	0%	49	16.3%	0	-	probably_damaging(0.98)	deleterious(0.02)	deleterious(0.807)	NULL
ENSG00000175388	0	genome.wustl.edu	37	18	10761037	10761037	+	Nonsense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	ENST00000383408	-1	known	p.R371*	0.997	163	0%	78	20.5%	0	-	-	-	-	NULL
ENSG00000175388	0	genome.wustl.edu	37	18	10773613	10773613	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	ENST00000383408	-1	known	p.E124G	1.000	162	0%	68	13.2%	0	-	benign(0.028)	tolerated(0.15)	neutral(0.242)	NULL
ENSG00000168738	0	genome.wustl.edu	37	18	10797467	10797467	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	ENST00000302079	-1	known	p.R350C	0.117	675	0%	303	23.4%	0	-	benign(0.005)	tolerated(0.1)	neutral(0.286)	NULL
SLC35G4	646000	genome.wustl.edu	37	18	11644695	11644695	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	ENST00000424015	+1	known	p.L296M	0.189	317	0%	420	22.4%	0	-	-	-	-	superfamily_Multidrug resistance efflux transporter EmrE
ENSG00000212712	0	genome.wustl.edu	37	18	12057305	12057305	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	ENST00000391405	-1	known	p.F145L	0.956	24	0%	22	40.9%	0	-	benign(0)	tolerated(0.24)	neutral(0.037)	NULL
ENSG00000231452	0	genome.wustl.edu	37	18	12067246	12067246	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	ENST00000455542	-1	known	p.D337	1.000	4	0.000	10	0.400	1	0%	-	-	-	NULL
ENSG00000231452	0	genome.wustl.edu	37	18	12068179	12068179	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	ENST00000455542	-1	known	p.E28K	1.000	36	0%	61	24.6%	6	0%	-	-	-	NULL
CIDEA	1149	genome.wustl.edu	37	18	12264405	12264405	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_198289.2	+1	reviewed	p.D129N	0.997	276	0%	261	10.3%	0	-	probably_damaging(0.998)	tolerated(0.08)	deleterious(0.774)	HMMPfam_CIDE-N,HMMSmart_CAD,superfamily_SSF54277
LOC100289263	100289263	genome.wustl.edu	37	18	12325505	12325505	+	Nonsense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	XM_002344141.1	-1	model	p.R69*	0.326	59	0%	102	23.5%	43	2.3%	-	-	-	NULL
AFG3L2	10939	genome.wustl.edu	37	18	12340316	12340316	+	Missense_Mutation	SNP	A	A	C	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_006796.1	-1	reviewed	p.L622V	0.948	339	0%	140	10%	19	5.2%	possibly_damaging(0.498)	deleterious(0.04)	deleterious(0.515)	HMMPfam_Peptidase_M41,superfamily_SSF52540
CEP76	79959	genome.wustl.edu	37	18	12674568	12674568	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_024899.2	-1	provisional	p.R603I	1.000	166	0%	93	11.8%	14	7.1%	benign(0.07)	tolerated(0.61)	neutral(0.009)	NULL
CEP76	79959	genome.wustl.edu	37	18	12678370	12678370	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_024899.2	-1	provisional	p.R454Q	1.000	333	0%	142	14.1%	5	0%	benign(0.073)	tolerated(0.47)	neutral(0.016)	NULL
CEP76	79959	genome.wustl.edu	37	18	12699070	12699070	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_024899.2	-1	provisional	p.R143Q	1.000	194	0.5%	229	38.9%	4	50%	probably_damaging(0.997)	tolerated(0.39)	deleterious(0.482)	NULL
PTPN2	5771	genome.wustl.edu	37	18	12794465	12794465	+	Nonsense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_002828.2	-1	reviewed	p.R354*	0.995	479	0%	163	20.9%	49	4%	-	-	-	NULL
CEP192	55125	genome.wustl.edu	37	18	13042241	13042241	+	Nonsense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_032142.3	+1	validated	p.G63*	1.000	180	0.6%	55	25.5%	1	0%	-	-	-	NULL
CEP192	55125	genome.wustl.edu	37	18	13087116	13087116	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_032142.3	+1	validated	p.G1310D	1.000	244	0%	122	25.4%	1	0%	probably_damaging(1)	tolerated(0.06)	deleterious(0.823)	NULL
CEP192	55125	genome.wustl.edu	37	18	13114134	13114134	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_032142.3	+1	validated	p.I1795	0.006	243	0%	110	28.2%	9	0%	-	-	-	NULL
MC5R	4161	genome.wustl.edu	37	18	13826089	13826089	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_005913.1	+1	provisional	p.A109T	0.260	152	0%	244	29.9%	0	-	benign(0)	tolerated(0.26)	neutral(0.034)	HMMPfam_7tm_1,superfamily_Family A G protein-coupled receptor-like
MC2R	4158	genome.wustl.edu	37	18	13884765	13884765	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_000529.2	-1	reviewed	p.C251	0.119	107	0%	69	39.1%	0	-	-	-	-	HMMPfam_7tm_1,superfamily_Family A G protein-coupled receptor-like
MC2R	4158	genome.wustl.edu	37	18	13884786	13884786	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_000529.2	-1	reviewed	p.F244L	1.000	103	0%	54	14.8%	0	-	benign(0.005)	tolerated(0.53)	neutral(0.007)	HMMPfam_7tm_1,superfamily_Family A G protein-coupled receptor-like
ZNF519	162655	genome.wustl.edu	37	18	14105172	14105172	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_145287.3	-1	validated	p.G456E	1.000	169	0%	53	32.1%	1	0%	probably_damaging(1)	tolerated(0.06)	deleterious(0.823)	superfamily_C2H2 and C2HC zinc fingers
LOC646359	646359	genome.wustl.edu	37	18	14378239	14378239	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	XM_929288.3	-1	model	p.N175S	0.012	57	0%	120	18.3%	1	0%	-	-	-	HMMPfam_TRF,superfamily_Telomeric repeat binding factor (TRF) dimerisation domain
LOC646359	646359	genome.wustl.edu	37	18	14378542	14378542	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	XM_929288.3	-1	model	p.R74Q	0.004	56	0%	81	28.4%	0	-	-	-	-	HMMPfam_TRF,superfamily_Telomeric repeat binding factor (TRF) dimerisation domain
ANKRD30B	374860	genome.wustl.edu	37	18	14764017	14764017	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001145029.1	+1	validated	p.V385F	0.017	148	0%	73	16.4%	0	-	possibly_damaging(0.847)	tolerated(0.08)	deleterious(0.625)	NULL
ANKRD30B	374860	genome.wustl.edu	37	18	14784352	14784352	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001145029.1	+1	validated	p.S530P	0.002	682	0%	266	12.4%	0	-	possibly_damaging(0.811)	deleterious(0.01)	deleterious(0.711)	NULL
ANKRD30B	374860	genome.wustl.edu	37	18	14797838	14797838	+	Nonsense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001145029.1	+1	validated	p.E672*	0.001	404	0%	99	17.2%	0	-	-	-	-	NULL
ANKRD30B	374860	genome.wustl.edu	37	18	14837242	14837242	+	Missense_Mutation	SNP	G	G	T	rs2487262		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001145029.1	+1	validated	p.Q841H	0.000	346	0%	123	12.2%	0	-	possibly_damaging(0.514)	tolerated(0.25)	neutral(0.210)	NULL
ANKRD30B	374860	genome.wustl.edu	37	18	14850354	14850354	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001145029.1	+1	validated	p.L1060F	0.111	202	0%	176	13.6%	0	-	possibly_damaging(0.772)	deleterious(0.03)	deleterious(0.651)	NULL
ROCK1	6093	genome.wustl.edu	37	18	18533559	18533559	+	Missense_Mutation	SNP	T	T	G	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_005406.2	-1	reviewed	p.K1347N	1.000	444	0%	123	11.4%	8	0%	possibly_damaging(0.837)	deleterious(0)	deleterious(0.764)	NULL
ROCK1	6093	genome.wustl.edu	37	18	18571203	18571203	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_005406.2	-1	reviewed	p.V693L	1.000	900	0%	261	22.6%	5	20%	benign(0.004)	tolerated(0.25)	neutral(0.037)	NULL
ROCK1	6093	genome.wustl.edu	37	18	18586428	18586428	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_005406.2	-1	reviewed	p.R590Q	1.000	416	0%	111	32.4%	2	0%	possibly_damaging(0.864)	tolerated(0.59)	neutral(0.339)	NULL
ROCK1	6093	genome.wustl.edu	37	18	18619483	18619483	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_005406.2	-1	reviewed	p.R334Q	1.000	496	0%	186	21%	0	-	benign(0.017)	tolerated(0.69)	neutral(0.003)	HMMSmart_S_TKc,superfamily_Kinase_like,HMMPfam_Pkinase
ROCK1	6093	genome.wustl.edu	37	18	18629824	18629824	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_005406.2	-1	reviewed	p.K65E	1.000	423	0%	173	29.5%	2	0%	benign(0)	tolerated(1)	-	superfamily_Kinase_like
ESCO1	114799	genome.wustl.edu	37	18	19110358	19110358	+	Silent	SNP	A	A	G	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_052911.2	-1	validated	p.C823	1.000	116	0%	35	31.4%	6	33.3%	-	-	-	NULL
ESCO1	114799	genome.wustl.edu	37	18	19154099	19154099	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_052911.2	-1	validated	p.E236K	0.049	360	0.3%	181	26%	3	0%	benign(0.029)	tolerated(0.38)	neutral(0.019)	NULL
MIB1	57534	genome.wustl.edu	37	18	19429299	19429299	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_020774.2	+1	validated	p.R846C	1.000	345	0%	142	20.4%	0	-	probably_damaging(1)	deleterious(0.02)	deleterious(0.883)	HMMSmart_RING,superfamily_SSF57850
MIB1	57534	genome.wustl.edu	37	18	19437119	19437119	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_020774.2	+1	validated	p.V898	1.000	500	0%	324	23.8%	5	20%	-	-	-	HMMSmart_RING,superfamily_SSF57850
RBBP8	5932	genome.wustl.edu	37	18	20516923	20516923	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_002894.2	+1	reviewed	p.G37C	1.000	312	0%	402	14.7%	1	0%	probably_damaging(1)	deleterious(0.01)	deleterious(0.905)	HMMPfam_CtIP_N
RBBP8	5932	genome.wustl.edu	37	18	20548849	20548849	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_002894.2	+1	reviewed	p.R110Q	1.000	325	0%	92	14.1%	4	0%	possibly_damaging(0.56)	deleterious(0.03)	deleterious(0.555)	HMMPfam_CtIP_N
C18orf8	29919	genome.wustl.edu	37	18	21089232	21089232	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_013326.3	+1	validated	p.E133K	1.000	256	0%	234	13.2%	10	0%	probably_damaging(1)	deleterious(0)	deleterious(0.945)	NULL
C18orf8	29919	genome.wustl.edu	37	18	21100181	21100181	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_013326.3	+1	validated	p.D289N	1.000	323	0%	103	16.5%	10	0%	probably_damaging(1)	deleterious(0)	deleterious(0.945)	NULL
ANKRD29	147463	genome.wustl.edu	37	18	21181228	21181228	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_173505.2	-1	validated	p.R290C	0.193	567	0.4%	285	25.6%	3	0%	probably_damaging(0.978)	deleterious(0.01)	deleterious(0.826)	superfamily_Ankyrin repeat
ANKRD29	147463	genome.wustl.edu	37	18	21192054	21192054	+	Splice_Site	SNP	A	A	G	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_173505.2	-1	validated	e9+2	1.000	222	0%	162	24.7%	0	-	-	-	-	-
LAMA3	3909	genome.wustl.edu	37	18	21512191	21512191	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_198129.1	+1	reviewed	p.R2882W	0.001	240	0.8%	65	33.8%	4	0%	benign(0.026)	deleterious(0.02)	neutral(0.384)	HMMSmart_SM00282,superfamily_Concanavalin A-like lectins/glucanases,HMMPfam_Laminin_G_2
LAMA3	3909	genome.wustl.edu	37	18	21523902	21523902	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_198129.1	+1	reviewed	p.S3059	1.000	233	0%	86	12.8%	8	12.5%	-	-	-	HMMSmart_SM00282,superfamily_Concanavalin A-like lectins/glucanases,HMMPfam_Laminin_G_2
HRH4	59340	genome.wustl.edu	37	18	22040749	22040749	+	Silent	SNP	A	A	G	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_021624.3	+1	reviewed	p.A19	0.228	587	0%	122	23.8%	0	-	-	-	-	superfamily_Family A G protein-coupled receptor-like
HRH4	59340	genome.wustl.edu	37	18	22048792	22048792	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_021624.3	+1	reviewed	p.F78	0.000	538	0%	100	12%	0	-	-	-	-	HMMPfam_7tm_1,superfamily_Family A G protein-coupled receptor-like
HRH4	59340	genome.wustl.edu	37	18	22057444	22057444	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_021624.3	+1	reviewed	p.R364H	0.374	387	0%	109	24.8%	0	-	benign(0.008)	tolerated(0.2)	neutral(0.049)	superfamily_Family A G protein-coupled receptor-like
ZNF521	25925	genome.wustl.edu	37	18	22807336	22807336	+	Silent	SNP	C	C	T	rs182212217	by1000genomes	TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_015461.2	-1	validated	p.A182	0.010	238	0%	51	23.5%	1	0%	-	-	-	HMMPfam_zf-C2H2,PatternScan_ZINC_FINGER_C2H2_1,HMMSmart_SM00355,superfamily_C2H2 and C2HC zinc fingers
TAF4B	6875	genome.wustl.edu	37	18	23845139	23845139	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_005640.1	+1	validated	p.V117I	0.999	181	0%	73	19.2%	1	100%	possibly_damaging(0.949)	deleterious(0)	deleterious(0.838)	NULL
CHST9	83539	genome.wustl.edu	37	18	24496403	24496403	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_031422.4	-1	validated	p.I384	0.993	219	0.5%	30	16.7%	0	-	-	-	-	HMMPfam_Sulfotransfer_2
CDH2	1000	genome.wustl.edu	37	18	25563012	25563012	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001792.3	-1	reviewed	p.R749W	1.000	577	0.3%	229	22.7%	5	0%	probably_damaging(1)	deleterious(0.01)	deleterious(0.905)	HMMPfam_Cadherin_C
CDH2	1000	genome.wustl.edu	37	18	25593774	25593774	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001792.3	-1	reviewed	p.R91I	1.000	443	0%	94	24.5%	1	0%	probably_damaging(0.991)	deleterious(0)	deleterious(0.889)	HMMPfam_Cadherin_pro,superfamily_Cadherin-like
DSC2	1824	genome.wustl.edu	37	18	28648292	28648292	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_004949.3	-1	reviewed	p.T843A	1.000	337	0%	80	23.7%	1	0%	probably_damaging(0.98)	deleterious(0)	deleterious(0.869)	NULL
DSC2	1824	genome.wustl.edu	37	18	28666670	28666670	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_024422.3	-1	reviewed	p.D271Y	0.999	442	0%	156	13.5%	0	-	probably_damaging(1)	deleterious(0)	deleterious(0.945)	HMMPfam_Cadherin,HMMSmart_SM00112,superfamily_Cadherin-like
DSC2	1824	genome.wustl.edu	37	18	28673537	28673537	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_024422.3	-1	reviewed	p.K47E	0.943	222	0%	158	21.5%	1	100%	possibly_damaging(0.659)	tolerated(0.12)	deleterious(0.493)	HMMPfam_Cadherin_pro,superfamily_Cadherin-like
DSC1	1823	genome.wustl.edu	37	18	28728518	28728518	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_024421.2	-1	reviewed	p.A239T	1.000	417	0%	263	12.2%	0	-	probably_damaging(0.999)	tolerated(0.27)	deleterious(0.524)	HMMSmart_SM00112,PatternScan_CADHERIN_1,superfamily_Cadherin-like
DSG1	1828	genome.wustl.edu	37	18	28908168	28908168	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001942.2	+1	reviewed	p.A78D	1.000	259	0%	55	14.5%	0	-	benign(0.072)	tolerated(0.49)	neutral(0.015)	HMMPfam_Cadherin,HMMSmart_SM00112,superfamily_Cadherin-like
DSG1	1828	genome.wustl.edu	37	18	28916386	28916386	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001942.2	+1	reviewed	p.H359Y	0.968	241	0%	62	14.5%	0	-	benign(0.001)	tolerated(0.11)	neutral(0.272)	HMMPfam_Cadherin,HMMSmart_SM00112,superfamily_Cadherin-like
DSG1	1828	genome.wustl.edu	37	18	28926062	28926062	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001942.2	+1	reviewed	p.E667D	0.997	302	0%	108	10.2%	0	-	probably_damaging(0.975)	tolerated(0.55)	neutral(0.424)	HMMPfam_Cadherin_C
DSG1	1828	genome.wustl.edu	37	18	28934828	28934828	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001942.2	+1	reviewed	p.S890L	0.994	228	0.4%	104	13.5%	0	-	possibly_damaging(0.825)	tolerated(0.17)	neutral(0.371)	NULL
DSG4	147409	genome.wustl.edu	37	18	28971146	28971146	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001134453.1	+1	reviewed	p.D264N	1.000	391	0%	67	11.9%	0	-	probably_damaging(1)	deleterious(0)	deleterious(0.945)	HMMSmart_CA,PatternScan_CADHERIN_1,superfamily_Cadherin
DSG4	147409	genome.wustl.edu	37	18	28972152	28972152	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001134453.1	+1	reviewed	p.S285L	0.997	377	0%	88	19.3%	0	-	probably_damaging(0.994)	tolerated(0.18)	deleterious(0.508)	HMMPfam_Cadherin,superfamily_Cadherin
DSG3	1830	genome.wustl.edu	37	18	29054118	29054118	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001944.2	+1	reviewed	p.A712	0.001	155	0%	102	25.5%	0	-	-	-	-	NULL
DSG3	1830	genome.wustl.edu	37	18	29056028	29056028	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001944.2	+1	reviewed	p.E935	0.862	304	0%	198	11.1%	0	-	-	-	-	NULL
DSG2	1829	genome.wustl.edu	37	18	29125976	29125976	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001943.3	+1	reviewed	p.V876A	0.000	95	0%	31	25.8%	1	100%	benign(0)	tolerated(0.78)	neutral(0.001)	NULL
TTR	7276	genome.wustl.edu	37	18	29175087	29175087	+	Missense_Mutation	SNP	A	A	G	rs121918081		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_000371.3	+1	reviewed	p.T69A	1.000	142	0%	50	32%	0	-	probably_damaging(0.997)	deleterious(0.01)	deleterious(0.872)	HMMPfam_Transthyretin,HMMSmart_TR_THY,superfamily_Transthyretin
B4GALT6	9331	genome.wustl.edu	37	18	29205596	29205596	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_004775.3	-1	reviewed	p.A377D	1.000	282	0.4%	165	10.3%	0	-	probably_damaging(0.994)	deleterious(0)	deleterious(0.897)	NULL
MCART2	147407	genome.wustl.edu	37	18	29340598	29340598	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001034172.2	-1	validated	p.K9N	0.982	128	0%	203	21.2%	0	-	probably_damaging(0.999)	deleterious(0)	deleterious(0.935)	NULL
TRAPPC8	22878	genome.wustl.edu	37	18	29412097	29412097	+	Silent	SNP	A	A	G	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_014939.3	-1	validated	p.C1341	1.000	389	0%	147	21.1%	9	11.1%	-	-	-	NULL
TRAPPC8	22878	genome.wustl.edu	37	18	29426774	29426774	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_014939.3	-1	validated	p.V1248I	1.000	357	0%	99	27.3%	3	0%	possibly_damaging(0.912)	tolerated(0.3)	neutral(0.392)	NULL
TRAPPC8	22878	genome.wustl.edu	37	18	29444684	29444684	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_014939.3	-1	validated	p.R884Q	1.000	376	0%	72	16.7%	2	0%	probably_damaging(1)	tolerated(0.19)	deleterious(0.549)	NULL
TRAPPC8	22878	genome.wustl.edu	37	18	29497572	29497572	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_014939.3	-1	validated	p.L137	0.924	265	0%	113	29.2%	0	-	-	-	-	NULL
RNF125	54941	genome.wustl.edu	37	18	29622214	29622214	+	Nonsense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_017831.3	+1	reviewed	p.E131*	1.000	315	0%	156	13.5%	0	-	-	-	-	NULL
MEP1B	4225	genome.wustl.edu	37	18	29775402	29775402	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_005925.2	+1	validated	p.K68	0.000	631	0.2%	430	20.5%	0	-	-	-	-	"HMMSmart_SM00235,superfamily_Metalloproteases (""zincins"") catalytic domain"
FAM59A	64762	genome.wustl.edu	37	18	29867602	29867602	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_022751.1	-1	provisional	p.E320K	1.000	135	0%	55	14.5%	0	-	benign(0.317)	tolerated(0.06)	neutral(0.421)	NULL
KLHL14	57565	genome.wustl.edu	37	18	30267157	30267157	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_020805.1	-1	provisional	p.R400Q	1.000	404	0%	72	19.4%	2	0%	probably_damaging(0.968)	deleterious(0)	deleterious(0.855)	HMMPfam_Kelch_1,HMMSmart_Kelch,superfamily_Gal_oxid_central
KLHL14	57565	genome.wustl.edu	37	18	30275488	30275488	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_020805.1	-1	provisional	p.C366Y	1.000	213	0%	103	18.4%	1	100%	probably_damaging(0.961)	tolerated(0.09)	deleterious(0.701)	HMMPfam_Kelch_1,HMMSmart_Kelch,superfamily_Gal_oxid_central
ASXL3	80816	genome.wustl.edu	37	18	31263407	31263407	+	Nonsense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_030632.1	+1	provisional	p.E252*	1.000	320	0%	78	12.8%	0	-	-	-	-	NULL
ASXL3	80816	genome.wustl.edu	37	18	31319074	31319074	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_030632.1	+1	provisional	p.T569I	0.000	178	0%	124	14.5%	1	0%	benign(0.001)	deleterious(0)	neutral(0.445)	NULL
ASXL3	80816	genome.wustl.edu	37	18	31320226	31320226	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_030632.1	+1	provisional	p.R953I	0.781	284	0%	187	9.6%	0	-	probably_damaging(0.998)	deleterious(0.01)	deleterious(0.880)	NULL
ASXL3	80816	genome.wustl.edu	37	18	31325206	31325206	+	Missense_Mutation	SNP	T	T	G	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_030632.1	+1	provisional	p.I1798M	0.970	90	0%	79	16.5%	0	-	benign(0)	tolerated(1)	-	NULL
NOL4	8715	genome.wustl.edu	37	18	31599444	31599444	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_003787.3	-1	validated	p.E298D	0.984	325	0%	63	31.7%	0	-	probably_damaging(0.987)	tolerated(0.47)	neutral(0.448)	NULL
DTNA	1837	genome.wustl.edu	37	18	32345936	32345936	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001390.4	+1	reviewed	p.L27M	1.000	229	0%	57	21.1%	5	0%	possibly_damaging(0.952)	deleterious(0)	deleterious(0.840)	HMMPfam_efhand_1,superfamily_EF-hand
DTNA	1837	genome.wustl.edu	37	18	32392068	32392068	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001390.4	+1	reviewed	p.F198L	1.000	296	0%	38	15.8%	3	0%	probably_damaging(0.961)	deleterious(0)	deleterious(0.849)	HMMPfam_efhand_2,superfamily_EF-hand
ZNF397	84307	genome.wustl.edu	37	18	32834266	32834266	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_032347.2	+1	reviewed	p.G239	0.002	225	0%	127	24.4%	1	0%	-	-	-	NULL
ZSCAN30	100101467	genome.wustl.edu	37	18	32844217	32844217	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001112734.2	-1	validated	p.D34N	0.000	69	0%	90	24.4%	0	-	probably_damaging(0.991)	tolerated(0.06)	deleterious(0.766)	NULL
ZNF24	7572	genome.wustl.edu	37	18	32917292	32917292	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_006965.2	-1	validated	p.C337	0.014	300	0%	199	12.1%	9	0%	-	-	-	HMMPfam_zf-C2H2,PatternScan_ZINC_FINGER_C2H2_1,HMMSmart_ZnF_C2H2,superfamily_SSF57667
ZNF24	7572	genome.wustl.edu	37	18	32920277	32920277	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_006965.2	-1	validated	p.R113Q	1.000	126	0.8%	128	13.3%	9	0%	unknown(0)	tolerated(1)	-	HMMPfam_SCAN,HMMSmart_SCAN
ZNF396	252884	genome.wustl.edu	37	18	32949291	32949291	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_145756.2	-1	validated	p.R299Q	0.070	153	0%	149	10.7%	1	0%	possibly_damaging(0.922)	tolerated(0.07)	deleterious(0.691)	HMMPfam_zf-C2H2,PatternScan_ZINC_FINGER_C2H2_1,HMMSmart_SM00355,superfamily_C2H2 and C2HC zinc fingers
SLC39A6	25800	genome.wustl.edu	37	18	33696637	33696637	+	Nonsense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_012319.3	-1	validated	p.R489*	1.000	594	0%	247	27.1%	10	0%	-	-	-	HMMPfam_Zip
SLC39A6	25800	genome.wustl.edu	37	18	33706687	33706687	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_012319.3	-1	validated	p.D95G	1.000	714	0%	909	23.8%	3	0%	benign(0.355)	tolerated(0.05)	neutral(0.458)	NULL
FHOD3	80206	genome.wustl.edu	37	18	33935537	33935537	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_025135.2	+1	validated	p.G67	0.609	259	0%	88	28.4%	0	-	-	-	-	NULL
FHOD3	80206	genome.wustl.edu	37	18	34273181	34273181	+	Nonsense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_025135.2	+1	validated	p.Y502*	1.000	84	0%	18	33.3%	0	-	-	-	-	NULL
FHOD3	80206	genome.wustl.edu	37	18	34322723	34322723	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_025135.2	+1	validated	p.D1086	1.000	258	0%	206	22.8%	1	0%	-	-	-	HMMSmart_FH2,HMMPfam_FH2,superfamily_FH2_actin_bd
FHOD3	80206	genome.wustl.edu	37	18	34324114	34324114	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_025135.2	+1	validated	p.S1158	0.007	90	0%	86	24.4%	4	0%	-	-	-	HMMSmart_FH2,HMMPfam_FH2,superfamily_FH2_actin_bd
CELF4	56853	genome.wustl.edu	37	18	34853000	34853000	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_020180.3	-1	reviewed	p.A310T	1.000	19	0%	35	42.9%	0	-	benign(0.001)	tolerated(0.54)	neutral(0.007)	NULL
PIK3C3	5289	genome.wustl.edu	37	18	39542498	39542498	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_002647.2	+1	validated	p.P101H	1.000	228	0%	142	23.2%	5	0%	probably_damaging(0.986)	deleterious(0)	deleterious(0.879)	HMMSmart_C2,HMMPfam_PI3K_C2,HMMSmart_PI3K_C2,superfamily_C2_CaLB
SETBP1	26040	genome.wustl.edu	37	18	42533165	42533165	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_015559.2	+1	validated	p.S1287L	0.391	232	0%	84	17.9%	3	0%	benign(0)	tolerated(0.1)	neutral(0.286)	NULL
SLC14A2	8170	genome.wustl.edu	37	18	43204725	43204725	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_007163.3	+1	validated	p.S32	0.005	93	0%	32	25%	0	-	-	-	-	NULL
SLC14A1	6563	genome.wustl.edu	37	18	43316499	43316499	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001128588.3	+1	reviewed	p.A239	0.000	275	0%	107	25.2%	1	0%	-	-	-	HMMPfam_UT
EPG5	57724	genome.wustl.edu	37	18	43437833	43437833	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_020964.2	-1	validated	p.S2476L	1.000	106	0%	53	20.8%	5	80%	probably_damaging(0.994)	deleterious(0)	deleterious(0.897)	NULL
EPG5	57724	genome.wustl.edu	37	18	43459171	43459171	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_020964.2	-1	validated	p.E1892	1.000	121	0.8%	104	12.5%	0	-	-	-	-	NULL
EPG5	57724	genome.wustl.edu	37	18	43535219	43535219	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_020964.2	-1	validated	p.S50Y	0.000	312	0%	134	17.2%	0	-	benign(0.042)	tolerated(0.08)	neutral(0.302)	NULL
HAUS1	115106	genome.wustl.edu	37	18	43698266	43698266	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_138443.3	+1	validated	p.D109Y	1.000	442	0%	166	25.9%	22	4.5%	probably_damaging(0.999)	deleterious(0)	deleterious(0.935)	NULL
LOXHD1	125336	genome.wustl.edu	37	18	44069074	44069074	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001145472.2	-1	reviewed	p.V859	0.000	100	0%	48	25%	0	-	-	-	-	HMMPfam_PLAT,HMMSmart_SM00308,superfamily_Lipase/lipooxygenase domain (PLAT/LH2 domain)
LOXHD1	125336	genome.wustl.edu	37	18	44109275	44109275	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_144612.6	-1	reviewed	p.Q1187H	1.000	119	0%	54	29.6%	0	-	possibly_damaging(0.886)	tolerated(0.35)	neutral(0.367)	HMMPfam_PLAT,HMMSmart_LH2,superfamily_Lipase_LipOase
LOXHD1	125336	genome.wustl.edu	37	18	44140269	44140269	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	ENST00000441551	-1	known	p.R927*	0.017	118	0%	168	24.4%	0	-	-	-	-	NULL
LOXHD1	125336	genome.wustl.edu	37	18	44143029	44143029	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_144612.6	-1	reviewed	p.Q588R	1.000	129	0%	162	24.1%	0	-	benign(0.039)	tolerated(0.63)	neutral(0.005)	HMMPfam_PLAT,superfamily_Lipase_LipOase
LOXHD1	125336	genome.wustl.edu	37	18	44181346	44181346	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_144612.6	-1	reviewed	p.A45V	1.000	193	0%	49	12.2%	0	-	unknown(0)	tolerated(0.35)	-	HMMPfam_PLAT,HMMSmart_LH2,superfamily_Lipase_LipOase
ST8SIA5	29906	genome.wustl.edu	37	18	44260249	44260249	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_013305.4	-1	reviewed	p.A296V	1.000	63	0%	85	24.7%	0	-	probably_damaging(0.999)	deleterious(0.02)	deleterious(0.873)	HMMPfam_Glyco_transf_29
ST8SIA5	29906	genome.wustl.edu	37	18	44260279	44260279	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_013305.4	-1	reviewed	p.S286L	1.000	55	0%	82	11%	0	-	benign(0.389)	tolerated(0.2)	neutral(0.173)	HMMPfam_Glyco_transf_29
TCEB3B	51224	genome.wustl.edu	37	18	44560805	44560805	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_016427.2	-1	reviewed	p.S277	0.007	51	0%	99	11.1%	0	-	-	-	-	NULL
KATNAL2	83473	genome.wustl.edu	37	18	44584644	44584644	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_031303.2	+1	validated	p.N52S	0.108	269	0%	91	9.9%	0	-	benign(0)	tolerated(0.81)	neutral(0.001)	NULL
SMAD2	4087	genome.wustl.edu	37	18	45374875	45374875	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001003652.2	-1	reviewed	p.A323V	1.000	298	0%	98	27.6%	20	15%	benign(0.091)	tolerated(0.06)	neutral(0.329)	HMMPfam_MH2,HMMSmart_SM00524,superfamily_SMAD/FHA domain
SMAD2	4087	genome.wustl.edu	37	18	45395686	45395686	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001003652.2	-1	reviewed	p.E150K	1.000	371	0%	89	11.2%	8	0%	benign(0.18)	tolerated(0.25)	neutral(0.053)	HMMPfam_MH1,HMMSmart_SM00523,superfamily_SMAD MH1 domain
ZBTB7C	201501	genome.wustl.edu	37	18	45555734	45555734	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001039360.1	-1	validated	p.R586Q	1.000	6	0.000	11	0.364	0	-	benign(0.021)	tolerated(0.44)	neutral(0.014)	NULL
ZBTB7C	201501	genome.wustl.edu	37	18	45556222	45556222	+	Silent	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001039360.1	-1	validated	p.I423	1.000	139	0%	194	23.7%	0	-	-	-	-	HMMPfam_zf-C2H2,PatternScan_ZINC_FINGER_C2H2_1,HMMSmart_SM00355,superfamily_C2H2 and C2HC zinc fingers
CTIF	9811	genome.wustl.edu	37	18	46284702	46284702	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001142397.1	+1	validated	p.R333C	1.000	16	0%	37	32.4%	5	20%	probably_damaging(0.997)	deleterious(0.01)	deleterious(0.872)	NULL
LIPG	9388	genome.wustl.edu	37	18	47109974	47109974	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_006033.2	+1	reviewed	p.T402	0.022	66	0%	69	10.1%	1	0%	-	-	-	HMMPfam_PLAT,HMMSmart_SM00308,superfamily_Lipase/lipooxygenase domain (PLAT/LH2 domain)
MYO5B	4645	genome.wustl.edu	37	18	47421509	47421509	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001080467.2	-1	reviewed	p.S949	0.000	107	0%	54	18.5%	1	0%	-	-	-	NULL
MYO5B	4645	genome.wustl.edu	37	18	47566622	47566622	+	Silent	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001080467.2	-1	reviewed	p.I67	1.000	353	0%	99	11.1%	0	-	-	-	-	HMMSmart_SM00242,superfamily_P-loop containing nucleoside triphosphate hydrolases
CCDC11	220136	genome.wustl.edu	37	18	47777286	47777286	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_145020.3	-1	validated	p.A280T	0.000	1002	0%	502	23.5%	1	0%	benign(0)	tolerated(0.52)	neutral(0.009)	NULL
CCDC11	220136	genome.wustl.edu	37	18	47777329	47777329	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_145020.3	-1	validated	p.Q265H	0.042	776	0%	386	22.5%	0	-	probably_damaging(0.982)	deleterious(0.02)	deleterious(0.809)	NULL
MBD1	4152	genome.wustl.edu	37	18	47806309	47806309	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_015846.3	-1	reviewed	p.R18	0.756	42	2.4%	90	15.6%	4	0%	-	-	-	HMMPfam_MBD,HMMSmart_SM00391,superfamily_DNA-binding domain
MAPK4	5596	genome.wustl.edu	37	18	48241532	48241532	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_002747.3	+1	reviewed	p.I210	0.103	321	0%	184	16.8%	0	-	-	-	-	HMMSmart_SM00219,HMMSmart_SM00220,superfamily_Protein kinase-like (PK-like),HMMPfam_Pkinase
MAPK4	5596	genome.wustl.edu	37	18	48248385	48248385	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_002747.3	+1	reviewed	p.L257F	1.000	104	0%	114	26.3%	0	-	probably_damaging(0.999)	deleterious(0.01)	deleterious(0.896)	HMMSmart_SM00219,HMMSmart_SM00220,superfamily_Protein kinase-like (PK-like),HMMPfam_Pkinase
MAPK4	5596	genome.wustl.edu	37	18	48256197	48256197	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_002747.3	+1	reviewed	p.T579	0.082	9	0.000	18	0.444	1	0%	-	-	-	NULL
MRO	83876	genome.wustl.edu	37	18	48331679	48331679	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001127176.1	-1	reviewed	p.D106N	0.943	193	0%	70	21.4%	0	-	possibly_damaging(0.777)	deleterious(0.01)	deleterious(0.696)	superfamily_ARM repeat
ME2	4200	genome.wustl.edu	37	18	48439207	48439207	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_002396.4	+1	reviewed	p.E93D	1.000	207	0%	34	23.5%	2	50%	possibly_damaging(0.927)	deleterious(0)	deleterious(0.820)	HMMPfam_malic,superfamily_SSF53223
SMAD4	4089	genome.wustl.edu	37	18	48575096	48575096	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_005359.5	+1	reviewed	p.R97H	1.000	537	0.2%	204	27.5%	3	0%	probably_damaging(1)	deleterious(0)	deleterious(0.945)	HMMPfam_MH1,HMMSmart_SM00523,superfamily_SMAD MH1 domain
MEX3C	51320	genome.wustl.edu	37	18	48703791	48703791	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_016626.4	-1	reviewed	p.R304C	0.999	226	0%	62	27.4%	5	0%	probably_damaging(1)	deleterious(0)	deleterious(0.945)	superfamily_SSF54791
DCC	1630	genome.wustl.edu	37	18	49867230	49867230	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_005215.3	+1	reviewed	p.A25T	1.000	360	0%	425	24.9%	0	-	benign(0)	tolerated(0.2)	neutral(0.049)	NULL
DCC	1630	genome.wustl.edu	37	18	50278468	50278468	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_005215.3	+1	reviewed	p.P46S	1.000	144	0%	136	28.7%	0	-	probably_damaging(1)	deleterious(0)	deleterious(0.945)	HMMSmart_SM00409,superfamily_Immunoglobulin
DCC	1630	genome.wustl.edu	37	18	50866253	50866253	+	Nonsense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_005215.3	+1	reviewed	p.R779*	1.000	330	0.3%	84	19%	0	-	-	-	-	HMMPfam_fn3,HMMSmart_SM00060,superfamily_Fibronectin type III
MBD2	8932	genome.wustl.edu	37	18	51692512	51692512	+	Nonsense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_003927.3	-1	reviewed	p.G289*	1.000	512	0%	164	17.7%	68	2.9%	-	-	-	NULL
POLI	11201	genome.wustl.edu	37	18	51809309	51809309	+	Missense_Mutation	SNP	T	T	G	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_007195.2	+1	validated	p.I300S	0.999	244	0%	93	12.9%	2	0%	benign(0.066)	tolerated(0.41)	neutral(0.019)	HMMPfam_IMS,superfamily_DNA/RNA polymerases
CCDC68	80323	genome.wustl.edu	37	18	52596052	52596052	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001143829.1	-1	validated	p.S221F	0.225	495	0%	109	20.2%	0	-	possibly_damaging(0.437)	deleterious(0.01)	deleterious(0.548)	NULL
WDR7	23335	genome.wustl.edu	37	18	54361895	54361895	+	Nonsense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_015285.2	+1	reviewed	p.E338*	1.000	540	0%	185	11.4%	0	-	-	-	-	superfamily_Prolyl oligopeptidase N-terminal domain
WDR7	23335	genome.wustl.edu	37	18	54362387	54362387	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_015285.2	+1	reviewed	p.A439T	1.000	141	0%	56	30.4%	0	-	benign(0.146)	tolerated(0.07)	neutral(0.332)	superfamily_Prolyl oligopeptidase N-terminal domain
WDR7	23335	genome.wustl.edu	37	18	54547321	54547321	+	Nonsense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_015285.2	+1	reviewed	p.R1151*	1.000	225	0%	86	12.8%	0	-	-	-	-	NULL
WDR7	23335	genome.wustl.edu	37	18	54547323	54547323	+	Silent	SNP	A	A	G	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_015285.2	+1	reviewed	p.R1151	0.995	214	0%	83	13.3%	0	-	-	-	-	NULL
ST8SIA3	51046	genome.wustl.edu	37	18	55021743	55021743	+	Missense_Mutation	SNP	T	T	G	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_015879.2	+1	validated	p.F97C	1.000	310	0%	484	24.8%	0	-	benign(0.261)	tolerated(0.12)	neutral(0.288)	HMMPfam_Glyco_transf_29
ST8SIA3	51046	genome.wustl.edu	37	18	55024558	55024558	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_015879.2	+1	validated	p.D239	0.990	33	0%	58	13.8%	0	-	-	-	-	HMMPfam_Glyco_transf_29
ST8SIA3	51046	genome.wustl.edu	37	18	55027341	55027341	+	Missense_Mutation	SNP	T	T	G	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_015879.2	+1	validated	p.F326V	1.000	250	0%	239	13.4%	0	-	benign(0)	tolerated(0.5)	neutral(0.010)	HMMPfam_Glyco_transf_29
FECH	2235	genome.wustl.edu	37	18	55221620	55221620	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001012515.2	-1	reviewed	p.E323K	0.999	272	0%	99	15.2%	0	-	benign(0.065)	tolerated(0.29)	neutral(0.034)	HMMPfam_Ferrochelatase,superfamily_Chelatase
NARS	4677	genome.wustl.edu	37	18	55283186	55283186	+	Nonsense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_004539.3	-1	validated	p.E39*	1.000	447	0%	311	24.4%	12	0%	-	-	-	NULL
ATP8B1	5205	genome.wustl.edu	37	18	55335659	55335659	+	Splice_Site	SNP	A	A	G	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_005603.4	-1	reviewed	e18+2	1.000	247	0%	95	15.8%	0	-	-	-	-	-
ATP8B1	5205	genome.wustl.edu	37	18	55342116	55342116	+	Missense_Mutation	SNP	A	A	C	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_005603.4	-1	reviewed	p.V590G	0.978	270	0%	76	25%	2	0%	probably_damaging(0.992)	deleterious(0)	deleterious(0.892)	superfamily_SSF56784,superfamily_SSF81660,superfamily_SSF81665
ATP8B1	5205	genome.wustl.edu	37	18	55359127	55359127	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_005603.4	-1	reviewed	p.D378Y	0.443	256	0%	91	14.3%	2	50%	possibly_damaging(0.88)	deleterious(0.04)	deleterious(0.692)	superfamily_SSF81665
ATP8B1	5205	genome.wustl.edu	37	18	55361838	55361838	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_005603.4	-1	reviewed	p.Y335	1.000	559	0.2%	165	23%	3	0%	-	-	-	superfamily_SSF81665
ATP8B1	5205	genome.wustl.edu	37	18	55362714	55362714	+	Missense_Mutation	SNP	A	A	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_005603.4	-1	reviewed	p.L250H	1.000	587	0%	204	13.7%	0	-	probably_damaging(1)	deleterious(0.01)	deleterious(0.905)	superfamily_SSF81653,superfamily_SSF81665
NEDD4L	23327	genome.wustl.edu	37	18	56063432	56063432	+	Silent	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001144967.1	+1	validated	p.T953	1.000	568	0.4%	243	23.5%	22	36.3%	-	-	-	HMMPfam_HECT,HMMSmart_SM00119,superfamily_Hect E3 ligase catalytic domain
ALPK2	115701	genome.wustl.edu	37	18	56149264	56149264	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_052947.3	-1	validated	p.G2102R	1.000	402	0%	150	10.7%	0	-	probably_damaging(1)	deleterious(0)	deleterious(0.945)	HMMPfam_Alpha_kinase,HMMSmart_SM00811,superfamily_Protein kinase-like (PK-like)
ALPK2	115701	genome.wustl.edu	37	18	56184288	56184288	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_052947.3	-1	validated	p.R1931H	1.000	159	0%	48	14.6%	1	0%	probably_damaging(0.964)	tolerated(0.06)	deleterious(0.729)	HMMPfam_Alpha_kinase,HMMSmart_SM00811,superfamily_Protein kinase-like (PK-like)
MALT1	10892	genome.wustl.edu	37	18	56390364	56390364	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_006785.2	+1	reviewed	p.E368G	1.000	541	0%	151	27.2%	1	0%	probably_damaging(0.99)	tolerated(0.1)	deleterious(0.728)	HMMPfam_Peptidase_C14,superfamily_Caspase-like
ZNF532	55205	genome.wustl.edu	37	18	56585912	56585912	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_018181.4	+1	validated	p.P131	0.795	87	0%	33	21.2%	3	0%	-	-	-	NULL
ZNF532	55205	genome.wustl.edu	37	18	56585985	56585985	+	Nonsense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_018181.4	+1	validated	p.R156*	0.018	81	0%	30	23.3%	3	0%	-	-	-	NULL
MC4R	4160	genome.wustl.edu	37	18	58038776	58038776	+	Silent	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_005912.2	-1	reviewed	p.I269	1.000	204	0%	72	18.1%	0	-	-	-	-	HMMPfam_7tm_1,superfamily_Family A G protein-coupled receptor-like
KIAA1468	57614	genome.wustl.edu	37	18	59895635	59895635	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_020854.3	+1	validated	p.D418Y	1.000	283	0%	62	40.3%	1	0%	benign(0.267)	deleterious(0.01)	neutral(0.434)	NULL
ZCCHC2	54877	genome.wustl.edu	37	18	60241577	60241577	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_017742.4	+1	validated	p.P755S	0.989	174	0%	71	12.7%	5	0%	benign(0.135)	deleterious(0.03)	neutral(0.376)	NULL
PHLPP1	23239	genome.wustl.edu	37	18	60646368	60646368	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_194449.2	+1	validated	p.R1108C	1.000	29	0%	38	28.9%	0	-	probably_damaging(0.998)	deleterious(0)	deleterious(0.919)	NULL
SERPINB12	89777	genome.wustl.edu	37	18	61232677	61232677	+	Splice_Site	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_080474.1	+1	provisional	e6-1	1.000	116	0%	49	14.3%	0	-	-	-	-	-
SERPINB12	89777	genome.wustl.edu	37	18	61232714	61232714	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_080474.1	+1	provisional	p.G228C	0.005	130	0.8%	54	35.2%	0	-	probably_damaging(0.996)	deleterious(0.03)	deleterious(0.826)	HMMPfam_Serpin,HMMSmart_SERPIN,superfamily_Prot_inh_serpin
SERPINB3	6317	genome.wustl.edu	37	18	61324080	61324080	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_006919.2	-1	validated	p.I251	0.000	526	0%	83	14.5%	0	-	-	-	-	HMMPfam_Serpin,HMMSmart_SM00093,superfamily_Serpins
SERPINB7	8710	genome.wustl.edu	37	18	61468123	61468123	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001040147.1	+1	validated	p.M207I	0.998	239	0%	53	11.3%	0	-	benign(0.271)	deleterious(0)	deleterious(0.474)	HMMPfam_Serpin,HMMSmart_SERPIN,superfamily_Prot_inh_serpin
SERPINB7	8710	genome.wustl.edu	37	18	61471697	61471697	+	Missense_Mutation	SNP	A	A	C	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001040147.1	+1	validated	p.K324T	1.000	161	0%	32	15.6%	0	-	probably_damaging(0.995)	deleterious(0)	deleterious(0.902)	HMMPfam_Serpin,HMMSmart_SERPIN,superfamily_Prot_inh_serpin
SERPINB10	5273	genome.wustl.edu	37	18	61602367	61602367	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_005024.1	+1	provisional	p.R362Q	0.000	266	0%	351	12.3%	0	-	probably_damaging(0.999)	tolerated(0.12)	deleterious(0.751)	HMMPfam_Serpin,HMMSmart_SERPIN,superfamily_Prot_inh_serpin
SERPINB8	5271	genome.wustl.edu	37	18	61654341	61654341	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_002640.3	+1	validated	p.F318	0.487	120	0%	57	14%	7	28.5%	-	-	-	HMMPfam_Serpin,HMMSmart_SERPIN,superfamily_Prot_inh_serpin
LINC00305	221241	genome.wustl.edu	37	18	61747544	61747544	+	RNA	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NR_027245.1	-1	predicted	NULL	0.000	651	0%	195	19%	1	0%	-	-	-	-
CDH19	28513	genome.wustl.edu	37	18	64172279	64172279	+	Missense_Mutation	SNP	T	T	G	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_021153.2	-1	reviewed	p.K697Q	0.640	309	0.3%	60	21.7%	0	-	benign(0.004)	tolerated(0.29)	neutral(0.029)	HMMPfam_Cadherin_C
CDH19	28513	genome.wustl.edu	37	18	64176386	64176386	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_021153.2	-1	reviewed	p.P558	0.526	390	0%	71	25.4%	0	-	-	-	-	HMMPfam_Cadherin,HMMSmart_CA,superfamily_Cadherin
DSEL	92126	genome.wustl.edu	37	18	65179155	65179155	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_032160.2	-1	validated	p.I907	0.495	150	0%	174	24.7%	0	-	-	-	-	superfamily_P-loop containing nucleoside triphosphate hydrolases
DSEL	92126	genome.wustl.edu	37	18	65180544	65180544	+	Silent	SNP	A	A	C	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_032160.2	-1	validated	p.S444	1.000	171	0%	214	12.6%	0	-	-	-	-	NULL
DSEL	92126	genome.wustl.edu	37	18	65181635	65181635	+	Nonsense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_032160.2	-1	validated	p.E81*	1.000	313	0%	373	12.1%	0	-	-	-	-	NULL
CCDC102B	79839	genome.wustl.edu	37	18	66564454	66564454	+	Splice_Site	SNP	A	A	G	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001093729.1	+1	validated	e5-2	1.000	218	0%	128	25.8%	0	-	-	-	-	-
DOK6	220164	genome.wustl.edu	37	18	67345077	67345077	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_152721.5	+1	validated	p.R133W	1.000	146	0.7%	70	20%	0	-	probably_damaging(0.999)	deleterious(0.04)	deleterious(0.839)	HMMSmart_PTBI
CD226	10666	genome.wustl.edu	37	18	67531604	67531604	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_006566.2	-1	reviewed	p.E319	0.936	631	0%	312	19.2%	0	-	-	-	-	NULL
RTTN	25914	genome.wustl.edu	37	18	67718779	67718779	+	Nonsense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_173630.3	-1	validated	p.E1731*	0.298	152	0%	63	22.2%	0	-	-	-	-	NULL
RTTN	25914	genome.wustl.edu	37	18	67776887	67776887	+	Missense_Mutation	SNP	T	T	G	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_173630.3	-1	validated	p.K1250N	0.997	122	0%	90	13.3%	0	-	benign(0.021)	tolerated(0.48)	neutral(0.011)	NULL
RTTN	25914	genome.wustl.edu	37	18	67801741	67801741	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_173630.3	-1	validated	p.S974	0.921	307	0%	67	11.9%	1	0%	-	-	-	NULL
RTTN	25914	genome.wustl.edu	37	18	67834181	67834181	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_173630.3	-1	validated	p.K592N	0.976	281	0%	72	16.7%	1	0%	probably_damaging(0.998)	deleterious(0.03)	deleterious(0.839)	superfamily_ARM repeat
NETO1	81832	genome.wustl.edu	37	18	70417313	70417313	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_138966.2	-1	reviewed	p.D509N	1.000	297	0%	73	28.8%	0	-	benign(0.141)	deleterious(0)	neutral(0.457)	NULL
NETO1	81832	genome.wustl.edu	37	18	70417751	70417751	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_138966.2	-1	reviewed	p.V363I	1.000	189	0.5%	61	26.2%	0	-	benign(0.114)	tolerated(0.41)	neutral(0.024)	NULL
NETO1	81832	genome.wustl.edu	37	18	70450945	70450945	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_138966.2	-1	reviewed	p.R279Q	1.000	198	0.5%	56	23.2%	0	-	possibly_damaging(0.925)	tolerated(0.17)	neutral(0.432)	HMMSmart_SM00042,superfamily_Spermadhesin CUB domain
NETO1	81832	genome.wustl.edu	37	18	70461410	70461410	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_138966.2	-1	reviewed	p.A194D	1.000	241	0%	75	14.7%	0	-	possibly_damaging(0.797)	tolerated(0.37)	neutral(0.319)	HMMSmart_SM00042,superfamily_Spermadhesin CUB domain
NETO1	81832	genome.wustl.edu	37	18	70532821	70532821	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_153181.2	-1	reviewed	p.E4D	0.000	180	0%	310	23.5%	0	-	possibly_damaging(0.767)	deleterious(0)	deleterious(0.729)	NULL
FBXO15	201456	genome.wustl.edu	37	18	71797761	71797761	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001142958.1	-1	reviewed	p.K155N	1.000	570	0%	192	18.2%	0	-	probably_damaging(1)	deleterious(0.01)	deleterious(0.905)	superfamily_SSF81383
FAM69C	125704	genome.wustl.edu	37	18	72109250	72109250	+	Silent	SNP	A	A	G	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001044369.2	-1	validated	p.C326	1.000	185	0%	238	16.4%	0	-	-	-	-	NULL
ENSG00000251302	0	genome.wustl.edu	37	18	72226734	72226734	+	RNA	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	ENST00000503438	-1	known	NULL	0.001	43	0%	35	22.9%	0	-	-	-	-	-
ZNF407	55628	genome.wustl.edu	37	18	72343652	72343652	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_017757.2	+1	reviewed	p.S226N	0.002	187	0%	166	13.9%	0	-	benign(0.049)	deleterious(0)	neutral(0.448)	HMMSmart_SM00355,superfamily_C2H2 and C2HC zinc fingers
ZNF407	55628	genome.wustl.edu	37	18	72345334	72345334	+	Nonsense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_017757.2	+1	reviewed	p.E787*	0.743	124	0%	105	21.9%	0	-	-	-	-	NULL
ZNF407	55628	genome.wustl.edu	37	18	72346629	72346629	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_017757.2	+1	reviewed	p.E1218D	0.000	71	0%	64	29.7%	1	0%	benign(0)	tolerated(0.39)	neutral(0.016)	NULL
ZNF407	55628	genome.wustl.edu	37	18	72632632	72632632	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_017757.2	+1	reviewed	p.L1804	1.000	131	0%	33	27.3%	1	0%	-	-	-	NULL
ZADH2	284273	genome.wustl.edu	37	18	72913847	72913847	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_175907.4	-1	validated	p.R220C	0.546	131	0%	173	15.6%	6	0%	possibly_damaging(0.643)	deleterious(0.03)	deleterious(0.590)	HMMPfam_ADH_zinc_N,superfamily_NAD(P)-binding Rossmann-fold domains
TSHZ1	10194	genome.wustl.edu	37	18	72997661	72997661	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_005786.4	+1	reviewed	p.P55L	0.000	50	0%	78	24.4%	2	50%	benign(0)	tolerated(0.3)	neutral(0.029)	NULL
C18orf62	284274	genome.wustl.edu	37	18	73139488	73139488	+	Nonsense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001037331.2	-1	provisional	p.R11*	0.000	290	0%	70	8.6%	0	-	-	-	-	NULL
SALL3	27164	genome.wustl.edu	37	18	76752162	76752162	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_171999.2	+1	validated	p.C57	0.949	13	7.7%	23	43.5%	0	-	-	-	-	HMMSmart_SM00355
SALL3	27164	genome.wustl.edu	37	18	76753284	76753284	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_171999.2	+1	validated	p.S431	0.985	7	0.000	24	0.375	0	-	-	-	-	HMMPfam_zf-C2H2,PatternScan_ZINC_FINGER_C2H2_1,HMMSmart_SM00355,superfamily_C2H2 and C2HC zinc fingers
NFATC1	4772	genome.wustl.edu	37	18	77170543	77170543	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_172387.1	+1	reviewed	p.G77R	0.987	26	0%	64	18.8%	2	0%	possibly_damaging(0.921)	tolerated(0.06)	deleterious(0.694)	NULL
CTDP1	9150	genome.wustl.edu	37	18	77464822	77464822	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_004715.3	+1	reviewed	p.R226H	1.000	23	0%	46	32.6%	6	16.6%	probably_damaging(1)	deleterious(0)	deleterious(0.945)	HMMPfam_NIF,HMMSmart_SM00577,superfamily_HAD-like
CTDP1	9150	genome.wustl.edu	37	18	77488909	77488909	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_004715.3	+1	reviewed	p.A807V	0.961	41	0%	69	27.5%	17	5.8%	benign(0)	tolerated(0.56)	neutral(0.006)	HMMPfam_FCP1_C
KCNG2	26251	genome.wustl.edu	37	18	77659658	77659658	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_012283.1	+1	reviewed	p.L415F	1.000	27	0%	37	27%	0	-	probably_damaging(1)	tolerated(0.09)	deleterious(0.796)	superfamily_SSF81324
ADNP2	22850	genome.wustl.edu	37	18	77894549	77894549	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_014913.3	+1	validated	p.V418A	0.978	134	0%	105	27.6%	3	0%	benign(0.015)	tolerated(0.1)	neutral(0.287)	NULL
ADNP2	22850	genome.wustl.edu	37	18	77895539	77895539	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_014913.3	+1	validated	p.R748Q	0.514	227	0.4%	207	19.8%	4	0%	probably_damaging(0.994)	tolerated(0.09)	deleterious(0.748)	HMMSmart_SM00355
THEG	51298	genome.wustl.edu	37	19	375841	375841	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_016585.3	-1	reviewed	p.D44N	0.000	40	0%	96	28.1%	0	-	possibly_damaging(0.481)	tolerated(0.24)	neutral(0.197)	NULL
POLRMT	5442	genome.wustl.edu	37	19	621728	621728	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_005035.3	-1	reviewed	p.S657L	1.000	33	0%	39	15.4%	18	5.5%	probably_damaging(0.987)	deleterious(0.01)	deleterious(0.842)	superfamily_SSF56672
KLK10	5655	genome.wustl.edu	37	19	694820	694820	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_214710.3	-1	validated	p.S77N	0.000	9	0.000	15	0.267	0	-	benign(0.202)	tolerated(0.28)	neutral(0.051)	HMMPfam_Trypsin,HMMSmart_SM00020,superfamily_Trypsin-like serine proteases
C19orf21	126353	genome.wustl.edu	37	19	757232	757232	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_173481.2	+1	predicted	p.R96C	0.001	16	0%	35	22.9%	2	50%	probably_damaging(0.965)	deleterious(0)	deleterious(0.851)	NULL
C19orf21	126353	genome.wustl.edu	37	19	757982	757982	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_173481.2	+1	predicted	p.R346C	0.084	10	0%	21	23.8%	1	0%	probably_damaging(0.984)	deleterious(0)	deleterious(0.875)	NULL
C19orf21	126353	genome.wustl.edu	37	19	758444	758444	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_173481.2	+1	predicted	p.R500W	0.000	43	0%	61	14.8%	7	0%	probably_damaging(0.999)	deleterious(0.02)	deleterious(0.873)	NULL
AZU1	566	genome.wustl.edu	37	19	830951	830951	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	ENST00000334630	+1	known	p.P216T	0.001	16	0%	31	25.8%	0	-	benign(0.014)	tolerated(0.18)	neutral(0.057)	HMMSmart_Tryp_SPc
ELANE	1991	genome.wustl.edu	37	19	852349	852349	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001972.2	+1	reviewed	p.L7	0.000	70	0%	84	11.9%	0	-	-	-	-	NULL
R3HDM4	91300	genome.wustl.edu	37	19	902077	902077	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_138774.3	-1	validated	p.S42L	0.017	94	0%	146	28.8%	20	15%	probably_damaging(0.978)	deleterious(0)	deleterious(0.865)	NULL
GRIN3B	116444	genome.wustl.edu	37	19	1008740	1008740	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_138690.1	+1	provisional	p.R864C	0.998	32	0%	53	17%	0	-	probably_damaging(1)	deleterious(0)	deleterious(0.945)	NULL
MUM1	84939	genome.wustl.edu	37	19	1358407	1358407	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_032853.3	+1	validated	p.S54I	0.016	384	0%	541	13.5%	5	0%	probably_damaging(0.956)	deleterious(0)	deleterious(0.844)	NULL
MUM1	84939	genome.wustl.edu	37	19	1367178	1367178	+	Missense_Mutation	SNP	A	A	C	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_032853.3	+1	validated	p.S462R	0.001	782	0%	1164	13.2%	18	5.5%	benign(0.001)	tolerated(1)	-	superfamily_Tudor/PWWP/MBT
TCF3	6929	genome.wustl.edu	37	19	1615592	1615592	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	ENST00000395423	-1	known	p.P509L	0.000	11	0%	43	41.9%	0	-	benign(0.007)	tolerated(0.08)	neutral(0.300)	NULL
CSNK1G2-AS1	255193	genome.wustl.edu	37	19	1952963	1952963	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	ENST00000314315	-1	known	p.R155C	0.000	18	0%	27	18.5%	0	-	benign(0.081)	-	-	NULL
BTBD2	55643	genome.wustl.edu	37	19	1990818	1990818	+	Nonsense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_017797.3	-1	reviewed	p.R230*	0.191	55	0%	128	28.9%	24	4.1%	-	-	-	HMMPfam_BACK
MOB3A	126308	genome.wustl.edu	37	19	2078397	2078397	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_130807.2	-1	validated	p.E55K	1.000	60	0%	116	17.2%	0	-	probably_damaging(0.999)	deleterious(0)	deleterious(0.935)	HMMPfam_Mob1_phocein,superfamily_Mob1_phocein
IZUMO4	113177	genome.wustl.edu	37	19	2099262	2099262	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001039846.1	+1	validated	p.S206L	0.006	45	0%	62	29%	6	16.6%	benign(0.139)	deleterious(0)	neutral(0.457)	NULL
AP3D1	8943	genome.wustl.edu	37	19	2115554	2115554	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_003938.5	-1	validated	p.V711A	1.000	41	0%	84	16.7%	21	0%	probably_damaging(0.972)	deleterious(0.01)	deleterious(0.820)	HMMPfam_BLVR
AP3D1	8943	genome.wustl.edu	37	19	2120980	2120980	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_003938.5	-1	validated	p.F454	0.720	54	0%	107	22.4%	12	8.3%	-	-	-	HMMPfam_Adaptin_N,superfamily_ARM repeat
AP3D1	8943	genome.wustl.edu	37	19	2123840	2123840	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_003938.5	-1	validated	p.A299T	1.000	92	0%	204	14.2%	10	0%	possibly_damaging(0.95)	tolerated(0.08)	deleterious(0.694)	HMMPfam_Adaptin_N,superfamily_ARM repeat
DOT1L	84444	genome.wustl.edu	37	19	2210735	2210735	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_032482.2	+1	validated	p.R411H	1.000	44	0%	94	28.7%	3	0%	probably_damaging(1)	deleterious(0)	deleterious(0.945)	HMMPfam_AT_hook,HMMSmart_AT_hook
LSM7	51690	genome.wustl.edu	37	19	2324173	2324173	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_016199.2	-1	validated	p.F40	0.938	54	0%	77	27.3%	263	30.4%	-	-	-	HMMPfam_LSM,HMMSmart_Sm,superfamily_Sm_like_riboprot
TMPRSS9	360200	genome.wustl.edu	37	19	2399066	2399066	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_182973.1	+1	provisional	p.R96Q	0.000	24	0%	44	31.8%	0	-	benign(0.012)	tolerated(0.24)	neutral(0.038)	NULL
TMPRSS9	360200	genome.wustl.edu	37	19	2405418	2405418	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_182973.1	+1	provisional	p.G205	0.019	74	0%	67	28.4%	0	-	-	-	-	HMMPfam_Trypsin,HMMSmart_SM00020,superfamily_Trypsin-like serine proteases
TMPRSS9	360200	genome.wustl.edu	37	19	2421936	2421936	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_182973.1	+1	provisional	p.A713T	1.000	82	0%	151	13.2%	1	100%	benign(0.052)	deleterious(0.03)	neutral(0.367)	HMMPfam_Trypsin,HMMSmart_SM00020,superfamily_Trypsin-like serine proteases
TIMM13	26517	genome.wustl.edu	37	19	2427462	2427462	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_012458.2	-1	reviewed	p.E24K	1.000	44	0%	104	30.8%	70	40%	benign(0.007)	tolerated(0.56)	neutral(0.006)	HMMPfam_zf-Tim10_DDP
THOP1	7064	genome.wustl.edu	37	19	2790557	2790557	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_003249.3	+1	provisional	p.G52D	0.999	37	0%	62	29%	8	0%	probably_damaging(0.999)	deleterious(0.01)	deleterious(0.896)	superfamily_SSF55486
ZNF554	115196	genome.wustl.edu	37	19	2834541	2834541	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001102651.1	+1	validated	p.Y436	0.160	146	0.7%	201	29.4%	6	0%	-	-	-	HMMPfam_zf-C2H2,HMMSmart_ZnF_C2H2,superfamily_SSF57667
ZNF556	80032	genome.wustl.edu	37	19	2876090	2876090	+	Splice_Site	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_024967.1	+1	provisional	e3-1	0.477	210	0%	235	22.1%	0	-	-	-	-	-
ZNF556	80032	genome.wustl.edu	37	19	2878078	2878078	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_024967.1	+1	provisional	p.T374	0.007	151	0%	157	26.8%	0	-	-	-	-	HMMPfam_zf-C2H2,PatternScan_ZINC_FINGER_C2H2_1,HMMSmart_ZnF_C2H2,superfamily_SSF57667
ZNF57	126295	genome.wustl.edu	37	19	2917438	2917438	+	Silent	SNP	A	A	G	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_173480.2	+1	validated	p.T273	0.115	201	0%	211	23.2%	1	100%	-	-	-	HMMPfam_zf-C2H2,PatternScan_ZINC_FINGER_C2H2_1,HMMSmart_SM00355,superfamily_C2H2 and C2HC zinc fingers
ZNF57	126295	genome.wustl.edu	37	19	2917569	2917569	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_173480.2	+1	validated	p.F317S	0.894	135	0%	158	12%	4	0%	probably_damaging(1)	deleterious(0)	deleterious(0.945)	HMMPfam_zf-C2H2,PatternScan_ZINC_FINGER_C2H2_1,HMMSmart_SM00355,superfamily_C2H2 and C2HC zinc fingers
TLE2	7089	genome.wustl.edu	37	19	3005920	3005920	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_003260.4	-1	validated	p.R516Q	1.000	38	0%	67	17.9%	13	15.3%	probably_damaging(0.974)	tolerated(0.16)	deleterious(0.475)	HMMSmart_WD40,superfamily_WD40_like
GNA15	2769	genome.wustl.edu	37	19	3148725	3148725	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_002068.2	+1	validated	p.I94	0.000	27	0%	31	38.7%	1	0%	-	-	-	HMMPfam_G-alpha,superfamily_Transducin (alpha subunit) insertion domain,HMMSmart_SM00275,superfamily_P-loop containing nucleoside triphosphate hydrolases
GNA15	2769	genome.wustl.edu	37	19	3151776	3151776	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_002068.2	+1	validated	p.R186H	1.000	24	0%	41	22%	1	0%	probably_damaging(0.999)	deleterious(0)	deleterious(0.935)	HMMPfam_G-alpha,superfamily_Transducin (alpha subunit) insertion domain,HMMSmart_SM00275,superfamily_P-loop containing nucleoside triphosphate hydrolases
S1PR4	8698	genome.wustl.edu	37	19	3179667	3179667	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_003775.3	+1	reviewed	p.L293M	1.000	22	0%	53	22.6%	19	0%	probably_damaging(0.999)	deleterious(0)	deleterious(0.935)	HMMPfam_7tm_1,superfamily_SSF81321
NFIC	4782	genome.wustl.edu	37	19	3381847	3381847	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_205843.1	+1	validated	p.A47	0.849	46	0%	83	19.3%	10	10%	-	-	-	NULL
HMG20B	10362	genome.wustl.edu	37	19	3576605	3576605	+	Missense_Mutation	SNP	T	T	G	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_006339.2	+1	validated	p.F192V	1.000	153	0.7%	223	26.5%	94	26.5%	unknown(0)	-	-	NULL
ENSG00000226800	0	genome.wustl.edu	37	19	3613512	3613512	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	ENST00000447295	+1	known	p.A348T	0.998	36	0%	57	33.3%	2	0%	unknown(0)	deleterious(0)	-	NULL
PIP5K1C	23396	genome.wustl.edu	37	19	3653504	3653504	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_012398.1	-1	reviewed	p.V235	1.000	91	0%	168	31%	9	0%	-	-	-	HMMPfam_PIP5K,HMMSmart_PIPKc,superfamily_SSF56104
MATK	4145	genome.wustl.edu	37	19	3779079	3779079	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_002378.3	-1	reviewed	p.D371N	1.000	34	0%	53	35.8%	3	0%	possibly_damaging(0.898)	deleterious(0)	deleterious(0.799)	HMMPfam_Pkinase_Tyr,HMMSmart_TyrKc,superfamily_Kinase_like
MATK	4145	genome.wustl.edu	37	19	3785119	3785119	+	Silent	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_139355.2	-1	reviewed	p.G5	0.000	44	0%	101	24.8%	0	-	-	-	-	NULL
ATCAY	85300	genome.wustl.edu	37	19	3913799	3913799	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_033064.4	+1	reviewed	p.D304Y	0.998	188	0.5%	160	18.1%	0	-	possibly_damaging(0.691)	deleterious(0)	deleterious(0.692)	HMMSmart_SM00516,superfamily_CRAL/TRIO domain
MIR637	693222	genome.wustl.edu	37	19	3961445	3961445	+	RNA	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	ENST00000385000	-1	known	NULL	0.000	64	0%	81	17.3%	3	33.3%	-	-	-	-
EEF2	1938	genome.wustl.edu	37	19	3977539	3977539	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001961.3	-1	reviewed	p.A713T	1.000	44	0%	103	27.2%	1633	15.6%	possibly_damaging(0.546)	deleterious(0.02)	deleterious(0.569)	HMMPfam_EFG_IV,superfamily_Ribosomal protein S5 domain 2-like
EEF2	1938	genome.wustl.edu	37	19	3982839	3982839	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001961.3	-1	reviewed	p.G193D	1.000	38	0%	65	18.5%	347	6.9%	benign(0.141)	tolerated(0.22)	neutral(0.054)	HMMPfam_GTP_EFTU,superfamily_P-loop containing nucleoside triphosphate hydrolases
PIAS4	51588	genome.wustl.edu	37	19	4037412	4037412	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_015897.2	+1	provisional	p.E395K	1.000	10	0%	19	57.9%	17	70.5%	possibly_damaging(0.86)	deleterious(0)	deleterious(0.777)	NULL
ZBTB7A	51341	genome.wustl.edu	37	19	4048101	4048101	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_015898.2	-1	validated	p.C468	1.000	31	0%	53	11.3%	15	6.6%	-	-	-	HMMPfam_zf-C2H2,HMMSmart_ZnF_C2H2,superfamily_SSF57667
MAP2K2	5605	genome.wustl.edu	37	19	4110577	4110577	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_030662.3	-1	reviewed	p.S127L	1.000	105	0%	161	15.5%	88	2.2%	probably_damaging(0.989)	deleterious(0)	deleterious(0.884)	HMMSmart_S_TKc,superfamily_Kinase_like,HMMPfam_Pkinase
MAP2K2	5605	genome.wustl.edu	37	19	4117562	4117562	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_030662.3	-1	reviewed	p.R53Q	0.999	168	0%	226	27.9%	35	5.7%	probably_damaging(1)	tolerated(0.08)	deleterious(0.800)	NULL
CREB3L3	84699	genome.wustl.edu	37	19	4157275	4157275	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_032607.1	+1	provisional	p.S147Y	0.564	138	0%	107	13.1%	0	-	probably_damaging(0.992)	deleterious(0.01)	deleterious(0.853)	NULL
CREB3L3	84699	genome.wustl.edu	37	19	4159727	4159727	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_032607.1	+1	provisional	p.R175Q	0.000	46	0%	38	44.7%	0	-	benign(0.166)	tolerated(0.12)	neutral(0.276)	NULL
CREB3L3	84699	genome.wustl.edu	37	19	4171446	4171446	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_032607.1	+1	provisional	p.E348K	0.502	222	0.5%	322	24.8%	0	-	benign(0)	tolerated(0.14)	neutral(0.249)	NULL
EBI3	10148	genome.wustl.edu	37	19	4234764	4234764	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_005755.2	+1	reviewed	p.I160	0.700	91	0%	110	12.7%	4	0%	-	-	-	PatternScan_HEMATOPO_REC_L_F3,HMMPfam_fn3,HMMSmart_FN3,superfamily_FN_III-like
TMIGD2	126259	genome.wustl.edu	37	19	4292664	4292664	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_144615.2	-1	validated	p.V261I	0.000	101	0%	120	10.8%	1	0%	benign(0.033)	tolerated(0.91)	neutral(0.002)	NULL
TMIGD2	126259	genome.wustl.edu	37	19	4298059	4298059	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_144615.2	-1	validated	p.Y110	0.000	47	0%	49	22.4%	0	-	-	-	-	HMMSmart_SM00409,superfamily_Immunoglobulin
MPND	84954	genome.wustl.edu	37	19	4359958	4359958	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_032868.4	+1	validated	p.V459I	0.992	32	0%	46	26.1%	58	43.1%	benign(0.022)	tolerated(0.25)	neutral(0.038)	NULL
PLIN4	729359	genome.wustl.edu	37	19	4510486	4510486	+	Silent	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001080400.1	-1	provisional	p.I1148	0.711	92	0%	168	25.6%	5	0%	-	-	-	superfamily_Mannose-6-phosphate receptor binding protein 1 (Tip47) C-terminal domain
PLIN4	729359	genome.wustl.edu	37	19	4510542	4510542	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001080400.1	-1	provisional	p.E1130K	0.000	86	0%	184	18.5%	2	0%	benign(0.072)	tolerated(0.1)	neutral(0.291)	NULL
LRG1	116844	genome.wustl.edu	37	19	4538125	4538125	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_052972.2	-1	validated	p.R291W	0.000	63	0%	79	34.2%	8	25%	possibly_damaging(0.923)	deleterious(0.01)	deleterious(0.778)	superfamily_SSF52058
C19orf10	56005	genome.wustl.edu	37	19	4668621	4668621	+	Nonsense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_019107.3	-1	validated	p.G71*	1.000	241	0%	364	25.8%	52	3.8%	-	-	-	HMMPfam_UPF0556
DPP9	91039	genome.wustl.edu	37	19	4702661	4702661	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_139159.4	-1	reviewed	p.F279	0.984	68	0%	104	26.9%	5	0%	-	-	-	HMMPfam_DPPIV_N,superfamily_SSF82171
FEM1A	55527	genome.wustl.edu	37	19	4793295	4793295	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_018708.2	+1	validated	p.R477W	0.989	20	0%	29	20.7%	7	0%	benign(0.005)	deleterious(0)	neutral(0.445)	superfamily_ANK
TICAM1	148022	genome.wustl.edu	37	19	4817883	4817883	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_182919.2	-1	validated	p.S169	0.000	51	0%	92	17.4%	11	9%	-	-	-	NULL
ARRDC5	645432	genome.wustl.edu	37	19	4891342	4891342	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001080523.1	-1	provisional	p.E249K	0.091	79	0%	45	13.3%	1	0%	benign(0.176)	tolerated(0.15)	neutral(0.257)	HMMPfam_Arrestin_C,superfamily_E set domains
PTPRS	5802	genome.wustl.edu	37	19	5246038	5246038	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_002850.3	-1	reviewed	p.R246H	1.000	21	0%	30	16.7%	3	0%	probably_damaging(1)	tolerated(0.1)	deleterious(0.786)	superfamily_Immunoglobulin
ZNRF4	148066	genome.wustl.edu	37	19	5456550	5456550	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_181710.3	+1	validated	p.V350M	0.036	60	0%	132	26.5%	0	-	benign(0.121)	tolerated(0.11)	neutral(0.281)	HMMSmart_SM00184,HMMPfam_zf-C3HC4,superfamily_RING/U-box
SAFB2	9667	genome.wustl.edu	37	19	5604902	5604902	+	Nonsense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_014649.2	-1	validated	p.R448*	1.000	98	0%	99	14.1%	15	6.6%	-	-	-	HMMPfam_RRM_1,HMMSmart_RRM,superfamily_SSF54928
SAFB	6294	genome.wustl.edu	37	19	5626445	5626445	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_002967.2	+1	reviewed	p.D73	1.000	468	0%	601	25.6%	9	22.2%	probably_damaging(0.989)	-	-	NULL
LONP1	9361	genome.wustl.edu	37	19	5711811	5711811	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_004793.2	-1	reviewed	p.E281K	1.000	38	0%	42	19%	17	11.7%	benign(0.023)	tolerated(0.19)	neutral(0.051)	HMMPfam_LON,HMMSmart_LON
CATSPERD	257062	genome.wustl.edu	37	19	5720756	5720756	+	Missense_Mutation	SNP	T	T	G	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_152784.3	+1	validated	p.M3R	0.002	60	0%	94	10.6%	0	-	unknown(0)	deleterious(0.02)	-	NULL
CATSPERD	257062	genome.wustl.edu	37	19	5727284	5727284	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_152784.3	+1	validated	p.R44	0.000	475	0%	458	12%	0	-	-	-	-	NULL
CATSPERD	257062	genome.wustl.edu	37	19	5737174	5737174	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_152784.3	+1	validated	p.V139	0.008	804	0%	539	22.6%	0	-	-	-	-	NULL
CATSPERD	257062	genome.wustl.edu	37	19	5744483	5744483	+	Missense_Mutation	SNP	T	T	G	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_152784.3	+1	validated	p.L207V	0.016	586	0%	393	25.7%	0	-	possibly_damaging(0.936)	deleterious(0)	deleterious(0.826)	NULL
CATSPERD	257062	genome.wustl.edu	37	19	5751675	5751675	+	Silent	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_152784.3	+1	validated	p.I335	0.002	90	0%	79	17.7%	0	-	-	-	-	NULL
CATSPERD	257062	genome.wustl.edu	37	19	5768189	5768189	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_152784.3	+1	validated	p.A524T	0.887	108	0.9%	95	22.1%	0	-	probably_damaging(0.965)	deleterious(0)	deleterious(0.851)	NULL
DUS3L	56931	genome.wustl.edu	37	19	5789220	5789220	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_020175.2	-1	validated	p.R300W	0.737	9	0.000	13	0.385	3	33.3%	probably_damaging(0.996)	deleterious(0.02)	deleterious(0.845)	NULL
CAPS	828	genome.wustl.edu	37	19	5914476	5914476	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_004058.3	+1	validated	p.A20D	0.856	29	0%	57	29.8%	142	38.7%	possibly_damaging(0.952)	deleterious(0)	deleterious(0.840)	superfamily_SSF47473
MLLT1	4298	genome.wustl.edu	37	19	6222551	6222551	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_005934.3	-1	validated	p.R231W	0.002	43	0%	61	14.8%	12	0%	probably_damaging(1)	deleterious(0)	deleterious(0.945)	NULL
GTF2F1	2962	genome.wustl.edu	37	19	6380467	6380467	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_002096.2	-1	validated	p.R460H	1.000	261	0%	401	23.4%	136	27.9%	probably_damaging(1)	deleterious(0)	deleterious(0.945)	"HMMPfam_TFIIF_alpha,superfamily_""Winged helix"" DNA-binding domain"
KHSRP	8570	genome.wustl.edu	37	19	6416504	6416504	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_003685.2	-1	validated	p.I495	0.388	59	0%	116	27.6%	27	14.8%	-	-	-	HMMSmart_SM00322,superfamily_Eukaryotic type KH-domain (KH-domain type I)
KHSRP	8570	genome.wustl.edu	37	19	6417037	6417037	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_003685.2	-1	validated	p.H381	0.921	86	0%	163	13.5%	31	19.3%	-	-	-	HMMSmart_SM00322,HMMPfam_KH_1,superfamily_Eukaryotic type KH-domain (KH-domain type I)
KHSRP	8570	genome.wustl.edu	37	19	6418557	6418557	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_003685.2	-1	validated	p.D272	0.995	213	0.5%	353	10.2%	22	0%	-	-	-	HMMSmart_SM00322,HMMPfam_KH_1,superfamily_Eukaryotic type KH-domain (KH-domain type I)
KHSRP	8570	genome.wustl.edu	37	19	6422425	6422425	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_003685.2	-1	validated	p.D91G	0.996	205	0.5%	309	22.7%	6	0%	benign(0.036)	tolerated(0.06)	neutral(0.325)	NULL
SLC25A41	284427	genome.wustl.edu	37	19	6430077	6430077	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	ENST00000458275	-1	known	p.A186V	0.303	47	0%	46	21.7%	0	-	unknown(0)	tolerated(0.32)	-	NULL
TUBB4A	10382	genome.wustl.edu	37	19	6495371	6495371	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_006087.2	-1	provisional	p.R380H	1.000	83	0%	147	11.6%	12	0%	probably_damaging(0.998)	-	-	superfamily_Tubulin C-terminal domain-like,HMMPfam_Tubulin_C
TUBB4A	10382	genome.wustl.edu	37	19	6495880	6495880	+	Silent	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_006087.2	-1	provisional	p.I210	1.000	110	0.9%	182	26.4%	0	-	-	-	-	HMMPfam_Tubulin,superfamily_Tubulin nucleotide-binding domain-like
TUBB4A	10382	genome.wustl.edu	37	19	6495904	6495904	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_006087.2	-1	provisional	p.I202	1.000	125	0%	208	17.8%	0	-	-	-	-	HMMPfam_Tubulin,superfamily_Tubulin nucleotide-binding domain-like
TUBB4A	10382	genome.wustl.edu	37	19	6501351	6501351	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_006087.2	-1	provisional	p.S75Y	0.999	52	0%	108	25.9%	1	0%	possibly_damaging(0.584)	-	-	HMMPfam_Tubulin,superfamily_Tubulin nucleotide-binding domain-like
TNFSF9	8744	genome.wustl.edu	37	19	6534824	6534824	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_003811.3	+1	reviewed	p.R171H	0.000	43	0%	56	12.5%	1	0%	probably_damaging(0.986)	tolerated(0.16)	deleterious(0.494)	HMMPfam_TNF,HMMSmart_TNF,superfamily_TNF_like
TNFSF9	8744	genome.wustl.edu	37	19	6534950	6534950	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_003811.3	+1	reviewed	p.G213D	0.000	10	0%	44	25%	2	0%	probably_damaging(0.999)	tolerated(0.51)	deleterious(0.499)	HMMPfam_TNF,HMMSmart_TNF,superfamily_TNF_like
TNFSF14	8740	genome.wustl.edu	37	19	6665168	6665168	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_003807.3	-1	reviewed	p.H164	0.962	42	0%	68	25%	0	-	-	-	-	HMMPfam_TNF,HMMSmart_SM00207,superfamily_TNF-like
TRIP10	9322	genome.wustl.edu	37	19	6743231	6743231	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_004240.2	+1	validated	p.Q124	1.000	168	0%	295	13.9%	32	12.5%	-	-	-	NULL
SH2D3A	10045	genome.wustl.edu	37	19	6753530	6753530	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_005490.2	-1	validated	p.G503R	0.685	4	0.000	16	0.312	4	75%	benign(0)	tolerated(0.16)	neutral(0.059)	HMMSmart_SM00147,superfamily_Ras GEF
EMR1	2015	genome.wustl.edu	37	19	6897502	6897502	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001974.3	+1	reviewed	p.G153E	0.972	214	0%	51	25.5%	0	-	probably_damaging(1)	deleterious(0)	deleterious(0.945)	PatternScan_ASX_HYDROXYL,HMMSmart_SM00179,HMMSmart_SM00181,HMMPfam_EGF_CA,PatternScan_EGF_CA,superfamily_EGF/Laminin
ENSG00000182315	0	genome.wustl.edu	37	19	7056709	7056709	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	ENST00000333843	-1	known	p.P84L	0.030	135	0%	196	11.7%	0	-	probably_damaging(1)	deleterious(0)	deleterious(0.945)	NULL
INSR	3643	genome.wustl.edu	37	19	7122719	7122719	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_000208.2	-1	reviewed	p.D1145	0.943	172	0.6%	101	27.7%	9	0%	-	-	-	HMMPfam_Pkinase_Tyr,HMMSmart_SM00219,HMMSmart_SM00220,superfamily_Protein kinase-like (PK-like)
INSR	3643	genome.wustl.edu	37	19	7126655	7126655	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_000208.2	-1	reviewed	p.D985Y	0.930	76	0%	52	9.6%	4	0%	benign(0.002)	deleterious(0.01)	neutral(0.406)	NULL
INSR	3643	genome.wustl.edu	37	19	7163133	7163133	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_000208.2	-1	reviewed	p.D647Y	0.996	309	0%	157	17.2%	7	0%	benign(0.001)	tolerated(0.51)	neutral(0.009)	HMMPfam_fn3,HMMSmart_SM00060,superfamily_Fibronectin type III
ARHGEF18	23370	genome.wustl.edu	37	19	7511967	7511967	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001130955.1	+1	reviewed	p.Y362	0.987	294	0%	235	10.6%	1	0%	-	-	-	HMMPfam_RhoGEF,HMMSmart_SM00325,superfamily_DBL homology domain (DH-domain)
ARHGEF18	23370	genome.wustl.edu	37	19	7523424	7523424	+	Silent	SNP	A	A	G	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001130955.1	+1	reviewed	p.L548	0.009	173	0%	167	25.1%	5	20%	-	-	-	HMMPfam_PH,HMMSmart_SM00233,superfamily_PH domain-like
ARHGEF18	23370	genome.wustl.edu	37	19	7529499	7529499	+	Nonsense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001130955.1	+1	reviewed	p.R755*	0.071	95	0%	199	27.6%	4	25%	-	-	-	NULL
ZNF358	140467	genome.wustl.edu	37	19	7584362	7584362	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_018083.4	+1	validated	p.P78	0.000	31	0%	71	32.4%	70	12.8%	-	-	-	NULL
MCOLN1	57192	genome.wustl.edu	37	19	7593144	7593144	+	Splice_Site	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_020533.2	+1	reviewed	e7+1	1.000	43	0%	105	19%	0	-	-	-	-	-
MCOLN1	57192	genome.wustl.edu	37	19	7593847	7593847	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_020533.2	+1	reviewed	p.I375	0.940	63	0%	108	10.2%	24	0%	-	-	-	HMMPfam_Ion_trans
MCOLN1	57192	genome.wustl.edu	37	19	7594522	7594522	+	Missense_Mutation	SNP	T	T	G	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_020533.2	+1	reviewed	p.F428C	1.000	167	0%	266	24.4%	26	15.3%	probably_damaging(1)	deleterious(0)	deleterious(0.945)	HMMPfam_Ion_trans
PNPLA6	10908	genome.wustl.edu	37	19	7615271	7615271	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_006702.4	+1	reviewed	p.F595	0.997	13	0%	20	30%	11	27.2%	-	-	-	HMMSmart_cNMP,superfamily_cNMP_binding
CAMSAP3	57662	genome.wustl.edu	37	19	7682838	7682838	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001080429.2	+1	validated	p.P1242	0.638	44	0%	105	23.8%	75	45.3%	-	-	-	superfamily_PRC-barrel domain,HMMPfam_DUF1781
STXBP2	6813	genome.wustl.edu	37	19	7703933	7703933	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_006949.2	+1	reviewed	p.R39H	1.000	119	0%	198	24.2%	8	37.5%	probably_damaging(1)	deleterious(0)	deleterious(0.945)	HMMPfam_Sec1,superfamily_Sec1/munc18-like (SM) proteins
STXBP2	6813	genome.wustl.edu	37	19	7705382	7705383	+	Frame_Shift_Del	DEL	GC	GC	-	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	GC	GC					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	ENST00000320400	+1	known	p.H192fs	0.864:0.848	-	-	-	-	-	-	-	-	-	NULL
CD209	30835	genome.wustl.edu	37	19	7805481	7805481	+	RNA	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NR_026692.1	-1	reviewed	NULL	0.074	242	0.8%	262	10.3%	2	0%	-	-	-	-
CLEC4M	10332	genome.wustl.edu	37	19	7830963	7830963	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_014257.4	+1	reviewed	p.L218	0.001	129	0%	92	22.8%	0	-	-	-	-	NULL
MAP2K7	5609	genome.wustl.edu	37	19	7975016	7975016	+	Splice_Site	SNP	T	T	C	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_145185.2	+1	reviewed	e3+2	0.999	41	0%	66	30.3%	0	-	-	-	-	-
MAP2K7	5609	genome.wustl.edu	37	19	7976138	7976138	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_145185.2	+1	reviewed	p.E287K	1.000	45	0%	95	30.5%	6	0%	probably_damaging(1)	deleterious(0)	deleterious(0.945)	HMMSmart_SM00219,HMMSmart_SM00220,superfamily_Protein kinase-like (PK-like),HMMPfam_Pkinase
MAP2K7	5609	genome.wustl.edu	37	19	7976407	7976407	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_145185.2	+1	reviewed	p.P341	0.177	60	0%	107	25.2%	10	0%	-	-	-	HMMSmart_SM00219,HMMSmart_SM00220,superfamily_Protein kinase-like (PK-like),HMMPfam_Pkinase
SNAPC2	6618	genome.wustl.edu	37	19	7987561	7987561	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_003083.3	+1	reviewed	p.S306L	0.001	53	0%	132	25.8%	38	10.5%	benign(0.004)	tolerated(0.35)	neutral(0.021)	NULL
FBN3	84467	genome.wustl.edu	37	19	8191708	8191708	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_032447.3	-1	reviewed	p.E769K	0.998	21	0%	27	22.2%	0	-	probably_damaging(1)	deleterious(0)	deleterious(0.945)	HMMSmart_SM00179,HMMSmart_SM00181,HMMPfam_EGF_CA,PatternScan_EGF_CA,superfamily_EGF/Laminin
FBN3	84467	genome.wustl.edu	37	19	8209852	8209852	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_032447.3	-1	reviewed	p.I150	1.000	38	0%	70	28.6%	0	-	-	-	-	HMMSmart_SM00181,superfamily_EGF/Laminin
KANK3	256949	genome.wustl.edu	37	19	8389342	8389342	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_198471.2	-1	validated	p.P791	0.000	47	0%	40	12.5%	41	0%	-	-	-	NULL
PRAM1	84106	genome.wustl.edu	37	19	8555223	8555223	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_032152.3	-1	reviewed	p.C657	0.956	40	0%	127	26%	3	33.3%	-	-	-	NULL
PRAM1	84106	genome.wustl.edu	37	19	8563146	8563146	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_032152.3	-1	reviewed	p.G487V	0.000	44	0%	60	13.3%	1	0%	possibly_damaging(0.784)	deleterious(0)	deleterious(0.738)	NULL
MYO1F	4542	genome.wustl.edu	37	19	8618081	8618081	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_012335.3	-1	validated	p.P149L	1.000	259	0%	267	10.1%	2	0%	probably_damaging(1)	deleterious(0)	deleterious(0.945)	HMMPfam_Myosin_head,HMMSmart_SM00242,superfamily_P-loop containing nucleoside triphosphate hydrolases
ADAMTS10	81794	genome.wustl.edu	37	19	8656853	8656853	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	ENST00000393916	-1	known	p.A65V	0.990	28	0%	55	32.7%	2	0%	-	-	-	NULL
MUC16	94025	genome.wustl.edu	37	19	9049229	9049229	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_024690.2	-1	validated	p.A10801V	0.000	249	0.4%	80	28.7%	1	0%	unknown(0)	-	-	NULL
MUC16	94025	genome.wustl.edu	37	19	9056342	9056342	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_024690.2	-1	validated	p.E10368D	0.006	271	0%	100	18%	1	100%	unknown(0)	-	-	NULL
MUC16	94025	genome.wustl.edu	37	19	9057266	9057266	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_024690.2	-1	validated	p.K10060N	0.000	240	0%	73	24.7%	5	20%	unknown(0)	-	-	NULL
MUC16	94025	genome.wustl.edu	37	19	9066848	9066848	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_024690.2	-1	validated	p.E6866D	0.000	449	0.2%	180	26.1%	3	66.6%	unknown(0)	-	-	NULL
MUC16	94025	genome.wustl.edu	37	19	9067438	9067438	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_024690.2	-1	validated	p.V6670I	0.000	208	0.5%	93	15.1%	3	33.3%	unknown(0)	-	-	NULL
MUC16	94025	genome.wustl.edu	37	19	9069196	9069196	+	Missense_Mutation	SNP	C	C	T	rs190236703	by1000genomes	TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_024690.2	-1	validated	p.A6084T	0.000	164	0%	75	25.3%	4	50%	unknown(0)	-	-	NULL
MUC16	94025	genome.wustl.edu	37	19	9072740	9072740	+	Silent	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_024690.2	-1	validated	p.I4902	0.000	425	0%	208	12.5%	1	0%	-	-	-	NULL
MUC16	94025	genome.wustl.edu	37	19	9073032	9073032	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_024690.2	-1	validated	p.S4805I	0.000	313	0%	101	14.9%	0	-	unknown(0)	-	-	NULL
MUC16	94025	genome.wustl.edu	37	19	9074862	9074862	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_024690.2	-1	validated	p.S4195Y	0.006	272	0%	111	22.5%	0	-	unknown(0)	-	-	NULL
MUC16	94025	genome.wustl.edu	37	19	9075243	9075243	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_024690.2	-1	validated	p.S4068L	0.000	194	0%	57	21.1%	1	100%	unknown(0)	-	-	NULL
MUC16	94025	genome.wustl.edu	37	19	9076464	9076464	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_024690.2	-1	validated	p.R3661I	0.001	239	0%	84	21.4%	1	100%	unknown(0)	-	-	NULL
MUC16	94025	genome.wustl.edu	37	19	9077620	9077620	+	Missense_Mutation	SNP	T	T	G	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_024690.2	-1	validated	p.N3276H	0.002	137	0%	57	35.1%	0	-	unknown(0)	-	-	NULL
MUC16	94025	genome.wustl.edu	37	19	9083171	9083171	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_024690.2	-1	validated	p.T2882A	0.004	284	0%	101	34.7%	1	0%	unknown(0)	-	-	NULL
MUC16	94025	genome.wustl.edu	37	19	9086957	9086957	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_024690.2	-1	validated	p.T1620A	0.000	491	0%	174	21.3%	2	0%	unknown(0)	-	-	NULL
MUC16	94025	genome.wustl.edu	37	19	9087024	9087024	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_024690.2	-1	validated	p.G1597	0.013	547	0%	177	29.4%	1	0%	-	-	-	NULL
MUC16	94025	genome.wustl.edu	37	19	9088637	9088637	+	Nonsense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_024690.2	-1	validated	p.G1060*	0.002	160	0%	67	31.3%	0	-	-	-	-	NULL
MUC16	94025	genome.wustl.edu	37	19	9090734	9090734	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_024690.2	-1	validated	p.A361S	0.030	382	0%	134	25.4%	2	0%	unknown(0)	-	-	NULL
OR7G2	390882	genome.wustl.edu	37	19	9212991	9212991	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001005193.1	-1	provisional	p.S331Y	0.000	230	0%	130	21.5%	0	-	benign(0.022)	tolerated(0.44)	neutral(0.014)	NULL
ZNF317	57693	genome.wustl.edu	37	19	9271945	9271945	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_020933.3	+1	provisional	p.G542C	0.000	77	0%	30	20%	8	0%	probably_damaging(0.999)	tolerated(0.16)	deleterious(0.550)	HMMPfam_zf-C2H2,PatternScan_ZINC_FINGER_C2H2_1,HMMSmart_SM00355,superfamily_C2H2 and C2HC zinc fingers
OR7D2	162998	genome.wustl.edu	37	19	9296606	9296606	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_175883.1	+1	provisional	p.S50N	0.228	168	0%	147	34%	0	-	benign(0.084)	tolerated(0.4)	neutral(0.022)	HMMPfam_7tm_1,superfamily_SSF81321
OR7E24	26648	genome.wustl.edu	37	19	9361987	9361987	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001079935.1	+1	provisional	p.G90S	0.000	141	0.7%	144	27.1%	0	-	benign(0.199)	tolerated(0.19)	neutral(0.069)	HMMPfam_7tm_1,superfamily_Family A G protein-coupled receptor-like
ZNF699	374879	genome.wustl.edu	37	19	9406961	9406961	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_198535.1	-1	provisional	p.S373	0.000	183	0%	139	18.7%	0	-	-	-	-	HMMPfam_zf-C2H2,PatternScan_ZINC_FINGER_C2H2_1,HMMSmart_ZnF_C2H2,superfamily_SSF57667
ZNF559	84527	genome.wustl.edu	37	19	9452785	9452785	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_032497.1	+1	provisional	p.E220K	0.055	247	0.4%	121	23.1%	2	0%	benign(0)	tolerated(1)	-	NULL
ZNF559	84527	genome.wustl.edu	37	19	9452883	9452883	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_032497.1	+1	provisional	p.E252	0.000	159	0%	115	13%	3	0%	-	-	-	HMMPfam_zf-C2H2,PatternScan_ZINC_FINGER_C2H2_1,HMMSmart_ZnF_C2H2,superfamily_SSF57667
ZNF559	84527	genome.wustl.edu	37	19	9453161	9453161	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_032497.1	+1	provisional	p.R345Q	0.040	180	0.6%	99	10.1%	5	40%	probably_damaging(1)	deleterious(0.03)	deleterious(0.865)	HMMPfam_zf-C2H2,PatternScan_ZINC_FINGER_C2H2_1,HMMSmart_ZnF_C2H2,superfamily_SSF57667
ZNF559	84527	genome.wustl.edu	37	19	9453245	9453245	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_032497.1	+1	provisional	p.R373I	0.656	162	0%	77	16.9%	4	0%	probably_damaging(0.999)	deleterious(0)	deleterious(0.935)	HMMPfam_zf-C2H2,PatternScan_ZINC_FINGER_C2H2_1,HMMSmart_ZnF_C2H2,superfamily_SSF57667
ZNF559	84527	genome.wustl.edu	37	19	9453539	9453539	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_032497.1	+1	provisional	p.G471E	0.935	216	0%	126	23.8%	3	0%	probably_damaging(0.993)	deleterious(0)	deleterious(0.895)	HMMPfam_zf-C2H2,PatternScan_ZINC_FINGER_C2H2_1,HMMSmart_ZnF_C2H2,superfamily_SSF57667
ZNF266	10781	genome.wustl.edu	37	19	9524263	9524263	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_006631.2	-1	validated	p.T446	0.000	152	0%	96	16.7%	22	27.2%	-	-	-	HMMPfam_zf-C2H2,PatternScan_ZINC_FINGER_C2H2_1,HMMSmart_ZnF_C2H2,superfamily_SSF57667
ZNF560	147741	genome.wustl.edu	37	19	9577519	9577519	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_152476.2	-1	validated	p.R702C	0.227	168	0%	65	29.2%	0	-	benign(0.002)	deleterious(0.01)	neutral(0.406)	superfamily_SSF57667
ZNF426	79088	genome.wustl.edu	37	19	9639079	9639079	+	Nonsense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_024106.1	-1	provisional	p.R548*	0.000	310	0%	169	16%	1	100%	-	-	-	HMMPfam_zf-C2H2,PatternScan_ZINC_FINGER_C2H2_1,HMMSmart_SM00355,superfamily_C2H2 and C2HC zinc fingers
ZNF426	79088	genome.wustl.edu	37	19	9639918	9639918	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_024106.1	-1	provisional	p.S268F	0.000	444	0%	251	22.7%	4	0%	possibly_damaging(0.454)	tolerated(0.2)	neutral(0.198)	NULL
ZNF561	93134	genome.wustl.edu	37	19	9720990	9720990	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_152289.2	-1	validated	p.F449	0.002	315	0%	100	22%	10	20%	-	-	-	HMMPfam_zf-C2H2,HMMSmart_ZnF_C2H2,superfamily_SSF57667
ZNF561	93134	genome.wustl.edu	37	19	9721924	9721924	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_152289.2	-1	validated	p.R138K	0.061	310	0%	96	19.8%	6	16.6%	possibly_damaging(0.942)	tolerated(0.15)	deleterious(0.628)	HMMSmart_ZnF_C2H2
ZNF562	54811	genome.wustl.edu	37	19	9764075	9764075	+	Silent	SNP	T	T	C	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001130031.1	-1	validated	p.A277	0.000	490	0.2%	194	25.3%	4	0%	-	-	-	HMMSmart_SM00355,superfamily_C2H2 and C2HC zinc fingers
ZNF562	54811	genome.wustl.edu	37	19	9764123	9764123	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001130031.1	-1	validated	p.K261N	0.001	400	0%	181	12.2%	3	33.3%	benign(0.005)	deleterious(0.05)	neutral(0.345)	superfamily_C2H2 and C2HC zinc fingers
COL5A3	50509	genome.wustl.edu	37	19	10091787	10091787	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_015719.3	-1	reviewed	p.L828M	0.001	218	0%	135	18.5%	1	0%	unknown(0)	deleterious(0.04)	-	HMMPfam_Collagen
RDH8	50700	genome.wustl.edu	37	19	10132384	10132384	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_015725.2	+1	validated	p.L299M	1.000	114	0%	125	12.8%	0	-	benign(0.419)	tolerated(0.18)	neutral(0.192)	NULL
EIF3G	8666	genome.wustl.edu	37	19	10226725	10226725	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_003755.3	-1	validated	p.Q207H	0.991	61	0%	114	25.4%	230	23.9%	possibly_damaging(0.807)	tolerated(0.11)	deleterious(0.576)	superfamily_SSF54928
EIF3G	8666	genome.wustl.edu	37	19	10229788	10229788	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_003755.3	-1	validated	p.P43S	0.903	74	0%	156	17.3%	146	3.4%	benign(0.002)	tolerated(0.32)	neutral(0.024)	NULL
DNMT1	1786	genome.wustl.edu	37	19	10247808	10247808	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001130823.1	-1	reviewed	p.G1481D	1.000	25	0%	40	17.5%	39	25.6%	probably_damaging(0.999)	deleterious(0.01)	deleterious(0.896)	superfamily_S-adenosyl-L-methionine-dependent methyltransferases
DNMT1	1786	genome.wustl.edu	37	19	10247844	10247844	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001130823.1	-1	reviewed	p.R1469M	0.934	20	0%	40	47.5%	47	21.2%	benign(0.394)	deleterious(0.01)	deleterious(0.532)	superfamily_S-adenosyl-L-methionine-dependent methyltransferases
S1PR2	9294	genome.wustl.edu	37	19	10335096	10335096	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_004230.3	-1	validated	p.L162	0.071	25	0%	44	18.2%	8	12.5%	-	-	-	HMMPfam_7tm_1,superfamily_SSF81321
ICAM1	3383	genome.wustl.edu	37	19	10395175	10395175	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_000201.2	+1	reviewed	p.T341M	0.000	35	0%	57	12.3%	11	18.1%	benign(0.374)	tolerated(0.12)	neutral(0.380)	HMMSmart_SM00409,superfamily_Immunoglobulin
ICAM1	3383	genome.wustl.edu	37	19	10395832	10395832	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_000201.2	+1	reviewed	p.A490T	0.000	202	0%	279	15.8%	32	6.2%	possibly_damaging(0.452)	tolerated(0.35)	neutral(0.168)	NULL
TYK2	7297	genome.wustl.edu	37	19	10461751	10461751	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_003331.4	-1	reviewed	p.R1136W	0.447	100	0%	133	33.1%	85	37.6%	probably_damaging(0.991)	deleterious(0.03)	deleterious(0.808)	HMMPfam_Pkinase_Tyr,HMMSmart_TyrKc,superfamily_Kinase_like
TYK2	7297	genome.wustl.edu	37	19	10473030	10473030	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_003331.4	-1	reviewed	p.R527W	0.000	48	0%	79	15.2%	5	0%	probably_damaging(0.996)	tolerated(0.07)	deleterious(0.780)	HMMSmart_SH2,superfamily_SSF55550
PDE4A	5141	genome.wustl.edu	37	19	10572341	10572341	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001111307.1	+1	validated	p.K535N	1.000	32	0%	71	25.4%	1	0%	possibly_damaging(0.632)	tolerated(0.06)	deleterious(0.543)	HMMPfam_PDEase_I,HMMSmart_SM00471,superfamily_HD-domain/PDEase-like
PDE4A	5141	genome.wustl.edu	37	19	10577807	10577807	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001111307.1	+1	validated	p.A724V	0.739	39	0%	60	21.7%	5	0%	benign(0.124)	deleterious(0.03)	neutral(0.374)	NULL
KEAP1	9817	genome.wustl.edu	37	19	10602314	10602314	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_012289.3	-1	reviewed	p.D422N	1.000	16	0%	29	34.5%	8	62.5%	probably_damaging(0.999)	tolerated(0.19)	deleterious(0.540)	HMMPfam_Kelch_1,HMMSmart_Kelch,superfamily_Gal_oxid_central
SLC44A2	57153	genome.wustl.edu	37	19	10736971	10736971	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_020428.3	+1	validated	p.Y27C	1.000	266	0%	344	26.7%	9	66.6%	benign(0.185)	tolerated(0.17)	neutral(0.076)	NULL
ILF3	3609	genome.wustl.edu	37	19	10792710	10792710	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_017620.2	+1	reviewed	p.R408W	0.974	59	0%	93	30.1%	32	40.6%	probably_damaging(0.998)	deleterious(0)	deleterious(0.919)	HMMPfam_dsrm,HMMSmart_SM00358,superfamily_dsRNA-binding domain-like
ILF3	3609	genome.wustl.edu	37	19	10794044	10794044	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_017620.2	+1	reviewed	p.V563	0.011	141	0%	172	24.4%	42	11.9%	-	-	-	HMMPfam_dsrm,HMMSmart_SM00358,superfamily_dsRNA-binding domain-like
C19orf38	255809	genome.wustl.edu	37	19	10970602	10970602	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001136482.1	+1	provisional	p.S158Y	1.000	160	0%	102	20.6%	2	0%	probably_damaging(0.996)	deleterious(0)	deleterious(0.906)	NULL
SMARCA4	6597	genome.wustl.edu	37	19	11152013	11152013	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001128849.1	+1	reviewed	p.E1433K	1.000	76	0%	93	32.3%	101	32.6%	benign(0.308)	tolerated(0.11)	neutral(0.368)	NULL
LDLR	3949	genome.wustl.edu	37	19	11217264	11217264	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_000527.3	+1	reviewed	p.E240K	0.999	185	0%	154	26%	3	0%	benign(0.382)	tolerated(0.09)	neutral(0.418)	HMMPfam_Ldl_recept_a,HMMSmart_SM00192,superfamily_LDL receptor-like module
DOCK6	57572	genome.wustl.edu	37	19	11312711	11312711	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_020812.2	-1	validated	p.R1848C	1.000	116	0%	198	11.6%	41	7.3%	possibly_damaging(0.582)	deleterious(0)	deleterious(0.645)	HMMPfam_Ded_cyto
DOCK6	57572	genome.wustl.edu	37	19	11354362	11354362	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_020812.2	-1	validated	p.R377C	1.000	66	0%	98	18.4%	1	0%	probably_damaging(0.999)	deleterious(0)	deleterious(0.935)	NULL
CCDC159	126075	genome.wustl.edu	37	19	11462749	11462749	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001080503.2	+1	validated	p.E169D	0.996	206	0%	395	12.2%	27	3.7%	possibly_damaging(0.942)	deleterious(0)	deleterious(0.832)	NULL
PRKCSH	5589	genome.wustl.edu	37	19	11548775	11548775	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_002743.2	+1	reviewed	p.V92A	1.000	136	0%	158	23.4%	120	26.6%	probably_damaging(0.991)	deleterious(0.01)	deleterious(0.850)	superfamily_LDL_rcpt_classA_cys-rich
ELAVL3	1995	genome.wustl.edu	37	19	11565652	11565652	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001420.3	-1	reviewed	p.D265N	1.000	37	0%	74	10.8%	0	-	benign(0.146)	tolerated(0.18)	neutral(0.069)	NULL
ZNF653	115950	genome.wustl.edu	37	19	11606859	11606859	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_138783.3	-1	validated	p.T155	0.938	89	0%	121	13.2%	2	0%	-	-	-	NULL
ZNF653	115950	genome.wustl.edu	37	19	11609115	11609115	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_138783.3	-1	validated	p.K113	1.000	374	0%	612	11.1%	0	-	-	-	-	NULL
ECSIT	51295	genome.wustl.edu	37	19	11624043	11624043	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_016581.3	-1	validated	p.R189H	0.995	158	0%	150	27.3%	21	4.7%	benign(0.083)	tolerated(0.47)	neutral(0.017)	HMMPfam_ECSIT
ECSIT	51295	genome.wustl.edu	37	19	11625018	11625018	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_016581.3	-1	validated	p.R39W	0.001	31	0%	31	32.3%	7	0%	probably_damaging(0.985)	deleterious(0.01)	deleterious(0.838)	HMMPfam_ECSIT
ZNF627	199692	genome.wustl.edu	37	19	11727992	11727992	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_145295.3	+1	validated	p.C225Y	0.545	225	0%	189	21.7%	4	0%	probably_damaging(1)	deleterious(0.02)	deleterious(0.883)	HMMPfam_zf-C2H2,PatternScan_ZINC_FINGER_C2H2_1,HMMSmart_ZnF_C2H2,superfamily_SSF57667
ZNF823	55552	genome.wustl.edu	37	19	11832709	11832709	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001080493.2	-1	validated	p.R547I	1.000	290	0%	130	25.4%	3	33.3%	benign(0.055)	tolerated(0.06)	neutral(0.326)	HMMPfam_zf-C2H2,PatternScan_ZINC_FINGER_C2H2_1,HMMSmart_ZnF_C2H2,superfamily_SSF57667
ZNF823	55552	genome.wustl.edu	37	19	11833927	11833927	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001080493.2	-1	validated	p.R141H	0.972	704	0.4%	301	20.9%	2	0%	benign(0.002)	tolerated(0.05)	neutral(0.345)	superfamily_SSF57667
ZNF441	126068	genome.wustl.edu	37	19	11891835	11891835	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_152355.2	+1	validated	p.A399V	0.766	225	0%	130	20.8%	0	-	benign(0.077)	tolerated(0.07)	neutral(0.325)	HMMPfam_zf-C2H2,HMMSmart_SM00355,superfamily_C2H2 and C2HC zinc fingers
ZNF439	90594	genome.wustl.edu	37	19	11977031	11977031	+	Silent	SNP	T	T	G	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_152262.2	+1	provisional	p.A20	0.336	476	0%	177	23.7%	0	-	-	-	-	HMMPfam_KRAB,HMMSmart_KRAB,superfamily_Krueppel-associated_box
ZNF439	90594	genome.wustl.edu	37	19	11977116	11977116	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_152262.2	+1	provisional	p.L49M	0.114	525	0%	210	22.9%	1	0%	probably_damaging(0.984)	tolerated(0.05)	deleterious(0.776)	HMMPfam_KRAB,HMMSmart_KRAB,superfamily_Krueppel-associated_box
ZNF439	90594	genome.wustl.edu	37	19	11978352	11978352	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_152262.2	+1	provisional	p.K156N	0.022	288	0%	141	30.5%	1	0%	possibly_damaging(0.703)	tolerated(0.06)	deleterious(0.575)	superfamily_SSF57667
ZNF69	7620	genome.wustl.edu	37	19	12015807	12015807	+	Missense_Mutation	SNP	A	A	C	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	ENST00000429654	+1	known	p.K199Q	0.547	280	0%	88	20.5%	0	-	possibly_damaging(0.596)	deleterious(0)	deleterious(0.650)	HMMPfam_zf-C2H2,PatternScan_ZINC_FINGER_C2H2_1,HMMSmart_SM00355,superfamily_C2H2 and C2HC zinc fingers
ZNF69	7620	genome.wustl.edu	37	19	12016481	12016481	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	ENST00000429654	+1	known	p.K423N	0.245	132	0%	55	10.9%	0	-	probably_damaging(1)	deleterious(0)	deleterious(0.945)	HMMPfam_zf-C2H2,PatternScan_ZINC_FINGER_C2H2_1,HMMSmart_SM00355,superfamily_C2H2 and C2HC zinc fingers
ZNF700	90592	genome.wustl.edu	37	19	12061010	12061010	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_144566.1	+1	provisional	p.R724M	0.786	125	0%	101	25.7%	10	20%	possibly_damaging(0.944)	tolerated(0.05)	deleterious(0.734)	HMMPfam_zf-C2H2,PatternScan_ZINC_FINGER_C2H2_1,HMMSmart_SM00355,superfamily_C2H2 and C2HC zinc fingers
ZNF433	163059	genome.wustl.edu	37	19	12126117	12126117	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001080411.1	-1	provisional	p.R522Q	0.000	237	0%	92	19.6%	10	0%	benign(0.361)	tolerated(0.63)	neutral(0.118)	HMMPfam_zf-C2H2,PatternScan_ZINC_FINGER_C2H2_1,HMMSmart_SM00355,superfamily_C2H2 and C2HC zinc fingers
ZNF433	163059	genome.wustl.edu	37	19	12127156	12127156	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001080411.1	-1	provisional	p.G176R	1.000	382	0%	121	22.3%	3	33.3%	probably_damaging(0.999)	deleterious(0)	deleterious(0.935)	HMMPfam_zf-C2H2,PatternScan_ZINC_FINGER_C2H2_1,HMMSmart_SM00355,superfamily_C2H2 and C2HC zinc fingers
ZNF878	729747	genome.wustl.edu	37	19	12154757	12154757	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001080404.1	-1	inferred	p.A534T	0.927	248	0%	228	28.9%	0	-	benign(0.311)	tolerated(0.09)	neutral(0.393)	HMMPfam_zf-C2H2,PatternScan_ZINC_FINGER_C2H2_1,HMMSmart_SM00355,superfamily_C2H2 and C2HC zinc fingers
ZNF878	729747	genome.wustl.edu	37	19	12154841	12154841	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001080404.1	-1	inferred	p.A506T	0.520	196	0%	209	28.2%	0	-	possibly_damaging(0.903)	tolerated(0.08)	deleterious(0.658)	HMMPfam_zf-C2H2,PatternScan_ZINC_FINGER_C2H2_1,HMMSmart_SM00355,superfamily_C2H2 and C2HC zinc fingers
ZNF878	729747	genome.wustl.edu	37	19	12155056	12155056	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001080404.1	-1	inferred	p.R434M	0.976	140	0%	163	11.7%	0	-	probably_damaging(0.999)	deleterious(0)	deleterious(0.935)	HMMPfam_zf-C2H2,PatternScan_ZINC_FINGER_C2H2_1,HMMSmart_SM00355,superfamily_C2H2 and C2HC zinc fingers
ZNF844	284391	genome.wustl.edu	37	19	12186586	12186586	+	Silent	SNP	A	A	G	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001136501.1	+1	provisional	p.R217	0.222	143	0%	132	29.5%	1	100%	-	-	-	PatternScan_ZINC_FINGER_C2H2_1,HMMSmart_ZnF_C2H2,superfamily_SSF57667
ENSG00000188474	0	genome.wustl.edu	37	19	12222996	12222996	+	Nonsense_Mutation	SNP	C	C	T	rs192069476	by1000genomes	TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	ENST00000339302	+1	known	p.R212*	0.001	39	0%	44	27.3%	2	0%	-	-	-	HMMPfam_zf-C2H2,PatternScan_ZINC_FINGER_C2H2_1,HMMSmart_ZnF_C2H2,superfamily_SSF57667
ZNF563	147837	genome.wustl.edu	37	19	12429988	12429988	+	Missense_Mutation	SNP	T	T	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_145276.2	-1	validated	p.K284I	0.001	350	0%	147	25.9%	3	33.3%	possibly_damaging(0.952)	deleterious(0)	deleterious(0.840)	HMMPfam_zf-C2H2,PatternScan_ZINC_FINGER_C2H2_1,HMMSmart_SM00355,superfamily_C2H2 and C2HC zinc fingers
ZNF563	147837	genome.wustl.edu	37	19	12430147	12430147	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_145276.2	-1	validated	p.S231Y	0.490	292	0%	143	18.2%	2	0%	possibly_damaging(0.612)	deleterious(0)	deleterious(0.656)	HMMPfam_zf-C2H2,PatternScan_ZINC_FINGER_C2H2_1,HMMSmart_SM00355,superfamily_C2H2 and C2HC zinc fingers
ZNF563	147837	genome.wustl.edu	37	19	12430189	12430189	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_145276.2	-1	validated	p.R217I	1.000	328	0%	160	11.3%	1	0%	benign(0.43)	deleterious(0.02)	deleterious(0.523)	HMMPfam_zf-C2H2,PatternScan_ZINC_FINGER_C2H2_1,HMMSmart_SM00355,superfamily_C2H2 and C2HC zinc fingers
ZNF443	10224	genome.wustl.edu	37	19	12541760	12541760	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_005815.4	-1	validated	p.R409Q	0.000	424	0%	283	23%	7	14.2%	possibly_damaging(0.452)	tolerated(0.64)	neutral(0.151)	HMMPfam_zf-C2H2,PatternScan_ZINC_FINGER_C2H2_1,HMMSmart_SM00355,superfamily_C2H2 and C2HC zinc fingers
ZNF709	163051	genome.wustl.edu	37	19	12574913	12574913	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_152601.3	-1	validated	p.R608Q	0.011	299	0%	328	13.7%	4	0%	possibly_damaging(0.868)	tolerated(0.06)	deleterious(0.659)	HMMPfam_zf-C2H2,PatternScan_ZINC_FINGER_C2H2_1,HMMSmart_SM00355,superfamily_C2H2 and C2HC zinc fingers
ZNF709	163051	genome.wustl.edu	37	19	12575301	12575301	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_152601.3	-1	validated	p.K479E	0.158	214	0%	262	26%	1	0%	possibly_damaging(0.881)	deleterious(0.01)	deleterious(0.749)	HMMPfam_zf-C2H2,PatternScan_ZINC_FINGER_C2H2_1,HMMSmart_SM00355,superfamily_C2H2 and C2HC zinc fingers
ZNF709	163051	genome.wustl.edu	37	19	12575585	12575585	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_152601.3	-1	validated	p.R384Q	0.945	294	0%	324	24.4%	0	-	probably_damaging(1)	deleterious(0.04)	deleterious(0.849)	HMMPfam_zf-C2H2,PatternScan_ZINC_FINGER_C2H2_1,HMMSmart_SM00355,superfamily_C2H2 and C2HC zinc fingers
ZNF490	57474	genome.wustl.edu	37	19	12691532	12691532	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_020714.2	-1	validated	p.R453W	0.988	290	0%	132	15.9%	1	0%	probably_damaging(1)	deleterious(0)	deleterious(0.945)	HMMPfam_zf-C2H2,PatternScan_ZINC_FINGER_C2H2_1,HMMSmart_ZnF_C2H2,superfamily_SSF57667
ZNF490	57474	genome.wustl.edu	37	19	12691833	12691833	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_020714.2	-1	validated	p.H352	0.116	248	0%	141	20.6%	1	0%	-	-	-	HMMPfam_zf-C2H2,PatternScan_ZINC_FINGER_C2H2_1,HMMSmart_ZnF_C2H2,superfamily_SSF57667
ZNF791	163049	genome.wustl.edu	37	19	12739318	12739318	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_153358.2	+1	validated	p.E325D	1.000	103	0%	95	24.2%	1	0%	probably_damaging(0.996)	tolerated(0.08)	deleterious(0.762)	superfamily_SSF57667
MAN2B1	4125	genome.wustl.edu	37	19	12758069	12758069	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_000528.3	-1	reviewed	p.R967	0.998	138	0%	208	25%	334	14.6%	-	-	-	superfamily_Gal_mut_like,HMMPfam_Glyco_hydro_38C
MAN2B1	4125	genome.wustl.edu	37	19	12760780	12760780	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_000528.3	-1	reviewed	p.E738D	0.661	286	0%	464	25.4%	89	22.4%	benign(0.001)	tolerated(0.19)	neutral(0.050)	superfamily_Gal_mut_like,HMMPfam_Glyco_hydro_38C
MAN2B1	4125	genome.wustl.edu	37	19	12763241	12763241	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	ENST00000433513	-1	known	p.A157V	0.296	164	0.6%	325	28%	42	14.2%	-	-	-	superfamily_Galactose mutarotase-like,HMMPfam_Glyco_hydro_38C
MAN2B1	4125	genome.wustl.edu	37	19	12775761	12775761	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_000528.3	-1	reviewed	p.D159N	1.000	49	0%	63	33.3%	10	10%	probably_damaging(1)	deleterious(0)	deleterious(0.945)	HMMPfam_Glyco_hydro_38,superfamily_Glyco_hydro/deAcase_b/a-brl
DHPS	1725	genome.wustl.edu	37	19	12787986	12787986	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001930.2	-1	reviewed	p.C275Y	0.024	117	0%	170	24.7%	142	30.2%	benign(0)	deleterious(0)	neutral(0.445)	HMMPfam_DS,superfamily_DHS-like NAD/FAD-binding domain
FBXW9	84261	genome.wustl.edu	37	19	12800784	12800784	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_032301.2	-1	validated	p.R342C	1.000	76	0%	101	12.9%	7	28.5%	probably_damaging(0.996)	tolerated(0.11)	deleterious(0.733)	superfamily_WD40_like
BEST2	54831	genome.wustl.edu	37	19	12864161	12864161	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_017682.2	+1	reviewed	p.F80	1.000	285	0%	573	23.4%	0	-	-	-	-	HMMPfam_Bestrophin
HOOK2	29911	genome.wustl.edu	37	19	12883833	12883833	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_013312.2	-1	validated	p.R77Q	1.000	72	0%	153	24.2%	5	40%	benign(0)	tolerated(1)	-	HMMPfam_HOOK
MAST1	22983	genome.wustl.edu	37	19	12980060	12980060	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_014975.2	+1	validated	p.R985H	1.000	79	0%	138	14.5%	0	-	probably_damaging(1)	deleterious(0)	deleterious(0.945)	HMMSmart_PDZ,superfamily_PDZ
MAST1	22983	genome.wustl.edu	37	19	12984424	12984424	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_014975.2	+1	validated	p.G1151	0.979	12	0%	36	30.6%	0	-	-	-	-	NULL
DNASE2	1777	genome.wustl.edu	37	19	12989513	12989513	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001375.2	-1	reviewed	p.S161Y	1.000	108	0%	179	21.8%	20	10%	probably_damaging(0.998)	deleterious(0)	deleterious(0.919)	HMMPfam_DNase_II
GCDH	2639	genome.wustl.edu	37	19	13010538	13010538	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_013976.2	+1	reviewed	p.R423I	0.000	307	0%	277	26.4%	28	3.5%	unknown(0)	-	-	NULL
DAND5	199699	genome.wustl.edu	37	19	13080765	13080765	+	Silent	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_152654.2	+1	reviewed	p.I97	0.001	161	0%	235	11.5%	0	-	-	-	-	HMMPfam_DAN
NFIX	4784	genome.wustl.edu	37	19	13192584	13192584	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_002501.2	+1	validated	p.R390H	1.000	99	0%	146	28.1%	13	0%	probably_damaging(1)	deleterious(0.01)	deleterious(0.905)	HMMPfam_CTF_NFI
NFIX	4784	genome.wustl.edu	37	19	13201172	13201172	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	ENST00000438869	+1	known	p.G496S	1.000	86	0%	201	24.4%	15	0%	benign(0.012)	deleterious(0.03)	neutral(0.365)	HMMPfam_CTF_NFI
TRMT1	55621	genome.wustl.edu	37	19	13220196	13220196	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001136035.2	-1	validated	p.R466W	0.999	128	0.8%	220	30%	63	36.5%	probably_damaging(1)	deleterious(0)	deleterious(0.945)	HMMPfam_TRM
CACNA1A	773	genome.wustl.edu	37	19	13410000	13410000	+	Missense_Mutation	SNP	T	T	G	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001127222.1	-1	reviewed	p.K816T	1.000	49	0%	82	17.1%	0	-	probably_damaging(0.99)	deleterious(0.01)	deleterious(0.847)	NULL
DCAF15	90379	genome.wustl.edu	37	19	14065241	14065241	+	Silent	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_138353.2	+1	provisional	p.L74	0.996	65	1.5%	107	29.9%	9	0%	-	-	-	NULL
RFX1	5989	genome.wustl.edu	37	19	14104520	14104520	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_002918.4	-1	validated	p.A46T	0.003	16	0%	55	29.1%	0	-	unknown(0)	-	-	NULL
IL27RA	9466	genome.wustl.edu	37	19	14159820	14159820	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_004843.2	+1	reviewed	p.R390Q	0.000	341	0%	370	13%	5	0%	probably_damaging(0.999)	tolerated(0.15)	deleterious(0.732)	HMMPfam_fn3,HMMSmart_SM00060,superfamily_Fibronectin type III
IL27RA	9466	genome.wustl.edu	37	19	14162439	14162439	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_004843.2	+1	reviewed	p.V517I	0.578	300	0%	358	20.4%	5	0%	benign(0.004)	tolerated(0.81)	neutral(0.001)	NULL
IL27RA	9466	genome.wustl.edu	37	19	14162976	14162976	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_004843.2	+1	reviewed	p.P595	0.000	39	0%	72	27.8%	5	0%	-	-	-	NULL
LPHN1	22859	genome.wustl.edu	37	19	14263331	14263331	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001008701.2	-1	reviewed	p.R1178Q	1.000	142	0%	226	24.3%	7	0%	benign(0.383)	tolerated(0.64)	neutral(0.126)	HMMPfam_Latrophilin
LPHN1	22859	genome.wustl.edu	37	19	14266216	14266216	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001008701.2	-1	reviewed	p.F1088	1.000	100	0%	185	26.5%	14	14.2%	-	-	-	HMMPfam_7tm_2
LPHN1	22859	genome.wustl.edu	37	19	14267834	14267834	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001008701.2	-1	reviewed	p.R962C	1.000	71	0%	120	14.2%	6	0%	probably_damaging(0.991)	deleterious(0)	deleterious(0.889)	HMMPfam_7tm_2
LPHN1	22859	genome.wustl.edu	37	19	14268080	14268080	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001008701.2	-1	reviewed	p.D915N	0.991	130	0%	222	11.3%	7	0%	benign(0.146)	tolerated(1)	neutral(0.013)	HMMPfam_7tm_2
LPHN1	22859	genome.wustl.edu	37	19	14268241	14268241	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001008701.2	-1	reviewed	p.S861L	0.753	70	0%	155	30.3%	5	0%	benign(0.327)	tolerated(0.23)	neutral(0.144)	HMMPfam_7tm_2
LPHN1	22859	genome.wustl.edu	37	19	14270549	14270549	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001008701.2	-1	reviewed	p.K618E	1.000	140	0%	218	10.1%	1	0%	benign(0.065)	tolerated(0.09)	neutral(0.301)	NULL
CD97	976	genome.wustl.edu	37	19	14508876	14508876	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_078481.2	+1	reviewed	p.T274	0.000	198	0%	201	20.4%	45	2.2%	-	-	-	NULL
CD97	976	genome.wustl.edu	37	19	14512316	14512316	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_078481.2	+1	reviewed	p.R339M	0.103	84	0%	106	33%	69	0%	probably_damaging(1)	deleterious(0.01)	deleterious(0.905)	NULL
CD97	976	genome.wustl.edu	37	19	14513450	14513450	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_078481.2	+1	reviewed	p.T409A	0.000	180	0%	227	11.5%	131	0.7%	benign(0.271)	tolerated(0.06)	neutral(0.352)	NULL
CD97	976	genome.wustl.edu	37	19	14515276	14515276	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_078481.2	+1	reviewed	p.E511K	0.000	13	0%	29	34.5%	102	0%	benign(0.004)	tolerated(0.86)	neutral(0.001)	HMMPfam_GPS,HMMSmart_SM00303
CD97	976	genome.wustl.edu	37	19	14516598	14516598	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_078481.2	+1	reviewed	p.A556	0.000	53	1.9%	105	27.6%	128	1.5%	-	-	-	HMMPfam_7tm_2,superfamily_Family A G protein-coupled receptor-like
DNAJB1	3337	genome.wustl.edu	37	19	14627348	14627348	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_006145.1	-1	provisional	p.D241G	1.000	194	0%	310	22.9%	111	39.6%	possibly_damaging(0.909)	deleterious(0.02)	deleterious(0.745)	HMMPfam_DnaJ_C,superfamily_HSP40/DnaJ peptide-binding domain
TECR	9524	genome.wustl.edu	37	19	14673364	14673364	+	Nonsense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_138501.4	+1	validated	p.E15*	1.000	237	0%	333	25.2%	61	18%	-	-	-	NULL
ZNF333	84449	genome.wustl.edu	37	19	14829396	14829396	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_032433.2	+1	validated	p.E419D	1.000	96	0%	59	15.3%	3	0%	possibly_damaging(0.911)	deleterious(0.02)	deleterious(0.746)	superfamily_SSF57667
ZNF333	84449	genome.wustl.edu	37	19	14829567	14829567	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_032433.2	+1	validated	p.K476	1.000	163	0%	66	22.7%	1	0%	-	-	-	superfamily_SSF57667
ENSG00000233422	0	genome.wustl.edu	37	19	14857165	14857165	+	RNA	SNP	T	T	C	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	ENST00000430444	+1	known	NULL	0.000	212	0%	71	14.1%	0	-	-	-	-	-
OR7A5	26659	genome.wustl.edu	37	19	14938561	14938561	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_017506.1	-1	validated	p.R165W	0.000	213	0.5%	91	27.5%	0	-	benign(0.014)	deleterious(0.02)	neutral(0.384)	HMMPfam_7tm_1,superfamily_Family A G protein-coupled receptor-like
OR7A5	26659	genome.wustl.edu	37	19	14938634	14938634	+	Silent	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_017506.1	-1	validated	p.L140	0.954	232	0%	93	10.8%	0	-	-	-	-	HMMPfam_7tm_1,superfamily_Family A G protein-coupled receptor-like
OR7C2	26658	genome.wustl.edu	37	19	15052333	15052333	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_012377.1	+1	provisional	p.N11	0.000	89	0%	61	31.1%	0	-	-	-	-	superfamily_SSF81321
OR7C2	26658	genome.wustl.edu	37	19	15052508	15052508	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_012377.1	+1	provisional	p.D70N	0.953	183	0%	128	14.1%	0	-	probably_damaging(0.999)	deleterious(0)	deleterious(0.935)	HMMPfam_7tm_1,superfamily_SSF81321
CCDC105	126402	genome.wustl.edu	37	19	15132676	15132676	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_173482.2	+1	validated	p.R399H	0.996	38	0%	87	13.8%	0	-	probably_damaging(0.999)	deleterious(0.02)	deleterious(0.873)	NULL
OR1I1	126370	genome.wustl.edu	37	19	15197912	15197912	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001004713.1	+1	provisional	p.F12	0.651	345	0%	152	27.6%	0	-	-	-	-	superfamily_SSF81321
ILVBL	10994	genome.wustl.edu	37	19	15226420	15226420	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_006844.3	-1	reviewed	p.V559	1.000	45	0%	71	22.5%	52	3.8%	-	-	-	HMMPfam_TPP_enzyme_C,superfamily_Thiamin diphosphate-binding fold (THDP-binding)
NOTCH3	4854	genome.wustl.edu	37	19	15272374	15272374	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_000435.2	-1	reviewed	p.R2022H	1.000	17	0%	40	30%	20	5%	probably_damaging(0.994)	deleterious(0.04)	deleterious(0.801)	superfamily_Ankyrin repeat
NOTCH3	4854	genome.wustl.edu	37	19	15281250	15281250	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_000435.2	-1	reviewed	p.R1669H	1.000	28	0%	47	21.3%	15	6.6%	probably_damaging(1)	deleterious(0.05)	deleterious(0.845)	NULL
NOTCH3	4854	genome.wustl.edu	37	19	15292526	15292526	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_000435.2	-1	reviewed	p.A885T	0.832	24	0%	48	20.8%	6	0%	benign(0.198)	deleterious(0.02)	neutral(0.402)	HMMSmart_SM00179,HMMSmart_SM00181,superfamily_EGF/Laminin
NOTCH3	4854	genome.wustl.edu	37	19	15297788	15297788	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_000435.2	-1	reviewed	p.E618K	1.000	47	0%	75	28%	6	16.6%	probably_damaging(0.999)	deleterious(0.01)	deleterious(0.896)	HMMSmart_SM00179,HMMSmart_SM00181,superfamily_EGF/Laminin
NOTCH3	4854	genome.wustl.edu	37	19	15299139	15299139	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_000435.2	-1	reviewed	p.E467K	1.000	66	0%	101	26.7%	4	0%	probably_damaging(0.999)	deleterious(0.01)	deleterious(0.896)	HMMSmart_SM00179,HMMSmart_SM00181,superfamily_EGF/Laminin
NOTCH3	4854	genome.wustl.edu	37	19	15302627	15302627	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_000435.2	-1	reviewed	p.R244Q	0.698	108	0%	174	19.5%	2	0%	possibly_damaging(0.867)	tolerated(0.6)	neutral(0.341)	HMMSmart_SM00179,HMMPfam_EGF,HMMSmart_SM00181,PatternScan_EGF_CA,superfamily_EGF/Laminin
EPHX3	79852	genome.wustl.edu	37	19	15342660	15342660	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001142886.1	-1	validated	p.R86C	1.000	54	0%	75	30.7%	1	0%	probably_damaging(0.999)	deleterious(0)	deleterious(0.935)	superfamily_alpha/beta-Hydrolases
AKAP8	10270	genome.wustl.edu	37	19	15471758	15471758	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_005858.2	-1	reviewed	p.I476	0.244	66	0%	79	27.8%	7	28.5%	-	-	-	HMMPfam_AKAP95
AKAP8	10270	genome.wustl.edu	37	19	15484043	15484043	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_005858.2	-1	reviewed	p.S160	0.420	32	0%	44	25%	2	0%	-	-	-	NULL
WIZ	58525	genome.wustl.edu	37	19	15547879	15547879	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_021241.2	-1	validated	p.F89	0.790	54	1.9%	100	33%	3	0%	-	-	-	HMMPfam_zf-C2H2,PatternScan_ZINC_FINGER_C2H2_1,HMMSmart_ZnF_C2H2
RASAL3	64926	genome.wustl.edu	37	19	15565331	15565331	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_022904.1	-1	validated	p.F667	1.000	107	0%	194	28.4%	14	0%	-	-	-	HMMSmart_SM00323,superfamily_GTPase activation domain GAP
RASAL3	64926	genome.wustl.edu	37	19	15569390	15569390	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_022904.1	-1	validated	p.R247W	0.194	104	0%	164	20.1%	2	0%	probably_damaging(0.997)	tolerated(0.18)	deleterious(0.522)	superfamily_PH domain-like
PGLYRP2	114770	genome.wustl.edu	37	19	15582774	15582774	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_052890.3	-1	validated	p.R424C	0.000	49	0%	92	21.7%	0	-	possibly_damaging(0.771)	deleterious(0.03)	deleterious(0.651)	HMMPfam_Amidase_2,HMMSmart_SM00644,superfamily_N-acetylmuramoyl-L-alanine amidase-like,HMMSmart_SM00701
CYP4F12	66002	genome.wustl.edu	37	19	15794482	15794482	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_023944.2	+1	reviewed	p.R276H	0.127	144	0%	80	26.3%	0	-	benign(0.015)	tolerated(0.13)	neutral(0.253)	HMMPfam_p450,superfamily_Cytochrome P450
OR10H3	26532	genome.wustl.edu	37	19	15852279	15852279	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_013938.1	+1	provisional	p.P26H	0.001	479	0%	265	15.5%	0	-	probably_damaging(0.971)	tolerated(0.56)	neutral(0.419)	superfamily_SSF81321
OR10H3	26532	genome.wustl.edu	37	19	15852444	15852444	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_013938.1	+1	provisional	p.R81H	0.002	760	0%	368	24.5%	0	-	possibly_damaging(0.89)	deleterious(0.03)	deleterious(0.714)	HMMPfam_7tm_1,superfamily_SSF81321
ENSG00000225607	0	genome.wustl.edu	37	19	15885137	15885137	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	ENST00000412610	-1	known	p.A70	0.300	74	0%	40	12.5%	0	-	-	-	-	superfamily_Cytochrome P450
OR10H5	284433	genome.wustl.edu	37	19	15905524	15905524	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001004466.1	+1	provisional	p.I222	0.001	323	0%	213	22.5%	0	-	-	-	-	HMMPfam_7tm_1,superfamily_SSF81321
OR10H1	26539	genome.wustl.edu	37	19	15918677	15918677	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_013940.2	-1	validated	p.T57	0.131	233	0.4%	253	24.5%	0	-	-	-	-	HMMPfam_7tm_1,superfamily_SSF81321
CYP4F2	8529	genome.wustl.edu	37	19	15989638	15989638	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001082.3	-1	reviewed	p.P502	0.989	68	0%	119	13.4%	0	-	-	-	-	HMMPfam_p450,superfamily_Cytochrome_P450
CYP4F2	8529	genome.wustl.edu	37	19	15989716	15989716	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001082.3	-1	reviewed	p.A476	0.185	76	0%	124	31.5%	0	-	-	-	-	HMMPfam_p450,superfamily_Cytochrome_P450
CYP4F2	8529	genome.wustl.edu	37	19	16008282	16008282	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001082.3	-1	reviewed	p.R47H	0.002	167	0%	243	12.3%	0	-	benign(0.039)	tolerated(0.17)	neutral(0.061)	NULL
CYP4F11	57834	genome.wustl.edu	37	19	16024573	16024573	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001128932.1	-1	reviewed	p.R515Q	1.000	94	0%	137	27%	5	40%	possibly_damaging(0.881)	tolerated(0.35)	neutral(0.364)	HMMPfam_p450,superfamily_Cytochrome P450
OR10H4	126541	genome.wustl.edu	37	19	16059887	16059887	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001004465.1	+1	validated	p.L24I	0.000	483	0%	242	12%	0	-	possibly_damaging(0.501)	tolerated(0.16)	neutral(0.227)	superfamily_SSF81321
OR10H4	126541	genome.wustl.edu	37	19	16060494	16060494	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001004465.1	+1	validated	p.A226V	0.000	308	0%	95	13.7%	0	-	possibly_damaging(0.705)	tolerated(0.05)	deleterious(0.599)	HMMPfam_7tm_1,superfamily_SSF81321
RAB8A	4218	genome.wustl.edu	37	19	16238876	16238876	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_005370.4	+1	validated	p.A152V	1.000	76	0%	147	14.3%	36	13.8%	probably_damaging(1)	deleterious(0)	deleterious(0.945)	HMMSmart_SM00176,HMMSmart_SM00173,HMMSmart_SM00174,HMMSmart_SM00175,HMMSmart_SM00177,HMMPfam_Ras,superfamily_P-loop containing nucleoside triphosphate hydrolases
RAB8A	4218	genome.wustl.edu	37	19	16240376	16240376	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_005370.4	+1	validated	p.L165F	1.000	113	0%	148	26.4%	27	33.3%	probably_damaging(0.989)	deleterious(0)	deleterious(0.884)	HMMSmart_SM00176,HMMSmart_SM00173,HMMSmart_SM00174,HMMSmart_SM00175,HMMSmart_SM00177,HMMPfam_Ras,superfamily_P-loop containing nucleoside triphosphate hydrolases
EPS15L1	58513	genome.wustl.edu	37	19	16539570	16539570	+	Silent	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_021235.1	-1	provisional	p.V167	1.000	79	0%	52	32.7%	3	0%	-	-	-	HMMSmart_EH,HMMSmart_EFh,HMMPfam_efhand,superfamily_SSF47473
EPS15L1	58513	genome.wustl.edu	37	19	16548590	16548590	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_021235.1	-1	provisional	p.P100	0.003	205	0.5%	133	17.3%	1	0%	-	-	-	HMMSmart_EH,superfamily_SSF47473
TMEM38A	79041	genome.wustl.edu	37	19	16791335	16791335	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_024074.1	+1	provisional	p.A137T	1.000	174	0%	99	24.2%	1	100%	probably_damaging(1)	deleterious(0)	deleterious(0.945)	HMMPfam_DUF714
NWD1	284434	genome.wustl.edu	37	19	16874684	16874684	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001007525.2	+1	validated	p.R592W	0.349	69	0%	48	12.5%	0	-	probably_damaging(1)	deleterious(0)	deleterious(0.945)	NULL
NWD1	284434	genome.wustl.edu	37	19	16902329	16902329	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001007525.2	+1	validated	p.K902E	0.000	163	0%	84	20.2%	0	-	benign(0.011)	tolerated(0.07)	neutral(0.320)	HMMSmart_SM00320,superfamily_WD40 repeat-like
NWD1	284434	genome.wustl.edu	37	19	16918932	16918932	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001007525.2	+1	validated	p.F1289	0.021	74	0%	53	34%	0	-	-	-	-	HMMSmart_SM00320,superfamily_WD40 repeat-like
CPAMD8	27151	genome.wustl.edu	37	19	17015129	17015129	+	Silent	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	ENST00000443236	-1	known	p.P1444H	1.000	52	0%	56	26.8%	0	-	-	-	-	superfamily_Terpenoid cyclases/Protein prenyltransferases,HMMPfam_A2M_comp
CPAMD8	27151	genome.wustl.edu	37	19	17036051	17036051	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_015692.2	-1	validated	p.L1215I	1.000	188	0%	161	18.6%	1	0%	probably_damaging(0.978)	tolerated(0.44)	neutral(0.433)	superfamily_Terpenoid cyclases/Protein prenyltransferases
CPAMD8	27151	genome.wustl.edu	37	19	17057909	17057909	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	ENST00000443236	-1	known	p.A937V	0.139	63	0%	32	21.9%	0	-	-	-	-	NULL
CPAMD8	27151	genome.wustl.edu	37	19	17113107	17113107	+	Nonsense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	ENST00000443236	-1	known	p.W300*	0.031	89	0%	52	17.3%	0	-	benign(0.012)	tolerated(0.43)	neutral(0.014)	HMMPfam_A2M_N
HAUS8	93323	genome.wustl.edu	37	19	17170439	17170439	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_033417.1	-1	validated	p.T116	0.025	821	0.1%	445	23.4%	15	46.6%	-	-	-	NULL
MYO9B	4650	genome.wustl.edu	37	19	17212625	17212625	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_004145.3	+1	reviewed	p.S33L	0.998	37	0%	72	11.1%	3	0%	benign(0.045)	tolerated(0.2)	neutral(0.052)	HMMPfam_RA,HMMSmart_RA
MYO9B	4650	genome.wustl.edu	37	19	17212739	17212739	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_004145.3	+1	reviewed	p.S71L	0.042	72	0%	93	24.7%	3	33.3%	benign(0.025)	tolerated(0.57)	neutral(0.007)	HMMPfam_RA,HMMSmart_RA
MYO9B	4650	genome.wustl.edu	37	19	17291736	17291736	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_004145.3	+1	reviewed	p.R740	0.998	76	0%	135	11.1%	3	0%	-	-	-	HMMSmart_MYSc,superfamily_SSF52540
MYO9B	4650	genome.wustl.edu	37	19	17296767	17296767	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_004145.3	+1	reviewed	p.A845V	1.000	194	0%	216	28.2%	11	9%	probably_damaging(0.999)	deleterious(0)	deleterious(0.935)	HMMPfam_Myosin_head,HMMSmart_MYSc,superfamily_SSF52540
MYO9B	4650	genome.wustl.edu	37	19	17309109	17309109	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_004145.3	+1	reviewed	p.V1410	0.074	72	0%	136	30.1%	7	28.5%	-	-	-	NULL
NR2F6	2063	genome.wustl.edu	37	19	17343253	17343253	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_005234.3	-1	validated	p.R375C	1.000	80	0%	131	24.4%	58	44.8%	probably_damaging(1)	deleterious(0)	deleterious(0.945)	HMMPfam_Hormone_recep,superfamily_Nuclear receptor ligand-binding domain
USHBP1	83878	genome.wustl.edu	37	19	17369154	17369154	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_031941.3	-1	validated	p.R363W	0.000	72	0%	85	23.5%	2	0%	benign(0.003)	deleterious(0.05)	neutral(0.345)	HMMPfam_MCC-bdg_PDZ
USHBP1	83878	genome.wustl.edu	37	19	17373654	17373654	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_031941.3	-1	validated	p.D117N	0.139	107	0%	98	18.4%	6	0%	probably_damaging(0.959)	tolerated(0.36)	neutral(0.423)	NULL
FAM129C	199786	genome.wustl.edu	37	19	17654395	17654395	+	Silent	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_173544.4	+1	validated	p.I534	0.150	215	0%	281	26.3%	1	0%	-	-	-	NULL
UNC13A	23025	genome.wustl.edu	37	19	17735752	17735752	+	Silent	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001080421.2	-1	validated	p.L1449	0.997	118	0%	127	34.6%	0	-	-	-	-	HMMPfam_Membr_traf_MHD
UNC13A	23025	genome.wustl.edu	37	19	17741005	17741005	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001080421.2	-1	validated	p.L1294	0.916	201	0%	209	23%	0	-	-	-	-	NULL
UNC13A	23025	genome.wustl.edu	37	19	17756634	17756634	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001080421.2	-1	validated	p.S823	0.384	124	0%	212	33%	0	-	-	-	-	HMMPfam_C2,HMMSmart_SM00239,superfamily_C2 domain (Calcium/lipid-binding domain CaLB)
UNC13A	23025	genome.wustl.edu	37	19	17759267	17759267	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001080421.2	-1	validated	p.D685N	1.000	74	0%	167	27.5%	0	-	possibly_damaging(0.857)	deleterious(0.05)	deleterious(0.676)	HMMPfam_C1_1,HMMSmart_SM00109,PatternScan_ZF_DAG_PE_1,superfamily_Cysteine-rich domain
UNC13A	23025	genome.wustl.edu	37	19	17777485	17777485	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001080421.2	-1	validated	p.P254H	1.000	245	0%	211	10.9%	0	-	probably_damaging(0.955)	deleterious(0)	deleterious(0.843)	NULL
FCHO1	23149	genome.wustl.edu	37	19	17885871	17885871	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_015122.2	+1	validated	p.F309L	0.754	110	0%	153	19.6%	2	0%	benign(0)	tolerated(0.31)	neutral(0.027)	NULL
JAK3	3718	genome.wustl.edu	37	19	17950325	17950325	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_000215.3	-1	reviewed	p.A468T	0.000	56	0%	85	20%	0	-	benign(0)	tolerated(0.66)	neutral(0.003)	superfamily_SH2 domain
SLC5A5	6528	genome.wustl.edu	37	19	17999153	17999153	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_000453.2	+1	reviewed	p.A514T	0.000	94	0%	91	24.2%	0	-	benign(0)	tolerated(0.75)	neutral(0.002)	NULL
KCNN1	3780	genome.wustl.edu	37	19	18085918	18085918	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_002248.3	+1	reviewed	p.F140	0.883	146	0%	283	24.4%	0	-	-	-	-	HMMPfam_SK_channel
IL12RB1	3594	genome.wustl.edu	37	19	18179307	18179307	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_005535.1	-1	reviewed	p.A407T	0.004	169	0%	121	25.6%	0	-	benign(0.056)	tolerated(0.99)	neutral(0.004)	NULL
MPV17L2	84769	genome.wustl.edu	37	19	18306903	18306903	+	Silent	SNP	T	T	C	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	ENST00000445735	+1	known	p.P130	0.000	51	2%	110	16.4%	44	25%	-	-	-	NULL
PDE4C	5143	genome.wustl.edu	37	19	18343996	18343996	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_000923.3	-1	validated	p.E2D	0.697	21	0%	38	18.4%	0	-	possibly_damaging(0.649)	deleterious(0)	deleterious(0.672)	NULL
KIAA1683	80726	genome.wustl.edu	37	19	18375334	18375334	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001145304.1	-1	validated	p.R1006W	0.009	47	0%	73	26%	0	-	probably_damaging(0.985)	deleterious(0.01)	deleterious(0.838)	NULL
LSM4	25804	genome.wustl.edu	37	19	18423462	18423462	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_012321.3	-1	validated	p.C32	0.909	328	0.3%	458	25.5%	56	32.1%	-	-	-	HMMPfam_LSM,HMMSmart_SM00651,superfamily_Sm-like ribonucleoproteins
CRLF1	9244	genome.wustl.edu	37	19	18707483	18707483	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_004750.4	-1	reviewed	p.G325R	0.998	30	0%	68	17.6%	1	0%	probably_damaging(1)	deleterious(0.01)	deleterious(0.905)	superfamily_FN_III-like
KLHL26	55295	genome.wustl.edu	37	19	18779747	18779747	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_018316.1	+1	provisional	p.G514R	0.993	7	0.000	24	0.333	6	0%	probably_damaging(1)	deleterious(0)	deleterious(0.945)	HMMPfam_Kelch_1,HMMSmart_Kelch,superfamily_Gal_oxid_central
CRTC1	23373	genome.wustl.edu	37	19	18882347	18882347	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001098482.1	+1	validated	p.S488	1.000	85	0%	121	31.4%	7	0%	-	-	-	NULL
COMP	1311	genome.wustl.edu	37	19	18895137	18895137	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_000095.2	-1	reviewed	p.R651W	0.993	58	0%	126	14.3%	5	0%	probably_damaging(1)	deleterious(0)	deleterious(0.945)	HMMPfam_TSP_C,superfamily_ConA_like_lec_gl
ARMC6	93436	genome.wustl.edu	37	19	19162918	19162918	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_033415.2	+1	reviewed	p.R231H	0.998	27	0%	38	18.4%	19	0%	probably_damaging(0.998)	deleterious(0.01)	deleterious(0.880)	superfamily_ARM repeat
ARMC6	93436	genome.wustl.edu	37	19	19166122	19166122	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_033415.2	+1	reviewed	p.D333N	1.000	64	0%	113	10.6%	22	18.1%	probably_damaging(1)	deleterious(0)	deleterious(0.945)	HMMPfam_Arm,HMMSmart_SM00185,superfamily_ARM repeat
HAPLN4	404037	genome.wustl.edu	37	19	19371676	19371676	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_023002.2	-1	validated	p.E144K	1.000	40	0%	59	30.5%	1	0%	probably_damaging(0.998)	deleterious(0)	deleterious(0.919)	HMMSmart_SM00406,HMMSmart_SM00408,HMMSmart_SM00409,HMMPfam_V-set,superfamily_Immunoglobulin
TM6SF2	53345	genome.wustl.edu	37	19	19379447	19379447	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001001524.2	-1	validated	p.A201T	0.000	117	0%	207	33.8%	2	0%	benign(0)	tolerated(0.12)	neutral(0.261)	NULL
SUGP1	57794	genome.wustl.edu	37	19	19390045	19390045	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_172231.2	-1	validated	p.R502H	1.000	47	0%	78	29.5%	35	22.8%	probably_damaging(0.988)	deleterious(0.04)	deleterious(0.786)	NULL
MAU2	23383	genome.wustl.edu	37	19	19431879	19431879	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_015329.3	+1	validated	p.L71M	1.000	26	0%	58	15.5%	1	0%	possibly_damaging(0.787)	tolerated(0.3)	neutral(0.323)	HMMPfam_Cohesin_load
GATAD2A	54815	genome.wustl.edu	37	19	19616154	19616154	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	ENST00000418032	+1	known	p.R193W	0.053	24	4.2%	72	33.3%	13	30.7%	-	-	-	NULL
ATP13A1	57130	genome.wustl.edu	37	19	19757091	19757091	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_020410.2	-1	validated	p.T1057	0.923	383	0%	551	24%	81	18.5%	-	-	-	NULL
ZNF14	7561	genome.wustl.edu	37	19	19822451	19822451	+	Nonsense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_021030.2	-1	reviewed	p.R547*	0.001	168	0%	53	18.9%	2	50%	-	-	-	HMMPfam_zf-C2H2,PatternScan_ZINC_FINGER_C2H2_1,HMMSmart_ZnF_C2H2,superfamily_SSF57667
ZNF14	7561	genome.wustl.edu	37	19	19824904	19824904	+	Nonsense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_021030.2	-1	reviewed	p.R63*	0.000	615	0%	221	27.1%	1	0%	-	-	-	HMMSmart_KRAB
ZNF253	56242	genome.wustl.edu	37	19	20003028	20003028	+	Nonsense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_021047.2	+1	provisional	p.C324*	0.000	132	0%	51	39.2%	4	0%	-	-	-	HMMPfam_zf-C2H2,PatternScan_ZINC_FINGER_C2H2_1,HMMSmart_SM00355,superfamily_C2H2 and C2HC zinc fingers
ZNF90	7643	genome.wustl.edu	37	19	20230158	20230158	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_007138.1	+1	validated	p.A599T	1.000	67	0%	52	25%	0	-	possibly_damaging(0.602)	tolerated(0.11)	deleterious(0.480)	NULL
ENSG00000213985	0	genome.wustl.edu	37	19	20370087	20370087	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	ENST00000397155	+1	known	p.R350C	1.000	256	0%	166	12%	0	-	-	-	-	HMMPfam_Actin,HMMSmart_ACTIN,superfamily_SSF53067
ZNF737	100129842	genome.wustl.edu	37	19	20727800	20727800	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	XM_002343624.1	-1	model	p.G403	0.998	288	0.3%	126	23.8%	5	20%	-	-	-	HMMPfam_zf-C2H2,PatternScan_ZINC_FINGER_C2H2_1,HMMSmart_SM00355,superfamily_C2H2 and C2HC zinc fingers
ZNF626	199777	genome.wustl.edu	37	19	20807843	20807843	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001076675.2	-1	validated	p.T280	0.997	131	0%	62	22.6%	1	100%	-	-	-	superfamily_C2H2 and C2HC zinc fingers
ZNF66P	7617	genome.wustl.edu	37	19	20988898	20988898	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	ENST00000425625	+1	known	p.K210N	0.008	90	0%	48	29.2%	0	-	-	-	-	HMMSmart_SM00355,superfamily_C2H2 and C2HC zinc fingers
ZNF66P	7617	genome.wustl.edu	37	19	20989103	20989103	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	ENST00000425625	+1	known	p.D279Y	0.129	68	0%	37	10.8%	0	-	-	-	-	HMMPfam_zf-C2H2,PatternScan_ZINC_FINGER_C2H2_1,HMMSmart_SM00355,superfamily_C2H2 and C2HC zinc fingers
ZNF430	80264	genome.wustl.edu	37	19	21216292	21216292	+	Nonsense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_025189.3	+1	validated	p.E43*	0.124	552	0%	182	18.1%	1	0%	-	-	-	HMMPfam_KRAB,HMMSmart_SM00349,superfamily_KRAB domain (Kruppel-associated box Pfam 01352)
ZNF708	7562	genome.wustl.edu	37	19	21477462	21477462	+	Silent	SNP	T	T	C	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_021269.2	-1	validated	p.R102	0.002	194	0%	65	26.2%	0	-	-	-	-	NULL
ZNF493	284443	genome.wustl.edu	37	19	21606034	21606034	+	Missense_Mutation	SNP	T	T	G	rs190608187	by1000genomes	TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001076678.2	+1	validated	p.F191L	0.000	134	0%	49	12.2%	0	-	probably_damaging(0.998)	deleterious(0.02)	deleterious(0.857)	HMMPfam_zf-C2H2,PatternScan_ZINC_FINGER_C2H2_1,HMMSmart_SM00355,superfamily_C2H2 and C2HC zinc fingers
ZNF493	284443	genome.wustl.edu	37	19	21607198	21607198	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001076678.2	+1	validated	p.G579	0.995	108	0%	38	26.3%	0	-	-	-	-	HMMPfam_zf-C2H2,PatternScan_ZINC_FINGER_C2H2_1,HMMSmart_SM00355,superfamily_C2H2 and C2HC zinc fingers
ZNF429	353088	genome.wustl.edu	37	19	21719787	21719787	+	Missense_Mutation	SNP	A	A	C	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001001415.2	+1	provisional	p.K311T	1.000	44	0%	33	21.2%	3	0%	probably_damaging(0.998)	deleterious(0)	deleterious(0.919)	superfamily_SSF57667
ZNF100	163227	genome.wustl.edu	37	19	21910043	21910043	+	Silent	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_173531.3	-1	validated	p.S357	0.000	80	0%	67	35.8%	0	-	-	-	-	HMMPfam_zf-C2H2,PatternScan_ZINC_FINGER_C2H2_1,HMMSmart_SM00355,superfamily_C2H2 and C2HC zinc fingers
ZNF43	7594	genome.wustl.edu	37	19	21991682	21991682	+	Missense_Mutation	SNP	G	G	A	rs193182605	by1000genomes	TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_003423.2	-1	validated	p.T386I	0.000	161	0%	49	24.5%	1	0%	probably_damaging(0.991)	tolerated(0.6)	neutral(0.449)	HMMPfam_zf-C2H2,PatternScan_ZINC_FINGER_C2H2_1,HMMSmart_SM00355,superfamily_C2H2 and C2HC zinc fingers
ZNF208	7757	genome.wustl.edu	37	19	22157283	22157283	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_007153.3	-1	provisional	p.L185F	0.000	402	0%	94	11.7%	0	-	benign(0.012)	tolerated(0.73)	neutral(0.002)	NULL
ZNF257	113835	genome.wustl.edu	37	19	22270977	22270977	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_033468.2	+1	provisional	p.S142N	0.005	379	0%	139	23%	0	-	benign(0.003)	tolerated(0.12)	neutral(0.261)	superfamily_C2H2 and C2HC zinc fingers
ZNF676	163223	genome.wustl.edu	37	19	22363402	22363402	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001001411.2	-1	provisional	p.A373T	0.257	225	0%	70	27.1%	0	-	benign(0.056)	tolerated(0.14)	neutral(0.253)	HMMPfam_zf-C2H2,PatternScan_ZINC_FINGER_C2H2_1,HMMSmart_ZnF_C2H2,superfamily_SSF57667
ZNF676	163223	genome.wustl.edu	37	19	22363727	22363727	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001001411.2	-1	provisional	p.S264	0.000	279	0%	61	24.6%	0	-	-	-	-	HMMPfam_zf-C2H2,PatternScan_ZINC_FINGER_C2H2_1,HMMSmart_ZnF_C2H2,superfamily_SSF57667
LOC100130518	100130518	genome.wustl.edu	37	19	22486590	22486590	+	Nonsense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	XM_001719773.2	+1	model	p.E49*	0.226	426	0%	123	10.6%	0	-	-	-	-	HMMPfam_KRAB,HMMSmart_SM00349,superfamily_KRAB domain (Kruppel-associated box Pfam 01352)
LOC100287226	100287226	genome.wustl.edu	37	19	22496986	22496986	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	XM_002343636.1	+1	model	p.R123I	0.018	32	0%	38	23.7%	0	-	possibly_damaging(0.592)	tolerated(0.17)	neutral(0.263)	HMMSmart_SM00355,superfamily_C2H2 and C2HC zinc fingers
LOC100287226	100287226	genome.wustl.edu	37	19	22497966	22497966	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	XM_002343636.1	+1	model	p.H450Y	0.000	48	2.1%	37	13.5%	0	-	benign(0.301)	tolerated(1)	neutral(0.093)	HMMPfam_zf-C2H2,PatternScan_ZINC_FINGER_C2H2_1,HMMSmart_SM00355,superfamily_C2H2 and C2HC zinc fingers
ZNF98	148198	genome.wustl.edu	37	19	22575371	22575371	+	Silent	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001098626.1	-1	validated	p.A222	0.000	319	0.3%	79	30.4%	0	-	-	-	-	HMMPfam_zf-C2H2,PatternScan_ZINC_FINGER_C2H2_1,HMMSmart_SM00355,superfamily_C2H2 and C2HC zinc fingers
LOC440518	440518	genome.wustl.edu	37	19	22780175	22780175	+	RNA	SNP	T	T	G	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	XR_041921.2	+1	model	NULL	0.894	21	0%	34	47.1%	0	-	-	-	-	-
ENSG00000221790	0	genome.wustl.edu	37	19	22785581	22785581	+	RNA	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	ENST00000408863	+1	novel	NULL	0.015	23	0%	43	27.9%	1	0%	-	-	-	-
ZNF99	7652	genome.wustl.edu	37	19	22941329	22941329	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001080409.1	-1	provisional	p.A370V	0.035	450	0%	168	23.8%	0	-	probably_damaging(1)	tolerated(0.06)	deleterious(0.823)	HMMPfam_zf-C2H2,PatternScan_ZINC_FINGER_C2H2_1,HMMSmart_ZnF_C2H2,superfamily_SSF57667
ZNF99	7652	genome.wustl.edu	37	19	22952031	22952031	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001080409.1	-1	provisional	p.M54I	0.104	381	0%	183	19.7%	0	-	possibly_damaging(0.564)	deleterious(0.04)	deleterious(0.541)	HMMPfam_KRAB,HMMSmart_KRAB,superfamily_Krueppel-associated_box
LOC646864	646864	genome.wustl.edu	37	19	23032058	23032058	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	XM_001726885.1	+1	model	p.W92C	0.988	438	0%	115	13%	0	-	-	-	-	HMMSmart_SM00349
LOC646864	646864	genome.wustl.edu	37	19	23040139	23040139	+	Missense_Mutation	SNP	A	A	C	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	XM_001726885.1	+1	model	p.K178T	0.017	126	0%	77	20.8%	0	-	-	-	-	superfamily_C2H2 and C2HC zinc fingers
LOC646864	646864	genome.wustl.edu	37	19	23040275	23040275	+	Missense_Mutation	SNP	T	T	G	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	XM_001726885.1	+1	model	p.N223K	0.153	134	0%	105	21%	0	-	-	-	-	HMMPfam_zf-C2H2,PatternScan_ZINC_FINGER_C2H2_1,HMMSmart_SM00355,superfamily_C2H2 and C2HC zinc fingers
ZNF724P	440519	genome.wustl.edu	37	19	23405874	23405874	+	Missense_Mutation	SNP	T	T	G	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	ENST00000418100	-1	known	p.E391D	1.000	39	0%	24	33.3%	0	-	probably_damaging(0.971)	deleterious(0)	deleterious(0.857)	superfamily_C2H2 and C2HC zinc fingers
ZNF724P	440519	genome.wustl.edu	37	19	23406664	23406664	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	ENST00000418100	-1	known	p.G128V	0.017	152	0%	69	21.7%	0	-	possibly_damaging(0.7)	tolerated(0.59)	neutral(0.256)	NULL
ZNF91	7644	genome.wustl.edu	37	19	23543171	23543171	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_003430.2	-1	validated	p.T870	0.000	390	0%	367	22.3%	1	100%	-	-	-	HMMPfam_zf-C2H2,PatternScan_ZINC_FINGER_C2H2_1,HMMSmart_SM00355,superfamily_C2H2 and C2HC zinc fingers
ZNF91	7644	genome.wustl.edu	37	19	23543496	23543496	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_003430.2	-1	validated	p.R762K	0.691	186	0%	190	19.5%	1	100%	benign(0.166)	tolerated(0.49)	neutral(0.026)	HMMPfam_zf-C2H2,PatternScan_ZINC_FINGER_C2H2_1,HMMSmart_SM00355,superfamily_C2H2 and C2HC zinc fingers
ZNF91	7644	genome.wustl.edu	37	19	23544791	23544791	+	Silent	SNP	A	A	C	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_003430.2	-1	validated	p.A330	0.000	176	0%	189	26.5%	1	0%	-	-	-	HMMPfam_zf-C2H2,PatternScan_ZINC_FINGER_C2H2_1,HMMSmart_SM00355,superfamily_C2H2 and C2HC zinc fingers
ZNF675	171392	genome.wustl.edu	37	19	23836889	23836889	+	Silent	SNP	T	T	C	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_138330.2	-1	validated	p.K282	1.000	101	0%	71	9.9%	0	-	-	-	-	superfamily_C2H2 and C2HC zinc fingers
ZNF675	171392	genome.wustl.edu	37	19	23845930	23845930	+	Nonsense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_138330.2	-1	validated	p.E12*	0.157	400	0.3%	417	21.1%	1	0%	-	-	-	HMMPfam_KRAB,HMMSmart_SM00349,superfamily_KRAB domain (Kruppel-associated box Pfam 01352)
RPSAP58	388524	genome.wustl.edu	37	19	24010510	24010510	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	ENST00000354585	+1	known	p.L183M	0.999	97	0%	143	12.6%	1114	0%	possibly_damaging(0.852)	deleterious(0)	deleterious(0.772)	HMMPfam_Ribosomal_S2,superfamily_Ribosomal_S2
ZNF726	730087	genome.wustl.edu	37	19	24115978	24115978	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	ENST00000322487	+1	known	p.G354R	0.000	50	0%	62	24.2%	0	-	benign(0.371)	deleterious(0)	deleterious(0.562)	HMMPfam_zf-C2H2,PatternScan_ZINC_FINGER_C2H2_1,HMMSmart_SM00355,superfamily_C2H2 and C2HC zinc fingers
ZNF254	9534	genome.wustl.edu	37	19	24309880	24309880	+	Missense_Mutation	SNP	A	A	C	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_203282.2	+1	validated	p.S360R	0.078	127	0%	46	15.2%	0	-	possibly_damaging(0.866)	tolerated(0.68)	neutral(0.338)	HMMPfam_zf-C2H2,PatternScan_ZINC_FINGER_C2H2_1,HMMSmart_SM00355,superfamily_C2H2 and C2HC zinc fingers
ZNF254	9534	genome.wustl.edu	37	19	24310667	24310667	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_203282.2	+1	validated	p.R622I	1.000	86	0%	34	52.9%	12	16.6%	benign(0)	tolerated(0.52)	neutral(0.009)	HMMPfam_zf-C2H2,PatternScan_ZINC_FINGER_C2H2_1,HMMSmart_SM00355,superfamily_C2H2 and C2HC zinc fingers
POP4	10775	genome.wustl.edu	37	19	30106231	30106231	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_006627.2	+1	reviewed	p.R203W	0.999	210	0%	217	22.1%	47	31.9%	probably_damaging(1)	deleterious(0)	deleterious(0.945)	HMMPfam_UPF0086,HMMSmart_SM00538,superfamily_RNase P subunit p29-like
PLEKHF1	79156	genome.wustl.edu	37	19	30165497	30165497	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_024310.4	+1	validated	p.E251K	0.999	14	0%	39	38.5%	16	6.2%	possibly_damaging(0.658)	deleterious(0.01)	deleterious(0.638)	NULL
C19orf12	83636	genome.wustl.edu	37	19	30199253	30199253	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001031726.2	-1	validated	p.A34V	0.978	93	0%	91	14.3%	0	-	benign(0.109)	tolerated(0.93)	neutral(0.009)	NULL
CCNE1	898	genome.wustl.edu	37	19	30303659	30303659	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001238.1	+1	reviewed	p.R29	1.000	35	0%	80	16.3%	3	100%	-	-	-	NULL
URI1	8725	genome.wustl.edu	37	19	30496615	30496615	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_003796.2	+1	reviewed	p.A173S	1.000	547	0%	172	22.1%	7	0%	benign(0.01)	tolerated(0.28)	neutral(0.032)	NULL
ZNF536	9745	genome.wustl.edu	37	19	30935608	30935608	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_014717.1	+1	provisional	p.R380Q	1.000	34	0%	41	26.8%	0	-	probably_damaging(1)	deleterious(0.01)	deleterious(0.905)	HMMPfam_zf-C2H2,PatternScan_ZINC_FINGER_C2H2_1,HMMSmart_ZnF_C2H2,superfamily_SSF57667
ZNF536	9745	genome.wustl.edu	37	19	30935864	30935864	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_014717.1	+1	provisional	p.A465	0.151	15	0%	27	18.5%	0	-	-	-	-	NULL
ZNF536	9745	genome.wustl.edu	37	19	30936078	30936078	+	Missense_Mutation	SNP	T	T	G	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_014717.1	+1	provisional	p.F537V	1.000	36	0%	64	23.4%	0	-	probably_damaging(0.998)	deleterious(0.02)	deleterious(0.857)	NULL
ZNF507	22847	genome.wustl.edu	37	19	32843926	32843926	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001136156.1	+1	validated	p.L64I	1.000	221	0%	235	11.1%	0	-	probably_damaging(0.98)	tolerated(0.1)	deleterious(0.710)	NULL
ZNF507	22847	genome.wustl.edu	37	19	32844471	32844471	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001136156.1	+1	validated	p.Y245	0.895	208	0%	200	24.5%	0	-	-	-	-	NULL
ZNF507	22847	genome.wustl.edu	37	19	32845105	32845105	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001136156.1	+1	validated	p.G457C	1.000	239	0%	238	26.9%	1	0%	probably_damaging(1)	deleterious(0)	deleterious(0.945)	NULL
ZNF507	22847	genome.wustl.edu	37	19	32845759	32845759	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001136156.1	+1	validated	p.E675K	1.000	206	0%	171	23.4%	2	0%	probably_damaging(1)	deleterious(0.02)	deleterious(0.883)	HMMPfam_zf-C2H2,HMMSmart_SM00355,superfamily_C2H2 and C2HC zinc fingers
DPY19L3	147991	genome.wustl.edu	37	19	32928129	32928129	+	Missense_Mutation	SNP	T	T	G	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_207325.2	+1	validated	p.I160M	0.999	501	0%	124	29%	0	-	probably_damaging(1)	deleterious(0.02)	deleterious(0.883)	HMMPfam_DUF2211
DPY19L3	147991	genome.wustl.edu	37	19	32971404	32971404	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_207325.2	+1	validated	p.E644K	1.000	44	0%	36	19.4%	0	-	probably_damaging(0.953)	tolerated(0.07)	deleterious(0.716)	HMMPfam_DUF2211
ANKRD27	84079	genome.wustl.edu	37	19	33096838	33096838	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_032139.2	-1	validated	p.S799L	0.003	287	0%	364	11.8%	5	20%	benign(0.055)	tolerated(0.53)	neutral(0.011)	HMMPfam_Ank,HMMSmart_ANK,superfamily_ANK
ANKRD27	84079	genome.wustl.edu	37	19	33106622	33106622	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_032139.2	-1	validated	p.A706V	0.000	77	0%	65	29.2%	2	0%	benign(0)	tolerated(0.47)	neutral(0.011)	superfamily_ANK
ANKRD27	84079	genome.wustl.edu	37	19	33117716	33117716	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_032139.2	-1	validated	p.D480N	1.000	99	0%	99	25.3%	3	0%	probably_damaging(0.993)	deleterious(0.03)	deleterious(0.815)	HMMPfam_Ank,HMMSmart_ANK,superfamily_ANK
SLC7A9	11136	genome.wustl.edu	37	19	33333115	33333115	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001126335.1	-1	reviewed	p.V395M	1.000	177	0%	62	24.2%	0	-	probably_damaging(0.977)	tolerated(0.11)	deleterious(0.691)	HMMPfam_AA_permease
RHPN2	85415	genome.wustl.edu	37	19	33481510	33481510	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_033103.4	-1	reviewed	p.T570	0.300	151	0%	60	16.7%	13	46.1%	-	-	-	HMMSmart_PDZ,superfamily_PDZ
RHPN2	85415	genome.wustl.edu	37	19	33486951	33486951	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_033103.4	-1	reviewed	p.I467	0.000	50	0%	27	48.1%	2	0%	-	-	-	HMMPfam_BRO1
CHST8	64377	genome.wustl.edu	37	19	34263468	34263468	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001127895.1	+1	validated	p.E259K	1.000	62	0%	98	23.5%	2	0%	probably_damaging(0.969)	deleterious(0.01)	deleterious(0.817)	HMMPfam_Sulfotransfer_2
SCGB2B2	284402	genome.wustl.edu	37	19	35085231	35085231	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001025591.2	-1	validated	p.A32V	0.058	129	0.8%	97	22.7%	0	-	possibly_damaging(0.507)	-	-	superfamily_Secretoglobin
ZNF599	148103	genome.wustl.edu	37	19	35260356	35260356	+	Silent	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001007248.2	-1	validated	p.T41	0.591	120	0%	184	15.2%	3	0%	-	-	-	HMMPfam_KRAB,HMMSmart_SM00349,superfamily_KRAB domain (Kruppel-associated box Pfam 01352)
ZNF792	126375	genome.wustl.edu	37	19	35449573	35449573	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_175872.4	-1	validated	p.C396R	0.920	125	0%	121	31.4%	2	0%	probably_damaging(1)	deleterious(0)	deleterious(0.945)	HMMPfam_zf-C2H2,PatternScan_ZINC_FINGER_C2H2_1,HMMSmart_SM00355,superfamily_C2H2 and C2HC zinc fingers
ZNF792	126375	genome.wustl.edu	37	19	35451776	35451776	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_175872.4	-1	validated	p.S52	0.140	240	0%	331	22.4%	1	0%	-	-	-	HMMPfam_KRAB,HMMSmart_SM00349,superfamily_KRAB domain (Kruppel-associated box Pfam 01352)
SCN1B	6324	genome.wustl.edu	37	19	35524609	35524609	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_199037.3	+1	reviewed	p.V138	0.652	86	0%	156	27.6%	4	0%	-	-	-	NULL
FAM187B	148109	genome.wustl.edu	37	19	35719110	35719110	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_152481.1	-1	provisional	p.G158	0.314	46	0%	45	13.3%	1	0%	-	-	-	NULL
MAG	4099	genome.wustl.edu	37	19	35800999	35800999	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_002361.2	+1	reviewed	p.R485H	0.994	9	0.000	29	0.448	0	-	benign(0.133)	tolerated(0.21)	neutral(0.055)	superfamily_SSF48726
MAG	4099	genome.wustl.edu	37	19	35801472	35801472	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_002361.2	+1	reviewed	p.I514	0.995	133	0%	251	25.1%	0	-	-	-	-	NULL
CD22	933	genome.wustl.edu	37	19	35837483	35837483	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001771.3	+1	validated	p.N809	0.984	78	0%	119	24.4%	27	0%	-	-	-	NULL
FFAR1	2864	genome.wustl.edu	37	19	35843120	35843120	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_005303.2	+1	reviewed	p.A222	0.244	23	0%	43	30.2%	0	-	-	-	-	HMMPfam_7tm_1,superfamily_SSF81321
FFAR2	2867	genome.wustl.edu	37	19	35941045	35941045	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_005306.2	+1	reviewed	p.I143	0.184	141	0%	135	26.7%	0	-	-	-	-	HMMPfam_7tm_1,superfamily_SSF81321
SBSN	374897	genome.wustl.edu	37	19	36017571	36017571	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_198538.3	-1	validated	p.S195N	1.000	125	0%	147	25.2%	2	50%	possibly_damaging(0.662)	tolerated(0.08)	deleterious(0.534)	NULL
GAPDHS	26330	genome.wustl.edu	37	19	36029510	36029510	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_014364.4	+1	reviewed	p.G125D	1.000	191	0%	223	27.8%	0	-	probably_damaging(0.998)	deleterious(0)	deleterious(0.919)	HMMPfam_Gp_dh_N,superfamily_NAD(P)-bd
GAPDHS	26330	genome.wustl.edu	37	19	36034306	36034306	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_014364.4	+1	reviewed	p.R269Q	1.000	61	0%	106	27.4%	1	0%	probably_damaging(1)	deleterious(0)	deleterious(0.945)	HMMPfam_Gp_dh_C,superfamily_SSF55347
GAPDHS	26330	genome.wustl.edu	37	19	36034357	36034357	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_014364.4	+1	reviewed	p.A286V	1.000	85	0%	163	25.8%	2	50%	probably_damaging(1)	deleterious(0)	deleterious(0.945)	HMMPfam_Gp_dh_C,superfamily_SSF55347
ATP4A	495	genome.wustl.edu	37	19	36046170	36046170	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_000704.2	-1	reviewed	p.G742R	1.000	71	0%	129	28.7%	0	-	probably_damaging(1)	deleterious(0)	deleterious(0.945)	HMMPfam_Hydrolase,superfamily_SSF56784,superfamily_SSF81665
ATP4A	495	genome.wustl.edu	37	19	36051479	36051479	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_000704.2	-1	reviewed	p.I191	1.000	72	0%	161	23.6%	0	-	-	-	-	HMMPfam_E1-E2_ATPase,superfamily_SSF81653,superfamily_SSF81665
ETV2	2116	genome.wustl.edu	37	19	36135164	36135164	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_014209.2	+1	validated	p.L248P	1.000	21	0%	50	20%	4	0%	probably_damaging(0.999)	deleterious(0)	deleterious(0.935)	HMMPfam_Ets,HMMSmart_ETS,PatternScan_ETS_DOMAIN_1,superfamily_SSF46785
ZBTB32	27033	genome.wustl.edu	37	19	36206715	36206715	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_014383.1	+1	provisional	p.S313F	1.000	121	0%	179	26.3%	0	-	possibly_damaging(0.677)	deleterious(0)	deleterious(0.685)	NULL
MLL4	9757	genome.wustl.edu	37	19	36211575	36211575	+	Silent	SNP	A	A	G	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_014727.1	+1	reviewed	p.P442	0.015	34	0%	85	23.5%	0	-	-	-	-	NULL
MLL4	9757	genome.wustl.edu	37	19	36218375	36218375	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_014727.1	+1	reviewed	p.S1385L	0.956	66	0%	112	24.1%	2	50%	possibly_damaging(0.484)	-	-	HMMSmart_SM00249,superfamily_FYVE/PHD zinc finger,PatternScan_ZF_PHD_1,HMMPfam_PHD
MLL4	9757	genome.wustl.edu	37	19	36222878	36222878	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_014727.1	+1	reviewed	p.S1836L	0.112	38	0%	97	11.3%	4	25%	possibly_damaging(0.662)	-	-	NULL
MLL4	9757	genome.wustl.edu	37	19	36222962	36222962	+	Missense_Mutation	SNP	G	G	A	rs181607228	by1000genomes	TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_014727.1	+1	reviewed	p.R1864Q	1.000	41	0%	84	10.7%	7	0%	possibly_damaging(0.939)	-	-	NULL
ARHGAP33	115703	genome.wustl.edu	37	19	36272054	36272054	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_052948.3	+1	reviewed	p.P329S	1.000	64	0%	132	29.5%	1	0%	possibly_damaging(0.863)	deleterious(0.02)	deleterious(0.717)	HMMPfam_RhoGAP,HMMSmart_RhoGAP,superfamily_Rho_GAP
PRODH2	58510	genome.wustl.edu	37	19	36297461	36297461	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_021232.1	-1	reviewed	p.A367V	0.929	36	2.8%	61	29.5%	0	-	probably_damaging(0.989)	deleterious(0)	deleterious(0.884)	HMMPfam_Pro_dh,superfamily_SSF51730
APLP1	333	genome.wustl.edu	37	19	36362870	36362870	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001024807.1	+1	reviewed	p.P261L	1.000	62	0%	96	20.8%	3	33.3%	probably_damaging(0.959)	tolerated(0.34)	neutral(0.426)	NULL
NFKBID	84807	genome.wustl.edu	37	19	36387660	36387660	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_139239.1	-1	provisional	p.R76W	0.013	61	0%	114	24.6%	2	0%	probably_damaging(0.999)	deleterious(0)	deleterious(0.935)	superfamily_Ankyrin repeat
CLIP3	25999	genome.wustl.edu	37	19	36518043	36518043	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_015526.1	-1	provisional	p.I99	0.455	226	0%	353	14.2%	10	0%	-	-	-	superfamily_Ankyrin repeat
THAP8	199745	genome.wustl.edu	37	19	36530911	36530911	+	Missense_Mutation	SNP	A	A	C	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_152658.2	-1	provisional	p.W71G	1.000	17	0%	22	22.7%	5	20%	probably_damaging(0.998)	tolerated(0.33)	deleterious(0.498)	HMMPfam_THAP,HMMSmart_DM3
ZNF565	147929	genome.wustl.edu	37	19	36674586	36674586	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001042474.1	-1	validated	p.I94	0.000	305	0.3%	166	24.1%	1	0%	-	-	-	NULL
ZFP14	57677	genome.wustl.edu	37	19	36831910	36831910	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_020917.1	-1	provisional	p.R273Q	0.112	238	0%	95	27.4%	0	-	probably_damaging(0.995)	tolerated(1)	neutral(0.458)	HMMPfam_zf-C2H2,PatternScan_ZINC_FINGER_C2H2_1,HMMSmart_ZnF_C2H2,superfamily_SSF57667
ZFP82	284406	genome.wustl.edu	37	19	36884360	36884360	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_133466.2	-1	provisional	p.Y294	0.000	351	0%	188	16.5%	4	0%	-	-	-	HMMPfam_zf-C2H2,HMMSmart_SM00355,superfamily_C2H2 and C2HC zinc fingers
ZFP82	284406	genome.wustl.edu	37	19	36884866	36884866	+	Missense_Mutation	SNP	T	T	G	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_133466.2	-1	provisional	p.K126Q	0.163	323	0%	125	27.2%	0	-	benign(0.005)	tolerated(0.79)	neutral(0.001)	NULL
ZFP82	284406	genome.wustl.edu	37	19	36900681	36900681	+	Splice_Site	SNP	A	A	G	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_133466.2	-1	provisional	e1+2	1.000	327	0%	278	20.1%	0	-	-	-	-	-
LOC644189	644189	genome.wustl.edu	37	19	36913375	36913375	+	RNA	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	XR_016949.3	+1	model	NULL	1.000	87	0%	144	12.5%	0	-	-	-	-	-
LOC644189	644189	genome.wustl.edu	37	19	36913695	36913695	+	RNA	SNP	T	T	G	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	XR_016949.3	+1	model	NULL	0.182	58	0%	83	14.5%	0	-	-	-	-	-
ZNF566	84924	genome.wustl.edu	37	19	36939967	36939967	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001145343.1	-1	validated	p.T391N	0.979	251	0%	59	27.1%	2	50%	benign(0.095)	deleterious(0)	neutral(0.452)	superfamily_SSF57667
ZNF529	57711	genome.wustl.edu	37	19	37038298	37038298	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001145649.1	-1	validated	p.H388Y	1.000	132	0%	65	21.5%	1	0%	probably_damaging(0.985)	deleterious(0)	deleterious(0.877)	HMMPfam_zf-C2H2,PatternScan_ZINC_FINGER_C2H2_1,HMMSmart_SM00355,superfamily_C2H2 and C2HC zinc fingers
ZNF790	388536	genome.wustl.edu	37	19	37314275	37314275	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_206894.2	-1	validated	p.C47	0.241	194	0%	67	11.9%	7	0%	-	-	-	HMMSmart_SM00349,superfamily_KRAB domain (Kruppel-associated box Pfam 01352)
ZNF345	25850	genome.wustl.edu	37	19	37368817	37368817	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_003419.3	+1	provisional	p.R362I	0.996	192	0%	85	17.6%	1	0%	possibly_damaging(0.854)	deleterious(0.03)	deleterious(0.694)	HMMPfam_zf-C2H2,PatternScan_ZINC_FINGER_C2H2_1,HMMSmart_ZnF_C2H2,superfamily_SSF57667
ZNF568	374900	genome.wustl.edu	37	19	37413731	37413731	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_198539.2	+1	validated	p.H20R	0.001	209	0%	101	13.9%	2	50%	benign(0)	-	-	NULL
ZNF568	374900	genome.wustl.edu	37	19	37440779	37440779	+	Nonsense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_198539.2	+1	validated	p.R242*	0.333	142	0%	56	25%	2	100%	-	-	-	HMMPfam_zf-C2H2,PatternScan_ZINC_FINGER_C2H2_1,HMMSmart_SM00355,superfamily_C2H2 and C2HC zinc fingers
ZNF420	147923	genome.wustl.edu	37	19	37618097	37618097	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_144689.3	+1	provisional	p.S68	0.209	232	0%	69	33.3%	0	-	-	-	-	NULL
ZNF420	147923	genome.wustl.edu	37	19	37619601	37619601	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_144689.3	+1	provisional	p.R570C	0.000	249	0%	83	25.3%	5	0%	probably_damaging(0.998)	tolerated(0.22)	deleterious(0.516)	HMMPfam_zf-C2H2,PatternScan_ZINC_FINGER_C2H2_1,HMMSmart_ZnF_C2H2,superfamily_SSF57667
ZNF585A	199704	genome.wustl.edu	37	19	37642581	37642581	+	Missense_Mutation	SNP	G	G	C	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_152655.2	-1	validated	p.H685Q	1.000	468	0%	118	22.9%	2	0%	probably_damaging(0.999)	deleterious(0.02)	deleterious(0.873)	HMMPfam_zf-C2H2,PatternScan_ZINC_FINGER_C2H2_1,HMMSmart_SM00355,superfamily_C2H2 and C2HC zinc fingers
ZNF585A	199704	genome.wustl.edu	37	19	37643270	37643270	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_152655.2	-1	validated	p.T456A	0.187	376	0%	118	21.2%	2	0%	benign(0.127)	tolerated(0.72)	neutral(0.012)	HMMPfam_zf-C2H2,PatternScan_ZINC_FINGER_C2H2_1,HMMSmart_SM00355,superfamily_C2H2 and C2HC zinc fingers
ZNF383	163087	genome.wustl.edu	37	19	37734282	37734282	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_152604.1	+1	provisional	p.R382C	0.000	195	0%	98	24.5%	10	20%	probably_damaging(0.995)	deleterious(0.02)	deleterious(0.841)	HMMPfam_zf-C2H2,PatternScan_ZINC_FINGER_C2H2_1,HMMSmart_ZnF_C2H2,superfamily_SSF57667
ZNF569	148266	genome.wustl.edu	37	19	37903992	37903992	+	Missense_Mutation	SNP	T	T	G	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_152484.2	-1	validated	p.D523A	0.058	272	0%	102	25.5%	0	-	benign(0.007)	tolerated(0.15)	neutral(0.241)	HMMPfam_zf-C2H2,HMMSmart_SM00355,superfamily_C2H2 and C2HC zinc fingers
ZNF570	148268	genome.wustl.edu	37	19	37975257	37975257	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_144694.1	+1	provisional	p.P245S	1.000	82	0%	49	12.2%	0	-	probably_damaging(0.999)	deleterious(0.03)	deleterious(0.855)	superfamily_C2H2 and C2HC zinc fingers
ZNF781	163115	genome.wustl.edu	37	19	38160135	38160135	+	Silent	SNP	T	T	C	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_152605.3	-1	validated	p.E305	0.409	254	0%	139	20.1%	0	-	-	-	-	NULL
ZNF781	163115	genome.wustl.edu	37	19	38160221	38160221	+	Nonsense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_152605.3	-1	validated	p.E277*	0.970	363	0%	158	15.2%	1	0%	-	-	-	NULL
ZNF607	84775	genome.wustl.edu	37	19	38200670	38200670	+	Missense_Mutation	SNP	T	T	G	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_032689.4	-1	validated	p.E21D	0.074	260	0%	189	21.2%	0	-	possibly_damaging(0.642)	tolerated(0.1)	deleterious(0.511)	HMMPfam_KRAB,HMMSmart_SM00349,superfamily_KRAB domain (Kruppel-associated box Pfam 01352)
ZNF573	126231	genome.wustl.edu	37	19	38262229	38262229	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	ENST00000357309	-1	known	p.E39D	0.998	109	0%	44	22.7%	1	100%	possibly_damaging(0.948)	deleterious(0)	deleterious(0.836)	HMMPfam_KRAB,HMMSmart_SM00349,superfamily_KRAB domain (Kruppel-associated box Pfam 01352)
WDR87	83889	genome.wustl.edu	37	19	38376205	38376205	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_031951.3	-1	provisional	p.M2663I	0.000	215	0%	67	17.9%	0	-	unknown(0)	-	-	NULL
WDR87	83889	genome.wustl.edu	37	19	38377118	38377118	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_031951.3	-1	provisional	p.S2359I	0.000	346	0%	169	11.8%	0	-	unknown(0)	-	-	NULL
WDR87	83889	genome.wustl.edu	37	19	38377170	38377170	+	Nonsense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_031951.3	-1	provisional	p.E2342*	0.000	482	0%	225	20.9%	0	-	-	-	-	NULL
WDR87	83889	genome.wustl.edu	37	19	38378045	38378045	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_031951.3	-1	provisional	p.R2050I	0.969	228	0%	125	18.4%	0	-	probably_damaging(0.997)	-	-	superfamily_WD40 repeat-like,superfamily_ARM repeat
WDR87	83889	genome.wustl.edu	37	19	38378398	38378398	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_031951.3	-1	provisional	p.Q1932	0.011	501	0%	190	11.1%	0	-	-	-	-	superfamily_WD40 repeat-like,superfamily_ARM repeat
WDR87	83889	genome.wustl.edu	37	19	38378871	38378871	+	Nonsense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_031951.3	-1	provisional	p.E1775*	0.920	538	0%	308	24.7%	0	-	-	-	-	superfamily_WD40 repeat-like,superfamily_ARM repeat
SIPA1L3	23094	genome.wustl.edu	37	19	38573234	38573234	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_015073.1	+1	validated	p.F343	0.329	4	0.000	10	0.400	0	-	-	-	-	NULL
SIPA1L3	23094	genome.wustl.edu	37	19	38579489	38579489	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_015073.1	+1	validated	p.E555K	1.000	128	0%	132	25%	1	100%	benign(0.144)	deleterious(0)	neutral(0.457)	superfamily_SSF111347
SIPA1L3	23094	genome.wustl.edu	37	19	38600899	38600899	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_015073.1	+1	validated	p.I722	0.136	133	0%	100	24%	1	0%	-	-	-	HMMPfam_Rap_GAP,superfamily_SSF111347
SPINT2	10653	genome.wustl.edu	37	19	38780824	38780824	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_021102.3	+1	reviewed	p.V153M	0.001	90	0%	60	20%	199	34.6%	possibly_damaging(0.716)	tolerated(0.25)	neutral(0.296)	HMMPfam_Kunitz_BPTI,HMMSmart_SM00131,superfamily_BPTI-like
SPINT2	10653	genome.wustl.edu	37	19	38782502	38782502	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_021102.3	+1	reviewed	p.F205	0.024	89	0%	88	15.9%	223	34%	-	-	-	NULL
CATSPERG	57828	genome.wustl.edu	37	19	38848932	38848932	+	Nonsense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_021185.4	+1	validated	p.E444*	0.000	379	0%	473	26.4%	0	-	-	-	-	NULL
CATSPERG	57828	genome.wustl.edu	37	19	38858722	38858722	+	Missense_Mutation	SNP	A	A	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_021185.4	+1	validated	p.R989W	0.000	234	0%	406	11.3%	0	-	probably_damaging(0.994)	deleterious(0.02)	deleterious(0.835)	NULL
RASGRP4	115727	genome.wustl.edu	37	19	38901527	38901527	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_170604.2	-1	reviewed	p.T655M	0.009	162	0%	205	23.9%	0	-	possibly_damaging(0.508)	tolerated(0.36)	neutral(0.190)	NULL
RASGRP4	115727	genome.wustl.edu	37	19	38901885	38901885	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_170604.2	-1	reviewed	p.C574	0.998	168	0%	199	13.6%	3	0%	unknown(0)	-	-	HMMPfam_C1_1,HMMSmart_SM00109,PatternScan_ZF_DAG_PE_1,superfamily_Cysteine-rich domain
RYR1	6261	genome.wustl.edu	37	19	38946316	38946316	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_000540.2	+1	reviewed	p.E572D	1.000	247	0%	357	21.6%	0	-	possibly_damaging(0.887)	-	-	HMMPfam_RYDR_ITPR
RYR1	6261	genome.wustl.edu	37	19	38956907	38956907	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_000540.2	+1	reviewed	p.R1016Q	1.000	12	0%	35	20%	0	-	probably_damaging(0.968)	-	-	HMMPfam_RyR
RYR1	6261	genome.wustl.edu	37	19	38976243	38976243	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_000540.2	+1	reviewed	p.L1650M	1.000	21	0%	36	22.2%	0	-	probably_damaging(0.971)	-	-	NULL
RYR1	6261	genome.wustl.edu	37	19	38996480	38996480	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_000540.2	+1	reviewed	p.S2812Y	1.000	384	0%	550	14.5%	0	-	probably_damaging(0.995)	-	-	HMMPfam_RyR
RYR1	6261	genome.wustl.edu	37	19	38996536	38996536	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_000540.2	+1	reviewed	p.E2831K	1.000	412	0%	579	20.2%	0	-	benign(0.19)	-	-	NULL
RYR1	6261	genome.wustl.edu	37	19	39010091	39010091	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_000540.2	+1	reviewed	p.N3419S	1.000	40	0%	63	25.4%	0	-	benign(0.014)	-	-	NULL
RYR1	6261	genome.wustl.edu	37	19	39018380	39018380	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_000540.2	+1	reviewed	p.R3594C	1.000	63	0%	63	25.4%	0	-	probably_damaging(0.999)	-	-	NULL
RYR1	6261	genome.wustl.edu	37	19	39075688	39075688	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_000540.2	+1	reviewed	p.D4918N	1.000	268	0.4%	304	21.7%	6	0%	unknown(0)	-	-	HMMPfam_Ion_trans
MAP4K1	11184	genome.wustl.edu	37	19	39108527	39108527	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_007181.4	-1	validated	p.V3	0.036	43	0%	85	24.7%	1	0%	-	-	-	NULL
EIF3K	27335	genome.wustl.edu	37	19	39125694	39125694	+	Silent	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_013234.2	+1	validated	p.I187	1.000	160	0%	122	32%	530	20.5%	-	-	-	"superfamily_""Winged helix"" DNA-binding domain"
ACTN4	81	genome.wustl.edu	37	19	39205120	39205120	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_004924.3	+1	reviewed	p.A277	0.013	72	0%	108	31.5%	135	4.4%	-	-	-	NULL
ACTN4	81	genome.wustl.edu	37	19	39214895	39214895	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_004924.3	+1	reviewed	p.I597	0.994	42	0%	95	32.6%	183	12.5%	-	-	-	HMMPfam_Spectrin,HMMSmart_SPEC,superfamily_Spectrin
ECH1	1891	genome.wustl.edu	37	19	39308126	39308126	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001398.2	-1	reviewed	p.T147A	0.000	72	0%	136	25%	152	20.3%	benign(0)	tolerated(0.79)	neutral(0.001)	HMMPfam_ECH,superfamily_SSF52096
HNRNPL	3191	genome.wustl.edu	37	19	39336626	39336626	+	Missense_Mutation	SNP	A	A	C	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001533.2	-1	reviewed	p.I164S	1.000	238	0%	301	25.9%	72	16.6%	benign(0.088)	deleterious(0)	neutral(0.451)	HMMSmart_RRM,superfamily_SSF54928
HNRNPL	3191	genome.wustl.edu	37	19	39338057	39338057	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001533.2	-1	reviewed	p.P95	0.749	168	0%	232	25.4%	26	19.2%	-	-	-	NULL
SIRT2	22933	genome.wustl.edu	37	19	39370137	39370137	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	ENST00000358931	-1	known	p.R267C	0.979	36	0%	59	23.7%	49	18.3%	benign(0.342)	deleterious(0)	deleterious(0.552)	HMMPfam_SIR2
FBXO17	115290	genome.wustl.edu	37	19	39437199	39437199	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_148169.1	-1	reviewed	p.S166F	0.983	85	0%	128	24.2%	5	0%	benign(0)	tolerated(0.73)	neutral(0.002)	HMMPfam_FBA,superfamily_Galactose-binding domain-like
PAPL	390928	genome.wustl.edu	37	19	39589225	39589225	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001004318.2	+1	validated	p.D83	0.972	59	0%	135	26.7%	0	-	-	-	-	superfamily_Purple_Pase_N
PAPL	390928	genome.wustl.edu	37	19	39597639	39597639	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001004318.2	+1	validated	p.A389V	0.999	33	0%	50	12%	0	-	benign(0.354)	deleterious(0)	deleterious(0.556)	superfamily_SSF56300
NCCRP1	342897	genome.wustl.edu	37	19	39691054	39691054	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001001414.1	+1	provisional	p.R206H	0.865	7	0.000	35	0.229	1	0%	possibly_damaging(0.861)	tolerated(0.21)	neutral(0.377)	HMMPfam_FBA,superfamily_Gal_bind_like
IL28A	282616	genome.wustl.edu	37	19	39760453	39760453	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_172138.1	+1	reviewed	p.P166S	0.030	77	0%	103	14.6%	0	-	benign(0)	tolerated(0.32)	neutral(0.024)	NULL
SAMD4B	55095	genome.wustl.edu	37	19	39860695	39860695	+	Silent	SNP	A	A	G	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_018028.2	+1	provisional	p.G199	1.000	31	0%	26	19.2%	6	0%	-	-	-	NULL
PLEKHG2	64857	genome.wustl.edu	37	19	39907046	39907046	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_022835.2	+1	validated	p.V180M	1.000	45	0%	101	20.8%	1	0%	probably_damaging(0.999)	deleterious(0)	deleterious(0.935)	HMMPfam_RhoGEF,HMMSmart_SM00325,superfamily_DBL homology domain (DH-domain)
SUPT5H	6829	genome.wustl.edu	37	19	39955587	39955587	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001111020.2	+1	validated	p.K258	1.000	71	0%	50	10%	14	0%	-	-	-	HMMPfam_Supt5,HMMSmart_SM00738
SUPT5H	6829	genome.wustl.edu	37	19	39960839	39960839	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001111020.2	+1	validated	p.F485	0.877	80	0%	81	30.9%	29	13.7%	-	-	-	HMMPfam_KOW,HMMSmart_SM00739,superfamily_Translation proteins SH3-like domain
DLL3	10683	genome.wustl.edu	37	19	39996028	39996028	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_016941.3	+1	reviewed	p.G344S	0.934	96	0%	112	23.2%	0	-	possibly_damaging(0.884)	deleterious(0.02)	deleterious(0.728)	HMMPfam_EGF,HMMSmart_EGF,PatternScan_EGF_1,PatternScan_EGF_2,superfamily_SSF57196
LOC148003	148003	genome.wustl.edu	37	19	40147981	40147981	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	XM_001721341.1	+1	model	p.H5R	0.020	236	0%	63	22.2%	0	-	-	-	-	NULL
LOC148003	148003	genome.wustl.edu	37	19	40148571	40148571	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	XM_001721341.1	+1	model	p.I52V	0.014	239	0%	70	21.4%	0	-	possibly_damaging(0.934)	deleterious(0.05)	deleterious(0.726)	HMMPfam_Gal-bind_lectin,HMMSmart_SM00276,superfamily_Concanavalin A-like lectins/glucanases
LOC400696	400696	genome.wustl.edu	37	19	40172658	40172658	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_207646.2	+1	validated	p.V38A	0.296	140	0%	32	18.8%	0	-	-	-	-	HMMPfam_Gal-bind_lectin,HMMSmart_SM00276,superfamily_Concanavalin A-like lectins/glucanases
FCGBP	8857	genome.wustl.edu	37	19	40366502	40366502	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_003890.2	-1	validated	p.D4578N	0.051	16	0%	20	40%	1	0%	probably_damaging(0.998)	tolerated(1)	deleterious(0.474)	HMMPfam_VWD,HMMSmart_VWD
FCGBP	8857	genome.wustl.edu	37	19	40430483	40430483	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_003890.2	-1	validated	p.R487H	0.001	28	3.6%	50	30%	0	-	probably_damaging(0.997)	tolerated(0.11)	deleterious(0.738)	HMMPfam_VWD,HMMSmart_VWD
FCGBP	8857	genome.wustl.edu	37	19	40433477	40433477	+	Silent	SNP	A	A	G	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_003890.2	-1	validated	p.D264	0.227	48	0%	77	27.3%	0	-	-	-	-	NULL
PSMC4	5704	genome.wustl.edu	37	19	40485736	40485736	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_006503.2	+1	reviewed	p.R229Q	1.000	106	0%	71	22.5%	75	26.6%	possibly_damaging(0.79)	deleterious(0.03)	deleterious(0.661)	HMMSmart_SM00382,HMMPfam_AAA,superfamily_P-loop containing nucleoside triphosphate hydrolases
ZNF546	339327	genome.wustl.edu	37	19	40520952	40520952	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_178544.3	+1	validated	p.R592H	0.000	187	0%	61	16.4%	0	-	probably_damaging(0.976)	tolerated(0.46)	neutral(0.430)	HMMPfam_zf-C2H2,PatternScan_ZINC_FINGER_C2H2_1,HMMSmart_ZnF_C2H2,superfamily_SSF57667
ZNF546	339327	genome.wustl.edu	37	19	40521119	40521119	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_178544.3	+1	validated	p.R648C	0.000	223	0%	50	10%	0	-	probably_damaging(0.963)	tolerated(0.3)	neutral(0.434)	HMMPfam_zf-C2H2,PatternScan_ZINC_FINGER_C2H2_1,HMMSmart_ZnF_C2H2,superfamily_SSF57667
ZNF546	339327	genome.wustl.edu	37	19	40521567	40521567	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_178544.3	+1	validated	p.R797I	1.000	145	0%	47	21.3%	0	-	possibly_damaging(0.693)	deleterious(0.04)	deleterious(0.597)	HMMPfam_zf-C2H2,PatternScan_ZINC_FINGER_C2H2_1,HMMSmart_ZnF_C2H2,superfamily_SSF57667
ZNF780B	163131	genome.wustl.edu	37	19	40541779	40541779	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001005851.2	-1	validated	p.G329	0.955	370	0%	85	12.9%	0	-	-	-	-	superfamily_C2H2 and C2HC zinc fingers
ZNF780A	284323	genome.wustl.edu	37	19	40581377	40581377	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001142577.1	-1	validated	p.C325	0.000	459	0.2%	85	20%	0	-	-	-	-	HMMPfam_zf-C2H2,PatternScan_ZINC_FINGER_C2H2_1,HMMSmart_SM00355,superfamily_C2H2 and C2HC zinc fingers
MAP3K10	4294	genome.wustl.edu	37	19	40710516	40710516	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_002446.3	+1	reviewed	p.E330K	1.000	26	0%	57	22.8%	5	20%	possibly_damaging(0.704)	deleterious(0.02)	deleterious(0.637)	superfamily_Kinase_like,HMMPfam_Pkinase
AKT2	208	genome.wustl.edu	37	19	40748486	40748486	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001626.3	-1	reviewed	p.T132	0.000	50	0%	73	27.4%	9	22.2%	-	-	-	superfamily_Kinase_like
SPTBN4	57731	genome.wustl.edu	37	19	40978564	40978564	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_020971.2	+1	reviewed	p.E12D	0.999	47	0%	58	20.7%	0	-	benign(0)	tolerated(0.59)	neutral(0.004)	NULL
SPTBN4	57731	genome.wustl.edu	37	19	41038580	41038580	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_020971.2	+1	reviewed	p.R1333W	0.615	62	0%	105	23.8%	1	0%	probably_damaging(0.971)	deleterious(0.01)	deleterious(0.819)	HMMPfam_Spectrin,HMMSmart_SM00150,superfamily_Spectrin repeat
SPTBN4	57731	genome.wustl.edu	37	19	41081449	41081449	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_020971.2	+1	reviewed	p.R2557C	1.000	57	0%	89	19.1%	1	0%	possibly_damaging(0.817)	deleterious(0)	deleterious(0.754)	NULL
SHKBP1	92799	genome.wustl.edu	37	19	41083341	41083341	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	ENST00000418276	+1	known	p.P3L	0.061	99	0%	168	19%	13	0%	-	-	-	NULL
SHKBP1	92799	genome.wustl.edu	37	19	41089542	41089542	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_138392.3	+1	validated	p.D362N	1.000	128	0%	172	12.8%	14	14.2%	probably_damaging(1)	deleterious(0)	deleterious(0.945)	superfamily_WD40 repeat-like
LTBP4	8425	genome.wustl.edu	37	19	41133106	41133106	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001042544.1	+1	reviewed	p.S1471L	0.993	45	0%	108	30.6%	310	1.6%	-	-	-	NULL
ADCK4	79934	genome.wustl.edu	37	19	41206292	41206292	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_024876.3	-1	validated	p.R320W	0.923	35	0%	34	14.7%	6	0%	probably_damaging(0.993)	deleterious(0)	deleterious(0.895)	superfamily_Protein kinase-like (PK-like)
ADCK4	79934	genome.wustl.edu	37	19	41220227	41220227	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_024876.3	-1	validated	p.R60C	0.987	69	0%	96	26%	4	25%	probably_damaging(0.988)	deleterious(0.02)	deleterious(0.821)	NULL
CYP2A6	1548	genome.wustl.edu	37	19	41349877	41349877	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_000762.5	-1	reviewed	p.R437W	1.000	369	0.3%	308	17.9%	1	0%	probably_damaging(1)	deleterious(0)	deleterious(0.945)	HMMPfam_p450,superfamily_Cytochrome P450,PatternScan_CYTOCHROME_P450
CYP2A6	1548	genome.wustl.edu	37	19	41352858	41352858	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_000762.5	-1	reviewed	p.K251N	0.980	292	0%	332	13.9%	1	0%	probably_damaging(1)	deleterious(0.03)	deleterious(0.865)	HMMPfam_p450,superfamily_Cytochrome P450
CYP2A6	1548	genome.wustl.edu	37	19	41354262	41354262	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_000762.5	-1	reviewed	p.F172L	0.999	387	0%	437	13.7%	1	0%	benign(0.033)	tolerated(0.08)	neutral(0.301)	HMMPfam_p450,superfamily_Cytochrome P450
CYP2B7P1	1556	genome.wustl.edu	37	19	41442006	41442006	+	RNA	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NR_001278.1	+1	provisional	NULL	0.000	140	0%	48	16.7%	0	-	benign(0.272)	tolerated(0.19)	neutral(0.079)	-
CYP2B6	1555	genome.wustl.edu	37	19	41510243	41510243	+	Nonsense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_000767.4	+1	reviewed	p.R126*	0.537	356	0%	109	25.7%	0	-	-	-	-	HMMPfam_p450,superfamily_Cytochrome_P450
CYP2A13	1553	genome.wustl.edu	37	19	41601807	41601807	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_000766.3	+1	reviewed	p.T482	0.010	192	0%	288	30.9%	0	-	-	-	-	HMMPfam_p450,superfamily_Cytochrome_P450
CYP2F1	1572	genome.wustl.edu	37	19	41630731	41630731	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_000774.3	+1	reviewed	p.R358C	1.000	19	0%	23	39.1%	0	-	probably_damaging(1)	deleterious(0)	deleterious(0.945)	HMMPfam_p450,superfamily_Cytochrome P450
CYP2S1	29785	genome.wustl.edu	37	19	41703701	41703701	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_030622.6	+1	reviewed	p.G121R	0.998	176	0%	222	27.9%	0	-	probably_damaging(1)	deleterious(0)	deleterious(0.945)	HMMPfam_p450,superfamily_Cytochrome P450
CYP2S1	29785	genome.wustl.edu	37	19	41704377	41704377	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_030622.6	+1	reviewed	p.F168	0.058	197	0%	270	18.9%	0	-	-	-	-	HMMPfam_p450,superfamily_Cytochrome P450
CYP2S1	29785	genome.wustl.edu	37	19	41709447	41709447	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_030622.6	+1	reviewed	p.L357M	0.995	27	0%	37	35.1%	0	-	probably_damaging(0.996)	deleterious(0.05)	deleterious(0.807)	HMMPfam_p450,superfamily_Cytochrome P450
AXL	558	genome.wustl.edu	37	19	41744490	41744490	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_021913.3	+1	reviewed	p.A370	0.733	59	0%	36	19.4%	1	0%	-	-	-	HMMPfam_fn3,HMMSmart_SM00060,superfamily_Fibronectin type III
HNRNPUL1	11100	genome.wustl.edu	37	19	41774205	41774205	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_007040.3	+1	reviewed	p.E125K	0.964	237	0.4%	335	10.7%	13	7.6%	benign(0.025)	deleterious(0.03)	neutral(0.365)	NULL
HNRNPUL1	11100	genome.wustl.edu	37	19	41787139	41787139	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_007040.3	+1	reviewed	p.G320R	1.000	122	0%	58	13.8%	33	9%	probably_damaging(1)	deleterious(0)	deleterious(0.945)	HMMPfam_SPRY,HMMSmart_SM00449
TGFB1	7040	genome.wustl.edu	37	19	41850716	41850716	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_000660.4	-1	reviewed	p.S190	0.094	68	0%	90	11.1%	105	0%	-	-	-	HMMPfam_TGFb_propeptide
TMEM91	641649	genome.wustl.edu	37	19	41888732	41888732	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001098821.1	+1	validated	p.P89Q	0.928	355	0%	600	10.8%	10	20%	probably_damaging(0.962)	deleterious(0.05)	deleterious(0.750)	HMMPfam_CD225
EXOSC5	56915	genome.wustl.edu	37	19	41895756	41895756	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_020158.3	-1	validated	p.P147S	1.000	50	0%	83	26.5%	14	35.7%	probably_damaging(0.999)	tolerated(0.13)	deleterious(0.743)	HMMPfam_RNase_PH,superfamily_3_ExoRNase,superfamily_Ribosomal_S5_D2-typ_fold
BCKDHA	593	genome.wustl.edu	37	19	41928178	41928178	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_000709.3	+1	reviewed	p.F252	0.998	68	0%	79	26.6%	19	5.2%	-	-	-	HMMPfam_E1_dh,superfamily_SSF52518
ENSG00000229113	0	genome.wustl.edu	37	19	42027595	42027595	+	Nonsense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	ENST00000439847	-1	known	p.R230*	0.001	320	0%	518	23.9%	2	0%	-	-	-	NULL
ENSG00000229113	0	genome.wustl.edu	37	19	42027854	42027854	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	ENST00000439847	-1	known	p.N144D	0.211	263	0%	383	12.3%	0	-	-	-	-	NULL
ENSG00000229113	0	genome.wustl.edu	37	19	42027999	42027999	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	ENST00000439847	-1	known	p.N95	1.000	228	0%	340	12.6%	0	-	-	-	-	NULL
ENSG00000229113	0	genome.wustl.edu	37	19	42028321	42028321	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	ENST00000439847	-1	known	p.Y11H	1.000	146	0%	201	12.4%	0	-	-	-	-	HMMPfam_PH,HMMSmart_SM00233,superfamily_PH domain-like
CEACAM4	1089	genome.wustl.edu	37	19	42128049	42128049	+	Missense_Mutation	SNP	A	A	C	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001817.2	-1	validated	p.F173V	0.001	83	0%	56	21.4%	0	-	benign(0.081)	deleterious(0.01)	neutral(0.412)	NULL
CEACAM4	1089	genome.wustl.edu	37	19	42132258	42132258	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001817.2	-1	validated	p.E47D	0.020	243	0.4%	121	13.2%	0	-	possibly_damaging(0.768)	deleterious(0.01)	deleterious(0.691)	HMMSmart_IG,HMMPfam_V-set,superfamily_SSF48726
CEACAM5	1048	genome.wustl.edu	37	19	42219031	42219031	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_004363.2	+1	validated	p.P189H	0.016	290	0%	148	12.2%	0	-	probably_damaging(0.996)	tolerated(0.33)	deleterious(0.486)	HMMSmart_SM00408,HMMSmart_SM00409,HMMPfam_ig,superfamily_Immunoglobulin
CEACAM5	1048	genome.wustl.edu	37	19	42222226	42222226	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_004363.2	+1	validated	p.G473R	0.019	142	0%	71	23.9%	0	-	probably_damaging(0.999)	deleterious(0.04)	deleterious(0.839)	HMMSmart_SM00408,HMMSmart_SM00409,HMMPfam_ig,superfamily_Immunoglobulin
CEACAM5	1048	genome.wustl.edu	37	19	42231187	42231187	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_004363.2	+1	validated	p.A687V	0.000	631	0%	278	23.4%	0	-	probably_damaging(0.953)	tolerated(0.19)	neutral(0.446)	NULL
CEACAM3	1084	genome.wustl.edu	37	19	42315243	42315243	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001815.2	+1	reviewed	p.R243W	0.001	220	0%	235	20%	0	-	probably_damaging(0.999)	deleterious(0)	deleterious(0.935)	NULL
ATP1A3	478	genome.wustl.edu	37	19	42472989	42472989	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_152296.3	-1	reviewed	p.D923N	0.996	55	0%	101	25.7%	1	0%	probably_damaging(0.987)	tolerated(0.12)	deleterious(0.697)	HMMPfam_Cation_ATPase_C,superfamily_SSF81665
ATP1A3	478	genome.wustl.edu	37	19	42482371	42482371	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_152296.3	-1	reviewed	p.S580P	1.000	116	0%	153	29.4%	0	-	probably_damaging(0.998)	deleterious(0)	deleterious(0.919)	HMMPfam_Hydrolase,superfamily_SSF56784,superfamily_SSF81660,superfamily_SSF81665
ATP1A3	478	genome.wustl.edu	37	19	42490097	42490097	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_152296.3	-1	reviewed	p.V175	1.000	215	0%	270	20%	0	-	-	-	-	HMMPfam_E1-E2_ATPase,superfamily_SSF81653,superfamily_SSF81665
GRIK5	2901	genome.wustl.edu	37	19	42510894	42510894	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_002088.3	-1	reviewed	p.R647H	1.000	62	0%	93	28%	1	0%	probably_damaging(1)	deleterious(0)	deleterious(0.945)	HMMPfam_Lig_chan,HMMSmart_SM00079,superfamily_Periplasmic binding protein-like II
GRIK5	2901	genome.wustl.edu	37	19	42546705	42546705	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_002088.3	-1	reviewed	p.R491Q	1.000	19	0%	39	17.9%	7	0%	probably_damaging(1)	tolerated(0.2)	deleterious(0.549)	HMMSmart_SM00079,superfamily_Periplasmic binding protein-like II
GRIK5	2901	genome.wustl.edu	37	19	42557831	42557831	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_002088.3	-1	reviewed	p.A398T	1.000	106	0%	99	10.1%	2	0%	benign(0.002)	tolerated(0.48)	neutral(0.011)	NULL
GRIK5	2901	genome.wustl.edu	37	19	42566652	42566652	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_002088.3	-1	reviewed	p.A166T	1.000	77	0%	107	28%	1	0%	probably_damaging(1)	deleterious(0.01)	deleterious(0.905)	HMMPfam_ANF_receptor,superfamily_Periplasmic binding protein-like I
GRIK5	2901	genome.wustl.edu	37	19	42569375	42569375	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_002088.3	-1	reviewed	p.M82V	1.000	26	0%	41	12.2%	1	0%	benign(0.007)	tolerated(1)	-	HMMPfam_ANF_receptor,superfamily_Periplasmic binding protein-like I
ZNF574	64763	genome.wustl.edu	37	19	42583906	42583906	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_022752.5	+1	validated	p.R383Q	1.000	58	0%	136	22.8%	11	0%	possibly_damaging(0.855)	deleterious(0.04)	deleterious(0.679)	HMMPfam_zf-C2H2,PatternScan_ZINC_FINGER_C2H2_1,HMMSmart_SM00355,superfamily_C2H2 and C2HC zinc fingers
POU2F2	5452	genome.wustl.edu	37	19	42598024	42598024	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_002698.2	-1	validated	p.G369	0.997	100	0%	157	32.5%	2	0%	-	-	-	NULL
POU2F2	5452	genome.wustl.edu	37	19	42599555	42599555	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_002698.2	-1	validated	p.K322	1.000	98	0%	162	10.5%	1	0%	-	-	-	HMMPfam_Homeobox,HMMSmart_HOX,superfamily_Homeodomain_like,PatternScan_HOMEOBOX_1
POU2F2	5452	genome.wustl.edu	37	19	42600378	42600378	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	ENST00000342301	-1	known	p.T168	0.999	36	0%	77	14.3%	0	-	-	-	-	NULL
GSK3A	2931	genome.wustl.edu	37	19	42736213	42736213	+	Silent	SNP	T	T	C	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_019884.2	-1	validated	p.S458	1.000	251	0%	363	26.2%	142	21.8%	-	-	-	NULL
GSK3A	2931	genome.wustl.edu	37	19	42737317	42737317	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_019884.2	-1	validated	p.N348S	1.000	137	0%	184	12.5%	37	10.8%	probably_damaging(1)	deleterious(0.01)	deleterious(0.905)	HMMSmart_S_TKc,superfamily_Kinase_like,HMMPfam_Pkinase
ERF	2077	genome.wustl.edu	37	19	42752786	42752786	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_006494.2	-1	validated	p.R493H	1.000	72	0%	130	12.3%	33	0%	probably_damaging(0.994)	deleterious(0)	deleterious(0.897)	NULL
CIC	23152	genome.wustl.edu	37	19	42793463	42793463	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_015125.3	+1	validated	p.R422Q	1.000	102	0%	160	26.9%	13	0%	possibly_damaging(0.772)	deleterious(0.02)	deleterious(0.670)	NULL
TMEM145	284339	genome.wustl.edu	37	19	42818624	42818624	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_173633.2	+1	validated	p.L73I	1.000	144	0%	226	12.8%	0	-	possibly_damaging(0.94)	deleterious(0.02)	deleterious(0.768)	NULL
MEGF8	1954	genome.wustl.edu	37	19	42874367	42874367	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001410.2	+1	validated	p.P2220	0.093	77	0%	125	19.2%	4	25%	-	-	-	HMMPfam_Laminin_EGF,PatternScan_EGF_LAM_1,HMMSmart_EGF,superfamily_SSF57196
MEGF8	1954	genome.wustl.edu	37	19	42880348	42880348	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001410.2	+1	validated	p.S2586	0.033	56	0%	93	10.8%	3	0%	-	-	-	NULL
LIPE	3991	genome.wustl.edu	37	19	42910521	42910521	+	Silent	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_005357.2	-1	reviewed	p.I719	1.000	75	0%	149	33.6%	6	0%	-	-	-	PatternScan_LIPASE_GDXG_SER,HMMPfam_Abhydrolase_3,superfamily_alpha/beta-Hydrolases
CEACAM1	634	genome.wustl.edu	37	19	43026106	43026106	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001712.4	-1	reviewed	p.R225C	0.000	282	0%	129	10.9%	8	37.5%	benign(0.277)	deleterious(0.03)	neutral(0.394)	PatternScan_G_PROTEIN_RECEP_F1_1,HMMSmart_SM00409,superfamily_Immunoglobulin
PSG3	5671	genome.wustl.edu	37	19	43233453	43233453	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_021016.3	-1	validated	p.F355	0.000	426	0%	130	30%	0	-	-	-	-	HMMSmart_IGc2,HMMPfam_ig,superfamily_SSF48726
PSG3	5671	genome.wustl.edu	37	19	43234056	43234056	+	Nonsense_Mutation	SNP	G	G	A	rs77250811		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_021016.3	-1	validated	p.R288*	0.000	519	0.2%	158	8.2%	0	-	-	-	-	HMMSmart_IG,HMMPfam_ig,superfamily_SSF48726
PSG6	5675	genome.wustl.edu	37	19	43414824	43414824	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_002782.3	-1	provisional	p.G205D	0.000	401	0%	170	22.4%	0	-	possibly_damaging(0.674)	tolerated(0.06)	deleterious(0.562)	HMMPfam_ig,superfamily_SSF48726
PHLDB3	653583	genome.wustl.edu	37	19	43983602	43983602	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_198850.3	-1	validated	p.G543	0.452	24	0%	30	23.3%	23	52.1%	-	-	-	HMMPfam_PH,HMMSmart_SM00233,superfamily_PH domain-like
PHLDB3	653583	genome.wustl.edu	37	19	44001928	44001928	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_198850.3	-1	validated	p.R212H	0.016	84	0%	127	11.8%	7	0%	benign(0.008)	tolerated(0.12)	neutral(0.261)	NULL
IRGQ	126298	genome.wustl.edu	37	19	44096996	44096996	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001007561.2	-1	validated	p.E352K	0.000	414	0%	672	14%	2	0%	unknown(0)	tolerated(0.12)	-	NULL
SRRM5	100170229	genome.wustl.edu	37	19	44116863	44116863	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001145641.1	+1	validated	p.R197H	0.093	137	0.7%	215	15.8%	0	-	possibly_damaging(0.808)	deleterious(0)	deleterious(0.748)	NULL
PLAUR	5329	genome.wustl.edu	37	19	44171781	44171781	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_002659.2	-1	reviewed	p.A40T	0.000	93	0%	98	11.2%	20	0%	possibly_damaging(0.792)	tolerated(0.26)	neutral(0.331)	HMMPfam_UPAR_LY6,HMMSmart_SM00134,PatternScan_LY6_UPAR,superfamily_Snake toxin-like
IRGC	56269	genome.wustl.edu	37	19	44223932	44223932	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_019612.3	+1	validated	p.E408K	0.191	39	0%	80	22.5%	0	-	benign(0)	tolerated(0.27)	neutral(0.034)	NULL
ZNF155	7711	genome.wustl.edu	37	19	44500578	44500578	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_003445.2	+1	validated	p.A190V	0.000	340	0%	91	18.7%	2	0%	probably_damaging(0.976)	tolerated(0.59)	neutral(0.422)	HMMPfam_zf-C2H2,PatternScan_ZINC_FINGER_C2H2_1,HMMSmart_SM00355,superfamily_C2H2 and C2HC zinc fingers
ZNF230	7773	genome.wustl.edu	37	19	44514672	44514672	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_006300.3	+1	validated	p.F161L	0.000	310	0%	100	18%	3	33.3%	benign(0)	tolerated(0.84)	neutral(0.001)	superfamily_SSF57667
ZNF223	7766	genome.wustl.edu	37	19	44564693	44564693	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_013361.4	+1	validated	p.R34Q	0.141	660	0.2%	313	11.2%	2	0%	benign(0.057)	tolerated(0.15)	neutral(0.244)	HMMPfam_KRAB,HMMSmart_SM00349,superfamily_KRAB domain (Kruppel-associated box Pfam 01352)
ZNF234	10780	genome.wustl.edu	37	19	44660546	44660546	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001144824.1	+1	validated	p.R126I	0.001	105	0%	48	14.6%	0	-	benign(0.016)	deleterious(0.04)	neutral(0.349)	NULL
ZNF226	7769	genome.wustl.edu	37	19	44680207	44680207	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001032372.1	+1	validated	p.L264	0.001	164	0%	37	10.8%	4	0%	-	-	-	HMMSmart_ZnF_C2H2,superfamily_SSF57667
ZNF227	7770	genome.wustl.edu	37	19	44739562	44739562	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_182490.1	+1	provisional	p.D327N	0.026	179	0%	73	35.6%	2	0%	probably_damaging(0.979)	tolerated(0.84)	neutral(0.422)	HMMPfam_zf-C2H2,PatternScan_ZINC_FINGER_C2H2_1,HMMSmart_SM00355,superfamily_C2H2 and C2HC zinc fingers
ZNF227	7770	genome.wustl.edu	37	19	44740799	44740799	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_182490.1	+1	provisional	p.T739I	0.981	190	0%	81	23.5%	13	0%	benign(0.001)	deleterious(0.04)	neutral(0.349)	superfamily_C2H2 and C2HC zinc fingers
ZNF235	9310	genome.wustl.edu	37	19	44791875	44791875	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_004234.4	-1	reviewed	p.Y571	0.008	235	0%	71	23.9%	1	100%	-	-	-	HMMPfam_zf-C2H2,HMMSmart_SM00355,superfamily_C2H2 and C2HC zinc fingers
ZFP112	7771	genome.wustl.edu	37	19	44832762	44832762	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001083335.1	-1	validated	p.Q522H	1.000	164	0%	40	30%	1	100%	probably_damaging(0.955)	deleterious(0)	deleterious(0.843)	superfamily_C2H2 and C2HC zinc fingers
ZNF285	26974	genome.wustl.edu	37	19	44890839	44890839	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_152354.3	-1	validated	p.R523Q	0.000	314	0%	102	27.5%	3	0%	benign(0.02)	tolerated(0.58)	neutral(0.006)	HMMPfam_zf-C2H2,PatternScan_ZINC_FINGER_C2H2_1,HMMSmart_SM00355,superfamily_C2H2 and C2HC zinc fingers
ZNF285	26974	genome.wustl.edu	37	19	44891400	44891400	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_152354.3	-1	validated	p.R336Q	0.018	330	0%	73	15.1%	1	0%	probably_damaging(0.991)	deleterious(0.04)	deleterious(0.793)	HMMPfam_zf-C2H2,PatternScan_ZINC_FINGER_C2H2_1,HMMSmart_SM00355,superfamily_C2H2 and C2HC zinc fingers
ZNF180	7733	genome.wustl.edu	37	19	44980824	44980824	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_013256.3	-1	validated	p.R625I	0.994	286	0%	292	26%	6	66.6%	probably_damaging(1)	tolerated(0.09)	deleterious(0.796)	HMMPfam_zf-C2H2,PatternScan_ZINC_FINGER_C2H2_1,HMMSmart_SM00355,superfamily_C2H2 and C2HC zinc fingers
ZNF180	7733	genome.wustl.edu	37	19	44981060	44981060	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_013256.3	-1	validated	p.E546	1.000	254	0%	230	27.4%	2	0%	-	-	-	superfamily_C2H2 and C2HC zinc fingers
ZNF180	7733	genome.wustl.edu	37	19	44981393	44981393	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_013256.3	-1	validated	p.K435	0.994	233	0.4%	261	19.5%	1	0%	-	-	-	superfamily_C2H2 and C2HC zinc fingers
PVR	5817	genome.wustl.edu	37	19	45150717	45150717	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_006505.3	+1	reviewed	p.A101V	0.000	41	0%	55	23.6%	2	50%	benign(0)	tolerated(0.16)	neutral(0.059)	HMMSmart_SM00406,HMMSmart_SM00409,HMMPfam_V-set,superfamily_Immunoglobulin
PVR	5817	genome.wustl.edu	37	19	45153328	45153328	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_006505.3	+1	reviewed	p.H225	0.750	58	0%	69	23.2%	2	0%	-	-	-	HMMPfam_C2-set_2,superfamily_Immunoglobulin
CEACAM19	56971	genome.wustl.edu	37	19	45179597	45179597	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_020219.3	+1	validated	p.A160V	0.000	127	0%	66	24.2%	0	-	benign(0.001)	tolerated(0.76)	neutral(0.001)	NULL
CBLC	23624	genome.wustl.edu	37	19	45284164	45284164	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_012116.3	+1	validated	p.R119Q	1.000	30	0%	43	25.6%	3	33.3%	probably_damaging(1)	deleterious(0.01)	deleterious(0.905)	HMMPfam_Cbl_N,superfamily_N-terminal domain of cbl (N-cbl)
BCAM	4059	genome.wustl.edu	37	19	45314491	45314491	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_005581.3	+1	reviewed	p.A31V	0.493	229	0%	408	11.3%	10	0%	possibly_damaging(0.842)	deleterious(0.04)	deleterious(0.671)	NULL
BCAM	4059	genome.wustl.edu	37	19	45322317	45322317	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_005581.3	+1	reviewed	p.S447	0.000	175	0%	248	27.8%	179	7.2%	-	-	-	superfamily_SSF48726
APOC1	341	genome.wustl.edu	37	19	45419549	45419549	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001645.3	+1	reviewed	p.R54H	0.000	107	0%	151	37.1%	347	0%	probably_damaging(0.995)	tolerated(0.35)	deleterious(0.478)	HMMPfam_ApoC-I
CLPTM1	1209	genome.wustl.edu	37	19	45477774	45477774	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001294.1	+1	provisional	p.D130N	1.000	226	0%	258	31%	26	11.5%	benign(0.053)	tolerated(0.81)	neutral(0.004)	HMMPfam_CLPTM1
CLPTM1	1209	genome.wustl.edu	37	19	45477842	45477842	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001294.1	+1	provisional	p.L152	0.049	132	0%	174	11.5%	31	0%	-	-	-	HMMPfam_CLPTM1
RELB	5971	genome.wustl.edu	37	19	45525419	45525419	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_006509.2	+1	validated	p.D205N	0.964	34	0%	35	17.1%	5	0%	benign(0.171)	tolerated(0.25)	neutral(0.052)	superfamily_P53_like_DNA_bnd,HMMPfam_RHD
RELB	5971	genome.wustl.edu	37	19	45537512	45537512	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_006509.2	+1	validated	p.G406	0.024	59	0%	77	27.3%	43	4.6%	-	-	-	superfamily_Ig_E-set
NKPD1	284353	genome.wustl.edu	37	19	45655375	45655375	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_198478.3	-1	inferred	p.R552C	0.002	12	0%	20	35%	0	-	probably_damaging(0.966)	tolerated(0.06)	deleterious(0.730)	NULL
TRAPPC6A	79090	genome.wustl.edu	37	19	45667457	45667457	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_024108.1	-1	provisional	p.A121T	0.998	71	0%	154	25.3%	126	45.2%	possibly_damaging(0.49)	tolerated(0.13)	neutral(0.415)	HMMPfam_TRAPP
TRAPPC6A	79090	genome.wustl.edu	37	19	45668410	45668410	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_024108.1	-1	provisional	p.R57C	0.945	71	0%	72	13.9%	29	3.4%	probably_damaging(1)	deleterious(0.01)	deleterious(0.905)	HMMPfam_TRAPP
EXOC3L2	90332	genome.wustl.edu	37	19	45731000	45731000	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_138568.3	-1	validated	p.E108	1.000	173	0%	192	14.1%	8	0%	-	-	-	HMMPfam_Sec6
MARK4	57787	genome.wustl.edu	37	19	45774876	45774876	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_031417.2	+1	provisional	p.Y232	0.999	43	0%	77	15.6%	12	16.6%	-	-	-	HMMSmart_S_TKc,superfamily_Kinase_like,HMMPfam_Pkinase
CKM	1158	genome.wustl.edu	37	19	45815158	45815158	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001824.2	-1	reviewed	p.E168K	1.000	54	0%	71	23.9%	0	-	benign(0.129)	deleterious(0)	neutral(0.456)	HMMPfam_ATP-gua_Ptrans,superfamily_SSF55931
ERCC2	2068	genome.wustl.edu	37	19	45860768	45860768	+	Silent	SNP	T	T	C	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_000400.3	-1	reviewed	p.V447	1.000	165	0%	295	10.2%	14	0%	-	-	-	NULL
CD3EAP	10849	genome.wustl.edu	37	19	45912182	45912182	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_012099.1	+1	validated	p.E319G	0.804	103	0%	128	13.3%	12	0%	probably_damaging(0.99)	deleterious(0)	deleterious(0.886)	NULL
ERCC1	2067	genome.wustl.edu	37	19	45923662	45923662	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_202001.2	-1	reviewed	p.F115	0.857	65	0%	78	12.8%	32	6.2%	-	-	-	HMMPfam_Rad10
PPM1N	147699	genome.wustl.edu	37	19	46003274	46003274	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001080401.1	+1	provisional	p.A336V	0.996	60	0%	80	10%	0	-	probably_damaging(0.978)	deleterious(0)	deleterious(0.865)	HMMPfam_PP2C_C,superfamily_Protein serine/threonine phosphatase 2C C-terminal domain
GPR4	2828	genome.wustl.edu	37	19	46094087	46094087	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_005282.2	-1	validated	p.P346	0.000	99	0%	120	16.7%	39	0%	-	-	-	NULL
GIPR	2696	genome.wustl.edu	37	19	46177941	46177941	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_000164.2	+1	validated	p.R164W	0.998	59	0%	107	29%	0	-	probably_damaging(0.999)	deleterious(0)	deleterious(0.935)	HMMPfam_7tm_2
QPCTL	54814	genome.wustl.edu	37	19	46198876	46198876	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_017659.3	+1	validated	p.S178L	0.000	104	0%	196	23.5%	16	6.2%	benign(0.001)	tolerated(0.26)	neutral(0.034)	HMMPfam_Peptidase_M28,superfamily_SSF53187
SIX5	147912	genome.wustl.edu	37	19	46269838	46269838	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_175875.4	-1	reviewed	p.P460L	0.434	13	0%	30	36.7%	6	0%	possibly_damaging(0.638)	deleterious(0)	deleterious(0.668)	NULL
DMWD	1762	genome.wustl.edu	37	19	46294255	46294255	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_004943.1	-1	validated	p.E178K	0.997	447	0.2%	728	26.1%	11	9%	possibly_damaging(0.945)	tolerated(0.15)	deleterious(0.631)	NULL
RSPH6A	81492	genome.wustl.edu	37	19	46299175	46299175	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_030785.3	-1	reviewed	p.E702	0.178	79	0%	160	22.5%	0	-	-	-	-	NULL
RSPH6A	81492	genome.wustl.edu	37	19	46299218	46299218	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_030785.3	-1	reviewed	p.A688V	0.969	123	0%	228	24.1%	0	-	unknown(0)	deleterious(0.01)	-	HMMPfam_Radial_spoke
RSPH6A	81492	genome.wustl.edu	37	19	46314024	46314024	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_030785.3	-1	reviewed	p.S242Y	0.904	90	0%	148	25.7%	1	0%	probably_damaging(0.976)	deleterious(0.02)	deleterious(0.801)	HMMPfam_Radial_spoke
SYMPK	8189	genome.wustl.edu	37	19	46324635	46324635	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	ENST00000340643	-1	known	p.A982V	0.059	189	0%	227	24.7%	2	0%	-	-	-	NULL
NOVA2	4858	genome.wustl.edu	37	19	46443262	46443262	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_002516.2	-1	validated	p.G446	0.989	50	0%	78	23.1%	7	0%	-	-	-	HMMSmart_KH,HMMPfam_KH_1,superfamily_SSF54791
IGFL1	374918	genome.wustl.edu	37	19	46733624	46733624	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_198541.1	+1	provisional	p.D58G	0.003	109	0%	102	16.7%	0	-	possibly_damaging(0.477)	tolerated(0.11)	neutral(0.429)	NULL
PPP5C	5536	genome.wustl.edu	37	19	46890429	46890429	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_006247.2	+1	provisional	p.Y328	0.994	90	0%	113	24.8%	48	25%	-	-	-	HMMPfam_Metallophos,HMMSmart_SM00156,superfamily_Metallo-dependent phosphatases
CCDC8	83987	genome.wustl.edu	37	19	46915571	46915571	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_032040.3	-1	validated	p.A166V	0.351	22	0%	33	39.4%	0	-	probably_damaging(0.999)	deleterious(0)	deleterious(0.935)	NULL
PNMAL1	55228	genome.wustl.edu	37	19	46973596	46973596	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_018215.3	-1	validated	p.R233C	0.000	57	0%	90	17.8%	2	0%	probably_damaging(0.985)	deleterious(0)	deleterious(0.877)	NULL
PNMAL2	57469	genome.wustl.edu	37	19	46997756	46997756	+	Nonsense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_020709.1	-1	validated	p.E323*	0.003	67	0%	138	21%	0	-	-	-	-	NULL
ENSG00000230510	0	genome.wustl.edu	37	19	47030217	47030217	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	ENST00000414155	-1	known	p.R64H	1.000	97	0%	77	22.1%	0	-	probably_damaging(0.999)	tolerated(0.13)	deleterious(0.743)	HMMPfam_PPP5
PRKD2	25865	genome.wustl.edu	37	19	47214210	47214210	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001079880.1	-1	reviewed	p.C155	1.000	56	0%	87	21.8%	8	25%	-	-	-	HMMPfam_C1_1,HMMSmart_SM00109,PatternScan_ZF_DAG_PE_1,superfamily_Cysteine-rich domain
SLC1A5	6510	genome.wustl.edu	37	19	47282071	47282071	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_005628.2	-1	validated	p.L307M	0.989	178	0%	279	12.5%	10	10%	benign(0.179)	tolerated(0.14)	neutral(0.266)	HMMPfam_SDF
AP2S1	1175	genome.wustl.edu	37	19	47341791	47341791	+	Silent	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_004069.3	-1	reviewed	p.V114	1.000	55	0%	50	10%	250	21.2%	-	-	-	HMMPfam_Clat_adaptor_s,superfamily_SNARE-like
ARHGAP35	2909	genome.wustl.edu	37	19	47422067	47422067	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_004491.4	+1	reviewed	p.P45	0.024	249	0%	90	22.2%	2	0%	-	-	-	superfamily_P-loop containing nucleoside triphosphate hydrolases
ARHGAP35	2909	genome.wustl.edu	37	19	47424427	47424427	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_004491.4	+1	reviewed	p.R832Q	1.000	382	0%	128	22.7%	3	0%	probably_damaging(0.993)	deleterious(0.02)	deleterious(0.833)	NULL
ARHGAP35	2909	genome.wustl.edu	37	19	47424825	47424825	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_004491.4	+1	reviewed	p.E965K	0.996	94	0%	34	20.6%	1	0%	possibly_damaging(0.927)	tolerated(0.09)	deleterious(0.671)	NULL
ARHGAP35	2909	genome.wustl.edu	37	19	47424921	47424921	+	Nonsense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_004491.4	+1	reviewed	p.R997*	1.000	96	1%	36	38.9%	2	0%	-	-	-	NULL
ARHGAP35	2909	genome.wustl.edu	37	19	47425365	47425365	+	Nonsense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_004491.4	+1	reviewed	p.R1145*	1.000	74	0%	22	27.3%	4	0%	-	-	-	NULL
NPAS1	4861	genome.wustl.edu	37	19	47542353	47542353	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_002517.2	+1	reviewed	p.R250C	1.000	71	0%	160	26.9%	2	50%	probably_damaging(1)	deleterious(0)	deleterious(0.945)	NULL
ZC3H4	23211	genome.wustl.edu	37	19	47570845	47570845	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_015168.1	-1	validated	p.R894C	1.000	17	0%	21	33.3%	2	0%	probably_damaging(1)	deleterious(0.04)	deleterious(0.849)	NULL
SAE1	10055	genome.wustl.edu	37	19	47700573	47700573	+	Nonsense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	ENST00000270225	+1	known	p.R273*	0.850	532	0.2%	301	26.2%	19	0%	-	-	-	superfamily_Activating enzymes of the ubiquitin-like proteins
CCDC9	26093	genome.wustl.edu	37	19	47763620	47763620	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_015603.2	+1	validated	p.A51T	0.934	58	0%	81	22.2%	13	30.7%	probably_damaging(0.98)	deleterious(0)	deleterious(0.869)	NULL
C5AR1	728	genome.wustl.edu	37	19	47824064	47824064	+	Missense_Mutation	SNP	G	G	C	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001736.3	+1	validated	p.A344P	0.000	52	0%	30	23.3%	2	0%	benign(0)	tolerated(0.24)	neutral(0.037)	NULL
DHX34	9704	genome.wustl.edu	37	19	47858455	47858455	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_014681.5	+1	reviewed	p.D289N	1.000	103	0%	106	24.5%	7	14.2%	probably_damaging(1)	deleterious(0.01)	deleterious(0.905)	HMMSmart_SM00487,superfamily_P-loop containing nucleoside triphosphate hydrolases
DHX34	9704	genome.wustl.edu	37	19	47879338	47879338	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_014681.5	+1	reviewed	p.R822Q	1.000	21	0%	39	28.2%	10	20%	probably_damaging(0.999)	deleterious(0.03)	deleterious(0.855)	HMMPfam_DUF1605
NAPA	8775	genome.wustl.edu	37	19	47991635	47991635	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_003827.2	-1	reviewed	p.Y266	0.221	77	1.3%	113	26.5%	138	12.3%	-	-	-	superfamily_TPR-like
NAPA	8775	genome.wustl.edu	37	19	47994064	47994064	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_003827.2	-1	reviewed	p.R239Q	1.000	128	0%	202	23.3%	205	15.6%	probably_damaging(1)	deleterious(0)	deleterious(0.945)	superfamily_TPR-like
NAPA	8775	genome.wustl.edu	37	19	47996260	47996260	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_003827.2	-1	reviewed	p.A173	0.002	152	0%	268	26.1%	156	10.8%	-	-	-	superfamily_TPR-like
ZNF541	84215	genome.wustl.edu	37	19	48043580	48043580	+	Silent	SNP	G	G	A	rs146851053	by1000genomes	TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	ENST00000263351	-1	known	p.T416M	0.000	140	1.4%	208	25.5%	0	-	-	-	-	NULL
ZNF541	84215	genome.wustl.edu	37	19	48048040	48048040	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	ENST00000263351	-1	known	p.R173H	0.002	8	0.000	26	0.231	0	-	-	-	-	NULL
ZNF541	84215	genome.wustl.edu	37	19	48048143	48048143	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001101419.1	-1	validated	p.P548H	0.943	24	0%	42	16.7%	0	-	benign(0.267)	deleterious(0)	deleterious(0.473)	NULL
GLTSCR1	29998	genome.wustl.edu	37	19	48205505	48205505	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_015711.3	+1	provisional	p.D1506N	1.000	5	0.000	23	0.391	4	25%	probably_damaging(0.998)	deleterious(0)	deleterious(0.919)	NULL
EHD2	30846	genome.wustl.edu	37	19	48221862	48221862	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_014601.3	+1	reviewed	p.R167	0.023	109	0%	205	23.9%	18	0%	-	-	-	HMMPfam_Dynamin_N,superfamily_P-loop containing nucleoside triphosphate hydrolases
EHD2	30846	genome.wustl.edu	37	19	48229151	48229151	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_014601.3	+1	reviewed	p.E195	1.000	51	0%	66	12.1%	22	0%	-	-	-	HMMPfam_Dynamin_N,superfamily_P-loop containing nucleoside triphosphate hydrolases
EHD2	30846	genome.wustl.edu	37	19	48229318	48229318	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_014601.3	+1	reviewed	p.R251H	1.000	27	0%	45	15.6%	26	0%	probably_damaging(1)	deleterious(0)	deleterious(0.945)	superfamily_P-loop containing nucleoside triphosphate hydrolases
CABP5	56344	genome.wustl.edu	37	19	48547142	48547142	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_019855.3	-1	reviewed	p.R13M	0.984	123	0%	72	16.7%	0	-	probably_damaging(0.959)	deleterious(0.01)	deleterious(0.808)	NULL
PLA2G4C	8605	genome.wustl.edu	37	19	48602999	48602999	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_003706.2	-1	reviewed	p.A126S	0.001	233	0%	106	25.5%	11	0%	probably_damaging(0.972)	tolerated(0.5)	neutral(0.424)	HMMSmart_PLAc,superfamily_Acyl_Trfase/lysoPlipase
LIG1	3978	genome.wustl.edu	37	19	48626458	48626458	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_000234.1	-1	reviewed	p.A708T	0.979	78	0%	75	21.3%	29	27.5%	benign(0.163)	tolerated(0.13)	neutral(0.267)	HMMPfam_DNA_ligase_A_M,superfamily_DNA ligase/mRNA capping enzyme catalytic domain
LIG1	3978	genome.wustl.edu	37	19	48653460	48653460	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_000234.1	-1	reviewed	p.E194D	0.026	166	0%	147	20.4%	9	55.5%	benign(0.076)	tolerated(0.32)	neutral(0.029)	NULL
ZNF114	163071	genome.wustl.edu	37	19	48790096	48790096	+	Silent	SNP	A	A	G	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_153608.1	+1	provisional	p.K405	0.001	78	0%	130	22.3%	1	0%	-	-	-	HMMPfam_zf-C2H2,PatternScan_ZINC_FINGER_C2H2_1,HMMSmart_SM00355,superfamily_C2H2 and C2HC zinc fingers
CCDC114	93233	genome.wustl.edu	37	19	48801452	48801452	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_144577.3	-1	validated	p.Q425	1.000	71	0%	122	26.2%	0	-	-	-	-	NULL
CCDC114	93233	genome.wustl.edu	37	19	48821805	48821805	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_144577.3	-1	validated	p.R30W	0.032	32	0%	93	31.2%	0	-	probably_damaging(1)	deleterious(0.01)	deleterious(0.905)	NULL
EMP3	2014	genome.wustl.edu	37	19	48830840	48830840	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001425.2	+1	validated	p.N47	0.036	207	0%	312	25.3%	211	0%	-	-	-	HMMPfam_PMP22_Claudin
KDELR1	10945	genome.wustl.edu	37	19	48887514	48887514	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_006801.2	-1	reviewed	p.D193N	1.000	63	0%	70	22.9%	267	18.3%	probably_damaging(0.998)	deleterious(0)	deleterious(0.919)	NULL
KDELR1	10945	genome.wustl.edu	37	19	48887585	48887585	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_006801.2	-1	reviewed	p.R169H	1.000	93	0%	98	34.7%	234	18.8%	probably_damaging(1)	deleterious(0)	deleterious(0.945)	HMMPfam_ER_lumen_recept
GRIN2D	2906	genome.wustl.edu	37	19	48917270	48917270	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_000836.2	+1	reviewed	p.D370N	1.000	136	0%	133	31.6%	0	-	benign(0.32)	tolerated(0.09)	neutral(0.396)	HMMPfam_ANF_receptor,superfamily_SSF53822
GRWD1	83743	genome.wustl.edu	37	19	48954478	48954478	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_031485.3	+1	validated	p.R338Q	1.000	47	0%	55	25.5%	9	0%	probably_damaging(1)	deleterious(0)	deleterious(0.945)	superfamily_WD40 repeat-like
GRWD1	83743	genome.wustl.edu	37	19	48956056	48956056	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_031485.3	+1	validated	p.S372L	1.000	33	0%	72	26.4%	10	20%	probably_damaging(0.988)	deleterious(0.01)	deleterious(0.843)	HMMSmart_SM00320,superfamily_WD40 repeat-like,HMMPfam_WD40
CYTH2	9266	genome.wustl.edu	37	19	48977224	48977224	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_017457.4	+1	reviewed	p.A166V	1.000	85	0%	117	24.8%	57	8.7%	possibly_damaging(0.935)	deleterious(0.02)	deleterious(0.764)	HMMPfam_Sec7,HMMSmart_SM00222,superfamily_Sec7 domain
SULT2B1	6820	genome.wustl.edu	37	19	49079265	49079265	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_177973.1	+1	reviewed	p.E47K	0.969	114	0%	81	19.8%	2	50%	benign(0.011)	tolerated(0.07)	neutral(0.320)	superfamily_P-loop containing nucleoside triphosphate hydrolases
SULT2B1	6820	genome.wustl.edu	37	19	49090676	49090676	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_177973.1	+1	reviewed	p.F135L	0.998	105	0%	137	29.2%	4	50%	possibly_damaging(0.935)	tolerated(0.31)	neutral(0.408)	HMMPfam_Sulfotransfer_1,superfamily_P-loop containing nucleoside triphosphate hydrolases
SULT2B1	6820	genome.wustl.edu	37	19	49102411	49102411	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_177973.1	+1	reviewed	p.K282N	1.000	13	0%	33	24.2%	35	40%	probably_damaging(1)	deleterious(0)	deleterious(0.945)	HMMPfam_Sulfotransfer_1,superfamily_P-loop containing nucleoside triphosphate hydrolases
RASIP1	54922	genome.wustl.edu	37	19	49228158	49228158	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_017805.2	-1	validated	p.E729	1.000	62	0%	97	30.9%	18	0%	-	-	-	NULL
RASIP1	54922	genome.wustl.edu	37	19	49230143	49230143	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_017805.2	-1	validated	p.P676S	1.000	123	0%	200	30.5%	11	0%	benign(0.004)	tolerated(0.79)	neutral(0.001)	NULL
FUT1	2523	genome.wustl.edu	37	19	49254357	49254357	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_000148.3	-1	reviewed	p.A61V	0.001	44	0%	144	29.2%	0	-	benign(0)	tolerated(0.26)	neutral(0.034)	HMMPfam_Glyco_transf_11
FUT1	2523	genome.wustl.edu	37	19	49254520	49254520	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_000148.3	-1	reviewed	p.R7C	0.003	83	0%	169	15.4%	1	0%	probably_damaging(0.997)	deleterious(0)	deleterious(0.911)	NULL
TULP2	7288	genome.wustl.edu	37	19	49388731	49388731	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_003323.2	-1	validated	p.D345	0.983	328	0%	273	22.3%	0	-	-	-	-	HMMPfam_Tub,superfamily_Tubby_C
NUCB1	4924	genome.wustl.edu	37	19	49416411	49416411	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	ENST00000424608	+1	known	p.S178N	1.000	154	0%	147	28.6%	71	8.4%	-	-	-	NULL
DHDH	27294	genome.wustl.edu	37	19	49445748	49445748	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_014475.3	+1	reviewed	p.G224V	0.953	27	0%	28	46.4%	0	-	possibly_damaging(0.576)	deleterious(0)	deleterious(0.642)	superfamily_SSF55347
GYS1	2997	genome.wustl.edu	37	19	49472715	49472715	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_002103.4	-1	reviewed	p.A682T	0.998	17	0%	40	25%	11	27.2%	benign(0.007)	tolerated(0.55)	neutral(0.007)	NULL
KCNA7	3743	genome.wustl.edu	37	19	49573762	49573762	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_031886.2	-1	reviewed	p.R310H	1.000	75	0%	154	11.7%	0	-	probably_damaging(1)	tolerated(0.08)	deleterious(0.800)	HMMPfam_Ion_trans,superfamily_SSF81324
SNRNP70	6625	genome.wustl.edu	37	19	49601736	49601736	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_003089.4	+1	validated	p.F106	0.998	132	0%	232	14.2%	160	18.1%	-	-	-	HMMPfam_RRM_1,HMMSmart_SM00360,superfamily_RNA-binding domain RBD
PPFIA3	8541	genome.wustl.edu	37	19	49632242	49632242	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_003660.2	+1	reviewed	p.F160	1.000	99	0%	169	18.9%	0	-	-	-	-	NULL
PPFIA3	8541	genome.wustl.edu	37	19	49636351	49636351	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_003660.2	+1	reviewed	p.A325T	0.999	45	0%	87	13.8%	1	0%	benign(0.125)	deleterious(0.02)	neutral(0.394)	NULL
PPFIA3	8541	genome.wustl.edu	37	19	49637125	49637125	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_003660.2	+1	reviewed	p.E412K	1.000	41	0%	97	27.8%	0	-	probably_damaging(0.999)	deleterious(0.04)	deleterious(0.839)	NULL
PPFIA3	8541	genome.wustl.edu	37	19	49641641	49641641	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_003660.2	+1	reviewed	p.R678H	1.000	46	0%	81	27.2%	1	0%	probably_damaging(0.987)	deleterious(0.02)	deleterious(0.820)	NULL
PPFIA3	8541	genome.wustl.edu	37	19	49645290	49645290	+	Splice_Site	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_003660.2	+1	reviewed	e19-1	1.000	30	0%	53	15.1%	0	-	-	-	-	-
TRPM4	54795	genome.wustl.edu	37	19	49674876	49674876	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_017636.2	+1	provisional	p.L300	1.000	25	0%	46	17.4%	0	-	-	-	-	NULL
TRPM4	54795	genome.wustl.edu	37	19	49691994	49691994	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_017636.2	+1	provisional	p.D614Y	1.000	231	0%	331	11.8%	9	11.1%	probably_damaging(0.961)	deleterious(0.01)	deleterious(0.810)	NULL
TRPM4	54795	genome.wustl.edu	37	19	49705354	49705354	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_017636.2	+1	provisional	p.L1029	0.968	100	0%	149	28.2%	28	32.1%	-	-	-	HMMPfam_Ion_trans
TRPM4	54795	genome.wustl.edu	37	19	49713497	49713497	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_017636.2	+1	provisional	p.D1055N	1.000	83	0%	81	23.5%	22	27.2%	probably_damaging(0.999)	deleterious(0)	deleterious(0.935)	NULL
SLC6A16	28968	genome.wustl.edu	37	19	49797090	49797090	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_014037.2	-1	validated	p.L538F	0.585	422	0%	224	10.7%	1	0%	benign(0.377)	tolerated(0.16)	neutral(0.180)	HMMPfam_SNF
SLC6A16	28968	genome.wustl.edu	37	19	49797801	49797801	+	Missense_Mutation	SNP	T	T	G	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_014037.2	-1	validated	p.E413D	0.000	313	0%	116	35.3%	0	-	benign(0.225)	tolerated(0.24)	neutral(0.060)	HMMPfam_SNF
CD37	951	genome.wustl.edu	37	19	49841957	49841957	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001774.2	+1	reviewed	p.L150	1.000	26	0%	46	13%	52	0%	-	-	-	superfamily_Tetraspanin,HMMPfam_Tetraspannin
CCDC155	147872	genome.wustl.edu	37	19	49920699	49920699	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_144688.4	+1	validated	p.L541I	1.000	144	0%	251	27.1%	0	-	possibly_damaging(0.664)	tolerated(0.1)	deleterious(0.521)	NULL
ALDH16A1	126133	genome.wustl.edu	37	19	49971730	49971730	+	Silent	SNP	C	C	T	rs187058132	by1000genomes	TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_153329.3	+1	reviewed	p.F677	0.980	92	0%	173	27.2%	53	18.8%	-	-	-	HMMPfam_Aldedh,superfamily_ALDH-like
FCGRT	2217	genome.wustl.edu	37	19	50028780	50028780	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001136019.2	+1	reviewed	p.A313V	0.000	86	0%	120	21.7%	274	4.3%	benign(0)	tolerated(0.41)	neutral(0.015)	NULL
NOSIP	51070	genome.wustl.edu	37	19	50063238	50063238	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_015953.3	-1	provisional	p.F43	0.909	104	0%	181	22.1%	87	20.6%	-	-	-	superfamily_SSF57850
PRR12	57479	genome.wustl.edu	37	19	50128232	50128232	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_020719.1	+1	validated	p.S1951	0.658	69	0%	89	28.1%	20	30%	-	-	-	NULL
SCAF1	58506	genome.wustl.edu	37	19	50154322	50154322	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_021228.2	+1	validated	p.D226N	0.964	59	0%	90	18.9%	0	-	unknown(0)	deleterious(0)	-	NULL
PRMT1	3276	genome.wustl.edu	37	19	50188201	50188201	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001536.3	+1	validated	p.F222	0.900	95	0%	152	13.2%	219	14.1%	-	-	-	superfamily_S-adenosyl-L-methionine-dependent methyltransferases
PRMT1	3276	genome.wustl.edu	37	19	50189936	50189936	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001536.3	+1	validated	p.E329K	1.000	28	0%	34	20.6%	545	26.7%	probably_damaging(0.979)	deleterious(0)	deleterious(0.867)	superfamily_S-adenosyl-L-methionine-dependent methyltransferases
CPT1C	126129	genome.wustl.edu	37	19	50209590	50209590	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_152359.1	+1	provisional	p.P421	0.339	24	0%	56	16.1%	1	0%	-	-	-	HMMPfam_Carn_acyltransf,superfamily_CoA-dependent acyltransferases
CPT1C	126129	genome.wustl.edu	37	19	50216096	50216096	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_152359.1	+1	provisional	p.G708E	1.000	83	0%	116	15.5%	6	0%	probably_damaging(1)	deleterious(0)	deleterious(0.945)	HMMPfam_Carn_acyltransf,superfamily_CoA-dependent acyltransferases
CPT1C	126129	genome.wustl.edu	37	19	50216851	50216851	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_152359.1	+1	provisional	p.T801A	0.001	57	0%	56	26.8%	13	7.6%	benign(0)	deleterious(0)	neutral(0.445)	NULL
TSKS	60385	genome.wustl.edu	37	19	50249904	50249904	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_021733.1	-1	reviewed	p.S272N	0.904	9	0.000	36	0.444	0	-	benign(0.001)	deleterious(0.04)	neutral(0.349)	NULL
PTOV1	53635	genome.wustl.edu	37	19	50360304	50360304	+	Missense_Mutation	SNP	A	A	C	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_017432.3	+1	provisional	p.K211Q	1.000	97	1%	163	23.3%	317	17.9%	probably_damaging(0.995)	deleterious(0.01)	deleterious(0.863)	NULL
AKT1S1	84335	genome.wustl.edu	37	19	50376379	50376379	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001098632.1	-1	validated	p.A58	0.998	32	0%	70	15.7%	3	0%	-	-	-	NULL
TBC1D17	79735	genome.wustl.edu	37	19	50387942	50387942	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_024682.2	+1	validated	p.E457D	1.000	175	0%	250	26.4%	89	16.8%	possibly_damaging(0.638)	tolerated(0.22)	neutral(0.266)	HMMPfam_TBC,HMMSmart_SM00164,superfamily_Ypt/Rab-GAP domain of gyp1p
IL4I1	259307	genome.wustl.edu	37	19	50398408	50398408	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_172374.1	-1	reviewed	p.I116	0.552	87	0%	137	11.7%	7	0%	-	-	-	HMMPfam_Amino_oxidase,superfamily_FAD/NAD(P)-binding domain
ATF5	22809	genome.wustl.edu	37	19	50434165	50434165	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_012068.4	+1	validated	p.G20R	1.000	30	0%	41	22%	15	6.6%	probably_damaging(0.961)	deleterious(0.05)	deleterious(0.750)	NULL
ATF5	22809	genome.wustl.edu	37	19	50435840	50435840	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_012068.4	+1	validated	p.D114Y	1.000	11	0%	32	18.8%	1	0%	probably_damaging(1)	deleterious(0)	deleterious(0.945)	NULL
ZNF473	25888	genome.wustl.edu	37	19	50550117	50550117	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001006656.1	+1	validated	p.R806I	0.062	185	0%	77	26%	5	40%	probably_damaging(0.987)	tolerated(0.19)	deleterious(0.486)	HMMPfam_zf-C2H2,PatternScan_ZINC_FINGER_C2H2_1,HMMSmart_SM00355,superfamily_C2H2 and C2HC zinc fingers
LOC100287477	100287477	genome.wustl.edu	37	19	50562830	50562830	+	Nonsense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	XM_002343656.1	-1	model	p.R277*	0.924	25	0%	32	18.8%	0	-	-	-	-	HMMPfam_zf-C2H2,PatternScan_ZINC_FINGER_C2H2_1,HMMSmart_SM00355,superfamily_C2H2 and C2HC zinc fingers
MYH14	79784	genome.wustl.edu	37	19	50713890	50713890	+	Nonsense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001077186.1	+1	reviewed	p.R90*	1.000	12	0%	24	25%	0	-	-	-	-	HMMPfam_Myosin_N,superfamily_P-loop containing nucleoside triphosphate hydrolases
MYH14	79784	genome.wustl.edu	37	19	50758525	50758525	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	ENST00000440075	+1	known	p.S665L	0.768	160	0%	215	23.7%	0	-	benign(0)	tolerated(0.33)	neutral(0.024)	HMMPfam_Myosin_head,HMMSmart_MYSc,superfamily_SSF52540
MYH14	79784	genome.wustl.edu	37	19	50758526	50758526	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	ENST00000440075	+1	known	p.S665	0.818	159	0%	206	21.4%	0	-	-	-	-	HMMPfam_Myosin_head,HMMSmart_MYSc,superfamily_SSF52540
MYH14	79784	genome.wustl.edu	37	19	50810310	50810310	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001077186.1	+1	reviewed	p.R1862C	1.000	165	0%	181	23.8%	18	11.1%	probably_damaging(1)	deleterious(0)	deleterious(0.945)	HMMPfam_Myosin_tail_1
MYH14	79784	genome.wustl.edu	37	19	50812970	50812970	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001077186.1	+1	reviewed	p.E1979K	1.000	56	0%	97	20.6%	25	76%	unknown(0)	tolerated(0.08)	-	NULL
NAPSA	9476	genome.wustl.edu	37	19	50864331	50864331	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_004851.1	-1	reviewed	p.A179T	0.024	122	0%	146	19.2%	2	0%	benign(0)	tolerated(0.09)	neutral(0.296)	HMMPfam_Asp,superfamily_Pept_Aspartic
NAPSA	9476	genome.wustl.edu	37	19	50865026	50865026	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_004851.1	-1	reviewed	p.R121Q	0.023	82	0%	118	28%	2	0%	probably_damaging(0.999)	tolerated(0.08)	deleterious(0.790)	HMMPfam_Asp,superfamily_Pept_Aspartic
MYBPC2	4606	genome.wustl.edu	37	19	50957549	50957549	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_004533.3	+1	validated	p.R646H	0.965	28	0%	34	38.2%	1	100%	benign(0.043)	tolerated(0.05)	neutral(0.348)	HMMPfam_fn3,HMMSmart_FN3,superfamily_FN_III-like
SYT3	84258	genome.wustl.edu	37	19	51128711	51128711	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_032298.2	-1	validated	p.D505N	1.000	92	0%	161	26.1%	0	-	possibly_damaging(0.685)	deleterious(0.02)	deleterious(0.627)	HMMPfam_C2,HMMSmart_C2,superfamily_C2_CaLB
SYT3	84258	genome.wustl.edu	37	19	51129177	51129177	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_032298.2	-1	validated	p.A460V	1.000	114	0%	209	24.4%	0	-	probably_damaging(0.955)	deleterious(0)	deleterious(0.843)	HMMPfam_C2,HMMSmart_C2,superfamily_C2_CaLB
SYT3	84258	genome.wustl.edu	37	19	51136040	51136040	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_032298.2	-1	validated	p.I59	1.000	91	0%	163	31.9%	0	-	-	-	-	NULL
SHANK1	50944	genome.wustl.edu	37	19	51165490	51165490	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_016148.2	-1	validated	p.S2073L	0.989	24	0%	68	22.1%	0	-	possibly_damaging(0.847)	deleterious(0)	deleterious(0.770)	NULL
C19orf48	84798	genome.wustl.edu	37	19	51301414	51301414	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_199249.1	-1	validated	p.A98T	0.000	60	0%	91	12.1%	76	22.3%	unknown(0)	-	-	NULL
KLK3	354	genome.wustl.edu	37	19	51359545	51359545	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001648.2	+1	reviewed	p.E32D	0.001	103	0%	36	22.2%	0	-	benign(0.077)	tolerated(0.16)	neutral(0.065)	HMMPfam_Trypsin,HMMSmart_SM00020,superfamily_Trypsin-like serine proteases
KLK6	5653	genome.wustl.edu	37	19	51470546	51470546	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001012964.1	-1	reviewed	p.G26R	0.000	125	0%	127	18.9%	0	-	benign(0.175)	tolerated(0.49)	neutral(0.027)	HMMPfam_Trypsin,HMMSmart_SM00020,superfamily_Trypsin-like serine proteases
KLK8	11202	genome.wustl.edu	37	19	51499358	51499358	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_144505.1	-1	reviewed	p.R292H	1.000	266	0%	125	22.4%	0	-	benign(0.094)	tolerated(0.29)	neutral(0.036)	HMMPfam_Trypsin,HMMSmart_Tryp_SPc,superfamily_Pept_Ser_Cys
KLK13	26085	genome.wustl.edu	37	19	51563142	51563142	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_015596.1	-1	reviewed	p.R150C	0.486	134	0%	118	26.3%	0	-	benign(0)	tolerated(0.24)	neutral(0.037)	HMMPfam_Trypsin,HMMSmart_SM00020,superfamily_Trypsin-like serine proteases
KLK13	26085	genome.wustl.edu	37	19	51563800	51563800	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	ENST00000441527	-1	known	p.P45S	0.013	143	0%	157	29.3%	2	0%	unknown(0)	-	-	NULL
SIGLEC9	27180	genome.wustl.edu	37	19	51630407	51630407	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_014441.1	+1	provisional	p.R290I	0.000	85	0%	67	22.4%	1	0%	possibly_damaging(0.68)	tolerated(0.06)	deleterious(0.565)	HMMSmart_IG,HMMPfam_ig,superfamily_SSF48726
SIGLEC9	27180	genome.wustl.edu	37	19	51633332	51633332	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_014441.1	+1	provisional	p.R463I	0.012	78	0%	45	20%	1	0%	benign(0.029)	deleterious(0.01)	neutral(0.407)	NULL
CD33	945	genome.wustl.edu	37	19	51728511	51728511	+	Silent	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001772.3	+1	validated	p.V25	0.001	81	0%	38	18.4%	0	-	-	-	-	HMMPfam_V-set,superfamily_Immunoglobulin
CD33	945	genome.wustl.edu	37	19	51728551	51728551	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001772.3	+1	validated	p.V39M	0.488	87	0%	37	35.1%	0	-	probably_damaging(1)	deleterious(0)	deleterious(0.945)	HMMSmart_SM00409,HMMPfam_V-set,superfamily_Immunoglobulin
CD33	945	genome.wustl.edu	37	19	51729272	51729272	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001772.3	+1	validated	p.T211I	0.996	109	0%	52	13.5%	1	0%	benign(0.338)	deleterious(0.03)	deleterious(0.471)	HMMSmart_SM00409,HMMPfam_ig,superfamily_Immunoglobulin
CD33	945	genome.wustl.edu	37	19	51742794	51742794	+	Missense_Mutation	SNP	T	T	G	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001772.3	+1	validated	p.L316V	0.001	273	0%	169	23.7%	5	0%	benign(0.138)	tolerated(0.24)	neutral(0.049)	NULL
SIGLEC12	89858	genome.wustl.edu	37	19	52003380	52003380	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_053003.2	-1	reviewed	p.I201T	0.001	315	0%	99	20.2%	0	-	benign(0.001)	tolerated(0.46)	neutral(0.012)	HMMSmart_SM00408,HMMSmart_SM00409,HMMPfam_V-set,superfamily_Immunoglobulin
SIGLEC5	8778	genome.wustl.edu	37	19	52130441	52130441	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_003830.2	-1	validated	p.A448V	0.000	173	0%	134	14.9%	0	-	benign(0.242)	deleterious(0)	deleterious(0.469)	NULL
SIGLEC5	8778	genome.wustl.edu	37	19	52133242	52133242	+	Nonsense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_003830.2	-1	validated	p.R89*	0.045	281	0%	126	23%	0	-	-	-	-	HMMSmart_IG,HMMPfam_V-set,superfamily_SSF48726
HAS1	3036	genome.wustl.edu	37	19	52219641	52219641	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001523.2	-1	reviewed	p.G310V	1.000	153	0%	279	25.1%	0	-	probably_damaging(1)	deleterious(0)	deleterious(0.945)	HMMPfam_Glycos_transf_2,superfamily_SSF53448
HAS1	3036	genome.wustl.edu	37	19	52222641	52222641	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001523.2	-1	reviewed	p.A174T	0.995	9	0.000	27	0.296	0	-	benign(0.018)	tolerated(0.65)	neutral(0.004)	superfamily_SSF53448
FPR2	2358	genome.wustl.edu	37	19	52272568	52272568	+	Silent	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001005738.1	+1	validated	p.I219	0.998	283	0.4%	149	19.5%	0	-	-	-	-	HMMPfam_7tm_1,superfamily_Family A G protein-coupled receptor-like
FPR3	2359	genome.wustl.edu	37	19	52327074	52327074	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_002030.3	+1	validated	p.L25M	0.048	170	0%	50	24%	0	-	probably_damaging(0.997)	deleterious(0.03)	deleterious(0.831)	superfamily_Family A G protein-coupled receptor-like
FPR3	2359	genome.wustl.edu	37	19	52327411	52327411	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_002030.3	+1	validated	p.R137H	0.959	215	0.5%	42	21.4%	0	-	probably_damaging(0.98)	deleterious(0.04)	deleterious(0.773)	HMMPfam_7tm_1,superfamily_Family A G protein-coupled receptor-like
ZNF577	84765	genome.wustl.edu	37	19	52376039	52376039	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_032679.2	-1	validated	p.E402K	0.027	165	0%	53	26.4%	12	25%	possibly_damaging(0.763)	tolerated(0.06)	deleterious(0.605)	NULL
ZNF649	65251	genome.wustl.edu	37	19	52393997	52393997	+	Missense_Mutation	SNP	T	T	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_023074.3	-1	validated	p.E464D	0.003	257	0%	142	10.6%	3	0%	benign(0.189)	tolerated(0.5)	neutral(0.028)	NULL
ZNF649	65251	genome.wustl.edu	37	19	52394686	52394686	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_023074.3	-1	validated	p.G235R	0.000	244	0%	148	23.6%	3	0%	benign(0.01)	tolerated(0.42)	neutral(0.015)	HMMPfam_zf-C2H2,HMMSmart_ZnF_C2H2,superfamily_SSF57667
ZNF613	79898	genome.wustl.edu	37	19	52448864	52448864	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001031721.3	+1	validated	p.M576I	0.002	127	0%	94	27.7%	17	35.2%	benign(0.071)	deleterious(0)	neutral(0.450)	NULL
PPP2R1A	5518	genome.wustl.edu	37	19	52716217	52716217	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_014225.5	+1	reviewed	p.R221W	1.000	38	0%	50	14%	82	0%	probably_damaging(1)	deleterious(0)	deleterious(0.945)	HMMPfam_HEAT,superfamily_ARM repeat
PPP2R1A	5518	genome.wustl.edu	37	19	52724323	52724323	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_014225.5	+1	reviewed	p.K485	1.000	149	0%	103	16.5%	329	3.9%	-	-	-	HMMPfam_HEAT,superfamily_ARM repeat
ZNF766	90321	genome.wustl.edu	37	19	52794016	52794016	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001010851.2	+1	validated	p.E324D	1.000	115	0%	122	22.1%	2	0%	possibly_damaging(0.906)	deleterious(0.02)	deleterious(0.742)	superfamily_C2H2 and C2HC zinc fingers
ZNF480	147657	genome.wustl.edu	37	19	52825228	52825228	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_144684.2	+1	validated	p.R242H	0.000	114	0%	46	34.8%	0	-	benign(0.003)	tolerated(0.28)	neutral(0.032)	HMMPfam_zf-C2H2,PatternScan_ZINC_FINGER_C2H2_1,HMMSmart_SM00355,superfamily_C2H2 and C2HC zinc fingers
ZNF480	147657	genome.wustl.edu	37	19	52825439	52825439	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_144684.2	+1	validated	p.E312D	0.673	155	0%	37	35.1%	1	0%	benign(0.243)	deleterious(0.05)	neutral(0.370)	superfamily_C2H2 and C2HC zinc fingers
ZNF610	162963	genome.wustl.edu	37	19	52857566	52857566	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_173530.2	+1	validated	p.L85M	0.001	379	0%	189	11.1%	4	25%	possibly_damaging(0.898)	tolerated(1)	neutral(0.354)	NULL
ZNF528	84436	genome.wustl.edu	37	19	52919034	52919034	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_032423.2	+1	validated	p.A310V	0.010	109	0%	50	10%	0	-	possibly_damaging(0.744)	tolerated(0.05)	deleterious(0.619)	HMMPfam_zf-C2H2,PatternScan_ZINC_FINGER_C2H2_1,HMMSmart_SM00355,superfamily_C2H2 and C2HC zinc fingers
ZNF528	84436	genome.wustl.edu	37	19	52919559	52919559	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_032423.2	+1	validated	p.R485I	0.789	153	0%	61	9.8%	0	-	probably_damaging(0.989)	tolerated(0.13)	deleterious(0.692)	HMMPfam_zf-C2H2,PatternScan_ZINC_FINGER_C2H2_1,HMMSmart_SM00355,superfamily_C2H2 and C2HC zinc fingers
ZNF578	147660	genome.wustl.edu	37	19	53014906	53014906	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001099694.1	+1	validated	p.E424D	1.000	238	0%	122	27.9%	0	-	possibly_damaging(0.723)	deleterious(0.02)	deleterious(0.645)	superfamily_Multiheme cytochromes
ZNF808	388558	genome.wustl.edu	37	19	53057926	53057926	+	Missense_Mutation	SNP	G	G	A	rs190213756	by1000genomes	TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001039886.3	+1	validated	p.R586H	0.003	118	0%	54	18.5%	2	0%	benign(0.001)	tolerated(0.19)	neutral(0.050)	HMMPfam_zf-C2H2,PatternScan_ZINC_FINGER_C2H2_1,HMMSmart_SM00355,superfamily_C2H2 and C2HC zinc fingers
ZNF701	55762	genome.wustl.edu	37	19	53086255	53086255	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_018260.2	+1	validated	p.R315C	0.000	273	0.4%	345	25.5%	2	0%	benign(0.014)	tolerated(0.07)	neutral(0.320)	HMMPfam_zf-C2H2,PatternScan_ZINC_FINGER_C2H2_1,HMMSmart_SM00355,superfamily_Multiheme cytochromes
ZNF83	55769	genome.wustl.edu	37	19	53117119	53117119	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001105549.1	-1	validated	p.Y233	0.036	122	0%	56	16.1%	17	17.6%	-	-	-	HMMPfam_zf-C2H2,HMMSmart_SM00355,superfamily_C2H2 and C2HC zinc fingers
ZNF83	55769	genome.wustl.edu	37	19	53117466	53117466	+	Nonsense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001105549.1	-1	validated	p.E118*	0.658	178	0%	83	28.9%	4	75%	-	-	-	superfamily_C2H2 and C2HC zinc fingers
ZNF611	81856	genome.wustl.edu	37	19	53208215	53208215	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_030972.3	-1	validated	p.R698K	0.493	152	0.7%	97	25.8%	1	100%	benign(0.003)	tolerated(0.28)	neutral(0.032)	HMMPfam_zf-C2H2,PatternScan_ZINC_FINGER_C2H2_1,HMMSmart_SM00355,superfamily_C2H2 and C2HC zinc fingers
ZNF611	81856	genome.wustl.edu	37	19	53209848	53209848	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_030972.3	-1	validated	p.D154Y	0.000	622	0%	310	20.3%	1	0%	benign(0.159)	tolerated(0.06)	neutral(0.337)	NULL
ZNF600	162966	genome.wustl.edu	37	19	53269213	53269213	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_198457.2	-1	validated	p.R599I	0.000	298	0%	116	20.7%	13	15.3%	benign(0.009)	tolerated(0.26)	neutral(0.035)	HMMPfam_zf-C2H2,PatternScan_ZINC_FINGER_C2H2_1,HMMSmart_SM00355,superfamily_C2H2 and C2HC zinc fingers
ZNF600	162966	genome.wustl.edu	37	19	53269459	53269459	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_198457.2	-1	validated	p.R517H	0.397	296	0%	101	11.9%	5	20%	benign(0.011)	tolerated(0.15)	neutral(0.241)	HMMPfam_zf-C2H2,PatternScan_ZINC_FINGER_C2H2_1,HMMSmart_SM00355,superfamily_C2H2 and C2HC zinc fingers
ENSG00000245932	0	genome.wustl.edu	37	19	53302457	53302457	+	RNA	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	ENST00000500436	+1	known	NULL	0.804	68	0%	66	13.6%	0	-	-	-	-	-
ZNF320	162967	genome.wustl.edu	37	19	53384797	53384797	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_207333.2	-1	validated	p.C194	0.993	391	0%	133	29.3%	3	0%	-	-	-	HMMPfam_zf-C2H2,PatternScan_ZINC_FINGER_C2H2_1,HMMSmart_ZnF_C2H2,superfamily_SSF57667
ZNF320	162967	genome.wustl.edu	37	19	53384934	53384934	+	Nonsense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_207333.2	-1	validated	p.R149*	0.040	270	0%	140	12.1%	1	0%	-	-	-	superfamily_SSF57667
LOC388559	388559	genome.wustl.edu	37	19	53410146	53410146	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	XM_496322.5	-1	model	p.R459C	0.000	348	0.3%	173	17.9%	0	-	-	-	-	HMMPfam_zf-C2H2,PatternScan_ZINC_FINGER_C2H2_1,HMMSmart_SM00355,superfamily_C2H2 and C2HC zinc fingers
ZNF816	125893	genome.wustl.edu	37	19	53454000	53454000	+	Missense_Mutation	SNP	C	C	G	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001031665.1	-1	validated	p.C343S	0.762	368	0%	392	22.7%	9	88.8%	probably_damaging(1)	deleterious(0)	deleterious(0.945)	HMMPfam_zf-C2H2,PatternScan_ZINC_FINGER_C2H2_1,HMMSmart_ZnF_C2H2,superfamily_SSF48695,superfamily_SSF57667
ZNF347	84671	genome.wustl.edu	37	19	53643617	53643617	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_032584.2	-1	validated	p.V822M	0.000	396	0%	238	13.9%	1	0%	possibly_damaging(0.578)	deleterious(0)	deleterious(0.643)	NULL
VN1R2	317701	genome.wustl.edu	37	19	53761997	53761997	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_173856.2	+1	validated	p.S123	0.000	317	0%	480	14.6%	0	-	-	-	-	superfamily_SSF81321
VN1R2	317701	genome.wustl.edu	37	19	53762185	53762185	+	Missense_Mutation	SNP	T	T	G	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_173856.2	+1	validated	p.F186C	0.923	89	0%	138	13.8%	0	-	probably_damaging(0.997)	deleterious(0)	deleterious(0.911)	HMMPfam_V1R,superfamily_SSF81321
ZNF845	91664	genome.wustl.edu	37	19	53854366	53854366	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_138374.1	+1	validated	p.S146	0.006	335	0%	287	11.1%	0	-	-	-	-	NULL
ZNF845	91664	genome.wustl.edu	37	19	53854695	53854695	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_138374.1	+1	validated	p.R256Q	0.000	381	0%	320	21.6%	0	-	benign(0.133)	tolerated(0.09)	neutral(0.307)	HMMPfam_zf-C2H2,PatternScan_ZINC_FINGER_C2H2_1,HMMSmart_SM00355,superfamily_C2H2 and C2HC zinc fingers
ZNF845	91664	genome.wustl.edu	37	19	53855322	53855322	+	Missense_Mutation	SNP	A	A	C	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_138374.1	+1	validated	p.K465T	1.000	192	0%	173	12.7%	2	0%	possibly_damaging(0.822)	deleterious(0)	deleterious(0.756)	superfamily_C2H2 and C2HC zinc fingers
ZNF845	91664	genome.wustl.edu	37	19	53855783	53855783	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_138374.1	+1	validated	p.R619C	0.000	204	0%	204	21.6%	0	-	probably_damaging(0.998)	tolerated(0.08)	deleterious(0.774)	HMMPfam_zf-C2H2,PatternScan_ZINC_FINGER_C2H2_1,HMMSmart_SM00355,superfamily_C2H2 and C2HC zinc fingers
ZNF525	170958	genome.wustl.edu	37	19	53884139	53884139	+	Nonsense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	ENST00000474037	+1	known	p.E103*	0.014	324	0%	210	20.5%	1	0%	-	-	-	NULL
ZNF525	170958	genome.wustl.edu	37	19	53884501	53884501	+	Silent	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	ENST00000474037	+1	known	p.A223	0.004	230	0%	152	11.8%	0	-	-	-	-	HMMSmart_SM00355,superfamily_C2H2 and C2HC zinc fingers
ZNF525	170958	genome.wustl.edu	37	19	53885115	53885115	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	ENST00000474037	+1	known	p.R428I	0.000	79	0%	55	18.2%	1	0%	benign(0.005)	tolerated(0.34)	neutral(0.023)	HMMPfam_zf-C2H2,PatternScan_ZINC_FINGER_C2H2_1,HMMSmart_SM00355,superfamily_C2H2 and C2HC zinc fingers
ZNF765	91661	genome.wustl.edu	37	19	53911845	53911845	+	Missense_Mutation	SNP	G	G	A	rs150918190	by1000genomes	TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001040185.1	+1	provisional	p.R346H	0.007	164	0%	112	26.8%	1	0%	benign(0.004)	tolerated(0.16)	neutral(0.059)	HMMPfam_zf-C2H2,PatternScan_ZINC_FINGER_C2H2_1,HMMSmart_SM00355,superfamily_C2H2 and C2HC zinc fingers
ZNF813	126017	genome.wustl.edu	37	19	53989889	53989889	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001004301.3	+1	validated	p.L7I	0.108	761	0%	206	11.2%	1	0%	possibly_damaging(0.73)	tolerated(0.35)	neutral(0.287)	superfamily_Krueppel-associated_box
ZNF813	126017	genome.wustl.edu	37	19	53994270	53994270	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001004301.3	+1	validated	p.R262C	0.032	262	0.4%	89	21.3%	0	-	benign(0.182)	tolerated(0.07)	neutral(0.336)	HMMPfam_zf-C2H2,PatternScan_ZINC_FINGER_C2H2_1,HMMSmart_ZnF_C2H2,superfamily_SSF57667
DPRX	503834	genome.wustl.edu	37	19	54140182	54140182	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001012728.1	+1	validated	p.C172	0.000	131	0%	94	33%	0	-	-	-	-	NULL
MIR1283-1	100302265	genome.wustl.edu	37	19	54191763	54191763	+	RNA	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	ENST00000408494	+1	known	NULL	0.032	416	0%	129	20.2%	0	-	-	-	-	-
MIR518E	574487	genome.wustl.edu	37	19	54233133	54233133	+	RNA	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	ENST00000385252	+1	known	NULL	0.044	139	0%	61	21.3%	0	-	-	-	-	-
MIR1283-2	100302205	genome.wustl.edu	37	19	54261542	54261542	+	RNA	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	ENST00000408621	+1	known	NULL	0.001	553	0%	430	17.7%	0	-	-	-	-	-
NLRP12	91662	genome.wustl.edu	37	19	54313268	54313268	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_144687.2	-1	reviewed	p.A549T	0.002	63	0%	50	32%	0	-	benign(0.15)	deleterious(0.02)	neutral(0.396)	NULL
NLRP12	91662	genome.wustl.edu	37	19	54313952	54313952	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_144687.2	-1	reviewed	p.E321K	0.033	58	0%	51	25.5%	0	-	probably_damaging(0.973)	tolerated(0.06)	deleterious(0.738)	HMMPfam_NACHT
NLRP12	91662	genome.wustl.edu	37	19	54314034	54314034	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_144687.2	-1	reviewed	p.I293	0.756	47	2.1%	63	28.6%	0	-	-	-	-	HMMPfam_NACHT
PRKCG	5582	genome.wustl.edu	37	19	54393165	54393165	+	Silent	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_002739.3	+1	reviewed	p.R141	1.000	7	0.000	11	0.364	0	-	-	-	-	HMMPfam_C1_1,HMMSmart_C1,PatternScan_ZF_DAG_PE_1,superfamily_SSF57889
CACNG7	59284	genome.wustl.edu	37	19	54417785	54417785	+	Missense_Mutation	SNP	A	A	C	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_031896.3	+1	reviewed	p.E76D	1.000	268	0%	294	27.6%	0	-	benign(0.207)	tolerated(0.67)	neutral(0.022)	HMMPfam_PMP22_Claudin
VSTM1	284415	genome.wustl.edu	37	19	54544325	54544325	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_198481.3	-1	validated	p.P201S	0.009	106	0%	50	10%	0	-	probably_damaging(0.998)	deleterious(0)	deleterious(0.919)	NULL
PRPF31	26121	genome.wustl.edu	37	19	54621812	54621812	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_015629.3	+1	reviewed	p.A52T	1.000	305	0.3%	348	24.1%	43	13.9%	probably_damaging(0.972)	deleterious(0.01)	deleterious(0.820)	NULL
LOC100288135	100288135	genome.wustl.edu	37	19	54634996	54634996	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	XM_002343695.1	-1	model	p.S27	0.000	48	0%	73	28.8%	222	21.1%	-	-	-	NULL
CNOT3	4849	genome.wustl.edu	37	19	54656060	54656060	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_014516.2	+1	validated	p.R568Q	1.000	43	0%	100	24%	60	31.6%	probably_damaging(0.976)	tolerated(0.16)	deleterious(0.477)	NULL
CNOT3	4849	genome.wustl.edu	37	19	54656700	54656700	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	ENST00000457463	+1	known	p.D199N	0.830	147	0%	245	24.5%	87	17.2%	-	-	-	HMMPfam_NOT2_3_5
MBOAT7	79143	genome.wustl.edu	37	19	54687420	54687420	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	ENST00000338624	-1	known	p.R29C	1.000	94	0%	112	25.9%	9	22.2%	-	-	-	NULL
TSEN34	79042	genome.wustl.edu	37	19	54695973	54695973	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001077446.2	+1	reviewed	p.S165L	0.339	98	0%	159	22.6%	53	16.9%	possibly_damaging(0.925)	tolerated(0.35)	neutral(0.394)	NULL
LILRB3	11025	genome.wustl.edu	37	19	54726215	54726215	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001081450.1	-1	reviewed	p.R97H	0.000	234	0%	244	29.9%	1	0%	benign(0.017)	tolerated(0.3)	neutral(0.029)	HMMSmart_SM00408,HMMSmart_SM00409,HMMPfam_ig,superfamily_Immunoglobulin
LILRB2	10288	genome.wustl.edu	37	19	54778622	54778622	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_005874.3	-1	reviewed	p.R571I	0.020	424	0.2%	321	21.2%	21	0%	probably_damaging(0.974)	tolerated(0.18)	deleterious(0.472)	NULL
LILRB2	10288	genome.wustl.edu	37	19	54783280	54783280	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_005874.3	-1	reviewed	p.S193L	0.000	251	0%	216	22.7%	1	0%	benign(0.002)	deleterious(0.01)	neutral(0.406)	HMMPfam_ig,superfamily_Immunoglobulin
LILRA3	11026	genome.wustl.edu	37	19	54802508	54802508	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_006865.3	-1	validated	p.S311	0.041	40	0%	26	42.3%	0	-	-	-	-	HMMSmart_IG,superfamily_SSF48726
LILRA5	353514	genome.wustl.edu	37	19	54818780	54818780	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_021250.2	-1	reviewed	p.G273D	0.000	263	0%	113	15.9%	2	0%	possibly_damaging(0.825)	tolerated(0.14)	deleterious(0.562)	NULL
LILRA4	23547	genome.wustl.edu	37	19	54844849	54844849	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_012276.3	-1	reviewed	p.Q498H	0.000	234	0%	241	25.3%	0	-	probably_damaging(0.956)	deleterious(0)	deleterious(0.844)	NULL
LILRA4	23547	genome.wustl.edu	37	19	54845205	54845205	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_012276.3	-1	reviewed	p.K429N	0.000	431	0%	361	25.5%	0	-	benign(0)	tolerated(0.19)	neutral(0.050)	NULL
LILRA4	23547	genome.wustl.edu	37	19	54848271	54848271	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_012276.3	-1	reviewed	p.R366C	0.000	237	0%	280	21.1%	1	0%	benign(0.19)	tolerated(0.08)	neutral(0.318)	HMMSmart_SM00408,HMMSmart_SM00409,HMMPfam_ig,superfamily_Immunoglobulin
LENG9	94059	genome.wustl.edu	37	19	54973723	54973723	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_198988.1	-1	validated	p.C351	0.000	15	0%	42	16.7%	3	0%	-	-	-	superfamily_Cyc_nuc_Pdiester
LENG9	94059	genome.wustl.edu	37	19	54973864	54973864	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_198988.1	-1	validated	p.E304D	0.000	28	0%	45	28.9%	1	0%	benign(0.001)	tolerated(0.67)	neutral(0.003)	NULL
LILRA1	11024	genome.wustl.edu	37	19	55107143	55107143	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_006863.1	+1	provisional	p.P234H	0.001	365	0%	213	21.6%	0	-	probably_damaging(0.996)	tolerated(0.39)	deleterious(0.478)	HMMSmart_SM00409,superfamily_Immunoglobulin
LILRB4	11006	genome.wustl.edu	37	19	55177358	55177358	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_006847.3	+1	reviewed	p.R284C	0.000	104	0%	87	11.5%	10	0%	probably_damaging(0.999)	tolerated(0.17)	deleterious(0.549)	NULL
KIR2DL4	3805	genome.wustl.edu	37	19	55316497	55316497	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001080770.1	+1	reviewed	p.S109L	0.046	131	0%	59	22%	0	-	probably_damaging(1)	deleterious(0)	deleterious(0.945)	HMMSmart_SM00409,superfamily_Immunoglobulin
KIR3DL1	3811	genome.wustl.edu	37	19	55331204	55331204	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_013289.2	+1	reviewed	p.G131D	0.001	413	0%	218	11.9%	0	-	probably_damaging(1)	deleterious(0)	deleterious(0.945)	HMMSmart_SM00409,superfamily_Immunoglobulin
FCAR	2204	genome.wustl.edu	37	19	55396822	55396822	+	Missense_Mutation	SNP	T	T	G	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_002000.2	+1	reviewed	p.D82E	0.000	212	0%	131	33.6%	0	-	benign(0.166)	tolerated(0.55)	neutral(0.022)	HMMSmart_SM00409,superfamily_Immunoglobulin
NLRP7	199713	genome.wustl.edu	37	19	55449565	55449565	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001127255.1	-1	reviewed	p.R659H	0.000	102	0%	132	12.1%	0	-	benign(0.01)	tolerated(0.66)	neutral(0.003)	superfamily_RNI-like
NLRP7	199713	genome.wustl.edu	37	19	55450611	55450611	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001127255.1	-1	reviewed	p.A526T	0.000	139	0%	223	18.4%	0	-	benign(0.005)	tolerated(0.28)	neutral(0.032)	NULL
NLRP7	199713	genome.wustl.edu	37	19	55451566	55451566	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001127255.1	-1	reviewed	p.A207	0.006	240	0%	334	14.7%	0	-	-	-	-	HMMPfam_NACHT,superfamily_P-loop containing nucleoside triphosphate hydrolases
NLRP7	199713	genome.wustl.edu	37	19	55451763	55451763	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001127255.1	-1	reviewed	p.D142Y	0.002	75	0%	122	27%	0	-	benign(0.042)	deleterious(0.04)	neutral(0.351)	superfamily_P-loop containing nucleoside triphosphate hydrolases
NLRP2	55655	genome.wustl.edu	37	19	55489129	55489129	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_017852.3	+1	validated	p.R112Q	0.012	138	0%	160	20.6%	0	-	possibly_damaging(0.855)	deleterious(0)	deleterious(0.774)	NULL
GP6	51206	genome.wustl.edu	37	19	55539187	55539187	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001083899.1	-1	validated	p.A123	0.000	99	0%	115	29.6%	0	-	-	-	-	HMMSmart_SM00409,superfamily_Immunoglobulin
EPS8L1	54869	genome.wustl.edu	37	19	55593184	55593184	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_133180.2	+1	reviewed	p.S273L	0.000	19	0%	51	15.7%	1	0%	possibly_damaging(0.918)	deleterious(0.02)	deleterious(0.752)	NULL
EPS8L1	54869	genome.wustl.edu	37	19	55597297	55597297	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_133180.2	+1	reviewed	p.R492C	0.961	117	0%	235	14.9%	29	6.8%	probably_damaging(1)	deleterious(0)	deleterious(0.945)	HMMPfam_SH3_1,HMMSmart_SM00326,superfamily_SH3-domain
PPP1R12C	54776	genome.wustl.edu	37	19	55603667	55603667	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_017607.2	-1	provisional	p.E695K	0.928	16	0%	38	18.4%	96	2%	probably_damaging(0.971)	tolerated(0.09)	deleterious(0.710)	NULL
PPP1R12C	54776	genome.wustl.edu	37	19	55604154	55604154	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_017607.2	-1	provisional	p.A636	0.971	41	0%	93	23.7%	15	6.6%	-	-	-	NULL
SYT5	6861	genome.wustl.edu	37	19	55686653	55686653	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_003180.2	-1	validated	p.D199N	1.000	20	0%	59	20.3%	0	-	probably_damaging(1)	deleterious(0.05)	deleterious(0.845)	HMMPfam_C2,HMMSmart_C2,superfamily_C2_CaLB
PTPRH	5794	genome.wustl.edu	37	19	55698901	55698901	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_002842.3	-1	validated	p.R849H	1.000	128	0%	115	21.7%	0	-	probably_damaging(0.991)	deleterious(0)	deleterious(0.889)	HMMPfam_Y_phosphatase,HMMSmart_SM00194,superfamily_(Phosphotyrosine protein) phosphatases II
PTPRH	5794	genome.wustl.edu	37	19	55713567	55713567	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_002842.3	-1	validated	p.D337G	0.000	287	0%	174	23%	1	0%	possibly_damaging(0.833)	tolerated(0.58)	neutral(0.323)	HMMPfam_fn3,HMMSmart_SM00060,superfamily_Fibronectin type III
PPP6R1	22870	genome.wustl.edu	37	19	55742809	55742809	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_014931.3	-1	validated	p.G810R	0.575	46	2.2%	108	32.4%	119	18.4%	unknown(0)	-	-	NULL
PPP6R1	22870	genome.wustl.edu	37	19	55748284	55748284	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_014931.3	-1	validated	p.E602D	0.740	201	0%	332	23.8%	64	9.3%	benign(0)	tolerated(0.61)	neutral(0.004)	NULL
TMEM150B	284417	genome.wustl.edu	37	19	55828314	55828314	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001085488.1	-1	provisional	p.T115	0.000	106	0%	128	21.1%	1	0%	-	-	-	HMMPfam_Frag1
FAM71E2	284418	genome.wustl.edu	37	19	55874316	55874316	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001145402.1	-1	predicted	p.P40L	0.993	66	0%	130	14.6%	0	-	probably_damaging(1)	deleterious(0.03)	deleterious(0.865)	NULL
NAT14	57106	genome.wustl.edu	37	19	55997869	55997869	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_020378.2	+1	provisional	p.R56H	1.000	8	0.000	30	0.267	8	12.5%	possibly_damaging(0.499)	deleterious(0)	deleterious(0.611)	superfamily_Acyl_CoA_acyltransferase
CCDC106	29903	genome.wustl.edu	37	19	56160609	56160609	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_013301.2	+1	validated	p.D24N	0.515	148	0%	231	22.9%	12	25%	benign(0)	deleterious(0.02)	neutral(0.383)	NULL
CCDC106	29903	genome.wustl.edu	37	19	56160869	56160869	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_013301.2	+1	validated	p.R78C	1.000	98	0%	161	22.4%	23	8.6%	probably_damaging(1)	deleterious(0)	deleterious(0.945)	NULL
CCDC106	29903	genome.wustl.edu	37	19	56162726	56162726	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_013301.2	+1	validated	p.D131Y	0.759	37	0%	66	27.3%	15	20%	probably_damaging(0.998)	deleterious(0)	deleterious(0.919)	NULL
CCDC106	29903	genome.wustl.edu	37	19	56163807	56163807	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_013301.2	+1	validated	p.D180N	0.972	25	0%	45	24.4%	39	25.6%	probably_damaging(0.959)	tolerated(0.39)	neutral(0.419)	NULL
U2AF2	11338	genome.wustl.edu	37	19	56174998	56174998	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_007279.2	+1	reviewed	p.Q210H	1.000	127	0%	213	23.9%	60	21.6%	benign(0.316)	tolerated(0.48)	neutral(0.110)	HMMPfam_RRM_1,HMMSmart_SM00360,superfamily_RNA-binding domain RBD
U2AF2	11338	genome.wustl.edu	37	19	56185418	56185418	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_007279.2	+1	reviewed	p.R471H	1.000	43	0%	82	12.2%	44	22.7%	benign(0.007)	deleterious(0.01)	neutral(0.406)	superfamily_RNA-binding domain RBD
NLRP9	338321	genome.wustl.edu	37	19	56243421	56243421	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_176820.2	-1	reviewed	p.T592	0.001	209	0%	117	15.4%	0	-	-	-	-	superfamily_RNI-like
NLRP9	338321	genome.wustl.edu	37	19	56244102	56244102	+	Silent	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_176820.2	-1	reviewed	p.T365	0.000	230	0%	142	11.3%	0	-	-	-	-	NULL
NLRP11	204801	genome.wustl.edu	37	19	56307518	56307518	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_145007.3	-1	validated	p.P757Q	0.000	108	0%	76	26.3%	0	-	possibly_damaging(0.559)	tolerated(0.55)	neutral(0.198)	HMMSmart_SM00368,superfamily_RNI-like
NLRP11	204801	genome.wustl.edu	37	19	56319326	56319326	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_145007.3	-1	validated	p.M632I	0.000	247	0%	74	20.3%	0	-	benign(0.339)	deleterious(0.03)	deleterious(0.471)	HMMSmart_SM00368,superfamily_RNI-like
NLRP4	147945	genome.wustl.edu	37	19	56370115	56370115	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_134444.4	+1	validated	p.H452	0.049	255	0%	131	22.1%	1	0%	-	-	-	NULL
NLRP4	147945	genome.wustl.edu	37	19	56370428	56370428	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_134444.4	+1	validated	p.L557I	0.001	166	0%	88	22.7%	0	-	probably_damaging(0.998)	deleterious(0)	deleterious(0.919)	NULL
NLRP4	147945	genome.wustl.edu	37	19	56370565	56370565	+	Silent	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_134444.4	+1	validated	p.L602	0.001	99	0%	60	15%	0	-	-	-	-	superfamily_RNI-like
NLRP4	147945	genome.wustl.edu	37	19	56373367	56373367	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_134444.4	+1	validated	p.N676	0.000	350	0%	147	11.6%	0	-	-	-	-	superfamily_RNI-like
NLRP13	126204	genome.wustl.edu	37	19	56416328	56416328	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_176810.2	-1	validated	p.K866N	0.000	178	0%	65	20%	0	-	possibly_damaging(0.762)	tolerated(0.28)	neutral(0.314)	superfamily_SSF52047
NLRP13	126204	genome.wustl.edu	37	19	56423213	56423213	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_176810.2	-1	validated	p.R657H	0.000	207	0%	53	17%	0	-	benign(0.001)	tolerated(1)	-	NULL
NLRP13	126204	genome.wustl.edu	37	19	56424349	56424349	+	Missense_Mutation	SNP	T	T	G	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_176810.2	-1	validated	p.E278D	0.000	149	0%	48	31.2%	0	-	benign(0.086)	tolerated(0.21)	neutral(0.050)	HMMPfam_NACHT
NLRP8	126205	genome.wustl.edu	37	19	56466059	56466059	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_176811.2	+1	provisional	p.P212H	0.121	138	0%	71	22.5%	0	-	possibly_damaging(0.91)	deleterious(0.01)	deleterious(0.768)	HMMPfam_NACHT,superfamily_P-loop containing nucleoside triphosphate hydrolases
NLRP5	126206	genome.wustl.edu	37	19	56531745	56531745	+	Missense_Mutation	SNP	T	T	G	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_153447.4	+1	reviewed	p.I209M	0.007	477	0.2%	259	10%	0	-	possibly_damaging(0.826)	tolerated(0.22)	neutral(0.355)	NULL
NLRP5	126206	genome.wustl.edu	37	19	56538939	56538939	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_153447.4	+1	reviewed	p.G447V	0.000	61	0%	63	19%	0	-	benign(0.365)	tolerated(0.06)	neutral(0.439)	HMMPfam_NACHT
NLRP5	126206	genome.wustl.edu	37	19	56539846	56539846	+	Silent	SNP	C	C	T	rs149649207	by1000genomes	TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_153447.4	+1	reviewed	p.S749	0.000	31	0%	32	18.8%	0	-	-	-	-	superfamily_SSF52047
NLRP5	126206	genome.wustl.edu	37	19	56569651	56569651	+	Silent	SNP	C	C	A	rs192828437	by1000genomes	TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_153447.4	+1	reviewed	p.S1115	0.000	429	0%	187	26.7%	0	-	-	-	-	superfamily_SSF52047
GALP	85569	genome.wustl.edu	37	19	56691959	56691959	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_033106.3	+1	reviewed	p.R31Q	0.095	189	0.5%	201	24.4%	0	-	probably_damaging(0.997)	deleterious(0)	deleterious(0.911)	NULL
GALP	85569	genome.wustl.edu	37	19	56696626	56696626	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_033106.3	+1	reviewed	p.V113A	0.000	372	0%	248	23.8%	0	-	benign(0.023)	tolerated(0.3)	neutral(0.030)	NULL
ZSCAN5B	342933	genome.wustl.edu	37	19	56701429	56701429	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001080456.2	-1	validated	p.R419W	0.001	185	0.5%	159	27.7%	0	-	probably_damaging(0.985)	deleterious(0.02)	deleterious(0.815)	HMMPfam_zf-C2H2,PatternScan_ZINC_FINGER_C2H2_1,HMMSmart_ZnF_C2H2,superfamily_SSF57667
ZSCAN5A	79149	genome.wustl.edu	37	19	56736305	56736305	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_024303.1	-1	provisional	p.D37	0.001	178	0%	166	30.1%	2	0%	-	-	-	NULL
LOC646698	646698	genome.wustl.edu	37	19	56758256	56758256	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	XM_001725568.1	+1	model	p.R295I	0.056	276	0%	110	25.5%	0	-	-	-	-	NULL
ZNF583	147949	genome.wustl.edu	37	19	56935011	56935011	+	Silent	SNP	A	A	G	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_152478.2	+1	validated	p.E328	0.250	449	0%	150	24%	0	-	-	-	-	HMMPfam_zf-C2H2,PatternScan_ZINC_FINGER_C2H2_1,HMMSmart_ZnF_C2H2,superfamily_SSF57667
ZNF583	147949	genome.wustl.edu	37	19	56935326	56935326	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_152478.2	+1	validated	p.E433	1.000	199	0%	57	10.5%	6	16.6%	-	-	-	superfamily_SSF57667
ZNF667	63934	genome.wustl.edu	37	19	56953175	56953175	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_022103.3	-1	validated	p.R397W	0.000	245	0%	64	28.1%	0	-	probably_damaging(0.999)	tolerated(0.2)	deleterious(0.539)	HMMPfam_zf-C2H2,PatternScan_ZINC_FINGER_C2H2_1,HMMSmart_SM00355,superfamily_C2H2 and C2HC zinc fingers
ZNF471	57573	genome.wustl.edu	37	19	57036476	57036476	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_020813.2	+1	validated	p.E347G	0.032	52	0%	33	33.3%	0	-	probably_damaging(0.987)	deleterious(0.01)	deleterious(0.842)	HMMPfam_zf-C2H2,HMMSmart_ZnF_C2H2,superfamily_SSF57667
ZNF470	388566	genome.wustl.edu	37	19	57085972	57085972	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	ENST00000446235	+1	known	p.Q90	0.003	341	0%	293	26.3%	0	-	-	-	-	HMMSmart_SM00349
ZNF470	388566	genome.wustl.edu	37	19	57088193	57088193	+	Silent	SNP	T	T	C	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001001668.3	+1	validated	p.C132	0.001	214	0%	154	13.6%	0	-	-	-	-	NULL
ZNF470	388566	genome.wustl.edu	37	19	57089887	57089887	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001001668.3	+1	validated	p.R697Q	0.991	289	0%	206	13.6%	3	33.3%	benign(0.002)	tolerated(0.11)	neutral(0.272)	HMMPfam_zf-C2H2,PatternScan_ZINC_FINGER_C2H2_1,HMMSmart_ZnF_C2H2,superfamily_SSF57667
ZNF71	58491	genome.wustl.edu	37	19	57134054	57134054	+	Nonsense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_021216.4	+1	validated	p.R467*	0.000	44	0%	68	25%	14	14.2%	-	-	-	HMMPfam_zf-C2H2,HMMSmart_ZnF_C2H2,superfamily_SSF57667
ZNF835	90485	genome.wustl.edu	37	19	57176402	57176402	+	Missense_Mutation	SNP	A	A	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001005850.1	-1	provisional	p.D77E	0.003	169	0%	303	15.2%	0	-	probably_damaging(0.967)	tolerated(0.21)	neutral(0.453)	NULL
ZIM2	23619	genome.wustl.edu	37	19	57286342	57286342	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_015363.4	-1	reviewed	p.A433V	0.250	80	0%	48	29.2%	0	-	unknown(0)	tolerated(0.16)	-	HMMPfam_zf-C2H2,PatternScan_ZINC_FINGER_C2H2_1,HMMSmart_ZnF_C2H2,superfamily_SSF57667
PEG3	5178	genome.wustl.edu	37	19	57326097	57326097	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_006210.2	-1	reviewed	p.S1238Y	0.155	122	0%	50	14%	0	-	probably_damaging(0.999)	deleterious(0)	deleterious(0.935)	HMMPfam_zf-C2H2,PatternScan_ZINC_FINGER_C2H2_1,HMMSmart_SM00355,superfamily_C2H2 and C2HC zinc fingers
PEG3	5178	genome.wustl.edu	37	19	57326484	57326484	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_006210.2	-1	reviewed	p.C1109Y	0.956	214	0%	81	13.6%	0	-	probably_damaging(0.999)	deleterious(0)	deleterious(0.935)	HMMPfam_zf-C2H2,PatternScan_ZINC_FINGER_C2H2_1,HMMSmart_SM00355,superfamily_C2H2 and C2HC zinc fingers
PEG3	5178	genome.wustl.edu	37	19	57327789	57327789	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_006210.2	-1	reviewed	p.R674M	0.473	180	0%	79	8.9%	0	-	probably_damaging(1)	deleterious(0.05)	deleterious(0.845)	NULL
PEG3	5178	genome.wustl.edu	37	19	57328601	57328601	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_006210.2	-1	reviewed	p.S403	0.000	261	0%	120	14.2%	0	-	-	-	-	NULL
PEG3	5178	genome.wustl.edu	37	19	57328719	57328719	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_006210.2	-1	reviewed	p.R364Q	1.000	189	0%	92	29.3%	0	-	probably_damaging(0.999)	deleterious(0.04)	deleterious(0.839)	NULL
PEG3	5178	genome.wustl.edu	37	19	57335692	57335692	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_006210.2	-1	reviewed	p.P111L	0.369	152	0%	69	21.7%	0	-	probably_damaging(0.998)	deleterious(0)	deleterious(0.919)	HMMPfam_SCAN,HMMSmart_SM00431
USP29	57663	genome.wustl.edu	37	19	57641466	57641466	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_020903.2	+1	validated	p.L475I	0.969	270	0.4%	166	22.9%	0	-	probably_damaging(0.98)	deleterious(0.02)	deleterious(0.807)	HMMPfam_UCH,superfamily_SSF54001
DUXA	503835	genome.wustl.edu	37	19	57672135	57672135	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001012729.1	-1	validated	p.R19H	0.086	705	0%	547	26.7%	0	-	benign(0.148)	deleterious(0)	neutral(0.458)	HMMPfam_Homeobox,HMMSmart_HOX,superfamily_Homeodomain_like
ZNF264	9422	genome.wustl.edu	37	19	57723025	57723025	+	Nonsense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_003417.4	+1	reviewed	p.S187*	0.017	299	0%	160	25%	0	-	-	-	-	NULL
AURKC	6795	genome.wustl.edu	37	19	57743526	57743526	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001015878.1	+1	reviewed	p.S77L	1.000	81	0%	72	20.8%	0	-	possibly_damaging(0.582)	tolerated(0.07)	deleterious(0.519)	HMMSmart_SM00219,HMMSmart_SM00220,superfamily_Protein kinase-like (PK-like),HMMPfam_Pkinase
ZNF805	390980	genome.wustl.edu	37	19	57765336	57765336	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001145078.1	+1	validated	p.S250	0.000	140	0%	59	22%	0	-	-	-	-	HMMPfam_zf-C2H2,PatternScan_ZINC_FINGER_C2H2_1,HMMSmart_SM00355,superfamily_C2H2 and C2HC zinc fingers
ZNF805	390980	genome.wustl.edu	37	19	57765994	57765994	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001145078.1	+1	validated	p.L470I	1.000	161	0%	80	18.8%	2	0%	benign(0.002)	tolerated(0.55)	neutral(0.007)	NULL
ZNF543	125919	genome.wustl.edu	37	19	57840509	57840509	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_213598.3	+1	validated	p.R560I	0.196	164	0%	123	23.6%	0	-	possibly_damaging(0.456)	deleterious(0)	deleterious(0.594)	superfamily_C2H2 and C2HC zinc fingers
ZNF547	284306	genome.wustl.edu	37	19	57888946	57888946	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_173631.2	+1	validated	p.R201I	0.003	238	0%	61	26.2%	2	0%	possibly_damaging(0.782)	deleterious(0.02)	deleterious(0.676)	HMMPfam_zf-C2H2,PatternScan_ZINC_FINGER_C2H2_1,HMMSmart_SM00355,superfamily_C2H2 and C2HC zinc fingers
LOC100129081	100129081	genome.wustl.edu	37	19	57910579	57910579	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	XM_001718521.2	-1	model	p.R169W	0.061	249	0.4%	158	13.9%	3	0%	-	-	-	NULL
ZNF17	7565	genome.wustl.edu	37	19	57931927	57931927	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_006959.2	+1	validated	p.R356M	0.006	198	0%	173	23.7%	3	0%	probably_damaging(0.982)	deleterious(0)	deleterious(0.871)	superfamily_C2H2 and C2HC zinc fingers
ZNF17	7565	genome.wustl.edu	37	19	57932206	57932206	+	Missense_Mutation	SNP	A	A	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_006959.2	+1	validated	p.K449I	0.928	244	0%	192	21.4%	3	0%	probably_damaging(0.995)	deleterious(0)	deleterious(0.902)	HMMPfam_zf-C2H2,PatternScan_ZINC_FINGER_C2H2_1,HMMSmart_SM00355,superfamily_C2H2 and C2HC zinc fingers
ZNF17	7565	genome.wustl.edu	37	19	57932210	57932210	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_006959.2	+1	validated	p.F450L	0.000	246	0%	196	20.9%	3	0%	benign(0.014)	tolerated(0.37)	neutral(0.019)	HMMPfam_zf-C2H2,PatternScan_ZINC_FINGER_C2H2_1,HMMSmart_SM00355,superfamily_C2H2 and C2HC zinc fingers
ENSG00000246220	0	genome.wustl.edu	37	19	57932914	57932914	+	RNA	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	ENST00000501492	-1	known	NULL	0.000	69	0%	62	30.6%	4	0%	-	-	-	-
ZNF772	400720	genome.wustl.edu	37	19	57984969	57984969	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001024596.2	-1	validated	p.S381	0.154	200	0.5%	187	26.7%	1	0%	-	-	-	HMMPfam_zf-C2H2,PatternScan_ZINC_FINGER_C2H2_1,HMMSmart_SM00355,superfamily_C2H2 and C2HC zinc fingers
ZNF549	256051	genome.wustl.edu	37	19	58049809	58049809	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_153263.1	+1	provisional	p.G466	0.991	140	0%	106	26.4%	2	50%	-	-	-	HMMPfam_zf-C2H2,PatternScan_ZINC_FINGER_C2H2_1,HMMSmart_SM00355,superfamily_C2H2 and C2HC zinc fingers
ZNF550	162972	genome.wustl.edu	37	19	58059318	58059318	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001039654.1	-1	provisional	p.P57	0.000	201	0%	123	28.5%	0	-	-	-	-	HMMSmart_SM00349,superfamily_KRAB domain (Kruppel-associated box Pfam 01352)
ZNF416	55659	genome.wustl.edu	37	19	58084957	58084957	+	Silent	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_017879.1	-1	provisional	p.S105	0.022	235	0%	237	22.4%	1	0%	-	-	-	NULL
ZIK1	284307	genome.wustl.edu	37	19	58099952	58099952	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001010879.2	+1	provisional	p.E40K	1.000	356	0.3%	441	25.4%	0	-	probably_damaging(0.999)	deleterious(0)	deleterious(0.935)	HMMPfam_KRAB,HMMSmart_SM00349,superfamily_KRAB domain (Kruppel-associated box Pfam 01352)
ZIK1	284307	genome.wustl.edu	37	19	58102053	58102053	+	Nonsense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001010879.2	+1	provisional	p.E292*	0.847	192	0.5%	236	14%	0	-	-	-	-	superfamily_Multiheme cytochromes
ZNF530	348327	genome.wustl.edu	37	19	58118089	58118089	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_020880.3	+1	validated	p.R399I	0.003	266	0%	348	23.3%	0	-	probably_damaging(0.983)	tolerated(0.08)	deleterious(0.729)	HMMPfam_zf-C2H2,PatternScan_ZINC_FINGER_C2H2_1,HMMSmart_ZnF_C2H2,superfamily_SSF57667
ZNF530	348327	genome.wustl.edu	37	19	58118187	58118187	+	Nonsense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_020880.3	+1	validated	p.E432*	0.443	215	0%	264	22.3%	1	100%	-	-	-	superfamily_SSF57667
ZNF530	348327	genome.wustl.edu	37	19	58118332	58118332	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_020880.3	+1	validated	p.R480Q	0.000	155	0%	229	23.6%	0	-	benign(0.102)	tolerated(0.85)	neutral(0.009)	HMMPfam_zf-C2H2,PatternScan_ZINC_FINGER_C2H2_1,HMMSmart_ZnF_C2H2,superfamily_SSF57667
ZNF134	7693	genome.wustl.edu	37	19	58132285	58132285	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_003435.3	+1	provisional	p.G266	0.663	166	0%	215	21.4%	2	0%	-	-	-	HMMPfam_zf-C2H2,PatternScan_ZINC_FINGER_C2H2_1,HMMSmart_SM00355,superfamily_C2H2 and C2HC zinc fingers
LOC100130710	100130710	genome.wustl.edu	37	19	58152733	58152733	+	Nonsense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	XM_001718544.2	-1	model	p.E287*	0.000	136	0%	116	21.6%	1	0%	benign(0.008)	tolerated(0.29)	neutral(0.029)	NULL
ZSCAN4	201516	genome.wustl.edu	37	19	58189893	58189893	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_152677.2	+1	validated	p.V308I	0.000	176	0%	172	12.2%	0	-	possibly_damaging(0.647)	deleterious(0.02)	deleterious(0.610)	superfamily_SSF57667
ZSCAN4	201516	genome.wustl.edu	37	19	58190122	58190122	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_152677.2	+1	validated	p.R384Q	0.000	113	0%	152	19.1%	0	-	possibly_damaging(0.571)	tolerated(0.56)	neutral(0.202)	HMMPfam_zf-C2H2,PatternScan_ZINC_FINGER_C2H2_1,HMMSmart_ZnF_C2H2,superfamily_SSF57667
ZNF154	7710	genome.wustl.edu	37	19	58213957	58213957	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001085384.1	-1	validated	p.S120	0.000	188	0%	118	19.5%	1	100%	-	-	-	NULL
ZNF671	79891	genome.wustl.edu	37	19	58231976	58231976	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_024833.2	-1	validated	p.N493S	0.000	315	0.3%	228	25.9%	3	33.3%	benign(0.297)	tolerated(0.69)	neutral(0.094)	HMMPfam_zf-C2H2,PatternScan_ZINC_FINGER_C2H2_1,HMMSmart_ZnF_C2H2,superfamily_SSF57667
ZNF776	284309	genome.wustl.edu	37	19	58265271	58265271	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_173632.3	+1	validated	p.R258H	1.000	174	0%	113	12.4%	0	-	benign(0)	tolerated(1)	-	superfamily_C2H2 and C2HC zinc fingers
ZNF776	284309	genome.wustl.edu	37	19	58265720	58265720	+	Nonsense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_173632.3	+1	validated	p.E408*	0.012	329	0%	240	20.8%	1	0%	-	-	-	HMMPfam_zf-C2H2,PatternScan_ZINC_FINGER_C2H2_1,HMMSmart_SM00355,superfamily_C2H2 and C2HC zinc fingers
ZNF586	54807	genome.wustl.edu	37	19	58288001	58288001	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_017652.2	+1	validated	p.V43M	0.802	534	0%	604	18.5%	1	100%	probably_damaging(1)	deleterious(0)	deleterious(0.945)	HMMPfam_KRAB,HMMSmart_KRAB,superfamily_Krueppel-associated_box
ZNF814	730051	genome.wustl.edu	37	19	58384335	58384335	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001144989.1	-1	validated	p.S808Y	0.016	434	0%	159	11.9%	6	50%	probably_damaging(0.995)	deleterious(0.03)	deleterious(0.822)	HMMPfam_zf-C2H2,PatternScan_ZINC_FINGER_C2H2_1,HMMSmart_SM00355,superfamily_C2H2 and C2HC zinc fingers
ZNF814	730051	genome.wustl.edu	37	19	58384635	58384635	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001144989.1	-1	validated	p.R708I	0.954	262	0%	82	26.8%	8	37.5%	possibly_damaging(0.8)	deleterious(0.05)	deleterious(0.646)	HMMPfam_zf-C2H2,PatternScan_ZINC_FINGER_C2H2_1,HMMSmart_SM00355,superfamily_C2H2 and C2HC zinc fingers
ZNF814	730051	genome.wustl.edu	37	19	58388365	58388365	+	Nonsense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001144989.1	-1	validated	p.E28*	0.811	510	0%	229	20.5%	1	100%	-	-	-	HMMPfam_KRAB,HMMSmart_SM00349,superfamily_KRAB domain (Kruppel-associated box Pfam 01352)
ZNF417	147687	genome.wustl.edu	37	19	58420320	58420320	+	Silent	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_152475.2	-1	validated	p.G442	1.000	463	0%	229	19.2%	2	50%	-	-	-	HMMPfam_zf-C2H2,PatternScan_ZINC_FINGER_C2H2_1,HMMSmart_SM00355,superfamily_C2H2 and C2HC zinc fingers
ZNF417	147687	genome.wustl.edu	37	19	58421127	58421127	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_152475.2	-1	validated	p.R173	0.000	302	0%	134	22.4%	5	20%	-	-	-	NULL
ZNF256	10172	genome.wustl.edu	37	19	58455337	58455337	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_005773.2	-1	validated	p.V42A	0.978	375	0%	422	20.9%	0	-	probably_damaging(0.999)	deleterious(0)	deleterious(0.935)	HMMPfam_KRAB,HMMSmart_SM00349,superfamily_KRAB domain (Kruppel-associated box Pfam 01352)
ZNF135	7694	genome.wustl.edu	37	19	58578375	58578375	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_003436.3	+1	validated	p.L175I	0.015	139	0%	164	12.8%	0	-	probably_damaging(0.996)	tolerated(0.13)	deleterious(0.714)	NULL
ZNF135	7694	genome.wustl.edu	37	19	58578888	58578888	+	Nonsense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_003436.3	+1	validated	p.R346*	0.988	73	0%	104	26%	2	0%	-	-	-	HMMPfam_zf-C2H2,PatternScan_ZINC_FINGER_C2H2_1,HMMSmart_SM00355,superfamily_C2H2 and C2HC zinc fingers
ZNF135	7694	genome.wustl.edu	37	19	58579813	58579813	+	Nonsense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	ENST00000504540	+1	known	p.E386*	1.000	62	0%	73	27.4%	6	83.3%	-	-	-	NULL
ZSCAN18	65982	genome.wustl.edu	37	19	58596266	58596266	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001145542.1	-1	validated	p.R496H	0.986	17	0%	39	28.2%	14	14.2%	benign(0.202)	tolerated(0.55)	neutral(0.026)	superfamily_SSF57667
LOC100288459	100288459	genome.wustl.edu	37	19	58596319	58596319	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	XM_002343664.1	+1	model	p.E14K	0.099	29	0%	41	29.3%	16	18.7%	-	-	-	NULL
ZSCAN22	342945	genome.wustl.edu	37	19	58849784	58849784	+	Missense_Mutation	SNP	T	T	G	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_181846.2	+1	validated	p.S190A	0.000	127	0%	129	17.1%	0	-	benign(0.006)	tolerated(0.75)	neutral(0.002)	NULL
A1BG-AS1	503538	genome.wustl.edu	37	19	58864214	58864214	+	RNA	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NR_015380.1	+1	predicted	NULL	0.000	13	0%	41	34.1%	0	-	-	-	-	-
ZNF497	162968	genome.wustl.edu	37	19	58868527	58868527	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_198458.1	-1	provisional	p.E159K	1.000	40	0%	78	15.4%	3	33.3%	probably_damaging(0.991)	deleterious(0.05)	deleterious(0.789)	superfamily_SSF57667
ZNF324B	388569	genome.wustl.edu	37	19	58967490	58967490	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_207395.2	+1	validated	p.G393	0.682	24	0%	67	23.9%	0	-	-	-	-	superfamily_C2H2 and C2HC zinc fingers
ZNF324B	388569	genome.wustl.edu	37	19	58967890	58967890	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_207395.2	+1	validated	p.R527W	0.001	68	0%	91	28.6%	3	33.3%	probably_damaging(1)	deleterious(0.01)	deleterious(0.905)	NULL
ZNF446	55663	genome.wustl.edu	37	19	58989498	58989498	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_017908.2	+1	provisional	p.H193N	0.038	216	0%	365	12.3%	10	10%	benign(0.261)	tolerated(0.43)	neutral(0.041)	NULL
TRIM28	10155	genome.wustl.edu	37	19	59056844	59056844	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_005762.2	+1	reviewed	p.E131	1.000	98	0%	158	10.1%	15	0%	-	-	-	superfamily_RING/U-box
TRIM28	10155	genome.wustl.edu	37	19	59059208	59059208	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_005762.2	+1	reviewed	p.M297V	1.000	123	0%	205	10.7%	49	4%	possibly_damaging(0.65)	tolerated(0.66)	neutral(0.231)	HMMSmart_SM00502
DEFB128	245939	genome.wustl.edu	37	20	168632	168632	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001037732.1	-1	provisional	p.E59D	0.001	593	0%	148	21.6%	0	-	benign(0.124)	tolerated(0.73)	neutral(0.011)	NULL
C20orf96	140680	genome.wustl.edu	37	20	256685	256685	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_153269.1	-1	predicted	p.E319K	0.039	192	0.5%	292	24.3%	23	21.7%	possibly_damaging(0.799)	tolerated(0.06)	deleterious(0.623)	NULL
NRSN2	80023	genome.wustl.edu	37	20	334237	334237	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_024958.2	+1	validated	p.G191	0.917	70	0%	78	26.9%	16	6.2%	-	-	-	NULL
TRIB3	57761	genome.wustl.edu	37	20	368760	368760	+	Nonsense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_021158.3	+1	reviewed	p.R36*	0.261	71	0%	79	19%	1	0%	-	-	-	NULL
TRIB3	57761	genome.wustl.edu	37	20	372144	372144	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_021158.3	+1	reviewed	p.A169T	0.202	36	0%	37	16.2%	3	0%	benign(0.042)	tolerated(0.1)	neutral(0.289)	superfamily_Kinase_like,HMMPfam_Pkinase
TRIB3	57761	genome.wustl.edu	37	20	377086	377086	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_021158.3	+1	reviewed	p.A277T	0.000	14	0%	16	31.2%	6	50%	benign(0.013)	tolerated(0.7)	neutral(0.003)	superfamily_Kinase_like,HMMPfam_Pkinase
SLC52A3	113278	genome.wustl.edu	37	20	746078	746078	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_033409.3	-1	validated	p.F114S	1.000	77	0%	118	20.3%	1	0%	probably_damaging(0.99)	deleterious(0.02)	deleterious(0.825)	NULL
ANGPT4	51378	genome.wustl.edu	37	20	853705	853705	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_015985.2	-1	reviewed	p.P470	0.000	143	0%	89	24.7%	0	-	-	-	-	HMMPfam_Fibrinogen_C,HMMSmart_FBG,superfamily_Fibrinogen_a/b/g_C
RAD21L1	642636	genome.wustl.edu	37	20	1210585	1210585	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001136566.2	+1	validated	p.R69M	1.000	342	0%	470	25.7%	0	-	probably_damaging(0.999)	deleterious(0)	deleterious(0.935)	HMMPfam_Rad21_Rec8_N
SNPH	9751	genome.wustl.edu	37	20	1286372	1286372	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_014723.2	+1	reviewed	p.R387W	0.052	23	0%	39	17.9%	0	-	possibly_damaging(0.853)	deleterious(0.02)	deleterious(0.712)	NULL
SIRPG	55423	genome.wustl.edu	37	20	1615980	1615980	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_018556.3	-1	reviewed	p.A338	0.006	145	0%	77	26%	5	0%	-	-	-	HMMSmart_SM00407,HMMSmart_SM00409
SIRPG	55423	genome.wustl.edu	37	20	1616904	1616904	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_018556.3	-1	reviewed	p.C226	0.103	312	0%	132	24.2%	3	0%	-	-	-	HMMPfam_C1-set,HMMSmart_SM00407,superfamily_Immunoglobulin
SIRPG	55423	genome.wustl.edu	37	20	1616976	1616976	+	Silent	SNP	A	A	G	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_018556.3	-1	reviewed	p.S202	0.001	394	0%	172	12.2%	2	0%	-	-	-	HMMPfam_C1-set,HMMSmart_SM00407,superfamily_Immunoglobulin
SIRPG	55423	genome.wustl.edu	37	20	1630055	1630055	+	Splice_Site	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_018556.3	-1	reviewed	e2-1	0.006	195	0%	66	30.3%	0	-	-	-	-	-
SIRPG	55423	genome.wustl.edu	37	20	1638294	1638294	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_018556.3	-1	reviewed	p.L23F	0.057	295	0%	77	22.1%	0	-	benign(0.002)	tolerated(0.24)	neutral(0.037)	NULL
SIRPA	140885	genome.wustl.edu	37	20	1903108	1903108	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001040022.1	+1	reviewed	p.V302I	0.000	457	0%	221	24%	5	0%	benign(0)	tolerated(0.54)	neutral(0.007)	HMMPfam_C1-set,HMMSmart_IGc1,superfamily_SSF48726
TGM3	7053	genome.wustl.edu	37	20	2293648	2293648	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_003245.3	+1	reviewed	p.Y215	0.005	125	0%	61	19.7%	0	-	-	-	-	superfamily_Cysteine proteinases
TGM3	7053	genome.wustl.edu	37	20	2308830	2308830	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_003245.3	+1	reviewed	p.F384	0.879	148	0%	65	18.5%	0	-	-	-	-	superfamily_Cysteine proteinases
TGM3	7053	genome.wustl.edu	37	20	2315787	2315787	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_003245.3	+1	reviewed	p.S556	0.001	126	0.8%	53	15.1%	1	0%	-	-	-	HMMPfam_Transglut_C,superfamily_Transglutaminase two C-terminal domains
TGM6	343641	genome.wustl.edu	37	20	2375142	2375142	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_198994.2	+1	validated	p.A18T	0.000	20	0%	17	23.5%	0	-	benign(0.002)	tolerated(0.32)	neutral(0.024)	HMMPfam_Transglut_N,superfamily_E set domains
TGM6	343641	genome.wustl.edu	37	20	2384383	2384383	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_198994.2	+1	validated	p.T417M	0.080	67	0%	98	12.2%	0	-	probably_damaging(0.999)	deleterious(0)	deleterious(0.935)	superfamily_Cysteine proteinases
TGM6	343641	genome.wustl.edu	37	20	2397927	2397927	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_198994.2	+1	validated	p.F462	0.125	31	0%	20	20%	0	-	-	-	-	superfamily_Cysteine proteinases
ZNF343	79175	genome.wustl.edu	37	20	2464760	2464760	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_024325.4	-1	validated	p.T283A	0.000	148	0.7%	53	13.2%	0	-	benign(0.143)	tolerated(0.83)	neutral(0.013)	HMMPfam_zf-C2H2,PatternScan_ZINC_FINGER_C2H2_1,HMMSmart_SM00355,superfamily_C2H2 and C2HC zinc fingers
ZNF343	79175	genome.wustl.edu	37	20	2474494	2474494	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_024325.4	-1	validated	p.E16D	0.010	321	0%	98	31.6%	0	-	unknown(0)	-	-	NULL
TMC2	117532	genome.wustl.edu	37	20	2542613	2542613	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_080751.2	+1	validated	p.R171W	0.998	73	0%	85	29.4%	0	-	probably_damaging(0.999)	deleterious(0)	deleterious(0.935)	NULL
TMC2	117532	genome.wustl.edu	37	20	2593857	2593857	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_080751.2	+1	validated	p.T587	0.103	316	0%	101	21.8%	0	-	-	-	-	HMMPfam_TMC
NOP56	10528	genome.wustl.edu	37	20	2635512	2635512	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_006392.2	+1	reviewed	p.R163Q	1.000	172	0%	231	25.5%	18	11.1%	probably_damaging(0.999)	deleterious(0)	deleterious(0.935)	NULL
NOP56	10528	genome.wustl.edu	37	20	2635579	2635579	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_006392.2	+1	reviewed	p.F185L	1.000	140	0%	171	24%	24	8.3%	possibly_damaging(0.851)	tolerated(0.05)	deleterious(0.672)	HMMPfam_NOSIC
NOP56	10528	genome.wustl.edu	37	20	2635960	2635960	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	ENST00000445139	+1	known	p.A216T	0.000	104	0%	199	27.6%	0	-	unknown(0)	-	-	HMMPfam_NOSIC,superfamily_SSF89124
EBF4	57593	genome.wustl.edu	37	20	2730160	2730160	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001110514.1	+1	provisional	p.S247	0.023	6	0.000	15	0.467	14	0%	-	-	-	NULL
CPXM1	56265	genome.wustl.edu	37	20	2776756	2776756	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_019609.4	-1	reviewed	p.D432N	1.000	103	0%	148	27%	70	0%	probably_damaging(1)	deleterious(0.03)	deleterious(0.865)	HMMPfam_Peptidase_M14,HMMSmart_SM00631,superfamily_Zn-dependent exopeptidases
CPXM1	56265	genome.wustl.edu	37	20	2779385	2779385	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_019609.4	-1	reviewed	p.E109D	0.013	124	0%	205	21.5%	11	0%	possibly_damaging(0.935)	deleterious(0)	deleterious(0.825)	NULL
VPS16	64601	genome.wustl.edu	37	20	2842741	2842741	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_022575.2	+1	reviewed	p.G346R	0.998	87	0%	62	25.8%	14	14.2%	probably_damaging(1)	deleterious(0)	deleterious(0.945)	HMMPfam_Vps16_N
VPS16	64601	genome.wustl.edu	37	20	2844902	2844902	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_022575.2	+1	reviewed	p.S563	1.000	101	0%	115	24.3%	25	0%	-	-	-	HMMPfam_Vps16_C
PTPRA	5786	genome.wustl.edu	37	20	3003365	3003365	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_002836.3	+1	reviewed	p.V453	0.876	285	0%	323	26%	8	0%	-	-	-	HMMPfam_Y_phosphatase,HMMSmart_PTPc,superfamily_SSF52799
PTPRA	5786	genome.wustl.edu	37	20	3005228	3005228	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_002836.3	+1	reviewed	p.I525	0.995	407	0%	421	28%	20	0%	-	-	-	superfamily_SSF52799
UBOX5	22888	genome.wustl.edu	37	20	3103999	3103999	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_014948.2	-1	validated	p.L5I	1.000	556	0%	879	26.4%	2	0%	probably_damaging(0.991)	deleterious(0.03)	deleterious(0.808)	NULL
FASTKD5	60493	genome.wustl.edu	37	20	3129302	3129302	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_021826.4	-1	validated	p.L139M	0.010	190	0%	119	26.9%	4	25%	possibly_damaging(0.909)	tolerated(0.1)	deleterious(0.648)	NULL
FASTKD5	60493	genome.wustl.edu	37	20	3129370	3129370	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_021826.4	-1	validated	p.R116Q	0.596	140	0%	91	18.7%	5	20%	probably_damaging(1)	deleterious(0.04)	deleterious(0.849)	NULL
FASTKD5	60493	genome.wustl.edu	37	20	3129497	3129497	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_021826.4	-1	validated	p.A74S	0.001	230	0%	114	23.7%	4	25%	benign(0.367)	tolerated(0.07)	neutral(0.435)	NULL
DDRGK1	65992	genome.wustl.edu	37	20	3171864	3171864	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_023935.1	-1	provisional	p.Q250H	1.000	243	0%	285	13.7%	99	1%	benign(0.148)	deleterious(0.03)	neutral(0.378)	HMMPfam_DDRGK
C20orf194	25943	genome.wustl.edu	37	20	3268337	3268337	+	Silent	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001009984.1	-1	validated	p.R809	0.998	147	0%	76	17.1%	0	-	-	-	-	NULL
ATRN	8455	genome.wustl.edu	37	20	3577040	3577040	+	Nonsense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_139321.2	+1	reviewed	p.R1145*	1.000	446	0%	91	18.7%	7	0%	-	-	-	HMMPfam_Laminin_EGF,HMMSmart_SM00180,superfamily_EGF/Laminin
SIGLEC1	6614	genome.wustl.edu	37	20	3675344	3675344	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_023068.3	-1	reviewed	p.T970	0.000	66	0%	103	25.2%	0	-	-	-	-	HMMSmart_SM00409,HMMPfam_V-set,superfamily_Immunoglobulin
SIGLEC1	6614	genome.wustl.edu	37	20	3677315	3677315	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_023068.3	-1	reviewed	p.G867	0.001	58	0%	75	21.3%	0	-	-	-	-	HMMSmart_SM00408,HMMSmart_SM00409,HMMPfam_I-set,superfamily_Immunoglobulin
SPEF1	25876	genome.wustl.edu	37	20	3759623	3759623	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_015417.4	-1	validated	p.Q131H	1.000	71	0%	162	29.6%	0	-	possibly_damaging(0.774)	tolerated(0.13)	deleterious(0.541)	HMMPfam_DUF1042
PANK2	80025	genome.wustl.edu	37	20	3893223	3893223	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_153638.2	+1	reviewed	p.D452Y	1.000	294	0.3%	208	13%	10	0%	probably_damaging(1)	deleterious(0)	deleterious(0.945)	HMMPfam_Fumble,superfamily_Actin-like ATPase domain
ADRA1D	146	genome.wustl.edu	37	20	4229161	4229161	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_000678.3	-1	reviewed	p.T148	0.578	41	0%	113	29.2%	0	-	-	-	-	HMMPfam_7tm_1,superfamily_Family A G protein-coupled receptor-like
RASSF2	9770	genome.wustl.edu	37	20	4768377	4768377	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_014737.2	-1	reviewed	p.D239N	1.000	304	0%	151	11.3%	2	0%	probably_damaging(0.987)	deleterious(0.01)	deleterious(0.842)	HMMPfam_RA,HMMSmart_RA
C20orf30	29058	genome.wustl.edu	37	20	5086887	5086887	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001009923.1	-1	validated	p.A120T	0.469	204	0%	214	13.6%	33	3%	benign(0)	tolerated(1)	-	HMMPfam_DUF872
CHGB	1114	genome.wustl.edu	37	20	5903046	5903046	+	Silent	SNP	T	T	C	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001819.2	+1	reviewed	p.L86	0.956	130	0%	76	17.1%	1	0%	-	-	-	HMMPfam_Granin
CHGB	1114	genome.wustl.edu	37	20	5903817	5903817	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001819.2	+1	reviewed	p.E343K	0.716	100	0%	71	15.5%	2	0%	probably_damaging(0.955)	tolerated(0.31)	neutral(0.426)	HMMPfam_Granin
MCM8	84515	genome.wustl.edu	37	20	5933128	5933128	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_032485.4	+1	reviewed	p.L69F	1.000	214	0%	290	28.3%	0	-	possibly_damaging(0.848)	tolerated(0.07)	deleterious(0.645)	NULL
LRRN4	164312	genome.wustl.edu	37	20	6022425	6022425	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_152611.3	-1	validated	p.S489L	0.000	128	0%	259	33.6%	0	-	possibly_damaging(0.658)	deleterious(0.04)	deleterious(0.582)	NULL
LRRN4	164312	genome.wustl.edu	37	20	6022714	6022714	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_152611.3	-1	validated	p.A393T	0.001	77	0%	161	28%	0	-	benign(0)	tolerated(1)	-	NULL
FERMT1	55612	genome.wustl.edu	37	20	6065923	6065923	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_017671.4	-1	reviewed	p.Y461	0.998	108	0%	42	31%	0	-	-	-	-	HMMPfam_PH,HMMSmart_SM00233,HMMPfam_FERM_M,superfamily_Second domain of FERM,HMMSmart_SM00295,superfamily_PH domain-like
BMP2	650	genome.wustl.edu	37	20	6750874	6750874	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001200.2	+1	reviewed	p.A34V	1.000	12	0%	30	16.7%	0	-	benign(0.074)	tolerated(0.07)	neutral(0.324)	NULL
HAO1	54363	genome.wustl.edu	37	20	7915256	7915256	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_017545.2	-1	reviewed	p.R55Q	1.000	65	0%	95	26.3%	0	-	possibly_damaging(0.761)	tolerated(0.35)	neutral(0.302)	HMMPfam_FMN_dh,superfamily_FMN-linked oxidoreductases
PLCB1	23236	genome.wustl.edu	37	20	8721037	8721037	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_015192.2	+1	reviewed	p.T785	0.795	269	0%	63	11.1%	0	-	-	-	-	superfamily_C2 domain (Calcium/lipid-binding domain CaLB)
PLCB4	5332	genome.wustl.edu	37	20	9389727	9389727	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_000933.3	+1	reviewed	p.R621H	1.000	118	0%	57	21.1%	0	-	probably_damaging(1)	deleterious(0)	deleterious(0.945)	HMMPfam_PI-PLC-Y,HMMSmart_PLCYc,superfamily_PLC-like_Pdiesterase_TIM-brl
PLCB4	5332	genome.wustl.edu	37	20	9438096	9438096	+	Missense_Mutation	SNP	A	A	C	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_000933.3	+1	reviewed	p.E999A	1.000	191	0%	50	16%	2	0%	possibly_damaging(0.559)	tolerated(0.48)	neutral(0.201)	NULL
PLCB4	5332	genome.wustl.edu	37	20	9449234	9449234	+	Nonsense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_000933.3	+1	reviewed	p.R1077*	1.000	339	0.3%	72	22.2%	0	-	-	-	-	NULL
ANKRD5	63926	genome.wustl.edu	37	20	10023794	10023794	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_022096.4	+1	validated	p.P124L	1.000	565	0%	339	12.1%	2	50%	probably_damaging(1)	tolerated(0.14)	deleterious(0.750)	HMMSmart_SM00248,superfamily_Ankyrin repeat
SNAP25	6616	genome.wustl.edu	37	20	10258334	10258334	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_003081.2	+1	reviewed	p.S25L	0.999	285	0%	129	17.8%	0	-	probably_damaging(0.991)	deleterious(0)	deleterious(0.889)	HMMSmart_SM00397
JAG1	182	genome.wustl.edu	37	20	10620233	10620233	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_000214.2	-1	reviewed	p.P1190	0.965	586	0.2%	220	24.5%	10	0%	-	-	-	NULL
JAG1	182	genome.wustl.edu	37	20	10621549	10621549	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	ENST00000423891	-1	known	p.R269Q	0.215	320	0%	130	13.8%	9	0%	-	-	-	NULL
BTBD3	22903	genome.wustl.edu	37	20	11898974	11898974	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_014962.2	+1	validated	p.M17I	1.000	177	0%	52	13.5%	1	0%	benign(0.013)	deleterious(0.04)	neutral(0.349)	NULL
BTBD3	22903	genome.wustl.edu	37	20	11903310	11903310	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_014962.2	+1	validated	p.A189T	1.000	69	0%	20	30%	3	66.6%	benign(0.002)	tolerated(0.66)	neutral(0.003)	HMMSmart_BTB,superfamily_BTB/POZ_fold,HMMPfam_BTB
SPTLC3	55304	genome.wustl.edu	37	20	13071817	13071817	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_018327.2	+1	validated	p.A232T	1.000	339	0%	100	23%	0	-	possibly_damaging(0.806)	deleterious(0)	deleterious(0.748)	HMMPfam_Aminotran_1_2,superfamily_PLP-dependent transferases
SPTLC3	55304	genome.wustl.edu	37	20	13098264	13098264	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_018327.2	+1	validated	p.G348	0.983	171	0%	38	18.4%	0	-	-	-	-	HMMPfam_Aminotran_1_2,superfamily_PLP-dependent transferases
ISM1	140862	genome.wustl.edu	37	20	13251304	13251304	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_080826.1	+1	validated	p.D98Y	1.000	377	0%	169	18.9%	1	0%	probably_damaging(0.999)	deleterious(0)	deleterious(0.935)	NULL
TASP1	55617	genome.wustl.edu	37	20	13398143	13398143	+	Silent	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_017714.2	-1	reviewed	p.T374	0.260	426	0.2%	109	9.2%	2	0%	-	-	-	superfamily_SSF56235
ESF1	51575	genome.wustl.edu	37	20	13695709	13695709	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_016649.3	-1	provisional	p.L790I	0.999	429	0%	117	30.8%	3	0%	probably_damaging(0.971)	tolerated(0.97)	neutral(0.413)	NULL
C20orf7	79133	genome.wustl.edu	37	20	13797780	13797780	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_024120.4	+1	reviewed	p.R321I	1.000	167	0%	45	26.7%	25	24%	probably_damaging(1)	deleterious(0)	deleterious(0.945)	NULL
SEL1L2	80343	genome.wustl.edu	37	20	13850238	13850238	+	Splice_Site	SNP	T	T	G	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_025229.1	-1	validated	e14-2	1.000	252	0%	69	15.9%	0	-	-	-	-	-
SEL1L2	80343	genome.wustl.edu	37	20	13866047	13866047	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_025229.1	-1	validated	p.V301	1.000	463	0%	169	37.3%	0	-	-	-	-	HMMPfam_Sel1,HMMSmart_SEL1,superfamily_SSF81901
SEL1L2	80343	genome.wustl.edu	37	20	13912373	13912373	+	Silent	SNP	T	T	C	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_025229.1	-1	validated	p.E53	0.991	467	0%	166	16.9%	0	-	-	-	-	NULL
FLRT3	23767	genome.wustl.edu	37	20	14306482	14306482	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_013281.2	-1	reviewed	p.S557	0.000	241	0%	44	18.2%	0	-	-	-	-	NULL
FLRT3	23767	genome.wustl.edu	37	20	14307372	14307372	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_013281.2	-1	reviewed	p.R261W	0.919	86	0%	21	19%	0	-	possibly_damaging(0.812)	tolerated(0.07)	deleterious(0.625)	HMMPfam_LRR_1,superfamily_SSF52058
MACROD2	140733	genome.wustl.edu	37	20	15210700	15210700	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_080676.5	+1	validated	p.R178Q	1.000	367	0%	135	25.2%	0	-	possibly_damaging(0.833)	tolerated(0.06)	deleterious(0.640)	HMMPfam_Macro,HMMSmart_A1pp,superfamily_SSF52949
KIF16B	55614	genome.wustl.edu	37	20	16352395	16352395	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_024704.3	-1	validated	p.Y1121C	1.000	331	0.3%	125	27.2%	0	-	probably_damaging(1)	tolerated(0.09)	deleterious(0.796)	NULL
BFSP1	631	genome.wustl.edu	37	20	17475306	17475306	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001195.3	-1	reviewed	p.V471M	1.000	187	0%	89	22.5%	0	-	probably_damaging(0.981)	deleterious(0)	deleterious(0.870)	NULL
BFSP1	631	genome.wustl.edu	37	20	17479512	17479512	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001195.3	-1	reviewed	p.K303N	1.000	156	0%	97	24.7%	2	0%	possibly_damaging(0.856)	deleterious(0.01)	deleterious(0.736)	superfamily_Prefoldin
DSTN	11034	genome.wustl.edu	37	20	17581643	17581643	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_006870.3	+1	reviewed	p.S88R	1.000	183	0%	78	34.6%	397	1.5%	possibly_damaging(0.92)	tolerated(0.5)	neutral(0.381)	HMMPfam_Cofilin_ADF,HMMSmart_SM00102,superfamily_Actin depolymerizing proteins
RRBP1	6238	genome.wustl.edu	37	20	17600359	17600359	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001042576.1	-1	reviewed	p.T765	0.010	23	0%	40	32.5%	206	20.3%	-	-	-	NULL
RRBP1	6238	genome.wustl.edu	37	20	17622479	17622479	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001042576.1	-1	reviewed	p.A283V	0.988	141	0%	121	27.3%	72	15.2%	probably_damaging(0.99)	tolerated(0.23)	deleterious(0.483)	NULL
SNX5	27131	genome.wustl.edu	37	20	17934721	17934721	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_014426.2	-1	reviewed	p.R103Q	1.000	429	0%	195	19%	18	5.5%	probably_damaging(1)	deleterious(0.01)	deleterious(0.905)	HMMPfam_PX,superfamily_PX domain
C20orf72	92667	genome.wustl.edu	37	20	17956536	17956536	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_052865.2	+1	predicted	p.A241T	1.000	339	0%	314	23.6%	2	0%	probably_damaging(0.971)	tolerated(0.07)	deleterious(0.732)	NULL
CSRP2BP	57325	genome.wustl.edu	37	20	18123457	18123457	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_020536.4	+1	reviewed	p.S51	0.958	184	0%	222	20.7%	32	15.6%	-	-	-	NULL
ENSG00000252422	0	genome.wustl.edu	37	20	18414494	18414494	+	RNA	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	ENST00000516613	+1	novel	NULL	0.004	87	0%	20	30%	0	-	-	-	-	-
DTD1	92675	genome.wustl.edu	37	20	18576812	18576812	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_080820.4	+1	reviewed	p.T99	0.008	121	0%	111	11.7%	17	0%	-	-	-	HMMPfam_Tyr_Deacylase,superfamily_DTD-like (Pfam 02580)
SLC24A3	57419	genome.wustl.edu	37	20	19566167	19566167	+	Silent	SNP	C	C	A	rs34060393		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_020689.3	+1	validated	p.V197	1.000	745	0.1%	393	20.4%	1	0%	-	-	-	HMMPfam_Na_Ca_ex
SLC24A3	57419	genome.wustl.edu	37	20	19664825	19664825	+	Missense_Mutation	SNP	T	T	G	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_020689.3	+1	validated	p.F303V	1.000	146	0%	160	26.9%	5	0%	benign(0.018)	tolerated(0.51)	neutral(0.009)	NULL
SLC24A3	57419	genome.wustl.edu	37	20	19664864	19664864	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_020689.3	+1	validated	p.L316M	1.000	140	0%	150	19.3%	6	0%	benign(0.19)	tolerated(0.33)	neutral(0.042)	NULL
SLC24A3	57419	genome.wustl.edu	37	20	19664945	19664945	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_020689.3	+1	validated	p.R343W	1.000	151	0%	157	24.2%	7	0%	probably_damaging(0.999)	deleterious(0)	deleterious(0.935)	NULL
CRNKL1	51340	genome.wustl.edu	37	20	20036623	20036623	+	Missense_Mutation	SNP	C	C	G	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_016652.4	-1	reviewed	p.K12N	0.005	354	0%	303	20.1%	0	-	possibly_damaging(0.45)	-	-	NULL
C20orf26	26074	genome.wustl.edu	37	20	20037375	20037375	+	Silent	SNP	T	T	C	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_015585.3	+1	validated	p.C26	1.000	404	0%	311	11.6%	0	-	-	-	-	NULL
C20orf26	26074	genome.wustl.edu	37	20	20140044	20140044	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_015585.3	+1	validated	p.E328K	0.128	221	0%	63	12.7%	0	-	benign(0.021)	tolerated(0.09)	neutral(0.297)	NULL
XRN2	22803	genome.wustl.edu	37	20	21307041	21307041	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_012255.3	+1	reviewed	p.D67G	1.000	318	0%	68	14.7%	7	14.2%	benign(0.038)	tolerated(0.28)	neutral(0.034)	HMMPfam_XRN_N
XRN2	22803	genome.wustl.edu	37	20	21312958	21312958	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_012255.3	+1	reviewed	p.P246	0.977	325	0%	65	20%	13	0%	-	-	-	HMMPfam_XRN_N
XRN2	22803	genome.wustl.edu	37	20	21314238	21314238	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_012255.3	+1	reviewed	p.R305	0.984	422	0%	106	10.4%	14	0%	-	-	-	NULL
XRN2	22803	genome.wustl.edu	37	20	21337269	21337269	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_012255.3	+1	reviewed	p.F722L	1.000	284	0%	40	25%	37	2.7%	benign(0)	tolerated(0.65)	neutral(0.003)	NULL
XRN2	22803	genome.wustl.edu	37	20	21367509	21367509	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_012255.3	+1	reviewed	p.G884	0.008	85	0%	91	20.9%	62	4.8%	-	-	-	NULL
NKX2-2	4821	genome.wustl.edu	37	20	21493048	21493048	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_002509.2	-1	reviewed	p.P112L	1.000	16	0%	35	28.6%	0	-	possibly_damaging(0.846)	tolerated(0.28)	neutral(0.357)	NULL
NKX2-2	4821	genome.wustl.edu	37	20	21494286	21494286	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_002509.2	-1	reviewed	p.T8A	1.000	69	0%	107	13.1%	0	-	benign(0.395)	tolerated(0.14)	neutral(0.377)	NULL
PAX1	5075	genome.wustl.edu	37	20	21687206	21687206	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_006192.3	+1	validated	p.Q139H	1.000	17	0%	35	28.6%	0	-	probably_damaging(0.998)	deleterious(0)	deleterious(0.919)	HMMPfam_PAX,HMMSmart_SM00351,PatternScan_PAIRED_1,superfamily_Homeodomain-like
PAX1	5075	genome.wustl.edu	37	20	21687362	21687362	+	Silent	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_006192.3	+1	validated	p.I191	1.000	31	0%	48	12.5%	0	-	-	-	-	HMMPfam_PAX,HMMSmart_SM00351,superfamily_Homeodomain-like
PAX1	5075	genome.wustl.edu	37	20	21689222	21689222	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_006192.3	+1	validated	p.A315T	0.237	29	0%	51	29.4%	0	-	probably_damaging(0.955)	tolerated(0.16)	neutral(0.458)	NULL
SSTR4	6754	genome.wustl.edu	37	20	23016535	23016535	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001052.2	+1	validated	p.V139M	0.999	45	0%	79	22.8%	0	-	probably_damaging(1)	tolerated(0.19)	deleterious(0.549)	HMMPfam_7tm_1,PatternScan_G_PROTEIN_RECEP_F1_1,superfamily_SSF81321
CST9	128822	genome.wustl.edu	37	20	23586496	23586496	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001008693.2	-1	reviewed	p.S2	0.000	86	0%	49	26.5%	0	-	-	-	-	NULL
CST4	1472	genome.wustl.edu	37	20	23669529	23669529	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001899.2	-1	reviewed	p.E26D	0.001	171	0%	91	28.6%	0	-	benign(0.097)	tolerated(0.61)	neutral(0.011)	NULL
GGTLC1	92086	genome.wustl.edu	37	20	23966394	23966394	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_178311.2	-1	reviewed	p.F147	1.000	232	0.4%	271	11.8%	0	-	-	-	-	HMMPfam_G_glu_transpept
SYNDIG1	79953	genome.wustl.edu	37	20	24523867	24523867	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_024893.1	+1	provisional	p.A45V	0.691	44	0%	45	11.1%	1	0%	benign(0.247)	tolerated(0.05)	neutral(0.370)	NULL
SYNDIG1	79953	genome.wustl.edu	37	20	24524006	24524006	+	Silent	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_024893.1	+1	provisional	p.I91	1.000	21	0%	24	29.2%	3	0%	-	-	-	NULL
ENTPD6	955	genome.wustl.edu	37	20	25198181	25198181	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001247.2	+1	reviewed	p.R281Q	0.925	125	0%	184	29.3%	12	41.6%	benign(0.001)	tolerated(0.67)	neutral(0.003)	HMMPfam_GDA1_CD39
ENTPD6	955	genome.wustl.edu	37	20	25199209	25199209	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001247.2	+1	reviewed	p.S301L	0.993	42	2.4%	30	43.3%	6	16.6%	possibly_damaging(0.555)	tolerated(0.06)	deleterious(0.512)	HMMPfam_GDA1_CD39
GINS1	9837	genome.wustl.edu	37	20	25394432	25394432	+	Nonsense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_021067.3	+1	validated	p.G28*	1.000	439	0%	252	21.8%	0	-	-	-	-	HMMPfam_Psf1
NINL	22981	genome.wustl.edu	37	20	25493586	25493586	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_025176.4	-1	validated	p.R112W	0.724	53	0%	31	32.3%	0	-	possibly_damaging(0.895)	deleterious(0.04)	deleterious(0.702)	superfamily_SSF47473
NINL	22981	genome.wustl.edu	37	20	25507050	25507050	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_025176.4	-1	validated	p.F58	0.994	69	0%	41	29.3%	1	100%	-	-	-	superfamily_SSF47473
ZNF337	26152	genome.wustl.edu	37	20	25656753	25656753	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_015655.2	-1	validated	p.L391I	0.119	243	0%	87	25.3%	6	0%	probably_damaging(0.998)	deleterious(0.02)	deleterious(0.857)	HMMPfam_zf-C2H2,PatternScan_ZINC_FINGER_C2H2_1,HMMSmart_ZnF_C2H2,superfamily_SSF57667
FAM182A	284800	genome.wustl.edu	37	20	26061835	26061835	+	Nonsense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	ENST00000246000	+1	known	p.E63*	0.128	226	0%	289	14.5%	2	0%	-	-	-	NULL
FRG1B	284802	genome.wustl.edu	37	20	29625971	29625971	+	Missense_Mutation	SNP	C	C	A	rs145033899		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	ENST00000278882	+1	known	p.P72Q	1.000	330	5.2%	138	11.6%	16	0%	probably_damaging(0.997)	deleterious(0.04)	deleterious(0.815)	superfamily_Actin_crosslink,HMMPfam_FRG1
REM1	28954	genome.wustl.edu	37	20	30064466	30064466	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_014012.4	+1	reviewed	p.S73Y	0.992	136	0%	319	11.3%	4	0%	probably_damaging(0.998)	deleterious(0.03)	deleterious(0.839)	NULL
REM1	28954	genome.wustl.edu	37	20	30070155	30070155	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_014012.4	+1	reviewed	p.I163	1.000	43	0%	86	25.6%	4	0%	-	-	-	HMMSmart_SM00173,HMMSmart_SM00174,HMMSmart_SM00175,HMMPfam_Ras,superfamily_P-loop containing nucleoside triphosphate hydrolases
BCL2L1	598	genome.wustl.edu	37	20	30309873	30309873	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_138578.1	-1	reviewed	p.A50V	1.000	45	2.2%	94	26.6%	24	4.1%	benign(0)	tolerated(0.5)	neutral(0.010)	superfamily_Bcl-2 inhibitors of programmed cell death
TPX2	22974	genome.wustl.edu	37	20	30371617	30371617	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_012112.4	+1	validated	p.E436K	1.000	296	0%	135	20%	4	25%	probably_damaging(0.995)	deleterious(0.03)	deleterious(0.822)	NULL
TPX2	22974	genome.wustl.edu	37	20	30380628	30380628	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_012112.4	+1	validated	p.D502Y	0.998	269	0%	75	21.3%	2	0%	probably_damaging(0.998)	deleterious(0.01)	deleterious(0.880)	NULL
MYLK2	85366	genome.wustl.edu	37	20	30409395	30409395	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_033118.3	+1	reviewed	p.E209D	1.000	122	0%	145	20%	0	-	possibly_damaging(0.775)	tolerated(0.4)	neutral(0.304)	NULL
TTLL9	164395	genome.wustl.edu	37	20	30496395	30496395	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001008409.2	+1	provisional	p.E70K	0.985	50	0%	45	28.9%	0	-	possibly_damaging(0.608)	tolerated(0.18)	neutral(0.267)	NULL
C20orf160	140706	genome.wustl.edu	37	20	30616912	30616912	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_080625.3	+1	validated	p.R395M	1.000	166	0%	293	10.9%	6	0%	benign(0.388)	deleterious(0)	deleterious(0.569)	NULL
HCK	3055	genome.wustl.edu	37	20	30672286	30672286	+	Missense_Mutation	SNP	C	C	T	rs189947820	by1000genomes	TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_002110.3	+1	reviewed	p.R259W	0.789	190	0%	76	25%	5	0%	probably_damaging(1)	deleterious(0)	deleterious(0.945)	superfamily_Protein kinase-like (PK-like),superfamily_SH2 domain
HCK	3055	genome.wustl.edu	37	20	30672293	30672293	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_002110.3	+1	reviewed	p.S261Y	1.000	200	0%	80	25%	3	0%	probably_damaging(0.997)	deleterious(0)	deleterious(0.911)	superfamily_Protein kinase-like (PK-like),superfamily_SH2 domain
PLAGL2	5326	genome.wustl.edu	37	20	30784440	30784440	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_002657.3	-1	reviewed	p.G436C	1.000	124	0%	150	12%	5	0%	probably_damaging(0.998)	deleterious(0)	deleterious(0.919)	NULL
PLAGL2	5326	genome.wustl.edu	37	20	30784623	30784623	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_002657.3	-1	reviewed	p.A375T	0.997	67	0%	88	30.7%	1	0%	benign(0)	tolerated(0.1)	neutral(0.286)	NULL
PLAGL2	5326	genome.wustl.edu	37	20	30784822	30784822	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_002657.3	-1	reviewed	p.T308	0.024	40	0%	55	32.7%	2	50%	-	-	-	NULL
POFUT1	23509	genome.wustl.edu	37	20	30803192	30803192	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_015352.1	+1	reviewed	p.V123M	0.999	65	0%	79	27.8%	5	0%	possibly_damaging(0.86)	tolerated(0.08)	deleterious(0.633)	HMMPfam_O-FucT
ASXL1	171023	genome.wustl.edu	37	20	31016181	31016181	+	Nonsense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_015338.5	+1	reviewed	p.R143*	0.998	353	0%	478	13.4%	1	0%	-	-	-	NULL
ASXL1	171023	genome.wustl.edu	37	20	31024254	31024254	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_015338.5	+1	reviewed	p.R1247C	0.000	144	0%	195	24.1%	13	0%	benign(0)	deleterious(0.02)	neutral(0.383)	NULL
C20orf112	140688	genome.wustl.edu	37	20	31035492	31035492	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_080616.3	-1	validated	p.A406	0.301	52	0%	110	10.9%	7	0%	-	-	-	NULL
C20orf112	140688	genome.wustl.edu	37	20	31035542	31035542	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_080616.3	-1	validated	p.T390A	1.000	53	0%	96	19.8%	9	44.4%	probably_damaging(0.981)	tolerated(0.39)	neutral(0.442)	NULL
COMMD7	149951	genome.wustl.edu	37	20	31294549	31294549	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_053041.2	-1	validated	p.K85N	0.987	268	0%	147	21.8%	20	25%	possibly_damaging(0.739)	tolerated(0.32)	neutral(0.295)	HMMPfam_HCaRG
DNMT3B	1789	genome.wustl.edu	37	20	31369221	31369221	+	Splice_Site	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_006892.3	+1	reviewed	e2+1	1.000	211	0%	126	28.6%	0	-	-	-	-	-
DNMT3B	1789	genome.wustl.edu	37	20	31372570	31372570	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_006892.3	+1	reviewed	p.T71A	0.692	176	0%	109	23.9%	1	0%	benign(0.231)	deleterious(0.05)	neutral(0.368)	NULL
DNMT3B	1789	genome.wustl.edu	37	20	31394053	31394053	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_006892.3	+1	reviewed	p.S780	0.993	195	0%	115	20%	0	-	-	-	-	HMMPfam_DNA_methylase,superfamily_S-adenosyl-L-methionine-dependent methyltransferases
EFCAB8	388795	genome.wustl.edu	37	20	31531480	31531480	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	ENST00000440534	+1	known	p.T943	0.021	154	0%	57	33.3%	0	-	-	-	-	HMMSmart_SM00320,superfamily_WD40 repeat-like,HMMPfam_WD40
BPIFB2	80341	genome.wustl.edu	37	20	31606872	31606872	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_025227.1	+1	reviewed	p.S287L	0.141	292	0%	371	18.6%	0	-	probably_damaging(0.998)	deleterious(0.01)	deleterious(0.880)	HMMPfam_LBP_BPI_CETP_C,HMMSmart_SM00329,superfamily_Bactericidal permeability-increasing protein BPI
BPIFB6	128859	genome.wustl.edu	37	20	31624301	31624301	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_174897.2	+1	validated	p.A210T	0.000	89	0%	77	28.6%	0	-	benign(0)	tolerated(0.36)	neutral(0.020)	HMMSmart_BPI1,superfamily_Bactericidal_perm-incr_a/b_dom
BPIFB3	359710	genome.wustl.edu	37	20	31647754	31647754	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_182658.1	+1	provisional	p.A148	0.090	26	0%	35	17.1%	0	-	-	-	-	HMMPfam_LBP_BPI_CETP,HMMSmart_BPI1,superfamily_Bactericidal_perm-incr_a/b_dom
BPIFB4	149954	genome.wustl.edu	37	20	31671415	31671415	+	Nonsense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_182519.2	+1	validated	p.R138*	0.796	43	0%	67	13.4%	0	-	-	-	-	NULL
BPIFB4	149954	genome.wustl.edu	37	20	31673849	31673849	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_182519.2	+1	validated	p.A269T	0.966	39	0%	61	27.9%	0	-	benign(0.009)	tolerated(0.27)	neutral(0.034)	HMMPfam_LBP_BPI_CETP,HMMSmart_SM00328,superfamily_Bactericidal permeability-increasing protein BPI
BPIFA2	140683	genome.wustl.edu	37	20	31763324	31763324	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_080574.2	+1	validated	p.C174	0.001	284	0%	161	14.9%	0	-	-	-	-	HMMPfam_LBP_BPI_CETP,superfamily_Bactericidal_perm-incr_a/b_dom
BPIFB1	92747	genome.wustl.edu	37	20	31892678	31892678	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_033197.2	+1	reviewed	p.S412Y	0.901	173	0%	101	22.8%	0	-	probably_damaging(0.999)	deleterious(0)	deleterious(0.935)	superfamily_Bactericidal permeability-increasing protein BPI
CBFA2T2	9139	genome.wustl.edu	37	20	32194886	32194886	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_005093.3	+1	reviewed	p.V62	0.996	216	0%	67	17.9%	1	0%	-	-	-	NULL
CBFA2T2	9139	genome.wustl.edu	37	20	32210986	32210986	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_005093.3	+1	reviewed	p.S201	1.000	72	0%	26	34.6%	0	-	-	-	-	HMMPfam_TAFH,HMMSmart_SM00549
NECAB3	63941	genome.wustl.edu	37	20	32258501	32258501	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_031232.3	-1	reviewed	p.G84	1.000	110	0%	204	12.3%	6	16.6%	-	-	-	superfamily_EF-hand
E2F1	1869	genome.wustl.edu	37	20	32265014	32265014	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_005225.2	-1	reviewed	p.E321D	0.245	214	0%	396	25.3%	4	50%	possibly_damaging(0.907)	tolerated(0.75)	neutral(0.362)	NULL
RALY	22913	genome.wustl.edu	37	20	32664566	32664566	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_016732.1	+1	reviewed	p.I201	0.018	44	0%	91	19.8%	182	20.8%	-	-	-	NULL
ITCH	83737	genome.wustl.edu	37	20	33030093	33030093	+	Missense_Mutation	SNP	A	A	C	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_031483.4	+1	reviewed	p.E317A	1.000	359	0%	131	18.3%	3	0%	possibly_damaging(0.919)	tolerated(0.52)	neutral(0.378)	HMMSmart_SM00456
ITCH	83737	genome.wustl.edu	37	20	33067533	33067533	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_031483.4	+1	reviewed	p.A586V	1.000	480	0%	551	24.5%	7	14.2%	probably_damaging(0.999)	deleterious(0.01)	deleterious(0.896)	HMMPfam_HECT,HMMSmart_SM00119,superfamily_Hect E3 ligase catalytic domain
ITCH	83737	genome.wustl.edu	37	20	33095508	33095508	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_031483.4	+1	reviewed	p.R833H	1.000	243	0%	133	19.5%	21	38%	probably_damaging(1)	deleterious(0)	deleterious(0.945)	HMMPfam_HECT,HMMSmart_SM00119,superfamily_Hect E3 ligase catalytic domain
NCOA6	23054	genome.wustl.edu	37	20	33328530	33328530	+	Nonsense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_014071.2	-1	reviewed	p.E1844*	1.000	334	0%	139	25.2%	23	4.3%	-	-	-	NULL
NCOA6	23054	genome.wustl.edu	37	20	33337268	33337268	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_014071.2	-1	reviewed	p.N910	0.996	449	0%	183	13.7%	3	0%	-	-	-	NULL
GGT7	2686	genome.wustl.edu	37	20	33442378	33442378	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_178026.2	-1	reviewed	p.P425	0.000	141	0%	161	13%	1	0%	-	-	-	HMMPfam_G_glu_transpept
GGT7	2686	genome.wustl.edu	37	20	33449224	33449224	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	ENST00000439668	-1	known	p.E233D	0.003	111	0%	167	32.9%	0	-	-	-	-	NULL
MMP24	10893	genome.wustl.edu	37	20	33834789	33834789	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_006690.3	+1	reviewed	p.I131	0.997	188	0%	211	25.1%	0	-	-	-	-	HMMPfam_PG_binding_1,superfamily_PGBD-like
MMP24	10893	genome.wustl.edu	37	20	33839776	33839776	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_006690.3	+1	reviewed	p.R155H	1.000	166	0%	283	27.6%	0	-	probably_damaging(1)	deleterious(0)	deleterious(0.945)	NULL
MMP24	10893	genome.wustl.edu	37	20	33842520	33842520	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_006690.3	+1	reviewed	p.S260	0.185	173	0%	205	26.8%	0	-	-	-	-	"HMMPfam_Peptidase_M10,HMMSmart_SM00235,superfamily_Metalloproteases (""zincins"") catalytic domain"
UQCC	55245	genome.wustl.edu	37	20	33934936	33934936	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	ENST00000397554	-1	known	p.D202N	0.008	254	0%	103	30.1%	1	100%	benign(0.039)	tolerated(0.62)	neutral(0.006)	HMMPfam_Ubiq_cyt_C_chap
CEP250	11190	genome.wustl.edu	37	20	34091629	34091629	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_007186.3	+1	reviewed	p.A1811V	0.001	66	0%	51	31.4%	13	30.7%	benign(0.001)	tolerated(0.32)	neutral(0.024)	NULL
C20orf173	140873	genome.wustl.edu	37	20	34116989	34116989	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001145350.1	-1	predicted	p.E72K	0.000	185	1.1%	123	17.1%	0	-	benign(0.14)	deleterious(0.02)	neutral(0.395)	NULL
ERGIC3	51614	genome.wustl.edu	37	20	34130684	34130684	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_198398.1	+1	validated	p.R121W	1.000	122	0%	177	11.3%	100	14%	probably_damaging(0.992)	deleterious(0.01)	deleterious(0.853)	NULL
SPAG4	6676	genome.wustl.edu	37	20	34208901	34208901	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_003116.1	+1	reviewed	p.R424Q	0.058	115	0%	167	31.7%	20	30%	possibly_damaging(0.747)	tolerated(0.23)	neutral(0.316)	HMMPfam_Sad1_UNC
RBM12	10137	genome.wustl.edu	37	20	34241499	34241499	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_006047.4	-1	reviewed	p.G582	1.000	245	0%	300	21%	6	0%	-	-	-	HMMPfam_RRM_1,HMMSmart_SM00360,superfamily_RNA-binding domain RBD
RBM39	9584	genome.wustl.edu	37	20	34293160	34293160	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_184234.1	-1	reviewed	p.K467R	1.000	426	0%	418	24.9%	170	19.4%	benign(0.392)	tolerated(0.07)	neutral(0.445)	HMMSmart_SM00360,HMMSmart_SM00361,superfamily_RNA-binding domain RBD
PHF20	51230	genome.wustl.edu	37	20	34526919	34526919	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_016436.4	+1	validated	p.A867	0.003	32	0%	26	23.1%	0	-	-	-	-	NULL
PHF20	51230	genome.wustl.edu	37	20	34528850	34528850	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_016436.4	+1	validated	p.R926I	0.890	119	0%	74	29.7%	1	0%	benign(0.008)	deleterious(0.04)	neutral(0.349)	NULL
C20orf152	140894	genome.wustl.edu	37	20	34560590	34560590	+	Nonsense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_080834.1	+1	predicted	p.R31*	0.999	249	0.4%	144	18.8%	0	-	-	-	-	NULL
C20orf152	140894	genome.wustl.edu	37	20	34571951	34571951	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_080834.1	+1	predicted	p.S152N	1.000	287	0%	144	10.4%	0	-	probably_damaging(0.992)	tolerated(0.14)	deleterious(0.697)	HMMPfam_cNMP_binding,HMMSmart_cNMP,PatternScan_CNMP_BINDING_1,superfamily_cNMP_binding
EPB41L1	2036	genome.wustl.edu	37	20	34766586	34766586	+	Missense_Mutation	SNP	A	A	C	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_012156.2	+1	reviewed	p.Q161P	1.000	255	0%	170	25.9%	2	0%	probably_damaging(0.999)	deleterious(0)	deleterious(0.935)	HMMPfam_FERM_N,PatternScan_FERM_1,HMMSmart_SM00295,superfamily_Ubiquitin-like
EPB41L1	2036	genome.wustl.edu	37	20	34775612	34775612	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_012156.2	+1	reviewed	p.G267E	1.000	122	0%	48	16.7%	1	0%	possibly_damaging(0.564)	deleterious(0.01)	deleterious(0.598)	PatternScan_FERM_2,HMMPfam_FERM_M,superfamily_Second domain of FERM,HMMSmart_SM00295
EPB41L1	2036	genome.wustl.edu	37	20	34782282	34782282	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_012156.2	+1	reviewed	p.K483N	1.000	57	0%	16	43.8%	8	0%	possibly_damaging(0.918)	deleterious(0.01)	deleterious(0.774)	NULL
EPB41L1	2036	genome.wustl.edu	37	20	34797683	34797683	+	Missense_Mutation	SNP	A	A	C	rs35398928		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_012156.2	+1	reviewed	p.S648R	1.000	32	0%	47	17%	7	0%	benign(0.001)	tolerated(0.57)	neutral(0.006)	NULL
C20orf4	25980	genome.wustl.edu	37	20	34828248	34828248	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_015511.3	+1	predicted	p.R153Q	1.000	120	0.8%	50	24%	11	9%	benign(0.061)	tolerated(0.48)	neutral(0.015)	HMMPfam_AAR2
DLGAP4	22839	genome.wustl.edu	37	20	35060706	35060706	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_014902.4	+1	reviewed	p.R196C	1.000	16	0%	29	27.6%	0	-	probably_damaging(1)	deleterious(0)	deleterious(0.945)	NULL
SOGA1	140710	genome.wustl.edu	37	20	35422335	35422335	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	ENST00000237536	-1	known	p.R1384C	0.999	37	0%	52	17.3%	1	0%	probably_damaging(0.997)	deleterious(0)	deleterious(0.911)	NULL
SOGA1	140710	genome.wustl.edu	37	20	35444287	35444287	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_199181.2	-1	validated	p.E282K	1.000	44	0%	61	19.7%	0	-	probably_damaging(0.998)	deleterious(0.01)	deleterious(0.880)	NULL
SOGA1	140710	genome.wustl.edu	37	20	35457551	35457551	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_199181.2	-1	validated	p.R88Q	0.226	129	0%	188	11.7%	2	0%	possibly_damaging(0.883)	deleterious(0.03)	deleterious(0.710)	NULL
RBL1	5933	genome.wustl.edu	37	20	35675477	35675477	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_002895.2	-1	reviewed	p.L528	0.730	209	0%	88	26.1%	0	-	-	-	-	HMMPfam_RB_A,superfamily_Cyclin-like
C20orf132	140699	genome.wustl.edu	37	20	35783531	35783531	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	ENST00000400441	-1	known	p.R337W	0.999	148	0%	217	24.4%	0	-	probably_damaging(1)	deleterious(0)	deleterious(0.945)	superfamily_ARM repeat
GHRH	2691	genome.wustl.edu	37	20	35884897	35884897	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_021081.4	-1	reviewed	p.R30W	0.962	48	0%	22	31.8%	0	-	probably_damaging(0.983)	deleterious(0.02)	deleterious(0.812)	NULL
CTNNBL1	56259	genome.wustl.edu	37	20	36431392	36431392	+	Silent	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_030877.3	+1	reviewed	p.L385	0.997	258	0%	60	20%	34	14.7%	-	-	-	superfamily_ARM repeat
TTI1	9675	genome.wustl.edu	37	20	36634776	36634776	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_014657.1	-1	predicted	p.N776D	0.000	417	0%	333	23.4%	4	25%	benign(0)	tolerated(0.89)	-	superfamily_ARM-type_fold
TTI1	9675	genome.wustl.edu	37	20	36640431	36640431	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_014657.1	-1	predicted	p.T596	0.001	245	0%	167	25.7%	2	0%	-	-	-	superfamily_ARM-type_fold
TGM2	7052	genome.wustl.edu	37	20	36758728	36758728	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_004613.2	-1	reviewed	p.D653N	1.000	46	0%	45	33.3%	28	0%	possibly_damaging(0.843)	tolerated(0.31)	neutral(0.350)	HMMPfam_Transglut_C,superfamily_Transglutaminase two C-terminal domains
TGM2	7052	genome.wustl.edu	37	20	36760827	36760827	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_004613.2	-1	reviewed	p.R564Q	0.966	101	0%	70	35.7%	39	0%	benign(0.074)	tolerated(0.12)	neutral(0.266)	HMMPfam_Transglut_C,superfamily_Transglutaminase two C-terminal domains
TGM2	7052	genome.wustl.edu	37	20	36769687	36769687	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_004613.2	-1	reviewed	p.E366K	1.000	22	0%	32	31.2%	23	0%	possibly_damaging(0.825)	deleterious(0.04)	deleterious(0.661)	superfamily_Cysteine proteinases
KIAA1755	85449	genome.wustl.edu	37	20	36841894	36841894	+	Silent	SNP	T	T	C	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001029864.1	-1	predicted	p.A1051	0.000	39	0%	31	16.1%	12	0%	-	-	-	NULL
KIAA1755	85449	genome.wustl.edu	37	20	36841962	36841962	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001029864.1	-1	predicted	p.L1029M	0.668	26	0%	35	22.9%	17	0%	benign(0.014)	tolerated(0.22)	neutral(0.043)	NULL
KIAA1755	85449	genome.wustl.edu	37	20	36846675	36846675	+	Nonsense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001029864.1	-1	predicted	p.E884*	0.185	134	0%	102	24.5%	4	0%	-	-	-	NULL
LBP	3929	genome.wustl.edu	37	20	36993328	36993328	+	Silent	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_004139.2	+1	reviewed	p.I281	0.999	289	0%	254	10.2%	0	-	-	-	-	HMMPfam_LBP_BPI_CETP_C,HMMSmart_SM00329,superfamily_Bactericidal permeability-increasing protein BPI
LBP	3929	genome.wustl.edu	37	20	36997773	36997773	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_004139.2	+1	reviewed	p.S372	0.042	133	0%	104	10.6%	1	0%	-	-	-	HMMPfam_LBP_BPI_CETP_C,HMMSmart_SM00329,superfamily_Bactericidal permeability-increasing protein BPI
RALGAPB	57148	genome.wustl.edu	37	20	37146448	37146448	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_020336.2	+1	validated	p.K408E	0.997	453	0%	416	24.8%	1	100%	benign(0)	tolerated(0.97)	-	NULL
RALGAPB	57148	genome.wustl.edu	37	20	37175026	37175026	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_020336.2	+1	validated	p.N952S	1.000	279	0%	64	20.3%	3	0%	probably_damaging(0.971)	deleterious(0.03)	deleterious(0.777)	NULL
TOP1	7150	genome.wustl.edu	37	20	39742794	39742794	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_003286.2	+1	reviewed	p.R546Q	1.000	71	0%	25	28%	22	4.5%	benign(0.121)	tolerated(0.75)	neutral(0.011)	superfamily_DNA breaking-rejoining enzymes,HMMSmart_SM00435,HMMPfam_Topoisom_I
ZHX3	23051	genome.wustl.edu	37	20	39832900	39832900	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_015035.3	-1	reviewed	p.S219	0.000	189	0%	70	21.4%	0	-	-	-	-	NULL
LPIN3	64900	genome.wustl.edu	37	20	39978973	39978973	+	Nonsense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_022896.1	+1	validated	p.W346*	0.998	36	0%	46	17.4%	0	-	-	-	-	NULL
EMILIN3	90187	genome.wustl.edu	37	20	39990839	39990839	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_052846.1	-1	validated	p.D457G	0.004	70	0%	146	28.8%	0	-	benign(0)	deleterious(0.02)	neutral(0.383)	NULL
CHD6	84181	genome.wustl.edu	37	20	40076601	40076601	+	Nonsense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_032221.3	-1	reviewed	p.R1232*	1.000	239	0%	57	24.6%	2	50%	-	-	-	NULL
CHD6	84181	genome.wustl.edu	37	20	40080616	40080616	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_032221.3	-1	reviewed	p.L1125M	1.000	201	0%	72	9.7%	1	0%	probably_damaging(1)	tolerated(0.11)	deleterious(0.772)	NULL
CHD6	84181	genome.wustl.edu	37	20	40126771	40126771	+	Silent	SNP	A	A	G	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	ENST00000373222	-1	known	p.F372	0.341	101	0%	23	34.8%	1	0%	-	-	-	NULL
PTPRT	11122	genome.wustl.edu	37	20	41100936	41100936	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_133170.3	-1	reviewed	p.E474K	1.000	83	0%	20	35%	0	-	benign(0.002)	tolerated(1)	-	superfamily_Fibronectin type III
PTPRT	11122	genome.wustl.edu	37	20	41306713	41306713	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_133170.3	-1	reviewed	p.G316R	1.000	171	0%	33	39.4%	0	-	probably_damaging(1)	tolerated(0.19)	deleterious(0.549)	HMMPfam_fn3,HMMSmart_SM00060,superfamily_Fibronectin type III
L3MBTL1	26013	genome.wustl.edu	37	20	42169618	42169618	+	Silent	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_015478.5	+1	reviewed	p.V723	0.008	225	0%	102	24.5%	2	100%	-	-	-	NULL
IFT52	51098	genome.wustl.edu	37	20	42249520	42249520	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_016004.2	+1	validated	p.T241	0.037	220	0%	95	22.1%	24	12.5%	-	-	-	NULL
IFT52	51098	genome.wustl.edu	37	20	42265794	42265794	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_016004.2	+1	validated	p.P341S	1.000	388	0%	204	20.1%	47	17%	probably_damaging(1)	deleterious(0.01)	deleterious(0.905)	NULL
GTSF1L	149699	genome.wustl.edu	37	20	42355002	42355002	+	Silent	SNP	G	G	A	rs148860791	by1000genomes	TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_176791.3	-1	validated	p.C111	0.879	213	0%	117	12.8%	1	0%	-	-	-	HMMPfam_UPF0224
GTSF1L	149699	genome.wustl.edu	37	20	42355170	42355170	+	Silent	SNP	A	A	G	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_176791.3	-1	validated	p.N55	0.954	244	0%	105	16.2%	1	0%	-	-	-	HMMPfam_UPF0224
C20orf111	51526	genome.wustl.edu	37	20	42826066	42826066	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_016470.6	-1	provisional	p.A169T	0.002	260	0%	137	16.8%	54	25.9%	benign(0)	tolerated(0.38)	neutral(0.018)	HMMPfam_DUF776
FITM2	128486	genome.wustl.edu	37	20	42935515	42935515	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001080472.1	-1	provisional	p.R180Q	0.045	117	0.9%	170	27.1%	2	0%	probably_damaging(0.976)	tolerated(0.15)	deleterious(0.659)	HMMPfam_Scs3p
R3HDML	140902	genome.wustl.edu	37	20	42969910	42969910	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_178491.2	+1	provisional	p.Q112	1.000	52	0%	45	26.7%	0	-	-	-	-	HMMSmart_SCP,HMMPfam_SCP,superfamily_SCP-like_extracellular
TTPAL	79183	genome.wustl.edu	37	20	43109011	43109011	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001039199.1	+1	validated	p.V124	1.000	38	0%	35	22.9%	1	0%	-	-	-	HMMSmart_SEC14,superfamily_CRAL_TRIO_C
ADA	100	genome.wustl.edu	37	20	43257798	43257798	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_000022.2	-1	reviewed	p.I36	0.838	54	0%	38	28.9%	4	0%	-	-	-	HMMPfam_A_deaminase,superfamily_SSF51556
RIMS4	140730	genome.wustl.edu	37	20	43386333	43386333	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_182970.2	-1	validated	p.K143N	1.000	65	0%	82	13.4%	0	-	possibly_damaging(0.549)	deleterious(0.03)	deleterious(0.551)	HMMPfam_C2,HMMSmart_C2,superfamily_C2_CaLB
STK4	6789	genome.wustl.edu	37	20	43653760	43653760	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_006282.2	+1	reviewed	p.D432Y	1.000	264	0%	47	27.7%	0	-	probably_damaging(1)	deleterious(0)	deleterious(0.945)	NULL
LOC100287145	100287145	genome.wustl.edu	37	20	43804671	43804671	+	Missense_Mutation	SNP	C	C	T	rs145742984	by1000genomes	TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	XM_002343707.1	-1	model	p.A87T	0.000	242	0%	78	26.9%	7	28.5%	-	-	-	NULL
RBPJL	11317	genome.wustl.edu	37	20	43942153	43942153	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_014276.2	+1	reviewed	p.R222H	1.000	172	0%	246	26.4%	0	-	probably_damaging(0.999)	deleterious(0)	deleterious(0.935)	HMMPfam_Beta-trefoil,superfamily_Beta-trefoil
RBPJL	11317	genome.wustl.edu	37	20	43945224	43945224	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	ENST00000372741	+1	known	p.Y428	0.000	122	0%	151	25.2%	0	-	-	-	-	NULL
RBPJL	11317	genome.wustl.edu	37	20	43945428	43945428	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	ENST00000372741	+1	known	p.R465C	0.003	58	0%	93	29%	1	100%	unknown(0)	-	-	NULL
TP53TG5	27296	genome.wustl.edu	37	20	44002556	44002556	+	Silent	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_014477.2	-1	validated	p.V288	0.913	239	0%	138	20.3%	0	-	-	-	-	NULL
PIGT	51604	genome.wustl.edu	37	20	44045180	44045180	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_015937.4	+1	reviewed	p.K71E	1.000	60	0%	89	11.2%	29	0%	probably_damaging(0.998)	deleterious(0.01)	deleterious(0.880)	HMMPfam_Gpi16
PIGT	51604	genome.wustl.edu	37	20	44047543	44047543	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_015937.4	+1	reviewed	p.C139	0.970	289	0.3%	271	21.4%	43	6.9%	unknown(0)	tolerated(0.39)	-	HMMPfam_Gpi16
PIGT	51604	genome.wustl.edu	37	20	44047544	44047544	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_015937.4	+1	reviewed	p.A140T	1.000	275	0%	249	25.3%	43	2.3%	benign(0.137)	deleterious(0.01)	neutral(0.417)	HMMPfam_Gpi16
WFDC3	140686	genome.wustl.edu	37	20	44417598	44417598	+	Silent	SNP	A	A	G	rs77181676		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	ENST00000337205	-1	known	p.V55A	0.966	179	0%	239	29.7%	0	-	-	-	-	HMMPfam_WAP,HMMSmart_SM00217,superfamily_Elafin-like
WFDC3	140686	genome.wustl.edu	37	20	44418585	44418585	+	Splice_Site	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	ENST00000337205	-1	known	e2-1	0.988	191	0%	223	28.3%	0	-	-	-	-	-
DNTTIP1	116092	genome.wustl.edu	37	20	44430647	44430647	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_052951.2	+1	validated	p.R170W	1.000	91	0%	77	22.1%	30	10%	possibly_damaging(0.442)	tolerated(0.21)	neutral(0.189)	NULL
CTSA	5476	genome.wustl.edu	37	20	44523661	44523661	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_000308.2	+1	reviewed	p.R344H	0.769	103	0%	187	13.9%	90	1.1%	benign(0.02)	tolerated(0.22)	neutral(0.043)	HMMPfam_Peptidase_S10,superfamily_alpha/beta-Hydrolases
CTSA	5476	genome.wustl.edu	37	20	44527059	44527059	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_000308.2	+1	reviewed	p.F489L	1.000	71	0%	96	26%	443	31.3%	benign(0.023)	tolerated(0.45)	neutral(0.013)	HMMPfam_Peptidase_S10,superfamily_alpha/beta-Hydrolases
PCIF1	63935	genome.wustl.edu	37	20	44576244	44576244	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_022104.3	+1	validated	p.P655	0.249	22	0%	43	30.2%	56	21.4%	-	-	-	NULL
ZNF335	63925	genome.wustl.edu	37	20	44577619	44577619	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_022095.3	-1	reviewed	p.Y1334	0.889	80	0%	85	18.8%	52	13.4%	-	-	-	NULL
ZNF335	63925	genome.wustl.edu	37	20	44578930	44578930	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_022095.3	-1	reviewed	p.R1139W	0.608	249	0%	233	25.8%	18	11.1%	probably_damaging(0.999)	deleterious(0)	deleterious(0.935)	NULL
ZNF335	63925	genome.wustl.edu	37	20	44588946	44588946	+	Silent	SNP	A	A	G	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_022095.3	-1	reviewed	p.L641	1.000	148	0%	119	26.1%	5	0%	-	-	-	HMMPfam_zf-C2H2,PatternScan_ZINC_FINGER_C2H2_1,HMMSmart_SM00355,superfamily_C2H2 and C2HC zinc fingers
ZNF335	63925	genome.wustl.edu	37	20	44592188	44592188	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_022095.3	-1	reviewed	p.S486F	1.000	115	0%	174	23%	3	0%	probably_damaging(0.998)	deleterious(0.01)	deleterious(0.880)	PatternScan_ZINC_FINGER_C2H2_1,HMMSmart_SM00355,superfamily_C2H2 and C2HC zinc fingers
ZNF335	63925	genome.wustl.edu	37	20	44592419	44592419	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_022095.3	-1	reviewed	p.R438Q	0.999	136	0%	204	13.7%	3	0%	probably_damaging(0.994)	tolerated(0.07)	deleterious(0.771)	NULL
SLC12A5	57468	genome.wustl.edu	37	20	44665382	44665382	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001134771.1	+1	reviewed	p.T166	0.998	270	0%	278	11.2%	0	-	-	-	-	HMMPfam_AA_permease
SLC12A5	57468	genome.wustl.edu	37	20	44682327	44682327	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001134771.1	+1	reviewed	p.A909	0.114	222	0%	290	24.1%	0	-	-	-	-	NULL
CDH22	64405	genome.wustl.edu	37	20	44845498	44845498	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_021248.1	-1	reviewed	p.D269N	0.994	53	0%	49	28.6%	0	-	probably_damaging(1)	deleterious(0)	deleterious(0.945)	HMMSmart_SM00112,PatternScan_CADHERIN_1,superfamily_Cadherin-like
CDH22	64405	genome.wustl.edu	37	20	44869731	44869731	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_021248.1	-1	reviewed	p.D141N	1.000	50	0%	69	20.3%	0	-	benign(0.057)	tolerated(0.36)	neutral(0.024)	HMMPfam_Cadherin,HMMSmart_SM00112,superfamily_Cadherin-like
CDH22	64405	genome.wustl.edu	37	20	44869816	44869816	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_021248.1	-1	reviewed	p.I112	0.920	71	0%	65	32.3%	0	-	-	-	-	HMMPfam_Cadherin,HMMSmart_SM00112,superfamily_Cadherin-like
ELMO2	63916	genome.wustl.edu	37	20	45008943	45008943	+	Splice_Site	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_133171.3	-1	reviewed	e9-1	1.000	226	0%	123	22%	0	-	-	-	-	-
ZNF840	100130863	genome.wustl.edu	37	20	45092861	45092861	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	XM_001722110.1	+1	model	p.R98	0.974	56	0%	32	12.5%	0	-	-	-	-	NULL
ZNF334	55713	genome.wustl.edu	37	20	45130702	45130702	+	Missense_Mutation	SNP	T	T	G	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_018102.3	-1	validated	p.S426R	0.994	242	0%	133	21.1%	4	25%	probably_damaging(0.996)	deleterious(0.02)	deleterious(0.845)	HMMPfam_zf-C2H2,PatternScan_ZINC_FINGER_C2H2_1,HMMSmart_ZnF_C2H2,superfamily_SSF57667
ZNF334	55713	genome.wustl.edu	37	20	45130860	45130860	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_018102.3	-1	validated	p.G373V	1.000	323	0%	202	22.8%	2	50%	probably_damaging(1)	deleterious(0)	deleterious(0.945)	superfamily_SSF57667
ZNF334	55713	genome.wustl.edu	37	20	45132981	45132981	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	ENST00000331711	-1	known	p.R61K	0.115	209	0%	158	24.1%	0	-	-	-	-	NULL
C20orf123	128506	genome.wustl.edu	37	20	45170254	45170254	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	XM_002343721.1	-1	model	p.D448N	0.000	83	0%	149	27.5%	0	-	benign(0.004)	tolerated(0.31)	neutral(0.027)	NULL
SLC13A3	64849	genome.wustl.edu	37	20	45217885	45217885	+	Nonsense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	ENST00000450298	-1	known	p.E140*	1.000	237	0%	134	28.4%	0	-	possibly_damaging(0.699)	tolerated(0.42)	neutral(0.266)	HMMPfam_Na_sulph_symp
ZMYND8	23613	genome.wustl.edu	37	20	45850049	45850049	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	ENST00000467200	-1	known	p.E973K	0.018	308	0%	121	26.4%	24	41.6%	-	-	-	NULL
ZMYND8	23613	genome.wustl.edu	37	20	45867727	45867727	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_183047.1	-1	reviewed	p.A814T	0.897	48	0%	120	15.8%	5	20%	benign(0)	tolerated(0.22)	neutral(0.042)	NULL
ZMYND8	23613	genome.wustl.edu	37	20	45910846	45910846	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_183047.1	-1	reviewed	p.R333M	1.000	188	0%	50	12%	0	-	possibly_damaging(0.926)	deleterious(0.03)	deleterious(0.739)	HMMPfam_PWWP,superfamily_SSF63748
NCOA3	8202	genome.wustl.edu	37	20	46281725	46281725	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_181659.2	+1	reviewed	p.S1391N	0.004	182	0%	61	24.6%	8	0%	unknown(0)	tolerated(1)	-	NULL
SULF2	55959	genome.wustl.edu	37	20	46331380	46331380	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_018837.3	-1	validated	p.G150	0.996	97	0%	49	14.3%	34	0%	-	-	-	HMMPfam_Sulfatase,superfamily_Alkaline phosphatase-like
PREX1	57580	genome.wustl.edu	37	20	47251229	47251229	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_020820.3	-1	reviewed	p.E1418K	1.000	80	0%	145	11.7%	11	0%	possibly_damaging(0.682)	deleterious(0)	deleterious(0.688)	NULL
PREX1	57580	genome.wustl.edu	37	20	47267434	47267434	+	Nonsense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_020820.3	-1	reviewed	p.E939*	1.000	42	0%	48	10.4%	1	0%	-	-	-	NULL
PREX1	57580	genome.wustl.edu	37	20	47361622	47361622	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_020820.3	-1	reviewed	p.E118D	0.690	130	0%	97	22.7%	0	-	benign(0.026)	tolerated(0.11)	neutral(0.273)	HMMPfam_RhoGEF,HMMSmart_SM00325,superfamily_DBL homology domain (DH-domain)
ARFGEF2	10564	genome.wustl.edu	37	20	47587670	47587670	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_006420.2	+1	reviewed	p.R402C	1.000	362	0%	217	27.2%	3	0%	probably_damaging(1)	deleterious(0)	deleterious(0.945)	superfamily_ARM-type_fold
ARFGEF2	10564	genome.wustl.edu	37	20	47602013	47602013	+	Missense_Mutation	SNP	C	C	G	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_006420.2	+1	reviewed	p.D713E	1.000	224	0%	71	18.3%	1	0%	probably_damaging(0.969)	deleterious(0)	deleterious(0.856)	HMMPfam_Sec7,HMMSmart_Sec7,superfamily_Sec7,superfamily_ARM-type_fold
ARFGEF2	10564	genome.wustl.edu	37	20	47628587	47628587	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_006420.2	+1	reviewed	p.R1295H	1.000	185	0%	67	29.9%	2	0%	probably_damaging(1)	deleterious(0.01)	deleterious(0.905)	superfamily_ARM-type_fold
CSE1L	1434	genome.wustl.edu	37	20	47679868	47679868	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001316.2	+1	reviewed	p.R72M	1.000	144	0%	37	35.1%	4	0%	probably_damaging(0.972)	deleterious(0)	deleterious(0.859)	HMMPfam_IBN_N,superfamily_ARM repeat
STAU1	6780	genome.wustl.edu	37	20	47734942	47734942	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_017453.2	-1	reviewed	p.P373S	1.000	380	0%	191	11.5%	22	4.5%	probably_damaging(1)	tolerated(0.6)	deleterious(0.504)	NULL
STAU1	6780	genome.wustl.edu	37	20	47739727	47739727	+	Nonsense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_017453.2	-1	reviewed	p.R290*	1.000	155	0%	73	28.8%	10	0%	-	-	-	HMMPfam_dsrm,HMMSmart_SM00358,superfamily_dsRNA-binding domain-like
DDX27	55661	genome.wustl.edu	37	20	47860165	47860165	+	Splice_Site	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_017895.7	+1	reviewed	e20-1	1.000	218	0%	98	27.6%	9	88.8%	-	-	-	-
ZNFX1	57169	genome.wustl.edu	37	20	47864725	47864725	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_021035.2	-1	validated	p.V1612	0.990	126	0%	67	25.4%	3	33.3%	-	-	-	NULL
ZNFX1	57169	genome.wustl.edu	37	20	47864730	47864730	+	Nonsense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_021035.2	-1	validated	p.E1611*	0.967	124	0%	66	34.8%	3	0%	-	-	-	NULL
ZNFX1	57169	genome.wustl.edu	37	20	47865697	47865697	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_021035.2	-1	validated	p.C1288	0.982	71	0%	47	14.9%	1	0%	-	-	-	NULL
ZNFX1	57169	genome.wustl.edu	37	20	47887033	47887033	+	Missense_Mutation	SNP	A	A	C	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_021035.2	-1	validated	p.F439C	1.000	155	0%	117	26.5%	4	0%	possibly_damaging(0.788)	tolerated(0.19)	neutral(0.344)	NULL
KCNB1	3745	genome.wustl.edu	37	20	47991395	47991395	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_004975.2	-1	reviewed	p.A234	0.018	152	0%	83	31.3%	0	-	-	-	-	HMMPfam_Ion_trans,superfamily_SSF81324
PTGIS	5740	genome.wustl.edu	37	20	48156259	48156259	+	Splice_Site	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_000961.3	-1	reviewed	e5-1	1.000	69	0%	38	21.1%	0	-	-	-	-	-
B4GALT5	9334	genome.wustl.edu	37	20	48256228	48256228	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_004776.3	-1	validated	p.D302N	1.000	195	0.5%	82	26.8%	7	0%	probably_damaging(1)	deleterious(0)	deleterious(0.945)	HMMPfam_Galactosyl_T_2,superfamily_SSF53448
RNF114	55905	genome.wustl.edu	37	20	48558165	48558165	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_018683.3	+1	validated	p.A70T	0.964	109	0%	137	16.1%	55	16.3%	benign(0.002)	tolerated(0.59)	neutral(0.004)	superfamily_RING/U-box
FAM65C	140876	genome.wustl.edu	37	20	49218675	49218675	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_080829.2	-1	predicted	p.T527	0.000	12	0%	23	39.1%	6	0%	-	-	-	NULL
ADNP	23394	genome.wustl.edu	37	20	49510725	49510725	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_015339.2	-1	reviewed	p.L176I	1.000	379	0.3%	133	25.6%	3	0%	probably_damaging(0.999)	deleterious(0)	deleterious(0.935)	HMMSmart_ZnF_C2H2
ATP9A	10079	genome.wustl.edu	37	20	50217793	50217793	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_006045.1	-1	validated	p.R1034Q	0.995	146	0%	63	31.7%	4	25%	benign(0.272)	tolerated(0.31)	neutral(0.056)	NULL
ATP9A	10079	genome.wustl.edu	37	20	50234077	50234077	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_006045.1	-1	validated	p.D789	1.000	134	0%	88	23.9%	2	0%	-	-	-	HMMPfam_Hydrolase,superfamily_HAD-like
ATP9A	10079	genome.wustl.edu	37	20	50286545	50286545	+	Missense_Mutation	SNP	A	A	C	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_006045.1	-1	validated	p.I428M	0.214	425	0%	252	17.5%	0	-	benign(0.001)	tolerated(0.28)	neutral(0.032)	HMMPfam_Hydrolase,superfamily_HAD-like,superfamily_Metal cation-transporting ATPase ATP-binding domain N
ATP9A	10079	genome.wustl.edu	37	20	50307279	50307279	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_006045.1	-1	validated	p.R241Q	0.999	221	0%	117	9.4%	2	0%	possibly_damaging(0.691)	tolerated(0.29)	neutral(0.277)	HMMPfam_E1-E2_ATPase,superfamily_Calcium ATPase transduction domain A
SALL4	57167	genome.wustl.edu	37	20	50407577	50407577	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_020436.3	-1	reviewed	p.S482Y	0.030	201	0%	128	19.5%	0	-	benign(0.014)	deleterious(0.01)	neutral(0.406)	NULL
SALL4	57167	genome.wustl.edu	37	20	50408430	50408430	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_020436.3	-1	reviewed	p.A198T	0.002	48	0%	53	24.5%	0	-	benign(0.007)	tolerated(0.43)	neutral(0.013)	NULL
ZFP64	55734	genome.wustl.edu	37	20	50701128	50701128	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_199427.2	-1	validated	p.E636K	0.831	37	0%	47	27.7%	1	0%	possibly_damaging(0.633)	deleterious(0.01)	deleterious(0.627)	NULL
ZFP64	55734	genome.wustl.edu	37	20	50701793	50701793	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_199427.2	-1	validated	p.F414S	1.000	66	0%	56	10.7%	0	-	probably_damaging(1)	deleterious(0)	deleterious(0.945)	HMMPfam_zf-C2H2,HMMSmart_SM00355,superfamily_C2H2 and C2HC zinc fingers
LOC100288393	100288393	genome.wustl.edu	37	20	50769597	50769597	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	XM_002343724.1	+1	model	p.E17K	0.998	155	0%	256	12.5%	3	0%	-	-	-	NULL
ZFP64	55734	genome.wustl.edu	37	20	50781254	50781254	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_018197.2	-1	validated	p.R164Q	1.000	393	0%	195	22.1%	4	0%	probably_damaging(1)	tolerated(0.08)	deleterious(0.800)	HMMSmart_SM00355,superfamily_C2H2 and C2HC zinc fingers
TSHZ2	128553	genome.wustl.edu	37	20	51870393	51870393	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_173485.4	+1	validated	p.I132	1.000	93	0%	83	21.7%	0	-	-	-	-	NULL
TSHZ2	128553	genome.wustl.edu	37	20	51870793	51870793	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_173485.4	+1	validated	p.M266V	1.000	96	0%	65	29.2%	0	-	possibly_damaging(0.572)	deleterious(0)	deleterious(0.641)	NULL
TSHZ2	128553	genome.wustl.edu	37	20	51872331	51872331	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_173485.4	+1	validated	p.S778	0.930	113	0%	127	27.6%	4	0%	-	-	-	NULL
ZNF217	7764	genome.wustl.edu	37	20	52198462	52198462	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_006526.2	-1	validated	p.A302T	1.000	138	0%	109	20.2%	1	0%	probably_damaging(1)	tolerated(0.08)	deleterious(0.800)	NULL
BCAS1	8537	genome.wustl.edu	37	20	52583456	52583456	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_003657.2	-1	reviewed	p.L447I	1.000	298	0%	74	28.4%	0	-	probably_damaging(0.998)	tolerated(0.09)	deleterious(0.771)	NULL
BCAS1	8537	genome.wustl.edu	37	20	52612543	52612543	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_003657.2	-1	reviewed	p.A257V	0.000	259	0%	46	17.4%	0	-	benign(0)	tolerated(1)	-	NULL
DOK5	55816	genome.wustl.edu	37	20	53208208	53208208	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_018431.3	+1	reviewed	p.C155R	1.000	392	0%	139	27.3%	2	0%	probably_damaging(1)	deleterious(0.03)	deleterious(0.865)	HMMPfam_IRS,HMMSmart_SM00310,superfamily_PH domain-like
MC3R	4159	genome.wustl.edu	37	20	54824141	54824141	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_019888.3	+1	reviewed	p.A81V	1.000	63	0%	48	22.9%	0	-	possibly_damaging(0.952)	deleterious(0)	deleterious(0.840)	HMMPfam_7tm_1,superfamily_Family A G protein-coupled receptor-like
MC3R	4159	genome.wustl.edu	37	20	54824796	54824796	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_019888.3	+1	reviewed	p.Y299	0.996	297	0%	145	24.8%	0	-	-	-	-	HMMPfam_7tm_1,superfamily_Family A G protein-coupled receptor-like
CASS4	57091	genome.wustl.edu	37	20	55027225	55027225	+	Silent	SNP	T	T	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_020356.3	+1	validated	p.V331	0.029	129	0%	99	25.3%	0	-	-	-	-	NULL
CASS4	57091	genome.wustl.edu	37	20	55028061	55028061	+	Missense_Mutation	SNP	A	A	C	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_020356.3	+1	validated	p.K610T	0.000	213	0%	130	20%	0	-	benign(0.025)	tolerated(0.12)	neutral(0.262)	NULL
FAM209B	388799	genome.wustl.edu	37	20	55111362	55111362	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001013646.2	+1	predicted	p.S128	0.998	249	0%	121	12.4%	0	-	-	-	-	NULL
TFAP2C	7022	genome.wustl.edu	37	20	55206738	55206738	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_003222.3	+1	reviewed	p.E176K	0.996	41	0%	63	15.9%	1	0%	benign(0.026)	deleterious(0.01)	neutral(0.407)	NULL
SPO11	23626	genome.wustl.edu	37	20	55913410	55913410	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_012444.2	+1	reviewed	p.L275I	1.000	379	0%	301	25.9%	0	-	possibly_damaging(0.593)	deleterious(0)	deleterious(0.649)	superfamily_DNA topoisomerase IV alpha subunit
SPO11	23626	genome.wustl.edu	37	20	55917819	55917819	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_012444.2	+1	reviewed	p.T332A	1.000	317	0%	285	24.9%	0	-	possibly_damaging(0.61)	deleterious(0.04)	deleterious(0.560)	superfamily_DNA topoisomerase IV alpha subunit
HMGB1P1	10357	genome.wustl.edu	37	20	56063619	56063619	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	ENST00000452924	-1	known	p.Y155	1.000	184	0%	87	14.9%	0	-	-	-	-	HMMPfam_HMG_box,HMMSmart_HMG,superfamily_HMG-box
PCK1	5105	genome.wustl.edu	37	20	56138733	56138733	+	Missense_Mutation	SNP	A	A	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_002591.3	+1	reviewed	p.K304M	0.998	180	0%	73	24.7%	0	-	possibly_damaging(0.941)	deleterious(0)	deleterious(0.831)	HMMPfam_PEPCK,superfamily_SSF53795
PCK1	5105	genome.wustl.edu	37	20	56139347	56139347	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_002591.3	+1	reviewed	p.E362K	0.987	190	0%	95	23.2%	0	-	benign(0.052)	tolerated(0.9)	neutral(0.003)	HMMPfam_PEPCK,superfamily_SSF53795
C20orf85	128602	genome.wustl.edu	37	20	56728631	56728631	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_178456.2	+1	validated	p.R34W	0.143	193	0%	200	14.5%	2	0%	probably_damaging(0.999)	tolerated(0.17)	deleterious(0.549)	NULL
ANKRD60	140731	genome.wustl.edu	37	20	56798146	56798146	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	XM_001134442.3	-1	model	p.E175K	0.496	217	0%	261	10%	0	-	probably_damaging(0.962)	tolerated(0.15)	deleterious(0.646)	HMMPfam_Ank,superfamily_ANK,superfamily_SSF54236
VAPB	9217	genome.wustl.edu	37	20	56993278	56993278	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_004738.3	+1	reviewed	p.D24N	1.000	203	0%	223	11.2%	3	0%	possibly_damaging(0.905)	tolerated(0.24)	neutral(0.397)	HMMPfam_Motile_Sperm,superfamily_PapD-like
STX16	8675	genome.wustl.edu	37	20	57251332	57251332	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001001433.1	+1	reviewed	p.G321	0.768	455	0%	686	26.4%	8	25%	-	-	-	NULL
NPEPL1	79716	genome.wustl.edu	37	20	57269487	57269487	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_024663.3	+1	validated	p.E116K	1.000	59	0%	147	21.8%	2	0%	benign(0.027)	tolerated(0.31)	neutral(0.029)	NULL
NPEPL1	79716	genome.wustl.edu	37	20	57289675	57289675	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_024663.3	+1	validated	p.F454	0.930	67	0%	91	28.6%	44	40.9%	-	-	-	HMMPfam_Peptidase_M17,superfamily_Zn-dependent exopeptidases
GNAS	2778	genome.wustl.edu	37	20	57415579	57415579	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_016592.2	+1	reviewed	p.E140K	1.000	34	0%	65	15.4%	0	-	unknown(0)	tolerated(0.51)	-	HMMPfam_NESP55
GNAS	2778	genome.wustl.edu	37	20	57428515	57428515	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001077490.1	+1	reviewed	p.A3V	0.234	29	0%	54	18.5%	0	-	unknown(0)	-	-	NULL
TH1L	51497	genome.wustl.edu	37	20	57564006	57564006	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_198976.1	+1	reviewed	p.T154M	1.000	179	0%	206	29.1%	6	16.6%	probably_damaging(0.999)	deleterious(0.03)	deleterious(0.855)	HMMPfam_TH1
TH1L	51497	genome.wustl.edu	37	20	57565011	57565011	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_198976.1	+1	reviewed	p.I261	0.975	25	0%	12	41.7%	16	0%	-	-	-	HMMPfam_TH1
TUBB1	81027	genome.wustl.edu	37	20	57599610	57599610	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_030773.2	+1	validated	p.E376D	1.000	93	0%	105	18.1%	0	-	benign(0.339)	deleterious(0)	deleterious(0.551)	superfamily_Tub_FtsZ_C,HMMPfam_Tubulin_C
ZNF831	128611	genome.wustl.edu	37	20	57766864	57766864	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_178457.1	+1	provisional	p.E264K	0.016	23	0%	41	31.7%	0	-	possibly_damaging(0.915)	deleterious(0)	deleterious(0.811)	NULL
ZNF831	128611	genome.wustl.edu	37	20	57769617	57769617	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_178457.1	+1	provisional	p.P1181	0.112	23	0%	40	25%	0	-	-	-	-	NULL
ZNF831	128611	genome.wustl.edu	37	20	57770945	57770945	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_178457.1	+1	provisional	p.G1254W	0.004	184	0%	251	32.7%	0	-	probably_damaging(1)	deleterious(0)	deleterious(0.945)	NULL
ZNF831	128611	genome.wustl.edu	37	20	57829380	57829380	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_178457.1	+1	provisional	p.A1539V	0.004	105	0%	21	38.1%	2	0%	benign(0.195)	tolerated(0.05)	neutral(0.364)	NULL
PHACTR3	116154	genome.wustl.edu	37	20	58318221	58318221	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_080672.3	+1	reviewed	p.P60S	1.000	138	0%	99	15.2%	0	-	probably_damaging(0.999)	tolerated(0.05)	deleterious(0.836)	NULL
PHACTR3	116154	genome.wustl.edu	37	20	58330276	58330276	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_080672.3	+1	reviewed	p.R133Q	0.000	58	0%	42	26.2%	0	-	benign(0.038)	tolerated(0.61)	neutral(0.006)	NULL
SYCP2	10388	genome.wustl.edu	37	20	58457058	58457058	+	Splice_Site	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_014258.2	-1	reviewed	e26-1	1.000	328	0%	73	19.2%	0	-	-	-	-	-
FAM217B	63939	genome.wustl.edu	37	20	58519040	58519040	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_022106.1	+1	predicted	p.K14N	0.000	74	0%	142	16.9%	2	0%	probably_damaging(0.975)	deleterious(0)	deleterious(0.861)	NULL
FAM217B	63939	genome.wustl.edu	37	20	58519171	58519171	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_022106.1	+1	predicted	p.R58H	0.005	131	0%	176	24.4%	0	-	benign(0.016)	tolerated(0.14)	neutral(0.250)	NULL
CDH26	60437	genome.wustl.edu	37	20	58533811	58533811	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_177980.2	+1	reviewed	p.S10	0.000	130	0%	60	11.7%	0	-	-	-	-	NULL
CDH26	60437	genome.wustl.edu	37	20	58547152	58547152	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_177980.2	+1	reviewed	p.D123N	0.781	428	0.2%	171	11.7%	0	-	probably_damaging(0.998)	deleterious(0.02)	deleterious(0.857)	HMMSmart_CA,superfamily_Cadherin
CDH4	1002	genome.wustl.edu	37	20	60448926	60448926	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001794.2	+1	reviewed	p.I340	0.690	86	0%	141	29.1%	0	-	-	-	-	HMMPfam_Cadherin,HMMSmart_CA,superfamily_Cadherin
CDH4	1002	genome.wustl.edu	37	20	60511803	60511803	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001794.2	+1	reviewed	p.R851	0.009	47	0%	113	30.1%	1	0%	-	-	-	HMMPfam_Cadherin_C
LSM14B	149986	genome.wustl.edu	37	20	60708446	60708446	+	Nonsense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_144703.2	+1	validated	p.R363*	1.000	157	0%	217	18.9%	23	4.3%	-	-	-	NULL
SS18L1	26039	genome.wustl.edu	37	20	60735017	60735017	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_198935.1	+1	validated	p.A77	0.812	80	0%	122	23.8%	0	-	-	-	-	NULL
OSBPL2	9885	genome.wustl.edu	37	20	60848387	60848387	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_144498.1	+1	reviewed	p.S139L	0.997	192	0%	219	21%	5	20%	possibly_damaging(0.946)	deleterious(0)	deleterious(0.835)	HMMPfam_Oxysterol_BP
LAMA5	3911	genome.wustl.edu	37	20	60885860	60885860	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_005560.3	-1	reviewed	p.R3436Q	0.000	12	0%	21	28.6%	8	50%	possibly_damaging(0.918)	tolerated(0.45)	neutral(0.381)	HMMSmart_SM00282,superfamily_Concanavalin A-like lectins/glucanases,HMMPfam_Laminin_G_2
LAMA5	3911	genome.wustl.edu	37	20	60898566	60898566	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_005560.3	-1	reviewed	p.E2004K	0.998	18	0%	31	22.6%	2	50%	probably_damaging(0.991)	tolerated(0.24)	deleterious(0.481)	HMMPfam_Laminin_EGF,HMMSmart_SM00180,PatternScan_EGF_LAM_1,HMMSmart_SM00181,superfamily_EGF/Laminin
LAMA5	3911	genome.wustl.edu	37	20	60905983	60905983	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_005560.3	-1	reviewed	p.S1223L	1.000	47	0%	84	21.4%	6	33.3%	probably_damaging(0.994)	tolerated(0.56)	neutral(0.459)	NULL
C20orf151	140893	genome.wustl.edu	37	20	60990864	60990864	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_080833.2	-1	validated	p.G175D	0.000	52	0%	92	28.3%	1	100%	probably_damaging(0.999)	tolerated(0.38)	deleterious(0.508)	NULL
SLCO4A1	28231	genome.wustl.edu	37	20	61300395	61300395	+	Missense_Mutation	SNP	A	A	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_016354.3	+1	validated	p.S664C	1.000	58	0%	79	21.5%	5	20%	unknown(0)	tolerated(0.08)	-	HMMPfam_OATP,superfamily_MFS general substrate transporter
NTSR1	4923	genome.wustl.edu	37	20	61341100	61341100	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_002531.2	+1	reviewed	p.S181P	1.000	27	0%	58	20.7%	0	-	probably_damaging(0.998)	tolerated(0.05)	deleterious(0.820)	HMMPfam_7tm_1,superfamily_SSF81321
NTSR1	4923	genome.wustl.edu	37	20	61341129	61341129	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_002531.2	+1	reviewed	p.S190	1.000	31	0%	60	20%	0	-	-	-	-	HMMPfam_7tm_1,superfamily_SSF81321
NTSR1	4923	genome.wustl.edu	37	20	61386100	61386100	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_002531.2	+1	reviewed	p.A260T	0.999	56	0%	117	22.2%	0	-	benign(0.108)	tolerated(0.12)	neutral(0.269)	HMMPfam_7tm_1,superfamily_SSF81321
TCFL5	10732	genome.wustl.edu	37	20	61491518	61491518	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_006602.2	-1	validated	p.A264T	0.096	308	0%	496	13.3%	1	0%	benign(0.017)	deleterious(0)	neutral(0.445)	NULL
DIDO1	11083	genome.wustl.edu	37	20	61522306	61522306	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_080797.2	-1	reviewed	p.R1183C	0.990	86	0%	123	26.8%	0	-	possibly_damaging(0.763)	-	-	NULL
DIDO1	11083	genome.wustl.edu	37	20	61522459	61522459	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_033081.1	-1	reviewed	p.A1132T	1.000	119	0%	188	23.4%	1	0%	probably_damaging(0.999)	deleterious(0.02)	deleterious(0.873)	HMMPfam_SPOC
DIDO1	11083	genome.wustl.edu	37	20	61525150	61525150	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_033081.1	-1	reviewed	p.H990R	0.000	78	0%	146	32.9%	0	-	benign(0.062)	tolerated(0.64)	neutral(0.007)	NULL
C20orf11	54994	genome.wustl.edu	37	20	61572885	61572885	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_017896.2	+1	validated	p.T11A	1.000	315	0%	398	11.1%	12	25%	benign(0.183)	tolerated(0.13)	neutral(0.270)	NULL
C20orf11	54994	genome.wustl.edu	37	20	61574369	61574369	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_017896.2	+1	validated	p.R50Q	1.000	279	0%	414	25.4%	18	27.7%	benign(0.011)	tolerated(1)	neutral(0.001)	HMMSmart_LisH,HMMPfam_LisH
SLC17A9	63910	genome.wustl.edu	37	20	61591888	61591888	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_022082.3	+1	validated	p.S144P	1.000	70	0%	110	28.2%	1	0%	probably_damaging(0.989)	deleterious(0)	deleterious(0.884)	PatternScan_SUGAR_TRANSPORT_2,HMMPfam_MFS_1,superfamily_MFS general substrate transporter
SLC17A9	63910	genome.wustl.edu	37	20	61596505	61596505	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_022082.3	+1	validated	p.R311Q	1.000	97	0%	168	22.6%	5	0%	probably_damaging(1)	deleterious(0)	deleterious(0.945)	HMMPfam_MFS_1,superfamily_MFS general substrate transporter
YTHDF1	54915	genome.wustl.edu	37	20	61834908	61834908	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	ENST00000342761	-1	known	p.R27H	0.961	60	0%	106	31.1%	4	0%	unknown(0)	tolerated(0.12)	-	NULL
NKAIN4	128414	genome.wustl.edu	37	20	61875400	61875400	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_152864.3	-1	validated	p.V170M	0.069	106	0%	212	10.8%	1	0%	possibly_damaging(0.491)	tolerated(0.08)	neutral(0.464)	HMMPfam_NKAIN
ARFGAP1	55738	genome.wustl.edu	37	20	61917493	61917493	+	Silent	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	ENST00000370275	+1	known	p.V332	0.003	5	0.000	17	0.353	2	50%	-	-	-	NULL
COL20A1	57642	genome.wustl.edu	37	20	61937241	61937241	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_020882.2	+1	validated	p.L116	0.605	51	0%	96	19.8%	0	-	-	-	-	NULL
ENSG00000222439	0	genome.wustl.edu	37	20	61968717	61968717	+	RNA	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	ENST00000410507	+1	novel	NULL	0.007	7	0.000	38	0.211	0	-	-	-	-	-
CHRNA4	1137	genome.wustl.edu	37	20	61981979	61981979	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_000744.5	-1	reviewed	p.V262M	1.000	540	0%	904	29.4%	0	-	probably_damaging(1)	deleterious(0)	deleterious(0.945)	HMMPfam_Neur_chan_memb,superfamily_Neu_channel_TM
CHRNA4	1137	genome.wustl.edu	37	20	61982129	61982129	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_000744.5	-1	reviewed	p.V212M	1.000	223	0%	401	29.7%	0	-	possibly_damaging(0.949)	tolerated(0.3)	neutral(0.422)	HMMPfam_Neur_chan_LBD,superfamily_Neur_chan_LBD
CHRNA4	1137	genome.wustl.edu	37	20	61982274	61982274	+	Silent	SNP	G	G	A	rs61734382		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_000744.5	-1	reviewed	p.I163	1.000	151	0.7%	265	11.7%	0	-	-	-	-	HMMPfam_Neur_chan_LBD,superfamily_Neur_chan_LBD,PatternScan_NEUROTR_ION_CHANNEL
CHRNA4	1137	genome.wustl.edu	37	20	61982345	61982345	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_000744.5	-1	reviewed	p.K140E	1.000	75	0%	172	27.9%	0	-	probably_damaging(1)	deleterious(0)	deleterious(0.945)	HMMPfam_Neur_chan_LBD,superfamily_Neur_chan_LBD
KCNQ2	3785	genome.wustl.edu	37	20	62046358	62046358	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_172107.2	-1	reviewed	p.D475N	1.000	32	0%	67	28.4%	0	-	benign(0.177)	tolerated(0.1)	neutral(0.303)	HMMPfam_KCNQ_channel
SRMS	6725	genome.wustl.edu	37	20	62172648	62172648	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_080823.2	-1	provisional	p.A394V	1.000	64	0%	100	20%	0	-	probably_damaging(0.999)	deleterious(0)	deleterious(0.935)	HMMPfam_Pkinase_Tyr,HMMSmart_TyrKc,superfamily_Kinase_like
SRMS	6725	genome.wustl.edu	37	20	62173567	62173567	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_080823.2	-1	provisional	p.Y299H	1.000	76	0%	114	19.3%	0	-	probably_damaging(1)	deleterious(0)	deleterious(0.945)	HMMPfam_Pkinase_Tyr,HMMSmart_TyrKc,superfamily_Kinase_like
C20orf195	79025	genome.wustl.edu	37	20	62187032	62187032	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_024059.2	+1	predicted	p.A6T	0.000	18	0%	30	16.7%	1	0%	benign(0)	tolerated(1)	-	NULL
PRIC285	85441	genome.wustl.edu	37	20	62191869	62191869	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001037335.2	-1	reviewed	p.E2488G	1.000	185	0%	385	26.8%	4	25%	probably_damaging(1)	tolerated(0.06)	deleterious(0.823)	superfamily_P-loop containing nucleoside triphosphate hydrolases
PRIC285	85441	genome.wustl.edu	37	20	62192267	62192267	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001037335.2	-1	reviewed	p.D2388Y	1.000	53	0%	102	12.7%	8	0%	probably_damaging(1)	deleterious(0)	deleterious(0.945)	superfamily_P-loop containing nucleoside triphosphate hydrolases
PRIC285	85441	genome.wustl.edu	37	20	62195720	62195720	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001037335.2	-1	reviewed	p.C1485	0.013	5	0.000	13	0.462	0	-	-	-	-	HMMPfam_RNB
PRIC285	85441	genome.wustl.edu	37	20	62200568	62200568	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001037335.2	-1	reviewed	p.N341D	0.991	32	0%	67	19.4%	0	-	probably_damaging(0.971)	deleterious(0.04)	deleterious(0.762)	NULL
GMEB2	26205	genome.wustl.edu	37	20	62222008	62222008	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_012384.3	-1	reviewed	p.V343M	1.000	52	0%	94	17%	2	0%	probably_damaging(1)	deleterious(0)	deleterious(0.945)	NULL
RTEL1	51750	genome.wustl.edu	37	20	62305430	62305430	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_032957.3	+1	reviewed	p.A301	0.001	43	0%	89	23.6%	4	25%	-	-	-	NULL
ZBTB46	140685	genome.wustl.edu	37	20	62407156	62407156	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_025224.2	-1	provisional	p.A366V	0.996	29	0%	58	25.9%	0	-	benign(0.108)	deleterious(0.02)	neutral(0.392)	NULL
ZBTB46	140685	genome.wustl.edu	37	20	62407312	62407312	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_025224.2	-1	provisional	p.A314V	0.872	31	0%	58	31%	0	-	benign(0)	tolerated(0.35)	neutral(0.021)	NULL
ABHD16B	140701	genome.wustl.edu	37	20	62493604	62493604	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_080622.3	+1	validated	p.P237	0.756	10	0%	29	31%	2	0%	-	-	-	HMMPfam_Abhydrolase_1,superfamily_SSF53474
UCKL1	54963	genome.wustl.edu	37	20	62571335	62571335	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_017859.2	-1	validated	p.T547	0.000	40	0%	57	22.8%	43	41.8%	-	-	-	NULL
ZNF512B	57473	genome.wustl.edu	37	20	62595198	62595198	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_020713.1	-1	provisional	p.V517M	0.920	24	0%	57	21.1%	1	0%	benign(0.287)	deleterious(0.03)	neutral(0.453)	NULL
ZNF512B	57473	genome.wustl.edu	37	20	62596001	62596001	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_020713.1	-1	provisional	p.G368D	0.914	54	0%	113	12.4%	1	0%	probably_damaging(0.983)	deleterious(0.05)	deleterious(0.774)	NULL
ZNF512B	57473	genome.wustl.edu	37	20	62599187	62599187	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_020713.1	-1	provisional	p.K39N	0.928	101	0%	219	25.1%	0	-	probably_damaging(0.99)	deleterious(0)	deleterious(0.886)	NULL
ZNF512B	57473	genome.wustl.edu	37	20	62599276	62599276	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_020713.1	-1	provisional	p.R10C	1.000	76	0%	145	21.4%	1	0%	probably_damaging(1)	deleterious(0)	deleterious(0.945)	NULL
PRPF6	24148	genome.wustl.edu	37	20	62624794	62624794	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_012469.3	+1	reviewed	p.R132C	1.000	288	0%	171	22.8%	20	30%	probably_damaging(1)	deleterious(0)	deleterious(0.945)	HMMPfam_PRP1_N
PRPF6	24148	genome.wustl.edu	37	20	62641574	62641574	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_012469.3	+1	reviewed	p.S403L	1.000	91	0%	107	22.4%	42	19%	probably_damaging(0.999)	deleterious(0)	deleterious(0.935)	HMMSmart_HAT,superfamily_SSF48452
TCEA2	6919	genome.wustl.edu	37	20	62701667	62701667	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_003195.4	+1	reviewed	p.S191I	1.000	134	0%	193	35.2%	70	11.4%	probably_damaging(1)	deleterious(0)	deleterious(0.945)	HMMPfam_TFIIS_M,superfamily_Elongation factor TFIIS domain 2,HMMSmart_SM00510
MYT1	4661	genome.wustl.edu	37	20	62843466	62843466	+	Missense_Mutation	SNP	A	A	C	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_004535.2	+1	reviewed	p.N498H	1.000	47	0%	83	14.5%	0	-	benign(0.261)	deleterious(0)	deleterious(0.472)	HMMPfam_zf-C2HC,superfamily_SSF103637
MYT1	4661	genome.wustl.edu	37	20	62848597	62848597	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_004535.2	+1	reviewed	p.K603N	1.000	195	0%	216	9.7%	0	-	probably_damaging(0.998)	deleterious(0.01)	deleterious(0.880)	HMMPfam_MYT1
IGHV1OR15-5	100384884	genome.wustl.edu	37	21	10862871	10862871	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	ENST00000302092	+1	known	p.V56A	0.998	600	0%	127	12.6%	0	-	possibly_damaging(0.947)	deleterious(0.02)	deleterious(0.774)	HMMSmart_IGv,HMMPfam_V-set,superfamily_SSF48726
LOC100288017	100288017	genome.wustl.edu	37	21	14568508	14568508	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	XM_002343737.1	+1	model	p.K47N	0.157	22	0%	28	28.6%	0	-	-	-	-	NULL
LIPI	149998	genome.wustl.edu	37	21	15561697	15561697	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_198996.2	-1	validated	p.K51N	0.360	207	0%	62	17.7%	0	-	benign(0.095)	tolerated(0.38)	neutral(0.025)	HMMPfam_Lipase,superfamily_SSF53474
HSPA13	6782	genome.wustl.edu	37	21	15748140	15748140	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_006948.4	-1	reviewed	p.G194E	1.000	178	0%	115	20.9%	4	0%	probably_damaging(1)	tolerated(0.06)	deleterious(0.823)	HMMPfam_HSP70,superfamily_Actin-like ATPase domain
HSPA13	6782	genome.wustl.edu	37	21	15750571	15750571	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_006948.4	-1	reviewed	p.E177K	1.000	228	0%	166	29.5%	0	-	probably_damaging(0.976)	tolerated(0.06)	deleterious(0.740)	HMMPfam_HSP70,superfamily_Actin-like ATPase domain
SAMSN1	64092	genome.wustl.edu	37	21	15872855	15872855	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_022136.3	-1	validated	p.L255	1.000	422	0%	201	22.9%	1	0%	-	-	-	HMMSmart_SM00454,superfamily_SAM/Pointed domain,HMMPfam_SAM_2
NRIP1	8204	genome.wustl.edu	37	21	16337363	16337363	+	Nonsense_Mutation	SNP	T	T	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_003489.3	-1	reviewed	p.K1051*	0.998	387	0%	86	23.3%	3	66.6%	-	-	-	NULL
USP25	29761	genome.wustl.edu	37	21	17177445	17177445	+	Missense_Mutation	SNP	T	T	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_013396.3	+1	validated	p.H216Q	1.000	410	0%	100	24%	0	-	benign(0.033)	tolerated(0.28)	neutral(0.033)	HMMPfam_UCH,superfamily_Cysteine proteinases
USP25	29761	genome.wustl.edu	37	21	17236657	17236657	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_013396.3	+1	validated	p.R803H	1.000	297	0%	89	14.6%	10	0%	probably_damaging(1)	deleterious(0)	deleterious(0.945)	NULL
USP25	29761	genome.wustl.edu	37	21	17250738	17250738	+	Nonsense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_013396.3	+1	validated	p.E1038*	1.000	300	0%	75	25.3%	31	19.3%	-	-	-	NULL
BTG3	10950	genome.wustl.edu	37	21	18971076	18971076	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001130914.1	-1	reviewed	p.E170D	0.992	352	0%	194	27.8%	60	11.6%	benign(0.084)	tolerated(0.17)	neutral(0.065)	NULL
CHODL	140578	genome.wustl.edu	37	21	19629431	19629431	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_024944.2	+1	reviewed	p.C178	1.000	97	0%	39	20.5%	0	-	-	-	-	HMMPfam_Lectin_C,HMMSmart_SM00034,superfamily_C-type lectin-like
TMPRSS15	5651	genome.wustl.edu	37	21	19685353	19685353	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_002772.2	-1	reviewed	p.R692W	1.000	210	0%	103	14.6%	0	-	possibly_damaging(0.901)	deleterious(0.01)	deleterious(0.762)	HMMPfam_SRCR,HMMSmart_SM00202,superfamily_SRCR-like
NCAM2	4685	genome.wustl.edu	37	21	22664458	22664458	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_004540.2	+1	reviewed	p.Q172H	1.000	496	0%	73	21.9%	1	0%	probably_damaging(0.997)	deleterious(0.02)	deleterious(0.849)	HMMSmart_IGc2,HMMPfam_ig,superfamily_SSF48726
NCAM2	4685	genome.wustl.edu	37	21	22849745	22849745	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_004540.2	+1	reviewed	p.P677L	1.000	318	0%	189	25.9%	0	-	probably_damaging(1)	tolerated(0.08)	deleterious(0.800)	HMMPfam_fn3,superfamily_FN_III-like
JAM2	58494	genome.wustl.edu	37	21	27066090	27066090	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_021219.2	+1	reviewed	p.E88D	0.999	330	0%	447	26.8%	14	0%	benign(0.194)	tolerated(0.5)	neutral(0.028)	HMMSmart_IG,HMMPfam_V-set,superfamily_SSF48726
GABPA	2551	genome.wustl.edu	37	21	27136614	27136614	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_002040.3	+1	validated	p.A299V	1.000	268	0%	73	17.8%	2	0%	benign(0.005)	tolerated(0.28)	neutral(0.032)	"superfamily_""Winged helix"" DNA-binding domain"
LOC100288213	100288213	genome.wustl.edu	37	21	27264097	27264097	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	XM_002343739.1	+1	model	p.D76N	0.988	225	0%	55	9.1%	334	0.5%	-	-	-	NULL
APP	351	genome.wustl.edu	37	21	27328033	27328033	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_000484.3	-1	reviewed	p.R499C	1.000	526	0%	118	22.9%	150	10.6%	probably_damaging(1)	deleterious(0)	deleterious(0.945)	superfamily_CAPPD an extracellular domain of amyloid beta A4 protein
CYYR1	116159	genome.wustl.edu	37	21	27852623	27852623	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_052954.2	-1	validated	p.T101M	0.985	209	0%	52	30.8%	9	0%	probably_damaging(0.99)	deleterious(0.01)	deleterious(0.847)	NULL
ADAMTS1	9510	genome.wustl.edu	37	21	28210368	28210368	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_006988.3	-1	reviewed	p.R812C	0.999	192	0.5%	147	23.8%	45	4.4%	probably_damaging(0.996)	deleterious(0.02)	deleterious(0.845)	HMMPfam_ADAM_spacer1
ADAMTS1	9510	genome.wustl.edu	37	21	28210927	28210927	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_006988.3	-1	reviewed	p.D679Y	1.000	240	0%	281	11.7%	42	0%	probably_damaging(1)	deleterious(0)	deleterious(0.945)	NULL
ADAMTS1	9510	genome.wustl.edu	37	21	28212680	28212680	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_006988.3	-1	reviewed	p.P527L	1.000	133	0%	168	22%	17	5.8%	probably_damaging(0.998)	tolerated(0.05)	deleterious(0.820)	HMMSmart_ACR
ADAMTS5	11096	genome.wustl.edu	37	21	28302266	28302266	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_007038.3	-1	reviewed	p.G722R	1.000	201	0%	44	13.6%	3	0%	possibly_damaging(0.628)	deleterious(0)	deleterious(0.663)	NULL
ADAMTS5	11096	genome.wustl.edu	37	21	28302267	28302267	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_007038.3	-1	reviewed	p.C721	0.978	199	0%	41	36.6%	3	0%	-	-	-	NULL
ADAMTS5	11096	genome.wustl.edu	37	21	28338295	28338295	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_007038.3	-1	reviewed	p.S139I	1.000	7	0.000	16	0.250	1	0%	possibly_damaging(0.901)	deleterious(0.03)	deleterious(0.722)	HMMPfam_Pep_M12B_propep
LTN1	26046	genome.wustl.edu	37	21	30332842	30332842	+	Missense_Mutation	SNP	T	T	G	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_015565.2	-1	validated	p.N784H	1.000	178	0%	54	24.1%	0	-	benign(0.004)	deleterious(0.02)	neutral(0.383)	superfamily_ARM repeat
LTN1	26046	genome.wustl.edu	37	21	30353522	30353522	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_015565.2	-1	validated	p.E243D	0.588	183	0%	61	11.5%	0	-	benign(0.151)	tolerated(0.4)	neutral(0.029)	superfamily_ARM repeat
USP16	10600	genome.wustl.edu	37	21	30418995	30418995	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001032410.1	+1	reviewed	p.R455Q	1.000	43	0%	17	47.1%	6	16.6%	probably_damaging(1)	deleterious(0)	deleterious(0.945)	HMMPfam_UCH,superfamily_Cysteine proteinases
BACH1	571	genome.wustl.edu	37	21	30699370	30699370	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001186.2	+1	reviewed	p.D409N	0.588	127	0%	43	11.6%	1	0%	probably_damaging(0.974)	tolerated(0.17)	deleterious(0.475)	NULL
GRIK1	2897	genome.wustl.edu	37	21	30927527	30927527	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_000830.3	-1	reviewed	p.G818D	1.000	108	0%	52	21.2%	0	-	probably_damaging(0.956)	tolerated(0.09)	deleterious(0.696)	HMMPfam_Lig_chan,superfamily_Periplasmic binding protein-like II
GRIK1	2897	genome.wustl.edu	37	21	30933963	30933963	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_000830.3	-1	reviewed	p.G780R	1.000	297	0.3%	171	25.7%	0	-	probably_damaging(1)	deleterious(0)	deleterious(0.945)	HMMPfam_Lig_chan,HMMSmart_SM00079,superfamily_Periplasmic binding protein-like II
CLDN17	26285	genome.wustl.edu	37	21	31538563	31538563	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_012131.2	-1	reviewed	p.L125F	0.042	103	0%	26	42.3%	0	-	probably_damaging(0.969)	tolerated(0.27)	neutral(0.445)	HMMPfam_PMP22_Claudin
KRTAP24-1	643803	genome.wustl.edu	37	21	31655080	31655080	+	Silent	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001085455.1	-1	validated	p.L57	1.000	195	0.5%	40	30%	0	-	-	-	-	HMMPfam_PMG
KRTAP27-1	643812	genome.wustl.edu	37	21	31709786	31709786	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001077711.1	-1	provisional	p.Q67H	0.177	488	0%	98	21.4%	0	-	probably_damaging(0.96)	deleterious(0.03)	deleterious(0.768)	HMMPfam_PMG
KRTAP13-1	140258	genome.wustl.edu	37	21	31768531	31768531	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_181599.2	+1	validated	p.P43S	0.567	241	0%	110	29.1%	0	-	benign(0.231)	deleterious(0)	neutral(0.468)	HMMPfam_PMG
KRTAP19-5	337972	genome.wustl.edu	37	21	31874355	31874355	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_181611.1	-1	provisional	p.F18	0.003	185	0%	59	10.2%	0	-	-	-	-	NULL
KRTAP6-1	337966	genome.wustl.edu	37	21	31986159	31986159	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_181602.1	-1	validated	p.G22D	1.000	497	0%	119	19.3%	0	-	unknown(0)	-	-	NULL
KRTAP21-2	337978	genome.wustl.edu	37	21	32119501	32119501	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_181617.1	-1	provisional	p.R7I	0.020	524	0.2%	139	35.3%	0	-	unknown(0)	-	-	NULL
KRTAP8-1	337879	genome.wustl.edu	37	21	32185481	32185481	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_175857.3	-1	validated	p.G20C	0.945	102	0%	16	31.2%	0	-	probably_damaging(0.999)	deleterious(0)	deleterious(0.935)	NULL
TIAM1	7074	genome.wustl.edu	37	21	32492895	32492895	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_003253.2	-1	validated	p.D1523Y	0.992	109	0%	30	26.7%	1	0%	possibly_damaging(0.746)	deleterious(0)	deleterious(0.719)	NULL
TIAM1	7074	genome.wustl.edu	37	21	32589899	32589899	+	Missense_Mutation	SNP	T	T	G	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_003253.2	-1	validated	p.K704N	1.000	383	0%	101	26.7%	1	0%	possibly_damaging(0.464)	deleterious(0)	deleterious(0.597)	NULL
TIAM1	7074	genome.wustl.edu	37	21	32624299	32624299	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_003253.2	-1	validated	p.E390D	1.000	54	0%	98	13.3%	0	-	probably_damaging(0.999)	deleterious(0)	deleterious(0.935)	NULL
SCAF4	57466	genome.wustl.edu	37	21	33043926	33043926	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_020706.2	-1	reviewed	p.G1077V	0.805	290	0%	365	26%	40	2.5%	probably_damaging(1)	deleterious(0)	deleterious(0.945)	NULL
SCAF4	57466	genome.wustl.edu	37	21	33044547	33044547	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_020706.2	-1	reviewed	p.L870S	0.990	84	0%	153	17%	19	0%	unknown(0)	deleterious(0)	-	NULL
SCAF4	57466	genome.wustl.edu	37	21	33068463	33068463	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_020706.2	-1	reviewed	p.R344Q	1.000	183	0%	210	21%	6	0%	unknown(0)	tolerated(0.34)	-	NULL
SCAF4	57466	genome.wustl.edu	37	21	33076188	33076188	+	Nonsense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_020706.2	-1	reviewed	p.R71*	0.970	277	0%	152	21.1%	2	100%	-	-	-	HMMSmart_SM00582,HMMPfam_DUF618,superfamily_ENTH/VHS domain
MRAP	56246	genome.wustl.edu	37	21	33686899	33686899	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_206898.1	+1	reviewed	p.L82M	0.000	187	0%	167	19.8%	24	20.8%	benign(0.202)	tolerated(0.18)	neutral(0.075)	NULL
URB1	9875	genome.wustl.edu	37	21	33717774	33717774	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_014825.2	-1	validated	p.A1327T	1.000	89	0%	47	23.4%	4	0%	possibly_damaging(0.637)	deleterious(0.02)	deleterious(0.606)	superfamily_ARM repeat
URB1	9875	genome.wustl.edu	37	21	33735543	33735543	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_014825.2	-1	validated	p.E477D	0.000	184	0%	66	9.1%	0	-	benign(0.004)	tolerated(0.32)	neutral(0.024)	NULL
TCP10L	140290	genome.wustl.edu	37	21	33954533	33954533	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_144659.5	-1	validated	p.A113T	0.000	136	0%	122	24.6%	2	50%	benign(0.02)	tolerated(0.09)	neutral(0.297)	NULL
GCFC1	94104	genome.wustl.edu	37	21	34120946	34120946	+	Missense_Mutation	SNP	T	T	G	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_016631.3	-1	reviewed	p.D596A	1.000	198	0%	62	24.2%	5	40%	possibly_damaging(0.563)	tolerated(0.08)	deleterious(0.492)	HMMPfam_GCFC
IFNAR2	3455	genome.wustl.edu	37	21	34635528	34635528	+	Missense_Mutation	SNP	A	A	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_207585.1	+1	reviewed	p.N424I	0.997	231	0%	303	13.2%	6	0%	probably_damaging(1)	deleterious(0)	deleterious(0.945)	NULL
IL10RB	3588	genome.wustl.edu	37	21	34660544	34660544	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_000628.3	+1	reviewed	p.S261F	0.000	135	0%	67	10.4%	14	7.1%	benign(0.372)	tolerated(0.08)	neutral(0.418)	NULL
TMEM50B	757	genome.wustl.edu	37	21	34839322	34839322	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_006134.5	-1	validated	p.F69L	1.000	296	0%	116	26.7%	11	18.1%	benign(0.002)	tolerated(0.71)	neutral(0.002)	HMMPfam_UPF0220
DNAJC28	54943	genome.wustl.edu	37	21	34860772	34860772	+	Missense_Mutation	SNP	C	C	T	rs182194192	by1000genomes	TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001040192.1	-1	validated	p.R310Q	1.000	359	0%	483	27.1%	1	100%	possibly_damaging(0.816)	tolerated(0.19)	neutral(0.358)	NULL
SON	6651	genome.wustl.edu	37	21	34923546	34923546	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_138927.1	+1	reviewed	p.S670L	1.000	113	0.9%	174	26.4%	1	0%	probably_damaging(0.992)	deleterious(0)	deleterious(0.892)	NULL
SON	6651	genome.wustl.edu	37	21	34927110	34927110	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_138927.1	+1	reviewed	p.R1858H	0.996	136	0%	246	22.4%	18	0%	unknown(0)	deleterious(0)	-	NULL
SON	6651	genome.wustl.edu	37	21	34941294	34941294	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	ENST00000436227	+1	known	p.S1257N	1.000	217	0%	88	13.6%	11	0%	-	-	-	NULL
ITSN1	6453	genome.wustl.edu	37	21	35237632	35237632	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	ENST00000381284	+1	known	p.R92C	0.997	43	0%	62	21%	0	-	-	-	-	HMMPfam_RhoGEF,HMMSmart_SM00325,superfamily_DBL homology domain (DH-domain)
KCNE2	9992	genome.wustl.edu	37	21	35742812	35742812	+	Missense_Mutation	SNP	A	A	C	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_172201.1	+1	reviewed	p.E12A	1.000	183	0%	171	24%	1	0%	probably_damaging(0.998)	deleterious(0)	deleterious(0.919)	NULL
FAM165B	54065	genome.wustl.edu	37	21	35757830	35757830	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_058182.4	+1	validated	p.L23I	0.996	376	0%	285	14%	15	0%	benign(0.388)	deleterious(0)	deleterious(0.569)	NULL
CLIC6	54102	genome.wustl.edu	37	21	36088642	36088642	+	Missense_Mutation	SNP	T	T	G	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_053277.1	+1	reviewed	p.D641E	1.000	541	0%	207	25.6%	1	0%	benign(0.004)	tolerated(0.06)	neutral(0.323)	superfamily_Glutathione S-transferase (GST) C-terminal domain
RUNX1	861	genome.wustl.edu	37	21	36231773	36231773	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001754.4	-1	reviewed	p.R204Q	1.000	456	0%	172	13.4%	6	16.6%	probably_damaging(0.986)	deleterious(0)	deleterious(0.879)	superfamily_p53-like transcription factors,HMMPfam_Runt
RUNX1	861	genome.wustl.edu	37	21	36231833	36231833	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001754.4	-1	reviewed	p.P184L	0.998	617	0%	259	19.7%	5	40%	possibly_damaging(0.796)	deleterious(0.02)	deleterious(0.682)	superfamily_p53-like transcription factors,HMMPfam_Runt
MIR802	768219	genome.wustl.edu	37	21	37093016	37093016	+	RNA	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	ENST00000390235	+1	known	NULL	0.998	155	0%	54	37%	0	-	-	-	-	-
CBR1	873	genome.wustl.edu	37	21	37443256	37443256	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001757.2	+1	reviewed	p.P100S	0.015	343	0.3%	485	23.7%	11	63.6%	benign(0)	tolerated(0.21)	neutral(0.044)	HMMPfam_adh_short,superfamily_NAD(P)-binding Rossmann-fold domains
CBR1	873	genome.wustl.edu	37	21	37444775	37444775	+	Silent	SNP	C	C	T	rs144194050	by1000genomes	TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001757.2	+1	reviewed	p.S143	0.001	87	1.1%	119	31.9%	21	57.1%	-	-	-	HMMPfam_adh_short,superfamily_NAD(P)-binding Rossmann-fold domains
DOPEY2	9980	genome.wustl.edu	37	21	37586445	37586445	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_005128.2	+1	validated	p.S324L	0.261	243	0%	80	23.7%	0	-	benign(0.004)	tolerated(0.05)	neutral(0.345)	NULL
DOPEY2	9980	genome.wustl.edu	37	21	37600174	37600174	+	Missense_Mutation	SNP	C	C	T	rs183791804	by1000genomes	TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_005128.2	+1	validated	p.S555L	0.004	70	0%	38	13.2%	0	-	benign(0)	tolerated(0.27)	neutral(0.034)	NULL
CHAF1B	8208	genome.wustl.edu	37	21	37759959	37759959	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_005441.2	+1	reviewed	p.R64C	1.000	612	0.3%	838	24.8%	2	50%	probably_damaging(1)	deleterious(0)	deleterious(0.945)	HMMSmart_WD40,superfamily_WD40_like,HMMPfam_WD40
SIM2	6493	genome.wustl.edu	37	21	38095365	38095365	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	ENST00000431229	+1	known	p.V97I	0.000	156	0%	151	10.6%	0	-	-	-	-	NULL
KCNJ15	3772	genome.wustl.edu	37	21	39671435	39671435	+	Silent	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_002243.3	+1	reviewed	p.I84	1.000	166	0%	56	12.5%	2	0%	-	-	-	HMMPfam_IRK,superfamily_SSF81324
BRWD1	54014	genome.wustl.edu	37	21	40559203	40559203	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_018963.3	-1	reviewed	p.A2238T	1.000	472	0%	575	24%	1	0%	possibly_damaging(0.842)	deleterious(0)	deleterious(0.766)	superfamily_WD40 repeat-like
BRWD1	54014	genome.wustl.edu	37	21	40608627	40608627	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_018963.3	-1	reviewed	p.R887Q	0.009	376	0.3%	102	25.5%	1	100%	probably_damaging(0.97)	tolerated(0.06)	deleterious(0.735)	superfamily_WD40 repeat-like
BRWD1	54014	genome.wustl.edu	37	21	40627700	40627700	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_018963.3	-1	reviewed	p.R709H	1.000	228	0%	71	22.5%	0	-	probably_damaging(1)	deleterious(0)	deleterious(0.945)	superfamily_WD40 repeat-like
BRWD1	54014	genome.wustl.edu	37	21	40630467	40630467	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_018963.3	-1	reviewed	p.D673Y	0.001	494	0%	167	24.6%	1	0%	probably_damaging(1)	deleterious(0.01)	deleterious(0.905)	superfamily_WD40 repeat-like
DSCAM	1826	genome.wustl.edu	37	21	41385099	41385099	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001389.3	-1	validated	p.A1967	0.998	79	0%	23	30.4%	0	-	-	-	-	NULL
DSCAM	1826	genome.wustl.edu	37	21	41465724	41465724	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001389.3	-1	validated	p.S1258	1.000	146	0%	39	25.6%	0	-	-	-	-	HMMPfam_fn3,HMMSmart_SM00060,superfamily_Fibronectin type III
DSCAM	1826	genome.wustl.edu	37	21	41711077	41711077	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001389.3	-1	validated	p.V492	1.000	204	0%	41	19.5%	0	-	-	-	-	HMMSmart_SM00409,HMMPfam_I-set,superfamily_Immunoglobulin
DSCAM	1826	genome.wustl.edu	37	21	41719805	41719805	+	Silent	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001389.3	-1	validated	p.S334	1.000	255	0%	56	12.5%	0	-	-	-	-	HMMSmart_SM00408,HMMSmart_SM00409,HMMPfam_ig,superfamily_Immunoglobulin
FAM3B	54097	genome.wustl.edu	37	21	42710312	42710312	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_058186.3	+1	validated	p.V57	0.583	198	0%	96	17.7%	3	0%	-	-	-	NULL
MX1	4599	genome.wustl.edu	37	21	42817999	42817999	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001144925.1	+1	reviewed	p.R402W	0.435	319	0%	138	13.8%	9	0%	probably_damaging(0.999)	deleterious(0)	deleterious(0.935)	HMMPfam_Dynamin_M
TMPRSS2	7113	genome.wustl.edu	37	21	42845314	42845314	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_005656.3	-1	reviewed	p.H279	0.423	13	0%	25	24%	0	-	-	-	-	HMMPfam_Trypsin,HMMSmart_SM00020,superfamily_Trypsin-like serine proteases
C2CD2	25966	genome.wustl.edu	37	21	43325875	43325875	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_015500.1	-1	validated	p.R464C	0.986	173	0%	277	23.8%	3	0%	probably_damaging(0.983)	tolerated(0.06)	deleterious(0.752)	NULL
C2CD2	25966	genome.wustl.edu	37	21	43338223	43338223	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_015500.1	-1	validated	p.K237N	0.127	81	0%	55	23.6%	0	-	benign(0.159)	tolerated(0.47)	neutral(0.025)	NULL
UMODL1	89766	genome.wustl.edu	37	21	43496220	43496220	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_173568.3	+1	validated	p.C61	0.994	70	0%	112	11.6%	0	-	-	-	-	HMMPfam_EMI
UMODL1	89766	genome.wustl.edu	37	21	43522315	43522315	+	Missense_Mutation	SNP	A	A	C	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_173568.3	+1	validated	p.H409P	0.114	163	0%	268	23.9%	0	-	possibly_damaging(0.852)	tolerated(0.13)	deleterious(0.580)	HMMPfam_SEA,superfamily_SEA domain
C21orf128	150147	genome.wustl.edu	37	21	43524043	43524043	+	Missense_Mutation	SNP	C	C	T	rs139536052	by1000genomes	TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	ENST00000329015	-1	known	p.D64N	0.001	161	0.6%	203	12.3%	0	-	unknown(0)	-	-	NULL
UMODL1	89766	genome.wustl.edu	37	21	43531690	43531690	+	Nonsense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_173568.3	+1	validated	p.W786*	0.952	67	0%	122	16.4%	0	-	-	-	-	NULL
UMODL1	89766	genome.wustl.edu	37	21	43546484	43546484	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_173568.3	+1	validated	p.T1187	0.912	119	0%	106	13.2%	0	-	-	-	-	HMMPfam_Zona_pellucida,HMMSmart_SM00241
ABCG1	9619	genome.wustl.edu	37	21	43711654	43711654	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_004915.3	+1	reviewed	p.S526L	0.174	45	0%	82	11%	18	0%	possibly_damaging(0.768)	tolerated(0.11)	deleterious(0.556)	HMMPfam_ABC2_membrane
TFF3	7033	genome.wustl.edu	37	21	43732380	43732380	+	Splice_Site	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_003226.3	-1	reviewed	e3-1	1.000	62	0%	76	30.3%	1	0%	-	-	-	-
TMPRSS3	64699	genome.wustl.edu	37	21	43815480	43815480	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_024022.2	-1	reviewed	p.R16Q	0.958	261	0%	161	24.2%	1	0%	possibly_damaging(0.786)	deleterious(0)	deleterious(0.739)	NULL
UBASH3A	53347	genome.wustl.edu	37	21	43829626	43829626	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_018961.2	+1	validated	p.L88P	0.992	188	0%	164	14.6%	1	0%	probably_damaging(0.998)	deleterious(0)	deleterious(0.919)	NULL
UBASH3A	53347	genome.wustl.edu	37	21	43836555	43836555	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_018961.2	+1	validated	p.C224	0.220	93	0%	62	30.6%	0	-	-	-	-	NULL
UBASH3A	53347	genome.wustl.edu	37	21	43857602	43857602	+	Silent	SNP	C	C	T	rs17114930	byCluster;byFrequency;by1000genomes	TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_018961.2	+1	validated	p.D466	0.834	208	0%	126	25.4%	1	0%	-	-	-	HMMPfam_PGAM,superfamily_Phosphoglycerate mutase-like
RSPH1	89765	genome.wustl.edu	37	21	43897534	43897534	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_080860.2	-1	validated	p.E198D	1.000	576	0.2%	804	28.4%	6	66.6%	probably_damaging(1)	deleterious(0.03)	deleterious(0.865)	NULL
RSPH1	89765	genome.wustl.edu	37	21	43905886	43905886	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_080860.2	-1	validated	p.E132K	0.997	210	0%	230	12.2%	5	0%	benign(0.113)	tolerated(0.1)	neutral(0.295)	HMMPfam_MORN,HMMSmart_SM00698,superfamily_Histone H3 K4-specific methyltransferase SET7/9 N-terminal domain
PDE9A	5152	genome.wustl.edu	37	21	44152047	44152047	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_002606.2	+1	reviewed	p.R144C	0.000	98	0%	49	26.5%	4	0%	benign(0.244)	deleterious(0)	deleterious(0.469)	NULL
PDE9A	5152	genome.wustl.edu	37	21	44192569	44192569	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_002606.2	+1	reviewed	p.S569	0.002	169	0%	189	25.4%	69	39.1%	-	-	-	superfamily_HD-domain/PDEase-like
WDR4	10785	genome.wustl.edu	37	21	44279795	44279795	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_018669.4	-1	reviewed	p.G202R	0.434	59	0%	106	23.6%	4	0%	benign(0.025)	tolerated(0.47)	neutral(0.012)	HMMSmart_SM00320,superfamily_WD40 repeat-like,HMMPfam_WD40
PKNOX1	5316	genome.wustl.edu	37	21	44427616	44427616	+	Nonsense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_004571.3	+1	validated	p.E23*	1.000	147	0%	96	13.5%	5	0%	-	-	-	NULL
CBS	875	genome.wustl.edu	37	21	44478996	44478996	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_000071.2	-1	reviewed	p.E436K	0.955	31	0%	50	18%	2	0%	benign(0)	tolerated(0.44)	neutral(0.013)	HMMPfam_CBS,HMMSmart_SM00116,superfamily_CBS-domain
CBS	875	genome.wustl.edu	37	21	44485526	44485526	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_000071.2	-1	reviewed	p.E213K	1.000	58	0%	109	26.6%	1	100%	benign(0.006)	tolerated(0.07)	neutral(0.319)	HMMPfam_PALP,superfamily_Tryptophan synthase beta subunit-like PLP-dependent enzymes
CBS	875	genome.wustl.edu	37	21	44486375	44486375	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_000071.2	-1	reviewed	p.I143	0.005	27	0%	57	35.1%	2	0%	-	-	-	HMMPfam_PALP,superfamily_Tryptophan synthase beta subunit-like PLP-dependent enzymes
U2AF1	7307	genome.wustl.edu	37	21	44513235	44513235	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001025203.1	-1	reviewed	p.R234C	0.976	54	0%	119	22.7%	223	29.5%	unknown(0)	deleterious(0.02)	-	NULL
HSF2BP	11077	genome.wustl.edu	37	21	44949660	44949660	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_007031.1	-1	reviewed	p.L327I	0.986	71	0%	59	20.3%	0	-	possibly_damaging(0.608)	tolerated(0.29)	neutral(0.239)	superfamily_ARM repeat
HSF2BP	11077	genome.wustl.edu	37	21	45050224	45050224	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_007031.1	-1	reviewed	p.A185T	1.000	189	0.5%	146	20.5%	0	-	possibly_damaging(0.946)	deleterious(0.04)	deleterious(0.739)	superfamily_ARM repeat
PDXK	8566	genome.wustl.edu	37	21	45172429	45172429	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_003681.4	+1	reviewed	p.D181N	0.978	30	0%	59	27.1%	123	34.1%	benign(0.004)	tolerated(0.26)	neutral(0.034)	HMMPfam_PfkB,superfamily_Ribokinase-like
RRP1	8568	genome.wustl.edu	37	21	45223543	45223543	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_003683.5	+1	reviewed	p.R425H	0.003	28	0%	46	19.6%	46	8.6%	possibly_damaging(0.664)	tolerated(0.27)	neutral(0.268)	NULL
TRAPPC10	7109	genome.wustl.edu	37	21	45497623	45497623	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_003274.4	+1	reviewed	p.R476Q	0.991	696	0%	347	28%	5	20%	probably_damaging(1)	deleterious(0.04)	deleterious(0.849)	NULL
TRAPPC10	7109	genome.wustl.edu	37	21	45509756	45509756	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_003274.4	+1	reviewed	p.A938T	0.515	132	0%	82	15.9%	5	40%	benign(0.01)	tolerated(1)	neutral(0.001)	NULL
TRAPPC10	7109	genome.wustl.edu	37	21	45523260	45523260	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_003274.4	+1	reviewed	p.V1210M	0.000	38	0%	67	28.4%	5	0%	benign(0.053)	deleterious(0.03)	neutral(0.368)	NULL
AIRE	326	genome.wustl.edu	37	21	45707444	45707444	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_000383.2	+1	reviewed	p.A170T	0.000	14	0%	37	18.9%	0	-	possibly_damaging(0.712)	tolerated(0.5)	neutral(0.268)	NULL
AIRE	326	genome.wustl.edu	37	21	45708242	45708242	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_000383.2	+1	reviewed	p.S185P	1.000	94	0%	197	21.8%	0	-	probably_damaging(0.992)	tolerated(0.07)	deleterious(0.766)	superfamily_SAND domain-like
AIRE	326	genome.wustl.edu	37	21	45710847	45710847	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_000658.2	+1	reviewed	p.G53E	0.000	126	0%	230	25.7%	0	-	probably_damaging(0.999)	deleterious(0)	deleterious(0.935)	NULL
PFKL	5211	genome.wustl.edu	37	21	45736214	45736214	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_002626.4	+1	reviewed	p.V279M	1.000	51	0%	101	19.8%	26	3.8%	possibly_damaging(0.927)	deleterious(0)	deleterious(0.820)	HMMPfam_PFK,superfamily_Phosphofructokinase
C21orf2	755	genome.wustl.edu	37	21	45751812	45751812	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_004928.2	-1	validated	p.G153	0.000	52	0%	98	22.4%	29	10.3%	-	-	-	NULL
TRPM2	7226	genome.wustl.edu	37	21	45795717	45795717	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_003307.3	+1	reviewed	p.G258D	0.998	110	0%	140	25%	0	-	possibly_damaging(0.579)	tolerated(0.07)	deleterious(0.518)	NULL
TRPM2	7226	genome.wustl.edu	37	21	45810794	45810794	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_003307.3	+1	reviewed	p.R442	0.984	117	0%	209	20.6%	0	-	-	-	-	NULL
TRPM2	7226	genome.wustl.edu	37	21	45845644	45845644	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_003307.3	+1	reviewed	p.R1243	0.940	23	0%	37	27%	1	100%	-	-	-	superfamily_Nudix
KRTAP10-1	386677	genome.wustl.edu	37	21	45959707	45959707	+	Nonsense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_198691.2	-1	reviewed	p.C109*	0.975	147	0%	245	9.8%	0	-	-	-	-	NULL
TSPEAR	54084	genome.wustl.edu	37	21	45987843	45987843	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_144991.2	-1	provisional	p.G43	0.000	70	0%	66	15.2%	0	-	-	-	-	NULL
KRTAP10-4	386672	genome.wustl.edu	37	21	45994702	45994702	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_198687.1	+1	reviewed	p.R356K	0.294	148	0%	256	29.3%	0	-	unknown(0)	tolerated(0.64)	-	HMMPfam_Keratin_B2
KRTAP10-11	386678	genome.wustl.edu	37	21	46066673	46066673	+	Missense_Mutation	SNP	T	T	G	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_198692.2	+1	validated	p.C100G	0.985	172	0%	256	21.1%	0	-	unknown(0)	tolerated(0.15)	-	HMMPfam_Keratin_B2
ITGB2	3689	genome.wustl.edu	37	21	46306325	46306325	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_000211.3	-1	reviewed	p.S756	0.482	169	0%	293	21.2%	113	0%	-	-	-	HMMPfam_Integrin_b_cyt
FAM207A	85395	genome.wustl.edu	37	21	46363625	46363625	+	Silent	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_058190.2	+1	predicted	p.I52	0.915	143	0%	234	23.9%	12	25%	-	-	-	NULL
ADARB1	104	genome.wustl.edu	37	21	46596324	46596324	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_015833.3	+1	validated	p.P236	0.192	200	0%	130	24.6%	0	-	-	-	-	HMMPfam_dsrm,HMMSmart_SM00358,superfamily_dsRNA-binding domain-like
LINC00315	246704	genome.wustl.edu	37	21	46723110	46723110	+	RNA	SNP	A	A	G	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	XR_041771.1	-1	model	NULL	0.000	74	0%	123	31.7%	0	-	-	-	-	-
LINC00315	246704	genome.wustl.edu	37	21	46723216	46723216	+	RNA	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	XR_041771.1	-1	model	NULL	0.002	82	0%	152	28.3%	0	-	-	-	-	-
LINC00315	246704	genome.wustl.edu	37	21	46724407	46724407	+	RNA	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	XR_041771.1	-1	model	NULL	0.018	56	0%	99	21.2%	0	-	-	-	-	-
COL18A1	80781	genome.wustl.edu	37	21	46875781	46875781	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_130444.2	+1	reviewed	p.E113K	0.683	10	0%	28	17.9%	1	0%	unknown(0)	tolerated(1)	-	HMMPfam_DUF959
COL18A1	80781	genome.wustl.edu	37	21	46907404	46907404	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_130444.2	+1	reviewed	p.R1041Q	0.000	58	0%	89	19.1%	26	19.2%	probably_damaging(0.995)	tolerated(0.16)	deleterious(0.517)	NULL
COL18A1	80781	genome.wustl.edu	37	21	46910775	46910775	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_130444.2	+1	reviewed	p.R1101Q	0.004	33	0%	77	23.4%	56	32.1%	benign(0.084)	tolerated(1)	neutral(0.006)	HMMPfam_Collagen
PCBP3	54039	genome.wustl.edu	37	21	47330874	47330874	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_020528.2	+1	reviewed	p.A177V	1.000	69	0%	115	23.5%	12	0%	benign(0.011)	tolerated(0.27)	neutral(0.034)	HMMSmart_SM00322,HMMPfam_KH_1,superfamily_Eukaryotic type KH-domain (KH-domain type I)
COL6A2	1292	genome.wustl.edu	37	21	47532287	47532287	+	Silent	SNP	C	C	T	rs142328765	by1000genomes	TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001849.3	+1	reviewed	p.C170	0.976	6	0.000	14	0.357	74	0%	-	-	-	HMMPfam_VWA,HMMSmart_SM00327,superfamily_vWA-like
LOC100288508	100288508	genome.wustl.edu	37	21	47537896	47537896	+	Nonsense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	XM_002343757.1	-1	model	p.W412*	0.001	66	0%	111	30.6%	0	-	-	-	-	NULL
COL6A2	1292	genome.wustl.edu	37	21	47541474	47541474	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001849.3	+1	reviewed	p.S488Y	1.000	45	0%	81	16%	244	0.4%	unknown(0)	tolerated(0.08)	-	HMMPfam_Collagen
COL6A2	1292	genome.wustl.edu	37	21	47545887	47545887	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001849.3	+1	reviewed	p.R720C	1.000	36	0%	82	13.4%	649	0%	probably_damaging(1)	-	-	HMMPfam_VWA,HMMSmart_SM00327,superfamily_vWA-like
COL6A2	1292	genome.wustl.edu	37	21	47549402	47549402	+	Nonsense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_058174.2	+1	reviewed	p.C918*	1.000	16	0%	22	22.7%	111	0%	-	-	-	NULL
FTCD	10841	genome.wustl.edu	37	21	47558827	47558827	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_006657.2	-1	reviewed	p.R424M	1.000	63	0%	116	31.9%	0	-	possibly_damaging(0.502)	deleterious(0.02)	deleterious(0.550)	HMMPfam_FTCD_C,superfamily_Methenyltetrahydrofolate cyclohydrolase-like
FTCD	10841	genome.wustl.edu	37	21	47571892	47571892	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_006657.2	-1	reviewed	p.Y124H	1.000	10	0%	17	35.3%	0	-	probably_damaging(0.995)	deleterious(0)	deleterious(0.902)	superfamily_Formiminotransferase domain of formiminotransferase-cyclodeaminase.,HMMPfam_FTCD_N
FTCD	10841	genome.wustl.edu	37	21	47574185	47574185	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_006657.2	-1	reviewed	p.D39G	0.998	28	0%	36	25%	0	-	possibly_damaging(0.446)	deleterious(0.01)	deleterious(0.551)	superfamily_Formiminotransferase domain of formiminotransferase-cyclodeaminase.,HMMPfam_FTCD_N
C21orf56	84221	genome.wustl.edu	37	21	47588374	47588374	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001142854.1	-1	validated	p.R131M	0.691	102	0%	128	29.7%	11	0%	possibly_damaging(0.697)	tolerated(0.07)	deleterious(0.569)	NULL
LSS	4047	genome.wustl.edu	37	21	47642578	47642578	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001001438.2	-1	reviewed	p.R132W	1.000	72	0%	110	10%	4	0%	probably_damaging(1)	deleterious(0.01)	deleterious(0.905)	HMMPfam_Prenyltrans,superfamily_Terp_cyc_toroid
MCM3AP	8888	genome.wustl.edu	37	21	47695124	47695124	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_003906.3	-1	reviewed	p.F658	0.995	121	0%	107	19.6%	1	0%	-	-	-	NULL
MCM3AP	8888	genome.wustl.edu	37	21	47704108	47704108	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_003906.3	-1	reviewed	p.G365S	0.000	206	0%	282	17%	1	0%	benign(0.007)	tolerated(0.07)	neutral(0.319)	NULL
MCM3AP	8888	genome.wustl.edu	37	21	47705151	47705151	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_003906.3	-1	reviewed	p.A17V	0.000	117	0%	189	23.8%	0	-	benign(0)	tolerated(1)	-	NULL
PCNT	5116	genome.wustl.edu	37	21	47783684	47783684	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_006031.5	+1	reviewed	p.T815M	0.000	44	0%	83	16.9%	0	-	benign(0.02)	tolerated(0.1)	neutral(0.287)	NULL
PCNT	5116	genome.wustl.edu	37	21	47808674	47808674	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_006031.5	+1	reviewed	p.A1161V	0.014	29	0%	65	32.3%	0	-	benign(0.003)	tolerated(0.08)	neutral(0.300)	NULL
PCNT	5116	genome.wustl.edu	37	21	47808741	47808741	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_006031.5	+1	reviewed	p.I1183	0.785	25	0%	71	21.1%	1	100%	-	-	-	NULL
PCNT	5116	genome.wustl.edu	37	21	47850021	47850021	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_006031.5	+1	reviewed	p.Q2596H	0.003	180	0%	319	15.4%	1	0%	benign(0.001)	deleterious(0.02)	neutral(0.383)	NULL
PCNT	5116	genome.wustl.edu	37	21	47860803	47860803	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_006031.5	+1	reviewed	p.E3143D	0.999	187	0%	269	32.3%	7	28.5%	probably_damaging(0.987)	deleterious(0.02)	deleterious(0.820)	HMMPfam_PACT_coil_coil
DIP2A	23181	genome.wustl.edu	37	21	47957401	47957401	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_015151.3	+1	reviewed	p.L584	0.985	99	0%	115	20%	1	0%	-	-	-	superfamily_Acetyl-CoA synthetase-like
DIP2A	23181	genome.wustl.edu	37	21	47959810	47959810	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_015151.3	+1	reviewed	p.A648T	1.000	172	0%	237	20.7%	7	0%	possibly_damaging(0.752)	tolerated(0.11)	deleterious(0.548)	superfamily_Acetyl-CoA synthetase-like
POTEH	23784	genome.wustl.edu	37	22	16287627	16287627	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001136213.1	-1	provisional	p.D87N	0.014	170	0%	316	13%	0	-	benign(0.04)	deleterious(0)	neutral(0.447)	NULL
OR11H1	81061	genome.wustl.edu	37	22	16449632	16449632	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001005239.1	-1	provisional	p.G58E	0.649	1006	0%	216	6.9%	0	-	possibly_damaging(0.832)	tolerated(0.05)	deleterious(0.662)	HMMPfam_7tm_1,superfamily_SSF81321
GAB4	128954	genome.wustl.edu	37	22	17444661	17444661	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001037814.1	-1	provisional	p.S512N	1.000	87	0%	63	17.5%	0	-	unknown(0)	tolerated(0.15)	-	NULL
CECR1	51816	genome.wustl.edu	37	22	17670887	17670887	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_017424.2	-1	reviewed	p.R306Q	0.000	117	0%	158	12%	0	-	benign(0.007)	tolerated(0.62)	neutral(0.004)	HMMPfam_A_deaminase,superfamily_SSF51556
CECR2	27443	genome.wustl.edu	37	22	18016884	18016884	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	ENST00000400573	+1	known	p.N379D	0.000	175	0%	84	28.6%	0	-	benign(0.004)	deleterious(0.03)	neutral(0.364)	superfamily_Bromodomain
CECR2	27443	genome.wustl.edu	37	22	18022492	18022492	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	ENST00000400573	+1	known	p.A865V	1.000	56	1.8%	40	27.5%	2	50%	probably_damaging(1)	deleterious(0)	deleterious(0.945)	NULL
BCL2L13	23786	genome.wustl.edu	37	22	18138483	18138483	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_015367.2	+1	validated	p.A2	0.999	407	0%	192	23.4%	0	-	-	-	-	superfamily_Bcl-2 inhibitors of programmed cell death
ENSG00000093100	0	genome.wustl.edu	37	22	18273988	18273988	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	ENST00000252134	-1	known	p.T892M	0.711	99	0%	175	15.4%	7	0%	-	-	-	NULL
ENSG00000093100	0	genome.wustl.edu	37	22	18293556	18293556	+	Silent	SNP	T	T	C	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	ENST00000252134	-1	known	p.N805S	0.999	139	0%	194	12.4%	8	0%	-	-	-	NULL
MICAL3	57553	genome.wustl.edu	37	22	18304912	18304912	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_015241.2	-1	provisional	p.S1111L	0.564	78	0%	136	19.1%	2	0%	probably_damaging(0.957)	deleterious(0)	deleterious(0.845)	NULL
MICAL3	57553	genome.wustl.edu	37	22	18371935	18371935	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_015241.2	-1	provisional	p.A586T	1.000	268	0%	120	13.3%	2	0%	probably_damaging(0.997)	tolerated(0.21)	deleterious(0.510)	HMMPfam_CH,HMMSmart_SM00033,superfamily_Calponin-homology domain CH-domain
MICAL3	57553	genome.wustl.edu	37	22	18389520	18389520	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_015241.2	-1	provisional	p.V20A	1.000	123	0%	58	29.3%	2	0%	possibly_damaging(0.933)	tolerated(0.13)	deleterious(0.631)	NULL
PRODH	5625	genome.wustl.edu	37	22	18905928	18905928	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_016335.3	-1	reviewed	p.R443Q	0.994	137	0%	199	30.2%	31	77.4%	probably_damaging(1)	deleterious(0)	deleterious(0.945)	HMMPfam_Pro_dh,superfamily_FAD-linked oxidoreductase
PRODH	5625	genome.wustl.edu	37	22	18908902	18908902	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_016335.3	-1	reviewed	p.D322N	0.583	34	0%	63	12.7%	20	0%	probably_damaging(0.955)	tolerated(0.15)	deleterious(0.639)	HMMPfam_Pro_dh,superfamily_FAD-linked oxidoreductase
CLTCL1	8218	genome.wustl.edu	37	22	19195700	19195700	+	Missense_Mutation	SNP	A	A	C	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_007098.3	-1	reviewed	p.D1188E	0.998	225	0%	221	27.6%	0	-	benign(0)	tolerated(1)	-	HMMPfam_Clathrin,HMMSmart_SM00299,superfamily_ARM repeat
CLTCL1	8218	genome.wustl.edu	37	22	19210290	19210290	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_007098.3	-1	reviewed	p.D779Y	1.000	229	0%	122	24.6%	0	-	probably_damaging(1)	deleterious(0)	deleterious(0.945)	HMMPfam_Clathrin,HMMSmart_SM00299,superfamily_ARM repeat
HIRA	7290	genome.wustl.edu	37	22	19340907	19340907	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_003325.3	-1	reviewed	p.L940	1.000	50	0%	27	22.2%	10	0%	-	-	-	HMMPfam_Hira
HIRA	7290	genome.wustl.edu	37	22	19363252	19363252	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_003325.3	-1	reviewed	p.I559	0.171	279	0%	181	12.2%	4	0%	-	-	-	NULL
HIRA	7290	genome.wustl.edu	37	22	19365412	19365412	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_003325.3	-1	reviewed	p.G531	0.279	69	0%	51	27.5%	2	0%	-	-	-	NULL
UFD1L	7353	genome.wustl.edu	37	22	19445663	19445663	+	Splice_Site	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_005659.6	-1	reviewed	e7-1	1.000	136	0%	86	17.4%	0	-	-	-	-	-
CDC45	8318	genome.wustl.edu	37	22	19502559	19502559	+	Silent	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_003504.3	+1	reviewed	p.S476	1.000	235	0%	236	22%	10	30%	-	-	-	HMMPfam_CDC45
CDC45	8318	genome.wustl.edu	37	22	19506390	19506390	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_003504.3	+1	reviewed	p.R554W	0.973	356	0.3%	393	12.5%	23	0%	probably_damaging(1)	deleterious(0.02)	deleterious(0.883)	HMMPfam_CDC45
SEPT5	5413	genome.wustl.edu	37	22	19708076	19708076	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_002688.4	+1	reviewed	p.R168W	1.000	88	0%	157	22.3%	3	0%	probably_damaging(1)	deleterious(0)	deleterious(0.945)	HMMPfam_Septin,superfamily_SSF52540
TXNRD2	10587	genome.wustl.edu	37	22	19883034	19883034	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	ENST00000334363	-1	known	p.S282L	0.000	70	0%	87	26.4%	6	33.3%	benign(0.001)	tolerated(0.42)	neutral(0.014)	superfamily_FAD/NAD(P)-binding domain
DGCR8	54487	genome.wustl.edu	37	22	20097557	20097557	+	Nonsense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_022720.5	+1	validated	p.R750*	0.934	48	0%	80	20%	3	0%	-	-	-	NULL
TRMT2A	27037	genome.wustl.edu	37	22	20100486	20100486	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_022727.4	-1	validated	p.R532W	1.000	37	0%	69	23.2%	50	30%	probably_damaging(0.993)	deleterious(0)	deleterious(0.895)	superfamily_S-adenosyl-L-methionine-dependent methyltransferases
USP41	373856	genome.wustl.edu	37	22	20723762	20723762	+	Missense_Mutation	SNP	C	C	T	rs61741937	byFrequency	TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	XM_036729.7	-1	model	p.R184Q	0.022	229	0%	203	13.3%	0	-	benign(0.312)	tolerated(0.52)	neutral(0.106)	HMMPfam_UCH,superfamily_Cysteine proteinases
ZNF74	7625	genome.wustl.edu	37	22	20760273	20760273	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_003426.2	+1	validated	p.S317L	0.380	44	0%	66	36.4%	7	14.2%	probably_damaging(0.99)	deleterious(0)	deleterious(0.886)	HMMPfam_zf-C2H2,PatternScan_ZINC_FINGER_C2H2_1,HMMSmart_SM00355,superfamily_C2H2 and C2HC zinc fingers
ZNF74	7625	genome.wustl.edu	37	22	20760529	20760529	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_003426.2	+1	validated	p.S402	0.991	25	0%	50	30%	5	0%	-	-	-	HMMPfam_zf-C2H2,PatternScan_ZINC_FINGER_C2H2_1,HMMSmart_SM00355,superfamily_C2H2 and C2HC zinc fingers
KLHL22	84861	genome.wustl.edu	37	22	20843316	20843316	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_032775.2	-1	validated	p.I61	0.985	65	0%	81	30.9%	3	0%	-	-	-	HMMSmart_SM00225,superfamily_POZ domain,HMMPfam_BTB
TMEM191A	84222	genome.wustl.edu	37	22	21055583	21055583	+	RNA	SNP	T	T	G	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NR_026815.1	+1	predicted	NULL	0.987	445	0.2%	654	24.6%	0	-	-	-	-	-
PI4KA	5297	genome.wustl.edu	37	22	21064221	21064221	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_058004.2	-1	reviewed	p.R1992C	1.000	125	0%	202	13.9%	49	0%	probably_damaging(1)	deleterious(0)	deleterious(0.945)	HMMPfam_PI3_PI4_kinase,HMMSmart_SM00146,superfamily_Protein kinase-like (PK-like)
PI4KA	5297	genome.wustl.edu	37	22	21068805	21068805	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_058004.2	-1	reviewed	p.A1743V	1.000	493	0%	482	19.3%	23	21.7%	possibly_damaging(0.822)	deleterious(0)	deleterious(0.756)	superfamily_Protein kinase-like (PK-like)
SERPIND1	3053	genome.wustl.edu	37	22	21134044	21134044	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_000185.3	+1	reviewed	p.F148	0.000	132	1.5%	65	16.9%	1	0%	-	-	-	HMMPfam_Serpin,HMMSmart_SM00093,superfamily_Serpins
SERPIND1	3053	genome.wustl.edu	37	22	21134293	21134293	+	Silent	SNP	A	A	G	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_000185.3	+1	reviewed	p.P231	0.136	200	0%	97	14.4%	1	0%	-	-	-	HMMPfam_Serpin,HMMSmart_SM00093,superfamily_Serpins
AIFM3	150209	genome.wustl.edu	37	22	21330772	21330772	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_144704.2	+1	validated	p.R325	0.937	166	0%	233	14.6%	0	-	-	-	-	HMMPfam_Pyr_redox_2,superfamily_FAD/NAD(P)-binding domain
LZTR1	8216	genome.wustl.edu	37	22	21340161	21340161	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_006767.3	+1	reviewed	p.D99N	1.000	89	0%	165	27.3%	1	0%	probably_damaging(0.998)	tolerated(0.11)	deleterious(0.746)	HMMPfam_Kelch_1,HMMSmart_SM00612,superfamily_Galactose oxidase central domain
SLC7A4	6545	genome.wustl.edu	37	22	21383648	21383648	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_004173.2	-1	validated	p.R570H	1.000	116	1.7%	191	25.1%	1	0%	probably_damaging(0.989)	deleterious(0)	deleterious(0.884)	NULL
SLC7A4	6545	genome.wustl.edu	37	22	21385780	21385780	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_004173.2	-1	validated	p.V108I	0.998	15	0%	50	20%	0	-	probably_damaging(0.985)	tolerated(0.21)	deleterious(0.476)	HMMPfam_AA_permease
CCDC116	164592	genome.wustl.edu	37	22	21990776	21990776	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_152612.2	+1	provisional	p.S420L	0.007	32	0%	77	18.2%	0	-	probably_damaging(0.98)	deleterious(0)	deleterious(0.869)	NULL
PPIL2	23759	genome.wustl.edu	37	22	22048119	22048119	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_148176.2	+1	reviewed	p.R385H	1.000	255	0%	319	25.1%	9	33.3%	probably_damaging(0.975)	deleterious(0.01)	deleterious(0.823)	HMMPfam_Pro_isomerase,superfamily_CSA_PPIase
IGLV8-61	28774	genome.wustl.edu	37	22	22453481	22453481	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	ENST00000390283	+1	known	p.S76N	0.000	273	0%	71	31%	36	58.3%	benign(0)	tolerated(0.4)	neutral(0.016)	HMMSmart_SM00406,HMMSmart_SM00409,HMMPfam_V-set,superfamily_Immunoglobulin
IGLV6-57	28778	genome.wustl.edu	37	22	22550505	22550505	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	ENST00000390285	+1	known	p.G61D	0.101	125	0%	68	16.2%	133	0%	probably_damaging(0.968)	deleterious(0.04)	deleterious(0.759)	HMMSmart_SM00406,HMMSmart_SM00409,HMMPfam_V-set,superfamily_Immunoglobulin
IGLV11-55	28770	genome.wustl.edu	37	22	22556351	22556351	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	ENST00000390286	+1	known	p.F55L	0.130	105	0%	121	10.7%	0	-	benign(0)	tolerated(0.61)	neutral(0.004)	HMMSmart_SM00406,HMMSmart_SM00409,HMMPfam_V-set,superfamily_Immunoglobulin
IGLV11-55	28770	genome.wustl.edu	37	22	22556462	22556462	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	ENST00000390286	+1	known	p.E92	0.000	73	0%	89	14.6%	0	-	-	-	-	HMMSmart_SM00406,HMMSmart_SM00409,HMMPfam_V-set,superfamily_Immunoglobulin
IGLV5-48	28780	genome.wustl.edu	37	22	22707580	22707580	+	Nonsense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	ENST00000390293	+1	known	p.W56*	0.989	140	0%	44	20.5%	0	-	-	-	-	HMMSmart_SM00406,HMMSmart_SM00409,HMMPfam_V-set,superfamily_Immunoglobulin
IGLV1-40	28825	genome.wustl.edu	37	22	22764402	22764402	+	Silent	SNP	C	C	T	rs148111939	by1000genomes	TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	ENST00000390299	+1	known	p.I48	0.001	178	0%	63	30.2%	96	1%	-	-	-	HMMSmart_SM00406,HMMSmart_SM00409,HMMPfam_V-set,superfamily_Immunoglobulin
IGLV3-32	28787	genome.wustl.edu	37	22	22937402	22937402	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	ENST00000390303	+1	known	p.R74G	0.972	149	0%	68	20.6%	0	-	benign(0.001)	tolerated(1)	-	HMMSmart_SM00406,HMMPfam_V-set,superfamily_Immunoglobulin
IGLJ7	28827	genome.wustl.edu	37	22	23263607	23263607	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	ENST00000390330	+1	known	p.16	0.035	295	0%	266	29.3%	4	0%	-	-	-	NULL
RTDR1	27156	genome.wustl.edu	37	22	23401669	23401669	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_014433.2	-1	reviewed	p.A340T	0.528	124	0%	103	21.4%	3	66.6%	possibly_damaging(0.794)	tolerated(0.16)	neutral(0.357)	NULL
BCR	613	genome.wustl.edu	37	22	23524103	23524103	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_004327.3	+1	reviewed	p.R319Q	0.995	36	0%	78	33.3%	3	0%	probably_damaging(0.998)	tolerated(0.12)	deleterious(0.735)	NULL
C22orf43	51233	genome.wustl.edu	37	22	23955488	23955488	+	Nonsense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_016449.2	-1	provisional	p.E225*	0.001	312	0%	143	14%	0	-	-	-	-	NULL
VPREB3	29802	genome.wustl.edu	37	22	24095182	24095182	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_013378.2	-1	reviewed	p.D85N	0.000	93	0%	159	26.4%	77	10.3%	benign(0.065)	tolerated(0.13)	neutral(0.257)	HMMSmart_SM00406,HMMSmart_SM00409,HMMPfam_V-set,superfamily_Immunoglobulin
CABIN1	23523	genome.wustl.edu	37	22	24451419	24451419	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_012295.2	+1	reviewed	p.R297M	1.000	129	0%	102	22.5%	0	-	probably_damaging(1)	deleterious(0.01)	deleterious(0.905)	NULL
CABIN1	23523	genome.wustl.edu	37	22	24452738	24452738	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_012295.2	+1	reviewed	p.R393W	1.000	233	0%	204	23.5%	1	0%	probably_damaging(1)	deleterious(0)	deleterious(0.945)	NULL
CABIN1	23523	genome.wustl.edu	37	22	24456398	24456398	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_012295.2	+1	reviewed	p.V471M	1.000	104	0%	127	11%	4	0%	probably_damaging(1)	deleterious(0)	deleterious(0.945)	NULL
CABIN1	23523	genome.wustl.edu	37	22	24487598	24487598	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_012295.2	+1	reviewed	p.R1196H	0.987	44	0%	27	37%	4	25%	benign(0.161)	tolerated(0.09)	neutral(0.311)	superfamily_SSF48452
SUSD2	56241	genome.wustl.edu	37	22	24579074	24579074	+	Silent	SNP	T	T	C	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_019601.3	+1	validated	p.C42	0.998	80	0%	132	25.8%	0	-	-	-	-	HMMPfam_Somatomedin_B,HMMSmart_SO,PatternScan_SMB_1,superfamily_SSF90188
SUSD2	56241	genome.wustl.edu	37	22	24583191	24583191	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_019601.3	+1	validated	p.A555V	0.000	82	0%	145	22.8%	5	40%	benign(0.052)	tolerated(0.2)	neutral(0.052)	HMMPfam_VWD,HMMSmart_VWD
GGT5	2687	genome.wustl.edu	37	22	24621550	24621550	+	Nonsense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001099781.1	-1	reviewed	p.R434*	0.934	74	0%	100	25%	16	0%	-	-	-	HMMPfam_G_glu_transpept
SPECC1L	23384	genome.wustl.edu	37	22	24734381	24734381	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001145468.1	+1	validated	p.P863H	1.000	305	0%	94	12.8%	0	-	probably_damaging(0.971)	deleterious(0)	deleterious(0.857)	NULL
ADORA2A	135	genome.wustl.edu	37	22	24836925	24836925	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_000675.4	+1	reviewed	p.A236V	1.000	74	0%	110	27.3%	4	0%	benign(0.416)	deleterious(0.04)	deleterious(0.483)	HMMPfam_7tm_1,superfamily_Family A G protein-coupled receptor-like
UPB1	51733	genome.wustl.edu	37	22	24896103	24896103	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_016327.2	+1	reviewed	p.E45K	0.010	103	0%	139	36%	1	0%	benign(0.027)	tolerated(0.47)	neutral(0.012)	NULL
UPB1	51733	genome.wustl.edu	37	22	24906762	24906762	+	Missense_Mutation	SNP	A	A	C	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_016327.2	+1	reviewed	p.E137A	1.000	138	0%	77	15.6%	0	-	benign(0.264)	tolerated(0.26)	neutral(0.061)	HMMPfam_CN_hydrolase,superfamily_Carbon-nitrogen hydrolase
C22orf13	83606	genome.wustl.edu	37	22	24939002	24939002	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_031444.2	-1	validated	p.D232G	1.000	135	0%	153	9.8%	6	0%	probably_damaging(1)	deleterious(0)	deleterious(0.945)	HMMPfam_Guanylate_cyc_2
C22orf13	83606	genome.wustl.edu	37	22	24942940	24942940	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_031444.2	-1	validated	p.T110A	1.000	155	0%	163	13.5%	13	0%	benign(0.021)	tolerated(0.72)	neutral(0.003)	HMMPfam_Guanylate_cyc_2
GGT1	2678	genome.wustl.edu	37	22	25016897	25016897	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001032364.2	+1	reviewed	p.D198G	0.017	48	0%	59	30.5%	7	14.2%	benign(0.001)	tolerated(0.15)	neutral(0.241)	HMMPfam_G_glu_transpept
PIWIL3	440822	genome.wustl.edu	37	22	25120865	25120865	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001008496.2	-1	validated	p.I749	0.000	237	0%	132	14.4%	0	-	-	-	-	HMMPfam_Piwi,superfamily_RNaseH_fold
PIWIL3	440822	genome.wustl.edu	37	22	25130060	25130060	+	Silent	SNP	T	T	C	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001008496.2	-1	validated	p.T566	0.000	387	0%	132	25.8%	0	-	-	-	-	NULL
SGSM1	129049	genome.wustl.edu	37	22	25251308	25251308	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001039948.2	+1	validated	p.D194N	0.999	32	0%	22	22.7%	0	-	probably_damaging(0.992)	deleterious(0)	deleterious(0.892)	NULL
SGSM1	129049	genome.wustl.edu	37	22	25270385	25270385	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001039948.2	+1	validated	p.A432V	0.000	209	0%	99	10.1%	0	-	benign(0.001)	tolerated(0.05)	neutral(0.345)	NULL
TMEM211	255349	genome.wustl.edu	37	22	25331327	25331327	+	Silent	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001001663.1	-1	provisional	p.I121	0.201	138	0%	91	17.6%	1	0%	-	-	-	NULL
ADRBK2	157	genome.wustl.edu	37	22	26063737	26063737	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_005160.3	+1	reviewed	p.R158Q	1.000	252	0%	97	15.5%	3	0%	possibly_damaging(0.485)	tolerated(0.07)	deleterious(0.480)	HMMPfam_RGS,HMMSmart_RGS,superfamily_Regulat_G_prot_signal_superfam
MYO18B	84700	genome.wustl.edu	37	22	26164716	26164716	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_032608.5	+1	reviewed	p.R278Q	0.000	53	0%	54	27.8%	0	-	benign(0.009)	tolerated(1)	neutral(0.001)	NULL
MYO18B	84700	genome.wustl.edu	37	22	26291146	26291146	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_032608.5	+1	reviewed	p.D1523N	0.987	49	0%	17	23.5%	0	-	probably_damaging(0.999)	tolerated(0.08)	deleterious(0.790)	NULL
MYO18B	84700	genome.wustl.edu	37	22	26422582	26422582	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_032608.5	+1	reviewed	p.Q2214H	0.913	39	0%	17	35.3%	1	0%	benign(0.001)	tolerated(0.3)	neutral(0.029)	NULL
MYO18B	84700	genome.wustl.edu	37	22	26423519	26423519	+	Nonsense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_032608.5	+1	reviewed	p.R2527*	0.997	121	0%	61	26.2%	1	0%	-	-	-	NULL
HPS4	89781	genome.wustl.edu	37	22	26853848	26853848	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_022081.4	-1	reviewed	p.P644	0.005	60	0%	51	21.6%	6	0%	-	-	-	NULL
HPS4	89781	genome.wustl.edu	37	22	26860694	26860694	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_022081.4	-1	reviewed	p.V301A	0.000	104	0%	72	20.8%	4	25%	benign(0.009)	tolerated(1)	neutral(0.001)	NULL
HPS4	89781	genome.wustl.edu	37	22	26872970	26872970	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_022081.4	-1	reviewed	p.D89Y	0.988	173	0%	185	11.4%	1	0%	probably_damaging(0.991)	deleterious(0.01)	deleterious(0.850)	NULL
CRYBA4	1413	genome.wustl.edu	37	22	27019224	27019224	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001886.2	+1	reviewed	p.F22	1.000	86	0%	55	36.4%	0	-	-	-	-	HMMPfam_Crystall,HMMSmart_XTALbg,superfamily_G_crystallin_SF
MN1	4330	genome.wustl.edu	37	22	28195197	28195197	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_002430.2	-1	reviewed	p.F445	1.000	11	0%	17	52.9%	0	-	-	-	-	NULL
PITPNB	23760	genome.wustl.edu	37	22	28256213	28256213	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_012399.3	-1	reviewed	p.S184N	0.085	264	0%	49	12.2%	6	0%	benign(0)	tolerated(0.93)	-	HMMPfam_IP_trans,superfamily_Bet v1-like
TTC28	23331	genome.wustl.edu	37	22	28378335	28378335	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001145418.1	-1	validated	p.S2440	0.000	37	0%	89	13.5%	6	16.6%	-	-	-	NULL
TTC28	23331	genome.wustl.edu	37	22	28379600	28379600	+	Nonsense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001145418.1	-1	validated	p.G2019*	0.915	101	0%	194	11.9%	1	0%	-	-	-	NULL
TTC28	23331	genome.wustl.edu	37	22	28426236	28426236	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001145418.1	-1	validated	p.R1351C	1.000	271	0%	115	19.1%	1	0%	probably_damaging(0.989)	deleterious(0.02)	deleterious(0.823)	NULL
TTC28	23331	genome.wustl.edu	37	22	28426293	28426293	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001145418.1	-1	validated	p.E1332K	1.000	394	0%	226	23.9%	3	0%	probably_damaging(0.955)	deleterious(0)	deleterious(0.843)	NULL
CHEK2	11200	genome.wustl.edu	37	22	29121275	29121275	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001005735.1	-1	reviewed	p.D177Y	0.520	527	0%	329	19.5%	2	50%	possibly_damaging(0.822)	deleterious(0.04)	deleterious(0.660)	HMMPfam_FHA,HMMSmart_SM00240,superfamily_SMAD/FHA domain
HSCB	150274	genome.wustl.edu	37	22	29147256	29147256	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_172002.3	+1	validated	p.V199A	0.982	325	0%	112	17%	24	29.1%	benign(0.223)	tolerated(0.17)	neutral(0.081)	HMMPfam_HSCB_C,superfamily_HSC20_C
ZNRF3	84133	genome.wustl.edu	37	22	29383065	29383065	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_032173.2	+1	validated	p.M1T	1.000	283	0%	122	10.7%	0	-	probably_damaging(0.982)	deleterious(0)	deleterious(0.871)	NULL
ZNRF3	84133	genome.wustl.edu	37	22	29445283	29445283	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_032173.2	+1	validated	p.V272M	0.996	55	0%	101	28.7%	0	-	probably_damaging(0.99)	deleterious(0.01)	deleterious(0.847)	NULL
C22orf31	25770	genome.wustl.edu	37	22	29456550	29456550	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_015370.1	-1	predicted	p.K95N	0.966	353	0%	302	23.5%	2	0%	probably_damaging(0.983)	-	-	NULL
AP1B1	162	genome.wustl.edu	37	22	29735081	29735081	+	Silent	SNP	T	T	C	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001127.3	-1	reviewed	p.V687	0.053	84	0%	128	14.8%	19	0%	-	-	-	NULL
AP1B1	162	genome.wustl.edu	37	22	29754844	29754844	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001127.3	-1	reviewed	p.D132	0.984	105	0%	66	28.8%	4	25%	-	-	-	HMMPfam_Adaptin_N,superfamily_ARM repeat
THOC5	8563	genome.wustl.edu	37	22	29913254	29913254	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001002877.1	-1	validated	p.M531V	0.995	279	0%	95	28.4%	37	24.3%	benign(0)	tolerated(1)	-	NULL
THOC5	8563	genome.wustl.edu	37	22	29932685	29932685	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001002877.1	-1	validated	p.K214N	1.000	273	0%	128	14.1%	9	22.2%	benign(0.208)	tolerated(0.14)	neutral(0.270)	HMMPfam_FimP
ASCC2	84164	genome.wustl.edu	37	22	30189432	30189432	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_032204.3	-1	provisional	p.Y612	0.729	58	0%	51	35.3%	59	30.5%	-	-	-	NULL
MTMR3	8897	genome.wustl.edu	37	22	30416037	30416037	+	Nonsense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_021090.3	+1	reviewed	p.R797*	0.003	165	0%	67	29.9%	4	25%	-	-	-	NULL
OSM	5008	genome.wustl.edu	37	22	30660208	30660208	+	Silent	SNP	C	C	T	rs182035513	by1000genomes	TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_020530.3	-1	reviewed	p.P141	0.000	49	0%	79	11.4%	0	-	-	-	-	HMMPfam_LIF_OSM,HMMSmart_LIF_OSM,superfamily_4_helix_cytokine
TBC1D10A	83874	genome.wustl.edu	37	22	30695537	30695537	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_031937.1	-1	provisional	p.R105C	1.000	79	0%	71	21.1%	5	40%	probably_damaging(0.999)	deleterious(0)	deleterious(0.935)	superfamily_Ypt/Rab-GAP domain of gyp1p
SF3A1	10291	genome.wustl.edu	37	22	30734815	30734815	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_005877.4	-1	reviewed	p.S569L	0.999	753	0%	725	10.6%	30	0%	benign(0.04)	-	-	NULL
SF3A1	10291	genome.wustl.edu	37	22	30741087	30741087	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_005877.4	-1	reviewed	p.F162	0.260	257	0%	194	29.4%	23	8.6%	-	-	-	superfamily_SSF109905
CCDC157	550631	genome.wustl.edu	37	22	30769669	30769669	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001017437.2	+1	validated	p.D473	0.010	20	0%	41	22%	2	0%	-	-	-	NULL
CCDC157	550631	genome.wustl.edu	37	22	30772324	30772324	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001017437.2	+1	validated	p.S645I	0.005	121	0%	181	25.4%	4	25%	possibly_damaging(0.66)	deleterious(0.05)	deleterious(0.579)	NULL
PES1	23481	genome.wustl.edu	37	22	30987806	30987806	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_014303.2	-1	reviewed	p.E5D	1.000	135	0%	199	26.6%	9	11.1%	benign(0.149)	deleterious(0.04)	neutral(0.362)	NULL
DUSP18	150290	genome.wustl.edu	37	22	31059599	31059599	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_152511.3	-1	validated	p.H131R	1.000	148	0%	211	17.5%	4	0%	probably_damaging(0.999)	deleterious(0.02)	deleterious(0.873)	HMMPfam_DSPc,HMMSmart_SM00195,superfamily_(Phosphotyrosine protein) phosphatases II
OSBP2	23762	genome.wustl.edu	37	22	31286876	31286876	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	ENST00000431368	+1	known	p.S267L	1.000	71	0%	90	20%	0	-	-	-	-	HMMPfam_Oxysterol_BP
OSBP2	23762	genome.wustl.edu	37	22	31289513	31289513	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_030758.3	+1	reviewed	p.T685N	0.998	58	0%	56	25%	3	0%	probably_damaging(1)	deleterious(0)	deleterious(0.945)	HMMPfam_Oxysterol_BP
LOC100288476	100288476	genome.wustl.edu	37	22	31495093	31495093	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	XM_002343774.1	-1	model	p.E133K	0.212	18	0%	42	33.3%	180	2.2%	-	-	-	NULL
INPP5J	27124	genome.wustl.edu	37	22	31529643	31529643	+	Silent	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001002837.1	+1	validated	p.I451	0.999	187	0%	264	14.8%	7	0%	-	-	-	NULL
PLA2G3	50487	genome.wustl.edu	37	22	31531875	31531875	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_015715.3	-1	validated	p.R455Q	0.012	62	0%	119	34.5%	0	-	benign(0.034)	tolerated(0.47)	neutral(0.013)	superfamily_Phospholipase A2 PLA2
RNF185	91445	genome.wustl.edu	37	22	31583228	31583228	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_152267.3	+1	validated	p.V50I	1.000	53	0%	57	31.6%	6	16.6%	benign(0.235)	deleterious(0.02)	neutral(0.407)	HMMSmart_SM00184,HMMPfam_zf-C3HC4,superfamily_RING/U-box
RNF185	91445	genome.wustl.edu	37	22	31601193	31601193	+	RNA	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NR_024209.1	+1	validated	NULL	0.008	376	0.3%	307	22.5%	9	0%	-	-	-	-
LIMK2	3985	genome.wustl.edu	37	22	31644657	31644657	+	Silent	SNP	A	A	G	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	ENST00000438187	+1	known	p.S37	1.000	230	0%	93	23.7%	2	0%	-	-	-	NULL
DRG1	4733	genome.wustl.edu	37	22	31816306	31816306	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_004147.3	+1	validated	p.K159	1.000	343	0%	156	21.8%	37	27%	-	-	-	HMMPfam_MMR_HSR1,superfamily_P-loop containing nucleoside triphosphate hydrolases
DEPDC5	9681	genome.wustl.edu	37	22	32161027	32161027	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_014662.2	+1	validated	p.V87A	1.000	514	0%	371	19.4%	0	-	possibly_damaging(0.945)	deleterious(0)	deleterious(0.834)	NULL
DEPDC5	9681	genome.wustl.edu	37	22	32198783	32198783	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_014662.2	+1	validated	p.R347H	1.000	379	0.3%	177	20.9%	0	-	probably_damaging(0.999)	deleterious(0.01)	deleterious(0.896)	NULL
DEPDC5	9681	genome.wustl.edu	37	22	32206535	32206535	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_014662.2	+1	validated	p.N451	0.933	186	0%	86	24.4%	1	0%	-	-	-	NULL
YWHAH	7533	genome.wustl.edu	37	22	32352642	32352642	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_003405.3	+1	reviewed	p.D202N	1.000	76	0%	72	26.4%	82	14.6%	possibly_damaging(0.582)	deleterious(0)	deleterious(0.645)	HMMPfam_14-3-3,HMMSmart_SM00101,superfamily_14-3-3 protein
SLC5A1	6523	genome.wustl.edu	37	22	32506168	32506168	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_000343.3	+1	reviewed	p.V655M	1.000	528	0%	236	22%	2	0%	probably_damaging(0.988)	deleterious(0.01)	deleterious(0.843)	NULL
RFPL2	10739	genome.wustl.edu	37	22	32587262	32587262	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_006605.3	-1	validated	p.R151C	0.000	364	0.3%	261	21.8%	0	-	benign(0.014)	tolerated(0.06)	neutral(0.323)	HMMSmart_SM00589
SLC5A4	6527	genome.wustl.edu	37	22	32644729	32644729	+	Splice_Site	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_014227.2	-1	validated	e4+1	1.000	312	0%	115	20.9%	0	-	-	-	-	-
BPIFC	254240	genome.wustl.edu	37	22	32838685	32838685	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_174932.2	-1	validated	p.L210	0.572	290	0%	95	24.2%	0	-	-	-	-	HMMPfam_LBP_BPI_CETP,HMMSmart_BPI1,superfamily_Bactericidal_perm-incr_a/b_dom
BPIFC	254240	genome.wustl.edu	37	22	32841935	32841935	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_174932.2	-1	validated	p.T141	0.003	204	0%	49	18.4%	0	-	-	-	-	HMMPfam_LBP_BPI_CETP,HMMSmart_BPI1,superfamily_Bactericidal_perm-incr_a/b_dom
BPIFC	254240	genome.wustl.edu	37	22	32849450	32849450	+	Missense_Mutation	SNP	T	T	G	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_174932.2	-1	validated	p.K55N	0.052	405	0%	94	13.8%	0	-	probably_damaging(0.999)	tolerated(0.12)	deleterious(0.751)	HMMPfam_LBP_BPI_CETP,HMMSmart_BPI1,superfamily_Bactericidal_perm-incr_a/b_dom,PatternScan_LBP_BPI_CETP
SYN3	8224	genome.wustl.edu	37	22	32914039	32914039	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_003490.3	-1	reviewed	p.P534L	0.989	186	0%	97	22.7%	1	0%	benign(0.007)	deleterious(0.04)	neutral(0.349)	NULL
TIMP3	7078	genome.wustl.edu	37	22	33253242	33253242	+	Nonsense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_000362.4	+1	reviewed	p.R71*	1.000	129	0%	29	24.1%	24	0%	-	-	-	HMMPfam_TIMP,HMMSmart_SM00206,superfamily_TIMP-like
TIMP3	7078	genome.wustl.edu	37	22	33254007	33254007	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_000362.4	+1	reviewed	p.R107H	0.999	195	0%	94	31.9%	36	0%	probably_damaging(1)	tolerated(0.2)	deleterious(0.549)	HMMPfam_TIMP,HMMSmart_SM00206,superfamily_TIMP-like
LARGE	9215	genome.wustl.edu	37	22	33733632	33733632	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_004737.4	-1	reviewed	p.N429	0.745	88	0%	29	24.1%	4	0%	-	-	-	NULL
LARGE	9215	genome.wustl.edu	37	22	33777939	33777939	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_004737.4	-1	reviewed	p.S366F	1.000	265	0%	109	19.3%	1	0%	possibly_damaging(0.949)	deleterious(0)	deleterious(0.838)	HMMPfam_Glyco_transf_8,superfamily_Nucleotide-diphospho-sugar transferases
LARGE	9215	genome.wustl.edu	37	22	34046351	34046351	+	Splice_Site	SNP	A	A	G	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_004737.4	-1	reviewed	e2+2	1.000	30	0%	40	30%	0	-	-	-	-	-
HMGXB4	10042	genome.wustl.edu	37	22	35659116	35659116	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001003681.2	+1	validated	p.A26D	1.000	223	0%	220	22.7%	1	0%	possibly_damaging(0.564)	deleterious(0)	deleterious(0.637)	NULL
HMGXB4	10042	genome.wustl.edu	37	22	35659158	35659158	+	Missense_Mutation	SNP	T	T	G	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001003681.2	+1	validated	p.F40C	1.000	197	0%	171	13.5%	1	100%	benign(0.354)	deleterious(0)	deleterious(0.556)	NULL
HMOX1	3162	genome.wustl.edu	37	22	35782900	35782900	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_002133.1	+1	reviewed	p.R123C	0.055	17	0%	24	45.8%	22	0%	probably_damaging(0.991)	deleterious(0.02)	deleterious(0.827)	HMMPfam_Heme_oxygenase,superfamily_Heme oxygenase-like
RASD2	23551	genome.wustl.edu	37	22	35943043	35943043	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_014310.3	+1	reviewed	p.R63C	1.000	107	0%	152	29.6%	11	0%	probably_damaging(1)	deleterious(0)	deleterious(0.945)	HMMSmart_RAS,HMMPfam_Ras,superfamily_SSF52540
RASD2	23551	genome.wustl.edu	37	22	35947936	35947936	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_014310.3	+1	reviewed	p.R220C	1.000	30	0%	47	31.9%	6	0%	probably_damaging(0.97)	deleterious(0.01)	deleterious(0.818)	NULL
APOL6	80830	genome.wustl.edu	37	22	36054801	36054801	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_030641.3	+1	reviewed	p.A64T	0.289	236	0%	70	21.4%	0	-	probably_damaging(1)	deleterious(0)	deleterious(0.945)	HMMPfam_ApoL
APOL5	80831	genome.wustl.edu	37	22	36123005	36123005	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_030642.1	+1	reviewed	p.A297V	0.001	97	0%	84	14.3%	0	-	benign(0.049)	tolerated(0.18)	neutral(0.059)	HMMPfam_ApoL
APOL5	80831	genome.wustl.edu	37	22	36124776	36124776	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_030642.1	+1	reviewed	p.R378H	0.000	60	0%	40	12.5%	0	-	probably_damaging(0.997)	deleterious(0)	deleterious(0.911)	NULL
APOL3	80833	genome.wustl.edu	37	22	36537382	36537382	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_145640.2	-1	reviewed	p.E359K	0.017	131	0%	73	13.7%	18	0%	benign(0.144)	tolerated(0.08)	neutral(0.312)	HMMPfam_ApoL
APOL3	80833	genome.wustl.edu	37	22	36541548	36541548	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_145640.2	-1	reviewed	p.R108I	0.000	193	0%	72	16.7%	7	0%	-	-	-	HMMPfam_ApoL
MYH9	4627	genome.wustl.edu	37	22	36681202	36681202	+	Silent	SNP	A	A	G	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_002473.4	-1	reviewed	p.I1816	0.954	64	0%	117	23.1%	443	8.3%	-	-	-	HMMPfam_Myosin_tail_1,superfamily_Regulator of G-protein signaling RGS
MYH9	4627	genome.wustl.edu	37	22	36688248	36688248	+	Missense_Mutation	SNP	A	A	C	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_002473.4	-1	reviewed	p.S1376R	0.080	106	0%	153	26.1%	198	8.5%	benign(0.002)	tolerated(0.56)	neutral(0.006)	HMMPfam_Myosin_tail_1
MYH9	4627	genome.wustl.edu	37	22	36702489	36702489	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_002473.4	-1	reviewed	p.R670C	1.000	166	0%	200	24%	81	1.2%	probably_damaging(0.968)	deleterious(0.01)	deleterious(0.816)	HMMPfam_Myosin_head,HMMSmart_SM00242,superfamily_P-loop containing nucleoside triphosphate hydrolases
MYH9	4627	genome.wustl.edu	37	22	36716407	36716407	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_002473.4	-1	reviewed	p.T290	0.972	171	0%	223	27.4%	57	5.2%	-	-	-	HMMPfam_Myosin_head,HMMSmart_SM00242,superfamily_P-loop containing nucleoside triphosphate hydrolases
CACNG2	10369	genome.wustl.edu	37	22	36960667	36960667	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_006078.2	-1	reviewed	p.R235C	1.000	40	0%	76	25%	0	-	probably_damaging(1)	tolerated(0.12)	deleterious(0.760)	NULL
NCF4	4689	genome.wustl.edu	37	22	37271789	37271789	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_013416.3	+1	validated	p.R241H	1.000	84	0%	48	33.3%	9	0%	probably_damaging(1)	deleterious(0.01)	deleterious(0.905)	NULL
CSF2RB	1439	genome.wustl.edu	37	22	37325580	37325580	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_000395.2	+1	reviewed	p.K176	0.312	182	0%	115	27.8%	0	-	-	-	-	HMMPfam_fn3,HMMSmart_SM00060,superfamily_Fibronectin type III
CSF2RB	1439	genome.wustl.edu	37	22	37334287	37334287	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_000395.2	+1	reviewed	p.L813I	0.989	42	0%	55	16.4%	3	0%	probably_damaging(0.999)	tolerated(0.08)	deleterious(0.790)	NULL
SSTR3	6753	genome.wustl.edu	37	22	37602684	37602684	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001051.2	-1	reviewed	p.R387W	0.090	43	0%	96	15.6%	0	-	possibly_damaging(0.926)	deleterious(0.01)	deleterious(0.780)	NULL
CYTH4	27128	genome.wustl.edu	37	22	37707081	37707081	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	ENST00000446506	+1	known	p.P40S	1.000	81	0%	66	21.2%	2	0%	-	-	-	HMMPfam_PH,HMMSmart_SM00233,superfamily_PH domain-like
ELFN2	114794	genome.wustl.edu	37	22	37771290	37771290	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_052906.3	-1	validated	p.E95D	1.000	176	0%	336	24.7%	0	-	probably_damaging(0.999)	deleterious(0.01)	deleterious(0.896)	superfamily_SSF52058
GGA1	26088	genome.wustl.edu	37	22	38027038	38027038	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_013365.4	+1	reviewed	p.P487L	0.000	50	0%	74	24.3%	39	38.4%	benign(0.003)	tolerated(0.69)	neutral(0.002)	NULL
SH3BP1	23616	genome.wustl.edu	37	22	38039138	38039138	+	Missense_Mutation	SNP	A	A	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_018957.3	+1	validated	p.S144C	0.976	72	0%	114	21.9%	3	33.3%	possibly_damaging(0.819)	deleterious(0.01)	deleterious(0.715)	HMMPfam_BAR,HMMSmart_SM00721
NOL12	79159	genome.wustl.edu	37	22	38082420	38082420	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_024313.2	+1	validated	p.K7N	0.233	45	0%	54	25.9%	10	10%	unknown(0)	tolerated(0.2)	-	NULL
TRIOBP	11078	genome.wustl.edu	37	22	38119819	38119819	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001039141.2	+1	reviewed	p.S419Y	0.259	639	0%	959	25.4%	0	-	unknown(0)	deleterious(0)	-	NULL
TRIOBP	11078	genome.wustl.edu	37	22	38120470	38120470	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001039141.2	+1	reviewed	p.A636V	0.226	691	0%	1157	24.5%	1	0%	possibly_damaging(0.712)	tolerated(0.22)	neutral(0.299)	NULL
TRIOBP	11078	genome.wustl.edu	37	22	38120598	38120598	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001039141.2	+1	reviewed	p.R679W	0.000	723	0.1%	1079	20.4%	0	-	probably_damaging(0.997)	tolerated(0.1)	deleterious(0.752)	NULL
TRIOBP	11078	genome.wustl.edu	37	22	38153933	38153933	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001039141.2	+1	reviewed	p.P2001S	0.000	11	0%	36	41.7%	12	25%	benign(0.113)	tolerated(0.29)	neutral(0.038)	NULL
TRIOBP	11078	genome.wustl.edu	37	22	38154047	38154047	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001039141.2	+1	reviewed	p.R2039W	0.984	11	0%	39	28.2%	27	25.9%	probably_damaging(1)	deleterious(0)	deleterious(0.945)	NULL
H1F0	3005	genome.wustl.edu	37	22	38201771	38201771	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_005318.3	+1	reviewed	p.R74C	1.000	68	0%	234	26.1%	47	14.8%	probably_damaging(1)	deleterious(0)	deleterious(0.945)	"HMMPfam_Linker_histone,HMMSmart_SM00526,superfamily_""Winged helix"" DNA-binding domain"
MIR659	724029	genome.wustl.edu	37	22	38243729	38243729	+	RNA	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	ENST00000384963	-1	known	NULL	0.034	81	1.2%	135	29.6%	0	-	-	-	-	-
MICALL1	85377	genome.wustl.edu	37	22	38323427	38323427	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_033386.2	+1	validated	p.A492V	0.990	16	0%	50	26%	1	0%	benign(0.108)	tolerated(0.19)	neutral(0.058)	NULL
CSNK1E	1454	genome.wustl.edu	37	22	38695943	38695943	+	Nonsense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	ENST00000442216	-1	known	p.E30*	1.000	174	0%	310	27.4%	61	14.7%	probably_damaging(1)	deleterious(0)	deleterious(0.945)	NULL
DMC1	11144	genome.wustl.edu	37	22	38935407	38935407	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_007068.2	-1	reviewed	p.R169C	1.000	262	0%	76	11.8%	2	0%	probably_damaging(1)	deleterious(0)	deleterious(0.945)	HMMSmart_AAA,HMMPfam_Rad51,superfamily_SSF52540
ENSG00000184949	0	genome.wustl.edu	37	22	38987433	38987433	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	ENST00000355830	-1	known	p.L549I	0.000	605	0.2%	245	13.9%	0	-	benign(0.009)	tolerated(0.4)	neutral(0.017)	NULL
ENSG00000184949	0	genome.wustl.edu	37	22	39016291	39016291	+	Nonsense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	ENST00000355830	-1	known	p.E316*	0.000	205	0%	66	18.2%	0	-	-	-	-	NULL
JOSD1	9929	genome.wustl.edu	37	22	39085046	39085046	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_014876.5	-1	validated	p.L135F	1.000	135	0%	132	13.6%	5	20%	possibly_damaging(0.68)	tolerated(0.25)	neutral(0.279)	HMMPfam_Josephin
GTPBP1	9567	genome.wustl.edu	37	22	39124090	39124090	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_004286.4	+1	reviewed	p.T547I	1.000	82	0%	77	27.3%	17	17.6%	possibly_damaging(0.446)	deleterious(0.03)	deleterious(0.510)	HMMPfam_GTP_EFTU_D3,superfamily_Elong_init_C
SUN2	25777	genome.wustl.edu	37	22	39134752	39134752	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_015374.1	-1	validated	p.V596A	0.971	96	0%	105	31.4%	31	6.4%	probably_damaging(0.996)	deleterious(0)	deleterious(0.906)	HMMPfam_Sad1_UNC
APOBEC3A	200315	genome.wustl.edu	37	22	39357418	39357418	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_145699.3	+1	validated	p.Y67	0.000	180	0.6%	163	28.2%	0	-	-	-	-	HMMPfam_APOBEC_N
APOBEC3B	9582	genome.wustl.edu	37	22	39382328	39382328	+	Silent	SNP	T	T	C	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_004900.3	+1	reviewed	p.F160	0.089	349	0%	206	24.8%	1	0%	-	-	-	HMMPfam_APOBEC_C,superfamily_Cytidine deaminase-like
APOBEC3B	9582	genome.wustl.edu	37	22	39387529	39387529	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_004900.3	+1	reviewed	p.R306C	0.069	284	0%	193	19.2%	1	0%	benign(0.055)	tolerated(0.21)	neutral(0.048)	HMMPfam_APOBEC_N,superfamily_Cytidine deaminase-like
APOBEC3B	9582	genome.wustl.edu	37	22	39387628	39387628	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_004900.3	+1	reviewed	p.D339N	0.000	75	0%	77	13%	4	0%	possibly_damaging(0.553)	tolerated(0.19)	neutral(0.238)	HMMPfam_APOBEC_C,superfamily_Cytidine deaminase-like
APOBEC3C	27350	genome.wustl.edu	37	22	39414310	39414310	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_014508.2	+1	reviewed	p.D164G	0.000	437	0%	369	21.7%	7	0%	benign(0.001)	tolerated(0.61)	neutral(0.004)	HMMPfam_APOBEC_C,superfamily_Cytidine deaminase-like
APOBEC3F	200316	genome.wustl.edu	37	22	39441076	39441076	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_145298.5	+1	validated	p.A101V	0.000	204	0%	193	22.8%	2	0%	benign(0)	tolerated(0.29)	neutral(0.029)	HMMPfam_APOBEC_N,PatternScan_CYT_DCMP_DEAMINASES,superfamily_Cytidine deaminase-like
PDGFB	5155	genome.wustl.edu	37	22	39621783	39621783	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_002608.2	-1	reviewed	p.R224Q	0.986	197	0%	218	22.5%	10	10%	benign(0.006)	tolerated(0.07)	neutral(0.319)	NULL
RPL3	6122	genome.wustl.edu	37	22	39711492	39711492	+	Silent	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	ENST00000427905	-1	known	p.G222C	1.000	67	0%	95	22.1%	3006	22.2%	-	-	-	HMMPfam_Ribosomal_L3,superfamily_Translation proteins
MGAT3	4248	genome.wustl.edu	37	22	39884797	39884797	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001098270.1	+1	reviewed	p.Y482C	1.000	56	0%	70	20%	0	-	probably_damaging(0.999)	deleterious(0.01)	deleterious(0.896)	HMMPfam_Glyco_transf_17
SMCR7L	54471	genome.wustl.edu	37	22	39910229	39910229	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_019008.4	+1	validated	p.K431N	1.000	112	0%	174	16.1%	4	25%	probably_damaging(0.998)	deleterious(0.01)	deleterious(0.880)	NULL
CACNA1I	8911	genome.wustl.edu	37	22	40042677	40042677	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_021096.3	+1	reviewed	p.R418H	1.000	8	0.000	22	0.273	0	-	possibly_damaging(0.86)	deleterious(0)	deleterious(0.777)	NULL
GRAP2	9402	genome.wustl.edu	37	22	40364129	40364129	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_004810.2	+1	reviewed	p.S181	0.000	38	0%	29	27.6%	0	-	-	-	-	NULL
FAM83F	113828	genome.wustl.edu	37	22	40417392	40417392	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_138435.2	+1	validated	p.A293V	1.000	54	0%	81	23.5%	0	-	probably_damaging(1)	deleterious(0.02)	deleterious(0.883)	HMMPfam_DUF1669,superfamily_Phospholipase D/nuclease
TNRC6B	23112	genome.wustl.edu	37	22	40661670	40661670	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_015088.2	+1	validated	p.S479F	1.000	134	0%	142	10.6%	0	-	possibly_damaging(0.836)	deleterious(0.04)	deleterious(0.668)	NULL
TNRC6B	23112	genome.wustl.edu	37	22	40662995	40662995	+	Nonsense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_015088.2	+1	validated	p.R921*	1.000	35	0%	33	27.3%	0	-	-	-	-	HMMPfam_Ago_hook
TNRC6B	23112	genome.wustl.edu	37	22	40673121	40673121	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_015088.2	+1	validated	p.P1008H	1.000	462	0.2%	125	20.8%	0	-	probably_damaging(0.999)	tolerated(0.09)	deleterious(0.787)	NULL
SGSM3	27352	genome.wustl.edu	37	22	40804666	40804666	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_015705.4	+1	validated	p.S606	0.028	46	0%	83	15.7%	58	1.7%	-	-	-	HMMPfam_RUN
MKL1	57591	genome.wustl.edu	37	22	40816571	40816571	+	Silent	SNP	G	G	A	rs180736162	by1000genomes	TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_020831.3	-1	validated	p.G297	0.000	14	0%	45	31.1%	8	12.5%	-	-	-	NULL
MKL1	57591	genome.wustl.edu	37	22	40816856	40816856	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_020831.3	-1	validated	p.P292	0.021	174	0%	233	24%	7	14.2%	-	-	-	NULL
MKL1	57591	genome.wustl.edu	37	22	40825667	40825667	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_020831.3	-1	validated	p.E82K	1.000	221	0%	143	23.1%	6	0%	benign(0.094)	deleterious(0)	neutral(0.452)	HMMSmart_RPEL
DNAJB7	150353	genome.wustl.edu	37	22	41257356	41257356	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_145174.1	-1	provisional	p.D215N	0.106	212	0%	266	15.8%	0	-	possibly_damaging(0.758)	deleterious(0)	deleterious(0.725)	NULL
XPNPEP3	63929	genome.wustl.edu	37	22	41282487	41282487	+	Nonsense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_022098.2	+1	validated	p.R254*	1.000	130	0%	49	18.4%	1	0%	-	-	-	HMMPfam_Peptidase_M24,superfamily_Creatinase/aminopeptidase
EP300	2033	genome.wustl.edu	37	22	41527545	41527545	+	Missense_Mutation	SNP	A	A	C	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001429.3	+1	reviewed	p.Q479P	1.000	176	0%	62	25.8%	3	33.3%	possibly_damaging(0.559)	tolerated(0.24)	neutral(0.228)	NULL
EP300	2033	genome.wustl.edu	37	22	41553266	41553266	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001429.3	+1	reviewed	p.D1119N	1.000	312	0%	101	31.7%	1	0%	unknown(0)	deleterious(0)	-	HMMPfam_Bromodomain,HMMSmart_BROMO,superfamily_Bromodomain,PatternScan_BROMODOMAIN_1
L3MBTL2	83746	genome.wustl.edu	37	22	41620974	41620974	+	Nonsense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_031488.4	+1	validated	p.R419*	0.996	337	0.3%	390	23.1%	4	0%	-	-	-	HMMSmart_SM00561,superfamily_Tudor/PWWP/MBT
L3MBTL2	83746	genome.wustl.edu	37	22	41625640	41625640	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_031488.4	+1	validated	p.S662L	0.265	138	0%	162	17.3%	18	33.3%	benign(0.011)	deleterious(0.01)	neutral(0.406)	NULL
ZC3H7B	23264	genome.wustl.edu	37	22	41734371	41734371	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	ENST00000351589	+1	known	p.D213N	0.000	67	0%	91	23.1%	0	-	-	-	-	NULL
TEF	7008	genome.wustl.edu	37	22	41790098	41790098	+	Splice_Site	SNP	A	A	C	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_003216.2	+1	reviewed	e3-2	1.000	101	0%	102	11.8%	0	-	-	-	-	-
TOB2	10766	genome.wustl.edu	37	22	41832815	41832815	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_016272.3	-1	validated	p.A179T	1.000	114	0%	146	17.8%	2	0%	probably_damaging(0.963)	deleterious(0)	deleterious(0.850)	NULL
MEI1	150365	genome.wustl.edu	37	22	42099342	42099342	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_152513.3	+1	validated	p.R61H	1.000	183	0%	250	24.8%	0	-	probably_damaging(1)	deleterious(0.01)	deleterious(0.905)	NULL
MEI1	150365	genome.wustl.edu	37	22	42128566	42128566	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_152513.3	+1	validated	p.E430D	1.000	95	0%	64	34.4%	0	-	benign(0.052)	tolerated(0.56)	neutral(0.009)	superfamily_ARM repeat
MEI1	150365	genome.wustl.edu	37	22	42150012	42150012	+	Missense_Mutation	SNP	T	T	G	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_152513.3	+1	validated	p.L638R	0.579	432	0%	189	24.9%	0	-	possibly_damaging(0.837)	deleterious(0)	deleterious(0.764)	superfamily_ARM repeat
MEI1	150365	genome.wustl.edu	37	22	42189901	42189901	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_152513.3	+1	validated	p.R1138	1.000	179	0%	199	28.1%	3	0%	-	-	-	NULL
SREBF2	6721	genome.wustl.edu	37	22	42262934	42262934	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_004599.2	+1	reviewed	p.S63I	0.006	74	0%	40	17.5%	3	0%	benign(0.189)	tolerated(0.14)	neutral(0.267)	NULL
SREBF2	6721	genome.wustl.edu	37	22	42269951	42269951	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_004599.2	+1	reviewed	p.E339D	1.000	166	0%	87	28.7%	3	0%	probably_damaging(0.997)	deleterious(0)	deleterious(0.911)	HMMPfam_HLH,HMMSmart_HLH,superfamily_HLH_basic
SREBF2	6721	genome.wustl.edu	37	22	42271413	42271413	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_004599.2	+1	reviewed	p.R388C	1.000	169	0%	99	22.2%	2	50%	probably_damaging(1)	deleterious(0)	deleterious(0.945)	superfamily_HLH_basic
SREBF2	6721	genome.wustl.edu	37	22	42293062	42293062	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_004599.2	+1	reviewed	p.F834L	0.997	211	0%	207	21.3%	9	11.1%	probably_damaging(0.974)	tolerated(0.08)	deleterious(0.716)	NULL
SEPT3	55964	genome.wustl.edu	37	22	42383223	42383223	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_145733.2	+1	reviewed	p.G115	0.015	148	0%	135	26.7%	0	-	-	-	-	HMMPfam_Septin,superfamily_P-loop containing nucleoside triphosphate hydrolases
CYP2D6	1565	genome.wustl.edu	37	22	42523524	42523524	+	Silent	SNP	A	A	G	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_000106.4	-1	reviewed	p.F366	0.689	128	0%	186	22.6%	9	11.1%	-	-	-	HMMPfam_p450,superfamily_Cytochrome_P450
LOC100289204	100289204	genome.wustl.edu	37	22	42538568	42538568	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	XM_002343781.1	+1	model	p.A248V	0.836	49	0%	73	23.3%	1	0%	benign(0.016)	tolerated(0.05)	neutral(0.346)	NULL
CYP2D7P1	1564	genome.wustl.edu	37	22	42540290	42540290	+	RNA	SNP	C	C	T	rs190779911	by1000genomes	TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NR_002570.2	-1	validated	NULL	0.000	42	0%	99	26.3%	0	-	unknown(0)	deleterious(0.01)	-	-
TCF20	6942	genome.wustl.edu	37	22	42606943	42606943	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_005650.1	-1	reviewed	p.G1457R	0.611	89	0%	75	30.7%	5	60%	possibly_damaging(0.444)	deleterious(0.03)	deleterious(0.509)	NULL
TCF20	6942	genome.wustl.edu	37	22	42608109	42608109	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_005650.1	-1	reviewed	p.R1068Q	0.933	225	0%	110	32.7%	3	0%	probably_damaging(0.999)	deleterious(0)	deleterious(0.935)	NULL
TCF20	6942	genome.wustl.edu	37	22	42609156	42609156	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_005650.1	-1	reviewed	p.R719Q	0.992	136	0%	69	30.4%	1	0%	probably_damaging(0.999)	deleterious(0)	deleterious(0.935)	NULL
POLDIP3	84271	genome.wustl.edu	37	22	42981817	42981817	+	Nonsense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_032311.3	-1	reviewed	p.E416*	1.000	181	0%	246	12.2%	23	0%	-	-	-	NULL
CYB5R3	1727	genome.wustl.edu	37	22	43024245	43024245	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_000398.6	-1	reviewed	p.K126E	1.000	101	0%	157	16.6%	130	4.6%	probably_damaging(0.999)	tolerated(0.05)	deleterious(0.836)	HMMPfam_FAD_binding_6,superfamily_Riboflavin synthase domain-like
CYB5R3	1727	genome.wustl.edu	37	22	43026906	43026906	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	ENST00000414587	-1	known	p.S58L	0.708	125	0%	165	19.4%	112	11.6%	unknown(0)	-	-	NULL
A4GALT	53947	genome.wustl.edu	37	22	43089639	43089639	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_017436.4	-1	reviewed	p.E107K	0.213	37	0%	69	27.5%	28	25%	possibly_damaging(0.821)	tolerated(0.31)	neutral(0.338)	NULL
ARFGAP3	26286	genome.wustl.edu	37	22	43222969	43222969	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_014570.4	-1	reviewed	p.N201S	0.510	348	0%	81	29.6%	9	11.1%	benign(0.012)	tolerated(0.82)	neutral(0.001)	NULL
TTLL12	23170	genome.wustl.edu	37	22	43567845	43567845	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_015140.3	-1	validated	p.P519S	0.998	99	0%	169	26.6%	10	20%	benign(0.424)	tolerated(0.62)	neutral(0.142)	HMMPfam_TTL
TTLL12	23170	genome.wustl.edu	37	22	43570542	43570542	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_015140.3	-1	validated	p.D333N	1.000	77	0%	148	27%	9	0%	possibly_damaging(0.844)	deleterious(0)	deleterious(0.768)	NULL
SCUBE1	80274	genome.wustl.edu	37	22	43625130	43625130	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_173050.2	-1	validated	p.F344L	1.000	73	0%	112	10.7%	0	-	benign(0.053)	deleterious(0.02)	neutral(0.387)	PatternScan_ASX_HYDROXYL,HMMSmart_EGF_CA,HMMPfam_EGF_CA,PatternScan_EGF_CA,superfamily_SSF57196
SCUBE1	80274	genome.wustl.edu	37	22	43715962	43715962	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_173050.2	-1	validated	p.H110	0.907	160	0%	57	29.8%	0	-	-	-	-	HMMSmart_EGF_CA,PatternScan_EGF_2,superfamily_SSF57196
MPPED1	758	genome.wustl.edu	37	22	43894197	43894197	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001044370.1	+1	validated	p.V239I	0.980	31	0%	46	21.7%	0	-	benign(0.002)	tolerated(0.51)	neutral(0.009)	HMMPfam_Metallophos,superfamily_Metallo-dependent phosphatases
EFCAB6	64800	genome.wustl.edu	37	22	43933266	43933266	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_022785.2	-1	validated	p.D1347N	0.607	119	0%	85	22.4%	2	0%	benign(0.03)	tolerated(0.08)	neutral(0.301)	HMMSmart_SM00054,superfamily_EF-hand
EFCAB6	64800	genome.wustl.edu	37	22	43936088	43936088	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_022785.2	-1	validated	p.D1266	0.000	74	0%	40	15%	2	50%	-	-	-	HMMPfam_DUF1880,superfamily_EF-hand
SULT4A1	25830	genome.wustl.edu	37	22	44221906	44221906	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_014351.3	-1	reviewed	p.D277G	1.000	377	0%	390	12.6%	0	-	benign(0.087)	tolerated(0.52)	neutral(0.015)	HMMPfam_Sulfotransfer_1,superfamily_P-loop containing nucleoside triphosphate hydrolases
SULT4A1	25830	genome.wustl.edu	37	22	44225067	44225067	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_014351.3	-1	reviewed	p.T205	0.191	23	0%	31	19.4%	1	0%	-	-	-	HMMPfam_Sulfotransfer_1,superfamily_P-loop containing nucleoside triphosphate hydrolases
PARVB	29780	genome.wustl.edu	37	22	44559781	44559781	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001003828.1	+1	validated	p.G363D	0.635	83	0%	81	18.5%	42	2.3%	possibly_damaging(0.845)	tolerated(0.07)	deleterious(0.643)	HMMPfam_CH,HMMSmart_CH,superfamily_Calponin-homology
PARVG	64098	genome.wustl.edu	37	22	44589680	44589680	+	Splice_Site	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001137605.1	+1	validated	e7-1	0.101	330	0%	351	11.7%	0	-	-	-	-	-
PARVG	64098	genome.wustl.edu	37	22	44602300	44602300	+	Silent	SNP	G	G	A	rs191035480	by1000genomes	TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001137605.1	+1	validated	p.P330	0.002	77	0%	122	24.6%	42	0%	-	-	-	NULL
NUP50	10762	genome.wustl.edu	37	22	45577214	45577214	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_007172.3	+1	reviewed	p.E351K	1.000	226	0%	121	24.8%	10	40%	probably_damaging(0.992)	tolerated(0.08)	deleterious(0.748)	HMMPfam_Ran_BP1,HMMSmart_SM00160,superfamily_PH domain-like
KIAA0930	23313	genome.wustl.edu	37	22	45599755	45599755	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_015264.1	-1	validated	p.E215K	1.000	112	0%	224	17%	20	30%	probably_damaging(0.996)	deleterious(0.02)	deleterious(0.845)	HMMPfam_DUF2045
UPK3A	7380	genome.wustl.edu	37	22	45691468	45691468	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_006953.3	+1	reviewed	p.T244	0.000	135	0%	131	10.7%	1	100%	-	-	-	NULL
FAM118A	55007	genome.wustl.edu	37	22	45728409	45728409	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001104595.1	+1	validated	p.P252L	0.970	145	0%	134	26.9%	6	0%	benign(0.079)	tolerated(0.17)	neutral(0.065)	NULL
SMC1B	27127	genome.wustl.edu	37	22	45750856	45750856	+	Missense_Mutation	SNP	A	A	C	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_148674.3	-1	validated	p.F1034C	1.000	523	0%	168	23.8%	0	-	probably_damaging(0.993)	deleterious(0.04)	deleterious(0.799)	HMMPfam_SMC_N,superfamily_SSF52540
SMC1B	27127	genome.wustl.edu	37	22	45782904	45782904	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_148674.3	-1	validated	p.L585P	0.395	431	0%	131	26%	0	-	probably_damaging(1)	deleterious(0)	deleterious(0.945)	HMMPfam_SMC_N,HMMPfam_SMC_hinge,superfamily_SMC_hinge,superfamily_SSF52540
SMC1B	27127	genome.wustl.edu	37	22	45795231	45795231	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_148674.3	-1	validated	p.S286L	1.000	394	0.5%	226	9.7%	2	0%	benign(0.045)	deleterious(0.03)	neutral(0.367)	HMMPfam_SMC_N,superfamily_SSF52540
FBLN1	2192	genome.wustl.edu	37	22	45970448	45970448	+	Silent	SNP	T	T	C	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_006486.2	+1	reviewed	p.D585	0.864	70	0%	79	32.9%	238	6.3%	-	-	-	superfamily_EGF/Laminin
ATXN10	25814	genome.wustl.edu	37	22	46085692	46085692	+	Missense_Mutation	SNP	A	A	C	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_013236.3	+1	reviewed	p.N73H	0.000	242	0%	158	21.5%	19	10.5%	benign(0)	tolerated(0.23)	neutral(0.042)	superfamily_ARM-type_fold
WNT7B	7477	genome.wustl.edu	37	22	46345929	46345929	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_058238.2	-1	reviewed	p.D57N	1.000	37	0%	53	18.9%	0	-	probably_damaging(1)	deleterious(0.02)	deleterious(0.883)	HMMPfam_wnt,HMMSmart_SM00097
PPARA	5465	genome.wustl.edu	37	22	46627961	46627961	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001001928.2	+1	reviewed	p.D328	0.997	244	0.4%	157	25.5%	0	-	-	-	-	HMMPfam_Hormone_recep,HMMSmart_SM00430,superfamily_Nuclear receptor ligand-binding domain
C22orf40	150383	genome.wustl.edu	37	22	46643047	46643047	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_207327.4	-1	validated	p.S62L	0.976	94	0%	122	20.5%	1	0%	unknown(0)	deleterious(0.02)	-	HMMPfam_C6_DPF
PKDREJ	10343	genome.wustl.edu	37	22	46652993	46652993	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_006071.1	-1	reviewed	p.R2076H	0.986	113	0.9%	181	12.7%	0	-	probably_damaging(1)	tolerated(0.23)	deleterious(0.541)	HMMPfam_PKD_channel
PKDREJ	10343	genome.wustl.edu	37	22	46657830	46657830	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_006071.1	-1	reviewed	p.E464K	0.994	138	0%	255	13.3%	0	-	probably_damaging(0.998)	tolerated(0.05)	deleterious(0.820)	HMMPfam_REJ
PKDREJ	10343	genome.wustl.edu	37	22	46658044	46658044	+	Silent	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_006071.1	-1	reviewed	p.I392	0.000	162	0%	210	20.5%	0	-	-	-	-	HMMPfam_REJ
TTC38	55020	genome.wustl.edu	37	22	46671155	46671155	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_017931.2	+1	validated	p.K126E	0.821	345	0%	357	21%	7	14.2%	benign(0.163)	tolerated(0.75)	neutral(0.016)	superfamily_SSF48452
CELSR1	9620	genome.wustl.edu	37	22	46760077	46760077	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_014246.1	-1	reviewed	p.R2951W	1.000	34	0%	68	13.2%	4	100%	probably_damaging(1)	deleterious(0.01)	deleterious(0.905)	NULL
CELSR1	9620	genome.wustl.edu	37	22	46761254	46761254	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_014246.1	-1	reviewed	p.E2810K	1.000	82	0%	143	14.7%	2	50%	probably_damaging(0.992)	tolerated(0.08)	deleterious(0.748)	NULL
CELSR1	9620	genome.wustl.edu	37	22	46774613	46774613	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_014246.1	-1	reviewed	p.V2420I	0.000	22	0%	44	15.9%	0	-	benign(0.004)	tolerated(0.41)	neutral(0.015)	HMMPfam_GPS,HMMSmart_SM00303,superfamily_Concanavalin A-like lectins/glucanases
CELSR1	9620	genome.wustl.edu	37	22	46787574	46787574	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_014246.1	-1	reviewed	p.R2035H	1.000	14	0%	29	20.7%	2	100%	probably_damaging(0.999)	tolerated(0.12)	deleterious(0.751)	HMMPfam_Laminin_EGF,HMMSmart_SM00180,PatternScan_EGF_LAM_1,superfamily_Concanavalin A-like lectins/glucanases,superfamily_EGF/Laminin
CELSR1	9620	genome.wustl.edu	37	22	46795680	46795680	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_014246.1	-1	reviewed	p.K1782N	1.000	190	0%	237	21.1%	1	0%	benign(0.394)	tolerated(0.15)	neutral(0.367)	HMMSmart_SM00282,superfamily_Concanavalin A-like lectins/glucanases,HMMPfam_Laminin_G_2
CELSR1	9620	genome.wustl.edu	37	22	46860190	46860190	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	ENST00000454637	-1	known	p.R574Q	0.505	27	0%	66	22.7%	1	0%	-	-	-	HMMSmart_SM00112,superfamily_Cadherin-like
BRD1	23774	genome.wustl.edu	37	22	50181065	50181065	+	Nonsense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_014577.1	-1	reviewed	p.E813*	1.000	86	0%	170	10.6%	8	0%	-	-	-	NULL
BRD1	23774	genome.wustl.edu	37	22	50187724	50187724	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_014577.1	-1	reviewed	p.E773K	0.846	59	0%	103	26.2%	12	0%	possibly_damaging(0.875)	tolerated(0.13)	deleterious(0.593)	NULL
BRD1	23774	genome.wustl.edu	37	22	50217107	50217107	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_014577.1	-1	reviewed	p.D287N	1.000	26	0%	58	19%	4	0%	benign(0.043)	tolerated(0.33)	neutral(0.026)	NULL
ZBED4	9889	genome.wustl.edu	37	22	50278324	50278324	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_014838.2	+1	validated	p.I338	0.723	25	0%	40	25%	3	33.3%	-	-	-	HMMSmart_SM00614
ZBED4	9889	genome.wustl.edu	37	22	50279822	50279822	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_014838.2	+1	validated	p.E838K	1.000	19	0%	33	18.2%	1	0%	probably_damaging(0.999)	tolerated(0.05)	deleterious(0.836)	NULL
ZBED4	9889	genome.wustl.edu	37	22	50280258	50280258	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_014838.2	+1	validated	p.R983H	0.977	29	0%	37	29.7%	4	25%	possibly_damaging(0.782)	tolerated(0.05)	deleterious(0.638)	NULL
ZBED4	9889	genome.wustl.edu	37	22	50280278	50280278	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_014838.2	+1	validated	p.V990M	1.000	27	0%	29	34.5%	4	25%	possibly_damaging(0.948)	tolerated(0.12)	deleterious(0.651)	NULL
ALG12	79087	genome.wustl.edu	37	22	50307105	50307105	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_024105.3	-1	reviewed	p.A75T	0.934	78	0%	148	14.2%	5	0%	benign(0.187)	tolerated(0.18)	neutral(0.074)	HMMPfam_Glyco_transf_22
CRELD2	79174	genome.wustl.edu	37	22	50315341	50315341	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_024324.3	+1	validated	p.P175L	0.001	45	0%	80	11.3%	16	31.2%	benign(0.062)	tolerated(0.13)	neutral(0.257)	PatternScan_EGF_LAM_1,HMMSmart_SM00181,superfamily_Growth factor receptor domain,PatternScan_EGF_1,PatternScan_EGF_2
CRELD2	79174	genome.wustl.edu	37	22	50316268	50316268	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_024324.3	+1	validated	p.E201K	0.854	110	0%	164	26.8%	41	14.6%	benign(0.018)	tolerated(0.87)	neutral(0.001)	HMMSmart_SM00181,HMMSmart_SM00261,superfamily_Growth factor receptor domain
CRELD2	79174	genome.wustl.edu	37	22	50318069	50318069	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_024324.3	+1	validated	p.I278	0.000	123	0%	233	25.8%	78	26.9%	-	-	-	HMMSmart_SM00261,superfamily_Growth factor receptor domain
TTLL8	164714	genome.wustl.edu	37	22	50469135	50469135	+	Nonsense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001080447.1	-1	provisional	p.E643*	0.000	34	0%	62	29%	0	-	-	-	-	NULL
MLC1	23209	genome.wustl.edu	37	22	50518399	50518399	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_015166.3	-1	reviewed	p.T124M	0.977	343	0%	475	29.1%	0	-	probably_damaging(0.964)	deleterious(0)	deleterious(0.851)	NULL
MOV10L1	54456	genome.wustl.edu	37	22	50559018	50559018	+	Silent	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_018995.2	+1	reviewed	p.I514	0.226	189	1.6%	103	19.4%	1	0%	-	-	-	NULL
MOV10L1	54456	genome.wustl.edu	37	22	50582530	50582530	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_018995.2	+1	reviewed	p.H788R	0.074	334	0%	241	16.6%	6	0%	probably_damaging(0.955)	tolerated(0.34)	neutral(0.422)	superfamily_P-loop containing nucleoside triphosphate hydrolases
MOV10L1	54456	genome.wustl.edu	37	22	50589274	50589274	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_018995.2	+1	reviewed	p.A946	0.000	107	0.9%	123	25.2%	11	0%	-	-	-	superfamily_P-loop containing nucleoside triphosphate hydrolases
SELO	83642	genome.wustl.edu	37	22	50644943	50644943	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_031454.1	+1	reviewed	p.F251S	0.998	114	0%	182	28%	9	33.3%	probably_damaging(1)	deleterious(0)	deleterious(0.945)	HMMPfam_UPF0061
TUBGCP6	85378	genome.wustl.edu	37	22	50657309	50657309	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_020461.3	-1	reviewed	p.T1548	0.125	54	0%	130	20.8%	32	31.2%	-	-	-	HMMPfam_Spc97_Spc98
TUBGCP6	85378	genome.wustl.edu	37	22	50659103	50659103	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_020461.3	-1	reviewed	p.V1229I	0.208	42	0%	71	12.7%	9	0%	unknown(0)	deleterious(0.03)	-	HMMPfam_Spc97_Spc98
MAPK11	5600	genome.wustl.edu	37	22	50704973	50704973	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_002751.5	-1	reviewed	p.S226	0.005	30	0%	84	27.4%	4	0%	-	-	-	HMMSmart_SM00219,HMMSmart_SM00220,superfamily_Protein kinase-like (PK-like),HMMPfam_Pkinase
MAPK11	5600	genome.wustl.edu	37	22	50705844	50705844	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_002751.5	-1	reviewed	p.E125K	1.000	25	0%	65	16.9%	4	0%	benign(0.246)	deleterious(0.04)	neutral(0.374)	HMMSmart_SM00219,HMMSmart_SM00220,PatternScan_MAPK,superfamily_Protein kinase-like (PK-like),HMMPfam_Pkinase
PLXNB2	23654	genome.wustl.edu	37	22	50718188	50718188	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_012401.2	-1	validated	p.P1420	0.896	157	1.3%	326	30.4%	81	39.5%	-	-	-	superfamily_Rho_GAP,HMMPfam_Plexin_cytopl
PLXNB2	23654	genome.wustl.edu	37	22	50723070	50723070	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_012401.2	-1	validated	p.D705Y	0.978	28	0%	49	16.3%	28	10.7%	possibly_damaging(0.453)	deleterious(0)	deleterious(0.593)	NULL
FAM116B	414918	genome.wustl.edu	37	22	50752272	50752272	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001001794.3	-1	validated	p.D392N	1.000	67	0%	115	24.3%	9	0%	probably_damaging(1)	deleterious(0.01)	deleterious(0.905)	HMMPfam_DUF1630
FAM116B	414918	genome.wustl.edu	37	22	50754615	50754615	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	ENST00000433760	-1	known	p.A230V	0.397	51	0%	70	20%	2	0%	-	-	-	HMMPfam_DUF1630
PPP6R2	9701	genome.wustl.edu	37	22	50857878	50857878	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_014678.3	+1	validated	p.T278A	0.337	149	0%	181	20.4%	13	15.3%	benign(0.196)	tolerated(0.61)	neutral(0.022)	HMMPfam_SAPS
SBF1	6305	genome.wustl.edu	37	22	50902962	50902962	+	Splice_Site	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_002972.2	-1	validated	e14+1	1.000	40	0%	63	23.8%	0	-	-	-	-	-
SBF1	6305	genome.wustl.edu	37	22	50905111	50905111	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_002972.2	-1	validated	p.R193Q	1.000	18	0%	42	26.2%	0	-	possibly_damaging(0.727)	deleterious(0.04)	deleterious(0.613)	HMMPfam_DENN,HMMSmart_SM00799
MIOX	55586	genome.wustl.edu	37	22	50927572	50927572	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_017584.5	+1	validated	p.R171Q	0.000	49	0%	109	18.3%	0	-	benign(0.116)	tolerated(0.58)	neutral(0.014)	HMMPfam_DUF706
NCAPH2	29781	genome.wustl.edu	37	22	50957142	50957142	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_152299.3	+1	reviewed	p.L237	0.000	18	0%	40	20%	26	30.7%	-	-	-	HMMPfam_DUF1032
TYMP	1890	genome.wustl.edu	37	22	50967981	50967981	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001113755.1	-1	reviewed	p.D53G	0.997	18	0%	50	26%	37	0%	benign(0.042)	deleterious(0)	neutral(0.447)	HMMPfam_Glycos_trans_3N,superfamily_Glyco_trans_3
CPT1B	1375	genome.wustl.edu	37	22	51015400	51015400	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001145135.1	-1	reviewed	p.G115	0.651	130	0%	220	14.5%	1	0%	-	-	-	NULL
SHANK3	85358	genome.wustl.edu	37	22	51115064	51115064	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001080420.1	+1	reviewed	p.R94	0.941	292	0%	429	23.3%	2	0%	-	-	-	superfamily_Ankyrin repeat
SHANK3	85358	genome.wustl.edu	37	22	51117567	51117567	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001080420.1	+1	reviewed	p.A241T	1.000	24	0%	45	17.8%	0	-	possibly_damaging(0.792)	deleterious(0)	deleterious(0.742)	HMMPfam_Ank,HMMSmart_SM00248,superfamily_Ankyrin repeat
ACR	49	genome.wustl.edu	37	22	51178250	51178250	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001097.2	+1	reviewed	p.A137V	0.000	102	0%	122	18%	2	0%	benign(0)	tolerated(0.61)	neutral(0.004)	HMMPfam_Trypsin,HMMSmart_Tryp_SPc,superfamily_Pept_Ser_Cys
RABL2B	11158	genome.wustl.edu	37	22	51207533	51207533	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001130923.1	-1	reviewed	p.R185Q	0.993	761	0%	413	12.6%	7	28.5%	benign(0.04)	tolerated(0.3)	neutral(0.031)	HMMSmart_SM00176,HMMSmart_SM00174,superfamily_P-loop containing nucleoside triphosphate hydrolases
KIR2DL5B	553128	genome.wustl.edu	37	GL000209.1	66879	66879	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	ENST00000400851	+1	known	p.A283	NULL	381	0%	165	24.8%	0	-	-	-	-	NULL
KIR2DL5B	553128	genome.wustl.edu	37	GL000209.1	88507	88507	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	ENST00000400846	+1	known	p.H89	NULL	188	0%	116	27.6%	0	-	-	-	-	HMMSmart_IG,HMMPfam_ig,superfamily_SSF48726
ENSG00000210082	0	genome.wustl.edu	37	MT	2573	2573	+	RNA	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	ENST00000387347	+1	known	NULL	NULL	106	0%	77	16.9%	8055	20%	-	-	-	-
GTPBP6	8225	genome.wustl.edu	37	X	230882	230882	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	ENST00000429643	-1	known	p.S25L	0.926	154	0%	243	14.4%	1	0%	probably_damaging(1)	deleterious(0)	deleterious(0.945)	NULL
PPP2R3B	28227	genome.wustl.edu	37	X	308342	308342	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_013239.4	-1	reviewed	p.F199	0.996	101	0%	202	27.2%	14	7.1%	-	-	-	superfamily_EF-hand
CSF2RA	1438	genome.wustl.edu	37	X	1407771	1407771	+	Nonsense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_006140.4	+1	reviewed	p.R155*	0.000	274	0%	193	24.4%	5	0%	-	-	-	HMMPfam_Haemat_rec_S_F2,PatternScan_HEMATOPO_REC_S_F2,superfamily_Fibronectin type III
ASMTL	8623	genome.wustl.edu	37	X	1540688	1540688	+	Missense_Mutation	SNP	C	C	T	rs192342338	by1000genomes	TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_004192.3	-1	reviewed	p.E370K	0.786	405	0%	547	29.1%	44	20.4%	benign(0.022)	tolerated(0.11)	neutral(0.273)	HMMPfam_Methyltransf_2,superfamily_S-adenosyl-L-methionine-dependent methyltransferases
P2RY8	286530	genome.wustl.edu	37	X	1584888	1584888	+	Silent	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_178129.4	-1	reviewed	p.A188	0.003	48	0%	70	30%	0	-	-	-	-	HMMPfam_7tm_1,superfamily_SSF81321
ZBED1	9189	genome.wustl.edu	37	X	2408331	2408331	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_004729.3	-1	reviewed	p.V144M	0.999	68	0%	106	28.3%	5	0%	possibly_damaging(0.898)	deleterious(0.01)	deleterious(0.760)	NULL
ARSD	414	genome.wustl.edu	37	X	2843682	2843682	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001669.2	-1	reviewed	p.G57S	0.973	312	0%	478	13%	16	0%	probably_damaging(0.976)	deleterious(0.01)	deleterious(0.824)	HMMPfam_Sulfatase,superfamily_Alkaline phosphatase-like
ARSE	415	genome.wustl.edu	37	X	2876443	2876443	+	Silent	SNP	G	G	A	rs193203644	by1000genomes	TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_000047.2	-1	reviewed	p.L19	0.000	110	0%	57	31.6%	0	-	-	-	-	NULL
ARSF	416	genome.wustl.edu	37	X	2999045	2999045	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_004042.3	+1	reviewed	p.G133R	0.212	194	0%	64	23.4%	0	-	probably_damaging(0.991)	deleterious(0)	deleterious(0.889)	HMMPfam_Sulfatase,PatternScan_SULFATASE_2,superfamily_Alkaline phosphatase-like
ARSF	416	genome.wustl.edu	37	X	3002627	3002627	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_004042.3	+1	reviewed	p.G250	0.403	236	0%	66	25.8%	0	-	-	-	-	HMMPfam_Sulfatase,superfamily_Alkaline phosphatase-like
MXRA5	25878	genome.wustl.edu	37	X	3229293	3229293	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_015419.3	-1	reviewed	p.R2317S	0.000	320	0%	356	9.8%	2	0%	possibly_damaging(0.521)	tolerated(0.26)	neutral(0.209)	HMMSmart_SM00408,HMMSmart_SM00409,HMMPfam_I-set,superfamily_Immunoglobulin
MXRA5	25878	genome.wustl.edu	37	X	3235549	3235549	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_015419.3	-1	reviewed	p.S2058L	1.000	52	0%	83	32.5%	1	0%	benign(0.307)	tolerated(0.05)	neutral(0.441)	HMMSmart_SM00409,HMMPfam_I-set,superfamily_Immunoglobulin
MXRA5	25878	genome.wustl.edu	37	X	3239624	3239624	+	Nonsense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_015419.3	-1	reviewed	p.E1368*	0.015	264	0%	300	15%	0	-	-	-	-	NULL
MXRA5	25878	genome.wustl.edu	37	X	3242386	3242386	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_015419.3	-1	reviewed	p.T447M	0.873	149	0%	138	23.2%	0	-	probably_damaging(0.993)	deleterious(0.01)	deleterious(0.856)	NULL
HDHD1	8226	genome.wustl.edu	37	X	6968366	6968366	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001135565.1	-1	reviewed	p.E243K	0.947	187	0%	56	10.7%	2	0%	probably_damaging(0.998)	deleterious(0.02)	deleterious(0.857)	superfamily_HAD-like
KAL1	3730	genome.wustl.edu	37	X	8521996	8521996	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_000216.2	-1	reviewed	p.E451K	0.955	364	0%	76	25%	0	-	possibly_damaging(0.91)	tolerated(0.89)	neutral(0.362)	HMMSmart_FN3
KAL1	3730	genome.wustl.edu	37	X	8538612	8538612	+	Silent	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_000216.2	-1	reviewed	p.V330	0.182	282	0%	71	12.7%	0	-	-	-	-	HMMPfam_fn3,HMMSmart_FN3,superfamily_FN_III-like
FAM9B	171483	genome.wustl.edu	37	X	9000441	9000441	+	Missense_Mutation	SNP	T	T	G	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_205849.2	-1	validated	p.E30D	0.254	908	0%	1154	12%	0	-	possibly_damaging(0.868)	tolerated(0.46)	neutral(0.349)	NULL
TBL1X	6907	genome.wustl.edu	37	X	9621667	9621667	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001139466.1	+1	reviewed	p.R14H	0.000	102	0%	36	33.3%	2	0%	possibly_damaging(0.865)	-	-	NULL
TBL1X	6907	genome.wustl.edu	37	X	9621685	9621685	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001139466.1	+1	reviewed	p.A20V	0.001	121	0%	41	26.8%	1	0%	benign(0.355)	-	-	NULL
GPR143	4935	genome.wustl.edu	37	X	9714186	9714186	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_000273.2	-1	reviewed	p.R206W	0.784	134	0.7%	44	22.7%	4	0%	probably_damaging(0.997)	deleterious(0.02)	deleterious(0.849)	HMMPfam_Ocular_alb
SHROOM2	357	genome.wustl.edu	37	X	9863586	9863586	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001649.2	+1	reviewed	p.S546	0.000	13	0%	21	19%	0	-	-	-	-	NULL
SHROOM2	357	genome.wustl.edu	37	X	9914962	9914962	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001649.2	+1	reviewed	p.P1612	0.001	62	0%	39	20.5%	0	-	-	-	-	NULL
WWC3	55841	genome.wustl.edu	37	X	10085311	10085311	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_015691.3	+1	validated	p.D404	0.021	35	0%	42	21.4%	0	-	-	-	-	NULL
ARHGAP6	395	genome.wustl.edu	37	X	11196301	11196301	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_013427.2	-1	reviewed	p.C516	0.965	187	0%	97	29.9%	3	0%	-	-	-	HMMPfam_RhoGAP,HMMSmart_SM00324,superfamily_GTPase activation domain GAP
ARHGAP6	395	genome.wustl.edu	37	X	11308557	11308557	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	ENST00000380732	-1	known	p.P210	0.000	347	0%	194	24.2%	0	-	-	-	-	NULL
AMELX	265	genome.wustl.edu	37	X	11316676	11316676	+	Silent	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_182680.1	+1	reviewed	p.S65	1.000	132	0%	249	26.5%	0	-	-	-	-	HMMPfam_Amelogenin,HMMSmart_SM00818
FRMPD4	9758	genome.wustl.edu	37	X	12722576	12722576	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_014728.3	+1	reviewed	p.N390S	1.000	222	0%	85	9.4%	0	-	possibly_damaging(0.559)	deleterious(0.04)	deleterious(0.539)	HMMPfam_FERM_M,superfamily_FERM_3-hlx,HMMSmart_B41
FRMPD4	9758	genome.wustl.edu	37	X	12736747	12736747	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_014728.3	+1	reviewed	p.L1268F	1.000	79	0%	58	19%	0	-	benign(0.397)	tolerated(0.18)	neutral(0.183)	NULL
PRPS2	5634	genome.wustl.edu	37	X	12817418	12817418	+	Missense_Mutation	SNP	T	T	G	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001039091.2	+1	reviewed	p.I72S	1.000	229	0%	193	22.3%	4	0%	probably_damaging(0.995)	deleterious(0)	deleterious(0.902)	superfamily_SSF53271
PRPS2	5634	genome.wustl.edu	37	X	12828146	12828146	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001039091.2	+1	reviewed	p.F140L	1.000	259	0%	118	19.5%	16	0%	probably_damaging(1)	deleterious(0)	deleterious(0.945)	PatternScan_PRPP_SYNTHETASE,superfamily_SSF53271
PRPS2	5634	genome.wustl.edu	37	X	12828247	12828247	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001039091.2	+1	reviewed	p.D174G	1.000	187	0%	65	16.9%	9	0%	probably_damaging(1)	deleterious(0)	deleterious(0.945)	HMMPfam_Pribosyltran,superfamily_SSF53271
PRPS2	5634	genome.wustl.edu	37	X	12838853	12838853	+	Silent	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001039091.2	+1	reviewed	p.A268	0.927	227	0%	120	24.2%	23	0%	-	-	-	superfamily_SSF53271
TLR7	51284	genome.wustl.edu	37	X	12904312	12904312	+	Nonsense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_016562.3	+1	reviewed	p.E229*	0.999	225	0%	80	26.3%	0	-	-	-	-	HMMPfam_LRR_1,HMMSmart_SM00369,HMMSmart_SM00365,superfamily_L domain-like
TLR7	51284	genome.wustl.edu	37	X	12906105	12906105	+	Silent	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_016562.3	+1	reviewed	p.I826	0.068	312	0.3%	83	10.8%	0	-	-	-	-	HMMPfam_LRRCT,HMMSmart_SM00082,superfamily_L domain-like
TLR8	51311	genome.wustl.edu	37	X	12937514	12937514	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_138636.4	+1	reviewed	p.G119R	0.114	204	0%	67	25.4%	0	-	probably_damaging(1)	tolerated(0.25)	deleterious(0.537)	NULL
TLR8	51311	genome.wustl.edu	37	X	12937763	12937763	+	Missense_Mutation	SNP	A	A	C	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_138636.4	+1	reviewed	p.N202H	0.000	105	0%	30	16.7%	0	-	benign(0.07)	deleterious(0.05)	neutral(0.350)	HMMPfam_LRR_1,HMMSmart_LRR_TYP,superfamily_SSF52047
TLR8	51311	genome.wustl.edu	37	X	12939863	12939863	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_138636.4	+1	reviewed	p.R902C	1.000	199	0%	47	27.7%	0	-	possibly_damaging(0.765)	tolerated(0.09)	deleterious(0.581)	HMMPfam_TIR,superfamily_TIR
EGFL6	25975	genome.wustl.edu	37	X	13636120	13636120	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_015507.3	+1	reviewed	p.E350	0.074	194	0%	212	21.7%	2	0%	-	-	-	NULL
TCEANC	170082	genome.wustl.edu	37	X	13680884	13680884	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_152634.2	+1	validated	p.A116V	0.001	206	0%	89	19.1%	0	-	benign(0.059)	tolerated(0.51)	neutral(0.013)	HMMPfam_TFIIS
OFD1	8481	genome.wustl.edu	37	X	13764554	13764554	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_003611.2	+1	reviewed	p.R212W	0.946	210	0%	102	20.6%	3	33.3%	probably_damaging(0.996)	deleterious(0.01)	deleterious(0.867)	NULL
OFD1	8481	genome.wustl.edu	37	X	13771530	13771530	+	Nonsense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_003611.2	+1	reviewed	p.R367*	0.011	444	0%	139	23%	4	25%	-	-	-	NULL
OFD1	8481	genome.wustl.edu	37	X	13778758	13778758	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_003611.2	+1	reviewed	p.G727R	0.000	48	0%	30	23.3%	28	14.2%	benign(0.001)	tolerated(0.32)	neutral(0.024)	NULL
OFD1	8481	genome.wustl.edu	37	X	13781899	13781899	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_003611.2	+1	reviewed	p.G842R	0.000	190	0%	72	15.3%	32	12.5%	probably_damaging(0.996)	deleterious(0)	deleterious(0.906)	PatternScan_ALDEHYDE_DEHYDR_GLU
FANCB	2187	genome.wustl.edu	37	X	14862071	14862071	+	Missense_Mutation	SNP	T	T	G	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001018113.1	-1	reviewed	p.N733T	0.923	147	0%	52	34.6%	0	-	possibly_damaging(0.564)	tolerated(0.46)	neutral(0.205)	NULL
FANCB	2187	genome.wustl.edu	37	X	14862678	14862678	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001018113.1	-1	reviewed	p.L704	1.000	113	0%	34	20.6%	0	-	-	-	-	NULL
PIGA	5277	genome.wustl.edu	37	X	15344163	15344163	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_002641.2	-1	reviewed	p.D241N	1.000	211	0%	144	17.4%	1	0%	probably_damaging(1)	deleterious(0)	deleterious(0.945)	HMMPfam_Glycos_transf_1,superfamily_UDP-Glycosyltransferase/glycogen phosphorylase
ACE2	59272	genome.wustl.edu	37	X	15618920	15618920	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_021804.2	-1	reviewed	p.L39M	0.003	402	0%	171	24%	0	-	possibly_damaging(0.931)	tolerated(0.08)	deleterious(0.677)	"HMMPfam_Peptidase_M2,superfamily_Metalloproteases (""zincins"") catalytic domain"
CTPS2	56474	genome.wustl.edu	37	X	16635272	16635272	+	Splice_Site	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001144002.1	-1	reviewed	e15+1	1.000	539	0%	162	22.8%	0	-	-	-	-	-
CTPS2	56474	genome.wustl.edu	37	X	16707601	16707601	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001144002.1	-1	reviewed	p.L282I	1.000	378	0%	157	19.7%	2	0%	benign(0)	deleterious(0.04)	neutral(0.349)	HMMPfam_CTP_synth_N
SYAP1	94056	genome.wustl.edu	37	X	16761953	16761953	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_032796.3	+1	validated	p.V189I	1.000	238	0%	69	20.3%	68	22%	probably_damaging(1)	deleterious(0)	deleterious(0.945)	HMMPfam_BSD,HMMSmart_SM00751
TXLNG	55787	genome.wustl.edu	37	X	16836764	16836764	+	Missense_Mutation	SNP	A	A	C	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_018360.2	+1	reviewed	p.N57T	0.001	496	0%	172	27.3%	0	-	benign(0.132)	deleterious(0.01)	neutral(0.417)	NULL
TXLNG	55787	genome.wustl.edu	37	X	16836784	16836784	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_018360.2	+1	reviewed	p.L64I	0.996	482	0.2%	173	11%	0	-	possibly_damaging(0.766)	tolerated(0.32)	neutral(0.308)	NULL
TXLNG	55787	genome.wustl.edu	37	X	16836904	16836904	+	Nonsense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_018360.2	+1	reviewed	p.E104*	0.494	319	0%	140	13.6%	0	-	-	-	-	NULL
TXLNG	55787	genome.wustl.edu	37	X	16859599	16859599	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_018360.2	+1	reviewed	p.R433W	1.000	170	0%	52	26.9%	2	0%	probably_damaging(1)	deleterious(0)	deleterious(0.945)	HMMPfam_Taxilin
RBBP7	5931	genome.wustl.edu	37	X	16887277	16887277	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_002893.3	-1	reviewed	p.P28L	1.000	274	0%	395	21.3%	16	0%	probably_damaging(0.999)	deleterious(0)	deleterious(0.935)	NULL
REPS2	9185	genome.wustl.edu	37	X	17047723	17047723	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_004726.2	+1	reviewed	p.R250W	0.038	145	0%	36	30.6%	0	-	probably_damaging(0.996)	tolerated(0.08)	deleterious(0.762)	NULL
NHS	4810	genome.wustl.edu	37	X	17710472	17710472	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_198270.2	+1	reviewed	p.D246N	0.986	94	0%	75	29.3%	0	-	probably_damaging(0.957)	tolerated(0.44)	neutral(0.413)	NULL
NHS	4810	genome.wustl.edu	37	X	17750208	17750208	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_198270.2	+1	reviewed	p.R1506H	1.000	175	0%	179	19%	0	-	probably_damaging(0.984)	deleterious(0)	deleterious(0.875)	NULL
SCML1	6322	genome.wustl.edu	37	X	17768266	17768266	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001037540.1	+1	validated	p.D186N	0.000	183	0%	54	14.8%	0	-	probably_damaging(0.995)	tolerated(0.1)	deleterious(0.744)	NULL
BEND2	139105	genome.wustl.edu	37	X	18195760	18195760	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_153346.4	-1	validated	p.I520T	0.000	479	0%	97	16.5%	0	-	possibly_damaging(0.767)	deleterious(0.02)	deleterious(0.667)	HMMPfam_BEN
SCML2	10389	genome.wustl.edu	37	X	18338455	18338455	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_006089.2	-1	validated	p.K161N	0.999	515	0%	151	17.9%	0	-	probably_damaging(0.999)	deleterious(0.03)	deleterious(0.855)	HMMSmart_SM00561,superfamily_Tudor/PWWP/MBT
CDKL5	6792	genome.wustl.edu	37	X	18593495	18593495	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001037343.1	+1	reviewed	p.T56M	1.000	346	0.6%	61	27.9%	1	0%	probably_damaging(1)	deleterious(0.01)	deleterious(0.905)	HMMSmart_S_TKc,superfamily_Kinase_like,HMMPfam_Pkinase
CDKL5	6792	genome.wustl.edu	37	X	18600052	18600052	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001037343.1	+1	reviewed	p.L149I	1.000	357	0%	66	13.6%	0	-	probably_damaging(0.995)	tolerated(0.1)	deleterious(0.744)	HMMSmart_S_TKc,superfamily_Kinase_like,HMMPfam_Pkinase
CDKL5	6792	genome.wustl.edu	37	X	18646589	18646589	+	Silent	SNP	A	A	G	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001037343.1	+1	reviewed	p.Q865	1.000	416	0%	216	24.1%	0	-	-	-	-	NULL
PHKA2	5256	genome.wustl.edu	37	X	18912321	18912321	+	Splice_Site	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_000292.2	-1	reviewed	e32+1	1.000	36	0%	50	12%	2	0%	-	-	-	-
PHKA2	5256	genome.wustl.edu	37	X	18912487	18912487	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_000292.2	-1	reviewed	p.V1124	1.000	52	0%	61	9.8%	14	0%	-	-	-	HMMPfam_PHK_AB
ENSG00000250774	0	genome.wustl.edu	37	X	18917205	18917205	+	RNA	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	ENST00000502927	+1	known	NULL	0.001	225	0%	172	28.5%	1	100%	-	-	-	-
PHKA2	5256	genome.wustl.edu	37	X	18923936	18923936	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_000292.2	-1	reviewed	p.D950N	1.000	385	0.3%	227	12.3%	10	0%	benign(0.024)	tolerated(0.07)	neutral(0.320)	HMMPfam_PHK_AB
PHKA2	5256	genome.wustl.edu	37	X	18926925	18926925	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_000292.2	-1	reviewed	p.V785A	0.977	288	0%	189	22.2%	3	0%	benign(0.006)	tolerated(0.76)	neutral(0.001)	HMMPfam_PHK_AB
PHKA2	5256	genome.wustl.edu	37	X	18956757	18956757	+	Silent	SNP	A	A	G	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_000292.2	-1	reviewed	p.G343	0.007	331	0%	140	10%	0	-	-	-	-	HMMPfam_PHK_AB,superfamily_Six-hairpin glycosidases
GPR64	10149	genome.wustl.edu	37	X	19014254	19014254	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001079858.2	-1	validated	p.I877	1.000	337	0%	177	19.2%	0	-	-	-	-	HMMPfam_7tm_2,PatternScan_G_PROTEIN_RECEP_F2_2,superfamily_Family A G protein-coupled receptor-like
PDHA1	5160	genome.wustl.edu	37	X	19373497	19373497	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_000284.3	+1	reviewed	p.A212S	1.000	383	0%	214	21.5%	49	53%	benign(0.004)	deleterious(0.04)	neutral(0.349)	HMMPfam_E1_dh,superfamily_Thiamin diphosphate-binding fold (THDP-binding)
MAP3K15	389840	genome.wustl.edu	37	X	19379623	19379623	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001001671.3	-1	validated	p.K731N	0.012	192	0%	87	11.5%	34	0%	benign(0.001)	tolerated(0.5)	neutral(0.010)	superfamily_SAM_homology
MAP3K15	389840	genome.wustl.edu	37	X	19391814	19391814	+	Splice_Site	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001001671.3	-1	validated	e12-1	0.959	30	0%	32	40.6%	0	-	-	-	-	-
MAP3K15	389840	genome.wustl.edu	37	X	19410542	19410542	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001001671.3	-1	validated	p.P223	0.583	475	0%	131	11.5%	0	-	-	-	-	HMMSmart_S_TKc,superfamily_Kinase_like,HMMPfam_Pkinase
MAP3K15	389840	genome.wustl.edu	37	X	19410574	19410574	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001001671.3	-1	validated	p.L213M	0.989	390	0%	118	30.5%	0	-	probably_damaging(0.998)	deleterious(0.01)	deleterious(0.880)	HMMSmart_S_TKc,superfamily_Kinase_like,HMMPfam_Pkinase
MAP3K15	389840	genome.wustl.edu	37	X	19433338	19433338	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	ENST00000338883	-1	known	p.R493W	1.000	250	0.8%	63	34.9%	0	-	probably_damaging(0.993)	deleterious(0.02)	deleterious(0.833)	NULL
SH3KBP1	30011	genome.wustl.edu	37	X	19564078	19564078	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_031892.2	-1	reviewed	p.A529T	0.001	406	0.5%	206	10.7%	11	0%	benign(0.002)	tolerated(0.29)	neutral(0.029)	NULL
SH3KBP1	30011	genome.wustl.edu	37	X	19610221	19610221	+	Silent	SNP	T	T	G	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_031892.2	-1	reviewed	p.R368	1.000	976	0%	409	11%	8	0%	-	-	-	NULL
SH3KBP1	30011	genome.wustl.edu	37	X	19713762	19713762	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_031892.2	-1	reviewed	p.G163D	0.758	223	0%	81	18.5%	1	0%	probably_damaging(0.991)	tolerated(0.54)	neutral(0.452)	superfamily_SH3-domain
CXorf23	256643	genome.wustl.edu	37	X	19954005	19954005	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_198279.3	-1	validated	p.T595	0.007	843	0%	382	24.9%	0	-	-	-	-	NULL
CXorf23	256643	genome.wustl.edu	37	X	19984509	19984509	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_198279.3	-1	validated	p.S100	0.273	307	0%	136	25.7%	2	100%	-	-	-	NULL
CXorf23	256643	genome.wustl.edu	37	X	19984666	19984666	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_198279.3	-1	validated	p.A48V	0.033	245	0%	102	18.6%	0	-	benign(0.004)	deleterious(0.01)	neutral(0.406)	NULL
MAP7D2	256714	genome.wustl.edu	37	X	20060677	20060677	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_152780.3	-1	validated	p.R276K	0.979	122	0%	39	23.1%	1	0%	unknown(0)	tolerated(0.39)	-	NULL
MAP7D2	256714	genome.wustl.edu	37	X	20081543	20081543	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_152780.3	-1	validated	p.R121W	0.997	175	0%	98	10.2%	0	-	unknown(0)	deleterious(0)	-	NULL
MAP7D2	256714	genome.wustl.edu	37	X	20082869	20082869	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_152780.3	-1	validated	p.R62Q	1.000	830	0.2%	472	23.5%	0	-	unknown(0)	deleterious(0)	-	NULL
RPS6KA3	6197	genome.wustl.edu	37	X	20173604	20173604	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_004586.2	-1	reviewed	p.R712H	1.000	603	0%	330	21.8%	9	11.1%	benign(0)	deleterious(0.05)	neutral(0.345)	NULL
RPS6KA3	6197	genome.wustl.edu	37	X	20213261	20213261	+	Nonsense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_004586.2	-1	reviewed	p.R110*	1.000	409	0%	73	13.7%	4	0%	-	-	-	HMMSmart_S_TKc,superfamily_Kinase_like,HMMPfam_Pkinase
CNKSR2	22866	genome.wustl.edu	37	X	21534678	21534678	+	Nonsense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_014927.3	+1	reviewed	p.R296*	1.000	303	0%	64	9.4%	0	-	-	-	-	HMMSmart_SM00228,superfamily_PDZ domain-like
CNKSR2	22866	genome.wustl.edu	37	X	21545020	21545020	+	Silent	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_014927.3	+1	reviewed	p.A331	0.964	306	0%	111	22.5%	0	-	-	-	-	NULL
CNKSR2	22866	genome.wustl.edu	37	X	21627198	21627198	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_014927.3	+1	reviewed	p.A719T	0.999	73	0%	20	20%	0	-	benign(0)	tolerated(0.17)	neutral(0.059)	NULL
KLHL34	257240	genome.wustl.edu	37	X	21675206	21675206	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_153270.1	-1	provisional	p.R234Q	0.112	12	0%	23	26.1%	0	-	possibly_damaging(0.847)	tolerated(0.46)	neutral(0.337)	HMMPfam_BACK
KLHL34	257240	genome.wustl.edu	37	X	21675213	21675213	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_153270.1	-1	provisional	p.V232I	0.244	13	0%	20	35%	0	-	benign(0.005)	tolerated(0.63)	neutral(0.004)	HMMPfam_BACK
MBTPS2	51360	genome.wustl.edu	37	X	21863412	21863412	+	Silent	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_015884.3	+1	reviewed	p.S116	0.535	427	0%	482	22.6%	0	-	-	-	-	NULL
MBTPS2	51360	genome.wustl.edu	37	X	21869646	21869646	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_015884.3	+1	reviewed	p.P153L	1.000	577	0%	590	25.6%	1	0%	probably_damaging(1)	deleterious(0.01)	deleterious(0.905)	NULL
YY2	404281	genome.wustl.edu	37	X	21874825	21874825	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_206923.3	+1	reviewed	p.D75N	0.626	77	0%	107	19.6%	0	-	possibly_damaging(0.852)	tolerated(0.2)	neutral(0.377)	NULL
DDX53	168400	genome.wustl.edu	37	X	23019680	23019680	+	Silent	SNP	A	A	G	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_182699.2	+1	validated	p.E502	0.836	240	0%	65	15.4%	0	-	-	-	-	HMMPfam_Helicase_C,HMMSmart_HELICc,superfamily_SSF52540
ENSG00000249566	0	genome.wustl.edu	37	X	23094229	23094229	+	RNA	SNP	A	A	G	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	ENST00000508288	-1	novel	NULL	0.006	460	0.2%	788	23.6%	26	0%	-	-	-	-
LOC100289205	100289205	genome.wustl.edu	37	X	23353187	23353187	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	XM_002343809.1	-1	model	p.D46N	1.000	54	0%	90	23.3%	0	-	-	-	-	NULL
PTCHD1	139411	genome.wustl.edu	37	X	23411153	23411153	+	Silent	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_173495.2	+1	validated	p.L506	1.000	179	0%	65	13.8%	0	-	-	-	-	HMMPfam_Patched
ACOT9	23597	genome.wustl.edu	37	X	23723961	23723961	+	Missense_Mutation	SNP	C	C	T	rs181259615	by1000genomes	TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001037171.1	-1	reviewed	p.R286Q	0.992	275	0%	144	23.6%	21	33.3%	benign(0.024)	tolerated(0.52)	neutral(0.010)	NULL
ACOT9	23597	genome.wustl.edu	37	X	23740815	23740815	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001037171.1	-1	reviewed	p.S152	0.068	402	0%	196	28.6%	27	11.1%	-	-	-	superfamily_Thioesterase/thiol ester dehydrase-isomerase
ACOT9	23597	genome.wustl.edu	37	X	23748997	23748997	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001037171.1	-1	reviewed	p.L100I	0.988	164	0%	114	24.6%	11	9%	benign(0)	tolerated(1)	-	superfamily_Thioesterase/thiol ester dehydrase-isomerase
SAT1	6303	genome.wustl.edu	37	X	23801842	23801842	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	ENST00000379251	+1	known	p.A45V	0.000	302	0%	446	30%	1	0%	unknown(0)	deleterious(0.01)	-	NULL
EIF2S3	1968	genome.wustl.edu	37	X	24080667	24080667	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001415.3	+1	reviewed	p.E205K	1.000	134	0.7%	105	21.9%	19	10.5%	benign(0)	tolerated(0.43)	neutral(0.013)	HMMPfam_GTP_EFTU,superfamily_P-loop containing nucleoside triphosphate hydrolases
ZFX	7543	genome.wustl.edu	37	X	24229004	24229004	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_003410.3	+1	reviewed	p.S643	0.985	216	0%	91	14.3%	2	0%	-	-	-	HMMPfam_zf-C2H2,HMMSmart_SM00355,superfamily_C2H2 and C2HC zinc fingers
FAM48B2	170067	genome.wustl.edu	37	X	24331035	24331035	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001136233.1	-1	provisional	p.S133L	0.000	596	0%	789	21.4%	0	-	-	-	-	NULL
FAM48B2	170067	genome.wustl.edu	37	X	24331123	24331123	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001136233.1	-1	provisional	p.R104W	0.068	539	0%	703	10.5%	0	-	-	-	-	NULL
FAM48B1	100130302	genome.wustl.edu	37	X	24381959	24381959	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001136234.1	+1	inferred	p.P361L	0.003	308	0%	375	22.7%	0	-	-	-	-	NULL
POLA1	5422	genome.wustl.edu	37	X	24732689	24732689	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_016937.3	+1	reviewed	p.R116H	0.000	307	0%	302	25.5%	0	-	benign(0.001)	tolerated(0.14)	neutral(0.249)	NULL
POLA1	5422	genome.wustl.edu	37	X	24735424	24735424	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_016937.3	+1	reviewed	p.E236K	0.000	323	0%	281	27%	0	-	benign(0.001)	tolerated(0.72)	neutral(0.002)	NULL
POLA1	5422	genome.wustl.edu	37	X	24735718	24735718	+	Silent	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_016937.3	+1	reviewed	p.V304	0.166	448	0.2%	320	24.7%	0	-	-	-	-	NULL
POLA1	5422	genome.wustl.edu	37	X	24751888	24751888	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_016937.3	+1	reviewed	p.K590N	1.000	199	0%	100	35%	0	-	benign(0)	tolerated(0.53)	neutral(0.007)	HMMPfam_DNA_pol_B_exo,HMMSmart_POLBc,superfamily_RNaseH_fold
POLA1	5422	genome.wustl.edu	37	X	24763628	24763628	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_016937.3	+1	reviewed	p.R881I	1.000	354	0%	183	30.6%	0	-	probably_damaging(0.953)	tolerated(0.05)	deleterious(0.742)	HMMPfam_DNA_pol_B,HMMSmart_POLBc,superfamily_SSF56672
MAGEB18	286514	genome.wustl.edu	37	X	26158106	26158106	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_173699.3	+1	validated	p.T335M	0.000	61	0%	15	26.7%	0	-	benign(0.007)	tolerated(0.11)	neutral(0.272)	NULL
MAGEB6	158809	genome.wustl.edu	37	X	26213128	26213128	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_173523.2	+1	reviewed	p.H389Y	0.000	257	0%	163	19%	0	-	benign(0.015)	tolerated(1)	neutral(0.001)	NULL
DCAF8L2	347442	genome.wustl.edu	37	X	27765668	27765668	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001136533.1	+1	provisional	p.R219H	0.006	113	0%	60	18.3%	0	-	-	-	-	HMMSmart_SM00320,superfamily_WD40 repeat-like,HMMPfam_WD40
MAGEB10	139422	genome.wustl.edu	37	X	27839727	27839727	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_182506.3	+1	reviewed	p.A102T	0.000	160	0%	91	17.6%	0	-	benign(0)	tolerated(0.39)	neutral(0.016)	NULL
MAGEB10	139422	genome.wustl.edu	37	X	27839811	27839811	+	Nonsense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_182506.3	+1	reviewed	p.E130*	0.009	126	0.8%	74	20.3%	0	-	-	-	-	HMMPfam_MAGE
DCAF8L1	139425	genome.wustl.edu	37	X	27997716	27997716	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001017930.1	-1	reviewed	p.E579G	0.676	166	0%	52	11.5%	0	-	possibly_damaging(0.838)	tolerated(0.12)	deleterious(0.581)	NULL
DCAF8L1	139425	genome.wustl.edu	37	X	27998823	27998823	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001017930.1	-1	reviewed	p.R210Q	0.998	68	0%	28	25%	0	-	possibly_damaging(0.759)	tolerated(0.18)	neutral(0.337)	HMMSmart_WD40,superfamily_WD40_like,HMMPfam_WD40
IL1RAPL1	11141	genome.wustl.edu	37	X	28807488	28807488	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_014271.3	+1	reviewed	p.L10I	1.000	332	0%	95	16.8%	0	-	benign(0.039)	tolerated(0.15)	neutral(0.243)	NULL
IL1RAPL1	11141	genome.wustl.edu	37	X	29301234	29301234	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_014271.3	+1	reviewed	p.P88T	1.000	389	0%	87	12.6%	0	-	probably_damaging(1)	deleterious(0.03)	deleterious(0.865)	HMMSmart_SM00409,HMMPfam_ig,superfamily_Immunoglobulin
IL1RAPL1	11141	genome.wustl.edu	37	X	29938181	29938181	+	Nonsense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_014271.3	+1	reviewed	p.R343*	0.135	387	0%	141	24.1%	0	-	-	-	-	HMMSmart_SM00409,superfamily_Immunoglobulin
MAGEB4	4115	genome.wustl.edu	37	X	30260279	30260279	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_002367.3	+1	reviewed	p.L9	0.000	161	0%	108	24.1%	0	-	-	-	-	NULL
MAGEB4	4115	genome.wustl.edu	37	X	30261224	30261224	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_002367.3	+1	reviewed	p.R324	0.000	78	0%	46	19.6%	0	-	-	-	-	NULL
MAGEB1	4112	genome.wustl.edu	37	X	30269434	30269434	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_002363.4	+1	reviewed	p.R275K	0.045	337	0%	247	29.6%	0	-	possibly_damaging(0.942)	tolerated(0.17)	neutral(0.446)	HMMPfam_MAGE
MAGEB1	4112	genome.wustl.edu	37	X	30269600	30269600	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_002363.4	+1	reviewed	p.T330	0.000	118	0%	106	24.5%	0	-	-	-	-	NULL
NR0B1	190	genome.wustl.edu	37	X	30327279	30327279	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_000475.4	-1	reviewed	p.F68L	1.000	9	0.000	20	0.300	0	-	probably_damaging(0.971)	deleterious(0.02)	deleterious(0.796)	NULL
CXorf21	80231	genome.wustl.edu	37	X	30577775	30577775	+	Missense_Mutation	SNP	T	T	G	rs111847753		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_025159.2	-1	validated	p.D233A	0.974	359	0%	101	22.8%	0	-	benign(0.425)	tolerated(0.69)	neutral(0.140)	NULL
CXorf21	80231	genome.wustl.edu	37	X	30577796	30577796	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_025159.2	-1	validated	p.I226T	1.000	377	0%	122	20.5%	0	-	possibly_damaging(0.602)	deleterious(0.02)	deleterious(0.592)	NULL
GK	2710	genome.wustl.edu	37	X	30683643	30683643	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001128127.1	+1	reviewed	p.T32A	1.000	256	0%	154	24%	1	0%	possibly_damaging(0.925)	tolerated(0.89)	neutral(0.373)	HMMPfam_FGGY_N,superfamily_SSF53067
TAB3	257397	genome.wustl.edu	37	X	30852204	30852204	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_152787.3	-1	reviewed	p.A652T	0.432	627	0%	172	11.6%	0	-	benign(0.003)	tolerated(0.56)	neutral(0.006)	NULL
FTHL17	53940	genome.wustl.edu	37	X	31089527	31089527	+	Nonsense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_031894.2	-1	reviewed	p.E182*	0.000	51	0%	93	33.3%	0	-	-	-	-	NULL
FTHL17	53940	genome.wustl.edu	37	X	31089941	31089941	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_031894.2	-1	reviewed	p.R44W	0.002	96	0%	192	17.7%	0	-	probably_damaging(1)	deleterious(0)	deleterious(0.945)	HMMPfam_Ferritin,superfamily_Ferritin/RR_like
DMD	1756	genome.wustl.edu	37	X	31341767	31341767	+	Nonsense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_004006.2	-1	reviewed	p.Q3058*	1.000	301	0%	127	11.8%	3	0%	-	-	-	HMMPfam_WW,HMMSmart_SM00456,superfamily_WW domain
DMD	1756	genome.wustl.edu	37	X	31838166	31838166	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_004006.2	-1	reviewed	p.A2412V	0.078	389	0%	194	10.3%	4	0%	possibly_damaging(0.895)	tolerated(0.33)	neutral(0.377)	superfamily_Spectrin repeat
DMD	1756	genome.wustl.edu	37	X	31950211	31950211	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_004006.2	-1	reviewed	p.L2250I	0.997	550	0.2%	163	20.2%	0	-	probably_damaging(0.998)	tolerated(0.28)	deleterious(0.506)	HMMPfam_Spectrin,HMMSmart_SM00150,superfamily_Spectrin repeat
DMD	1756	genome.wustl.edu	37	X	31950306	31950306	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_004006.2	-1	reviewed	p.R2218I	1.000	431	0%	148	22.3%	0	-	benign(0.066)	tolerated(0.05)	neutral(0.350)	HMMPfam_Spectrin,HMMSmart_SM00150,superfamily_Spectrin repeat
DMD	1756	genome.wustl.edu	37	X	32459325	32459325	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_004006.2	-1	reviewed	p.G1298E	0.994	329	0%	52	23.1%	0	-	probably_damaging(1)	tolerated(0.16)	deleterious(0.559)	HMMPfam_Spectrin,HMMSmart_SM00150,superfamily_Spectrin repeat
DMD	1756	genome.wustl.edu	37	X	32486705	32486705	+	Missense_Mutation	SNP	T	T	G	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_004006.2	-1	reviewed	p.E1024D	0.001	443	0%	63	27%	1	0%	benign(0.03)	tolerated(0.68)	neutral(0.004)	HMMPfam_Spectrin,HMMSmart_SM00150,superfamily_Spectrin repeat
DMD	1756	genome.wustl.edu	37	X	32632543	32632543	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_004006.2	-1	reviewed	p.Q453H	1.000	731	0%	147	20.4%	0	-	probably_damaging(0.998)	tolerated(0.08)	deleterious(0.774)	HMMPfam_Spectrin,HMMSmart_SM00150
FAM47A	158724	genome.wustl.edu	37	X	34148348	34148348	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_203408.3	-1	validated	p.S683L	0.000	302	0.3%	195	23.1%	0	-	possibly_damaging(0.918)	tolerated(0.72)	neutral(0.370)	NULL
FAM47A	158724	genome.wustl.edu	37	X	34148804	34148804	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_203408.3	-1	validated	p.G531D	0.000	104	0%	60	18.3%	0	-	benign(0.008)	tolerated(0.78)	neutral(0.001)	NULL
FAM47A	158724	genome.wustl.edu	37	X	34150121	34150121	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_203408.3	-1	validated	p.S92N	0.001	397	0%	244	13.1%	0	-	benign(0.11)	tolerated(0.25)	neutral(0.045)	NULL
LOC139431	139431	genome.wustl.edu	37	X	34165644	34165644	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	XM_002343801.1	+1	model	p.R207Q	0.013	11	0%	28	28.6%	0	-	-	-	-	NULL
FAM47B	170062	genome.wustl.edu	37	X	34961040	34961040	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_152631.2	+1	validated	p.A31V	0.000	117	0%	69	30.4%	0	-	benign(0.429)	tolerated(0.06)	neutral(0.462)	NULL
FAM47B	170062	genome.wustl.edu	37	X	34961678	34961678	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_152631.2	+1	validated	p.A244T	0.001	80	0%	58	13.8%	0	-	benign(0.024)	tolerated(0.57)	neutral(0.007)	NULL
FAM47B	170062	genome.wustl.edu	37	X	34962338	34962338	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_152631.2	+1	validated	p.R464C	0.002	387	0%	217	28.1%	0	-	possibly_damaging(0.523)	tolerated(0.09)	deleterious(0.473)	NULL
FAM47B	170062	genome.wustl.edu	37	X	34962545	34962545	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_152631.2	+1	validated	p.R533W	0.003	167	0%	147	23.8%	0	-	probably_damaging(0.992)	deleterious(0.01)	deleterious(0.853)	NULL
MAGEB16	139604	genome.wustl.edu	37	X	35821009	35821009	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001099921.1	+1	provisional	p.T232	0.000	264	0%	106	18.9%	0	-	-	-	-	HMMPfam_MAGE
CXorf22	170063	genome.wustl.edu	37	X	35969453	35969453	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_152632.3	+1	validated	p.D288Y	0.386	143	0%	39	15.4%	0	-	possibly_damaging(0.848)	deleterious(0.05)	deleterious(0.671)	NULL
CXorf30	645090	genome.wustl.edu	37	X	36317151	36317151	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001098843.3	+1	validated	p.E28	0.001	324	0%	51	21.6%	0	-	-	-	-	NULL
FAM47C	442444	genome.wustl.edu	37	X	37026508	37026508	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001013736.2	+1	validated	p.R9W	0.006	54	0%	52	26.9%	0	-	benign(0.252)	deleterious(0)	deleterious(0.471)	NULL
FAM47C	442444	genome.wustl.edu	37	X	37027048	37027048	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001013736.2	+1	validated	p.R189W	0.000	95	0%	93	21.5%	0	-	probably_damaging(1)	deleterious(0.03)	deleterious(0.865)	NULL
FAM47C	442444	genome.wustl.edu	37	X	37028866	37028866	+	Nonsense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001013736.2	+1	validated	p.R795*	0.058	91	0%	86	30.2%	0	-	-	-	-	NULL
FAM47C	442444	genome.wustl.edu	37	X	37029252	37029252	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001013736.2	+1	validated	p.Q923	0.000	230	0%	175	19.4%	0	-	-	-	-	NULL
FAM47C	442444	genome.wustl.edu	37	X	37029400	37029400	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001013736.2	+1	validated	p.L973I	0.005	335	0%	267	20.2%	0	-	probably_damaging(0.998)	tolerated(0.19)	deleterious(0.524)	NULL
XK	7504	genome.wustl.edu	37	X	37553543	37553543	+	Missense_Mutation	SNP	T	T	G	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_021083.2	+1	reviewed	p.F84V	1.000	254	0%	224	24.6%	0	-	benign(0)	tolerated(0.47)	neutral(0.011)	HMMPfam_XK-related
CYBB	1536	genome.wustl.edu	37	X	37641428	37641428	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_000397.3	+1	reviewed	p.L45I	1.000	525	0%	134	17.2%	0	-	benign(0.009)	tolerated(1)	neutral(0.001)	NULL
CYBB	1536	genome.wustl.edu	37	X	37664264	37664264	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_000397.3	+1	reviewed	p.A386V	0.990	395	0.3%	78	20.5%	1	0%	benign(0.043)	tolerated(0.48)	neutral(0.013)	HMMPfam_FAD_binding_8,superfamily_Riboflavin synthase domain-like
SRPX	8406	genome.wustl.edu	37	X	38013777	38013777	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_006307.4	-1	validated	p.F383	0.975	152	0.7%	36	27.8%	20	0%	-	-	-	NULL
SRPX	8406	genome.wustl.edu	37	X	38031189	38031189	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_006307.4	-1	validated	p.R157	0.000	187	0%	40	35%	4	0%	-	-	-	HMMPfam_Sushi,HMMSmart_SM00032,superfamily_Complement control module/SCR domain
RPGR	6103	genome.wustl.edu	37	X	38163920	38163920	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001034853.1	-1	reviewed	p.S301Y	0.998	262	0%	53	20.8%	0	-	possibly_damaging(0.903)	deleterious(0)	deleterious(0.802)	HMMPfam_RCC1,PatternScan_RCC1_2,superfamily_RCC1/BLIP-II
RPGR	6103	genome.wustl.edu	37	X	38169921	38169921	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001034853.1	-1	reviewed	p.P242L	0.009	237	0%	60	23.3%	2	50%	possibly_damaging(0.767)	deleterious(0.01)	deleterious(0.690)	HMMPfam_RCC1,superfamily_RCC1/BLIP-II
RPGR	6103	genome.wustl.edu	37	X	38169958	38169958	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001034853.1	-1	reviewed	p.G230S	0.002	254	0%	73	20.5%	3	0%	benign(0.001)	tolerated(0.73)	neutral(0.002)	HMMPfam_RCC1,superfamily_RCC1/BLIP-II
OTC	5009	genome.wustl.edu	37	X	38260637	38260637	+	Missense_Mutation	SNP	T	T	G	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_000531.5	+1	reviewed	p.L166V	0.804	455	0%	115	21.7%	0	-	benign(0.019)	tolerated(0.53)	neutral(0.009)	superfamily_Aspartate/ornithine carbamoyltransferase,HMMPfam_OTCace_N
OTC	5009	genome.wustl.edu	37	X	38271214	38271214	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_000531.5	+1	reviewed	p.V323M	1.000	301	0%	87	11.5%	0	-	probably_damaging(1)	deleterious(0)	deleterious(0.945)	superfamily_Aspartate/ornithine carbamoyltransferase,HMMPfam_OTCace
TSPAN7	7102	genome.wustl.edu	37	X	38420871	38420871	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_004615.3	+1	reviewed	p.F24	1.000	167	0%	192	31.2%	10	0%	-	-	-	HMMPfam_Tetraspannin
BCOR	54880	genome.wustl.edu	37	X	39922071	39922071	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	ENST00000427012	-1	known	p.T62I	0.979	299	0%	359	13.1%	13	0%	-	-	-	NULL
BCOR	54880	genome.wustl.edu	37	X	39937153	39937153	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001123385.1	-1	reviewed	p.N10	1.000	151	0%	202	11.4%	2	0%	-	-	-	NULL
ATP6AP2	10159	genome.wustl.edu	37	X	40450607	40450607	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_005765.2	+1	reviewed	p.P97H	1.000	236	0%	145	16.6%	40	0%	probably_damaging(1)	deleterious(0)	deleterious(0.945)	NULL
ATP6AP2	10159	genome.wustl.edu	37	X	40458918	40458918	+	Silent	SNP	A	A	G	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	ENST00000447485	+1	known	p.K196R	1.000	654	0%	178	12.4%	68	17.6%	-	-	-	NULL
CXorf38	159013	genome.wustl.edu	37	X	40495820	40495820	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_144970.2	-1	validated	p.L256I	0.977	511	0%	369	13.6%	6	0%	probably_damaging(0.955)	tolerated(0.36)	neutral(0.419)	NULL
MED14	9282	genome.wustl.edu	37	X	40531194	40531194	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_004229.3	-1	reviewed	p.A1018T	0.934	490	0%	228	23.7%	6	0%	benign(0)	tolerated(0.51)	neutral(0.009)	NULL
MED14	9282	genome.wustl.edu	37	X	40586069	40586069	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_004229.3	-1	reviewed	p.R93C	1.000	240	0%	161	27.3%	0	-	probably_damaging(1)	deleterious(0)	deleterious(0.945)	HMMPfam_MED14
USP9X	8239	genome.wustl.edu	37	X	41029487	41029487	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001039590.2	+1	reviewed	p.S959L	1.000	223	0%	63	17.5%	3	33.3%	benign(0)	tolerated(0.07)	neutral(0.319)	NULL
USP9X	8239	genome.wustl.edu	37	X	41057991	41057991	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001039590.2	+1	reviewed	p.T1531A	1.000	209	0.5%	96	12.5%	2	0%	benign(0.004)	tolerated(0.74)	neutral(0.002)	NULL
USP9X	8239	genome.wustl.edu	37	X	41076540	41076540	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001039590.2	+1	reviewed	p.F2051L	1.000	462	0%	425	23.1%	11	18.1%	probably_damaging(1)	deleterious(0)	deleterious(0.945)	NULL
USP9X	8239	genome.wustl.edu	37	X	41077651	41077651	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001039590.2	+1	reviewed	p.R2079H	1.000	568	0%	494	26.5%	10	0%	possibly_damaging(0.942)	deleterious(0.02)	deleterious(0.770)	NULL
USP9X	8239	genome.wustl.edu	37	X	41084140	41084140	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001039590.2	+1	reviewed	p.T2299	0.239	399	0.3%	225	24.4%	26	3.8%	-	-	-	NULL
USP9X	8239	genome.wustl.edu	37	X	41089023	41089023	+	Silent	SNP	T	T	C	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001039590.2	+1	reviewed	p.C2474	1.000	321	0%	155	12.3%	84	1.1%	-	-	-	NULL
NYX	60506	genome.wustl.edu	37	X	41333767	41333767	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_022567.2	+1	reviewed	p.S354F	0.995	23	0%	28	17.9%	0	-	benign(0)	tolerated(0.25)	neutral(0.037)	HMMSmart_LRRCT
CASK	8573	genome.wustl.edu	37	X	41394209	41394209	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_003688.3	-1	reviewed	p.L720I	1.000	379	0%	213	31%	5	0%	probably_damaging(0.961)	tolerated(0.25)	neutral(0.441)	superfamily_SH3
CASK	8573	genome.wustl.edu	37	X	41495911	41495911	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_003688.3	-1	reviewed	p.R279W	0.999	567	0.2%	150	21.3%	3	0%	probably_damaging(0.997)	deleterious(0)	deleterious(0.911)	NULL
GPR82	27197	genome.wustl.edu	37	X	41586829	41586829	+	Nonsense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_080817.4	+1	validated	p.E184*	0.003	102	0%	31	19.4%	0	-	-	-	-	HMMPfam_7tm_1,superfamily_Family A G protein-coupled receptor-like
MAOA	4128	genome.wustl.edu	37	X	43590498	43590498	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_000240.2	+1	reviewed	p.F219S	1.000	281	0%	65	24.6%	1	0%	probably_damaging(1)	deleterious(0)	deleterious(0.945)	HMMPfam_Amino_oxidase,superfamily_FAD/NAD(P)-binding domain
EFHC2	80258	genome.wustl.edu	37	X	44091781	44091781	+	Silent	SNP	A	A	G	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_025184.3	-1	validated	p.V522A	0.069	383	0%	79	25.3%	0	-	-	-	-	NULL
EFHC2	80258	genome.wustl.edu	37	X	44109470	44109470	+	Missense_Mutation	SNP	T	T	G	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	ENST00000333807	-1	known	p.K276N	0.000	236	0%	65	10.8%	0	-	benign(0.018)	tolerated(0.16)	neutral(0.060)	HMMSmart_SM00676,HMMPfam_DUF1126
KDM6A	7403	genome.wustl.edu	37	X	44942756	44942756	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	ENST00000433797	+1	known	p.R755C	0.814	459	0.2%	89	20.2%	1	100%	-	-	-	HMMSmart_SM00558
CXorf36	79742	genome.wustl.edu	37	X	45017097	45017097	+	Nonsense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_176819.3	-1	validated	p.R179*	0.997	41	0%	60	23.3%	1	0%	-	-	-	NULL
CXorf36	79742	genome.wustl.edu	37	X	45059949	45059949	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_176819.3	-1	validated	p.V41	0.997	255	0%	187	21.9%	10	0%	-	-	-	NULL
ZNF674	641339	genome.wustl.edu	37	X	46360491	46360491	+	Nonsense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001039891.2	-1	validated	p.W178*	1.000	456	0%	116	15.5%	0	-	-	-	-	NULL
ZNF674	641339	genome.wustl.edu	37	X	46360675	46360675	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001039891.2	-1	validated	p.D117N	0.011	318	0.3%	123	17.1%	0	-	possibly_damaging(0.802)	tolerated(0.42)	neutral(0.316)	NULL
ZNF674	641339	genome.wustl.edu	37	X	46360737	46360737	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001039891.2	-1	validated	p.Y96C	0.058	378	0.3%	111	26.1%	1	100%	possibly_damaging(0.784)	tolerated(0.2)	neutral(0.342)	NULL
CHST7	56548	genome.wustl.edu	37	X	46434091	46434091	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_019886.2	+1	reviewed	p.R242Q	0.998	43	0%	91	30.8%	1	0%	benign(0.089)	tolerated(0.1)	neutral(0.293)	HMMPfam_Sulfotransfer_1,superfamily_SSF52540
SLC9A7	84679	genome.wustl.edu	37	X	46513159	46513159	+	Splice_Site	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_032591.1	-1	reviewed	e8-1	0.000	142	0%	54	16.7%	0	-	-	-	-	-
SLC9A7	84679	genome.wustl.edu	37	X	46529127	46529127	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_032591.1	-1	reviewed	p.L236	0.995	454	0%	130	23.8%	0	-	-	-	-	HMMPfam_Na_H_Exchanger
PHF16	9767	genome.wustl.edu	37	X	46918037	46918037	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001077445.1	+1	reviewed	p.V677A	0.000	131	0%	44	22.7%	3	33.3%	benign(0.336)	tolerated(0.21)	neutral(0.150)	NULL
RGN	9104	genome.wustl.edu	37	X	46951089	46951089	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_004683.4	+1	reviewed	p.S192N	0.149	409	0%	198	10.1%	0	-	benign(0)	tolerated(0.47)	neutral(0.011)	HMMPfam_SGL,superfamily_Calcium-dependent phosphotriesterase
NDUFB11	54539	genome.wustl.edu	37	X	47001822	47001822	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_019056.5	-1	validated	p.R129H	1.000	228	0.4%	291	24.4%	564	0%	possibly_damaging(0.541)	tolerated(0.08)	deleterious(0.483)	HMMPfam_ESSS
RBM10	8241	genome.wustl.edu	37	X	47039843	47039843	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_005676.3	+1	reviewed	p.R396C	1.000	53	0%	87	23%	15	0%	probably_damaging(1)	deleterious(0.01)	deleterious(0.905)	NULL
RBM10	8241	genome.wustl.edu	37	X	47045709	47045709	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_005676.3	+1	reviewed	p.R864W	1.000	63	0%	98	22.4%	103	0%	probably_damaging(1)	deleterious(0)	deleterious(0.945)	HMMPfam_G-patch,HMMSmart_SM00443
UBA1	7317	genome.wustl.edu	37	X	47060760	47060760	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_003334.3	+1	reviewed	p.T225A	1.000	249	0%	195	26.2%	17	0%	benign(0.096)	deleterious(0.03)	neutral(0.371)	superfamily_MoeB
UBA1	7317	genome.wustl.edu	37	X	47060913	47060913	+	Nonsense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_003334.3	+1	reviewed	p.R239*	1.000	91	0%	99	18.2%	25	0%	-	-	-	superfamily_MoeB
ZNF157	7712	genome.wustl.edu	37	X	47270080	47270080	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_003446.3	+1	reviewed	p.G67	0.998	171	0%	44	20.5%	0	-	-	-	-	HMMPfam_KRAB,HMMSmart_KRAB,superfamily_Krueppel-associated_box
ZNF41	7592	genome.wustl.edu	37	X	47308221	47308221	+	Silent	SNP	T	T	C	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_007130.2	-1	reviewed	p.V316	0.000	149	0%	54	24.1%	1	100%	-	-	-	superfamily_C2H2 and C2HC zinc fingers
ZNF41	7592	genome.wustl.edu	37	X	47308467	47308467	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_007130.2	-1	reviewed	p.E234D	0.214	571	0%	211	25.1%	0	-	benign(0.388)	tolerated(0.22)	neutral(0.166)	NULL
ARAF	369	genome.wustl.edu	37	X	47428244	47428244	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001654.3	+1	reviewed	p.D402N	0.994	79	0%	130	19.2%	20	20%	benign(0.256)	deleterious(0.01)	neutral(0.432)	superfamily_Kinase_like,HMMPfam_Pkinase
ARAF	369	genome.wustl.edu	37	X	47428957	47428957	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001654.3	+1	reviewed	p.G440	0.998	138	0%	179	26.8%	20	0%	-	-	-	superfamily_Kinase_like,HMMPfam_Pkinase
SYN1	6853	genome.wustl.edu	37	X	47435760	47435760	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_006950.3	-1	reviewed	p.A342	0.928	175	0%	291	24.1%	2	0%	-	-	-	HMMPfam_Synapsin_C,superfamily_Glutathione synthetase ATP-binding domain-like
CFP	5199	genome.wustl.edu	37	X	47485784	47485784	+	Nonsense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001145252.1	-1	reviewed	p.R359*	0.045	78	0%	110	27.3%	12	8.3%	-	-	-	HMMPfam_TSP_1,HMMSmart_TSP1,superfamily_TSP1
ZNF81	347344	genome.wustl.edu	37	X	47774573	47774573	+	Silent	SNP	T	T	G	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_007137.3	+1	reviewed	p.V176	0.000	200	0%	51	19.6%	1	0%	-	-	-	NULL
ZNF182	7569	genome.wustl.edu	37	X	47835860	47835860	+	Silent	SNP	A	A	G	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_006962.1	-1	reviewed	p.Y542	0.885	579	0%	215	13.5%	0	-	-	-	-	HMMPfam_zf-C2H2,HMMSmart_ZnF_C2H2,superfamily_SSF57667
SPACA5	389852	genome.wustl.edu	37	X	47867796	47867796	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_205856.2	+1	validated	p.E56	0.105	461	0%	405	12.3%	0	-	-	-	-	HMMPfam_Lys,HMMSmart_LYZ1,superfamily_SSF53955
ZNF630	57232	genome.wustl.edu	37	X	47918206	47918206	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001037735.2	-1	validated	p.P542H	0.990	306	0%	107	28%	0	-	probably_damaging(1)	deleterious(0)	deleterious(0.945)	superfamily_SSF57667
SSX6	280657	genome.wustl.edu	37	X	47969610	47969610	+	Silent	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	ENST00000304314	+1	known	p.V29	0.011	129	0%	154	25.3%	0	-	-	-	-	NULL
SSX5	6758	genome.wustl.edu	37	X	48047097	48047097	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_021015.3	-1	reviewed	p.E220D	0.246	757	0%	682	26.8%	0	-	probably_damaging(0.999)	deleterious(0)	deleterious(0.935)	HMMPfam_SSXRD
SSX3	10214	genome.wustl.edu	37	X	48206933	48206933	+	Splice_Site	SNP	A	A	G	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_021014.2	-1	reviewed	e6+2	0.079	784	0%	211	23.7%	0	-	-	-	-	-
SSX3	10214	genome.wustl.edu	37	X	48207018	48207018	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_021014.2	-1	reviewed	p.A163V	0.000	562	0%	158	24.1%	0	-	probably_damaging(0.996)	tolerated(0.68)	neutral(0.464)	HMMPfam_SSXRD
PORCN	64840	genome.wustl.edu	37	X	48369771	48369771	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	ENST00000485288	+1	known	p.R52C	1.000	216	0.9%	344	24.4%	3	66.6%	unknown(0)	deleterious(0)	-	NULL
PORCN	64840	genome.wustl.edu	37	X	48370749	48370749	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_203475.1	+1	reviewed	p.L137M	1.000	127	0%	162	27.2%	2	0%	probably_damaging(0.996)	deleterious(0.01)	deleterious(0.867)	HMMPfam_MBOAT
PORCN	64840	genome.wustl.edu	37	X	48375654	48375654	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_203475.1	+1	reviewed	p.V419	0.029	356	0%	512	11.3%	13	15.3%	-	-	-	NULL
EBP	10682	genome.wustl.edu	37	X	48386821	48386821	+	Silent	SNP	A	A	C	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_006579.2	+1	reviewed	p.T223	0.000	201	0%	180	13.9%	123	0%	-	-	-	NULL
TBC1D25	4943	genome.wustl.edu	37	X	48403374	48403374	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_002536.2	+1	validated	p.Y117	0.997	111	0%	142	12%	3	0%	-	-	-	NULL
TBC1D25	4943	genome.wustl.edu	37	X	48418569	48418569	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_002536.2	+1	validated	p.R425C	1.000	34	0%	42	31%	5	20%	possibly_damaging(0.936)	deleterious(0)	deleterious(0.826)	HMMPfam_TBC,HMMSmart_SM00164,superfamily_Ypt/Rab-GAP domain of gyp1p
GLOD5	392465	genome.wustl.edu	37	X	48624307	48624307	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001080489.2	+1	validated	p.T41M	1.000	241	0.4%	96	20.8%	0	-	probably_damaging(1)	deleterious(0)	deleterious(0.945)	HMMPfam_Glyoxalase,superfamily_Glyoxalase/Bleomycin resistance protein/Dihydroxybiphenyl dioxygenase
ENSG00000207367	0	genome.wustl.edu	37	X	48635449	48635449	+	RNA	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	ENST00000384637	-1	novel	NULL	0.050	70	0%	71	15.5%	0	-	-	-	-	-
HDAC6	10013	genome.wustl.edu	37	X	48681990	48681990	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_006044.2	+1	reviewed	p.E1061K	0.000	56	0%	104	17.3%	15	0%	benign(0.14)	tolerated(0.53)	neutral(0.019)	NULL
HDAC6	10013	genome.wustl.edu	37	X	48683253	48683253	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	ENST00000436813	+1	known	p.A776T	0.000	14	0%	19	52.6%	73	0%	benign(0.01)	deleterious(0)	neutral(0.445)	NULL
SLC35A2	7355	genome.wustl.edu	37	X	48760708	48760708	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	ENST00000376529	-1	known	p.G203V	0.911	206	0%	249	24.9%	12	8.3%	probably_damaging(0.996)	tolerated(0.15)	deleterious(0.703)	NULL
SLC35A2	7355	genome.wustl.edu	37	X	48762243	48762243	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_005660.1	-1	provisional	p.L315I	1.000	116	0%	176	13.6%	9	0%	possibly_damaging(0.712)	tolerated(0.15)	deleterious(0.498)	HMMPfam_Nuc_sug_transp,superfamily_Multidrug resistance efflux transporter EmrE
PIM2	11040	genome.wustl.edu	37	X	48772384	48772384	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_006875.3	-1	reviewed	p.L170M	1.000	83	0%	119	25.2%	10	0%	probably_damaging(0.998)	deleterious(0)	deleterious(0.919)	HMMSmart_S_TKc,PatternScan_PROTEIN_KINASE_ST,superfamily_Kinase_like,HMMPfam_Pkinase
KCND1	3750	genome.wustl.edu	37	X	48823248	48823248	+	Missense_Mutation	SNP	C	C	G	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_004979.4	-1	reviewed	p.V430L	1.000	228	0%	411	12.9%	3	0%	possibly_damaging(0.567)	tolerated(0.07)	deleterious(0.513)	NULL
KCND1	3750	genome.wustl.edu	37	X	48823509	48823509	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_004979.4	-1	reviewed	p.G376R	1.000	127	0%	214	11.2%	2	0%	probably_damaging(1)	deleterious(0)	deleterious(0.945)	HMMPfam_Ion_trans,superfamily_Voltage-gated potassium channels
KCND1	3750	genome.wustl.edu	37	X	48826270	48826270	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_004979.4	-1	reviewed	p.R137W	1.000	33	0%	51	29.4%	0	-	benign(0.309)	deleterious(0.02)	deleterious(0.480)	HMMSmart_SM00225,superfamily_POZ domain
GRIPAP1	56850	genome.wustl.edu	37	X	48837666	48837666	+	Nonsense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_020137.3	-1	reviewed	p.R631*	0.999	130	0%	93	9.7%	26	0%	-	-	-	NULL
GRIPAP1	56850	genome.wustl.edu	37	X	48846096	48846096	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_020137.3	-1	reviewed	p.R266Q	0.713	323	0%	206	26.2%	12	0%	benign(0.204)	tolerated(0.07)	neutral(0.339)	NULL
TFE3	7030	genome.wustl.edu	37	X	48891263	48891263	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_006521.4	-1	reviewed	p.Q346	1.000	321	0.3%	366	24.9%	26	0%	-	-	-	superfamily_HLH_basic
CCDC120	90060	genome.wustl.edu	37	X	48920041	48920041	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_033626.2	+1	reviewed	p.R31H	1.000	36	0%	84	19%	1	0%	probably_damaging(1)	deleterious(0.01)	deleterious(0.905)	NULL
WDR45	11152	genome.wustl.edu	37	X	48932479	48932479	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_007075.3	-1	reviewed	p.D357N	1.000	242	0%	324	24.4%	141	0%	probably_damaging(0.998)	deleterious(0)	deleterious(0.919)	NULL
GPKOW	27238	genome.wustl.edu	37	X	48976071	48976071	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_015698.4	-1	validated	p.R185C	1.000	118	0.8%	82	9.8%	10	0%	probably_damaging(1)	deleterious(0.01)	deleterious(0.905)	HMMPfam_G-patch,HMMSmart_G_patch
MAGIX	79917	genome.wustl.edu	37	X	49022513	49022513	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	ENST00000415364	+1	known	p.R224Q	0.000	41	0%	95	15.8%	12	0%	-	-	-	NULL
PLP2	5355	genome.wustl.edu	37	X	49029475	49029475	+	Splice_Site	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_002668.2	+1	reviewed	e2-1	0.905	478	0%	793	25.3%	0	-	-	-	-	-
PLP2	5355	genome.wustl.edu	37	X	49030742	49030742	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_002668.2	+1	reviewed	p.R136W	0.024	166	0%	278	30.2%	167	47.9%	probably_damaging(0.986)	deleterious(0.02)	deleterious(0.818)	HMMPfam_MARVEL
PRICKLE3	4007	genome.wustl.edu	37	X	49034397	49034397	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	ENST00000453382	-1	known	p.R313C	0.072	34	0%	78	10.3%	6	0%	-	-	-	HMMPfam_LIM,HMMSmart_SM00132,superfamily_Glucocorticoid receptor-like (DNA-binding domain)
CACNA1F	778	genome.wustl.edu	37	X	49061721	49061721	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_005183.2	-1	reviewed	p.D1937G	1.000	49	0%	66	24.2%	0	-	possibly_damaging(0.812)	deleterious(0.01)	deleterious(0.711)	NULL
CACNA1F	778	genome.wustl.edu	37	X	49063047	49063047	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_005183.2	-1	reviewed	p.R1810	1.000	122	0%	125	28.8%	0	-	-	-	-	NULL
CACNA1F	778	genome.wustl.edu	37	X	49066119	49066119	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_005183.2	-1	reviewed	p.D1608	0.509	196	0%	162	24.1%	0	-	-	-	-	HMMPfam_Ca_chan_IQ
CACNA1F	778	genome.wustl.edu	37	X	49066122	49066122	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_005183.2	-1	reviewed	p.N1607	0.000	198	0%	173	30.6%	0	-	-	-	-	HMMPfam_Ca_chan_IQ
CACNA1F	778	genome.wustl.edu	37	X	49066862	49066862	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_005183.2	-1	reviewed	p.R1507I	1.000	111	0%	94	10.6%	0	-	probably_damaging(1)	deleterious(0)	deleterious(0.945)	NULL
CACNA1F	778	genome.wustl.edu	37	X	49067486	49067486	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_005183.2	-1	reviewed	p.L1454M	1.000	183	0%	158	26.6%	0	-	probably_damaging(1)	deleterious(0)	deleterious(0.945)	NULL
CACNA1F	778	genome.wustl.edu	37	X	49069216	49069216	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_005183.2	-1	reviewed	p.R1296C	1.000	265	0%	218	12.4%	0	-	probably_damaging(1)	deleterious(0)	deleterious(0.945)	HMMPfam_Ion_trans,superfamily_Voltage-gated potassium channels
CACNA1F	778	genome.wustl.edu	37	X	49083398	49083398	+	Splice_Site	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_005183.2	-1	reviewed	e9+1	0.999	51	2%	81	27.2%	0	-	-	-	-	-
CACNA1F	778	genome.wustl.edu	37	X	49083555	49083555	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_005183.2	-1	reviewed	p.R385C	1.000	94	0%	121	26.4%	0	-	probably_damaging(0.997)	deleterious(0)	deleterious(0.911)	NULL
CCDC22	28952	genome.wustl.edu	37	X	49099632	49099632	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_014008.3	+1	validated	p.E173K	0.027	89	0%	117	30.8%	6	0%	benign(0.002)	tolerated(0.71)	neutral(0.002)	HMMPfam_DUF812
CCDC22	28952	genome.wustl.edu	37	X	49103352	49103352	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_014008.3	+1	validated	p.R292H	1.000	64	0%	122	29.5%	14	0%	possibly_damaging(0.823)	tolerated(0.09)	deleterious(0.608)	HMMPfam_DUF812
CCDC22	28952	genome.wustl.edu	37	X	49106160	49106160	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_014008.3	+1	validated	p.R582W	0.998	55	0%	82	20.7%	39	0%	benign(0.117)	tolerated(0.06)	neutral(0.332)	HMMPfam_DUF812
FOXP3	50943	genome.wustl.edu	37	X	49109591	49109591	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_014009.3	-1	reviewed	p.R347H	1.000	180	0%	191	29.3%	3	0%	probably_damaging(1)	deleterious(0)	deleterious(0.945)	"HMMPfam_Fork_head,HMMSmart_SM00339,superfamily_""Winged helix"" DNA-binding domain"
PPP1R3F	89801	genome.wustl.edu	37	X	49127040	49127040	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_033215.4	+1	reviewed	p.D236	0.997	5	0.000	10	0.400	0	-	-	-	-	HMMPfam_CBM_21
PPP1R3F	89801	genome.wustl.edu	37	X	49127110	49127110	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_033215.4	+1	reviewed	p.D260N	0.928	11	0%	26	19.2%	3	0%	probably_damaging(0.959)	deleterious(0.01)	deleterious(0.808)	HMMPfam_CBM_21
PPP1R3F	89801	genome.wustl.edu	37	X	49142464	49142464	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_033215.4	+1	reviewed	p.D438N	0.854	64	0%	50	12%	3	0%	possibly_damaging(0.93)	deleterious(0)	deleterious(0.821)	NULL
PPP1R3F	89801	genome.wustl.edu	37	X	49143081	49143081	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_033215.4	+1	reviewed	p.E643	0.041	128	0%	118	24.6%	0	-	-	-	-	NULL
GAGE8	100101629	genome.wustl.edu	37	X	49208291	49208291	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_012196.1	+1	reviewed	p.S7L	0.001	1838	0.1%	2393	5.9%	0	-	possibly_damaging(0.915)	deleterious(0)	deleterious(0.811)	HMMPfam_GAGE
PAGE1	8712	genome.wustl.edu	37	X	49454088	49454088	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_003785.3	-1	reviewed	p.R117	0.004	113	0%	65	15.4%	0	-	-	-	-	NULL
CLCN5	1184	genome.wustl.edu	37	X	49834543	49834543	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001127898.1	+1	reviewed	p.S58L	0.962	336	0%	159	30.8%	0	-	benign(0.042)	tolerated(0.35)	neutral(0.023)	NULL
CLCN5	1184	genome.wustl.edu	37	X	49851264	49851264	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001127898.1	+1	reviewed	p.V432I	0.000	182	0.5%	40	10%	1	0%	benign(0.001)	tolerated(1)	-	HMMPfam_Voltage_CLC,superfamily_Clc chloride channel
CLCN5	1184	genome.wustl.edu	37	X	49854797	49854797	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001127898.1	+1	reviewed	p.S590F	1.000	352	0%	101	25.7%	2	0%	probably_damaging(1)	deleterious(0.01)	deleterious(0.905)	HMMPfam_Voltage_CLC,superfamily_Clc chloride channel
AKAP4	8852	genome.wustl.edu	37	X	49958974	49958974	+	Missense_Mutation	SNP	G	G	C	rs139757404	by1000genomes	TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_003886.2	-1	reviewed	p.S130R	0.998	230	0%	127	28.3%	0	-	probably_damaging(0.954)	deleterious(0)	deleterious(0.842)	HMMSmart_SM00807
CCNB3	85417	genome.wustl.edu	37	X	50052404	50052404	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_033031.2	+1	reviewed	p.S412L	0.000	106	0%	25	32%	0	-	possibly_damaging(0.602)	deleterious(0)	deleterious(0.653)	NULL
CCNB3	85417	genome.wustl.edu	37	X	50052433	50052433	+	Nonsense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_033031.2	+1	reviewed	p.E422*	0.002	120	0%	29	37.9%	0	-	-	-	-	NULL
CCNB3	85417	genome.wustl.edu	37	X	50053678	50053678	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_033031.2	+1	reviewed	p.P837S	0.000	109	0%	34	23.5%	0	-	probably_damaging(0.988)	deleterious(0)	deleterious(0.882)	NULL
CCNB3	85417	genome.wustl.edu	37	X	50053689	50053689	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_033031.2	+1	reviewed	p.E840D	0.000	110	0%	35	11.4%	0	-	possibly_damaging(0.741)	deleterious(0)	deleterious(0.716)	NULL
CCNB3	85417	genome.wustl.edu	37	X	50055608	50055608	+	Silent	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_033031.2	+1	reviewed	p.I1133	1.000	567	0%	131	12.2%	0	-	-	-	-	HMMPfam_Cyclin_N,superfamily_Cyclin-like
CCNB3	85417	genome.wustl.edu	37	X	50085206	50085206	+	Silent	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_033031.2	+1	reviewed	p.S1174	0.975	386	0%	109	12.8%	0	-	-	-	-	HMMSmart_SM00385,HMMPfam_Cyclin_N,superfamily_Cyclin-like
SHROOM4	57477	genome.wustl.edu	37	X	50341507	50341507	+	Missense_Mutation	SNP	T	T	G	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_020717.3	-1	reviewed	p.K1324T	1.000	71	0%	36	11.1%	2	0%	probably_damaging(0.995)	deleterious(0)	deleterious(0.902)	HMMPfam_ASD2
CXorf67	340602	genome.wustl.edu	37	X	51151247	51151247	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	ENST00000342995	+1	known	p.S460F	0.002	53	0%	140	22.1%	0	-	probably_damaging(0.991)	deleterious(0)	deleterious(0.889)	NULL
NUDT11	55190	genome.wustl.edu	37	X	51239119	51239119	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	ENST00000375992	-1	known	p.G60S	0.997	217	0%	377	27.9%	0	-	benign(0.05)	tolerated(0.54)	neutral(0.010)	HMMPfam_NUDIX,superfamily_NUDIX_hydrolase,PatternScan_NUDIX
GSPT2	23708	genome.wustl.edu	37	X	51487530	51487530	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_018094.4	+1	reviewed	p.E270K	1.000	422	0.2%	704	29.8%	1	0%	probably_damaging(0.998)	deleterious(0)	deleterious(0.919)	HMMPfam_GTP_EFTU,PatternScan_EFACTOR_GTP,superfamily_SSF52540
MAGED1	9500	genome.wustl.edu	37	X	51638234	51638234	+	Missense_Mutation	SNP	A	A	C	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001005333.1	+1	reviewed	p.Q100P	1.000	48	0%	47	40.4%	20	0%	possibly_damaging(0.85)	deleterious(0.02)	deleterious(0.710)	NULL
SSX7	280658	genome.wustl.edu	37	X	52674523	52674523	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_173358.2	-1	reviewed	p.E179D	0.013	795	0%	265	19.6%	0	-	probably_damaging(0.999)	deleterious(0)	deleterious(0.935)	HMMPfam_SSXRD
GPR173	54328	genome.wustl.edu	37	X	53106287	53106287	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_018969.5	+1	reviewed	p.V162M	1.000	69	0%	84	14.3%	0	-	possibly_damaging(0.598)	deleterious(0.05)	deleterious(0.552)	HMMPfam_7tm_1,superfamily_Family A G protein-coupled receptor-like
TSPYL2	64061	genome.wustl.edu	37	X	53112183	53112183	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_022117.3	+1	reviewed	p.A168V	0.733	80	2.5%	107	29.9%	4	0%	benign(0.045)	tolerated(0.06)	neutral(0.325)	NULL
KDM5C	8242	genome.wustl.edu	37	X	53223719	53223719	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_004187.3	-1	reviewed	p.V1214M	1.000	113	0%	227	24.7%	42	19%	probably_damaging(1)	deleterious(0)	deleterious(0.945)	HMMSmart_SM00249,superfamily_FYVE/PHD zinc finger,PatternScan_ZF_PHD_1,HMMPfam_PHD
IQSEC2	23096	genome.wustl.edu	37	X	53267430	53267430	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001111125.1	-1	validated	p.L1058	0.988	140	0%	204	13.2%	2	0%	-	-	-	HMMSmart_PH,superfamily_SSF50729
SMC1A	8243	genome.wustl.edu	37	X	53409291	53409291	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_006306.2	-1	reviewed	p.P1100H	1.000	183	0%	91	27.5%	6	33.3%	probably_damaging(1)	deleterious(0)	deleterious(0.945)	HMMPfam_SMC_N,superfamily_SSF52540
SMC1A	8243	genome.wustl.edu	37	X	53421747	53421747	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_006306.2	-1	reviewed	p.R975Q	1.000	169	0%	91	25.3%	8	12.5%	benign(0.07)	tolerated(0.17)	neutral(0.064)	HMMPfam_SMC_N,superfamily_SSF52540
HUWE1	10075	genome.wustl.edu	37	X	53574732	53574732	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_031407.4	-1	reviewed	p.S3513F	1.000	522	0%	303	21.1%	14	0%	unknown(0)	deleterious(0.01)	-	NULL
HUWE1	10075	genome.wustl.edu	37	X	53576321	53576321	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_031407.4	-1	reviewed	p.L3212I	1.000	87	0%	38	34.2%	3	66.6%	possibly_damaging(0.615)	deleterious(0.02)	deleterious(0.597)	NULL
HUWE1	10075	genome.wustl.edu	37	X	53576406	53576406	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	ENST00000427052	-1	known	p.R2217*	0.489	102	1%	45	26.7%	4	0%	-	-	-	NULL
HUWE1	10075	genome.wustl.edu	37	X	53579824	53579824	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_031407.4	-1	reviewed	p.S2842Y	1.000	170	0%	74	13.5%	4	0%	possibly_damaging(0.819)	deleterious(0.01)	deleterious(0.715)	NULL
HUWE1	10075	genome.wustl.edu	37	X	53581811	53581811	+	Nonsense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	ENST00000427052	-1	known	p.G1793*	0.999	431	0%	138	25.4%	7	42.8%	possibly_damaging(0.819)	tolerated(0.3)	neutral(0.338)	NULL
HUWE1	10075	genome.wustl.edu	37	X	53591681	53591681	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_031407.4	-1	reviewed	p.E2295K	1.000	199	0%	94	21.3%	3	33.3%	possibly_damaging(0.94)	deleterious(0.02)	deleterious(0.768)	superfamily_ARM repeat
HUWE1	10075	genome.wustl.edu	37	X	53634621	53634621	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_031407.4	-1	reviewed	p.D787Y	1.000	389	0.3%	102	19.6%	1	0%	probably_damaging(1)	deleterious(0.02)	deleterious(0.883)	HMMPfam_DUF913
HUWE1	10075	genome.wustl.edu	37	X	53681048	53681048	+	Missense_Mutation	SNP	T	T	G	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_031407.4	-1	reviewed	p.K2Q	1.000	390	0%	110	11.8%	1	0%	probably_damaging(1)	deleterious(0)	deleterious(0.945)	NULL
FAM120C	54954	genome.wustl.edu	37	X	54107761	54107761	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_017848.4	-1	validated	p.G991E	1.000	125	0%	76	18.4%	0	-	probably_damaging(0.998)	deleterious(0.02)	deleterious(0.857)	NULL
FAM120C	54954	genome.wustl.edu	37	X	54159281	54159281	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_017848.4	-1	validated	p.P636T	1.000	144	0%	191	27.2%	0	-	possibly_damaging(0.559)	tolerated(0.13)	neutral(0.443)	NULL
FAM120C	54954	genome.wustl.edu	37	X	54162999	54162999	+	Nonsense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_017848.4	-1	validated	p.R395*	1.000	893	0.1%	501	20%	0	-	-	-	-	NULL
WNK3	65267	genome.wustl.edu	37	X	54259321	54259321	+	Silent	SNP	A	A	G	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_020922.4	-1	reviewed	p.R1587	0.918	507	0.2%	135	25.2%	0	-	-	-	-	NULL
WNK3	65267	genome.wustl.edu	37	X	54328244	54328244	+	Nonsense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_020922.4	-1	reviewed	p.E380*	1.000	809	0%	211	13.3%	0	-	-	-	-	HMMSmart_S_TKc,superfamily_Kinase_like,HMMPfam_Pkinase
FGD1	2245	genome.wustl.edu	37	X	54496521	54496521	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_004463.2	-1	reviewed	p.D343	0.385	39	0%	54	22.2%	4	0%	-	-	-	NULL
FGD1	2245	genome.wustl.edu	37	X	54497159	54497159	+	Silent	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_004463.2	-1	reviewed	p.R172	0.111	13	0%	21	28.6%	2	0%	-	-	-	NULL
GNL3L	54552	genome.wustl.edu	37	X	54587019	54587019	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_019067.5	+1	reviewed	p.D578G	0.935	366	0%	218	25.7%	6	0%	possibly_damaging(0.886)	deleterious(0)	deleterious(0.791)	NULL
ITIH6	347365	genome.wustl.edu	37	X	54800571	54800571	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_198510.2	-1	reviewed	p.K282N	0.965	203	0%	152	25%	0	-	probably_damaging(0.996)	deleterious(0)	deleterious(0.906)	HMMSmart_VWA,superfamily_SSF53300
PFKFB1	5207	genome.wustl.edu	37	X	54971912	54971912	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_002625.2	-1	reviewed	p.R353Q	1.000	416	0%	255	18%	0	-	probably_damaging(0.997)	deleterious(0.01)	deleterious(0.872)	HMMPfam_PGAM,superfamily_SSF53254
PFKFB1	5207	genome.wustl.edu	37	X	54978508	54978508	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_002625.2	-1	reviewed	p.R226C	1.000	218	0%	215	24.7%	0	-	benign(0.157)	deleterious(0.02)	neutral(0.397)	HMMPfam_6PF2K,superfamily_SSF52540
PFKFB1	5207	genome.wustl.edu	37	X	54985326	54985326	+	Silent	SNP	T	T	C	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_002625.2	-1	reviewed	p.R139	0.685	489	0%	231	22.5%	0	-	-	-	-	HMMPfam_6PF2K,superfamily_SSF52540
PFKFB1	5207	genome.wustl.edu	37	X	54987281	54987281	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_002625.2	-1	reviewed	p.N98S	1.000	368	0%	106	27.4%	0	-	possibly_damaging(0.666)	deleterious(0)	deleterious(0.680)	HMMPfam_6PF2K,superfamily_SSF52540
FAM104B	90736	genome.wustl.edu	37	X	55172607	55172607	+	Silent	SNP	T	T	C	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	ENST00000489298	-1	known	p.V85	0.000	358	0%	144	17.4%	60	0%	-	-	-	NULL
USP51	158880	genome.wustl.edu	37	X	55513614	55513614	+	Missense_Mutation	SNP	T	T	G	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_201286.3	-1	validated	p.K587Q	1.000	202	0%	340	26.2%	0	-	possibly_damaging(0.76)	tolerated(0.08)	deleterious(0.581)	HMMPfam_UCH,superfamily_SSF54001
USP51	158880	genome.wustl.edu	37	X	55514105	55514105	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_201286.3	-1	validated	p.R423Q	1.000	247	0.4%	395	24.1%	0	-	possibly_damaging(0.679)	tolerated(0.38)	neutral(0.260)	HMMPfam_UCH,superfamily_SSF54001
USP51	158880	genome.wustl.edu	37	X	55514786	55514786	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_201286.3	-1	validated	p.S196Y	1.000	63	0%	125	32.8%	0	-	possibly_damaging(0.459)	deleterious(0.03)	deleterious(0.515)	NULL
RRAGB	10325	genome.wustl.edu	37	X	55777543	55777543	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_016656.3	+1	validated	p.E204K	1.000	561	0%	753	20.3%	7	0%	benign(0)	tolerated(0.54)	neutral(0.007)	HMMPfam_Gtr1_RagA,superfamily_P-loop containing nucleoside triphosphate hydrolases
RRAGB	10325	genome.wustl.edu	37	X	55782317	55782317	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_016656.3	+1	validated	p.R288I	1.000	396	0%	289	22.8%	12	25%	probably_damaging(1)	deleterious(0)	deleterious(0.945)	HMMPfam_Gtr1_RagA
UBQLN2	29978	genome.wustl.edu	37	X	56590846	56590846	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_013444.3	+1	reviewed	p.E180D	1.000	112	0%	164	28%	2	0%	benign(0.307)	tolerated(0.53)	neutral(0.103)	HMMSmart_SM00727
SPIN2A	54466	genome.wustl.edu	37	X	57162651	57162651	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_019003.3	-1	reviewed	p.T127I	0.999	570	0%	610	19.3%	0	-	possibly_damaging(0.85)	tolerated(0.06)	deleterious(0.649)	NULL
ZXDA	7789	genome.wustl.edu	37	X	57934546	57934546	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_007156.4	-1	reviewed	p.T770I	1.000	387	0%	622	24.9%	2	50%	probably_damaging(0.998)	deleterious(0)	deleterious(0.919)	NULL
ZXDA	7789	genome.wustl.edu	37	X	57936185	57936185	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_007156.4	-1	reviewed	p.R224W	0.310	11	0%	23	34.8%	0	-	benign(0.014)	deleterious(0.01)	neutral(0.406)	NULL
ARHGEF9	23229	genome.wustl.edu	37	X	62898269	62898269	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_015185.2	-1	reviewed	p.Y249H	1.000	192	0%	57	19.3%	7	0%	probably_damaging(1)	deleterious(0)	deleterious(0.945)	HMMPfam_RhoGEF,HMMSmart_RhoGEF,superfamily_DH-domain
ARHGEF9	23229	genome.wustl.edu	37	X	62974186	62974186	+	Silent	SNP	A	A	G	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_015185.2	-1	reviewed	p.L3	1.000	236	0%	300	18.7%	0	-	-	-	-	NULL
FAM123B	139285	genome.wustl.edu	37	X	63412573	63412573	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_152424.3	-1	reviewed	p.E198D	0.000	143	0%	67	26.9%	2	50%	possibly_damaging(0.891)	tolerated(0.35)	neutral(0.371)	HMMPfam_WTX
FAM123B	139285	genome.wustl.edu	37	X	63412634	63412634	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_152424.3	-1	reviewed	p.R178H	0.999	120	0%	60	28.3%	1	0%	probably_damaging(0.999)	tolerated(0.13)	deleterious(0.743)	HMMPfam_WTX
ASB12	142689	genome.wustl.edu	37	X	63445378	63445378	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_130388.2	-1	reviewed	p.L42F	0.969	146	0%	43	27.9%	0	-	probably_damaging(1)	deleterious(0)	deleterious(0.945)	superfamily_ANK
MTMR8	55613	genome.wustl.edu	37	X	63488755	63488755	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_017677.3	-1	reviewed	p.G593C	0.250	253	0.4%	110	25.5%	0	-	benign(0.001)	deleterious(0)	neutral(0.445)	NULL
MTMR8	55613	genome.wustl.edu	37	X	63488911	63488911	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_017677.3	-1	reviewed	p.R541C	0.000	105	1%	57	22.8%	0	-	benign(0.068)	deleterious(0)	neutral(0.449)	NULL
MTMR8	55613	genome.wustl.edu	37	X	63565022	63565022	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_017677.3	-1	reviewed	p.G256	0.555	355	0%	80	20%	0	-	-	-	-	HMMPfam_Myotub-related,superfamily_(Phosphotyrosine protein) phosphatases II
MTMR8	55613	genome.wustl.edu	37	X	63579382	63579382	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_017677.3	-1	reviewed	p.R17H	1.000	371	0%	68	17.6%	0	-	unknown(0)	deleterious(0.02)	-	superfamily_PH domain-like
ZC3H12B	340554	genome.wustl.edu	37	X	64719832	64719832	+	Silent	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001010888.3	+1	reviewed	p.P340	0.577	284	0%	71	14.1%	0	-	-	-	-	NULL
ZC3H12B	340554	genome.wustl.edu	37	X	64722148	64722148	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001010888.3	+1	reviewed	p.H513Y	1.000	157	0%	43	18.6%	0	-	probably_damaging(0.991)	deleterious(0)	deleterious(0.889)	NULL
ZC3H12B	340554	genome.wustl.edu	37	X	64722234	64722234	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001010888.3	+1	reviewed	p.F541	0.999	78	0%	39	25.6%	0	-	-	-	-	NULL
ZC3H12B	340554	genome.wustl.edu	37	X	64722314	64722314	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001010888.3	+1	reviewed	p.P568H	1.000	71	0%	36	16.7%	1	0%	possibly_damaging(0.927)	deleterious(0.04)	deleterious(0.724)	NULL
ZC3H12B	340554	genome.wustl.edu	37	X	64722693	64722693	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001010888.3	+1	reviewed	p.S694	0.987	90	0%	40	15%	0	-	-	-	-	NULL
LAS1L	81887	genome.wustl.edu	37	X	64737868	64737868	+	Silent	SNP	T	T	C	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_031206.4	-1	validated	p.S642	0.994	320	0%	146	13.7%	49	42.8%	-	-	-	NULL
MSN	4478	genome.wustl.edu	37	X	64951737	64951737	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_002444.2	+1	reviewed	p.D197Y	1.000	380	0%	158	17.7%	38	0%	probably_damaging(1)	deleterious(0)	deleterious(0.945)	PatternScan_FERM_2,HMMPfam_FERM_M,superfamily_FERM_3-hlx,HMMSmart_B41
MSN	4478	genome.wustl.edu	37	X	64957091	64957091	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_002444.2	+1	reviewed	p.R381H	1.000	76	0%	14	50%	44	0%	possibly_damaging(0.861)	tolerated(0.41)	neutral(0.348)	HMMPfam_ERM
LOC100288788	100288788	genome.wustl.edu	37	X	65176812	65176812	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	XM_002343822.1	-1	model	p.G76V	1.000	225	0%	77	14.3%	2	0%	-	-	-	HMMPfam_RRM_1,HMMSmart_SM00360,HMMSmart_SM00361,superfamily_RNA-binding domain RBD
HEPH	9843	genome.wustl.edu	37	X	65393595	65393595	+	Nonsense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_138737.3	+1	reviewed	p.R196*	0.998	183	0%	34	23.5%	4	0%	-	-	-	superfamily_Cupredoxins
HEPH	9843	genome.wustl.edu	37	X	65408257	65408257	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_138737.3	+1	reviewed	p.L231I	1.000	279	0%	193	24.4%	5	0%	possibly_damaging(0.812)	tolerated(0.44)	neutral(0.318)	superfamily_Cupredoxins
AR	367	genome.wustl.edu	37	X	66905929	66905929	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_000044.2	+1	reviewed	p.R616C	1.000	346	0%	95	23.2%	1	0%	possibly_damaging(0.936)	deleterious(0)	deleterious(0.826)	HMMPfam_zf-C4,HMMSmart_SM00399,superfamily_Glucocorticoid receptor-like (DNA-binding domain)
OPHN1	4983	genome.wustl.edu	37	X	67421493	67421493	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_002547.2	-1	reviewed	p.K331N	1.000	345	0%	73	13.7%	0	-	probably_damaging(1)	deleterious(0)	deleterious(0.945)	HMMPfam_PH,HMMSmart_PH,superfamily_SSF50729
YIPF6	286451	genome.wustl.edu	37	X	67738635	67738635	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_173834.2	+1	provisional	p.L97I	1.000	1249	0%	753	22.6%	9	0%	probably_damaging(0.986)	tolerated(0.11)	deleterious(0.706)	HMMPfam_Yip1
PJA1	64219	genome.wustl.edu	37	X	68381999	68381999	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_145119.3	-1	reviewed	p.C361	0.000	128	0%	198	30.8%	2	0%	-	-	-	NULL
PJA1	64219	genome.wustl.edu	37	X	68382137	68382137	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_145119.3	-1	reviewed	p.G315	0.003	94	0%	142	28.9%	6	0%	-	-	-	NULL
EDA	1896	genome.wustl.edu	37	X	68840748	68840748	+	Missense_Mutation	SNP	T	T	G	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001005612.1	+1	reviewed	p.F135L	0.993	530	0%	633	24.6%	0	-	unknown(0)	-	-	NULL
AWAT2	158835	genome.wustl.edu	37	X	69261811	69261811	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001002254.1	-1	reviewed	p.V283	0.660	231	0%	101	26.7%	0	-	-	-	-	HMMPfam_DAGAT
AWAT2	158835	genome.wustl.edu	37	X	69263346	69263346	+	Nonsense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001002254.1	-1	reviewed	p.E152*	1.000	162	0%	65	10.8%	0	-	-	-	-	HMMPfam_DAGAT
OTUD6A	139562	genome.wustl.edu	37	X	69283052	69283052	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_207320.1	+1	provisional	p.S226	0.029	32	0%	46	26.1%	0	-	-	-	-	HMMPfam_OTU,superfamily_SSF54001
IGBP1	3476	genome.wustl.edu	37	X	69385711	69385711	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001551.2	+1	reviewed	p.Q300H	0.148	591	0%	209	20.1%	188	0%	benign(0.3)	tolerated(0.1)	neutral(0.379)	HMMPfam_TAP42
P2RY4	5030	genome.wustl.edu	37	X	69479140	69479140	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_002565.3	-1	reviewed	p.R112H	1.000	141	0.7%	115	11.3%	0	-	probably_damaging(1)	deleterious(0)	deleterious(0.945)	HMMPfam_7tm_1,superfamily_SSF81321
ARR3	407	genome.wustl.edu	37	X	69495979	69495979	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_004312.2	+1	validated	p.E65K	1.000	176	0%	119	25.2%	0	-	benign(0.123)	deleterious(0)	neutral(0.455)	HMMPfam_Arrestin_N,superfamily_E set domains,PatternScan_ARRESTINS
RAB41	347517	genome.wustl.edu	37	X	69502432	69502432	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001032726.2	+1	reviewed	p.C58	0.003	160	0%	166	26.5%	0	-	-	-	-	HMMSmart_SM00176,HMMSmart_SM00173,HMMSmart_SM00174,HMMSmart_SM00175,HMMPfam_Ras,superfamily_P-loop containing nucleoside triphosphate hydrolases
RAB41	347517	genome.wustl.edu	37	X	69503875	69503875	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001032726.2	+1	reviewed	p.T177	0.938	307	0%	327	21.1%	1	0%	-	-	-	HMMSmart_SM00176,HMMSmart_SM00173,HMMSmart_SM00174,HMMSmart_SM00175,HMMPfam_Ras,superfamily_P-loop containing nucleoside triphosphate hydrolases
KIF4A	24137	genome.wustl.edu	37	X	69550094	69550094	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_012310.4	+1	reviewed	p.R328H	1.000	361	0.3%	110	14.5%	3	0%	probably_damaging(0.989)	deleterious(0)	deleterious(0.884)	HMMPfam_Kinesin,HMMSmart_SM00129,superfamily_P-loop containing nucleoside triphosphate hydrolases
KIF4A	24137	genome.wustl.edu	37	X	69573511	69573511	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_012310.4	+1	reviewed	p.A510T	0.476	132	0%	156	10.3%	1	100%	benign(0.001)	tolerated(0.46)	neutral(0.012)	NULL
KIF4A	24137	genome.wustl.edu	37	X	69615612	69615612	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_012310.4	+1	reviewed	p.A775V	1.000	184	0%	65	27.7%	4	0%	probably_damaging(1)	tolerated(0.25)	deleterious(0.537)	NULL
GDPD2	54857	genome.wustl.edu	37	X	69649822	69649822	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_017711.3	+1	reviewed	p.R406C	0.982	180	0%	231	20.8%	0	-	possibly_damaging(0.707)	deleterious(0)	deleterious(0.700)	HMMPfam_GDPD,superfamily_PLC-like_Pdiesterase_TIM-brl
GDPD2	54857	genome.wustl.edu	37	X	69652917	69652917	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_017711.3	+1	reviewed	p.N534S	0.989	296	0.3%	460	23.5%	0	-	benign(0)	deleterious(0)	neutral(0.445)	NULL
DLG3	1741	genome.wustl.edu	37	X	69712110	69712110	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_021120.3	+1	reviewed	p.I558	0.045	183	0%	69	31.9%	1	0%	-	-	-	HMMPfam_SH3_1,HMMSmart_SM00326,superfamily_SH3-domain
DLG3	1741	genome.wustl.edu	37	X	69713227	69713227	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_020730.2	+1	reviewed	p.S255L	1.000	314	0%	132	17.4%	6	0%	benign(0)	tolerated(0.45)	neutral(0.012)	superfamily_SH3-domain
SLC7A3	84889	genome.wustl.edu	37	X	70145725	70145725	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001048164.2	-1	reviewed	p.R600C	0.000	606	0%	363	25.1%	4	0%	benign(0.289)	tolerated(0.05)	neutral(0.434)	NULL
SLC7A3	84889	genome.wustl.edu	37	X	70149682	70149682	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001048164.2	-1	reviewed	p.E56K	0.996	106	0%	73	28.8%	0	-	benign(0.212)	deleterious(0.02)	neutral(0.404)	HMMPfam_AA_permease
SLC7A3	84889	genome.wustl.edu	37	X	70149798	70149798	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001048164.2	-1	reviewed	p.R17H	0.999	50	0%	62	32.3%	0	-	benign(0.083)	tolerated(0.19)	neutral(0.056)	NULL
SNX12	29934	genome.wustl.edu	37	X	70280890	70280890	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_013346.2	-1	reviewed	p.Y155	1.000	256	0%	220	27.3%	16	0%	-	-	-	NULL
FOXO4	4303	genome.wustl.edu	37	X	70320825	70320825	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_005938.3	+1	reviewed	p.E249K	0.960	69	4.3%	48	25%	3	0%	probably_damaging(0.996)	deleterious(0.04)	deleterious(0.810)	NULL
FOXO4	4303	genome.wustl.edu	37	X	70321041	70321041	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_005938.3	+1	reviewed	p.R321W	0.229	54	0%	37	29.7%	10	0%	probably_damaging(0.999)	deleterious(0)	deleterious(0.935)	NULL
FOXO4	4303	genome.wustl.edu	37	X	70321261	70321261	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_005938.3	+1	reviewed	p.P394L	0.109	54	0%	45	13.3%	24	8.3%	probably_damaging(0.974)	deleterious(0.02)	deleterious(0.799)	NULL
IL2RG	3561	genome.wustl.edu	37	X	70327598	70327598	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_000206.2	-1	reviewed	p.K366	0.423	249	0%	164	20.1%	149	0%	-	-	-	NULL
MED12	9968	genome.wustl.edu	37	X	70339977	70339977	+	Silent	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_005120.2	+1	reviewed	p.I170	0.008	209	0.5%	161	14.3%	0	-	-	-	-	NULL
MED12	9968	genome.wustl.edu	37	X	70344918	70344918	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_005120.2	+1	reviewed	p.E716D	0.998	130	0%	106	12.3%	0	-	benign(0)	tolerated(0.6)	neutral(0.004)	NULL
MED12	9968	genome.wustl.edu	37	X	70349661	70349661	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_005120.2	+1	reviewed	p.L1275M	1.000	100	0%	76	31.6%	4	0%	probably_damaging(1)	deleterious(0)	deleterious(0.945)	NULL
MED12	9968	genome.wustl.edu	37	X	70357179	70357179	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	ENST00000444034	+1	known	p.T119I	1.000	83	0%	86	24.4%	33	0%	-	-	-	NULL
NLGN3	54413	genome.wustl.edu	37	X	70368735	70368735	+	Missense_Mutation	SNP	A	A	C	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	ENST00000358741	+1	known	p.K166T	1.000	204	0%	291	20.6%	0	-	benign(0.134)	deleterious(0.04)	neutral(0.360)	HMMPfam_COesterase,superfamily_alpha/beta-Hydrolases
NLGN3	54413	genome.wustl.edu	37	X	70389378	70389378	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_018977.3	+1	reviewed	p.R640C	1.000	118	0%	156	19.2%	0	-	probably_damaging(0.979)	tolerated(0.17)	deleterious(0.481)	NULL
ZMYM3	9203	genome.wustl.edu	37	X	70467260	70467260	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_005096.3	-1	reviewed	p.R750H	1.000	72	0%	89	10.1%	3	0%	probably_damaging(0.995)	tolerated(0.06)	deleterious(0.780)	HMMPfam_zf-FCS,HMMSmart_SM00746
ZMYM3	9203	genome.wustl.edu	37	X	70468048	70468048	+	Nonsense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_005096.3	-1	reviewed	p.R647*	1.000	174	0%	199	12.6%	3	0%	-	-	-	HMMPfam_zf-FCS,HMMSmart_SM00746
NONO	4841	genome.wustl.edu	37	X	70514186	70514186	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001145408.1	+1	reviewed	p.R153Q	0.997	347	0%	112	40.2%	80	0%	benign(0.127)	deleterious(0.02)	neutral(0.394)	HMMPfam_RRM_1,HMMSmart_SM00360,superfamily_RNA-binding domain RBD
NONO	4841	genome.wustl.edu	37	X	70516825	70516825	+	Nonsense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001145408.1	+1	reviewed	p.E291*	1.000	159	0%	65	13.8%	92	0%	-	-	-	NULL
TAF1	6872	genome.wustl.edu	37	X	70587942	70587942	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_004606.3	+1	reviewed	p.D112Y	1.000	359	0%	306	19.3%	1	100%	probably_damaging(1)	deleterious(0)	deleterious(0.945)	NULL
TAF1	6872	genome.wustl.edu	37	X	70598836	70598836	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_004606.3	+1	reviewed	p.P459S	1.000	263	0.4%	136	30.1%	0	-	probably_damaging(1)	deleterious(0.01)	deleterious(0.905)	NULL
TAF1	6872	genome.wustl.edu	37	X	70601671	70601671	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_004606.3	+1	reviewed	p.R500H	1.000	403	0%	137	19%	0	-	probably_damaging(0.998)	tolerated(0.09)	deleterious(0.771)	NULL
TAF1	6872	genome.wustl.edu	37	X	70608637	70608637	+	Silent	SNP	G	G	A	rs193301279	by1000genomes	TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_004606.3	+1	reviewed	p.T893	0.971	567	0%	181	19.3%	3	0%	-	-	-	NULL
TAF1	6872	genome.wustl.edu	37	X	70617243	70617243	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_004606.3	+1	reviewed	p.C1203R	1.000	273	0%	111	17.1%	2	50%	probably_damaging(0.96)	tolerated(0.4)	neutral(0.419)	NULL
TAF1	6872	genome.wustl.edu	37	X	70618465	70618465	+	Nonsense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_004606.3	+1	reviewed	p.R1242*	1.000	536	0.2%	191	26.7%	2	0%	-	-	-	NULL
OGT	8473	genome.wustl.edu	37	X	70775883	70775883	+	Missense_Mutation	SNP	A	A	C	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_181672.2	+1	reviewed	p.N335T	1.000	411	0%	177	21.5%	8	0%	probably_damaging(0.977)	deleterious(0.04)	deleterious(0.768)	HMMPfam_TPR_1,HMMSmart_SM00028,superfamily_TPR-like
ACRC	93953	genome.wustl.edu	37	X	70823821	70823821	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_052957.4	+1	validated	p.S232P	0.530	398	0%	141	24.1%	0	-	unknown(0)	tolerated(0.12)	-	NULL
ACRC	93953	genome.wustl.edu	37	X	70830602	70830602	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_052957.4	+1	validated	p.E561	0.050	174	0%	177	10.2%	1	0%	-	-	-	HMMSmart_SM00731,HMMPfam_SprT-like
CXCR3	2833	genome.wustl.edu	37	X	70836820	70836820	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001504.1	-1	reviewed	p.V168M	0.893	46	0%	91	11%	12	0%	probably_damaging(0.997)	deleterious(0.01)	deleterious(0.872)	HMMPfam_7tm_1,superfamily_Family A G protein-coupled receptor-like
LOC100288033	100288033	genome.wustl.edu	37	X	70887939	70887939	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	XM_002343818.1	+1	model	p.A96T	0.001	85	0%	129	18.6%	0	-	-	-	-	NULL
RGAG4	340526	genome.wustl.edu	37	X	71350446	71350446	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001024455.3	-1	validated	p.K315N	0.994	230	0%	379	28.5%	4	0%	probably_damaging(0.994)	deleterious(0.01)	deleterious(0.858)	NULL
NHSL2	340527	genome.wustl.edu	37	X	71354482	71354482	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	ENST00000510661	+1	known	p.P43S	1.000	105	0%	143	29.4%	2	0%	probably_damaging(0.996)	deleterious(0)	deleterious(0.906)	NULL
NHSL2	340527	genome.wustl.edu	37	X	71359300	71359300	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001013627.2	+1	provisional	p.F268L	1.000	160	0%	141	13.5%	0	-	possibly_damaging(0.882)	deleterious(0.03)	deleterious(0.709)	NULL
NHSL2	340527	genome.wustl.edu	37	X	71359701	71359701	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001013627.2	+1	provisional	p.R402Q	0.012	257	0%	203	20.7%	0	-	probably_damaging(0.994)	tolerated(0.1)	deleterious(0.738)	NULL
FLJ44635	392490	genome.wustl.edu	37	X	71379777	71379777	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_207422.2	+1	validated	p.R33H	0.947	358	0%	144	22.9%	0	-	-	-	-	HMMPfam_TCTP,superfamily_Mss4_like
ERCC6L	54821	genome.wustl.edu	37	X	71424983	71424983	+	Nonsense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_017669.2	-1	validated	p.E1212*	0.998	408	0%	120	20.8%	7	71.4%	-	-	-	NULL
ERCC6L	54821	genome.wustl.edu	37	X	71427126	71427126	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_017669.2	-1	validated	p.K497N	0.995	267	0%	54	29.6%	0	-	benign(0.104)	tolerated(0.09)	neutral(0.304)	HMMPfam_Helicase_C,HMMSmart_HELICc,superfamily_SSF52540
CITED1	4435	genome.wustl.edu	37	X	71522667	71522667	+	Nonsense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	ENST00000429794	-1	known	p.R18*	0.065	184	0%	282	27.7%	1	0%	benign(0)	tolerated(0.24)	neutral(0.037)	NULL
PHKA1	5255	genome.wustl.edu	37	X	71812995	71812995	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_002637.3	-1	reviewed	p.P1068S	0.984	381	0%	85	25.9%	3	33.3%	probably_damaging(1)	deleterious(0.01)	deleterious(0.905)	HMMPfam_PHK_AB
PHKA1	5255	genome.wustl.edu	37	X	71830892	71830892	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_002637.3	-1	reviewed	p.E838K	1.000	212	0%	43	23.3%	1	0%	probably_damaging(0.973)	tolerated(0.05)	deleterious(0.760)	HMMPfam_PHK_AB
CDX4	1046	genome.wustl.edu	37	X	72667577	72667577	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_005193.1	+1	provisional	p.T163M	0.988	7	0.000	18	0.222	0	-	probably_damaging(1)	deleterious(0.01)	deleterious(0.905)	HMMPfam_Caudal_act
CDX4	1046	genome.wustl.edu	37	X	72673379	72673379	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_005193.1	+1	provisional	p.R177C	1.000	293	0%	253	17.8%	0	-	probably_damaging(1)	deleterious(0)	deleterious(0.945)	HMMPfam_Homeobox,HMMSmart_SM00389,superfamily_Homeodomain-like
ZCCHC13	389874	genome.wustl.edu	37	X	73524329	73524329	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_203303.2	+1	reviewed	p.I76	0.993	143	0%	112	17%	0	-	-	-	-	HMMPfam_zf-CCHC,HMMSmart_ZnF_C2HC,superfamily_SSF57756
SLC16A2	6567	genome.wustl.edu	37	X	73744255	73744255	+	Missense_Mutation	SNP	T	T	G	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_006517.3	+1	reviewed	p.F287V	1.000	206	0%	112	26.8%	2	0%	benign(0.194)	deleterious(0.01)	neutral(0.424)	HMMPfam_MFS_1,superfamily_MFS_gen_substrate_transporter
SLC16A2	6567	genome.wustl.edu	37	X	73749147	73749147	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_006517.3	+1	reviewed	p.D498N	1.000	484	0.2%	341	27.6%	1	0%	probably_damaging(0.965)	deleterious(0)	deleterious(0.851)	HMMPfam_MFS_1,superfamily_MFS_gen_substrate_transporter
RLIM	51132	genome.wustl.edu	37	X	73811556	73811556	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_016120.3	-1	reviewed	p.A532T	1.000	212	0%	49	26.5%	3	0%	probably_damaging(0.99)	tolerated(0.13)	deleterious(0.694)	NULL
RLIM	51132	genome.wustl.edu	37	X	73812851	73812851	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_016120.3	-1	reviewed	p.D100G	1.000	235	0%	101	23.8%	0	-	probably_damaging(1)	deleterious(0.02)	deleterious(0.883)	NULL
KIAA2022	340533	genome.wustl.edu	37	X	73961201	73961201	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001008537.2	-1	validated	p.R1064H	1.000	220	0%	82	17.1%	0	-	possibly_damaging(0.944)	deleterious(0)	deleterious(0.833)	NULL
KIAA2022	340533	genome.wustl.edu	37	X	73961863	73961863	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001008537.2	-1	validated	p.G843	0.096	230	0%	92	13%	0	-	-	-	-	NULL
ZDHHC15	158866	genome.wustl.edu	37	X	74636953	74636953	+	Missense_Mutation	SNP	T	T	G	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_144969.2	-1	reviewed	p.E312D	0.986	690	0%	435	23.4%	0	-	probably_damaging(0.967)	tolerated(0.42)	neutral(0.423)	NULL
ZDHHC15	158866	genome.wustl.edu	37	X	74641704	74641704	+	Silent	SNP	A	A	G	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_144969.2	-1	reviewed	p.G286	1.000	393	0%	118	12.7%	1	0%	-	-	-	NULL
MAGEE2	139599	genome.wustl.edu	37	X	75003637	75003637	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_138703.4	-1	validated	p.R417H	0.995	175	0.6%	67	26.9%	0	-	benign(0.248)	tolerated(0.18)	neutral(0.081)	HMMPfam_MAGE
MAGEE1	57692	genome.wustl.edu	37	X	75650773	75650773	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_020932.2	+1	reviewed	p.R817Q	0.160	117	0%	217	27.6%	3	66.6%	possibly_damaging(0.802)	tolerated(0.16)	neutral(0.361)	HMMPfam_MAGE
FGF16	8823	genome.wustl.edu	37	X	76711875	76711875	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_003868.1	+1	reviewed	p.T72M	1.000	213	0%	153	26.8%	0	-	-	-	-	NULL
ATRX	546	genome.wustl.edu	37	X	76849199	76849199	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_000489.3	-1	reviewed	p.I2026T	1.000	262	0%	119	36.1%	0	-	probably_damaging(0.977)	deleterious(0)	deleterious(0.863)	superfamily_P-loop containing nucleoside triphosphate hydrolases
ATRX	546	genome.wustl.edu	37	X	76891465	76891465	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_000489.3	-1	reviewed	p.E1547G	1.000	452	0%	168	24.4%	8	0%	probably_damaging(1)	deleterious(0.01)	deleterious(0.905)	superfamily_P-loop containing nucleoside triphosphate hydrolases
ATRX	546	genome.wustl.edu	37	X	76907825	76907825	+	Nonsense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_000489.3	-1	reviewed	p.E1446*	0.095	340	0%	83	18.1%	5	0%	-	-	-	superfamily_P-loop containing nucleoside triphosphate hydrolases
ATRX	546	genome.wustl.edu	37	X	76909625	76909625	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_000489.3	-1	reviewed	p.R1427H	1.000	766	0.3%	174	11.5%	10	0%	probably_damaging(0.999)	tolerated(0.21)	deleterious(0.534)	NULL
ATRX	546	genome.wustl.edu	37	X	76920258	76920258	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_000489.3	-1	reviewed	p.K1273	1.000	504	0%	151	21.9%	6	0%	-	-	-	NULL
ATRX	546	genome.wustl.edu	37	X	76937084	76937084	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_000489.3	-1	reviewed	p.D1222N	1.000	394	0%	81	13.6%	3	0%	probably_damaging(0.999)	deleterious(0.02)	deleterious(0.873)	NULL
ATRX	546	genome.wustl.edu	37	X	76938052	76938052	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_000489.3	-1	reviewed	p.T899M	0.366	396	0%	148	13.5%	3	0%	benign(0.017)	deleterious(0.03)	neutral(0.365)	NULL
ATRX	546	genome.wustl.edu	37	X	76939109	76939109	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_000489.3	-1	reviewed	p.D547N	0.291	193	0%	40	30%	3	0%	benign(0.227)	tolerated(0.38)	neutral(0.040)	NULL
MAGT1	84061	genome.wustl.edu	37	X	77126382	77126382	+	Nonsense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_032121.5	-1	reviewed	p.R137*	1.000	353	0%	143	9.8%	3	0%	-	-	-	HMMPfam_OST3_OST6,superfamily_Thioredoxin-like
ATP7A	538	genome.wustl.edu	37	X	77254024	77254024	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_000052.4	+1	reviewed	p.P462	0.009	351	0%	124	17.7%	0	-	-	-	-	NULL
ZCCHC5	203430	genome.wustl.edu	37	X	77913245	77913245	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_152694.2	-1	reviewed	p.P225S	0.000	111	0%	40	30%	0	-	probably_damaging(0.999)	deleterious(0.02)	deleterious(0.873)	NULL
LPAR4	2846	genome.wustl.edu	37	X	78010836	78010836	+	Missense_Mutation	SNP	T	T	G	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_005296.2	+1	reviewed	p.I157S	1.000	469	0%	214	26.6%	0	-	probably_damaging(0.993)	deleterious(0.03)	deleterious(0.815)	HMMPfam_7tm_1,superfamily_Family A G protein-coupled receptor-like
LPAR4	2846	genome.wustl.edu	37	X	78011073	78011073	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_005296.2	+1	reviewed	p.T236I	0.976	321	0%	208	20.7%	0	-	probably_damaging(0.997)	deleterious(0.01)	deleterious(0.872)	HMMPfam_7tm_1,superfamily_Family A G protein-coupled receptor-like
LPAR4	2846	genome.wustl.edu	37	X	78011180	78011180	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_005296.2	+1	reviewed	p.Y272H	0.998	480	0%	281	13.2%	0	-	probably_damaging(1)	deleterious(0.03)	deleterious(0.865)	HMMPfam_7tm_1,superfamily_Family A G protein-coupled receptor-like
TBX22	50945	genome.wustl.edu	37	X	79277784	79277784	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001109878.1	+1	reviewed	p.R6W	0.999	181	0%	59	16.9%	0	-	probably_damaging(1)	deleterious(0)	deleterious(0.945)	NULL
TBX22	50945	genome.wustl.edu	37	X	79282759	79282759	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001109878.1	+1	reviewed	p.T268M	1.000	194	0%	51	11.8%	0	-	probably_damaging(1)	deleterious(0)	deleterious(0.945)	HMMPfam_T-box,HMMSmart_TBOX,superfamily_P53_like_DNA_bnd
FAM46D	169966	genome.wustl.edu	37	X	79698381	79698381	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_152630.4	+1	validated	p.D115N	1.000	188	0%	70	25.7%	0	-	benign(0)	tolerated(0.2)	neutral(0.049)	HMMPfam_DUF1693
FAM46D	169966	genome.wustl.edu	37	X	79699041	79699041	+	Nonsense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_152630.4	+1	validated	p.E335*	1.000	240	0%	77	19.5%	0	-	-	-	-	NULL
BRWD3	254065	genome.wustl.edu	37	X	79973127	79973127	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_153252.4	-1	reviewed	p.L726I	1.000	506	0%	516	12.2%	2	0%	probably_damaging(0.999)	tolerated(0.07)	deleterious(0.809)	NULL
HMGN5	79366	genome.wustl.edu	37	X	80370453	80370453	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_030763.2	-1	reviewed	p.G182R	0.000	1490	0%	847	21.3%	19	89.4%	unknown(0)	tolerated(0.24)	-	NULL
POU3F4	5456	genome.wustl.edu	37	X	82764109	82764109	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_000307.3	+1	reviewed	p.A259	0.009	39	0%	63	28.6%	0	-	-	-	-	HMMPfam_Pou,HMMSmart_POU,superfamily_Lambda_like_DNA
RPS6KA6	27330	genome.wustl.edu	37	X	83319323	83319323	+	Nonsense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_014496.4	-1	reviewed	p.R734*	1.000	350	0%	100	18%	0	-	-	-	-	NULL
RPS6KA6	27330	genome.wustl.edu	37	X	83400517	83400517	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_014496.4	-1	reviewed	p.G157E	1.000	303	0%	59	15.3%	0	-	probably_damaging(1)	deleterious(0)	deleterious(0.945)	HMMSmart_SM00219,HMMSmart_SM00220,superfamily_Protein kinase-like (PK-like),HMMPfam_Pkinase
HDX	139324	genome.wustl.edu	37	X	83723625	83723625	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_144657.4	-1	validated	p.R369I	1.000	549	0%	182	20.3%	2	0%	probably_damaging(0.998)	deleterious(0)	deleterious(0.919)	NULL
APOOL	139322	genome.wustl.edu	37	X	84310865	84310865	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_198450.4	+1	validated	p.D110Y	1.000	523	0%	108	12%	1	0%	probably_damaging(0.999)	deleterious(0.01)	deleterious(0.896)	HMMPfam_ApoO
APOOL	139322	genome.wustl.edu	37	X	84310876	84310876	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_198450.4	+1	validated	p.P113	0.015	531	0%	109	21.1%	1	100%	-	-	-	HMMPfam_ApoO
APOOL	139322	genome.wustl.edu	37	X	84342677	84342677	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_198450.4	+1	validated	p.R267I	1.000	218	0%	94	30.9%	6	0%	probably_damaging(0.986)	deleterious(0)	deleterious(0.879)	NULL
CHM	1121	genome.wustl.edu	37	X	85218762	85218762	+	Nonsense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_000390.2	-1	reviewed	p.E204*	0.022	425	0%	269	11.9%	0	-	-	-	-	HMMPfam_GDI,superfamily_SSF51905
CHM	1121	genome.wustl.edu	37	X	85302493	85302493	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_000390.2	-1	reviewed	p.G15E	1.000	208	0%	194	17%	0	-	probably_damaging(1)	deleterious(0)	deleterious(0.945)	HMMPfam_GDI,superfamily_SSF51905
DACH2	117154	genome.wustl.edu	37	X	85403894	85403894	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_053281.3	+1	reviewed	p.C90	1.000	97	0%	169	26%	0	-	-	-	-	HMMPfam_Ski_Sno,superfamily_Putative DNA-binding domain
DACH2	117154	genome.wustl.edu	37	X	85404096	85404096	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_053281.3	+1	reviewed	p.D158N	1.000	101	0%	160	28.7%	0	-	probably_damaging(1)	deleterious(0)	deleterious(0.945)	HMMPfam_Ski_Sno,superfamily_Putative DNA-binding domain
DACH2	117154	genome.wustl.edu	37	X	86068000	86068000	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_053281.3	+1	reviewed	p.N461S	1.000	200	0%	38	34.2%	0	-	probably_damaging(1)	deleterious(0)	deleterious(0.945)	NULL
CPXCR1	53336	genome.wustl.edu	37	X	88008449	88008449	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_033048.5	+1	validated	p.A12T	0.000	108	0%	78	24.4%	0	-	benign(0.313)	tolerated(0.09)	neutral(0.394)	NULL
CPXCR1	53336	genome.wustl.edu	37	X	88009014	88009014	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_033048.5	+1	validated	p.S200L	0.011	163	0%	110	20.9%	0	-	benign(0)	tolerated(1)	-	NULL
CPXCR1	53336	genome.wustl.edu	37	X	88009116	88009116	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_033048.5	+1	validated	p.R234M	0.019	209	0%	95	24.2%	0	-	benign(0.354)	deleterious(0)	deleterious(0.556)	NULL
PABPC5	140886	genome.wustl.edu	37	X	90690813	90690813	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_080832.2	+1	reviewed	p.M79I	1.000	85	0%	111	28.8%	0	-	possibly_damaging(0.748)	deleterious(0)	deleterious(0.719)	HMMPfam_RRM_1,HMMSmart_SM00360,superfamily_RNA-binding domain RBD
PABPC5	140886	genome.wustl.edu	37	X	90691132	90691132	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_080832.2	+1	reviewed	p.R186W	1.000	99	1%	142	17.6%	0	-	probably_damaging(1)	deleterious(0)	deleterious(0.945)	superfamily_RNA-binding domain RBD
PCDH11X	27328	genome.wustl.edu	37	X	91090850	91090850	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_032968.3	+1	reviewed	p.P116L	1.000	802	0%	264	18.9%	0	-	probably_damaging(1)	tolerated(0.06)	deleterious(0.823)	HMMPfam_Cadherin_2
PCDH11X	27328	genome.wustl.edu	37	X	91133598	91133598	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_032968.3	+1	reviewed	p.R787C	0.926	277	0%	124	25.8%	0	-	probably_damaging(0.998)	tolerated(0.12)	deleterious(0.735)	HMMPfam_Protocadherin
DIAPH2	1730	genome.wustl.edu	37	X	96204003	96204003	+	Nonsense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_006729.4	+1	reviewed	p.E527*	1.000	230	0%	59	22%	3	0%	-	-	-	NULL
DIAPH2	1730	genome.wustl.edu	37	X	96354732	96354732	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_006729.4	+1	reviewed	p.E763K	0.991	405	0%	187	11.2%	7	0%	possibly_damaging(0.916)	tolerated(0.98)	neutral(0.367)	HMMSmart_SM00498,HMMPfam_FH2,superfamily_Formin homology 2 domain (FH2 domain)
DIAPH2	1730	genome.wustl.edu	37	X	96684716	96684716	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_006729.4	+1	reviewed	p.D1071	1.000	295	0%	84	14.3%	14	0%	-	-	-	HMMSmart_SM00498
PCDH19	57526	genome.wustl.edu	37	X	99551653	99551653	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001105243.1	-1	reviewed	p.S976	0.103	160	0%	51	35.3%	0	-	-	-	-	NULL
PCDH19	57526	genome.wustl.edu	37	X	99663469	99663469	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001105243.1	-1	reviewed	p.A43T	1.000	20	0%	58	20.7%	0	-	benign(0.003)	tolerated(0.08)	neutral(0.300)	HMMPfam_Cadherin_2,superfamily_Cadherin
SRPX2	27286	genome.wustl.edu	37	X	99917314	99917314	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_014467.2	+1	reviewed	p.S102L	0.988	186	1.1%	76	23.7%	2	0%	possibly_damaging(0.803)	tolerated(0.2)	neutral(0.351)	HMMPfam_Sushi,HMMSmart_CCP,superfamily_Complement_control_module
SRPX2	27286	genome.wustl.edu	37	X	99920591	99920591	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_014467.2	+1	reviewed	p.R240C	1.000	189	0%	64	32.8%	6	0%	probably_damaging(1)	deleterious(0.01)	deleterious(0.905)	HMMPfam_HYR
CSTF2	1478	genome.wustl.edu	37	X	100075442	100075442	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001325.2	+1	reviewed	p.R13C	1.000	175	0%	149	18.8%	3	0%	probably_damaging(1)	deleterious(0)	deleterious(0.945)	superfamily_RNA-binding domain RBD
CSTF2	1478	genome.wustl.edu	37	X	100088274	100088274	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001325.2	+1	reviewed	p.R438H	0.061	154	0.6%	79	27.8%	9	0%	probably_damaging(0.997)	deleterious(0)	deleterious(0.911)	NULL
NOX1	27035	genome.wustl.edu	37	X	100118513	100118513	+	Silent	SNP	C	C	G	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_007052.4	-1	reviewed	p.V71	0.995	165	0%	103	10.7%	0	-	-	-	-	HMMPfam_Ferric_reduct
TRMT2B	79979	genome.wustl.edu	37	X	100274035	100274035	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_024917.5	-1	reviewed	p.R438Q	0.363	438	0%	154	11%	2	0%	probably_damaging(0.992)	deleterious(0)	deleterious(0.892)	superfamily_S-adenosyl-L-methionine-dependent methyltransferases
CENPI	2491	genome.wustl.edu	37	X	100375409	100375409	+	Missense_Mutation	SNP	T	T	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_006733.2	+1	reviewed	p.L204M	0.902	601	0%	168	16.7%	0	-	probably_damaging(0.999)	deleterious(0.02)	deleterious(0.873)	HMMPfam_Mis6
CENPI	2491	genome.wustl.edu	37	X	100375728	100375728	+	Silent	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_006733.2	+1	reviewed	p.V214	1.000	574	0%	149	22.1%	0	-	-	-	-	HMMPfam_Mis6
TAF7L	54457	genome.wustl.edu	37	X	100547928	100547928	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_024885.3	-1	reviewed	p.D36N	0.000	262	1.1%	364	27.7%	0	-	probably_damaging(0.958)	deleterious(0)	deleterious(0.846)	NULL
HNRNPH2	3188	genome.wustl.edu	37	X	100668079	100668079	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001032393.1	+1	reviewed	p.S368N	0.068	281	0%	222	28.4%	43	0%	benign(0.202)	tolerated(0.37)	neutral(0.038)	superfamily_RNA-binding domain RBD
ZMAT1	84460	genome.wustl.edu	37	X	101139431	101139431	+	Missense_Mutation	SNP	T	T	G	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001011657.2	-1	reviewed	p.K323T	0.350	347	0%	113	10.6%	3	0%	possibly_damaging(0.895)	tolerated(0.21)	neutral(0.397)	NULL
ZMAT1	84460	genome.wustl.edu	37	X	101139622	101139622	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001011657.2	-1	reviewed	p.V259	0.000	577	0%	157	26.1%	2	100%	-	-	-	NULL
NXF2B	728343	genome.wustl.edu	37	X	101620156	101620156	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001099686.1	-1	provisional	p.K430N	0.034	413	0%	165	18.8%	0	-	benign(0.003)	tolerated(0.49)	neutral(0.011)	HMMPfam_NTF2,superfamily_SSF54427
NXF2B	728343	genome.wustl.edu	37	X	101624599	101624599	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001099686.1	-1	provisional	p.R98C	0.000	611	0.2%	340	9.4%	0	-	benign(0)	tolerated(0.09)	neutral(0.296)	NULL
GPRASP1	9737	genome.wustl.edu	37	X	101909434	101909434	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001099410.1	+1	reviewed	p.S198Y	0.000	89	0%	138	24.6%	2	0%	probably_damaging(0.994)	deleterious(0)	deleterious(0.897)	NULL
GPRASP1	9737	genome.wustl.edu	37	X	101910935	101910935	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001099410.1	+1	reviewed	p.E698D	0.796	201	0%	273	12.5%	0	-	benign(0.252)	tolerated(0.5)	neutral(0.036)	NULL
GPRASP1	9737	genome.wustl.edu	37	X	101912263	101912263	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001099410.1	+1	reviewed	p.S1141Y	0.061	289	0%	281	11.7%	5	0%	probably_damaging(0.999)	deleterious(0)	deleterious(0.935)	NULL
NXF3	56000	genome.wustl.edu	37	X	102331221	102331221	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_022052.1	-1	reviewed	p.S531	0.000	208	0%	144	20.1%	3	0%	-	-	-	NULL
BEX2	84707	genome.wustl.edu	37	X	102564541	102564541	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_032621.3	-1	reviewed	p.D122N	0.698	364	0%	519	27.6%	16	0%	probably_damaging(0.996)	tolerated(0.07)	deleterious(0.780)	HMMPfam_BEX
NGFRAP1	27018	genome.wustl.edu	37	X	102632726	102632726	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_206915.1	+1	validated	p.H103Y	1.000	217	0%	333	12.6%	252	0%	benign(0.021)	deleterious(0.01)	neutral(0.407)	HMMPfam_BEX
MORF4L2	9643	genome.wustl.edu	37	X	102931701	102931701	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001142418.1	-1	validated	p.N85	0.169	170	0%	141	28.4%	71	23.9%	-	-	-	HMMPfam_MRG
TMEM31	203562	genome.wustl.edu	37	X	102967233	102967233	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_182541.2	+1	validated	p.N16S	0.114	503	0%	204	22.1%	4	0%	benign(0.35)	-	-	NULL
TMEM31	203562	genome.wustl.edu	37	X	102968917	102968917	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_182541.2	+1	validated	p.I166	0.002	127	0%	73	19.2%	1	100%	-	-	-	NULL
LOC100287881	100287881	genome.wustl.edu	37	X	102979626	102979626	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	XM_002343835.1	+1	model	p.A81S	0.000	158	0.6%	72	25%	0	-	-	-	-	NULL
PLP1	5354	genome.wustl.edu	37	X	103041430	103041430	+	Silent	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_000533.3	+1	reviewed	p.A76	1.000	193	0%	56	8.9%	0	-	-	-	-	HMMPfam_Myelin_PLP
RAB9B	51209	genome.wustl.edu	37	X	103080470	103080470	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_016370.2	-1	reviewed	p.C82Y	1.000	192	0%	159	25.2%	0	-	probably_damaging(0.977)	deleterious(0)	deleterious(0.863)	HMMSmart_RAB,HMMPfam_Ras,superfamily_SSF52540
MCART6	401612	genome.wustl.edu	37	X	103349151	103349151	+	Nonsense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001012755.3	-1	validated	p.R264*	0.312	73	0%	68	14.7%	0	-	-	-	-	superfamily_Mitochondrial carrier,HMMPfam_Mito_carr
MCART6	401612	genome.wustl.edu	37	X	103349493	103349493	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001012755.3	-1	validated	p.R150C	1.000	97	0%	103	25.2%	0	-	benign(0.013)	tolerated(0.13)	neutral(0.253)	superfamily_Mitochondrial carrier,HMMPfam_Mito_carr
MCART6	401612	genome.wustl.edu	37	X	103349721	103349721	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001012755.3	-1	validated	p.P74S	0.318	118	0%	109	13.8%	0	-	benign(0.22)	deleterious(0.03)	neutral(0.386)	superfamily_Mitochondrial carrier,HMMPfam_Mito_carr
TEX13A	56157	genome.wustl.edu	37	X	104463927	104463927	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	ENST00000413579	-1	known	p.I317V	0.000	608	0%	407	9.8%	0	-	benign(0.11)	tolerated(1)	neutral(0.009)	NULL
IL1RAPL2	26280	genome.wustl.edu	37	X	104984676	104984676	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_017416.1	+1	reviewed	p.R347H	1.000	136	0%	25	28%	0	-	benign(0.024)	tolerated(0.26)	neutral(0.035)	HMMSmart_SM00409
IL1RAPL2	26280	genome.wustl.edu	37	X	105011618	105011618	+	Silent	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_017416.1	+1	reviewed	p.S675	0.993	200	0%	75	10.7%	0	-	-	-	-	NULL
NRK	203447	genome.wustl.edu	37	X	105167345	105167345	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_198465.2	+1	validated	p.A949D	0.002	319	0%	85	18.8%	0	-	benign(0)	tolerated(0.29)	neutral(0.029)	NULL
NRK	203447	genome.wustl.edu	37	X	105168936	105168936	+	Silent	SNP	T	T	C	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_198465.2	+1	validated	p.L1075	0.001	356	0%	94	29.8%	0	-	-	-	-	NULL
MUM1L1	139221	genome.wustl.edu	37	X	105450198	105450198	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	ENST00000337685	+1	known	p.S258N	0.000	162	0%	57	12.3%	2	0%	benign(0.236)	tolerated(0.38)	neutral(0.041)	NULL
MUM1L1	139221	genome.wustl.edu	37	X	105451079	105451079	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	ENST00000337685	+1	known	p.A552S	1.000	195	0%	73	31.5%	5	0%	probably_damaging(0.998)	deleterious(0)	deleterious(0.919)	NULL
MUM1L1	139221	genome.wustl.edu	37	X	105451182	105451182	+	Missense_Mutation	SNP	T	T	G	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	ENST00000337685	+1	known	p.F586C	0.999	166	0%	50	26%	4	0%	probably_damaging(0.999)	deleterious(0)	deleterious(0.935)	NULL
MUM1L1	139221	genome.wustl.edu	37	X	105451273	105451273	+	Silent	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	ENST00000337685	+1	known	p.V616	0.001	138	0%	46	13%	2	0%	-	-	-	NULL
CXorf57	55086	genome.wustl.edu	37	X	105882828	105882828	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_018015.5	+1	validated	p.R549C	0.972	281	0%	139	10.8%	0	-	probably_damaging(1)	deleterious(0)	deleterious(0.945)	NULL
CXorf57	55086	genome.wustl.edu	37	X	105921401	105921401	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_018015.5	+1	validated	p.I827	0.071	385	0%	70	21.4%	0	-	-	-	-	NULL
TBC1D8B	54885	genome.wustl.edu	37	X	106069411	106069411	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_017752.2	+1	validated	p.I327V	0.999	241	0%	44	18.2%	0	-	benign(0)	tolerated(0.31)	neutral(0.027)	HMMPfam_GRAM,HMMSmart_SM00568
RIPPLY1	92129	genome.wustl.edu	37	X	106145432	106145432	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_138382.2	-1	validated	p.W57R	0.994	192	0%	63	23.8%	0	-	probably_damaging(0.996)	deleterious(0)	deleterious(0.906)	NULL
MORC4	79710	genome.wustl.edu	37	X	106184844	106184844	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001085354.2	-1	reviewed	p.A881T	0.972	172	0%	81	17.3%	4	0%	benign(0.038)	-	-	NULL
MORC4	79710	genome.wustl.edu	37	X	106186001	106186001	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_024657.4	-1	reviewed	p.P707H	1.000	355	0%	100	27%	8	0%	probably_damaging(1)	deleterious(0)	deleterious(0.945)	NULL
MORC4	79710	genome.wustl.edu	37	X	106198309	106198309	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_024657.4	-1	reviewed	p.N507D	0.001	389	0%	86	26.7%	1	0%	benign(0)	deleterious(0.04)	neutral(0.349)	NULL
MORC4	79710	genome.wustl.edu	37	X	106228330	106228330	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_024657.4	-1	reviewed	p.R224C	1.000	290	0.3%	89	18%	0	-	probably_damaging(1)	deleterious(0)	deleterious(0.945)	superfamily_ATP_bd_ATPase
MORC4	79710	genome.wustl.edu	37	X	106236470	106236470	+	Nonsense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_024657.4	-1	reviewed	p.R100*	1.000	494	0%	438	20.5%	0	-	-	-	-	HMMPfam_HATPase_c,HMMSmart_HATPase_c,superfamily_ATP_bd_ATPase
FRMPD3	84443	genome.wustl.edu	37	X	106844444	106844444	+	Missense_Mutation	SNP	T	T	G	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	XM_042978.6	+1	model	p.F1092V	0.520	11	0%	57	31.6%	0	-	benign(0.328)	deleterious(0)	deleterious(0.547)	NULL
MID2	11043	genome.wustl.edu	37	X	107169424	107169424	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_012216.3	+1	reviewed	p.S566	1.000	196	0%	117	12%	2	0%	-	-	-	NULL
ATG4A	115201	genome.wustl.edu	37	X	107381199	107381199	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_052936.2	+1	reviewed	p.P238H	1.000	180	0%	63	19%	4	25%	probably_damaging(0.999)	deleterious(0.01)	deleterious(0.896)	HMMPfam_Peptidase_C54
COL4A6	1288	genome.wustl.edu	37	X	107413898	107413898	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001847.2	-1	reviewed	p.S1146F	0.112	220	0%	104	11.5%	1	0%	benign(0.01)	tolerated(0.06)	neutral(0.323)	HMMPfam_Collagen
COL4A6	1288	genome.wustl.edu	37	X	107457403	107457403	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001847.2	-1	reviewed	p.G128V	1.000	116	0%	28	14.3%	2	0%	unknown(0)	deleterious(0)	-	HMMPfam_Collagen
COL4A6	1288	genome.wustl.edu	37	X	107464567	107464567	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001847.2	-1	reviewed	p.G62D	0.988	307	0%	60	15%	1	0%	unknown(0)	deleterious(0)	-	HMMPfam_Collagen
COL4A6	1288	genome.wustl.edu	37	X	107553979	107553979	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001847.2	-1	reviewed	p.R49I	0.998	309	0%	91	23.1%	1	0%	unknown(0)	tolerated(0.17)	-	HMMPfam_Collagen
COL4A5	1287	genome.wustl.edu	37	X	107834336	107834336	+	Missense_Mutation	SNP	G	G	T	rs104886325		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_033380.1	+1	reviewed	p.R405M	1.000	151	0%	26	23.1%	6	0%	unknown(0)	tolerated(0.16)	-	NULL
COL4A5	1287	genome.wustl.edu	37	X	107869459	107869459	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	ENST00000505728	+1	known	p.G120D	0.186	143	0%	23	21.7%	6	0%	-	-	-	HMMPfam_Collagen
IRS4	8471	genome.wustl.edu	37	X	107976281	107976281	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_003604.2	-1	reviewed	p.A1098	0.002	83	0%	145	26.2%	0	-	-	-	-	NULL
IRS4	8471	genome.wustl.edu	37	X	107976872	107976872	+	Silent	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_003604.2	-1	reviewed	p.I901	0.011	479	0%	758	25.9%	0	-	-	-	-	NULL
IRS4	8471	genome.wustl.edu	37	X	107978711	107978711	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_003604.2	-1	reviewed	p.S288	0.451	72	0%	117	13.7%	0	-	-	-	-	HMMPfam_IRS,HMMSmart_PTBI,superfamily_SSF50729
GUCY2F	2986	genome.wustl.edu	37	X	108631813	108631813	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001522.2	-1	reviewed	p.A954V	1.000	205	0%	53	11.3%	0	-	probably_damaging(0.969)	deleterious(0)	deleterious(0.856)	HMMPfam_Guanylate_cyc,HMMSmart_SM00044,superfamily_Adenylyl and guanylyl cyclase catalytic domain
GUCY2F	2986	genome.wustl.edu	37	X	108636151	108636151	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001522.2	-1	reviewed	p.T853M	0.999	712	0%	168	19.6%	0	-	probably_damaging(0.982)	deleterious(0)	deleterious(0.871)	HMMSmart_SM00044
ACSL4	2182	genome.wustl.edu	37	X	108924575	108924575	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_022977.2	-1	reviewed	p.E187K	1.000	402	0%	222	20.3%	1	0%	benign(0.263)	deleterious(0.02)	neutral(0.411)	HMMPfam_AMP-binding,superfamily_Acetyl-CoA synthetase-like
RGAG1	57529	genome.wustl.edu	37	X	109695862	109695862	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_020769.2	+1	validated	p.D673Y	0.972	169	0%	162	11.1%	0	-	possibly_damaging(0.74)	tolerated(0.06)	deleterious(0.594)	NULL
RGAG1	57529	genome.wustl.edu	37	X	109697260	109697260	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_020769.2	+1	validated	p.P1139S	0.996	268	0%	205	27.3%	0	-	probably_damaging(0.996)	tolerated(0.13)	deleterious(0.714)	NULL
RGAG1	57529	genome.wustl.edu	37	X	109697454	109697454	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_020769.2	+1	validated	p.L1203	1.000	398	0%	265	11.7%	0	-	-	-	-	NULL
CHRDL1	91851	genome.wustl.edu	37	X	109964678	109964678	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001143981.1	-1	reviewed	p.L128M	0.997	404	0%	82	32.9%	3	0%	benign(0.004)	tolerated(0.26)	neutral(0.034)	HMMPfam_VWC,HMMSmart_SM00214
CHRDL1	91851	genome.wustl.edu	37	X	110006035	110006035	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001143981.1	-1	reviewed	p.H32R	1.000	310	0%	94	33%	2	0%	possibly_damaging(0.545)	tolerated(0.43)	neutral(0.199)	NULL
CAPN6	827	genome.wustl.edu	37	X	110497577	110497577	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_014289.3	-1	reviewed	p.T74A	1.000	187	0%	96	22.9%	4	0%	benign(0.005)	tolerated(0.27)	neutral(0.034)	HMMPfam_Peptidase_C2,HMMSmart_CysPc,superfamily_SSF54001
ALG13	79868	genome.wustl.edu	37	X	110925471	110925471	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_018466.4	+1	reviewed	p.D65Y	1.000	421	0%	436	12.8%	10	20%	probably_damaging(0.998)	deleterious(0.01)	deleterious(0.880)	HMMPfam_Glyco_tran_28_C,superfamily_UDP-Glycosyltransferase/glycogen phosphorylase
ALG13	79868	genome.wustl.edu	37	X	110961469	110961469	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	ENST00000394780	+1	known	p.A406V	0.001	324	0%	105	20%	1	0%	benign(0)	tolerated(0.3)	neutral(0.029)	NULL
ALG13	79868	genome.wustl.edu	37	X	110996043	110996043	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	ENST00000394780	+1	known	p.F986	1.000	563	0%	155	25.2%	10	30%	-	-	-	NULL
TRPC5	7224	genome.wustl.edu	37	X	111097011	111097011	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_012471.2	-1	reviewed	p.L408	1.000	145	0%	22	40.9%	0	-	-	-	-	HMMPfam_Ion_trans
ZCCHC16	340595	genome.wustl.edu	37	X	111698454	111698454	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001004308.2	+1	validated	p.F166	0.029	110	0%	49	22.4%	0	-	-	-	-	NULL
LHFPL1	340596	genome.wustl.edu	37	X	111914376	111914376	+	Nonsense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_178175.3	-1	reviewed	p.W81*	1.000	123	0%	107	17.8%	0	-	-	-	-	HMMPfam_L_HGMIC_fpl
LOC286528	286528	genome.wustl.edu	37	X	113625315	113625315	+	Silent	SNP	A	A	G	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	XM_210501.3	+1	model	p.E63	0.999	39	0%	60	28.3%	0	-	-	-	-	HMMPfam_Ssu72
HTR2C	3358	genome.wustl.edu	37	X	114141279	114141279	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	ENST00000371950	+1	known	p.A195T	0.968	203	0%	66	12.1%	0	-	unknown(0)	deleterious(0)	-	HMMPfam_7tm_1
IL13RA2	3598	genome.wustl.edu	37	X	114242605	114242605	+	Missense_Mutation	SNP	T	T	G	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_000640.2	-1	reviewed	p.K296T	0.000	936	0%	149	32.9%	2	0%	benign(0.006)	tolerated(0.6)	neutral(0.004)	superfamily_FN_III-like
IL13RA2	3598	genome.wustl.edu	37	X	114248405	114248405	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_000640.2	-1	reviewed	p.W150R	1.000	282	0%	68	11.8%	0	-	probably_damaging(1)	tolerated(0.06)	deleterious(0.823)	superfamily_FN_III-like
LRCH2	57631	genome.wustl.edu	37	X	114357668	114357668	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_020871.3	-1	validated	p.R646Q	1.000	625	0.2%	133	26.3%	4	0%	probably_damaging(0.953)	tolerated(0.21)	neutral(0.441)	HMMPfam_CH,superfamily_Calponin-homology
LRCH2	57631	genome.wustl.edu	37	X	114357669	114357669	+	Nonsense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_020871.3	-1	validated	p.R646*	1.000	631	0.2%	134	17.2%	4	0%	-	-	-	HMMPfam_CH,superfamily_Calponin-homology
RBMXL3	139804	genome.wustl.edu	37	X	114424835	114424835	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001145346.1	+1	validated	p.G277	0.014	30	0%	48	29.2%	0	-	-	-	-	NULL
RBMXL3	139804	genome.wustl.edu	37	X	114425905	114425905	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001145346.1	+1	validated	p.R634Q	0.629	109	1.8%	175	20.6%	0	-	possibly_damaging(0.666)	deleterious(0)	deleterious(0.680)	NULL
RBMXL3	139804	genome.wustl.edu	37	X	114426993	114426993	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001145346.1	+1	validated	p.D997N	0.063	40	0%	77	39%	0	-	probably_damaging(0.965)	deleterious(0.01)	deleterious(0.812)	NULL
LUZP4	51213	genome.wustl.edu	37	X	114540914	114540914	+	Nonsense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_016383.3	+1	validated	p.R163*	0.000	267	0%	294	24.5%	0	-	-	-	-	NULL
AGTR2	186	genome.wustl.edu	37	X	115304091	115304091	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_000686.4	+1	reviewed	p.T186	1.000	399	0%	110	23.6%	0	-	-	-	-	HMMPfam_7tm_1,superfamily_Family A G protein-coupled receptor-like
SLC6A14	11254	genome.wustl.edu	37	X	115585494	115585494	+	Silent	SNP	G	G	T	rs190940548	by1000genomes	TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_007231.3	+1	reviewed	p.T430	0.498	474	0.4%	131	29%	0	-	-	-	-	HMMPfam_SNF
KLHL13	90293	genome.wustl.edu	37	X	117043788	117043788	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_033495.3	-1	reviewed	p.N281S	1.000	178	0%	30	23.3%	5	0%	possibly_damaging(0.659)	tolerated(0.08)	deleterious(0.532)	HMMPfam_BACK
MIR1277	100302214	genome.wustl.edu	37	X	117520382	117520382	+	RNA	SNP	A	A	G	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	ENST00000408536	+1	known	NULL	1.000	274	0.4%	77	32.5%	0	-	-	-	-	-
WDR44	54521	genome.wustl.edu	37	X	117566843	117566843	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_019045.4	+1	reviewed	p.L613I	1.000	221	0%	60	11.7%	1	0%	possibly_damaging(0.858)	deleterious(0.01)	deleterious(0.737)	HMMSmart_SM00320,superfamily_WD40 repeat-like,HMMPfam_WD40
DOCK11	139818	genome.wustl.edu	37	X	117695359	117695359	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_144658.3	+1	validated	p.R191Q	1.000	369	0%	98	24.5%	0	-	probably_damaging(1)	deleterious(0)	deleterious(0.945)	HMMPfam_PH,HMMSmart_PH,superfamily_SSF50729
DOCK11	139818	genome.wustl.edu	37	X	117722186	117722186	+	Nonsense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_144658.3	+1	validated	p.E628*	0.994	453	0.2%	92	25%	0	-	-	-	-	NULL
IL13RA1	3597	genome.wustl.edu	37	X	117900520	117900520	+	Nonsense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001560.2	+1	reviewed	p.E286*	0.230	367	0%	387	23%	15	0%	-	-	-	superfamily_Fibronectin type III
IL13RA1	3597	genome.wustl.edu	37	X	117900851	117900851	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001560.2	+1	reviewed	p.L307	0.007	215	0%	207	27.5%	14	0%	-	-	-	superfamily_Fibronectin type III
IL13RA1	3597	genome.wustl.edu	37	X	117925739	117925739	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001560.2	+1	reviewed	p.Y402	0.979	379	0%	323	12.7%	20	0%	-	-	-	NULL
ZCCHC12	170261	genome.wustl.edu	37	X	117960401	117960401	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_173798.2	+1	provisional	p.F398L	0.001	85	0%	116	23.3%	52	0%	benign(0)	tolerated(1)	-	NULL
LONRF3	79836	genome.wustl.edu	37	X	118123508	118123508	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	ENST00000439603	+1	known	p.E165K	0.002	182	0%	89	25.8%	0	-	-	-	-	NULL
LONRF3	79836	genome.wustl.edu	37	X	118145871	118145871	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001031855.1	+1	reviewed	p.M582I	1.000	523	0%	187	12.8%	1	0%	probably_damaging(1)	deleterious(0)	deleterious(0.945)	HMMPfam_LON,HMMSmart_SM00464
LONRF3	79836	genome.wustl.edu	37	X	118151559	118151559	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001031855.1	+1	reviewed	p.R729Q	1.000	164	0%	89	23.6%	3	0%	probably_damaging(0.997)	tolerated(0.34)	deleterious(0.489)	HMMPfam_LON,HMMSmart_SM00464
LOC727838	727838	genome.wustl.edu	37	X	118207385	118207385	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	XM_002343842.1	+1	model	p.A66V	0.002	6	0.000	22	0.318	0	-	-	-	-	NULL
KIAA1210	57481	genome.wustl.edu	37	X	118221772	118221772	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_020721.1	-1	validated	p.R1141W	0.000	173	0%	78	14.1%	0	-	possibly_damaging(0.82)	-	-	NULL
KIAA1210	57481	genome.wustl.edu	37	X	118223492	118223492	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_020721.1	-1	validated	p.G567	0.000	438	0%	159	21.4%	0	-	-	-	-	NULL
KIAA1210	57481	genome.wustl.edu	37	X	118227666	118227666	+	Nonsense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_020721.1	-1	validated	p.E483*	0.040	566	0.2%	142	25.4%	0	-	-	-	-	NULL
KIAA1210	57481	genome.wustl.edu	37	X	118230485	118230485	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_020721.1	-1	validated	p.R413H	0.060	422	0.5%	98	27.6%	0	-	probably_damaging(0.998)	-	-	NULL
PGRMC1	10857	genome.wustl.edu	37	X	118370504	118370504	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_006667.3	+1	reviewed	p.D60N	1.000	10	0%	21	23.8%	2	0%	benign(0)	tolerated(0.4)	neutral(0.016)	NULL
SLC25A43	203427	genome.wustl.edu	37	X	118540513	118540513	+	Silent	SNP	T	T	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_145305.2	+1	reviewed	p.I122	0.375	170	0%	149	11.4%	1	0%	-	-	-	superfamily_Mitochondrial carrier,HMMPfam_Mito_carr
SLC25A43	203427	genome.wustl.edu	37	X	118586980	118586980	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_145305.2	+1	reviewed	p.K326N	0.991	293	0%	142	14.8%	3	0%	unknown(0)	deleterious(0.01)	-	NULL
CXorf56	63932	genome.wustl.edu	37	X	118694246	118694246	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_022101.3	-1	validated	p.T76N	0.767	408	0%	252	19.8%	13	23%	benign(0)	tolerated(0.26)	neutral(0.034)	NULL
NKRF	55922	genome.wustl.edu	37	X	118723545	118723545	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_017544.3	-1	reviewed	p.R615C	0.954	407	0%	186	21.5%	1	0%	benign(0.188)	tolerated(0.05)	neutral(0.363)	HMMPfam_R3H,HMMSmart_SM00393,superfamily_R3H domain
NKRF	55922	genome.wustl.edu	37	X	118724117	118724117	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_017544.3	-1	reviewed	p.C424Y	0.619	374	0%	185	20%	5	0%	benign(0.031)	tolerated(0.14)	neutral(0.251)	NULL
NKRF	55922	genome.wustl.edu	37	X	118724852	118724852	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_017544.3	-1	reviewed	p.A179V	0.942	255	0.4%	129	21.7%	0	-	possibly_damaging(0.952)	deleterious(0.02)	deleterious(0.778)	NULL
NKRF	55922	genome.wustl.edu	37	X	118725105	118725105	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_017544.3	-1	reviewed	p.D95Y	0.996	537	0%	259	20.8%	1	0%	benign(0.013)	deleterious(0.02)	neutral(0.384)	NULL
SEPT6	23157	genome.wustl.edu	37	X	118786948	118786948	+	Nonsense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_015129.5	-1	reviewed	p.E133*	1.000	363	0%	156	18.6%	9	0%	-	-	-	HMMPfam_Septin,superfamily_P-loop containing nucleoside triphosphate hydrolases
SEPT6	23157	genome.wustl.edu	37	X	118786967	118786967	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_015129.5	-1	reviewed	p.F126	0.985	325	0%	136	25.7%	8	0%	-	-	-	HMMPfam_Septin,superfamily_P-loop containing nucleoside triphosphate hydrolases
RNF113A	7737	genome.wustl.edu	37	X	119005309	119005309	+	Nonsense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_006978.2	-1	reviewed	p.E90*	0.002	250	0%	310	31.3%	17	0%	-	-	-	NULL
RNF113A	7737	genome.wustl.edu	37	X	119005432	119005432	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_006978.2	-1	reviewed	p.E49K	0.969	133	0%	172	28.5%	9	11.1%	benign(0.139)	tolerated(0.29)	neutral(0.041)	NULL
NDUFA1	4694	genome.wustl.edu	37	X	119007339	119007339	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_004541.3	+1	reviewed	p.R59C	0.001	415	0%	444	11.3%	571	0.1%	benign(0)	tolerated(0.1)	neutral(0.286)	NULL
ZBTB33	10009	genome.wustl.edu	37	X	119387498	119387498	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_006777.3	+1	reviewed	p.E76D	0.998	183	0%	235	22.6%	0	-	benign(0.002)	tolerated(0.53)	neutral(0.007)	HMMSmart_SM00225,superfamily_POZ domain,HMMPfam_BTB
FAM70A	55026	genome.wustl.edu	37	X	119438334	119438334	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_017938.3	-1	validated	p.R24Q	1.000	237	0%	201	12.4%	0	-	possibly_damaging(0.883)	deleterious(0.01)	deleterious(0.750)	NULL
ATP1B4	23439	genome.wustl.edu	37	X	119504678	119504678	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001142447.2	+1	reviewed	p.T146M	0.870	289	0%	62	25.8%	0	-	probably_damaging(0.995)	deleterious(0.02)	deleterious(0.841)	HMMPfam_Na_K-ATPase
LAMP2	3920	genome.wustl.edu	37	X	119562439	119562439	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001122606.1	-1	reviewed	p.P379H	1.000	247	0%	96	20.8%	1	0%	probably_damaging(1)	deleterious(0)	deleterious(0.945)	HMMPfam_Lamp
LAMP2	3920	genome.wustl.edu	37	X	119590621	119590621	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001122606.1	-1	reviewed	p.A23D	0.138	210	0%	72	23.6%	9	11.1%	probably_damaging(1)	deleterious(0.03)	deleterious(0.865)	NULL
CUL4B	8450	genome.wustl.edu	37	X	119664034	119664034	+	Missense_Mutation	SNP	T	T	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_003588.3	-1	reviewed	p.I857F	1.000	637	0%	147	15%	11	0%	probably_damaging(1)	deleterious(0)	deleterious(0.945)	"HMMPfam_Cullin_Nedd8,superfamily_""Winged helix"" DNA-binding domain"
MCTS1	28985	genome.wustl.edu	37	X	119742212	119742212	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001137554.1	+1	validated	p.V133A	1.000	222	0%	68	16.2%	60	0%	probably_damaging(1)	deleterious(0)	deleterious(0.945)	HMMPfam_PUA,HMMSmart_PUA,superfamily_PUA-like
C1GALT1C1	29071	genome.wustl.edu	37	X	119760466	119760466	+	Nonsense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001011551.2	-1	reviewed	p.G186*	1.000	349	0%	411	27.7%	14	0%	-	-	-	NULL
C1GALT1C1	29071	genome.wustl.edu	37	X	119760638	119760638	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001011551.2	-1	reviewed	p.Y128	0.965	94	0%	150	21.3%	5	0%	-	-	-	NULL
CT47B1	643311	genome.wustl.edu	37	X	120008832	120008832	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001145718.1	-1	validated	p.A231	0.001	283	0%	434	10.6%	0	-	-	-	-	NULL
CT47B1	643311	genome.wustl.edu	37	X	120009282	120009282	+	Silent	SNP	G	G	A	rs190002464	by1000genomes	TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001145718.1	-1	validated	p.A81	0.000	38	0%	58	19%	0	-	-	-	-	NULL
GLUD2	2747	genome.wustl.edu	37	X	120181920	120181920	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_012084.3	+1	reviewed	p.S128P	1.000	61	0%	107	32.7%	5	0%	benign(0.162)	tolerated(0.13)	neutral(0.267)	HMMPfam_ELFV_dehydrog_N,superfamily_SSF53223
ENSG00000251641	0	genome.wustl.edu	37	X	120183265	120183265	+	RNA	SNP	A	A	G	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	ENST00000513510	-1	novel	NULL	0.051	124	0%	185	25.4%	0	-	-	-	-	-
GRIA3	2892	genome.wustl.edu	37	X	122459978	122459978	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	ENST00000264357	+1	known	p.R204C	1.000	291	0%	90	27.8%	0	-	probably_damaging(0.998)	deleterious(0.04)	deleterious(0.823)	HMMPfam_ANF_receptor,superfamily_Periplasmic binding protein-like I
THOC2	57187	genome.wustl.edu	37	X	122747503	122747503	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001081550.1	-1	validated	p.E1502D	1.000	745	0%	194	27.3%	17	0%	benign(0.001)	tolerated(0.55)	neutral(0.007)	NULL
THOC2	57187	genome.wustl.edu	37	X	122755261	122755261	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	ENST00000432353	-1	known	p.R57H	0.346	1066	0%	371	20.8%	21	0%	-	-	-	NULL
THOC2	57187	genome.wustl.edu	37	X	122820528	122820528	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001081550.1	-1	validated	p.V213A	1.000	279	0.7%	97	18.6%	1	0%	benign(0.137)	deleterious(0)	neutral(0.456)	NULL
THOC2	57187	genome.wustl.edu	37	X	122866845	122866845	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001081550.1	-1	validated	p.A10T	1.000	138	0%	239	24.7%	1	0%	possibly_damaging(0.512)	tolerated(0.54)	neutral(0.179)	NULL
XIAP	331	genome.wustl.edu	37	X	123019669	123019669	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001167.2	+1	reviewed	p.L53I	0.988	207	0%	102	19.6%	0	-	possibly_damaging(0.561)	deleterious(0.02)	deleterious(0.575)	HMMPfam_BIR,HMMSmart_BIR,PatternScan_BIR_REPEAT_1,superfamily_SSF57924
STAG2	10735	genome.wustl.edu	37	X	123184041	123184041	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001042749.1	+1	validated	p.A300V	1.000	547	0.2%	171	21.1%	8	0%	benign(0.001)	tolerated(0.97)	-	superfamily_ARM-type_fold
STAG2	10735	genome.wustl.edu	37	X	123197705	123197705	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001042749.1	+1	validated	p.D610G	1.000	187	0%	73	27.4%	2	0%	benign(0.284)	deleterious(0.01)	deleterious(0.493)	superfamily_ARM-type_fold
SH2D1A	4068	genome.wustl.edu	37	X	123480599	123480599	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_002351.4	+1	reviewed	p.S36N	0.995	225	0%	416	27.9%	2	0%	possibly_damaging(0.829)	deleterious(0)	deleterious(0.759)	HMMPfam_SH2,HMMSmart_SM00252,superfamily_SH2 domain
ODZ1	10178	genome.wustl.edu	37	X	123870945	123870945	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_014253.3	-1	reviewed	p.A213V	0.049	240	0%	103	26.2%	0	-	benign(0)	tolerated(1)	-	HMMPfam_Ten_N
ODZ1	10178	genome.wustl.edu	37	X	124097386	124097386	+	Nonsense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_014253.3	-1	reviewed	p.E73*	1.000	537	0%	217	26.3%	0	-	-	-	-	HMMPfam_Ten_N
DCAF12L2	340578	genome.wustl.edu	37	X	125298811	125298811	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001013628.2	-1	reviewed	p.G366D	1.000	44	0%	68	29.4%	1	0%	probably_damaging(1)	deleterious(0)	deleterious(0.945)	HMMSmart_WD40,superfamily_WD40_like
DCAF12L2	340578	genome.wustl.edu	37	X	125299766	125299766	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001013628.2	-1	reviewed	p.R48C	0.002	5	0.000	14	0.357	0	-	benign(0.003)	deleterious(0.02)	neutral(0.383)	NULL
DCAF12L1	139170	genome.wustl.edu	37	X	125685725	125685725	+	Nonsense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_178470.4	-1	reviewed	p.W289*	1.000	17	0%	79	22.8%	0	-	-	-	-	HMMSmart_WD40,superfamily_WD40_like
DCAF12L1	139170	genome.wustl.edu	37	X	125685930	125685930	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_178470.4	-1	reviewed	p.R221Q	0.000	50	0%	87	37.9%	2	0%	possibly_damaging(0.805)	tolerated(0.06)	deleterious(0.625)	HMMSmart_WD40,superfamily_WD40_like,HMMPfam_WD40
DCAF12L1	139170	genome.wustl.edu	37	X	125686010	125686010	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_178470.4	-1	reviewed	p.K194N	0.271	53	0%	98	19.4%	2	100%	benign(0.338)	tolerated(0.66)	neutral(0.109)	HMMSmart_WD40,superfamily_WD40_like,HMMPfam_WD40
ACTRT1	139741	genome.wustl.edu	37	X	127185631	127185631	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_138289.3	-1	reviewed	p.G185	0.453	137	0%	48	20.8%	0	-	-	-	-	HMMPfam_Actin,HMMSmart_ACTIN,superfamily_SSF53067
ACTRT1	139741	genome.wustl.edu	37	X	127185734	127185734	+	Missense_Mutation	SNP	A	A	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_138289.3	-1	reviewed	p.V151D	1.000	170	0%	51	25.5%	0	-	probably_damaging(0.956)	deleterious(0)	deleterious(0.844)	HMMPfam_Actin,HMMSmart_ACTIN,superfamily_SSF53067
OCRL	4952	genome.wustl.edu	37	X	128696422	128696422	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_000276.3	+1	reviewed	p.R334Q	0.000	642	0.2%	411	23.6%	5	0%	benign(0)	tolerated(0.72)	neutral(0.002)	HMMSmart_SM00128,HMMPfam_Exo_endo_phos,superfamily_DNase I-like
XPNPEP2	7512	genome.wustl.edu	37	X	128884525	128884525	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_003399.5	+1	reviewed	p.S240L	0.989	108	0%	100	28%	0	-	probably_damaging(0.998)	deleterious(0)	deleterious(0.919)	NULL
SASH3	54440	genome.wustl.edu	37	X	128927707	128927707	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_018990.3	+1	reviewed	p.D348N	1.000	42	0%	48	14.6%	5	0%	probably_damaging(1)	deleterious(0)	deleterious(0.945)	NULL
BCORL1	63035	genome.wustl.edu	37	X	129147517	129147517	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_021946.3	+1	reviewed	p.A257S	0.228	186	0%	166	27.7%	1	0%	unknown(0)	tolerated(0.45)	-	NULL
BCORL1	63035	genome.wustl.edu	37	X	129149144	129149144	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_021946.3	+1	reviewed	p.T799I	0.998	52	0%	58	24.1%	1	0%	benign(0.073)	deleterious(0)	neutral(0.450)	NULL
BCORL1	63035	genome.wustl.edu	37	X	129162796	129162796	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_021946.3	+1	reviewed	p.C1422F	1.000	179	0%	101	26.7%	3	0%	possibly_damaging(0.643)	tolerated(0.22)	neutral(0.268)	NULL
ELF4	2000	genome.wustl.edu	37	X	129203476	129203476	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001127197.1	-1	reviewed	p.R329Q	0.033	91	0%	93	11.8%	5	0%	probably_damaging(0.995)	deleterious(0.04)	deleterious(0.806)	superfamily_SSF46785
ELF4	2000	genome.wustl.edu	37	X	129205057	129205057	+	Missense_Mutation	SNP	T	T	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001127197.1	-1	reviewed	p.N256I	1.000	303	0%	299	23.4%	5	0%	probably_damaging(1)	deleterious(0)	deleterious(0.945)	HMMPfam_Ets,HMMSmart_ETS,superfamily_SSF46785
AIFM1	9131	genome.wustl.edu	37	X	129263959	129263959	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_004208.3	-1	reviewed	p.P586S	1.000	126	0%	102	12.7%	95	7.3%	benign(0.039)	tolerated(0.38)	neutral(0.020)	superfamily_FAD/NAD-linked reductases dimerisation (C-terminal) domain
AIFM1	9131	genome.wustl.edu	37	X	129270629	129270629	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_004208.3	-1	reviewed	p.D385Y	1.000	267	0%	103	23.3%	19	57.8%	probably_damaging(0.962)	deleterious(0.01)	deleterious(0.810)	HMMPfam_Pyr_redox_2,superfamily_FAD/NAD(P)-binding domain
AIFM1	9131	genome.wustl.edu	37	X	129290563	129290563	+	Nonsense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_004208.3	-1	reviewed	p.R41*	1.000	283	0%	144	11.8%	4	0%	-	-	-	NULL
GPR119	139760	genome.wustl.edu	37	X	129518748	129518748	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_178471.2	-1	reviewed	p.R225H	0.973	131	0%	59	16.9%	0	-	probably_damaging(1)	tolerated(0.11)	deleterious(0.772)	HMMPfam_7tm_1,superfamily_SSF81321
RBMX2	51634	genome.wustl.edu	37	X	129543230	129543230	+	Splice_Site	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_016024.2	+1	validated	e4-1	1.000	195	0%	138	16.7%	0	-	-	-	-	-
RBMX2	51634	genome.wustl.edu	37	X	129545341	129545341	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_016024.2	+1	validated	p.R108Q	1.000	402	0%	254	25.2%	22	18.1%	benign(0.151)	deleterious(0)	neutral(0.458)	HMMPfam_RRM_1,HMMSmart_SM00360,superfamily_RNA-binding domain RBD
RBMX2	51634	genome.wustl.edu	37	X	129545445	129545445	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_016024.2	+1	validated	p.P143T	0.000	418	0%	296	24.3%	21	0%	benign(0.006)	tolerated(0.24)	neutral(0.037)	NULL
ENOX2	10495	genome.wustl.edu	37	X	129771304	129771304	+	Nonsense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_182314.1	-1	reviewed	p.E433*	1.000	691	0%	381	22%	2	0%	-	-	-	NULL
ENOX2	10495	genome.wustl.edu	37	X	129801655	129801655	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_182314.1	-1	reviewed	p.V281	0.928	324	0%	92	23.9%	2	0%	-	-	-	NULL
ARHGAP36	158763	genome.wustl.edu	37	X	130217157	130217157	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_144967.3	+1	validated	p.P91L	0.997	332	0%	622	25.4%	0	-	possibly_damaging(0.65)	tolerated(0.6)	neutral(0.233)	NULL
ARHGAP36	158763	genome.wustl.edu	37	X	130219951	130219951	+	Missense_Mutation	SNP	A	A	C	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_144967.3	+1	validated	p.K390T	0.995	477	0%	574	11.8%	0	-	possibly_damaging(0.489)	tolerated(0.06)	deleterious(0.485)	HMMPfam_RhoGAP,HMMSmart_SM00324,superfamily_GTPase activation domain GAP
IGSF1	3547	genome.wustl.edu	37	X	130408128	130408128	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001555.4	-1	reviewed	p.I1268	0.876	351	0%	194	10.3%	0	-	-	-	-	NULL
IGSF1	3547	genome.wustl.edu	37	X	130413262	130413262	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001555.4	-1	reviewed	p.T567M	0.036	158	0%	106	26.4%	1	0%	benign(0.001)	tolerated(0.13)	neutral(0.253)	NULL
IGSF1	3547	genome.wustl.edu	37	X	130416441	130416441	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001555.4	-1	reviewed	p.N408S	0.004	237	0%	171	24.6%	0	-	possibly_damaging(0.942)	tolerated(0.23)	neutral(0.428)	HMMSmart_SM00409,superfamily_Immunoglobulin
IGSF1	3547	genome.wustl.edu	37	X	130416450	130416450	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001555.4	-1	reviewed	p.P405L	0.001	247	0%	183	22.4%	0	-	benign(0)	tolerated(0.39)	neutral(0.016)	HMMSmart_SM00409,superfamily_Immunoglobulin
FRMD7	90167	genome.wustl.edu	37	X	131212279	131212279	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_194277.2	-1	reviewed	p.R589M	1.000	400	0%	77	20.8%	0	-	probably_damaging(0.999)	deleterious(0)	deleterious(0.935)	NULL
HS6ST2	90161	genome.wustl.edu	37	X	132091057	132091057	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001077188.1	-1	reviewed	p.F242	0.986	35	0%	57	21.1%	0	-	-	-	-	HMMPfam_HS6ST
HS6ST2	90161	genome.wustl.edu	37	X	132092368	132092368	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001077188.1	-1	reviewed	p.A88V	1.000	4	0.000	15	0.267	0	-	probably_damaging(0.991)	deleterious(0)	deleterious(0.889)	NULL
USP26	83844	genome.wustl.edu	37	X	132160507	132160507	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_031907.1	-1	reviewed	p.S581Y	0.000	238	0%	69	10.1%	0	-	probably_damaging(0.998)	deleterious(0.01)	deleterious(0.880)	HMMPfam_UCH,superfamily_Cysteine proteinases
TFDP3	51270	genome.wustl.edu	37	X	132351978	132351978	+	Nonsense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_016521.2	-1	reviewed	p.G104*	1.000	286	0.3%	505	25.9%	0	-	-	-	-	NULL
CCDC160	347475	genome.wustl.edu	37	X	133379034	133379034	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001101357.1	+1	provisional	p.F68L	0.007	91	0%	77	20.8%	0	-	benign(0.067)	tolerated(0.69)	neutral(0.006)	NULL
CCDC160	347475	genome.wustl.edu	37	X	133379249	133379249	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001101357.1	+1	provisional	p.R140I	0.000	71	0%	51	25.5%	1	100%	benign(0.153)	tolerated(0.18)	neutral(0.070)	NULL
FAM122B	159090	genome.wustl.edu	37	X	133927879	133927879	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_145284.5	-1	validated	p.R48M	1.000	529	0%	599	12.5%	5	0%	probably_damaging(1)	deleterious(0)	deleterious(0.945)	NULL
MOSPD1	56180	genome.wustl.edu	37	X	134033404	134033404	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_019556.1	-1	provisional	p.F20	1.000	317	0%	92	19.6%	3	0%	-	-	-	HMMPfam_Motile_Sperm,superfamily_PapD-like
ENSG00000184785	0	genome.wustl.edu	37	X	134125317	134125317	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	ENST00000330288	+1	known	p.F142L	0.653	80	0%	121	24.8%	1	0%	probably_damaging(0.975)	deleterious(0)	deleterious(0.861)	NULL
FAM127C	441518	genome.wustl.edu	37	X	134156203	134156203	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001078173.1	-1	validated	p.G96D	0.998	140	0%	200	24%	9	0%	possibly_damaging(0.932)	deleterious(0.02)	deleterious(0.762)	NULL
CXorf48	54967	genome.wustl.edu	37	X	134303684	134303684	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001031705.2	-1	validated	p.T38N	0.003	229	0%	108	28.7%	0	-	probably_damaging(0.991)	tolerated(0.36)	neutral(0.464)	NULL
ZNF75D	7626	genome.wustl.edu	37	X	134421702	134421702	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_007131.3	-1	reviewed	p.C300	0.000	522	0%	158	10.1%	0	-	-	-	-	NULL
ZNF449	203523	genome.wustl.edu	37	X	134481426	134481426	+	Missense_Mutation	SNP	T	T	G	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	ENST00000370761	+1	known	p.I128S	0.000	140	0%	181	27.6%	0	-	benign(0.113)	tolerated(0.19)	neutral(0.059)	HMMSmart_SCAN
ZNF449	203523	genome.wustl.edu	37	X	134494420	134494420	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_152695.5	+1	reviewed	p.P326S	0.000	136	0%	58	20.7%	0	-	benign(0)	tolerated(0.7)	neutral(0.002)	HMMPfam_zf-C2H2,PatternScan_ZINC_FINGER_C2H2_1,HMMSmart_SM00355,superfamily_C2H2 and C2HC zinc fingers
ZNF449	203523	genome.wustl.edu	37	X	134494615	134494615	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_152695.5	+1	reviewed	p.R391W	0.000	117	0%	34	20.6%	0	-	probably_damaging(1)	deleterious(0)	deleterious(0.945)	HMMPfam_zf-C2H2,PatternScan_ZINC_FINGER_C2H2_1,HMMSmart_SM00355,superfamily_C2H2 and C2HC zinc fingers
DDX26B	203522	genome.wustl.edu	37	X	134681113	134681113	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_182540.4	+1	validated	p.S222Y	1.000	400	0%	99	18.2%	1	0%	possibly_damaging(0.948)	deleterious(0)	deleterious(0.836)	superfamily_vWA-like
LOC644717	644717	genome.wustl.edu	37	X	134808474	134808474	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	XM_002343850.1	-1	model	p.S474Y	0.044	119	0%	32	21.9%	0	-	-	-	-	NULL
SAGE1	55511	genome.wustl.edu	37	X	134987434	134987434	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_018666.2	+1	reviewed	p.R113C	0.007	231	0%	62	29%	0	-	benign(0.044)	deleterious(0.05)	neutral(0.348)	NULL
SAGE1	55511	genome.wustl.edu	37	X	134994543	134994543	+	Missense_Mutation	SNP	T	T	G	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_018666.2	+1	reviewed	p.F862C	0.929	350	0%	80	20%	0	-	probably_damaging(0.981)	deleterious(0)	deleterious(0.870)	NULL
SLC9A6	10479	genome.wustl.edu	37	X	135092702	135092702	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001042537.1	+1	reviewed	p.S334Y	1.000	617	0%	213	14.6%	0	-	probably_damaging(0.999)	deleterious(0)	deleterious(0.935)	HMMPfam_Na_H_Exchanger
MAP7D3	79649	genome.wustl.edu	37	X	135314033	135314033	+	Silent	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_024597.3	-1	reviewed	p.S361	0.000	54	0%	47	10.6%	2	0%	-	-	-	NULL
MAP7D3	79649	genome.wustl.edu	37	X	135323418	135323418	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_024597.3	-1	reviewed	p.L146I	0.000	137	0%	82	18.3%	3	0%	possibly_damaging(0.676)	tolerated(0.17)	neutral(0.299)	NULL
MAP7D3	79649	genome.wustl.edu	37	X	135326887	135326887	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_024597.3	-1	reviewed	p.E107D	0.990	941	0.1%	745	11.7%	3	0%	probably_damaging(0.999)	deleterious(0.01)	deleterious(0.896)	NULL
GPR112	139378	genome.wustl.edu	37	X	135426612	135426612	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_153834.3	+1	reviewed	p.M249I	0.141	312	0%	99	21.2%	0	-	benign(0)	deleterious(0.02)	neutral(0.383)	NULL
GPR112	139378	genome.wustl.edu	37	X	135430373	135430373	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_153834.3	+1	reviewed	p.S1503Y	0.054	108	0%	37	16.2%	0	-	possibly_damaging(0.911)	deleterious(0)	deleterious(0.807)	NULL
GPR112	139378	genome.wustl.edu	37	X	135431423	135431423	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_153834.3	+1	reviewed	p.S1853F	0.001	294	0.3%	141	26.2%	0	-	benign(0)	deleterious(0.01)	neutral(0.406)	NULL
GPR112	139378	genome.wustl.edu	37	X	135431461	135431461	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_153834.3	+1	reviewed	p.L1866	0.027	342	0%	130	18.5%	0	-	-	-	-	NULL
GPR112	139378	genome.wustl.edu	37	X	135432041	135432041	+	Missense_Mutation	SNP	T	T	G	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_153834.3	+1	reviewed	p.L2059R	0.000	457	0%	248	24.6%	0	-	probably_damaging(0.995)	tolerated(0.06)	deleterious(0.780)	NULL
GPR112	139378	genome.wustl.edu	37	X	135455094	135455094	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_153834.3	+1	reviewed	p.K2549N	1.000	445	0%	129	15.5%	0	-	probably_damaging(0.995)	deleterious(0)	deleterious(0.902)	NULL
BRS3	680	genome.wustl.edu	37	X	135570562	135570562	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001727.1	+1	validated	p.L97M	1.000	353	0%	251	26.3%	0	-	probably_damaging(0.999)	tolerated(0.08)	deleterious(0.790)	HMMPfam_7tm_1,superfamily_SSF81321
BRS3	680	genome.wustl.edu	37	X	135574120	135574120	+	Splice_Site	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001727.1	+1	validated	e3-1	1.000	178	0%	222	29.7%	0	-	-	-	-	-
HTATSF1	27336	genome.wustl.edu	37	X	135579893	135579893	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_014500.4	+1	reviewed	p.R17Q	1.000	92	0%	147	12.2%	6	0%	possibly_damaging(0.902)	tolerated(0.31)	neutral(0.384)	NULL
HTATSF1	27336	genome.wustl.edu	37	X	135584992	135584992	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_014500.4	+1	reviewed	p.Y209C	1.000	306	0%	330	21.2%	12	0%	benign(0.075)	tolerated(0.09)	neutral(0.301)	HMMPfam_RRM_1,HMMSmart_RRM,superfamily_SSF54928
HTATSF1	27336	genome.wustl.edu	37	X	135586563	135586563	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_014500.4	+1	reviewed	p.R259W	0.827	231	0%	171	31.6%	17	0%	probably_damaging(1)	deleterious(0)	deleterious(0.945)	superfamily_SSF54928
HTATSF1	27336	genome.wustl.edu	37	X	135593720	135593720	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_014500.4	+1	reviewed	p.G606S	0.195	206	0%	121	24.8%	75	33.3%	possibly_damaging(0.922)	tolerated(0.21)	neutral(0.415)	NULL
VGLL1	51442	genome.wustl.edu	37	X	135630963	135630963	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_016267.3	+1	reviewed	p.P144T	0.767	101	0%	26	23.1%	0	-	probably_damaging(0.99)	deleterious(0.04)	deleterious(0.790)	NULL
ARHGEF6	9459	genome.wustl.edu	37	X	135750259	135750259	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_004840.2	-1	reviewed	p.R754W	0.891	675	0%	218	22%	5	0%	benign(0.038)	deleterious(0)	neutral(0.447)	NULL
ARHGEF6	9459	genome.wustl.edu	37	X	135767890	135767890	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_004840.2	-1	reviewed	p.N446	0.756	490	0%	200	26%	2	0%	-	-	-	superfamily_PH domain-like
ARHGEF6	9459	genome.wustl.edu	37	X	135772868	135772868	+	Silent	SNP	C	C	T	rs182524612	by1000genomes	TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_004840.2	-1	reviewed	p.S362	0.936	513	0.2%	121	23.1%	1	0%	-	-	-	HMMPfam_RhoGEF,HMMSmart_SM00325,superfamily_DBL homology domain (DH-domain)
ZIC3	7547	genome.wustl.edu	37	X	136649654	136649654	+	Silent	SNP	C	C	T	rs122462166		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_003413.3	+1	reviewed	p.C268	1.000	34	0%	75	22.7%	0	-	-	-	-	HMMSmart_ZnF_C2H2
F9	2158	genome.wustl.edu	37	X	138623295	138623295	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_000133.3	+1	reviewed	p.N113S	0.922	648	0.2%	165	10.9%	0	-	benign(0)	tolerated(0.22)	neutral(0.042)	PatternScan_ASX_HYDROXYL,HMMSmart_SM00179,HMMPfam_EGF,HMMSmart_SM00181,PatternScan_EGF_CA
F9	2158	genome.wustl.edu	37	X	138642945	138642945	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_000133.3	+1	reviewed	p.V257I	0.024	982	0%	440	28.6%	0	-	benign(0)	tolerated(0.27)	neutral(0.034)	HMMPfam_Trypsin,HMMSmart_SM00020,superfamily_Trypsin-like serine proteases
MCF2	4168	genome.wustl.edu	37	X	138668597	138668597	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001099855.1	-1	reviewed	p.T918A	0.000	443	0%	84	27.4%	0	-	benign(0)	tolerated(0.5)	neutral(0.010)	NULL
ATP11C	286410	genome.wustl.edu	37	X	138857055	138857055	+	Silent	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_173694.4	-1	validated	p.V673	1.000	376	0%	140	15%	1	0%	-	-	-	superfamily_HAD-like
ATP11C	286410	genome.wustl.edu	37	X	138864867	138864867	+	Silent	SNP	A	A	G	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	ENST00000422228	-1	known	p.V152A	1.000	318	0%	149	22.1%	0	-	-	-	-	superfamily_Metal cation-transporting ATPase ATP-binding domain N
ATP11C	286410	genome.wustl.edu	37	X	138878558	138878558	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_173694.4	-1	validated	p.Y363	1.000	238	0%	40	12.5%	0	-	-	-	-	NULL
SOX3	6658	genome.wustl.edu	37	X	139587161	139587161	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_005634.2	-1	reviewed	p.R22Q	0.005	18	0%	23	26.1%	0	-	probably_damaging(0.978)	deleterious(0)	deleterious(0.865)	NULL
CDR1	1038	genome.wustl.edu	37	X	139865905	139865905	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_004065.2	-1	reviewed	p.S209	0.000	502	0%	428	13.1%	3	0%	-	-	-	NULL
LDOC1	23641	genome.wustl.edu	37	X	140270795	140270795	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_012317.2	-1	reviewed	p.D138N	0.011	118	0%	179	29.1%	9	0%	unknown(0)	-	-	NULL
LDOC1	23641	genome.wustl.edu	37	X	140270992	140270992	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_012317.2	-1	reviewed	p.A72V	0.031	87	0%	155	27.1%	6	0%	possibly_damaging(0.452)	tolerated(0.28)	neutral(0.179)	NULL
SPANXD	64648	genome.wustl.edu	37	X	140786496	140786496	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_032417.2	-1	reviewed	p.E23K	0.004	986	0.6%	354	9%	0	-	benign(0.002)	tolerated(0.1)	neutral(0.286)	HMMPfam_SPAN-X
SPANXD	64648	genome.wustl.edu	37	X	140786523	140786523	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_032417.2	-1	reviewed	p.V14I	0.001	1072	0.2%	365	10.4%	0	-	benign(0.111)	tolerated(0.11)	neutral(0.280)	HMMPfam_SPAN-X
MAGEC3	139081	genome.wustl.edu	37	X	140983135	140983135	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_138702.1	+1	reviewed	p.C330	0.000	164	0%	73	11%	0	-	-	-	-	NULL
MAGEC1	9947	genome.wustl.edu	37	X	140995031	140995031	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_005462.4	+1	reviewed	p.S614N	0.716	207	0%	78	25.6%	0	-	unknown(0)	deleterious(0.01)	-	NULL
MAGEC1	9947	genome.wustl.edu	37	X	140995133	140995133	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_005462.4	+1	reviewed	p.S648Y	0.916	169	0%	58	27.6%	0	-	unknown(0)	deleterious(0)	-	NULL
LOC392555	392555	genome.wustl.edu	37	X	141261052	141261052	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	XM_002343852.1	-1	model	p.G292D	0.009	170	0%	84	20.2%	0	-	-	-	-	HMMPfam_MAGE
MAGEC2	51438	genome.wustl.edu	37	X	141291724	141291724	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_016249.3	-1	reviewed	p.P17L	0.000	136	0%	89	36%	0	-	possibly_damaging(0.877)	tolerated(0.11)	deleterious(0.613)	NULL
SLITRK4	139065	genome.wustl.edu	37	X	142716749	142716749	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_173078.3	-1	reviewed	p.D726N	0.999	95	0%	140	25.7%	1	0%	benign(0.017)	deleterious(0.01)	neutral(0.406)	NULL
SLITRK4	139065	genome.wustl.edu	37	X	142717954	142717954	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_173078.3	-1	reviewed	p.R324H	1.000	275	0%	338	12.7%	0	-	benign(0.002)	tolerated(0.06)	neutral(0.323)	superfamily_L domain-like
SLITRK4	139065	genome.wustl.edu	37	X	142718336	142718336	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_173078.3	-1	reviewed	p.G197R	1.000	180	0%	215	11.2%	0	-	probably_damaging(1)	deleterious(0.01)	deleterious(0.905)	HMMPfam_LRR_1,HMMSmart_SM00369,HMMSmart_SM00365,superfamily_L domain-like
SLITRK4	139065	genome.wustl.edu	37	X	142718593	142718593	+	Missense_Mutation	SNP	T	T	G	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_173078.3	-1	reviewed	p.Q111P	1.000	64	0%	92	12%	0	-	possibly_damaging(0.825)	deleterious(0)	deleterious(0.757)	HMMSmart_SM00369,superfamily_L domain-like
SPANXN1	494118	genome.wustl.edu	37	X	144337307	144337307	+	Silent	SNP	A	A	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001009614.2	+1	reviewed	p.S64	0.000	788	0%	259	23.2%	0	-	-	-	-	NULL
SLITRK2	84631	genome.wustl.edu	37	X	144903951	144903951	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001144003.2	+1	reviewed	p.S3N	1.000	129	0%	200	24%	0	-	benign(0)	tolerated(0.23)	neutral(0.042)	NULL
MIR513C	100302114	genome.wustl.edu	37	X	146271276	146271276	+	RNA	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	ENST00000401352	-1	known	NULL	0.000	410	0.2%	146	15.1%	0	-	-	-	-	-
MIR509-2	100126301	genome.wustl.edu	37	X	146340282	146340282	+	RNA	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	ENST00000390724	-1	known	NULL	0.001	255	0%	66	16.7%	0	-	-	-	-	-
FMR1NB	158521	genome.wustl.edu	37	X	147063165	147063165	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_152578.2	+1	validated	p.F81	0.000	135	0%	186	23.1%	0	-	-	-	-	NULL
FMR1NB	158521	genome.wustl.edu	37	X	147090213	147090213	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_152578.2	+1	validated	p.R205H	0.134	681	0.1%	180	20%	0	-	probably_damaging(0.965)	tolerated(0.27)	neutral(0.441)	NULL
AFF2	2334	genome.wustl.edu	37	X	147582650	147582650	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_002025.3	+1	reviewed	p.D11E	1.000	282	0%	467	22.1%	0	-	benign(0.147)	tolerated(0.48)	neutral(0.024)	NULL
AFF2	2334	genome.wustl.edu	37	X	147743605	147743605	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_002025.3	+1	reviewed	p.K119N	1.000	379	0.3%	200	11.5%	0	-	probably_damaging(0.995)	tolerated(0.07)	deleterious(0.776)	HMMPfam_AF-4
AFF2	2334	genome.wustl.edu	37	X	147919255	147919255	+	Nonsense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_002025.3	+1	reviewed	p.Q391*	1.000	511	0%	136	31.6%	0	-	-	-	-	HMMPfam_AF-4
IDS	3423	genome.wustl.edu	37	X	148571918	148571918	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_000202.5	-1	reviewed	p.V311	0.255	160	0%	80	18.8%	25	0%	-	-	-	HMMPfam_Sulfatase,superfamily_Alkaline phosphatase-like
IDS	3423	genome.wustl.edu	37	X	148585785	148585785	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_000202.5	-1	reviewed	p.R48C	1.000	143	0%	232	24.1%	3	0%	probably_damaging(1)	deleterious(0)	deleterious(0.945)	HMMPfam_Sulfatase,superfamily_Alkaline phosphatase-like
MAGEA11	4110	genome.wustl.edu	37	X	148797849	148797849	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_005366.4	+1	reviewed	p.R235C	0.006	248	0%	282	24.1%	0	-	probably_damaging(0.994)	tolerated(0.18)	deleterious(0.508)	HMMPfam_MAGE
MAGEA11	4110	genome.wustl.edu	37	X	148798158	148798158	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_005366.4	+1	reviewed	p.L338M	0.003	106	0%	118	32.2%	0	-	probably_damaging(1)	deleterious(0.04)	deleterious(0.849)	HMMPfam_MAGE
MAGEA8	4107	genome.wustl.edu	37	X	149013740	149013740	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_005364.4	+1	reviewed	p.G232R	0.016	229	0%	317	20.8%	0	-	probably_damaging(0.966)	tolerated(0.11)	deleterious(0.679)	HMMPfam_MAGE
CXorf40B	541578	genome.wustl.edu	37	X	149100951	149100951	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001013845.1	-1	validated	p.P96	0.001	718	0.3%	656	19.4%	24	25%	-	-	-	NULL
MAMLD1	10046	genome.wustl.edu	37	X	149642014	149642014	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_005491.3	+1	reviewed	p.H660	0.002	250	0%	100	30%	3	0%	-	-	-	NULL
MTMR1	8776	genome.wustl.edu	37	X	149896155	149896155	+	Splice_Site	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_003828.2	+1	reviewed	e5-1	1.000	360	0%	93	9.7%	0	-	-	-	-	-
MTMR1	8776	genome.wustl.edu	37	X	149924254	149924254	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_003828.2	+1	reviewed	p.V584M	0.999	623	0%	491	25.1%	0	-	probably_damaging(0.997)	deleterious(0)	deleterious(0.911)	superfamily_(Phosphotyrosine protein) phosphatases II
CD99L2	83692	genome.wustl.edu	37	X	149944726	149944726	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	ENST00000355330	-1	known	p.A191V	0.827	31	0%	30	30%	3	0%	-	-	-	NULL
CD99L2	83692	genome.wustl.edu	37	X	149945912	149945912	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	ENST00000418547	-1	known	p.G143	0.384	97	0%	67	26.9%	0	-	-	-	-	NULL
HMGB3	3149	genome.wustl.edu	37	X	150154189	150154189	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_005342.2	+1	validated	p.A39	0.011	655	0%	871	23.4%	49	55.1%	-	-	-	HMMPfam_HMG_box,HMMSmart_HMG,superfamily_HMG-box
GPR50	9248	genome.wustl.edu	37	X	150349724	150349724	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_004224.3	+1	reviewed	p.D557N	0.005	53	0%	125	24%	0	-	benign(0.17)	tolerated(0.55)	neutral(0.022)	NULL
VMA21	203547	genome.wustl.edu	37	X	150572136	150572136	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001017980.3	+1	reviewed	p.T29	0.857	666	0%	694	13.8%	12	0%	-	-	-	HMMPfam_VMA21
PASD1	139135	genome.wustl.edu	37	X	150790022	150790022	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_173493.2	+1	reviewed	p.E126K	0.196	572	0%	105	23.8%	0	-	probably_damaging(0.991)	deleterious(0)	deleterious(0.889)	superfamily_PYP-like sensor domain (PAS domain)
PRRG3	79057	genome.wustl.edu	37	X	150869132	150869132	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_024082.3	+1	validated	p.A108V	0.988	66	0%	76	25%	0	-	possibly_damaging(0.767)	tolerated(0.27)	neutral(0.318)	NULL
CNGA2	1260	genome.wustl.edu	37	X	150907328	150907328	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_005140.1	+1	reviewed	p.Q60	0.000	74	0%	25	24%	0	-	-	-	-	NULL
CNGA2	1260	genome.wustl.edu	37	X	150911738	150911738	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_005140.1	+1	reviewed	p.R255C	1.000	166	0%	93	23.7%	0	-	probably_damaging(1)	deleterious(0.02)	deleterious(0.883)	HMMPfam_Ion_trans,superfamily_SSF81324
CNGA2	1260	genome.wustl.edu	37	X	150912578	150912578	+	Nonsense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_005140.1	+1	reviewed	p.R535*	1.000	278	0%	124	29%	0	-	-	-	-	HMMPfam_cNMP_binding,HMMSmart_cNMP,PatternScan_CNMP_BINDING_2,superfamily_cNMP_binding
GABRE	2564	genome.wustl.edu	37	X	151123979	151123979	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_004961.3	-1	reviewed	p.R333H	0.952	246	0%	123	21.1%	0	-	probably_damaging(0.999)	deleterious(0)	deleterious(0.935)	HMMPfam_Neur_chan_memb,superfamily_Neu_channel_TM
MAGEA10	4109	genome.wustl.edu	37	X	151303056	151303056	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001011543.1	-1	reviewed	p.A346V	0.000	332	0%	277	17.7%	0	-	benign(0.355)	tolerated(0.95)	neutral(0.113)	NULL
MAGEA10	4109	genome.wustl.edu	37	X	151303122	151303122	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001011543.1	-1	reviewed	p.R324I	0.000	329	0%	292	12.7%	0	-	benign(0.202)	tolerated(0.46)	neutral(0.032)	NULL
GABRA3	2556	genome.wustl.edu	37	X	151337009	151337009	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_000808.3	-1	reviewed	p.K390N	1.000	597	0%	277	22.7%	0	-	benign(0.009)	tolerated(0.49)	neutral(0.011)	HMMPfam_Neur_chan_memb,superfamily_Neu_channel_TM
GABRQ	55879	genome.wustl.edu	37	X	151815611	151815611	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_018558.2	+1	reviewed	p.T170K	0.886	248	0%	233	11.2%	0	-	benign(0.308)	tolerated(0.16)	neutral(0.155)	HMMPfam_Neur_chan_LBD,superfamily_Neur_chan_LBD
GABRQ	55879	genome.wustl.edu	37	X	151820162	151820162	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_018558.2	+1	reviewed	p.R359W	0.007	235	0%	145	13.8%	2	0%	probably_damaging(0.984)	deleterious(0)	deleterious(0.875)	HMMPfam_Neur_chan_memb,superfamily_Neu_channel_TM
MAGEA12	4111	genome.wustl.edu	37	X	151900162	151900162	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_005367.5	-1	reviewed	p.G213	0.000	432	0%	268	14.6%	0	-	-	-	-	HMMPfam_MAGE
MAGEA12	4111	genome.wustl.edu	37	X	151900774	151900774	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_005367.5	-1	reviewed	p.H9Q	0.000	97	0%	72	11.1%	0	-	possibly_damaging(0.8)	tolerated(0.36)	neutral(0.321)	NULL
CSAG1	158511	genome.wustl.edu	37	X	151908978	151908978	+	Missense_Mutation	SNP	A	A	C	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	ENST00000370291	+1	known	p.K73Q	0.001	528	0%	383	24.8%	0	-	possibly_damaging(0.605)	-	-	NULL
NSDHL	50814	genome.wustl.edu	37	X	152014887	152014887	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001129765.1	+1	reviewed	p.E7K	0.003	225	0%	97	19.6%	7	0%	possibly_damaging(0.807)	deleterious(0)	deleterious(0.748)	NULL
NSDHL	50814	genome.wustl.edu	37	X	152031184	152031184	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001129765.1	+1	reviewed	p.V153	0.000	391	0%	240	24.2%	25	0%	-	-	-	HMMPfam_3Beta_HSD,superfamily_NAD(P)-bd
ZNF185	7739	genome.wustl.edu	37	X	152083370	152083370	+	Missense_Mutation	SNP	C	C	T	rs189415378	by1000genomes	TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_007150.3	+1	reviewed	p.R51C	0.002	68	1.5%	75	13.3%	1	0%	benign(0.001)	deleterious(0.04)	neutral(0.349)	NULL
PNMA5	114824	genome.wustl.edu	37	X	152159299	152159299	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001103150.1	-1	validated	p.R282C	0.000	31	0%	46	28.3%	0	-	probably_damaging(0.991)	deleterious(0.04)	deleterious(0.793)	NULL
PNMA5	114824	genome.wustl.edu	37	X	152159655	152159655	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001103150.1	-1	validated	p.S163L	0.704	89	0%	145	23.4%	0	-	probably_damaging(1)	deleterious(0)	deleterious(0.945)	NULL
PNMA5	114824	genome.wustl.edu	37	X	152159899	152159899	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001103150.1	-1	validated	p.I82V	0.020	123	0%	214	28.5%	0	-	benign(0.073)	tolerated(0.26)	neutral(0.039)	NULL
PNMA3	29944	genome.wustl.edu	37	X	152226565	152226565	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_013364.4	+1	reviewed	p.R385C	0.001	65	0%	99	12.1%	0	-	probably_damaging(0.999)	tolerated(0.06)	deleterious(0.813)	NULL
ZFP92	139735	genome.wustl.edu	37	X	152684231	152684231	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001136273.1	+1	validated	p.E45G	0.996	263	0%	378	13.2%	0	-	-	-	-	HMMPfam_KRAB,HMMSmart_KRAB,superfamily_Krueppel-associated_box
ZFP92	139735	genome.wustl.edu	37	X	152686159	152686159	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001136273.1	+1	validated	p.L108	0.000	60	0%	126	21.4%	0	-	-	-	-	NULL
ZFP92	139735	genome.wustl.edu	37	X	152686206	152686206	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001136273.1	+1	validated	p.S124L	0.000	35	0%	82	25.6%	0	-	-	-	-	NULL
TREX2	11219	genome.wustl.edu	37	X	152713213	152713213	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	ENST00000334497	-1	known	p.C30R	0.000	86	0%	144	27.8%	63	0%	benign(0.213)	deleterious(0.03)	neutral(0.386)	NULL
HAUS7	55559	genome.wustl.edu	37	X	152735989	152735989	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_017518.6	-1	reviewed	p.G19	0.000	11	0%	19	26.3%	1	0%	-	-	-	NULL
BGN	633	genome.wustl.edu	37	X	152770131	152770131	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001711.4	+1	reviewed	p.S14	1.000	71	0%	127	28.3%	88	0%	-	-	-	NULL
ATP2B3	492	genome.wustl.edu	37	X	152807165	152807165	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001001344.2	+1	reviewed	p.E149K	1.000	94	0%	185	26.5%	0	-	benign(0.408)	tolerated(0.06)	neutral(0.455)	superfamily_Calcium ATPase transmembrane domain M
ATP2B3	492	genome.wustl.edu	37	X	152815154	152815154	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001001344.2	+1	reviewed	p.V513A	1.000	69	0%	126	20.6%	0	-	benign(0.058)	tolerated(0.2)	neutral(0.053)	HMMPfam_Hydrolase,superfamily_HAD-like,superfamily_Metal cation-transporting ATPase ATP-binding domain N,superfamily_Calcium ATPase transmembrane domain M
ATP2B3	492	genome.wustl.edu	37	X	152818554	152818554	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001001344.2	+1	reviewed	p.D629N	1.000	57	0%	85	12.9%	0	-	benign(0)	tolerated(0.44)	neutral(0.013)	HMMPfam_Hydrolase,superfamily_HAD-like,superfamily_Metal cation-transporting ATPase ATP-binding domain N,superfamily_Calcium ATPase transmembrane domain M
ATP2B3	492	genome.wustl.edu	37	X	152823575	152823575	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001001344.2	+1	reviewed	p.I813	0.959	111	0%	135	23%	0	-	-	-	-	HMMPfam_Hydrolase,superfamily_HAD-like,superfamily_Calcium ATPase transmembrane domain M
ATP2B3	492	genome.wustl.edu	37	X	152835090	152835090	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_021949.3	+1	reviewed	p.S1124	1.000	405	0%	518	11.8%	1	0%	-	-	-	NULL
SLC6A8	6535	genome.wustl.edu	37	X	152957589	152957589	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	ENST00000429147	+1	known	p.G85W	0.619	148	0%	228	29.4%	0	-	unknown(0)	-	-	NULL
SLC6A8	6535	genome.wustl.edu	37	X	152960208	152960208	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_005629.3	+1	reviewed	p.P544L	0.999	62	0%	90	26.7%	34	64.7%	probably_damaging(0.99)	deleterious(0)	deleterious(0.886)	HMMPfam_SNF
BCAP31	10134	genome.wustl.edu	37	X	152989046	152989046	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001139457.1	-1	reviewed	p.A25V	0.000	76	0%	132	22%	0	-	unknown(0)	-	-	NULL
ABCD1	215	genome.wustl.edu	37	X	152991484	152991484	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_000033.3	+1	reviewed	p.A255T	0.999	20	0%	46	15.2%	3	0%	probably_damaging(0.966)	deleterious(0)	deleterious(0.853)	HMMPfam_ABC_membrane_2
ABCD1	215	genome.wustl.edu	37	X	152991506	152991506	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_000033.3	+1	reviewed	p.S262L	0.999	17	0%	45	17.8%	3	0%	probably_damaging(1)	deleterious(0)	deleterious(0.945)	HMMPfam_ABC_membrane_2
ABCD1	215	genome.wustl.edu	37	X	153006139	153006139	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_000033.3	+1	reviewed	p.V582	0.924	61	0%	101	24.8%	9	0%	-	-	-	HMMPfam_ABC_tran,HMMSmart_AAA,superfamily_SSF52540
PLXNB3	5365	genome.wustl.edu	37	X	153036337	153036337	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_005393.2	+1	reviewed	p.R712Q	0.026	70	0%	134	12.7%	2	0%	benign(0.002)	tolerated(0.99)	-	NULL
PLXNB3	5365	genome.wustl.edu	37	X	153041423	153041423	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_005393.2	+1	reviewed	p.G1495C	1.000	42	0%	86	26.7%	3	0%	-	-	-	superfamily_Rho_GAP,HMMPfam_Plexin_cytopl
PLXNB3	5365	genome.wustl.edu	37	X	153043459	153043459	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_005393.2	+1	reviewed	p.V1773A	1.000	103	0%	187	28.9%	8	0%	probably_damaging(1)	deleterious(0)	deleterious(0.945)	superfamily_Rho_GAP,HMMPfam_Plexin_cytopl
PLXNB3	5365	genome.wustl.edu	37	X	153043657	153043657	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	ENST00000448847	+1	known	p.S143P	0.000	65	0%	105	23.8%	0	-	unknown(0)	deleterious(0)	-	NULL
IDH3G	3421	genome.wustl.edu	37	X	153051702	153051702	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_004135.2	-1	reviewed	p.R349C	1.000	167	0%	286	28%	228	56.1%	probably_damaging(0.999)	tolerated(0.07)	deleterious(0.809)	HMMPfam_Iso_dh,superfamily_SSF53659
SSR4	6748	genome.wustl.edu	37	X	153061905	153061905	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_006280.1	+1	reviewed	p.E28	0.995	138	0%	226	28.8%	487	0%	-	-	-	HMMPfam_TRAP-delta
PDZD4	57595	genome.wustl.edu	37	X	153072227	153072227	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_032512.2	-1	provisional	p.D152	0.571	87	0%	209	25.8%	1	0%	-	-	-	HMMPfam_PDZ,HMMSmart_SM00228,superfamily_PDZ domain-like
L1CAM	3897	genome.wustl.edu	37	X	153133894	153133894	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_000425.3	-1	reviewed	p.Q522H	0.984	163	0%	313	26.8%	0	-	possibly_damaging(0.795)	deleterious(0.02)	deleterious(0.681)	HMMPfam_I-set,superfamily_Immunoglobulin
AVPR2	554	genome.wustl.edu	37	X	153171406	153171406	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_000054.4	+1	reviewed	p.R149H	1.000	44	0%	63	20.6%	2	0%	probably_damaging(0.999)	tolerated(0.24)	deleterious(0.528)	HMMPfam_7tm_1,superfamily_Family A G protein-coupled receptor-like
ARHGAP4	393	genome.wustl.edu	37	X	153175682	153175682	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001666.4	-1	reviewed	p.S700L	0.000	27	0%	49	24.5%	4	0%	benign(0)	deleterious(0.03)	neutral(0.364)	superfamily_SH3
ARHGAP4	393	genome.wustl.edu	37	X	153185124	153185124	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	ENST00000370028	-1	known	p.R233K	0.002	16	0%	54	22.2%	1	0%	benign(0.045)	deleterious(0)	neutral(0.447)	NULL
HCFC1	3054	genome.wustl.edu	37	X	153218077	153218077	+	Nonsense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	ENST00000444191	-1	known	p.G185*	1.000	24	0%	46	15.2%	3	0%	benign(0.182)	tolerated(0.17)	neutral(0.075)	NULL
HCFC1	3054	genome.wustl.edu	37	X	153219958	153219958	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_005334.2	-1	reviewed	p.E1298K	1.000	194	0%	339	13%	2	0%	possibly_damaging(0.891)	deleterious(0)	deleterious(0.795)	NULL
MECP2	4204	genome.wustl.edu	37	X	153295848	153295848	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001110792.1	-1	reviewed	p.S489	1.000	194	0%	171	13.5%	38	0%	-	-	-	NULL
OPN1LW	5956	genome.wustl.edu	37	X	153416268	153416268	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_020061.4	+1	reviewed	p.R85C	1.000	138	0%	136	22.8%	0	-	probably_damaging(1)	deleterious(0)	deleterious(0.945)	HMMPfam_7tm_1,superfamily_SSF81321
TKTL1	8277	genome.wustl.edu	37	X	153524307	153524307	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_012253.3	+1	validated	p.R32Q	1.000	109	0.9%	200	12.5%	0	-	probably_damaging(1)	deleterious(0)	deleterious(0.945)	superfamily_Thiamin diphosphate-binding fold (THDP-binding)
TKTL1	8277	genome.wustl.edu	37	X	153549116	153549116	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_012253.3	+1	validated	p.L348M	0.627	205	0%	140	12.1%	0	-	benign(0.057)	tolerated(0.11)	neutral(0.275)	HMMPfam_Transket_pyr,superfamily_Thiamin diphosphate-binding fold (THDP-binding)
FLNA	2316	genome.wustl.edu	37	X	153579299	153579299	+	Nonsense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001110556.1	-1	reviewed	p.C2378*	1.000	123	0%	193	23.8%	1024	1%	-	-	-	HMMSmart_SM00557,superfamily_E set domains,HMMPfam_Filamin
FLNA	2316	genome.wustl.edu	37	X	153586612	153586612	+	Silent	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001110556.1	-1	reviewed	p.I1570	0.843	36	0%	76	25%	205	0%	-	-	-	HMMSmart_SM00557,superfamily_E set domains,HMMPfam_Filamin
FLNA	2316	genome.wustl.edu	37	X	153586674	153586674	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001110556.1	-1	reviewed	p.A1550T	1.000	54	0%	106	10.4%	197	0%	probably_damaging(0.987)	deleterious(0.02)	deleterious(0.820)	HMMSmart_SM00557,superfamily_E set domains,HMMPfam_Filamin
FLNA	2316	genome.wustl.edu	37	X	153590808	153590808	+	Missense_Mutation	SNP	A	A	C	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001110556.1	-1	reviewed	p.I848S	1.000	61	0%	116	21.6%	71	0%	probably_damaging(0.978)	deleterious(0)	deleterious(0.865)	HMMSmart_SM00557,superfamily_E set domains,HMMPfam_Filamin
FLNA	2316	genome.wustl.edu	37	X	153599398	153599398	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001110556.1	-1	reviewed	p.S72	1.000	65	0%	130	10.8%	20	0%	-	-	-	HMMPfam_CH,HMMSmart_SM00033,superfamily_Calponin-homology domain CH-domain
EMD	2010	genome.wustl.edu	37	X	153608713	153608713	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_000117.2	+1	reviewed	p.A129T	0.001	30	0%	57	29.8%	109	35.7%	benign(0)	tolerated(1)	-	NULL
RPL10	6134	genome.wustl.edu	37	X	153627716	153627716	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_006013.3	+1	reviewed	p.R21C	1.000	257	0%	418	24.2%	911	0.1%	possibly_damaging(0.893)	deleterious(0)	deleterious(0.796)	HMMPfam_Ribosomal_L16,superfamily_Ribosomal protein L10e
RPL10	6134	genome.wustl.edu	37	X	153628886	153628886	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_006013.3	+1	reviewed	p.S137	0.632	152	0%	240	24.2%	3345	0%	-	-	-	HMMPfam_Ribosomal_L16,superfamily_Ribosomal protein L10e
RPL10	6134	genome.wustl.edu	37	X	153631277	153631277	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	ENST00000449494	+1	known	p.P23H	0.001	50	0%	51	21.6%	1	0%	unknown(0)	-	-	NULL
DNASE1L1	1774	genome.wustl.edu	37	X	153633337	153633337	+	Nonsense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001009932.1	-1	reviewed	p.R75*	0.991	51	0%	102	10.8%	10	0%	-	-	-	HMMPfam_Exo_endo_phos,superfamily_Exo_endo_phos,HMMSmart_DNaseIc
TAZ	6901	genome.wustl.edu	37	X	153640545	153640545	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_000116.3	+1	reviewed	p.L78I	1.000	27	0%	50	30%	7	0%	benign(0.114)	tolerated(0.58)	neutral(0.014)	HMMPfam_Acyltransferase,HMMSmart_SM00563,superfamily_Glycerol-3-phosphate (1)-acyltransferase
ATP6AP1	537	genome.wustl.edu	37	X	153664098	153664098	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001183.4	+1	reviewed	p.G425D	1.000	213	0%	346	12.1%	128	26.5%	probably_damaging(1)	deleterious(0)	deleterious(0.945)	HMMPfam_ATP-synt_S1
GDI1	2664	genome.wustl.edu	37	X	153669506	153669506	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001493.2	+1	reviewed	p.E261D	1.000	201	0%	350	23.4%	50	0%	benign(0)	tolerated(0.56)	neutral(0.006)	HMMPfam_GDI,superfamily_FAD/NAD(P)-binding domain
FAM50A	9130	genome.wustl.edu	37	X	153677292	153677292	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_004699.2	+1	reviewed	p.R213Q	0.992	71	0%	122	27%	184	0%	probably_damaging(0.992)	deleterious(0.01)	deleterious(0.853)	HMMPfam_XAP5
PLXNA3	55558	genome.wustl.edu	37	X	153689606	153689606	+	Silent	SNP	C	C	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_017514.3	+1	reviewed	p.G254	0.997	109	0%	212	22.6%	1	0%	-	-	-	HMMPfam_Sema,HMMSmart_Sema,superfamily_Sema
PLXNA3	55558	genome.wustl.edu	37	X	153694326	153694326	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_017514.3	+1	reviewed	p.V861M	0.000	107	0%	195	23.6%	4	75%	benign(0.159)	tolerated(0.07)	neutral(0.333)	HMMPfam_TIG,HMMSmart_IPT,superfamily_Ig_E-set
UBL4A	8266	genome.wustl.edu	37	X	153714142	153714142	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_014235.3	-1	provisional	p.D111Y	0.994	129	0%	231	31.2%	1	100%	probably_damaging(1)	deleterious(0)	deleterious(0.945)	NULL
SLC10A3	8273	genome.wustl.edu	37	X	153716359	153716359	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001142392.1	-1	reviewed	p.S307	0.982	47	0%	97	29.9%	42	0%	-	-	-	HMMPfam_SBF
GAB3	139716	genome.wustl.edu	37	X	153928321	153928321	+	Silent	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001081573.1	-1	reviewed	p.G361	0.973	437	0.2%	128	30.5%	0	-	-	-	-	NULL
DKC1	1736	genome.wustl.edu	37	X	154005091	154005091	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001363.3	+1	reviewed	p.K498N	0.273	645	0%	765	12.2%	32	0%	benign(0.201)	deleterious(0.02)	neutral(0.402)	NULL
MPP1	4354	genome.wustl.edu	37	X	154020559	154020559	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_002436.3	-1	reviewed	p.A35V	0.481	61	0%	37	29.7%	1	0%	benign(0)	deleterious(0.03)	neutral(0.364)	NULL
F8	2157	genome.wustl.edu	37	X	154132578	154132578	+	Silent	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_000132.3	-1	reviewed	p.R1936	0.536	359	0%	138	28.3%	2	0%	-	-	-	superfamily_Cupredoxins,HMMPfam_Cu-oxidase_2
F8	2157	genome.wustl.edu	37	X	154157962	154157962	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_000132.3	-1	reviewed	p.P1368L	0.001	584	0%	196	14.8%	0	-	benign(0)	tolerated(0.2)	neutral(0.049)	NULL
F8	2157	genome.wustl.edu	37	X	154158658	154158658	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_000132.3	-1	reviewed	p.S1136Y	0.017	186	0%	70	25.7%	0	-	probably_damaging(0.996)	deleterious(0)	deleterious(0.906)	NULL
F8	2157	genome.wustl.edu	37	X	154158790	154158790	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_000132.3	-1	reviewed	p.N1092S	0.005	470	0%	165	14.5%	0	-	benign(0.054)	tolerated(0.06)	neutral(0.326)	NULL
F8	2157	genome.wustl.edu	37	X	154159114	154159114	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_000132.3	-1	reviewed	p.S984L	0.000	161	0%	49	14.3%	0	-	benign(0)	tolerated(1)	-	NULL
F8	2157	genome.wustl.edu	37	X	154194417	154194417	+	Splice_Site	SNP	C	C	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_000132.3	-1	reviewed	e9-1	1.000	177	0%	67	29.9%	0	-	-	-	-	-
VBP1	7411	genome.wustl.edu	37	X	154448530	154448530	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_003372.5	+1	reviewed	p.E55G	1.000	155	0%	251	29.1%	8	37.5%	probably_damaging(1)	tolerated(0.06)	deleterious(0.823)	superfamily_Prefoldin
SPRY3	10251	genome.wustl.edu	37	X	155003609	155003609	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_005840.1	+1	validated	p.D26N	1.000	409	0%	452	27%	0	-	possibly_damaging(0.602)	tolerated(0.12)	deleterious(0.469)	NULL
SPRY3	10251	genome.wustl.edu	37	X	155004300	155004300	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_005840.1	+1	validated	p.R256Q	0.956	156	0%	128	29.7%	0	-	possibly_damaging(0.864)	tolerated(0.39)	neutral(0.351)	HMMPfam_Sprouty
VAMP7	6845	genome.wustl.edu	37	X	155119217	155119217	+	Nonsense_Mutation	SNP	G	G	T	novel		TCGA-AP-A0LM-01	TCGA-AP-A0LM-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_005638.4	+1	validated	p.E30*	1.000	768	0.1%	542	11.3%	3	0%	-	-	-	superfamily_SNARE-like
