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
AGRN	375790	genome.wustl.edu	37	1	978668	978668	+	Silent	SNP	G	G	A	novel		TCGA-D1-A163-01A-11D-A12J-09	TCGA-D1-A163-10A-01D-A12J-09	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_198576.2	+1	validated	p.T478	0.000	79	0%	73	38.4%	271	38.7%	-	-	-	HMMSmart_FOLN,superfamily_SSF100895
GABRD	2563	genome.wustl.edu	37	1	1961035	1961035	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-D1-A163-01A-11D-A12J-09	TCGA-D1-A163-10A-01D-A12J-09	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_000815.4	+1	reviewed	p.R298H	1.000	56	0%	56	48.2%	0	-	probably_damaging(1)	deleterious(0)	deleterious(0.945)	HMMPfam_Neur_chan_memb,superfamily_Neu_channel_TM
PIK3CD	5293	genome.wustl.edu	37	1	9778764	9778764	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-D1-A163-01A-11D-A12J-09	TCGA-D1-A163-10A-01D-A12J-09	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_005026.3	+1	validated	p.A345T	1.000	68	0%	43	20.9%	5	0%	probably_damaging(0.973)	deleterious(0.05)	deleterious(0.760)	HMMPfam_PI3K_C2,HMMSmart_PI3K_C2,superfamily_C2_CaLB
VWA5B1	127731	genome.wustl.edu	37	1	20644138	20644138	+	Silent	SNP	C	C	T	novel		TCGA-D1-A163-01A-11D-A12J-09	TCGA-D1-A163-10A-01D-A12J-09	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001039500.2	+1	validated	p.L227	1.000	182	0%	131	35.9%	0	-	-	-	-	NULL
USP48	84196	genome.wustl.edu	37	1	22078094	22078094	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-D1-A163-01A-11D-A12J-09	TCGA-D1-A163-10A-01D-A12J-09	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_032236.5	-1	reviewed	p.G227D	1.000	207	0%	206	41.3%	21	19%	benign(0.211)	tolerated(0.06)	neutral(0.343)	HMMPfam_UCH,superfamily_Cysteine proteinases
HSPG2	3339	genome.wustl.edu	37	1	22172661	22172661	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-D1-A163-01A-11D-A12J-09	TCGA-D1-A163-10A-01D-A12J-09	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	ENST00000374695	-1	known	p.L2802M	0.755	21	0%	26	38.5%	222	37.3%	possibly_damaging(0.612)	tolerated(0.21)	neutral(0.256)	HMMSmart_SM00406,HMMSmart_SM00409,superfamily_Concanavalin A-like lectins/glucanases,superfamily_Immunoglobulin
LYPLA2	11313	genome.wustl.edu	37	1	24119706	24119706	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-D1-A163-01A-11D-A12J-09	TCGA-D1-A163-10A-01D-A12J-09	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_007260.2	+1	reviewed	p.A59V	1.000	43	0%	31	48.4%	188	46.8%	benign(0.158)	deleterious(0)	neutral(0.459)	HMMPfam_Abhydrolase_2,superfamily_SSF53474
C1orf201	90529	genome.wustl.edu	37	1	24687368	24687368	+	Missense_Mutation	SNP	G	G	C	novel		TCGA-D1-A163-01A-11D-A12J-09	TCGA-D1-A163-10A-01D-A12J-09	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_178122.3	-1	predicted	p.P254A	0.000	77	0%	79	45.6%	17	41.1%	benign(0.01)	tolerated(0.83)	neutral(0.001)	NULL
RCAN3	11123	genome.wustl.edu	37	1	24861709	24861709	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-D1-A163-01A-11D-A12J-09	TCGA-D1-A163-10A-01D-A12J-09	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_013441.2	+1	validated	p.R223H	1.000	118	0%	92	39.1%	26	34.6%	probably_damaging(1)	tolerated(0.05)	deleterious(0.845)	HMMPfam_Calcipressin
LDLRAP1	26119	genome.wustl.edu	37	1	25893450	25893450	+	Silent	SNP	C	C	T	novel		TCGA-D1-A163-01A-11D-A12J-09	TCGA-D1-A163-10A-01D-A12J-09	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_015627.2	+1	reviewed	p.S298	0.002	24	0%	28	32.1%	17	58.8%	-	-	-	NULL
FAM54B	56181	genome.wustl.edu	37	1	26153281	26153281	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-D1-A163-01A-11D-A12J-09	TCGA-D1-A163-10A-01D-A12J-09	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001099625.1	+1	validated	p.R139C	0.997	35	0%	30	46.7%	46	47.8%	probably_damaging(1)	deleterious(0)	deleterious(0.945)	HMMPfam_DUF729
EXTL1	2134	genome.wustl.edu	37	1	26360331	26360331	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-D1-A163-01A-11D-A12J-09	TCGA-D1-A163-10A-01D-A12J-09	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_004455.2	+1	reviewed	p.A555T	1.000	197	0%	132	15.9%	0	-	probably_damaging(1)	deleterious(0)	deleterious(0.945)	HMMPfam_Glyco_transf_64,superfamily_SSF53448
DHDDS	79947	genome.wustl.edu	37	1	26774075	26774075	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-D1-A163-01A-11D-A12J-09	TCGA-D1-A163-10A-01D-A12J-09	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_024887.2	+1	validated	p.Y156H	1.000	348	0.3%	325	35.1%	21	28.5%	probably_damaging(1)	deleterious(0)	deleterious(0.945)	HMMPfam_Prenyltransf,superfamily_Undecaprenyl diphosphate synthase
SESN2	83667	genome.wustl.edu	37	1	28607232	28607232	+	Silent	SNP	C	C	T	novel		TCGA-D1-A163-01A-11D-A12J-09	TCGA-D1-A163-10A-01D-A12J-09	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_031459.3	+1	reviewed	p.H454	1.000	31	0%	28	46.4%	10	30%	-	-	-	HMMPfam_PA26
PUM1	9698	genome.wustl.edu	37	1	31501707	31501707	+	Missense_Mutation	SNP	C	C	G	novel		TCGA-D1-A163-01A-11D-A12J-09	TCGA-D1-A163-10A-01D-A12J-09	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001020658.1	-1	reviewed	p.R123P	1.000	393	0%	401	37.4%	65	53.8%	probably_damaging(0.996)	deleterious(0)	deleterious(0.906)	NULL
HIVEP3	59269	genome.wustl.edu	37	1	42049810	42049810	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-D1-A163-01A-11D-A12J-09	TCGA-D1-A163-10A-01D-A12J-09	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_024503.3	-1	validated	p.Y220C	1.000	76	0%	73	34.2%	1	0%	probably_damaging(1)	deleterious(0)	deleterious(0.945)	HMMPfam_zf-C2H2,HMMSmart_SM00355,superfamily_C2H2 and C2HC zinc fingers
EBNA1BP2	10969	genome.wustl.edu	37	1	43636441	43636441	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-D1-A163-01A-11D-A12J-09	TCGA-D1-A163-10A-01D-A12J-09	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_006824.2	-1	validated	p.L145M	1.000	291	0.3%	272	41.9%	103	37.8%	benign(0.062)	deleterious(0.01)	neutral(0.410)	HMMPfam_Ebp2
RNF220	55182	genome.wustl.edu	37	1	44877784	44877784	+	Silent	SNP	G	G	A	novel		TCGA-D1-A163-01A-11D-A12J-09	TCGA-D1-A163-10A-01D-A12J-09	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_018150.2	+1	validated	p.R5	1.000	107	0%	86	40.7%	0	-	-	-	-	NULL
ATPAF1-AS1	374973	genome.wustl.edu	37	1	47138873	47138873	+	Silent	SNP	G	G	A	novel		TCGA-D1-A163-01A-11D-A12J-09	TCGA-D1-A163-10A-01D-A12J-09	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001145474.1	+1	predicted	p.A122	0.007	126	0%	130	41.5%	0	-	-	-	-	NULL
CYP4A22	284541	genome.wustl.edu	37	1	47614339	47614339	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-D1-A163-01A-11D-A12J-09	TCGA-D1-A163-10A-01D-A12J-09	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001010969.2	+1	reviewed	p.R477H	0.988	177	0.6%	170	40%	1	0%	possibly_damaging(0.881)	tolerated(0.13)	deleterious(0.596)	HMMPfam_p450,superfamily_Cytochrome P450
BEND5	79656	genome.wustl.edu	37	1	49227039	49227039	+	Silent	SNP	C	C	G	novel		TCGA-D1-A163-01A-11D-A12J-09	TCGA-D1-A163-10A-01D-A12J-09	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_024603.2	-1	validated	p.G110	1.000	419	0%	391	39.6%	3	66.6%	-	-	-	NULL
CC2D1B	200014	genome.wustl.edu	37	1	52824748	52824748	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-D1-A163-01A-11D-A12J-09	TCGA-D1-A163-10A-01D-A12J-09	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_032449.1	-1	validated	p.R403Q	1.000	5	0.000	13	0.462	33	66.6%	possibly_damaging(0.943)	deleterious(0.01)	deleterious(0.793)	HMMSmart_SM00685
KIAA1107	23285	genome.wustl.edu	37	1	92646246	92646246	+	Silent	SNP	A	A	G	novel		TCGA-D1-A163-01A-11D-A12J-09	TCGA-D1-A163-10A-01D-A12J-09	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_015237.2	+1	validated	p.E564	0.340	118	0%	104	45.2%	6	66.6%	-	-	-	NULL
UBL4B	164153	genome.wustl.edu	37	1	110655663	110655663	+	Silent	SNP	G	G	A	novel		TCGA-D1-A163-01A-11D-A12J-09	TCGA-D1-A163-10A-01D-A12J-09	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_203412.1	+1	validated	p.E169	0.001	32	0%	24	41.7%	0	-	-	-	-	NULL
RHOC	389	genome.wustl.edu	37	1	113245680	113245681	+	Frame_Shift_Del	DEL	GA	GA	-	novel		TCGA-D1-A163-01A-11D-A12J-09	TCGA-D1-A163-10A-01D-A12J-09	GA	GA					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001042678.1	-1	reviewed	p.S73fs	1.000:1.000	-	-	-	-	-	-	-	-	-	HMMSmart_SM00173,HMMSmart_SM00174,HMMSmart_SM00175,HMMPfam_Ras,superfamily_P-loop containing nucleoside triphosphate hydrolases
TTF2	8458	genome.wustl.edu	37	1	117617938	117617938	+	Missense_Mutation	SNP	T	T	G	novel		TCGA-D1-A163-01A-11D-A12J-09	TCGA-D1-A163-10A-01D-A12J-09	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_003594.3	+1	reviewed	p.S244R	0.004	105	0%	98	35.7%	7	42.8%	probably_damaging(0.979)	deleterious(0.04)	deleterious(0.771)	NULL
TBX15	6913	genome.wustl.edu	37	1	119427539	119427539	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-D1-A163-01A-11D-A12J-09	TCGA-D1-A163-10A-01D-A12J-09	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_152380.2	-1	reviewed	p.L436S	1.000	292	0%	244	45.9%	11	63.6%	probably_damaging(0.991)	deleterious(0)	deleterious(0.889)	NULL
ITGA10	8515	genome.wustl.edu	37	1	145532597	145532599	+	In_Frame_Del	DEL	AGG	AGG	-	novel		TCGA-D1-A163-01A-11D-A12J-09	TCGA-D1-A163-10A-01D-A12J-09	AGG	AGG					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_003637.3	+1	reviewed	p.G351in_frame_del	0.975:1.000:1.000	-	-	-	-	-	-	-	-	-	HMMSmart_SM00327,superfamily_vWA-like,superfamily_Integrin alpha N-terminal domain
TUFT1	7286	genome.wustl.edu	37	1	151512890	151512890	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-D1-A163-01A-11D-A12J-09	TCGA-D1-A163-10A-01D-A12J-09	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_020127.2	+1	validated	p.E16D	0.995	184	0%	144	33.3%	30	56.6%	probably_damaging(0.991)	deleterious(0)	deleterious(0.889)	NULL
INTS3	65123	genome.wustl.edu	37	1	153735774	153735774	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-D1-A163-01A-11D-A12J-09	TCGA-D1-A163-10A-01D-A12J-09	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_023015.3	+1	validated	p.T568A	1.000	229	0%	186	36.6%	38	47.3%	benign(0.006)	tolerated(0.81)	neutral(0.001)	NULL
DENND4B	9909	genome.wustl.edu	37	1	153916683	153916683	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-D1-A163-01A-11D-A12J-09	TCGA-D1-A163-10A-01D-A12J-09	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	ENST00000368646	-1	known	p.H8R	0.135	71	0%	49	49%	8	25%	-	-	-	NULL
SHC1	6464	genome.wustl.edu	37	1	154941903	154941903	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-D1-A163-01A-11D-A12J-09	TCGA-D1-A163-10A-01D-A12J-09	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001130040.1	-1	validated	p.L173I	1.000	137	0%	109	28.4%	64	39%	possibly_damaging(0.929)	tolerated(0.46)	neutral(0.388)	HMMPfam_PID,HMMSmart_SM00462,superfamily_PH domain-like
THBS3	7059	genome.wustl.edu	37	1	155172892	155172892	+	Missense_Mutation	SNP	C	C	G	novel		TCGA-D1-A163-01A-11D-A12J-09	TCGA-D1-A163-10A-01D-A12J-09	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_007112.3	-1	reviewed	p.E265Q	1.000	209	0.5%	162	32.7%	16	37.5%	benign(0.007)	deleterious(0.01)	neutral(0.406)	NULL
GON4L	54856	genome.wustl.edu	37	1	155722367	155722367	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-D1-A163-01A-11D-A12J-09	TCGA-D1-A163-10A-01D-A12J-09	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001037533.1	-1	validated	p.G1952W	0.002	51	0%	26	26.9%	15	33.3%	probably_damaging(1)	deleterious(0)	deleterious(0.945)	NULL
SEMA4A	64218	genome.wustl.edu	37	1	156132838	156132838	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-D1-A163-01A-11D-A12J-09	TCGA-D1-A163-10A-01D-A12J-09	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_022367.2	+1	provisional	p.R363C	1.000	207	0%	198	41.9%	14	42.8%	probably_damaging(0.999)	deleterious(0)	deleterious(0.935)	HMMPfam_Sema,HMMSmart_Sema,superfamily_Sema
CRABP2	1382	genome.wustl.edu	37	1	156670736	156670736	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-D1-A163-01A-11D-A12J-09	TCGA-D1-A163-10A-01D-A12J-09	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001878.2	-1	reviewed	p.R60H	1.000	310	0%	275	39.6%	22	36.3%	probably_damaging(0.984)	deleterious(0.02)	deleterious(0.814)	HMMPfam_Lipocalin,superfamily_Lipocalins
ETV3	2117	genome.wustl.edu	37	1	157095708	157095708	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-D1-A163-01A-11D-A12J-09	TCGA-D1-A163-10A-01D-A12J-09	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001145312.1	-1	validated	p.L155P	1.000	151	0%	136	39.7%	17	47%	benign(0.084)	deleterious(0.05)	neutral(0.351)	"superfamily_""Winged helix"" DNA-binding domain"
FCRL5	83416	genome.wustl.edu	37	1	157512659	157512659	+	Silent	SNP	G	G	T	novel		TCGA-D1-A163-01A-11D-A12J-09	TCGA-D1-A163-10A-01D-A12J-09	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_031281.2	-1	validated	p.L371	0.000	101	0%	89	34.8%	2	0%	-	-	-	HMMSmart_SM00409,superfamily_Immunoglobulin
SPTA1	6708	genome.wustl.edu	37	1	158621212	158621212	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-D1-A163-01A-11D-A12J-09	TCGA-D1-A163-10A-01D-A12J-09	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_003126.2	-1	reviewed	p.A1141D	1.000	311	0%	281	39.5%	0	-	probably_damaging(0.999)	deleterious(0)	deleterious(0.935)	HMMPfam_Spectrin,HMMSmart_SM00150,superfamily_Spectrin repeat
TAGLN2	8407	genome.wustl.edu	37	1	159889464	159889465	+	Frame_Shift_Del	DEL	CA	CA	-	novel		TCGA-D1-A163-01A-11D-A12J-09	TCGA-D1-A163-10A-01D-A12J-09	CA	CA					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_003564.1	-1	reviewed	p.V114fs	1.000:1.000	-	-	-	-	-	-	-	-	-	HMMPfam_CH,HMMSmart_CH,superfamily_Calponin-homology
IGSF9	57549	genome.wustl.edu	37	1	159898706	159898706	+	Silent	SNP	G	G	A	novel		TCGA-D1-A163-01A-11D-A12J-09	TCGA-D1-A163-10A-01D-A12J-09	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001135050.1	-1	validated	p.A824	0.000	14	0%	14	35.7%	15	40%	-	-	-	NULL
C1orf112	55732	genome.wustl.edu	37	1	169798511	169798511	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-D1-A163-01A-11D-A12J-09	TCGA-D1-A163-10A-01D-A12J-09	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_018186.2	+1	predicted	p.A412V	0.016	523	0%	494	37.7%	23	47.8%	benign(0.275)	tolerated(0.27)	neutral(0.063)	NULL
C1orf129	80133	genome.wustl.edu	37	1	170961350	170961350	+	Silent	SNP	G	G	A	novel		TCGA-D1-A163-01A-11D-A12J-09	TCGA-D1-A163-10A-01D-A12J-09	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_025063.2	+1	validated	p.V358	0.004	311	0%	246	49.6%	0	-	-	-	-	NULL
PRRC2C	23215	genome.wustl.edu	37	1	171526414	171526414	+	Silent	SNP	A	A	G	novel		TCGA-D1-A163-01A-11D-A12J-09	TCGA-D1-A163-10A-01D-A12J-09	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	ENST00000412837	+1	known	p.E790G	1.000	205	0%	160	38.1%	24	58.3%	-	-	-	NULL
F13B	2165	genome.wustl.edu	37	1	197031986	197031986	+	Splice_Site	SNP	C	C	T	novel		TCGA-D1-A163-01A-11D-A12J-09	TCGA-D1-A163-10A-01D-A12J-09	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001994.2	-1	reviewed	e2+1	1.000	157	0%	131	41.2%	0	-	-	-	-	-
KIF21B	23046	genome.wustl.edu	37	1	200959404	200959404	+	Silent	SNP	C	C	T	novel		TCGA-D1-A163-01A-11D-A12J-09	TCGA-D1-A163-10A-01D-A12J-09	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_017596.2	-1	provisional	p.L964	1.000	60	0%	64	42.2%	0	-	-	-	-	superfamily_WD40_like
SLC26A9	115019	genome.wustl.edu	37	1	205904924	205904924	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-D1-A163-01A-11D-A12J-09	TCGA-D1-A163-10A-01D-A12J-09	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_134325.2	-1	reviewed	p.V9M	1.000	352	0%	268	41.8%	0	-	possibly_damaging(0.688)	tolerated(0.22)	neutral(0.288)	NULL
PLXNA2	5362	genome.wustl.edu	37	1	208200646	208200646	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-D1-A163-01A-11D-A12J-09	TCGA-D1-A163-10A-01D-A12J-09	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_025179.3	-1	reviewed	p.R1876Q	0.981	88	0%	71	46.5%	5	20%	benign(0.123)	deleterious(0.01)	neutral(0.416)	NULL
VASH2	79805	genome.wustl.edu	37	1	213134593	213134593	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-D1-A163-01A-11D-A12J-09	TCGA-D1-A163-10A-01D-A12J-09	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_024749.3	+1	validated	p.L121P	1.000	195	0%	229	38%	2	0%	probably_damaging(0.999)	deleterious(0)	deleterious(0.935)	NULL
ANGEL2	90806	genome.wustl.edu	37	1	213170503	213170503	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-D1-A163-01A-11D-A12J-09	TCGA-D1-A163-10A-01D-A12J-09	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_144567.3	-1	validated	p.H493Y	0.005	248	0%	199	33.7%	13	53.8%	benign(0)	deleterious(0.05)	neutral(0.345)	HMMPfam_Exo_endo_phos,superfamily_DNase I-like
PGBD5	79605	genome.wustl.edu	37	1	230468600	230468600	+	Silent	SNP	C	C	T	novel		TCGA-D1-A163-01A-11D-A12J-09	TCGA-D1-A163-10A-01D-A12J-09	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_024554.3	-1	reviewed	p.P451	0.007	181	0.6%	159	35.8%	5	40%	-	-	-	NULL
LYST	1130	genome.wustl.edu	37	1	235966234	235966234	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-D1-A163-01A-11D-A12J-09	TCGA-D1-A163-10A-01D-A12J-09	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_000081.2	-1	reviewed	p.P1229H	1.000	266	0%	248	14.9%	1	0%	probably_damaging(1)	deleterious(0.01)	deleterious(0.905)	NULL
HEATR1	55127	genome.wustl.edu	37	1	236718764	236718764	+	Silent	SNP	G	G	A	novel		TCGA-D1-A163-01A-11D-A12J-09	TCGA-D1-A163-10A-01D-A12J-09	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_018072.4	-1	validated	p.L1919	1.000	181	0%	150	37.3%	13	30.7%	-	-	-	HMMPfam_BP28CT,superfamily_ARM-type_fold
KMO	8564	genome.wustl.edu	37	1	241723977	241723977	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-D1-A163-01A-11D-A12J-09	TCGA-D1-A163-10A-01D-A12J-09	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_003679.3	+1	validated	p.Y125C	0.797	283	0%	274	40.9%	1	0%	probably_damaging(0.986)	tolerated(0.09)	deleterious(0.731)	superfamily_FAD/NAD(P)-binding domain
WDR64	128025	genome.wustl.edu	37	1	241946669	241946669	+	Silent	SNP	C	C	T	novel		TCGA-D1-A163-01A-11D-A12J-09	TCGA-D1-A163-10A-01D-A12J-09	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	ENST00000425826	+1	known	p.S366L	0.092	173	0%	142	36.6%	0	-	-	-	-	HMMSmart_SM00320,superfamily_WD40 repeat-like,HMMPfam_WD40
KIF26B	55083	genome.wustl.edu	37	1	245530312	245530312	+	Silent	SNP	C	C	T	novel		TCGA-D1-A163-01A-11D-A12J-09	TCGA-D1-A163-10A-01D-A12J-09	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_018012.3	+1	provisional	p.Y214	0.607	37	0%	42	28.6%	9	33.3%	-	-	-	NULL
OR2C3	81472	genome.wustl.edu	37	1	247695138	247695138	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-D1-A163-01A-11D-A12J-09	TCGA-D1-A163-10A-01D-A12J-09	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_198074.4	-1	validated	p.V226M	0.597	174	0%	139	38.1%	0	-	probably_damaging(0.959)	deleterious(0)	deleterious(0.847)	HMMPfam_7tm_1,superfamily_SSF81321
TPO	7173	genome.wustl.edu	37	2	1491661	1491661	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-D1-A163-01A-11D-A12J-09	TCGA-D1-A163-10A-01D-A12J-09	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_000547.5	+1	reviewed	p.M556V	0.793	129	0%	91	33%	0	-	benign(0.006)	tolerated(0.21)	neutral(0.044)	HMMPfam_An_peroxidase,superfamily_Heme-dependent peroxidases
TAF1B	9014	genome.wustl.edu	37	2	9994460	9994460	+	Silent	SNP	T	T	C	novel		TCGA-D1-A163-01A-11D-A12J-09	TCGA-D1-A163-10A-01D-A12J-09	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_005680.2	+1	reviewed	p.D103	0.996	330	0%	310	46.8%	5	100%	-	-	-	NULL
AGBL5	60509	genome.wustl.edu	37	2	27290365	27290365	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-D1-A163-01A-11D-A12J-09	TCGA-D1-A163-10A-01D-A12J-09	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_021831.5	+1	validated	p.P698H	1.000	93	0%	65	40%	12	41.6%	probably_damaging(0.965)	deleterious(0)	deleterious(0.851)	NULL
ZNF513	130557	genome.wustl.edu	37	2	27601670	27601670	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-D1-A163-01A-11D-A12J-09	TCGA-D1-A163-10A-01D-A12J-09	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_144631.4	-1	validated	p.C155R	1.000	53	0%	52	44.2%	22	22.7%	possibly_damaging(0.952)	deleterious(0)	deleterious(0.840)	HMMSmart_SM00355
NRXN1	9378	genome.wustl.edu	37	2	50724801	50724801	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-D1-A163-01A-11D-A12J-09	TCGA-D1-A163-10A-01D-A12J-09	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001135659.1	-1	reviewed	p.G890D	1.000	157	0.6%	168	41.7%	0	-	probably_damaging(1)	deleterious(0)	deleterious(0.945)	HMMSmart_LamG,superfamily_ConA_like_lec_gl,HMMPfam_Laminin_G_2
ASB3	51130	genome.wustl.edu	37	2	53941684	53941684	+	Frame_Shift_Del	DEL	C	C	-	novel		TCGA-D1-A163-01A-11D-A12J-09	TCGA-D1-A163-10A-01D-A12J-09	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_016115.3	-1	reviewed	p.A273fs	0.000	-	-	-	-	-	-	-	-	-	HMMSmart_SM00248,superfamily_Ankyrin repeat
AFTPH	54812	genome.wustl.edu	37	2	64779742	64779742	+	Silent	SNP	T	T	C	novel		TCGA-D1-A163-01A-11D-A12J-09	TCGA-D1-A163-10A-01D-A12J-09	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_203437.2	+1	validated	p.D378	0.818	179	0%	162	17.3%	20	35%	-	-	-	NULL
DGUOK	1716	genome.wustl.edu	37	2	74184306	74184306	+	Silent	SNP	C	C	T	novel		TCGA-D1-A163-01A-11D-A12J-09	TCGA-D1-A163-10A-01D-A12J-09	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_080916.1	+1	reviewed	p.L216	0.999	177	0%	139	38.1%	41	17%	-	-	-	HMMPfam_dNK,superfamily_P-loop containing nucleoside triphosphate hydrolases
C2orf81	388963	genome.wustl.edu	37	2	74642496	74642496	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-D1-A163-01A-11D-A12J-09	TCGA-D1-A163-10A-01D-A12J-09	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001145054.1	-1	predicted	p.D243N	0.000	18	0%	23	56.5%	9	44.4%	benign(0.014)	tolerated(1)	neutral(0.001)	NULL
EIF2AK3	9451	genome.wustl.edu	37	2	88885387	88885387	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-D1-A163-01A-11D-A12J-09	TCGA-D1-A163-10A-01D-A12J-09	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_004836.5	-1	reviewed	p.R541H	1.000	323	0%	276	39.1%	9	55.5%	probably_damaging(1)	tolerated(0.08)	deleterious(0.800)	NULL
RPIA	22934	genome.wustl.edu	37	2	89037549	89037549	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-D1-A163-01A-11D-A12J-09	TCGA-D1-A163-10A-01D-A12J-09	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_144563.2	+1	reviewed	p.V265A	0.980	407	0%	287	43.2%	84	38%	benign(0.001)	tolerated(0.51)	neutral(0.009)	HMMPfam_Rib_5-P_isom_A,superfamily_SSF75445
SNRNP200	23020	genome.wustl.edu	37	2	96943590	96943590	+	Silent	SNP	C	C	T	novel		TCGA-D1-A163-01A-11D-A12J-09	TCGA-D1-A163-10A-01D-A12J-09	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_014014.3	-1	reviewed	p.Q1903	1.000	446	0%	337	41.2%	328	45.4%	-	-	-	HMMPfam_Sec63,HMMSmart_SM00611
RNF149	284996	genome.wustl.edu	37	2	101911538	101911538	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-D1-A163-01A-11D-A12J-09	TCGA-D1-A163-10A-01D-A12J-09	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_173647.3	-1	validated	p.T189N	0.997	231	0%	227	46.3%	58	58.6%	probably_damaging(0.998)	tolerated(0.18)	deleterious(0.530)	superfamily_SSF52025
RANBP2	5903	genome.wustl.edu	37	2	109380063	109380064	+	Frame_Shift_Del	DEL	CA	CA	-	novel		TCGA-D1-A163-01A-11D-A12J-09	TCGA-D1-A163-10A-01D-A12J-09	CA	CA					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_006267.4	+1	reviewed	p.T1025fs	0.941:0.093	-	-	-	-	-	-	-	-	-	NULL
PTPN4	5775	genome.wustl.edu	37	2	120712791	120712791	+	Silent	SNP	T	T	C	novel		TCGA-D1-A163-01A-11D-A12J-09	TCGA-D1-A163-10A-01D-A12J-09	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_002830.2	+1	reviewed	p.P624	1.000	149	0%	121	52.1%	9	44.4%	-	-	-	superfamily_PDZ
CNTNAP5	129684	genome.wustl.edu	37	2	125405357	125405357	+	Silent	SNP	G	G	A	novel		TCGA-D1-A163-01A-11D-A12J-09	TCGA-D1-A163-10A-01D-A12J-09	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_130773.2	+1	reviewed	p.V632	1.000	66	0%	59	28.8%	0	-	-	-	-	superfamily_Fibrinogen_a/b/g_C,superfamily_ConA_like_lec_gl
LRP1B	53353	genome.wustl.edu	37	2	141680638	141680638	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-D1-A163-01A-11D-A12J-09	TCGA-D1-A163-10A-01D-A12J-09	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_018557.2	-1	validated	p.R1072H	0.997	488	0.2%	407	36.9%	0	-	probably_damaging(0.973)	tolerated(0.05)	deleterious(0.760)	HMMPfam_Ldl_recept_a,HMMSmart_LDLa,PatternScan_LDLRA_1,superfamily_LDL_rcpt_classA_cys-rich
MBD5	55777	genome.wustl.edu	37	2	149247537	149247537	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-D1-A163-01A-11D-A12J-09	TCGA-D1-A163-10A-01D-A12J-09	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_018328.4	+1	reviewed	p.E1213K	1.000	137	0.7%	101	40.6%	4	50%	unknown(0)	deleterious(0)	-	NULL
RIF1	55183	genome.wustl.edu	37	2	152279532	152279535	+	Frame_Shift_Del	DEL	TTTG	TTTG	-	novel		TCGA-D1-A163-01A-11D-A12J-09	TCGA-D1-A163-10A-01D-A12J-09	TTTG	TTTG					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_018151.4	+1	reviewed	p.F256fs	1.000:1.000:1.000:0.999	-	-	-	-	-	-	-	-	-	superfamily_ARM repeat
NEB	4703	genome.wustl.edu	37	2	152537339	152537339	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-D1-A163-01A-11D-A12J-09	TCGA-D1-A163-10A-01D-A12J-09	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_004543.4	-1	reviewed	p.K983E	1.000	442	0%	378	41.5%	0	-	probably_damaging(0.978)	tolerated(0.2)	deleterious(0.469)	HMMPfam_Nebulin,HMMSmart_SM00227
TTN	7273	genome.wustl.edu	37	2	179640429	179640429	+	Silent	SNP	G	G	A	novel		TCGA-D1-A163-01A-11D-A12J-09	TCGA-D1-A163-10A-01D-A12J-09	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_133379.3	-1	reviewed	p.A2054	0.000	331	0%	310	38.1%	0	-	-	-	-	NULL
TTN	7273	genome.wustl.edu	37	2	179641295	179641295	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-D1-A163-01A-11D-A12J-09	TCGA-D1-A163-10A-01D-A12J-09	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_133379.3	-1	reviewed	p.V1766I	0.980	90	0%	76	44.7%	0	-	possibly_damaging(0.496)	-	-	HMMPfam_I-set,superfamily_SSF48726
COL3A1	1281	genome.wustl.edu	37	2	189859059	189859059	+	Splice_Site	SNP	G	G	A	novel		TCGA-D1-A163-01A-11D-A12J-09	TCGA-D1-A163-10A-01D-A12J-09	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_000090.3	+1	reviewed	e18+1	1.000	170	0%	137	46.7%	0	-	-	-	-	-
SGOL2	151246	genome.wustl.edu	37	2	201438257	201438259	+	In_Frame_Del	DEL	AAG	AAG	-	novel		TCGA-D1-A163-01A-11D-A12J-09	TCGA-D1-A163-10A-01D-A12J-09	AAG	AAG					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_152524.5	+1	validated	p.E1064in_frame_del	0.000:0.035:0.317	-	-	-	-	-	-	-	-	-	NULL
GPR1	2825	genome.wustl.edu	37	2	207041245	207041245	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-D1-A163-01A-11D-A12J-09	TCGA-D1-A163-10A-01D-A12J-09	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001098199.1	-1	validated	p.R243G	0.969	242	0%	196	38.8%	0	-	benign(0.007)	deleterious(0.01)	neutral(0.406)	HMMPfam_7tm_1,superfamily_Family A G protein-coupled receptor-like
TUBA4A	7277	genome.wustl.edu	37	2	220115497	220115497	+	Silent	SNP	C	C	T	novel		TCGA-D1-A163-01A-11D-A12J-09	TCGA-D1-A163-10A-01D-A12J-09	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_006000.1	-1	reviewed	p.R308	0.193	153	0%	157	33.8%	218	50.4%	-	-	-	superfamily_Tubulin C-terminal domain-like,HMMPfam_Tubulin_C
SLC19A3	80704	genome.wustl.edu	37	2	228560684	228560684	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-D1-A163-01A-11D-A12J-09	TCGA-D1-A163-10A-01D-A12J-09	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_025243.3	-1	reviewed	p.Y365H	0.273	125	0%	106	41.5%	0	-	probably_damaging(0.992)	tolerated(0.54)	neutral(0.455)	HMMPfam_Folate_carrier,superfamily_MFS_gen_substrate_transporter
CXCR7	57007	genome.wustl.edu	37	2	237489993	237489993	+	Silent	SNP	G	G	A	novel		TCGA-D1-A163-01A-11D-A12J-09	TCGA-D1-A163-10A-01D-A12J-09	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_020311.2	+1	reviewed	p.T295	0.176	102	0%	100	47%	20	0%	-	-	-	HMMPfam_7tm_1,superfamily_Family A G protein-coupled receptor-like
PER2	8864	genome.wustl.edu	37	2	239165670	239165670	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-D1-A163-01A-11D-A12J-09	TCGA-D1-A163-10A-01D-A12J-09	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_022817.2	-1	reviewed	p.S653L	0.812	76	0%	62	40.3%	16	43.7%	benign(0.397)	deleterious(0)	deleterious(0.572)	NULL
MYEOV2	150678	genome.wustl.edu	37	2	241069366	241069366	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-D1-A163-01A-11D-A12J-09	TCGA-D1-A163-10A-01D-A12J-09	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_138336.1	-1	validated	p.R115C	0.000	73	0%	46	10.9%	0	-	unknown(0)	-	-	NULL
KIF1A	547	genome.wustl.edu	37	2	241700654	241700654	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-D1-A163-01A-11D-A12J-09	TCGA-D1-A163-10A-01D-A12J-09	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_004321.4	-1	reviewed	p.K744E	1.000	124	0%	105	37.1%	0	-	possibly_damaging(0.889)	tolerated(0.06)	deleterious(0.672)	NULL
ATG4B	23192	genome.wustl.edu	37	2	242608095	242608095	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-D1-A163-01A-11D-A12J-09	TCGA-D1-A163-10A-01D-A12J-09	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_013325.4	+1	reviewed	p.A318T	1.000	22	0%	33	42.4%	54	46.2%	probably_damaging(0.986)	deleterious(0.01)	deleterious(0.840)	HMMPfam_Peptidase_C54
C3orf20	84077	genome.wustl.edu	37	3	14799019	14799019	+	Silent	SNP	C	C	T	novel		TCGA-D1-A163-01A-11D-A12J-09	TCGA-D1-A163-10A-01D-A12J-09	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_032137.4	+1	validated	p.D694	0.342	57	0%	49	46.9%	0	-	-	-	-	NULL
CAPN7	23473	genome.wustl.edu	37	3	15283703	15283703	+	Nonsense_Mutation	SNP	C	C	T	novel		TCGA-D1-A163-01A-11D-A12J-09	TCGA-D1-A163-10A-01D-A12J-09	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_014296.2	+1	reviewed	p.R603*	1.000	349	0%	299	15.1%	15	0%	-	-	-	superfamily_Peptidase_C2
SH3BP5	9467	genome.wustl.edu	37	3	15298550	15298550	+	Silent	SNP	G	G	T	novel		TCGA-D1-A163-01A-11D-A12J-09	TCGA-D1-A163-10A-01D-A12J-09	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_004844.3	-1	validated	p.S320	0.998	154	0%	111	9.9%	31	3.2%	-	-	-	NULL
SATB1	6304	genome.wustl.edu	37	3	18436007	18436007	+	Nonsense_Mutation	SNP	G	G	A	novel		TCGA-D1-A163-01A-11D-A12J-09	TCGA-D1-A163-10A-01D-A12J-09	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001131010.1	-1	validated	p.R385*	1.000	245	0.4%	228	44.7%	6	0%	-	-	-	HMMPfam_CUT
ZNF197	10168	genome.wustl.edu	37	3	44684552	44684552	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-D1-A163-01A-11D-A12J-09	TCGA-D1-A163-10A-01D-A12J-09	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_006991.3	+1	reviewed	p.H644Y	1.000	171	0%	133	36.1%	1	0%	possibly_damaging(0.919)	deleterious(0)	deleterious(0.814)	HMMPfam_zf-C2H2,PatternScan_ZINC_FINGER_C2H2_1,HMMSmart_SM00355,superfamily_C2H2 and C2HC zinc fingers
TGM4	7047	genome.wustl.edu	37	3	44935129	44935129	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-D1-A163-01A-11D-A12J-09	TCGA-D1-A163-10A-01D-A12J-09	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_003241.3	+1	validated	p.G164D	0.916	167	0%	171	41.5%	0	-	probably_damaging(1)	deleterious(0)	deleterious(0.945)	superfamily_SSF54001
FYCO1	79443	genome.wustl.edu	37	3	46008782	46008782	+	Silent	SNP	G	G	A	novel		TCGA-D1-A163-01A-11D-A12J-09	TCGA-D1-A163-10A-01D-A12J-09	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_024513.2	-1	validated	p.L682	0.510	66	0%	43	27.9%	6	33.3%	-	-	-	superfamily_Prefoldin
UQCRC1	7384	genome.wustl.edu	37	3	48636590	48636590	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-D1-A163-01A-11D-A12J-09	TCGA-D1-A163-10A-01D-A12J-09	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_003365.2	-1	validated	p.R472C	1.000	175	0%	144	50%	383	47.7%	probably_damaging(0.998)	deleterious(0.02)	deleterious(0.857)	superfamily_LuxS/MPP-like metallohydrolase
USP4	7375	genome.wustl.edu	37	3	49348985	49348985	+	Silent	SNP	A	A	G	novel		TCGA-D1-A163-01A-11D-A12J-09	TCGA-D1-A163-10A-01D-A12J-09	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	ENST00000431357	-1	known	p.*23Q	1.000	312	0%	285	43.9%	22	36.3%	-	-	-	NULL
BSN	8927	genome.wustl.edu	37	3	49698457	49698457	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-D1-A163-01A-11D-A12J-09	TCGA-D1-A163-10A-01D-A12J-09	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_003458.3	+1	reviewed	p.A3060V	0.009	27	0%	25	32%	0	-	unknown(0)	-	-	NULL
RBM6	10180	genome.wustl.edu	37	3	50005749	50005749	+	Silent	SNP	G	G	A	novel		TCGA-D1-A163-01A-11D-A12J-09	TCGA-D1-A163-10A-01D-A12J-09	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_005777.2	+1	validated	p.Q297	1.000	135	0%	103	38.8%	7	57.1%	-	-	-	NULL
MAPKAPK3	7867	genome.wustl.edu	37	3	50683147	50683147	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-D1-A163-01A-11D-A12J-09	TCGA-D1-A163-10A-01D-A12J-09	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_004635.3	+1	reviewed	p.E212G	1.000	265	0%	191	34%	57	29.8%	probably_damaging(1)	deleterious(0)	deleterious(0.945)	HMMSmart_SM00219,HMMSmart_SM00220,superfamily_Protein kinase-like (PK-like),HMMPfam_Pkinase
RBM15B	29890	genome.wustl.edu	37	3	51431059	51431059	+	Silent	SNP	C	C	T	novel		TCGA-D1-A163-01A-11D-A12J-09	TCGA-D1-A163-10A-01D-A12J-09	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_013286.3	+1	validated	p.D743	1.000	50	0%	60	51.7%	84	48.8%	-	-	-	HMMPfam_SPOC,superfamily_SPOC-like
TWF2	11344	genome.wustl.edu	37	3	52265167	52265168	+	Frame_Shift_Del	DEL	CT	CT	-	novel		TCGA-D1-A163-01A-11D-A12J-09	TCGA-D1-A163-10A-01D-A12J-09	CT	CT					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_007284.3	-1	reviewed	p.E153fs	1.000:1.000	-	-	-	-	-	-	-	-	-	NULL
CNTN3	5067	genome.wustl.edu	37	3	74350807	74350807	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-D1-A163-01A-11D-A12J-09	TCGA-D1-A163-10A-01D-A12J-09	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_020872.1	-1	validated	p.V646I	0.215	440	0%	487	42.5%	0	-	benign(0.04)	deleterious(0.02)	neutral(0.386)	HMMPfam_fn3,HMMSmart_SM00060,superfamily_Fibronectin type III
KIAA1407	57577	genome.wustl.edu	37	3	113684045	113684045	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-D1-A163-01A-11D-A12J-09	TCGA-D1-A163-10A-01D-A12J-09	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_020817.1	-1	predicted	p.S923L	0.000	171	0%	162	37%	3	33.3%	possibly_damaging(0.873)	deleterious(0)	deleterious(0.784)	NULL
KPNA1	3836	genome.wustl.edu	37	3	122152574	122152574	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-D1-A163-01A-11D-A12J-09	TCGA-D1-A163-10A-01D-A12J-09	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_002264.3	-1	reviewed	p.R395Q	1.000	273	0%	234	45.3%	22	40.9%	probably_damaging(0.959)	tolerated(0.25)	neutral(0.440)	HMMPfam_Arm,HMMSmart_SM00185,superfamily_ARM repeat
ROPN1B	152015	genome.wustl.edu	37	3	125702136	125702136	+	Silent	SNP	C	C	T	novel		TCGA-D1-A163-01A-11D-A12J-09	TCGA-D1-A163-10A-01D-A12J-09	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001012337.1	+1	provisional	p.T204	1.000	346	0%	286	34.3%	0	-	-	-	-	NULL
ZXDC	79364	genome.wustl.edu	37	3	126180980	126180980	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-D1-A163-01A-11D-A12J-09	TCGA-D1-A163-10A-01D-A12J-09	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_025112.4	-1	validated	p.M509V	0.995	67	0%	51	41.2%	22	50%	benign(0)	tolerated(0.89)	-	NULL
C3orf25	90288	genome.wustl.edu	37	3	129121406	129121406	+	Missense_Mutation	SNP	T	T	G	novel		TCGA-D1-A163-01A-11D-A12J-09	TCGA-D1-A163-10A-01D-A12J-09	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	ENST00000326085	-1	known	p.S474R	0.002	496	0%	444	39%	0	-	benign(0.173)	tolerated(0.06)	neutral(0.339)	NULL
ATP2C1	27032	genome.wustl.edu	37	3	130686039	130686039	+	Missense_Mutation	SNP	T	T	A	novel		TCGA-D1-A163-01A-11D-A12J-09	TCGA-D1-A163-10A-01D-A12J-09	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001001486.1	+1	reviewed	p.D391E	0.884	598	0%	505	36%	145	41.3%	benign(0)	tolerated(1)	-	HMMPfam_Hydrolase,superfamily_HAD-like,superfamily_Metal cation-transporting ATPase ATP-binding domain N,superfamily_Calcium ATPase transmembrane domain M
DNAJC13	23317	genome.wustl.edu	37	3	132172153	132172153	+	Silent	SNP	G	G	A	novel		TCGA-D1-A163-01A-11D-A12J-09	TCGA-D1-A163-10A-01D-A12J-09	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_015268.3	+1	validated	p.A183	0.978	90	0%	102	42.2%	2	50%	-	-	-	NULL
KY	339855	genome.wustl.edu	37	3	134323081	134323081	+	Silent	SNP	G	G	A	novel		TCGA-D1-A163-01A-11D-A12J-09	TCGA-D1-A163-10A-01D-A12J-09	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_178554.4	-1	validated	p.V442	0.005	75	0%	74	39.2%	0	-	-	-	-	NULL
PRR23A	729627	genome.wustl.edu	37	3	138724332	138724332	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-D1-A163-01A-11D-A12J-09	TCGA-D1-A163-10A-01D-A12J-09	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001134659.1	-1	validated	p.R260H	0.000	97	0%	81	37%	0	-	unknown(0)	deleterious(0)	-	HMMPfam_DUF2476
SERPINI2	5276	genome.wustl.edu	37	3	167183307	167183307	+	Silent	SNP	G	G	T	novel		TCGA-D1-A163-01A-11D-A12J-09	TCGA-D1-A163-10A-01D-A12J-09	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_006217.3	-1	reviewed	p.V211	0.002	355	0%	293	35.5%	0	-	-	-	-	HMMPfam_Serpin,HMMSmart_SERPIN,superfamily_Prot_inh_serpin
TNIK	23043	genome.wustl.edu	37	3	170819285	170819285	+	Silent	SNP	G	G	A	novel		TCGA-D1-A163-01A-11D-A12J-09	TCGA-D1-A163-10A-01D-A12J-09	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_015028.2	-1	validated	p.S848	0.086	432	0.2%	408	41.4%	7	42.8%	-	-	-	NULL
PIK3CA	5290	genome.wustl.edu	37	3	178916726	178916726	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-D1-A163-01A-11D-A12J-09	TCGA-D1-A163-10A-01D-A12J-09	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_006218.2	+1	reviewed	p.R38H	1.000	108	0%	77	39%	7	57.1%	probably_damaging(1)	deleterious(0.02)	deleterious(0.883)	HMMPfam_PI3K_p85B,HMMSmart_PI3K_p85B
KLHL24	54800	genome.wustl.edu	37	3	183382725	183382725	+	Silent	SNP	C	C	T	novel		TCGA-D1-A163-01A-11D-A12J-09	TCGA-D1-A163-10A-01D-A12J-09	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_017644.3	+1	validated	p.S374	1.000	287	0%	226	38.9%	29	34.4%	-	-	-	HMMPfam_Kelch_1,HMMSmart_SM00612,superfamily_Galactose oxidase central domain
ABCF3	55324	genome.wustl.edu	37	3	183905737	183905737	+	Nonsense_Mutation	SNP	C	C	T	novel		TCGA-D1-A163-01A-11D-A12J-09	TCGA-D1-A163-10A-01D-A12J-09	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_018358.2	+1	validated	p.R179*	1.000	285	0.4%	236	38.6%	24	8.3%	-	-	-	NULL
EHHADH	1962	genome.wustl.edu	37	3	184922527	184922527	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-D1-A163-01A-11D-A12J-09	TCGA-D1-A163-10A-01D-A12J-09	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001966.3	-1	reviewed	p.R196H	1.000	116	0.9%	72	33.3%	4	50%	probably_damaging(1)	tolerated(0.24)	deleterious(0.537)	superfamily_SSF52096
SENP2	59343	genome.wustl.edu	37	3	185318610	185318610	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-D1-A163-01A-11D-A12J-09	TCGA-D1-A163-10A-01D-A12J-09	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_021627.2	+1	validated	p.R139Q	0.991	195	0%	189	39.2%	13	30.7%	possibly_damaging(0.867)	tolerated(0.47)	neutral(0.348)	NULL
SENP2	59343	genome.wustl.edu	37	3	185332506	185332506	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-D1-A163-01A-11D-A12J-09	TCGA-D1-A163-10A-01D-A12J-09	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_021627.2	+1	validated	p.D363G	0.998	269	0%	225	39.1%	16	43.7%	benign(0.26)	deleterious(0.02)	neutral(0.410)	NULL
LPP	4026	genome.wustl.edu	37	3	188584130	188584130	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-D1-A163-01A-11D-A12J-09	TCGA-D1-A163-10A-01D-A12J-09	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_005578.3	+1	reviewed	p.A518V	1.000	177	0%	121	43.8%	16	31.2%	probably_damaging(0.999)	deleterious(0.01)	deleterious(0.896)	HMMPfam_LIM,HMMSmart_SM00132,superfamily_Glucocorticoid receptor-like (DNA-binding domain)
MUC4	4585	genome.wustl.edu	37	3	195508158	195508158	+	Silent	SNP	G	G	T	novel		TCGA-D1-A163-01A-11D-A12J-09	TCGA-D1-A163-10A-01D-A12J-09	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_018406.5	-1	reviewed	p.S3303	0.083	564	0%	613	21%	0	-	-	-	-	NULL
RNF212	285498	genome.wustl.edu	37	4	1107171	1107171	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-D1-A163-01A-11D-A12J-09	TCGA-D1-A163-10A-01D-A12J-09	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001131034.1	-1	validated	p.V28M	1.000	37	0%	18	33.3%	1	0%	unknown(0)	deleterious(0)	-	PatternScan_ZF_RING_1
HTT	3064	genome.wustl.edu	37	4	3230404	3230404	+	Silent	SNP	C	C	T	novel		TCGA-D1-A163-01A-11D-A12J-09	TCGA-D1-A163-10A-01D-A12J-09	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_002111.6	+1	reviewed	p.D2637	0.646	135	0%	86	50%	47	34%	-	-	-	NULL
SORCS2	57537	genome.wustl.edu	37	4	7728627	7728627	+	Silent	SNP	C	C	T	novel		TCGA-D1-A163-01A-11D-A12J-09	TCGA-D1-A163-10A-01D-A12J-09	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	ENST00000507866	+1	known	p.A922V	1.000	91	0%	66	34.8%	0	-	-	-	-	superfamily_PKD domain
RELL1	768211	genome.wustl.edu	37	4	37649014	37649014	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-D1-A163-01A-11D-A12J-09	TCGA-D1-A163-10A-01D-A12J-09	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001085399.1	-1	validated	p.V121I	1.000	243	0%	234	43.6%	16	43.7%	benign(0.082)	tolerated(0.08)	neutral(0.306)	NULL
SLC30A9	10463	genome.wustl.edu	37	4	42025372	42025372	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-D1-A163-01A-11D-A12J-09	TCGA-D1-A163-10A-01D-A12J-09	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_006345.3	+1	validated	p.R194H	1.000	257	0%	199	30.2%	13	23%	probably_damaging(1)	deleterious(0.01)	deleterious(0.905)	superfamily_Putative DNA-binding domain
KIT	3815	genome.wustl.edu	37	4	55564723	55564723	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-D1-A163-01A-11D-A12J-09	TCGA-D1-A163-10A-01D-A12J-09	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_000222.2	+1	reviewed	p.V204A	1.000	156	0%	142	20.4%	0	-	probably_damaging(1)	deleterious(0)	deleterious(0.945)	NULL
UBA6	55236	genome.wustl.edu	37	4	68490836	68490836	+	Missense_Mutation	SNP	G	G	C	novel		TCGA-D1-A163-01A-11D-A12J-09	TCGA-D1-A163-10A-01D-A12J-09	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_018227.5	-1	validated	p.T863R	1.000	307	0%	295	19%	26	7.6%	probably_damaging(0.991)	deleterious(0.01)	deleterious(0.850)	HMMPfam_UBACT,superfamily_Activating enzymes of the ubiquitin-like proteins
UGT2B7	7364	genome.wustl.edu	37	4	69962538	69962538	+	Silent	SNP	T	T	C	novel		TCGA-D1-A163-01A-11D-A12J-09	TCGA-D1-A163-10A-01D-A12J-09	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001074.2	+1	validated	p.L100	0.000	188	0%	204	36.8%	0	-	-	-	-	HMMPfam_UDPGT,superfamily_UDP-Glycosyltransferase/glycogen phosphorylase
THAP9	79725	genome.wustl.edu	37	4	83838832	83838832	+	Silent	SNP	A	A	G	novel		TCGA-D1-A163-01A-11D-A12J-09	TCGA-D1-A163-10A-01D-A12J-09	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_024672.4	+1	validated	p.A489	0.973	129	0%	119	45.4%	5	60%	-	-	-	NULL
AFF1	4299	genome.wustl.edu	37	4	88053428	88053428	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-D1-A163-01A-11D-A12J-09	TCGA-D1-A163-10A-01D-A12J-09	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_005935.2	+1	validated	p.R1053H	1.000	275	0%	184	39.7%	19	42.1%	unknown(0)	deleterious(0)	-	HMMPfam_AF-4
PDLIM5	10611	genome.wustl.edu	37	4	95497038	95497038	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-D1-A163-01A-11D-A12J-09	TCGA-D1-A163-10A-01D-A12J-09	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_006457.3	+1	reviewed	p.D188G	0.991	235	0%	204	44.1%	96	39.5%	benign(0.103)	tolerated(0.34)	neutral(0.031)	NULL
SLC9B2	133308	genome.wustl.edu	37	4	103970063	103970063	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-D1-A163-01A-11D-A12J-09	TCGA-D1-A163-10A-01D-A12J-09	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_178833.4	-1	validated	p.G234R	1.000	210	0%	174	29.3%	2	0%	probably_damaging(1)	deleterious(0)	deleterious(0.945)	HMMPfam_Na_H_Exchanger
LEF1	51176	genome.wustl.edu	37	4	108999544	108999545	+	In_Frame_Ins	INS	-	-	GGT	novel		TCGA-D1-A163-01A-11D-A12J-09	TCGA-D1-A163-10A-01D-A12J-09	-	-					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	ENST00000415535	-1	known	p.307in_frame_insH	0.997:0.167	-	-	-	-	-	-	-	-	-	NULL
ENPEP	2028	genome.wustl.edu	37	4	111397732	111397732	+	Silent	SNP	G	G	A	novel		TCGA-D1-A163-01A-11D-A12J-09	TCGA-D1-A163-10A-01D-A12J-09	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001977.3	+1	validated	p.A54	0.000	187	0%	146	39%	2	0%	-	-	-	NULL
PITX2	5308	genome.wustl.edu	37	4	111539567	111539567	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-D1-A163-01A-11D-A12J-09	TCGA-D1-A163-10A-01D-A12J-09	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_000325.5	-1	reviewed	p.S230L	1.000	214	0%	193	43%	0	-	benign(0.103)	deleterious(0.03)	neutral(0.372)	NULL
FREM3	166752	genome.wustl.edu	37	4	144619801	144619801	+	Silent	SNP	C	C	T	novel		TCGA-D1-A163-01A-11D-A12J-09	TCGA-D1-A163-10A-01D-A12J-09	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	ENST00000329798	-1	known	p.V676	0.999	125	0%	105	45.7%	0	-	-	-	-	NULL
SMAD1	4086	genome.wustl.edu	37	4	146460985	146460985	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-D1-A163-01A-11D-A12J-09	TCGA-D1-A163-10A-01D-A12J-09	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001003688.1	+1	reviewed	p.S144G	1.000	295	0%	277	41.5%	24	50%	benign(0.03)	tolerated(0.07)	neutral(0.321)	NULL
POU4F2	5458	genome.wustl.edu	37	4	147561807	147561807	+	Silent	SNP	G	G	A	novel		TCGA-D1-A163-01A-11D-A12J-09	TCGA-D1-A163-10A-01D-A12J-09	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_004575.2	+1	validated	p.S359	0.033	58	1.7%	49	40.8%	0	-	-	-	-	HMMPfam_Homeobox,HMMSmart_SM00389,superfamily_Homeodomain-like
DCLK2	166614	genome.wustl.edu	37	4	151169507	151169507	+	Silent	SNP	G	G	A	novel		TCGA-D1-A163-01A-11D-A12J-09	TCGA-D1-A163-10A-01D-A12J-09	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001040260.2	+1	validated	p.A642	0.130	218	0%	170	37.6%	3	0%	-	-	-	HMMSmart_SM00219,HMMSmart_SM00220,superfamily_Protein kinase-like (PK-like),HMMPfam_Pkinase
MAB21L2	10586	genome.wustl.edu	37	4	151504832	151504832	+	Silent	SNP	G	G	A	novel		TCGA-D1-A163-01A-11D-A12J-09	TCGA-D1-A163-10A-01D-A12J-09	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_006439.4	+1	reviewed	p.S217	0.999	21	0%	24	41.7%	0	-	-	-	-	HMMPfam_Mab-21
RAPGEF2	9693	genome.wustl.edu	37	4	160251521	160251521	+	Silent	SNP	A	A	G	novel		TCGA-D1-A163-01A-11D-A12J-09	TCGA-D1-A163-10A-01D-A12J-09	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_014247.2	+1	validated	p.E285	1.000	255	0%	221	41.6%	6	50%	-	-	-	HMMPfam_RasGEF_N,HMMSmart_RasGEFN,superfamily_Ras_GEF
MARCH1	55016	genome.wustl.edu	37	4	164466833	164466833	+	Silent	SNP	G	G	A	novel		TCGA-D1-A163-01A-11D-A12J-09	TCGA-D1-A163-10A-01D-A12J-09	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_017923.3	-1	validated	p.H145	0.915	374	0%	308	39.3%	4	0%	-	-	-	NULL
SPATA4	132851	genome.wustl.edu	37	4	177109361	177109361	+	Silent	SNP	C	C	A	novel		TCGA-D1-A163-01A-11D-A12J-09	TCGA-D1-A163-10A-01D-A12J-09	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_144644.2	-1	provisional	p.V238	0.969	99	0%	108	38%	0	-	-	-	-	NULL
ODZ3	55714	genome.wustl.edu	37	4	183659622	183659622	+	Nonsense_Mutation	SNP	C	C	T	novel		TCGA-D1-A163-01A-11D-A12J-09	TCGA-D1-A163-10A-01D-A12J-09	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001080477.1	+1	provisional	p.Q1102*	1.000	378	0%	334	34.1%	4	0%	-	-	-	superfamily_ConA_like_lec_gl
KIAA1430	57587	genome.wustl.edu	37	4	186111771	186111771	+	Missense_Mutation	SNP	C	C	G	novel		TCGA-D1-A163-01A-11D-A12J-09	TCGA-D1-A163-10A-01D-A12J-09	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_020827.1	-1	validated	p.D194H	0.837	349	0%	305	33.4%	20	45%	probably_damaging(0.984)	deleterious(0.01)	deleterious(0.836)	NULL
SORBS2	8470	genome.wustl.edu	37	4	186560088	186560088	+	Silent	SNP	C	C	T	novel		TCGA-D1-A163-01A-11D-A12J-09	TCGA-D1-A163-10A-01D-A12J-09	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	ENST00000445625	-1	known	p.R160H	1.000	56	0%	63	39.7%	8	50%	-	-	-	NULL
KLKB1	3818	genome.wustl.edu	37	4	187173195	187173195	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-D1-A163-01A-11D-A12J-09	TCGA-D1-A163-10A-01D-A12J-09	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_000892.3	+1	reviewed	p.R390H	0.997	106	0.9%	124	39.5%	1	100%	probably_damaging(1)	deleterious(0)	deleterious(0.945)	HMMSmart_Tryp_SPc,superfamily_Pept_Ser_Cys
ZDHHC11B	653082	genome.wustl.edu	37	5	766919	766919	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-D1-A163-01A-11D-A12J-09	TCGA-D1-A163-10A-01D-A12J-09	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	XM_926053.4	-1	model	p.H39R	0.660	92	0%	78	25.6%	0	-	probably_damaging(1)	deleterious(0)	deleterious(0.945)	NULL
DNAH5	1767	genome.wustl.edu	37	5	13901502	13901502	+	Silent	SNP	A	A	G	novel		TCGA-D1-A163-01A-11D-A12J-09	TCGA-D1-A163-10A-01D-A12J-09	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001369.2	-1	reviewed	p.I637	0.987	154	0%	140	45.7%	0	-	-	-	-	HMMPfam_DHC_N1
MYO10	4651	genome.wustl.edu	37	5	16764447	16764447	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-D1-A163-01A-11D-A12J-09	TCGA-D1-A163-10A-01D-A12J-09	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_012334.2	-1	validated	p.V413A	1.000	262	0.4%	226	37.6%	27	33.3%	benign(0.042)	deleterious(0)	neutral(0.447)	HMMPfam_Myosin_head,HMMSmart_MYSc,superfamily_SSF52540
SLC45A2	51151	genome.wustl.edu	37	5	33954603	33954603	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-D1-A163-01A-11D-A12J-09	TCGA-D1-A163-10A-01D-A12J-09	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_016180.3	-1	reviewed	p.R299G	0.195	209	0%	186	34.4%	0	-	probably_damaging(0.965)	tolerated(0.05)	deleterious(0.752)	superfamily_MFS general substrate transporter
C5orf34	375444	genome.wustl.edu	37	5	43490781	43490781	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-D1-A163-01A-11D-A12J-09	TCGA-D1-A163-10A-01D-A12J-09	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	ENST00000306862	-1	known	p.P544H	0.000	160	0%	130	46.9%	3	0%	possibly_damaging(0.443)	tolerated(0.09)	neutral(0.441)	NULL
CWC27	10283	genome.wustl.edu	37	5	64100159	64100159	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-D1-A163-01A-11D-A12J-09	TCGA-D1-A163-10A-01D-A12J-09	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_005869.2	+1	validated	p.A295V	0.007	194	0%	208	39.4%	8	62.5%	benign(0)	tolerated(0.28)	neutral(0.032)	NULL
PIK3R1	5295	genome.wustl.edu	37	5	67591246	67591246	+	Splice_Site	SNP	A	A	G	novel		TCGA-D1-A163-01A-11D-A12J-09	TCGA-D1-A163-10A-01D-A12J-09	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_181523.1	+1	reviewed	e13-2	1.000	523	0%	479	41.8%	1	100%	-	-	-	-
ENC1	8507	genome.wustl.edu	37	5	73932188	73932188	+	Splice_Site	SNP	C	C	T	novel		TCGA-D1-A163-01A-11D-A12J-09	TCGA-D1-A163-10A-01D-A12J-09	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	ENST00000510316	-1	known	e1-1	1.000	100	0%	69	40.6%	100	38%	-	-	-	-
TSSK1B	83942	genome.wustl.edu	37	5	112769954	112769954	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-D1-A163-01A-11D-A12J-09	TCGA-D1-A163-10A-01D-A12J-09	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_032028.3	-1	validated	p.K195E	0.871	78	0%	69	43.5%	0	-	benign(0.031)	tolerated(0.11)	neutral(0.273)	HMMSmart_SM00219,HMMSmart_SM00220,superfamily_Protein kinase-like (PK-like),HMMPfam_Pkinase
P4HA2	8974	genome.wustl.edu	37	5	131530691	131530691	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-D1-A163-01A-11D-A12J-09	TCGA-D1-A163-10A-01D-A12J-09	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001142599.1	-1	reviewed	p.L489I	1.000	294	0%	253	39.1%	66	31.8%	probably_damaging(1)	deleterious(0)	deleterious(0.945)	HMMPfam_2OG-FeII_Oxy,HMMSmart_SM00702
AFF4	27125	genome.wustl.edu	37	5	132270345	132270345	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-D1-A163-01A-11D-A12J-09	TCGA-D1-A163-10A-01D-A12J-09	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_014423.3	-1	validated	p.A138T	1.000	322	0%	268	44%	32	46.8%	benign(0.08)	tolerated(0.29)	neutral(0.035)	HMMPfam_AF-4
HARS2	23438	genome.wustl.edu	37	5	140076933	140076933	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-D1-A163-01A-11D-A12J-09	TCGA-D1-A163-10A-01D-A12J-09	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_012208.2	+1	reviewed	p.C380Y	1.000	189	0%	156	43.6%	32	37.5%	probably_damaging(0.997)	deleterious(0)	deleterious(0.911)	superfamily_SSF55681
PCDHA12	56137	genome.wustl.edu	37	5	140256434	140256434	+	Missense_Mutation	SNP	G	G	C	novel		TCGA-D1-A163-01A-11D-A12J-09	TCGA-D1-A163-10A-01D-A12J-09	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_018903.2	+1	reviewed	p.E459D	0.208	107	0%	84	38.1%	0	-	benign(0.005)	tolerated(0.54)	neutral(0.007)	superfamily_Cadherin-like
PCDHB8	56128	genome.wustl.edu	37	5	140559035	140559035	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-D1-A163-01A-11D-A12J-09	TCGA-D1-A163-10A-01D-A12J-09	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_019120.2	+1	reviewed	p.V474I	0.291	279	0.4%	265	12.1%	23	4.3%	benign(0.017)	tolerated(0.63)	neutral(0.004)	HMMPfam_Cadherin,HMMSmart_CA,superfamily_Cadherin
PCDHB12	56124	genome.wustl.edu	37	5	140589252	140589252	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-D1-A163-01A-11D-A12J-09	TCGA-D1-A163-10A-01D-A12J-09	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_018932.3	+1	reviewed	p.G258D	0.351	275	0%	245	11.4%	2	0%	benign(0.347)	tolerated(0.3)	neutral(0.139)	HMMPfam_Cadherin,superfamily_Cadherin
PCDHB13	56123	genome.wustl.edu	37	5	140595612	140595612	+	Silent	SNP	G	G	A	novel		TCGA-D1-A163-01A-11D-A12J-09	TCGA-D1-A163-10A-01D-A12J-09	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_018933.2	+1	reviewed	p.R639	0.615	21	0%	18	27.8%	12	0%	-	-	-	HMMPfam_Cadherin,HMMSmart_CA,superfamily_Cadherin
PCDHGC3	5098	genome.wustl.edu	37	5	140857253	140857253	+	Missense_Mutation	SNP	C	C	G	novel		TCGA-D1-A163-01A-11D-A12J-09	TCGA-D1-A163-10A-01D-A12J-09	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_002588.2	+1	reviewed	p.P524A	0.866	60	0%	46	15.2%	13	15.3%	benign(0.066)	tolerated(0.23)	neutral(0.046)	HMMPfam_Cadherin,HMMSmart_SM00112,superfamily_Cadherin-like
GLRA1	2741	genome.wustl.edu	37	5	151231142	151231142	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-D1-A163-01A-11D-A12J-09	TCGA-D1-A163-10A-01D-A12J-09	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_000171.3	-1	reviewed	p.R241W	1.000	134	0%	105	38.1%	0	-	probably_damaging(1)	deleterious(0.01)	deleterious(0.905)	HMMPfam_Neur_chan_LBD,superfamily_Nicotinic receptor ligand binding domain-like
GABRA6	2559	genome.wustl.edu	37	5	161116280	161116280	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-D1-A163-01A-11D-A12J-09	TCGA-D1-A163-10A-01D-A12J-09	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_000811.2	+1	reviewed	p.C156Y	1.000	413	0%	338	16.9%	0	-	probably_damaging(1)	deleterious(0)	deleterious(0.945)	HMMPfam_Neur_chan_LBD,superfamily_Nicotinic receptor ligand binding domain-like,PatternScan_NEUROTR_ION_CHANNEL
RNF44	22838	genome.wustl.edu	37	5	175956359	175956359	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-D1-A163-01A-11D-A12J-09	TCGA-D1-A163-10A-01D-A12J-09	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_014901.4	-1	reviewed	p.A389V	0.380	71	0%	59	40.7%	74	50%	benign(0.001)	tolerated(0.36)	neutral(0.020)	HMMSmart_RING,HMMPfam_zf-C3HC4,superfamily_SSF57850
RGS14	10636	genome.wustl.edu	37	5	176798196	176798196	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-D1-A163-01A-11D-A12J-09	TCGA-D1-A163-10A-01D-A12J-09	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_006480.4	+1	reviewed	p.K429E	0.986	47	0%	42	57.1%	5	0%	benign(0.002)	tolerated(0.53)	neutral(0.007)	HMMPfam_RBD,HMMSmart_SM00455
ZNF879	345462	genome.wustl.edu	37	5	178460019	178460019	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-D1-A163-01A-11D-A12J-09	TCGA-D1-A163-10A-01D-A12J-09	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001136116.1	+1	provisional	p.S357L	0.094	123	0%	104	37.5%	4	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
PHACTR1	221692	genome.wustl.edu	37	6	13283774	13283774	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-D1-A163-01A-11D-A12J-09	TCGA-D1-A163-10A-01D-A12J-09	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_030948.1	+1	validated	p.R544C	1.000	71	0%	64	34.4%	7	28.5%	probably_damaging(1)	deleterious(0)	deleterious(0.945)	NULL
GMPR	2766	genome.wustl.edu	37	6	16247135	16247135	+	Silent	SNP	C	C	T	novel		TCGA-D1-A163-01A-11D-A12J-09	TCGA-D1-A163-10A-01D-A12J-09	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_006877.3	+1	reviewed	p.I50	1.000	210	0%	200	45%	144	51.3%	-	-	-	HMMPfam_IMPDH,superfamily_SSF51412
CDKAL1	54901	genome.wustl.edu	37	6	21231175	21231175	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-D1-A163-01A-11D-A12J-09	TCGA-D1-A163-10A-01D-A12J-09	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_017774.3	+1	reviewed	p.M549V	0.000	355	0%	256	33.6%	17	47%	benign(0)	deleterious(0.04)	neutral(0.349)	NULL
TRIM38	10475	genome.wustl.edu	37	6	25983464	25983464	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-D1-A163-01A-11D-A12J-09	TCGA-D1-A163-10A-01D-A12J-09	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_006355.2	+1	reviewed	p.R316H	0.000	139	0.7%	150	26.7%	36	13.8%	probably_damaging(0.996)	tolerated(0.53)	deleterious(0.469)	HMMSmart_PRY
HIST1H2AG	8969	genome.wustl.edu	37	6	27101067	27101067	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-D1-A163-01A-11D-A12J-09	TCGA-D1-A163-10A-01D-A12J-09	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_021064.4	+1	reviewed	p.D73N	1.000	177	0%	166	11.4%	11	27.2%	possibly_damaging(0.458)	deleterious(0)	deleterious(0.595)	HMMSmart_SM00414,HMMPfam_Histone,superfamily_Histone-fold
HIST1H2BM	8342	genome.wustl.edu	37	6	27783020	27783020	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-D1-A163-01A-11D-A12J-09	TCGA-D1-A163-10A-01D-A12J-09	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_003521.2	+1	reviewed	p.V67I	1.000	328	0%	253	38.7%	0	-	benign(0)	deleterious(0.03)	neutral(0.364)	HMMSmart_H2B,HMMPfam_Histone,superfamily_Histone-fold
HLA-F	3134	genome.wustl.edu	37	6	29691344	29691344	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-D1-A163-01A-11D-A12J-09	TCGA-D1-A163-10A-01D-A12J-09	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	ENST00000423744	+1	known	p.R35M	0.000	9	0.000	8	0.625	1	0%	-	-	-	NULL
DHX16	8449	genome.wustl.edu	37	6	30632993	30632993	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-D1-A163-01A-11D-A12J-09	TCGA-D1-A163-10A-01D-A12J-09	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_003587.4	-1	reviewed	p.R327Q	1.000	39	0%	35	42.9%	19	47.3%	possibly_damaging(0.939)	tolerated(0.12)	deleterious(0.645)	superfamily_P-loop containing nucleoside triphosphate hydrolases
SLC44A4	80736	genome.wustl.edu	37	6	31833349	31833349	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-D1-A163-01A-11D-A12J-09	TCGA-D1-A163-10A-01D-A12J-09	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_025257.2	-1	reviewed	p.M538V	0.913	21	0%	24	20.8%	80	50%	benign(0.001)	tolerated(0.05)	neutral(0.345)	HMMPfam_DUF580
EGFL8	80864	genome.wustl.edu	37	6	32134574	32134574	+	Silent	SNP	G	G	A	novel		TCGA-D1-A163-01A-11D-A12J-09	TCGA-D1-A163-10A-01D-A12J-09	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_030652.2	+1	validated	p.A107	0.947	42	0%	40	37.5%	17	5.8%	-	-	-	superfamily_EGF/Laminin
RNF8	9025	genome.wustl.edu	37	6	37358608	37358608	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-D1-A163-01A-11D-A12J-09	TCGA-D1-A163-10A-01D-A12J-09	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_183078.2	+1	reviewed	p.A443T	0.002	192	0%	165	46.1%	64	57.8%	unknown(0)	-	-	NULL
MDGA1	266727	genome.wustl.edu	37	6	37631862	37631862	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-D1-A163-01A-11D-A12J-09	TCGA-D1-A163-10A-01D-A12J-09	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_153487.3	-1	validated	p.V30M	0.384	124	0%	88	28.4%	1	0%	possibly_damaging(0.747)	deleterious(0)	deleterious(0.719)	PatternScan_NITROGENASE_1_1
KCNK5	8645	genome.wustl.edu	37	6	39158717	39158717	+	Silent	SNP	G	G	A	novel		TCGA-D1-A163-01A-11D-A12J-09	TCGA-D1-A163-10A-01D-A12J-09	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_003740.3	-1	reviewed	p.Y483	0.921	73	0%	60	41.7%	24	29.1%	-	-	-	NULL
CCND3	896	genome.wustl.edu	37	6	41903698	41903698	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-D1-A163-01A-11D-A12J-09	TCGA-D1-A163-10A-01D-A12J-09	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001760.3	-1	reviewed	p.V287I	1.000	113	0.9%	94	36.2%	22	31.8%	possibly_damaging(0.95)	deleterious(0.04)	deleterious(0.742)	NULL
ZNF318	24149	genome.wustl.edu	37	6	43305342	43305342	+	Nonsense_Mutation	SNP	C	C	A	novel		TCGA-D1-A163-01A-11D-A12J-09	TCGA-D1-A163-10A-01D-A12J-09	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_014345.2	-1	validated	p.G2132*	0.996	133	0%	137	44.5%	8	50%	-	-	-	NULL
ABCC10	89845	genome.wustl.edu	37	6	43400813	43400813	+	Silent	SNP	C	C	T	novel		TCGA-D1-A163-01A-11D-A12J-09	TCGA-D1-A163-10A-01D-A12J-09	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_033450.2	+1	reviewed	p.C322	0.662	77	0%	69	43.5%	7	57.1%	-	-	-	HMMPfam_ABC_membrane,superfamily_ABC_TM_1
CYP39A1	51302	genome.wustl.edu	37	6	46554859	46554859	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-D1-A163-01A-11D-A12J-09	TCGA-D1-A163-10A-01D-A12J-09	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_016593.3	-1	reviewed	p.D402G	0.996	235	0%	200	16%	4	0%	probably_damaging(1)	deleterious(0.01)	deleterious(0.905)	HMMPfam_p450,superfamily_Cytochrome P450
TFAP2B	7021	genome.wustl.edu	37	6	50810909	50810909	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-D1-A163-01A-11D-A12J-09	TCGA-D1-A163-10A-01D-A12J-09	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_003221.3	+1	reviewed	p.T396M	1.000	51	0%	52	36.5%	0	-	possibly_damaging(0.623)	deleterious(0)	deleterious(0.661)	HMMPfam_TF_AP-2
FAM83B	222584	genome.wustl.edu	37	6	54805765	54805765	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-D1-A163-01A-11D-A12J-09	TCGA-D1-A163-10A-01D-A12J-09	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001010872.1	+1	validated	p.P666S	1.000	80	0%	89	11.2%	7	28.5%	probably_damaging(0.998)	deleterious(0.01)	deleterious(0.880)	NULL
CD109	135228	genome.wustl.edu	37	6	74524791	74524791	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-D1-A163-01A-11D-A12J-09	TCGA-D1-A163-10A-01D-A12J-09	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_133493.3	+1	reviewed	p.A1286T	0.435	293	0%	226	40.3%	2	0%	benign(0)	tolerated(0.89)	-	superfamily_Alpha-macroglobulin receptor domain
TTK	7272	genome.wustl.edu	37	6	80751905	80751905	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-D1-A163-01A-11D-A12J-09	TCGA-D1-A163-10A-01D-A12J-09	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_003318.4	+1	reviewed	p.R854G	0.014	134	0%	129	48.1%	4	50%	possibly_damaging(0.917)	tolerated(0.15)	deleterious(0.609)	NULL
LYRM2	57226	genome.wustl.edu	37	6	90347572	90347574	+	In_Frame_Del	DEL	GAG	GAG	-	novel		TCGA-D1-A163-01A-11D-A12J-09	TCGA-D1-A163-10A-01D-A12J-09	GAG	GAG					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_020466.4	-1	validated	p.L25in_frame_del	0.854:0.880:0.821	-	-	-	-	-	-	-	-	-	HMMPfam_Complex1_LYR
ASCC3	10973	genome.wustl.edu	37	6	101296063	101296063	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-D1-A163-01A-11D-A12J-09	TCGA-D1-A163-10A-01D-A12J-09	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_006828.2	-1	validated	p.M254I	1.000	114	0%	109	32.1%	8	62.5%	benign(0)	tolerated(1)	-	NULL
TSPYL1	7259	genome.wustl.edu	37	6	116599879	116599879	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-D1-A163-01A-11D-A12J-09	TCGA-D1-A163-10A-01D-A12J-09	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_003309.3	-1	reviewed	p.D372G	0.770	198	0%	204	13.2%	66	15.1%	benign(0.176)	tolerated(0.14)	neutral(0.266)	HMMPfam_NAP
HBS1L	10767	genome.wustl.edu	37	6	135308817	135308817	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-D1-A163-01A-11D-A12J-09	TCGA-D1-A163-10A-01D-A12J-09	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_006620.3	-1	reviewed	p.T399M	0.999	182	0%	167	14.4%	41	4.8%	probably_damaging(1)	tolerated(0.14)	deleterious(0.750)	HMMPfam_GTP_EFTU,superfamily_P-loop containing nucleoside triphosphate hydrolases
GRM1	2911	genome.wustl.edu	37	6	146480622	146480622	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-D1-A163-01A-11D-A12J-09	TCGA-D1-A163-10A-01D-A12J-09	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_000838.3	+1	reviewed	p.R280M	1.000	175	0.6%	160	20%	0	-	possibly_damaging(0.903)	deleterious(0.01)	deleterious(0.764)	HMMPfam_ANF_receptor,superfamily_SSF53822
TAB2	23118	genome.wustl.edu	37	6	149700167	149700167	+	Silent	SNP	C	C	T	novel		TCGA-D1-A163-01A-11D-A12J-09	TCGA-D1-A163-10A-01D-A12J-09	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_015093.4	+1	reviewed	p.S372	0.998	179	0%	162	39.5%	47	51%	-	-	-	NULL
SERAC1	84947	genome.wustl.edu	37	6	158567834	158567834	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-D1-A163-01A-11D-A12J-09	TCGA-D1-A163-10A-01D-A12J-09	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_032861.3	-1	validated	p.S156L	0.949	267	0.4%	181	50.3%	11	36.3%	benign(0.07)	deleterious(0)	neutral(0.450)	superfamily_ARM repeat
TMEM181	57583	genome.wustl.edu	37	6	159044628	159044628	+	Missense_Mutation	SNP	G	G	A	rs188259608	by1000genomes	TCGA-D1-A163-01A-11D-A12J-09	TCGA-D1-A163-10A-01D-A12J-09	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_020823.1	+1	validated	p.G452R	0.500	158	0%	134	17.2%	27	11.1%	probably_damaging(0.961)	tolerated(0.43)	neutral(0.418)	NULL
SLC22A1	6580	genome.wustl.edu	37	6	160555052	160555052	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-D1-A163-01A-11D-A12J-09	TCGA-D1-A163-10A-01D-A12J-09	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_003057.2	+1	reviewed	p.T245M	0.001	112	0%	142	40.8%	0	-	probably_damaging(0.999)	deleterious(0)	deleterious(0.935)	HMMPfam_MFS_1,superfamily_MFS general substrate transporter
GPR31	2853	genome.wustl.edu	37	6	167571001	167571001	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-D1-A163-01A-11D-A12J-09	TCGA-D1-A163-10A-01D-A12J-09	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_005299.2	-1	validated	p.A107T	0.069	26	0%	26	53.8%	0	-	benign(0.187)	tolerated(0.41)	neutral(0.033)	HMMPfam_7tm_1,PatternScan_G_PROTEIN_RECEP_F1_1,superfamily_SSF81321
SNX8	29886	genome.wustl.edu	37	7	2297105	2297105	+	Silent	SNP	C	C	T	novel		TCGA-D1-A163-01A-11D-A12J-09	TCGA-D1-A163-10A-01D-A12J-09	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_013321.1	-1	provisional	p.Q343	1.000	59	0%	46	32.6%	28	39.2%	-	-	-	NULL
SNX8	29886	genome.wustl.edu	37	7	2317822	2317822	+	Silent	SNP	C	C	G	novel		TCGA-D1-A163-01A-11D-A12J-09	TCGA-D1-A163-10A-01D-A12J-09	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_013321.1	-1	provisional	p.L71	1.000	91	0%	88	43.2%	21	33.3%	-	-	-	HMMPfam_PX,HMMSmart_SM00312,superfamily_PX domain
CARD11	84433	genome.wustl.edu	37	7	2962834	2962834	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-D1-A163-01A-11D-A12J-09	TCGA-D1-A163-10A-01D-A12J-09	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_032415.3	-1	validated	p.V692M	0.289	24	0%	11	54.5%	2	0%	possibly_damaging(0.766)	deleterious(0.01)	deleterious(0.690)	HMMSmart_PDZ,superfamily_PDZ
DPY19L1	23333	genome.wustl.edu	37	7	35057495	35057495	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-D1-A163-01A-11D-A12J-09	TCGA-D1-A163-10A-01D-A12J-09	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_015283.1	-1	validated	p.M64T	1.000	202	0%	166	43.4%	9	66.6%	probably_damaging(0.993)	deleterious(0)	deleterious(0.895)	HMMPfam_DUF2211
ZMIZ2	83637	genome.wustl.edu	37	7	44802492	44802492	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-D1-A163-01A-11D-A12J-09	TCGA-D1-A163-10A-01D-A12J-09	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_031449.3	+1	validated	p.V537M	1.000	100	0%	113	50.4%	118	52.5%	probably_damaging(0.987)	deleterious(0.03)	deleterious(0.801)	NULL
ZNF680	340252	genome.wustl.edu	37	7	63982366	63982366	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-D1-A163-01A-11D-A12J-09	TCGA-D1-A163-10A-01D-A12J-09	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_178558.4	-1	validated	p.H256N	0.951	112	0.9%	100	27%	8	12.5%	possibly_damaging(0.811)	deleterious(0.01)	deleterious(0.711)	HMMPfam_zf-C2H2,PatternScan_ZINC_FINGER_C2H2_1,HMMSmart_SM00355,superfamily_C2H2 and C2HC zinc fingers
AUTS2	26053	genome.wustl.edu	37	7	70255577	70255579	+	In_Frame_Del	DEL	CCA	CCA	-	rs35604576		TCGA-D1-A163-01A-11D-A12J-09	TCGA-D1-A163-10A-01D-A12J-09	CCA	CCA					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_015570.2	+1	validated	p.H1129in_frame_del	1.000:1.000:1.000	-	-	-	-	-	-	-	-	-	NULL
ABHD11	83451	genome.wustl.edu	37	7	73151835	73151835	+	RNA	SNP	G	G	A	novel		TCGA-D1-A163-01A-11D-A12J-09	TCGA-D1-A163-10A-01D-A12J-09	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NR_026912.1	-1	validated	NULL	0.001	37	0%	24	29.2%	10	30%	-	-	-	-
WBSCR27	155368	genome.wustl.edu	37	7	73254451	73254452	+	Splice_Site	INS	-	-	TG	novel		TCGA-D1-A163-01A-11D-A12J-09	TCGA-D1-A163-10A-01D-A12J-09	-	-					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_152559.2	-1	reviewed	e4-1	0.880:0.468	-	-	-	-	-	-	-	-	-	-
LIMK1	3984	genome.wustl.edu	37	7	73535328	73535328	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-D1-A163-01A-11D-A12J-09	TCGA-D1-A163-10A-01D-A12J-09	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_002314.2	+1	reviewed	p.P577L	0.998	116	0%	117	15.4%	49	22.4%	possibly_damaging(0.813)	tolerated(0.12)	deleterious(0.568)	HMMSmart_SM00219,HMMSmart_SM00220,superfamily_Protein kinase-like (PK-like)
GTF2IRD1	9569	genome.wustl.edu	37	7	73927263	73927263	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-D1-A163-01A-11D-A12J-09	TCGA-D1-A163-10A-01D-A12J-09	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_016328.1	+1	reviewed	p.A76V	0.401	118	0%	97	17.5%	14	21.4%	benign(0.328)	deleterious(0.02)	deleterious(0.486)	NULL
SEMA3D	223117	genome.wustl.edu	37	7	84649599	84649599	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-D1-A163-01A-11D-A12J-09	TCGA-D1-A163-10A-01D-A12J-09	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_152754.2	-1	validated	p.E485K	1.000	222	0%	204	36.8%	0	-	possibly_damaging(0.684)	tolerated(0.25)	neutral(0.281)	HMMPfam_Sema,HMMSmart_Sema,superfamily_Sema
ABCB1	5243	genome.wustl.edu	37	7	87196162	87196162	+	Nonsense_Mutation	SNP	G	G	A	novel		TCGA-D1-A163-01A-11D-A12J-09	TCGA-D1-A163-10A-01D-A12J-09	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_000927.3	-1	reviewed	p.R157*	0.917	330	0%	259	16.2%	0	-	-	-	-	HMMPfam_ABC_membrane,superfamily_Multidrug resistance ABC transporter MsbA N-terminal domain
ZKSCAN1	7586	genome.wustl.edu	37	7	99631749	99631750	+	Frame_Shift_Del	DEL	AG	AG	-	novel		TCGA-D1-A163-01A-11D-A12J-09	TCGA-D1-A163-10A-01D-A12J-09	AG	AG					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_003439.1	+1	validated	p.R543fs	0.322:0.996	-	-	-	-	-	-	-	-	-	superfamily_C2H2 and C2HC zinc fingers
SRRT	51593	genome.wustl.edu	37	7	100482040	100482042	+	In_Frame_Del	DEL	AGG	AGG	-	novel		TCGA-D1-A163-01A-11D-A12J-09	TCGA-D1-A163-10A-01D-A12J-09	AGG	AGG					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_015908.5	+1	validated	p.E274in_frame_del	1.000:0.996:1.000	-	-	-	-	-	-	-	-	-	NULL
ACHE	43	genome.wustl.edu	37	7	100487859	100487859	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-D1-A163-01A-11D-A12J-09	TCGA-D1-A163-10A-01D-A12J-09	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_000665.3	-1	reviewed	p.K607N	1.000	88	0%	79	50.6%	1	0%	probably_damaging(0.991)	deleterious(0)	deleterious(0.889)	HMMPfam_AChE_tetra
PIK3CG	5294	genome.wustl.edu	37	7	106508064	106508064	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-D1-A163-01A-11D-A12J-09	TCGA-D1-A163-10A-01D-A12J-09	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_002649.2	+1	reviewed	p.R20C	1.000	12	0%	14	35.7%	0	-	probably_damaging(1)	deleterious(0.02)	deleterious(0.883)	NULL
PODXL	5420	genome.wustl.edu	37	7	131191402	131191402	+	Silent	SNP	G	G	A	novel		TCGA-D1-A163-01A-11D-A12J-09	TCGA-D1-A163-10A-01D-A12J-09	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001018111.2	-1	reviewed	p.C395	0.006	181	0%	164	16.5%	73	24.6%	-	-	-	HMMPfam_CD34_antigen
WEE2	494551	genome.wustl.edu	37	7	141424838	141424838	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-D1-A163-01A-11D-A12J-09	TCGA-D1-A163-10A-01D-A12J-09	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001105558.1	+1	validated	p.L412F	0.999	114	0%	85	47.1%	0	-	probably_damaging(1)	deleterious(0)	deleterious(0.945)	superfamily_Kinase_like,HMMPfam_Pkinase
MGAM	8972	genome.wustl.edu	37	7	141731551	141731551	+	Missense_Mutation	SNP	T	T	G	novel		TCGA-D1-A163-01A-11D-A12J-09	TCGA-D1-A163-10A-01D-A12J-09	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_004668.2	+1	reviewed	p.F514L	0.556	487	0%	370	37.8%	0	-	benign(0)	tolerated(0.62)	neutral(0.004)	HMMPfam_Glyco_hydro_31
ZYX	7791	genome.wustl.edu	37	7	143085432	143085432	+	Nonsense_Mutation	SNP	G	G	T	novel		TCGA-D1-A163-01A-11D-A12J-09	TCGA-D1-A163-10A-01D-A12J-09	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001010972.1	+1	reviewed	p.E382*	0.938	47	0%	42	33.3%	201	2.9%	-	-	-	NULL
ARHGEF5	7984	genome.wustl.edu	37	7	144077042	144077042	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-D1-A163-01A-11D-A12J-09	TCGA-D1-A163-10A-01D-A12J-09	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_005435.3	+1	reviewed	p.V1563M	0.000	114	0%	85	32.9%	48	56.2%	benign(0.002)	tolerated(0.35)	neutral(0.021)	HMMSmart_SM00326,superfamily_SH3-domain,HMMPfam_SH3_2
CNTNAP2	26047	genome.wustl.edu	37	7	147914596	147914596	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-D1-A163-01A-11D-A12J-09	TCGA-D1-A163-10A-01D-A12J-09	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_014141.5	+1	reviewed	p.A1076V	0.998	96	0%	90	41.1%	0	-	probably_damaging(1)	tolerated(0.06)	deleterious(0.823)	HMMSmart_SM00282,superfamily_Concanavalin A-like lectins/glucanases,HMMPfam_Laminin_G_2
ZNF862	643641	genome.wustl.edu	37	7	149545162	149545162	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-D1-A163-01A-11D-A12J-09	TCGA-D1-A163-10A-01D-A12J-09	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001099220.1	+1	provisional	p.A194T	0.986	165	0%	113	37.2%	8	25%	probably_damaging(0.999)	deleterious(0)	deleterious(0.935)	HMMSmart_SM00597
DLGAP2	9228	genome.wustl.edu	37	8	1497385	1497385	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-D1-A163-01A-11D-A12J-09	TCGA-D1-A163-10A-01D-A12J-09	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_004745.3	+1	reviewed	p.G176S	0.998	12	0%	21	71.4%	0	-	probably_damaging(1)	deleterious(0.03)	deleterious(0.865)	NULL
CSMD1	64478	genome.wustl.edu	37	8	3200968	3200968	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-D1-A163-01A-11D-A12J-09	TCGA-D1-A163-10A-01D-A12J-09	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_033225.5	-1	validated	p.Y1161C	0.329	256	0%	201	39.3%	0	-	probably_damaging(0.986)	deleterious(0.04)	deleterious(0.783)	HMMPfam_CUB,HMMSmart_SM00042,superfamily_Spermadhesin CUB domain
SGK223	157285	genome.wustl.edu	37	8	8185399	8185399	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-D1-A163-01A-11D-A12J-09	TCGA-D1-A163-10A-01D-A12J-09	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001080826.1	-1	validated	p.V965L	0.940	71	0%	77	41.6%	21	38%	benign(0.249)	deleterious(0.04)	neutral(0.374)	NULL
TNKS	8658	genome.wustl.edu	37	8	9584166	9584166	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-D1-A163-01A-11D-A12J-09	TCGA-D1-A163-10A-01D-A12J-09	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_003747.2	+1	validated	p.R646H	0.972	525	0.4%	467	21.6%	13	15.3%	benign(0.001)	tolerated(0.13)	neutral(0.253)	superfamily_Ankyrin repeat
DLC1	10395	genome.wustl.edu	37	8	12956878	12956878	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-D1-A163-01A-11D-A12J-09	TCGA-D1-A163-10A-01D-A12J-09	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_182643.2	-1	reviewed	p.A990S	1.000	186	0.5%	162	16.7%	12	16.6%	probably_damaging(1)	tolerated(0.12)	deleterious(0.760)	NULL
HR	55806	genome.wustl.edu	37	8	21978271	21978271	+	Silent	SNP	C	C	T	novel		TCGA-D1-A163-01A-11D-A12J-09	TCGA-D1-A163-10A-01D-A12J-09	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_005144.4	-1	reviewed	p.R856	0.000	5	0.000	8	0.500	3	66.6%	-	-	-	NULL
LGI3	203190	genome.wustl.edu	37	8	22006023	22006023	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-D1-A163-01A-11D-A12J-09	TCGA-D1-A163-10A-01D-A12J-09	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_139278.2	-1	validated	p.R433C	0.597	48	0%	27	37%	0	-	probably_damaging(0.994)	deleterious(0.02)	deleterious(0.835)	HMMPfam_EPTP
EBF2	64641	genome.wustl.edu	37	8	25899750	25899750	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-D1-A163-01A-11D-A12J-09	TCGA-D1-A163-10A-01D-A12J-09	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_022659.2	-1	validated	p.R50Q	1.000	124	0%	145	46.9%	0	-	probably_damaging(1)	deleterious(0)	deleterious(0.945)	NULL
FZD3	7976	genome.wustl.edu	37	8	28385184	28385184	+	Missense_Mutation	SNP	T	T	A	novel		TCGA-D1-A163-01A-11D-A12J-09	TCGA-D1-A163-10A-01D-A12J-09	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_017412.2	+1	reviewed	p.W303R	1.000	197	0%	164	17.7%	13	7.6%	probably_damaging(1)	deleterious(0)	deleterious(0.945)	HMMPfam_Frizzled
HGSNAT	138050	genome.wustl.edu	37	8	43024316	43024316	+	Silent	SNP	T	T	C	novel		TCGA-D1-A163-01A-11D-A12J-09	TCGA-D1-A163-10A-01D-A12J-09	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_152419.2	+1	reviewed	p.S188	0.932	140	0%	89	41.6%	28	46.4%	-	-	-	NULL
SNAI2	6591	genome.wustl.edu	37	8	49832557	49832557	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-D1-A163-01A-11D-A12J-09	TCGA-D1-A163-10A-01D-A12J-09	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_003068.3	-1	reviewed	p.K175E	0.998	182	0%	137	35%	5	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
SDR16C6P	442388	genome.wustl.edu	37	8	57302813	57302813	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-D1-A163-01A-11D-A12J-09	TCGA-D1-A163-10A-01D-A12J-09	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	ENST00000444271	-1	known	p.V108F	1.000	173	0%	148	40.5%	0	-	-	-	-	HMMPfam_adh_short,superfamily_NAD(P)-binding Rossmann-fold domains
LOC392232	392232	genome.wustl.edu	37	8	73163714	73163714	+	RNA	SNP	C	C	T	novel		TCGA-D1-A163-01A-11D-A12J-09	TCGA-D1-A163-10A-01D-A12J-09	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	XR_037363.2	-1	model	NULL	0.002	45	0%	39	48.7%	0	-	-	-	-	-
UBR5	51366	genome.wustl.edu	37	8	103266697	103266699	+	In_Frame_Del	DEL	CTT	CTT	-	novel		TCGA-D1-A163-01A-11D-A12J-09	TCGA-D1-A163-10A-01D-A12J-09	CTT	CTT					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_015902.4	-1	reviewed	p.E2744in_frame_del	1.000:1.000:1.000	-	-	-	-	-	-	-	-	-	HMMPfam_HECT,HMMSmart_HECTc,superfamily_HECT
MTSS1	9788	genome.wustl.edu	37	8	125565583	125565583	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-D1-A163-01A-11D-A12J-09	TCGA-D1-A163-10A-01D-A12J-09	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_014751.4	-1	validated	p.R640W	0.108	181	0%	145	31.7%	17	76.4%	possibly_damaging(0.643)	deleterious(0.03)	deleterious(0.590)	NULL
ADCY8	114	genome.wustl.edu	37	8	131916151	131916161	+	Frame_Shift_Del	DEL	CTGTCCTCAGG	CTGTCCTCAGG	-	novel		TCGA-D1-A163-01A-11D-A12J-09	TCGA-D1-A163-10A-01D-A12J-09	CTGTCCTCAGG	CTGTCCTCAGG					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001115.2	-1	reviewed	p.P590fs	0.497:0.530:0.142:1.000:1.000:1.000:1.000:1.000:0.663:1.000:1.000	-	-	-	-	-	-	-	-	-	NULL
ZFAT	57623	genome.wustl.edu	37	8	135614730	135614730	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-D1-A163-01A-11D-A12J-09	TCGA-D1-A163-10A-01D-A12J-09	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_020863.3	-1	reviewed	p.R411H	1.000	34	0%	38	23.7%	5	40%	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
PTK2	5747	genome.wustl.edu	37	8	141675056	141675056	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-D1-A163-01A-11D-A12J-09	TCGA-D1-A163-10A-01D-A12J-09	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_005607.3	-1	reviewed	p.D991G	1.000	139	0%	85	32.9%	63	50.7%	probably_damaging(1)	deleterious(0)	deleterious(0.945)	HMMPfam_Focal_AT,superfamily_Focal_AT
ARC	23237	genome.wustl.edu	37	8	143694599	143694599	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-D1-A163-01A-11D-A12J-09	TCGA-D1-A163-10A-01D-A12J-09	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_015193.3	-1	validated	p.L345P	1.000	24	0%	33	18.2%	0	-	probably_damaging(0.99)	deleterious(0.01)	deleterious(0.847)	NULL
PPP1R16A	84988	genome.wustl.edu	37	8	145724196	145724196	+	Silent	SNP	C	C	T	novel		TCGA-D1-A163-01A-11D-A12J-09	TCGA-D1-A163-10A-01D-A12J-09	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_032902.5	+1	provisional	p.N101	0.936	67	0%	36	47.2%	51	43.1%	unknown(0)	-	-	HMMPfam_Ank,superfamily_ANK
TTC39B	158219	genome.wustl.edu	37	9	15192657	15192657	+	Silent	SNP	G	G	A	novel		TCGA-D1-A163-01A-11D-A12J-09	TCGA-D1-A163-10A-01D-A12J-09	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_152574.2	-1	validated	p.N221	1.000	274	0%	227	15.9%	1	0%	-	-	-	HMMPfam_Deme6
IFT74	80173	genome.wustl.edu	37	9	27048229	27048229	+	Silent	SNP	T	T	C	novel		TCGA-D1-A163-01A-11D-A12J-09	TCGA-D1-A163-10A-01D-A12J-09	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001099222.1	+1	validated	p.T430	0.990	157	0%	139	39.6%	25	40%	-	-	-	NULL
RUSC2	9853	genome.wustl.edu	37	9	35560615	35560615	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-D1-A163-01A-11D-A12J-09	TCGA-D1-A163-10A-01D-A12J-09	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001135999.1	+1	validated	p.E1326D	1.000	19	0%	20	35%	2	50%	probably_damaging(0.999)	deleterious(0.05)	deleterious(0.836)	NULL
FRMPD1	22844	genome.wustl.edu	37	9	37746496	37746496	+	Silent	SNP	C	C	T	novel		TCGA-D1-A163-01A-11D-A12J-09	TCGA-D1-A163-10A-01D-A12J-09	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_014907.2	+1	validated	p.A1489	0.002	32	0%	32	34.4%	0	-	-	-	-	NULL
TRPM3	80036	genome.wustl.edu	37	9	73168089	73168089	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-D1-A163-01A-11D-A12J-09	TCGA-D1-A163-10A-01D-A12J-09	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001007471.2	-1	reviewed	p.I1109V	1.000	117	0%	124	37.1%	0	-	probably_damaging(0.999)	deleterious(0)	deleterious(0.935)	HMMPfam_Ion_trans
RASEF	158158	genome.wustl.edu	37	9	85620367	85620367	+	Silent	SNP	G	G	A	novel		TCGA-D1-A163-01A-11D-A12J-09	TCGA-D1-A163-10A-01D-A12J-09	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_152573.2	-1	provisional	p.A359	0.974	639	0%	514	41.2%	10	30%	-	-	-	NULL
ROR2	4920	genome.wustl.edu	37	9	94487153	94487153	+	Silent	SNP	G	G	A	novel		TCGA-D1-A163-01A-11D-A12J-09	TCGA-D1-A163-10A-01D-A12J-09	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_004560.2	-1	reviewed	p.G541	0.029	50	0%	50	50%	15	40%	-	-	-	HMMPfam_Pkinase_Tyr,HMMSmart_TyrKc,superfamily_Kinase_like
NANS	54187	genome.wustl.edu	37	9	100845195	100845195	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-D1-A163-01A-11D-A12J-09	TCGA-D1-A163-10A-01D-A12J-09	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_018946.3	+1	reviewed	p.T313I	1.000	187	0%	151	42.4%	148	45.9%	possibly_damaging(0.716)	deleterious(0.02)	deleterious(0.642)	superfamily_AFP III-like domain (Pfam 01354),HMMPfam_SAF
FKTN	2218	genome.wustl.edu	37	9	108377629	108377629	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-D1-A163-01A-11D-A12J-09	TCGA-D1-A163-10A-01D-A12J-09	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001079802.1	+1	reviewed	p.A284V	1.000	238	0%	230	14.3%	2	50%	possibly_damaging(0.568)	tolerated(0.17)	neutral(0.254)	NULL
ZNF462	58499	genome.wustl.edu	37	9	109685830	109685830	+	Nonsense_Mutation	SNP	G	G	T	novel		TCGA-D1-A163-01A-11D-A12J-09	TCGA-D1-A163-10A-01D-A12J-09	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_021224.4	+1	validated	p.E56*	1.000	395	0.3%	264	42.8%	6	0%	-	-	-	NULL
LRRC37A5P	652972	genome.wustl.edu	37	9	114371458	114371458	+	Silent	SNP	G	G	T	novel		TCGA-D1-A163-01A-11D-A12J-09	TCGA-D1-A163-10A-01D-A12J-09	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	ENST00000374306	-1	known	p.T50	0.398	92	0%	133	37.6%	0	-	-	-	-	NULL
KIF12	113220	genome.wustl.edu	37	9	116854163	116854163	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-D1-A163-01A-11D-A12J-09	TCGA-D1-A163-10A-01D-A12J-09	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_138424.1	-1	provisional	p.G507D	0.001	25	0%	27	25.9%	234	53.8%	benign(0.056)	deleterious(0.04)	neutral(0.352)	NULL
AKNA	80709	genome.wustl.edu	37	9	117124105	117124105	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-D1-A163-01A-11D-A12J-09	TCGA-D1-A163-10A-01D-A12J-09	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_030767.4	-1	validated	p.P668L	0.000	187	0%	160	46.3%	20	25%	benign(0.323)	tolerated(0.08)	neutral(0.401)	NULL
ENSG00000221734	0	genome.wustl.edu	37	9	117554503	117554503	+	RNA	SNP	G	G	A	novel		TCGA-D1-A163-01A-11D-A12J-09	TCGA-D1-A163-10A-01D-A12J-09	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	ENST00000408807	+1	novel	NULL	0.006	128	0%	88	30.7%	0	-	-	-	-	-
ENSG00000221734	0	genome.wustl.edu	37	9	117554504	117554504	+	RNA	SNP	T	T	C	novel		TCGA-D1-A163-01A-11D-A12J-09	TCGA-D1-A163-10A-01D-A12J-09	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	ENST00000408807	+1	novel	NULL	0.007	122	0%	88	30.7%	0	-	-	-	-	-
FBXW2	26190	genome.wustl.edu	37	9	123535119	123535119	+	Splice_Site	SNP	C	C	A	novel		TCGA-D1-A163-01A-11D-A12J-09	TCGA-D1-A163-10A-01D-A12J-09	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_012164.3	-1	reviewed	e4-1	1.000	150	0%	126	31.7%	0	-	-	-	-	-
TRAF1	7185	genome.wustl.edu	37	9	123675774	123675774	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-D1-A163-01A-11D-A12J-09	TCGA-D1-A163-10A-01D-A12J-09	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_005658.3	-1	reviewed	p.Q179H	1.000	26	0%	29	55.2%	4	0%	benign(0)	tolerated(0.18)	neutral(0.056)	NULL
RABGAP1	23637	genome.wustl.edu	37	9	125852567	125852567	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-D1-A163-01A-11D-A12J-09	TCGA-D1-A163-10A-01D-A12J-09	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_012197.3	+1	validated	p.R844H	1.000	92	0%	64	45.3%	39	69.2%	probably_damaging(0.992)	tolerated(0.37)	neutral(0.467)	NULL
GAPVD1	26130	genome.wustl.edu	37	9	128094805	128094805	+	Silent	SNP	T	T	C	novel		TCGA-D1-A163-01A-11D-A12J-09	TCGA-D1-A163-10A-01D-A12J-09	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	ENST00000431329	+1	known	p.L638P	0.996	176	0%	155	47.1%	13	61.5%	-	-	-	NULL
MAMDC4	158056	genome.wustl.edu	37	9	139754440	139754442	+	In_Frame_Del	DEL	AGA	AGA	-	novel		TCGA-D1-A163-01A-11D-A12J-09	TCGA-D1-A163-10A-01D-A12J-09	AGA	AGA					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_206920.2	+1	validated	p.K1101in_frame_del	0.001:0.064:0.062	-	-	-	-	-	-	-	-	-	NULL
TRAF2	7186	genome.wustl.edu	37	9	139818323	139818323	+	Silent	SNP	C	C	T	novel		TCGA-D1-A163-01A-11D-A12J-09	TCGA-D1-A163-10A-01D-A12J-09	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_021138.3	+1	reviewed	p.Y386	0.986	103	0%	79	49.4%	28	42.8%	-	-	-	HMMPfam_MATH,HMMSmart_SM00061,superfamily_TRAF domain-like
SLC34A3	142680	genome.wustl.edu	37	9	140128120	140128121	+	Frame_Shift_Ins	INS	-	-	A	novel		TCGA-D1-A163-01A-11D-A12J-09	TCGA-D1-A163-10A-01D-A12J-09	-	-					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_080877.2	+1	reviewed	p.N264fs	0.905:0.612	-	-	-	-	-	-	-	-	-	NULL
WDR37	22884	genome.wustl.edu	37	10	1130353	1130353	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-D1-A163-01A-11D-A12J-09	TCGA-D1-A163-10A-01D-A12J-09	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_014023.3	+1	reviewed	p.S136N	1.000	103	0%	94	41.5%	13	53.8%	possibly_damaging(0.574)	tolerated(0.08)	deleterious(0.497)	NULL
PRKCQ	5588	genome.wustl.edu	37	10	6506334	6506334	+	Silent	SNP	G	G	A	novel		TCGA-D1-A163-01A-11D-A12J-09	TCGA-D1-A163-10A-01D-A12J-09	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	ENST00000397178	-1	known	p.T235M	0.993	235	0.4%	211	33.2%	12	33.3%	-	-	-	HMMSmart_SM00219,HMMSmart_SM00220,superfamily_Protein kinase-like (PK-like),HMMPfam_Pkinase
WAC	51322	genome.wustl.edu	37	10	28879705	28879705	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-D1-A163-01A-11D-A12J-09	TCGA-D1-A163-10A-01D-A12J-09	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_016628.3	+1	reviewed	p.R185M	1.000	226	0.4%	182	39.6%	65	55.3%	probably_damaging(0.991)	deleterious(0)	deleterious(0.889)	NULL
SVIL	6840	genome.wustl.edu	37	10	29769617	29769617	+	Silent	SNP	G	G	A	novel		TCGA-D1-A163-01A-11D-A12J-09	TCGA-D1-A163-10A-01D-A12J-09	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_021738.2	-1	reviewed	p.H1742	0.051	117	0%	88	27.3%	84	44%	-	-	-	superfamily_Actin depolymerizing proteins
MTPAP	55149	genome.wustl.edu	37	10	30654224	30654224	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-D1-A163-01A-11D-A12J-09	TCGA-D1-A163-10A-01D-A12J-09	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	ENST00000358107	-1	known	p.Q13H	0.108	34	0%	34	35.3%	0	-	unknown(0)	-	-	NULL
ZNF438	220929	genome.wustl.edu	37	10	31139123	31139123	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-D1-A163-01A-11D-A12J-09	TCGA-D1-A163-10A-01D-A12J-09	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001143766.1	-1	validated	p.K71E	0.995	278	0%	279	40.1%	2	0%	probably_damaging(0.995)	deleterious(0.01)	deleterious(0.863)	NULL
PARD3	56288	genome.wustl.edu	37	10	34400387	34400387	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-D1-A163-01A-11D-A12J-09	TCGA-D1-A163-10A-01D-A12J-09	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_019619.3	-1	validated	p.S1261G	1.000	122	0%	96	34.4%	43	44.1%	probably_damaging(0.988)	tolerated(0.56)	neutral(0.444)	NULL
ZNF248	57209	genome.wustl.edu	37	10	38121477	38121477	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-D1-A163-01A-11D-A12J-09	TCGA-D1-A163-10A-01D-A12J-09	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_021045.1	-1	provisional	p.P269L	0.969	158	0%	138	44.9%	1	100%	benign(0.008)	tolerated(0.45)	neutral(0.012)	superfamily_C2H2 and C2HC zinc fingers
RBP3	5949	genome.wustl.edu	37	10	48383988	48383988	+	Splice_Site	SNP	T	T	C	novel		TCGA-D1-A163-01A-11D-A12J-09	TCGA-D1-A163-10A-01D-A12J-09	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_002900.2	-1	reviewed	e3-2	1.000	224	0%	173	38.7%	0	-	-	-	-	-
ANK3	288	genome.wustl.edu	37	10	61830642	61830642	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-D1-A163-01A-11D-A12J-09	TCGA-D1-A163-10A-01D-A12J-09	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_020987.2	-1	reviewed	p.T3333A	1.000	284	0%	265	21.9%	0	-	possibly_damaging(0.753)	-	-	NULL
DNAJB12	54788	genome.wustl.edu	37	10	74095665	74095665	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-D1-A163-01A-11D-A12J-09	TCGA-D1-A163-10A-01D-A12J-09	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001002762.2	-1	validated	p.R378H	1.000	187	0%	151	45.7%	80	43.7%	probably_damaging(1)	deleterious(0.01)	deleterious(0.905)	HMMPfam_DUF1977
SEC24C	9632	genome.wustl.edu	37	10	75520137	75520137	+	Silent	SNP	A	A	G	novel		TCGA-D1-A163-01A-11D-A12J-09	TCGA-D1-A163-10A-01D-A12J-09	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_004922.2	+1	reviewed	p.Q281	0.935	76	0%	67	34.3%	28	25%	-	-	-	superfamily_beta-sandwich domain of Sec23/24
GRID1	2894	genome.wustl.edu	37	10	87407132	87407133	+	Frame_Shift_Ins	INS	-	-	T	novel		TCGA-D1-A163-01A-11D-A12J-09	TCGA-D1-A163-10A-01D-A12J-09	-	-					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_017551.2	-1	reviewed	p.Q673fs	1.000:0.995	-	-	-	-	-	-	-	-	-	HMMPfam_Lig_chan,HMMSmart_SM00079,superfamily_Periplasmic binding protein-like II
CYP2C9	1559	genome.wustl.edu	37	10	96701613	96701613	+	Splice_Site	SNP	A	A	T	novel		TCGA-D1-A163-01A-11D-A12J-09	TCGA-D1-A163-10A-01D-A12J-09	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_000771.3	+1	reviewed	e2-2	0.990	635	0%	926	25.5%	0	-	-	-	-	-
SLIT1	6585	genome.wustl.edu	37	10	98808782	98808782	+	Silent	SNP	G	G	A	novel		TCGA-D1-A163-01A-11D-A12J-09	TCGA-D1-A163-10A-01D-A12J-09	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_003061.2	-1	validated	p.R465	1.000	50	0%	57	38.6%	1	0%	-	-	-	HMMPfam_LRRCT,HMMSmart_SM00082,superfamily_L domain-like
CNNM1	26507	genome.wustl.edu	37	10	101147593	101147593	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-D1-A163-01A-11D-A12J-09	TCGA-D1-A163-10A-01D-A12J-09	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_020348.2	+1	validated	p.Y786C	1.000	71	0%	56	32.1%	0	-	probably_damaging(1)	deleterious(0)	deleterious(0.945)	NULL
SEC31B	25956	genome.wustl.edu	37	10	102249071	102249071	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-D1-A163-01A-11D-A12J-09	TCGA-D1-A163-10A-01D-A12J-09	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_015490.3	-1	reviewed	p.Q1037K	0.031	361	0%	311	36.7%	2	50%	benign(0.05)	tolerated(0.7)	neutral(0.005)	NULL
SLK	9748	genome.wustl.edu	37	10	105770628	105770628	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-D1-A163-01A-11D-A12J-09	TCGA-D1-A163-10A-01D-A12J-09	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_014720.2	+1	provisional	p.R947C	1.000	206	0.5%	182	28.6%	20	65%	probably_damaging(1)	tolerated(0.07)	deleterious(0.819)	superfamily_Protein kinase-like (PK-like)
MKI67	4288	genome.wustl.edu	37	10	129906123	129906123	+	Silent	SNP	G	G	A	novel		TCGA-D1-A163-01A-11D-A12J-09	TCGA-D1-A163-10A-01D-A12J-09	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_002417.4	-1	reviewed	p.T1327	0.000	414	0%	399	38.1%	14	57.1%	-	-	-	HMMPfam_K167R
B4GALNT4	338707	genome.wustl.edu	37	11	375742	375742	+	Silent	SNP	G	G	A	novel		TCGA-D1-A163-01A-11D-A12J-09	TCGA-D1-A163-10A-01D-A12J-09	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_178537.4	+1	validated	p.L318	1.000	32	0%	24	29.2%	3	0%	-	-	-	NULL
C11orf42	160298	genome.wustl.edu	37	11	6231294	6231294	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-D1-A163-01A-11D-A12J-09	TCGA-D1-A163-10A-01D-A12J-09	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_173525.2	+1	validated	p.C96Y	1.000	104	0%	82	40.2%	0	-	possibly_damaging(0.681)	deleterious(0)	deleterious(0.688)	NULL
OR10A3	26496	genome.wustl.edu	37	11	7960486	7960486	+	Silent	SNP	T	T	C	novel		TCGA-D1-A163-01A-11D-A12J-09	TCGA-D1-A163-10A-01D-A12J-09	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001003745.1	-1	provisional	p.L194	0.003	154	0%	166	46.4%	0	-	-	-	-	HMMPfam_7tm_1,superfamily_Family A G protein-coupled receptor-like
CYP2R1	120227	genome.wustl.edu	37	11	14901869	14901869	+	Silent	SNP	C	C	T	novel		TCGA-D1-A163-01A-11D-A12J-09	TCGA-D1-A163-10A-01D-A12J-09	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_024514.4	-1	reviewed	p.Q271	0.974	180	0%	158	31.6%	4	100%	-	-	-	HMMPfam_p450,superfamily_Cytochrome_P450
C11orf41	25758	genome.wustl.edu	37	11	33667382	33667382	+	Silent	SNP	C	C	T	novel		TCGA-D1-A163-01A-11D-A12J-09	TCGA-D1-A163-10A-01D-A12J-09	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_012194.1	+1	validated	p.L1563	1.000	32	0%	33	51.5%	0	-	-	-	-	NULL
C11orf55	399879	genome.wustl.edu	37	11	36293214	36293214	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-D1-A163-01A-11D-A12J-09	TCGA-D1-A163-10A-01D-A12J-09	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	ENST00000355500	-1	known	p.T48M	0.000	323	0.3%	243	36.6%	0	-	probably_damaging(0.953)	-	-	NULL
ACCS	84680	genome.wustl.edu	37	11	44089260	44089260	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-D1-A163-01A-11D-A12J-09	TCGA-D1-A163-10A-01D-A12J-09	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001127219.1	+1	validated	p.H28R	0.000	151	0%	122	23%	1	100%	benign(0.011)	tolerated(0.57)	neutral(0.007)	NULL
MYBPC3	4607	genome.wustl.edu	37	11	47357476	47357476	+	Nonsense_Mutation	SNP	C	C	A	novel		TCGA-D1-A163-01A-11D-A12J-09	TCGA-D1-A163-10A-01D-A12J-09	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_000256.3	-1	reviewed	p.G897*	1.000	24	0%	21	33.3%	0	-	-	-	-	HMMPfam_fn3,HMMSmart_FN3,superfamily_FN_III-like
OR4C46	119749	genome.wustl.edu	37	11	51516153	51516153	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-D1-A163-01A-11D-A12J-09	TCGA-D1-A163-10A-01D-A12J-09	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001004703.1	+1	provisional	p.Q291R	0.171	155	0%	136	40.4%	0	-	possibly_damaging(0.736)	deleterious(0)	deleterious(0.714)	superfamily_SSF81321
TRIM48	79097	genome.wustl.edu	37	11	55032643	55032643	+	Silent	SNP	T	T	C	novel		TCGA-D1-A163-01A-11D-A12J-09	TCGA-D1-A163-10A-01D-A12J-09	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_024114.3	+1	validated	p.S104	0.813	496	0%	507	46.4%	0	-	-	-	-	HMMPfam_zf-B_box,HMMSmart_SM00336,superfamily_RING/U-box
OR5AS1	219447	genome.wustl.edu	37	11	55798648	55798648	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-D1-A163-01A-11D-A12J-09	TCGA-D1-A163-10A-01D-A12J-09	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001001921.1	+1	provisional	p.Y252H	1.000	127	0%	104	42.3%	0	-	probably_damaging(0.998)	tolerated(0.18)	deleterious(0.530)	HMMPfam_7tm_1,superfamily_SSF81321
VWCE	220001	genome.wustl.edu	37	11	61048609	61048609	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-D1-A163-01A-11D-A12J-09	TCGA-D1-A163-10A-01D-A12J-09	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_152718.2	-1	validated	p.L296M	0.999	88	0%	64	29.7%	1	100%	probably_damaging(0.995)	deleterious(0)	deleterious(0.902)	NULL
AHNAK	79026	genome.wustl.edu	37	11	62287071	62287071	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-D1-A163-01A-11D-A12J-09	TCGA-D1-A163-10A-01D-A12J-09	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001620.1	-1	validated	p.G4940S	0.996	75	0%	72	20.8%	119	15.1%	possibly_damaging(0.862)	tolerated(0.6)	neutral(0.338)	NULL
RASGRP2	10235	genome.wustl.edu	37	11	64497246	64497246	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-D1-A163-01A-11D-A12J-09	TCGA-D1-A163-10A-01D-A12J-09	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001098670.1	-1	reviewed	p.L527I	1.000	204	0%	177	41.2%	4	0%	possibly_damaging(0.706)	deleterious(0.01)	deleterious(0.659)	HMMPfam_C1_1,HMMSmart_SM00109,PatternScan_ZF_DAG_PE_1,superfamily_Cysteine-rich domain
ATG2A	23130	genome.wustl.edu	37	11	64680848	64680848	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-D1-A163-01A-11D-A12J-09	TCGA-D1-A163-10A-01D-A12J-09	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_015104.2	-1	validated	p.R206W	1.000	20	0%	16	25%	13	46.1%	probably_damaging(1)	deleterious(0.01)	deleterious(0.905)	NULL
POLA2	23649	genome.wustl.edu	37	11	65048544	65048544	+	Silent	SNP	C	C	A	novel		TCGA-D1-A163-01A-11D-A12J-09	TCGA-D1-A163-10A-01D-A12J-09	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_002689.2	+1	provisional	p.R276	0.993	265	0%	256	43.8%	23	39.1%	-	-	-	NULL
TIGD3	220359	genome.wustl.edu	37	11	65124504	65124504	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-D1-A163-01A-11D-A12J-09	TCGA-D1-A163-10A-01D-A12J-09	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_145719.2	+1	reviewed	p.K409E	0.995	182	0%	117	39.3%	1	0%	benign(0.388)	tolerated(0.42)	neutral(0.138)	NULL
PCNXL3	399909	genome.wustl.edu	37	11	65384320	65384320	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-D1-A163-01A-11D-A12J-09	TCGA-D1-A163-10A-01D-A12J-09	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_032223.2	+1	validated	p.A60V	0.995	125	0%	93	39.8%	22	31.8%	benign(0.355)	tolerated(1)	neutral(0.113)	NULL
PCNXL3	399909	genome.wustl.edu	37	11	65389747	65389747	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-D1-A163-01A-11D-A12J-09	TCGA-D1-A163-10A-01D-A12J-09	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_032223.2	+1	validated	p.R756L	0.905	44	0%	39	10.3%	31	3.2%	possibly_damaging(0.581)	tolerated(0.06)	deleterious(0.522)	NULL
CD248	57124	genome.wustl.edu	37	11	66083530	66083530	+	Silent	SNP	C	C	T	novel		TCGA-D1-A163-01A-11D-A12J-09	TCGA-D1-A163-10A-01D-A12J-09	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_020404.2	-1	validated	p.Q323	1.000	41	0%	25	20%	46	0%	-	-	-	HMMSmart_SM00179,HMMSmart_SM00181,HMMPfam_EGF_CA,PatternScan_EGF_CA,superfamily_EGF/Laminin
PLEKHB1	58473	genome.wustl.edu	37	11	73371816	73371816	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-D1-A163-01A-11D-A12J-09	TCGA-D1-A163-10A-01D-A12J-09	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_021200.2	+1	validated	p.Y172H	0.990	77	0%	53	30.2%	21	47.6%	benign(0.203)	tolerated(0.15)	neutral(0.261)	NULL
MYO7A	4647	genome.wustl.edu	37	11	76890854	76890854	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-D1-A163-01A-11D-A12J-09	TCGA-D1-A163-10A-01D-A12J-09	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_000260.3	+1	reviewed	p.R814H	1.000	4	0.000	6	0.667	2	0%	probably_damaging(1)	deleterious(0)	deleterious(0.945)	HMMPfam_IQ,HMMSmart_SM00015,superfamily_P-loop containing nucleoside triphosphate hydrolases
TRIM77P	390231	genome.wustl.edu	37	11	89450714	89450714	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-D1-A163-01A-11D-A12J-09	TCGA-D1-A163-10A-01D-A12J-09	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	XM_002343107.1	+1	model	p.W343R	0.162	340	0%	329	38%	0	-	-	-	-	HMMPfam_SPRY
GUCY1A2	2977	genome.wustl.edu	37	11	106647223	106647223	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-D1-A163-01A-11D-A12J-09	TCGA-D1-A163-10A-01D-A12J-09	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_000855.1	-1	validated	p.A593V	1.000	155	0%	140	45%	4	0%	benign(0.389)	deleterious(0)	deleterious(0.569)	HMMPfam_Guanylate_cyc,HMMSmart_SM00044,superfamily_Adenylyl and guanylyl cyclase catalytic domain
HYOU1	10525	genome.wustl.edu	37	11	118920287	118920287	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-D1-A163-01A-11D-A12J-09	TCGA-D1-A163-10A-01D-A12J-09	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001130991.1	-1	reviewed	p.N596S	1.000	199	0%	171	36.3%	121	38.8%	possibly_damaging(0.793)	tolerated(0.29)	neutral(0.327)	NULL
CBL	867	genome.wustl.edu	37	11	119149279	119149279	+	Silent	SNP	C	C	T	novel		TCGA-D1-A163-01A-11D-A12J-09	TCGA-D1-A163-10A-01D-A12J-09	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_005188.2	+1	reviewed	p.I429	0.723	227	0%	218	41.7%	3	33.3%	-	-	-	superfamily_SSF57850
VWA5A	4013	genome.wustl.edu	37	11	123993796	123993796	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-D1-A163-01A-11D-A12J-09	TCGA-D1-A163-10A-01D-A12J-09	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001130142.1	+1	validated	p.S297N	0.002	162	0%	117	23.1%	9	33.3%	benign(0)	tolerated(0.48)	neutral(0.011)	HMMPfam_VWA,HMMSmart_SM00327,superfamily_vWA-like
RPUSD4	84881	genome.wustl.edu	37	11	126079498	126079498	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-D1-A163-01A-11D-A12J-09	TCGA-D1-A163-10A-01D-A12J-09	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_032795.2	-1	validated	p.V159I	0.961	101	0%	113	42.5%	19	0%	possibly_damaging(0.67)	tolerated(0.17)	neutral(0.296)	HMMPfam_PseudoU_synth_2,PatternScan_PSI_RLU,superfamily_PsdUridine_synth_cat_dom
KIRREL3	84623	genome.wustl.edu	37	11	126301254	126301254	+	Silent	SNP	G	G	A	novel		TCGA-D1-A163-01A-11D-A12J-09	TCGA-D1-A163-10A-01D-A12J-09	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	ENST00000416561	-1	known	p.L545	0.991	152	0%	146	34.9%	0	-	-	-	-	NULL
NFRKB	4798	genome.wustl.edu	37	11	129744049	129744049	+	Silent	SNP	G	G	A	novel		TCGA-D1-A163-01A-11D-A12J-09	TCGA-D1-A163-10A-01D-A12J-09	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_006165.3	-1	validated	p.S771	0.383	445	0%	401	40.1%	29	41.3%	-	-	-	NULL
NTM	50863	genome.wustl.edu	37	11	132016320	132016320	+	Silent	SNP	C	C	T	novel		TCGA-D1-A163-01A-11D-A12J-09	TCGA-D1-A163-10A-01D-A12J-09	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001144058.1	+1	reviewed	p.N104	0.012	163	0%	133	41.4%	3	0%	-	-	-	HMMSmart_IG,HMMPfam_I-set,superfamily_SSF48726
KDM5A	5927	genome.wustl.edu	37	12	432894	432894	+	Silent	SNP	C	C	T	novel		TCGA-D1-A163-01A-11D-A12J-09	TCGA-D1-A163-10A-01D-A12J-09	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001042603.1	-1	reviewed	p.R674	0.899	201	0%	152	41.4%	17	35.2%	-	-	-	NULL
WNT5B	81029	genome.wustl.edu	37	12	1748946	1748946	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-D1-A163-01A-11D-A12J-09	TCGA-D1-A163-10A-01D-A12J-09	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_030775.2	+1	reviewed	p.G142D	1.000	37	0%	27	55.6%	1	0%	probably_damaging(1)	deleterious(0.01)	deleterious(0.905)	HMMPfam_wnt,HMMSmart_SM00097
NCAPD2	9918	genome.wustl.edu	37	12	6638150	6638150	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-D1-A163-01A-11D-A12J-09	TCGA-D1-A163-10A-01D-A12J-09	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_014865.3	+1	validated	p.R1173C	1.000	132	0%	141	44.7%	90	50%	probably_damaging(1)	deleterious(0)	deleterious(0.945)	superfamily_ARM repeat
ATN1	1822	genome.wustl.edu	37	12	7050099	7050099	+	Silent	SNP	C	C	A	novel		TCGA-D1-A163-01A-11D-A12J-09	TCGA-D1-A163-10A-01D-A12J-09	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001007026.1	+1	reviewed	p.R1091	0.998	335	0%	317	23.3%	391	12.2%	-	-	-	HMMPfam_Atrophin-1
PHB2	11331	genome.wustl.edu	37	12	7077108	7077108	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-D1-A163-01A-11D-A12J-09	TCGA-D1-A163-10A-01D-A12J-09	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001144831.1	-1	validated	p.T185I	1.000	104	0%	114	45.6%	419	43.9%	probably_damaging(1)	deleterious(0.03)	deleterious(0.865)	HMMPfam_Band_7,HMMSmart_SM00244
CD69	969	genome.wustl.edu	37	12	9907414	9907414	+	RNA	SNP	A	A	G	novel		TCGA-D1-A163-01A-11D-A12J-09	TCGA-D1-A163-10A-01D-A12J-09	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NR_026672.1	-1	reviewed	NULL	0.000	49	0%	55	45.5%	3	0%	-	-	-	-
BCAT1	586	genome.wustl.edu	37	12	24989523	24989525	+	In_Frame_Del	DEL	TTC	TTC	-	novel		TCGA-D1-A163-01A-11D-A12J-09	TCGA-D1-A163-10A-01D-A12J-09	TTC	TTC					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_005504.6	-1	reviewed	p.E275in_frame_del	1.000:1.000:1.000	-	-	-	-	-	-	-	-	-	HMMPfam_Aminotran_4,superfamily_Aminotrans_IV,PatternScan_AA_TRANSFER_CLASS_4
KRAS	3845	genome.wustl.edu	37	12	25398284	25398284	+	Missense_Mutation	SNP	C	C	T	rs121913529	byCluster	TCGA-D1-A163-01A-11D-A12J-09	TCGA-D1-A163-10A-01D-A12J-09	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_033360.2	-1	reviewed	p.G12D	1.000	280	0%	247	40.1%	20	40%	possibly_damaging(0.886)	deleterious(0)	deleterious(0.791)	HMMSmart_SM00176,HMMSmart_SM00173,HMMSmart_SM00174,HMMSmart_SM00175,HMMPfam_Ras,superfamily_P-loop containing nucleoside triphosphate hydrolases
ASUN	55726	genome.wustl.edu	37	12	27064230	27064230	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-D1-A163-01A-11D-A12J-09	TCGA-D1-A163-10A-01D-A12J-09	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_018164.2	-1	validated	p.R609H	1.000	389	0%	393	38.2%	12	41.6%	possibly_damaging(0.782)	tolerated(0.16)	neutral(0.352)	HMMPfam_DUF2151
PKP2	5318	genome.wustl.edu	37	12	32994140	32994140	+	Splice_Site	SNP	C	C	A	novel		TCGA-D1-A163-01A-11D-A12J-09	TCGA-D1-A163-10A-01D-A12J-09	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_004572.3	-1	reviewed	e7-1	1.000	157	0%	152	22.4%	0	-	-	-	-	-
PRICKLE1	144165	genome.wustl.edu	37	12	42864067	42864067	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-D1-A163-01A-11D-A12J-09	TCGA-D1-A163-10A-01D-A12J-09	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001144881.1	-1	reviewed	p.L76S	1.000	298	0.3%	285	39.3%	5	40%	probably_damaging(0.998)	deleterious(0)	deleterious(0.919)	HMMPfam_PET
ADAMTS20	80070	genome.wustl.edu	37	12	43896021	43896021	+	Silent	SNP	A	A	G	novel		TCGA-D1-A163-01A-11D-A12J-09	TCGA-D1-A163-10A-01D-A12J-09	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_025003.3	-1	validated	p.A267	0.995	418	0.2%	393	37.2%	0	-	-	-	-	"HMMPfam_Reprolysin,superfamily_Metalloproteases (""zincins"") catalytic domain"
AMIGO2	347902	genome.wustl.edu	37	12	47471515	47471515	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-D1-A163-01A-11D-A12J-09	TCGA-D1-A163-10A-01D-A12J-09	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001143668.1	-1	validated	p.C424Y	1.000	381	0%	328	43%	117	63.2%	probably_damaging(1)	deleterious(0)	deleterious(0.945)	NULL
SLC48A1	55652	genome.wustl.edu	37	12	48174341	48174354	+	Frame_Shift_Del	DEL	TTTTTTTTTTCTTT	TTTTTTTTTTCTTT	-	novel		TCGA-D1-A163-01A-11D-A12J-09	TCGA-D1-A163-10A-01D-A12J-09	TTTTTTTTTTCTTT	TTTTTTTTTTCTTT					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	ENST00000390229	+1	known	p.L115fs	0.004:0.005:0.007:0.007:0.005:0.014:0.017:0.025:0.047:0.058:0.079:0.285:0.397:0.459	-	-	-	-	-	-	-	-	-	NULL
SLC48A1	55652	genome.wustl.edu	37	12	48174341	48174355	+	In_Frame_Del	DEL	TTTTTTTTTTCTTTT	TTTTTTTTTTCTTTT	-	novel		TCGA-D1-A163-01A-11D-A12J-09	TCGA-D1-A163-10A-01D-A12J-09	TTTTTTTTTTCTTTT	TTTTTTTTTTCTTTT					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	ENST00000390229	+1	known	p.LFFFF115in_frame_del	0.004:0.005:0.007:0.007:0.005:0.014:0.017:0.025:0.047:0.058:0.079:0.285:0.397:0.459:0.491	-	-	-	-	-	-	-	-	-	NULL
PRKAG1	5571	genome.wustl.edu	37	12	49398773	49398773	+	Silent	SNP	C	C	T	novel		TCGA-D1-A163-01A-11D-A12J-09	TCGA-D1-A163-10A-01D-A12J-09	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_002733.3	-1	reviewed	p.P128	0.898	164	0.6%	167	15.6%	60	21.6%	-	-	-	HMMPfam_CBS,HMMSmart_CBS,superfamily_SSF54631
FMNL3	91010	genome.wustl.edu	37	12	50045965	50045965	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-D1-A163-01A-11D-A12J-09	TCGA-D1-A163-10A-01D-A12J-09	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_175736.4	-1	validated	p.H452Y	0.999	28	0%	25	36%	16	31.2%	possibly_damaging(0.903)	tolerated(0.14)	deleterious(0.607)	HMMPfam_Drf_FH3
DIP2B	57609	genome.wustl.edu	37	12	51102337	51102337	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-D1-A163-01A-11D-A12J-09	TCGA-D1-A163-10A-01D-A12J-09	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_173602.2	+1	validated	p.V881M	1.000	353	0%	307	43.6%	13	46.1%	probably_damaging(1)	deleterious(0)	deleterious(0.945)	superfamily_Acetyl-CoA synthetase-like
KRT6B	3854	genome.wustl.edu	37	12	52841743	52841743	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-D1-A163-01A-11D-A12J-09	TCGA-D1-A163-10A-01D-A12J-09	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_005555.3	-1	reviewed	p.R415C	1.000	220	0%	196	42.3%	4	0%	probably_damaging(1)	deleterious(0)	deleterious(0.945)	HMMPfam_Filament
PCBP2	5094	genome.wustl.edu	37	12	53849679	53849679	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-D1-A163-01A-11D-A12J-09	TCGA-D1-A163-10A-01D-A12J-09	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_005016.5	+1	reviewed	p.R46H	1.000	273	0%	208	40.4%	690	41.4%	benign(0.005)	tolerated(0.09)	neutral(0.296)	HMMSmart_KH,HMMPfam_KH_1,superfamily_SSF54791
RNF41	10193	genome.wustl.edu	37	12	56600559	56600559	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-D1-A163-01A-11D-A12J-09	TCGA-D1-A163-10A-01D-A12J-09	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_005785.2	-1	reviewed	p.A209V	1.000	117	0%	89	44.9%	48	47.9%	probably_damaging(1)	deleterious(0)	deleterious(0.945)	HMMPfam_USP8_interact
RNF41	10193	genome.wustl.edu	37	12	56601953	56601953	+	Silent	SNP	C	C	A	novel		TCGA-D1-A163-01A-11D-A12J-09	TCGA-D1-A163-10A-01D-A12J-09	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_005785.2	-1	reviewed	p.A164	0.030	156	0%	150	42.7%	75	52%	-	-	-	HMMPfam_USP8_interact
BAZ2A	11176	genome.wustl.edu	37	12	56997467	56997467	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-D1-A163-01A-11D-A12J-09	TCGA-D1-A163-10A-01D-A12J-09	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_013449.3	-1	validated	p.A1021V	0.999	161	0%	134	32.8%	29	41.3%	probably_damaging(0.979)	deleterious(0.02)	deleterious(0.805)	NULL
TPH2	121278	genome.wustl.edu	37	12	72425414	72425414	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-D1-A163-01A-11D-A12J-09	TCGA-D1-A163-10A-01D-A12J-09	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_173353.3	+1	reviewed	p.R471H	1.000	346	0%	273	44.3%	0	-	probably_damaging(0.991)	tolerated(0.06)	deleterious(0.766)	HMMPfam_Biopterin_H,superfamily_Aaa_hydroxylase
CDK17	5128	genome.wustl.edu	37	12	96688813	96688813	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-D1-A163-01A-11D-A12J-09	TCGA-D1-A163-10A-01D-A12J-09	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_002595.3	-1	reviewed	p.I321V	1.000	513	0%	460	46.3%	8	25%	possibly_damaging(0.744)	deleterious(0.01)	deleterious(0.679)	HMMSmart_SM00219,HMMSmart_SM00220,PatternScan_PROTEIN_KINASE_ST,superfamily_Protein kinase-like (PK-like),HMMPfam_Pkinase
ANO4	121601	genome.wustl.edu	37	12	101413867	101413867	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-D1-A163-01A-11D-A12J-09	TCGA-D1-A163-10A-01D-A12J-09	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_178826.3	+1	validated	p.V229M	1.000	252	0.4%	184	35.9%	0	-	probably_damaging(0.999)	deleterious(0)	deleterious(0.935)	NULL
FICD	11153	genome.wustl.edu	37	12	108910879	108910879	+	Silent	SNP	C	C	T	novel		TCGA-D1-A163-01A-11D-A12J-09	TCGA-D1-A163-10A-01D-A12J-09	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_007076.2	+1	validated	p.L44	0.998	68	0%	43	39.5%	4	25%	-	-	-	NULL
SART3	9733	genome.wustl.edu	37	12	108923966	108923966	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-D1-A163-01A-11D-A12J-09	TCGA-D1-A163-10A-01D-A12J-09	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_014706.3	-1	reviewed	p.R623H	0.402	602	0%	636	42.6%	32	37.5%	probably_damaging(0.997)	deleterious(0.04)	deleterious(0.815)	NULL
MYL2	4633	genome.wustl.edu	37	12	111348947	111348947	+	Silent	SNP	G	G	A	novel		TCGA-D1-A163-01A-11D-A12J-09	TCGA-D1-A163-10A-01D-A12J-09	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_000432.3	-1	reviewed	p.D145	0.808	136	0%	115	31.3%	0	-	-	-	-	HMMSmart_SM00054,superfamily_EF-hand
RBM19	9904	genome.wustl.edu	37	12	114380164	114380164	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-D1-A163-01A-11D-A12J-09	TCGA-D1-A163-10A-01D-A12J-09	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_016196.3	-1	reviewed	p.I568V	0.001	47	0%	32	40.6%	17	47%	benign(0)	tolerated(1)	-	NULL
RNF10	9921	genome.wustl.edu	37	12	120995114	120995114	+	Silent	SNP	C	C	T	novel		TCGA-D1-A163-01A-11D-A12J-09	TCGA-D1-A163-10A-01D-A12J-09	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_014868.4	+1	reviewed	p.C225	1.000	262	0%	226	42.5%	210	40.4%	-	-	-	HMMSmart_SM00184,HMMPfam_zf-C3HC4,superfamily_RING/U-box
CABP1	9478	genome.wustl.edu	37	12	121093634	121093635	+	Frame_Shift_Del	DEL	GT	GT	-	novel		TCGA-D1-A163-01A-11D-A12J-09	TCGA-D1-A163-10A-01D-A12J-09	GT	GT					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	ENST00000453000	+1	known	p.V11fs	0.991:0.982	-	-	-	-	-	-	-	-	-	NULL
KNTC1	9735	genome.wustl.edu	37	12	123055607	123055607	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-D1-A163-01A-11D-A12J-09	TCGA-D1-A163-10A-01D-A12J-09	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_014708.4	+1	reviewed	p.E651D	0.997	238	0%	247	39.3%	2	100%	unknown(0)	tolerated(0.29)	-	NULL
DNAH10	196385	genome.wustl.edu	37	12	124416371	124416371	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-D1-A163-01A-11D-A12J-09	TCGA-D1-A163-10A-01D-A12J-09	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_207437.3	+1	validated	p.K4251E	0.005	148	0%	122	23%	11	0%	benign(0.001)	tolerated(0.84)	neutral(0.001)	HMMPfam_Dynein_heavy
NCOR2	9612	genome.wustl.edu	37	12	124971112	124971112	+	Silent	SNP	G	G	A	novel		TCGA-D1-A163-01A-11D-A12J-09	TCGA-D1-A163-10A-01D-A12J-09	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_006312.3	-1	validated	p.D36	0.988	95	0%	67	47.8%	79	40.5%	-	-	-	NULL
STX2	2054	genome.wustl.edu	37	12	131286011	131286011	+	Silent	SNP	G	G	A	novel		TCGA-D1-A163-01A-11D-A12J-09	TCGA-D1-A163-10A-01D-A12J-09	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_194356.1	-1	reviewed	p.D162	0.240	88	0%	75	18.7%	4	0%	-	-	-	superfamily_t-snare proteins
SFSWAP	6433	genome.wustl.edu	37	12	132237815	132237815	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-D1-A163-01A-11D-A12J-09	TCGA-D1-A163-10A-01D-A12J-09	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_004592.2	+1	reviewed	p.T410I	0.101	190	0%	160	12.5%	48	22.9%	benign(0.042)	tolerated(0.33)	neutral(0.026)	NULL
ANKLE2	23141	genome.wustl.edu	37	12	133303955	133303955	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-D1-A163-01A-11D-A12J-09	TCGA-D1-A163-10A-01D-A12J-09	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_015114.1	-1	validated	p.P897L	0.622	76	0%	70	27.1%	72	48.6%	probably_damaging(1)	deleterious(0.01)	deleterious(0.905)	NULL
MIPEP	4285	genome.wustl.edu	37	13	24413829	24413829	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-D1-A163-01A-11D-A12J-09	TCGA-D1-A163-10A-01D-A12J-09	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_005932.2	-1	reviewed	p.I433V	1.000	262	0%	189	43.9%	23	65.2%	probably_damaging(0.995)	tolerated(0.18)	deleterious(0.514)	HMMPfam_Peptidase_M3,superfamily_SSF55486
NBEA	26960	genome.wustl.edu	37	13	35751179	35751179	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-D1-A163-01A-11D-A12J-09	TCGA-D1-A163-10A-01D-A12J-09	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_015678.4	+1	validated	p.P1534L	0.998	471	0.2%	433	44.8%	0	-	benign(0.006)	tolerated(1)	-	superfamily_ARM repeat
WDFY2	115825	genome.wustl.edu	37	13	52333897	52333897	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-D1-A163-01A-11D-A12J-09	TCGA-D1-A163-10A-01D-A12J-09	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_052950.3	+1	reviewed	p.V399M	0.998	117	0%	84	28.6%	19	21%	possibly_damaging(0.441)	deleterious(0.02)	deleterious(0.527)	NULL
HS6ST3	266722	genome.wustl.edu	37	13	97485291	97485291	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-D1-A163-01A-11D-A12J-09	TCGA-D1-A163-10A-01D-A12J-09	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_153456.2	+1	validated	p.Y419H	1.000	125	0%	113	13.3%	0	-	probably_damaging(0.995)	deleterious(0)	deleterious(0.902)	HMMPfam_HS6ST
FARP1	10160	genome.wustl.edu	37	13	99083369	99083369	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-D1-A163-01A-11D-A12J-09	TCGA-D1-A163-10A-01D-A12J-09	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_005766.2	+1	reviewed	p.R660W	0.998	64	0%	48	50%	49	38.7%	probably_damaging(0.997)	deleterious(0)	deleterious(0.911)	HMMPfam_RhoGEF,HMMSmart_SM00325,superfamily_DBL homology domain (DH-domain)
FARP1	10160	genome.wustl.edu	37	13	99098439	99098441	+	In_Frame_Del	DEL	TTC	TTC	-	novel		TCGA-D1-A163-01A-11D-A12J-09	TCGA-D1-A163-10A-01D-A12J-09	TTC	TTC					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_005766.2	+1	reviewed	p.F963in_frame_del	1.000:1.000:1.000	-	-	-	-	-	-	-	-	-	HMMPfam_PH,HMMSmart_SM00233,superfamily_PH domain-like
F10	2159	genome.wustl.edu	37	13	113803392	113803392	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-D1-A163-01A-11D-A12J-09	TCGA-D1-A163-10A-01D-A12J-09	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_000504.3	+1	reviewed	p.L343P	0.998	50	0%	28	21.4%	2	0%	probably_damaging(1)	deleterious(0)	deleterious(0.945)	HMMPfam_Trypsin,HMMSmart_SM00020,superfamily_Trypsin-like serine proteases
GRTP1	79774	genome.wustl.edu	37	13	114009782	114009782	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-D1-A163-01A-11D-A12J-09	TCGA-D1-A163-10A-01D-A12J-09	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_024719.2	-1	validated	p.R66W	1.000	56	0%	40	37.5%	13	53.8%	probably_damaging(1)	deleterious(0)	deleterious(0.945)	HMMPfam_TBC,HMMSmart_SM00164,superfamily_Ypt/Rab-GAP domain of gyp1p
ARHGEF40	55701	genome.wustl.edu	37	14	21557023	21557023	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-D1-A163-01A-11D-A12J-09	TCGA-D1-A163-10A-01D-A12J-09	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_018071.3	+1	validated	p.P1518H	1.000	265	0%	227	38.8%	21	23.8%	probably_damaging(0.999)	deleterious(0)	deleterious(0.935)	NULL
C14orf176	643382	genome.wustl.edu	37	14	21570651	21570651	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-D1-A163-01A-11D-A12J-09	TCGA-D1-A163-10A-01D-A12J-09	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	XM_002343257.1	+1	model	p.P61S	0.006	213	0%	171	17%	0	-	benign(0.002)	tolerated(0.64)	neutral(0.003)	NULL
DCAF11	80344	genome.wustl.edu	37	14	24590630	24590630	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-D1-A163-01A-11D-A12J-09	TCGA-D1-A163-10A-01D-A12J-09	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_025230.4	+1	reviewed	p.G435R	1.000	112	0%	83	16.9%	107	22.4%	possibly_damaging(0.793)	tolerated(0.82)	neutral(0.298)	HMMSmart_SM00320,superfamily_WD40 repeat-like
RABGGTA	5875	genome.wustl.edu	37	14	24737769	24737769	+	Silent	SNP	G	G	A	novel		TCGA-D1-A163-01A-11D-A12J-09	TCGA-D1-A163-10A-01D-A12J-09	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_004581.3	-1	validated	p.R319	0.972	138	0%	124	30.6%	71	38%	-	-	-	HMMPfam_RabGGT_insert,superfamily_RabGG_trans_A,superfamily_Prenyl_trans
PRKD1	5587	genome.wustl.edu	37	14	30103720	30103720	+	Silent	SNP	G	G	A	novel		TCGA-D1-A163-01A-11D-A12J-09	TCGA-D1-A163-10A-01D-A12J-09	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_002742.2	-1	validated	p.L406	1.000	663	0%	616	11.9%	9	11.1%	-	-	-	NULL
COCH	1690	genome.wustl.edu	37	14	31355183	31355183	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-D1-A163-01A-11D-A12J-09	TCGA-D1-A163-10A-01D-A12J-09	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001135058.1	+1	reviewed	p.S381N	0.272	229	0%	178	39.9%	17	41.1%	benign(0.389)	tolerated(0.31)	neutral(0.151)	HMMPfam_VWA,HMMSmart_SM00327,superfamily_vWA-like
MGAT2	4247	genome.wustl.edu	37	14	50088757	50088757	+	Silent	SNP	C	C	T	novel		TCGA-D1-A163-01A-11D-A12J-09	TCGA-D1-A163-10A-01D-A12J-09	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_002408.3	+1	reviewed	p.F257	0.999	196	0%	179	15.6%	29	10.3%	-	-	-	HMMPfam_MGAT2,superfamily_Nucleotide-diphospho-sugar transferases
KLHDC2	23588	genome.wustl.edu	37	14	50249625	50249625	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-D1-A163-01A-11D-A12J-09	TCGA-D1-A163-10A-01D-A12J-09	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_014315.2	+1	validated	p.H392R	1.000	157	0%	155	39.4%	112	51.7%	possibly_damaging(0.563)	tolerated(0.47)	neutral(0.204)	NULL
TBPL2	387332	genome.wustl.edu	37	14	55903277	55903277	+	Splice_Site	SNP	A	A	G	novel		TCGA-D1-A163-01A-11D-A12J-09	TCGA-D1-A163-10A-01D-A12J-09	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_199047.2	-1	validated	e2+2	1.000	200	0%	182	23.1%	0	-	-	-	-	-
C14orf101	54916	genome.wustl.edu	37	14	57085357	57085357	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-D1-A163-01A-11D-A12J-09	TCGA-D1-A163-10A-01D-A12J-09	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_017799.3	+1	validated	p.A368T	1.000	186	0%	178	19.1%	21	19%	probably_damaging(1)	tolerated(0.13)	deleterious(0.752)	NULL
OTX2	5015	genome.wustl.edu	37	14	57271061	57271061	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-D1-A163-01A-11D-A12J-09	TCGA-D1-A163-10A-01D-A12J-09	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_021728.2	-1	reviewed	p.A40T	1.000	41	0%	35	48.6%	0	-	benign(0)	tolerated(0.59)	neutral(0.004)	superfamily_Homeodomain_like
FNTB	2342	genome.wustl.edu	37	14	65499337	65499337	+	Nonsense_Mutation	SNP	C	C	A	novel		TCGA-D1-A163-01A-11D-A12J-09	TCGA-D1-A163-10A-01D-A12J-09	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_002028.3	+1	validated	p.Y205*	1.000	95	0%	108	22.2%	24	0%	-	-	-	HMMPfam_Prenyltrans,superfamily_Terpenoid cyclases/Protein prenyltransferases
RAD51B	5890	genome.wustl.edu	37	14	68352688	68352688	+	Silent	SNP	T	T	C	novel		TCGA-D1-A163-01A-11D-A12J-09	TCGA-D1-A163-10A-01D-A12J-09	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_133509.2	+1	reviewed	p.C185	1.000	260	0%	254	37.4%	4	0%	-	-	-	HMMSmart_SM00382,HMMPfam_Rad51,superfamily_P-loop containing nucleoside triphosphate hydrolases
C14orf43	91748	genome.wustl.edu	37	14	74196630	74196630	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-D1-A163-01A-11D-A12J-09	TCGA-D1-A163-10A-01D-A12J-09	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001043318.1	-1	validated	p.R603Q	1.000	112	0%	110	44.5%	24	54.1%	probably_damaging(1)	deleterious(0.01)	deleterious(0.905)	NULL
KIAA0317	9870	genome.wustl.edu	37	14	75151249	75151249	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-D1-A163-01A-11D-A12J-09	TCGA-D1-A163-10A-01D-A12J-09	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001039479.1	-1	validated	p.R51W	1.000	112	0%	78	46.2%	6	0%	probably_damaging(1)	deleterious(0.03)	deleterious(0.865)	NULL
DIO2	1734	genome.wustl.edu	37	14	80669277	80669277	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-D1-A163-01A-11D-A12J-09	TCGA-D1-A163-10A-01D-A12J-09	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001007023.2	-1	reviewed	p.A229T	1.000	87	0%	88	39.8%	45	2.2%	benign(0.221)	tolerated(0.57)	neutral(0.028)	HMMPfam_T4_deiodinase
DYNC1H1	1778	genome.wustl.edu	37	14	102452680	102452680	+	Silent	SNP	G	G	A	novel		TCGA-D1-A163-01A-11D-A12J-09	TCGA-D1-A163-10A-01D-A12J-09	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001376.4	+1	reviewed	p.V706	0.346	81	0%	79	34.2%	39	43.5%	-	-	-	HMMPfam_DHC_N1
KLC1	3831	genome.wustl.edu	37	14	104129111	104129111	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-D1-A163-01A-11D-A12J-09	TCGA-D1-A163-10A-01D-A12J-09	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001130107.1	+1	reviewed	p.T215M	1.000	13	0%	10	80%	60	46.6%	probably_damaging(1)	deleterious(0.03)	deleterious(0.865)	HMMPfam_Rab5-bind,superfamily_TPR-like
AHNAK2	113146	genome.wustl.edu	37	14	105406202	105406202	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-D1-A163-01A-11D-A12J-09	TCGA-D1-A163-10A-01D-A12J-09	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_138420.2	-1	validated	p.R5196C	0.001	137	0%	101	38.6%	21	38%	probably_damaging(0.999)	deleterious(0.01)	deleterious(0.896)	NULL
AHNAK2	113146	genome.wustl.edu	37	14	105408983	105408983	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-D1-A163-01A-11D-A12J-09	TCGA-D1-A163-10A-01D-A12J-09	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_138420.2	-1	validated	p.E4269K	0.000	177	0%	194	44.3%	35	45.7%	benign(0.21)	tolerated(0.73)	neutral(0.022)	NULL
PACS2	23241	genome.wustl.edu	37	14	105833628	105833628	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-D1-A163-01A-11D-A12J-09	TCGA-D1-A163-10A-01D-A12J-09	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001100913.1	+1	validated	p.E168K	1.000	44	0%	28	39.3%	73	41%	probably_damaging(0.998)	tolerated(0.21)	deleterious(0.518)	NULL
ENSG00000227468	0	genome.wustl.edu	37	14	106066378	106066378	+	Splice_Site	SNP	T	T	C	novel		TCGA-D1-A163-01A-11D-A12J-09	TCGA-D1-A163-10A-01D-A12J-09	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	ENST00000420153	-1	known	NULL	0.000	43	0%	34	38.2%	0	-	-	-	-	-
IGHV2-5	28457	genome.wustl.edu	37	14	106494138	106494138	+	Silent	SNP	G	G	A	novel		TCGA-D1-A163-01A-11D-A12J-09	TCGA-D1-A163-10A-01D-A12J-09	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	ENST00000390597	-1	known	p.H118	0.000	317	0%	274	16.8%	5	0%	-	-	-	HMMSmart_IGv,superfamily_SSF48726
LOC283685	283685	genome.wustl.edu	37	15	23689139	23689139	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-D1-A163-01A-11D-A12J-09	TCGA-D1-A163-10A-01D-A12J-09	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	XM_002343322.1	-1	model	p.R116G	0.000	20	0%	25	32%	0	-	probably_damaging(0.968)	deleterious(0.01)	deleterious(0.816)	NULL
HERC2	8924	genome.wustl.edu	37	15	28517496	28517496	+	Silent	SNP	C	C	T	novel		TCGA-D1-A163-01A-11D-A12J-09	TCGA-D1-A163-10A-01D-A12J-09	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_004667.4	-1	reviewed	p.L316	1.000	90	0%	81	17.3%	5	40%	-	-	-	NULL
APBA2	321	genome.wustl.edu	37	15	29393925	29393925	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-D1-A163-01A-11D-A12J-09	TCGA-D1-A163-10A-01D-A12J-09	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_005503.3	+1	reviewed	p.P488S	0.997	74	0%	64	34.4%	10	0%	possibly_damaging(0.45)	tolerated(0.11)	neutral(0.419)	HMMPfam_PID,HMMSmart_PTB,superfamily_SSF50729
DISP2	85455	genome.wustl.edu	37	15	40661100	40661100	+	Silent	SNP	C	C	T	novel		TCGA-D1-A163-01A-11D-A12J-09	TCGA-D1-A163-10A-01D-A12J-09	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_033510.1	+1	reviewed	p.H929	0.948	56	0%	39	51.3%	0	-	-	-	-	superfamily_SSF82866
MGA	23269	genome.wustl.edu	37	15	41961175	41961175	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-D1-A163-01A-11D-A12J-09	TCGA-D1-A163-10A-01D-A12J-09	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001080541.2	+1	validated	p.L28S	0.822	203	0%	152	33.6%	1	100%	probably_damaging(1)	deleterious(0)	deleterious(0.945)	NULL
DUOXA2	405753	genome.wustl.edu	37	15	45409501	45409501	+	Missense_Mutation	SNP	C	C	T	rs181159534	by1000genomes	TCGA-D1-A163-01A-11D-A12J-09	TCGA-D1-A163-10A-01D-A12J-09	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_207581.3	+1	reviewed	p.T256I	0.989	41	0%	34	32.4%	0	-	possibly_damaging(0.812)	deleterious(0.01)	deleterious(0.711)	HMMPfam_DuoxA
MYO5A	4644	genome.wustl.edu	37	15	52700261	52700261	+	Missense_Mutation	SNP	C	C	G	novel		TCGA-D1-A163-01A-11D-A12J-09	TCGA-D1-A163-10A-01D-A12J-09	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_000259.3	-1	reviewed	p.R278P	0.999	205	0%	195	39.5%	2	0%	possibly_damaging(0.443)	tolerated(0.23)	neutral(0.186)	HMMPfam_Myosin_head,HMMSmart_SM00242,superfamily_P-loop containing nucleoside triphosphate hydrolases
RFX7	64864	genome.wustl.edu	37	15	56535451	56535451	+	Silent	SNP	C	C	T	novel		TCGA-D1-A163-01A-11D-A12J-09	TCGA-D1-A163-10A-01D-A12J-09	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_022841.5	-1	validated	p.Q11	1.000	62	0%	50	26%	1	0%	-	-	-	NULL
SKOR1	390598	genome.wustl.edu	37	15	68118968	68118968	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-D1-A163-01A-11D-A12J-09	TCGA-D1-A163-10A-01D-A12J-09	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001031807.1	+1	provisional	p.K259E	1.000	127	0%	80	40%	0	-	benign(0.076)	deleterious(0)	neutral(0.450)	superfamily_SAND_like,HMMPfam_c-SKI_SMAD_bind
PML	5371	genome.wustl.edu	37	15	74326969	74326969	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-D1-A163-01A-11D-A12J-09	TCGA-D1-A163-10A-01D-A12J-09	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_033240.2	+1	reviewed	p.R603L	0.000	87	0%	61	42.6%	1	0%	unknown(0)	-	-	NULL
LOC727963	727963	genome.wustl.edu	37	15	84748703	84748703	+	Silent	SNP	C	C	T	novel		TCGA-D1-A163-01A-11D-A12J-09	TCGA-D1-A163-10A-01D-A12J-09	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	XM_002343381.1	+1	model	p.G36	0.004	55	0%	58	29.3%	0	-	-	-	-	NULL
MFGE8	4240	genome.wustl.edu	37	15	89453093	89453093	+	Silent	SNP	C	C	T	novel		TCGA-D1-A163-01A-11D-A12J-09	TCGA-D1-A163-10A-01D-A12J-09	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_005928.2	-1	validated	p.V45	0.000	180	0%	165	35.8%	360	34.7%	-	-	-	HMMPfam_EGF,HMMSmart_SM00181,superfamily_EGF/Laminin
LRRK1	79705	genome.wustl.edu	37	15	101567895	101567895	+	Missense_Mutation	SNP	G	G	A	rs142470911	by1000genomes	TCGA-D1-A163-01A-11D-A12J-09	TCGA-D1-A163-10A-01D-A12J-09	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_024652.3	+1	validated	p.R860H	0.997	45	0%	41	41.5%	12	25%	benign(0.019)	deleterious(0.01)	neutral(0.407)	NULL
AXIN1	8312	genome.wustl.edu	37	16	364545	364545	+	Silent	SNP	G	G	A	novel		TCGA-D1-A163-01A-11D-A12J-09	TCGA-D1-A163-10A-01D-A12J-09	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_003502.2	-1	reviewed	p.S339	0.253	90	0%	68	42.6%	46	47.8%	-	-	-	NULL
DECR2	26063	genome.wustl.edu	37	16	457554	457554	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-D1-A163-01A-11D-A12J-09	TCGA-D1-A163-10A-01D-A12J-09	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_020664.3	+1	validated	p.I111V	0.919	290	0%	255	37.6%	32	31.2%	benign(0.013)	tolerated(0.74)	neutral(0.002)	HMMPfam_adh_short,superfamily_NAD(P)-binding Rossmann-fold domains
GNG13	51764	genome.wustl.edu	37	16	848772	848772	+	Missense_Mutation	SNP	C	C	T	rs186803817	by1000genomes	TCGA-D1-A163-01A-11D-A12J-09	TCGA-D1-A163-10A-01D-A12J-09	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_016541.2	-1	validated	p.D51N	1.000	176	0%	164	34.8%	0	-	benign(0.141)	tolerated(0.07)	neutral(0.331)	HMMPfam_G-gamma,HMMSmart_GGL,superfamily_G-protein_gamma-like
BAIAP3	8938	genome.wustl.edu	37	16	1398283	1398283	+	Silent	SNP	G	G	A	novel		TCGA-D1-A163-01A-11D-A12J-09	TCGA-D1-A163-10A-01D-A12J-09	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_003933.3	+1	reviewed	p.L1147	1.000	26	0%	18	38.9%	5	60%	-	-	-	NULL
TSC2	7249	genome.wustl.edu	37	16	2106650	2106650	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-D1-A163-01A-11D-A12J-09	TCGA-D1-A163-10A-01D-A12J-09	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	ENST00000382538	+1	known	p.P94T	0.932	99	0%	75	42.7%	80	38.7%	unknown(0)	-	-	NULL
CASKIN1	57524	genome.wustl.edu	37	16	2231893	2231893	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-D1-A163-01A-11D-A12J-09	TCGA-D1-A163-10A-01D-A12J-09	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_020764.3	-1	validated	p.A556V	1.000	53	0%	39	25.6%	2	0%	benign(0.361)	deleterious(0)	deleterious(0.559)	HMMPfam_SAM_1,HMMSmart_SAM,superfamily_SAM_homology
ZSCAN10	84891	genome.wustl.edu	37	16	3142762	3142762	+	Silent	SNP	C	C	A	novel		TCGA-D1-A163-01A-11D-A12J-09	TCGA-D1-A163-10A-01D-A12J-09	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_032805.1	-1	provisional	p.R4	0.002	15	0.000	8	0.625	0	-	unknown(0)	-	-	HMMPfam_SCAN,HMMSmart_SCAN
ADCY9	115	genome.wustl.edu	37	16	4165113	4165113	+	Nonsense_Mutation	SNP	G	G	A	novel		TCGA-D1-A163-01A-11D-A12J-09	TCGA-D1-A163-10A-01D-A12J-09	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001116.2	-1	reviewed	p.Q111*	1.000	58	0%	69	37.7%	4	0%	-	-	-	NULL
C16orf89	146556	genome.wustl.edu	37	16	5105323	5105323	+	Silent	SNP	G	G	A	novel		TCGA-D1-A163-01A-11D-A12J-09	TCGA-D1-A163-10A-01D-A12J-09	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_152459.3	-1	validated	p.S302	0.032	49	0%	38	42.1%	0	-	-	-	-	NULL
EMP2	2013	genome.wustl.edu	37	16	10641402	10641402	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-D1-A163-01A-11D-A12J-09	TCGA-D1-A163-10A-01D-A12J-09	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001424.4	-1	validated	p.D25N	0.998	112	0%	137	45.3%	165	44.2%	possibly_damaging(0.54)	tolerated(0.24)	neutral(0.221)	HMMPfam_PMP22_Claudin,PatternScan_PMP22_1
UMOD	7369	genome.wustl.edu	37	16	20357599	20357599	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-D1-A163-01A-11D-A12J-09	TCGA-D1-A163-10A-01D-A12J-09	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001008389.1	-1	reviewed	p.L344P	0.995	84	0%	84	52.4%	0	-	probably_damaging(0.997)	deleterious(0.01)	deleterious(0.872)	HMMPfam_Zona_pellucida,HMMSmart_SM00241
TNRC6A	27327	genome.wustl.edu	37	16	24802006	24802006	+	Silent	SNP	C	C	T	novel		TCGA-D1-A163-01A-11D-A12J-09	TCGA-D1-A163-10A-01D-A12J-09	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_014494.2	+1	reviewed	p.R681	1.000	207	0%	171	41.5%	7	57.1%	-	-	-	NULL
TNRC6A	27327	genome.wustl.edu	37	16	24802899	24802899	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-D1-A163-01A-11D-A12J-09	TCGA-D1-A163-10A-01D-A12J-09	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_014494.2	+1	reviewed	p.A979V	0.033	27	0%	34	38.2%	3	66.6%	benign(0.001)	tolerated(0.29)	neutral(0.029)	NULL
IL4R	3566	genome.wustl.edu	37	16	27363943	27363943	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-D1-A163-01A-11D-A12J-09	TCGA-D1-A163-10A-01D-A12J-09	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_000418.2	+1	reviewed	p.A199V	0.029	144	0%	128	49.2%	13	53.8%	benign(0.221)	deleterious(0.01)	neutral(0.428)	PatternScan_HEMATOPO_REC_S_F1,superfamily_Fibronectin type III
COX6A2	1339	genome.wustl.edu	37	16	31439130	31439130	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-D1-A163-01A-11D-A12J-09	TCGA-D1-A163-10A-01D-A12J-09	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_005205.2	-1	reviewed	p.V87M	0.114	77	0%	52	46.2%	0	-	benign(0.043)	tolerated(0.07)	neutral(0.322)	HMMPfam_COX6A,superfamily_COX6A
PHKB	5257	genome.wustl.edu	37	16	47497889	47497889	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-D1-A163-01A-11D-A12J-09	TCGA-D1-A163-10A-01D-A12J-09	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001031835.2	+1	reviewed	p.A14T	0.137	383	0%	305	37.7%	30	40%	benign(0)	tolerated(0.12)	neutral(0.261)	NULL
RLTPR	146206	genome.wustl.edu	37	16	67688344	67688344	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-D1-A163-01A-11D-A12J-09	TCGA-D1-A163-10A-01D-A12J-09	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001013838.1	+1	provisional	p.R1111W	0.939	60	0%	45	40%	2	0%	probably_damaging(0.999)	deleterious(0.01)	deleterious(0.896)	NULL
CDH3	1001	genome.wustl.edu	37	16	68718593	68718593	+	Silent	SNP	C	C	T	novel		TCGA-D1-A163-01A-11D-A12J-09	TCGA-D1-A163-10A-01D-A12J-09	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001793.4	+1	reviewed	p.H430	0.000	155	0%	123	39.8%	63	39.6%	-	-	-	HMMPfam_Cadherin,HMMSmart_SM00112,superfamily_Cadherin-like
CHTF8	54921	genome.wustl.edu	37	16	69154299	69154299	+	Silent	SNP	C	C	T	novel		TCGA-D1-A163-01A-11D-A12J-09	TCGA-D1-A163-10A-01D-A12J-09	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	ENST00000306585	-1	known	p.R11	1.000	296	0%	310	41%	99	39.3%	-	-	-	NULL
ZFHX3	463	genome.wustl.edu	37	16	72992124	72992124	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-D1-A163-01A-11D-A12J-09	TCGA-D1-A163-10A-01D-A12J-09	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_006885.3	-1	reviewed	p.E641K	1.000	78	0%	85	45.9%	7	42.8%	unknown(0)	-	-	HMMSmart_SM00355
NECAB2	54550	genome.wustl.edu	37	16	84034339	84034339	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-D1-A163-01A-11D-A12J-09	TCGA-D1-A163-10A-01D-A12J-09	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_019065.2	+1	provisional	p.V325M	0.900	241	0.4%	208	14.9%	1	0%	benign(0.024)	tolerated(0.14)	neutral(0.251)	HMMPfam_ABM,superfamily_Dimer_A_B_barrel
USP10	9100	genome.wustl.edu	37	16	84806233	84806233	+	Silent	SNP	T	T	G	novel		TCGA-D1-A163-01A-11D-A12J-09	TCGA-D1-A163-10A-01D-A12J-09	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_005153.2	+1	reviewed	p.G695	0.988	346	0%	304	36.5%	33	30.3%	-	-	-	HMMPfam_UCH,superfamily_SSF54001
CDK10	8558	genome.wustl.edu	37	16	89757898	89757898	+	Missense_Mutation	SNP	C	C	T	rs184050237	by1000genomes	TCGA-D1-A163-01A-11D-A12J-09	TCGA-D1-A163-10A-01D-A12J-09	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_052988.4	+1	reviewed	p.R94C	0.993	95	0%	65	40%	42	45.2%	possibly_damaging(0.884)	deleterious(0)	deleterious(0.789)	HMMSmart_SM00219,HMMSmart_SM00220,superfamily_Protein kinase-like (PK-like),HMMPfam_Pkinase
CTC1	80169	genome.wustl.edu	37	17	8132526	8132526	+	Splice_Site	SNP	T	T	C	novel		TCGA-D1-A163-01A-11D-A12J-09	TCGA-D1-A163-10A-01D-A12J-09	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_025099.5	-1	validated	e20-2	0.986	198	0%	161	39.8%	3	66.6%	-	-	-	-
PIRT	644139	genome.wustl.edu	37	17	10728852	10728852	+	Silent	SNP	G	G	A	novel		TCGA-D1-A163-01A-11D-A12J-09	TCGA-D1-A163-10A-01D-A12J-09	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001101387.1	-1	validated	p.S37	1.000	92	0%	76	30.3%	0	-	-	-	-	NULL
SHISA6	388336	genome.wustl.edu	37	17	11145245	11145245	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-D1-A163-01A-11D-A12J-09	TCGA-D1-A163-10A-01D-A12J-09	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_207386.3	+1	validated	p.P169Q	1.000	35	0%	26	50%	0	-	probably_damaging(1)	deleterious(0.03)	deleterious(0.865)	NULL
ZNF286A	57335	genome.wustl.edu	37	17	15620340	15620340	+	Silent	SNP	A	A	G	novel		TCGA-D1-A163-01A-11D-A12J-09	TCGA-D1-A163-10A-01D-A12J-09	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001130842.1	+1	validated	p.G434	1.000	314	0%	280	41.4%	2	50%	-	-	-	superfamily_SSF57667
KSR1	8844	genome.wustl.edu	37	17	25924382	25924382	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-D1-A163-01A-11D-A12J-09	TCGA-D1-A163-10A-01D-A12J-09	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_014238.1	+1	validated	p.P326L	0.837	357	0%	324	37.3%	8	37.5%	benign(0)	tolerated(0.36)	neutral(0.020)	NULL
CCL4	6351	genome.wustl.edu	37	17	34431945	34431945	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-D1-A163-01A-11D-A12J-09	TCGA-D1-A163-10A-01D-A12J-09	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_002984.2	+1	validated	p.C34F	1.000	330	0%	253	32.4%	5	0%	probably_damaging(1)	deleterious(0)	deleterious(0.945)	PatternScan_SMALL_CYTOKINES_CC,HMMPfam_IL8,HMMSmart_SCY,superfamily_Chemokine_IL8
GPR179	440435	genome.wustl.edu	37	17	36485282	36485282	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-D1-A163-01A-11D-A12J-09	TCGA-D1-A163-10A-01D-A12J-09	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001004334.2	-1	validated	p.E1390D	0.000	97	0%	99	49.5%	0	-	benign(0.239)	deleterious(0.01)	neutral(0.430)	NULL
C17orf98	388381	genome.wustl.edu	37	17	36997511	36997511	+	Silent	SNP	G	G	A	novel		TCGA-D1-A163-01A-11D-A12J-09	TCGA-D1-A163-10A-01D-A12J-09	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001080465.2	-1	validated	p.N44	0.956	58	0%	62	46.8%	0	-	-	-	-	NULL
IKZF3	22806	genome.wustl.edu	37	17	37922736	37922736	+	Silent	SNP	G	G	A	novel		TCGA-D1-A163-01A-11D-A12J-09	TCGA-D1-A163-10A-01D-A12J-09	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	ENST00000439016	-1	known	p.A233V	0.908	81	0%	59	44.1%	3	0%	-	-	-	NULL
JUP	3728	genome.wustl.edu	37	17	39923649	39923649	+	Silent	SNP	G	G	A	novel		TCGA-D1-A163-01A-11D-A12J-09	TCGA-D1-A163-10A-01D-A12J-09	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_002230.2	-1	reviewed	p.Y297	0.007	86	0%	77	35.1%	680	43.3%	-	-	-	HMMSmart_ARM,superfamily_ARM-type_fold
KLHL11	55175	genome.wustl.edu	37	17	40010042	40010042	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-D1-A163-01A-11D-A12J-09	TCGA-D1-A163-10A-01D-A12J-09	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_018143.1	-1	provisional	p.R693C	1.000	203	0%	181	44.8%	8	12.5%	probably_damaging(0.999)	deleterious(0)	deleterious(0.935)	NULL
TMEM106A	113277	genome.wustl.edu	37	17	41367829	41367829	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-D1-A163-01A-11D-A12J-09	TCGA-D1-A163-10A-01D-A12J-09	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_145041.1	+1	provisional	p.V100M	0.907	459	0%	396	38.1%	4	50%	probably_damaging(0.996)	tolerated(0.06)	deleterious(0.784)	HMMPfam_DUF1356
CRHR1	1394	genome.wustl.edu	37	17	43906636	43906636	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-D1-A163-01A-11D-A12J-09	TCGA-D1-A163-10A-01D-A12J-09	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001145146.1	+1	reviewed	p.C128Y	1.000	236	0%	169	36.1%	0	-	probably_damaging(0.98)	deleterious(0.01)	deleterious(0.830)	HMMPfam_7tm_2
ITGB3	3690	genome.wustl.edu	37	17	45368326	45368326	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-D1-A163-01A-11D-A12J-09	TCGA-D1-A163-10A-01D-A12J-09	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_000212.2	+1	reviewed	p.R378C	1.000	192	0%	154	38.3%	11	27.2%	probably_damaging(1)	deleterious(0.01)	deleterious(0.905)	HMMPfam_Integrin_beta,HMMSmart_SM00187,superfamily_vWA-like,superfamily_Integrin domains
TBX21	30009	genome.wustl.edu	37	17	45822393	45822393	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-D1-A163-01A-11D-A12J-09	TCGA-D1-A163-10A-01D-A12J-09	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_013351.1	+1	reviewed	p.Q423H	0.832	39	0%	33	39.4%	3	0%	benign(0.345)	tolerated(0.16)	neutral(0.168)	NULL
KIF2B	84643	genome.wustl.edu	37	17	51901904	51901904	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-D1-A163-01A-11D-A12J-09	TCGA-D1-A163-10A-01D-A12J-09	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_032559.4	+1	validated	p.R504W	0.971	163	0%	138	48.6%	0	-	probably_damaging(1)	deleterious(0)	deleterious(0.945)	HMMPfam_Kinesin,HMMSmart_SM00129,superfamily_P-loop containing nucleoside triphosphate hydrolases
PRR11	55771	genome.wustl.edu	37	17	57272731	57272731	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-D1-A163-01A-11D-A12J-09	TCGA-D1-A163-10A-01D-A12J-09	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_018304.2	+1	validated	p.V262I	0.991	216	0%	207	36.7%	16	43.7%	benign(0.024)	tolerated(0.45)	neutral(0.013)	NULL
CLTC	1213	genome.wustl.edu	37	17	57762561	57762561	+	Silent	SNP	C	C	T	novel		TCGA-D1-A163-01A-11D-A12J-09	TCGA-D1-A163-10A-01D-A12J-09	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_004859.3	+1	reviewed	p.L1527	1.000	187	0%	152	36.2%	210	44.2%	-	-	-	HMMPfam_Clathrin,HMMSmart_SM00299
RGS9	8787	genome.wustl.edu	37	17	63189723	63189723	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-D1-A163-01A-11D-A12J-09	TCGA-D1-A163-10A-01D-A12J-09	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_003835.3	+1	reviewed	p.S270N	1.000	260	0%	188	30.3%	0	-	possibly_damaging(0.451)	deleterious(0)	deleterious(0.592)	HMMPfam_G-gamma,HMMSmart_SM00224,superfamily_Transducin (heterotrimeric G protein) gamma chain
GRIN2C	2905	genome.wustl.edu	37	17	72844061	72844061	+	Silent	SNP	C	C	T	novel		TCGA-D1-A163-01A-11D-A12J-09	TCGA-D1-A163-10A-01D-A12J-09	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_000835.3	-1	reviewed	p.V567	1.000	154	0%	125	45.6%	0	-	-	-	-	HMMPfam_Lig_chan,HMMSmart_SM00079,superfamily_Periplasmic binding protein-like II
RNF213	57674	genome.wustl.edu	37	17	78311744	78311744	+	Silent	SNP	C	C	T	novel		TCGA-D1-A163-01A-11D-A12J-09	TCGA-D1-A163-10A-01D-A12J-09	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	ENST00000508628	+1	known	p.L1594	1.000	291	0%	221	15.8%	8	0%	-	-	-	NULL
EMILIN2	84034	genome.wustl.edu	37	18	2913198	2913199	+	Frame_Shift_Del	DEL	GA	GA	-	novel		TCGA-D1-A163-01A-11D-A12J-09	TCGA-D1-A163-10A-01D-A12J-09	GA	GA					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_032048.2	+1	validated	p.E988fs	0.980:0.996	-	-	-	-	-	-	-	-	-	superfamily_TNF_like
SLC35G4	646000	genome.wustl.edu	37	18	11609832	11609832	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-D1-A163-01A-11D-A12J-09	TCGA-D1-A163-10A-01D-A12J-09	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	XM_928960.2	+1	model	p.H80Y	0.990	382	0.3%	317	38.2%	0	-	possibly_damaging(0.797)	tolerated(0.29)	neutral(0.329)	HMMPfam_DUF6
SEH1L	81929	genome.wustl.edu	37	18	12955522	12955522	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-D1-A163-01A-11D-A12J-09	TCGA-D1-A163-10A-01D-A12J-09	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001013437.1	+1	reviewed	p.A75T	1.000	341	0%	314	40.1%	35	45.7%	probably_damaging(1)	deleterious(0)	deleterious(0.945)	HMMSmart_SM00320,superfamily_WD40 repeat-like,HMMPfam_WD40
CDH2	1000	genome.wustl.edu	37	18	25532205	25532205	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-D1-A163-01A-11D-A12J-09	TCGA-D1-A163-10A-01D-A12J-09	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001792.3	-1	reviewed	p.S878I	1.000	248	0%	196	13.8%	30	10%	probably_damaging(0.999)	deleterious(0)	deleterious(0.935)	HMMPfam_Cadherin_C
ASXL3	80816	genome.wustl.edu	37	18	31325494	31325494	+	Silent	SNP	C	C	G	novel		TCGA-D1-A163-01A-11D-A12J-09	TCGA-D1-A163-10A-01D-A12J-09	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_030632.1	+1	provisional	p.V1894	1.000	113	0%	118	33.1%	0	-	-	-	-	NULL
FHOD3	80206	genome.wustl.edu	37	18	34335182	34335182	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-D1-A163-01A-11D-A12J-09	TCGA-D1-A163-10A-01D-A12J-09	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_025135.2	+1	validated	p.Y1270H	1.000	345	0%	286	13.6%	10	0%	possibly_damaging(0.918)	deleterious(0)	deleterious(0.813)	HMMSmart_FH2,HMMPfam_FH2,superfamily_FH2_actin_bd
ZNF532	55205	genome.wustl.edu	37	18	56651250	56651250	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-D1-A163-01A-11D-A12J-09	TCGA-D1-A163-10A-01D-A12J-09	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_018181.4	+1	validated	p.R1153M	1.000	210	0%	180	41.7%	30	40%	possibly_damaging(0.848)	tolerated(0.08)	deleterious(0.625)	NULL
KIAA1468	57614	genome.wustl.edu	37	18	59912058	59912058	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-D1-A163-01A-11D-A12J-09	TCGA-D1-A163-10A-01D-A12J-09	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_020854.3	+1	validated	p.Q561R	1.000	318	0%	295	35.3%	8	50%	probably_damaging(0.992)	tolerated(0.16)	deleterious(0.507)	superfamily_ARM repeat
KCNG2	26251	genome.wustl.edu	37	18	77659481	77659481	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-D1-A163-01A-11D-A12J-09	TCGA-D1-A163-10A-01D-A12J-09	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_012283.1	+1	reviewed	p.V356M	1.000	29	0%	28	28.6%	0	-	probably_damaging(0.991)	deleterious(0)	deleterious(0.889)	HMMPfam_Ion_trans,superfamily_SSF81324
ARID3A	1820	genome.wustl.edu	37	19	968403	968403	+	Splice_Site	SNP	A	A	G	novel		TCGA-D1-A163-01A-11D-A12J-09	TCGA-D1-A163-10A-01D-A12J-09	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_005224.2	+1	reviewed	e7-2	0.999	78	0%	57	36.8%	1	0%	-	-	-	-
PCSK4	54760	genome.wustl.edu	37	19	1487673	1487673	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-D1-A163-01A-11D-A12J-09	TCGA-D1-A163-10A-01D-A12J-09	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_017573.3	-1	validated	p.A204V	1.000	43	0%	46	41.3%	1	0%	benign(0.322)	deleterious(0)	deleterious(0.545)	HMMPfam_Peptidase_S8,PatternScan_SUBTILASE_HIS,superfamily_Subtilisin-like
TJP3	27134	genome.wustl.edu	37	19	3740725	3740725	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-D1-A163-01A-11D-A12J-09	TCGA-D1-A163-10A-01D-A12J-09	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_014428.1	+1	provisional	p.R636S	0.061	15	0%	15	40%	119	26.8%	benign(0.008)	deleterious(0.01)	neutral(0.406)	HMMSmart_SM00072,superfamily_P-loop containing nucleoside triphosphate hydrolases
STAP2	55620	genome.wustl.edu	37	19	4328707	4328707	+	Silent	SNP	G	G	A	novel		TCGA-D1-A163-01A-11D-A12J-09	TCGA-D1-A163-10A-01D-A12J-09	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_017720.2	-1	reviewed	p.D185	0.391	22	0%	19	36.8%	143	39.8%	-	-	-	superfamily_SH2 domain
ARRDC5	645432	genome.wustl.edu	37	19	4891232	4891232	+	Silent	SNP	G	G	A	novel		TCGA-D1-A163-01A-11D-A12J-09	TCGA-D1-A163-10A-01D-A12J-09	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001080523.1	-1	provisional	p.D285	0.000	127	0%	131	46.6%	0	-	-	-	-	HMMPfam_Arrestin_C,superfamily_E set domains
ARHGEF18	23370	genome.wustl.edu	37	19	7505040	7505040	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-D1-A163-01A-11D-A12J-09	TCGA-D1-A163-10A-01D-A12J-09	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001130955.1	+1	reviewed	p.R72C	0.074	28	0%	35	20%	0	-	benign(0.004)	deleterious(0)	neutral(0.445)	NULL
CAMSAP3	57662	genome.wustl.edu	37	19	7682656	7682656	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-D1-A163-01A-11D-A12J-09	TCGA-D1-A163-10A-01D-A12J-09	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001080429.2	+1	validated	p.A1182T	1.000	38	0%	33	45.5%	51	43.1%	benign(0.102)	deleterious(0)	neutral(0.453)	superfamily_PRC-barrel domain,HMMPfam_DUF1781
PRAM1	84106	genome.wustl.edu	37	19	8563890	8563890	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-D1-A163-01A-11D-A12J-09	TCGA-D1-A163-10A-01D-A12J-09	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_032152.3	-1	reviewed	p.A268T	0.000	59	0%	50	28%	1	0%	benign(0)	tolerated(0.57)	neutral(0.006)	NULL
CCDC151	115948	genome.wustl.edu	37	19	11531869	11531869	+	Silent	SNP	G	G	A	novel		TCGA-D1-A163-01A-11D-A12J-09	TCGA-D1-A163-10A-01D-A12J-09	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_145045.4	-1	validated	p.S534	0.000	220	0.5%	203	40.4%	0	-	-	-	-	NULL
PRDX2	7001	genome.wustl.edu	37	19	12911043	12911043	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-D1-A163-01A-11D-A12J-09	TCGA-D1-A163-10A-01D-A12J-09	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_005809.4	-1	reviewed	p.R110C	0.189	71	0%	49	40.8%	729	44.8%	benign(0.164)	tolerated(0.12)	neutral(0.276)	HMMPfam_AhpC-TSA,superfamily_Thioredoxin-like
ZNF333	84449	genome.wustl.edu	37	19	14829644	14829644	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-D1-A163-01A-11D-A12J-09	TCGA-D1-A163-10A-01D-A12J-09	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_032433.2	+1	validated	p.R502K	1.000	110	0.9%	111	34.2%	7	14.2%	possibly_damaging(0.645)	deleterious(0.01)	deleterious(0.632)	superfamily_SSF57667
FAM129C	199786	genome.wustl.edu	37	19	17643081	17643081	+	Silent	SNP	C	C	A	novel		TCGA-D1-A163-01A-11D-A12J-09	TCGA-D1-A163-10A-01D-A12J-09	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_173544.4	+1	validated	p.R97	0.965	66	0%	53	47.2%	1	100%	-	-	-	superfamily_PH domain-like
URI1	8725	genome.wustl.edu	37	19	30503327	30503327	+	Silent	SNP	G	G	A	novel		TCGA-D1-A163-01A-11D-A12J-09	TCGA-D1-A163-10A-01D-A12J-09	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_003796.2	+1	reviewed	p.L438	0.893	219	0%	176	43.2%	77	45.4%	-	-	-	NULL
TSHZ3	57616	genome.wustl.edu	37	19	31767980	31767980	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-D1-A163-01A-11D-A12J-09	TCGA-D1-A163-10A-01D-A12J-09	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_020856.2	-1	validated	p.Q907K	1.000	89	0%	83	42.2%	4	0%	possibly_damaging(0.643)	deleterious(0)	deleterious(0.670)	HMMPfam_Homeobox,HMMSmart_HOX,superfamily_Homeodomain_like
USF2	7392	genome.wustl.edu	37	19	35760579	35760579	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-D1-A163-01A-11D-A12J-09	TCGA-D1-A163-10A-01D-A12J-09	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_003367.2	+1	reviewed	p.R69C	1.000	22	0%	22	54.5%	179	39.1%	probably_damaging(1)	deleterious(0)	deleterious(0.945)	NULL
NPHS1	4868	genome.wustl.edu	37	19	36336316	36336316	+	Silent	SNP	G	G	A	novel		TCGA-D1-A163-01A-11D-A12J-09	TCGA-D1-A163-10A-01D-A12J-09	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_004646.3	-1	reviewed	p.A628	0.000	35	0%	35	28.6%	0	-	-	-	-	HMMSmart_SM00408,HMMSmart_SM00409,HMMPfam_C2-set_2,superfamily_Immunoglobulin
KIRREL2	84063	genome.wustl.edu	37	19	36352463	36352463	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-D1-A163-01A-11D-A12J-09	TCGA-D1-A163-10A-01D-A12J-09	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_199180.2	+1	validated	p.L404M	0.998	137	0%	103	11.7%	0	-	probably_damaging(0.976)	deleterious(0.02)	deleterious(0.801)	HMMSmart_SM00409,superfamily_Immunoglobulin
CLIP3	25999	genome.wustl.edu	37	19	36517548	36517548	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-D1-A163-01A-11D-A12J-09	TCGA-D1-A163-10A-01D-A12J-09	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_015526.1	-1	provisional	p.A168T	1.000	79	0%	66	37.9%	15	6.6%	probably_damaging(1)	deleterious(0)	deleterious(0.945)	HMMPfam_Ank,HMMSmart_SM00248,superfamily_Ankyrin repeat
COX7A1	1346	genome.wustl.edu	37	19	36642647	36642647	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-D1-A163-01A-11D-A12J-09	TCGA-D1-A163-10A-01D-A12J-09	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001864.2	-1	reviewed	p.A9E	0.004	62	0%	38	39.5%	29	0%	probably_damaging(0.957)	deleterious(0.04)	deleterious(0.750)	NULL
SAMD4B	55095	genome.wustl.edu	37	19	39871333	39871333	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-D1-A163-01A-11D-A12J-09	TCGA-D1-A163-10A-01D-A12J-09	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_018028.2	+1	provisional	p.G586S	0.813	10	0%	14	35.7%	57	10.5%	benign(0.003)	tolerated(0.51)	neutral(0.009)	NULL
PLEKHG2	64857	genome.wustl.edu	37	19	39913534	39913534	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-D1-A163-01A-11D-A12J-09	TCGA-D1-A163-10A-01D-A12J-09	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_022835.2	+1	validated	p.V614I	0.932	69	0%	61	39.3%	26	19.2%	possibly_damaging(0.631)	deleterious(0)	deleterious(0.665)	NULL
PRX	57716	genome.wustl.edu	37	19	40902660	40902660	+	Silent	SNP	C	C	T	novel		TCGA-D1-A163-01A-11D-A12J-09	TCGA-D1-A163-10A-01D-A12J-09	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_181882.2	-1	reviewed	p.V533	0.924	68	0%	64	34.4%	0	-	-	-	-	NULL
CCDC97	90324	genome.wustl.edu	37	19	41828581	41828581	+	Silent	SNP	A	A	G	novel		TCGA-D1-A163-01A-11D-A12J-09	TCGA-D1-A163-10A-01D-A12J-09	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_052848.1	+1	provisional	p.E331	0.869	161	0%	126	35.7%	63	39.6%	-	-	-	NULL
CIC	23152	genome.wustl.edu	37	19	42795134	42795134	+	Silent	SNP	C	C	A	novel		TCGA-D1-A163-01A-11D-A12J-09	TCGA-D1-A163-10A-01D-A12J-09	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_015125.3	+1	validated	p.T738	0.995	19	0%	18	50%	40	32.5%	-	-	-	NULL
MEGF8	1954	genome.wustl.edu	37	19	42848154	42848154	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-D1-A163-01A-11D-A12J-09	TCGA-D1-A163-10A-01D-A12J-09	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001410.2	+1	validated	p.R573W	0.999	74	0%	66	39.4%	14	35.7%	probably_damaging(0.997)	deleterious(0.02)	deleterious(0.849)	HMMSmart_PSI
CEACAM19	56971	genome.wustl.edu	37	19	45179563	45179563	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-D1-A163-01A-11D-A12J-09	TCGA-D1-A163-10A-01D-A12J-09	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_020219.3	+1	validated	p.S149G	0.000	119	0%	94	44.7%	2	50%	benign(0.002)	tolerated(0.45)	neutral(0.012)	NULL
CLASRP	11129	genome.wustl.edu	37	19	45563845	45563845	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-D1-A163-01A-11D-A12J-09	TCGA-D1-A163-10A-01D-A12J-09	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_007056.2	+1	validated	p.R275W	1.000	88	0%	78	32.1%	24	37.5%	unknown(0)	deleterious(0)	-	NULL
NKPD1	284353	genome.wustl.edu	37	19	45656197	45656197	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-D1-A163-01A-11D-A12J-09	TCGA-D1-A163-10A-01D-A12J-09	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_198478.3	-1	inferred	p.A278T	0.979	12	0%	11	45.5%	0	-	benign(0.018)	tolerated(0.21)	neutral(0.044)	HMMPfam_KAP_NTPase
PPP5C	5536	genome.wustl.edu	37	19	46893580	46893580	+	Silent	SNP	C	C	T	novel		TCGA-D1-A163-01A-11D-A12J-09	TCGA-D1-A163-10A-01D-A12J-09	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_006247.2	+1	provisional	p.L493	1.000	134	0%	85	31.8%	135	42.2%	-	-	-	superfamily_Metallo-dependent phosphatases
ARHGAP35	2909	genome.wustl.edu	37	19	47424526	47424540	+	In_Frame_Del	DEL	CCTCTTTGGCTATGT	CCTCTTTGGCTATGT	-	novel		TCGA-D1-A163-01A-11D-A12J-09	TCGA-D1-A163-10A-01D-A12J-09	CCTCTTTGGCTATGT	CCTCTTTGGCTATGT					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_004491.4	+1	reviewed	p.ASLAML865in_frame_delV	1.000:1.000:1.000:1.000:0.992:0.992:1.000:1.000:1.000:1.000:1.000:1.000:1.000:1.000:0.992	-	-	-	-	-	-	-	-	-	NULL
PPP1R15A	23645	genome.wustl.edu	37	19	49379179	49379179	+	Silent	SNP	C	C	T	novel		TCGA-D1-A163-01A-11D-A12J-09	TCGA-D1-A163-10A-01D-A12J-09	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_014330.3	+1	validated	p.R658	0.000	63	0%	47	42.6%	181	39.2%	-	-	-	NULL
HRC	3270	genome.wustl.edu	37	19	49657496	49657496	+	Silent	SNP	T	T	C	novel		TCGA-D1-A163-01A-11D-A12J-09	TCGA-D1-A163-10A-01D-A12J-09	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_002152.2	-1	reviewed	p.S333	0.013	421	0%	392	17.1%	2	0%	-	-	-	HMMPfam_Hist_rich_Ca-bd
TEAD2	8463	genome.wustl.edu	37	19	49862735	49862735	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-D1-A163-01A-11D-A12J-09	TCGA-D1-A163-10A-01D-A12J-09	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_003598.1	-1	provisional	p.R85H	1.000	270	0.7%	196	35.7%	88	43.1%	probably_damaging(0.999)	deleterious(0)	deleterious(0.935)	HMMPfam_TEA,HMMSmart_TEA,PatternScan_TEA_1
ALDH16A1	126133	genome.wustl.edu	37	19	49967456	49967456	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-D1-A163-01A-11D-A12J-09	TCGA-D1-A163-10A-01D-A12J-09	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_153329.3	+1	reviewed	p.P423S	0.876	42	0%	35	45.7%	82	35.3%	probably_damaging(1)	tolerated(0.47)	deleterious(0.511)	HMMPfam_Aldedh,superfamily_ALDH-like
SIGLEC11	114132	genome.wustl.edu	37	19	50463829	50463829	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-D1-A163-01A-11D-A12J-09	TCGA-D1-A163-10A-01D-A12J-09	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_052884.2	-1	validated	p.A147V	0.000	216	0.5%	155	18.1%	0	-	benign(0.001)	tolerated(0.24)	neutral(0.037)	HMMSmart_SM00409,HMMPfam_V-set,superfamily_Immunoglobulin
KLK10	5655	genome.wustl.edu	37	19	51519333	51519333	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-D1-A163-01A-11D-A12J-09	TCGA-D1-A163-10A-01D-A12J-09	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001077500.1	-1	reviewed	p.V117F	0.000	49	0%	36	30.6%	33	33.3%	benign(0)	tolerated(0.72)	neutral(0.002)	HMMPfam_Trypsin,HMMSmart_SM00020,superfamily_Trypsin-like serine proteases
ZNF611	81856	genome.wustl.edu	37	19	53209631	53209631	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-D1-A163-01A-11D-A12J-09	TCGA-D1-A163-10A-01D-A12J-09	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_030972.3	-1	validated	p.M226T	0.421	341	0%	404	41.6%	3	33.3%	benign(0.001)	tolerated(1)	-	superfamily_C2H2 and C2HC zinc fingers
ZNF765	91661	genome.wustl.edu	37	19	53911669	53911669	+	Silent	SNP	A	A	T	novel		TCGA-D1-A163-01A-11D-A12J-09	TCGA-D1-A163-10A-01D-A12J-09	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001040185.1	+1	provisional	p.T287	0.000	166	0%	179	41.9%	6	33.3%	-	-	-	HMMPfam_zf-C2H2,PatternScan_ZINC_FINGER_C2H2_1,HMMSmart_SM00355,superfamily_C2H2 and C2HC zinc fingers
SLC4A11	83959	genome.wustl.edu	37	20	3209351	3209351	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-D1-A163-01A-11D-A12J-09	TCGA-D1-A163-10A-01D-A12J-09	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_032034.3	-1	reviewed	p.I748T	0.997	34	0%	45	28.9%	34	61.7%	probably_damaging(0.996)	deleterious(0)	deleterious(0.906)	HMMPfam_HCO3_cotransp
DLGAP4	22839	genome.wustl.edu	37	20	35060658	35060658	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-D1-A163-01A-11D-A12J-09	TCGA-D1-A163-10A-01D-A12J-09	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_014902.4	+1	reviewed	p.R180W	1.000	19	0%	36	50%	0	-	probably_damaging(1)	deleterious(0)	deleterious(0.945)	NULL
RIMS4	140730	genome.wustl.edu	37	20	43384832	43384832	+	Silent	SNP	C	C	T	novel		TCGA-D1-A163-01A-11D-A12J-09	TCGA-D1-A163-10A-01D-A12J-09	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_182970.2	-1	validated	p.R251	1.000	39	0%	50	20%	0	-	-	-	-	NULL
WFDC5	149708	genome.wustl.edu	37	20	43738576	43738576	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-D1-A163-01A-11D-A12J-09	TCGA-D1-A163-10A-01D-A12J-09	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	ENST00000307971	-1	known	p.A158T	0.580	126	0%	95	38.9%	0	-	benign(0.001)	tolerated(0.05)	neutral(0.345)	NULL
SLC35C2	51006	genome.wustl.edu	37	20	44983551	44983551	+	Nonsense_Mutation	SNP	C	C	T	novel		TCGA-D1-A163-01A-11D-A12J-09	TCGA-D1-A163-10A-01D-A12J-09	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	ENST00000372223	-1	known	p.W165*	1.000	123	0%	101	32.7%	59	52.5%	-	-	-	NULL
C20orf123	128506	genome.wustl.edu	37	20	45170455	45170455	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-D1-A163-01A-11D-A12J-09	TCGA-D1-A163-10A-01D-A12J-09	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	XM_002343721.1	-1	model	p.A381T	0.000	17	0%	18	55.6%	0	-	possibly_damaging(0.565)	tolerated(0.6)	neutral(0.198)	HMMPfam_DC_STAMP
SALL4	57167	genome.wustl.edu	37	20	50407931	50407931	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-D1-A163-01A-11D-A12J-09	TCGA-D1-A163-10A-01D-A12J-09	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_020436.3	-1	reviewed	p.P364L	0.098	121	0%	98	44.9%	0	-	probably_damaging(0.98)	deleterious(0)	deleterious(0.869)	NULL
TSHZ2	128553	genome.wustl.edu	37	20	51870611	51870611	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-D1-A163-01A-11D-A12J-09	TCGA-D1-A163-10A-01D-A12J-09	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_173485.4	+1	validated	p.C205Y	1.000	86	0%	68	29.4%	5	20%	benign(0)	tolerated(1)	-	NULL
YTHDF1	54915	genome.wustl.edu	37	20	61833787	61833787	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-D1-A163-01A-11D-A12J-09	TCGA-D1-A163-10A-01D-A12J-09	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_017798.3	-1	validated	p.V502A	1.000	399	0.3%	329	18.2%	38	21%	probably_damaging(0.968)	deleterious(0.01)	deleterious(0.816)	HMMPfam_YTH
GRIK1	2897	genome.wustl.edu	37	21	30953854	30953854	+	Silent	SNP	G	G	T	novel		TCGA-D1-A163-01A-11D-A12J-09	TCGA-D1-A163-10A-01D-A12J-09	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_000830.3	-1	reviewed	p.P601	1.000	193	0%	197	39.1%	0	-	-	-	-	HMMPfam_Lig_chan,HMMSmart_SM00079,superfamily_Periplasmic binding protein-like II
TIAM1	7074	genome.wustl.edu	37	21	32492822	32492822	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-D1-A163-01A-11D-A12J-09	TCGA-D1-A163-10A-01D-A12J-09	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_003253.2	-1	validated	p.A1547V	0.976	96	0%	84	15.5%	12	0%	benign(0)	deleterious(0.01)	neutral(0.406)	NULL
SYNJ1	8867	genome.wustl.edu	37	21	34072284	34072284	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-D1-A163-01A-11D-A12J-09	TCGA-D1-A163-10A-01D-A12J-09	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_003895.3	-1	validated	p.R115C	1.000	169	0%	126	45.2%	3	0%	probably_damaging(1)	deleterious(0)	deleterious(0.945)	HMMPfam_Syja_N
SLC19A1	6573	genome.wustl.edu	37	21	46951391	46951391	+	Silent	SNP	G	G	A	novel		TCGA-D1-A163-01A-11D-A12J-09	TCGA-D1-A163-10A-01D-A12J-09	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	ENST00000417954	-1	known	p.T22M	1.000	33	3%	18	38.9%	25	4%	-	-	-	HMMPfam_Folate_carrier
COL6A2	1292	genome.wustl.edu	37	21	47545866	47545866	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-D1-A163-01A-11D-A12J-09	TCGA-D1-A163-10A-01D-A12J-09	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001849.3	+1	reviewed	p.R713C	1.000	52	0%	62	43.5%	387	0%	possibly_damaging(0.796)	-	-	HMMPfam_VWA,HMMSmart_SM00327,superfamily_vWA-like
LOC100288508	100288508	genome.wustl.edu	37	21	47546392	47546393	+	In_Frame_Ins	INS	-	-	CCCGGCCCGGCGCGT	novel		TCGA-D1-A163-01A-11D-A12J-09	TCGA-D1-A163-10A-01D-A12J-09	-	-					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	XM_002343757.1	-1	model	p.184in_frame_insTRRAG	0.002:0.025	-	-	-	-	-	-	-	-	-	NULL
DGCR8	54487	genome.wustl.edu	37	22	20077734	20077734	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-D1-A163-01A-11D-A12J-09	TCGA-D1-A163-10A-01D-A12J-09	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_022720.5	+1	validated	p.L420P	1.000	60	0%	47	21.3%	13	7.6%	benign(0.214)	tolerated(0.06)	neutral(0.344)	NULL
RTDR1	27156	genome.wustl.edu	37	22	23401731	23401731	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-D1-A163-01A-11D-A12J-09	TCGA-D1-A163-10A-01D-A12J-09	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_014433.2	-1	reviewed	p.M319T	0.001	114	0%	87	36.8%	0	-	benign(0.001)	tolerated(0.36)	neutral(0.020)	NULL
SRRD	402055	genome.wustl.edu	37	22	26884164	26884165	+	Frame_Shift_Del	DEL	GT	GT	-	novel		TCGA-D1-A163-01A-11D-A12J-09	TCGA-D1-A163-10A-01D-A12J-09	GT	GT					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001013694.2	+1	validated	p.C143fs	1.000:1.000	-	-	-	-	-	-	-	-	-	HMMPfam_SRR1
SMTN	6525	genome.wustl.edu	37	22	31486113	31486113	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-D1-A163-01A-11D-A12J-09	TCGA-D1-A163-10A-01D-A12J-09	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_134270.1	+1	reviewed	p.E271G	0.997	110	0%	103	14.6%	29	20.6%	probably_damaging(0.998)	deleterious(0)	deleterious(0.919)	NULL
SLC5A4	6527	genome.wustl.edu	37	22	32630892	32630892	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-D1-A163-01A-11D-A12J-09	TCGA-D1-A163-10A-01D-A12J-09	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_014227.2	-1	validated	p.I285V	0.050	105	0%	89	22.5%	1	0%	benign(0.001)	tolerated(0.26)	neutral(0.034)	HMMPfam_SSF
CDC42EP1	11135	genome.wustl.edu	37	22	37962729	37962729	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-D1-A163-01A-11D-A12J-09	TCGA-D1-A163-10A-01D-A12J-09	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_152243.2	+1	reviewed	p.L125F	1.000	142	0%	131	21.4%	194	21.6%	probably_damaging(1)	deleterious(0.01)	deleterious(0.905)	NULL
H1F0	3005	genome.wustl.edu	37	22	38201781	38201781	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-D1-A163-01A-11D-A12J-09	TCGA-D1-A163-10A-01D-A12J-09	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_005318.3	+1	reviewed	p.T77I	1.000	107	0%	89	51.7%	307	43.9%	benign(0.424)	tolerated(0.1)	neutral(0.424)	"HMMPfam_Linker_histone,HMMSmart_SM00526,superfamily_""Winged helix"" DNA-binding domain"
CBX7	23492	genome.wustl.edu	37	22	39530030	39530030	+	Missense_Mutation	SNP	G	G	C	novel		TCGA-D1-A163-01A-11D-A12J-09	TCGA-D1-A163-10A-01D-A12J-09	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_175709.3	-1	validated	p.P208A	0.989	56	0%	63	41.3%	1	0%	benign(0.038)	deleterious(0.01)	neutral(0.408)	NULL
NAGA	4668	genome.wustl.edu	37	22	42463260	42463260	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-D1-A163-01A-11D-A12J-09	TCGA-D1-A163-10A-01D-A12J-09	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_000262.2	-1	reviewed	p.A120V	0.028	128	0%	122	32.8%	66	34.8%	possibly_damaging(0.437)	tolerated(0.06)	neutral(0.465)	superfamily_Glyco_hydro_cat
PRR5	55615	genome.wustl.edu	37	22	45132772	45132772	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-D1-A163-01A-11D-A12J-09	TCGA-D1-A163-10A-01D-A12J-09	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_181333.2	+1	reviewed	p.A271V	0.001	7	0.000	5	0.800	33	27.2%	benign(0.01)	tolerated(0.51)	neutral(0.009)	NULL
CRELD2	79174	genome.wustl.edu	37	22	50313456	50313456	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-D1-A163-01A-11D-A12J-09	TCGA-D1-A163-10A-01D-A12J-09	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_024324.3	+1	validated	p.Q97H	0.827	154	0%	125	40%	88	36.3%	benign(0)	tolerated(1)	-	NULL
HDAC10	83933	genome.wustl.edu	37	22	50686525	50686525	+	Silent	SNP	C	C	T	novel		TCGA-D1-A163-01A-11D-A12J-09	TCGA-D1-A163-10A-01D-A12J-09	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_032019.5	-1	validated	p.R377	0.000	32	0%	13	38.5%	39	41%	-	-	-	superfamily_Arginase/deacetylase
MAPK8IP2	23542	genome.wustl.edu	37	22	51042077	51042077	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-D1-A163-01A-11D-A12J-09	TCGA-D1-A163-10A-01D-A12J-09	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	ENST00000329492	+1	known	p.G157D	0.881	31	0%	22	40.9%	2	0%	possibly_damaging(0.895)	deleterious(0.01)	deleterious(0.758)	NULL
GPM6B	2824	genome.wustl.edu	37	X	13791103	13791103	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-D1-A163-01A-11D-A12J-09	TCGA-D1-A163-10A-01D-A12J-09	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001001995.1	-1	reviewed	p.D295G	1.000	445	0%	430	40.9%	25	100%	benign(0.005)	tolerated(0.05)	neutral(0.345)	HMMPfam_Myelin_PLP
ZRSR2	8233	genome.wustl.edu	37	X	15838412	15838412	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-D1-A163-01A-11D-A12J-09	TCGA-D1-A163-10A-01D-A12J-09	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_005089.3	+1	reviewed	p.V304M	1.000	357	0%	301	21.3%	25	12%	probably_damaging(1)	deleterious(0.01)	deleterious(0.905)	NULL
FAM47A	158724	genome.wustl.edu	37	X	34148214	34148214	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-D1-A163-01A-11D-A12J-09	TCGA-D1-A163-10A-01D-A12J-09	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_203408.3	-1	validated	p.D728N	0.001	390	0%	372	37.6%	0	-	probably_damaging(0.999)	deleterious(0.01)	deleterious(0.896)	NULL
FAM47B	170062	genome.wustl.edu	37	X	34961523	34961523	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-D1-A163-01A-11D-A12J-09	TCGA-D1-A163-10A-01D-A12J-09	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_152631.2	+1	validated	p.P192L	0.516	57	0%	73	45.2%	0	-	probably_damaging(0.996)	tolerated(0.05)	deleterious(0.807)	NULL
FAM47B	170062	genome.wustl.edu	37	X	34961705	34961705	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-D1-A163-01A-11D-A12J-09	TCGA-D1-A163-10A-01D-A12J-09	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_152631.2	+1	validated	p.E253K	0.128	86	0%	92	35.9%	0	-	benign(0.006)	tolerated(0.42)	neutral(0.014)	NULL
SRPX	8406	genome.wustl.edu	37	X	38019347	38019347	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-D1-A163-01A-11D-A12J-09	TCGA-D1-A163-10A-01D-A12J-09	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_006307.4	-1	validated	p.G293D	1.000	114	0.9%	88	38.6%	0	-	probably_damaging(1)	deleterious(0)	deleterious(0.945)	HMMPfam_Sushi,HMMSmart_SM00032,superfamily_Complement control module/SCR domain
BCOR	54880	genome.wustl.edu	37	X	39922122	39922122	+	Silent	SNP	G	G	A	novel		TCGA-D1-A163-01A-11D-A12J-09	TCGA-D1-A163-10A-01D-A12J-09	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	ENST00000427012	-1	known	p.T45I	1.000	488	0.2%	336	47.6%	18	100%	-	-	-	NULL
MAOB	4129	genome.wustl.edu	37	X	43656379	43656379	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-D1-A163-01A-11D-A12J-09	TCGA-D1-A163-10A-01D-A12J-09	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_000898.4	-1	reviewed	p.G204E	1.000	191	0%	180	22.8%	1	0%	probably_damaging(1)	deleterious(0)	deleterious(0.945)	HMMPfam_Amino_oxidase,superfamily_FAD/NAD(P)-binding domain
DUSP21	63904	genome.wustl.edu	37	X	44703624	44703624	+	Silent	SNP	C	C	T	novel		TCGA-D1-A163-01A-11D-A12J-09	TCGA-D1-A163-10A-01D-A12J-09	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_022076.3	+1	reviewed	p.Y82	0.002	208	0%	208	37.5%	0	-	-	-	-	HMMPfam_DSPc,HMMSmart_DSPc,superfamily_SSF52799
ZNF81	347344	genome.wustl.edu	37	X	47775781	47775781	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-D1-A163-01A-11D-A12J-09	TCGA-D1-A163-10A-01D-A12J-09	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_007137.3	+1	reviewed	p.E579G	1.000	218	0%	176	42%	0	-	possibly_damaging(0.725)	deleterious(0)	deleterious(0.708)	superfamily_SSF57667
SLC38A5	92745	genome.wustl.edu	37	X	48319117	48319117	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-D1-A163-01A-11D-A12J-09	TCGA-D1-A163-10A-01D-A12J-09	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_033518.2	-1	validated	p.S329N	0.963	75	0%	50	18%	3	0%	benign(0.021)	tolerated(0.23)	neutral(0.043)	HMMPfam_Aa_trans
GPKOW	27238	genome.wustl.edu	37	X	48976078	48976078	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-D1-A163-01A-11D-A12J-09	TCGA-D1-A163-10A-01D-A12J-09	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	ENST00000327905	-1	known	p.H173Y	1.000	150	0%	114	47.4%	41	0%	-	-	-	NULL
GAGE8	100101629	genome.wustl.edu	37	X	49208300	49208300	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-D1-A163-01A-11D-A12J-09	TCGA-D1-A163-10A-01D-A12J-09	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_012196.1	+1	reviewed	p.R10Q	0.000	1557	0.1%	1500	7.9%	0	-	probably_damaging(0.978)	tolerated(0.42)	neutral(0.434)	HMMPfam_GAGE
SMC1A	8243	genome.wustl.edu	37	X	53432426	53432426	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-D1-A163-01A-11D-A12J-09	TCGA-D1-A163-10A-01D-A12J-09	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_006306.2	-1	reviewed	p.K637R	1.000	51	0%	68	45.6%	37	27%	possibly_damaging(0.92)	tolerated(0.27)	neutral(0.404)	HMMPfam_SMC_N,superfamily_SMC_hinge,superfamily_SSF52540
PAGE5	90737	genome.wustl.edu	37	X	55247058	55247058	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-D1-A163-01A-11D-A12J-09	TCGA-D1-A163-10A-01D-A12J-09	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_130467.3	+1	reviewed	p.R9H	0.003	133	0%	110	23.6%	0	-	possibly_damaging(0.756)	-	-	NULL
AR	367	genome.wustl.edu	37	X	66863242	66863242	+	Silent	SNP	C	C	T	novel		TCGA-D1-A163-01A-11D-A12J-09	TCGA-D1-A163-10A-01D-A12J-09	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_000044.2	+1	reviewed	p.A587	0.061	248	0%	221	42.1%	1	0%	-	-	-	HMMPfam_zf-C4,HMMSmart_SM00399,superfamily_Glucocorticoid receptor-like (DNA-binding domain)
KIF4A	24137	genome.wustl.edu	37	X	69607097	69607097	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-D1-A163-01A-11D-A12J-09	TCGA-D1-A163-10A-01D-A12J-09	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_012310.4	+1	reviewed	p.R728W	1.000	272	0.4%	211	41.2%	13	0%	probably_damaging(1)	deleterious(0)	deleterious(0.945)	NULL
CHIC1	53344	genome.wustl.edu	37	X	72783203	72783203	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-D1-A163-01A-11D-A12J-09	TCGA-D1-A163-10A-01D-A12J-09	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001039840.2	+1	validated	p.S28L	0.998	22	0%	13	46.2%	4	0%	unknown(0)	deleterious(0.01)	-	NULL
BRWD3	254065	genome.wustl.edu	37	X	79988955	79988955	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-D1-A163-01A-11D-A12J-09	TCGA-D1-A163-10A-01D-A12J-09	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_153252.4	-1	reviewed	p.S376N	1.000	225	0%	217	41%	5	0%	possibly_damaging(0.878)	deleterious(0.02)	deleterious(0.725)	HMMSmart_SM00320,superfamily_YVTN repeat-like/Quinoprotein amine dehydrogenase,HMMPfam_WD40
TRMT2B	79979	genome.wustl.edu	37	X	100276155	100276155	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-D1-A163-01A-11D-A12J-09	TCGA-D1-A163-10A-01D-A12J-09	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_024917.5	-1	reviewed	p.R334Q	0.000	315	0.6%	285	40.4%	11	63.6%	benign(0.033)	tolerated(1)	neutral(0.002)	superfamily_S-adenosyl-L-methionine-dependent methyltransferases
MORC4	79710	genome.wustl.edu	37	X	106186065	106186067	+	In_Frame_Del	DEL	CTT	CTT	-	novel		TCGA-D1-A163-01A-11D-A12J-09	TCGA-D1-A163-10A-01D-A12J-09	CTT	CTT					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_024657.4	-1	reviewed	p.E685in_frame_del	0.320:0.343:0.366	-	-	-	-	-	-	-	-	-	NULL
MID2	11043	genome.wustl.edu	37	X	107084522	107084522	+	Silent	SNP	T	T	C	novel		TCGA-D1-A163-01A-11D-A12J-09	TCGA-D1-A163-10A-01D-A12J-09	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_012216.3	+1	reviewed	p.S209	1.000	63	0%	42	11.9%	9	0%	-	-	-	HMMPfam_zf-B_box,HMMSmart_SM00336,superfamily_B-box zinc-binding domain
LOC100288324	100288324	genome.wustl.edu	37	X	110653417	110653417	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-D1-A163-01A-11D-A12J-09	TCGA-D1-A163-10A-01D-A12J-09	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	XM_002343839.1	+1	model	p.V206I	1.000	404	0%	397	38.5%	4	100%	-	-	-	NULL
AMOT	154796	genome.wustl.edu	37	X	112065826	112065826	+	Nonsense_Mutation	SNP	G	G	A	novel		TCGA-D1-A163-01A-11D-A12J-09	TCGA-D1-A163-10A-01D-A12J-09	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001113490.1	-1	reviewed	p.R177*	1.000	394	0.5%	312	46.8%	5	100%	-	-	-	NULL
SLC6A14	11254	genome.wustl.edu	37	X	115588909	115588909	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-D1-A163-01A-11D-A12J-09	TCGA-D1-A163-10A-01D-A12J-09	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_007231.3	+1	reviewed	p.I583M	0.171	498	0%	432	41%	7	14.2%	benign(0.008)	tolerated(0.13)	neutral(0.253)	HMMPfam_SNF
NKAP	79576	genome.wustl.edu	37	X	119070643	119070643	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-D1-A163-01A-11D-A12J-09	TCGA-D1-A163-10A-01D-A12J-09	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_024528.3	-1	reviewed	p.S157F	1.000	205	0%	187	41.2%	17	88.2%	unknown(0)	deleterious(0)	-	NULL
ODZ1	10178	genome.wustl.edu	37	X	123519701	123519701	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-D1-A163-01A-11D-A12J-09	TCGA-D1-A163-10A-01D-A12J-09	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_014253.3	-1	reviewed	p.H1961Y	0.973	306	0%	231	41.1%	0	-	benign(0)	tolerated(1)	-	NULL
ODZ1	10178	genome.wustl.edu	37	X	123699281	123699281	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-D1-A163-01A-11D-A12J-09	TCGA-D1-A163-10A-01D-A12J-09	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_014253.3	-1	reviewed	p.C736Y	1.000	269	0.4%	251	37.1%	0	-	probably_damaging(1)	deleterious(0)	deleterious(0.945)	HMMSmart_EGF,HMMPfam_EGF_2
BCORL1	63035	genome.wustl.edu	37	X	129147462	129147462	+	Silent	SNP	A	A	G	novel		TCGA-D1-A163-01A-11D-A12J-09	TCGA-D1-A163-10A-01D-A12J-09	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_021946.3	+1	reviewed	p.P238	0.999	227	0%	248	35.1%	4	0%	-	-	-	NULL
RBMX2	51634	genome.wustl.edu	37	X	129546701	129546701	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-D1-A163-01A-11D-A12J-09	TCGA-D1-A163-10A-01D-A12J-09	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_016024.2	+1	validated	p.R283H	0.000	153	0%	128	39.8%	25	96%	unknown(0)	tolerated(0.33)	-	NULL
ZIC3	7547	genome.wustl.edu	37	X	136649225	136649225	+	Silent	SNP	C	C	T	novel		TCGA-D1-A163-01A-11D-A12J-09	TCGA-D1-A163-10A-01D-A12J-09	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_003413.3	+1	reviewed	p.S125	0.334	17	0.000	8	0.625	0	-	-	-	-	NULL
MAMLD1	10046	genome.wustl.edu	37	X	149638421	149638421	+	Missense_Mutation	SNP	T	T	G	novel		TCGA-D1-A163-01A-11D-A12J-09	TCGA-D1-A163-10A-01D-A12J-09	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_005491.3	+1	reviewed	p.N192K	0.067	69	0%	61	34.4%	0	-	benign(0.273)	deleterious(0.02)	neutral(0.412)	NULL
NSDHL	50814	genome.wustl.edu	37	X	152031181	152031181	+	Silent	SNP	C	C	T	novel		TCGA-D1-A163-01A-11D-A12J-09	TCGA-D1-A163-10A-01D-A12J-09	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001129765.1	+1	reviewed	p.G152	0.000	398	0.3%	332	40.1%	23	0%	-	-	-	HMMPfam_3Beta_HSD,superfamily_NAD(P)-bd
IDH3G	3421	genome.wustl.edu	37	X	153055275	153055275	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-D1-A163-01A-11D-A12J-09	TCGA-D1-A163-10A-01D-A12J-09	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_004135.2	-1	reviewed	p.A80T	0.999	95	1.1%	95	34.7%	104	82.6%	benign(0.005)	tolerated(0.17)	neutral(0.059)	HMMPfam_Iso_dh,superfamily_SSF53659
HCFC1	3054	genome.wustl.edu	37	X	153218062	153218062	+	Silent	SNP	C	C	T	novel		TCGA-D1-A163-01A-11D-A12J-09	TCGA-D1-A163-10A-01D-A12J-09	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	ENST00000444191	-1	known	p.G190S	0.728	22	0%	17	58.8%	42	80.9%	-	-	-	NULL
HCFC1	3054	genome.wustl.edu	37	X	153221675	153221675	+	Silent	SNP	T	T	C	novel		TCGA-D1-A163-01A-11D-A12J-09	TCGA-D1-A163-10A-01D-A12J-09	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_005334.2	-1	reviewed	p.A941	0.001	142	0%	109	38.5%	47	2.1%	-	-	-	NULL
