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
CDK11B	984	genome.wustl.edu	37	1	1576469	1576471	+	In_Frame_Del	DEL	CTT	CTT	-	novel		TCGA-D1-A177-01	TCGA-D1-A177-01	CTT	CTT					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_033487.1	-1	reviewed	p.E82in_frame_del	1.000:1.000:1.000	-	-	-	-	-	-	-	-	-	NULL
NADK	65220	genome.wustl.edu	37	1	1684396	1684396	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-D1-A177-01	TCGA-D1-A177-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_023018.3	-1	validated	p.R430W	0.994	85	0%	110	46.4%	62	45.1%	probably_damaging(1)	deleterious(0)	deleterious(0.945)	superfamily_NAD kinase (Pfam 01513)
C1orf222	339457	genome.wustl.edu	37	1	1854876	1854876	+	Silent	SNP	G	G	A	novel		TCGA-D1-A177-01	TCGA-D1-A177-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	ENST00000493964	-1	known	p.G767	0.734	39	0%	76	43.4%	0	-	-	-	-	NULL
DFFB	1677	genome.wustl.edu	37	1	3775365	3775365	+	Silent	SNP	C	C	T	novel		TCGA-D1-A177-01	TCGA-D1-A177-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_004402.2	+1	reviewed	p.N66	0.686	63	0%	97	34%	55	45.4%	-	-	-	HMMPfam_CIDE-N,HMMSmart_SM00266,superfamily_CAD  PB1 domains
C1orf174	339448	genome.wustl.edu	37	1	3807205	3807205	+	Silent	SNP	G	G	A	novel		TCGA-D1-A177-01	TCGA-D1-A177-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_207356.2	-1	validated	p.S182	0.001	255	0%	331	44.4%	89	46%	-	-	-	NULL
ICMT	23463	genome.wustl.edu	37	1	6285299	6285299	+	Silent	SNP	G	G	A	novel		TCGA-D1-A177-01	TCGA-D1-A177-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_012405.3	-1	reviewed	p.C232	0.650	53	0%	54	48.1%	80	50%	-	-	-	HMMPfam_ICMT
TNFRSF25	8718	genome.wustl.edu	37	1	6524629	6524629	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-D1-A177-01	TCGA-D1-A177-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_148965.1	-1	reviewed	p.R149H	0.351	198	0%	220	43.6%	0	-	probably_damaging(0.98)	tolerated(0.1)	deleterious(0.710)	NULL
CAMTA1	23261	genome.wustl.edu	37	1	7725109	7725109	+	Silent	SNP	C	C	T	novel		TCGA-D1-A177-01	TCGA-D1-A177-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_015215.1	+1	validated	p.S834	1.000	20	0%	22	40.9%	0	-	-	-	-	NULL
KIF1B	23095	genome.wustl.edu	37	1	10425479	10425479	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-D1-A177-01	TCGA-D1-A177-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_015074.3	+1	reviewed	p.R1463S	0.998	167	0%	273	47.6%	6	50%	probably_damaging(0.998)	deleterious(0)	deleterious(0.919)	NULL
TNFRSF8	943	genome.wustl.edu	37	1	12157168	12157168	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-D1-A177-01	TCGA-D1-A177-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	ENST00000514649	+1	known	p.R25Q	0.000	163	0%	188	50%	0	-	unknown(0)	-	-	NULL
VPS13D	55187	genome.wustl.edu	37	1	12378381	12378381	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-D1-A177-01	TCGA-D1-A177-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_015378.2	+1	reviewed	p.K2467N	1.000	273	0%	307	42.7%	5	40%	probably_damaging(0.999)	deleterious(0)	deleterious(0.935)	NULL
PRAMEF7	441871	genome.wustl.edu	37	1	12979699	12979699	+	Silent	SNP	C	C	T	novel		TCGA-D1-A177-01	TCGA-D1-A177-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001012277.1	+1	provisional	p.V297	0.000	256	0%	300	31%	0	-	-	-	-	superfamily_RNI-like
KAZ	23254	genome.wustl.edu	37	1	15287252	15287252	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-D1-A177-01	TCGA-D1-A177-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_201628.2	+1	validated	p.A100V	0.960	51	0%	63	46%	3	33.3%	benign(0.013)	tolerated(0.13)	neutral(0.253)	NULL
SLC25A34	284723	genome.wustl.edu	37	1	16065123	16065123	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-D1-A177-01	TCGA-D1-A177-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_207348.1	+1	provisional	p.A211V	0.969	96	0%	136	41.2%	0	-	benign(0)	tolerated(0.89)	-	superfamily_Mitoch_carrier,HMMPfam_Mito_carr
ATP13A2	23400	genome.wustl.edu	37	1	17330837	17330837	+	Missense_Mutation	SNP	A	A	T	novel		TCGA-D1-A177-01	TCGA-D1-A177-01	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_022089.2	-1	reviewed	p.Y183N	0.384	112	0%	160	46.3%	64	42.1%	benign(0.01)	tolerated(0.56)	neutral(0.007)	superfamily_Calcium ATPase transmembrane domain M
ALDH4A1	8659	genome.wustl.edu	37	1	19216559	19216559	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-D1-A177-01	TCGA-D1-A177-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_003748.3	-1	reviewed	p.E35K	0.999	72	0%	88	48.9%	10	40%	probably_damaging(0.998)	deleterious(0)	deleterious(0.919)	superfamily_Aldehyde_DH/Histidinol_DH
HSPG2	3339	genome.wustl.edu	37	1	22174385	22174385	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-D1-A177-01	TCGA-D1-A177-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	ENST00000453796	-1	known	p.P23S	0.181	87	0%	120	19.2%	1	0%	benign(0.014)	tolerated(0.15)	neutral(0.241)	NULL
LUZP1	7798	genome.wustl.edu	37	1	23420203	23420203	+	Silent	SNP	T	T	C	novel		TCGA-D1-A177-01	TCGA-D1-A177-01	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001142546.1	-1	reviewed	p.E184	0.646	77	0%	90	37.8%	2	50%	-	-	-	NULL
GALE	2582	genome.wustl.edu	37	1	24123563	24123563	+	Silent	SNP	G	G	T	novel		TCGA-D1-A177-01	TCGA-D1-A177-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_000403.3	-1	reviewed	p.P201	0.876	205	0%	262	38.2%	86	52.3%	-	-	-	HMMPfam_Epimerase,superfamily_NAD(P)-binding Rossmann-fold domains
MYOM3	127294	genome.wustl.edu	37	1	24417405	24417405	+	Silent	SNP	G	G	A	novel		TCGA-D1-A177-01	TCGA-D1-A177-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_152372.3	-1	validated	p.V438	0.000	135	0%	154	48.1%	0	-	-	-	-	HMMPfam_fn3,HMMSmart_SM00060,superfamily_Fibronectin type III
LOC100128346	100128346	genome.wustl.edu	37	1	26496798	26496798	+	Frame_Shift_Del	DEL	C	C	-	novel		TCGA-D1-A177-01	TCGA-D1-A177-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	XM_001716649.2	-1	model	p.E98fs	0.030	-	-	-	-	-	-	-	-	-	NULL
CEP85	64793	genome.wustl.edu	37	1	26584679	26584679	+	Silent	SNP	C	C	T	novel		TCGA-D1-A177-01	TCGA-D1-A177-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	ENST00000453146	+1	known	p.A35V	0.978	149	0%	188	42.6%	7	42.8%	-	-	-	NULL
FGR	2268	genome.wustl.edu	37	1	27943431	27943431	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-D1-A177-01	TCGA-D1-A177-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001042729.1	-1	reviewed	p.G207S	1.000	155	0%	190	38.4%	0	-	probably_damaging(0.999)	tolerated(0.08)	deleterious(0.790)	HMMPfam_SH2,HMMSmart_SH2,superfamily_SSF55550
PTPRU	10076	genome.wustl.edu	37	1	29585175	29585175	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-D1-A177-01	TCGA-D1-A177-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_005704.3	+1	reviewed	p.R122C	1.000	96	0%	132	50.8%	0	-	probably_damaging(0.994)	deleterious(0)	deleterious(0.897)	HMMPfam_MAM,HMMSmart_SM00137
DLGAP3	58512	genome.wustl.edu	37	1	35370007	35370007	+	Silent	SNP	C	C	T	novel		TCGA-D1-A177-01	TCGA-D1-A177-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001080418.1	-1	provisional	p.S326	0.201	44	0%	44	36.4%	0	-	-	-	-	NULL
EIF2C1	26523	genome.wustl.edu	37	1	36372574	36372574	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-D1-A177-01	TCGA-D1-A177-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_012199.2	+1	reviewed	p.A479V	1.000	166	0.6%	204	41.7%	4	0%	possibly_damaging(0.602)	tolerated(0.12)	deleterious(0.469)	NULL
KIF2C	11004	genome.wustl.edu	37	1	45226082	45226082	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-D1-A177-01	TCGA-D1-A177-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_006845.3	+1	validated	p.A500T	0.997	111	0%	114	13.2%	55	16.3%	benign(0.353)	tolerated(0.06)	neutral(0.434)	HMMPfam_Kinesin,HMMSmart_SM00129,superfamily_P-loop containing nucleoside triphosphate hydrolases
CYP4A11	1579	genome.wustl.edu	37	1	47399670	47399670	+	Silent	SNP	G	G	T	novel		TCGA-D1-A177-01	TCGA-D1-A177-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_000778.3	-1	reviewed	p.G390	0.566	283	0%	292	33.6%	0	-	-	-	-	HMMPfam_p450,superfamily_Cytochrome P450
C1orf185	284546	genome.wustl.edu	37	1	51613203	51613203	+	Silent	SNP	A	A	G	novel		TCGA-D1-A177-01	TCGA-D1-A177-01	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001136508.1	+1	predicted	p.S120	0.985	325	0%	395	37.5%	0	-	-	-	-	NULL
ACOT11	26027	genome.wustl.edu	37	1	55066960	55066960	+	Silent	SNP	C	C	T	novel		TCGA-D1-A177-01	TCGA-D1-A177-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_015547.2	+1	reviewed	p.C301	0.367	54	1.9%	68	39.7%	5	20%	-	-	-	HMMPfam_4HBT,superfamily_Thioesterase/thiol ester dehydrase-isomerase
HEATR8	374977	genome.wustl.edu	37	1	55158214	55158214	+	Silent	SNP	C	C	T	novel		TCGA-D1-A177-01	TCGA-D1-A177-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001039464.2	+1	validated	p.R943	0.015	108	0%	128	41.4%	1	0%	-	-	-	superfamily_ARM repeat
WDR78	79819	genome.wustl.edu	37	1	67340571	67340571	+	Silent	SNP	G	G	A	novel		TCGA-D1-A177-01	TCGA-D1-A177-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_024763.4	-1	validated	p.D231	0.981	213	0%	221	48.4%	0	-	-	-	-	NULL
C1orf173	127254	genome.wustl.edu	37	1	75039054	75039054	+	Silent	SNP	C	C	T	novel		TCGA-D1-A177-01	TCGA-D1-A177-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001002912.4	-1	validated	p.A780	0.000	269	0.4%	303	35.3%	0	-	-	-	-	NULL
EVI5	7813	genome.wustl.edu	37	1	93170121	93170121	+	Silent	SNP	C	C	T	novel		TCGA-D1-A177-01	TCGA-D1-A177-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_005665.4	-1	validated	p.K154	0.997	287	0%	290	29.7%	2	100%	-	-	-	superfamily_Ypt/Rab-GAP domain of gyp1p
CCDC18	343099	genome.wustl.edu	37	1	93682252	93682252	+	Silent	SNP	T	T	C	novel		TCGA-D1-A177-01	TCGA-D1-A177-01	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	ENST00000421014	+1	known	p.L339S	0.998	94	0%	118	41.5%	1	100%	-	-	-	NULL
ABCA4	24	genome.wustl.edu	37	1	94497391	94497391	+	Silent	SNP	C	C	T	novel		TCGA-D1-A177-01	TCGA-D1-A177-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_000350.2	-1	reviewed	p.A1357	0.005	120	0%	121	53.7%	0	-	-	-	-	NULL
ALG14	199857	genome.wustl.edu	37	1	95448798	95448798	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-D1-A177-01	TCGA-D1-A177-01	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_144988.3	-1	validated	p.L162P	0.824	144	0%	150	40%	38	47.3%	probably_damaging(0.997)	deleterious(0)	deleterious(0.911)	HMMPfam_Alg14,superfamily_UDP-Glycosyltransferase/glycogen phosphorylase
COL11A1	1301	genome.wustl.edu	37	1	103471859	103471859	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-D1-A177-01	TCGA-D1-A177-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_080629.2	-1	reviewed	p.V578I	0.977	62	0%	65	35.4%	3	0%	unknown(0)	tolerated(0.46)	-	HMMPfam_Collagen
KCNC4	3749	genome.wustl.edu	37	1	110754616	110754616	+	Silent	SNP	C	C	T	novel		TCGA-D1-A177-01	TCGA-D1-A177-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_004978.3	+1	reviewed	p.D165	0.948	11	0%	16	50%	0	-	-	-	-	NULL
CHIA	27159	genome.wustl.edu	37	1	111857959	111857959	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-D1-A177-01	TCGA-D1-A177-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_201653.2	+1	validated	p.R128C	0.998	147	0.7%	182	40.1%	1	100%	probably_damaging(1)	deleterious(0)	deleterious(0.945)	HMMPfam_Glyco_hydro_18,HMMSmart_SM00636,superfamily_(Trans)glycosidases
MAGI3	260425	genome.wustl.edu	37	1	113933670	113933672	+	In_Frame_Del	DEL	GAA	GAA	-	novel		TCGA-D1-A177-01	TCGA-D1-A177-01	GAA	GAA					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001142782.1	+1	validated	p.K9in_frame_del	1.000:1.000:1.000	-	-	-	-	-	-	-	-	-	superfamily_PDZ
PTPN22	26191	genome.wustl.edu	37	1	114402009	114402009	+	Frame_Shift_Del	DEL	T	T	-	novel		TCGA-D1-A177-01	TCGA-D1-A177-01	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_015967.4	-1	reviewed	p.N54fs	1.000	-	-	-	-	-	-	-	-	-	HMMPfam_Y_phosphatase,HMMSmart_PTPc,superfamily_SSF52799
HIPK1	204851	genome.wustl.edu	37	1	114483378	114483378	+	Nonsense_Mutation	SNP	C	C	T	novel		TCGA-D1-A177-01	TCGA-D1-A177-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_198268.1	+1	reviewed	p.R125*	1.000	96	1%	80	38.8%	6	33.3%	-	-	-	NULL
CSDE1	7812	genome.wustl.edu	37	1	115280661	115280661	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-D1-A177-01	TCGA-D1-A177-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001130523.1	-1	validated	p.R124W	1.000	474	0.2%	655	45%	134	45.5%	probably_damaging(1)	deleterious(0)	deleterious(0.945)	HMMPfam_CSD,HMMSmart_SM00357,superfamily_Nucleic acid-binding proteins
SYCP1	6847	genome.wustl.edu	37	1	115469184	115469184	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-D1-A177-01	TCGA-D1-A177-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_003176.2	+1	validated	p.K642N	1.000	133	0%	116	31%	0	-	probably_damaging(0.999)	deleterious(0.03)	deleterious(0.855)	HMMPfam_SCP-1
NOTCH2	4853	genome.wustl.edu	37	1	120464892	120464892	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-D1-A177-01	TCGA-D1-A177-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_024408.2	-1	reviewed	p.R1727H	0.999	195	1%	215	46.5%	9	33.3%	probably_damaging(0.999)	deleterious(0)	deleterious(0.935)	NULL
MCL1	4170	genome.wustl.edu	37	1	150551566	150551566	+	Silent	SNP	G	G	A	novel		TCGA-D1-A177-01	TCGA-D1-A177-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_021960.3	-1	reviewed	p.V147	0.005	17	0%	25	32%	101	18.8%	-	-	-	NULL
ENSA	2029	genome.wustl.edu	37	1	150598966	150598966	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-D1-A177-01	TCGA-D1-A177-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_207042.1	-1	reviewed	p.A74T	0.000	237	0%	434	31.1%	9	11.1%	benign(0)	tolerated(0.2)	neutral(0.049)	HMMPfam_Endosulfine
PSMD4	5710	genome.wustl.edu	37	1	151234658	151234658	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-D1-A177-01	TCGA-D1-A177-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_002810.2	+1	reviewed	p.M16I	1.000	175	0%	346	28%	380	28.1%	possibly_damaging(0.937)	deleterious(0.01)	deleterious(0.788)	HMMSmart_SM00327,superfamily_vWA-like
FLG	2312	genome.wustl.edu	37	1	152280012	152280012	+	Silent	SNP	G	G	A	novel		TCGA-D1-A177-01	TCGA-D1-A177-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_002016.1	-1	reviewed	p.S2450	0.000	420	0%	890	27.6%	0	-	-	-	-	NULL
FLG	2312	genome.wustl.edu	37	1	152285349	152285349	+	Silent	SNP	C	C	T	novel		TCGA-D1-A177-01	TCGA-D1-A177-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_002016.1	-1	reviewed	p.G671	0.000	619	0%	1137	61.7%	0	-	-	-	-	NULL
KPRP	448834	genome.wustl.edu	37	1	152732318	152732318	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-D1-A177-01	TCGA-D1-A177-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001025231.1	+1	provisional	p.A85V	0.166	222	0%	394	32%	0	-	probably_damaging(0.996)	deleterious(0)	deleterious(0.906)	NULL
ZBTB7B	51043	genome.wustl.edu	37	1	154987528	154987528	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-D1-A177-01	TCGA-D1-A177-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_015872.2	+1	validated	p.P131L	0.973	23	0%	53	49.1%	43	46.5%	probably_damaging(0.99)	tolerated(0.07)	deleterious(0.760)	HMMSmart_BTB,superfamily_BTB/POZ_fold,HMMPfam_BTB
RUSC1-AS1	284618	genome.wustl.edu	37	1	155290862	155290862	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-D1-A177-01	TCGA-D1-A177-01	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001039517.1	-1	predicted	p.I140V	0.033	209	0%	465	33.8%	0	-	-	-	-	NULL
YY1AP1	55249	genome.wustl.edu	37	1	155630674	155630674	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-D1-A177-01	TCGA-D1-A177-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_139118.1	-1	reviewed	p.R389W	0.867	355	0%	617	27.4%	68	39.7%	benign(0.007)	tolerated(0.11)	neutral(0.272)	NULL
LMNA	4000	genome.wustl.edu	37	1	156108279	156108279	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-D1-A177-01	TCGA-D1-A177-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_170707.2	+1	reviewed	p.G567C	1.000	5	0.000	26	0.385	128	5.4%	benign(0)	tolerated(0.1)	neutral(0.286)	NULL
C1orf85	112770	genome.wustl.edu	37	1	156264584	156264584	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-D1-A177-01	TCGA-D1-A177-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_144580.1	-1	provisional	p.S115N	0.960	92	0%	184	34.2%	45	46.6%	probably_damaging(0.998)	tolerated(0.11)	deleterious(0.746)	NULL
SPTA1	6708	genome.wustl.edu	37	1	158614979	158614979	+	Missense_Mutation	SNP	T	T	G	novel		TCGA-D1-A177-01	TCGA-D1-A177-01	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_003126.2	-1	reviewed	p.Q1398P	1.000	250	0%	344	30.8%	0	-	probably_damaging(0.99)	deleterious(0.01)	deleterious(0.847)	HMMPfam_Spectrin,HMMSmart_SM00150,superfamily_Spectrin repeat
PEX19	5824	genome.wustl.edu	37	1	160252796	160252796	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-D1-A177-01	TCGA-D1-A177-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_002857.3	-1	reviewed	p.A95V	1.000	261	0%	453	24.1%	34	32.3%	probably_damaging(0.991)	tolerated(0.53)	neutral(0.452)	HMMPfam_Pex19
VANGL2	57216	genome.wustl.edu	37	1	160385637	160385637	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-D1-A177-01	TCGA-D1-A177-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_020335.1	+1	validated	p.E4K	1.000	53	0%	93	29%	2	0%	unknown(0)	deleterious(0.01)	-	NULL
LRRC52	440699	genome.wustl.edu	37	1	165532754	165532754	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-D1-A177-01	TCGA-D1-A177-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001005214.3	+1	validated	p.A212V	1.000	58	0%	78	29.5%	0	-	benign(0.02)	tolerated(1)	neutral(0.001)	superfamily_SSF52058
UCK2	7371	genome.wustl.edu	37	1	165859448	165859448	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-D1-A177-01	TCGA-D1-A177-01	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_012474.3	+1	reviewed	p.V36A	0.984	380	0%	623	29.5%	72	37.5%	probably_damaging(0.994)	deleterious(0)	deleterious(0.897)	HMMPfam_PRK,superfamily_P-loop containing nucleoside triphosphate hydrolases
RASAL2	9462	genome.wustl.edu	37	1	178436504	178436504	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-D1-A177-01	TCGA-D1-A177-01	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_170692.2	+1	reviewed	p.H1198R	1.000	199	0%	369	25.2%	3	33.3%	probably_damaging(0.995)	tolerated(0.11)	deleterious(0.729)	NULL
STX6	10228	genome.wustl.edu	37	1	180959161	180959161	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-D1-A177-01	TCGA-D1-A177-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_005819.4	-1	validated	p.A150T	0.999	122	0%	225	25.8%	27	33.3%	benign(0.003)	tolerated(0.46)	neutral(0.012)	NULL
CACNA1E	777	genome.wustl.edu	37	1	181726068	181726068	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-D1-A177-01	TCGA-D1-A177-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_000721.2	+1	reviewed	p.Q1379K	1.000	201	0%	375	31.7%	0	-	benign(0.034)	tolerated(1)	neutral(0.002)	HMMPfam_Ion_trans,superfamily_Voltage-gated potassium channels
RGSL1	353299	genome.wustl.edu	37	1	182443409	182443409	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-D1-A177-01	TCGA-D1-A177-01	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001137669.1	+1	validated	p.L388P	0.539	207	0%	371	29.6%	0	-	-	-	-	superfamily_Regulator of G-protein signaling RGS
RGL1	23179	genome.wustl.edu	37	1	183849791	183849791	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-D1-A177-01	TCGA-D1-A177-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_015149.3	+1	validated	p.A191V	0.970	169	0%	288	30.9%	4	25%	benign(0.01)	deleterious(0.01)	neutral(0.406)	HMMPfam_RasGEF_N,HMMSmart_SM00229,superfamily_Ras GEF
EDEM3	80267	genome.wustl.edu	37	1	184706771	184706771	+	Silent	SNP	G	G	A	novel		TCGA-D1-A177-01	TCGA-D1-A177-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_025191.3	-1	validated	p.R93	0.998	239	0%	474	29.1%	8	50%	-	-	-	HMMPfam_Glyco_hydro_47,superfamily_Glyco_hydro_47
FAM129A	116496	genome.wustl.edu	37	1	184764655	184764657	+	In_Frame_Del	DEL	TCT	TCT	-	novel		TCGA-D1-A177-01	TCGA-D1-A177-01	TCT	TCT					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_052966.2	-1	validated	p.E749in_frame_del	0.015:0.028:0.026	-	-	-	-	-	-	-	-	-	NULL
CDC73	79577	genome.wustl.edu	37	1	193111081	193111081	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-D1-A177-01	TCGA-D1-A177-01	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_024529.4	+1	reviewed	p.I205T	1.000	137	0.7%	282	23%	30	36.6%	benign(0.062)	tolerated(0.46)	neutral(0.016)	NULL
LHX9	56956	genome.wustl.edu	37	1	197889268	197889268	+	Missense_Mutation	SNP	A	A	T	novel		TCGA-D1-A177-01	TCGA-D1-A177-01	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_020204.2	+1	reviewed	p.K114M	1.000	79	0%	161	38.5%	0	-	probably_damaging(0.993)	deleterious(0)	deleterious(0.895)	HMMPfam_LIM,HMMSmart_SM00132,superfamily_Glucocorticoid receptor-like (DNA-binding domain)
LGR6	59352	genome.wustl.edu	37	1	202287455	202287455	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-D1-A177-01	TCGA-D1-A177-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001017403.1	+1	reviewed	p.R675Q	0.986	37	0%	71	33.8%	1	0%	benign(0.248)	tolerated(0.45)	neutral(0.037)	HMMPfam_7tm_1,superfamily_Family A G protein-coupled receptor-like
PPFIA4	8497	genome.wustl.edu	37	1	203033007	203033007	+	Frame_Shift_Del	DEL	C	C	-	novel		TCGA-D1-A177-01	TCGA-D1-A177-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_015053.1	+1	validated	p.S471fs	1.000	-	-	-	-	-	-	-	-	-	HMMPfam_SAM_1,HMMSmart_SM00454,superfamily_SAM/Pointed domain
ATP2B4	493	genome.wustl.edu	37	1	203691752	203691752	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-D1-A177-01	TCGA-D1-A177-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001684.3	+1	reviewed	p.V987I	1.000	235	0%	378	30.4%	19	42.1%	probably_damaging(0.982)	tolerated(0.23)	neutral(0.468)	HMMPfam_Cation_ATPase_C,superfamily_Calcium ATPase transmembrane domain M
SLC41A1	254428	genome.wustl.edu	37	1	205779378	205779378	+	Silent	SNP	G	G	A	novel		TCGA-D1-A177-01	TCGA-D1-A177-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_173854.4	-1	validated	p.D64	0.997	116	0%	265	29.1%	8	0%	-	-	-	NULL
FCAMR	83953	genome.wustl.edu	37	1	207139159	207139159	+	Silent	SNP	G	G	A	novel		TCGA-D1-A177-01	TCGA-D1-A177-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001122979.2	-1	validated	p.L72	0.139	121	0%	229	30.6%	0	-	-	-	-	NULL
LOC642587	642587	genome.wustl.edu	37	1	209602684	209602684	+	Silent	SNP	C	C	T	novel		TCGA-D1-A177-01	TCGA-D1-A177-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001104548.1	+1	validated	p.T14	0.000	264	0.4%	378	28.6%	0	-	-	-	-	NULL
SYT14	255928	genome.wustl.edu	37	1	210187116	210187116	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-D1-A177-01	TCGA-D1-A177-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_153262.2	+1	validated	p.T67I	0.984	127	0%	212	28.8%	0	-	benign(0.002)	tolerated(0.06)	neutral(0.323)	NULL
USH2A	7399	genome.wustl.edu	37	1	215848632	215848632	+	Silent	SNP	G	G	A	novel		TCGA-D1-A177-01	TCGA-D1-A177-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_206933.2	-1	reviewed	p.A4207	0.000	245	0%	375	29.3%	0	-	-	-	-	HMMPfam_fn3,HMMSmart_SM00060,superfamily_Fibronectin type III
ESRRG	2104	genome.wustl.edu	37	1	216680454	216680454	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-D1-A177-01	TCGA-D1-A177-01	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001438.2	-1	validated	p.Y402H	1.000	235	0%	319	31.3%	4	25%	benign(0.106)	tolerated(0.43)	neutral(0.021)	HMMPfam_Hormone_recep,HMMSmart_SM00430,superfamily_Nuclear receptor ligand-binding domain
GPATCH2	55105	genome.wustl.edu	37	1	217784343	217784343	+	Silent	SNP	C	C	T	novel		TCGA-D1-A177-01	TCGA-D1-A177-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_018040.2	-1	provisional	p.V302	0.012	239	0%	390	25.1%	12	41.6%	-	-	-	NULL
DISP1	84976	genome.wustl.edu	37	1	223177598	223177598	+	Silent	SNP	T	T	C	novel		TCGA-D1-A177-01	TCGA-D1-A177-01	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_032890.2	+1	reviewed	p.S953	0.000	211	0%	350	24.3%	11	27.2%	-	-	-	HMMPfam_Patched,superfamily_SSF82866
PSEN2	5664	genome.wustl.edu	37	1	227083146	227083146	+	Silent	SNP	C	C	T	novel		TCGA-D1-A177-01	TCGA-D1-A177-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_000447.2	+1	reviewed	p.L405	1.000	219	0%	408	33.1%	30	30%	-	-	-	HMMPfam_Presenilin,HMMSmart_SM00730
CDC42BPA	8476	genome.wustl.edu	37	1	227211022	227211022	+	Silent	SNP	T	T	C	novel		TCGA-D1-A177-01	TCGA-D1-A177-01	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	ENST00000442054	-1	known	p.I813V	0.968	96	0%	119	32.8%	5	0%	-	-	-	HMMPfam_CNH,HMMSmart_SM00036
TRIM17	51127	genome.wustl.edu	37	1	228598740	228598740	+	Silent	SNP	G	G	A	novel		TCGA-D1-A177-01	TCGA-D1-A177-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001024940.2	-1	reviewed	p.S221	0.766	37	0%	91	30.8%	1	0%	-	-	-	NULL
ARV1	64801	genome.wustl.edu	37	1	231131563	231131563	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-D1-A177-01	TCGA-D1-A177-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_022786.1	+1	provisional	p.T169M	0.001	223	0%	360	29.4%	23	21.7%	possibly_damaging(0.945)	deleterious(0.03)	deleterious(0.754)	HMMPfam_Arv1
TRIM67	440730	genome.wustl.edu	37	1	231335911	231335911	+	Silent	SNP	C	C	T	novel		TCGA-D1-A177-01	TCGA-D1-A177-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001004342.3	+1	validated	p.I427	1.000	142	0%	266	32%	0	-	-	-	-	HMMSmart_SM00502
NID1	4811	genome.wustl.edu	37	1	236205339	236205339	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-D1-A177-01	TCGA-D1-A177-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_002508.2	-1	reviewed	p.R336W	0.003	100	1%	216	26.9%	20	10%	possibly_damaging(0.768)	tolerated(0.11)	deleterious(0.556)	NULL
RYR2	6262	genome.wustl.edu	37	1	237758907	237758907	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-D1-A177-01	TCGA-D1-A177-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001035.2	+1	reviewed	p.G1516R	1.000	251	0%	463	32.2%	0	-	probably_damaging(1)	-	-	HMMPfam_SPRY,HMMSmart_SM00449
FMN2	56776	genome.wustl.edu	37	1	240256586	240256586	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-D1-A177-01	TCGA-D1-A177-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_020066.4	+1	validated	p.A393T	0.000	43	0%	84	28.6%	0	-	unknown(0)	deleterious(0.03)	-	NULL
ACP1	52	genome.wustl.edu	37	2	272047	272047	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-D1-A177-01	TCGA-D1-A177-01	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_004300.3	+1	reviewed	p.D43G	1.000	126	0%	166	41%	70	32.8%	probably_damaging(0.957)	deleterious(0.01)	deleterious(0.806)	HMMPfam_LMWPc,HMMSmart_SM00226,superfamily_Phosphotyrosine protein phosphatases I
KLF11	8462	genome.wustl.edu	37	2	10187784	10187786	+	In_Frame_Del	DEL	CTC	CTC	-	novel		TCGA-D1-A177-01	TCGA-D1-A177-01	CTC	CTC					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_003597.4	+1	reviewed	p.P109in_frame_del	1.000:0.880:1.000	-	-	-	-	-	-	-	-	-	NULL
RRM2	6241	genome.wustl.edu	37	2	10269069	10269069	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-D1-A177-01	TCGA-D1-A177-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001034.3	+1	reviewed	p.R298Q	0.901	203	0.5%	314	42.4%	112	43.7%	benign(0.001)	tolerated(0.2)	neutral(0.049)	HMMPfam_Ribonuc_red_sm,superfamily_Ferritin/RR_like
APOB	338	genome.wustl.edu	37	2	21234576	21234576	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-D1-A177-01	TCGA-D1-A177-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_000384.2	-1	reviewed	p.D1722N	0.979	201	0%	257	51%	0	-	probably_damaging(0.992)	-	-	NULL
TP53I3	9540	genome.wustl.edu	37	2	24303667	24303667	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-D1-A177-01	TCGA-D1-A177-01	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	ENST00000413037	-1	known	p.F209S	0.907	76	0%	82	52.4%	8	62.5%	benign(0.29)	deleterious(0)	deleterious(0.534)	NULL
OTOF	9381	genome.wustl.edu	37	2	26705431	26705431	+	Silent	SNP	A	A	G	novel		TCGA-D1-A177-01	TCGA-D1-A177-01	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_194248.2	-1	reviewed	p.Y474	0.974	74	0%	123	44.7%	0	-	-	-	-	HMMPfam_C2,HMMSmart_SM00239,superfamily_C2 domain (Calcium/lipid-binding domain CaLB)
AGBL5	60509	genome.wustl.edu	37	2	27276020	27276020	+	Missense_Mutation	SNP	C	C	G	novel		TCGA-D1-A177-01	TCGA-D1-A177-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_021831.5	+1	validated	p.T65R	0.999	128	0%	162	42%	16	43.7%	probably_damaging(0.999)	deleterious(0)	deleterious(0.935)	NULL
LBH	81606	genome.wustl.edu	37	2	30480356	30480356	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-D1-A177-01	TCGA-D1-A177-01	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_030915.3	+1	validated	p.S63P	1.000	55	0%	87	29.9%	21	23.8%	probably_damaging(0.998)	deleterious(0)	deleterious(0.919)	NULL
RASGRP3	25780	genome.wustl.edu	37	2	33783830	33783831	+	Frame_Shift_Ins	INS	-	-	A	novel		TCGA-D1-A177-01	TCGA-D1-A177-01	-	-					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001139488.1	+1	validated	p.I600fs	0.969:1.000	-	-	-	-	-	-	-	-	-	NULL
LOC728819	728819	genome.wustl.edu	37	2	43903062	43903062	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-D1-A177-01	TCGA-D1-A177-01	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001101330.1	-1	provisional	p.N134D	0.962	203	0%	223	41.7%	0	-	-	-	-	NULL
FSHR	2492	genome.wustl.edu	37	2	49190209	49190209	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-D1-A177-01	TCGA-D1-A177-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_000145.3	-1	reviewed	p.C584Y	1.000	149	0%	216	47.7%	0	-	probably_damaging(1)	deleterious(0)	deleterious(0.945)	HMMPfam_7tm_1,superfamily_Family A G protein-coupled receptor-like
RTN4	57142	genome.wustl.edu	37	2	55253071	55253071	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-D1-A177-01	TCGA-D1-A177-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_020532.4	-1	reviewed	p.A722T	0.051	55	0%	52	53.8%	0	-	possibly_damaging(0.81)	deleterious(0.05)	deleterious(0.650)	NULL
RPS27A	6233	genome.wustl.edu	37	2	55462017	55462019	+	In_Frame_Del	DEL	GAA	GAA	-	novel		TCGA-D1-A177-01	TCGA-D1-A177-01	GAA	GAA					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001135592.2	+1	reviewed	p.K83in_frame_del	0.998:1.000:1.000	-	-	-	-	-	-	-	-	-	superfamily_Ubiquitin-like
PCBP1	5093	genome.wustl.edu	37	2	70315909	70315909	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-D1-A177-01	TCGA-D1-A177-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_006196.3	+1	reviewed	p.A345V	1.000	60	0%	54	37%	670	45.5%	benign(0.001)	tolerated(0.53)	neutral(0.007)	HMMSmart_SM00322,superfamily_Eukaryotic type KH-domain (KH-domain type I)
EGR4	1961	genome.wustl.edu	37	2	73518784	73518784	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-D1-A177-01	TCGA-D1-A177-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001965.3	-1	validated	p.R421H	1.000	103	0%	151	45.7%	0	-	probably_damaging(0.999)	deleterious(0)	deleterious(0.935)	HMMPfam_zf-C2H2,PatternScan_ZINC_FINGER_C2H2_1,HMMSmart_ZnF_C2H2,superfamily_SSF57667
C2orf81	388963	genome.wustl.edu	37	2	74641759	74641759	+	Silent	SNP	G	G	A	novel		TCGA-D1-A177-01	TCGA-D1-A177-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001145054.1	-1	predicted	p.G488	0.000	145	0.7%	191	45%	15	33.3%	-	-	-	NULL
DOK1	1796	genome.wustl.edu	37	2	74783744	74783744	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-D1-A177-01	TCGA-D1-A177-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001381.2	+1	reviewed	p.D317N	1.000	113	0%	130	43.1%	96	50%	probably_damaging(0.999)	deleterious(0.02)	deleterious(0.873)	NULL
C2orf65	130951	genome.wustl.edu	37	2	74789417	74789417	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-D1-A177-01	TCGA-D1-A177-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_138804.3	-1	predicted	p.R403Q	0.966	329	0%	474	42.6%	0	-	probably_damaging(0.975)	tolerated(0.12)	deleterious(0.677)	NULL
HK2	3099	genome.wustl.edu	37	2	75081481	75081481	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-D1-A177-01	TCGA-D1-A177-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_000189.4	+1	reviewed	p.R42Q	1.000	98	0%	121	38.8%	28	60.7%	possibly_damaging(0.765)	deleterious(0.02)	deleterious(0.667)	HMMPfam_Hexokinase_1,superfamily_SSF53067
LRRTM1	347730	genome.wustl.edu	37	2	80530186	80530186	+	Missense_Mutation	SNP	G	G	C	novel		TCGA-D1-A177-01	TCGA-D1-A177-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_178839.4	-1	validated	p.D253E	1.000	133	0%	172	43.6%	0	-	benign(0.008)	tolerated(1)	-	superfamily_SSF52058
C2orf89	129293	genome.wustl.edu	37	2	85051237	85051237	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-D1-A177-01	TCGA-D1-A177-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001080824.1	-1	predicted	p.V343I	0.001	329	0%	394	46.4%	0	-	benign(0)	tolerated(0.44)	neutral(0.013)	NULL
POLR1A	25885	genome.wustl.edu	37	2	86297314	86297314	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-D1-A177-01	TCGA-D1-A177-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_015425.3	-1	validated	p.R565C	0.917	252	0%	343	46.4%	7	28.5%	benign(0.003)	tolerated(0.09)	neutral(0.296)	HMMPfam_RNA_pol_Rpb1_2,HMMSmart_SM00663,superfamily_beta and beta-prime subunits of DNA dependent RNA-polymerase
CD8B	926	genome.wustl.edu	37	2	87085378	87085378	+	Missense_Mutation	SNP	A	A	T	novel		TCGA-D1-A177-01	TCGA-D1-A177-01	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_172213.3	-1	reviewed	p.F69I	0.997	330	0%	482	41.9%	2	0%	probably_damaging(0.969)	tolerated(0.2)	neutral(0.460)	HMMSmart_IG,HMMPfam_V-set,superfamily_SSF48726
CNGA3	1261	genome.wustl.edu	37	2	99013569	99013569	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-D1-A177-01	TCGA-D1-A177-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001298.2	+1	reviewed	p.R646C	0.103	54	0%	54	50%	0	-	probably_damaging(0.997)	deleterious(0)	deleterious(0.911)	NULL
RFX8	731220	genome.wustl.edu	37	2	102022484	102022484	+	Silent	SNP	G	G	A	novel		TCGA-D1-A177-01	TCGA-D1-A177-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001145664.1	-1	validated	p.A283	0.654	354	0%	442	41.2%	0	-	-	-	-	NULL
NCK2	8440	genome.wustl.edu	37	2	106498393	106498393	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-D1-A177-01	TCGA-D1-A177-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001004720.2	+1	reviewed	p.R279H	1.000	31	0%	26	42.3%	78	53.8%	possibly_damaging(0.824)	tolerated(0.13)	deleterious(0.565)	superfamily_SH3,superfamily_SSF55550
RGPD3	653489	genome.wustl.edu	37	2	107049696	107049696	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-D1-A177-01	TCGA-D1-A177-01	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001144013.1	-1	validated	p.M751V	0.996	787	0%	1098	24.8%	1	0%	benign(0.002)	tolerated(0.51)	neutral(0.009)	NULL
SULT1C3	442038	genome.wustl.edu	37	2	108875465	108875486	+	Frame_Shift_Del	DEL	AAACTTGGTCAGGTGATGTTAT	AAACTTGGTCAGGTGATGTTAT	-	rs72322214	byCluster	TCGA-D1-A177-01	TCGA-D1-A177-01	AAACTTGGTCAGGTGATGTTAT	AAACTTGGTCAGGTGATGTTAT					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	ENST00000376700	+1	known	p.W224fs	0.420:0.382:0.018:0.002:0.000:0.000:0.001:0.000:0.000:0.000:0.002:0.395:0.396:0.268:0.312:0.255:0.004:0.004:0.004:0.002:0.004:0.025	-	-	-	-	-	-	-	-	-	HMMPfam_Sulfotransfer_1,superfamily_SSF52540
WDR33	55339	genome.wustl.edu	37	2	128477459	128477459	+	Nonsense_Mutation	SNP	G	G	A	novel		TCGA-D1-A177-01	TCGA-D1-A177-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_018383.3	-1	reviewed	p.Q714*	0.882	100	0%	128	40.6%	24	16.6%	-	-	-	HMMPfam_Collagen
POTEE	445582	genome.wustl.edu	37	2	131976331	131976331	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-D1-A177-01	TCGA-D1-A177-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001083538.1	+1	validated	p.A119V	0.001	288	0%	362	39.5%	0	-	benign(0.079)	deleterious(0.01)	neutral(0.411)	superfamily_Ankyrin repeat
ZRANB3	84083	genome.wustl.edu	37	2	135960422	135960423	+	Frame_Shift_Del	DEL	AG	AG	-	novel		TCGA-D1-A177-01	TCGA-D1-A177-01	AG	AG					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_032143.2	-1	provisional	p.C1041fs	1.000:1.000	-	-	-	-	-	-	-	-	-	HMMPfam_HNH,HMMSmart_SM00507
NEB	4703	genome.wustl.edu	37	2	152467320	152467320	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-D1-A177-01	TCGA-D1-A177-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_004543.4	-1	reviewed	p.P3713T	1.000	358	0%	432	38.7%	0	-	probably_damaging(1)	deleterious(0)	deleterious(0.945)	HMMPfam_Nebulin,HMMSmart_SM00227
FIGN	55137	genome.wustl.edu	37	2	164467736	164467736	+	Silent	SNP	T	T	C	novel		TCGA-D1-A177-01	TCGA-D1-A177-01	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_018086.2	-1	validated	p.P202	0.986	286	0%	395	41.5%	0	-	-	-	-	NULL
SCN2A	6326	genome.wustl.edu	37	2	166245668	166245668	+	Silent	SNP	A	A	G	novel		TCGA-D1-A177-01	TCGA-D1-A177-01	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001040142.1	+1	reviewed	p.E1784	1.000	452	0%	620	47.3%	0	-	-	-	-	superfamily_Voltage-gated potassium channels
TTC21B	79809	genome.wustl.edu	37	2	166797563	166797563	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-D1-A177-01	TCGA-D1-A177-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_024753.3	-1	validated	p.W228C	1.000	272	0%	282	36.2%	5	40%	probably_damaging(1)	deleterious(0)	deleterious(0.945)	superfamily_TPR-like
TLK1	9874	genome.wustl.edu	37	2	171850444	171850444	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-D1-A177-01	TCGA-D1-A177-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_012290.4	-1	validated	p.A716V	1.000	252	0%	302	40.1%	24	45.8%	benign(0.001)	tolerated(0.41)	neutral(0.015)	HMMSmart_SM00219,HMMSmart_SM00220,superfamily_Protein kinase-like (PK-like),HMMPfam_Pkinase
TTN	7273	genome.wustl.edu	37	2	179469945	179469945	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-D1-A177-01	TCGA-D1-A177-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	ENST00000356127	-1	known	p.P15419T	1.000	97	0%	110	49.1%	0	-	benign(0.014)	-	-	HMMSmart_SM00408,HMMSmart_SM00409,HMMPfam_I-set
TTN	7273	genome.wustl.edu	37	2	179594256	179594256	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-D1-A177-01	TCGA-D1-A177-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	ENST00000356127	-1	known	p.E4965D	0.963	155	0%	209	43.5%	0	-	unknown(0)	-	-	HMMSmart_SM00409,HMMPfam_I-set
FAM171B	165215	genome.wustl.edu	37	2	187626444	187626444	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-D1-A177-01	TCGA-D1-A177-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_177454.3	+1	validated	p.D459N	0.998	42	0%	38	36.8%	0	-	unknown(0)	-	-	HMMPfam_UPF0560
DNAH7	56171	genome.wustl.edu	37	2	196801401	196801401	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-D1-A177-01	TCGA-D1-A177-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_018897.2	-1	validated	p.R1065H	1.000	133	0%	95	43.2%	0	-	probably_damaging(1)	deleterious(0)	deleterious(0.945)	HMMPfam_DHC_N2
CCDC150	284992	genome.wustl.edu	37	2	197531513	197531513	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-D1-A177-01	TCGA-D1-A177-01	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001080539.1	+1	provisional	p.Q278R	0.950	174	0%	173	49.7%	0	-	possibly_damaging(0.478)	tolerated(0.13)	neutral(0.410)	NULL
NDUFS1	4719	genome.wustl.edu	37	2	207014564	207014564	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-D1-A177-01	TCGA-D1-A177-01	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_005006.5	-1	reviewed	p.V80A	1.000	242	0%	376	43.1%	26	34.6%	probably_damaging(1)	deleterious(0)	deleterious(0.945)	HMMPfam_Fer2,superfamily_Ferredoxin
IDH1	3417	genome.wustl.edu	37	2	209113297	209113297	+	Silent	SNP	G	G	A	novel		TCGA-D1-A177-01	TCGA-D1-A177-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_005896.2	-1	reviewed	p.G70	0.999	373	0%	541	39.4%	688	49.1%	-	-	-	HMMPfam_Iso_dh,superfamily_Isocitrate/Isopropylmalate dehydrogenase-like
BARD1	580	genome.wustl.edu	37	2	215610465	215610465	+	Silent	SNP	A	A	G	novel		TCGA-D1-A177-01	TCGA-D1-A177-01	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_000465.2	-1	reviewed	p.Y597	0.105	254	0%	289	36.7%	8	62.5%	-	-	-	HMMPfam_BRCT,HMMSmart_BRCT,superfamily_BRCT
OBSL1	23363	genome.wustl.edu	37	2	220432811	220432811	+	Silent	SNP	G	G	A	novel		TCGA-D1-A177-01	TCGA-D1-A177-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_015311.2	-1	reviewed	p.G416	1.000	56	0%	75	38.7%	4	25%	-	-	-	HMMSmart_IG,superfamily_SSF48726
STK11IP	114790	genome.wustl.edu	37	2	220471198	220471198	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-D1-A177-01	TCGA-D1-A177-01	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	ENST00000456909	+1	known	p.F316L	1.000	353	0%	494	43.7%	19	36.8%	benign(0.036)	tolerated(0.15)	neutral(0.243)	superfamily_Outer arm dynein light chain 1
SH3BP4	23677	genome.wustl.edu	37	2	235962407	235962407	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-D1-A177-01	TCGA-D1-A177-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_014521.2	+1	reviewed	p.V947I	0.009	192	0%	260	43.5%	54	44.4%	unknown(0)	tolerated(1)	-	NULL
AGAP1	116987	genome.wustl.edu	37	2	236653432	236653432	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-D1-A177-01	TCGA-D1-A177-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001037131.1	+1	validated	p.A163T	1.000	265	0%	291	35.1%	6	33.3%	benign(0.103)	deleterious(0.02)	neutral(0.391)	HMMSmart_SM00173,HMMSmart_SM00175,HMMPfam_Miro,superfamily_P-loop containing nucleoside triphosphate hydrolases
PER2	8864	genome.wustl.edu	37	2	239161838	239161838	+	Silent	SNP	G	G	T	novel		TCGA-D1-A177-01	TCGA-D1-A177-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_022817.2	-1	reviewed	p.A942	0.000	110	0%	182	42.3%	13	30.7%	-	-	-	NULL
KIF1A	547	genome.wustl.edu	37	2	241724458	241724458	+	Missense_Mutation	SNP	A	A	T	novel		TCGA-D1-A177-01	TCGA-D1-A177-01	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_004321.4	-1	reviewed	p.I223N	1.000	286	0%	408	45.3%	0	-	probably_damaging(1)	deleterious(0)	deleterious(0.945)	HMMPfam_Kinesin,HMMSmart_SM00129,superfamily_P-loop containing nucleoside triphosphate hydrolases
PDCD1	5133	genome.wustl.edu	37	2	242794793	242794793	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-D1-A177-01	TCGA-D1-A177-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_005018.2	-1	reviewed	p.R139Q	0.000	33	0%	41	43.9%	3	0%	benign(0.033)	tolerated(0.39)	neutral(0.018)	HMMSmart_SM00409,HMMPfam_V-set,superfamily_Immunoglobulin
C3orf32	51066	genome.wustl.edu	37	3	8671354	8671354	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-D1-A177-01	TCGA-D1-A177-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_015931.1	-1	predicted	p.G173D	0.758	97	0%	121	39.7%	2	100%	probably_damaging(1)	deleterious(0)	deleterious(0.945)	NULL
OXTR	5021	genome.wustl.edu	37	3	8794706	8794706	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-D1-A177-01	TCGA-D1-A177-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_000916.3	-1	reviewed	p.R376H	0.112	56	1.8%	78	48.7%	1	100%	unknown(0)	tolerated(0.48)	-	NULL
OXNAD1	92106	genome.wustl.edu	37	3	16336499	16336499	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-D1-A177-01	TCGA-D1-A177-01	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_138381.2	+1	validated	p.N143D	1.000	171	0%	228	47.4%	10	40%	benign(0.026)	tolerated(0.55)	neutral(0.008)	superfamily_Riboflavin_synthase_like_b-brl
CLASP2	23122	genome.wustl.edu	37	3	33738393	33738393	+	Silent	SNP	G	G	T	novel		TCGA-D1-A177-01	TCGA-D1-A177-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_015097.1	-1	validated	p.A76	1.000	135	0%	143	13.3%	4	25%	-	-	-	superfamily_ARM repeat
EPM2AIP1	9852	genome.wustl.edu	37	3	37034227	37034227	+	Silent	SNP	G	G	A	novel		TCGA-D1-A177-01	TCGA-D1-A177-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_014805.3	-1	reviewed	p.G114	1.000	158	0%	182	44%	0	-	-	-	-	NULL
MYRIP	25924	genome.wustl.edu	37	3	40231760	40231760	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-D1-A177-01	TCGA-D1-A177-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_015460.2	+1	validated	p.H491Y	0.061	99	0%	138	34.1%	11	9%	benign(0)	deleterious(0.02)	neutral(0.383)	NULL
KBTBD5	131377	genome.wustl.edu	37	3	42727737	42727737	+	Silent	SNP	G	G	A	novel		TCGA-D1-A177-01	TCGA-D1-A177-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_152393.2	+1	validated	p.A209	0.317	32	0%	45	46.7%	0	-	-	-	-	HMMPfam_BACK
CCDC13	152206	genome.wustl.edu	37	3	42750540	42750540	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-D1-A177-01	TCGA-D1-A177-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_144719.3	-1	validated	p.E694K	0.940	110	0%	146	41.8%	0	-	benign(0.4)	tolerated(0.06)	neutral(0.451)	NULL
C3orf77	375337	genome.wustl.edu	37	3	44285106	44285106	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-D1-A177-01	TCGA-D1-A177-01	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001145030.1	+1	validated	p.K370E	0.283	23	0%	27	37%	0	-	possibly_damaging(0.945)	deleterious(0)	deleterious(0.834)	NULL
ZNF445	353274	genome.wustl.edu	37	3	44488923	44488923	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-D1-A177-01	TCGA-D1-A177-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_181489.5	-1	validated	p.T747I	0.000	221	0%	230	38.3%	2	0%	benign(0.014)	tolerated(0.09)	neutral(0.297)	superfamily_SSF57667
LZTFL1	54585	genome.wustl.edu	37	3	45879491	45879491	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-D1-A177-01	TCGA-D1-A177-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_020347.2	-1	validated	p.R19H	1.000	201	0%	199	37.7%	14	28.5%	possibly_damaging(0.557)	tolerated(0.12)	neutral(0.451)	NULL
CCR9	10803	genome.wustl.edu	37	3	45943215	45943215	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-D1-A177-01	TCGA-D1-A177-01	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_031200.1	+1	reviewed	p.L312P	1.000	352	0%	440	40.7%	0	-	probably_damaging(1)	deleterious(0)	deleterious(0.945)	HMMPfam_7tm_1,superfamily_Family A G protein-coupled receptor-like
LAMB2	3913	genome.wustl.edu	37	3	49162039	49162039	+	Frame_Shift_Del	DEL	G	G	-	novel		TCGA-D1-A177-01	TCGA-D1-A177-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_002292.3	-1	reviewed	p.T1039fs	1.000	-	-	-	-	-	-	-	-	-	HMMPfam_Laminin_EGF,HMMSmart_EGF_Lam,PatternScan_EGF_LAM_1,superfamily_SSF57196
RBM15B	29890	genome.wustl.edu	37	3	51430381	51430381	+	Nonsense_Mutation	SNP	C	C	G	novel		TCGA-D1-A177-01	TCGA-D1-A177-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_013286.3	+1	validated	p.Y517*	0.158	36	0%	42	50%	79	51.8%	-	-	-	NULL
TLR9	54106	genome.wustl.edu	37	3	52257842	52257842	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-D1-A177-01	TCGA-D1-A177-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_017442.2	-1	reviewed	p.A164T	0.000	262	0%	324	47.5%	0	-	benign(0.001)	tolerated(1)	-	superfamily_L domain-like
ACTR8	93973	genome.wustl.edu	37	3	53904045	53904045	+	Silent	SNP	T	T	C	novel		TCGA-D1-A177-01	TCGA-D1-A177-01	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	ENST00000486794	-1	known	p.E319G	0.959	303	0%	402	49.3%	26	50%	-	-	-	HMMSmart_SM00268,superfamily_Actin-like ATPase domain
ENSG00000222888	0	genome.wustl.edu	37	3	53916220	53916220	+	RNA	SNP	G	G	T	novel		TCGA-D1-A177-01	TCGA-D1-A177-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	ENST00000410956	-1	novel	NULL	0.967	23	0%	25	16%	0	-	-	-	-	-
MAGI1	9223	genome.wustl.edu	37	3	65415721	65415721	+	Silent	SNP	G	G	A	novel		TCGA-D1-A177-01	TCGA-D1-A177-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	ENST00000460329	-1	known	p.A428V	0.280	187	0%	252	45.2%	11	36.3%	-	-	-	HMMSmart_SM00228,superfamily_PDZ domain-like
ROBO1	6091	genome.wustl.edu	37	3	78987969	78987969	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-D1-A177-01	TCGA-D1-A177-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_002941.3	-1	reviewed	p.R94H	1.000	412	0%	503	46.3%	1	0%	probably_damaging(1)	deleterious(0.02)	deleterious(0.883)	HMMSmart_SM00408,HMMSmart_SM00409,HMMPfam_I-set,superfamily_Immunoglobulin
FAM55C	91775	genome.wustl.edu	37	3	101520209	101520209	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-D1-A177-01	TCGA-D1-A177-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001134456.1	+1	validated	p.R75H	0.934	144	0%	157	49%	3	33.3%	benign(0.021)	deleterious(0.04)	neutral(0.350)	HMMPfam_Neurexophilin
DPPA4	55211	genome.wustl.edu	37	3	109050759	109050759	+	Silent	SNP	G	G	T	novel		TCGA-D1-A177-01	TCGA-D1-A177-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_018189.3	-1	validated	p.R100	0.497	340	0%	464	44.4%	0	-	-	-	-	NULL
MYLK	4638	genome.wustl.edu	37	3	123452783	123452783	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-D1-A177-01	TCGA-D1-A177-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_053025.3	-1	reviewed	p.P354S	0.027	95	0%	104	54.8%	0	-	possibly_damaging(0.532)	tolerated(0.23)	neutral(0.222)	NULL
KALRN	8997	genome.wustl.edu	37	3	124281826	124281826	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-D1-A177-01	TCGA-D1-A177-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001024660.3	+1	reviewed	p.R1689H	1.000	56	0%	64	43.8%	0	-	probably_damaging(0.999)	deleterious(0)	deleterious(0.935)	HMMPfam_SH3_1,HMMSmart_SM00326,superfamily_SH3-domain
UMPS	7372	genome.wustl.edu	37	3	124453942	124453942	+	Silent	SNP	T	T	C	novel		TCGA-D1-A177-01	TCGA-D1-A177-01	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_000373.3	+1	reviewed	p.V53	0.964	109	0%	120	46.7%	36	50%	-	-	-	HMMPfam_Pribosyltran,superfamily_PRTase-like
IFT122	55764	genome.wustl.edu	37	3	129207085	129207085	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-D1-A177-01	TCGA-D1-A177-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	ENST00000446384	+1	known	p.D18N	0.001	184	0%	257	40.5%	0	-	-	-	-	NULL
TM4SF1	4071	genome.wustl.edu	37	3	149095309	149095309	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-D1-A177-01	TCGA-D1-A177-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_014220.2	-1	reviewed	p.C9Y	0.926	185	0%	308	43.5%	70	40%	benign(0)	tolerated(0.16)	neutral(0.059)	HMMPfam_L6_membrane
EIF2A	83939	genome.wustl.edu	37	3	150281337	150281337	+	Nonsense_Mutation	SNP	C	C	T	novel		TCGA-D1-A177-01	TCGA-D1-A177-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_032025.3	+1	validated	p.Q110*	0.995	108	0%	113	40.7%	18	11.1%	-	-	-	superfamily_WD40 repeat-like
EIF2A	83939	genome.wustl.edu	37	3	150299528	150299530	+	In_Frame_Del	DEL	AAG	AAG	-	novel		TCGA-D1-A177-01	TCGA-D1-A177-01	AAG	AAG					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_032025.3	+1	validated	p.K543in_frame_del	1.000:1.000:1.000	-	-	-	-	-	-	-	-	-	NULL
SLC7A14	57709	genome.wustl.edu	37	3	170204024	170204024	+	Missense_Mutation	SNP	G	G	C	novel		TCGA-D1-A177-01	TCGA-D1-A177-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_020949.2	-1	validated	p.T298R	1.000	311	0%	492	47.2%	0	-	probably_damaging(0.993)	deleterious(0.01)	deleterious(0.856)	HMMPfam_AA_permease
PLD1	5337	genome.wustl.edu	37	3	171405271	171405271	+	Missense_Mutation	SNP	A	A	C	novel		TCGA-D1-A177-01	TCGA-D1-A177-01	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_002662.3	-1	validated	p.L548R	1.000	338	0%	413	46.5%	0	-	possibly_damaging(0.492)	tolerated(0.08)	neutral(0.464)	superfamily_Phospholipase D/nuclease
MCCC1	56922	genome.wustl.edu	37	3	182810273	182810273	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-D1-A177-01	TCGA-D1-A177-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_020166.3	-1	reviewed	p.R66H	0.997	322	0%	408	44.1%	8	50%	possibly_damaging(0.463)	tolerated(0.1)	neutral(0.439)	HMMPfam_CPSase_L_chain,superfamily_PreATP-grasp-like
HTR3D	200909	genome.wustl.edu	37	3	183750729	183750729	+	Silent	SNP	C	C	T	novel		TCGA-D1-A177-01	TCGA-D1-A177-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	ENST00000382489	+1	known	p.H37	0.616	222	0%	239	39.3%	0	-	-	-	-	NULL
HTR3E	285242	genome.wustl.edu	37	3	183823150	183823150	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-D1-A177-01	TCGA-D1-A177-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_182589.2	+1	reviewed	p.G234S	0.997	211	0%	297	41.8%	0	-	benign(0.01)	tolerated(0.58)	neutral(0.005)	HMMPfam_Neur_chan_LBD,superfamily_Neur_chan_LBD
CHRD	8646	genome.wustl.edu	37	3	184098488	184098488	+	Missense_Mutation	SNP	T	T	G	novel		TCGA-D1-A177-01	TCGA-D1-A177-01	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_003741.2	+1	reviewed	p.F53V	1.000	50	0%	71	50.7%	2	0%	possibly_damaging(0.915)	deleterious(0)	deleterious(0.811)	HMMPfam_VWC,HMMSmart_SM00214
CPN2	1370	genome.wustl.edu	37	3	194061820	194061820	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-D1-A177-01	TCGA-D1-A177-01	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001080513.2	-1	validated	p.I538V	0.001	45	0%	45	46.7%	0	-	probably_damaging(0.985)	deleterious(0)	deleterious(0.877)	NULL
MUC4	4585	genome.wustl.edu	37	3	195475901	195475901	+	Silent	SNP	G	G	A	novel		TCGA-D1-A177-01	TCGA-D1-A177-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_018406.5	-1	reviewed	p.C5174	0.006	96	0%	115	31.3%	0	-	-	-	-	NULL
GAK	2580	genome.wustl.edu	37	4	845661	845661	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-D1-A177-01	TCGA-D1-A177-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_005255.2	-1	validated	p.A1129T	0.000	120	0%	167	48.5%	89	47.1%	benign(0)	tolerated(1)	-	NULL
IDUA	3425	genome.wustl.edu	37	4	995665	995665	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-D1-A177-01	TCGA-D1-A177-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_000203.3	+1	reviewed	p.R263M	0.999	23	0%	31	54.8%	28	53.5%	benign(0.27)	deleterious(0.02)	neutral(0.412)	HMMPfam_Glyco_hydro_39,superfamily_Glyco_hydro_cat
JAKMIP1	152789	genome.wustl.edu	37	4	6107416	6107416	+	Silent	SNP	C	C	T	novel		TCGA-D1-A177-01	TCGA-D1-A177-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001099433.1	-1	validated	p.A136	0.987	21	0%	35	34.3%	1	0%	-	-	-	NULL
GPR78	27201	genome.wustl.edu	37	4	8582985	8582986	+	In_Frame_Ins	INS	-	-	GCGGCGCTGAGCGTG	novel		TCGA-D1-A177-01	TCGA-D1-A177-01	-	-					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_080819.2	+1	validated	p.96in_frame_insVAALS	1.000:1.000	-	-	-	-	-	-	-	-	-	HMMPfam_7tm_1,superfamily_Family A G protein-coupled receptor-like
LDB2	9079	genome.wustl.edu	37	4	16513622	16513622	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-D1-A177-01	TCGA-D1-A177-01	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001290.3	-1	validated	p.R241G	1.000	150	0%	170	41.2%	5	20%	possibly_damaging(0.926)	tolerated(0.07)	deleterious(0.694)	HMMPfam_LIM_bind
PACRGL	133015	genome.wustl.edu	37	4	20706121	20706121	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-D1-A177-01	TCGA-D1-A177-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_145048.3	+1	validated	p.G6D	0.001	191	0%	197	44.7%	11	36.3%	benign(0.086)	tolerated(0.16)	neutral(0.066)	NULL
LIMCH1	22998	genome.wustl.edu	37	4	41648508	41648509	+	Frame_Shift_Del	DEL	GA	GA	-	novel		TCGA-D1-A177-01	TCGA-D1-A177-01	GA	GA					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_014988.2	+1	validated	p.E425fs	0.997:1.000	-	-	-	-	-	-	-	-	-	NULL
CWH43	80157	genome.wustl.edu	37	4	49005768	49005768	+	Silent	SNP	G	G	A	novel		TCGA-D1-A177-01	TCGA-D1-A177-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_025087.2	+1	validated	p.A273	0.007	128	0%	192	43.8%	14	57.1%	-	-	-	NULL
EPHA5	2044	genome.wustl.edu	37	4	66242742	66242742	+	Silent	SNP	G	G	A	novel		TCGA-D1-A177-01	TCGA-D1-A177-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_004439.5	-1	reviewed	p.C610	1.000	183	0%	224	42.9%	0	-	-	-	-	NULL
ODAM	54959	genome.wustl.edu	37	4	71062421	71062421	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-D1-A177-01	TCGA-D1-A177-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_017855.3	+1	validated	p.R22C	0.339	61	0%	59	30.5%	0	-	possibly_damaging(0.905)	deleterious(0.01)	deleterious(0.765)	NULL
UTP3	57050	genome.wustl.edu	37	4	71554987	71554987	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-D1-A177-01	TCGA-D1-A177-01	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_020368.2	+1	validated	p.E198G	0.050	71	0%	103	39.8%	22	36.3%	benign(0.037)	tolerated(0.15)	neutral(0.243)	NULL
HERC5	51191	genome.wustl.edu	37	4	89389501	89389501	+	Silent	SNP	C	C	T	novel		TCGA-D1-A177-01	TCGA-D1-A177-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_016323.2	+1	reviewed	p.S354	0.004	204	0%	200	42%	1	0%	-	-	-	superfamily_RCC1/BLIP-II
SLC9B2	133308	genome.wustl.edu	37	4	103964578	103964578	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-D1-A177-01	TCGA-D1-A177-01	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_178833.4	-1	validated	p.F341L	0.112	248	0%	282	41.1%	3	33.3%	benign(0.001)	tolerated(1)	-	HMMPfam_Na_H_Exchanger
LEF1	51176	genome.wustl.edu	37	4	109002806	109002806	+	Missense_Mutation	SNP	G	G	C	novel		TCGA-D1-A177-01	TCGA-D1-A177-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_016269.4	-1	reviewed	p.P220A	1.000	146	0%	193	45.1%	0	-	possibly_damaging(0.65)	deleterious(0.01)	deleterious(0.634)	NULL
C4orf21	55345	genome.wustl.edu	37	4	113505260	113505260	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-D1-A177-01	TCGA-D1-A177-01	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	ENST00000505019	-1	known	p.V1391A	0.000	232	0%	241	38.6%	3	66.6%	benign(0.021)	tolerated(0.22)	neutral(0.043)	HMMPfam_zf-GRF
ANK2	287	genome.wustl.edu	37	4	114254248	114254248	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-D1-A177-01	TCGA-D1-A177-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001148.4	+1	reviewed	p.R1088Q	1.000	321	0.3%	395	49.6%	0	-	probably_damaging(0.997)	tolerated(0.07)	deleterious(0.785)	HMMPfam_ZU5
CAMK2D	817	genome.wustl.edu	37	4	114452377	114452377	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-D1-A177-01	TCGA-D1-A177-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001221.3	-1	reviewed	p.A199V	1.000	206	0%	212	39.2%	18	0%	probably_damaging(1)	deleterious(0)	deleterious(0.945)	HMMSmart_SM00219,HMMSmart_SM00220,superfamily_Protein kinase-like (PK-like),HMMPfam_Pkinase
UGT8	7368	genome.wustl.edu	37	4	115544596	115544596	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-D1-A177-01	TCGA-D1-A177-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001128174.1	+1	validated	p.R187H	0.998	198	0.5%	222	49.1%	0	-	benign(0.041)	tolerated(0.42)	neutral(0.017)	HMMPfam_UDPGT,superfamily_UDP-Glycosyltransferase/glycogen phosphorylase
NDST4	64579	genome.wustl.edu	37	4	115754767	115754767	+	Silent	SNP	T	T	C	novel		TCGA-D1-A177-01	TCGA-D1-A177-01	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_022569.1	-1	provisional	p.A797	0.997	130	0%	95	49.5%	0	-	-	-	-	HMMPfam_Sulfotransfer_1,superfamily_SSF52540
METTL14	57721	genome.wustl.edu	37	4	119626804	119626809	+	In_Frame_Del	DEL	TAGCAC	TAGCAC	-	novel		TCGA-D1-A177-01	TCGA-D1-A177-01	TAGCAC	TAGCAC					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_020961.2	+1	provisional	p.ST299in_frame_del	0.956:1.000:1.000:1.000:1.000:1.000	-	-	-	-	-	-	-	-	-	HMMPfam_MT-A70
FAT4	79633	genome.wustl.edu	37	4	126328090	126328090	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-D1-A177-01	TCGA-D1-A177-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_024582.4	+1	validated	p.R1788H	0.954	136	0%	182	12.1%	0	-	benign(0.004)	tolerated(0.14)	neutral(0.249)	HMMPfam_Cadherin,HMMSmart_SM00112,superfamily_Cadherin-like
PCDH18	54510	genome.wustl.edu	37	4	138452229	138452229	+	Silent	SNP	G	G	A	novel		TCGA-D1-A177-01	TCGA-D1-A177-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_019035.3	-1	reviewed	p.C338	1.000	15	0%	19	42.1%	2	0%	-	-	-	HMMPfam_Cadherin,HMMSmart_SM00112,superfamily_Cadherin-like
MAB21L2	10586	genome.wustl.edu	37	4	151505076	151505076	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-D1-A177-01	TCGA-D1-A177-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_006439.4	+1	reviewed	p.R299W	1.000	64	0%	81	45.7%	0	-	probably_damaging(1)	deleterious(0)	deleterious(0.945)	HMMPfam_Mab-21
TIGD4	201798	genome.wustl.edu	37	4	153691797	153691797	+	Frame_Shift_Del	DEL	T	T	-	novel		TCGA-D1-A177-01	TCGA-D1-A177-01	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_145720.2	-1	reviewed	p.K120fs	1.000	-	-	-	-	-	-	-	-	-	HMMSmart_SM00674,superfamily_Homeodomain-like,HMMPfam_CenpB-DNA-bind
DCHS2	54798	genome.wustl.edu	37	4	155254491	155254491	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-D1-A177-01	TCGA-D1-A177-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_017639.3	-1	validated	p.A458T	0.872	69	0%	104	45.2%	0	-	benign(0.013)	tolerated(0.3)	neutral(0.029)	HMMPfam_Cadherin,HMMSmart_SM00112,superfamily_Cadherin-like
SPOCK3	50859	genome.wustl.edu	37	4	167658698	167658698	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-D1-A177-01	TCGA-D1-A177-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_016950.2	-1	validated	p.G354D	0.267	445	0%	536	39.9%	0	-	probably_damaging(0.976)	tolerated(0.22)	neutral(0.460)	HMMPfam_Thyroglobulin_1,HMMSmart_SM00211,PatternScan_THYROGLOBULIN_1_1,superfamily_Thyroglobulin type-1 domain
MTNR1A	4543	genome.wustl.edu	37	4	187476467	187476467	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-D1-A177-01	TCGA-D1-A177-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_005958.3	-1	reviewed	p.G18V	0.014	20	0%	15	26.7%	0	-	benign(0)	deleterious(0.01)	neutral(0.406)	superfamily_Family A G protein-coupled receptor-like
PLEKHG4B	153478	genome.wustl.edu	37	5	163460	163460	+	Silent	SNP	C	C	T	novel		TCGA-D1-A177-01	TCGA-D1-A177-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_052909.3	+1	validated	p.P735	0.247	52	0%	43	58.1%	5	80%	-	-	-	NULL
ADCY2	108	genome.wustl.edu	37	5	7414794	7414794	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-D1-A177-01	TCGA-D1-A177-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_020546.2	+1	reviewed	p.R107C	0.882	623	0.2%	836	48.4%	0	-	probably_damaging(0.997)	deleterious(0.01)	deleterious(0.872)	NULL
ADCY2	108	genome.wustl.edu	37	5	7773089	7773089	+	Silent	SNP	G	G	A	novel		TCGA-D1-A177-01	TCGA-D1-A177-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_020546.2	+1	reviewed	p.V753	0.960	415	0%	464	45.3%	1	0%	-	-	-	NULL
DNAH5	1767	genome.wustl.edu	37	5	13900502	13900502	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-D1-A177-01	TCGA-D1-A177-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001369.2	-1	reviewed	p.G691D	1.000	111	0%	125	45.6%	0	-	possibly_damaging(0.772)	tolerated(0.05)	deleterious(0.632)	HMMPfam_DHC_N1
MARCH11	441061	genome.wustl.edu	37	5	16067733	16067733	+	Silent	SNP	C	C	T	novel		TCGA-D1-A177-01	TCGA-D1-A177-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001102562.1	-1	provisional	p.R352	0.995	191	0%	258	46.1%	0	-	-	-	-	NULL
RAD1	5810	genome.wustl.edu	37	5	34914820	34914820	+	Nonsense_Mutation	SNP	G	G	A	novel		TCGA-D1-A177-01	TCGA-D1-A177-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_002853.3	-1	reviewed	p.Q60*	1.000	304	0%	376	40.4%	34	50%	-	-	-	superfamily_DNA clamp
FYB	2533	genome.wustl.edu	37	5	39202938	39202938	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-D1-A177-01	TCGA-D1-A177-01	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001465.3	-1	validated	p.Q42R	0.997	182	0%	168	14.9%	1	0%	benign(0.133)	deleterious(0)	neutral(0.456)	NULL
SREK1IP1	285672	genome.wustl.edu	37	5	64036929	64036929	+	Frame_Shift_Del	DEL	C	C	-	novel		TCGA-D1-A177-01	TCGA-D1-A177-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_173829.3	-1	validated	p.E54fs	1.000	-	-	-	-	-	-	-	-	-	NULL
MAP1B	4131	genome.wustl.edu	37	5	71491185	71491185	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-D1-A177-01	TCGA-D1-A177-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_005909.3	+1	validated	p.P668H	0.045	191	0%	207	34.3%	0	-	unknown(0)	deleterious(0.03)	-	NULL
FAM169A	26049	genome.wustl.edu	37	5	74109838	74109838	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-D1-A177-01	TCGA-D1-A177-01	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_015566.1	-1	validated	p.I166T	0.030	98	0%	98	51%	4	75%	unknown(0)	-	-	NULL
VCAN	1462	genome.wustl.edu	37	5	82835229	82835232	+	Frame_Shift_Del	DEL	AACA	AACA	-	novel		TCGA-D1-A177-01	TCGA-D1-A177-01	AACA	AACA					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_004385.4	+1	reviewed	p.T2138fs	0.727:0.688:0.713:0.678	-	-	-	-	-	-	-	-	-	NULL
FAM172A	83989	genome.wustl.edu	37	5	92956736	92956736	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-D1-A177-01	TCGA-D1-A177-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_032042.5	-1	validated	p.A403V	0.968	45	0%	83	43.4%	9	33.3%	benign(0)	tolerated(0.28)	neutral(0.032)	NULL
ARSK	153642	genome.wustl.edu	37	5	94918775	94918775	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-D1-A177-01	TCGA-D1-A177-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_198150.2	+1	validated	p.A191V	0.914	112	0%	158	39.9%	5	80%	possibly_damaging(0.869)	deleterious(0.01)	deleterious(0.743)	HMMPfam_Sulfatase,superfamily_Alkaline_phosphatase_core
EPB41L4A	64097	genome.wustl.edu	37	5	111594987	111594987	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-D1-A177-01	TCGA-D1-A177-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_022140.3	-1	validated	p.P245H	1.000	263	0%	292	39%	1	0%	probably_damaging(1)	deleterious(0)	deleterious(0.945)	HMMPfam_FERM_C,superfamily_PH domain-like
PGGT1B	5229	genome.wustl.edu	37	5	114552603	114552603	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-D1-A177-01	TCGA-D1-A177-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_005023.3	-1	validated	p.R304H	1.000	139	0%	134	33.6%	14	50%	benign(0.126)	tolerated(0.1)	neutral(0.297)	HMMPfam_Prenyltrans,superfamily_Terpenoid cyclases/Protein prenyltransferases
TMED7	51014	genome.wustl.edu	37	5	114961401	114961401	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-D1-A177-01	TCGA-D1-A177-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_181836.5	-1	validated	p.G30E	0.833	26	0%	33	60.6%	37	32.4%	probably_damaging(0.996)	tolerated(1)	neutral(0.462)	NULL
SNX2	6643	genome.wustl.edu	37	5	122110805	122110805	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-D1-A177-01	TCGA-D1-A177-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_003100.2	+1	reviewed	p.A3T	1.000	28	0%	59	52.5%	26	42.3%	possibly_damaging(0.842)	deleterious(0.02)	deleterious(0.705)	HMMPfam_Sorting_nexin
BRD8	10902	genome.wustl.edu	37	5	137498838	137498838	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-D1-A177-01	TCGA-D1-A177-01	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_139199.1	-1	reviewed	p.S690G	1.000	333	0%	383	43.9%	53	39.6%	probably_damaging(0.993)	deleterious(0.01)	deleterious(0.856)	superfamily_Bromodomain
KDM3B	51780	genome.wustl.edu	37	5	137726779	137726779	+	Silent	SNP	A	A	G	novel		TCGA-D1-A177-01	TCGA-D1-A177-01	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_016604.3	+1	validated	p.G486	1.000	80	0%	96	44.8%	5	20%	-	-	-	NULL
SLC35A4	113829	genome.wustl.edu	37	5	139947773	139947773	+	Silent	SNP	C	C	T	novel		TCGA-D1-A177-01	TCGA-D1-A177-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	ENST00000432254	+1	known	p.G161	0.000	16	0%	19	57.9%	148	36.4%	-	-	-	NULL
PCDHA6	56142	genome.wustl.edu	37	5	140209300	140209300	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-D1-A177-01	TCGA-D1-A177-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_018909.2	+1	reviewed	p.V542M	0.001	38	0%	55	41.8%	0	-	benign(0.028)	tolerated(0.08)	neutral(0.301)	HMMPfam_Cadherin,HMMSmart_SM00112,superfamily_Cadherin-like
PCDHAC1	56135	genome.wustl.edu	37	5	140308215	140308215	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-D1-A177-01	TCGA-D1-A177-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_018898.3	+1	reviewed	p.V580I	1.000	203	0%	217	46.1%	0	-	benign(0.429)	deleterious(0.04)	deleterious(0.488)	HMMPfam_Cadherin,superfamily_Cadherin-like
PCDHB5	26167	genome.wustl.edu	37	5	140516879	140516879	+	Silent	SNP	C	C	T	novel		TCGA-D1-A177-01	TCGA-D1-A177-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_015669.2	+1	reviewed	p.G621	0.997	24	0%	30	50%	2	0%	-	-	-	HMMPfam_Cadherin,HMMSmart_CA,superfamily_Cadherin
PCDHGB1	56104	genome.wustl.edu	37	5	140732027	140732027	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-D1-A177-01	TCGA-D1-A177-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_018922.2	+1	reviewed	p.G734R	0.000	100	0%	109	46.8%	0	-	benign(0.004)	tolerated(0.36)	neutral(0.020)	NULL
PCDHGB3	56102	genome.wustl.edu	37	5	140751712	140751712	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-D1-A177-01	TCGA-D1-A177-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_018924.2	+1	reviewed	p.P584H	0.821	33	0%	64	12.5%	2	0%	-	-	-	HMMPfam_Cadherin,superfamily_Cadherin-like
PCDH1	5097	genome.wustl.edu	37	5	141244173	141244173	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-D1-A177-01	TCGA-D1-A177-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_032420.2	-1	reviewed	p.R575W	0.890	97	0%	110	50%	29	72.4%	probably_damaging(0.999)	deleterious(0.01)	deleterious(0.896)	HMMPfam_Cadherin,HMMSmart_CA,superfamily_Cadherin
PCDH1	5097	genome.wustl.edu	37	5	141248964	141248964	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-D1-A177-01	TCGA-D1-A177-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_032420.2	-1	reviewed	p.H25Y	0.958	46	0%	41	36.6%	13	69.2%	unknown(0)	tolerated(0.25)	-	NULL
PPP2R2B	5521	genome.wustl.edu	37	5	145969654	145969654	+	Silent	SNP	C	C	A	novel		TCGA-D1-A177-01	TCGA-D1-A177-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_181676.2	-1	reviewed	p.G399	0.954	201	0%	237	43%	0	-	-	-	-	superfamily_WD40 repeat-like
HTR4	3360	genome.wustl.edu	37	5	147928311	147928311	+	Silent	SNP	C	C	T	novel		TCGA-D1-A177-01	TCGA-D1-A177-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001040173.2	-1	reviewed	p.V91	1.000	237	0%	305	42%	0	-	-	-	-	HMMPfam_7tm_1,superfamily_SSF81321
ANXA6	309	genome.wustl.edu	37	5	150481026	150481026	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-D1-A177-01	TCGA-D1-A177-01	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001155.3	-1	reviewed	p.C669R	1.000	93	0%	134	39.6%	27	22.2%	probably_damaging(1)	deleterious(0)	deleterious(0.945)	superfamily_Annexin
SLC36A2	153201	genome.wustl.edu	37	5	150718637	150718637	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-D1-A177-01	TCGA-D1-A177-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_181776.2	-1	validated	p.A170V	1.000	259	0%	268	40.7%	0	-	possibly_damaging(0.755)	deleterious(0)	deleterious(0.723)	HMMPfam_Aa_trans
GABRA6	2559	genome.wustl.edu	37	5	161117341	161117341	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-D1-A177-01	TCGA-D1-A177-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_000811.2	+1	reviewed	p.P270T	1.000	128	0%	148	31.8%	0	-	probably_damaging(1)	deleterious(0)	deleterious(0.945)	HMMPfam_Neur_chan_memb,superfamily_Neurotransmitter-gated ion-channel transmembrane pore
ODZ2	57451	genome.wustl.edu	37	5	167551947	167551947	+	Silent	SNP	C	C	T	novel		TCGA-D1-A177-01	TCGA-D1-A177-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001122679.1	+1	inferred	p.L701	1.000	183	0%	205	47.3%	0	-	-	-	-	superfamily_Concanavalin A-like lectins/glucanases
ENSG00000233913	0	genome.wustl.edu	37	5	168043623	168043623	+	Silent	SNP	G	G	A	novel		TCGA-D1-A177-01	TCGA-D1-A177-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	ENST00000421908	+1	known	p.V89	1.000	136	0%	194	38.1%	305	0%	-	-	-	HMMPfam_Ribosomal_L16,superfamily_Ribosomal protein L10e
HRH2	3274	genome.wustl.edu	37	5	175110341	175110341	+	Silent	SNP	C	C	T	novel		TCGA-D1-A177-01	TCGA-D1-A177-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001131055.1	+1	reviewed	p.G35	0.998	217	0%	255	38.4%	0	-	-	-	-	HMMPfam_7tm_1,superfamily_SSF81321
FGFR4	2264	genome.wustl.edu	37	5	176522551	176522551	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-D1-A177-01	TCGA-D1-A177-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_002011.3	+1	reviewed	p.V550L	1.000	60	0%	87	36.8%	269	42.7%	benign(0.328)	deleterious(0)	deleterious(0.547)	HMMPfam_Pkinase_Tyr,HMMSmart_SM00219,HMMSmart_SM00220,superfamily_Protein kinase-like (PK-like)
ENSG00000245859	0	genome.wustl.edu	37	5	176910850	176910850	+	RNA	SNP	G	G	A	novel		TCGA-D1-A177-01	TCGA-D1-A177-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	ENST00000499364	+1	novel	NULL	0.000	81	0%	73	46.6%	0	-	-	-	-	-
DOK3	79930	genome.wustl.edu	37	5	176936548	176936548	+	Silent	SNP	G	G	A	novel		TCGA-D1-A177-01	TCGA-D1-A177-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_024872.2	-1	validated	p.A54	0.000	117	0%	153	41.2%	5	80%	-	-	-	NULL
COL23A1	91522	genome.wustl.edu	37	5	177681993	177681993	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-D1-A177-01	TCGA-D1-A177-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_173465.3	-1	validated	p.T306I	0.979	191	0%	224	44.6%	1	0%	probably_damaging(0.995)	deleterious(0.04)	deleterious(0.806)	NULL
LOC100289470	100289470	genome.wustl.edu	37	5	178949688	178949690	+	In_Frame_Del	DEL	GAG	GAG	-	novel		TCGA-D1-A177-01	TCGA-D1-A177-01	GAG	GAG					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	XM_002342585.1	+1	model	p.E70in_frame_del	0.000:0.001:0.000	-	-	-	-	-	-	-	-	-	NULL
MGAT1	4245	genome.wustl.edu	37	5	180219397	180219397	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-D1-A177-01	TCGA-D1-A177-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001114617.1	-1	reviewed	p.A192V	0.995	32	0%	65	61.5%	135	38.5%	probably_damaging(1)	deleterious(0)	deleterious(0.945)	HMMPfam_GNT-I,superfamily_SSF53448
NRN1	51299	genome.wustl.edu	37	6	6002687	6002687	+	Silent	SNP	C	C	T	novel		TCGA-D1-A177-01	TCGA-D1-A177-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_016588.2	-1	reviewed	p.A33	0.982	123	0%	121	32.2%	2	50%	-	-	-	NULL
RREB1	6239	genome.wustl.edu	37	6	7230370	7230370	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-D1-A177-01	TCGA-D1-A177-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001003699.3	+1	reviewed	p.A680T	1.000	36	0%	45	53.3%	25	32%	probably_damaging(0.999)	tolerated(0.15)	deleterious(0.732)	HMMPfam_zf-C2H2,HMMSmart_ZnF_C2H2,superfamily_SSF57667
EDN1	1906	genome.wustl.edu	37	6	12294218	12294218	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-D1-A177-01	TCGA-D1-A177-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001955.4	+1	reviewed	p.A93V	1.000	55	0%	78	46.2%	3	66.6%	benign(0.275)	deleterious(0.02)	neutral(0.412)	NULL
POM121L2	94026	genome.wustl.edu	37	6	27279451	27279451	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-D1-A177-01	TCGA-D1-A177-01	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	ENST00000444565	-1	known	p.R167G	0.000	217	0%	214	46.7%	0	-	benign(0.024)	tolerated(0.21)	neutral(0.045)	NULL
ZKSCAN4	387032	genome.wustl.edu	37	6	28219496	28219496	+	Missense_Mutation	SNP	C	C	T	rs144128934	by1000genomes	TCGA-D1-A177-01	TCGA-D1-A177-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_019110.3	-1	provisional	p.S88N	1.000	81	0%	123	38.2%	3	33.3%	unknown(0)	deleterious(0.01)	-	HMMPfam_SCAN,HMMSmart_SCAN
MDC1	9656	genome.wustl.edu	37	6	30673463	30673463	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-D1-A177-01	TCGA-D1-A177-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_014641.2	-1	reviewed	p.P1166H	0.002	401	0%	567	49.4%	16	31.2%	probably_damaging(0.999)	deleterious(0.01)	deleterious(0.896)	NULL
ITPR3	3710	genome.wustl.edu	37	6	33657158	33657158	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-D1-A177-01	TCGA-D1-A177-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_002224.2	+1	validated	p.P2280T	1.000	132	0.8%	200	44.5%	269	44.2%	benign(0.024)	tolerated(0.07)	neutral(0.320)	NULL
PI16	221476	genome.wustl.edu	37	6	36931624	36931624	+	Silent	SNP	C	C	T	novel		TCGA-D1-A177-01	TCGA-D1-A177-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_153370.2	+1	validated	p.S432	0.000	126	0%	177	45.8%	0	-	-	-	-	NULL
MOCS1	4337	genome.wustl.edu	37	6	39895237	39895237	+	Silent	SNP	G	G	A	novel		TCGA-D1-A177-01	TCGA-D1-A177-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_005943.5	-1	reviewed	p.P27	0.000	122	0%	171	37.4%	0	-	-	-	-	NULL
FRS3	10817	genome.wustl.edu	37	6	41743247	41743247	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-D1-A177-01	TCGA-D1-A177-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_006653.3	-1	reviewed	p.V55I	0.991	138	0.7%	158	41.1%	9	44.4%	possibly_damaging(0.646)	tolerated(0.23)	neutral(0.268)	HMMPfam_IRS,HMMSmart_PTBI,superfamily_SSF50729
C6orf132	647024	genome.wustl.edu	37	6	42073716	42073716	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-D1-A177-01	TCGA-D1-A177-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	ENST00000341865	-1	known	p.A645V	0.001	578	0%	976	45.5%	3	33.3%	benign(0.002)	tolerated(0.95)	-	NULL
POLH	5429	genome.wustl.edu	37	6	43578342	43578342	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-D1-A177-01	TCGA-D1-A177-01	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_006502.2	+1	reviewed	p.K376E	0.989	128	0%	156	48.7%	12	50%	benign(0)	tolerated(0.89)	-	HMMPfam_IMS
TCTE1	202500	genome.wustl.edu	37	6	44253875	44253875	+	Silent	SNP	G	G	A	novel		TCGA-D1-A177-01	TCGA-D1-A177-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_182539.3	-1	validated	p.T224	0.099	87	0%	118	49.2%	0	-	-	-	-	superfamily_SSF52047
FAM83B	222584	genome.wustl.edu	37	6	54806700	54806700	+	Silent	SNP	A	A	G	novel		TCGA-D1-A177-01	TCGA-D1-A177-01	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001010872.1	+1	validated	p.P977	0.001	68	0%	77	51.9%	1	100%	-	-	-	NULL
C6orf221	154288	genome.wustl.edu	37	6	74072932	74072932	+	Missense_Mutation	SNP	A	A	C	novel		TCGA-D1-A177-01	TCGA-D1-A177-01	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001017361.2	+1	validated	p.Y95S	0.613	55	1.8%	104	54.8%	0	-	possibly_damaging(0.45)	deleterious(0.03)	deleterious(0.512)	NULL
IMPG1	3617	genome.wustl.edu	37	6	76713605	76713605	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-D1-A177-01	TCGA-D1-A177-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001563.2	-1	provisional	p.A400S	0.000	164	0%	199	39.7%	0	-	benign(0.008)	tolerated(0.29)	neutral(0.029)	NULL
PHIP	55023	genome.wustl.edu	37	6	79650975	79650975	+	Missense_Mutation	SNP	A	A	C	novel		TCGA-D1-A177-01	TCGA-D1-A177-01	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_017934.5	-1	validated	p.L1634R	1.000	66	0%	74	40.5%	8	25%	benign(0.082)	deleterious(0)	neutral(0.451)	NULL
SPACA1	81833	genome.wustl.edu	37	6	88763710	88763710	+	Silent	SNP	C	C	T	novel		TCGA-D1-A177-01	TCGA-D1-A177-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_030960.2	+1	reviewed	p.T85	0.546	183	0%	218	45.4%	0	-	-	-	-	NULL
MDN1	23195	genome.wustl.edu	37	6	90359894	90359894	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-D1-A177-01	TCGA-D1-A177-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_014611.1	-1	provisional	p.R5352Q	1.000	187	0%	183	43.7%	19	57.8%	unknown(0)	deleterious(0)	-	NULL
MDN1	23195	genome.wustl.edu	37	6	90392858	90392858	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-D1-A177-01	TCGA-D1-A177-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_014611.1	-1	provisional	p.A4032V	0.000	118	0%	114	44.7%	3	33.3%	benign(0.001)	tolerated(0.19)	neutral(0.050)	NULL
FAM26D	221301	genome.wustl.edu	37	6	116879135	116879135	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-D1-A177-01	TCGA-D1-A177-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_153036.2	+1	validated	p.A50T	0.962	176	0%	258	19.4%	0	-	benign(0.078)	tolerated(0.15)	neutral(0.246)	NULL
TAAR9	134860	genome.wustl.edu	37	6	132859643	132859643	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-D1-A177-01	TCGA-D1-A177-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_175057.3	+1	reviewed	p.A72V	0.000	491	0.2%	625	46.7%	0	-	benign(0.002)	tolerated(0.1)	neutral(0.286)	HMMPfam_7tm_1,superfamily_Family A G protein-coupled receptor-like
MAP3K5	4217	genome.wustl.edu	37	6	136958468	136958468	+	Silent	SNP	G	G	A	novel		TCGA-D1-A177-01	TCGA-D1-A177-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_005923.3	-1	reviewed	p.L671	0.988	219	0%	246	42.7%	0	-	-	-	-	NULL
UTRN	7402	genome.wustl.edu	37	6	145157505	145157505	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-D1-A177-01	TCGA-D1-A177-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_007124.2	+1	reviewed	p.P3298L	0.823	95	0%	108	40.7%	7	42.8%	benign(0.114)	tolerated(0.29)	neutral(0.038)	NULL
MTRF1L	54516	genome.wustl.edu	37	6	153311075	153311075	+	Silent	SNP	G	G	A	novel		TCGA-D1-A177-01	TCGA-D1-A177-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_019041.5	-1	validated	p.Y366	1.000	204	0%	194	37.6%	4	25%	-	-	-	superfamily_Release factor (Pfam 00472)
TIAM2	26230	genome.wustl.edu	37	6	155578127	155578130	+	Frame_Shift_Del	DEL	GACA	GACA	-	novel		TCGA-D1-A177-01	TCGA-D1-A177-01	GACA	GACA					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_012454.3	+1	reviewed	p.D1660fs	0.992:1.000:1.000:1.000	-	-	-	-	-	-	-	-	-	NULL
TULP4	56995	genome.wustl.edu	37	6	158923060	158923060	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-D1-A177-01	TCGA-D1-A177-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_020245.3	+1	validated	p.G789C	0.989	75	0%	89	49.4%	6	33.3%	benign(0.013)	deleterious(0)	neutral(0.445)	NULL
UNC93A	54346	genome.wustl.edu	37	6	167709744	167709744	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-D1-A177-01	TCGA-D1-A177-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_018974.3	+1	validated	p.S165N	0.000	152	0%	204	44.1%	1	100%	benign(0.001)	tolerated(0.18)	neutral(0.056)	HMMPfam_DUF895,superfamily_MFS_gen_substrate_transporter
WDR27	253769	genome.wustl.edu	37	6	170038633	170038633	+	Splice_Site	SNP	A	A	G	novel		TCGA-D1-A177-01	TCGA-D1-A177-01	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_182552.3	-1	validated	e17+2	1.000	39	0%	50	56%	0	-	-	-	-	-
PMS2	5395	genome.wustl.edu	37	7	6029583	6029583	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-D1-A177-01	TCGA-D1-A177-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_000535.5	-1	reviewed	p.C331Y	1.000	164	0%	195	39.5%	4	50%	probably_damaging(0.998)	tolerated(0.09)	deleterious(0.771)	HMMPfam_DNA_mis_repair,superfamily_Ribosomal protein S5 domain 2-like
VWDE	221806	genome.wustl.edu	37	7	12400999	12400999	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-D1-A177-01	TCGA-D1-A177-01	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001135924.1	-1	provisional	p.Q1016R	1.000	120	0%	141	35.5%	0	-	probably_damaging(0.994)	tolerated(0.67)	neutral(0.455)	NULL
SP4	6671	genome.wustl.edu	37	7	21516701	21516701	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-D1-A177-01	TCGA-D1-A177-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	ENST00000448246	+1	known	p.S43N	0.997	103	0%	97	45.4%	3	66.6%	unknown(0)	-	-	NULL
HOXA13	3209	genome.wustl.edu	37	7	27237888	27237888	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-D1-A177-01	TCGA-D1-A177-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_000522.4	-1	reviewed	p.V366I	1.000	474	0%	595	45.4%	0	-	probably_damaging(0.999)	tolerated(0.19)	deleterious(0.540)	HMMPfam_Homeobox,HMMSmart_SM00389,superfamily_Homeodomain-like,PatternScan_HOMEOBOX_1
PDE1C	5137	genome.wustl.edu	37	7	31887643	31887643	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-D1-A177-01	TCGA-D1-A177-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_005020.1	-1	provisional	p.R307C	1.000	174	0%	193	34.7%	0	-	probably_damaging(1)	deleterious(0)	deleterious(0.945)	HMMPfam_PDEase_I,HMMSmart_HDc,superfamily_SSF109604
ANLN	54443	genome.wustl.edu	37	7	36478837	36478837	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-D1-A177-01	TCGA-D1-A177-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_018685.2	+1	validated	p.G970C	1.000	263	0%	284	45.4%	9	22.2%	probably_damaging(0.998)	deleterious(0)	deleterious(0.919)	NULL
EPDR1	54749	genome.wustl.edu	37	7	37989841	37989841	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-D1-A177-01	TCGA-D1-A177-01	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_017549.3	+1	reviewed	p.Y293C	1.000	127	0%	124	44.4%	2	0%	probably_damaging(0.999)	deleterious(0.01)	deleterious(0.896)	HMMPfam_Ependymin
ABCA13	154664	genome.wustl.edu	37	7	48407496	48407496	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-D1-A177-01	TCGA-D1-A177-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_152701.3	+1	reviewed	p.Q3598H	1.000	302	0%	313	42.8%	0	-	benign(0.386)	-	-	NULL
VWC2	375567	genome.wustl.edu	37	7	49815575	49815575	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-D1-A177-01	TCGA-D1-A177-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_198570.3	+1	reviewed	p.E182K	0.999	38	0%	35	54.3%	0	-	probably_damaging(0.972)	tolerated(0.1)	deleterious(0.700)	HMMSmart_VWC
WBSCR17	64409	genome.wustl.edu	37	7	71130575	71130575	+	Silent	SNP	G	G	A	novel		TCGA-D1-A177-01	TCGA-D1-A177-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_022479.1	+1	reviewed	p.P420	0.000	86	2.3%	110	47.3%	0	-	-	-	-	superfamily_Nucleotide-diphospho-sugar transferases
ELN	2006	genome.wustl.edu	37	7	73467623	73467623	+	Silent	SNP	A	A	C	novel		TCGA-D1-A177-01	TCGA-D1-A177-01	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_000501.2	+1	reviewed	p.P360	0.376	208	0%	273	45.4%	5	0%	-	-	-	NULL
YWHAG	7532	genome.wustl.edu	37	7	75959468	75959468	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-D1-A177-01	TCGA-D1-A177-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_012479.3	-1	reviewed	p.R57H	1.000	160	0%	232	46.6%	105	32.3%	probably_damaging(1)	deleterious(0)	deleterious(0.945)	HMMPfam_14-3-3,HMMSmart_SM00101,superfamily_14-3-3 protein
PCLO	27445	genome.wustl.edu	37	7	82586001	82586001	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-D1-A177-01	TCGA-D1-A177-01	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_033026.5	-1	validated	p.Q1423R	1.000	333	0.3%	371	36.4%	0	-	possibly_damaging(0.891)	-	-	NULL
SEMA3D	223117	genome.wustl.edu	37	7	84697547	84697547	+	Silent	SNP	A	A	G	novel		TCGA-D1-A177-01	TCGA-D1-A177-01	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_152754.2	-1	validated	p.C183	1.000	230	0%	243	48.1%	0	-	-	-	-	HMMPfam_Sema,HMMSmart_Sema,superfamily_Sema
KIAA1324L	222223	genome.wustl.edu	37	7	86577053	86577053	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-D1-A177-01	TCGA-D1-A177-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001142749.2	-1	validated	p.G166S	1.000	133	0%	146	39.7%	3	100%	benign(0)	tolerated(1)	-	superfamily_Growth factor receptor domain
CROT	54677	genome.wustl.edu	37	7	87011734	87011734	+	Silent	SNP	T	T	C	novel		TCGA-D1-A177-01	TCGA-D1-A177-01	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001143935.1	+1	reviewed	p.S420	1.000	190	0%	214	44.4%	4	25%	-	-	-	HMMPfam_Carn_acyltransf,superfamily_CoA-dependent acyltransferases
TECPR1	25851	genome.wustl.edu	37	7	97862160	97862160	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-D1-A177-01	TCGA-D1-A177-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_015395.1	-1	provisional	p.H599Q	1.000	69	0%	70	40%	2	100%	probably_damaging(0.996)	tolerated(0.68)	neutral(0.464)	NULL
TECPR1	25851	genome.wustl.edu	37	7	97870551	97870551	+	Nonsense_Mutation	SNP	C	C	T	novel		TCGA-D1-A177-01	TCGA-D1-A177-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_015395.1	-1	provisional	p.W221*	1.000	34	0%	38	21.1%	4	25%	-	-	-	HMMPfam_Hyd_WA,HMMSmart_SM00706
COPS6	10980	genome.wustl.edu	37	7	99688214	99688214	+	Splice_Site	SNP	G	G	A	novel		TCGA-D1-A177-01	TCGA-D1-A177-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_006833.4	+1	reviewed	e5-1	1.000	286	0%	391	39.9%	3	0%	-	-	-	-
GNB2	2783	genome.wustl.edu	37	7	100274423	100274424	+	Splice_Site	DEL	GT	GT	-	rs138290543	by1000genomes	TCGA-D1-A177-01	TCGA-D1-A177-01	GT	GT					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_005273.3	+1	reviewed	e3+1	1.000:1.000	-	-	-	-	-	-	-	-	-	-
GIGYF1	64599	genome.wustl.edu	37	7	100283803	100283803	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-D1-A177-01	TCGA-D1-A177-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_022574.4	-1	validated	p.K316N	1.000	82	0%	101	42.6%	15	53.3%	possibly_damaging(0.85)	deleterious(0)	deleterious(0.772)	NULL
ZNHIT1	10467	genome.wustl.edu	37	7	100865998	100865998	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-D1-A177-01	TCGA-D1-A177-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_006349.2	+1	validated	p.A46T	0.955	64	0%	61	45.9%	171	46.1%	possibly_damaging(0.668)	deleterious(0.01)	deleterious(0.642)	NULL
CLDN15	24146	genome.wustl.edu	37	7	100880751	100880751	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-D1-A177-01	TCGA-D1-A177-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_014343.2	-1	reviewed	p.V38I	1.000	207	0%	266	41.4%	10	30%	probably_damaging(0.966)	tolerated(0.31)	neutral(0.435)	HMMPfam_PMP22_Claudin
NRCAM	4897	genome.wustl.edu	37	7	107872811	107872811	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-D1-A177-01	TCGA-D1-A177-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001037132.1	-1	reviewed	p.R129H	0.986	228	0%	336	44.3%	5	20%	benign(0.007)	tolerated(0.46)	neutral(0.012)	HMMSmart_SM00408,HMMSmart_SM00409,HMMPfam_I-set,superfamily_Immunoglobulin
LRRN3	54674	genome.wustl.edu	37	7	110763789	110763789	+	Nonsense_Mutation	SNP	A	A	T	novel		TCGA-D1-A177-01	TCGA-D1-A177-01	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001099658.1	+1	validated	p.R321*	0.825	128	0%	133	43.6%	0	-	-	-	-	superfamily_L domain-like
WEE2	494551	genome.wustl.edu	37	7	141424004	141424004	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-D1-A177-01	TCGA-D1-A177-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001105558.1	+1	validated	p.A384T	1.000	199	0%	210	46.7%	0	-	benign(0.041)	deleterious(0.02)	neutral(0.386)	superfamily_Kinase_like,HMMPfam_Pkinase
TRBV6-1	28606	genome.wustl.edu	37	7	142028573	142028573	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-D1-A177-01	TCGA-D1-A177-01	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	ENST00000390353	+1	known	p.S103P	0.107	117	0%	143	39.2%	0	-	probably_damaging(0.963)	deleterious(0.02)	deleterious(0.788)	HMMPfam_V-set,superfamily_SSF48726
FAM115C	285966	genome.wustl.edu	37	7	143421490	143421490	+	Silent	SNP	G	G	A	novel		TCGA-D1-A177-01	TCGA-D1-A177-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001130025.1	+1	validated	p.L735	0.353	187	0%	168	26.8%	0	-	-	-	-	NULL
RARRES2	5919	genome.wustl.edu	37	7	150035812	150035812	+	Nonsense_Mutation	SNP	C	C	A	novel		TCGA-D1-A177-01	TCGA-D1-A177-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_002889.3	-1	reviewed	p.E132*	0.217	81	0%	84	48.8%	117	1.7%	-	-	-	NULL
WDR86	349136	genome.wustl.edu	37	7	151093272	151093272	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-D1-A177-01	TCGA-D1-A177-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_198285.2	-1	validated	p.A106T	0.903	22	0%	20	40%	1	0%	possibly_damaging(0.903)	tolerated(0.3)	neutral(0.387)	HMMSmart_SM00320,superfamily_YVTN repeat-like/Quinoprotein amine dehydrogenase,HMMPfam_WD40
DLC1	10395	genome.wustl.edu	37	8	12952359	12952359	+	Silent	SNP	G	G	A	novel		TCGA-D1-A177-01	TCGA-D1-A177-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_182643.2	-1	reviewed	p.D1145	0.717	143	0%	164	44.5%	3	0%	-	-	-	HMMPfam_RhoGAP,HMMSmart_SM00324,superfamily_GTPase activation domain GAP
DOK2	9046	genome.wustl.edu	37	8	21767296	21767296	+	Silent	SNP	C	C	T	novel		TCGA-D1-A177-01	TCGA-D1-A177-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_003974.2	-1	reviewed	p.P255	0.092	183	0%	212	52.4%	0	-	-	-	-	NULL
SORBS3	10174	genome.wustl.edu	37	8	22428561	22428561	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-D1-A177-01	TCGA-D1-A177-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_005775.4	+1	validated	p.G524S	0.001	31	0%	63	46%	246	50%	benign(0.004)	tolerated(0.45)	neutral(0.012)	superfamily_SH3-domain
KCTD9	54793	genome.wustl.edu	37	8	25293759	25293759	+	Nonsense_Mutation	SNP	G	G	A	novel		TCGA-D1-A177-01	TCGA-D1-A177-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_017634.2	-1	validated	p.R219*	1.000	277	0%	333	36.6%	11	0%	-	-	-	HMMPfam_Pentapeptide
FGFR1	2260	genome.wustl.edu	37	8	38287368	38287368	+	Missense_Mutation	SNP	T	T	A	novel		TCGA-D1-A177-01	TCGA-D1-A177-01	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_023110.2	-1	reviewed	p.I64F	1.000	71	0%	57	45.6%	11	27.2%	benign(0.029)	deleterious(0.04)	neutral(0.350)	HMMSmart_SM00408,HMMSmart_SM00409,HMMPfam_ig,superfamily_Immunoglobulin
IDO1	3620	genome.wustl.edu	37	8	39781002	39781002	+	Silent	SNP	A	A	G	novel		TCGA-D1-A177-01	TCGA-D1-A177-01	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_002164.4	+1	validated	p.V184	0.010	171	0%	233	43.3%	6	0%	-	-	-	HMMPfam_IDO
NSMAF	8439	genome.wustl.edu	37	8	59500239	59500239	+	Nonsense_Mutation	SNP	C	C	A	novel		TCGA-D1-A177-01	TCGA-D1-A177-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001144772.1	-1	reviewed	p.E776*	1.000	242	0%	293	48.8%	13	7.6%	-	-	-	superfamily_WD40 repeat-like
C8orf44	56260	genome.wustl.edu	37	8	67590033	67590033	+	Missense_Mutation	SNP	C	C	G	novel		TCGA-D1-A177-01	TCGA-D1-A177-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_019607.1	+1	provisional	p.F30L	0.006	123	0%	172	38.4%	14	50%	benign(0.007)	tolerated(0.21)	neutral(0.044)	NULL
NBN	4683	genome.wustl.edu	37	8	90982637	90982637	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-D1-A177-01	TCGA-D1-A177-01	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_002485.4	-1	reviewed	p.D284G	0.187	210	0%	218	15.6%	27	7.4%	benign(0.001)	tolerated(0.08)	neutral(0.300)	NULL
VPS13B	157680	genome.wustl.edu	37	8	100874128	100874128	+	Silent	SNP	C	C	T	novel		TCGA-D1-A177-01	TCGA-D1-A177-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_017890.3	+1	reviewed	p.G3748	0.997	46	0%	47	53.2%	3	0%	-	-	-	NULL
UBR5	51366	genome.wustl.edu	37	8	103298683	103298683	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-D1-A177-01	TCGA-D1-A177-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_015902.4	-1	reviewed	p.A1707D	1.000	307	0%	352	41.8%	11	0%	possibly_damaging(0.722)	tolerated(0.61)	neutral(0.266)	NULL
CSMD3	114788	genome.wustl.edu	37	8	113317098	113317098	+	Silent	SNP	T	T	C	novel		TCGA-D1-A177-01	TCGA-D1-A177-01	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_198123.1	-1	validated	p.R2706	1.000	156	0%	135	43%	0	-	-	-	-	HMMPfam_Sushi,HMMSmart_SM00032,superfamily_Complement control module/SCR domain
ENPP2	5168	genome.wustl.edu	37	8	120592383	120592383	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-D1-A177-01	TCGA-D1-A177-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_006209.3	-1	reviewed	p.R637W	1.000	274	0%	223	40.8%	3	0%	probably_damaging(0.996)	deleterious(0.01)	deleterious(0.867)	NULL
ADCY8	114	genome.wustl.edu	37	8	132051639	132051639	+	Missense_Mutation	SNP	G	G	A	rs184754999	by1000genomes	TCGA-D1-A177-01	TCGA-D1-A177-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001115.2	-1	reviewed	p.A314V	1.000	39	0%	45	40%	0	-	benign(0)	tolerated(0.26)	neutral(0.034)	NULL
NDRG1	10397	genome.wustl.edu	37	8	134251150	134251150	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-D1-A177-01	TCGA-D1-A177-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001135242.1	-1	reviewed	p.G386R	0.994	32	0%	40	52.5%	219	37.8%	possibly_damaging(0.455)	tolerated(0.08)	neutral(0.449)	NULL
ZFAT	57623	genome.wustl.edu	37	8	135614250	135614250	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-D1-A177-01	TCGA-D1-A177-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_020863.3	-1	reviewed	p.A571V	0.003	57	0%	52	11.5%	4	50%	benign(0)	tolerated(0.46)	neutral(0.012)	NULL
FAM83H	286077	genome.wustl.edu	37	8	144812314	144812314	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-D1-A177-01	TCGA-D1-A177-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_198488.3	-1	reviewed	p.A147T	1.000	50	0%	73	37%	41	43.9%	probably_damaging(1)	deleterious(0.02)	deleterious(0.883)	HMMPfam_DUF1669,superfamily_Phospholipase D/nuclease
C8orf33	65265	genome.wustl.edu	37	8	146278037	146278037	+	Silent	SNP	C	C	T	novel		TCGA-D1-A177-01	TCGA-D1-A177-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_023080.2	+1	validated	p.R24	0.002	84	0%	96	39.6%	30	56.6%	-	-	-	NULL
NFIB	4781	genome.wustl.edu	37	9	14307309	14307309	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-D1-A177-01	TCGA-D1-A177-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_005596.2	-1	validated	p.R81C	1.000	328	0%	410	50.5%	1	100%	probably_damaging(1)	deleterious(0)	deleterious(0.945)	HMMPfam_MH1,HMMSmart_SM00523
C9orf93	203238	genome.wustl.edu	37	9	15729754	15729754	+	Silent	SNP	G	G	A	novel		TCGA-D1-A177-01	TCGA-D1-A177-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_173550.2	+1	predicted	p.L669	1.000	116	0%	95	49.5%	0	-	-	-	-	NULL
ACER2	340485	genome.wustl.edu	37	9	19434994	19434994	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-D1-A177-01	TCGA-D1-A177-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001010887.2	+1	validated	p.L139M	1.000	540	0%	772	47%	5	20%	probably_damaging(1)	deleterious(0.02)	deleterious(0.883)	HMMPfam_aPHC
ENSG00000230729	0	genome.wustl.edu	37	9	34522395	34522396	+	Splice_Site	DEL	GT	GT	-	novel		TCGA-D1-A177-01	TCGA-D1-A177-01	GT	GT					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	ENST00000439960	+1	known	NULL	0.341:0.342	-	-	-	-	-	-	-	-	-	-
MELK	9833	genome.wustl.edu	37	9	36651775	36651775	+	Silent	SNP	T	T	C	novel		TCGA-D1-A177-01	TCGA-D1-A177-01	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_014791.2	+1	provisional	p.L318	1.000	198	0%	263	41.1%	37	32.4%	-	-	-	NULL
FAM122A	116224	genome.wustl.edu	37	9	71395911	71395911	+	Silent	SNP	A	A	G	novel		TCGA-D1-A177-01	TCGA-D1-A177-01	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_138333.3	+1	validated	p.P277	0.985	198	0%	254	45.7%	11	63.6%	-	-	-	NULL
TRPM6	140803	genome.wustl.edu	37	9	77397628	77397628	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-D1-A177-01	TCGA-D1-A177-01	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_017662.4	-1	reviewed	p.I1021V	1.000	266	0%	362	39.8%	0	-	benign(0.155)	tolerated(0.08)	neutral(0.314)	HMMPfam_Ion_trans
PRUNE2	158471	genome.wustl.edu	37	9	79322528	79322528	+	Silent	SNP	T	T	C	novel		TCGA-D1-A177-01	TCGA-D1-A177-01	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	ENST00000426088	-1	known	p.S876G	0.164	187	0%	170	43.5%	0	-	-	-	-	NULL
FRMD3	257019	genome.wustl.edu	37	9	85924529	85924529	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-D1-A177-01	TCGA-D1-A177-01	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_174938.4	-1	validated	p.M283T	1.000	117	0%	125	31.2%	1	0%	benign(0)	tolerated(0.76)	neutral(0.001)	HMMPfam_FERM_C,superfamily_PH domain-like
FGD3	89846	genome.wustl.edu	37	9	95795191	95795191	+	Silent	SNP	C	C	T	novel		TCGA-D1-A177-01	TCGA-D1-A177-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	ENST00000416701	+1	known	p.G607	0.000	53	0%	88	11.4%	0	-	-	-	-	superfamily_FYVE_PHD_ZnF
WNK2	65268	genome.wustl.edu	37	9	96009908	96009908	+	Silent	SNP	G	G	A	novel		TCGA-D1-A177-01	TCGA-D1-A177-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	ENST00000432730	+1	known	p.G538D	0.996	31	0%	41	39%	83	49.3%	-	-	-	superfamily_Protein kinase-like (PK-like)
WNK2	65268	genome.wustl.edu	37	9	96021432	96021432	+	Missense_Mutation	SNP	C	C	G	novel		TCGA-D1-A177-01	TCGA-D1-A177-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_006648.3	+1	reviewed	p.P868A	0.719	37	0%	39	51.3%	86	38.3%	unknown(0)	tolerated(0.06)	-	NULL
WNK2	65268	genome.wustl.edu	37	9	96051514	96051514	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-D1-A177-01	TCGA-D1-A177-01	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_006648.3	+1	reviewed	p.L1493S	0.000	24	0%	17	41.2%	130	39.2%	probably_damaging(0.958)	tolerated(0.25)	neutral(0.439)	NULL
PTCH1	5727	genome.wustl.edu	37	9	98209484	98209484	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-D1-A177-01	TCGA-D1-A177-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_000264.3	-1	reviewed	p.P1352T	1.000	12	0.000	7	0.714	8	37.5%	benign(0.008)	tolerated(0.23)	neutral(0.042)	NULL
IKBKAP	8518	genome.wustl.edu	37	9	111642395	111642395	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-D1-A177-01	TCGA-D1-A177-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_003640.3	-1	reviewed	p.R1133C	0.994	431	0%	517	15.1%	26	7.6%	probably_damaging(1)	deleterious(0)	deleterious(0.945)	NULL
PALM2-AKAP2	445815	genome.wustl.edu	37	9	112899742	112899742	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-D1-A177-01	TCGA-D1-A177-01	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_007203.4	+1	validated	p.T640A	0.000	82	0%	104	46.2%	3	0%	benign(0.003)	tolerated(0.86)	neutral(0.001)	NULL
SVEP1	79987	genome.wustl.edu	37	9	113197636	113197636	+	Silent	SNP	T	T	C	rs139569556	by1000genomes	TCGA-D1-A177-01	TCGA-D1-A177-01	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_153366.3	-1	validated	p.S1591	0.003	215	0%	261	48.3%	0	-	-	-	-	HMMPfam_Pentaxin,HMMSmart_SM00159,superfamily_Concanavalin A-like lectins/glucanases
RGS3	5998	genome.wustl.edu	37	9	116246421	116246421	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-D1-A177-01	TCGA-D1-A177-01	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_144488.4	+1	reviewed	p.S177P	1.000	77	0%	116	45.7%	20	55%	probably_damaging(0.999)	deleterious(0.03)	deleterious(0.855)	HMMPfam_C2,HMMSmart_SM00239,superfamily_C2 domain (Calcium/lipid-binding domain CaLB)
AMBP	259	genome.wustl.edu	37	9	116823220	116823220	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-D1-A177-01	TCGA-D1-A177-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001633.3	-1	reviewed	p.G338S	0.992	76	0%	123	38.2%	58	15.5%	possibly_damaging(0.822)	deleterious(0.01)	deleterious(0.717)	HMMPfam_Kunitz_BPTI,HMMSmart_KU
AMBP	259	genome.wustl.edu	37	9	116831979	116831979	+	Silent	SNP	C	C	T	novel		TCGA-D1-A177-01	TCGA-D1-A177-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001633.3	-1	reviewed	p.P201	0.098	110	0%	151	45.7%	37	13.5%	-	-	-	NULL
ENSG00000221734	0	genome.wustl.edu	37	9	117554475	117554476	+	RNA	DEL	GT	GT	-	novel		TCGA-D1-A177-01	TCGA-D1-A177-01	GT	GT					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	ENST00000408807	+1	novel	NULL	0.007:0.006	-	-	-	-	-	-	-	-	-	-
CNTRL	11064	genome.wustl.edu	37	9	123935682	123935682	+	Silent	SNP	C	C	T	novel		TCGA-D1-A177-01	TCGA-D1-A177-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_007018.4	+1	reviewed	p.N2193	0.339	94	0%	71	40.8%	1	0%	-	-	-	NULL
GPR21	2844	genome.wustl.edu	37	9	125797578	125797578	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-D1-A177-01	TCGA-D1-A177-01	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_005294.1	+1	provisional	p.C245R	0.984	106	0%	145	49%	0	-	benign(0.002)	tolerated(0.16)	neutral(0.059)	HMMPfam_7tm_1,superfamily_Family A G protein-coupled receptor-like
RABGAP1	23637	genome.wustl.edu	37	9	125827753	125827755	+	In_Frame_Del	DEL	AAA	AAA	-	rs3214358		TCGA-D1-A177-01	TCGA-D1-A177-01	AAA	AAA					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	ENST00000447652	+1	known	p.K576in_frame_del	0.000:0.000:0.013	-	-	-	-	-	-	-	-	-	NULL
PSMB7	5695	genome.wustl.edu	37	9	127115901	127115901	+	Silent	SNP	T	T	C	novel		TCGA-D1-A177-01	TCGA-D1-A177-01	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_002799.2	-1	reviewed	p.T270	0.855	279	0.4%	372	46.5%	299	47.4%	-	-	-	NULL
MAPKAP1	79109	genome.wustl.edu	37	9	128305364	128305364	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-D1-A177-01	TCGA-D1-A177-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001006617.1	-1	reviewed	p.R311Q	1.000	280	0%	332	42.2%	35	48.5%	possibly_damaging(0.886)	tolerated(0.26)	neutral(0.380)	HMMPfam_SIN1
ASB6	140459	genome.wustl.edu	37	9	132401691	132401691	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-D1-A177-01	TCGA-D1-A177-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_017873.2	-1	reviewed	p.R131Q	0.998	102	0%	177	38.4%	20	60%	possibly_damaging(0.864)	tolerated(0.22)	neutral(0.377)	HMMPfam_Ank,HMMSmart_SM00248,superfamily_Ankyrin repeat
POMT1	10585	genome.wustl.edu	37	9	134394258	134394258	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-D1-A177-01	TCGA-D1-A177-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_007171.3	+1	reviewed	p.R489Q	1.000	94	0%	120	39.2%	26	42.3%	benign(0.04)	tolerated(0.27)	neutral(0.036)	HMMPfam_MIR,superfamily_MIR domain (Pfam 02815),HMMSmart_SM00472
TSC1	7248	genome.wustl.edu	37	9	135771988	135771990	+	In_Frame_Del	DEL	GCT	GCT	-	novel		TCGA-D1-A177-01	TCGA-D1-A177-01	GCT	GCT					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_000368.4	-1	reviewed	p.S1043in_frame_del	0.921:0.998:1.000	-	-	-	-	-	-	-	-	-	NULL
TSC1	7248	genome.wustl.edu	37	9	135777991	135777991	+	Splice_Site	SNP	C	C	T	novel		TCGA-D1-A177-01	TCGA-D1-A177-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_000368.4	-1	reviewed	e16+1	1.000	347	0%	494	44.3%	0	-	-	-	-	-
C9orf96	169436	genome.wustl.edu	37	9	136268044	136268044	+	Silent	SNP	G	G	A	novel		TCGA-D1-A177-01	TCGA-D1-A177-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_153710.3	+1	validated	p.G459	0.003	45	0%	77	42.9%	0	-	-	-	-	superfamily_ARM repeat
ADAMTS13	11093	genome.wustl.edu	37	9	136295131	136295131	+	Silent	SNP	G	G	A	novel		TCGA-D1-A177-01	TCGA-D1-A177-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_139025.3	+1	reviewed	p.A299	0.678	13	0%	21	28.6%	0	-	-	-	-	NULL
SLC2A6	11182	genome.wustl.edu	37	9	136340602	136340602	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-D1-A177-01	TCGA-D1-A177-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_017585.3	-1	validated	p.R232W	0.001	32	0%	44	54.5%	1	0%	probably_damaging(0.992)	deleterious(0.01)	deleterious(0.853)	HMMPfam_Sugar_tr,superfamily_MFS_gen_substrate_transporter
COL5A1	1289	genome.wustl.edu	37	9	137703225	137703225	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-D1-A177-01	TCGA-D1-A177-01	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_000093.3	+1	reviewed	p.Q1190R	1.000	126	0%	158	48.1%	10	0%	unknown(0)	tolerated(0.12)	-	HMMPfam_Collagen
NOTCH1	4851	genome.wustl.edu	37	9	139399875	139399875	+	Silent	SNP	C	C	T	novel		TCGA-D1-A177-01	TCGA-D1-A177-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_017617.3	-1	reviewed	p.T1491	0.894	49	0%	59	50.8%	55	40%	-	-	-	HMMPfam_Notch,HMMSmart_NL,superfamily_Notch_region
ITGA8	8516	genome.wustl.edu	37	10	15650256	15650256	+	Silent	SNP	G	G	A	novel		TCGA-D1-A177-01	TCGA-D1-A177-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_003638.1	-1	provisional	p.G529	0.997	202	0%	193	38.3%	1	0%	-	-	-	HMMPfam_Integrin_alpha2,superfamily_SSF69179
PDSS1	23590	genome.wustl.edu	37	10	27035267	27035267	+	Missense_Mutation	SNP	T	T	A	novel		TCGA-D1-A177-01	TCGA-D1-A177-01	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_014317.3	+1	reviewed	p.D371E	0.926	238	0%	233	47.6%	34	50%	benign(0.248)	deleterious(0.05)	neutral(0.370)	HMMPfam_polyprenyl_synt,superfamily_Terpenoid synthases
PTCHD3	374308	genome.wustl.edu	37	10	27702916	27702916	+	Silent	SNP	C	C	T	novel		TCGA-D1-A177-01	TCGA-D1-A177-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001034842.3	-1	validated	p.P88	0.003	39	0%	59	25.4%	0	-	-	-	-	NULL
MAP3K8	1326	genome.wustl.edu	37	10	30747080	30747080	+	Missense_Mutation	SNP	G	G	C	novel		TCGA-D1-A177-01	TCGA-D1-A177-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_005204.2	+1	reviewed	p.G314A	1.000	85	0%	109	44%	0	-	probably_damaging(0.999)	deleterious(0.01)	deleterious(0.896)	HMMSmart_SM00219,HMMSmart_SM00220,superfamily_Protein kinase-like (PK-like),HMMPfam_Pkinase
ENSG00000228637	0	genome.wustl.edu	37	10	42396342	42396343	+	RNA	INS	-	-	A	rs71240314		TCGA-D1-A177-01	TCGA-D1-A177-01	-	-					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	ENST00000439345	-1	novel	NULL	0.000:0.000	-	-	-	-	-	-	-	-	-	-
SYT15	83849	genome.wustl.edu	37	10	46962096	46962096	+	Silent	SNP	G	G	C	novel		TCGA-D1-A177-01	TCGA-D1-A177-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_031912.3	-1	reviewed	p.G380	1.000	119	0%	161	23.6%	0	-	-	-	-	HMMPfam_C2,HMMSmart_SM00239,superfamily_C2 domain (Calcium/lipid-binding domain CaLB)
SYT15	83849	genome.wustl.edu	37	10	46967504	46967504	+	Silent	SNP	G	G	A	novel		TCGA-D1-A177-01	TCGA-D1-A177-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_031912.3	-1	reviewed	p.P191	0.072	151	0%	221	22.2%	0	-	-	-	-	HMMPfam_C2,HMMSmart_SM00239,superfamily_C2 domain (Calcium/lipid-binding domain CaLB)
GPRIN2	9721	genome.wustl.edu	37	10	47000086	47000086	+	Silent	SNP	G	G	A	novel		TCGA-D1-A177-01	TCGA-D1-A177-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_014696.3	+1	validated	p.V402	0.961	378	0.3%	444	21.6%	0	-	-	-	-	NULL
GDF10	2662	genome.wustl.edu	37	10	48428982	48428982	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-D1-A177-01	TCGA-D1-A177-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_004962.2	-1	reviewed	p.E302K	1.000	21	0%	32	40.6%	0	-	probably_damaging(0.999)	deleterious(0)	deleterious(0.935)	NULL
WDFY4	57705	genome.wustl.edu	37	10	50171962	50171962	+	Missense_Mutation	SNP	C	C	G	novel		TCGA-D1-A177-01	TCGA-D1-A177-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_020945.1	+1	validated	p.P2767A	0.306	179	0%	217	50.2%	0	-	benign(0.119)	deleterious(0.05)	neutral(0.355)	HMMPfam_Beach,superfamily_BEACH domain,superfamily_WD40 repeat-like
CHAT	1103	genome.wustl.edu	37	10	50856579	50856579	+	Silent	SNP	C	C	T	novel		TCGA-D1-A177-01	TCGA-D1-A177-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_020549.4	+1	reviewed	p.C436	0.927	117	0%	119	42%	0	-	-	-	-	HMMPfam_Carn_acyltransf,PatternScan_ACYLTRANSF_C_2,superfamily_CoA-dependent acyltransferases
AGAP6	414189	genome.wustl.edu	37	10	51769403	51769403	+	Silent	SNP	C	C	T	novel		TCGA-D1-A177-01	TCGA-D1-A177-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001077665.2	+1	validated	p.H506	1.000	171	0%	190	40.5%	30	33.3%	-	-	-	HMMPfam_ArfGap,HMMSmart_SM00105,superfamily_Pyk2-associated protein beta ARF-GAP domain
ANK3	288	genome.wustl.edu	37	10	61840265	61840265	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-D1-A177-01	TCGA-D1-A177-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	ENST00000395293	-1	known	p.T1113M	0.001	143	0%	173	36.4%	0	-	possibly_damaging(0.938)	deleterious(0)	deleterious(0.828)	NULL
LRRTM3	347731	genome.wustl.edu	37	10	68687197	68687197	+	Nonsense_Mutation	SNP	C	C	T	novel		TCGA-D1-A177-01	TCGA-D1-A177-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_178011.3	+1	validated	p.R175*	1.000	116	0%	146	45.2%	0	-	-	-	-	HMMPfam_LRR_1,HMMSmart_SM00369,superfamily_L domain-like
NEUROG3	50674	genome.wustl.edu	37	10	71332239	71332239	+	Silent	SNP	C	C	T	novel		TCGA-D1-A177-01	TCGA-D1-A177-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_020999.3	-1	reviewed	p.S187	0.417	12	0%	11	54.5%	0	-	-	-	-	NULL
DNAJC9	23234	genome.wustl.edu	37	10	75003192	75003194	+	In_Frame_Del	DEL	CCT	CCT	-	novel		TCGA-D1-A177-01	TCGA-D1-A177-01	CCT	CCT					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_015190.3	-1	provisional	p.G250in_frame_del	1.000:1.000:1.000	-	-	-	-	-	-	-	-	-	NULL
PPP3CB	5532	genome.wustl.edu	37	10	75239076	75239076	+	Silent	SNP	T	T	C	novel		TCGA-D1-A177-01	TCGA-D1-A177-01	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001142353.1	-1	validated	p.T95	1.000	220	0%	240	12.9%	16	12.5%	-	-	-	HMMPfam_Metallophos,HMMSmart_PP2Ac,superfamily_SSF56300
KIAA0913	23053	genome.wustl.edu	37	10	75551989	75551989	+	Silent	SNP	C	C	T	novel		TCGA-D1-A177-01	TCGA-D1-A177-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	ENST00000433366	+1	known	p.P287S	1.000	19	0%	22	45.5%	5	60%	-	-	-	NULL
C10orf55	414236	genome.wustl.edu	37	10	75671992	75671992	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-D1-A177-01	TCGA-D1-A177-01	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	ENST00000409178	-1	known	p.H4R	0.676	208	0%	247	46.6%	5	0%	unknown(0)	-	-	NULL
KAT6B	23522	genome.wustl.edu	37	10	76735636	76735638	+	In_Frame_Del	DEL	CTT	CTT	-	novel		TCGA-D1-A177-01	TCGA-D1-A177-01	CTT	CTT					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_012330.2	+1	validated	p.S516in_frame_del	1.000:1.000:1.000	-	-	-	-	-	-	-	-	-	NULL
ANXA11	311	genome.wustl.edu	37	10	81923112	81923113	+	Frame_Shift_Del	DEL	TC	TC	-	novel		TCGA-D1-A177-01	TCGA-D1-A177-01	TC	TC					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001157.2	-1	reviewed	p.D360fs	1.000:1.000	-	-	-	-	-	-	-	-	-	superfamily_Annexin,HMMPfam_Annexin
TSPAN14	81619	genome.wustl.edu	37	10	82276001	82276001	+	Silent	SNP	C	C	T	novel		TCGA-D1-A177-01	TCGA-D1-A177-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_030927.2	+1	validated	p.C221	1.000	227	0%	221	50.2%	42	28.5%	-	-	-	superfamily_Tetraspanin,HMMPfam_Tetraspannin
LRIT2	340745	genome.wustl.edu	37	10	85984607	85984607	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-D1-A177-01	TCGA-D1-A177-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001017924.2	-1	validated	p.A125V	0.991	121	0%	137	46.7%	0	-	possibly_damaging(0.903)	deleterious(0.04)	deleterious(0.707)	HMMPfam_LRR_1,superfamily_SSF52058
PTEN	5728	genome.wustl.edu	37	10	89692905	89692905	+	Missense_Mutation	SNP	G	G	A	rs121913292		TCGA-D1-A177-01	TCGA-D1-A177-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	ENST00000371953	+1	known	p.R130Q	1.000	274	0%	343	38.8%	18	44.4%	probably_damaging(1)	deleterious(0)	deleterious(0.945)	HMMPfam_DSPc,HMMSmart_SM00404,PatternScan_TYR_PHOSPHATASE_1,superfamily_(Phosphotyrosine protein) phosphatases II
SLC16A12	387700	genome.wustl.edu	37	10	91192860	91192860	+	Silent	SNP	C	C	T	novel		TCGA-D1-A177-01	TCGA-D1-A177-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_213606.3	-1	validated	p.E474	0.000	133	0%	195	43.6%	0	-	-	-	-	NULL
MYOF	26509	genome.wustl.edu	37	10	95111302	95111302	+	Silent	SNP	G	G	A	novel		TCGA-D1-A177-01	TCGA-D1-A177-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_013451.3	-1	reviewed	p.S1230	0.942	134	0%	173	47.4%	4	25%	-	-	-	HMMPfam_C2,HMMSmart_SM00239,superfamily_C2 domain (Calcium/lipid-binding domain CaLB)
SLC35G1	159371	genome.wustl.edu	37	10	95660659	95660659	+	Silent	SNP	G	G	A	novel		TCGA-D1-A177-01	TCGA-D1-A177-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001134658.1	+1	validated	p.T170	0.003	200	0%	264	42%	3	33.3%	-	-	-	HMMPfam_DUF6,superfamily_Multidrug resistance efflux transporter EmrE
DNMBP	23268	genome.wustl.edu	37	10	101639586	101639586	+	Silent	SNP	A	A	G	novel		TCGA-D1-A177-01	TCGA-D1-A177-01	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_015221.2	-1	validated	p.S1510	0.000	107	0%	132	44.7%	52	51.9%	-	-	-	superfamily_SH3-domain
DNMBP	23268	genome.wustl.edu	37	10	101654728	101654728	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-D1-A177-01	TCGA-D1-A177-01	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_015221.2	-1	validated	p.L1044P	1.000	126	0%	128	35.9%	30	40%	probably_damaging(0.998)	deleterious(0)	deleterious(0.919)	HMMPfam_BAR,HMMSmart_SM00721
TLX1	3195	genome.wustl.edu	37	10	102893975	102893975	+	Splice_Site	SNP	G	G	A	novel		TCGA-D1-A177-01	TCGA-D1-A177-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	ENST00000467928	+1	known	NULL	0.697	107	0%	163	46.6%	0	-	-	-	-	-
PPRC1	23082	genome.wustl.edu	37	10	103908614	103908614	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-D1-A177-01	TCGA-D1-A177-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_015062.3	+1	reviewed	p.R1553H	0.989	226	0%	286	37.8%	40	55%	probably_damaging(0.996)	deleterious(0.02)	deleterious(0.845)	HMMPfam_RRM_1,HMMSmart_SM00360,superfamily_RNA-binding domain RBD
GBF1	8729	genome.wustl.edu	37	10	104135324	104135324	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-D1-A177-01	TCGA-D1-A177-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_004193.1	+1	provisional	p.A1289V	0.773	78	0%	87	42.5%	60	40%	benign(0)	tolerated(0.61)	neutral(0.004)	NULL
PDCD11	22984	genome.wustl.edu	37	10	105203756	105203756	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-D1-A177-01	TCGA-D1-A177-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_014976.1	+1	validated	p.R1737W	0.996	54	0%	59	35.6%	34	41.1%	probably_damaging(0.994)	deleterious(0.02)	deleterious(0.835)	HMMSmart_HAT,superfamily_SSF48452
CALHM2	51063	genome.wustl.edu	37	10	105207005	105207005	+	Silent	SNP	G	G	A	novel		TCGA-D1-A177-01	TCGA-D1-A177-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_015916.4	-1	validated	p.G292	1.000	63	0%	79	36.7%	4	25%	-	-	-	NULL
CALHM2	51063	genome.wustl.edu	37	10	105209484	105209484	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-D1-A177-01	TCGA-D1-A177-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_015916.4	-1	validated	p.G72D	0.983	48	0%	48	31.2%	3	0%	probably_damaging(1)	deleterious(0)	deleterious(0.945)	NULL
COL17A1	1308	genome.wustl.edu	37	10	105800154	105800154	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-D1-A177-01	TCGA-D1-A177-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_000494.3	-1	reviewed	p.G906S	1.000	214	0%	278	36.7%	2	50%	probably_damaging(0.999)	deleterious(0.01)	deleterious(0.896)	HMMPfam_Collagen
WDR96	80217	genome.wustl.edu	37	10	105926425	105926425	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-D1-A177-01	TCGA-D1-A177-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_025145.5	-1	provisional	p.R954C	0.426	94	0%	128	50%	0	-	possibly_damaging(0.937)	tolerated(0.06)	deleterious(0.706)	superfamily_WD40 repeat-like
C10orf46	143384	genome.wustl.edu	37	10	120514252	120514252	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-D1-A177-01	TCGA-D1-A177-01	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_153810.4	-1	validated	p.E8G	1.000	129	0%	175	44%	9	22.2%	unknown(0)	-	-	NULL
INPP5F	22876	genome.wustl.edu	37	10	121565934	121565934	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-D1-A177-01	TCGA-D1-A177-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_014937.2	+1	reviewed	p.C461Y	1.000	419	0.2%	521	45.7%	5	40%	probably_damaging(1)	deleterious(0)	deleterious(0.945)	NULL
DPYSL4	10570	genome.wustl.edu	37	10	134006240	134006240	+	Silent	SNP	C	C	T	novel		TCGA-D1-A177-01	TCGA-D1-A177-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_006426.2	+1	validated	p.G69	0.024	95	0%	146	45.2%	4	0%	-	-	-	HMMPfam_Amidohydro_1,superfamily_Composite domain of metallo-dependent hydrolases,superfamily_Metallo-dependent hydrolases
TUBGCP2	10844	genome.wustl.edu	37	10	135094787	135094787	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-D1-A177-01	TCGA-D1-A177-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_006659.2	-1	validated	p.V855I	1.000	71	0%	97	50.5%	150	40%	benign(0)	tolerated(0.51)	neutral(0.009)	NULL
IFITM3	10410	genome.wustl.edu	37	11	320569	320569	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-D1-A177-01	TCGA-D1-A177-01	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_021034.2	-1	validated	p.V82A	0.995	102	0%	120	40.8%	301	0.9%	benign(0.196)	deleterious(0.04)	neutral(0.367)	HMMPfam_CD225
RASSF7	8045	genome.wustl.edu	37	11	562143	562144	+	Frame_Shift_Del	DEL	AG	AG	-	novel		TCGA-D1-A177-01	TCGA-D1-A177-01	AG	AG					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_003475.3	+1	validated	p.E64fs	0.920:1.000	-	-	-	-	-	-	-	-	-	HMMPfam_RA,HMMSmart_SM00314
HBB	3043	genome.wustl.edu	37	11	5246922	5246922	+	Missense_Mutation	SNP	T	T	C	rs111033582		TCGA-D1-A177-01	TCGA-D1-A177-01	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_000518.4	-1	reviewed	p.H117R	0.000	230	0%	256	44.5%	23	0%	benign(0)	tolerated(0.93)	-	superfamily_Globin-like
OR52N2	390077	genome.wustl.edu	37	11	5842396	5842396	+	Silent	SNP	C	C	T	novel		TCGA-D1-A177-01	TCGA-D1-A177-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001005174.1	+1	provisional	p.I277	0.083	209	0%	214	49.5%	0	-	-	-	-	HMMPfam_7tm_1,superfamily_SSF81321
ARFIP2	23647	genome.wustl.edu	37	11	6499012	6499012	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-D1-A177-01	TCGA-D1-A177-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_012402.2	-1	validated	p.R269L	1.000	139	0%	162	50.6%	235	44.6%	probably_damaging(0.977)	deleterious(0.01)	deleterious(0.825)	HMMPfam_Arfaptin
DNHD1	144132	genome.wustl.edu	37	11	6567862	6567862	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-D1-A177-01	TCGA-D1-A177-01	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_144666.2	+1	provisional	p.Q1898R	0.006	44	0%	48	41.7%	0	-	benign(0.016)	tolerated(0.14)	neutral(0.250)	NULL
TUB	7275	genome.wustl.edu	37	11	8122496	8122496	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-D1-A177-01	TCGA-D1-A177-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_003320.4	+1	reviewed	p.V502I	1.000	187	0%	261	42.5%	0	-	probably_damaging(1)	deleterious(0)	deleterious(0.945)	HMMPfam_Tub,superfamily_Tubby_C,PatternScan_TUB_1
CALCB	797	genome.wustl.edu	37	11	15096736	15096736	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-D1-A177-01	TCGA-D1-A177-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_000728.3	+1	validated	p.Q72H	0.916	88	0%	87	37.9%	0	-	benign(0.03)	deleterious(0.02)	neutral(0.385)	NULL
PLEKHA7	144100	genome.wustl.edu	37	11	16876466	16876466	+	Silent	SNP	G	G	A	novel		TCGA-D1-A177-01	TCGA-D1-A177-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_175058.4	-1	validated	p.P164	0.020	230	0%	300	42%	4	50%	-	-	-	superfamily_PH domain-like
PIK3C2A	5286	genome.wustl.edu	37	11	17191179	17191179	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-D1-A177-01	TCGA-D1-A177-01	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_002645.2	-1	validated	p.E37G	1.000	385	0%	510	45.1%	5	60%	probably_damaging(0.999)	deleterious(0)	deleterious(0.935)	NULL
NELL1	4745	genome.wustl.edu	37	11	20948958	20948958	+	Silent	SNP	T	T	C	novel		TCGA-D1-A177-01	TCGA-D1-A177-01	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_006157.3	+1	reviewed	p.D288	0.827	208	0%	225	44.9%	0	-	-	-	-	HMMPfam_VWC,HMMSmart_SM00214,HMMSmart_SM00215
RAG1	5896	genome.wustl.edu	37	11	36595982	36595982	+	Silent	SNP	C	C	A	novel		TCGA-D1-A177-01	TCGA-D1-A177-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_000448.2	+1	reviewed	p.I376	0.272	33	3%	45	40%	0	-	-	-	-	HMMPfam_zf-RAG1
MAPK8IP1	9479	genome.wustl.edu	37	11	45924220	45924220	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-D1-A177-01	TCGA-D1-A177-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_005456.2	+1	reviewed	p.P301L	1.000	11	0%	20	50%	10	40%	benign(0.062)	deleterious(0)	neutral(0.449)	NULL
LOC120824	120824	genome.wustl.edu	37	11	49003144	49003144	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-D1-A177-01	TCGA-D1-A177-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	XM_062300.6	-1	model	p.C35Y	1.000	67	0%	89	13.5%	0	-	-	-	-	HMMSmart_SM00184,HMMPfam_zf-C3HC4,superfamily_RING/U-box
ZDHHC5	25921	genome.wustl.edu	37	11	57466520	57466520	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-D1-A177-01	TCGA-D1-A177-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_015457.2	+1	validated	p.R538C	0.998	84	0%	82	42.7%	96	48.9%	probably_damaging(1)	deleterious(0)	deleterious(0.945)	NULL
FAM111A	63901	genome.wustl.edu	37	11	58919767	58919767	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-D1-A177-01	TCGA-D1-A177-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001142519.1	+1	validated	p.R209H	0.000	235	0.4%	238	36.1%	18	61.1%	benign(0.005)	tolerated(0.2)	neutral(0.049)	NULL
CD6	923	genome.wustl.edu	37	11	60739340	60739340	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-D1-A177-01	TCGA-D1-A177-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_006725.3	+1	validated	p.M1I	0.453	119	0%	153	39.2%	1	0%	benign(0.278)	deleterious(0)	deleterious(0.475)	NULL
TUT1	64852	genome.wustl.edu	37	11	62346298	62346298	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-D1-A177-01	TCGA-D1-A177-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_022830.2	-1	reviewed	p.L299I	0.918	243	0%	336	41.7%	20	45%	benign(0.022)	tolerated(0.51)	neutral(0.010)	NULL
FKBP2	2286	genome.wustl.edu	37	11	64009974	64009974	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-D1-A177-01	TCGA-D1-A177-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001135208.1	+1	reviewed	p.V39M	1.000	90	0%	122	41.8%	228	42.9%	probably_damaging(0.987)	tolerated(0.08)	deleterious(0.736)	superfamily_FKBP-like
RPS6KA4	8986	genome.wustl.edu	37	11	64127681	64127681	+	Silent	SNP	G	G	A	novel		TCGA-D1-A177-01	TCGA-D1-A177-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_003942.2	+1	reviewed	p.A58	0.363	11	0%	15	40%	41	46.3%	unknown(0)	-	-	HMMSmart_SM00219,HMMSmart_SM00220,superfamily_Protein kinase-like (PK-like),PatternScan_PROTEIN_KINASE_ATP,HMMPfam_Pkinase
EHD1	10938	genome.wustl.edu	37	11	64627443	64627443	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-D1-A177-01	TCGA-D1-A177-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_006795.2	-1	reviewed	p.A290T	1.000	76	0%	95	45.3%	34	44.1%	benign(0.195)	tolerated(0.17)	neutral(0.077)	superfamily_P-loop containing nucleoside triphosphate hydrolases
SPDYC	387778	genome.wustl.edu	37	11	64939991	64939991	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-D1-A177-01	TCGA-D1-A177-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001008778.1	+1	provisional	p.R144Q	0.000	206	0%	283	47.7%	0	-	benign(0.059)	tolerated(0.45)	neutral(0.016)	NULL
SLC22A20	440044	genome.wustl.edu	37	11	64985099	64985099	+	Silent	SNP	C	C	T	novel		TCGA-D1-A177-01	TCGA-D1-A177-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001004326.4	+1	validated	p.C193	0.048	133	0%	196	43.4%	4	0%	-	-	-	superfamily_MFS general substrate transporter
SNX32	254122	genome.wustl.edu	37	11	65617531	65617531	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-D1-A177-01	TCGA-D1-A177-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	ENST00000435160	+1	known	p.R94S	0.002	83	0%	89	57.3%	0	-	-	-	-	NULL
SNX32	254122	genome.wustl.edu	37	11	65618804	65618804	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-D1-A177-01	TCGA-D1-A177-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_152760.2	+1	validated	p.A239T	1.000	99	0%	168	41.7%	0	-	possibly_damaging(0.857)	deleterious(0)	deleterious(0.776)	HMMPfam_Vps5
TBC1D10C	374403	genome.wustl.edu	37	11	67172912	67172912	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-D1-A177-01	TCGA-D1-A177-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_198517.2	+1	provisional	p.A99T	1.000	79	0%	87	44.8%	2	50%	possibly_damaging(0.808)	deleterious(0.02)	deleterious(0.687)	HMMPfam_TBC,HMMSmart_TBC,superfamily_RabGAP_TBC
NADSYN1	55191	genome.wustl.edu	37	11	71184643	71184643	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-D1-A177-01	TCGA-D1-A177-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_018161.4	+1	validated	p.V193M	0.996	19	0%	34	47.1%	48	52%	probably_damaging(0.99)	deleterious(0)	deleterious(0.886)	HMMPfam_CN_hydrolase,superfamily_Carbon-nitrogen hydrolase
P2RY2	5029	genome.wustl.edu	37	11	72945966	72945966	+	Silent	SNP	C	C	T	novel		TCGA-D1-A177-01	TCGA-D1-A177-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_002564.2	+1	reviewed	p.F254	0.932	115	0%	186	42.5%	1	100%	-	-	-	HMMPfam_7tm_1,superfamily_Family A G protein-coupled receptor-like
UCP3	7352	genome.wustl.edu	37	11	73717302	73717302	+	Silent	SNP	G	G	A	novel		TCGA-D1-A177-01	TCGA-D1-A177-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_003356.3	-1	reviewed	p.A83	0.970	49	0%	52	36.5%	2	50%	-	-	-	superfamily_Mitochondrial carrier,HMMPfam_Mito_carr
MYO7A	4647	genome.wustl.edu	37	11	76905514	76905514	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-D1-A177-01	TCGA-D1-A177-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_000260.3	+1	reviewed	p.T1423M	0.993	139	0%	163	39.9%	2	50%	possibly_damaging(0.938)	tolerated(0.1)	deleterious(0.670)	superfamily_Second domain of FERM,HMMSmart_SM00295
ODZ4	26011	genome.wustl.edu	37	11	78523303	78523303	+	Silent	SNP	G	G	A	novel		TCGA-D1-A177-01	TCGA-D1-A177-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001098816.2	-1	validated	p.C614	1.000	182	0.5%	214	44.4%	0	-	-	-	-	HMMSmart_EGF,PatternScan_EGF_1,PatternScan_EGF_2
KIAA1731	85459	genome.wustl.edu	37	11	93435624	93435624	+	Splice_Site	SNP	A	A	G	novel		TCGA-D1-A177-01	TCGA-D1-A177-01	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_033395.1	+1	validated	e15-2	0.991	141	0%	151	41.7%	0	-	-	-	-	-
DYNC2H1	79659	genome.wustl.edu	37	11	103075549	103075563	+	Splice_Site	DEL	TTATATATTTCTTAG	TTATATATTTCTTAG	-	novel		TCGA-D1-A177-01	TCGA-D1-A177-01	TTATATATTTCTTAG	TTATATATTTCTTAG					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001080463.1	+1	reviewed	e52-1	1.000:1.000	-	-	-	-	-	-	-	-	-	-
ZC3H12C	85463	genome.wustl.edu	37	11	110036032	110036032	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-D1-A177-01	TCGA-D1-A177-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_033390.1	+1	validated	p.R741M	1.000	242	0%	280	42.9%	2	50%	probably_damaging(0.979)	deleterious(0)	deleterious(0.867)	NULL
USP2	9099	genome.wustl.edu	37	11	119230292	119230292	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-D1-A177-01	TCGA-D1-A177-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_004205.4	-1	validated	p.R302W	0.982	209	0%	227	41.9%	0	-	possibly_damaging(0.936)	deleterious(0.01)	deleterious(0.787)	HMMPfam_UCH,superfamily_Cysteine proteinases
SNORD14E	85391	genome.wustl.edu	37	11	122928935	122928940	+	RNA	DEL	AAAAAA	AAAAAA	-	novel		TCGA-D1-A177-01	TCGA-D1-A177-01	AAAAAA	AAAAAA					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NR_003125.2	-1	provisional	NULL	0.000:0.000:0.000:0.000:0.000:0.000	-	-	-	-	-	-	-	-	-	-
GRAMD1B	57476	genome.wustl.edu	37	11	123448270	123448270	+	Silent	SNP	C	C	T	novel		TCGA-D1-A177-01	TCGA-D1-A177-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_020716.1	+1	validated	p.G73	0.081	36	0%	42	52.4%	0	-	-	-	-	NULL
DDX25	29118	genome.wustl.edu	37	11	125778169	125778169	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-D1-A177-01	TCGA-D1-A177-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_013264.3	+1	reviewed	p.M130I	1.000	135	0%	169	37.3%	0	-	benign(0.037)	deleterious(0.01)	neutral(0.408)	HMMPfam_DEAD,HMMSmart_SM00487,superfamily_P-loop containing nucleoside triphosphate hydrolases
SRPR	6734	genome.wustl.edu	37	11	126135645	126135645	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-D1-A177-01	TCGA-D1-A177-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_003139.3	-1	reviewed	p.M375I	1.000	215	0%	282	42.9%	163	41.1%	benign(0.004)	tolerated(0.35)	neutral(0.021)	superfamily_SRP54
NTM	50863	genome.wustl.edu	37	11	132180039	132180039	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-D1-A177-01	TCGA-D1-A177-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001144058.1	+1	reviewed	p.G232V	1.000	98	0%	114	54.4%	2	0%	probably_damaging(0.998)	deleterious(0.04)	deleterious(0.823)	superfamily_SSF48726
SPATA19	219938	genome.wustl.edu	37	11	133714155	133714155	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-D1-A177-01	TCGA-D1-A177-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_174927.1	-1	provisional	p.Q115H	1.000	205	0.5%	225	38.2%	0	-	possibly_damaging(0.647)	deleterious(0)	deleterious(0.671)	NULL
ACAD8	27034	genome.wustl.edu	37	11	134131678	134131678	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-D1-A177-01	TCGA-D1-A177-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_014384.2	+1	reviewed	p.A329V	0.992	232	0%	312	46.8%	29	55.1%	possibly_damaging(0.502)	deleterious(0)	deleterious(0.612)	HMMPfam_Acyl-CoA_dh_1,superfamily_AcylCoADH_C_like
TSPAN9	10867	genome.wustl.edu	37	12	3390438	3390438	+	Silent	SNP	C	C	T	novel		TCGA-D1-A177-01	TCGA-D1-A177-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_006675.4	+1	reviewed	p.C169	1.000	37	0%	54	37%	18	44.4%	-	-	-	superfamily_Tetraspanin,HMMPfam_Tetraspannin
LPCAT3	10162	genome.wustl.edu	37	12	7090789	7090790	+	Frame_Shift_Ins	INS	-	-	A	novel		TCGA-D1-A177-01	TCGA-D1-A177-01	-	-					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_005768.5	-1	validated	p.L155fs	1.000:1.000	-	-	-	-	-	-	-	-	-	HMMPfam_MBOAT
ZNF705A	440077	genome.wustl.edu	37	12	8327039	8327039	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-D1-A177-01	TCGA-D1-A177-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001004328.2	+1	validated	p.V44M	0.001	220	0%	265	21.1%	0	-	probably_damaging(0.996)	deleterious(0.02)	deleterious(0.845)	HMMPfam_KRAB,HMMSmart_KRAB,superfamily_Krueppel-associated_box
LST-3TM12	338821	genome.wustl.edu	37	12	21220287	21220287	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-D1-A177-01	TCGA-D1-A177-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001009562.4	+1	validated	p.G526S	0.569	246	0%	223	45.3%	0	-	probably_damaging(1)	deleterious(0)	deleterious(0.945)	HMMPfam_OATP,superfamily_MFS general substrate transporter
ABCC9	10060	genome.wustl.edu	37	12	21971089	21971089	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-D1-A177-01	TCGA-D1-A177-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_005691.2	-1	reviewed	p.L1256F	1.000	149	0%	162	48.8%	0	-	probably_damaging(1)	deleterious(0)	deleterious(0.945)	HMMPfam_ABC_membrane,superfamily_Multidrug resistance ABC transporter MsbA N-terminal domain
KIAA0528	9847	genome.wustl.edu	37	12	22676470	22676470	+	Silent	SNP	G	G	A	novel		TCGA-D1-A177-01	TCGA-D1-A177-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_014802.1	-1	predicted	p.G230	1.000	153	0%	190	33.2%	10	0%	-	-	-	NULL
ITPR2	3709	genome.wustl.edu	37	12	26818947	26818947	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-D1-A177-01	TCGA-D1-A177-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_002223.2	-1	validated	p.V483F	1.000	177	0%	217	42.4%	1	0%	probably_damaging(0.999)	deleterious(0)	deleterious(0.935)	HMMPfam_RYDR_ITPR,superfamily_IP3 receptor type 1 binding core domain 2
DBX2	440097	genome.wustl.edu	37	12	45410403	45410403	+	Splice_Site	SNP	T	T	C	novel		TCGA-D1-A177-01	TCGA-D1-A177-01	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001004329.2	-1	validated	e4-2	1.000	34	0%	46	47.8%	0	-	-	-	-	-
ENSG00000249687	0	genome.wustl.edu	37	12	48133869	48133869	+	RNA	SNP	G	G	T	novel		TCGA-D1-A177-01	TCGA-D1-A177-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	ENST00000506659	+1	known	NULL	0.000	41	0%	50	54%	1	100%	-	-	-	-
FMNL3	91010	genome.wustl.edu	37	12	50045069	50045069	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-D1-A177-01	TCGA-D1-A177-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_175736.4	-1	validated	p.R560Q	1.000	128	0%	154	46.1%	2	0%	benign(0.165)	tolerated(0.09)	neutral(0.311)	superfamily_FH2_actin_bd
KRT6A	3853	genome.wustl.edu	37	12	52884384	52884384	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-D1-A177-01	TCGA-D1-A177-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_005554.3	-1	reviewed	p.R349L	0.999	413	0%	469	44.6%	96	0%	probably_damaging(0.995)	tolerated(0.06)	deleterious(0.780)	HMMPfam_Filament
ZNF385A	25946	genome.wustl.edu	37	12	54778302	54778302	+	Silent	SNP	C	C	T	novel		TCGA-D1-A177-01	TCGA-D1-A177-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001130967.1	-1	validated	p.P19	0.997	114	0%	162	50%	0	-	-	-	-	NULL
NCKAP1L	3071	genome.wustl.edu	37	12	54902264	54902264	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-D1-A177-01	TCGA-D1-A177-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_005337.4	+1	reviewed	p.R152Q	0.892	294	0%	387	35.1%	0	-	possibly_damaging(0.495)	deleterious(0.01)	deleterious(0.571)	HMMPfam_Nckap1
KIAA0748	9840	genome.wustl.edu	37	12	55368243	55368243	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-D1-A177-01	TCGA-D1-A177-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001098815.1	-1	validated	p.A35V	0.287	62	0%	85	48.2%	0	-	benign(0.355)	deleterious(0)	deleterious(0.557)	NULL
NEUROD4	58158	genome.wustl.edu	37	12	55421198	55421198	+	Silent	SNP	C	C	G	novel		TCGA-D1-A177-01	TCGA-D1-A177-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_021191.2	+1	validated	p.L325	1.000	146	0%	145	44.8%	0	-	-	-	-	NULL
OR6C75	390323	genome.wustl.edu	37	12	55759757	55759758	+	Frame_Shift_Del	DEL	AC	AC	-	novel		TCGA-D1-A177-01	TCGA-D1-A177-01	AC	AC					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001005497.1	+1	provisional	p.L290fs	0.998:0.013	-	-	-	-	-	-	-	-	-	superfamily_SSF81321
SMARCC2	6601	genome.wustl.edu	37	12	56558358	56558358	+	Silent	SNP	A	A	G	rs71660257		TCGA-D1-A177-01	TCGA-D1-A177-01	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_003075.3	-1	reviewed	p.F1099	0.998	357	0.3%	481	41.2%	94	52.1%	-	-	-	NULL
MBD6	114785	genome.wustl.edu	37	12	57922098	57922098	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-D1-A177-01	TCGA-D1-A177-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_052897.3	+1	validated	p.R859W	1.000	40	0%	31	41.9%	15	53.3%	probably_damaging(1)	-	-	NULL
SRGAP1	57522	genome.wustl.edu	37	12	64521714	64521714	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-D1-A177-01	TCGA-D1-A177-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_020762.2	+1	validated	p.H872Y	1.000	199	0%	210	40%	2	50%	benign(0)	tolerated(0.12)	neutral(0.261)	superfamily_SH3-domain
TRHDE	29953	genome.wustl.edu	37	12	72666725	72666725	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-D1-A177-01	TCGA-D1-A177-01	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_013381.2	+1	reviewed	p.M56T	1.000	13	0.000	9	0.667	0	-	benign(0.027)	tolerated(0.21)	neutral(0.045)	NULL
GLIPR1	11010	genome.wustl.edu	37	12	75875617	75875617	+	Missense_Mutation	SNP	T	T	A	novel		TCGA-D1-A177-01	TCGA-D1-A177-01	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_006851.2	+1	reviewed	p.W60R	1.000	109	0%	128	45.3%	3	0%	probably_damaging(1)	deleterious(0)	deleterious(0.945)	HMMSmart_SCP,HMMPfam_SCP,superfamily_SCP-like_extracellular
PHLDA1	22822	genome.wustl.edu	37	12	76425182	76425182	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-D1-A177-01	TCGA-D1-A177-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_007350.3	-1	reviewed	p.A114T	1.000	12	0%	25	60%	4	0%	probably_damaging(0.959)	deleterious(0)	deleterious(0.847)	NULL
CEP290	80184	genome.wustl.edu	37	12	88447509	88447509	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-D1-A177-01	TCGA-D1-A177-01	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_025114.3	-1	reviewed	p.Q2350R	0.912	294	0%	305	45.2%	8	62.5%	benign(0)	tolerated(0.36)	neutral(0.020)	NULL
DCN	1634	genome.wustl.edu	37	12	91539835	91539838	+	Frame_Shift_Del	DEL	TTAC	TTAC	-	novel		TCGA-D1-A177-01	TCGA-D1-A177-01	TTAC	TTAC					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001920.3	-1	reviewed	p.K359fs	0.310:0.994:1.000:1.000	-	-	-	-	-	-	-	-	-	NULL
FGD6	55785	genome.wustl.edu	37	12	95604317	95604317	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-D1-A177-01	TCGA-D1-A177-01	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_018351.3	-1	validated	p.D248G	0.261	79	0%	82	15.9%	1	0%	benign(0.003)	deleterious(0)	neutral(0.445)	NULL
METAP2	10988	genome.wustl.edu	37	12	95906658	95906658	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-D1-A177-01	TCGA-D1-A177-01	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_006838.3	+1	reviewed	p.M384V	1.000	173	0%	260	44.6%	62	41.9%	possibly_damaging(0.932)	tolerated(0.06)	deleterious(0.701)	"HMMPfam_Peptidase_M24,superfamily_Creatinase/aminopeptidase,superfamily_""Winged helix"" DNA-binding domain"
ANKS1B	56899	genome.wustl.edu	37	12	99174976	99174976	+	Silent	SNP	A	A	G	novel		TCGA-D1-A177-01	TCGA-D1-A177-01	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_152788.3	-1	validated	p.S1095	1.000	112	0%	99	41.4%	0	-	-	-	-	HMMPfam_PID,HMMSmart_SM00462,superfamily_PH domain-like
HCFC2	29915	genome.wustl.edu	37	12	104481818	104481818	+	Splice_Site	SNP	T	T	C	novel		TCGA-D1-A177-01	TCGA-D1-A177-01	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_013320.2	+1	reviewed	e9+2	1.000	131	0%	133	41.4%	0	-	-	-	-	-
BTBD11	121551	genome.wustl.edu	37	12	108013802	108013802	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-D1-A177-01	TCGA-D1-A177-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001018072.1	+1	validated	p.R831Q	1.000	107	0%	157	56.1%	1	0%	possibly_damaging(0.947)	tolerated(0.12)	deleterious(0.651)	NULL
MYO1H	283446	genome.wustl.edu	37	12	109845636	109845636	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-D1-A177-01	TCGA-D1-A177-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001101421.3	+1	provisional	p.A342V	0.999	205	0%	294	51.7%	0	-	benign(0.33)	deleterious(0)	deleterious(0.548)	HMMPfam_Myosin_head,HMMSmart_SM00242,superfamily_P-loop containing nucleoside triphosphate hydrolases
NAA25	80018	genome.wustl.edu	37	12	112481611	112481611	+	Nonsense_Mutation	SNP	G	G	A	novel		TCGA-D1-A177-01	TCGA-D1-A177-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_024953.3	-1	reviewed	p.R690*	1.000	66	0%	88	39.8%	5	0%	-	-	-	NULL
OAS1	4938	genome.wustl.edu	37	12	113355426	113355426	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-D1-A177-01	TCGA-D1-A177-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001032409.1	+1	reviewed	p.A320V	0.011	175	0%	225	41.3%	2	0%	benign(0.228)	deleterious(0.01)	neutral(0.428)	HMMPfam_OAS1_C,superfamily_PAP/OAS1 substrate-binding domain
TPCN1	53373	genome.wustl.edu	37	12	113726051	113726051	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-D1-A177-01	TCGA-D1-A177-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	ENST00000428632	+1	known	p.P573H	0.001	68	0%	82	40.2%	1	100%	-	-	-	NULL
RBM19	9904	genome.wustl.edu	37	12	114397898	114397898	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-D1-A177-01	TCGA-D1-A177-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_016196.3	-1	reviewed	p.P102H	0.737	605	0%	775	27.6%	4	0%	possibly_damaging(0.716)	tolerated(0.13)	deleterious(0.512)	NULL
KSR2	283455	genome.wustl.edu	37	12	118198856	118198856	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-D1-A177-01	TCGA-D1-A177-01	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_173598.4	-1	validated	p.F287L	1.000	73	0%	82	53.7%	0	-	possibly_damaging(0.509)	tolerated(0.32)	neutral(0.195)	NULL
KSR2	283455	genome.wustl.edu	37	12	118199132	118199132	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-D1-A177-01	TCGA-D1-A177-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_173598.4	-1	validated	p.V195M	0.987	35	0%	54	40.7%	0	-	possibly_damaging(0.934)	tolerated(0.07)	deleterious(0.699)	NULL
CIT	11113	genome.wustl.edu	37	12	120241040	120241040	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-D1-A177-01	TCGA-D1-A177-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_007174.1	-1	validated	p.S422N	1.000	148	0%	212	44.8%	3	66.6%	benign(0.062)	tolerated(0.22)	neutral(0.046)	HMMSmart_SM00133,HMMPfam_Pkinase_C
GCN1L1	10985	genome.wustl.edu	37	12	120572449	120572449	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-D1-A177-01	TCGA-D1-A177-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_006836.1	-1	validated	p.R2364C	1.000	94	0%	159	43.4%	62	53.2%	probably_damaging(1)	deleterious(0)	deleterious(0.945)	HMMPfam_HEAT,superfamily_ARM repeat
OASL	8638	genome.wustl.edu	37	12	121461904	121461904	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-D1-A177-01	TCGA-D1-A177-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_198213.1	-1	validated	p.R232C	0.892	195	0%	238	53.4%	1	0%	possibly_damaging(0.737)	deleterious(0.01)	deleterious(0.675)	HMMPfam_OAS1_C
SBNO1	55206	genome.wustl.edu	37	12	123789193	123789193	+	Missense_Mutation	SNP	C	C	T	rs76042452		TCGA-D1-A177-01	TCGA-D1-A177-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_018183.3	-1	validated	p.R1234Q	1.000	84	0%	89	29.2%	8	50%	probably_damaging(0.998)	deleterious(0)	deleterious(0.919)	NULL
DNAH10	196385	genome.wustl.edu	37	12	124414988	124414988	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-D1-A177-01	TCGA-D1-A177-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_207437.3	+1	validated	p.R4100S	0.998	172	0%	184	47.3%	0	-	probably_damaging(1)	deleterious(0)	deleterious(0.945)	HMMPfam_Dynein_heavy
NCOR2	9612	genome.wustl.edu	37	12	124839425	124839425	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-D1-A177-01	TCGA-D1-A177-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_006312.3	-1	validated	p.V1155I	0.644	145	0%	150	47.3%	25	56%	benign(0.003)	tolerated(1)	-	NULL
TMEM132C	92293	genome.wustl.edu	37	12	128899736	128899736	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-D1-A177-01	TCGA-D1-A177-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001136103.2	+1	provisional	p.R70L	0.945	44	0%	70	38.6%	0	-	probably_damaging(0.958)	tolerated(0.05)	deleterious(0.747)	NULL
FZD10	11211	genome.wustl.edu	37	12	130649128	130649128	+	Silent	SNP	G	G	A	novel		TCGA-D1-A177-01	TCGA-D1-A177-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_007197.2	+1	reviewed	p.P547	0.194	47	0%	67	41.8%	2	0%	-	-	-	NULL
EP400NL	347918	genome.wustl.edu	37	12	132589027	132589027	+	Frame_Shift_Del	DEL	C	C	-	novel		TCGA-D1-A177-01	TCGA-D1-A177-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	ENST00000376625	+1	known	p.P155fs	1.000	-	-	-	-	-	-	-	-	-	NULL
GJA3	2700	genome.wustl.edu	37	13	20717089	20717091	+	In_Frame_Del	DEL	CTC	CTC	-	novel		TCGA-D1-A177-01	TCGA-D1-A177-01	CTC	CTC					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_021954.3	-1	reviewed	p.E113in_frame_del	0.426:0.666:0.914	-	-	-	-	-	-	-	-	-	HMMPfam_Connexin
XPO4	64328	genome.wustl.edu	37	13	21396313	21396313	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-D1-A177-01	TCGA-D1-A177-01	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_022459.4	-1	validated	p.Y319C	1.000	180	0%	203	53.2%	5	80%	probably_damaging(1)	deleterious(0)	deleterious(0.945)	superfamily_ARM-type_fold
XPO4	64328	genome.wustl.edu	37	13	21417087	21417087	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-D1-A177-01	TCGA-D1-A177-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_022459.4	-1	validated	p.R225H	1.000	132	0%	146	10.3%	2	0%	benign(0.342)	tolerated(0.19)	neutral(0.158)	superfamily_ARM-type_fold
ATP8A2	51761	genome.wustl.edu	37	13	26145814	26145814	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-D1-A177-01	TCGA-D1-A177-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_016529.4	+1	validated	p.S549L	0.998	193	0%	219	34.7%	0	-	benign(0.027)	tolerated(0.2)	neutral(0.051)	superfamily_HAD-like,superfamily_Metal cation-transporting ATPase ATP-binding domain N
CDK8	1024	genome.wustl.edu	37	13	26911752	26911752	+	Silent	SNP	C	C	A	novel		TCGA-D1-A177-01	TCGA-D1-A177-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001260.1	+1	reviewed	p.I59	1.000	127	0%	168	36.3%	3	66.6%	-	-	-	HMMSmart_SM00219,HMMSmart_SM00220,superfamily_Protein kinase-like (PK-like),HMMPfam_Pkinase
MTUS2	23281	genome.wustl.edu	37	13	30077204	30077204	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-D1-A177-01	TCGA-D1-A177-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001033602.2	+1	validated	p.R1334Q	1.000	151	0%	201	30.3%	0	-	probably_damaging(1)	tolerated(0.23)	deleterious(0.541)	NULL
FRY	10129	genome.wustl.edu	37	13	32745382	32745382	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-D1-A177-01	TCGA-D1-A177-01	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_023037.2	+1	validated	p.Q709R	0.979	119	0%	151	40.4%	2	0%	benign(0.018)	tolerated(0.14)	neutral(0.250)	NULL
COG3	83548	genome.wustl.edu	37	13	46103985	46103985	+	Missense_Mutation	SNP	A	A	C	novel		TCGA-D1-A177-01	TCGA-D1-A177-01	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_031431.2	+1	reviewed	p.T764P	0.998	195	5.1%	256	45.7%	9	11.1%	probably_damaging(0.976)	deleterious(0.02)	deleterious(0.801)	NULL
ZC3H13	23091	genome.wustl.edu	37	13	46554140	46554140	+	Splice_Site	SNP	C	C	T	novel		TCGA-D1-A177-01	TCGA-D1-A177-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_015070.3	-1	validated	e10-1	1.000	138	0%	167	44.3%	0	-	-	-	-	-
SERPINE3	647174	genome.wustl.edu	37	13	51935954	51935954	+	Silent	SNP	T	T	C	novel		TCGA-D1-A177-01	TCGA-D1-A177-01	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001101320.1	+1	validated	p.L366	1.000	102	0%	119	39.5%	2	50%	-	-	-	HMMPfam_Serpin,HMMSmart_SM00093,superfamily_Serpins
NEK3	4752	genome.wustl.edu	37	13	52718845	52718845	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-D1-A177-01	TCGA-D1-A177-01	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	ENST00000258597	-1	known	p.Q262R	0.000	133	0%	176	47.7%	7	71.4%	benign(0)	tolerated(0.61)	neutral(0.004)	superfamily_Protein kinase-like (PK-like)
PCDH17	27253	genome.wustl.edu	37	13	58207415	58207415	+	Silent	SNP	G	G	A	novel		TCGA-D1-A177-01	TCGA-D1-A177-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001040429.2	+1	reviewed	p.A245	0.147	23	0%	27	70.4%	2	0%	-	-	-	superfamily_Cadherin-like
CLDN10	9071	genome.wustl.edu	37	13	96205184	96205184	+	Silent	SNP	C	C	T	novel		TCGA-D1-A177-01	TCGA-D1-A177-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_006984.4	+1	reviewed	p.G59	0.707	49	0%	69	39.1%	0	-	-	-	-	HMMPfam_PMP22_Claudin,PatternScan_CLAUDIN
MBNL2	10150	genome.wustl.edu	37	13	97999308	97999308	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-D1-A177-01	TCGA-D1-A177-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_144778.2	+1	reviewed	p.A264V	1.000	20	0%	10	70%	1	0%	benign(0.034)	tolerated(0.17)	neutral(0.061)	NULL
DCUN1D2	55208	genome.wustl.edu	37	13	114128506	114128506	+	Silent	SNP	T	T	C	novel		TCGA-D1-A177-01	TCGA-D1-A177-01	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	ENST00000438545	-1	known	p.Q209R	0.000	211	0%	280	37.9%	3	33.3%	-	-	-	HMMPfam_DUF298
CHAMP1	283489	genome.wustl.edu	37	13	115089548	115089548	+	Silent	SNP	A	A	T	novel		TCGA-D1-A177-01	TCGA-D1-A177-01	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_032436.2	+1	validated	p.V77	0.107	163	0%	214	54.2%	12	83.3%	-	-	-	HMMSmart_SM00355,superfamily_C2H2 and C2HC zinc fingers
LRP10	26020	genome.wustl.edu	37	14	23341526	23341527	+	In_Frame_Ins	INS	-	-	CCT	novel		TCGA-D1-A177-01	TCGA-D1-A177-01	-	-					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_014045.3	+1	validated	p.9in_frame_insL	0.003:0.719	-	-	-	-	-	-	-	-	-	NULL
DHRS1	115817	genome.wustl.edu	37	14	24761467	24761467	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-D1-A177-01	TCGA-D1-A177-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001136050.2	-1	reviewed	p.P193S	1.000	123	0%	138	46.4%	28	50%	probably_damaging(1)	deleterious(0)	deleterious(0.945)	superfamily_NAD(P)-bd
FOXG1	2290	genome.wustl.edu	37	14	29237818	29237818	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-D1-A177-01	TCGA-D1-A177-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_005249.3	+1	reviewed	p.P445S	1.000	128	0%	142	43%	1	100%	benign(0.01)	tolerated(0.05)	neutral(0.346)	NULL
RALGAPA1	253959	genome.wustl.edu	37	14	36133930	36133930	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-D1-A177-01	TCGA-D1-A177-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_194301.2	-1	provisional	p.C1243Y	1.000	205	0%	183	37.2%	0	-	probably_damaging(0.997)	deleterious(0)	deleterious(0.911)	NULL
MIPOL1	145282	genome.wustl.edu	37	14	38016136	38016136	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-D1-A177-01	TCGA-D1-A177-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_138731.5	+1	validated	p.R430M	1.000	348	0%	390	40.8%	5	60%	probably_damaging(0.998)	deleterious(0.01)	deleterious(0.880)	NULL
PNN	5411	genome.wustl.edu	37	14	39644568	39644568	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-D1-A177-01	TCGA-D1-A177-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_002687.3	+1	validated	p.L29F	1.000	119	0%	126	46.8%	81	53%	probably_damaging(0.962)	deleterious(0.01)	deleterious(0.810)	HMMPfam_Pinin_SDK_N
FSCB	84075	genome.wustl.edu	37	14	44976181	44976181	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-D1-A177-01	TCGA-D1-A177-01	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_032135.3	-1	validated	p.K4E	1.000	503	0%	589	37.5%	0	-	probably_damaging(1)	deleterious(0)	deleterious(0.945)	NULL
FANCM	57697	genome.wustl.edu	37	14	45658539	45658540	+	Frame_Shift_Del	DEL	TG	TG	-	novel		TCGA-D1-A177-01	TCGA-D1-A177-01	TG	TG					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_020937.2	+1	reviewed	p.C1772fs	0.022:0.000	-	-	-	-	-	-	-	-	-	NULL
DNAAF2	55172	genome.wustl.edu	37	14	50101129	50101129	+	Nonsense_Mutation	SNP	G	G	A	novel		TCGA-D1-A177-01	TCGA-D1-A177-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_018139.2	-1	reviewed	p.Q247*	0.000	3	0.000	8	0.875	1	0%	-	-	-	HMMPfam_PIH1
MAP4K5	11183	genome.wustl.edu	37	14	50929418	50929418	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-D1-A177-01	TCGA-D1-A177-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_006575.3	-1	reviewed	p.A301T	0.998	421	0%	547	34.9%	9	22.2%	benign(0)	tolerated(0.39)	neutral(0.016)	superfamily_Protein kinase-like (PK-like)
PSMC6	5706	genome.wustl.edu	37	14	53184803	53184803	+	Frame_Shift_Del	DEL	G	G	-	novel		TCGA-D1-A177-01	TCGA-D1-A177-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_002806.3	+1	reviewed	p.G193fs	0.998	-	-	-	-	-	-	-	-	-	HMMSmart_SM00382,HMMPfam_AAA,superfamily_P-loop containing nucleoside triphosphate hydrolases
DDHD1	80821	genome.wustl.edu	37	14	53619480	53619481	+	In_Frame_Ins	INS	-	-	GCCGCC	novel		TCGA-D1-A177-01	TCGA-D1-A177-01	-	-					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_030637.2	-1	validated	p.112in_frame_insGG	0.234:0.997	-	-	-	-	-	-	-	-	-	NULL
SLC35F4	341880	genome.wustl.edu	37	14	58030931	58030931	+	Silent	SNP	C	C	A	novel		TCGA-D1-A177-01	TCGA-D1-A177-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001080455.1	-1	provisional	p.V496	0.031	208	0%	268	39.9%	0	-	-	-	-	NULL
DAAM1	23002	genome.wustl.edu	37	14	59793361	59793361	+	Silent	SNP	A	A	G	novel		TCGA-D1-A177-01	TCGA-D1-A177-01	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_014992.1	+1	reviewed	p.V436	0.986	73	0%	101	50.5%	5	80%	-	-	-	HMMPfam_Drf_FH3
GPR135	64582	genome.wustl.edu	37	14	59930560	59930560	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-D1-A177-01	TCGA-D1-A177-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_022571.5	-1	validated	p.R462H	0.999	63	0%	76	40.8%	1	0%	probably_damaging(0.998)	tolerated(0.12)	deleterious(0.735)	NULL
C14orf39	317761	genome.wustl.edu	37	14	60908849	60908849	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-D1-A177-01	TCGA-D1-A177-01	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_174978.2	-1	validated	p.F502L	0.965	76	0%	88	50%	0	-	unknown(0)	deleterious(0)	-	NULL
PAPLN	89932	genome.wustl.edu	37	14	73729220	73729220	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-D1-A177-01	TCGA-D1-A177-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_173462.3	+1	validated	p.S776N	0.357	70	0%	81	51.9%	1	100%	benign(0.119)	deleterious(0.02)	neutral(0.393)	HMMPfam_Kunitz_BPTI,HMMSmart_KU,superfamily_Prot_inh_Kunz-m
VRTN	55237	genome.wustl.edu	37	14	74824657	74824657	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-D1-A177-01	TCGA-D1-A177-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_018228.2	+1	validated	p.A391T	0.002	101	0%	157	51%	0	-	benign(0)	tolerated(0.19)	neutral(0.050)	NULL
VRTN	55237	genome.wustl.edu	37	14	74825510	74825510	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-D1-A177-01	TCGA-D1-A177-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_018228.2	+1	validated	p.S675N	0.993	72	0%	113	46%	0	-	possibly_damaging(0.713)	tolerated(0.31)	neutral(0.285)	NULL
YLPM1	56252	genome.wustl.edu	37	14	75247215	75247215	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-D1-A177-01	TCGA-D1-A177-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_019589.2	+1	validated	p.M406I	1.000	251	0%	340	41.8%	5	40%	unknown(0)	deleterious(0)	-	NULL
TMED8	283578	genome.wustl.edu	37	14	77808156	77808156	+	Silent	SNP	C	C	T	novel		TCGA-D1-A177-01	TCGA-D1-A177-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_213601.1	-1	provisional	p.L312	0.149	185	0%	225	46.2%	4	100%	-	-	-	superfamily_SSF101576
HHIPL1	84439	genome.wustl.edu	37	14	100134578	100134578	+	Silent	SNP	G	G	A	novel		TCGA-D1-A177-01	TCGA-D1-A177-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001127258.1	+1	validated	p.S556	0.460	133	0%	147	38.8%	0	-	-	-	-	NULL
CDC42BPB	9578	genome.wustl.edu	37	14	103436534	103436534	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-D1-A177-01	TCGA-D1-A177-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_006035.3	-1	reviewed	p.S650N	0.999	130	0%	213	46.9%	38	39.4%	probably_damaging(0.998)	tolerated(0.1)	deleterious(0.761)	NULL
ASPG	374569	genome.wustl.edu	37	14	104569947	104569947	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-D1-A177-01	TCGA-D1-A177-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001080464.1	+1	provisional	p.V230M	1.000	61	0%	66	56.1%	0	-	probably_damaging(0.994)	deleterious(0)	deleterious(0.897)	HMMPfam_Asparaginase,superfamily_Glutaminase/Asparaginase
BRF1	2972	genome.wustl.edu	37	14	105677630	105677630	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-D1-A177-01	TCGA-D1-A177-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001519.2	-1	reviewed	p.A609T	0.023	27	0%	36	38.9%	38	42.1%	benign(0)	tolerated(0.27)	neutral(0.034)	NULL
NDN	4692	genome.wustl.edu	37	15	23932103	23932103	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-D1-A177-01	TCGA-D1-A177-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_002487.2	-1	reviewed	p.P88T	0.661	15	0%	12	41.7%	1	0%	benign(0.104)	tolerated(0.08)	neutral(0.308)	NULL
OIP5	11339	genome.wustl.edu	37	15	41624643	41624643	+	Nonsense_Mutation	SNP	C	C	T	novel		TCGA-D1-A177-01	TCGA-D1-A177-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_007280.1	-1	provisional	p.W39*	1.000	98	0%	98	38.8%	25	52%	-	-	-	NULL
EPB42	2038	genome.wustl.edu	37	15	43489583	43489583	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-D1-A177-01	TCGA-D1-A177-01	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_000119.2	-1	reviewed	p.T695A	0.995	259	0%	360	48.1%	1	0%	benign(0.32)	tolerated(0.3)	neutral(0.129)	HMMPfam_Transglut_C,superfamily_Transglut_C
TGM7	116179	genome.wustl.edu	37	15	43579631	43579631	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-D1-A177-01	TCGA-D1-A177-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_052955.2	-1	validated	p.V238M	1.000	193	0%	234	44.4%	2	50%	probably_damaging(1)	deleterious(0)	deleterious(0.945)	superfamily_SSF54001
AP4E1	23431	genome.wustl.edu	37	15	51233923	51233923	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-D1-A177-01	TCGA-D1-A177-01	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_007347.3	+1	validated	p.M376T	1.000	335	0%	380	41.3%	1	0%	possibly_damaging(0.455)	tolerated(0.08)	neutral(0.449)	HMMPfam_Adaptin_N,superfamily_ARM-type_fold
MYO5C	55930	genome.wustl.edu	37	15	52539171	52539171	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-D1-A177-01	TCGA-D1-A177-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_018728.2	-1	validated	p.A641V	1.000	246	0%	291	44%	15	20%	benign(0.115)	deleterious(0.01)	neutral(0.415)	HMMPfam_Myosin_head,HMMSmart_SM00242,superfamily_P-loop containing nucleoside triphosphate hydrolases
PYGO1	26108	genome.wustl.edu	37	15	55838482	55838482	+	Silent	SNP	G	G	A	novel		TCGA-D1-A177-01	TCGA-D1-A177-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_015617.1	-1	provisional	p.G333	0.995	223	0%	284	45.4%	1	0%	-	-	-	NULL
RFX7	64864	genome.wustl.edu	37	15	56387176	56387176	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-D1-A177-01	TCGA-D1-A177-01	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_022841.5	-1	validated	p.Q917R	0.999	328	0%	480	42.1%	4	75%	probably_damaging(0.998)	deleterious(0)	deleterious(0.919)	NULL
HERC1	8925	genome.wustl.edu	37	15	63918254	63918254	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-D1-A177-01	TCGA-D1-A177-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_003922.3	-1	reviewed	p.R4402L	1.000	162	0%	242	50.4%	37	32.4%	probably_damaging(0.996)	-	-	NULL
UACA	55075	genome.wustl.edu	37	15	71055724	71055724	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-D1-A177-01	TCGA-D1-A177-01	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_018003.2	-1	validated	p.L8P	1.000	21	0%	13	38.5%	5	40%	probably_damaging(0.997)	deleterious(0.01)	deleterious(0.872)	NULL
LOC100287646	100287646	genome.wustl.edu	37	15	74315776	74315776	+	Silent	SNP	C	C	T	novel		TCGA-D1-A177-01	TCGA-D1-A177-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	XM_002343353.1	-1	model	p.P37	0.000	7	0.000	11	0.455	0	-	-	-	-	NULL
STRA6	64220	genome.wustl.edu	37	15	74483228	74483228	+	Silent	SNP	G	G	A	novel		TCGA-D1-A177-01	TCGA-D1-A177-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001142617.1	-1	reviewed	p.L294	0.866	119	0%	184	47.8%	25	28%	-	-	-	NULL
STRA6	64220	genome.wustl.edu	37	15	74487742	74487742	+	Silent	SNP	C	C	T	novel		TCGA-D1-A177-01	TCGA-D1-A177-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001142617.1	-1	reviewed	p.T166	0.000	77	0%	103	42.7%	28	32.1%	-	-	-	NULL
SIN3A	25942	genome.wustl.edu	37	15	75704004	75704004	+	Silent	SNP	C	C	T	novel		TCGA-D1-A177-01	TCGA-D1-A177-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001145357.1	-1	reviewed	p.P279	0.150	329	0%	434	42.2%	29	58.6%	-	-	-	NULL
PTPN9	5780	genome.wustl.edu	37	15	75815503	75815503	+	Silent	SNP	T	T	C	novel		TCGA-D1-A177-01	TCGA-D1-A177-01	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_002833.2	-1	reviewed	p.V127	0.817	286	0%	365	45.8%	26	50%	-	-	-	HMMPfam_CRAL_TRIO,HMMSmart_SEC14,superfamily_CRAL_TRIO_C
ZFAND6	54469	genome.wustl.edu	37	15	80429912	80429912	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-D1-A177-01	TCGA-D1-A177-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_019006.2	+1	provisional	p.A190V	1.000	247	0%	345	13.9%	40	22.5%	probably_damaging(0.994)	deleterious(0.01)	deleterious(0.858)	NULL
EFTUD1	79631	genome.wustl.edu	37	15	82517538	82517538	+	Silent	SNP	A	A	G	novel		TCGA-D1-A177-01	TCGA-D1-A177-01	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_024580.5	-1	validated	p.V420	1.000	234	0%	288	39.6%	9	55.5%	-	-	-	superfamily_Translation proteins
KLHL25	64410	genome.wustl.edu	37	15	86312200	86312200	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-D1-A177-01	TCGA-D1-A177-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_022480.3	-1	validated	p.G281D	1.000	29	0%	33	54.5%	8	62.5%	probably_damaging(0.999)	deleterious(0)	deleterious(0.935)	superfamily_Gal_oxid_central
ITFG3	83986	genome.wustl.edu	37	16	314911	314911	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-D1-A177-01	TCGA-D1-A177-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_032039.2	+1	validated	p.R517W	0.998	45	0%	78	48.7%	89	34.8%	probably_damaging(0.993)	deleterious(0)	deleterious(0.895)	NULL
SOLH	6650	genome.wustl.edu	37	16	602700	602700	+	Frame_Shift_Del	DEL	G	G	-	novel		TCGA-D1-A177-01	TCGA-D1-A177-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_005632.2	+1	reviewed	p.V945fs	0.987	-	-	-	-	-	-	-	-	-	NULL
WDR90	197335	genome.wustl.edu	37	16	701967	701967	+	Silent	SNP	G	G	T	novel		TCGA-D1-A177-01	TCGA-D1-A177-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_145294.4	+1	provisional	p.T327	0.000	24	0%	21	28.6%	14	64.2%	-	-	-	NULL
STUB1	10273	genome.wustl.edu	37	16	732233	732233	+	Silent	SNP	G	G	A	novel		TCGA-D1-A177-01	TCGA-D1-A177-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_005861.2	+1	validated	p.T246	0.058	102	1%	131	38.9%	452	42.9%	-	-	-	HMMPfam_U-box,HMMSmart_SM00504,superfamily_RING/U-box
BAIAP3	8938	genome.wustl.edu	37	16	1391138	1391138	+	Silent	SNP	G	G	A	novel		TCGA-D1-A177-01	TCGA-D1-A177-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_003933.3	+1	reviewed	p.T194	0.000	84	0%	124	34.7%	5	40%	-	-	-	superfamily_C2 domain (Calcium/lipid-binding domain CaLB)
MAPK8IP3	23162	genome.wustl.edu	37	16	1817842	1817842	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-D1-A177-01	TCGA-D1-A177-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_015133.3	+1	reviewed	p.T1148M	0.999	74	0%	83	51.8%	43	48.8%	probably_damaging(1)	deleterious(0)	deleterious(0.945)	NULL
ZNF598	90850	genome.wustl.edu	37	16	2049846	2049846	+	Silent	SNP	G	G	A	novel		TCGA-D1-A177-01	TCGA-D1-A177-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	ENST00000431526	-1	known	p.R568	0.154	22	0%	36	58.3%	41	53.6%	-	-	-	NULL
TSC2	7249	genome.wustl.edu	37	16	2120494	2120494	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-D1-A177-01	TCGA-D1-A177-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_000548.3	+1	reviewed	p.R585H	0.754	91	0%	107	57.9%	99	54.5%	probably_damaging(0.961)	tolerated(0.05)	deleterious(0.750)	superfamily_ARM repeat,HMMPfam_Tuberin
AMDHD2	51005	genome.wustl.edu	37	16	2571051	2571051	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-D1-A177-01	TCGA-D1-A177-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_015944.3	+1	validated	p.R96Q	0.980	122	0%	203	47.3%	27	40.7%	benign(0.005)	tolerated(0.16)	neutral(0.059)	HMMPfam_Amidohydro_1,superfamily_Metalo_hydrolase,superfamily_SSF51556
CREBBP	1387	genome.wustl.edu	37	16	3778767	3778767	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-D1-A177-01	TCGA-D1-A177-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_004380.2	-1	reviewed	p.P2094L	1.000	51	0%	67	49.3%	43	51.1%	probably_damaging(0.998)	deleterious(0)	deleterious(0.919)	superfamily_Nuc_recept_coact,HMMPfam_Creb_binding
MGRN1	23295	genome.wustl.edu	37	16	4738831	4738831	+	Silent	SNP	C	C	T	novel		TCGA-D1-A177-01	TCGA-D1-A177-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_015246.2	+1	validated	p.L551	0.218	21	0%	18	38.9%	46	50%	-	-	-	NULL
ZNF500	26048	genome.wustl.edu	37	16	4815742	4815742	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-D1-A177-01	TCGA-D1-A177-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_021646.1	-1	validated	p.R80W	0.984	32	0%	56	16.1%	4	0%	probably_damaging(0.999)	deleterious(0)	deleterious(0.935)	HMMPfam_SCAN,HMMSmart_SCAN
SNN	8303	genome.wustl.edu	37	16	11769965	11769965	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-D1-A177-01	TCGA-D1-A177-01	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_003498.5	+1	validated	p.V17A	1.000	94	0%	107	39.3%	2	0%	benign(0.227)	deleterious(0)	neutral(0.467)	HMMPfam_SNN_transmemb
RPS15A	6210	genome.wustl.edu	37	16	18794397	18794397	+	Silent	SNP	G	G	A	novel		TCGA-D1-A177-01	TCGA-D1-A177-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001019.4	-1	reviewed	p.G109	1.000	407	0%	511	30.1%	1227	48.4%	-	-	-	HMMPfam_Ribosomal_S8,PatternScan_RIBOSOMAL_S8,superfamily_Ribosomal protein S8
SYT17	51760	genome.wustl.edu	37	16	19195104	19195104	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-D1-A177-01	TCGA-D1-A177-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_016524.2	+1	validated	p.L196M	1.000	63	0%	84	44%	0	-	benign(0.335)	deleterious(0.02)	deleterious(0.488)	superfamily_C2_CaLB
UBFD1	56061	genome.wustl.edu	37	16	23569566	23569566	+	Silent	SNP	C	C	A	novel		TCGA-D1-A177-01	TCGA-D1-A177-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_019116.2	+1	validated	p.G107	0.920	30	0%	44	38.6%	28	42.8%	-	-	-	HMMPfam_ubiquitin,HMMSmart_UBQ,superfamily_SSF54236
ERN2	10595	genome.wustl.edu	37	16	23721844	23721844	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-D1-A177-01	TCGA-D1-A177-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_033266.3	-1	validated	p.V124I	0.998	138	1.4%	192	40.6%	26	38.4%	possibly_damaging(0.792)	tolerated(0.48)	neutral(0.307)	HMMPfam_PQQ,superfamily_Quinoprotein alcohol dehydrogenase-like
CACNG3	10368	genome.wustl.edu	37	16	24366291	24366291	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-D1-A177-01	TCGA-D1-A177-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_006539.2	+1	reviewed	p.A145T	1.000	170	0%	183	38.3%	0	-	probably_damaging(0.998)	deleterious(0)	deleterious(0.919)	HMMPfam_PMP22_Claudin
RBBP6	5930	genome.wustl.edu	37	16	24581419	24581422	+	Frame_Shift_Del	DEL	AAAC	AAAC	-	novel		TCGA-D1-A177-01	TCGA-D1-A177-01	AAAC	AAAC					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_006910.4	+1	reviewed	p.K1138fs	1.000:1.000:1.000:1.000	-	-	-	-	-	-	-	-	-	NULL
RBBP6	5930	genome.wustl.edu	37	16	24582884	24582885	+	Frame_Shift_Del	DEL	CT	CT	-	novel		TCGA-D1-A177-01	TCGA-D1-A177-01	CT	CT					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_006910.4	+1	reviewed	p.P1501fs	0.997:1.000	-	-	-	-	-	-	-	-	-	NULL
TNRC6A	27327	genome.wustl.edu	37	16	24788584	24788584	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-D1-A177-01	TCGA-D1-A177-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_014494.2	+1	reviewed	p.A165D	1.000	130	0%	169	42.6%	6	33.3%	possibly_damaging(0.873)	deleterious(0.02)	deleterious(0.722)	NULL
MAZ	4150	genome.wustl.edu	37	16	29820923	29820923	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-D1-A177-01	TCGA-D1-A177-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001042539.1	+1	validated	p.R448W	1.000	30	0%	42	54.8%	245	46.5%	probably_damaging(1)	tolerated(0.06)	deleterious(0.823)	superfamily_C2H2 and C2HC zinc fingers
SEZ6L2	26470	genome.wustl.edu	37	16	29896985	29896985	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-D1-A177-01	TCGA-D1-A177-01	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_201575.2	-1	validated	p.S432G	1.000	65	0%	65	38.5%	6	50%	probably_damaging(0.999)	deleterious(0.02)	deleterious(0.873)	HMMSmart_SM00042,superfamily_Spermadhesin CUB domain
ZNF48	197407	genome.wustl.edu	37	16	30409298	30409298	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-D1-A177-01	TCGA-D1-A177-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_152652.1	+1	provisional	p.R243W	0.249	56	0%	86	51.2%	21	57.1%	probably_damaging(1)	deleterious(0)	deleterious(0.945)	superfamily_C2H2 and C2HC zinc fingers
ZNF689	115509	genome.wustl.edu	37	16	30616286	30616286	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-D1-A177-01	TCGA-D1-A177-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_138447.1	-1	provisional	p.R268C	0.125	117	0.9%	177	51.4%	5	20%	probably_damaging(1)	deleterious(0)	deleterious(0.945)	HMMPfam_zf-C2H2,PatternScan_ZINC_FINGER_C2H2_1,HMMSmart_ZnF_C2H2,superfamily_SSF57667
SETD1A	9739	genome.wustl.edu	37	16	30977525	30977525	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-D1-A177-01	TCGA-D1-A177-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_014712.1	+1	provisional	p.E775K	1.000	22	0%	32	34.4%	17	41.1%	possibly_damaging(0.875)	-	-	NULL
ZNF646	9726	genome.wustl.edu	37	16	31091562	31091562	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-D1-A177-01	TCGA-D1-A177-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_014699.3	+1	validated	p.R1306Q	0.941	19	0%	40	50%	14	64.2%	probably_damaging(0.985)	deleterious(0.01)	deleterious(0.838)	HMMPfam_zf-C2H2,PatternScan_ZINC_FINGER_C2H2_1,HMMSmart_SM00355,superfamily_C2H2 and C2HC zinc fingers
IGHV2OR16-5	100129631	genome.wustl.edu	37	16	32859165	32859165	+	Splice_Site	SNP	G	G	T	novel		TCGA-D1-A177-01	TCGA-D1-A177-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	ENST00000398679	+1	known	e2-1	1.000	119	0%	126	23.8%	0	-	-	-	-	-
ZNF423	23090	genome.wustl.edu	37	16	49671562	49671562	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-D1-A177-01	TCGA-D1-A177-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_015069.2	-1	reviewed	p.V501I	0.983	172	0%	241	41.9%	1	100%	benign(0)	tolerated(0.54)	neutral(0.007)	HMMPfam_zf-C2H2,PatternScan_ZINC_FINGER_C2H2_1,HMMSmart_ZnF_C2H2
HEATR3	55027	genome.wustl.edu	37	16	50120147	50120147	+	Silent	SNP	A	A	G	novel		TCGA-D1-A177-01	TCGA-D1-A177-01	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_182922.2	+1	provisional	p.R465	1.000	115	0%	155	41.9%	14	35.7%	-	-	-	superfamily_ARM repeat
ADCY7	113	genome.wustl.edu	37	16	50346826	50346826	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-D1-A177-01	TCGA-D1-A177-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001114.3	+1	reviewed	p.C877Y	1.000	441	0%	564	45.6%	0	-	probably_damaging(0.992)	deleterious(0.02)	deleterious(0.831)	HMMPfam_Guanylate_cyc,HMMSmart_CYCc,superfamily_A/G_cyclase
CES5A	221223	genome.wustl.edu	37	16	55899902	55899902	+	Silent	SNP	G	G	A	novel		TCGA-D1-A177-01	TCGA-D1-A177-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001143685.1	-1	validated	p.S226	0.059	81	0%	116	40.5%	0	-	-	-	-	HMMPfam_COesterase,PatternScan_CARBOXYLESTERASE_B_1,superfamily_alpha/beta-Hydrolases
MT1B	4490	genome.wustl.edu	37	16	56686973	56686973	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-D1-A177-01	TCGA-D1-A177-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_005947.2	+1	provisional	p.A61V	0.638	206	0%	215	50.2%	0	-	unknown(0)	deleterious(0)	-	HMMPfam_Metallothio,superfamily_Metallothionein
NUP93	9688	genome.wustl.edu	37	16	56792463	56792463	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-D1-A177-01	TCGA-D1-A177-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_014669.3	+1	validated	p.G65R	1.000	121	0%	145	42.8%	27	51.8%	probably_damaging(1)	deleterious(0)	deleterious(0.945)	NULL
PSMB10	5699	genome.wustl.edu	37	16	67970397	67970397	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-D1-A177-01	TCGA-D1-A177-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	ENST00000435933	-1	known	p.P26L	0.005	81	0%	132	38.6%	1	0%	-	-	-	NULL
LCAT	3931	genome.wustl.edu	37	16	67977860	67977860	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-D1-A177-01	TCGA-D1-A177-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_000229.1	-1	reviewed	p.V49I	1.000	89	0%	140	40.7%	1	0%	possibly_damaging(0.618)	tolerated(0.13)	neutral(0.468)	superfamily_alpha/beta-Hydrolases
PHLPP2	23035	genome.wustl.edu	37	16	71692651	71692651	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-D1-A177-01	TCGA-D1-A177-01	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_015020.2	-1	validated	p.T685A	1.000	594	0%	774	40.3%	2	0%	benign(0.218)	tolerated(0.39)	neutral(0.037)	HMMPfam_LRR_1,HMMSmart_SM00369,HMMSmart_SM00364,superfamily_L domain-like
HPR	3250	genome.wustl.edu	37	16	72107692	72107693	+	Frame_Shift_Ins	INS	-	-	GT	novel		TCGA-D1-A177-01	TCGA-D1-A177-01	-	-					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	ENST00000228226	+1	known	p.C10fs	0.006:0.010	-	-	-	-	-	-	-	-	-	NULL
GLG1	2734	genome.wustl.edu	37	16	74502869	74502869	+	Missense_Mutation	SNP	T	T	G	novel		TCGA-D1-A177-01	TCGA-D1-A177-01	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_012201.5	-1	validated	p.Q804P	1.000	39	0%	56	44.6%	104	56.7%	probably_damaging(0.993)	deleterious(0)	deleterious(0.895)	HMMPfam_Cys_rich_FGFR
KLHL36	79786	genome.wustl.edu	37	16	84691344	84691344	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-D1-A177-01	TCGA-D1-A177-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_024731.2	+1	provisional	p.L311F	1.000	21	0%	13	53.8%	23	47.8%	probably_damaging(0.973)	deleterious(0.03)	deleterious(0.779)	HMMSmart_SM00612,superfamily_Galactose oxidase central domain
CDH15	1013	genome.wustl.edu	37	16	89251592	89251592	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-D1-A177-01	TCGA-D1-A177-01	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_004933.2	+1	reviewed	p.T172A	1.000	32	0%	49	36.7%	0	-	possibly_damaging(0.619)	deleterious(0.01)	deleterious(0.621)	HMMPfam_Cadherin,superfamily_Cadherin
SPATA2L	124044	genome.wustl.edu	37	16	89764464	89764464	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-D1-A177-01	TCGA-D1-A177-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_152339.2	-1	provisional	p.A185T	0.813	15	0%	15	53.3%	14	50%	possibly_damaging(0.658)	tolerated(0.19)	neutral(0.282)	NULL
SPIRE2	84501	genome.wustl.edu	37	16	89916975	89916975	+	Silent	SNP	C	C	T	novel		TCGA-D1-A177-01	TCGA-D1-A177-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_032451.1	+1	validated	p.G184	0.077	7	0.000	11	0.636	2	0%	-	-	-	HMMSmart_SM00750
SPIRE2	84501	genome.wustl.edu	37	16	89936614	89936614	+	Silent	SNP	G	G	A	novel		TCGA-D1-A177-01	TCGA-D1-A177-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_032451.1	+1	validated	p.T693	0.736	120	0%	135	17%	0	-	-	-	-	superfamily_FYVE/PHD zinc finger
PFAS	5198	genome.wustl.edu	37	17	8157323	8157323	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-D1-A177-01	TCGA-D1-A177-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_012393.2	+1	reviewed	p.R23Q	0.000	79	0%	118	60.2%	14	78.5%	benign(0)	tolerated(0.51)	neutral(0.009)	superfamily_PurS-like
MYH4	4622	genome.wustl.edu	37	17	10348368	10348368	+	Silent	SNP	C	C	T	novel		TCGA-D1-A177-01	TCGA-D1-A177-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_017533.2	-1	validated	p.L1797	1.000	384	0.3%	506	43.7%	0	-	-	-	-	HMMPfam_Myosin_tail_1
SCO1	6341	genome.wustl.edu	37	17	10596173	10596173	+	Splice_Site	SNP	C	C	T	novel		TCGA-D1-A177-01	TCGA-D1-A177-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	ENST00000396047	-1	known	e3+1	1.000	140	0%	145	41.4%	26	50%	-	-	-	-
DNAH9	1770	genome.wustl.edu	37	17	11648169	11648169	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-D1-A177-01	TCGA-D1-A177-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001372.3	+1	reviewed	p.S2056Y	1.000	96	0%	85	41.2%	0	-	probably_damaging(0.995)	deleterious(0)	deleterious(0.902)	superfamily_P-loop containing nucleoside triphosphate hydrolases
ZNF624	57547	genome.wustl.edu	37	17	16526901	16526901	+	Silent	SNP	T	T	C	novel		TCGA-D1-A177-01	TCGA-D1-A177-01	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_020787.2	-1	validated	p.V433	0.999	242	0%	417	40.8%	1	0%	-	-	-	HMMPfam_zf-C2H2,PatternScan_ZINC_FINGER_C2H2_1,HMMSmart_SM00355,superfamily_C2H2 and C2HC zinc fingers
RNF112	7732	genome.wustl.edu	37	17	19316635	19316635	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-D1-A177-01	TCGA-D1-A177-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_007148.4	+1	reviewed	p.L211M	0.000	78	0%	80	51.2%	0	-	-	-	-	HMMPfam_GBP,superfamily_SSF52540
KSR1	8844	genome.wustl.edu	37	17	25932764	25932764	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-D1-A177-01	TCGA-D1-A177-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_014238.1	+1	validated	p.R525Q	1.000	14	0%	14	28.6%	3	33.3%	probably_damaging(0.999)	deleterious(0.01)	deleterious(0.896)	HMMPfam_Pkinase_Tyr,superfamily_Kinase_like
NOS2	4843	genome.wustl.edu	37	17	26094764	26094764	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-D1-A177-01	TCGA-D1-A177-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_000625.4	-1	reviewed	p.V712M	0.672	217	0%	272	47.8%	2	0%	benign(0.241)	tolerated(0.06)	neutral(0.347)	superfamily_Riboflavin synthase domain-like
NF1	4763	genome.wustl.edu	37	17	29664429	29664429	+	Silent	SNP	A	A	G	novel		TCGA-D1-A177-01	TCGA-D1-A177-01	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001042492.2	+1	reviewed	p.S2157	0.940	287	0%	362	42.8%	11	45.4%	-	-	-	NULL
TAF15	8148	genome.wustl.edu	37	17	34151132	34151132	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-D1-A177-01	TCGA-D1-A177-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_139215.1	+1	reviewed	p.G179R	1.000	465	0%	632	44.6%	104	34.6%	probably_damaging(0.999)	deleterious(0)	deleterious(0.935)	NULL
LYZL6	57151	genome.wustl.edu	37	17	34264834	34264834	+	Nonsense_Mutation	SNP	G	G	A	novel		TCGA-D1-A177-01	TCGA-D1-A177-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_020426.1	-1	provisional	p.Q76*	1.000	147	0%	186	42.5%	0	-	-	-	-	HMMPfam_Lys,HMMSmart_LYZ1,superfamily_SSF53955
GPR179	440435	genome.wustl.edu	37	17	36483642	36483642	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-D1-A177-01	TCGA-D1-A177-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001004334.2	-1	validated	p.A1937V	0.000	126	0%	160	45.6%	0	-	benign(0)	deleterious(0.04)	neutral(0.349)	NULL
GRB7	2886	genome.wustl.edu	37	17	37899223	37899223	+	Missense_Mutation	SNP	G	G	A	rs189871450	by1000genomes	TCGA-D1-A177-01	TCGA-D1-A177-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001030002.1	+1	reviewed	p.V127M	0.992	79	0%	104	44.2%	20	60%	probably_damaging(1)	deleterious(0)	deleterious(0.945)	HMMPfam_RA,HMMSmart_SM00314
KRT31	3881	genome.wustl.edu	37	17	39551859	39551859	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-D1-A177-01	TCGA-D1-A177-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_002277.2	-1	reviewed	p.R202H	0.990	165	0%	205	45.9%	0	-	benign(0.074)	deleterious(0)	neutral(0.450)	HMMPfam_Filament
MEOX1	4222	genome.wustl.edu	37	17	41738739	41738739	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-D1-A177-01	TCGA-D1-A177-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_004527.3	-1	reviewed	p.A55V	0.934	109	0%	154	46.1%	0	-	-	-	-	NULL
SLC25A39	51629	genome.wustl.edu	37	17	42399885	42399885	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-D1-A177-01	TCGA-D1-A177-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001143780.1	-1	validated	p.L76M	0.999	253	0%	347	39.8%	320	47.5%	probably_damaging(0.977)	deleterious(0.01)	deleterious(0.825)	superfamily_Mitoch_carrier,HMMPfam_Mito_carr
GRN	2896	genome.wustl.edu	37	17	42428964	42428964	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-D1-A177-01	TCGA-D1-A177-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_002087.2	+1	reviewed	p.T327M	0.000	111	0%	150	46%	562	45.9%	probably_damaging(0.992)	deleterious(0.02)	deleterious(0.831)	HMMPfam_Granulin,HMMSmart_SM00277,PatternScan_GRANULINS
HEXIM2	124790	genome.wustl.edu	37	17	43246501	43246501	+	Silent	SNP	C	C	T	novel		TCGA-D1-A177-01	TCGA-D1-A177-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_144608.1	+1	provisional	p.V62	0.000	42	0%	37	59.5%	17	29.4%	-	-	-	NULL
FMNL1	752	genome.wustl.edu	37	17	43314652	43314652	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-D1-A177-01	TCGA-D1-A177-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_005892.3	+1	reviewed	p.G243D	1.000	191	0%	272	43.4%	5	40%	probably_damaging(1)	deleterious(0)	deleterious(0.945)	HMMPfam_Drf_GBD
PNPO	55163	genome.wustl.edu	37	17	46019116	46019116	+	Silent	SNP	G	G	T	novel		TCGA-D1-A177-01	TCGA-D1-A177-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_018129.3	+1	reviewed	p.L25	0.957	35	0%	40	57.5%	40	55%	-	-	-	NULL
EPN3	55040	genome.wustl.edu	37	17	48617565	48617565	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-D1-A177-01	TCGA-D1-A177-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	ENST00000506285	+1	known	p.A298T	0.001	47	0%	55	56.4%	1	100%	benign(0.008)	tolerated(0.19)	neutral(0.050)	NULL
MKS1	54903	genome.wustl.edu	37	17	56291742	56291742	+	Silent	SNP	G	G	A	novel		TCGA-D1-A177-01	TCGA-D1-A177-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	ENST00000313863	-1	known	p.A175V	0.002	162	0%	247	43.7%	25	48%	-	-	-	NULL
PRKCA	5578	genome.wustl.edu	37	17	64785097	64785097	+	Silent	SNP	G	G	A	novel		TCGA-D1-A177-01	TCGA-D1-A177-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_002737.2	+1	reviewed	p.V618	1.000	91	0%	106	29.2%	7	0%	-	-	-	HMMSmart_SM00133,superfamily_Protein kinase-like (PK-like),HMMPfam_Pkinase_C
SDK2	54549	genome.wustl.edu	37	17	71398234	71398234	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-D1-A177-01	TCGA-D1-A177-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001144952.1	-1	provisional	p.T844I	1.000	76	0%	86	37.2%	0	-	benign(0.019)	tolerated(0.19)	neutral(0.051)	HMMPfam_fn3,HMMSmart_SM00060,superfamily_Fibronectin type III
C17orf28	283987	genome.wustl.edu	37	17	72950440	72950440	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-D1-A177-01	TCGA-D1-A177-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_030630.2	-1	validated	p.A553T	1.000	119	0%	152	47.4%	242	48.7%	benign(0.001)	tolerated(1)	-	HMMPfam_Hid1
KIAA0195	9772	genome.wustl.edu	37	17	73487200	73487200	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-D1-A177-01	TCGA-D1-A177-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_014738.4	+1	validated	p.S400N	1.000	92	0%	98	50%	44	38.6%	benign(0.026)	deleterious(0.01)	neutral(0.407)	NULL
KIAA0195	9772	genome.wustl.edu	37	17	73494748	73494748	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-D1-A177-01	TCGA-D1-A177-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_014738.4	+1	validated	p.L1258M	1.000	529	0%	684	41.8%	87	47.1%	probably_damaging(0.999)	tolerated(0.2)	deleterious(0.539)	superfamily_Calcium ATPase transmembrane domain M
UNK	85451	genome.wustl.edu	37	17	73808348	73808348	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-D1-A177-01	TCGA-D1-A177-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001080419.1	+1	provisional	p.R233H	1.000	104	0%	140	45.7%	16	56.2%	probably_damaging(1)	deleterious(0)	deleterious(0.945)	superfamily_CCCH zinc finger
WBP2	23558	genome.wustl.edu	37	17	73845690	73845690	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-D1-A177-01	TCGA-D1-A177-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_012478.3	-1	reviewed	p.A100V	1.000	258	0%	329	41.3%	99	41.4%	possibly_damaging(0.856)	tolerated(0.13)	deleterious(0.583)	HMMPfam_WWbp
CCDC40	55036	genome.wustl.edu	37	17	78023990	78023990	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-D1-A177-01	TCGA-D1-A177-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_017950.2	+1	validated	p.S356L	0.011	26	0%	46	47.8%	10	50%	possibly_damaging(0.538)	tolerated(0.06)	deleterious(0.504)	NULL
BAIAP2	10458	genome.wustl.edu	37	17	79080548	79080548	+	Silent	SNP	G	G	A	novel		TCGA-D1-A177-01	TCGA-D1-A177-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_017451.2	+1	reviewed	p.L447	0.999	49	0%	79	50.6%	115	48.6%	-	-	-	NULL
CCDC137	339230	genome.wustl.edu	37	17	79639635	79639635	+	Silent	SNP	G	G	T	novel		TCGA-D1-A177-01	TCGA-D1-A177-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_199287.2	+1	validated	p.R257	0.976	42	0%	66	31.8%	70	42.8%	-	-	-	NULL
MAFG	4097	genome.wustl.edu	37	17	79880679	79880679	+	Silent	SNP	G	G	A	novel		TCGA-D1-A177-01	TCGA-D1-A177-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_002359.2	-1	validated	p.N97	0.529	47	0%	56	41.1%	6	16.6%	-	-	-	HMMPfam_bZIP_Maf,HMMSmart_BRLZ
YES1	7525	genome.wustl.edu	37	18	746020	746020	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-D1-A177-01	TCGA-D1-A177-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_005433.3	-1	reviewed	p.A168S	1.000	178	0%	134	39.6%	8	50%	benign(0.002)	tolerated(0.15)	neutral(0.241)	HMMPfam_SH2,HMMSmart_SH2,superfamily_SH3,superfamily_SSF55550
MYOM1	8736	genome.wustl.edu	37	18	3079334	3079334	+	Silent	SNP	G	G	A	novel		TCGA-D1-A177-01	TCGA-D1-A177-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_003803.3	-1	reviewed	p.S1497	0.000	254	0%	324	17.3%	0	-	-	-	-	superfamily_Immunoglobulin
SLMO1	10650	genome.wustl.edu	37	18	12420418	12420418	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-D1-A177-01	TCGA-D1-A177-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001142405.1	+1	validated	p.V43M	0.963	29	0%	22	45.5%	8	12.5%	possibly_damaging(0.88)	deleterious(0)	deleterious(0.788)	HMMPfam_PRELI
C18orf34	374864	genome.wustl.edu	37	18	30913353	30913353	+	Nonsense_Mutation	SNP	C	C	A	novel		TCGA-D1-A177-01	TCGA-D1-A177-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001105528.1	-1	validated	p.E222*	0.347	164	0%	219	47%	0	-	-	-	-	NULL
ASXL3	80816	genome.wustl.edu	37	18	31325614	31325614	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-D1-A177-01	TCGA-D1-A177-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_030632.1	+1	provisional	p.M1934I	1.000	93	1.1%	104	49%	0	-	possibly_damaging(0.643)	deleterious(0)	deleterious(0.670)	NULL
SLC14A2	8170	genome.wustl.edu	37	18	43224064	43224064	+	Silent	SNP	C	C	T	novel		TCGA-D1-A177-01	TCGA-D1-A177-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_007163.3	+1	validated	p.P430	0.810	498	0%	654	46%	12	50%	-	-	-	NULL
HAUS1	115106	genome.wustl.edu	37	18	43698246	43698246	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-D1-A177-01	TCGA-D1-A177-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_138443.3	+1	validated	p.A102V	0.986	341	0%	397	48.6%	34	50%	probably_damaging(0.989)	deleterious(0.03)	deleterious(0.804)	NULL
CTIF	9811	genome.wustl.edu	37	18	46385891	46385891	+	Silent	SNP	G	G	A	novel		TCGA-D1-A177-01	TCGA-D1-A177-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001142397.1	+1	validated	p.T588	0.933	58	0%	46	54.3%	11	27.2%	-	-	-	NULL
MBD1	4152	genome.wustl.edu	37	18	47802076	47802076	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-D1-A177-01	TCGA-D1-A177-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_015846.3	-1	reviewed	p.R229L	1.000	68	0%	89	49.4%	50	56%	probably_damaging(0.985)	deleterious(0)	deleterious(0.877)	HMMPfam_zf-CXXC
MAPK4	5596	genome.wustl.edu	37	18	48256160	48256160	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-D1-A177-01	TCGA-D1-A177-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_002747.3	+1	reviewed	p.A567V	0.924	41	0%	50	42%	1	100%	probably_damaging(0.955)	deleterious(0)	deleterious(0.843)	NULL
SERPINB10	5273	genome.wustl.edu	37	18	61585320	61585320	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-D1-A177-01	TCGA-D1-A177-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_005024.1	+1	provisional	p.T119M	0.795	148	0%	191	44%	0	-	probably_damaging(1)	deleterious(0)	deleterious(0.945)	HMMPfam_Serpin,HMMSmart_SERPIN,superfamily_Prot_inh_serpin
FBXO15	201456	genome.wustl.edu	37	18	71740880	71740880	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-D1-A177-01	TCGA-D1-A177-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001142958.1	-1	reviewed	p.P450H	0.000	212	0%	245	44.1%	1	0%	possibly_damaging(0.512)	tolerated(0.15)	neutral(0.413)	NULL
ZNF407	55628	genome.wustl.edu	37	18	72775833	72775833	+	Silent	SNP	C	C	T	novel		TCGA-D1-A177-01	TCGA-D1-A177-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_017757.2	+1	reviewed	p.A2052	0.000	62	0%	62	53.2%	3	66.6%	-	-	-	NULL
SALL3	27164	genome.wustl.edu	37	18	76757021	76757021	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-D1-A177-01	TCGA-D1-A177-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_171999.2	+1	validated	p.A1201E	0.999	88	0%	92	40.2%	0	-	possibly_damaging(0.948)	deleterious(0.02)	deleterious(0.774)	NULL
CIRBP	1153	genome.wustl.edu	37	19	1271416	1271416	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-D1-A177-01	TCGA-D1-A177-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001280.2	+1	validated	p.G100D	0.997	80	0%	146	46.6%	114	53.5%	unknown(0)	deleterious(0.01)	-	superfamily_RNA-binding domain RBD
GIPC3	126326	genome.wustl.edu	37	19	3589525	3589525	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-D1-A177-01	TCGA-D1-A177-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_133261.2	+1	validated	p.S226F	0.452	71	0%	101	48.5%	1	0%	possibly_damaging(0.76)	deleterious(0)	deleterious(0.726)	NULL
ATCAY	85300	genome.wustl.edu	37	19	3907897	3907897	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-D1-A177-01	TCGA-D1-A177-01	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_033064.4	+1	reviewed	p.M175T	1.000	94	0%	93	40.9%	0	-	benign(0.125)	tolerated(0.05)	neutral(0.356)	HMMSmart_SM00516,superfamily_CRAL/TRIO domain
PTPRS	5802	genome.wustl.edu	37	19	5223137	5223137	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-D1-A177-01	TCGA-D1-A177-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_002850.3	-1	reviewed	p.R889H	0.103	38	0%	46	32.6%	3	0%	benign(0)	tolerated(0.61)	neutral(0.004)	HMMPfam_fn3,HMMSmart_SM00060,superfamily_Fibronectin type III
RFX2	5990	genome.wustl.edu	37	19	6026192	6026192	+	Silent	SNP	G	G	A	novel		TCGA-D1-A177-01	TCGA-D1-A177-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_000635.3	-1	reviewed	p.S193	1.000	437	0.2%	523	37.5%	3	33.3%	-	-	-	HMMPfam_RFX_DNA_binding
ZNF557	79230	genome.wustl.edu	37	19	7076479	7076479	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-D1-A177-01	TCGA-D1-A177-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001044387.1	+1	validated	p.D70N	0.460	365	0%	504	41.9%	11	9%	benign(0.091)	deleterious(0.04)	neutral(0.355)	HMMPfam_KRAB,HMMSmart_KRAB,superfamily_Krueppel-associated_box
HNRNPM	4670	genome.wustl.edu	37	19	8550966	8550966	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-D1-A177-01	TCGA-D1-A177-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_005968.3	+1	validated	p.A552T	1.000	26	0%	39	41%	513	44.8%	benign(0.036)	tolerated(0.06)	neutral(0.325)	NULL
MUC16	94025	genome.wustl.edu	37	19	9047072	9047072	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-D1-A177-01	TCGA-D1-A177-01	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_024690.2	-1	validated	p.V11520A	0.000	241	0%	367	41.4%	5	80%	benign(0.29)	-	-	NULL
MUC16	94025	genome.wustl.edu	37	19	9074563	9074563	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-D1-A177-01	TCGA-D1-A177-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_024690.2	-1	validated	p.E4295K	0.000	300	0%	448	46%	3	100%	unknown(0)	-	-	NULL
COL5A3	50509	genome.wustl.edu	37	19	10077410	10077410	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-D1-A177-01	TCGA-D1-A177-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_015719.3	-1	reviewed	p.E1491K	0.873	4	0.000	10	0.500	5	0%	unknown(0)	tolerated(0.09)	-	HMMPfam_Collagen
COL5A3	50509	genome.wustl.edu	37	19	10078060	10078060	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-D1-A177-01	TCGA-D1-A177-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_015719.3	-1	reviewed	p.R1474H	0.622	29	0%	28	39.3%	3	0%	unknown(0)	deleterious(0.01)	-	HMMPfam_Collagen
PDE4A	5141	genome.wustl.edu	37	19	10570129	10570129	+	Silent	SNP	C	C	T	novel		TCGA-D1-A177-01	TCGA-D1-A177-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001111307.1	+1	validated	p.Y385	0.001	139	0%	182	44%	3	33.3%	-	-	-	superfamily_HD-domain/PDEase-like
LDLR	3949	genome.wustl.edu	37	19	11216181	11216182	+	Frame_Shift_Ins	INS	-	-	C	novel		TCGA-D1-A177-01	TCGA-D1-A177-01	-	-					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_000527.3	+1	reviewed	p.E201fs	0.026:0.041	-	-	-	-	-	-	-	-	-	HMMPfam_Ldl_recept_a,HMMSmart_SM00192,superfamily_LDL receptor-like module
CCDC159	126075	genome.wustl.edu	37	19	11465358	11465358	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-D1-A177-01	TCGA-D1-A177-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001080503.2	+1	validated	p.R292H	0.000	112	0%	201	42.3%	24	45.8%	possibly_damaging(0.593)	tolerated(0.13)	neutral(0.458)	NULL
ELOF1	84337	genome.wustl.edu	37	19	11664584	11664584	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-D1-A177-01	TCGA-D1-A177-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_032377.3	-1	validated	p.A77T	1.000	131	0%	168	47%	60	45%	probably_damaging(1)	deleterious(0)	deleterious(0.945)	HMMPfam_Elf1
LYL1	4066	genome.wustl.edu	37	19	13211857	13211857	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-D1-A177-01	TCGA-D1-A177-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_005583.3	-1	provisional	p.E43D	0.700	30	0%	30	43.3%	1	0%	benign(0.146)	deleterious(0.04)	neutral(0.361)	NULL
RFX1	5989	genome.wustl.edu	37	19	14094373	14094373	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-D1-A177-01	TCGA-D1-A177-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_002918.4	-1	validated	p.E118D	0.952	21	0%	25	40%	14	21.4%	benign(0.002)	deleterious(0.04)	neutral(0.349)	NULL
ASF1B	55723	genome.wustl.edu	37	19	14237047	14237047	+	Silent	SNP	G	G	A	novel		TCGA-D1-A177-01	TCGA-D1-A177-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_018154.2	-1	reviewed	p.L38	1.000	292	0%	400	39.5%	119	39.4%	-	-	-	HMMPfam_ASF1_hist_chap,superfamily_Anti-silence
SYDE1	85360	genome.wustl.edu	37	19	15224486	15224486	+	Silent	SNP	A	A	G	novel		TCGA-D1-A177-01	TCGA-D1-A177-01	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_033025.4	+1	provisional	p.R640	0.053	36	0%	42	52.4%	3	0%	-	-	-	NULL
NOTCH3	4854	genome.wustl.edu	37	19	15272347	15272347	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-D1-A177-01	TCGA-D1-A177-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_000435.2	-1	reviewed	p.R2031H	1.000	59	0%	53	49.1%	27	3.7%	probably_damaging(0.999)	tolerated(0.06)	deleterious(0.813)	NULL
NOTCH3	4854	genome.wustl.edu	37	19	15308343	15308343	+	Silent	SNP	G	G	A	novel		TCGA-D1-A177-01	TCGA-D1-A177-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_000435.2	-1	reviewed	p.C55	1.000	27	0%	31	58.1%	7	0%	-	-	-	HMMSmart_SM00179,HMMPfam_EGF,HMMSmart_SM00181,superfamily_EGF/Laminin
AKAP8	10270	genome.wustl.edu	37	19	15471715	15471715	+	Nonsense_Mutation	SNP	G	G	A	novel		TCGA-D1-A177-01	TCGA-D1-A177-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_005858.2	-1	reviewed	p.Q491*	0.996	123	0%	152	45.4%	36	36.1%	-	-	-	HMMPfam_AKAP95
WIZ	58525	genome.wustl.edu	37	19	15533916	15533916	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-D1-A177-01	TCGA-D1-A177-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_021241.2	-1	validated	p.A786T	0.999	102	0%	158	48.1%	62	32.2%	unknown(0)	deleterious(0.01)	-	NULL
CPAMD8	27151	genome.wustl.edu	37	19	17039948	17039948	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-D1-A177-01	TCGA-D1-A177-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_015692.2	-1	validated	p.A1030V	1.000	101	0%	115	47.8%	0	-	benign(0.348)	deleterious(0)	deleterious(0.554)	NULL
HAUS8	93323	genome.wustl.edu	37	19	17173522	17173522	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-D1-A177-01	TCGA-D1-A177-01	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_033417.1	-1	validated	p.L72P	0.009	311	0%	363	39.7%	21	23.8%	probably_damaging(0.991)	tolerated(0.13)	deleterious(0.697)	NULL
MAP1S	55201	genome.wustl.edu	37	19	17837478	17837478	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-D1-A177-01	TCGA-D1-A177-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_018174.4	+1	validated	p.R429C	1.000	8	0.000	6	0.667	30	23.3%	probably_damaging(1)	deleterious(0)	deleterious(0.945)	NULL
JAK3	3718	genome.wustl.edu	37	19	17955180	17955180	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-D1-A177-01	TCGA-D1-A177-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_000215.3	-1	reviewed	p.C16Y	1.000	30	0%	27	70.4%	1	0%	probably_damaging(0.992)	tolerated(0.1)	deleterious(0.734)	NULL
CERS1	10715	genome.wustl.edu	37	19	18994996	18994996	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-D1-A177-01	TCGA-D1-A177-01	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_021267.3	-1	reviewed	p.Y164H	1.000	134	0%	195	50.3%	1	100%	possibly_damaging(0.817)	deleterious(0.04)	deleterious(0.658)	HMMPfam_TRAM_LAG1_CLN8,HMMSmart_SM00724
LOC100287226	100287226	genome.wustl.edu	37	19	22499142	22499142	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-D1-A177-01	TCGA-D1-A177-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	XM_002343636.1	+1	model	p.Q842K	0.000	72	0%	67	37.3%	0	-	benign(0.042)	tolerated(0.26)	neutral(0.037)	HMMPfam_zf-C2H2,PatternScan_ZINC_FINGER_C2H2_1,HMMSmart_SM00355,superfamily_C2H2 and C2HC zinc fingers
MAG	4099	genome.wustl.edu	37	19	35790509	35790509	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-D1-A177-01	TCGA-D1-A177-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_002361.2	+1	reviewed	p.E156D	1.000	69	0%	78	37.2%	0	-	benign(0.392)	tolerated(0.49)	neutral(0.136)	HMMPfam_C2-set_2,superfamily_SSF48726
CD22	933	genome.wustl.edu	37	19	35832270	35832270	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-D1-A177-01	TCGA-D1-A177-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001771.3	+1	validated	p.R511Q	0.000	29	0%	45	57.8%	0	-	benign(0.064)	deleterious(0.02)	neutral(0.387)	superfamily_Immunoglobulin
RBM42	79171	genome.wustl.edu	37	19	36122239	36122239	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-D1-A177-01	TCGA-D1-A177-01	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_024321.3	+1	provisional	p.F125S	1.000	180	0%	236	42.4%	90	47.7%	probably_damaging(0.995)	deleterious(0.01)	deleterious(0.863)	NULL
MLL4	9757	genome.wustl.edu	37	19	36220070	36220070	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-D1-A177-01	TCGA-D1-A177-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_014727.1	+1	reviewed	p.R1597Q	1.000	144	0%	196	47.4%	22	54.5%	possibly_damaging(0.881)	-	-	NULL
CLIP3	25999	genome.wustl.edu	37	19	36517617	36517617	+	Nonsense_Mutation	SNP	G	G	A	novel		TCGA-D1-A177-01	TCGA-D1-A177-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_015526.1	-1	provisional	p.Q145*	1.000	53	0%	56	66.1%	11	27.2%	-	-	-	HMMPfam_Ank,HMMSmart_SM00248,superfamily_Ankyrin repeat
ZNF345	25850	genome.wustl.edu	37	19	37367976	37367976	+	Nonsense_Mutation	SNP	C	C	T	novel		TCGA-D1-A177-01	TCGA-D1-A177-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_003419.3	+1	provisional	p.R82*	1.000	292	0%	360	45%	1	0%	-	-	-	HMMPfam_zf-C2H2,PatternScan_ZINC_FINGER_C2H2_1,HMMSmart_ZnF_C2H2,superfamily_SSF57667
ZNF585A	199704	genome.wustl.edu	37	19	37642646	37642646	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-D1-A177-01	TCGA-D1-A177-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_152655.2	-1	validated	p.V664M	0.001	455	0.2%	654	24.2%	4	0%	benign(0.241)	tolerated(0.06)	neutral(0.347)	HMMPfam_zf-C2H2,HMMSmart_SM00355,superfamily_C2H2 and C2HC zinc fingers
FCGBP	8857	genome.wustl.edu	37	19	40408550	40408550	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-D1-A177-01	TCGA-D1-A177-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_003890.2	-1	validated	p.P1430L	0.001	160	0%	205	44.9%	1	100%	possibly_damaging(0.823)	deleterious(0.01)	deleterious(0.717)	NULL
ARHGEF1	9138	genome.wustl.edu	37	19	42409116	42409116	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-D1-A177-01	TCGA-D1-A177-01	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_199002.1	+1	reviewed	p.Y741C	1.000	150	0%	201	53.7%	103	51.4%	probably_damaging(1)	deleterious(0)	deleterious(0.945)	HMMSmart_PH,superfamily_SSF50729
PSG2	5670	genome.wustl.edu	37	19	43585057	43585057	+	Nonsense_Mutation	SNP	C	C	A	novel		TCGA-D1-A177-01	TCGA-D1-A177-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_031246.2	-1	validated	p.G136*	0.006	325	0%	412	36.9%	0	-	-	-	-	HMMSmart_IG,superfamily_SSF48726
ZFP112	7771	genome.wustl.edu	37	19	44832469	44832469	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-D1-A177-01	TCGA-D1-A177-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001083335.1	-1	validated	p.R620Q	0.993	168	0%	195	43.1%	5	40%	probably_damaging(0.988)	tolerated(0.83)	neutral(0.438)	HMMPfam_zf-C2H2,PatternScan_ZINC_FINGER_C2H2_1,HMMSmart_SM00355,superfamily_C2H2 and C2HC zinc fingers
NKPD1	284353	genome.wustl.edu	37	19	45656399	45656401	+	In_Frame_Del	DEL	CTT	CTT	-	novel		TCGA-D1-A177-01	TCGA-D1-A177-01	CTT	CTT					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_198478.3	-1	inferred	p.K210in_frame_del	1.000:1.000:1.000	-	-	-	-	-	-	-	-	-	HMMPfam_KAP_NTPase
OPA3	80207	genome.wustl.edu	37	19	46056966	46056966	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-D1-A177-01	TCGA-D1-A177-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_025136.3	-1	reviewed	p.R116C	0.703	19	0%	12	33.3%	6	33.3%	possibly_damaging(0.924)	deleterious(0.01)	deleterious(0.778)	HMMPfam_OPA3
ZC3H4	23211	genome.wustl.edu	37	19	47589753	47589753	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-D1-A177-01	TCGA-D1-A177-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_015168.1	-1	validated	p.R253H	0.999	36	0%	56	51.8%	7	71.4%	unknown(0)	tolerated(0.18)	-	NULL
NUCB1	4924	genome.wustl.edu	37	19	49407615	49407615	+	Silent	SNP	G	G	A	novel		TCGA-D1-A177-01	TCGA-D1-A177-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	ENST00000424608	+1	known	p.C49Y	1.000	126	0%	146	54.8%	156	49.3%	-	-	-	NULL
GYS1	2997	genome.wustl.edu	37	19	49472562	49472562	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-D1-A177-01	TCGA-D1-A177-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_002103.4	-1	reviewed	p.G733C	1.000	32	0%	34	50%	39	35.8%	unknown(0)	deleterious(0)	-	NULL
PTH2	113091	genome.wustl.edu	37	19	49926533	49926533	+	Missense_Mutation	SNP	G	G	C	novel		TCGA-D1-A177-01	TCGA-D1-A177-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_178449.3	-1	validated	p.L22V	0.132	14	0%	21	47.6%	0	-	unknown(0)	deleterious(0)	-	NULL
RCN3	57333	genome.wustl.edu	37	19	50040344	50040344	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-D1-A177-01	TCGA-D1-A177-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_020650.2	+1	provisional	p.R167Q	0.998	79	0%	149	54.4%	25	8%	probably_damaging(0.996)	deleterious(0)	deleterious(0.906)	superfamily_SSF47473
PRR12	57479	genome.wustl.edu	37	19	50119293	50119293	+	Missense_Mutation	SNP	G	G	A	rs189469394	by1000genomes	TCGA-D1-A177-01	TCGA-D1-A177-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_020719.1	+1	validated	p.A1772T	0.000	31	0%	27	51.9%	66	45.4%	benign(0.002)	tolerated(0.78)	neutral(0.001)	NULL
ZNF473	25888	genome.wustl.edu	37	19	50548165	50548165	+	Silent	SNP	A	A	G	novel		TCGA-D1-A177-01	TCGA-D1-A177-01	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001006656.1	+1	validated	p.G155	0.026	46	0%	40	57.5%	5	60%	-	-	-	NULL
NR1H2	7376	genome.wustl.edu	37	19	50881527	50881527	+	Silent	SNP	G	G	A	novel		TCGA-D1-A177-01	TCGA-D1-A177-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_007121.4	+1	validated	p.V101	1.000	64	0%	59	13.6%	88	12.5%	-	-	-	HMMPfam_zf-C4,HMMSmart_SM00399,PatternScan_NUCLEAR_REC_DBD_1,superfamily_Glucocorticoid receptor-like (DNA-binding domain)
C19orf48	84798	genome.wustl.edu	37	19	51301498	51301498	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-D1-A177-01	TCGA-D1-A177-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_199249.1	-1	validated	p.L70F	0.001	104	0%	142	52.1%	242	50%	unknown(0)	-	-	NULL
KLK12	43849	genome.wustl.edu	37	19	51534136	51534136	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-D1-A177-01	TCGA-D1-A177-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_019598.2	-1	reviewed	p.V167I	0.500	187	0%	245	49.4%	201	43.7%	benign(0.077)	tolerated(0.15)	neutral(0.246)	HMMPfam_Trypsin,HMMSmart_Tryp_SPc,superfamily_Pept_Ser_Cys
SIGLEC9	27180	genome.wustl.edu	37	19	51630504	51630504	+	Silent	SNP	T	T	C	novel		TCGA-D1-A177-01	TCGA-D1-A177-01	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_014441.1	+1	provisional	p.A322	0.475	65	0%	72	36.1%	0	-	-	-	-	HMMSmart_IG,HMMPfam_ig,superfamily_SSF48726
MYADM	91663	genome.wustl.edu	37	19	54377735	54377735	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-D1-A177-01	TCGA-D1-A177-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001020818.1	+1	validated	p.V318I	1.000	66	0%	85	36.5%	105	32.3%	possibly_damaging(0.751)	tolerated(0.52)	neutral(0.284)	HMMPfam_MARVEL
NDUFA3	4696	genome.wustl.edu	37	19	54611747	54611747	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-D1-A177-01	TCGA-D1-A177-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	ENST00000391764	+1	known	p.A55V	0.000	44	0%	50	40%	7	42.8%	benign(0)	tolerated(1)	-	NULL
LILRB4	11006	genome.wustl.edu	37	19	55179360	55179360	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-D1-A177-01	TCGA-D1-A177-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_006847.3	+1	reviewed	p.A413T	0.468	297	0%	360	40.8%	5	0%	possibly_damaging(0.947)	deleterious(0)	deleterious(0.835)	NULL
GP6	51206	genome.wustl.edu	37	19	55526223	55526223	+	Missense_Mutation	SNP	A	A	C	novel		TCGA-D1-A177-01	TCGA-D1-A177-01	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001083899.1	-1	validated	p.W364G	0.000	110	0%	135	46.7%	0	-	unknown(0)	-	-	NULL
SBK2	646643	genome.wustl.edu	37	19	56042530	56042530	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-D1-A177-01	TCGA-D1-A177-01	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001101401.1	-1	provisional	p.M146V	1.000	43	0%	74	43.2%	0	-	benign(0.001)	tolerated(0.14)	neutral(0.249)	superfamily_Kinase_like,HMMPfam_Pkinase
EPN1	29924	genome.wustl.edu	37	19	56204336	56204336	+	Silent	SNP	G	G	A	novel		TCGA-D1-A177-01	TCGA-D1-A177-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001130071.1	+1	validated	p.T485	0.004	65	0%	77	41.6%	174	45.4%	-	-	-	NULL
NLRP4	147945	genome.wustl.edu	37	19	56373465	56373465	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-D1-A177-01	TCGA-D1-A177-01	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_134444.4	+1	validated	p.D709G	0.000	320	0%	402	46.8%	0	-	benign(0.005)	tolerated(0.24)	neutral(0.037)	superfamily_RNI-like
PEG3	5178	genome.wustl.edu	37	19	57326442	57326442	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-D1-A177-01	TCGA-D1-A177-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_006210.2	-1	reviewed	p.T1123I	0.000	184	0%	211	39.3%	0	-	possibly_damaging(0.937)	tolerated(0.42)	neutral(0.397)	HMMPfam_zf-C2H2,PatternScan_ZINC_FINGER_C2H2_1,HMMSmart_SM00355,superfamily_C2H2 and C2HC zinc fingers
ANGPT4	51378	genome.wustl.edu	37	20	871003	871003	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-D1-A177-01	TCGA-D1-A177-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_015985.2	-1	reviewed	p.R106S	0.899	136	0%	171	40.9%	0	-	benign(0.007)	tolerated(0.3)	neutral(0.029)	NULL
PANK2	80025	genome.wustl.edu	37	20	3891288	3891288	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-D1-A177-01	TCGA-D1-A177-01	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_153638.2	+1	reviewed	p.I349T	1.000	245	0%	254	43.7%	6	33.3%	benign(0.009)	tolerated(0.07)	neutral(0.320)	HMMPfam_Fumble,superfamily_Actin-like ATPase domain
LRRN4	164312	genome.wustl.edu	37	20	6022066	6022066	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-D1-A177-01	TCGA-D1-A177-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_152611.3	-1	validated	p.G609W	0.000	34	0%	33	15.2%	0	-	benign(0.001)	tolerated(0.2)	neutral(0.049)	HMMPfam_fn3,HMMSmart_SM00060,superfamily_Fibronectin type III
ENSG00000232838	0	genome.wustl.edu	37	20	18122864	18122864	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-D1-A177-01	TCGA-D1-A177-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	ENST00000432901	+1	known	p.G37R	0.995	202	0%	270	37.8%	27	33.3%	probably_damaging(0.999)	deleterious(0)	deleterious(0.935)	NULL
RBBP9	10741	genome.wustl.edu	37	20	18476521	18476521	+	Missense_Mutation	SNP	G	G	C	novel		TCGA-D1-A177-01	TCGA-D1-A177-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_006606.2	-1	reviewed	p.P35A	1.000	133	0%	127	40.2%	2	0%	benign(0.018)	tolerated(0.14)	neutral(0.250)	HMMPfam_DUF1234,superfamily_alpha/beta-Hydrolases
SSTR4	6754	genome.wustl.edu	37	20	23016443	23016443	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-D1-A177-01	TCGA-D1-A177-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001052.2	+1	validated	p.A108V	1.000	49	0%	87	46%	0	-	possibly_damaging(0.918)	tolerated(0.52)	neutral(0.377)	HMMPfam_7tm_1,superfamily_SSF81321
PXMP4	11264	genome.wustl.edu	37	20	32298471	32298471	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-D1-A177-01	TCGA-D1-A177-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_007238.4	-1	validated	p.R89C	0.209	211	0%	230	44.8%	0	-	benign(0.001)	tolerated(0.25)	neutral(0.037)	HMMPfam_Pmp24
AHCY	191	genome.wustl.edu	37	20	32883206	32883206	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-D1-A177-01	TCGA-D1-A177-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_000687.2	-1	reviewed	p.A72T	1.000	38	0%	38	55.3%	443	52.1%	probably_damaging(0.996)	deleterious(0)	deleterious(0.906)	HMMPfam_AdoHcyase,superfamily_Formate/glycerate dehydrogenase catalytic domain-like
NCOA6	23054	genome.wustl.edu	37	20	33330249	33330249	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-D1-A177-01	TCGA-D1-A177-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_014071.2	-1	reviewed	p.D1271N	1.000	243	0%	313	43.5%	15	66.6%	probably_damaging(1)	deleterious(0)	deleterious(0.945)	NULL
MYH7B	57644	genome.wustl.edu	37	20	33572685	33572685	+	Frame_Shift_Del	DEL	C	C	-	novel		TCGA-D1-A177-01	TCGA-D1-A177-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_020884.3	+1	reviewed	p.N269fs	1.000	-	-	-	-	-	-	-	-	-	HMMPfam_Myosin_head,HMMSmart_SM00242,superfamily_P-loop containing nucleoside triphosphate hydrolases
CEP250	11190	genome.wustl.edu	37	20	34082468	34082469	+	Frame_Shift_Del	DEL	GA	GA	-	novel		TCGA-D1-A177-01	TCGA-D1-A177-01	GA	GA					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_007186.3	+1	reviewed	p.K1054fs	1.000:1.000	-	-	-	-	-	-	-	-	-	NULL
ENSG00000246654	0	genome.wustl.edu	37	20	35219909	35219909	+	RNA	SNP	G	G	T	novel		TCGA-D1-A177-01	TCGA-D1-A177-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	ENST00000500008	-1	novel	NULL	1.000	34	0%	38	34.2%	7	42.8%	-	-	-	-
RPN2	6185	genome.wustl.edu	37	20	35835806	35835806	+	Missense_Mutation	SNP	T	T	A	novel		TCGA-D1-A177-01	TCGA-D1-A177-01	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_002951.3	+1	reviewed	p.V274E	0.697	307	0%	363	38.8%	457	43.1%	possibly_damaging(0.768)	tolerated(0.07)	deleterious(0.604)	HMMPfam_Ribophorin_II
RALGAPB	57148	genome.wustl.edu	37	20	37154552	37154552	+	Silent	SNP	A	A	G	novel		TCGA-D1-A177-01	TCGA-D1-A177-01	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_020336.2	+1	validated	p.G639	1.000	210	0%	185	47.6%	6	33.3%	-	-	-	NULL
IFT52	51098	genome.wustl.edu	37	20	42264573	42264573	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-D1-A177-01	TCGA-D1-A177-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_016004.2	+1	validated	p.E311K	0.997	178	0%	211	50.2%	68	57.3%	benign(0.001)	tolerated(0.24)	neutral(0.037)	NULL
GDAP1L1	78997	genome.wustl.edu	37	20	42885846	42885846	+	Silent	SNP	C	C	T	novel		TCGA-D1-A177-01	TCGA-D1-A177-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	ENST00000445952	+1	known	p.P25S	1.000	48	0%	34	50%	0	-	-	-	-	HMMPfam_GST_N,superfamily_Thioredoxin-like
TOMM34	10953	genome.wustl.edu	37	20	43588953	43588953	+	Missense_Mutation	SNP	A	A	C	novel		TCGA-D1-A177-01	TCGA-D1-A177-01	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_006809.4	-1	reviewed	p.S8A	0.029	22	0%	22	31.8%	23	52.1%	probably_damaging(0.988)	tolerated(0.61)	neutral(0.442)	NULL
ZNF335	63925	genome.wustl.edu	37	20	44589308	44589308	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-D1-A177-01	TCGA-D1-A177-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_022095.3	-1	reviewed	p.L577F	1.000	154	0%	188	44.1%	8	25%	probably_damaging(0.999)	deleterious(0.01)	deleterious(0.896)	HMMPfam_zf-C2H2,PatternScan_ZINC_FINGER_C2H2_1,HMMSmart_SM00355,superfamily_C2H2 and C2HC zinc fingers
CD40	958	genome.wustl.edu	37	20	44751844	44751844	+	Silent	SNP	T	T	C	novel		TCGA-D1-A177-01	TCGA-D1-A177-01	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001250.4	+1	reviewed	p.C161	0.989	327	0%	432	42.1%	0	-	-	-	-	HMMSmart_SM00208,superfamily_TNF receptor-like
SLC2A10	81031	genome.wustl.edu	37	20	45354486	45354486	+	Silent	SNP	C	C	T	novel		TCGA-D1-A177-01	TCGA-D1-A177-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_030777.3	+1	reviewed	p.L271	0.988	91	0%	114	46.5%	9	44.4%	-	-	-	HMMPfam_Sugar_tr,superfamily_MFS general substrate transporter
STAU1	6780	genome.wustl.edu	37	20	47734550	47734550	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-D1-A177-01	TCGA-D1-A177-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_017453.2	-1	reviewed	p.A425T	1.000	138	0%	208	43.3%	79	45.5%	probably_damaging(0.999)	tolerated(0.32)	deleterious(0.514)	NULL
NFATC2	4773	genome.wustl.edu	37	20	50140514	50140514	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-D1-A177-01	TCGA-D1-A177-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_173091.2	-1	reviewed	p.P89L	0.999	44	0%	63	41.3%	1	100%	benign(0.226)	tolerated(0.55)	neutral(0.029)	NULL
TSHZ2	128553	genome.wustl.edu	37	20	51870317	51870317	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-D1-A177-01	TCGA-D1-A177-01	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_173485.4	+1	validated	p.K107R	1.000	114	0%	124	52.4%	2	0%	benign(0.002)	tolerated(0.06)	neutral(0.323)	NULL
TSHZ2	128553	genome.wustl.edu	37	20	51870696	51870696	+	Silent	SNP	C	C	T	novel		TCGA-D1-A177-01	TCGA-D1-A177-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_173485.4	+1	validated	p.H233	1.000	87	0%	90	43.3%	5	20%	-	-	-	PatternScan_ZINC_FINGER_C2H2_1,HMMSmart_ZnF_C2H2
BMP7	655	genome.wustl.edu	37	20	55840914	55840914	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-D1-A177-01	TCGA-D1-A177-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001719.2	-1	reviewed	p.A89T	1.000	60	0%	79	32.9%	17	23.5%	benign(0.016)	tolerated(0.2)	neutral(0.050)	HMMPfam_TGFb_propeptide
RAB22A	57403	genome.wustl.edu	37	20	56929278	56929278	+	Silent	SNP	C	C	T	novel		TCGA-D1-A177-01	TCGA-D1-A177-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_020673.2	+1	reviewed	p.S148	1.000	212	0%	221	42.1%	16	37.5%	-	-	-	HMMSmart_SM00176,HMMSmart_SM00173,HMMSmart_SM00174,HMMSmart_SM00175,HMMPfam_Ras,superfamily_P-loop containing nucleoside triphosphate hydrolases
GNAS	2778	genome.wustl.edu	37	20	57429998	57429998	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-D1-A177-01	TCGA-D1-A177-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_080425.2	+1	reviewed	p.G560S	0.025	14	0%	14	57.1%	0	-	benign(0.053)	tolerated(0.24)	neutral(0.041)	NULL
SYCP2	10388	genome.wustl.edu	37	20	58442848	58442848	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-D1-A177-01	TCGA-D1-A177-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_014258.2	-1	reviewed	p.T1348I	0.000	112	0%	141	41.8%	0	-	benign(0.067)	tolerated(0.24)	neutral(0.042)	NULL
LSM14B	149986	genome.wustl.edu	37	20	60705329	60705329	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-D1-A177-01	TCGA-D1-A177-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_144703.2	+1	validated	p.R217K	1.000	116	0.9%	175	40.6%	64	29.6%	probably_damaging(0.974)	tolerated(0.83)	neutral(0.416)	NULL
SS18L1	26039	genome.wustl.edu	37	20	60738545	60738545	+	Silent	SNP	G	G	A	novel		TCGA-D1-A177-01	TCGA-D1-A177-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_198935.1	+1	validated	p.S196	0.193	19	0%	24	41.7%	12	50%	-	-	-	NULL
OSBPL2	9885	genome.wustl.edu	37	20	60848388	60848388	+	Silent	SNP	G	G	A	novel		TCGA-D1-A177-01	TCGA-D1-A177-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_144498.1	+1	reviewed	p.S139	0.020	199	0%	230	41.3%	6	0%	-	-	-	HMMPfam_Oxysterol_BP
PTK6	5753	genome.wustl.edu	37	20	62162140	62162140	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-D1-A177-01	TCGA-D1-A177-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_005975.2	-1	reviewed	p.L325I	0.996	146	0%	235	43.8%	6	50%	benign(0)	tolerated(0.87)	neutral(0.001)	HMMPfam_Pkinase_Tyr,HMMSmart_TyrKc,superfamily_Kinase_like
NCAM2	4685	genome.wustl.edu	37	21	22790836	22790836	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-D1-A177-01	TCGA-D1-A177-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_004540.2	+1	reviewed	p.T476I	1.000	186	0%	181	45.3%	0	-	probably_damaging(1)	deleterious(0)	deleterious(0.945)	HMMSmart_IGc2,HMMPfam_ig,superfamily_SSF48726
BACH1	571	genome.wustl.edu	37	21	30715020	30715020	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-D1-A177-01	TCGA-D1-A177-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001186.2	+1	reviewed	p.A693T	0.000	83	0%	117	43.6%	15	60%	benign(0.002)	tolerated(0.59)	neutral(0.004)	NULL
KRTAP19-5	337972	genome.wustl.edu	37	21	31874363	31874363	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-D1-A177-01	TCGA-D1-A177-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_181611.1	-1	provisional	p.G16R	0.000	165	0%	220	50.9%	0	-	unknown(0)	-	-	NULL
ITSN1	6453	genome.wustl.edu	37	21	35183292	35183292	+	Frame_Shift_Del	DEL	A	A	-	novel		TCGA-D1-A177-01	TCGA-D1-A177-01	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_003024.2	+1	reviewed	p.T779fs	1.000	-	-	-	-	-	-	-	-	-	HMMPfam_SH3_1,HMMSmart_SM00326,superfamily_SH3-domain
ITSN1	6453	genome.wustl.edu	37	21	35186339	35186339	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-D1-A177-01	TCGA-D1-A177-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_003024.2	+1	reviewed	p.T897M	1.000	62	0%	95	50.5%	6	100%	probably_damaging(1)	deleterious(0.02)	deleterious(0.883)	superfamily_SH3-domain
MORC3	23515	genome.wustl.edu	37	21	37710101	37710101	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-D1-A177-01	TCGA-D1-A177-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_015358.2	+1	reviewed	p.S106L	1.000	166	0.6%	199	33.2%	6	33.3%	probably_damaging(1)	deleterious(0)	deleterious(0.945)	superfamily_ATP_bd_ATPase
DYRK1A	1859	genome.wustl.edu	37	21	38868552	38868552	+	Nonsense_Mutation	SNP	G	G	T	novel		TCGA-D1-A177-01	TCGA-D1-A177-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001396.3	+1	reviewed	p.G411*	1.000	97	0%	108	37%	5	60%	-	-	-	HMMSmart_SM00219,HMMSmart_SM00220,superfamily_Protein kinase-like (PK-like),HMMPfam_Pkinase
TMPRSS2	7113	genome.wustl.edu	37	21	42866413	42866413	+	Silent	SNP	G	G	T	novel		TCGA-D1-A177-01	TCGA-D1-A177-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_005656.3	-1	reviewed	p.V36	0.011	241	0%	269	45%	20	60%	-	-	-	NULL
UMODL1	89766	genome.wustl.edu	37	21	43510464	43510464	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-D1-A177-01	TCGA-D1-A177-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_173568.3	+1	validated	p.A283T	0.000	257	0%	366	47.3%	0	-	benign(0.242)	tolerated(0.81)	neutral(0.025)	PatternScan_ASX_HYDROXYL,HMMSmart_SM00179,HMMPfam_EGF_CA,PatternScan_EGF_CA,superfamily_EGF/Laminin
ABCG1	9619	genome.wustl.edu	37	21	43706047	43706047	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-D1-A177-01	TCGA-D1-A177-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_004915.3	+1	reviewed	p.P306S	1.000	321	0%	432	37.7%	6	16.6%	probably_damaging(0.986)	tolerated(0.07)	deleterious(0.754)	NULL
CBS	875	genome.wustl.edu	37	21	44482442	44482442	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-D1-A177-01	TCGA-D1-A177-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_000071.2	-1	reviewed	p.A340T	0.003	53	0%	87	51.7%	14	57.1%	benign(0.001)	tolerated(0.15)	neutral(0.241)	HMMPfam_PALP,superfamily_Tryptophan synthase beta subunit-like PLP-dependent enzymes
C21orf2	755	genome.wustl.edu	37	21	45751863	45751863	+	Silent	SNP	A	A	G	novel		TCGA-D1-A177-01	TCGA-D1-A177-01	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_004928.2	-1	validated	p.S136	0.755	119	0%	131	43.5%	35	40%	-	-	-	superfamily_Outer arm dynein light chain 1
PCNT	5116	genome.wustl.edu	37	21	47860066	47860066	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-D1-A177-01	TCGA-D1-A177-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_006031.5	+1	reviewed	p.G3115D	0.001	61	0%	96	41.7%	23	26%	possibly_damaging(0.649)	tolerated(0.56)	neutral(0.235)	NULL
LOC729057	729057	genome.wustl.edu	37	22	16123310	16123310	+	RNA	SNP	G	G	A	novel		TCGA-D1-A177-01	TCGA-D1-A177-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	XR_042044.2	+1	model	NULL	1.000	260	0.4%	320	11.3%	1	0%	-	-	-	-
TXNRD2	10587	genome.wustl.edu	37	22	19867721	19867721	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-D1-A177-01	TCGA-D1-A177-01	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_006440.3	-1	reviewed	p.H419R	0.982	64	0%	70	41.4%	70	45.7%	benign(0.186)	deleterious(0.04)	neutral(0.366)	HMMPfam_Pyr_redox_dim,superfamily_FAD/NAD-linked reductases dimerisation (C-terminal) domain
IGLV3-9	28804	genome.wustl.edu	37	22	23162092	23162092	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-D1-A177-01	TCGA-D1-A177-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	ENST00000390316	+1	known	p.P62H	0.676	108	0%	157	39.5%	0	-	probably_damaging(1)	deleterious(0.01)	deleterious(0.905)	HMMSmart_SM00406,HMMSmart_SM00409,HMMPfam_V-set,superfamily_Immunoglobulin
RAB36	9609	genome.wustl.edu	37	22	23492307	23492307	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-D1-A177-01	TCGA-D1-A177-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_004914.2	+1	validated	p.A109T	0.118	106	0%	126	49.2%	0	-	benign(0)	tolerated(0.31)	neutral(0.027)	HMMSmart_SM00177
ADORA2A	135	genome.wustl.edu	37	22	24836876	24836876	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-D1-A177-01	TCGA-D1-A177-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_000675.4	+1	reviewed	p.R220W	0.624	106	0%	158	41.1%	15	20%	probably_damaging(0.993)	deleterious(0.01)	deleterious(0.856)	HMMPfam_7tm_1,superfamily_Family A G protein-coupled receptor-like
ASCC2	84164	genome.wustl.edu	37	22	30185169	30185169	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-D1-A177-01	TCGA-D1-A177-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_032204.3	-1	provisional	p.R703W	0.999	185	0%	246	47.2%	104	55.7%	probably_damaging(1)	deleterious(0)	deleterious(0.945)	NULL
LARGE	9215	genome.wustl.edu	37	22	34157439	34157439	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-D1-A177-01	TCGA-D1-A177-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_004737.4	-1	reviewed	p.R9W	1.000	246	0%	294	41.8%	7	57.1%	probably_damaging(0.992)	deleterious(0.03)	deleterious(0.812)	NULL
MCM5	4174	genome.wustl.edu	37	22	35811955	35811955	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-D1-A177-01	TCGA-D1-A177-01	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_006739.3	+1	reviewed	p.E446G	1.000	315	0%	381	45.9%	163	49.6%	probably_damaging(1)	deleterious(0)	deleterious(0.945)	HMMPfam_MCM,HMMSmart_SM00350,PatternScan_MCM_1,superfamily_P-loop containing nucleoside triphosphate hydrolases
ELFN2	114794	genome.wustl.edu	37	22	37770959	37770959	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-D1-A177-01	TCGA-D1-A177-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_052906.3	-1	validated	p.V206I	1.000	41	0%	44	45.5%	0	-	possibly_damaging(0.917)	tolerated(0.24)	neutral(0.405)	HMMSmart_LRRCT,superfamily_SSF52058
PLA2G6	8398	genome.wustl.edu	37	22	38565395	38565395	+	Silent	SNP	G	G	A	novel		TCGA-D1-A177-01	TCGA-D1-A177-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_003560.2	-1	reviewed	p.G13	0.243	94	0%	136	37.5%	4	75%	-	-	-	NULL
APOBEC3B	9582	genome.wustl.edu	37	22	39385523	39385523	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-D1-A177-01	TCGA-D1-A177-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_004900.3	+1	reviewed	p.R211W	0.000	124	0%	95	28.4%	13	7.6%	benign(0.382)	deleterious(0.01)	deleterious(0.528)	HMMPfam_APOBEC_N
ATF4	468	genome.wustl.edu	37	22	39918059	39918059	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-D1-A177-01	TCGA-D1-A177-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001675.2	+1	reviewed	p.L170M	0.349	210	0%	242	38%	641	43.8%	possibly_damaging(0.539)	tolerated(0.12)	neutral(0.443)	NULL
EP300	2033	genome.wustl.edu	37	22	41531831	41531831	+	Nonsense_Mutation	SNP	G	G	T	novel		TCGA-D1-A177-01	TCGA-D1-A177-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001429.3	+1	reviewed	p.G515*	1.000	358	0%	474	13.3%	5	0%	-	-	-	NULL
TCF20	6942	genome.wustl.edu	37	22	42609149	42609149	+	Silent	SNP	G	G	A	novel		TCGA-D1-A177-01	TCGA-D1-A177-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_005650.1	-1	reviewed	p.V721	0.969	103	0%	172	43.6%	10	20%	-	-	-	NULL
POLDIP3	84271	genome.wustl.edu	37	22	42999129	42999129	+	Nonsense_Mutation	SNP	G	G	A	novel		TCGA-D1-A177-01	TCGA-D1-A177-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_032311.3	-1	reviewed	p.R33*	0.994	114	0%	162	44.4%	58	67.2%	-	-	-	NULL
IL17REL	400935	genome.wustl.edu	37	22	50435488	50435488	+	Silent	SNP	C	C	T	novel		TCGA-D1-A177-01	TCGA-D1-A177-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001001694.2	-1	validated	p.P330	0.000	112	0.9%	135	41.5%	0	-	-	-	-	NULL
PLCXD1	55344	genome.wustl.edu	37	X	215942	215942	+	Silent	SNP	C	C	T	novel		TCGA-D1-A177-01	TCGA-D1-A177-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_018390.3	+1	reviewed	p.I304	0.044	207	0%	252	43.7%	21	66.6%	-	-	-	superfamily_PLC-like_Pdiesterase_TIM-brl
PPP2R3B	28227	genome.wustl.edu	37	X	306399	306399	+	Silent	SNP	C	C	T	novel		TCGA-D1-A177-01	TCGA-D1-A177-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_013239.4	-1	reviewed	p.A296	0.998	176	0%	286	46.9%	41	39%	-	-	-	NULL
ASMTL	8623	genome.wustl.edu	37	X	1537890	1537890	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-D1-A177-01	TCGA-D1-A177-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_004192.3	-1	reviewed	p.A455T	0.999	82	0%	86	43%	95	46.3%	possibly_damaging(0.894)	tolerated(0.06)	deleterious(0.674)	HMMPfam_Methyltransf_2,superfamily_S-adenosyl-L-methionine-dependent methyltransferases
ASMTL	8623	genome.wustl.edu	37	X	1557996	1557996	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-D1-A177-01	TCGA-D1-A177-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	ENST00000416733	-1	known	p.R35Q	0.995	339	0%	522	46.2%	30	60%	benign(0.063)	deleterious(0.02)	neutral(0.387)	NULL
ZBED1	9189	genome.wustl.edu	37	X	2408381	2408381	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-D1-A177-01	TCGA-D1-A177-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_004729.3	-1	reviewed	p.T127M	1.000	102	0%	126	50.8%	112	51.7%	probably_damaging(0.999)	deleterious(0.01)	deleterious(0.896)	NULL
FAM9A	171482	genome.wustl.edu	37	X	8764408	8764408	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-D1-A177-01	TCGA-D1-A177-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_174951.3	-1	validated	p.G130D	0.000	457	0%	538	40.7%	0	-	benign(0.004)	tolerated(0.2)	neutral(0.049)	NULL
FAM9B	171483	genome.wustl.edu	37	X	9000488	9000488	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-D1-A177-01	TCGA-D1-A177-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_205849.2	-1	validated	p.R15C	0.005	482	0.2%	595	38.5%	0	-	benign(0.298)	deleterious(0.01)	deleterious(0.498)	NULL
SHROOM2	357	genome.wustl.edu	37	X	9905447	9905447	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-D1-A177-01	TCGA-D1-A177-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001649.2	+1	reviewed	p.Q1287H	0.000	59	1.7%	55	49.1%	1	0%	possibly_damaging(0.44)	tolerated(0.13)	neutral(0.396)	NULL
ARHGAP6	395	genome.wustl.edu	37	X	11197522	11197522	+	Silent	SNP	G	G	A	novel		TCGA-D1-A177-01	TCGA-D1-A177-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_013427.2	-1	reviewed	p.H460	1.000	184	0%	232	44.8%	1	0%	-	-	-	HMMPfam_RhoGAP,HMMSmart_SM00324,superfamily_GTPase activation domain GAP
TMEM27	57393	genome.wustl.edu	37	X	15646145	15646145	+	Silent	SNP	C	C	T	novel		TCGA-D1-A177-01	TCGA-D1-A177-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_020665.4	-1	reviewed	p.G206	0.421	370	0%	529	42.5%	0	-	-	-	-	NULL
NHS	4810	genome.wustl.edu	37	X	17744822	17744822	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-D1-A177-01	TCGA-D1-A177-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_198270.2	+1	reviewed	p.D845N	0.709	73	0%	112	42%	1	0%	probably_damaging(0.99)	tolerated(0.51)	neutral(0.451)	NULL
MAP7D2	256714	genome.wustl.edu	37	X	20043906	20043906	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-D1-A177-01	TCGA-D1-A177-01	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_152780.3	-1	validated	p.Q350R	0.005	339	0%	372	42.5%	0	-	unknown(0)	tolerated(0.84)	-	NULL
MAP7D2	256714	genome.wustl.edu	37	X	20068979	20068979	+	Missense_Mutation	SNP	T	T	G	novel		TCGA-D1-A177-01	TCGA-D1-A177-01	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	ENST00000379643	-1	known	p.R185S	0.995	285	0%	358	42.2%	0	-	unknown(0)	tolerated(0.13)	-	NULL
YY2	404281	genome.wustl.edu	37	X	21875231	21875231	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-D1-A177-01	TCGA-D1-A177-01	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_206923.3	+1	reviewed	p.Y210C	1.000	129	0%	171	46.2%	2	0%	possibly_damaging(0.704)	deleterious(0)	deleterious(0.698)	NULL
SAT1	6303	genome.wustl.edu	37	X	23801955	23801955	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-D1-A177-01	TCGA-D1-A177-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_002970.2	+1	reviewed	p.H53Y	1.000	353	0%	382	39.8%	290	84.4%	benign(0.09)	tolerated(0.11)	neutral(0.278)	superfamily_Acyl-CoA N-acyltransferases (Nat)
CXorf58	254158	genome.wustl.edu	37	X	23953497	23953497	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-D1-A177-01	TCGA-D1-A177-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_152761.2	+1	validated	p.T247M	0.632	83	0%	114	43.9%	0	-	probably_damaging(1)	deleterious(0.05)	deleterious(0.845)	NULL
DMD	1756	genome.wustl.edu	37	X	32591965	32591965	+	Splice_Site	SNP	T	T	C	novel		TCGA-D1-A177-01	TCGA-D1-A177-01	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_004006.2	-1	reviewed	e14-2	1.000	127	0%	139	45.3%	0	-	-	-	-	-
SYTL5	94122	genome.wustl.edu	37	X	37893201	37893201	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-D1-A177-01	TCGA-D1-A177-01	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_138780.2	+1	reviewed	p.M20T	1.000	228	0%	210	44.8%	0	-	benign(0.003)	tolerated(0.17)	neutral(0.059)	HMMPfam_RPH3A_effector,superfamily_FYVE_PHD_ZnF
USP9X	8239	genome.wustl.edu	37	X	41007709	41007709	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-D1-A177-01	TCGA-D1-A177-01	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001039590.2	+1	reviewed	p.M503V	1.000	324	0%	378	39.9%	12	58.3%	possibly_damaging(0.799)	deleterious(0.02)	deleterious(0.684)	NULL
TSPYL2	64061	genome.wustl.edu	37	X	53115251	53115251	+	Silent	SNP	C	C	T	novel		TCGA-D1-A177-01	TCGA-D1-A177-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_022117.3	+1	reviewed	p.S559	0.942	448	0.2%	644	44.4%	43	93%	-	-	-	NULL
TAF1	6872	genome.wustl.edu	37	X	70608190	70608190	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-D1-A177-01	TCGA-D1-A177-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_004606.3	+1	reviewed	p.R864Q	1.000	148	0%	164	53.7%	2	100%	probably_damaging(1)	deleterious(0)	deleterious(0.945)	NULL
OGT	8473	genome.wustl.edu	37	X	70787478	70787478	+	Silent	SNP	T	T	C	novel		TCGA-D1-A177-01	TCGA-D1-A177-01	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_181672.2	+1	reviewed	p.A906	1.000	228	0%	292	45.2%	36	0%	-	-	-	NULL
RAB9B	51209	genome.wustl.edu	37	X	103080474	103080474	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-D1-A177-01	TCGA-D1-A177-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_016370.2	-1	reviewed	p.D81Y	1.000	207	0%	272	38.6%	0	-	probably_damaging(1)	deleterious(0)	deleterious(0.945)	HMMSmart_RAB,HMMPfam_Ras,superfamily_SSF52540
MORC4	79710	genome.wustl.edu	37	X	106224218	106224218	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-D1-A177-01	TCGA-D1-A177-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_024657.4	-1	reviewed	p.R280H	1.000	404	0%	450	40.9%	6	100%	probably_damaging(1)	deleterious(0.01)	deleterious(0.905)	superfamily_ATP_bd_ATPase
TRPC5	7224	genome.wustl.edu	37	X	111095667	111095667	+	Splice_Site	SNP	T	T	C	novel		TCGA-D1-A177-01	TCGA-D1-A177-01	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_012471.2	-1	reviewed	e4-2	1.000	175	0%	205	37.1%	0	-	-	-	-	-
DOCK11	139818	genome.wustl.edu	37	X	117722429	117722429	+	Silent	SNP	T	T	C	novel		TCGA-D1-A177-01	TCGA-D1-A177-01	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_144658.3	+1	validated	p.A678	0.000	648	0%	796	43.1%	0	-	-	-	-	NULL
MST4	51765	genome.wustl.edu	37	X	131202580	131202580	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-D1-A177-01	TCGA-D1-A177-01	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_016542.3	+1	reviewed	p.S194P	1.000	123	0%	144	40.3%	6	100%	possibly_damaging(0.945)	deleterious(0.01)	deleterious(0.795)	HMMSmart_SM00219,HMMSmart_SM00220,superfamily_Protein kinase-like (PK-like),HMMPfam_Pkinase
ZNF75D	7626	genome.wustl.edu	37	X	134421285	134421286	+	Frame_Shift_Del	DEL	GT	GT	-	novel		TCGA-D1-A177-01	TCGA-D1-A177-01	GT	GT					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_007131.3	-1	reviewed	p.H439fs	1.000:1.000	-	-	-	-	-	-	-	-	-	HMMPfam_zf-C2H2,PatternScan_ZINC_FINGER_C2H2_1,HMMSmart_ZnF_C2H2,superfamily_SSF57667
SAGE1	55511	genome.wustl.edu	37	X	134991927	134991927	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-D1-A177-01	TCGA-D1-A177-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_018666.2	+1	reviewed	p.T571I	0.010	123	0%	169	40.2%	0	-	probably_damaging(0.999)	deleterious(0.01)	deleterious(0.896)	NULL
GPR112	139378	genome.wustl.edu	37	X	135405499	135405499	+	Silent	SNP	C	C	T	novel		TCGA-D1-A177-01	TCGA-D1-A177-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_153834.3	+1	reviewed	p.D211	0.770	113	0%	127	39.4%	0	-	-	-	-	superfamily_ConA_like_lec_gl
ATP11C	286410	genome.wustl.edu	37	X	138908947	138908948	+	Frame_Shift_Del	DEL	TG	TG	-	novel		TCGA-D1-A177-01	TCGA-D1-A177-01	TG	TG					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_173694.4	-1	validated	p.T24fs	0.942:0.997	-	-	-	-	-	-	-	-	-	NULL
LOC392555	392555	genome.wustl.edu	37	X	141260813	141260813	+	Silent	SNP	G	G	A	rs1883360	byCluster;byFrequency;by2Hit2Allele;byHapMap;by1000genomes	TCGA-D1-A177-01	TCGA-D1-A177-01	G	G					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	XM_002343852.1	-1	model	p.L372	0.017	46	0%	51	41.2%	0	-	-	-	-	NULL
MAMLD1	10046	genome.wustl.edu	37	X	149639325	149639327	+	In_Frame_Del	DEL	CAG	CAG	-	novel		TCGA-D1-A177-01	TCGA-D1-A177-01	CAG	CAG					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_005491.3	+1	reviewed	p.Q497in_frame_del	0.006:0.000:0.000	-	-	-	-	-	-	-	-	-	NULL
MTM1	4534	genome.wustl.edu	37	X	149765038	149765038	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-D1-A177-01	TCGA-D1-A177-01	A	A					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	ENST00000413012	+1	known	p.K47R	1.000	202	0%	297	43.4%	0	-	-	-	-	NULL
CD99L2	83692	genome.wustl.edu	37	X	149944713	149944713	+	Nonsense_Mutation	SNP	C	C	T	novel		TCGA-D1-A177-01	TCGA-D1-A177-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	ENST00000355330	-1	known	p.W195*	1.000	85	0%	88	39.8%	5	60%	probably_damaging(1)	deleterious(0)	deleterious(0.945)	NULL
CNGA2	1260	genome.wustl.edu	37	X	150912711	150912711	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-D1-A177-01	TCGA-D1-A177-01	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_005140.1	+1	reviewed	p.M579T	1.000	123	0%	162	43.8%	0	-	benign(0.012)	tolerated(0.12)	neutral(0.261)	NULL
TREX2	11219	genome.wustl.edu	37	X	152710422	152710422	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-D1-A177-01	TCGA-D1-A177-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_080701.3	-1	reviewed	p.R156H	0.057	13	0%	18	66.7%	0	-	benign(0)	tolerated(0.13)	neutral(0.253)	HMMSmart_EXOIII,superfamily_RNaseH_fold,HMMPfam_Exonuc_X-T
BGN	633	genome.wustl.edu	37	X	152772588	152772590	+	In_Frame_Del	DEL	ACA	ACA	-	novel		TCGA-D1-A177-01	TCGA-D1-A177-01	ACA	ACA					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_001711.4	+1	reviewed	p.N287in_frame_del	1.000:0.995:1.000	-	-	-	-	-	-	-	-	-	HMMPfam_LRR_1,superfamily_SSF52058
L1CAM	3897	genome.wustl.edu	37	X	153131169	153131169	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-D1-A177-01	TCGA-D1-A177-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_000425.3	-1	reviewed	p.R846H	0.864	79	0%	87	29.9%	0	-	possibly_damaging(0.714)	deleterious(0.04)	deleterious(0.607)	HMMPfam_fn3,HMMSmart_SM00060,superfamily_Fibronectin type III
HCFC1	3054	genome.wustl.edu	37	X	153221854	153221854	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-D1-A177-01	TCGA-D1-A177-01	T	T					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_005334.2	-1	reviewed	p.T882A	0.990	96	0%	134	37.3%	47	2.1%	probably_damaging(0.988)	deleterious(0)	deleterious(0.882)	NULL
VBP1	7411	genome.wustl.edu	37	X	154444767	154444767	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-D1-A177-01	TCGA-D1-A177-01	C	C					Unknown	Unknown	Somatic	Phase_IV	Capture		1	dbGAP	Illumina GAIIx	NM_003372.5	+1	reviewed	p.A3V	0.628	100	0%	124	46.8%	21	0%	benign(0.001)	deleterious(0.03)	neutral(0.364)	NULL
