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
SAMD11	148398	genome.wustl.edu	37	1	874501	874501	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-BG-A0VX-01	TCGA-BG-A0VX-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_152486.2	+1	validated	p.S171L	1.000	38	0%	53	45.3%	8	62.5%	benign(0.007)	deleterious(0.01)	neutral(0.406)	NULL
CHD5	26038	genome.wustl.edu	37	1	6212479	6212479	+	Missense_Mutation	SNP	C	C	G	novel		TCGA-BG-A0VX-01	TCGA-BG-A0VX-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_015557.1	-1	provisional	p.G288A	1.000	189	0%	227	32.2%	0	-	probably_damaging(0.978)	tolerated(0.63)	neutral(0.424)	NULL
MTOR	2475	genome.wustl.edu	37	1	11184573	11184573	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-BG-A0VX-01	TCGA-BG-A0VX-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_004958.3	-1	reviewed	p.S2215Y	1.000	284	0%	240	31.7%	49	53%	benign(0.125)	deleterious(0.01)	neutral(0.416)	HMMPfam_PI3_PI4_kinase,HMMSmart_PI3Kc,superfamily_Kinase_like,superfamily_ARM-type_fold
C1orf38	9473	genome.wustl.edu	37	1	28208885	28208885	+	Silent	SNP	G	G	A	novel		TCGA-BG-A0VX-01	TCGA-BG-A0VX-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001105556.1	+1	validated	p.V350	1.000	29	0%	32	34.4%	2	0%	-	-	-	NULL
L1TD1	54596	genome.wustl.edu	37	1	62676431	62676431	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-BG-A0VX-01	TCGA-BG-A0VX-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_019079.4	+1	validated	p.R662K	0.000	144	0%	104	30.8%	0	-	possibly_damaging(0.945)	deleterious(0.03)	deleterious(0.754)	HMMPfam_Transposase_22
BCAR3	8412	genome.wustl.edu	37	1	94140206	94140206	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-BG-A0VX-01	TCGA-BG-A0VX-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_003567.2	-1	reviewed	p.P94L	0.823	129	0%	126	28.6%	15	26.6%	probably_damaging(1)	deleterious(0)	deleterious(0.945)	NULL
IGSF3	3321	genome.wustl.edu	37	1	117131533	117131533	+	Silent	SNP	G	G	A	novel		TCGA-BG-A0VX-01	TCGA-BG-A0VX-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001542.2	-1	validated	p.Y761	0.991	110	0%	122	30.3%	6	66.6%	-	-	-	HMMSmart_IG,HMMPfam_V-set,superfamily_SSF48726
ASH1L	55870	genome.wustl.edu	37	1	155449016	155449016	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-BG-A0VX-01	TCGA-BG-A0VX-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_018489.2	-1	reviewed	p.E1215D	1.000	364	0%	291	25.8%	1	100%	probably_damaging(0.971)	deleterious(0)	deleterious(0.857)	NULL
HAPLN2	60484	genome.wustl.edu	37	1	156593352	156593352	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-BG-A0VX-01	TCGA-BG-A0VX-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_021817.2	+1	validated	p.A24T	0.065	206	0%	186	29%	0	-	benign(0)	tolerated(0.49)	neutral(0.011)	HMMPfam_V-set
ARHGEF11	9826	genome.wustl.edu	37	1	156905842	156905842	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-BG-A0VX-01	TCGA-BG-A0VX-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_198236.1	-1	reviewed	p.A1547T	0.000	209	1%	225	30.2%	22	13.6%	benign(0)	tolerated(1)	-	NULL
APCS	325	genome.wustl.edu	37	1	159558305	159558305	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-BG-A0VX-01	TCGA-BG-A0VX-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001639.3	+1	reviewed	p.G160E	0.472	399	0%	397	32.5%	0	-	probably_damaging(1)	deleterious(0)	deleterious(0.945)	HMMPfam_Pentaxin,HMMSmart_PTX,superfamily_ConA_like_lec_gl
UAP1	6675	genome.wustl.edu	37	1	162558605	162558605	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-BG-A0VX-01	TCGA-BG-A0VX-01	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_003115.4	+1	validated	p.D384G	1.000	207	0%	160	22.5%	28	35.7%	possibly_damaging(0.897)	deleterious(0)	deleterious(0.798)	HMMPfam_UDPGP,superfamily_Nucleotide-diphospho-sugar transferases
PRG4	10216	genome.wustl.edu	37	1	186270797	186270797	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-BG-A0VX-01	TCGA-BG-A0VX-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_005807.3	+1	reviewed	p.K91N	0.018	307	0%	341	33.7%	0	-	unknown(0)	-	-	HMMPfam_Somatomedin_B,HMMSmart_SM00201,PatternScan_SMB_1,superfamily_Somatomedin B domain
PDC	5132	genome.wustl.edu	37	1	186413403	186413403	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-BG-A0VX-01	TCGA-BG-A0VX-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_002597.3	-1	reviewed	p.A150V	0.989	216	0%	176	36.9%	0	-	benign(0.154)	tolerated(0.05)	neutral(0.359)	HMMPfam_Phosducin,superfamily_Thiordxn-like_fd
CFHR3	10878	genome.wustl.edu	37	1	196748359	196748359	+	Nonsense_Mutation	SNP	C	C	A	novel		TCGA-BG-A0VX-01	TCGA-BG-A0VX-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_021023.5	+1	reviewed	p.Y42*	0.053	272	0%	298	31.2%	4	0%	-	-	-	HMMPfam_Sushi,HMMSmart_CCP,superfamily_Complement_control_module
PIGR	5284	genome.wustl.edu	37	1	207107919	207107919	+	Silent	SNP	G	G	A	novel		TCGA-BG-A0VX-01	TCGA-BG-A0VX-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_002644.3	-1	reviewed	p.F517	0.000	149	0%	124	27.4%	54	42.5%	-	-	-	HMMSmart_IG,HMMPfam_V-set,superfamily_SSF48726
BPNT1	10380	genome.wustl.edu	37	1	220253146	220253146	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-BG-A0VX-01	TCGA-BG-A0VX-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_006085.4	-1	validated	p.A15T	0.987	219	0%	244	23.8%	18	55.5%	benign(0.192)	deleterious(0.04)	neutral(0.367)	HMMPfam_Inositol_P,superfamily_Carbohydrate phosphatase
TLR5	7100	genome.wustl.edu	37	1	223284895	223284895	+	Silent	SNP	G	G	T	novel		TCGA-BG-A0VX-01	TCGA-BG-A0VX-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_003268.5	-1	reviewed	p.L493	0.001	178	0%	142	28.9%	0	-	-	-	-	superfamily_SSF52058
HEATR1	55127	genome.wustl.edu	37	1	236759283	236759283	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-BG-A0VX-01	TCGA-BG-A0VX-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_018072.4	-1	validated	p.S269F	1.000	232	0%	222	26.6%	2	50%	possibly_damaging(0.926)	tolerated(0.08)	deleterious(0.674)	NULL
OR2M7	391196	genome.wustl.edu	37	1	248487867	248487867	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-BG-A0VX-01	TCGA-BG-A0VX-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001004691.1	-1	provisional	p.A2T	0.854	328	0%	309	26.9%	0	-	benign(0.115)	tolerated(0.34)	neutral(0.032)	superfamily_SSF81321
CAPN13	92291	genome.wustl.edu	37	2	31010118	31010118	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-BG-A0VX-01	TCGA-BG-A0VX-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_144575.2	-1	validated	p.R25Q	0.071	114	0%	131	23.7%	1	0%	possibly_damaging(0.64)	deleterious(0)	deleterious(0.668)	HMMSmart_SM00230,superfamily_Cysteine proteinases
SLC8A1	6546	genome.wustl.edu	37	2	40366800	40366800	+	Silent	SNP	G	G	A	novel		TCGA-BG-A0VX-01	TCGA-BG-A0VX-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	ENST00000359719	-1	known	p.R169*	0.606	124	0%	146	26%	1	0%	-	-	-	NULL
FAM161A	84140	genome.wustl.edu	37	2	62053629	62053629	+	Silent	SNP	C	C	T	novel		TCGA-BG-A0VX-01	TCGA-BG-A0VX-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_032180.2	-1	validated	p.E648	0.996	648	0.2%	572	30.6%	1	0%	-	-	-	NULL
GNLY	10578	genome.wustl.edu	37	2	85924678	85924678	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-BG-A0VX-01	TCGA-BG-A0VX-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_006433.3	+1	reviewed	p.R102Q	0.000	79	0%	96	32.3%	42	0%	benign(0)	tolerated(0.39)	neutral(0.016)	HMMSmart_SM00741,superfamily_Saposin
IGKV1-16	28938	genome.wustl.edu	37	2	89399420	89399420	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-BG-A0VX-01	TCGA-BG-A0VX-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	ENST00000479981	-1	known	p.L95I	1.000	436	0%	419	26.3%	4	0%	possibly_damaging(0.898)	deleterious(0)	deleterious(0.799)	HMMSmart_SM00406,HMMSmart_SM00409,HMMPfam_V-set,superfamily_Immunoglobulin
CNTNAP5	129684	genome.wustl.edu	37	2	125660460	125660460	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-BG-A0VX-01	TCGA-BG-A0VX-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_130773.2	+1	reviewed	p.E1145D	0.563	147	0%	123	29.3%	0	-	benign(0.006)	tolerated(0.17)	neutral(0.059)	HMMSmart_LamG,superfamily_ConA_like_lec_gl,HMMPfam_Laminin_G_2
KCNJ3	3760	genome.wustl.edu	37	2	155711635	155711635	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-BG-A0VX-01	TCGA-BG-A0VX-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_002239.2	+1	reviewed	p.R439Q	1.000	81	1.2%	67	34.3%	0	-	benign(0.333)	deleterious(0.01)	deleterious(0.510)	NULL
ACVR1	90	genome.wustl.edu	37	2	158630626	158630626	+	Missense_Mutation	SNP	C	C	T	rs121912678		TCGA-BG-A0VX-01	TCGA-BG-A0VX-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001105.4	-1	reviewed	p.R206H	1.000	126	0%	164	35.4%	20	30%	probably_damaging(1)	deleterious(0)	deleterious(0.945)	HMMPfam_TGF_beta_GS,HMMSmart_GS,superfamily_Kinase_like
XIRP2	129446	genome.wustl.edu	37	2	168103889	168103889	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-BG-A0VX-01	TCGA-BG-A0VX-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_152381.4	+1	validated	p.T1996N	0.000	64	0%	50	32%	0	-	benign(0.004)	tolerated(0.16)	neutral(0.059)	NULL
HNRNPA3	220988	genome.wustl.edu	37	2	178080756	178080756	+	Silent	SNP	T	T	C	novel		TCGA-BG-A0VX-01	TCGA-BG-A0VX-01	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_194247.2	+1	validated	p.G131	1.000	398	0.3%	321	32.4%	139	48.2%	-	-	-	HMMPfam_RRM_1,HMMSmart_SM00360,superfamily_RNA-binding domain RBD
TTN	7273	genome.wustl.edu	37	2	179436919	179436919	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-BG-A0VX-01	TCGA-BG-A0VX-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	ENST00000356127	-1	known	p.R22077Q	1.000	214	0.5%	203	30.5%	0	-	possibly_damaging(0.916)	-	-	HMMPfam_fn3,HMMSmart_SM00060
GULP1	51454	genome.wustl.edu	37	2	189406036	189406036	+	Silent	SNP	C	C	T	novel		TCGA-BG-A0VX-01	TCGA-BG-A0VX-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_016315.2	+1	validated	p.S130	0.936	290	0%	299	28.8%	3	33.3%	-	-	-	HMMPfam_PID,HMMSmart_SM00462,superfamily_PH domain-like
DNAJB3	414061	genome.wustl.edu	37	2	234652198	234652198	+	Missense_Mutation	SNP	A	A	C	novel		TCGA-BG-A0VX-01	TCGA-BG-A0VX-01	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001001394.3	-1	validated	p.I122S	0.337	43	0%	40	25%	0	-	-	-	-	superfamily_DnaJ_N
CHL1	10752	genome.wustl.edu	37	3	383608	383608	+	Silent	SNP	C	C	T	novel		TCGA-BG-A0VX-01	TCGA-BG-A0VX-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_006614.2	+1	reviewed	p.I174	0.001	123	0%	140	34.3%	0	-	-	-	-	HMMSmart_SM00409,superfamily_Immunoglobulin
CNTN6	27255	genome.wustl.edu	37	3	1269599	1269599	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-BG-A0VX-01	TCGA-BG-A0VX-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_014461.2	+1	reviewed	p.D94Y	1.000	249	0%	228	33.3%	0	-	probably_damaging(1)	deleterious(0)	deleterious(0.945)	HMMSmart_IGc2,HMMPfam_I-set,superfamily_SSF48726
ITPR1	3708	genome.wustl.edu	37	3	4856776	4856776	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-BG-A0VX-01	TCGA-BG-A0VX-01	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001099952.2	+1	reviewed	p.F2533L	1.000	434	0%	497	25.4%	1	0%	probably_damaging(0.988)	deleterious(0)	deleterious(0.882)	HMMPfam_Ion_trans
ITPR1	3708	genome.wustl.edu	37	3	4878583	4878583	+	Silent	SNP	G	G	A	novel		TCGA-BG-A0VX-01	TCGA-BG-A0VX-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001099952.2	+1	reviewed	p.T2670	0.244	100	0%	82	28%	3	33.3%	-	-	-	NULL
CTNNB1	1499	genome.wustl.edu	37	3	41266097	41266097	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-BG-A0VX-01	TCGA-BG-A0VX-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001098209.1	+1	reviewed	p.D32N	1.000	98	0%	102	28.4%	111	41.4%	probably_damaging(1)	deleterious(0)	deleterious(0.945)	NULL
SMARCC1	6599	genome.wustl.edu	37	3	47651718	47651759	+	In_Frame_Del	DEL	GCTGTTCCATTTGCTGTCGTGCTCGTAATTCAGCATACTTCA	GCTGTTCCATTTGCTGTCGTGCTCGTAATTCAGCATACTTCA	-	novel		TCGA-BG-A0VX-01	TCGA-BG-A0VX-01	GCTGTTCCATTTGCTGTCGTGCTCGTAATTCAGCATACTTCA	GCTGTTCCATTTGCTGTCGTGCTCGTAATTCAGCATACTTCA					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_003074.3	-1	validated	p.LKYAELRARQQMEQ947in_frame_del	1.000:1.000:1.000:1.000:0.932:1.000:1.000:1.000:1.000:1.000:1.000:1.000:1.000:1.000:1.000:1.000:0.387:0.979:0.975:0.800:0.998:1.000:0.914:0.973:0.973:0.261:0.838:0.837:0.843:0.997:0.998:0.003:0.999:0.999:0.684:0.997:1.000:0.996:1.000:1.000:0.989:1.000	-	-	-	-	-	-	-	-	-	NULL
OR5H14	403273	genome.wustl.edu	37	3	97869154	97869154	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-BG-A0VX-01	TCGA-BG-A0VX-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001005514.1	+1	provisional	p.D309Y	0.015	151	0%	101	23.8%	0	-	benign(0.006)	deleterious(0.02)	neutral(0.383)	NULL
GOLGB1	2804	genome.wustl.edu	37	3	121411056	121411056	+	Missense_Mutation	SNP	T	T	A	novel		TCGA-BG-A0VX-01	TCGA-BG-A0VX-01	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_004487.3	-1	validated	p.K2380N	0.997	219	0%	212	29.2%	8	50%	probably_damaging(1)	deleterious(0.02)	deleterious(0.883)	NULL
C3orf56	285311	genome.wustl.edu	37	3	126916433	126916434	+	RNA	INS	-	-	TTC	rs10623171	byCluster	TCGA-BG-A0VX-01	TCGA-BG-A0VX-01	-	-					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	XR_078289.1	+1	model	NULL	0.043:0.029	-	-	-	-	-	-	-	-	-	-
MED12L	116931	genome.wustl.edu	37	3	151105898	151105898	+	Missense_Mutation	SNP	A	A	C	novel		TCGA-BG-A0VX-01	TCGA-BG-A0VX-01	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_053002.4	+1	reviewed	p.T1762P	0.000	144	0%	144	27.8%	0	-	benign(0.123)	tolerated(0.21)	neutral(0.054)	NULL
BCHE	590	genome.wustl.edu	37	3	165547484	165547484	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-BG-A0VX-01	TCGA-BG-A0VX-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_000055.2	-1	reviewed	p.F446L	0.999	168	0%	145	33.8%	1	0%	benign(0.003)	tolerated(0.3)	neutral(0.029)	HMMPfam_COesterase,superfamily_SSF53474
NLGN1	22871	genome.wustl.edu	37	3	173998307	173998307	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-BG-A0VX-01	TCGA-BG-A0VX-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_014932.2	+1	reviewed	p.F562L	1.000	192	0%	156	23.1%	0	-	probably_damaging(0.993)	tolerated(0.14)	deleterious(0.700)	HMMPfam_COesterase,superfamily_SSF53474
PIK3CA	5290	genome.wustl.edu	37	3	178916876	178916876	+	Missense_Mutation	SNP	G	G	A	rs121913287		TCGA-BG-A0VX-01	TCGA-BG-A0VX-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_006218.2	+1	reviewed	p.R88Q	1.000	181	0%	157	25.5%	2	0%	probably_damaging(1)	deleterious(0.04)	deleterious(0.849)	HMMPfam_PI3K_p85B,HMMSmart_PI3K_p85B
PIK3CA	5290	genome.wustl.edu	37	3	178936095	178936095	+	Missense_Mutation	SNP	A	A	C	novel		TCGA-BG-A0VX-01	TCGA-BG-A0VX-01	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_006218.2	+1	reviewed	p.Q546P	1.000	222	0%	199	21.6%	1	0%	probably_damaging(0.999)	tolerated(0.05)	deleterious(0.836)	HMMPfam_PI3Ka,HMMSmart_PI3Ka,superfamily_ARM-type_fold
BOD1L	259282	genome.wustl.edu	37	4	13602068	13602068	+	Silent	SNP	G	G	A	rs139854434	by1000genomes	TCGA-BG-A0VX-01	TCGA-BG-A0VX-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_148894.2	-1	validated	p.F2152	0.011	72	0%	75	21.3%	5	40%	-	-	-	superfamily_SSF81995
POLR2B	5431	genome.wustl.edu	37	4	57891616	57891616	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-BG-A0VX-01	TCGA-BG-A0VX-01	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_000938.1	+1	reviewed	p.L1051S	1.000	326	0%	322	25.5%	84	41.6%	probably_damaging(1)	deleterious(0)	deleterious(0.945)	HMMPfam_RNA_pol_Rpb2_6,superfamily_beta and beta-prime subunits of DNA dependent RNA-polymerase
ENAM	10117	genome.wustl.edu	37	4	71507896	71507896	+	Silent	SNP	G	G	A	novel		TCGA-BG-A0VX-01	TCGA-BG-A0VX-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_031889.2	+1	reviewed	p.T251	0.755	286	0%	288	25%	0	-	-	-	-	NULL
MOB1B	92597	genome.wustl.edu	37	4	71824758	71824758	+	Splice_Site	SNP	G	G	A	novel		TCGA-BG-A0VX-01	TCGA-BG-A0VX-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_173468.2	+1	reviewed	e2+1	1.000	256	0%	213	32.4%	0	-	-	-	-	-
GC	2638	genome.wustl.edu	37	4	72620766	72620766	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-BG-A0VX-01	TCGA-BG-A0VX-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_000583.2	-1	reviewed	p.L365F	0.045	327	0%	331	28.4%	0	-	benign(0.239)	tolerated(0.59)	neutral(0.029)	superfamily_Serum albumin-like,HMMPfam_Serum_albumin,HMMSmart_SM00103
NAA11	84779	genome.wustl.edu	37	4	80246556	80246556	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-BG-A0VX-01	TCGA-BG-A0VX-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_032693.2	-1	validated	p.R159K	0.818	109	0%	121	30.6%	0	-	benign(0.001)	tolerated(0.69)	neutral(0.002)	NULL
PRKG2	5593	genome.wustl.edu	37	4	82013596	82013596	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-BG-A0VX-01	TCGA-BG-A0VX-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_006259.1	-1	provisional	p.G713C	1.000	162	0%	144	27.1%	0	-	probably_damaging(1)	deleterious(0)	deleterious(0.945)	HMMSmart_S_TK_X,superfamily_Kinase_like
KLHL8	57563	genome.wustl.edu	37	4	88084715	88084715	+	Nonsense_Mutation	SNP	G	G	A	novel		TCGA-BG-A0VX-01	TCGA-BG-A0VX-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_020803.3	-1	validated	p.R607*	1.000	218	0%	236	36.9%	15	33.3%	-	-	-	NULL
ADH1B	125	genome.wustl.edu	37	4	100232704	100232704	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-BG-A0VX-01	TCGA-BG-A0VX-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_000668.4	-1	reviewed	p.R313H	1.000	298	0%	358	26.8%	0	-	probably_damaging(0.99)	deleterious(0.03)	deleterious(0.806)	HMMPfam_ADH_zinc_N,superfamily_NAD(P)-binding Rossmann-fold domains
TRPC3	7222	genome.wustl.edu	37	4	122824087	122824087	+	Nonsense_Mutation	SNP	G	G	A	novel		TCGA-BG-A0VX-01	TCGA-BG-A0VX-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001130698.1	-1	validated	p.R795*	0.998	343	0%	320	24.1%	5	0%	-	-	-	NULL
FAT4	79633	genome.wustl.edu	37	4	126373479	126373479	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-BG-A0VX-01	TCGA-BG-A0VX-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_024582.4	+1	validated	p.H3770N	0.000	138	0%	100	27%	0	-	benign(0)	tolerated(0.59)	neutral(0.004)	NULL
PCDH10	57575	genome.wustl.edu	37	4	134071914	134071914	+	Nonsense_Mutation	SNP	G	G	T	novel		TCGA-BG-A0VX-01	TCGA-BG-A0VX-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_032961.1	+1	reviewed	p.G207*	1.000	17	0%	24	33.3%	0	-	-	-	-	HMMPfam_Cadherin,HMMSmart_SM00112,superfamily_Cadherin-like
CLGN	1047	genome.wustl.edu	37	4	141313527	141313527	+	Silent	SNP	T	T	C	novel		TCGA-BG-A0VX-01	TCGA-BG-A0VX-01	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001130675.1	-1	reviewed	p.K499	0.998	520	0%	390	30.8%	18	44.4%	-	-	-	NULL
MARCH1	55016	genome.wustl.edu	37	4	164775227	164775227	+	Silent	SNP	C	C	T	novel		TCGA-BG-A0VX-01	TCGA-BG-A0VX-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	ENST00000514618	-1	known	p.T19	0.965	429	0%	437	30.2%	0	-	-	-	-	NULL
PLEKHG4B	153478	genome.wustl.edu	37	5	161944	161944	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-BG-A0VX-01	TCGA-BG-A0VX-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_052909.3	+1	validated	p.R489H	0.000	83	0%	95	40%	2	50%	benign(0.136)	deleterious(0.01)	neutral(0.417)	NULL
MYO10	4651	genome.wustl.edu	37	5	16780707	16780707	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-BG-A0VX-01	TCGA-BG-A0VX-01	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_012334.2	-1	validated	p.V251A	1.000	374	0%	368	27.2%	5	20%	probably_damaging(0.992)	tolerated(0.05)	deleterious(0.793)	HMMPfam_Myosin_head,HMMSmart_MYSc,superfamily_SSF52540
EMB	133418	genome.wustl.edu	37	5	49699234	49699234	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-BG-A0VX-01	TCGA-BG-A0VX-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_198449.2	-1	reviewed	p.E219K	1.000	282	0%	272	29.4%	4	0%	possibly_damaging(0.676)	tolerated(0.51)	neutral(0.249)	HMMSmart_SM00409,superfamily_Immunoglobulin
MRPS27	23107	genome.wustl.edu	37	5	71593475	71593475	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-BG-A0VX-01	TCGA-BG-A0VX-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_015084.2	-1	reviewed	p.S69Y	1.000	188	0%	113	33.6%	19	36.8%	probably_damaging(1)	deleterious(0.02)	deleterious(0.883)	HMMPfam_MRP-S27
AFAP1L1	134265	genome.wustl.edu	37	5	148687123	148687123	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-BG-A0VX-01	TCGA-BG-A0VX-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_152406.2	+1	validated	p.R232C	1.000	38	0%	46	21.7%	7	14.2%	probably_damaging(1)	deleterious(0.03)	deleterious(0.865)	HMMPfam_PH,HMMSmart_SM00233,superfamily_PH domain-like
LOC100289372	100289372	genome.wustl.edu	37	5	175956634	175956634	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-BG-A0VX-01	TCGA-BG-A0VX-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	XM_002342583.1	+1	model	p.V59I	1.000	51	0%	60	28.3%	26	38.4%	-	-	-	NULL
ADTRP	84830	genome.wustl.edu	37	6	11778885	11778885	+	Silent	SNP	G	G	T	novel		TCGA-BG-A0VX-01	TCGA-BG-A0VX-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001143948.1	-1	validated	p.I36	0.001	571	0%	558	26.5%	0	-	-	-	-	NULL
HIST1H3E	8353	genome.wustl.edu	37	6	26225387	26225387	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-BG-A0VX-01	TCGA-BG-A0VX-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_003532.2	+1	reviewed	p.A2V	0.995	47	0%	34	47.1%	0	-	probably_damaging(0.981)	-	-	superfamily_Histone-fold
SRF	6722	genome.wustl.edu	37	6	43141804	43141804	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-BG-A0VX-01	TCGA-BG-A0VX-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_003131.2	+1	reviewed	p.D245Y	1.000	292	0%	334	24.9%	26	34.6%	probably_damaging(0.991)	deleterious(0)	deleterious(0.889)	NULL
EYS	346007	genome.wustl.edu	37	6	65300721	65300721	+	Missense_Mutation	SNP	T	T	G	novel		TCGA-BG-A0VX-01	TCGA-BG-A0VX-01	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001142800.1	-1	reviewed	p.N1680T	0.004	215	0%	118	28.8%	0	-	possibly_damaging(0.615)	-	-	superfamily_Concanavalin A-like lectins/glucanases
MICAL1	64780	genome.wustl.edu	37	6	109774938	109774938	+	Silent	SNP	G	G	A	novel		TCGA-BG-A0VX-01	TCGA-BG-A0VX-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_022765.3	-1	validated	p.N123	0.501	18	0%	34	17.6%	7	42.8%	-	-	-	superfamily_FAD/NAD(P)-binding domain
REV3L	5980	genome.wustl.edu	37	6	111694064	111694064	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-BG-A0VX-01	TCGA-BG-A0VX-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_002912.3	-1	validated	p.V1832M	1.000	272	0.4%	251	33.9%	5	20%	benign(0.057)	tolerated(0.06)	neutral(0.326)	superfamily_Ribonuclease H-like
HS3ST5	222537	genome.wustl.edu	37	6	114378562	114378562	+	Silent	SNP	G	G	T	novel		TCGA-BG-A0VX-01	TCGA-BG-A0VX-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_153612.3	-1	validated	p.I300	1.000	184	0%	128	25.8%	0	-	-	-	-	HMMPfam_Sulfotransfer_1,superfamily_P-loop containing nucleoside triphosphate hydrolases
UTRN	7402	genome.wustl.edu	37	6	145069431	145069431	+	Missense_Mutation	SNP	A	A	T	novel		TCGA-BG-A0VX-01	TCGA-BG-A0VX-01	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_007124.2	+1	reviewed	p.K2663N	0.997	137	0%	104	32.7%	10	40%	probably_damaging(0.998)	deleterious(0.03)	deleterious(0.839)	HMMSmart_SPEC,superfamily_Spectrin
SMOC2	64094	genome.wustl.edu	37	6	169053814	169053814	+	Silent	SNP	C	C	T	novel		TCGA-BG-A0VX-01	TCGA-BG-A0VX-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_022138.2	+1	reviewed	p.D408	0.993	270	0%	242	31.4%	4	0%	-	-	-	HMMSmart_EFh,PatternScan_EF_HAND_1,HMMPfam_SPARC_Ca_bdg,superfamily_SSF47473
LOC100132308	100132308	genome.wustl.edu	37	7	63020567	63020567	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-BG-A0VX-01	TCGA-BG-A0VX-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	XM_001715240.2	+1	model	p.M239I	0.632	61	0%	82	11%	0	-	-	-	-	HMMPfam_Nucleoside_tran
BCL7B	9275	genome.wustl.edu	37	7	72957958	72957958	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-BG-A0VX-01	TCGA-BG-A0VX-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001707.2	-1	reviewed	p.S62L	1.000	224	0.4%	230	26.1%	22	27.2%	benign(0.073)	tolerated(0.21)	neutral(0.049)	NULL
PCLO	27445	genome.wustl.edu	37	7	82784169	82784169	+	Missense_Mutation	SNP	T	T	G	novel		TCGA-BG-A0VX-01	TCGA-BG-A0VX-01	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_033026.5	-1	validated	p.E596D	1.000	386	0.3%	439	32.1%	0	-	probably_damaging(0.971)	-	-	HMMPfam_zf-piccolo,superfamily_FYVE/PHD zinc finger
SEMA3E	9723	genome.wustl.edu	37	7	83014710	83014710	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-BG-A0VX-01	TCGA-BG-A0VX-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_012431.2	-1	reviewed	p.G592D	1.000	328	0%	298	31.9%	23	43.4%	probably_damaging(1)	deleterious(0)	deleterious(0.945)	HMMSmart_IG,superfamily_SSF48726
DBF4	10926	genome.wustl.edu	37	7	87516701	87516701	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-BG-A0VX-01	TCGA-BG-A0VX-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_006716.3	+1	validated	p.L170I	1.000	422	0%	276	30.4%	3	33.3%	probably_damaging(0.999)	deleterious(0.01)	deleterious(0.896)	NULL
C7orf62	219557	genome.wustl.edu	37	7	88423944	88423944	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-BG-A0VX-01	TCGA-BG-A0VX-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_152706.2	-1	predicted	p.D105N	0.008	183	0%	143	30.8%	0	-	benign(0.014)	tolerated(0.26)	neutral(0.035)	NULL
SMURF1	57154	genome.wustl.edu	37	7	98649053	98649053	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-BG-A0VX-01	TCGA-BG-A0VX-01	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_020429.1	-1	reviewed	p.T245A	1.000	216	0%	247	29.6%	1	0%	possibly_damaging(0.846)	tolerated(0.16)	neutral(0.385)	HMMPfam_WW,HMMSmart_SM00456,superfamily_WW domain
C7orf61	402573	genome.wustl.edu	37	7	100061381	100061381	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-BG-A0VX-01	TCGA-BG-A0VX-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	ENST00000418952	-1	known	p.S39Y	0.000	31	0%	20	20%	0	-	unknown(0)	-	-	NULL
LOC647030	647030	genome.wustl.edu	37	7	131347341	131347341	+	RNA	SNP	G	G	A	novel		TCGA-BG-A0VX-01	TCGA-BG-A0VX-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	XR_017470.3	-1	model	NULL	1.000	71	0%	54	38.9%	0	-	-	-	-	-
NUP205	23165	genome.wustl.edu	37	7	135323425	135323425	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-BG-A0VX-01	TCGA-BG-A0VX-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_015135.2	+1	validated	p.R1796W	0.982	346	0%	360	28.3%	42	38%	probably_damaging(0.999)	deleterious(0)	deleterious(0.935)	NULL
TNKS	8658	genome.wustl.edu	37	8	9567464	9567464	+	Splice_Site	SNP	G	G	A	novel		TCGA-BG-A0VX-01	TCGA-BG-A0VX-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_003747.2	+1	validated	e10-1	1.000	497	0.2%	501	26.9%	2	0%	-	-	-	-
SLC35G5	83650	genome.wustl.edu	37	8	11189510	11189510	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-BG-A0VX-01	TCGA-BG-A0VX-01	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_054028.1	+1	reviewed	p.Y299H	0.364	250	0%	302	25.8%	0	-	benign(0.029)	tolerated(0.36)	neutral(0.022)	superfamily_SSF103481
XPO7	23039	genome.wustl.edu	37	8	21827684	21827684	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-BG-A0VX-01	TCGA-BG-A0VX-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001100161.1	+1	validated	p.R97W	0.999	168	0%	136	29.4%	8	87.5%	probably_damaging(0.999)	deleterious(0)	deleterious(0.935)	superfamily_ARM repeat
CHRNA2	1135	genome.wustl.edu	37	8	27321086	27321086	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-BG-A0VX-01	TCGA-BG-A0VX-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_000742.3	-1	reviewed	p.D292N	0.994	469	0.6%	632	30.4%	0	-	possibly_damaging(0.728)	tolerated(0.07)	deleterious(0.584)	HMMPfam_Neur_chan_memb,superfamily_Neurotransmitter-gated ion-channel transmembrane pore
ENSG00000206975	0	genome.wustl.edu	37	8	57829680	57829680	+	RNA	SNP	G	G	A	novel		TCGA-BG-A0VX-01	TCGA-BG-A0VX-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	ENST00000384248	+1	novel	NULL	0.210	26	0%	82	23.2%	0	-	-	-	-	-
LOC392232	392232	genome.wustl.edu	37	8	73150703	73150703	+	RNA	SNP	A	A	C	novel		TCGA-BG-A0VX-01	TCGA-BG-A0VX-01	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	XR_037363.2	-1	model	NULL	0.555	25	0%	56	23.2%	0	-	-	-	-	-
RUNX1T1	862	genome.wustl.edu	37	8	93003954	93003954	+	Missense_Mutation	SNP	A	A	C	novel		TCGA-BG-A0VX-01	TCGA-BG-A0VX-01	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_175634.1	-1	reviewed	p.L302V	1.000	400	0%	447	28%	0	-	probably_damaging(0.999)	deleterious(0.05)	deleterious(0.836)	NULL
CSMD3	114788	genome.wustl.edu	37	8	113243804	113243804	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-BG-A0VX-01	TCGA-BG-A0VX-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_198123.1	-1	validated	p.D3600Y	1.000	324	0%	301	30.9%	0	-	probably_damaging(1)	deleterious(0.03)	deleterious(0.865)	NULL
CSMD3	114788	genome.wustl.edu	37	8	113277716	113277716	+	Silent	SNP	C	C	T	rs183191388	by1000genomes	TCGA-BG-A0VX-01	TCGA-BG-A0VX-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_198123.1	-1	validated	p.T3204	0.517	290	0.3%	332	33.4%	0	-	-	-	-	HMMPfam_Sushi,HMMSmart_SM00032,superfamily_Complement control module/SCR domain
CSMD3	114788	genome.wustl.edu	37	8	113650962	113650962	+	Missense_Mutation	SNP	A	A	C	novel		TCGA-BG-A0VX-01	TCGA-BG-A0VX-01	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_198123.1	-1	validated	p.F1163L	1.000	195	0%	141	30.5%	0	-	possibly_damaging(0.484)	tolerated(0.62)	neutral(0.165)	HMMPfam_CUB,HMMSmart_SM00042,superfamily_Spermadhesin CUB domain
KCNQ3	3786	genome.wustl.edu	37	8	133182596	133182596	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-BG-A0VX-01	TCGA-BG-A0VX-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_004519.2	-1	reviewed	p.S407Y	1.000	86	0%	102	27.5%	0	-	possibly_damaging(0.885)	deleterious(0.01)	deleterious(0.752)	NULL
ACO1	48	genome.wustl.edu	37	9	32420964	32420964	+	Silent	SNP	C	C	T	novel		TCGA-BG-A0VX-01	TCGA-BG-A0VX-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_002197.2	+1	reviewed	p.Y303	0.884	201	0%	208	32.7%	3	33.3%	-	-	-	HMMPfam_Aconitase,superfamily_Aconitase iron-sulfur domain
ANKRD18A	253650	genome.wustl.edu	37	9	38588573	38588573	+	Missense_Mutation	SNP	G	G	A	rs139070805	by1000genomes	TCGA-BG-A0VX-01	TCGA-BG-A0VX-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	ENST00000399703	-1	known	p.R698C	0.280	416	0%	233	24.9%	1	100%	probably_damaging(0.994)	tolerated(0.21)	deleterious(0.496)	NULL
ASPN	54829	genome.wustl.edu	37	9	95219620	95219620	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-BG-A0VX-01	TCGA-BG-A0VX-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_017680.3	-1	validated	p.R365C	1.000	342	0%	288	28.5%	2	0%	probably_damaging(1)	deleterious(0)	deleterious(0.945)	NULL
TDRD7	23424	genome.wustl.edu	37	9	100257990	100257990	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-BG-A0VX-01	TCGA-BG-A0VX-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_014290.2	+1	validated	p.R1041Q	1.000	157	0%	133	20.3%	14	42.8%	probably_damaging(1)	tolerated(0.08)	deleterious(0.800)	NULL
GABBR2	9568	genome.wustl.edu	37	9	101258725	101258725	+	Silent	SNP	G	G	A	novel		TCGA-BG-A0VX-01	TCGA-BG-A0VX-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_005458.7	-1	reviewed	p.N234	0.965	246	0%	252	26.6%	0	-	-	-	-	HMMPfam_ANF_receptor,superfamily_SSF53822
ZNF189	7743	genome.wustl.edu	37	9	104170485	104170485	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-BG-A0VX-01	TCGA-BG-A0VX-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_003452.2	+1	validated	p.E145D	1.000	204	0%	176	30.7%	6	50%	benign(0.013)	tolerated(0.06)	neutral(0.323)	superfamily_C2H2 and C2HC zinc fingers
C5	727	genome.wustl.edu	37	9	123805331	123805331	+	Silent	SNP	T	T	C	novel		TCGA-BG-A0VX-01	TCGA-BG-A0VX-01	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001735.2	-1	reviewed	p.G124	1.000	325	0%	250	32.4%	0	-	-	-	-	HMMPfam_A2M_N
GTF3C5	9328	genome.wustl.edu	37	9	135926248	135926248	+	Silent	SNP	C	C	A	novel		TCGA-BG-A0VX-01	TCGA-BG-A0VX-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001122823.1	+1	validated	p.I217	1.000	47	0%	66	31.8%	41	31.7%	-	-	-	HMMPfam_Tau95
MCM10	55388	genome.wustl.edu	37	10	13231045	13231045	+	Silent	SNP	C	C	T	novel		TCGA-BG-A0VX-01	TCGA-BG-A0VX-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_182751.2	+1	validated	p.Y461	0.130	64	0%	65	24.6%	2	50%	-	-	-	NULL
ARHGAP22	58504	genome.wustl.edu	37	10	49654641	49654641	+	Missense_Mutation	SNP	G	G	C	novel		TCGA-BG-A0VX-01	TCGA-BG-A0VX-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_021226.2	-1	validated	p.D630E	0.153	430	0.2%	508	28.3%	1	100%	benign(0.059)	tolerated(0.64)	neutral(0.007)	NULL
PCDH15	65217	genome.wustl.edu	37	10	55569043	55569043	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-BG-A0VX-01	TCGA-BG-A0VX-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001142769.1	-1	reviewed	p.E1594D	0.015	446	0%	368	24.5%	0	-	possibly_damaging(0.857)	deleterious(0)	deleterious(0.776)	NULL
PCDH15	65217	genome.wustl.edu	37	10	55581776	55581776	+	Nonsense_Mutation	SNP	C	C	A	novel		TCGA-BG-A0VX-01	TCGA-BG-A0VX-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001142763.1	-1	reviewed	p.E1911*	1.000	660	0%	601	27.5%	0	-	-	-	-	NULL
MAT1A	4143	genome.wustl.edu	37	10	82034887	82034887	+	Silent	SNP	A	A	G	novel		TCGA-BG-A0VX-01	TCGA-BG-A0VX-01	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_000429.2	-1	reviewed	p.G279	0.000	23	0%	22	27.3%	0	-	-	-	-	HMMPfam_S-AdoMet_synt_C,PatternScan_ADOMET_SYNTHETASE_2,superfamily_S-AdoMet_synt
NRG3	10718	genome.wustl.edu	37	10	84745220	84745220	+	Silent	SNP	C	C	T	novel		TCGA-BG-A0VX-01	TCGA-BG-A0VX-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001010848.3	+1	reviewed	p.Y650	0.993	106	0%	92	32.6%	0	-	-	-	-	NULL
CPXM2	119587	genome.wustl.edu	37	10	125539688	125539688	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-BG-A0VX-01	TCGA-BG-A0VX-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_198148.2	-1	validated	p.R325C	1.000	421	0%	432	28.7%	4	0%	probably_damaging(1)	deleterious(0.01)	deleterious(0.905)	HMMPfam_Peptidase_M14,superfamily_Zn-dependent exopeptidases
BRSK2	9024	genome.wustl.edu	37	11	1459596	1459596	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-BG-A0VX-01	TCGA-BG-A0VX-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_003957.2	+1	validated	p.D83N	1.000	98	0%	135	22.2%	0	-	possibly_damaging(0.952)	deleterious(0)	deleterious(0.840)	HMMSmart_S_TKc,superfamily_Kinase_like,HMMPfam_Pkinase
OR51A7	119687	genome.wustl.edu	37	11	4929447	4929447	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-BG-A0VX-01	TCGA-BG-A0VX-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001004749.1	+1	provisional	p.P283L	1.000	285	0%	314	29%	0	-	probably_damaging(1)	deleterious(0)	deleterious(0.945)	HMMPfam_7tm_1,superfamily_SSF81321
OR52N2	390077	genome.wustl.edu	37	11	5842155	5842155	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-BG-A0VX-01	TCGA-BG-A0VX-01	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001005174.1	+1	provisional	p.N197S	1.000	694	0%	778	28.8%	0	-	benign(0.402)	deleterious(0.02)	deleterious(0.512)	HMMPfam_7tm_1,superfamily_SSF81321
NAV2	89797	genome.wustl.edu	37	11	19735305	19735305	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-BG-A0VX-01	TCGA-BG-A0VX-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_182964.5	+1	validated	p.A22S	0.993	18	0%	24	20.8%	6	66.6%	benign(0)	tolerated(0.05)	neutral(0.345)	superfamily_Calponin-homology domain CH-domain
NAV2	89797	genome.wustl.edu	37	11	19735306	19735306	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-BG-A0VX-01	TCGA-BG-A0VX-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_182964.5	+1	validated	p.A22V	0.578	18	0%	25	20%	7	57.1%	benign(0.066)	tolerated(0.09)	neutral(0.301)	superfamily_Calponin-homology domain CH-domain
ENSG00000181950	0	genome.wustl.edu	37	11	55234946	55234946	+	Missense_Mutation	SNP	G	G	T	rs142314147	by1000genomes	TCGA-BG-A0VX-01	TCGA-BG-A0VX-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	ENST00000314689	+1	known	p.A139S	1.000	78	0%	79	32.9%	0	-	-	-	-	HMMPfam_7tm_1,superfamily_Family A G protein-coupled receptor-like
OR5F1	338674	genome.wustl.edu	37	11	55761564	55761564	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-BG-A0VX-01	TCGA-BG-A0VX-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_003697.1	-1	provisional	p.D180N	0.999	79	0%	85	25.9%	0	-	benign(0.01)	deleterious(0.01)	neutral(0.406)	HMMPfam_7tm_1,superfamily_SSF81321
RTN4RL2	349667	genome.wustl.edu	37	11	57235276	57235276	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-BG-A0VX-01	TCGA-BG-A0VX-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_178570.1	+1	provisional	p.R76W	1.000	200	0%	189	36.5%	5	0%	probably_damaging(1)	deleterious(0.01)	deleterious(0.905)	superfamily_SSF52058
TCN1	6947	genome.wustl.edu	37	11	59631480	59631480	+	Silent	SNP	G	G	A	novel		TCGA-BG-A0VX-01	TCGA-BG-A0VX-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001062.3	-1	reviewed	p.S53	0.000	374	0%	364	36%	1	100%	-	-	-	HMMPfam_Cobalamin_bind
CHRDL2	25884	genome.wustl.edu	37	11	74413902	74413902	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-BG-A0VX-01	TCGA-BG-A0VX-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_015424.3	-1	validated	p.R353C	0.978	123	0%	123	27.6%	0	-	probably_damaging(0.998)	deleterious(0)	deleterious(0.919)	NULL
ELMOD1	55531	genome.wustl.edu	37	11	107501189	107501189	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-BG-A0VX-01	TCGA-BG-A0VX-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_018712.3	+1	validated	p.R22C	1.000	361	0%	318	30.5%	0	-	possibly_damaging(0.822)	tolerated(0.13)	deleterious(0.564)	NULL
SORL1	6653	genome.wustl.edu	37	11	121466380	121466380	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-BG-A0VX-01	TCGA-BG-A0VX-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_003105.4	+1	reviewed	p.R1473Q	0.970	70	0%	45	31.1%	0	-	benign(0.333)	tolerated(0.09)	neutral(0.401)	HMMPfam_Ldl_recept_a,HMMSmart_SM00192,superfamily_LDL receptor-like module
RAD52	5893	genome.wustl.edu	37	12	1023673	1023673	+	Silent	SNP	C	C	T	novel		TCGA-BG-A0VX-01	TCGA-BG-A0VX-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_134424.2	-1	reviewed	p.T297	0.003	123	0%	140	25%	6	33.3%	-	-	-	NULL
ADIPOR2	79602	genome.wustl.edu	37	12	1882009	1882009	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-BG-A0VX-01	TCGA-BG-A0VX-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_024551.2	+1	validated	p.S58N	0.106	185	0%	184	30.4%	1	0%	benign(0)	tolerated(0.45)	neutral(0.012)	NULL
LRP6	4040	genome.wustl.edu	37	12	12284952	12284952	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-BG-A0VX-01	TCGA-BG-A0VX-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_002336.2	-1	reviewed	p.T1258M	1.000	125	0%	138	31.9%	4	0%	probably_damaging(0.996)	deleterious(0)	deleterious(0.906)	HMMPfam_Ldl_recept_a,HMMSmart_SM00192,superfamily_LDL receptor-like module,superfamily_EGF/Laminin
LST-3TM12	338821	genome.wustl.edu	37	12	21243002	21243002	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-BG-A0VX-01	TCGA-BG-A0VX-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001009562.4	+1	validated	p.D629N	0.002	160	0%	121	28.9%	0	-	benign(0)	tolerated(1)	-	NULL
SLC2A13	114134	genome.wustl.edu	37	12	40153973	40153973	+	Missense_Mutation	SNP	T	T	G	novel		TCGA-BG-A0VX-01	TCGA-BG-A0VX-01	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_052885.3	-1	validated	p.K601T	0.997	305	0%	209	33%	0	-	benign(0.001)	tolerated(0.53)	neutral(0.007)	HMMPfam_Sugar_tr,superfamily_MFS general substrate transporter
TWF1	5756	genome.wustl.edu	37	12	44191161	44191161	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-BG-A0VX-01	TCGA-BG-A0VX-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_002822.3	-1	reviewed	p.R269H	1.000	447	0.2%	380	25.8%	35	31.4%	probably_damaging(0.96)	deleterious(0)	deleterious(0.848)	HMMPfam_Cofilin_ADF,HMMSmart_SM00102,superfamily_Actin depolymerizing proteins
HOXC10	3226	genome.wustl.edu	37	12	54379527	54379527	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-BG-A0VX-01	TCGA-BG-A0VX-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_017409.3	+1	reviewed	p.P162S	1.000	23	0%	26	38.5%	0	-	benign(0.001)	tolerated(0.69)	neutral(0.002)	NULL
NCKAP1L	3071	genome.wustl.edu	37	12	54903702	54903702	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-BG-A0VX-01	TCGA-BG-A0VX-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_005337.4	+1	reviewed	p.R223H	1.000	280	0%	256	30.1%	7	0%	probably_damaging(1)	deleterious(0)	deleterious(0.945)	HMMPfam_Nckap1
NEUROD4	58158	genome.wustl.edu	37	12	55420674	55420674	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-BG-A0VX-01	TCGA-BG-A0VX-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_021191.2	+1	validated	p.G151R	1.000	72	0%	81	39.5%	0	-	possibly_damaging(0.931)	tolerated(0.34)	neutral(0.401)	superfamily_HLH_basic
LRP1	4035	genome.wustl.edu	37	12	57595605	57595605	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-BG-A0VX-01	TCGA-BG-A0VX-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_002332.2	+1	reviewed	p.S3504L	1.000	65	0%	79	25.3%	15	13.3%	benign(0.389)	deleterious(0.01)	deleterious(0.530)	HMMPfam_Ldl_recept_a,HMMSmart_SM00192,superfamily_LDL receptor-like module
TRHDE	29953	genome.wustl.edu	37	12	72893298	72893298	+	Silent	SNP	C	C	T	novel		TCGA-BG-A0VX-01	TCGA-BG-A0VX-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_013381.2	+1	reviewed	p.T490	0.041	298	0%	232	31%	0	-	-	-	-	HMMPfam_Peptidase_M1,superfamily_SSF55486
LUM	4060	genome.wustl.edu	37	12	91502008	91502008	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-BG-A0VX-01	TCGA-BG-A0VX-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_002345.3	-1	reviewed	p.S250Y	0.997	331	0%	292	31.8%	248	3.6%	possibly_damaging(0.492)	deleterious(0.04)	deleterious(0.513)	HMMPfam_LRR_1,superfamily_L domain-like
FGD6	55785	genome.wustl.edu	37	12	95535309	95535309	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-BG-A0VX-01	TCGA-BG-A0VX-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_018351.3	-1	validated	p.R898W	1.000	157	0.6%	154	27.3%	0	-	probably_damaging(1)	deleterious(0)	deleterious(0.945)	HMMPfam_RhoGEF,HMMSmart_SM00325,superfamily_DBL homology domain (DH-domain)
USP44	84101	genome.wustl.edu	37	12	95927846	95927846	+	Nonsense_Mutation	SNP	C	C	A	novel		TCGA-BG-A0VX-01	TCGA-BG-A0VX-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001042403.1	-1	validated	p.E63*	1.000	243	0%	255	30.2%	2	0%	-	-	-	HMMPfam_zf-UBP,HMMSmart_SM00290
RAD9B	144715	genome.wustl.edu	37	12	110944424	110944424	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-BG-A0VX-01	TCGA-BG-A0VX-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_152442.3	+1	validated	p.R105I	1.000	318	0%	278	30.9%	1	0%	probably_damaging(0.989)	deleterious(0)	deleterious(0.884)	HMMPfam_Rad9,superfamily_DNA clamp
SBNO1	55206	genome.wustl.edu	37	12	123782558	123782558	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-BG-A0VX-01	TCGA-BG-A0VX-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_018183.3	-1	validated	p.R1335W	1.000	298	0%	328	32.9%	22	45.4%	possibly_damaging(0.916)	deleterious(0)	deleterious(0.811)	NULL
POLE	5426	genome.wustl.edu	37	12	133250250	133250250	+	Missense_Mutation	SNP	G	G	C	novel		TCGA-BG-A0VX-01	TCGA-BG-A0VX-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_006231.2	-1	validated	p.L424V	1.000	85	0%	72	22.2%	3	33.3%	probably_damaging(1)	deleterious(0)	deleterious(0.945)	HMMPfam_DNA_pol_B_exo,HMMSmart_POLBc,superfamily_RNaseH_fold
SACS	26278	genome.wustl.edu	37	13	23911306	23911306	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-BG-A0VX-01	TCGA-BG-A0VX-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_014363.4	-1	reviewed	p.E2237K	0.999	144	0%	119	36.1%	0	-	benign(0.014)	tolerated(0.67)	neutral(0.003)	NULL
LOC643677	643677	genome.wustl.edu	37	13	103389750	103389750	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-BG-A0VX-01	TCGA-BG-A0VX-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	XM_002344085.1	-1	model	p.H4281N	0.000	383	0%	363	28.7%	0	-	-	-	-	NULL
OR4K2	390431	genome.wustl.edu	37	14	20344688	20344688	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-BG-A0VX-01	TCGA-BG-A0VX-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001005501.1	+1	provisional	p.G88C	0.000	540	0%	517	19%	0	-	benign(0.149)	deleterious(0)	neutral(0.458)	HMMPfam_7tm_1,superfamily_Family A G protein-coupled receptor-like
OR4K5	79317	genome.wustl.edu	37	14	20389398	20389398	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-BG-A0VX-01	TCGA-BG-A0VX-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001005483.1	+1	provisional	p.F211L	0.008	666	0%	573	21.6%	0	-	probably_damaging(1)	deleterious(0)	deleterious(0.945)	HMMPfam_7tm_1,superfamily_SSF81321
NGB	58157	genome.wustl.edu	37	14	77733000	77733000	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-BG-A0VX-01	TCGA-BG-A0VX-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_021257.3	-1	reviewed	p.S112F	1.000	18	0%	27	29.6%	0	-	probably_damaging(1)	deleterious(0.01)	deleterious(0.905)	HMMPfam_Globin,superfamily_Globin-like
TDP1	55775	genome.wustl.edu	37	14	90430014	90430014	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-BG-A0VX-01	TCGA-BG-A0VX-01	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001008744.1	+1	reviewed	p.K186E	1.000	37	0%	37	29.7%	7	71.4%	benign(0.05)	tolerated(0.23)	neutral(0.045)	HMMPfam_Tyr-DNA_phospho,superfamily_SSF56024
IGHD	3495	genome.wustl.edu	37	14	106307280	106307280	+	Silent	SNP	A	A	G	novel		TCGA-BG-A0VX-01	TCGA-BG-A0VX-01	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	ENST00000390556	-1	known	p.I253T	0.000	25	0%	27	37%	10	0%	-	-	-	HMMSmart_SM00407,superfamily_Immunoglobulin
CHRNA7	1139	genome.wustl.edu	37	15	32404082	32404082	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-BG-A0VX-01	TCGA-BG-A0VX-01	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_000746.3	+1	reviewed	p.D111G	1.000	272	0%	298	28.2%	0	-	probably_damaging(0.999)	deleterious(0)	deleterious(0.935)	HMMPfam_Neur_chan_LBD,superfamily_Neur_chan_LBD
WDR72	256764	genome.wustl.edu	37	15	53908256	53908256	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-BG-A0VX-01	TCGA-BG-A0VX-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_182758.2	-1	validated	p.A716V	1.000	185	0%	176	33.5%	1	100%	benign(0.082)	deleterious(0.01)	neutral(0.412)	NULL
CCPG1	9236	genome.wustl.edu	37	15	55652342	55652342	+	Silent	SNP	G	G	T	novel		TCGA-BG-A0VX-01	TCGA-BG-A0VX-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_004748.3	-1	validated	p.I543	1.000	359	0%	200	18%	18	16.6%	-	-	-	NULL
SLTM	79811	genome.wustl.edu	37	15	59182496	59182496	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-BG-A0VX-01	TCGA-BG-A0VX-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_024755.2	-1	validated	p.R688H	1.000	249	0%	227	26%	34	35.2%	unknown(0)	deleterious(0)	-	NULL
TPM1	7168	genome.wustl.edu	37	15	63354419	63354419	+	Silent	SNP	G	G	A	novel		TCGA-BG-A0VX-01	TCGA-BG-A0VX-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_000366.5	+1	reviewed	p.S215	0.046	189	0%	163	33.1%	86	26.7%	-	-	-	HMMPfam_Tropomyosin
CYP1A2	1544	genome.wustl.edu	37	15	75042757	75042757	+	Silent	SNP	C	C	T	novel		TCGA-BG-A0VX-01	TCGA-BG-A0VX-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_000761.3	+1	reviewed	p.F226	0.096	120	0%	117	29.1%	0	-	-	-	-	HMMPfam_p450,superfamily_Cytochrome_P450
SIN3A	25942	genome.wustl.edu	37	15	75684631	75684631	+	Nonsense_Mutation	SNP	G	G	A	novel		TCGA-BG-A0VX-01	TCGA-BG-A0VX-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001145357.1	-1	reviewed	p.R935*	1.000	266	0%	244	29.5%	9	11.1%	-	-	-	NULL
LINGO1	84894	genome.wustl.edu	37	15	77907931	77907931	+	Silent	SNP	G	G	A	novel		TCGA-BG-A0VX-01	TCGA-BG-A0VX-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_032808.5	-1	validated	p.I106	0.945	49	0%	52	28.8%	18	0%	-	-	-	HMMPfam_LRR_1,HMMSmart_SM00369,superfamily_L domain-like
ATF7IP2	80063	genome.wustl.edu	37	16	10575958	10575958	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-BG-A0VX-01	TCGA-BG-A0VX-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_024997.2	+1	validated	p.A634V	1.000	205	0%	186	31.2%	2	50%	probably_damaging(0.999)	deleterious(0)	deleterious(0.935)	NULL
TMC7	79905	genome.wustl.edu	37	16	19058553	19058553	+	Silent	SNP	C	C	A	novel		TCGA-BG-A0VX-01	TCGA-BG-A0VX-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_024847.3	+1	validated	p.I574	1.000	173	0%	182	30.8%	1	0%	-	-	-	HMMPfam_TMC
CDR2	1039	genome.wustl.edu	37	16	22358509	22358509	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-BG-A0VX-01	TCGA-BG-A0VX-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001802.1	-1	validated	p.T381I	1.000	178	0%	135	25.9%	14	28.5%	probably_damaging(0.996)	deleterious(0.04)	deleterious(0.810)	NULL
ZNF267	10308	genome.wustl.edu	37	16	31927264	31927264	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-BG-A0VX-01	TCGA-BG-A0VX-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_003414.4	+1	validated	p.R565Q	0.001	167	0%	155	27.1%	9	33.3%	benign(0.295)	tolerated(0.66)	neutral(0.094)	HMMPfam_zf-C2H2,PatternScan_ZINC_FINGER_C2H2_1,HMMSmart_SM00355,superfamily_C2H2 and C2HC zinc fingers
CDH8	1006	genome.wustl.edu	37	16	61891113	61891113	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-BG-A0VX-01	TCGA-BG-A0VX-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001796.2	-1	reviewed	p.D193N	1.000	187	0%	144	31.2%	0	-	probably_damaging(0.999)	deleterious(0)	deleterious(0.935)	HMMPfam_Cadherin,HMMSmart_CA,superfamily_Cadherin
AP1G1	164	genome.wustl.edu	37	16	71768542	71768542	+	Silent	SNP	T	T	C	novel		TCGA-BG-A0VX-01	TCGA-BG-A0VX-01	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001030007.1	-1	reviewed	p.T782	1.000	191	0%	205	21.5%	16	43.7%	-	-	-	HMMPfam_Alpha_adaptinC2,HMMSmart_SM00809,superfamily_Clathrin adaptor appendage domain
DNAH9	1770	genome.wustl.edu	37	17	11696895	11696895	+	Nonsense_Mutation	SNP	C	C	T	novel		TCGA-BG-A0VX-01	TCGA-BG-A0VX-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001372.3	+1	reviewed	p.R2713*	0.997	428	0.2%	432	29.9%	3	0%	-	-	-	superfamily_P-loop containing nucleoside triphosphate hydrolases
NF1	4763	genome.wustl.edu	37	17	29657368	29657368	+	Silent	SNP	C	C	T	novel		TCGA-BG-A0VX-01	TCGA-BG-A0VX-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001042492.2	+1	reviewed	p.I1888	0.995	334	0%	295	25.1%	2	50%	-	-	-	NULL
UTP6	55813	genome.wustl.edu	37	17	30221755	30221755	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-BG-A0VX-01	TCGA-BG-A0VX-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_018428.2	-1	validated	p.R74H	1.000	155	0%	144	27.1%	17	35.2%	benign(0.386)	tolerated(0.1)	neutral(0.410)	HMMPfam_U3_assoc_6
KRT15	3866	genome.wustl.edu	37	17	39674765	39674765	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-BG-A0VX-01	TCGA-BG-A0VX-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_002275.3	-1	reviewed	p.E105D	1.000	469	0%	565	31.5%	1	100%	possibly_damaging(0.924)	deleterious(0.03)	deleterious(0.738)	HMMPfam_Filament
KANSL1	284058	genome.wustl.edu	37	17	44144914	44144914	+	Splice_Site	SNP	C	C	T	novel		TCGA-BG-A0VX-01	TCGA-BG-A0VX-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_015443.2	-1	validated	e4+1	1.000	159	0.6%	150	28%	0	-	-	-	-	-
C17orf57	124989	genome.wustl.edu	37	17	45421658	45421658	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-BG-A0VX-01	TCGA-BG-A0VX-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_152347.3	+1	provisional	p.R145Q	0.900	416	0%	355	33.8%	1	0%	probably_damaging(0.982)	deleterious(0)	deleterious(0.871)	NULL
CACNA1G	8913	genome.wustl.edu	37	17	48646241	48646241	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-BG-A0VX-01	TCGA-BG-A0VX-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_018896.3	+1	validated	p.R85C	1.000	127	0.8%	135	23.7%	0	-	possibly_damaging(0.877)	tolerated(0.11)	deleterious(0.613)	superfamily_Voltage-gated potassium channels
UBE2O	63893	genome.wustl.edu	37	17	74387400	74387400	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-BG-A0VX-01	TCGA-BG-A0VX-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_022066.3	-1	validated	p.S1168L	1.000	27	0%	22	27.3%	22	50%	benign(0.038)	deleterious(0.01)	neutral(0.408)	NULL
FUT6	2528	genome.wustl.edu	37	19	5831793	5831793	+	Silent	SNP	G	G	A	novel		TCGA-BG-A0VX-01	TCGA-BG-A0VX-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_000150.2	-1	reviewed	p.N262	0.705	179	0%	189	19.6%	2	0%	-	-	-	HMMPfam_Glyco_transf_10
RAD23A	5886	genome.wustl.edu	37	19	13063595	13063595	+	Silent	SNP	C	C	T	novel		TCGA-BG-A0VX-01	TCGA-BG-A0VX-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_005053.2	+1	reviewed	p.G302	0.052	57	0%	57	29.8%	103	43.6%	-	-	-	NULL
WIZ	58525	genome.wustl.edu	37	19	15535052	15535052	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-BG-A0VX-01	TCGA-BG-A0VX-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_021241.2	-1	validated	p.R723W	1.000	20	0%	31	32.3%	38	34.2%	unknown(0)	deleterious(0)	-	NULL
ANKRD27	84079	genome.wustl.edu	37	19	33116816	33116816	+	Silent	SNP	C	C	T	novel		TCGA-BG-A0VX-01	TCGA-BG-A0VX-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_032139.2	-1	validated	p.T531	0.000	64	0%	77	36.4%	4	50%	-	-	-	HMMPfam_Ank,HMMSmart_ANK,superfamily_ANK
ZNF30	90075	genome.wustl.edu	37	19	35435529	35435529	+	Silent	SNP	A	A	G	novel		TCGA-BG-A0VX-01	TCGA-BG-A0VX-01	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001099437.1	+1	validated	p.G554	0.002	216	0%	197	28.9%	4	25%	-	-	-	HMMPfam_zf-C2H2,PatternScan_ZINC_FINGER_C2H2_1,HMMSmart_SM00355,superfamily_C2H2 and C2HC zinc fingers
FXYD5	53827	genome.wustl.edu	37	19	35655081	35655081	+	Silent	SNP	G	G	A	novel		TCGA-BG-A0VX-01	TCGA-BG-A0VX-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_014164.5	+1	reviewed	p.T105	0.000	328	0%	405	29.9%	124	2.4%	-	-	-	NULL
ZNF527	84503	genome.wustl.edu	37	19	37880252	37880252	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-BG-A0VX-01	TCGA-BG-A0VX-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_032453.1	+1	validated	p.R434I	0.152	180	0%	141	27.7%	2	50%	probably_damaging(0.999)	deleterious(0.01)	deleterious(0.896)	HMMPfam_zf-C2H2,PatternScan_ZINC_FINGER_C2H2_1,HMMSmart_SM00355,superfamily_C2H2 and C2HC zinc fingers
MARK4	57787	genome.wustl.edu	37	19	45766388	45766388	+	Silent	SNP	C	C	T	novel		TCGA-BG-A0VX-01	TCGA-BG-A0VX-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_031417.2	+1	provisional	p.I90	0.976	169	0.6%	164	31.7%	14	28.5%	-	-	-	HMMSmart_S_TKc,superfamily_Kinase_like,HMMPfam_Pkinase
PRKD2	25865	genome.wustl.edu	37	19	47204186	47204186	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-BG-A0VX-01	TCGA-BG-A0VX-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001079880.1	-1	reviewed	p.D331N	0.940	82	0%	85	24.7%	26	42.3%	benign(0.056)	tolerated(0.34)	neutral(0.026)	NULL
PLA2G4C	8605	genome.wustl.edu	37	19	48601419	48601419	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-BG-A0VX-01	TCGA-BG-A0VX-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_003706.2	-1	reviewed	p.S182F	0.000	196	0%	238	26.5%	4	0%	benign(0.146)	deleterious(0.01)	neutral(0.418)	HMMPfam_PLA2_B,HMMSmart_PLAc,superfamily_Acyl_Trfase/lysoPlipase
SHANK1	50944	genome.wustl.edu	37	19	51201126	51201126	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-BG-A0VX-01	TCGA-BG-A0VX-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_016148.2	-1	validated	p.A612V	0.981	90	0%	127	29.1%	4	25%	possibly_damaging(0.9)	tolerated(0.06)	deleterious(0.679)	HMMSmart_SM00326
ZNF432	9668	genome.wustl.edu	37	19	52496734	52496734	+	Splice_Site	SNP	C	C	T	novel		TCGA-BG-A0VX-01	TCGA-BG-A0VX-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	ENST00000391793	-1	known	e5+2	0.025	251	0%	257	28.4%	6	83.3%	-	-	-	-
ZNF615	284370	genome.wustl.edu	37	19	52497070	52497070	+	Missense_Mutation	SNP	C	C	T	rs142913953	by1000genomes	TCGA-BG-A0VX-01	TCGA-BG-A0VX-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_198480.2	-1	provisional	p.R420Q	0.999	286	0%	247	26.7%	2	50%	benign(0.223)	deleterious(0.02)	neutral(0.405)	HMMPfam_zf-C2H2,PatternScan_ZINC_FINGER_C2H2_1,HMMSmart_SM00355,superfamily_C2H2 and C2HC zinc fingers
ZNF836	162962	genome.wustl.edu	37	19	52658375	52658375	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-BG-A0VX-01	TCGA-BG-A0VX-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001102657.1	-1	provisional	p.R854I	0.001	325	0%	251	31.9%	5	20%	probably_damaging(1)	tolerated(0.22)	deleterious(0.542)	HMMPfam_zf-C2H2,PatternScan_ZINC_FINGER_C2H2_1,HMMSmart_ZnF_C2H2,superfamily_SSF57667
ENSG00000245932	0	genome.wustl.edu	37	19	53302662	53302662	+	RNA	SNP	G	G	A	novel		TCGA-BG-A0VX-01	TCGA-BG-A0VX-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	ENST00000500436	+1	known	NULL	0.003	100	0%	98	40.8%	6	33.3%	-	-	-	-
NLRP7	199713	genome.wustl.edu	37	19	55453023	55453023	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-BG-A0VX-01	TCGA-BG-A0VX-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001127255.1	-1	reviewed	p.E19D	0.000	99	1%	63	30.2%	0	-	benign(0.395)	tolerated(0.29)	neutral(0.156)	HMMPfam_PAAD_DAPIN,superfamily_DEATH domain
ZNF582	147948	genome.wustl.edu	37	19	56895622	56895622	+	Silent	SNP	A	A	G	novel		TCGA-BG-A0VX-01	TCGA-BG-A0VX-01	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_144690.1	-1	provisional	p.I388	0.002	200	0%	153	28.1%	0	-	-	-	-	HMMPfam_zf-C2H2,PatternScan_ZINC_FINGER_C2H2_1,HMMSmart_ZnF_C2H2,superfamily_SSF57667
ZNF551	90233	genome.wustl.edu	37	19	58199547	58199547	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-BG-A0VX-01	TCGA-BG-A0VX-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_138347.3	+1	validated	p.R619I	0.054	235	0%	234	28.6%	2	50%	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
PDYN	5173	genome.wustl.edu	37	20	1961166	1961166	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-BG-A0VX-01	TCGA-BG-A0VX-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_024411.2	-1	reviewed	p.A190S	0.998	184	0%	192	29.7%	0	-	benign(0.197)	tolerated(0.2)	neutral(0.068)	NULL
TMC2	117532	genome.wustl.edu	37	20	2572995	2572995	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-BG-A0VX-01	TCGA-BG-A0VX-01	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_080751.2	+1	validated	p.T292A	1.000	272	0%	238	23.9%	0	-	probably_damaging(0.995)	tolerated(0.1)	deleterious(0.744)	NULL
LRRN4	164312	genome.wustl.edu	37	20	6031429	6031429	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-BG-A0VX-01	TCGA-BG-A0VX-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_152611.3	-1	validated	p.Q286K	0.963	257	0%	284	35.6%	3	66.6%	probably_damaging(0.996)	tolerated(0.21)	deleterious(0.506)	HMMPfam_LRR_1,HMMSmart_SM00369,superfamily_L domain-like
FOXA2	3170	genome.wustl.edu	37	20	22563193	22563193	+	Frame_Shift_Del	DEL	C	C	-	novel		TCGA-BG-A0VX-01	TCGA-BG-A0VX-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_021784.4	-1	reviewed	p.D231fs	0.748	-	-	-	-	-	-	-	-	-	HMMPfam_Fork_head,HMMSmart_FH,superfamily_SSF46785
JPH2	57158	genome.wustl.edu	37	20	42744389	42744389	+	Silent	SNP	A	A	G	novel		TCGA-BG-A0VX-01	TCGA-BG-A0VX-01	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_020433.4	-1	reviewed	p.A642	0.829	60	0%	70	32.9%	0	-	-	-	-	NULL
NCOA3	8202	genome.wustl.edu	37	20	46275921	46275921	+	Silent	SNP	G	G	A	novel		TCGA-BG-A0VX-01	TCGA-BG-A0VX-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_181659.2	+1	reviewed	p.G1119	0.705	191	0%	211	33.2%	4	50%	-	-	-	NULL
ATP9A	10079	genome.wustl.edu	37	20	50217873	50217873	+	Silent	SNP	G	G	A	novel		TCGA-BG-A0VX-01	TCGA-BG-A0VX-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_006045.1	-1	validated	p.I1007	0.988	148	0%	177	26.6%	12	33.3%	-	-	-	NULL
ZNF831	128611	genome.wustl.edu	37	20	57829419	57829419	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-BG-A0VX-01	TCGA-BG-A0VX-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_178457.1	+1	provisional	p.R1552I	0.000	60	0%	78	28.2%	1	100%	probably_damaging(0.996)	deleterious(0)	deleterious(0.906)	NULL
CDH4	1002	genome.wustl.edu	37	20	60508054	60508054	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-BG-A0VX-01	TCGA-BG-A0VX-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001794.2	+1	reviewed	p.L751M	1.000	21	0%	32	28.1%	0	-	probably_damaging(0.983)	tolerated(0.31)	neutral(0.456)	NULL
LAMA5	3911	genome.wustl.edu	37	20	60887808	60887808	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-BG-A0VX-01	TCGA-BG-A0VX-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_005560.3	-1	reviewed	p.R3036H	0.096	27	0%	34	29.4%	101	34.6%	probably_damaging(0.997)	tolerated(0.14)	deleterious(0.716)	HMMSmart_SM00282,superfamily_Concanavalin A-like lectins/glucanases,HMMPfam_Laminin_G_2
COL9A3	1299	genome.wustl.edu	37	20	61472015	61472015	+	Silent	SNP	C	C	T	novel		TCGA-BG-A0VX-01	TCGA-BG-A0VX-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001853.3	+1	reviewed	p.C662	0.967	48	2.1%	47	36.2%	4	25%	-	-	-	NULL
MYT1	4661	genome.wustl.edu	37	20	62839368	62839368	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-BG-A0VX-01	TCGA-BG-A0VX-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_004535.2	+1	reviewed	p.E273D	0.466	33	0%	37	27%	0	-	possibly_damaging(0.558)	tolerated(0.59)	neutral(0.195)	NULL
PDE9A	5152	genome.wustl.edu	37	21	44180974	44180974	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-BG-A0VX-01	TCGA-BG-A0VX-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_002606.2	+1	reviewed	p.A348S	0.991	112	0%	115	29.6%	33	42.4%	benign(0.018)	tolerated(1)	neutral(0.001)	HMMPfam_PDEase_I,HMMSmart_SM00471,superfamily_HD-domain/PDEase-like
DIP2A	23181	genome.wustl.edu	37	21	47931446	47931446	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-BG-A0VX-01	TCGA-BG-A0VX-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_015151.3	+1	reviewed	p.R341C	0.992	67	0%	79	22.8%	4	50%	probably_damaging(0.991)	deleterious(0)	deleterious(0.889)	superfamily_Acetyl-CoA synthetase-like
CLTCL1	8218	genome.wustl.edu	37	22	19171031	19171031	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-BG-A0VX-01	TCGA-BG-A0VX-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_007098.3	-1	reviewed	p.A1567T	0.988	61	0%	89	41.6%	1	0%	possibly_damaging(0.666)	tolerated(0.15)	deleterious(0.477)	HMMPfam_Clathrin,HMMSmart_SM00299
PLXNB2	23654	genome.wustl.edu	37	22	50722588	50722588	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-BG-A0VX-01	TCGA-BG-A0VX-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_012401.2	-1	validated	p.G746S	0.725	17	0%	24	20.8%	82	37.8%	benign(0.141)	tolerated(0.14)	neutral(0.262)	NULL
ACR	49	genome.wustl.edu	37	22	51177871	51177871	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-BG-A0VX-01	TCGA-BG-A0VX-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001097.2	+1	reviewed	p.L84F	0.998	93	0%	74	31.1%	0	-	probably_damaging(0.995)	deleterious(0)	deleterious(0.902)	HMMPfam_Trypsin,HMMSmart_Tryp_SPc,superfamily_Pept_Ser_Cys,PatternScan_TRYPSIN_HIS
KAL1	3730	genome.wustl.edu	37	X	8591709	8591709	+	Silent	SNP	G	G	A	novel		TCGA-BG-A0VX-01	TCGA-BG-A0VX-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_000216.2	-1	reviewed	p.C86	0.997	271	0%	267	33%	2	50%	-	-	-	NULL
ARHGAP6	395	genome.wustl.edu	37	X	11215100	11215100	+	Silent	SNP	C	C	T	novel		TCGA-BG-A0VX-01	TCGA-BG-A0VX-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_013427.2	-1	reviewed	p.K255	1.000	666	0.2%	614	24.3%	1	0%	-	-	-	NULL
POLA1	5422	genome.wustl.edu	37	X	24833182	24833182	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-BG-A0VX-01	TCGA-BG-A0VX-01	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_016937.3	+1	reviewed	p.N1122S	1.000	284	0%	227	33%	2	0%	benign(0.01)	tolerated(0.39)	neutral(0.017)	HMMPfam_DNA_pol_B,superfamily_SSF56672
DYNLT3	6990	genome.wustl.edu	37	X	37700325	37700325	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-BG-A0VX-01	TCGA-BG-A0VX-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_006520.2	-1	reviewed	p.G77D	1.000	197	1%	204	21.1%	25	0%	probably_damaging(1)	deleterious(0)	deleterious(0.945)	HMMPfam_Tctex-1
RPGR	6103	genome.wustl.edu	37	X	38147174	38147174	+	Nonsense_Mutation	SNP	G	G	A	novel		TCGA-BG-A0VX-01	TCGA-BG-A0VX-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001034853.1	-1	reviewed	p.Q565*	0.000	533	0%	578	28.2%	17	0%	-	-	-	NULL
ZNF674	641339	genome.wustl.edu	37	X	46359810	46359810	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-BG-A0VX-01	TCGA-BG-A0VX-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001039891.2	-1	validated	p.R405I	1.000	369	0%	285	30.5%	1	100%	probably_damaging(0.988)	deleterious(0)	deleterious(0.882)	HMMPfam_zf-C2H2,PatternScan_ZINC_FINGER_C2H2_1,HMMSmart_ZnF_C2H2,superfamily_SSF57667
NDUFB11	54539	genome.wustl.edu	37	X	47001818	47001818	+	Silent	SNP	G	G	A	novel		TCGA-BG-A0VX-01	TCGA-BG-A0VX-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_019056.5	-1	validated	p.R130	0.994	211	0.5%	245	31%	591	0%	-	-	-	HMMPfam_ESSS
ZNF41	7592	genome.wustl.edu	37	X	47308859	47308859	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-BG-A0VX-01	TCGA-BG-A0VX-01	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_007130.2	-1	reviewed	p.K104E	0.000	156	0%	82	28%	2	0%	benign(0)	tolerated(1)	-	NULL
SSX6	280657	genome.wustl.edu	37	X	47969639	47969639	+	Missense_Mutation	SNP	T	T	A	novel		TCGA-BG-A0VX-01	TCGA-BG-A0VX-01	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	ENST00000304314	+1	known	p.L39H	0.006	124	0%	85	40%	0	-	-	-	-	NULL
PLP2	5355	genome.wustl.edu	37	X	49029824	49029824	+	Silent	SNP	C	C	T	novel		TCGA-BG-A0VX-01	TCGA-BG-A0VX-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_002668.2	+1	reviewed	p.V113	0.000	192	0%	233	30.9%	164	0%	-	-	-	HMMPfam_MARVEL
CACNA1F	778	genome.wustl.edu	37	X	49066446	49066446	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-BG-A0VX-01	TCGA-BG-A0VX-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_005183.2	-1	reviewed	p.R1560W	1.000	74	0%	74	24.3%	0	-	probably_damaging(1)	deleterious(0)	deleterious(0.945)	NULL
MIR545	664614	genome.wustl.edu	37	X	73507035	73507035	+	RNA	SNP	C	C	T	novel		TCGA-BG-A0VX-01	TCGA-BG-A0VX-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	ENST00000385085	-1	known	NULL	1.000	188	0%	184	32.6%	0	-	-	-	-	-
MAGEE1	57692	genome.wustl.edu	37	X	75650688	75650688	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-BG-A0VX-01	TCGA-BG-A0VX-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_020932.2	+1	reviewed	p.R789C	0.531	107	0%	85	31.8%	1	100%	probably_damaging(1)	deleterious(0)	deleterious(0.945)	HMMPfam_MAGE
HDX	139324	genome.wustl.edu	37	X	83723704	83723704	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-BG-A0VX-01	TCGA-BG-A0VX-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_144657.4	-1	validated	p.P343T	0.015	248	0%	273	35.5%	1	0%	benign(0.108)	tolerated(0.11)	neutral(0.280)	NULL
ZNF711	7552	genome.wustl.edu	37	X	84525091	84525091	+	Silent	SNP	T	T	C	novel		TCGA-BG-A0VX-01	TCGA-BG-A0VX-01	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_021998.4	+1	reviewed	p.N349	1.000	344	0%	298	35.2%	3	0%	-	-	-	HMMPfam_Zfx_Zfy_act
KLHL4	56062	genome.wustl.edu	37	X	86872944	86872944	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-BG-A0VX-01	TCGA-BG-A0VX-01	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_057162.2	+1	reviewed	p.Q246R	1.000	233	0%	195	29.7%	1	0%	benign(0.045)	deleterious(0.03)	neutral(0.367)	HMMSmart_SM00225,superfamily_POZ domain,HMMPfam_BTB
MORC4	79710	genome.wustl.edu	37	X	106185285	106185285	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-BG-A0VX-01	TCGA-BG-A0VX-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_024657.4	-1	reviewed	p.R848I	1.000	607	0%	601	28.5%	34	91.1%	possibly_damaging(0.933)	deleterious(0)	deleterious(0.824)	NULL
ZBTB33	10009	genome.wustl.edu	37	X	119389184	119389184	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-BG-A0VX-01	TCGA-BG-A0VX-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_006777.3	+1	reviewed	p.M638I	1.000	187	0%	130	33.1%	6	0%	benign(0.002)	tolerated(0.13)	neutral(0.253)	NULL
ACTRT1	139741	genome.wustl.edu	37	X	127185349	127185349	+	Silent	SNP	G	G	T	novel		TCGA-BG-A0VX-01	TCGA-BG-A0VX-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_138289.3	-1	reviewed	p.V279	0.164	79	0%	82	32.9%	0	-	-	-	-	HMMPfam_Actin,HMMSmart_ACTIN,superfamily_SSF53067
UTP14A	10813	genome.wustl.edu	37	X	129055269	129055269	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-BG-A0VX-01	TCGA-BG-A0VX-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_006649.3	+1	reviewed	p.D352Y	0.787	199	0%	237	26.6%	11	0%	benign(0.136)	deleterious(0)	neutral(0.456)	HMMPfam_Utp14
BCORL1	63035	genome.wustl.edu	37	X	129156885	129156885	+	Nonsense_Mutation	SNP	G	G	T	novel		TCGA-BG-A0VX-01	TCGA-BG-A0VX-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	ENST00000441294	+1	known	p.E643*	1.000	287	0%	310	23.9%	5	0%	probably_damaging(1)	deleterious(0)	deleterious(0.945)	NULL
AFF2	2334	genome.wustl.edu	37	X	148039870	148039870	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-BG-A0VX-01	TCGA-BG-A0VX-01	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_002025.3	+1	reviewed	p.I858V	0.884	265	0%	218	28.9%	0	-	benign(0)	tolerated(0.28)	neutral(0.032)	HMMPfam_AF-4
GABRA3	2556	genome.wustl.edu	37	X	151533003	151533003	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-BG-A0VX-01	TCGA-BG-A0VX-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_000808.3	-1	reviewed	p.L14I	0.105	385	0%	335	27.5%	0	-	benign(0.021)	tolerated(0.9)	neutral(0.001)	NULL
PLXNB3	5365	genome.wustl.edu	37	X	153040817	153040817	+	Silent	SNP	G	G	A	novel		TCGA-BG-A0VX-01	TCGA-BG-A0VX-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	ENST00000411613	+1	known	p.R137Q	0.025	28	0%	26	30.8%	5	0%	-	-	-	superfamily_GTPase activation domain GAP,HMMPfam_Plexin_cytopl
L1CAM	3897	genome.wustl.edu	37	X	153134982	153134982	+	Silent	SNP	G	G	A	novel		TCGA-BG-A0VX-01	TCGA-BG-A0VX-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_000425.3	-1	reviewed	p.Y420	0.608	64	0%	86	27.9%	0	-	-	-	-	HMMSmart_SM00409,HMMPfam_I-set,superfamily_Immunoglobulin
